Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01011820.1 Corchorus capsularis cultivar CVL-1 contig11841, 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: 24026
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Found at i:1587 original size:2 final size:2
Alignment explanation
Indices: 1535--1569 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
1525 CACTATTAGT
1535 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1570 ATGGAAGTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2718 original size:12 final size:12
Alignment explanation
Indices: 2682--2711 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2672 TTCCGATCCT
2682 GATCCCGAACCC
1 GATCCCGAACCC
*
2694 GAACCCGAACCC
1 GATCCCGAACCC
2706 GATCCC
1 GATCCC
2712 AATCCCGTCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.27, C:0.50, G:0.17, T:0.07
Consensus pattern (12 bp):
GATCCCGAACCC
Found at i:2853 original size:2 final size:2
Alignment explanation
Indices: 2846--2872 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2836 GAAATTGTTC
2846 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
2873 CAAATTCCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18714 original size:18 final size:18
Alignment explanation
Indices: 18677--18715 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
18667 GGTAAAGATA
* *
18677 TTCTCTTTTTTTTTTTTT
1 TTCTCTTTTTTTGTTGTT
*
18695 TTCTGTTTTTTTGTTGTT
1 TTCTCTTTTTTTGTTGTT
18713 TTC
1 TTC
18716 AATGTTCTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.10, G:0.08, T:0.82
Consensus pattern (18 bp):
TTCTCTTTTTTTGTTGTT
Found at i:19861 original size:326 final size:322
Alignment explanation
Indices: 18831--20389 Score: 2025
Period size: 318 Copynumber: 4.8 Consensus size: 322
18821 GTTCTGGGGC
* *
18831 CCCGGCTTAGTTTTGCATGATTTTTGGCGCCAAAACTCCTTGAAATATCTATATTCATCAAACCA
1 CCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCAAACCA
* *
18896 AATCTCAGCCACAATTGATTTAAAGACTTGTTTTTACGAACATCAGAATCTTGTTTAGATTTCTA
66 AATCTCAGCCACAATTGATTTAAAGACTTGTTTTTACGAGCATCAGAATCTTGTTTCGATTTCTA
* *
18961 TTAGAAATTAATTCAAAAAAATAGGAAAAACAATATTAGAAGTGTGAAAAGCCTTTTAATCTTTT
131 TTAGAAATTAATTCAAAAAAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCTTTTAATCTTTT
** *
19026 TGGCATTGAATT-TATATTTTTTACGACTATTGTGTCAAAAAATTGAGGAAAAAAATT-TCGGCT
196 TGGCATTGAATTATATATTTTTTACGACTATTGTGTCAAAAAATTGAGGAAAAATTTTCTCAGCT
* ** * * * *
19089 -TAGGTTTT-G-CAAAAT--T-T--TAGCCGAAATCGTACAGTTTTTGGCTAAAACCACGTTCCG
261 CAAAATTTTAGCCGAAATCGTGTACTATCC---ATC--ACAGTTTTTGGCTAAAAACATGTTCCG
19146 GG
321 GG
* ** * *
19148 CCCTGACAAAGTTTTGCATGATTTTTGGCGCCAAGACTCGTTGAAATATATATATTCATCAAACC
1 CCC-GGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCAAACC
19213 AAATCTCAGCCACAATTGATTTAAAGACTTGTTTTTACGAGCATCAGAATCTTGTATT-GATTTC
65 AAATCTCAGCCACAATTGATTTAAAGACTTGTTTTTACGAGCATCAGAATCTTGT-TTCGATTTC
* * *
19277 TATTACAAATTAATTTAAAAAAATAGGAAAAACGATATTAGAAGCCTGAAAAGCCTTTTAATCTT
129 TATTAGAAATTAATTCAAAAAAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCTTTTAATCTT
*
19342 TTTGGCATTGAATTATATAACTTTTTACGACTATTGTGTCAAAGAAATTGAGGAAAAATTTATCG
194 TTTGGCATTGAATTATAT-ATTTTTTACGACTATTGTGTCAAA-AAATTGAGGAAAAATTT-T--
* * * **
19407 ACTCAGTTTTTGCAAAATTTTAGCCGAAACCGTGTACTATCCATCACGGTTTTTGGCTAAAAAGG
254 -CTCAG---CT-CAAAATTTTAGCCGAAATCGTGTACTATCCATCACAGTTTTTGGCTAAAAACA
*
19472 TTTTCCAGGG
314 TGTTCC-GGG
* * * *
19482 CCCCAGTTCAGTTTTGCATGATTTTTGGTGTCAAGACTCCTTGAAATATCTATATTTCATCAAAC
1 -CCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATA-TTCATCAAAC
* *
19547 CAAACCTCAGCCACAATTGTTTTAAAGACTTGTTTTTACGAGCATCAGAATCTTGTTTCGATTTC
64 CAAATCTCAGCCACAATTGATTTAAAGACTTGTTTTTACGAGCATCAGAATCTTGTTTCGATTTC
*
19612 TATTAGAAATTAATTCAAAAAAAATAGGAAAAACGATATTAGAAGCGTGAAAAACCTTTTAATCT
129 TATTAGAAATTAATTC-AAAAAAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCTTTTAATC-
*
19677 TTTTTGGCATTGAATTATATATTTTTTACGACTATTCTGTCAAAAAAATTGAGGAAAAATTTT-T
192 TTTTTGGCATTGAATTATATATTTTTTACGACTATTGTGTC-AAAAAATTGAGGAAAAATTTTCT
* **
19741 CAGCTC-AAATTTTAGCCGAAATCGTGTACTATCCATCACGGTTTTTGGCTAAAAAGGTGTTCCG
256 CAGCTCAAAATTTTAGCCGAAATCGTGTACTATCCATCACAGTTTTTGGCTAAAAACATGTTCC-
19805 GGG
320 GGG
*
19808 TCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAACACTCCTTGAAATATCTATATTCATCAAACC
1 -CCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCAAACC
**
19873 AAATCTCAGCCACAATTTTTTTCAAAGACTTGTTTTTACGAGCATCAGAATCTTGTTTCGATTTC
65 AAATCTCAGCCACAATTGATTT-AAAGACTTGTTTTTACGAGCATCAGAATCTTGTTTCGATTTC
*
19938 TATTAGAAATTAATTCAAAAAAATAGGAAAAACGATATTAGAAGCATGAAAAGCCTTTTAATCTT
129 TATTAGAAATTAATTCAAAAAAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCTTTTAATCTT
* *
20003 TTAGGCATTGAATTATATATTTTTCTAACGACTATTGTGTCAAAAATTTGAGGAAAAATTTTTCT
194 TTTGGCATTGAATTATATATTTTT-T-ACGACTATTGTGTCAAAAAATTGAGGAAAAA---TT-T
* * * *
20068 TCTCAATTTTCGCAAAATTTTAGCTGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACA
253 TCTC-A---GCTCAAAATTTTAGCCGAAATCGTGTACTATCCATCACAGTTTTTGGCTAAAAACA
* *
20133 CGTTTCGGG
314 TGTTCCGGG
* * * *
20142 CCCTGG-TACAGTTTTGCATGATTTTTTGCGCCAAGACTCGTTGAAATATATATATTCATCTAAC
1 CCC-GGCT-CAGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCAAAC
* * * * * *
20206 CAAATCTCAGTCAC-TTTGGATTTAAGGATTTATTTTTACGGGCATCAGAATCTTGTTTCGATTT
64 CAAATCTCAGCCACAATT-GATTTAAAGACTTGTTTTTACGAGCATCAGAATCTTGTTTCGATTT
* ** *
20270 TTATTAGAAATTAATTCAAAAAAATAGGAAAAATAATATTAGAAGCGTGAAAAGTCTTTTAATCT
128 CTATTAGAAATTAATTCAAAAAAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCTTTTAATCT
*
20335 TTTTGGCATTGAATAATATATTTTTTACGACTATTGCT-TCAAAAAATTGAGGAAA
193 TTTTGGCATTGAATTATATATTTTTTACGACTATTG-TGTCAAAAAATTGAGGAAA
20390 TATCTATATT
Statistics
Matches: 1103, Mismatches: 93, Indels: 78
0.87 0.07 0.06
Matches are distributed among these distances:
317 3 0.00
318 189 0.17
319 5 0.00
320 23 0.02
321 15 0.01
322 1 0.00
324 25 0.02
325 93 0.08
326 180 0.16
327 1 0.00
328 3 0.00
329 3 0.00
330 2 0.00
331 36 0.03
332 3 0.00
333 150 0.14
334 120 0.11
335 142 0.13
336 82 0.07
337 23 0.02
338 4 0.00
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.36
Consensus pattern (322 bp):
CCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCAAACCA
AATCTCAGCCACAATTGATTTAAAGACTTGTTTTTACGAGCATCAGAATCTTGTTTCGATTTCTA
TTAGAAATTAATTCAAAAAAATAGGAAAAACGATATTAGAAGCGTGAAAAGCCTTTTAATCTTTT
TGGCATTGAATTATATATTTTTTACGACTATTGTGTCAAAAAATTGAGGAAAAATTTTCTCAGCT
CAAAATTTTAGCCGAAATCGTGTACTATCCATCACAGTTTTTGGCTAAAAACATGTTCCGGG
Found at i:20543 original size:203 final size:202
Alignment explanation
Indices: 20184--20797 Score: 894
Period size: 203 Copynumber: 3.0 Consensus size: 202
20174 AAGACTCGTT
* * * * * *
20184 GAAATATATATATTCATCTAACCAAATCTCAGTCAC-TTTGGATTTAAGGATTTATTTTTACGGG
1 GAAATATCTATATTCATCAAACCAAATCTCAG-CACAATT-GATTTAAAGACTTATTTTTACGAG
* * * *
20248 CATCAGAATCTTGTTTCGATTTTTATTAGAAATTAA-TTCAAAAAAATAGGAAAAATAATATTAG
64 CATCAGAATCTTGTTTCGATTTCTATTACAAATTAATTTTAAAAAAATAGGAAAAATGATATTAG
*
20312 AAGCGTGAAAAGTCTTTTAATCTTTTTGGCATTGAATAATATATTTTTTACGACTATTGCTTCAA
129 AAGCGTGAAAAGCCTTTTAATCTTTTTGGCATTGAATAATATATTTTTTACGACTATTGCTTCAA
20377 AAAATTGAG
194 AAAATTGAG
* * * *
20386 GAAATATCTATATTGATCAAACCAAATCTCAGCGACAATTGATATAAAGACTTCTTTTTTCGAGC
1 GAAATATCTATATTCATCAAACCAAATCTCAGC-ACAATTGATTTAAAGACTTATTTTTACGAGC
* *
20451 ATCAGAATCTTCTTTCGATTTCTATTACAAATTAATTTTAAAAAAATAGGAAAAACGATATTAGA
65 ATCAGAATCTTGTTTCGATTTCTATTACAAATTAATTTTAAAAAAATAGGAAAAATGATATTAGA
*
20516 AGCGTGAAAAGCCTTTTAATCTTTTTGGCATTGAATAATATATTTTTTAAGACTATTGCTTCAAA
130 AGCGTGAAAAGCCTTTTAATCTTTTTGGCATTGAATAATATATTTTTTACGACTATTGCTTCAAA
20581 AAATTGAG
195 AAATTGAG
* **
20589 GAAATATCTATATTCATCAAACCAAATCTCATCCACAATTGATTTAAAGACTTGGTTTTACGAGC
1 GAAATATCTATATTCATCAAACCAAATCTCA-GCACAATTGATTTAAAGACTTATTTTTACGAGC
* **
20654 ATCAGAAACTTGTATAAGATTTCTATTACAAATTAATTTT-AAAAAATAGGAAAAATGATATTAG
65 ATCAGAATCTTGT-TTCGATTTCTATTACAAATTAATTTTAAAAAAATAGGAAAAATGATATTAG
* *
20718 AAGCGTGAAAAGCCTTTTAATCTTTTTGGCATTGAATTATATAACTTTTTACGACTATTG-TGTC
129 AAGCGTGAAAAGCCTTTTAATCTTTTTGGCATTGAATAATAT-ATTTTTTACGACTATTGCT-TC
20782 AAAGAAATTGAG
192 AAA-AAATTGAG
20794 GAAA
1 GAAA
20798 AATTTTTCGA
Statistics
Matches: 372, Mismatches: 32, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
201 1 0.00
202 82 0.22
203 232 0.62
204 45 0.12
205 12 0.03
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.36
Consensus pattern (202 bp):
GAAATATCTATATTCATCAAACCAAATCTCAGCACAATTGATTTAAAGACTTATTTTTACGAGCA
TCAGAATCTTGTTTCGATTTCTATTACAAATTAATTTTAAAAAAATAGGAAAAATGATATTAGAA
GCGTGAAAAGCCTTTTAATCTTTTTGGCATTGAATAATATATTTTTTACGACTATTGCTTCAAAA
AATTGAG
Found at i:21877 original size:209 final size:208
Alignment explanation
Indices: 21511--22130 Score: 864
Period size: 209 Copynumber: 3.0 Consensus size: 208
21501 AAGACTCGTT
* * * * * *
21511 GAAATATATATATTCATCTAACCAAATCTCAGTCAC-GTTGGATTTAAGGATTTATTTTTACGAG
1 GAAATATCTATATTCATCAAACCAAATCTCAGTCACAATT-GATTTAAAGACTTGTTTTTACGAG
* * * * * ** **
21575 CATCAAAATCTTGTTTCAATTTTTATTAGAAATTAATTCAAAAAAAATAGGAAAAATAATATTAG
65 CATCAGAATCTTATTTCGATTTCTATTACAAATTAATTTTAAAAAAATAGGAAAAACGATATTAG
** *
21640 AAGCGTGAAAAGTCTTTTAATTTTTTTGGCATTGAATAATATA-TTTTTACGACTATTGCTTCAA
130 AAGCGTGAAAAACCTTTTAATCTTTTTGGCATTGAATAATATATTTTTTACGACTATTGCTTCAA
21704 AAAATTGAGGAAATGG
195 AAAATTGAGGAAA--G
* * *
21720 GAAATATCTATATTGATCAAACTAAATCTCAGTGACAATTGATTTAAAGACTTGTTTTTACGAGC
1 GAAATATCTATATTCATCAAACCAAATCTCAGTCACAATTGATTTAAAGACTTGTTTTTACGAGC
*
21785 ATCAGAATCTTCTTTCGATTTCTATTACAAATTAATTTTAAAAAAATAGGAAAAACGATATTAGA
66 ATCAGAATCTTATTTCGATTTCTATTACAAATTAATTTTAAAAAAATAGGAAAAACGATATTAGA
*
21850 AGCGTGAAAAACCTTTTAATCTTTTTGGAATTGAATAATATATTTTTTTACGACTATTGCTTCAA
131 AGCGTGAAAAACCTTTTAATCTTTTTGGCATTGAATAATATA-TTTTTTACGACTATTGCTTCAA
21915 AAAATT---G--AG
195 AAAATTGAGGAAAG
*
21924 GAAATATCTATATTCATCAAACCAAATCTCAGCCACAATTGATTTAAAGACTTGTTTTTACGAGC
1 GAAATATCTATATTCATCAAACCAAATCTCAGTCACAATTGATTTAAAGACTTGTTTTTACGAGC
* *
21989 ATCAGAAACTTGAATT-GATTTCTATTACAAATTAA-TTTAAAAAAATAGGAAAAACGATATTAG
66 ATCAGAATCTT-ATTTCGATTTCTATTACAAATTAATTTTAAAAAAATAGGAAAAACGATATTAG
*
22052 AAGCGTGAAAAACCTTTTAATCTTTTTGGCATTGAATTATATATTTTCTTACGACTATTG-TGTC
130 AAGCGTGAAAAACCTTTTAATCTTTTTGGCATTGAATAATATATTTT-TTACGACTATTGCT-TC
22116 AAAAAATTGAGGAAA
193 AAAAAATTGAGGAAA
22131 AATTTTTCGG
Statistics
Matches: 369, Mismatches: 31, Indels: 23
0.87 0.07 0.05
Matches are distributed among these distances:
202 5 0.01
203 91 0.25
204 91 0.25
205 2 0.01
206 2 0.01
208 2 0.01
209 147 0.40
210 2 0.01
211 27 0.07
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (208 bp):
GAAATATCTATATTCATCAAACCAAATCTCAGTCACAATTGATTTAAAGACTTGTTTTTACGAGC
ATCAGAATCTTATTTCGATTTCTATTACAAATTAATTTTAAAAAAATAGGAAAAACGATATTAGA
AGCGTGAAAAACCTTTTAATCTTTTTGGCATTGAATAATATATTTTTTACGACTATTGCTTCAAA
AAATTGAGGAAAG
Found at i:23006 original size:332 final size:333
Alignment explanation
Indices: 21924--24014 Score: 2939
Period size: 333 Copynumber: 6.3 Consensus size: 333
21914 AAAAATTGAG
* * *
21924 GAAATATCTATATTCATCAAACCAAATCTCAGCCACAATTGATTTAAAGACTTGTTTTTACGAGC
1 GAAATATCTATATTCATCAATCCAAATCTCAGCCACAATTGATTTAGAGACGTGTTTTTACGAGC
* * * * * *
21989 ATCAGAAACTTGAATT-GATTTCTATTACAAATTAATTTAAAAAAATAGGAAAAACGATATTAGA
66 ATTAGAATCTTG-TTTCGAATTCTATTAGAAATTAATTCAAAAAAATAGGAAAAACGATATTAGA
* *
22053 AGCGTGAAAAACCTTTTAATCTTTTTGGCATTGAATTATATATTTTCTTACGACTATTGTGTCAA
130 AGCATAAAAAACCTTTTAATCTTTTTGGCATTGAATTATATATTTTCTTACGACTATTGTGTCAA
*
22118 AAAATTGAGGAAAAATTTTTCGGCTCAGTTTTTGCAAAATTTTAGCAAAAATCATGTATTATCCA
195 AAAATTGAGGAAAAATTTTTCGGCTCAGTTTTTGCAAAATTTTAGCAAAAATCGTGTATTATCCA
* * * *
22183 TCACGGTTTTTGGATAAAAAGCTGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTATGACACCA
260 TCACGGTTTTTGGCTAAAAAGCTGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCA
22248 AGACTCCTT
325 AGACTCCTT
* * * * * * *
22257 GAAATATCTATGTTTATCAAATCAAAAT-TCCGCCACAATTGATTTA-ATGACTTATTTTTATGA
1 GAAATATCTATATTCATC-AATCCAAATCTCAGCCACAATTGATTTAGA-GACGTGTTTTTACGA
* * * **
22320 GCATCAGAATCTTGTTTCGATTTATATTAGAAATTAATTCAAAAAAATAGGAAAAAAAATATTAG
64 GCATTAGAATCTTGTTTCGAATTCTATTAGAAATTAATTCAAAAAAATAGGAAAAACGATATTAG
* *
22385 AAGCATAAAAAGCCTTTTAATCTTTTTGGCATTGAATTATATA-TTTATTACGACTATTGTGTCA
129 AAGCATAAAAAACCTTTTAATCTTTTTGGCATTGAATTATATATTTTCTTACGACTATTGTGTCA
* * *
22449 AAAAATTGAGAAAAAATTTTTCGGCTCAGTTTGTGCAAAATTTTATC-AAAATCGTGTATTATCC
194 AAAAATTGAGGAAAAATTTTTCGGCTCAGTTTTTGCAAAATTTTAGCAAAAATCGTGTATTATCC
* * * *
22513 ATTACGGTTTTTGGCCAAAAAGGTTTTCC-GGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCC
259 ATCACGGTTTTTGGCTAAAAAGCTGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCC
22577 AAGACTCCTT
324 AAGACTCCTT
* *
22587 GAAATATCTATATTCATCAATCCAAATCTCAGCTATAATTGATTTAGAGACGTGTTTTTACGAGC
1 GAAATATCTATATTCATCAATCCAAATCTCAGCCACAATTGATTTAGAGACGTGTTTTTACGAGC
*
22652 ATTAGAATCTTGTTTCGAATTCTATTAGAAATTAATTCAAAAAAATAGGAAAAGCGATATTAGAA
66 ATTAGAATCTTGTTTCGAATTCTATTAGAAATTAATTCAAAAAAATAGGAAAAACGATATTAGAA
22717 GCATAAAAAACCTTTTAATCTTTTTGGCATTGAATTATATATTTTCTTACGACTATTGTGTCAAA
131 GCATAAAAAACCTTTTAATCTTTTTGGCATTGAATTATATATTTTCTTACGACTATTGTGTCAAA
22782 AAATTGAGGAAAAA-TTTTCGGCTCAGTTTTTGCAAAATTTTAGCAAAAATCGTGTATTATCCAT
196 AAATTGAGGAAAAATTTTTCGGCTCAGTTTTTGCAAAATTTTAGCAAAAATCGTGTATTATCCAT
* **
22846 CACGATTTTTGGCTAAAAAGCTGTTCCGGGGATCCGGCTCAGTTTTGCATGATTTTTGGCGCCAA
261 CACGGTTTTTGGCTAAAAAGCTGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAA
22911 GACTCCTT
326 GACTCCTT
* * * *
22919 GAAATATATTTATTCATCAATCCAAATCTCAGTCACAATCGATTTAGAGACGTGTTTTTACGAGC
1 GAAATATCTATATTCATCAATCCAAATCTCAGCCACAATTGATTTAGAGACGTGTTTTTACGAGC
* *
22984 ATTAGAATCTTATTTTGAATTCTATTAGAAATTAATTCAAAAAAATAGGAAAAACGATATTAGAA
66 ATTAGAATCTTGTTTCGAATTCTATTAGAAATTAATTCAAAAAAATAGGAAAAACGATATTAGAA
* *
23049 GCGA-AAGAAACCTTTTAATCTTTTTGGCATTGAATAATATATTGTTCTTACGACTATTGTGTCA
131 GC-ATAAAAAACCTTTTAATCTTTTTGGCATTGAATTATATATT-TTCTTACGACTATTGTGTCA
* *
23113 GAAAATTGAGGAAAAATTTTTCGG--C------T-C--AATTTTTGCAAAAATCGTGTATTATCC
194 AAAAATTGAGGAAAAATTTTTCGGCTCAGTTTTTGCAAAATTTTAGCAAAAATCGTGTATTATCC
* * * *
23167 ATCATGGTTTTTGGCTAAAAAACTGTTCCGGGGCCCCGACTCCGTTTTGCATGATTTTTGGCGCC
259 ATCACGGTTTTTGGCTAAAAAGCTGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCC
23232 AAGACTCCTT
324 AAGACTCCTT
* *
23242 GAAATATCTATATTCATCAATCCAAATCTCAGCCACAATGGATTTAGAGACGTGTTTTTACGAAC
1 GAAATATCTATATTCATCAATCCAAATCTCAGCCACAATTGATTTAGAGACGTGTTTTTACGAGC
*
23307 ATTAGAATCTTGTTTCGAATTCTACTAGAAATTAATTCAAAAAAATAGGAAAAACGATATTAGAA
66 ATTAGAATCTTGTTTCGAATTCTATTAGAAATTAATTCAAAAAAATAGGAAAAACGATATTAGAA
* * * * * *
23372 G-ACTGAAAAGCCTTTTAATCTTTTTTGCATTGAATAATATATTGTTTTTACGACAATTGTGTCA
131 GCA-TAAAAAACCTTTTAATCTTTTTGGCATTGAATTATATATT-TTCTTACGACTATTGTGTCA
* * ** * *
23436 GAAAATTGAGAAAAAAAAATTTCGGCTCAATTTATGCAAAATTTTAGCAAAAATCGTGTATTATC
194 AAAAATTGAG-GAAAAATTTTTCGGCTCAGTTTTTGCAAAATTTTAGCAAAAATCGTGTATTATC
* * ** * * *
23501 CATCACGGTTTTTGGCTAAAAAACTGTTCCGGGGCCGCGATTCAGTTTTGCATGATTTATGACGT
258 CATCACGGTTTTTGGCTAAAAAGCTGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGC
*
23566 CAAGAGTCCTT
323 CAAGACTCCTT
* * * ** * * * * *
23577 AAAATATCTATGTTTATCAAAGCAAAACTCTGCCACAATTGATTTA-ATGACTTGTGTTTATGAG
1 GAAATATCTATATTCATCAATCCAAATCTCAGCCACAATTGATTTAGA-GACGTGTTTTTACGAG
* * *
23641 CATCAGAATCTTGTTTCGATTTATATTAGAAATTAATTCAAAAAAAATAGGAAAAACGATATTAG
65 CATTAGAATCTTGTTTCGAATTCTATTAGAAATTAATTC-AAAAAAATAGGAAAAACGATATTAG
* *
23706 AAGCATAAAAAGCCTTTTAATCTTTTTGGCATTGAATTATATA-TTTGTTACGACTATTGTGTCA
129 AAGCATAAAAAACCTTTTAATCTTTTTGGCATTGAATTATATATTTTCTTACGACTATTGTGTCA
* * * *
23770 AAAAATTGAGGAAAAATTTTTCGGCTCAGTATTTGCAAAATTTTATCAAAAATTGTTTATTATCC
194 AAAAATTGAGGAAAAATTTTTCGGCTCAGTTTTTGCAAAATTTTAGCAAAAATCGTGTATTATCC
* * * * *
23835 ATTACGGTTTTTGTCCAAAAAGGTGTTCCGGGGCCCCGGCTCCGTTTTGCATGATTTTTGGCGCC
259 ATCACGGTTTTTGGCTAAAAAGCTGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCC
23900 AAGACTCCTT
324 AAGACTCCTT
* * *
23910 TAAATATCTATATTCATCAATCAAAATACTCAGCCACAATTGATTTAAAGTAACGTGTTTTTACG
1 GAAATATCTATATTCATCAATCCAAAT-CTCAGCCACAATTGATTTAGAG--ACGTGTTTTTACG
23975 TAGCATTAGAATCTTGTTTCGAATTCTATTAGAAATTAAT
63 -AGCATTAGAATCTTGTTTCGAATTCTATTAGAAATTAAT
24015 ATAAGAAAAA
Statistics
Matches: 1564, Mismatches: 161, Indels: 62
0.88 0.09 0.03
Matches are distributed among these distances:
321 1 0.00
323 281 0.18
324 11 0.01
325 1 0.00
326 2 0.00
329 8 0.01
330 214 0.14
331 117 0.07
332 272 0.17
333 306 0.20
334 61 0.04
335 180 0.12
336 73 0.05
337 37 0.02
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (333 bp):
GAAATATCTATATTCATCAATCCAAATCTCAGCCACAATTGATTTAGAGACGTGTTTTTACGAGC
ATTAGAATCTTGTTTCGAATTCTATTAGAAATTAATTCAAAAAAATAGGAAAAACGATATTAGAA
GCATAAAAAACCTTTTAATCTTTTTGGCATTGAATTATATATTTTCTTACGACTATTGTGTCAAA
AAATTGAGGAAAAATTTTTCGGCTCAGTTTTTGCAAAATTTTAGCAAAAATCGTGTATTATCCAT
CACGGTTTTTGGCTAAAAAGCTGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAA
GACTCCTT
Done.