Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01014947.1 Corchorus olitorius cultivar O-4 contig14980, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 7116
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Found at i:760 original size:154 final size:154
Alignment explanation
Indices: 157--1167 Score: 1438
Period size: 153 Copynumber: 6.6 Consensus size: 154
147 ATTCGTATCA
*
157 GGACTAATCTCACCAAAATGATTATAGTTAGGTCATAAACAATGGAAAGAAAAGCATTGAGGGTT
1 GGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTT
* * ** * * * * *
222 GCCAAATCGAAGACAATTCAATACAAAAGTAATTGGCTCCTAGAGGCCCAAAATAACAAGTGTTC
66 GCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTC
287 CAAATGAGCTAAAAACTTCACAGT
131 CAAATGAGCTAAAAACTTCACAGT
* * * * * **
311 GGATTAAACTCACCAAAATGATTATAGTTACGCTATAAAGAATGGAAAGAAAAGCATAAAGGGTT
1 GGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTT
*
376 GCCAAATCGAA-ACGATTCAAAACGGAAGTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTC
66 GCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTC
440 CAAATGAGCTAAAAACTTCACAGT
131 CAAATGAGCTAAAAACTTCACAGT
* *
464 GGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAAAAATGGAAAGAAAAGCATTAAGGGTT
1 GGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTT
* **
529 G-CAAATCGAAGACGATTCAATACGTCACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTC
66 GCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTC
*
593 CAAATGAGCTAAAAATTTCACAGT
131 CAAATGAGCTAAAAACTTCACAGT
* * * * * **
617 AGACTAATCTCGCCAAAATGATTATAGTTAGGCCGTAAACAAGGGAAAGAAAAACATTGAGATTT
1 GGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTT
* * *
682 GCCAAATCGAAGACGATTCAAAACGGATCTAATGGGTCCCGATAGGCTCAAAATAACAAGTGTTC
66 GCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTC
*
747 CAACTGAGCTAAAAACTTCACAGT
131 CAAATGAGCTAAAAACTTCACAGT
* * * *
771 GGACTAATCTCACCAAAATGATTATAGTTAGGCCATACACAATGGAAGGAAAAGCATTGACGTTT
1 GGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTT
* ** * *
836 TCCAAAATCGAAGACGATTCAAAACGTCACTAATGGTCCCCGATAGGCCCAAAATAACAAGTTTT
66 GCC-AAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTT
901 CCAAATGAGCTAAAAACTTCACAGT
130 CCAAATGAGCTAAAAACTTCACAGT
* * *
926 GGACTAATCTCACC-AAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAACCATCGAGGTTT
1 GGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTT
* * * *
990 CCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCCGAAAGGGCCAAAAT-ACAAATGTT
66 GCCAAATCGAAGACGATTCAAAACGGAACTAATGGG-CCCCGATAGGCCCAAAATAACAAGTGTT
* *
1054 CCAAAT-ACACTAAAAACATCACAGT
130 CCAAATGA-GCTAAAAACTTCACAGT
* * *
1079 GGACTAATCTCACCAAAAATGATTTTAGTTAGGCCATAAACAATGGAAAGAAAAGCATCGAGGGA
1 GGACTAATCTCACC-AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGT
*
1144 TGACAAATCGAAGACGATTCAAAA
65 TGCCAAATCGAAGACGATTCAAAA
1168 ATGATTATAG
Statistics
Matches: 767, Mismatches: 83, Indels: 13
0.89 0.10 0.02
Matches are distributed among these distances:
152 10 0.01
153 330 0.43
154 268 0.35
155 159 0.21
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (154 bp):
GGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTT
GCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTC
CAAATGAGCTAAAAACTTCACAGT
Found at i:1084 original size:308 final size:308
Alignment explanation
Indices: 157--4189 Score: 4573
Period size: 308 Copynumber: 12.9 Consensus size: 308
147 ATTCGTATCA
*
157 GGACTAATCTCACCAAAATGATTATAGTTAGGTCATAAACAATGGAAAGAAAAGCATTGAGGGTT
1 GGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTT
* * ** * * * * *
222 GCCAAATCGAAGACAATTCAATACAAAAGTAATTGGCTCCTAGAGGCCCAAAATAACAAGTGTTC
66 GCCAAATCGAAGACGATTCAAAACGTAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTC
* * * * *
287 CAAATGAGCTAAAAACTTCACAGTGGATTAAACTCACCAAAATGATTATAGTTACGCTATAAAGA
131 CAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACA
** * *
352 ATGGAAAGAAAAGCATAAAGGGTTGCCAAATCGAA-ACGATTCAAAACGGAAGTAATGGGCCCCG
196 ATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCG
416 ATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGT
261 ATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGT
* *
464 GGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAAAAATGGAAAGAAAAGCATTAAGGGTT
1 GGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTT
* *
529 G-CAAATCGAAGACGATTCAATACGTCACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTC
66 GCCAAATCGAAGACGATTCAAAACGTAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTC
* * * *
593 CAAATGAGCTAAAAATTTCACAGTAGACTAATCTCGCCAAAATGATTATAGTTAGGCCGTAAACA
131 CAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACA
* * * * *
658 AGGGAAAGAAAAACATTGAGATTTGCCAAATCGAAGACGATTCAAAACGGATCTAATGGGTCCCG
196 ATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCG
* *
723 ATAGGCTCAAAATAACAAGTGTTCCAACTGAGCTAAAAACTTCACAGT
261 ATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGT
* * * *
771 GGACTAATCTCACCAAAATGATTATAGTTAGGCCATACACAATGGAAGGAAAAGCATTGACGTTT
1 GGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTT
* * * *
836 TCCAAAATCGAAGACGATTCAAAACGTCACTAATGGTCCCCGATAGGCCCAAAATAACAAGTTTT
66 GCC-AAATCGAAGACGATTCAAAACGTAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTT
901 CCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACC-AAATGATTATAGTTAGGCCATAAAC
130 CCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAAC
* * *
965 AATGGAAAGAAAACCATCGAGGTTTCCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCC
195 AATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGG-CCC
* * * * *
1030 CGAAAGGGCCAAAAT-ACAAATGTTCCAAAT-ACACTAAAAACATCACAGT
259 CGATAGGCCCAAAATAACAAGTGTTCCAAATGA-GCTAAAAACTTCACAGT
* * *
1079 GGACTAATCTCACCAAAAATGATTTTAGTTAGGCCATAAACAATGGAAAGAAAAGCATCGAGGGA
1 GGACTAATCTCACC-AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGT
* * * * * * * *
1144 TGACAAATCGAAGACGATTCAAAAATGATTA-TAGTTAGGCCATAAACAAT-GG---AAAGAAAA
65 TGCCAAATCGAAGACGATTC-AAAACG-TAACTA-ATGGGCC----CCGATAGGCCCAAA-ATAA
* ** * * * * *
1204 GCATTGAG-GTTTCTCAAATCGAAGACGATTCAAAACTGAACTAATGGGCCCCGAAACGC-CCAA
122 -CA---AGTG-TTC-CAAAT-G-AG-C---TAAAAACTTCAC-AGT-GG--ACTAATCTCACCAA
* ** * * *
1267 AATAACAAGT-GTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACAAAAATG-ATT-A
171 AATGATTA-TAGTT----A-G-GCCATAAA---CA-A-TGG---AA----A-GAAAA-GCATTGA
* * * * * **
1329 TAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTCTCAAATCGAAGACGATTCAAAAC
215 -GGTT-TGCC----A-AATCG-AAG---A-C---GA----T-TCAAAACG--GA--A--CTAATG
* ** ** * ** * ****** * * ** *
1394 TGAACTAATGGGCCCCGAA-ACGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAG
254 GGCCCCGATAGGCCCAAAATA-ACAAGTGTT-CCAAATG----AGCT-A--AAA--ACTTCACAG
1458 T
308 T
* *
1459 GGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATTGAAAGAAAAGCATTGAGGTTT
1 GGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTT
* * * * *
1524 CCCAAATCGAAGACGATTCAAAACGGAACTAATGGACCCCAATAGGCTCAAAATAACAAGTGTTC
66 GCCAAATCGAAGACGATTCAAAACGTAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTC
* * *
1589 GAACTGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAGTGATTATAGTTAGGCCATAAACA
131 CAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACA
* *
1654 ATGGAAAGAAAACCATTGAGGTTTCCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCG
196 ATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCG
*
1719 AAAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGT
261 ATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGT
*
1767 GGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTT
1 GGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTT
* * * * *
1832 GCCAAACCGAAGACAATTCAAAAC-TGAACTAATGGGCCTCGATAGGCACAAGATAACAAGTGTT
66 GCCAAATCGAAGACGATTCAAAACGT-AACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTT
* * ** *
1896 CCAAATGAGCTAAAAACTTCACAGTGAACTCATCTCACCAAAATGATTATAGTTAGGCTTTACAC
130 CCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAAC
* *** * *
1961 AATAGGAAAGAAAAGCATTGAAGTTTGCCAAATCGAAGACGATTCAAAACATCACTAATGGTCTC
195 AAT-GGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCC
*
2026 CGATAGGCCCAAAATAACAAGTGTTCCATATGAGCTAAAAACTTCACAGT
259 CGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGT
* * *
2076 GG---------------A-GATTATAGTTAGGCCATAAAAAATGGAAAGAAAAGCATCGAAGGTT
1 GGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTT
* * * * * *
2125 GCCAAACCGAAGACAATTCAAAACGGAACTAATGGGCCTCGATAAGCACAAAATAACAAGTGTTC
66 GCCAAATCGAAGACGATTCAAAACGTAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTC
* *
2190 CAAATGAGCTAAAGACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGACCATAAACA
131 CAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACA
* * *
2255 ATGGAAAGAAATGCATCGAAGG-TTGCCAAATCGAAGACGATTCAAAACGGGACTAATGGGCCCC
196 ATGGAAAGAAAAGCATTG-AGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCC
*
2319 GAAAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGT
260 GATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGT
* * *
2368 GGACTAATCTCACCAAAATGATTATAGTTATGCCATAAACAATGGAAAGAAAAGCATCGAAGGTT
1 GGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTT
* * * *
2433 GCCAAATTGAAGACGATTCAAAACGTCACTAATGGTCCCCGATAGGCCCAAAATAACAAGGGTTC
66 GCCAAATCGAAGACGATTCAAAACGTAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTC
* * * *
2498 CAAATGAGCTAAAAACTTCACAGTGGACTAACCTCACCAAAATGATTATAGTTAGGCCGTACACG
131 CAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACA
**
2563 ATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCCCCG
196 ATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCG
2628 ATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGT
261 ATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGT
* * ** * *
2676 GGACTAATCTTAGCAAAATGATTATAGTTAACCCATAAACAATGGAAAGAAAAGCATCGA-GTTT
1 GGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTT
* * *
2740 GCCAAATCGAAGACGATTC-AAACGGAACTAATGGGCCCCGAAAGGCCTAAAATAACAAGTGTTC
66 GCCAAATCGAAGACGATTCAAAACGTAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTC
* *
2804 CAAATGAGCTAAAAAACTTCACAGTGGACTGATCTTACCAAAATGATTATAGTTAGGCCACT-AA
131 CAAATGAGCT-AAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCA-TAAA
* * *
2868 CATTGG-AAGAAAAGCATTGAGG-TTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGTCCT
194 CAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCC
* * * * *
2931 CGATATGTCTAAAATAACAAGTGTTGCAAGTGAGACTAAAAACTTCACAGT
259 CGATAGGCCCAAAATAACAAGTGTTCCAAATGAG-CTAAAAACTTCACAGT
*
2982 GGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATT-AGGTTT
1 GGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTT
* * * *
3046 CCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGAAAGGGCCAAAATAACAAGTGTTC
66 GCCAAATCGAAGACGATTCAAAACGTAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTC
* *
3111 CAAAT-ACACTAAAAACATCACAGTGGACTAATCTCACC-AAATGATT-TAG-TAGGCCAT-AAC
131 CAAATGA-GCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAAC
* * **
3171 AATGAAAAG-AAAGCATCGAGGGATGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCC
195 AATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCC
* **
3235 GAAAAACCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGT
260 GATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGT
* * *
3284 GGACTAATCTCACAAAAATGATTATAGTCAGGCCATAAACAATGGAAAG-AAAGCA-TGAGGTTT
1 GGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTT
* * * * *
3347 GCCAAATCGAAGACGATTCAAAACGTCACTATTGGTCTCCGATAGGACCCAAAATAACGAGTGTT
66 GCCAAATCGAAGACGATTCAAAACGTAACTAATGGGCCCCGATAGG-CCCAAAATAACAAGTGTT
3412 ACCAAATGAGACTAAAAACTTCACAGTGGAACTAATCTCAACCAAAATGATTATAGTTAGGCCAA
130 -CCAAATGAG-CTAAAAACTTCACAGTGG-ACTAATCTC-ACCAAAATGATTATAGTTAGGCC-A
* *
3477 TAAACATTAGGAAAAGAAAAGCATTGGTAGGGTTTACCAAATCGAAGACGATTACAAAACGGAAC
190 TAAACAAT-GG-AAAGAAAAGCATT-G-A-GGTTTGCCAAATCGAAGACGATT-CAAAACGGAAC
* * * * *
3542 TAATGGTCCTCGATATCGACCCAAAATAACAAGTGTTGCAAATGAGCTAAAAACTTCAGAGT
249 TAATGGGCCCCGATA--GGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGT
* * * *
3604 GGACTAATCTCACCAAAATGATTGTAATTAGGCCATAATCAATGGAAAAGAAAAGCATTGAGGTT
1 GGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGG-AAAGAAAAGCATTGAGGGT
* * * ** * *
3669 TGCCTAATCGAAGACGATTCAAAACATCACTAAAAGGCCCCAATAGGACCCAAAATAACATGTGT
65 TGCCAAATCGAAGACGATTCAAAACGTAACTAATGGGCCCCGATAGG-CCCAAAATAACAAGTGT
* * *
3734 TCCAAATGAGCTAAAAACTTCGCAGTGGACTAAGCTCACCAAAATGATTATAGTTGGGCCATAAA
129 TCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAA
* * **
3799 CAATGGAAAGAAAAGCATTGAGGTTTCCCAAATCGAAGACGATTCAAAACTGAACTAATGGGTTC
194 CAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCC
3864 CGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGT
259 CGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGT
* * *
3914 GGACTAATCTCA-CAATAATGATTATAGTTAGGCCATAAAAAATTGAAAGAAAAGCATCGAGGGT
1 GGACTAATCTCACCAA-AATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGT
* * * * *
3978 TGCCAAATCGAAGACGGTTCAAAACGGAAGTTATGGGCCCCGATTGGCCCAAAATAACAAGTGTT
65 TGCCAAATCGAAGACGATTCAAAACGTAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTT
*
4043 CCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATATTTAGGCCATAAAC
130 CCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAAC
** * *
4108 AATGGAAAGAAAAATATTGGGGTTTGCCAAATCGAAGACGATTCAAAATGGAACTAATGGGCCCC
195 AATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCC
4173 GATAGGCCCAAAATAAC
260 GATAGGCCCAAAATAAC
4190 TGATACGAAT
Statistics
Matches: 3173, Mismatches: 397, Indels: 311
0.82 0.10 0.08
Matches are distributed among these distances:
292 100 0.03
293 165 0.05
294 1 0.00
300 1 0.00
301 51 0.02
302 97 0.03
303 81 0.03
304 21 0.01
305 84 0.03
306 324 0.10
307 328 0.10
308 800 0.25
309 325 0.10
310 91 0.03
311 8 0.00
312 25 0.01
313 30 0.01
314 11 0.00
315 7 0.00
316 19 0.01
317 28 0.01
318 48 0.02
319 24 0.01
320 91 0.03
321 21 0.01
322 26 0.01
323 65 0.02
324 9 0.00
325 3 0.00
326 14 0.00
327 1 0.00
329 2 0.00
330 1 0.00
331 1 0.00
332 7 0.00
333 1 0.00
335 2 0.00
336 4 0.00
337 7 0.00
338 1 0.00
340 2 0.00
342 2 0.00
343 10 0.00
344 4 0.00
345 9 0.00
346 2 0.00
348 2 0.00
350 1 0.00
351 7 0.00
352 4 0.00
353 2 0.00
355 1 0.00
356 7 0.00
357 1 0.00
358 1 0.00
359 2 0.00
361 6 0.00
362 11 0.00
363 3 0.00
364 9 0.00
365 9 0.00
366 2 0.00
368 2 0.00
369 10 0.00
370 8 0.00
371 7 0.00
372 5 0.00
373 5 0.00
374 2 0.00
375 4 0.00
376 5 0.00
377 8 0.00
378 9 0.00
379 63 0.02
380 23 0.01
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (308 bp):
GGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGGTT
GCCAAATCGAAGACGATTCAAAACGTAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTC
CAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACA
ATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCG
ATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGT
Found at i:1087 original size:462 final size:463
Alignment explanation
Indices: 157--4189 Score: 4670
Period size: 462 Copynumber: 8.6 Consensus size: 463
147 ATTCGTATCA
* *
157 GGACTAATCTCACCAAAATGATTATAGTTAGGTCATAAACAATGGAAAGAAAAGCATTGAGGGTT
1 GGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTT
* * ** * * * * *
222 GCCAAATCGAAGACAATTCAATACAAAAGTAATTGGCTCCTAGAGGCCCAAAATAACAAGTGTTC
66 GCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTC
* * * * *
287 CAAATGAGCTAAAAACTTCACAGTGGATTAAACTCACCAAAATGATTATAGTTACGCTATAAAGA
131 CAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACA
** * *
352 ATGGAAAGAAAAGCATAAAGGGTTGCCAAATCGAA-ACGATTCAAAACGGAAGTAATGGGCCCCG
196 ATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCG
416 ATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAA
261 ATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAA
* * *
481 ATGATTATAGTTAGGCCATAAAAAATGGAAAGAAAAGCATTAAGGGTTG-CAAATCGAAGACGAT
326 ATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGAT
* * * *
545 TCAATACGTCACTAATGGG-CCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAAT
391 TCAAAACGTAACTAATGGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAACTAAAAAC
609 TTCACAGT
456 TTCACAGT
* * * * * *
617 AGACTAATCTCGCCAAAATGATTATAGTTAGGCCGTAAACAAGGGAAAGAAAAACATTGAGATTT
1 GGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTT
* * *
682 GCCAAATCGAAGACGATTCAAAACGGATCTAATGGGTCCCGATAGGCTCAAAATAACAAGTGTTC
66 GCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTC
* *
747 CAACTGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATACACA
131 CAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACA
* * * ** *
812 ATGGAAGGAAAAGCATTGACGTTTTCCAAAATCGAAGACGATTCAAAACGTCACTAATGGTCCCC
196 ATGGAAAGAAAAGCATTGAGGTTTGCC-AAATCGAAGACGATTCAAAACGGAACTAATGGGCCCC
*
877 GATAGGCCCAAAATAACAAGTTTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACC-A
260 GATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAA
* * *
941 AATGATTATAGTTAGGCCATAAACAATGGAAAGAAAACCATCGAGGTTTCCCAAATCGAAGACGA
325 AATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGA
* * * * *
1006 TTCAAAACGGAACTAATGGGCCCCCGAAAGGGCCAAAAT-ACAAATGTTCCAAAT-ACACTAAAA
390 TTCAAAACGTAACTAATGGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGA-ACTAAAA
*
1069 ACATCACAGT
454 ACTTCACAGT
* * **
1079 GGACTAATCTCACCAAAAATGATTTTAGTTAGGCCATAAACAATGGAAAGAAAAGCATCGAGGGA
1 GGACTAATCTCACC-AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTT
* ** * * * * *
1144 TGACAAATCGAAGACGATTCAAAAATGATTA-TAGTTAGGCCATAAACAAT-GG---AAAGAAAA
65 TGCCAAATCGAAGACGATTCAAAACGGA--ACTA-ATGGGCC----CCGATAGGCCCAAA-ATAA
* ** * * * * *
1204 GCATTGAG-GTTTCTCAAATCGAAGACGATTCAAAACTGAACTAATGGGCCCCGAAACGC-CCAA
122 -CA---AGTG-TTC-CAAAT-G-AG-C---TAAAAACTTCAC-AGT-GG--ACTAATCTCACCAA
* ** * * *
1267 AATAACAAGT-GTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACAAAAATG-ATT-A
171 AATGATTA-TAGTT----A-G-GCCATAAA---CA-A-TGG---AA----A-GAAAA-GCATTGA
* * * * * **
1329 TAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTCTCAAATCGAAGACGATTCAAAAC
215 -GGTT-TGCC----A-AATCG-AAG---A-C---GA----T-TCAAAACG--GA--A--CTAATG
* ** ** * ** *
1394 TGAACTAATGGGCCCCGAAACGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGT
254 GGCCCCGATAGG-CCC-AAA----ATAAC----AAGTGTTCCAAATGAGCTAAAAACTTCACAGT
*
1459 GGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATTGAAAGAAAAGCATTGAGGTTT
309 GGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTT
* * * * *
1524 CCCAAATCGAAGACGATTCAAAACGGAACTAAT-GGACCCCAATAGGCTCAAAATAACAAGTGTT
374 GCCAAATCGAAGACGATTCAAAACGTAACTAATGGGTCCCCGATAGGCCCAAAATAACAAGTGTT
* * *
1588 CGAACTGAGCTAAAAACTTCACAGT
439 CCAAATGAACTAAAAACTTCACAGT
* *
1613 GGACTAATCTCACCAAAGTGATTATAGTTAGGCCATAAACAATGGAAAGAAAACCATTGAGGTTT
1 GGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTT
* *
1678 CCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGAAAGGCCCAAAATAACAAGTGTTC
66 GCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTC
1743 CAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACA
131 CAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACA
* * * *
1808 ATGGAAAGAAAAGCATTGAGGTTTGCCAAACCGAAGACAATTCAAAACTGAACTAATGGGCCTCG
196 ATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCG
* * * *
1873 ATAGGCACAAGATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGAACTCATCTCACCAAA
261 ATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAA
** * *
1938 ATGATTATAGTTAGGCTTTACACAATAGGAAAGAAAAGCATTGAAGTTTGCCAAATCGAAGACGA
326 ATGATTATAGTTAGGCCATAAACAAT-GGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGA
* * * * *
2003 TTCAAAACATCACTAAT-GGTCTCCGATAGGCCCAAAATAACAAGTGTTCCATATGAGCTAAAAA
390 TTCAAAACGTAACTAATGGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAACTAAAAA
2067 CTTCACAGT
455 CTTCACAGT
* *
2076 GG---------------A-GATTATAGTTAGGCCATAAAAAATGGAAAGAAAAGCATCGAAGG-T
1 GGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTG-AGGTT
* * * * *
2124 TGCCAAACCGAAGACAATTCAAAACGGAACTAATGGGCCTCGATAAGCACAAAATAACAAGTGTT
65 TGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTT
* *
2189 CCAAATGAGCTAAAGACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGACCATAAAC
130 CCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAAC
* * *
2254 AATGGAAAGAAATGCATCGAAGG-TTGCCAAATCGAAGACGATTCAAAACGGGACTAATGGGCCC
195 AATGGAAAGAAAAGCATTG-AGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCC
*
2318 CGAAAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCA
259 CGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCA
* * *
2383 AAATGATTATAGTTATGCCATAAACAATGGAAAGAAAAGCATCGAAGG-TTGCCAAATTGAAGAC
324 AAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTG-AGGTTTGCCAAATCGAAGAC
* * *
2447 GATTCAAAACGTCACTAAT-GGTCCCCGATAGGCCCAAAATAACAAGGGTTCCAAATGAGCTAAA
388 GATTCAAAACGTAACTAATGGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAACTAAA
2511 AACTTCACAGT
453 AACTTCACAGT
* * * *
2522 GGACTAACCTCACCAAAATGATTATAGTTAGGCCGTACACGATGGAAAGAAAAGCATTGAGGTTT
1 GGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTT
**
2587 GCCAAATCGAAGACGATTCAAAACGTCACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTC
66 GCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTC
* * **
2652 CAAATGAGCTAAAAACTTCACAGTGGACTAATCTTAGCAAAATGATTATAGTTAACCCATAAACA
131 CAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACA
*
2717 ATGGAAAGAAAAGCATCGA-GTTTGCCAAATCGAAGACGATTC-AAACGGAACTAATGGGCCCCG
196 ATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCG
* * * *
2780 AAAGGCCTAAAATAACAAGTGTTCCAAATGAGCTAAAAAACTTCACAGTGGACTGATCTTACCAA
261 ATAGGCCCAAAATAACAAGTGTTCCAAATGAGCT-AAAAACTTCACAGTGGACTAATCTCACCAA
*
2845 AATGATTATAGTTAGGCCACT-AACATTGG-AAGAAAAGCATTGAGG-TTGCCAAATCGAAGACG
325 AATGATTATAGTTAGGCCA-TAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACG
* * * * * * *
2907 ATTCAAAACGGAACTAAT-GGTCCTCGATATGTCTAAAATAACAAGTGTTGCAAGTGAGACTAAA
389 ATTCAAAACGTAACTAATGGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGA-ACTAAA
2971 AACTTCACAGT
453 AACTTCACAGT
2982 GGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATT-AGGTTT
1 GGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTT
* * *
3046 CCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGAAAGGGCCAAAATAACAAGTGTTC
66 GCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTC
* *
3111 CAAAT-ACACTAAAAACATCACAGTGGACTAATCTCACC-AAATGATT-TAG-TAGGCCAT-AAC
131 CAAATGA-GCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAAC
* * **
3171 AATGAAAAG-AAAGCATCGAGGGATGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCC
195 AATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCC
* ** *
3235 GAAAAACCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACAAA
260 GATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAA
*
3300 AATGATTATAGTCAGGCCATAAACAATGGAAAG-AAAGCA-TGAGGTTTGCCAAATCGAAGACGA
325 AATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGA
* * * *
3363 TTCAAAACGTCACT-ATTGGTCTCCGATAGGACCCAAAATAACGAGTGTTACCAAATGAGACTAA
390 TTCAAAACGTAACTAATGGGTCCCCGATAGG-CCCAAAATAACAAGTGTT-CCAAATGA-ACTAA
3427 AAACTTCACAGT
452 AAACTTCACAGT
*
3439 GGAACTAATCTCAACCAAAATGATTATAGTTAGGCCAATAAACATTAGGAAAAGAAAAGCATTGG
1 GG-ACTAATCTC-ACCAAAATGATTATAGTTAGGCC-ATAAACAAT-GG-AAAGAAAAGCATT-G
* * * *
3504 TAGGGTTTACCAAATCGAAGACGATTACAAAACGGAACTAATGGTCCTCGATATCGACCCAAAAT
60 -A-GGTTTGCCAAATCGAAGACGATT-CAAAACGGAACTAATGGGCCCCGATA--GGCCCAAAAT
* * * *
3569 AACAAGTGTTGCAAATGAGCTAAAAACTTCAGAGTGGACTAATCTCACCAAAATGATTGTAATTA
120 AACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTA
* * ***
3634 GGCCATAATCAATGGAAAAGAAAAGCATTGAGGTTTGCCTAATCGAAGACGATTCAAAACATCAC
185 GGCCATAAACAATGG-AAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAAC
** * * *
3699 TAAAAGGCCCCAATAGGACCCAAAATAACATGTGTTCCAAATGAGCTAAAAACTTCGCAGTGGAC
249 TAATGGGCCCCGATAGG-CCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGAC
* * *
3764 TAAGCTCACCAAAATGATTATAGTTGGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTCCCA
313 TAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCA
*
3829 AATCGAAGACGATTCAAAAC-TGAACTAATGGGT-TCCGATAGGCCCAAAATAACAAGTGTTCCA
378 AATCGAAGACGATTCAAAACGT-AACTAATGGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCA
*
3892 AATGAGCTAAAAACTTCACAGT
442 AATGAACTAAAAACTTCACAGT
* * * *
3914 GGACTAATCTCA-CAATAATGATTATAGTTAGGCCATAAAAAATTGAAAGAAAAGCATCGAGGGT
1 GGACTAATCTCACCAA-AATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTT
* * * *
3978 TGCCAAATCGAAGACGGTTCAAAACGGAAGTTATGGGCCCCGATTGGCCCAAAATAACAAGTGTT
65 TGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTT
*
4043 CCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATATTTAGGCCATAAAC
130 CCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAAC
** * *
4108 AATGGAAAGAAAAATATTGGGGTTTGCCAAATCGAAGACGATTCAAAATGGAACTAATGGGCCCC
195 AATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCC
4173 GATAGGCCCAAAATAAC
260 GATAGGCCCAAAATAAC
4190 TGATACGAAT
Statistics
Matches: 3046, Mismatches: 369, Indels: 314
0.82 0.10 0.08
Matches are distributed among these distances:
446 103 0.03
447 298 0.10
448 6 0.00
454 18 0.01
455 130 0.04
456 76 0.02
457 29 0.01
458 18 0.01
459 188 0.06
460 333 0.11
461 135 0.04
462 424 0.14
463 238 0.08
464 86 0.03
465 8 0.00
466 48 0.02
467 45 0.01
468 3 0.00
469 56 0.02
470 28 0.01
471 9 0.00
472 27 0.01
473 27 0.01
474 15 0.00
475 66 0.02
476 96 0.03
477 33 0.01
478 51 0.02
479 8 0.00
480 12 0.00
481 6 0.00
483 1 0.00
484 1 0.00
485 1 0.00
486 6 0.00
487 1 0.00
489 2 0.00
490 4 0.00
491 6 0.00
492 1 0.00
494 2 0.00
496 4 0.00
497 10 0.00
498 3 0.00
499 10 0.00
500 3 0.00
502 2 0.00
503 2 0.00
504 4 0.00
505 6 0.00
506 1 0.00
507 2 0.00
508 1 0.00
509 1 0.00
510 6 0.00
511 1 0.00
512 3 0.00
515 6 0.00
516 13 0.00
517 9 0.00
518 2 0.00
519 9 0.00
521 1 0.00
522 1 0.00
523 10 0.00
524 4 0.00
525 8 0.00
526 5 0.00
527 3 0.00
528 2 0.00
529 4 0.00
530 3 0.00
531 9 0.00
532 2 0.00
533 129 0.04
534 121 0.04
535 1 0.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (463 bp):
GGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTT
GCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTC
CAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACA
ATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCG
ATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAA
ATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGAT
TCAAAACGTAACTAATGGGTCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAACTAAAAAC
TTCACAGT
Found at i:1222 original size:71 final size:71
Alignment explanation
Indices: 1092--1238 Score: 240
Period size: 71 Copynumber: 2.1 Consensus size: 71
1082 CTAATCTCAC
* *
1092 CAAAAATGATTTTAGTTAGGCCATAAACAATGGAAAGAAAAGCATCGAGGGATGACAAATCGAAG
1 CAAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATCGAGGGATCACAAATCGAAG
1157 ACGATT
66 ACGATT
* ** *
1163 CAAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTCTCAAATCGAAG
1 CAAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATCGAGGGATCACAAATCGAAG
1228 ACGATT
66 ACGATT
1234 CAAAA
1 CAAAA
1239 CTGAACTAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.46, C:0.13, G:0.20, T:0.21
Consensus pattern (71 bp):
CAAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATCGAGGGATCACAAATCGAAG
ACGATT
Found at i:1443 original size:154 final size:153
Alignment explanation
Indices: 1165--4189 Score: 4121
Period size: 154 Copynumber: 19.7 Consensus size: 153
1155 AGACGATTCA
1165 AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTCTCAAATCGAAGAC
1 AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTC-CAAATCGAAGAC
*
1230 GATTCAAAACTGAACTAATGGGCCCCGAAACGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAA
65 GATTCAAAACTGAACTAATGGGCCCCGAAAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAA
*
1295 ACTTCACAGTGGACTAATCTCACA
130 ACTTCACAGTGGACTAATCTCACC
1319 AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTCTCAAATCGAAGAC
1 AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTC-CAAATCGAAGAC
*
1384 GATTCAAAACTGAACTAATGGGCCCCGAAACGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAA
65 GATTCAAAACTGAACTAATGGGCCCCGAAAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAA
1449 ACTTCACAGTGGACTAATCTCACC
130 ACTTCACAGTGGACTAATCTCACC
*
1473 AAAATGATTATAGTTAGGCCATAAACAATTGAAAGAAAAGCATTGAGGTTTCCCAAATCGAAGAC
1 AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTT-CCAAATCGAAGAC
* * * * *
1538 GATTCAAAACGGAACTAATGGACCCC-AATAGGCTCAAAATAACAAGTGTTCGAACTGAGCTAAA
65 GATTCAAAACTGAACTAATGGGCCCCGAA-AGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAA
1602 AACTTCACAGTGGACTAATCTCACC
129 AACTTCACAGTGGACTAATCTCACC
* *
1627 AAAGTGATTATAGTTAGGCCATAAACAATGGAAAGAAAACCATTGAGGTTTCCCAAATCGAAGAC
1 AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTT-CCAAATCGAAGAC
*
1692 GATTCAAAACGGAACTAATGGGCCCCGAAAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAA
65 GATTCAAAACTGAACTAATGGGCCCCGAAAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAA
1757 ACTTCACAGTGGACTAATCTCACC
130 ACTTCACAGTGGACTAATCTCACC
*
1781 AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAACCGAAGAC
1 AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTT-CCAAATCGAAGAC
* * * * *
1846 AATTCAAAACTGAACTAATGGGCCTCGATAGGCACAAGATAACAAGTGTTCCAAATGAGCTAAAA
65 GATTCAAAACTGAACTAATGGGCCCCGAAAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAA
* *
1911 ACTTCACAGTGAACTCATCTCACC
130 ACTTCACAGTGGACTAATCTCACC
** * *
1935 AAAATGATTATAGTTAGGCTTTACACAATAGGAAAGAAAAGCATTGAAGTTTGCCAAATCGAAGA
1 AAAATGATTATAGTTAGGCCATAAACAAT-GGAAAGAAAAGCATTGAGGTTT-CCAAATCGAAGA
* * * * *
2000 CGATTCAAAACAT-CACTAATGGTCTCCGATAGGCCCAAAATAACAAGTGTTCCATATGAGCTAA
64 CGATTCAAAAC-TGAACTAATGGGCCCCGAAAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAA
2064 AAACTTCACAGTGG------------
128 AAACTTCACAGTGGACTAATCTCACC
* * * *
2078 ---A-GATTATAGTTAGGCCATAAAAAATGGAAAGAAAAGCATCGAAGGTTGCCAAACCGAAGAC
1 AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTG-AGGTTTCCAAATCGAAGAC
* * * *
2139 AATTCAAAACGGAACTAATGGGCCTCGATAA-GCACAAAATAACAAGTGTTCCAAATGAGCTAAA
65 GATTCAAAACTGAACTAATGGGCCCCGA-AAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAA
*
2203 GACTTCACAGTGGACTAATCTCACC
129 AACTTCACAGTGGACTAATCTCACC
* * * *
2228 AAAATGATTATAGTTAGACCATAAACAATGGAAAGAAATGCATCGAAGGTTGCCAAATCGAAGAC
1 AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTG-AGGTTTCCAAATCGAAGAC
* *
2293 GATTCAAAACGGGACTAATGGGCCCCGAAAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAA
65 GATTCAAAACTGAACTAATGGGCCCCGAAAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAA
2358 ACTTCACAGTGGACTAATCTCACC
130 ACTTCACAGTGGACTAATCTCACC
* * * *
2382 AAAATGATTATAGTTATGCCATAAACAATGGAAAGAAAAGCATCGAAGGTTGCCAAATTGAAGAC
1 AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTG-AGGTTTCCAAATCGAAGAC
* * * *
2447 GATTCAAAAC-GTCACTAATGGTCCCCGATAGGCCCAAAATAACAAGGGTTCCAAATGAGCTAAA
65 GATTCAAAACTG-AACTAATGGGCCCCGAAAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAA
*
2511 AACTTCACAGTGGACTAACCTCACC
129 AACTTCACAGTGGACTAATCTCACC
* * *
2536 AAAATGATTATAGTTAGGCCGTACACGATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGAC
1 AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTT-CCAAATCGAAGAC
* *
2601 GATTCAAAAC-GTCACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAA
65 GATTCAAAACTG-AACTAATGGGCCCCGAAAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAA
* *
2665 AACTTCACAGTGGACTAATCTTAGC
129 AACTTCACAGTGGACTAATCTCACC
** *
2690 AAAATGATTATAGTTAACCCATAAACAATGGAAAGAAAAGCATCGA-GTTTGCCAAATCGAAGAC
1 AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTT-CCAAATCGAAGAC
* *
2754 GATTC-AAACGGAACTAATGGGCCCCGAAAGGCCTAAAATAACAAGTGTTCCAAATGAGCTAAAA
65 GATTCAAAACTGAACTAATGGGCCCCGAAAGGCCCAAAATAACAAGTGTTCCAAATGAGCT-AAA
* *
2818 AACTTCACAGTGGACTGATCTTACC
129 AACTTCACAGTGGACTAATCTCACC
* *
2843 AAAATGATTATAGTTAGGCCACT-AACATTGG-AAGAAAAGCATTGAGGTTGCCAAATCGAAGAC
1 AAAATGATTATAGTTAGGCCA-TAAACAATGGAAAGAAAAGCATTGAGGTTTCCAAATCGAAGAC
* * * * * * * * *
2906 GATTCAAAACGGAACTAATGGTCCTCGATATGTCTAAAATAACAAGTGTTGCAAGTGAGACTAAA
65 GATTCAAAACTGAACTAATGGGCCCCGAAAGGCCCAAAATAACAAGTGTTCCAAATGAG-CTAAA
2971 AACTTCACAGTGGACTAATCTCACC
129 AACTTCACAGTGGACTAATCTCACC
2996 AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATT-AGGTTTCCCAAATCGAAGAC
1 AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTT-CCAAATCGAAGAC
* * *
3060 GATTCAAAACGGAACTAATGGGCCCCGAAAGGGCCAAAATAACAAGTGTTCCAAAT-ACACTAAA
65 GATTCAAAACTGAACTAATGGGCCCCGAAAGGCCCAAAATAACAAGTGTTCCAAATGA-GCTAAA
*
3124 AACATCACAGTGGACTAATCTCACC
129 AACTTCACAGTGGACTAATCTCACC
* * * *
3149 -AAATGATT-TAG-TAGGCCAT-AACAATGAAAAG-AAAGCATCGAGGGATGCCAAATCGAAGAC
1 AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGA-GGTTTCCAAATCGAAGAC
* **
3209 GATTCAAAACGGAACTAATGGGCCCCGAAAAACCCAAAATAACAAGTGTTCCAAATGAGCTAAAA
65 GATTCAAAACTGAACTAATGGGCCCCGAAAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAA
*
3274 ACTTCACAGTGGACTAATCTCACA
130 ACTTCACAGTGGACTAATCTCACC
*
3298 AAAATGATTATAGTCAGGCCATAAACAATGGAAAG-AAAGCA-TGAGGTTTGCCAAATCGAAGAC
1 AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTT-CCAAATCGAAGAC
* * * * * *
3361 GATTCAAAAC-GTCACTATTGGTCTCCGATAGGACCCAAAATAACGAGTGTTACCAAATGAGACT
65 GATTCAAAACTG-AACTAATGGGCCCCGAAAGG-CCCAAAATAACAAGTGTT-CCAAATGAG-CT
3425 AAAAACTTCACAGTGGAACTAATCTCAACC
126 AAAAACTTCACAGTGG-ACTAATCTC-ACC
*
3455 AAAATGATTATAGTTAGGCCAATAAACATTAGGAAAAGAAAAGCATTGGTAGGGTTTACCAAATC
1 AAAATGATTATAGTTAGGCC-ATAAACAAT-GG-AAAGAAAAGCATT-G-A-GGTTT-CCAAATC
* * * * * *
3520 GAAGACGATTACAAAACGGAACTAATGGTCCTCGATATCGACCCAAAATAACAAGTGTTGCAAAT
59 GAAGACGATT-CAAAACTGAACTAATGGGCCCCGA-A-AGGCCCAAAATAACAAGTGTTCCAAAT
*
3585 GAGCTAAAAACTTCAGAGTGGACTAATCTCACC
121 GAGCTAAAAACTTCACAGTGGACTAATCTCACC
* * * *
3618 AAAATGATTGTAATTAGGCCATAATCAATGGAAAAGAAAAGCATTGAGGTTTGCCTAATCGAAGA
1 AAAATGATTATAGTTAGGCCATAAACAATGG-AAAGAAAAGCATTGAGGTTT-CCAAATCGAAGA
* ** *
3683 CGATTCAAAACAT-CACTAAAAGGCCCC-AATAGGACCCAAAATAACATGTGTTCCAAATGAGCT
64 CGATTCAAAAC-TGAACTAATGGGCCCCGAA-AGG-CCCAAAATAACAAGTGTTCCAAATGAGCT
* *
3746 AAAAACTTCGCAGTGGACTAAGCTCACC
126 AAAAACTTCACAGTGGACTAATCTCACC
*
3774 AAAATGATTATAGTTGGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTCCCAAATCGAAGAC
1 AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTT-CCAAATCGAAGAC
** *
3839 GATTCAAAACTGAACTAATGGGTTCCGATAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAA
65 GATTCAAAACTGAACTAATGGGCCCCGAAAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAA
3904 ACTTCACAGTGGACTAATCTCA-C
130 ACTTCACAGTGGACTAATCTCACC
* * * *
3927 AATAATGATTATAGTTAGGCCATAAAAAATTGAAAGAAAAGCATCGAGGGTTGCCAAATCGAAGA
1 AA-AATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGA-GGTTTCCAAATCGAAGA
* * * * **
3992 CGGTTCAAAACGGAAGTTATGGGCCCCGATTGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAA
64 CGATTCAAAACTGAACTAATGGGCCCCGAAAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAA
4057 AACTTCACAGTGGACTAATCTCACC
129 AACTTCACAGTGGACTAATCTCACC
* ** *
4082 AAAATGATTATATTTAGGCCATAAACAATGGAAAGAAAAATATTGGGGTTTGCCAAATCGAAGAC
1 AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTT-CCAAATCGAAGAC
*
4147 GATTCAAAA-TGGAACTAATGGGCCCCGATAGGCCCAAAATAAC
65 GATTCAAAACT-GAACTAATGGGCCCCGAAAGGCCCAAAATAAC
4190 TGATACGAAT
Statistics
Matches: 2577, Mismatches: 222, Indels: 144
0.88 0.08 0.05
Matches are distributed among these distances:
138 91 0.04
139 25 0.01
140 1 0.00
148 7 0.00
149 106 0.04
150 20 0.01
151 10 0.00
152 135 0.05
153 266 0.10
154 1421 0.55
155 185 0.07
156 91 0.04
157 36 0.01
158 29 0.01
159 3 0.00
160 5 0.00
161 22 0.01
162 8 0.00
163 22 0.01
164 10 0.00
165 39 0.02
166 26 0.01
167 18 0.01
168 1 0.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (153 bp):
AAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTCCAAATCGAAGACG
ATTCAAAACTGAACTAATGGGCCCCGAAAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAA
CTTCACAGTGGACTAATCTCACC
Found at i:7071 original size:76 final size:76
Alignment explanation
Indices: 6921--7064 Score: 168
Period size: 76 Copynumber: 1.9 Consensus size: 76
6911 ACAAGGACCC
* * * *
6921 CGACTCTACCTGGGCGCCCACATGGTTGCCTTGAGCACCCATGTGGTTTGCTTGAGAACCCAGGT
1 CGACTCCACCTGGGCGCCCACATGGTTGCCTTGAGCACCCATGTGGTTTGCCTGAGAACCAAGAT
6986 GGGCAGTGTCA
66 GGGCAGTGTCA
* * **
6997 CGACTCCAGCTGGGTGCCCACATGGTTTGCC-TGAAG-ACCCATGT-GTTTCGCCTGATCACCAA
1 CGACTCCACCTGGGCGCCCACATGG-TTGCCTTG-AGCACCCATGTGGTTT-GCCTGAGAACCAA
7059 GATGGG
63 GATGGG
7065 TTGTGTCTTA
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
75 4 0.07
76 46 0.81
77 7 0.12
ACGTcount: A:0.18, C:0.29, G:0.29, T:0.24
Consensus pattern (76 bp):
CGACTCCACCTGGGCGCCCACATGGTTGCCTTGAGCACCCATGTGGTTTGCCTGAGAACCAAGAT
GGGCAGTGTCA
Done.