Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01016484.1 Corchorus olitorius cultivar O-4 contig16517, 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: 83944
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Found at i:6085 original size:78 final size:78
Alignment explanation
Indices: 5956--6113 Score: 298
Period size: 78 Copynumber: 2.0 Consensus size: 78
5946 AGCACGAGTT
*
5956 TTAACCATGTTGGCTGTGTCAGCAAGAGAGAAGTTGCTAAAACCTCAGTGGAGATTATTTGGACT
1 TTAACCATATTGGCTGTGTCAGCAAGAGAGAAGTTGCTAAAACCTCAGTGGAGATTATTTGGACT
6021 TTGTAGGTTATTG
66 TTGTAGGTTATTG
*
6034 TTAACCATATTGGCTGTGTCAGCAAGAGAGAAGTTGCTAAAACCTCGGTGGAGATTATTTGGACT
1 TTAACCATATTGGCTGTGTCAGCAAGAGAGAAGTTGCTAAAACCTCAGTGGAGATTATTTGGACT
6099 TTGTAGGTTATTG
66 TTGTAGGTTATTG
6112 TT
1 TT
6114 GACTACGCCT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.34
Consensus pattern (78 bp):
TTAACCATATTGGCTGTGTCAGCAAGAGAGAAGTTGCTAAAACCTCAGTGGAGATTATTTGGACT
TTGTAGGTTATTG
Found at i:6768 original size:182 final size:182
Alignment explanation
Indices: 6461--6809 Score: 628
Period size: 182 Copynumber: 1.9 Consensus size: 182
6451 TGGGTTACCA
* *
6461 GGGTTTTATGCTTCTGCTTTAAACTCAAACAATTCTGTTTTGCCTGTGCTAGGCAGTTAAAGCTT
1 GGGTTTTATGCTTCTGCTTTAAACTCAAACAATTCTGCTTTGCCTGTGCTAGGCAGTAAAAGCTT
* *
6526 TTCAGGTTTTCAGTTTGTACTTTGACCTTACTACTATAGAGCATACATTATTGGTCAAGAGGTTT
66 TTCAGGTTTTCACTTTGTACTTTGACCTTACTAATATAGAGCATACATTATTGGTCAAGAGGTTT
* *
6591 CATTATGTTTTAACTTTGGGAGGGTGCAATTTTGTCAAGAGAGGTTATCGGG
131 CATTATGTTTCAACTTTGGGAGGGTACAATTTTGTCAAGAGAGGTTATCGGG
6643 GGGTTTTATGCTTCTGCTTTAAACTCAAACAATTCTGCTTTGCCTGTGCTAGGCAGTAAAAGCTT
1 GGGTTTTATGCTTCTGCTTTAAACTCAAACAATTCTGCTTTGCCTGTGCTAGGCAGTAAAAGCTT
6708 TTCAGGTTTTCACTTTGTACTTTGACCTTACTAATATAGAGCATACATTCA-TGGTCAAGAGGTT
66 TTCAGGTTTTCACTTTGTACTTTGACCTTACTAATATAGAGCATACATT-ATTGGTCAAGAGGTT
6772 TCATTATGTTTCAACTTTGGGAGGGTACAATTTTGTCA
130 TCATTATGTTTCAACTTTGGGAGGGTACAATTTTGTCA
6810 CATCGAGTTG
Statistics
Matches: 160, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
182 159 0.99
183 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (182 bp):
GGGTTTTATGCTTCTGCTTTAAACTCAAACAATTCTGCTTTGCCTGTGCTAGGCAGTAAAAGCTT
TTCAGGTTTTCACTTTGTACTTTGACCTTACTAATATAGAGCATACATTATTGGTCAAGAGGTTT
CATTATGTTTCAACTTTGGGAGGGTACAATTTTGTCAAGAGAGGTTATCGGG
Found at i:24702 original size:2 final size:2
Alignment explanation
Indices: 24695--24720 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
24685 CCCTCTCCGC
24695 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
24721 AGTTACTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:28328 original size:28 final size:29
Alignment explanation
Indices: 28283--28338 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
28273 TGTTATATTG
* *
28283 ATGCATCTTAACTTTTTTTGTTTTATTAT
1 ATGCATCTTAACTCTTTTTATTTTATTAT
28312 ATGCATCTTAAC-CTTTTTATTTTATTA
1 ATGCATCTTAACTCTTTTTATTTTATTA
28339 CATTCCTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 13 0.52
29 12 0.48
ACGTcount: A:0.23, C:0.12, G:0.05, T:0.59
Consensus pattern (29 bp):
ATGCATCTTAACTCTTTTTATTTTATTAT
Found at i:33341 original size:1 final size:1
Alignment explanation
Indices: 33335--33361 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
33325 TATTTACTGC
33335 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
33362 CCCTCCACGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:42099 original size:21 final size:20
Alignment explanation
Indices: 42075--42139 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
42065 AATTGAAAAA
42075 AAAAACCTTATAAAGTTACTT
1 AAAAA-CTTATAAAGTTACTT
*
42096 AAAAAC-TATAAAAGTTA-TA
1 AAAAACTTAT-AAAGTTACTT
*
42115 AAAAATGCTTATAAGGTTAC-T
1 AAAAA--CTTATAAAGTTACTT
42136 AAAA
1 AAAA
42140 TAGAGGTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
19 9 0.25
20 8 0.22
21 16 0.44
22 3 0.08
ACGTcount: A:0.54, C:0.09, G:0.08, T:0.29
Consensus pattern (20 bp):
AAAAACTTATAAAGTTACTT
Found at i:44548 original size:31 final size:32
Alignment explanation
Indices: 44510--44575 Score: 100
Period size: 31 Copynumber: 2.1 Consensus size: 32
44500 GTCAATGGTG
*
44510 TTTTGCCCCCTGAACTT-CCAAATTC-AGGACA
1 TTTTGCCCACTGAACTTCCCAAATTCTA-GACA
44541 TTTTGCCCACTGAACTTCCCAAATTCTAGACA
1 TTTTGCCCACTGAACTTCCCAAATTCTAGACA
44573 TTT
1 TTT
44576 AACCCTTGAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
31 16 0.50
32 15 0.47
33 1 0.03
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (32 bp):
TTTTGCCCACTGAACTTCCCAAATTCTAGACA
Found at i:53406 original size:18 final size:18
Alignment explanation
Indices: 53383--53420 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
53373 CCTAGGGTTA
*
53383 CATTAAATTTAACTAATT
1 CATTAAATCTAACTAATT
53401 CATTAAATCTAACTAATT
1 CATTAAATCTAACTAATT
53419 CA
1 CA
53421 AAGTCAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (18 bp):
CATTAAATCTAACTAATT
Found at i:54130 original size:29 final size:30
Alignment explanation
Indices: 54086--54145 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
54076 TTAATGTATG
* *
54086 TATACATATAAATTATTCAATTTTATCATA
1 TATAAATATAAATTATTCAATTATATCATA
* *
54116 TATAAATAT-AATTATTTAATTATATTATA
1 TATAAATATAAATTATTCAATTATATCATA
54145 T
1 T
54146 TATTATATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (30 bp):
TATAAATATAAATTATTCAATTATATCATA
Found at i:62366 original size:329 final size:324
Alignment explanation
Indices: 59377--63819 Score: 3930
Period size: 323 Copynumber: 13.7 Consensus size: 324
59367 ATACATTACA
* * * * *
59377 TCATCTAACCAAATCTCAACAACATTGGATTTAAGAATTTGTTTTTCCGAGTATCTGAATCTTGT
1 TCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * * * * * *
59442 TTCGA-TTAATTAGAAATTAATTCGGAATATAACGGACAAACAATA-TTAGAAGTGT-AAAAACC
66 TTCGATTTAATTAGAAATTAATTCGTAAAAAAATGGAAAAACGATATTTAGAAGCGTGAAAAACC
* * *
59504 CTTCAAT-TTTTTGTTGTTGTTGAATTACATATTTTTTCTGAGTATTGTGGCCAAAAATTGAGAA
131 CTTCAATCTTTTTG--G-CGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAG--
** *
59568 AAAAAACTTTTTTGGTCAG----TTTTAGCCGAAATCGTGTACTAACCATCAC-GGTTTTGGACT
191 AAAAAACTTTTCGGGTCAGTTTTTTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTGG-CT
* *
59628 AAAAACGCGTT-TCGAGGCCCCGACTCAGTTTTGCATGATTTTTGGCAG-AAAGATTCCTTGAAA
255 AAAAACGCGTTCTGGA-G-CCCG-CTCAGTTTTGCATGATTTTTGGC-GCAAAGACTCCTTGAAA
59691 TATCTATAT
316 TATCTATAT
* * * * * *
59700 TCATCTAACCAAATCTCAACCATAGTGGGTTTAAGGATTTG-TTTTATGAGCATCTAAATCTTGT
1 TCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * * * * *
59764 TTTGATTTAATTAGAAATAAATTCG--GAAAAATGGAAAAAAAAGATA-TTAGAAACCTG-AAAA
66 TTCGATTTAATTAGAAATTAATTCGTAAAAAAATGG--AAAAACGATATTTAGAAGCGTGAAAAA
* * * * * * *
59825 CGCTTCAATTTTTTTGGCATTGAATTAAATACTTTTTCTGAGTATTATGGCAAAGAATTGAGGAA
129 CCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGA-GAA
* * *
59890 AAAACTTTT-GAGTCTGTTTTTGCAAAATTTTAGCGGAAATCGTGTACTATTACC-TCAC-GTTT
193 AAAACTTTTCGGGTCAG-TTTT------TTTTAGCCGAAATCGTGTACTA--ACCATCACAG--T
* * * * * ** *
59952 TTTTGGCTAAAAACGCGTT-TCGAAACCATGGCTCAATTATGCATGATTTTAT-ATGTAAAGACT
247 TTTTGGCTAAAAACGCGTTCT-GGAGCC--CGCTCAGTTTTGCATGATTTT-TGGCGCAAAGACT
*
60015 CCTTTAAATATCTATAT
308 CCTTGAAATATCTATAT
* * * *
60032 TCATCGAACTAAATCTCAGCCATATTGGATTTAATGATTTGTTTTTACGAGCA-CTTGAATCTTG
1 TCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATC-TGAATCTTG
* * * *
60096 TTTCGATTTAAATAG-AATTAATTTGGAAAAAAATGGAAAAATGATA-TTAGAAGCGTGAAAAAC
65 TTTCGATTTAATTAGAAATTAATTCGTAAAAAAATGGAAAAACGATATTTAGAAGCGTGAAAAAC
* * * *
60159 CCGTCAAT-TTTTTGGGCATTGAATT-T-T-TTTTTT-GGAGTATTGTGGCAAAAAATTAAGAAA
130 CCTTCAATCTTTTT-GGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGAAA
* * *
60219 AAAATTTTCGGGT-A----ATTTTAGCCCAAATCGTGTACGT-----T-ACAG-TTTTGGCCTAA
194 AAACTTTTCGGGTCAGTTTTTTTTAGCCGAAATCGTGTAC-TAACCATCACAGTTTTTGG-CTAA
* * * * ** *
60272 AAACGCGTT-TCGGGGCCCCGGCTCTGATTTGCATGGTTTTTGGCATATAGACTCCTTGAAATAT
257 AAACGCGTTCT-GGAG-CCC-GCTCAGTTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATAT
* *
60336 TTATAA
319 CTATAT
*
60342 TCATCTAACCAAATCTCAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAATCTTGT
1 TCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * * *
60407 TTCGATTTAATTAGAAATAAATTCGGAAAAAGAA-GGGAAAACGATA-TTAGAAGCGTGAAGAAC
66 TTCGATTTAATTAGAAATTAATTCGTAAAAA-AATGGAAAAACGATATTTAGAAGCGTGAAAAAC
* * * *
60470 CC-TAAAACTTTTTTGGCGTTGAATTATATA-TTTTTCTGAGTATTATGGCAAAAAATTGAGGAA
130 CCTTCAATC-TTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGAAA
* * *
60533 AAA-TTATTCGGGTAAGTTATTGCAAAATTTTAGCCGAAATCGTATACTAATGACCATCACAATT
194 AAACTT-TTCGGGTCAGTT-TT------TTTTAGCCGAAATCGTGTACT-A--ACCATCACAGTT
* * *
60597 TTTGGCTAAAAACGCGTT-TCGGAGTCCCGGCTCAATTTTGCATGATTTTGGGCACAAAGACTCC
248 TTTGGCTAAAAACGCGTTCT-GGAG-CCC-GCTCAGTTTTGCATGATTTTTGGCGCAAAGACTCC
60661 TTG------------
310 TTGAAATATCTATAT
* * *
60664 ------AACCAAATCTTAGCGACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTT-T
1 TCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * * * * * *
60722 TTCAATTAAATAAGAAACTAATTCGTAAAAAAATGGGAAAACGATTTTTAGAAGCGTG-AAAATC
66 TTCGATTTAATTAGAAATTAATTCGTAAAAAAATGGAAAAACGATATTTAGAAGCGTGAAAAACC
* * *
60786 CTGTTAATCTTTTTGGCGTTGAATTATATATATTTTT-TGAGTATTATGGCAAAAAATTGAAAAA
131 CT-TCAATCTTTTTGGCGTTGAATTATATAT-TTTTTCTGAGTATTGTGGCAAAAAATTG-AGAA
* *
60850 AAAACTTTTTGGGTCAG---TTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAA
193 AAAACTTTTCGGGTCAGTTTTTTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAA
* * * * *
60912 AACGCGTTCTGGAGCCCGACTTAGTTTTGCATGATTTTGGGCGCAAATACACCTTGAAATATCAA
258 AACGCGTTCTGGAGCCCG-CTCAGTTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTA
60977 TAT
322 TAT
*
60980 TCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGCTTTTACGAGCATCTGAATCTTGT
1 TCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * * *
61045 TTCGATTTAATTAGAAATTAATTCGGAAAAAAATGGAATAACGATA-TTAGAAGCATG-AAAGCC
66 TTCGATTTAATTAGAAATTAATTCGTAAAAAAATGGAAAAACGATATTTAGAAGCGTGAAAAACC
* ** * * *
61108 CTTTAATCTTTTTGGCAATAAATTATATATTTTTTCTGAGTATTGTGGCAAACAATTCAGAAAAA
131 CTTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGAAAAA
* * * *
61173 ACTTTCCAGGTC----TGTTTTAGCCGAAATCGTGTACTAACCATCACAGGTTTTGGCTAAAAAC
196 ACTTTTCGGGTCAGTTTTTTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAAC
* * * * ** * *
61234 GCGTTTCAGG-GCCTCGACTCAATTTTGCATGGTTATTGGCATAAAGACTCCTTGGAATATCTAA
261 GCG-TTCTGGAGCC-CG-CTCAGTTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTAT
*
61298 AA
323 AT
* * *
61300 TCATCTAATC-AATCTCAGCCACATTGGATTTAA--A-TTGATTTTACGAGAATCTGAATCTTGT
1 TCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * * ** * *
61361 TTTGATGTACTTAGAAACAAATTCGGAAAAAAAAATGGAAAAATGATA-TTAGAAGCGTGAAAAA
66 TTCGATTTAATTAGAAATTAATTC-G-TAAAAAAATGGAAAAACGATATTTAGAAGCGTGAAAAA
* * * * ** * * *
61425 TCCTTTAATCTTTTTGGCGTTGAATTATAAATTTTTTTTTTTGTATTGTGCCAAGAAATTGAGGA
129 CCCTTCAATCTTTTTGGCGTTGAATTATATA-TTTTTTCTGAGTATTGTGGCAAAAAATTGAGAA
** * *
61490 AAAACTTTTTAGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACTATCAC-GTTTGT
193 AAAACTTTTCGGGTC-AGTTTT------TTTTAGCCGAAATCGTGTACTAACCATCACAG-TT-T
* *
61554 TTGGCTAAAAACGCGTTCCGGAGCCCGGCTCAGTTTTGCATGATTTTCGGCGCAAAGACT-CTTG
249 TTGGCTAAAAACGCGTTCTGGAGCCC-GCTCAGTTTTGCATGATTTTTGGCGCAAAGACTCCTTG
61618 AAATATCTATAT
313 AAATATCTATAT
* * * * * *
61630 CCATCGAATCAAATCTTAGCCACATTGGATATAACGATTTGTTTTTACGAGCATCTGAATCTTGT
1 TCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* *
61695 TTCGATTTAATTAGAAATTAATTCGTGAAAAAATAGG-AAAACGATATTTAGAAGCGTGAAAATC
66 TTCGATTTAATTAGAAATTAATTCGTAAAAAAAT-GGAAAAACGATATTTAGAAGCGTGAAAAAC
* ** * *
61759 TCGTAAAAT-ATTTTGGCGTTGAATTATATATTTTTTCTAAGTATTGTGGCAAAAAATTGAGAAA
130 -CCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAG-AA
* *
61823 AAAACTTTTCGGGTCAG---TTTTTAGTCG-AATCGTGTACTAACCTTCAC-GTTTTTTTGGCTA
193 AAAACTTTTCGGGTCAGTTTTTTTTAGCCGAAATCGTGTACTAACCATCACAG--TTTTTGGCTA
* * * * * * * *
61883 AAAACGTGTTCCGGAGTTCGGCTCAGTTTTGCATGATGTTGGGCACAAAGACTCCTTTAAATATC
256 AAAACGCGTTCTGGAG-CCCGCTCAGTTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATC
61948 TATAT
320 TATAT
** * * * * *
61953 TCATGGAACCAAATCTTAGACACATTGGATATAAGGATTTGATTTTACTAGCATCTGAATCTTGT
1 TCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * *
62018 TTCGATTTAATTAGAAATTAATTTGTAAAAAAATCGAAAAACGATATTTTA-AAGCGTGAAAACC
66 TTCGATTTAATTAGAAATTAATTCGTAAAAAAATGGAAAAACGATA-TTTAGAAGCGTGAAAAAC
** * * *
62082 CCTTCAATCTTTTTGGAATTGAATTAAATATTTTTTCTGAGTTTTGTGGCAAAAAAATGAGAAAA
130 CCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGAAAA
*
62147 AACTTTTCGGGTCAGTTTTTTGCTTTTAGCCGAAATCATGTACTAACCATCACAGTTTTAT-GCT
195 AACTTTTCGGGTCAG--TTTT--TTTTAGCCGAAATCGTGTACTAACCATCACAGTTTT-TGGCT
* * *
62211 AAAAACGTGTTCTGGAACCCAGCTCAGTTTTGCATGATTTTGGGCGCAAAGACTCCTTGAAATAT
255 AAAAACGCGTTCTGGAGCCC-GCTCAGTTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATAT
62276 CTATAT
319 CTATAT
* * * * *
62282 TCATCTAAACAAATCTCAACCATATTGGATTGAAGGATTTATTTTTACGAGCATCTGAATCTTGT
1 TCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
** * *
62347 TTTTATTTAATTTGAAATTAATTCGTAAAAAAAAGAAGAAGGGAAAAACGATA-TTAGAAGCGTG
66 TTCGATTTAATTAGAAATTAATTCGT-----AAA-AA-AATGGAAAAACGATATTTAGAAGCGTG
* * * * *
62411 AAAAACCCTTTAATCTTTTTGGTGTTGATTTATATAATTTTTCTGAGTATTGTCGCAAAAAATTG
124 AAAAACCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTG
* *
62476 AGAAAAAACTTTTCGGATCAG---TTTTTAGCCGAAATCGTGTACTAACCATCACTGTTTTTTGG
189 AGAAAAAACTTTTCGGGTCAGTTTTTTTTAGCCGAAATCGTGTACTAACCATCACAG-TTTTTGG
* * *
62538 CTAAAAACGCGTT-TCGGGGCCCCGGTTCAGTTTTGCCTGATTTTTGGCAG-AAAGACTCCTTGA
253 CTAAAAACGCGTTCT-GGAG-CCC-GCTCAGTTTTGCATGATTTTTGGC-GCAAAGACTCCTTGA
62601 AATATCTATAT
314 AATATCTATAT
* * * * * *
62612 TTATCTAGCCAAATATCAACCACATTGCATTTAAGGATTT-TTTTTACGAGTATCTGAATCTTGT
1 TCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * * *
62676 TTCGATATAATTAGAAATAAATTC--AAAAAAATGGGAAAACGATA-TTAGAAACGTGAAAAAAC
66 TTCGATTTAATTAGAAATTAATTCGTAAAAAAATGGAAAAACGATATTTAGAAGCGTG-AAAAAC
** * * * *
62738 CAGTCAATTTTTTTGGCGTTGAATTATATATTTTTTCTGGGTATTGTGACAAAGAATTGAGGAAA
130 CCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGA-GAAA
* * * * * * *
62803 AAAATTTACGGGCCAGTTTTTGCAAAATTTTAGTCGTAATCGTTTACT---CATCAC-GACTTTT
194 AAACTTTTCGGGTCAG-TTTT------TTTTAGCCGAAATCGTGTACTAACCATCACAG-TTTTT
* * * * * *
62864 GGGTAAAAATGCGTTCTGGGGCCTCTGCTCAGTTTTGCATGATTTTTGACGTAAAGACTCGTTGA
251 GGCTAAAAACGCGTTCTGGAGCC-C-GCTCAGTTTTGCATGATTTTTGGCGCAAAGACTCCTTGA
*
62929 AATATCTTTAT
314 AATATCTATAT
* * ** *
62940 TCATCGAACCAAATC-CTAGCCTCATTCAATTTAAGGATTTGTTTTTACGAGCATTTGAATCTTG
1 TCATCTAACCAAATCTC-AGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTG
* * * * * ** * *
63004 TTTCGATTTAATTTGAAATTAATTTG-GAAAAAATTGAAGAATTATA-ATAGAAGCATGAAAAAC
65 TTTCGATTTAATTAGAAATTAATTCGTAAAAAAATGGAAAAACGATATTTAGAAGCGTGAAAAAC
* * * * * *
63067 CCTTCAATCTTTTTGGCGTTGACTTATATATTTTTTATGAGTATTGTAGCGAAGAATTGAGAATA
130 CCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGAAAA
* * * *
63132 AATTTTTTGGGTCA---ATTTTTAGCCGAAAT-GATGTACTAACCATCACGGTTTTTGGCTAAAA
195 AACTTTTCGGGTCAGTTTTTTTTAGCCGAAATCG-TGTACTAACCATCACAGTTTTTGGCTAAAA
* * * * ** * *
63193 ATGTGTTTCCGG-GCCTCGACTCAGTTTTGCATGGTTTTTGGCATAAAGGC-CCTTGAAATATTT
259 ACGCG-TTCTGGAGCC-CG-CTCAGTTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCT
*
63256 ATAA
321 ATAT
* * *
63260 TCATCTAATCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTCACGAGCATCTGAATCTCTT
1 TCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAA--TCTT
* *
63325 GTTTCGATTTAATTAGAAATAAATTCGGT-AAAAGATGGAAAAACGATA-TTAGAAGCGTGAAAA
64 GTTTCGATTTAATTAGAAATTAATTC-GTAAAAAAATGGAAAAACGATATTTAGAAGCGTGAAAA
* * * * * *
63388 ACTCTTCAATTTTTTTGGCGTTGAATTATATATTTATTCTGAGCATTGTGGCAAATAATTGAGGA
128 ACCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGAA
* * * * *
63453 AAAA-TGTTTTGGTTAAGTTTTTGTAAAATTTTAGCCGAAATCGTTTACT---CATCACGGTTTT
193 AAAACT-TTTCGGGTCAG--TTT-T----TTTTAGCCGAAATCGTGTACTAACCATCACAGTTTT
* * ** *
63514 TGGCTAAGAACGCGTTCT-GAGGCCC-CAAATCAGTTTTGCATGATTTTTAGCATAAAAACTCCT
250 TGGCTAAAAACGCGTTCTGGA-GCCCGC---TCAGTTTTGCATGATTTTTGGCGCAAAGACTCCT
63577 TGAAATATCTATAT
311 TGAAATATCTATAT
** * * * *
63591 TCATGGAACCAAATCACAGCCTCATTCGATTTAAGGATATGTTTTTACGAGCATCTGAATCTTGT
1 TCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* *
63656 TTCGATTTAATTAGAAATTAATTCG--GAAAAATGGAAAAACGATATTT-GAAGCATGAAAAACC
66 TTCGATTTAATTAGAAATTAATTCGTAAAAAAATGGAAAAACGATATTTAGAAGCGTGAAAAACC
* * * *
63718 CTTCAATGTTTTTGGCATTGAATTATATATTTTTTATGATTATTGTGGCAAAAAATTGAGAAAAA
131 CTTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGAAAAA
* * * *
63783 AATTTTCGTGTCA---TTTTTTAGCAGAAATCATGTACTA
196 ACTTTTCGGGTCAGTTTTTTTTAGCCGAAATCGTGTACTA
63820 CATGATTACG
Statistics
Matches: 3399, Mismatches: 509, Indels: 429
0.78 0.12 0.10
Matches are distributed among these distances:
303 1 0.00
304 35 0.01
305 32 0.01
306 1 0.00
307 1 0.00
308 20 0.01
309 7 0.00
310 126 0.04
311 57 0.02
312 10 0.00
313 8 0.00
314 36 0.01
315 43 0.01
316 129 0.04
317 65 0.02
318 64 0.02
319 109 0.03
320 208 0.06
321 198 0.06
322 245 0.07
323 396 0.12
324 11 0.00
325 2 0.00
326 19 0.01
327 100 0.03
328 159 0.05
329 376 0.11
330 223 0.07
331 159 0.05
332 203 0.06
333 133 0.04
334 120 0.04
335 90 0.03
336 13 0.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (324 bp):
TCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
TTCGATTTAATTAGAAATTAATTCGTAAAAAAATGGAAAAACGATATTTAGAAGCGTGAAAAACC
CTTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGAAAAA
ACTTTTCGGGTCAGTTTTTTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAAC
GCGTTCTGGAGCCCGCTCAGTTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATAT
Found at i:63582 original size:651 final size:645
Alignment explanation
Indices: 59376--63977 Score: 4190
Period size: 650 Copynumber: 7.1 Consensus size: 645
59366 AATACATTAC
* * * *
59376 ATCATCTAACCAAATCTCAACAACATTGGATTTAAGAATTTGTTTTTCCGAGTATCTGAATCTTG
1 ATCATCTAACCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTG
* * * * * * *
59441 TTTCGA-TTAATTAGAAATTAATTCGGAATATAACGGACAAACAATATTAGAAGTGT-AAAAACC
66 TTTCGATTTAATTAGAAATAAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACC
** * *
59504 CTTCAATTTTTTGTTGTTGTTGAATTACATATTTTTTCTGAGTATTGTGGCCAAAAATTGA-GAA
131 CTTCAA-TTTTT-TTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAA
**** * *
59568 AAA---AAACTT--TTTTGGTCAGTTTTAGCCGAAATCGTGTACTAACCATCACGG-TTTTGGAC
194 AAATTTTTGGTTAGTTTTTGT-AATTTTAGCCGAAATCGTGTACT-A-CATCACGGTTTTTGG-C
* *
59627 TAAAAACGCGTT-TCGAGGCCCCGACTCAGTTTTGCATGATTTTTGGCAG-AAAGATTCCTTGAA
255 TAAAAACGCGTTCT-G-GGCCCCGGCTCAGTTTTGCATGATTTTTGGC-GCAAAGACTCCTTGAA
* * * *
59690 ATATCTATATTCATCTAACCAAATCTCAACCAT-AGTGGGTTTAAGGATTTG-TTTTATGAGCAT
317 ATATCTATATTCATCTAACCAAATCTCAGCC-TCATTGGATTTAAGGATTTGTTTTTACGAGCAT
* * * * *
59753 CTAAATCTTGTTTTGATTTAATTAGAAATAAATTCGG-AAAAATGGAAAAAAAAGATATTAGAAA
381 CTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAATGG---AAAACGATATTAGAAG
* * * * * * * *
59817 CCTG-AAAACGCTTCAATTTTTTTGGCATTGAATTAAATACTTTTTCTGAGTATTATGGCAAAGA
443 CATGAAAAACCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAA
* *
59881 ATTGAGGAAAAAACTTTT-GAGTCTGTTTTTGCAAAATTTTAGCGGAAATCGTGTACTATTACC-
508 ATTGA-GAAAAAACTTTTCG-G---G----T-C-AATTTTTAGCCGAAATCGTGTACTA--ACCA
* ** * *
59944 TCACGTTTTTTTGGCTAAAAACGCGTTT-CGAAACCAT-GGCTCAATTATGCATGATTTTATATG
560 TCACG-GTTTTTGGCTAAAAACGCGTTTCCG-GGCC-TCGGCTCAATTTTGCATGATTTT-T-GG
*
60007 --TAAAGACTCCTTTAAATATCTATA
620 CATAAAGACTCCTTGAAATATCTATA
* * * * * *
60031 TTCATCGAACTAAATCTCAGCCATATTGGATTTAATGATTTGTTTTTACGAGCA-CTTGAATCTT
1 ATCATCTAACCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGCATC-TGAATCTT
* * * *
60095 GTTTCGATTTAAATAG-AATTAATTTGGAAAAAAATGGAAAAATGATATTAGAAGCGTGAAAAAC
65 GTTTCGATTTAATTAGAAATAAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAAC
* * * * * *
60159 CCGTCAATTTTTTGGGCATTGAATT-T-T-TTTTTT-GGAGTATTGTGGCAAAAAATTAAGAAAA
130 CCTTCAATTTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAA
* * * *
60220 AAATTTTCG---G-----GTAATTTTAGCCCAAATCGTGTACGT---T-ACAG-TTTTGGCCTAA
195 AATTTTTGGTTAGTTTTTGTAATTTTAGCCGAAATCGTGTAC-TACATCACGGTTTTTGG-CTAA
* * * * ** * *
60272 AAACGCGTTTCGGGGCCCCGGCTCTGATTTGCATGGTTTTTGGCATATAGACTCCTTGAAATATT
258 AAACGCG-TTCTGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATC
* * *
60337 TATAATCATCTAACCAAATCTCAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAAT
322 TATATTCATCTAACCAAATCTCAGCCTCATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAAT
* * * *
60402 CTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAGAAGGGAAAACGATATTAGAAGCGTGAAG
387 CTTGTTTCGATTTAATTAGAAATTAATTCGG-AAAA-AATGGAAAACGATATTAGAAGCATGAAA
* * *
60467 AACCC-TAAAACTTTTTTGGCGTTGAATTATATA-TTTTTCTGAGTATTATGGCAAAAAATTGAG
450 AACCCTTCAATC-TTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAG
* * * *
60530 GAAAAA-TTATTCGGGTAAGTTATTGCAAAATTTTAGCCGAAATCGTATACTAATGACCATCACA
514 AAAAAACTT-TTC-GG---G----T-C-AATTTTTAGCCGAAATCGTGTACT-A--ACCATCACG
* * *
60594 ATTTTTGGCTAAAAACGCGTTT-CGGAGTCC-CGGCTCAATTTTGCATGATTTTGGGCACAAAGA
565 GTTTTTGGCTAAAAACGCGTTTCCGG-G-CCTCGGCTCAATTTTGCATGATTTTTGGCATAAAGA
60657 CTCCTTG-----------
628 CTCCTTGAAATATCTATA
* * * *
60664 -------AACCAAATCTTAGCGACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTT-
1 ATCATCTAACCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTG
* * * * * *
60721 TTTCAATTAAATAAGAAACT-AATTCGTAAAAAAATGGGAAAACGATTTTTAGAAGCGTG-AAAA
66 TTTCGATTTAATTAGAAA-TAAATTCGGAAAAAAATGGAAAAACGA-TATTAGAAGCGTGAAAAA
* * * * *
60784 TCCTGTTAATCTTTTTGGCGTTGAATTATATATATTTTT-TGAGTATTATGGCAAAAAATTGAAA
129 CCCT-TCAATTTTTTTGGCGTTGAATTATATAT-TTTTTCTGAGTATTGTGGCAAAAAATTG-AG
* **
60848 AAAAAACTTTTTGG---G--TCAGT--TTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTG
191 GAAAAA-TTTTTGGTTAGTTTTTGTAATTTTAGCCGAAATCGTGTACT-A-CATCACGGTTTTTG
* * * * *
60906 GCTAAAAACGCGTTCTGGAG-CCCGACTTAGTTTTGCATGATTTTGGGCGCAAATACACCTTGAA
253 GCTAAAAACGCGTTCTGG-GCCCCGGCTCAGTTTTGCATGATTTTTGGCGCAAAGACTCCTTGAA
* * *
60970 ATATCAATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGCTTTTACGAGCATC
317 ATATCTATATTCATCTAACCAAATCTCAGCCTCATTGGATTTAAGGATTTGTTTTTACGAGCATC
61035 TGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATGGAATAACGATATTAGAAGCA
382 TGAATCTTGTTTCGATTTAATTAGAAATTAATTCGG-AAAAAATGGAA-AACGATATTAGAAGCA
* * ** * *
61100 TG-AAAGCCCTTTAATCTTTTTGGCAATAAATTATATATTTTTTCTGAGTATTGTGGCAAACAAT
445 TGAAAAACCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAAT
* * *
61164 TCAGAAAAAACTTTCCAGGTC--TGTTTTAGCCGAAATCGTGTACTAACCATCACAGG-TTTTGG
510 TGAGAAAAAACTTTTCGGGTCAAT-TTTTAGCCGAAATCGTGTACTAACCATCAC-GGTTTTTGG
* * * * *
61226 CTAAAAACGCGTTTCAGGGCCTCGACTCAATTTTGCATGGTTATTGGCATAAAGACTCCTTGGAA
573 CTAAAAACGCGTTTCCGGGCCTCGGCTCAATTTTGCATGATTTTTGGCATAAAGACTCCTTGAAA
*
61291 TATCTAAA
638 TATCTATA
* * * *
61299 ATCATCTAATC-AATCTCAGCCACATTGGATTTAA--A-TTGATTTTACGAGAATCTGAATCTTG
1 ATCATCTAACCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTG
* * * * *
61360 TTTTGATGTACTTAGAAACAAATTCGGAAAAAAAAATGGAAAAATGATATTAGAAGCGTGAAAAA
66 TTTCGATTTAATTAGAAATAAATTCGG--AAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAA
* * * * * ** * *
61425 TCCTTTAATCTTTTTGGCGTTGAATTATAAATTTTTTTTTTTGTATTGTGCCAAGAAATTGAGGA
129 CCCTTCAATTTTTTTGGCGTTGAATTATATA-TTTTTTCTGAGTATTGTGGCAAAAAATTGAGGA
* * * *
61490 AAAACTTTTTAGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACTATCACGTTTGTT
193 AAAA-TTTTT-GGTTAGTTTTTG--TAATTTTAGCCGAAATCGTGTACT-AC-ATCACGGTT-TT
* *
61555 TGGCTAAAAACGCGTTCCGGAG-CCCGGCTCAGTTTTGCATGATTTTCGGCGCAAAGACT-CTTG
251 TGGCTAAAAACGCGTTCTGG-GCCCCGGCTCAGTTTTGCATGATTTTTGGCGCAAAGACTCCTTG
* * * * * * *
61618 AAATATCTATATCCATCGAATCAAATCTTAGCCACATTGGATATAACGATTTGTTTTTACGAGCA
315 AAATATCTATATTCATCTAACCAAATCTCAGCCTCATTGGATTTAAGGATTTGTTTTTACGAGCA
61683 TCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGTGAAAAAATAGGAAAACGATATTTAGAA
380 TCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCG-GAAAAAAT-GGAAAACGATA-TTAGAA
* * * ** * *
61748 GCGTGAAAATCTCGTAAAAT-ATTTTGGCGTTGAATTATATATTTTTTCTAAGTATTGTGGCAAA
442 GCATGAAAAAC-CCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAA
* * * *
61812 AAATTGAGAAAAAAACTTTTCGGGTCAGTTTTTAGTCG-AATCGTGTACTAACCTTCACGTTTTT
506 AAATTGAG-AAAAAACTTTTCGGGTCAATTTTTAGCCGAAATCGTGTACTAACCATCACG-GTTT
* * * * * *
61876 TTGGCTAAAAACGTG-TTCCGGAG-TTCGGCTCAGTTTTGCATGATGTTGGGCACAAAGACTCCT
569 TTGGCTAAAAACGCGTTTCCGG-GCCTCGGCTCAATTTTGCATGATTTTTGGCATAAAGACTCCT
*
61939 TTAAATATCTATA
633 TGAAATATCTATA
* ** * * * *
61952 TTCATGGAACCAAATCTTAGA-CACATTGGATATAAGGATTTGATTTTACTAGCATCTGAATCTT
1 ATCATCTAACCAAATCTCA-ACCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTT
* * * *
62016 GTTTCGATTTAATTAGAAATTAATTTGTAAAAAAATCGAAAAACGATATTTTA-AAGCGTGAAAA
65 GTTTCGATTTAATTAGAAATAAATTCGGAAAAAAATGGAAAAACGATA--TTAGAAGCGTGAAAA
* * ** * * * *
62080 CCCCTTCAATCTTTTTGGAATTGAATTAAATATTTTTTCTGAGTTTTGTGGCAAAAAAATGAGAA
128 ACCCTTCAATTTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGA
* * ** * *
62145 AAAACTTTTCGGGTCAGTTTTT-TGCTTTTAGCCGAAATCATGTACTAACCATCACAGTTTTAT-
193 AAAA-TTTT-TGGTTAGTTTTTGTAATTTTAGCCGAAATCGTGTACT-A-CATCACGGTTTT-TG
* ** * *
62208 GCTAAAAACGTGTTCTGGAACCCAGCTCAGTTTTGCATGATTTTGGGCGCAAAGACTCCTTGAAA
253 GCTAAAAACGCGTTCTGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAA
* * * *
62273 TATCTATATTCATCTAAACAAATCTCAACCAT-ATTGGATTGAAGGATTTATTTTTACGAGCATC
318 TATCTATATTCATCTAACCAAATCTCAGCC-TCATTGGATTTAAGGATTTGTTTTTACGAGCATC
** * * *
62337 TGAATCTTGTTTTTATTTAATTTGAAATTAATTCGTAAAAAAAAGAAGAAGGGAAAAACGATATT
382 TGAATCTTGTTTCGATTTAATTAGAAATTAATTCG------GAA-AA-AATGG-AAAACGATATT
* * * * * *
62402 AGAAGCGTGAAAAACCCTTTAATCTTTTTGGTGTTGATTTATATAATTTTTCTGAGTATTGTCGC
438 AGAAGCATGAAAAACCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGC
* * *
62467 AAAAAATTGAGAAAAAACTTTTCGGATCAGTTTTTAGCCGAAATCGTGTACTAACCATCACTGTT
503 AAAAAATTGAGAAAAAACTTTTCGGGTCAATTTTTAGCCGAAATCGTGTACTAACCATCAC-GGT
* * * * * *
62532 TTTTGGCTAAAAACGCGTTTCGGGGCCCCGGTTCAGTTTTGCCTGATTTTTGGCAGAAAGACTCC
567 TTTTGGCTAAAAACGCGTTTCCGGGCCTCGGCTCAATTTTGCATGATTTTTGGCATAAAGACTCC
62597 TTGAAATATCTATA
632 TTGAAATATCTATA
* * * * * *
62611 TTTATCTAGCCAAATATCAACCACATTGCATTTAAGGATTT-TTTTTACGAGTATCTGAATCTTG
1 ATCATCTAACCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTG
* * *
62675 TTTCGATATAATTAGAAATAAATTC--AAAAAAATGGGAAAACGATATTAGAAACGTGAAAAAAC
66 TTTCGATTTAATTAGAAATAAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTG-AAAAAC
** * * *
62738 CAGTCAATTTTTTTGGCGTTGAATTATATATTTTTTCTGGGTATTGTGACAAAGAATTGAGGAAA
130 CCTTCAATTTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGG--A
** ** * * * * ** *
62803 AAAATTTACGGGCCAGTTTTTGCAAAATTTTAGTCGTAATCGTTTACT-CATCACGACTTTTGGG
193 AAAATTT-TTGGTTAGTTTTTG--TAATTTTAGCCGAAATCGTGTACTACATCACGGTTTTTGGC
* * * * * *
62867 TAAAAATGCGTTCTGGGGCCTCTGCTCAGTTTTGCATGATTTTTGACGTAAAGACTCGTTGAAAT
255 TAAAAACGCGTTCT-GGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAAT
* * ** *
62932 ATCTTTATTCATCGAACCAAATC-CTAGCCTCATTCAATTTAAGGATTTGTTTTTACGAGCATTT
319 ATCTATATTCATCTAACCAAATCTC-AGCCTCATTGGATTTAAGGATTTGTTTTTACGAGCATCT
* * * ** *
62996 GAATCTTGTTTCGATTTAATTTGAAATTAATTTGGAAAAAATTGAAGAATTATAATAGAAGCATG
383 GAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAATGGAA-AACGATATTAGAAGCATG
* * * * *
63061 AAAAACCCTTCAATCTTTTTGGCGTTGACTTATATATTTTTTATGAGTATTGTAGCGAAGAATTG
447 AAAAACCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTG
* * *
63126 AGAATAAATTTTTTGGGTCAATTTTTAGCCGAAAT-GATGTACTAACCATCACGGTTTTTGGCTA
512 AGAAAAAACTTTTCGGGTCAATTTTTAGCCGAAATCG-TGTACTAACCATCACGGTTTTTGGCTA
* * * * * *
63190 AAAATGTGTTTCCGGGCCTCGACTCAGTTTTGCATGGTTTTTGGCATAAAGGC-CCTTGAAATAT
576 AAAACGCGTTTCCGGGCCTCGGCTCAATTTTGCATGATTTTTGGCATAAAGACTCCTTGAAATAT
*
63254 TTATA
641 CTATA
* *
63259 ATCATCTAATCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTCACGAGCATCTGAATCTCT
1 ATCATCTAACCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAA--TCT
* *
63324 TGTTTCGATTTAATTAGAAATAAATTCGGTAAAAGATGGAAAAACGATATTAGAAGCGTGAAAAA
64 TGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAA
* * * *
63389 CTCTTCAATTTTTTTGGCGTTGAATTATATATTTATTCTGAGCATTGTGGCAAATAATTGAGGAA
129 CCCTTCAATTTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAA
*
63454 AAATGTTTTGGTTAAGTTTTTGTAAAATTTTAGCCGAAATCGTTTACT-CATCACGGTTTTTGGC
194 AAAT-TTTTGGTT-AGTTTTTGT--AATTTTAGCCGAAATCGTGTACTACATCACGGTTTTTGGC
* *** * ** *
63518 TAAGAACGCGTTCTGAGGCCCCAAATCAGTTTTGCATGATTTTTAGCATAAAAACTCCTTGAAAT
255 TAAAAACGCGTTCTG-GGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAAT
** * * *
63583 ATCTATATTCATGGAACCAAATCACAGCCTCATTCGATTTAAGGATATGTTTTTACGAGCATCTG
319 ATCTATATTCATCTAACCAAATCTCAGCCTCATTGGATTTAAGGATTTGTTTTTACGAGCATCTG
*
63648 AATCTTGTTTCGATTTAATTAGAAATTAATTCGG-AAAAATGGAAAAACGATATTTGAAGCATGA
384 AATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAATGG-AAAACGATATTAGAAGCATGA
* * * *
63712 AAAACCCTTCAATGTTTTTGGCATTGAATTATATATTTTTTATGATTATTGTGGCAAAAAATTGA
448 AAAACCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGA
* * * * *
63777 GAAAAAAATTTTCGTGTCATTTTTTAGCAGAAATCATGTACTACATGATTACGGTTTTTTCGTGT
513 GAAAAAACTTTTCGGGTCAATTTTTAGCCGAAATC--GT-GTAC-T-A--A---------C----
* * * * * *
63842 CATTACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCTCGACTCAATTCTGCATGGTTTTGGGCAT
558 CATCACGGTTTTTGGCTAAAAACGCGTTTCCGGGCCTCGGCTCAATTTTGCATGATTTTTGGCAT
*
63907 AAAGACTCCTCGAAATATCTATA
623 AAAGACTCCTTGAAATATCTATA
* *
63930 ATCATCTAACCAAATCTCAGCCACATTGAATTTAAGGATTTGTTTTTA
1 ATCATCTAACCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTA
63978 TGAGTATCAC
Statistics
Matches: 3272, Mismatches: 493, Indels: 348
0.80 0.12 0.08
Matches are distributed among these distances:
623 2 0.00
624 64 0.02
625 13 0.00
626 79 0.02
627 52 0.02
628 1 0.00
629 2 0.00
630 2 0.00
631 24 0.01
632 7 0.00
633 7 0.00
634 20 0.01
636 2 0.00
637 30 0.01
638 217 0.07
639 36 0.01
640 61 0.02
641 66 0.02
642 114 0.03
643 130 0.04
644 84 0.03
645 9 0.00
646 6 0.00
647 20 0.01
648 53 0.02
649 74 0.02
650 399 0.12
651 353 0.11
652 237 0.07
653 125 0.04
654 58 0.02
655 167 0.05
656 130 0.04
657 120 0.04
658 276 0.08
659 93 0.03
660 17 0.01
666 1 0.00
670 63 0.02
671 58 0.02
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.36
Consensus pattern (645 bp):
ATCATCTAACCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTG
TTTCGATTTAATTAGAAATAAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACC
CTTCAATTTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAA
ATTTTTGGTTAGTTTTTGTAATTTTAGCCGAAATCGTGTACTACATCACGGTTTTTGGCTAAAAA
CGCGTTCTGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATA
TTCATCTAACCAAATCTCAGCCTCATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTG
TTTCGATTTAATTAGAAATTAATTCGGAAAAAATGGAAAACGATATTAGAAGCATGAAAAACCCT
TCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGAAAAAAC
TTTTCGGGTCAATTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTT
TCCGGGCCTCGGCTCAATTTTGCATGATTTTTGGCATAAAGACTCCTTGAAATATCTATA
Found at i:64108 original size:143 final size:143
Alignment explanation
Indices: 63850--64120 Score: 427
Period size: 143 Copynumber: 1.9 Consensus size: 143
63840 GTCATTACGG
* *
63850 TTTTTGGCTAAAAACGCGTTTCGGGGCCTCGACTCAATTCTGCATGGTTTTGGGCATAAAGACTC
1 TTTTTGGCTAAAAACGCGTTTCGGGACCTCGACTCAATTCTGCATGGTTTTGGGCAAAAAGACTC
63915 CTCGAAATATCTATAATCATCTAACCAAATCTCAGCCACATTGAATTTAAGGATTTGTTTTTATG
66 CTCGAAATATCTATAATCATCTAACCAAATCTCAGCCACATTGAATTTAAGGATTTGTTTTTATG
63980 AGTATCACAGTTT
131 AGTATCACAGTTT
* * * * * * *
63993 TTTTTGGTTAAAAACGTGTTTCTGGATCTCGACTCAGTTTTGCATGGTTTTTGGCAAAAAGACTC
1 TTTTTGGCTAAAAACGCGTTTCGGGACCTCGACTCAATTCTGCATGGTTTTGGGCAAAAAGACTC
* *
64058 CAT-GAAATATCTATAGTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTA
66 C-TCGAAATATCTATAATCATCTAACCAAATCTCAGCCACATTGAATTTAAGGATTTGTTTTTA
64121 CGAGGATCTG
Statistics
Matches: 116, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
143 115 0.99
144 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (143 bp):
TTTTTGGCTAAAAACGCGTTTCGGGACCTCGACTCAATTCTGCATGGTTTTGGGCAAAAAGACTC
CTCGAAATATCTATAATCATCTAACCAAATCTCAGCCACATTGAATTTAAGGATTTGTTTTTATG
AGTATCACAGTTT
Found at i:65320 original size:12 final size:13
Alignment explanation
Indices: 65291--65318 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
65281 ATTTAATTAT
65291 AAATTAATTCAAA
1 AAATTAATTCAAA
65304 AAATTAATTCAAA
1 AAATTAATTCAAA
65317 AA
1 AA
65319 TTTGATTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (13 bp):
AAATTAATTCAAA
Found at i:67793 original size:32 final size:32
Alignment explanation
Indices: 67752--67812 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
67742 AAATATGTTT
*
67752 GAAAAATAAGGATATAATGGTCGATTCAATTA
1 GAAAAATAAGGATATAATAGTCGATTCAATTA
*
67784 GAAAAATAAGGGTATAATAGTCGATTCAA
1 GAAAAATAAGGATATAATAGTCGATTCAA
67813 AAAGTTTACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.48, C:0.07, G:0.20, T:0.26
Consensus pattern (32 bp):
GAAAAATAAGGATATAATAGTCGATTCAATTA
Found at i:68414 original size:40 final size:40
Alignment explanation
Indices: 68355--68431 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
68345 CAAATTAACA
*
68355 AATTACAAACTAAATTCACATTCCGTGAGATATGAACCTT
1 AATTACAAACTAAACTCACATTCCGTGAGATATGAACCTT
* *
68395 AATTACAATCTAAACTCACATTCCGTGAGATTTGAAC
1 AATTACAAACTAAACTCACATTCCGTGAGATATGAAC
68432 TCAGGACCTC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (40 bp):
AATTACAAACTAAACTCACATTCCGTGAGATATGAACCTT
Found at i:69336 original size:7 final size:7
Alignment explanation
Indices: 69326--69350 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
69316 TATTATTTAA
69326 ATATAGT
1 ATATAGT
69333 ATATAGT
1 ATATAGT
69340 ATATAGT
1 ATATAGT
69347 ATAT
1 ATAT
69351 TGTGTTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (7 bp):
ATATAGT
Found at i:74743 original size:31 final size:31
Alignment explanation
Indices: 74706--74783 Score: 149
Period size: 30 Copynumber: 2.5 Consensus size: 31
74696 AGATATACAC
74706 AAAAATTGTCTTTGTTTTTTTTTTTGCCATA
1 AAAAATTGTCTTTGTTTTTTTTTTTGCCATA
74737 AAAAATTGTCTTTG-TTTTTTTTTTGCCATA
1 AAAAATTGTCTTTGTTTTTTTTTTTGCCATA
74767 AAAAATTGTCTTTGTTT
1 AAAAATTGTCTTTGTTT
74784 AATGGCAACA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
30 30 0.65
31 16 0.35
ACGTcount: A:0.24, C:0.09, G:0.10, T:0.56
Consensus pattern (31 bp):
AAAAATTGTCTTTGTTTTTTTTTTTGCCATA
Found at i:75076 original size:12 final size:12
Alignment explanation
Indices: 75059--75085 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
75049 TGGAATTATC
75059 TGATTATTGTAA
1 TGATTATTGTAA
75071 TGATTATTGTAA
1 TGATTATTGTAA
75083 TGA
1 TGA
75086 GATTTGAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (12 bp):
TGATTATTGTAA
Found at i:76470 original size:29 final size:29
Alignment explanation
Indices: 76428--76514 Score: 84
Period size: 29 Copynumber: 2.9 Consensus size: 29
76418 CAAAACGTTT
* *
76428 CAAAATTGAAATTCAAGGGGTAAAATGTC
1 CAAAATTAAAATTCAAGGGGCAAAATGTC
* * *
76457 CAAAATTAAAATTCATGGGACAAAACGTC
1 CAAAATTAAAATTCAAGGGGCAAAATGTC
* * *
76486 CAAACACTATAAGTTCAAGGGGGAAAATG
1 CAAA-ATTA-AAATTCAAGGGGCAAAATG
76515 ATACTTTTTC
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 28 0.62
30 3 0.07
31 14 0.31
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.21
Consensus pattern (29 bp):
CAAAATTAAAATTCAAGGGGCAAAATGTC
Found at i:82471 original size:322 final size:319
Alignment explanation
Indices: 81876--83942 Score: 2400
Period size: 322 Copynumber: 6.5 Consensus size: 319
81866 GAAGGATATT
* ** * * * ** *
81876 TTTC-TTTTATGAGCATCTGAATCATGTTACGATTTAATCATAAACT-AATTCAAAATAAAATAG
1 TTTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAA-TAAATTCGGAA-AAAATTG
* ** * * * * * * * *
81939 GAAAAATGATATTATAAGTGTGAAAATCCCTTCTATATTTTCGGCATTGAATGATATATTTTTAT
64 GAAAAACGATATTGGAAGCGTGAAAAACCCTTCAATTTTTTTGGCGTTGAATCATATATTTTTTT
* * * * * * **
82004 A-AGTAT-TTTGGCTAAAAATTAGGAAAAAAATGTTCGGGTC-ATTTTTTGCTAAAATCGTGTAC
129 AGAGT-TGTGTGGCAAAAAATGA-GAAAAAAGTTTTCGGGTCAATTTTTAGCCGAAATCGTGTAC
* * ** * *
82066 TTATTCATCAAGGTTTTAGGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTATTGCATGATTTTT
192 ---TCCATCACGGTTTTTTGCTAAAAACGCGTTTCGGGGCCTCGGCTCAGTTTTGCATGATTTTT
* * *
82131 GGCAGAAAGACTCCTTGAAATATCTATATTTATATAACCAAATCTCAGCAAATTTGGATTTAAGG
254 GGCAAAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCTCAGCCAATTTGGATTTAAGG
82196 A
319 A
* *
82197 TTTCCTTTTACGAGCATCTTAATTTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAGTTGG
1 TTTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAA-TTGG
* * *
82262 AAAAATGATATTGGAAGCGTGAAAAACCCTTCATTTTTTTTGGGGTTGAATCATATATTTTTTTA
65 AAAAACGATATTGGAAGCGTGAAAAACCCTTCAATTTTTTTGGCGTTGAATCATATATTTTTTTA
*
82327 GAGTTGTGTGGCAAAAAATGAGAAAAGAAGTTTTCGGGTCAATTTTTAGCTGAAATCGTGTACGT
130 GAGTTGTGTGGCAAAAAATGAGAAAA-AAGTTTTCGGGTCAATTTTTAGCCGAAATCGTGTAC-T
* * *
82392 CCATCAAGGTTTTTTGCTAAAAACGCGTTTCGGGGCCTCGGCTCAGTGTTGCATTATTTTTGGCA
193 CCATCACGGTTTTTTGCTAAAAACGCGTTTCGGGGCCTCGGCTCAGTTTTGCATGATTTTTGGCA
* * * * *
82457 AAAAGACTCCTTGAAGTATCAATATTTATATAACAAAATCTCAGCCAATTTGGATTTATGGA
258 AAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCTCAGCCAATTTGGATTTAAGGA
* *
82519 TTTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATAAATTCAGAAAAAAATGG-
1 TTTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAATTGGA
* * * * *
82583 AAAACAAATATTGGAAACGTGAAAACCCCTTCAATTTTTTTTTGGCGTTGAATTATATA-TTTTG
66 AAAAC-GATATTGGAAGCGTGAAAAACCCTTCAA--TTTTTTTGGCGTTGAATCATATATTTTTT
* * * *
82647 TAGAGTTGTGTGGCAAAAAATATGAGAAGAAATTTTTAGGGTCAACTTTTAGCCGAAATCGTGTA
128 TAGAGTTGTGTGGC-AAAAA-ATGAGAAAAAAGTTTTCGGGTCAATTTTTAGCCGAAATCGTGTA
* *
82712 CT-CATCACGGTTTTTGGCTAAAAACGCGTTTCGGGG-CTCTGGCTCAGTTTTGCTTGATTTTTG
191 CTCCATCACGGTTTTTTGCTAAAAACGCGTTTCGGGGCCTC-GGCTCAGTTTTGCATGATTTTTG
* * * *
82775 GCAGAAAGACTCCTTGAAATATCTACATTCATAAAACCAAATCTCAGCCAATTTGAATTTAAGGA
255 GCAAAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCTCAGCCAATTTGGATTTAAGGA
* * *
82840 TTTATTTTTTCGAGTATCTGAATTTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAATATG
1 TTTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATAAATTCGG-AAAAAAT-TG
* * *
82905 GAAAAACAATATTCGAAGCGTGAAAAA-CCTTAAATTTTTTTGGCGTTGAATCATATATTTTTTT
64 GAAAAACGATATTGGAAGCGTGAAAAACCCTTCAATTTTTTTGGCGTTGAATCATATATTTTTTT
* * *
82969 AGAGTAGTGTGGAAAAAAATGAGAAAAAAAAGTTTTCGGGTCAATTCTTAGCCGAAATCGTGTAC
129 AGAGTTGTGTGGCAAAAAATGAG--AAAAAAGTTTTCGGGTCAATTTTTAGCCGAAATCGTGTAC
* *
83034 TAACCATCACGGTTTTTTTGCTAAAAACGCGTTTCGGGGCCCCAGCTCAGTTTTGCATGATTTTT
192 T--CCATCACGG-TTTTTTGCTAAAAACGCGTTTCGGGGCCTCGGCTCAGTTTTGCATGATTTTT
* *
83099 GGCAGATAGACTCCTTGAAATATCTATATTCATATAACCAAATCTCAGCCAATTTGGATTTAAGG
254 GGCAAAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCTCAGCCAATTTGGATTTAAGG
83164 A
319 A
* *
83165 TTTCTTTTTATGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAGAAAT-G
1 TTTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATAAATTCGGAAAA-AATTGG
* * * * * *
83229 AGAAAACGATATTGGAAACTTGAAAAACCCTTCAATTTTTTTGACTTTGAATTATATAATTTTTT
65 A-AAAACGATATTGGAAGCGTGAAAAACCCTTCAATTTTTTTGGCGTTGAATCATATATTTTTTT
* * * **
83294 AGAGATGTGTGGCAAAAAAAATGAGAAAAAAGTTTTCGGGTCTATTTTTATCCGAAATTATGTA-
129 AGAGTTGTGTGGC--AAAAAATGAGAAAAAAGTTTTCGGGTCAATTTTTAGCCGAAATCGTGTAC
*** * * *
83358 -CCATCACGG-TTTTTGCCTAAAAATTTGTTTTGGAG-TTCCGGCTCAGTTTTGCACT-ATTTTT
192 TCCATCACGGTTTTTTG-CTAAAAACGCGTTTCGGGGCCT-CGGCTCAGTTTTGCA-TGATTTTT
* * * * *
83419 GGCAAAAAGGCTCCTTGAAATATCTATATTTATATAACGAAATCCCAGACAATTTGGATTTAAGG
254 GGCAAAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCTCAGCCAATTTGGATTTAAGG
83484 A
319 A
*
83485 TTTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATAAATTCAGAAAAAA-TGG-
1 TTTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAATTGGA
* * *
83548 AAAACGATATTGGAAGCGTG-AAAACCACTTCAATCTTTTTGGCGTTGAATTATATA-TTTTGTA
66 AAAACGATATTGGAAGCGTGAAAAACC-CTTCAATTTTTTTGGCGTTGAATCATATATTTTTTTA
* * * *
83611 GAGTAT-TGTGGCAAAAAAAATGAGAAGAAAGTTTTCGGGTCAACTTTTAGCCGAAATAGCGTAC
130 GAGT-TGTGTGGC--AAAAAATGAGAAAAAAGTTTTCGGGTCAATTTTTAGCCGAAATCGTGTAC
* * *
83675 GT---T-ACGG-TTTTTGACTAAAAACGCGTTTCGGGCCCTCGGCTTAGTTTTACATGATTTTTG
192 -TCCATCACGGTTTTTTG-CTAAAAACGCGTTTCGGGGCCTCGGCTCAGTTTTGCATGATTTTTG
* *
83735 GCAGAAAA-ACTCCTTGAAATATATATATTCATATAACCAAATCTCAGCCAATTTGGATTTAATG
255 GCA-AAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCTCAGCCAATTTGGATTTAAGG
83799 A
319 A
* * * * *
83800 TTTATTTTTACGAGTATCTGAATTTTGTTTCGATTTAA-TAAAAATAAATTTGGAAAAAAAATTT
1 TTTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATAAATTCGG--AAAAAATTG
* * * *
83864 GAAAAACAATATTCGAAGCGTGAAAAACCCTT-AA----ATTGGCGTTGAATCATATATTTTTTG
64 GAAAAACGATATTGGAAGCGTGAAAAACCCTTCAATTTTTTTGGCGTTGAATCATATATTTTTTT
*
83924 AGAGTAGTGTGGCAAAAAA
129 AGAGTTGTGTGGCAAAAAA
83943 AA
Statistics
Matches: 1516, Mismatches: 182, Indels: 105
0.84 0.10 0.06
Matches are distributed among these distances:
312 6 0.00
313 17 0.01
314 28 0.02
315 132 0.09
316 77 0.05
317 49 0.03
318 22 0.01
319 20 0.01
320 183 0.12
321 256 0.17
322 306 0.20
323 106 0.07
324 67 0.04
325 235 0.16
326 2 0.00
327 10 0.01
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.36
Consensus pattern (319 bp):
TTTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAATTGGA
AAAACGATATTGGAAGCGTGAAAAACCCTTCAATTTTTTTGGCGTTGAATCATATATTTTTTTAG
AGTTGTGTGGCAAAAAATGAGAAAAAAGTTTTCGGGTCAATTTTTAGCCGAAATCGTGTACTCCA
TCACGGTTTTTTGCTAAAAACGCGTTTCGGGGCCTCGGCTCAGTTTTGCATGATTTTTGGCAAAA
AGACTCCTTGAAATATCTATATTCATATAACCAAATCTCAGCCAATTTGGATTTAAGGA
Found at i:82823 original size:321 final size:319
Alignment explanation
Indices: 82070--83943 Score: 2416
Period size: 321 Copynumber: 5.9 Consensus size: 319
82060 GTGTACTTAT
* * *
82070 TCATCAAGGTTTTAGGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTATTGCATGATTTTTGGCA
1 TCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCA
* *
82135 GAAAGACTCCTTGAAATATCTATATTTATATAACCAAATCTCAGCAAATTTGGATTTAAGGATTT
66 GAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCTCAGCCAATTTGGATTTAAGGATTT
* * *
82200 CCTTTTACGAGCATCTTAATTTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAGTTGGAAA
131 CTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAA-ATGGAAA
** * *
82265 AATGATATTGGAAGCGTGAAAAACCCTTC-ATTTTTTTTGGGGTTGAATCATATATTTTTTTAGA
195 AACAATATTGGAAGCGTGAAAAACCCTTCAATTTTTTTTGGCGTTGAATTATATA-TTTTTTAGA
* *
82329 GTTGTGTGGC-AAAAAATGAGAAAAGAAGTTTTCGGGTCAATTTTTAGCTGAAATCGTGTAC
259 GTTGTGTGGCAAAAAAATGAGAAAA-AAGTTTTCGGGTCAACTTTTAGCCGAAATCGTGTAC
* * * * *
82390 GTCCATCAAGGTTTTTTGCTAAAAACGCGTTTCGGGGCCTCGGCTCAGTGTTGCATTATTTTTGG
1 -T-CATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGG
* * * * * *
82455 CAAAAAGACTCCTTGAAGTATCAATATTTATATAACAAAATCTCAGCCAATTTGGATTTATGGAT
64 CAGAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCTCAGCCAATTTGGATTTAAGGAT
*
82520 TTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATAAATTCAGAAAAAAATGG-A
129 TTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAATGGAA
* * *
82584 AAACAAATATTGGAAACGTGAAAACCCCTTCAATTTTTTTTTGGCGTTGAATTATATATTTTGTA
194 AAAC-AATATTGGAAGCGTGAAAAACCCTTCAA-TTTTTTTTGGCGTTGAATTATATATTTTTTA
* * *
82649 GAGTTGTGTGGCAAAAAATATGAGAAGAAATTTTTAGGGTCAACTTTTAGCCGAAATCGTGTAC
257 GAGTTGTGTGGCAAAAAA-ATGAGAAAAAAGTTTTCGGGTCAACTTTTAGCCGAAATCGTGTAC
* * *
82713 TCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCTCTGGCTCAGTTTTGCTTGATTTTTGGCA
1 TCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCA
* * *
82778 GAAAGACTCCTTGAAATATCTACATTCATAAAACCAAATCTCAGCCAATTTGAATTTAAGGATTT
66 GAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCTCAGCCAATTTGGATTTAAGGATTT
* * *
82843 ATTTTTTCGAGTATCTGAATTTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAATATGGAA
131 CTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATAAATTCGG-AAAAAA-ATGGAA
* * *
82908 AAACAATATTCGAAGCGTGAAAAA-CCTT-AAATTTTTTTGGCGTTGAATCATATATTTTTTTAG
194 AAACAATATTGGAAGCGTGAAAAACCCTTCAATTTTTTTTGGCGTTGAATTATATA-TTTTTTAG
*
82971 AGTAGTGTGG-AAAAAAATGAGAAAAAAAAGTTTTCGGGTCAA-TTCTTAGCCGAAATCGTGTAC
258 AGTTGTGTGGCAAAAAAATGAG--AAAAAAGTTTTCGGGTCAACTT-TTAGCCGAAATCGTGTAC
* *
83034 TAACCATCACGGTTTTTTTGCTAAAAACGCGTTTCGGGGCCCCAGCTCAGTTTTGCATGATTTTT
1 T---CATCACGG-TTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTT
*
83099 GGCAGATAGACTCCTTGAAATATCTATATTCATATAACCAAATCTCAGCCAATTTGGATTTAAGG
62 GGCAGAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCTCAGCCAATTTGGATTTAAGG
*
83164 ATTTCTTTTTATGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAGAAAT-
127 ATTTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATAAATTCGGAAAA-AAATG
* * * * *
83228 GAGAAAACGATATTGGAAACTTGAAAAACCCTTCAA-TTTTTTTGACTTTGAATTATATAATTTT
191 GA-AAAACAATATTGGAAGCGTGAAAAACCCTTCAATTTTTTTTGGCGTTGAATTATAT-ATTTT
* * * * **
83292 TTAGAGATGTGTGGCAAAAAAAATGAGAAAAAAGTTTTCGGGTCTATTTTTATCCGAAATTATGT
254 TTAGAGTTGTGTGGC-AAAAAAATGAGAAAAAAGTTTTCGGGTCAACTTTTAGCCGAAATCGTGT
83357 AC
318 AC
* *** * * **
83359 -CATCACGGTTTTTGCCTAAAAATTTGTTTTGGAGTTCCGGCTCAGTTTTGCACT-ATTTTTGGC
1 TCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTGCA-TGATTTTTGGC
* * * * * *
83422 AAAAAGGCTCCTTGAAATATCTATATTTATATAACGAAATCCCAGACAATTTGGATTTAAGGATT
65 AGAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCTCAGCCAATTTGGATTTAAGGATT
*
83487 TCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATAAATTCAG-AAAAAATGG-AA
130 TCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAATGGAAA
* * *
83550 AACGATATTGGAAGCGTG-AAAACCACTTCAA-TCTTTTTGGCGTTGAATTATATATTTTGTAGA
195 AACAATATTGGAAGCGTGAAAAACC-CTTCAATTTTTTTTGGCGTTGAATTATATATTTTTTAGA
* * *
83613 GTAT-TGTGGCAAAAAAAATGAGAAGAAAGTTTTCGGGTCAACTTTTAGCCGAAATAGCGTAC
259 GT-TGTGTGGC-AAAAAAATGAGAAAAAAGTTTTCGGGTCAACTTTTAGCCGAAATCGTGTAC
* * *
83675 GT--T-ACGGTTTTTGACTAAAAACGCGTTTC-GGGCCCTCGGCTTAGTTTTACATGATTTTTGG
1 -TCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCC-CGGCTCAGTTTTGCATGATTTTTGG
* * *
83736 CAGAAAAACTCCTTGAAATATATATATTCATATAACCAAATCTCAGCCAATTTGGATTTAATGAT
64 CAGAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCTCAGCCAATTTGGATTTAAGGAT
* * * * *
83801 TTATTTTTACGAGTATCTGAATTTTGTTTCGATTTAA-TAAAAATAAATTTGGAAAAAAAATTTG
129 TTCTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATAAATTCGG-AAAAAAA-TGG
* * *
83865 AAAAACAATATTCGAAGCGTGAAAAACCCTT-AA-----ATTGGCGTTGAATCATATATTTTTTG
192 AAAAACAATATTGGAAGCGTGAAAAACCCTTCAATTTTTTTTGGCGTTGAATTATATATTTTTT-
*
83924 AGAGTAGTGTGGCAAAAAAA
256 AGAGTTGTGTGGCAAAAAAA
83944 A
Statistics
Matches: 1365, Mismatches: 148, Indels: 88
0.85 0.09 0.05
Matches are distributed among these distances:
313 29 0.02
314 27 0.02
315 133 0.10
316 74 0.05
317 48 0.04
318 25 0.02
319 15 0.01
320 185 0.14
321 248 0.18
322 202 0.15
323 82 0.06
324 48 0.04
325 233 0.17
326 5 0.00
327 11 0.01
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.35
Consensus pattern (319 bp):
TCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCA
GAAAGACTCCTTGAAATATCTATATTCATATAACCAAATCTCAGCCAATTTGGATTTAAGGATTT
CTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAATGGAAAA
ACAATATTGGAAGCGTGAAAAACCCTTCAATTTTTTTTGGCGTTGAATTATATATTTTTTAGAGT
TGTGTGGCAAAAAAATGAGAAAAAAGTTTTCGGGTCAACTTTTAGCCGAAATCGTGTAC
Done.