CyanoSat: A Database of Cyanobacterial Perfect and Imperfect Microsatellites
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       Organism: Chamaesiphon minutus PCC 6605 (NC_019697 6284096 bp)                                                               Show Primer       Download
Compound : 1     Perfect Compound : 1   Overlapping Compound : 0
Perfect      : 547     Density of SSR      : 1SSR/ 11.47 kb   Average length of SSR  : 12.99 bp
Coding      : 387     Non-Coding           : 153   Coding and Non-Coding : 8
REPEATMONODITRITETRAPENTAHEXATOTAL
PERFECT 0 2 112 373 42 18 547
IMPERFECT 0 170 1700 2209 214 183 4476
Perfect SSRs
S. No.MOTIFLENGTHSTARTENDREGION
1. (CGAT)3122836828379Coding
2. (TGGG)3123417534186Coding
3. (ATCG)3123427334284Coding
4. (TCGA)3126414764158Coding
5. (CAAC)3126803268043Coding
6. (AGAT)3127745577466Coding
7. (AGA)4128909189102Coding
8. (GGT)4129810498115Coding
9. (GATC)312102244102255Non coding
10. (CGC)412103210103221Coding
11. (CAA)412113757113768Coding
12. (TGGA)312128528128539Non coding
13. (ATCG)312128857128868Coding
14. (GATC)312130861130872Non coding
15. (TCGA)312139336139347Coding
16. (CCAG)312147023147034Coding
17. (GATC)312159052159063Coding
18. (TCGA)416163460163475Coding
19. (TCGA)312164491164502Coding
20. (GATC)312202411202422Non coding
21. (CGAT)312235397235408Coding
22. (CAAGCT)318238467238484Coding
23. (TCGA)312260643260654Non coding
24. (GATC)312263821263832Coding
25. (CTCG)312278297278308Non coding
26. (GATC)312284352284363Coding
27. (TTGTC)525289463289487Non coding
28. (CG)612300909300920Coding
29. (TTAA)312304360304371Coding-Non coding
30. (CTT)412339993340004Non coding
31. (CGC)412356974356985Coding
32. (CGAT)312360832360843Coding
33. (CGAT)312365691365702Coding
34. (ATCG)312376026376037Non coding
35. (TCGA)312383598383609Non coding
36. (GAC)412386961386972Coding
37. (ATCG)312400227400238Coding
38. (ATCG)312408557408568Coding
39. (GTAT)312412677412688Coding-Non coding
40. (GAGC)312414650414661Coding
41. (TCGA)312414770414781Coding
42. (TCGA)312433146433157Non coding
43. (GCAA)312445490445501Coding
44. (TCGA)312452964452975Coding
45. (ATCG)312469076469087Coding
46. (TGTCT)315486275486289Non coding
47. (TGA)515496361496375Coding
48. (TGAA)312500253500264Coding
49. (TCGA)312502879502890Coding
50. (GATC)312511411511422Non coding
51. (TTTA)312516120516131Coding
52. (TCGA)312519238519249Coding
53. (ATCG)312520174520185Coding
54. (TCGA)312537400537411Coding
55. (ATCG)312537550537561Coding
56. (GTC)412542350542361Coding
57. (AGCG)312542529542540Non coding
58. (GAT)412544134544145Coding
59. (TCGA)312560180560191Non coding
60. (TAT)412570073570084Coding
61. (TCGA)416591458591473Coding
62. (TCGA)312614518614529Coding
63. (CATC)312632232632243Non coding
64. (GATC)416635785635800Non coding
65. (TTAT)312636286636297Coding
66. (TCTTC)315637346637360Non coding
67. (AATA)312651401651412Non coding
68. (TCGA)312667483667494Coding
69. (CCA)412671604671615Coding
70. (TAG)412693954693965Coding
71. (CAG)412695944695955Coding
72. (GCG)412702177702188Coding
73. (AGACA)315706516706530Non coding
74. (CCA)618715693715710Coding
75. (GATC)312744980744991Coding
76. (AGT)412758893758904Coding
77. (TGGA)312764981764992Non coding
78. (GGGT)312785228785239Coding
79. (TGTCT)420787751787770Non coding
80. (TTG)412794815794826Coding
81. (ATCG)312799940799951Coding
82. (CGA)412835541835552Coding
83. (GGTGGC)424879459879482Coding
84. (TTCGCG)318898576898593Non coding
85. (TCGA)312930793930804Non coding
86. (AGACA)420943032943051Non coding
87. (GATA)312951242951253Coding-Non coding
88. (GATC)312980743980754Coding
89. (GGTGGC)318984611984628Coding
90. (TTCT)31210156761015687Coding
91. (GATC)31210294511029462Coding
92. (ATCG)31210401231040134Coding
93. (CGG)41210473271047338Coding
94. (ATCG)31210536771053688Coding
95. (GATC)31210714501071461Coding
96. (TCGA)31210766231076634Coding
97. (TAAA)31210777591077770Non coding
98. (TCGA)31210781261078137Non coding
99. (TCGA)31210782131078224Non coding
100. (TAAA)31210783451078356Non coding
101. (AGCA)31210915951091606Coding
102. (CAAGA)31511035631103577Non coding
103. (TGTCT)42011098471109866Non coding
104. (TCGA)31211109501110961Coding
105. (TCGA)31211123121112323Coding
106. (TGTCT)42011237051123724Non coding
107. (GATC)31211674881167499Coding
108. (CGAT)31211690631169074Coding
109. (AGCC)31211789941179005Coding
110. (CTTT)31212001921200203Coding
111. (TTAT)31212043701204381Non coding
112. (GATC)31212381811238192Non coding
113. (ATTT)31212580301258041Coding-Non coding
114. (CCA)41212609311260942Coding
115. (GATC)31212637441263755Non coding
116. (GGC)51512648031264817Coding
117. (ATCG)31212924101292421Coding
118. (GAGC)31213035841303595Coding
119. (TTAT)31213273781327389Non coding
120. (AATA)31213391831339194Non coding
121. (TCGA)31213566671356678Coding
122. (TGAC)31213851731385184Non coding
123. (TCGA)31213891441389155Non coding
124. (GATC)31213909021390913Coding
125. (TCGA)31213959591395970Coding
126. (TCGA)31213990811399092Coding
127. (CCAG)31214141931414204Coding
128. (AGCC)31214536981453709Coding
129. (GATC)31214639321463943Coding
130. (CTC)41214755271475538Coding
131. (AATA)31214921221492133Non coding
132. (GGCT)31214988981498909Coding
133. (TCGA)31215152221515233Non coding
134. (TCGA)31215160541516065Non coding
135. (GATC)31215252221525233Coding
136. (ATCG)31215728591572870Non coding
137. (ACC)41215738711573882Coding
138. (CAA)41215778011577812Coding
139. (GCTGT)31515986341598648Non coding
140. (TGA)41216343021634313Coding
141. (TTG)41216524771652488Coding
142. (GTT)41216567221656733Non coding
143. (TCGA)31216598081659819Coding
144. (ACC)41217349211734932Coding
145. (AAGG)31217396731739684Coding
146. (ACGACC)31817470361747053Coding
147. (TTCG)31217557161755727Coding
148. (TTGT)31218062171806228Coding
149. (TTG)41218099141809925Coding
150. (GTT)41218141591814170Non coding
151. (CCCG)31218198851819896Coding
152. (TACC)31218274631827474Coding
153. (TCGA)31218340251834036Coding
154. (ACA)41218853111885322Non coding
155. (GATC)31219020651902076Coding
156. (ACT)41219234041923415Coding
157. (TTG)41219299151929926Coding
158. (GAT)41219337091933720Coding
159. (CGAT)31219435861943597Non coding
160. (TCGA)31219576301957641Coding
161. (AATA)31219777691977780Non coding
162. (ATG)41219888501988861Coding
163. (GCTG)31220634472063458Coding
164. (ATCG)31220638142063825Coding
165. (CAA)41220641762064187Coding-Non coding
166. (CTTT)31220732442073255Non coding
167. (ATCA)31220772282077239Coding
168. (CGAT)31220786382078649Coding
169. (GATC)31220986222098633Non coding
170. (ATCG)31221019552101966Coding
171. (AAT)41221043242104335Non coding
172. (TTGT)31221540202154031Coding
173. (TTG)41221577172157728Coding
174. (CAT)51521659932166007Coding
175. (AGACA)115521694372169491Non coding
176. (CTCG)31221813512181362Coding
177. (AAATC)31521843852184399Coding
178. (GATC)31222483872248398Coding
179. (CAACAT)31822578322257849Coding
180. (CGAT)31222611682261179Non coding
181. (CGA)41222694402269451Coding
182. (CAG)41222878672287878Coding
183. (CGAT)31222929402292951Coding
184. (AAAG)31223078812307892Coding
185. (CAC)41223266342326645Coding
186. (ATCG)31223326612332672Coding
187. (GATC)31223390682339079Coding
188. (GATC)31224003392400350Coding
189. (CGAT)31224021162402127Coding
190. (CTTT)31224161962416207Non coding
191. (AGACA)31524267222426736Non coding
192. (TCGA)31224501982450209Coding
193. (ATCG)31224658262465837Coding
194. (CGG)41224756702475681Coding
195. (ATCG)31224776042477615Non coding
196. (ATCG)31224825362482547Non coding
197. (GCA)41225085712508582Coding
198. (AGACCA)31825203612520378Coding
199. (ATCG)31225433662543377Coding
200. (TCGA)31225463572546368Coding
201. (CTTT)31225537862553797Coding
202. (TCGA)31225569592556970Coding
203. (CCG)51525927032592717Coding
204. (ATCG)31226015372601548Coding
205. (GAA)41226030212603032Coding
206. (TCGA)31226397272639738Non coding
207. (AGA)41226640472664058Coding
208. (AGAT)31226835282683539Coding
209. (CGAT)31226863532686364Non coding
210. (TCGA)31226914342691445Coding
211. (CTGG)31227030302703041Coding
212. (TCGA)31227069902707001Coding
213. (TCGA)31227099552709966Coding
214. (TCGA)31227360872736098Non coding
215. (ATC)41227438852743896Coding
216. (GATC)31227575502757561Coding
217. (TCGA)31227678132767824Coding
218. (AAAG)31227690912769102Coding
219. (ATCG)31227789032778914Coding
220. (TCT)41227918532791864Coding
221. (TGGA)72827929862793013Non coding
222. (TTTA)31228068882806899Non coding
223. (CGAT)31228088842808895Non coding
224. (TGG)41228138112813822Coding
225. (GGT)41228138452813856Coding
226. (TGG)41228141562814167Coding
227. (AGACA)31528356262835640Non coding
228. (CTTGT)31528505402850554Coding
229. (AATA)31228641952864206Coding
230. (GAT)41228663062866317Coding
231. (GAT)41228669092866920Coding
232. (TCGA)31228722812872292Coding
233. (ATA)41228773322877343Coding
234. (TAAA)31228872652887276Coding
235. (ATTT)31229131342913145Coding
236. (AGCC)31229180322918043Coding
237. (TAAT)31229280892928100Coding-Non coding
238. (AATGGC)31829537102953727Coding
239. (CGAT)31229547592954770Coding
240. (CGAT)41629727042972719Coding
241. (TCGA)31229788292978840Non coding
242. (ATCG)31229795592979570Non coding
243. (TAAT)31229837732983784Non coding
244. (TCTG)31229938462993857Coding
245. (CTG)41230025603002571Coding
246. (TTTG)31230042693004280Coding
247. (TCGA)31230101683010179Coding
248. (TCA)41230295953029606Coding
249. (ATCG)31230378603037871Coding
250. (TTAT)31230452323045243Coding
251. (TAA)41230510993051110Coding
252. (GATC)31230572313057242Coding
253. (ATCG)31230696333069644Coding
254. (CGAT)31230925533092564Coding
255. (GCC)41231050363105047Coding
256. (TGTCT)42031096013109620Non coding
257. (CGAT)31231206973120708Coding
258. (CCAC)41631217243121739Non coding
259. (ATC)41231299183129929Coding
260. (GATC)31231541563154167Coding
261. (GATC)31231644533164464Coding
262. (AATA)31231968303196841Non coding
263. (TTAT)31232017073201718Non coding
264. (GCGATG)31832035393203556Coding
265. (CAGC)41632196763219691Coding
266. (GCTG)31232225693222580Coding
267. (TTTG)31232249003224911Coding
268. (GATC)31232371673237178Coding
269. (TGTCT)31532457023245716Non coding
270. (TGC)41232738123273823Coding
271. (CGAT)31232785423278553Coding
272. (ATG)41232891233289134Coding
273. (ATCG)31232901403290151Coding
274. (TCGA)31233314933331504Coding
275. (AATA)31233346583334669Non coding
276. (ATCG)31233386773338688Coding
277. (TCGA)31233721363372147Non coding
278. (TTTA)31234028393402850Non coding
279. (AATT)31234166963416707Coding-Non coding
280. (CGAT)31234200333420044Coding
281. (CGC)41234209893421000Coding
282. (CAAGA)31534350563435070Coding
283. (CGCT)31234430063443017Non coding
284. (ATCG)31234476563447667Coding
285. (AAAG)31234482253448236Non coding
286. (TCGA)31234543603454371Coding
287. (TCGA)31234671753467186Non coding
288. (CGAT)31234841783484189Coding
289. (ATCG)31234855843485595Non coding
290. (TCGA)31234876163487627Coding
291. (TCGA)31234876833487694Coding
292. (TCGA)31234904873490498Coding
293. (ACC)41235008873500898Coding
294. (TGG)41235042603504271Coding
295. (AACAT)31535233573523371Non coding
296. (TCGA)41635285703528585Coding
297. (GCC)51535290343529048Coding
298. (GACT)31235344253534436Coding
299. (CGAT)31235478283547839Coding
300. (GGC)41235677743567785Coding
301. (ATCG)31235717793571790Coding
302. (GAT)41235855343585545Coding
303. (TTAT)31235934463593457Non coding
304. (GATC)31235940913594102Coding
305. (ATCG)31236185653618576Coding
306. (TCGA)31236273853627396Coding
307. (GCG)41236472653647276Coding
308. (GCC)41236489563648967Coding
309. (GATC)31236498613649872Coding
310. (TCGA)31236665353666546Coding
311. (CTACAC)31836756493675666Coding
312. (CGAT)31237062703706281Non coding
313. (TGTCT)31537087383708752Non coding
314. (AGACA)31537446903744704Non coding
315. (ATCG)31237472123747223Coding
316. (ATCG)31237506823750693Coding
317. (GGAC)31237585203758531Coding
318. (AAG)51538115583811572Coding
319. (GAT)61838116323811649Coding
320. (TCGA)31238320013832012Non coding
321. (GCT)41238351733835184Coding
322. (TTAG)31238352773835288Non coding
323. (CGAT)31238416083841619Coding
324. (GCTC)31238622723862283Non coding
325. (AGA)41238787583878769Coding
326. (AATA)31238991853899196Non coding
327. (GATC)31239008213900832Coding
328. (GCC)51539191673919181Coding
329. (TCGC)31239280053928016Non coding
330. (TGTCT)31539563353956349Coding
331. (TATTT)31539627303962744Coding
332. (TCGA)31239653053965316Coding
333. (CGAG)31239704523970463Non coding
334. (GGGT)31239825603982571Non coding
335. (ATCG)31239936223993633Non coding
336. (CTGA)31239996023999613Non coding
337. (TGTCT)31539998063999820Non coding
338. (TGC)41240169204016931Coding
339. (AATA)31240241894024200Non coding
340. (TCTT)31240306694030680Coding
341. (CCAC)31240358354035846Non coding
342. (CAA)41240374854037496Coding
343. (CCG)41240381634038174Coding
344. (TGG)41240480474048058Coding
345. (CTTT)31240550184055029Coding
346. (ATGT)31240666604066671Coding
347. (TGTCT)31540899824089996Coding
348. (GGC)41240901254090136Coding
349. (ATCG)31241089754108986Coding
350. (AAAT)31241143824114393Coding
351. (GATC)31241627924162803Non coding
352. (CGCGAA)31841731144173131Coding
353. (TAA)41241837254183736Coding
354. (CTCG)31241929004192911Non coding
355. (AGCA)31241944264194437Coding
356. (GTG)41241992974199308Coding
357. (AGACA)31542093374209351Non coding
358. (ACCC)31242273284227339Non coding
359. (AATA)31242358064235817Non coding
360. (TCGA)31242513044251315Coding
361. (GATA)31242586054258616Non coding
362. (GCG)41242691794269190Coding
363. (CGAT)31242701104270121Coding
364. (CTGG)31242735184273529Coding
365. (GTCTT)31542975564297570Non coding
366. (ATCG)31242998224299833Coding
367. (TCGA)31243172114317222Non coding
368. (ATCG)31243217634321774Coding
369. (ATCG)31243237084323719Coding
370. (CAA)41243259424325953Coding
371. (GCG)41243426124342623Coding
372. (ATCG)41643460624346077Coding
373. (TCGA)31243570694357080Coding
374. (TCGA)41643762354376250Coding
375. (GTTT)31243895174389528Coding
376. (CGAT)31243898864389897Non coding
377. (CGAT)31243958254395836Coding
378. (CTGG)31243970494397060Coding
379. (GATC)31244101064410117Coding
380. (GATC)31244298674429878Coding
381. (TTAT)31244702034470214Coding
382. (GACG)31244731414473152Coding
383. (GATGCC)31844839754483992Coding
384. (GTCTT)31545004574500471Coding
385. (ACTT)31245142624514273Non coding
386. (AATT)31245262064526217Non coding
387. (ATAC)31245264064526417Non coding
388. (CGC)41245466964546707Coding
389. (TCGA)31245654704565481Coding
390. (CGAT)31246140224614033Coding
391. (GATC)31246216894621700Coding
392. (TGTCT)42046414444641463Non coding
393. (CGCT)31246565734656584Coding
394. (AT)122446698644669887Non coding
395. (CGAT)31246727114672722Coding
396. (TCTA)31246748434674854Non coding
397. (TCGA)31246826224682633Coding
398. (TGGC)41646969194696934Coding
399. (TTGG)31247012364701247Coding
400. (GATC)31247021804702191Coding
401. (CGC)41247070294707040Coding
402. (TCGA)41647096054709620Coding
403. (TCGA)31247215754721586Coding
404. (GATG)31247387524738763Non coding
405. (GGCT)31247679494767960Coding
406. (ATCG)31247766364776647Coding
407. (CGAT)31247766874776698Coding
408. (CGAC)31247939784793989Coding
409. (GCCA)31248004964800507Coding
410. (AATC)31248192534819264Coding
411. (GATC)31248294004829411Coding
412. (TTC)41248755474875558Coding
413. (CCAT)31248973624897373Non coding
414. (CGAT)31249024514902462Coding
415. (GAT)51549050594905073Coding
416. (TCGA)31249084504908461Non coding
417. (AATA)31249165264916537Coding
418. (CCG)51549212794921293Coding
419. (CCAT)31249384254938436Non coding
420. (CAT)41249502294950240Coding
421. (GCG)41249757234975734Coding
422. (AAG)41249851944985205Coding
423. (AAAT)31250104035010414Coding
424. (ATCG)31250181055018116Coding
425. (CAT)41250195895019600Coding
426. (AATA)31250355655035576Non coding
427. (CGC)51550393275039341Coding
428. (TTAA)31250520665052077Non coding
429. (TTAA)31250658255065836Non coding
430. (TTAA)31250760025076013Non coding
431. (GTC)41250886235088634Coding
432. (GGAGTC)31850950585095075Coding
433. (CAG)41251049125104923Coding
434. (CGAT)31251124245112435Non coding
435. (TTGC)31251250445125055Coding
436. (CCAA)31251320605132071Coding
437. (TTGG)31251364045136415Coding
438. (TCGA)41651421055142120Coding
439. (CTCG)31251520505152061Non coding
440. (CCA)41251570275157038Coding
441. (GCCGCA)31851572885157305Coding
442. (TCGA)31251678415167852Coding
443. (ATCG)31251885235188534Coding
444. (CCAC)31251941595194170Non coding
445. (TGTCT)42052024855202504Non coding
446. (CGAT)31252161155216126Coding
447. (GATC)31252197285219739Coding
448. (CAAGA)31552377755237789Non coding
449. (CAGC)31252761485276159Coding
450. (AAGC)31252816075281618Coding
451. (TGTCT)31552959015295915Non coding
452. (TAA)41253080075308018Coding
453. (ATTT)31253136025313613Coding
454. (GTAA)31253163705316381Coding
455. (TCA)51553449655344979Coding
456. (TCGA)31253526395352650Coding
457. (CCAT)31253564235356434Non coding
458. (TTTA)31253641265364137Coding
459. (CGAT)31253798155379826Coding
460. (ATCG)31254103875410398Non coding
461. (TGC)41254108395410850Coding
462. (TCGA)31254127255412736Non coding
463. (CAG)41254134455413456Coding
464. (AGC)51554134615413475Coding
465. (GCTCG)42054196125419631Non coding
466. (GCT)41254281965428207Coding
467. (GATC)31254400975440108Non coding
468. (GCTGAA)31854454515445468Coding
469. (TGGA)41654609875461002Non coding
470. (GCTG)31254622715462282Coding
471. (GTTGG)31554887915488805Coding
472. (CGAT)31254961915496202Non coding
473. (CGAT)31255026035502614Coding
474. (ATCG)31255071245507135Non coding
475. (ATCG)31255086015508612Coding
476. (ATCG)31255160875516098Coding
477. (CGG)41255229055522916Coding
478. (TGTCT)31555494825549496Non coding
479. (TCGA)31255579525557963Coding
480. (ATCG)31255652305565241Non coding
481. (AGACA)31555688775568891Non coding
482. (CCAC)31255722575572268Coding
483. (CGAT)31255752695575280Coding
484. (GCTG)31255834475583458Non coding
485. (GATC)31255896165589627Coding
486. (GATC)31256128805612891Coding
487. (GGCGAT)31856210735621090Coding
488. (CAAC)31256284315628442Coding
489. (TCGA)31256377025637713Coding
490. (CGAT)31256446365644647Coding
491. (GATC)31256688545668865Coding
492. (CCAC)31256739925674003Non coding
493. (ATCG)31256830005683011Coding
494. (GGTGGC)31857107145710731Coding
495. (ATCG)31257299565729967Coding
496. (GAGC)31257430915743102Coding
497. (CGAT)31257506805750691Coding
498. (TGTCT)31557530795753093Non coding
499. (ATTT)31257865235786534Coding
500. (ATCG)31257970355797046Coding
501. (TCGA)31258056915805702Coding
502. (AAG)41258106855810696Coding
503. (ATCG)31258354055835416Coding
504. (TAGGCT)31858386485838665Non coding
505. (TCGA)31258757405875751Coding
506. (TGTCT)42058782775878296Non coding
507. (TTG)41258805075880518Coding
508. (TCGA)31259231915923202Non coding
509. (TCGA)31259242585924269Coding
510. (TCGA)31259317275931738Coding
511. (TCGA)31259322565932267Non coding
512. (TCGA)31259328535932864Coding
513. (AATA)31259358825935893Non coding
514. (AATA)31259636075963618Non coding
515. (AAAG)31259719435971954Coding
516. (CCAT)31259912025991213Coding
517. (TCGA)31259982525998263Coding
518. (CGAT)31259983345998345Coding
519. (CGAG)31260059126005923Coding
520. (TCGA)31260325176032528Coding
521. (CGAG)31260504966050507Coding
522. (TGTCT)31560563996056413Non coding
523. (ATCG)31260698716069882Coding
524. (AGACA)42060773276077346Non coding
525. (ATCG)31260894866089497Coding
526. (ACTA)31260914726091483Coding-Non coding
527. (ATCG)31261005436100554Coding
528. (CAG)41261038156103826Coding
529. (GGT)41261043246104335Coding
530. (CGAT)31261092646109275Coding
531. (AGACA)42061382736138292Non coding
532. (ATCG)31261481936148204Coding
533. (TGG)41261605236160534Coding
534. (ATCG)31261616296161640Coding
535. (TCGA)31261626066162617Coding
536. (CGAT)31261695996169610Coding
537. (CGATG)115561969336196987Non coding
538. (TCGA)31262040516204062Coding
539. (CGAG)31262153076215318Coding
540. (CGAT)31262306286230639Non coding
541. (CGAT)31262310616231072Coding
542. (CGAT)31262527446252755Coding
543. (ATTT)41662646496264664Non coding
544. (GCC)41262714796271490Coding
545. (GATC)31262741956274206Coding
546. (TTGG)31262798526279863Coding
547. (ATCG)31262811776281188Coding
Kabra,R., Kapil,A., Attarwala,K., Rai,P.K. and Shanker,A. World J Microbiol Biotechnol (2016) 32:71                                                      Best viewed at 1280 x 768.