Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01005047.1 Corchorus capsularis cultivar CVL-1 contig05065, 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: 3703
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.35
Found at i:622 original size:334 final size:331
Alignment explanation
Indices: 2--3702 Score: 4099
Period size: 330 Copynumber: 11.2 Consensus size: 331
1 C
* * * * * *
2 AGAAAAAATAAGAAAAACGTATATTAGAAGCGTGAAAAGTCTTTCAATCTTTTCGGCATTGAATC
1 AGAAAAAAAAAGAAAAACG-AAATTAGAAGCGTGAAAAGCCCTTCAATCTTTT-GGCTTTGAATT
*
67 ATATATTTTTTACGAGTATTGTGTCAAAAAATTGC--AGAAAATTCTTTCGGGTCAGTTTTTGCA
64 ATATATTTTTTACGAGTATTGTGTCAAAAAATTGCAAAAAAAATT-TTTCGGGTCAGTTTTTGCA
* *
130 AAATTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCGTTTCGGGCACCG
128 AAATTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCGTTCCGGGCCCCG
* * * *
195 GCTTCGG-TTTGCATGATTTTTGGCGTCAAGACTCATTGAAATATCAGTATTCATCTAACCAAAT
193 GC-TCGGTTTTGCATGATTTTTGGCGCCAAGACTCATTGAAATATCAATATTCATCTAAACTAAT
* * *
259 CTTAGCCACTTTGGATTTACAGATTTGTTTTTACGAGCATCTTAATCATATTTCGATTTAATTAG
257 CTCAGCCACATTGGATTTAAAGATTTGTTTTTACGAGCATCTTAATCATATTTCGATTTAATTAG
324 AAATTAATTT
322 AAATTAATTT
*
334 AGAAAAATAAAACGAAAAACAAAATTAGAAGCGTGAAAAGGCCCTTCAATCTTGTTGGCTTTGAA
1 AGAAAAA-AAAA-GAAAAACGAAATTAGAAGCGTGAAAA-GCCCTTCAATCTT-TTGGCTTTGAA
* * *
399 TTATATATTTTTTACGAGTATTGTGTAAAAAAATTCCAAAAAAAATTTTT-GGTTCAGTTTTTGC
62 TTATATATTTTTTACGAGTATTGTGTCAAAAAATTGCAAAAAAAATTTTTCGGGTCAGTTTTTGC
* * * * *
463 AAAATTTTAGCTGAAATCGTGTATTAAGCATCACAGTATTTGGCTAAAATCGCGTTCCGGGCCCC
127 AAAATTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCGTTCCGGGCCCC
* * * *
528 GACTCGGTTTTGCATGATTTTTGGCACCAAGAATCATTGAGATATCAATATTCATCTAAACTAAT
192 GGCTCGGTTTTGCATGATTTTTGGCGCCAAGACTCATTGAAATATCAATATTCATCTAAACTAAT
* *
593 CTCAGCCACATTGTATTTAAAGATTTGTTTTTACGAGCATCTTAATCATATTTCGATTTAATCAG
257 CTCAGCCACATTGGATTTAAAGATTTGTTTTTACGAGCATCTTAATCATATTTCGATTTAATTAG
*
658 AAATTGATTT
322 AAATTAATTT
* * *** *
668 AG-AAAAAAAGGAAAAACGAAATTAGAAGCGTGAAAAGCTCAAGAATCTTTTTGCCTTTGAATTA
1 AGAAAAAAAAAGAAAAACGAAATTAGAAGCGTGAAAAGCCCTTCAATC-TTTTGGCTTTGAATTA
* * * * *** **
732 TATATTTTTTTACGACTATTGTGGCCAGAAATTTAGGGGGAAAAAA--TTTCGACTCAGTTTTTG
65 TATA-TTTTTTACGAGTATTGT-GTCAAAAAATT--GCAAAAAAAATTTTTCGGGTCAGTTTTTG
* *
795 CAAAATTTTAGCCGAAATCGTG---------TCACGGTTTCTT-GCTAAAAACGTGTTCCGGAGC
126 CAAAATTTTAGCCGAAATCGTGTACTAACCATCACAGTTT-TTGGCTAAAAACGCGTTCCGG-GC
* * * * * * * *
850 CCCGCCTCAGTTTTACAGGATTTCTGGCGTCAAGACT-ATTTGAAATATCTATATTCATC-CAAC
189 CCCGGCTCGGTTTTGCATGATTTTTGGCGCCAAGACTCA-TTGAAATATCAATATTCATCTAAAC
* * * * * * ** * *
913 TAAATCTTAGCCTCATTGGATTTAAGGATTTTTTTTTACAATCATCAAAATCTTATTTCGATTTT
253 T-AATCTCAGCCACATTGGATTTAAAGATTTGTTTTTACGAGCATCTTAATCATATTTCGATTTA
*
978 ATTAGAAATTAATTC
317 ATTAGAAATTAATTT
* * * * * *
993 AGAAAAAATAAGAAAAACGATATTAGAAGCGTGAAAAGTCTTTCAATCTTTTCGGCATTGAATCA
1 AGAAAAAAAAAGAAAAACGAAATTAGAAGCGTGAAAAGCCCTTCAATCTTTT-GGCTTTGAATTA
* *
1058 TATCTTTTTTACGAGTATTGTGTCAAAAAATTGC-AGAAAAATTTTTCGGGTCAGTTTTTGCAAA
65 TATATTTTTTACGAGTATTGTGTCAAAAAATTGCAAAAAAAATTTTTCGGGTCAGTTTTTGCAAA
* * *
1122 ATTTTAGCCGAAATCGTGTACTAACCATC-CAGTTTTTGGCTAAAAACGTGTTCCAGGCCCAGGC
130 ATTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCGTTCCGGGCCCCGGC
* ** * * *
1186 TTC-GTTTTGCATGATTTTTGGTGCCAAGACAAATTGAAATATCAGTATTCATCTAACCAAATCT
195 -TCGGTTTTGCATGATTTTTGGCGCCAAGACTCATTGAAATATCAATATTCATCTAAACTAATCT
* *
1250 CAGCTA-ATTTGGATTTACAGATTTGTTTTTACGAGCATCTTAATCATATTTCGATTTAATTAGA
259 CAGCCACA-TTGGATTTAAAGATTTGTTTTTACGAGCATCTTAATCATATTTCGATTTAATTAGA
1314 AATTAATTT
323 AATTAATTT
*
1323 AGAAAAATAAAACGAAAAACAAAATTAGAAGCGTGAAAAGGCCCTTCAATCTTGTTGGCTTTGAA
1 AGAAAAA-AAAA-GAAAAACGAAATTAGAAGCGTGAAAA-GCCCTTCAATCTT-TTGGCTTTGAA
* * *
1388 TTATATATTTTTTACGAGTATTGTGTAAAAAAATT-CCAAAAAAATTTTTTGGGTCAGTTTTTGC
62 TTATATATTTTTTACGAGTATTGTGTCAAAAAATTGCAAAAAAAATTTTTCGGGTCAGTTTTTGC
* * * * *
1452 AAAATTTTAGCCGAAATCGTGTATTAAGGCATCACAGTATTTGGCTAAAATCGCGTTCCGGGCGC
127 AAAATTTTAGCCGAAATCGTGTACTAA-CCATCACAGTTTTTGGCTAAAAACGCGTTCCGGGCCC
* * * * *
1517 CGACTCGGTTTTGCATTATTTTTGGCACCAAGAATCATTGAGATATCAATATTCATCTAAACTAA
191 CGGCTCGGTTTTGCATGATTTTTGGCGCCAAGACTCATTGAAATATCAATATTCATCTAAACTAA
* * * *
1582 TCACAGCCACATTGTATTTATAGATTTGTTTTTACGAGCATCTTAATCATATTTCGATTTAATCA
256 TCTCAGCCACATTGGATTTAAAGATTTGTTTTTACGAGCATCTTAATCATATTTCGATTTAATTA
*
1647 GAACTTAATTT
321 GAAATTAATTT
* * *** *
1658 AGAAAAAGAAAGGAAAAACGAAATTAGAAGCGTGAAAAGCTCAAGAATCTTTTTGCCTTTGAATT
1 AGAAAAA-AAAAGAAAAACGAAATTAGAAGCGTGAAAAGCCCTTCAATC-TTTTGGCTTTGAATT
* * ** * *
1723 ATATATCTTTTTACGACTATTGTGGTC-AGAAATTG-AGAGAAAAAA-AATTCGAGTCAGTTTAT
64 ATATAT-TTTTTACGAGTATTGT-GTCAAAAAATTGCA-A-AAAAAATTTTTCGGGTCAGTTTTT
* * *
1785 GGAAAATTTTAGCCGAAATCGTG---------TCACGGTTTCTT-GCTAAAAACGTGTTCCGGAG
125 GCAAAATTTTAGCCGAAATCGTGTACTAACCATCACAGTTT-TTGGCTAAAAACGCGTTCCGG-G
* * * * * * * *
1840 CCCCGCCTCAGTTTTACAGGATTTCTGGCGTCAAGACT-ATTTGAAATATCTATATTCATC-CAA
188 CCCCGGCTCGGTTTTGCATGATTTTTGGCGCCAAGACTCA-TTGAAATATCAATATTCATCTAAA
* * * * * ** *
1903 CTAAATCTTAGCCTCATTGGATTTAAGGATTT-TTTTTACAATCATCAAAATCTTATTTCGATTT
252 CT-AATCTCAGCCACATTGGATTTAAAGATTTGTTTTTACGAGCATCTTAATCATATTTCGATTT
* *
1967 TATTAGAAATTAATTC
316 AATTAGAAATTAATTT
* * * * * * * * *
1983 AGAAAAAATAAGAAAAACGATATTAGAAGCATGAAAAGTCTTTCAATCCTTTCGGCATTAAATCA
1 AGAAAAAAAAAGAAAAACGAAATTAGAAGCGTGAAAAGCCCTTCAAT-CTTTTGGCTTTGAATTA
* * * *
2048 TATATTTTTTACTAGTATGGTGTCAAAAAATTGC-AGAAAATTTTTTCGGGTCAGTTTTTGCAAA
65 TATATTTTTTACGAGTATTGTGTCAAAAAATTGCAAAAAAAATTTTTCGGGTCAGTTTTTGCAAA
*
2112 ATTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCGTTCCGGGCCCTGGC
130 ATTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCGTTCCGGGCCCCGGC
** * * *
2177 TTAGTTTTGCATGATTTTTGGCGCCAAGACTCATTGAAATATCAGTATTCATCTAACCAAATCTC
195 TCGGTTTTGCATGATTTTTGGCGCCAAGACTCATTGAAATATCAATATTCATCTAAACTAATCTC
* **
2242 AGCCACTTTGGATTTACGGATTTGTTTTTACGAGCATCTTAATCATATTTCGATTTAATTAGAAA
260 AGCCACATTGGATTTAAAGATTTGTTTTTACGAGCATCTTAATCATATTTCGATTTAATTAGAAA
*
2307 TTCATTT
325 TTAATTT
* *
2314 AGAAAAATAAAACGAAAAACAAAATTAGAAGCGTGAAAGGCCCTTCAATCTTGTTGGCTTTGAAT
1 AGAAAAA-AAAA-GAAAAACGAAATTAGAAGCGTGAAAAGCCCTTCAATCTT-TTGGCTTTGAAT
* * * * *
2379 TATATATATTTTACGAGTATTGTGT-AAAAAGATTGCTGAAAATATTTTTTGGGGTCAGTTTTTG
63 TATATATTTTTTACGAGTATTGTGTCAAAAA-ATTGC-AAAAAAAATTTTTCGGGTCAGTTTTTG
* * * * *
2443 CAAAATTTTAG-TGAAATCGTGTATTAACTATCACAGTTTTTGACTAAAATCGCGTTCCGGGCCC
126 CAAAATTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCGTTCCGGGCCC
* * *
2507 CGGCTCGGTTTTGCATGATTTTTGGCACCAAGACTCATTGAGATATCAATATTCATCTAAACGAA
191 CGGCTCGGTTTTGCATGATTTTTGGCGCCAAGACTCATTGAAATATCAATATTCATCTAAACTAA
* * *
2572 TCTCAGCCACATTGTATTTAAAGATTTGTTCTTACGAGCATCTTAATCATATTTCGATTTAATCA
256 TCTCAGCCACATTGGATTTAAAGATTTGTTTTTACGAGCATCTTAATCATATTTCGATTTAATTA
2637 GAAATTAATTT
321 GAAATTAATTT
* * *** *
2648 AG-AAAAAAAGGAAAAACGAAATTAGAAGCGTGAAAAGCTCAAGAATCTTTTTGCCTTTGAATTA
1 AGAAAAAAAAAGAAAAACGAAATTAGAAGCGTGAAAAGCCCTTCAATC-TTTTGGCTTTGAATTA
* * * *** ** *
2712 TATATTTTTCACGACTATTGTGGTC-AGAAATTG-AGAAAAAAAAAATTCGACTCAGGTTTTGCA
65 TATATTTTTTACGAGTATTGT-GTCAAAAAATTGCA-AAAAAAATTTTTCGGGTCAGTTTTTGCA
* * * *
2775 AAATTTTAGCCGAAATCGTG---------TCACGGTTTTTGGCTAAAATCGTGTTCCTGAGCCCC
128 AAATTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCGTTCC-GGGCCCC
* * * * * *
2831 GCCTCAGTTTTGCAGGATTTTTGGCGTCAAGACT-ATTTGAAATATCTATATTCATC-CAACTAA
192 GGCTCGGTTTTGCATGATTTTTGGCGCCAAGACTCA-TTGAAATATCAATATTCATCTAAACT-A
* * * * ** * *
2894 ATCTTAGCCACATTGGATTTAAGGATTT-TTTTTACAATCATCAAAATCTTATTTCGATTTTATT
255 ATCTCAGCCACATTGGATTTAAAGATTTGTTTTTACGAGCATCTTAATCATATTTCGATTTAATT
* *
2958 AGAGATTAATTC
320 AGAAATTAATTT
* * * * * *
2970 AGAAAAAATAAGAAAAACGATATTAGAAGCGTGAAAAGTCTTTCAATCTTTTCGGCATTGAATCA
1 AGAAAAAAAAAGAAAAACGAAATTAGAAGCGTGAAAAGCCCTTCAATCTTTT-GGCTTTGAATTA
* *
3035 TATATTTTTTACGAGTATTGTGTCAAAAAATTGC--AGAAAATTCTTTCGGGTTAGTTTTTGCAA
65 TATATTTTTTACGAGTATTGTGTCAAAAAATTGCAAAAAAAATT-TTTCGGGTCAGTTTTTGCAA
* * *
3098 AATTTTAGCCGAAATCGTATACTAACCATCACAGTTTTTGGCTAAAAACGCGTTTCGGGCCCTGG
129 AATTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCGTTCCGGGCCCCGG
* * * * *
3163 CTTC-GTTTTACATGATTTTTGGCGCCAAGACTCATTGAAATATCAGTATTCATCTAACCAAATT
194 C-TCGGTTTTGCATGATTTTTGGCGCCAAGACTCATTGAAATATCAATATTCATCTAAACTAATC
* * ** *
3227 TTAGCCACTTTGGATTTACGGATTTGTTTTTACGAGCATCTTAATCATATTTCGATTTAATCAGA
258 TCAGCCACATTGGATTTAAAGATTTGTTTTTACGAGCATCTTAATCATATTTCGATTTAATTAGA
*
3292 AACTAATTT
323 AATTAATTT
* * *
3301 AG--AAAAAAGGAAAAACAAAATTAGAAGCGTGAAAGGCCCTTCAATCTTGTTGGCTTTGAATTA
1 AGAAAAAAAAAGAAAAACGAAATTAGAAGCGTGAAAAGCCCTTCAATCTT-TTGGCTTTGAATTA
* *** * **
3364 TATATTTTTTACGAGTATTGTGTAAAAAAATTGTTGAAAATATTTTTTAGGTCAGTTTTTGCAAA
65 TATATTTTTTACGAGTATTGTGTCAAAAAATTGCAAAAAAAATTTTTCGGGTCAGTTTTTGCAAA
* * * **
3429 ATTTTAACCGAAATCGTGTATTAACCATCATAGTTTTTGGCTAAAATTGCGTTCCGGGCCCCGGC
130 ATTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCGTTCCGGGCCCCGGC
* * * *
3494 TCGGTTTTGCATTATTTTTGGCACCAAGGCTCATTGAGATATCAATATTCATCTAAACTAATCTC
195 TCGGTTTTGCATGATTTTTGGCGCCAAGACTCATTGAAATATCAATATTCATCTAAACTAATCTC
* * * *
3559 AGCCACATTGTATTTAAAAATTTGTTTTTACGAGCATTTTAATCATATTTCGATTTAATCAGAAA
260 AGCCACATTGGATTTAAAGATTTGTTTTTACGAGCATCTTAATCATATTTCGATTTAATTAGAAA
3624 TTAATTT
325 TTAATTT
* *** *
3631 AGAAAAAGAAAAGAAAAACGAAATTAGAAGCGTGAAAAGCTCAAGAATCTTTTTGCCTTTGAATT
1 AGAAAAA-AAAAGAAAAACGAAATTAGAAGCGTGAAAAGCCCTTCAATC-TTTTGGCTTTGAATT
3696 ATATATT
64 ATATATT
3703 C
Statistics
Matches: 2803, Mismatches: 455, Indels: 221
0.81 0.13 0.06
Matches are distributed among these distances:
321 14 0.00
322 149 0.05
323 207 0.07
324 82 0.03
325 212 0.08
326 120 0.04
329 84 0.03
330 519 0.19
331 298 0.11
332 71 0.03
333 309 0.11
334 494 0.18
335 230 0.08
336 14 0.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.35
Consensus pattern (331 bp):
AGAAAAAAAAAGAAAAACGAAATTAGAAGCGTGAAAAGCCCTTCAATCTTTTGGCTTTGAATTAT
ATATTTTTTACGAGTATTGTGTCAAAAAATTGCAAAAAAAATTTTTCGGGTCAGTTTTTGCAAAA
TTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCGTTCCGGGCCCCGGCT
CGGTTTTGCATGATTTTTGGCGCCAAGACTCATTGAAATATCAATATTCATCTAAACTAATCTCA
GCCACATTGGATTTAAAGATTTGTTTTTACGAGCATCTTAATCATATTTCGATTTAATTAGAAAT
TAATTT
Found at i:3060 original size:987 final size:989
Alignment explanation
Indices: 1--3702 Score: 6385
Period size: 990 Copynumber: 3.7 Consensus size: 989
1 CAGAAAAAATAAGAAAAACGTATATTAGAAGCGTGAAAAGTCTTTCAATCTTTTCGGCATTGAAT
1 CAGAAAAAATAAGAAAAACG-ATATTAGAAGCGTGAAAAGTCTTTCAATCTTTTCGGCATTGAAT
66 CATATATTTTTTACGAGTATTGTGTCAAAAAATTGCAGAAAATTCTTTCGGGTCAGTTTTTGCAA
65 CATATATTTTTTACGAGTATTGTGTCAAAAAATTGCAGAAAATTCTTTCGGGTCAGTTTTTGCAA
*
131 AATTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCGTTTCGGGCACC-G
130 AATTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCGTTCCGGGC-CCTG
* *
195 GCTTCGGTTTGCATGATTTTTGGCGTCAAGACTCATTGAAATATCAGTATTCATCTAACCAAATC
194 GCTTCGTTTTGCATGATTTTTGGCGCCAAGACTCATTGAAATATCAGTATTCATCTAACCAAATC
*
260 TTAGCCACTTTGGATTTACAGATTTGTTTTTACGAGCATCTTAATCATATTTCGATTTAATTAGA
259 TCAGCCACTTTGGATTTACAGATTTGTTTTTACGAGCATCTTAATCATATTTCGATTTAATTAGA
325 AATTAATTTAGAAAAATAAAACGAAAAACAAAATTAGAAGCGTGAAAAGGCCCTTCAATCTTGTT
324 AATTAATTTAGAAAAATAAAACGAAAAACAAAATTAGAAGCGTGAAAAGGCCCTTCAATCTTGTT
* *
390 GGCTTTGAATTATATATTTTTTACGAGTATTGTGTAAAAAAATTCCAAAAAAAATTTTTGGTTCA
389 GGCTTTGAATTATATATTTTTTACGAGTATTGTGTAAAAAAATTCCAAAAAAATTTTTTGGGTCA
*
455 GTTTTTGCAAAATTTTAGCTGAAATCGTGTATTAAGCATCACAGTATTTGGCTAAAATCGCGTTC
454 GTTTTTGCAAAATTTTAGCCGAAATCGTGTATTAAGCATCACAGTATTTGGCTAAAATCGCGTTC
520 CGGGCCCCGACTCGGTTTTGCATGATTTTTGGCACCAAGAATCATTGAGATATCAATATTCATCT
519 CGGGCCCCGACTCGGTTTTGCATGATTTTTGGCACCAAGAATCATTGAGATATCAATATTCATCT
585 AAACTAATCTCAGCCACATTGTATTTAAAGATTTGTTTTTACGAGCATCTTAATCATATTTCGAT
584 AAACTAATCTCAGCCACATTGTATTTAAAGATTTGTTTTTACGAGCATCTTAATCATATTTCGAT
*
650 TTAATCAGAAATTGATTTAG-AAAA-AAAGGAAAAACGAAATTAGAAGCGTGAAAAGCTCAAGAA
649 TTAATCAGAAATTAATTTAGAAAAAGAAAGGAAAAACGAAATTAGAAGCGTGAAAAGCTCAAGAA
* * * *
713 TCTTTTTGCCTTTGAATTATATATTTTTTTACGACTATTGTGGCCAGAAATTTAGGGGGAAAAAA
714 TCTTTTTGCCTTTGAATTATATA-TTTTTTACGACTATTGTGGTCAGAAATTGA-GAGAAAAAAA
* *
778 TTTCGACTCAGTTTTTGCAAAATTTTAGCCGAAATCGTGTCACGGTTTCTTGCTAAAAACGTGTT
777 ATTCGACTCAGGTTTTGCAAAATTTTAGCCGAAATCGTGTCACGGTTTCTTGCTAAAAACGTGTT
843 CCGGAGCCCCGCCTCAGTTTTACAGGATTTCTGGCGTCAAGACTATTTGAAATATCTATATTCAT
842 CCGGAGCCCCGCCTCAGTTTTACAGGATTTCTGGCGTCAAGACTATTTGAAATATCTATATTCAT
908 CCAACTAAATCTTAGCCTCATTGGATTTAAGGATTTTTTTTTACAATCATCAAAATCTTATTTCG
907 CCAACTAAATCTTAGCCTCATTGGATTTAAGGA-TTTTTTTTACAATCATCAAAATCTTATTTCG
973 ATTTTATTAGAAATTAATT
971 ATTTTATTAGAAATTAATT
992 CAGAAAAAATAAGAAAAACGATATTAGAAGCGTGAAAAGTCTTTCAATCTTTTCGGCATTGAATC
1 CAGAAAAAATAAGAAAAACGATATTAGAAGCGTGAAAAGTCTTTCAATCTTTTCGGCATTGAATC
*
1057 ATATCTTTTTTACGAGTATTGTGTCAAAAAATTGCAGAAAAATT-TTTCGGGTCAGTTTTTGCAA
66 ATATATTTTTTACGAGTATTGTGTCAAAAAATTGCAG-AAAATTCTTTCGGGTCAGTTTTTGCAA
* * *
1121 AATTTTAGCCGAAATCGTGTACTAACCATC-CAGTTTTTGGCTAAAAACGTGTTCCAGGCCCAGG
130 AATTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCGTTCCGGGCCCTGG
* **
1185 CTTCGTTTTGCATGATTTTTGGTGCCAAGACAAATTGAAATATCAGTATTCATCTAACCAAATCT
195 CTTCGTTTTGCATGATTTTTGGCGCCAAGACTCATTGAAATATCAGTATTCATCTAACCAAATCT
* *
1250 CAGCTAATTTGGATTTACAGATTTGTTTTTACGAGCATCTTAATCATATTTCGATTTAATTAGAA
260 CAGCCACTTTGGATTTACAGATTTGTTTTTACGAGCATCTTAATCATATTTCGATTTAATTAGAA
1315 ATTAATTTAGAAAAATAAAACGAAAAACAAAATTAGAAGCGTGAAAAGGCCCTTCAATCTTGTTG
325 ATTAATTTAGAAAAATAAAACGAAAAACAAAATTAGAAGCGTGAAAAGGCCCTTCAATCTTGTTG
1380 GCTTTGAATTATATATTTTTTACGAGTATTGTGTAAAAAAATTCCAAAAAAATTTTTTGGGTCAG
390 GCTTTGAATTATATATTTTTTACGAGTATTGTGTAAAAAAATTCCAAAAAAATTTTTTGGGTCAG
1445 TTTTTGCAAAATTTTAGCCGAAATCGTGTATTAAGGCATCACAGTATTTGGCTAAAATCGCGTTC
455 TTTTTGCAAAATTTTAGCCGAAATCGTGTATTAA-GCATCACAGTATTTGGCTAAAATCGCGTTC
* *
1510 CGGGCGCCGACTCGGTTTTGCATTATTTTTGGCACCAAGAATCATTGAGATATCAATATTCATCT
519 CGGGCCCCGACTCGGTTTTGCATGATTTTTGGCACCAAGAATCATTGAGATATCAATATTCATCT
* *
1575 AAACTAATCACAGCCACATTGTATTTATAGATTTGTTTTTACGAGCATCTTAATCATATTTCGAT
584 AAACTAATCTCAGCCACATTGTATTTAAAGATTTGTTTTTACGAGCATCTTAATCATATTTCGAT
*
1640 TTAATCAGAACTTAATTTAGAAAAAGAAAGGAAAAACGAAATTAGAAGCGTGAAAAGCTCAAGAA
649 TTAATCAGAAATTAATTTAGAAAAAGAAAGGAAAAACGAAATTAGAAGCGTGAAAAGCTCAAGAA
1705 TCTTTTTGCCTTTGAATTATATATCTTTTTACGACTATTGTGGTCAGAAATTGAGAGAAAAAAAA
714 TCTTTTTGCCTTTGAATTATATAT-TTTTTACGACTATTGTGGTCAGAAATTGAGAGAAAAAAAA
* *
1770 TTCGAGTCA-GTTTATGGAAAATTTTAGCCGAAATCGTGTCACGGTTTCTTGCTAAAAACGTGTT
778 TTCGACTCAGGTTT-TGCAAAATTTTAGCCGAAATCGTGTCACGGTTTCTTGCTAAAAACGTGTT
1834 CCGGAGCCCCGCCTCAGTTTTACAGGATTTCTGGCGTCAAGACTATTTGAAATATCTATATTCAT
842 CCGGAGCCCCGCCTCAGTTTTACAGGATTTCTGGCGTCAAGACTATTTGAAATATCTATATTCAT
1899 CCAACTAAATCTTAGCCTCATTGGATTTAAGGATTTTTTTTACAATCATCAAAATCTTATTTCGA
907 CCAACTAAATCTTAGCCTCATTGGATTTAAGGATTTTTTTTACAATCATCAAAATCTTATTTCGA
1964 TTTTATTAGAAATTAATT
972 TTTTATTAGAAATTAATT
* * *
1982 CAGAAAAAATAAGAAAAACGATATTAGAAGCATGAAAAGTCTTTCAATCCTTTCGGCATTAAATC
1 CAGAAAAAATAAGAAAAACGATATTAGAAGCGTGAAAAGTCTTTCAATCTTTTCGGCATTGAATC
* * *
2047 ATATATTTTTTACTAGTATGGTGTCAAAAAATTGCAGAAAATTTTTTCGGGTCAGTTTTTGCAAA
66 ATATATTTTTTACGAGTATTGTGTCAAAAAATTGCAGAAAATTCTTTCGGGTCAGTTTTTGCAAA
2112 ATTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCGTTCCGGGCCCTGGC
131 ATTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCGTTCCGGGCCCTGGC
*
2177 TTAGTTTTGCATGATTTTTGGCGCCAAGACTCATTGAAATATCAGTATTCATCTAACCAAATCTC
196 TTCGTTTTGCATGATTTTTGGCGCCAAGACTCATTGAAATATCAGTATTCATCTAACCAAATCTC
*
2242 AGCCACTTTGGATTTACGGATTTGTTTTTACGAGCATCTTAATCATATTTCGATTTAATTAGAAA
261 AGCCACTTTGGATTTACAGATTTGTTTTTACGAGCATCTTAATCATATTTCGATTTAATTAGAAA
*
2307 TTCATTTAGAAAAATAAAACGAAAAACAAAATTAGAAGCGTG-AAAGGCCCTTCAATCTTGTTGG
326 TTAATTTAGAAAAATAAAACGAAAAACAAAATTAGAAGCGTGAAAAGGCCCTTCAATCTTGTTGG
* * ** *
2371 CTTTGAATTATATATATTTTACGAGTATTGTGTAAAAAGATTGCTGAAAATATTTTTTGGGGTCA
391 CTTTGAATTATATATTTTTTACGAGTATTGTGTAAAAAAATT-CCAAAAAAATTTTTT-GGGTCA
* * *
2436 GTTTTTGCAAAATTTTAG-TGAAATCGTGTATTAA-CTATCACAGTTTTTGACTAAAATCGCGTT
454 GTTTTTGCAAAATTTTAGCCGAAATCGTGTATTAAGC-ATCACAGTATTTGGCTAAAATCGCGTT
* *
2499 CCGGGCCCCGGCTCGGTTTTGCATGATTTTTGGCACCAAGACTCATTGAGATATCAATATTCATC
518 CCGGGCCCCGACTCGGTTTTGCATGATTTTTGGCACCAAGAATCATTGAGATATCAATATTCATC
* *
2564 TAAACGAATCTCAGCCACATTGTATTTAAAGATTTGTTCTTACGAGCATCTTAATCATATTTCGA
583 TAAACTAATCTCAGCCACATTGTATTTAAAGATTTGTTTTTACGAGCATCTTAATCATATTTCGA
2629 TTTAATCAGAAATTAATTTAG-AAAA-AAAGGAAAAACGAAATTAGAAGCGTGAAAAGCTCAAGA
648 TTTAATCAGAAATTAATTTAGAAAAAGAAAGGAAAAACGAAATTAGAAGCGTGAAAAGCTCAAGA
* *
2692 ATCTTTTTGCCTTTGAATTATATATTTTTCACGACTATTGTGGTCAGAAATTGAGAAAAAAAAAA
713 ATCTTTTTGCCTTTGAATTATATATTTTTTACGACTATTGTGGTCAGAAATTGAGAGAAAAAAAA
*
2757 TTCGACTCAGGTTTTGCAAAATTTTAGCCGAAATCGTGTCACGGTTT-TTGGCTAAAATCGTGTT
778 TTCGACTCAGGTTTTGCAAAATTTTAGCCGAAATCGTGTCACGGTTTCTT-GCTAAAAACGTGTT
* * *
2821 CCTGAGCCCCGCCTCAGTTTTGCAGGATTTTTGGCGTCAAGACTATTTGAAATATCTATATTCAT
842 CCGGAGCCCCGCCTCAGTTTTACAGGATTTCTGGCGTCAAGACTATTTGAAATATCTATATTCAT
*
2886 CCAACTAAATCTTAGCCACATTGGATTTAAGGATTTTTTTTACAATCATCAAAATCTTATTTCGA
907 CCAACTAAATCTTAGCCTCATTGGATTTAAGGATTTTTTTTACAATCATCAAAATCTTATTTCGA
*
2951 TTTTATTAGAGATTAATT
972 TTTTATTAGAAATTAATT
2969 CAGAAAAAATAAGAAAAACGATATTAGAAGCGTGAAAAGTCTTTCAATCTTTTCGGCATTGAATC
1 CAGAAAAAATAAGAAAAACGATATTAGAAGCGTGAAAAGTCTTTCAATCTTTTCGGCATTGAATC
*
3034 ATATATTTTTTACGAGTATTGTGTCAAAAAATTGCAGAAAATTCTTTCGGGTTAGTTTTTGCAAA
66 ATATATTTTTTACGAGTATTGTGTCAAAAAATTGCAGAAAATTCTTTCGGGTCAGTTTTTGCAAA
* *
3099 ATTTTAGCCGAAATCGTATACTAACCATCACAGTTTTTGGCTAAAAACGCGTTTCGGGCCCTGGC
131 ATTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCGTTCCGGGCCCTGGC
* * *
3164 TTCGTTTTACATGATTTTTGGCGCCAAGACTCATTGAAATATCAGTATTCATCTAACCAAATTTT
196 TTCGTTTTGCATGATTTTTGGCGCCAAGACTCATTGAAATATCAGTATTCATCTAACCAAATCTC
* *
3229 AGCCACTTTGGATTTACGGATTTGTTTTTACGAGCATCTTAATCATATTTCGATTTAATCAGAAA
261 AGCCACTTTGGATTTACAGATTTGTTTTTACGAGCATCTTAATCATATTTCGATTTAATTAGAAA
* *
3294 CTAATTTAG---AA-AAAAGGAAAAACAAAATTAGAAGCGTG-AAAGGCCCTTCAATCTTGTTGG
326 TTAATTTAGAAAAATAAAACGAAAAACAAAATTAGAAGCGTGAAAAGGCCCTTCAATCTTGTTGG
*** * *
3354 CTTTGAATTATATATTTTTTACGAGTATTGTGTAAAAAAATTGTTGAAAATATTTTTTAGGTCAG
391 CTTTGAATTATATATTTTTTACGAGTATTGTGTAAAAAAATT-CCAAAAAAATTTTTTGGGTCAG
* * * * *
3419 TTTTTGCAAAATTTTAACCGAAATCGTGTATTAACCATCATAGTTTTTGGCTAAAATTGCGTTCC
455 TTTTTGCAAAATTTTAGCCGAAATCGTGTATTAAGCATCACAGTATTTGGCTAAAATCGCGTTCC
* * **
3484 GGGCCCCGGCTCGGTTTTGCATTATTTTTGGCACCAAGGCTCATTGAGATATCAATATTCATCTA
520 GGGCCCCGACTCGGTTTTGCATGATTTTTGGCACCAAGAATCATTGAGATATCAATATTCATCTA
* *
3549 AACTAATCTCAGCCACATTGTATTTAAAAATTTGTTTTTACGAGCATTTTAATCATATTTCGATT
585 AACTAATCTCAGCCACATTGTATTTAAAGATTTGTTTTTACGAGCATCTTAATCATATTTCGATT
*
3614 TAATCAGAAATTAATTTAGAAAAAGAAAAGAAAAACGAAATTAGAAGCGTGAAAAGCTCAAGAAT
650 TAATCAGAAATTAATTTAGAAAAAGAAAGGAAAAACGAAATTAGAAGCGTGAAAAGCTCAAGAAT
3679 CTTTTTGCCTTTGAATTATATATT
715 CTTTTTGCCTTTGAATTATATATT
3703 C
Statistics
Matches: 2587, Mismatches: 106, Indels: 42
0.95 0.04 0.02
Matches are distributed among these distances:
982 22 0.01
983 287 0.11
984 7 0.00
985 63 0.02
986 2 0.00
987 552 0.21
988 69 0.03
989 322 0.12
990 733 0.28
991 417 0.16
992 113 0.04
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.35
Consensus pattern (989 bp):
CAGAAAAAATAAGAAAAACGATATTAGAAGCGTGAAAAGTCTTTCAATCTTTTCGGCATTGAATC
ATATATTTTTTACGAGTATTGTGTCAAAAAATTGCAGAAAATTCTTTCGGGTCAGTTTTTGCAAA
ATTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCGTTCCGGGCCCTGGC
TTCGTTTTGCATGATTTTTGGCGCCAAGACTCATTGAAATATCAGTATTCATCTAACCAAATCTC
AGCCACTTTGGATTTACAGATTTGTTTTTACGAGCATCTTAATCATATTTCGATTTAATTAGAAA
TTAATTTAGAAAAATAAAACGAAAAACAAAATTAGAAGCGTGAAAAGGCCCTTCAATCTTGTTGG
CTTTGAATTATATATTTTTTACGAGTATTGTGTAAAAAAATTCCAAAAAAATTTTTTGGGTCAGT
TTTTGCAAAATTTTAGCCGAAATCGTGTATTAAGCATCACAGTATTTGGCTAAAATCGCGTTCCG
GGCCCCGACTCGGTTTTGCATGATTTTTGGCACCAAGAATCATTGAGATATCAATATTCATCTAA
ACTAATCTCAGCCACATTGTATTTAAAGATTTGTTTTTACGAGCATCTTAATCATATTTCGATTT
AATCAGAAATTAATTTAGAAAAAGAAAGGAAAAACGAAATTAGAAGCGTGAAAAGCTCAAGAATC
TTTTTGCCTTTGAATTATATATTTTTTACGACTATTGTGGTCAGAAATTGAGAGAAAAAAAATTC
GACTCAGGTTTTGCAAAATTTTAGCCGAAATCGTGTCACGGTTTCTTGCTAAAAACGTGTTCCGG
AGCCCCGCCTCAGTTTTACAGGATTTCTGGCGTCAAGACTATTTGAAATATCTATATTCATCCAA
CTAAATCTTAGCCTCATTGGATTTAAGGATTTTTTTTACAATCATCAAAATCTTATTTCGATTTT
ATTAGAAATTAATT
Done.