Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 191 of 259
Found at i:61243455 original size:14 final size:14
Alignment explanation
Indices: 61243438--61243468 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
61243428 ATCCAAACAA
61243438 TAACAACAAAATAG
1 TAACAACAAAATAG
*
61243452 TAACAACATAATAG
1 TAACAACAAAATAG
61243466 TAA
1 TAA
61243469 AATAGTAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.06, T:0.19
Consensus pattern (14 bp):
TAACAACAAAATAG
Found at i:61244578 original size:46 final size:47
Alignment explanation
Indices: 61244510--61244600 Score: 112
Period size: 46 Copynumber: 1.9 Consensus size: 47
61244500 ATGTGCTTCT
* * *
61244510 GTGTAAGACTATATCTAGGATATGGCATCAGTGTA-ATATGTGATCC
1 GTGTAAGACCATAGCTAAGATATGGCATCAGTGTAGATATGTGATCC
* * *
61244556 GTGTAAGACCATGGCTAAGATATGGCTTCGGTGTATGATATGTGA
1 GTGTAAGACCATAGCTAAGATATGGCATCAGTGTA-GATATGTGA
61244601 CTATGTGCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
46 29 0.78
48 8 0.22
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (47 bp):
GTGTAAGACCATAGCTAAGATATGGCATCAGTGTAGATATGTGATCC
Found at i:61263113 original size:207 final size:203
Alignment explanation
Indices: 61262720--61263113 Score: 632
Period size: 207 Copynumber: 1.9 Consensus size: 203
61262710 ACTTTGGCGC
* *
61262720 AAGTGCTGTATGCTTTTCTTAAAAAGAGAAAGAACGAAAGTTTTGTTTGTATACCACAAAAGGCT
1 AAGTGCTGTATGCTTTTCTTAAAAAGAAAAAGAAAGAAAGTTTTGTTTGTATACCACAAAAGGCT
61262785 CTGCATCATCTTTTGGCATCTTGAGAAGGTCCTCCAATCCGGTTCTCACCCTTTGATCCTTCCGG
66 CTG-ATCATCTTTTGGCATCTTGAGAAGGTCCTCCAATCCGGTTCTCACCCTTTGATCCTTCCGG
* *
61262850 GAATCAGAATCTGGTGACACACTTCTTGCATTGCTAGGATCAGCATTTGGTATTTGTCCCAATAG
130 GAATCAGAATCTGGTGACAAACTTCTTGCATTGCTAGGATCAGCATTCGGTATTTGTCCCAATAG
61262915 ACTTTGTCA
195 ACTTTGTCA
61262924 AAGTGCTGTATGCTTTTCTTAAAAAGCGAAAAAGAATAG-AAGTTTTGTTTGTATACCACAAAAG
1 AAGTGCTGTATGCTTTTCTTAAAAA--GAAAAAGAA-AGAAAGTTTTGTTTGTATACCACAAAAG
*
61262988 GCTC-G-TCATCTTTTGGCATCTTGAGAAGGTCCTCCAATCTGGTTCTCACCCTTTTGATCCTTC
63 GCTCTGATCATCTTTTGGCATCTTGAGAAGGTCCTCCAATCCGGTTCTCACCC-TTTGATCCTTC
* *
61263051 CGGGAAGCATCAGAATCTGGTGATAAACTTCTTGCATTGCTAGGATCAGCGTTCGGTATTTGT
127 CGGG-A--ATCAGAATCTGGTGACAAACTTCTTGCATTGCTAGGATCAGCATTCGGTATTTGT
61263114 TCGATAGATT
Statistics
Matches: 176, Mismatches: 7, Indels: 11
0.91 0.04 0.06
Matches are distributed among these distances:
203 45 0.26
204 40 0.23
205 2 0.01
206 37 0.21
207 52 0.30
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (203 bp):
AAGTGCTGTATGCTTTTCTTAAAAAGAAAAAGAAAGAAAGTTTTGTTTGTATACCACAAAAGGCT
CTGATCATCTTTTGGCATCTTGAGAAGGTCCTCCAATCCGGTTCTCACCCTTTGATCCTTCCGGG
AATCAGAATCTGGTGACAAACTTCTTGCATTGCTAGGATCAGCATTCGGTATTTGTCCCAATAGA
CTTTGTCA
Found at i:61272306 original size:2 final size:2
Alignment explanation
Indices: 61272299--61272333 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
61272289 CATAAAATTA
61272299 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
61272334 ATTACCGGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:61275978 original size:409 final size:409
Alignment explanation
Indices: 61275218--61276203 Score: 1553
Period size: 409 Copynumber: 2.4 Consensus size: 409
61275208 AGTGTGAGGA
61275218 TGAACATTCCATATGGCTTGTTATAAATCCGAGTATTAATAACAACTGTAAGATATTAAAAAG-T
1 TGAACATTCCATATGGCTTGTTATAAATCCGAGTATTAATAACAACTGTAAGATATTAAAAAGTT
* * *
61275282 TCATTGACATATATTACAAAGGATAGTCATCCTTC-CCCTAGTTGAAGAATGTAATTATAATAGT
66 TCATTGACGTATATTACAAAGGATAGTCATCCTTCTCCC-GGTTGAAGAACGTAATTATAATAGT
*
61275346 AAATCAAATGCATAATTTAGCCGGATGAAGTATGTATTAACAAATATATTCATACATCCTCCGGG
130 AAATCAAATGCATAATTTAGCCGGATGAAGTATGTATTAACAAATATACTCATACATCCTCCGGG
** * *
61275411 TTATGAATGTAAGTTGTATAAGGAATTACATGAAAAAATGTGCAAAAGTTGAAGGCGAATTTTGG
195 TTACAAATGTAAATTGTATAAGGAATTAAATGAAAAAATGTGCAAAAGTTGAAGGCGAATTTTGG
* * *
61275476 ACTTTCTTGTTCCGGGTGTTTGCTTGTTATAAAATCGAGTATTAAAAATAACTTTACAATATTAC
260 ACTTTCTTGTTCCAGGTGTTTGCTTGTTATAAAACCGAGTATTAAAAACAACTTTACAATATTAC
* * *
61275541 CAACTTTCATTGACTATATAACCCACGAGTTTGCCTTAAATATTAATGTCGACATCGTTTATGTG
325 CAACTTTCATTGACTATATAACCCACGAGTTTGCCTTAAATATTAATGTCGACATCATTCATATG
61275606 TTATTAAAATAAAACAGAAC
390 TTATTAAAATAAAACAGAAC
*
61275626 TGAACATTCCATATGGCTTGTTATAAATCCGAGTATTAATAACAACTGTAAGATATTAAATAGTT
1 TGAACATTCCATATGGCTTGTTATAAATCCGAGTATTAATAACAACTGTAAGATATTAAAAAGTT
* * *
61275691 TCGTTGACGTATATTACAAAGGATAGTCATCGTTCTTCCGGTTGAAGAACGTAATTATAATAGTA
66 TCATTGACGTATATTACAAAGGATAGTCATCCTTCTCCCGGTTGAAGAACGTAATTATAATAGTA
* * * *
61275756 AATCAAATACATAATTTAGCCGGGTGAAGTATGTATTAACAGATATACTCATACGTCCTCCGGGT
131 AATCAAATGCATAATTTAGCCGGATGAAGTATGTATTAACAAATATACTCATACATCCTCCGGGT
* * * * *
61275821 TACAAATGTAAATTGTATAAGGACTTAAATGCAAAACTGTGTAAATGTTGAAGGCGAATTTTGGA
196 TACAAATGTAAATTGTATAAGGAATTAAATGAAAAAATGTGCAAAAGTTGAAGGCGAATTTTGGA
* *
61275886 CTTTCTTGTTCTAGGTGTTTGCTTGTTATAAAACCGAGTATTAAAAACAACTTTACGATATTACC
261 CTTTCTTGTTCCAGGTGTTTGCTTGTTATAAAACCGAGTATTAAAAACAACTTTACAATATTACC
* *
61275951 AACTTTCATTGACTATATAATCCACGAGTTTGCCTTAAATATTAATGTCGATATCATTCATATGT
326 AACTTTCATTGACTATATAACCCACGAGTTTGCCTTAAATATTAATGTCGACATCATTCATATGT
*
61276016 TATTAAAATAAAATAGAAC
391 TATTAAAATAAAACAGAAC
* * * *
61276035 TGAACATTCCATATGACTTGTTATAAATCCGAGTATTAATAACAACTCTACGATAGTAAAAAAGT
1 TGAACATTCCATATGGCTTGTTATAAATCCGAGTATTAATAACAACTGTAAGATA-TTAAAAAGT
* ** * *
61276100 TTCATTGATGTATATTACAAATAATAGTCATCCTTCTCCCGATTGAAGAACGTAATTATAATTGT
65 TTCATTGACGTATATTACAAAGGATAGTCATCCTTCTCCCGGTTGAAGAACGTAATTATAATAGT
* *
61276165 AAATCAAATGCATAATTTAGCCGAATGATGTATGTATTA
130 AAATCAAATGCATAATTTAGCCGGATGAAGTATGTATTA
61276204 GCCGGATGAA
Statistics
Matches: 526, Mismatches: 49, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
408 62 0.12
409 363 0.69
410 101 0.19
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (409 bp):
TGAACATTCCATATGGCTTGTTATAAATCCGAGTATTAATAACAACTGTAAGATATTAAAAAGTT
TCATTGACGTATATTACAAAGGATAGTCATCCTTCTCCCGGTTGAAGAACGTAATTATAATAGTA
AATCAAATGCATAATTTAGCCGGATGAAGTATGTATTAACAAATATACTCATACATCCTCCGGGT
TACAAATGTAAATTGTATAAGGAATTAAATGAAAAAATGTGCAAAAGTTGAAGGCGAATTTTGGA
CTTTCTTGTTCCAGGTGTTTGCTTGTTATAAAACCGAGTATTAAAAACAACTTTACAATATTACC
AACTTTCATTGACTATATAACCCACGAGTTTGCCTTAAATATTAATGTCGACATCATTCATATGT
TATTAAAATAAAACAGAAC
Found at i:61277612 original size:47 final size:47
Alignment explanation
Indices: 61277543--61277637 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
61277533 AATCTTGGAA
61277543 AAGAAAAGTAAACATACCCGAGTCTGGGTAATAAGGTGTTCATCGCT
1 AAGAAAAGTAAACATACCCGAGTCTGGGTAATAAGGTGTTCATCGCT
61277590 AAGAAAAGTAAACATACCCGAGTCTGGGTAATAAGGTGTTCATCGCT
1 AAGAAAAGTAAACATACCCGAGTCTGGGTAATAAGGTGTTCATCGCT
61277637 A
1 A
61277638 CCTAAGTTCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (47 bp):
AAGAAAAGTAAACATACCCGAGTCTGGGTAATAAGGTGTTCATCGCT
Found at i:61285913 original size:16 final size:16
Alignment explanation
Indices: 61285883--61285921 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
61285873 AGTTGAATCC
61285883 TAAAAGTTATAAGAAT
1 TAAAAGTTATAAGAAT
61285899 TAAATAGTTAT-AGAAT
1 TAAA-AGTTATAAGAAT
61285915 TAAAAGT
1 TAAAAGT
61285922 GAGAAGTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.14
16 13 0.59
17 6 0.27
ACGTcount: A:0.54, C:0.00, G:0.13, T:0.33
Consensus pattern (16 bp):
TAAAAGTTATAAGAAT
Found at i:61287045 original size:33 final size:33
Alignment explanation
Indices: 61287008--61287101 Score: 107
Period size: 33 Copynumber: 2.8 Consensus size: 33
61286998 TGGTACAATT
** * * *
61287008 TGAAAAGGTTAGGTATATTTTGTGTATACCATA
1 TGAAAAGGAAAGGTACACTTTGTGTATACCACA
*
61287041 TGAAAAGGAAAGGTACACTTTGTGTATACCACG
1 TGAAAAGGAAAGGTACACTTTGTGTATACCACA
*
61287074 TGAAAAGGAAAAGTACACTATATGTGTA
1 TGAAAAGGAAAGGTACACT-T-TGTGTA
61287102 CATTTGAAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
33 45 0.87
34 1 0.02
35 6 0.12
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (33 bp):
TGAAAAGGAAAGGTACACTTTGTGTATACCACA
Found at i:61287132 original size:32 final size:31
Alignment explanation
Indices: 61287096--61287210 Score: 95
Period size: 33 Copynumber: 3.5 Consensus size: 31
61287086 GTACACTATA
* * * *
61287096 TGTGTACATTTGAAATGGTTATGTGCACTTTG
1 TGTGTACAATTGAAAAGG-TATGTACACTTCG
61287128 TGTGTACAAATTGAAAAAGGTATGTACACTTCG
1 TGTGTAC-AATTG-AAAAGGTATGTACACTTCG
* * * *
61287161 TGTGTACCACTTGAAAAGGGAATGTGCACCTCG
1 TGTGTA-CAATTGAAAA-GGTATGTACACTTCG
*
61287194 GGTGTACAATTAGAAAA
1 TGTGTACAATT-GAAAA
61287211 TGAAAGGTCC
Statistics
Matches: 68, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
32 15 0.22
33 47 0.69
34 6 0.09
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.31
Consensus pattern (31 bp):
TGTGTACAATTGAAAAGGTATGTACACTTCG
Found at i:61287152 original size:33 final size:33
Alignment explanation
Indices: 61287115--61287210 Score: 104
Period size: 33 Copynumber: 2.9 Consensus size: 33
61287105 TTGAAATGGT
*
61287115 TATGTGCACTTTGTGTGTACAAATTGAAAAAGG
1 TATGTGCACTTCGTGTGTACAAATTGAAAAAGG
* * * *
61287148 TATGTACACTTCGTGTGTACCACTTGAAAAGGG
1 TATGTGCACTTCGTGTGTACAAATTGAAAAAGG
* * *
61287181 AATGTGCACCTCGGGTGTAC-AATTAGAAAA
1 TATGTGCACTTCGTGTGTACAAATT-GAAAA
61287211 TGAAAGGTCC
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
32 3 0.06
33 49 0.94
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (33 bp):
TATGTGCACTTCGTGTGTACAAATTGAAAAAGG
Found at i:61288512 original size:15 final size:15
Alignment explanation
Indices: 61288492--61288521 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
61288482 CTATCGAGCC
61288492 ATTACCCTTGGAGTA
1 ATTACCCTTGGAGTA
61288507 ATTACCCTTGGAGTA
1 ATTACCCTTGGAGTA
61288522 TTGACATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (15 bp):
ATTACCCTTGGAGTA
Found at i:61293520 original size:5 final size:5
Alignment explanation
Indices: 61293505--61293559 Score: 103
Period size: 5 Copynumber: 11.2 Consensus size: 5
61293495 ATTTAAGTAA
61293505 ATATT -TATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
61293554 ATATT A
1 ATATT A
61293560 AAGAATACAA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.08
5 45 0.92
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATATT
Found at i:61293603 original size:11 final size:10
Alignment explanation
Indices: 61293581--61293641 Score: 54
Period size: 11 Copynumber: 6.0 Consensus size: 10
61293571 AAAATAAATA
61293581 AAAGAAAAAG
1 AAAGAAAAAG
61293591 AAAGAACAAAG
1 AAAGAA-AAAG
*
61293602 AAACGAAACAG
1 AAA-GAAAAAG
*
61293613 AAAGGAAGAAG
1 AAA-GAAAAAG
*
61293624 -AA-AAAGAG
1 AAAGAAAAAG
61293632 AAAGAAAAAG
1 AAAGAAAAAG
61293642 GAGAAAGCTA
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
8 4 0.10
9 2 0.05
10 13 0.32
11 18 0.45
12 3 0.08
ACGTcount: A:0.72, C:0.05, G:0.23, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAG
Found at i:61299182 original size:20 final size:20
Alignment explanation
Indices: 61299142--61299178 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
61299132 TTTCAAATAT
61299142 ATGTATAATATTTATTACAC
1 ATGTATAATATTTATTACAC
*
61299162 ATGTAT-ATTTTTATTAC
1 ATGTATAATATTTATTAC
61299179 CACACATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.51
Consensus pattern (20 bp):
ATGTATAATATTTATTACAC
Found at i:61305425 original size:20 final size:20
Alignment explanation
Indices: 61305400--61305438 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
61305390 GTTAAATTTA
* *
61305400 GTTTAAAGTGGGAATTGAAG
1 GTTTAAAATGAGAATTGAAG
61305420 GTTTAAAATGAGAATTGAA
1 GTTTAAAATGAGAATTGAA
61305439 TGAAAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.31
Consensus pattern (20 bp):
GTTTAAAATGAGAATTGAAG
Found at i:61314508 original size:29 final size:30
Alignment explanation
Indices: 61314451--61314518 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
61314441 CACCCTTAAA
* * * *
61314451 ATATTTTCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCCTCAAATTTTC
*
61314481 ATATTTACACT-TTAATCCCTCAAATTTTG
1 ATATTTACACTATTAATCCCTCAAATTTTC
61314510 AGTATTTAC
1 A-TATTTAC
61314519 TCTTGGGCCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.28, C:0.21, G:0.04, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCCTCAAATTTTC
Found at i:61320806 original size:16 final size:17
Alignment explanation
Indices: 61320775--61320807 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
61320765 TTCATAAGTA
61320775 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
61320792 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
61320808 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:61321153 original size:46 final size:46
Alignment explanation
Indices: 61321088--61321312 Score: 324
Period size: 46 Copynumber: 4.9 Consensus size: 46
61321078 TTATCTTTGA
* * * * ** * *
61321088 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTTATTTTCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
*
61321134 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
* * *
61321180 CCTATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
*
61321226 CATGTTGCCATGGTATCTTTCAATCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
*
61321272 CCTGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
61321313 CATTTCAGAA
Statistics
Matches: 160, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 160 1.00
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
Found at i:61323447 original size:60 final size:61
Alignment explanation
Indices: 61323359--61323480 Score: 237
Period size: 60 Copynumber: 2.0 Consensus size: 61
61323349 ATTGTAAAGA
61323359 AAGAAAACTTTTTTTTCTTCTTCCTCTCTCTCACCTTGGTTTGCATGGGAAAGAAAAGATG
1 AAGAAAACTTTTTTTTCTTCTTCCTCTCTCTCACCTTGGTTTGCATGGGAAAGAAAAGATG
61323420 AAGAAAAC-TTTTTTTCTTCTTCCTCTCTCTCACCTTGGTTTGCATGGGAAAGAAAAGATG
1 AAGAAAACTTTTTTTTCTTCTTCCTCTCTCTCACCTTGGTTTGCATGGGAAAGAAAAGATG
61323480 A
1 A
61323481 TGATTCTTCA
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
60 53 0.87
61 8 0.13
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (61 bp):
AAGAAAACTTTTTTTTCTTCTTCCTCTCTCTCACCTTGGTTTGCATGGGAAAGAAAAGATG
Found at i:61327125 original size:17 final size:17
Alignment explanation
Indices: 61327103--61327136 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
61327093 ACTAATCACT
*
61327103 TAAAAGAGAATAAATAA
1 TAAAAGACAATAAATAA
*
61327120 TAAAAGACACTAAATAA
1 TAAAAGACAATAAATAA
61327137 AAATTTCTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.68, C:0.06, G:0.09, T:0.18
Consensus pattern (17 bp):
TAAAAGACAATAAATAA
Found at i:61331925 original size:15 final size:17
Alignment explanation
Indices: 61331904--61331944 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
61331894 TAATTCTTTA
61331904 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
*
61331920 -AAATTATTAAAATAAT
1 AAAATTATAAAAATAAT
61331936 AAAATTATA
1 AAAATTATA
61331945 TTTTTACTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:61336067 original size:35 final size:35
Alignment explanation
Indices: 61336028--61336147 Score: 177
Period size: 35 Copynumber: 3.4 Consensus size: 35
61336018 GAAAAATTTT
* *
61336028 GAAACGTAGGTATGGTATCATCCATACTGAGTTGC
1 GAAACGTAGGTATGGTATTATCCATACTGAGTTGA
* *
61336063 GAAACGTAGGTATGGTATTAACCATACTGAGTTGT
1 GAAACGTAGGTATGGTATTATCCATACTGAGTTGA
* *
61336098 GAAACGTAAGTATGGTATTATCCATACTGAGTTAA
1 GAAACGTAGGTATGGTATTATCCATACTGAGTTGA
*
61336133 TAAACGTAGGTATGG
1 GAAACGTAGGTATGG
61336148 CATTTCCTGT
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 76 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAAACGTAGGTATGGTATTATCCATACTGAGTTGA
Found at i:61336805 original size:18 final size:17
Alignment explanation
Indices: 61336784--61336839 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
61336774 TAATAGTCAG
61336784 TTATTCGATAACAATCAA
1 TTATTC-ATAACAATCAA
* *
61336802 TTATTCAATAATAATCAG
1 TTATTC-ATAACAATCAA
*
61336820 TTATTCAGTATCAATCAA
1 TTATTCA-TAACAATCAA
61336838 TT
1 TT
61336840 GATCGGTTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
17 1 0.03
18 30 0.97
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.39
Consensus pattern (17 bp):
TTATTCATAACAATCAA
Found at i:61336911 original size:19 final size:19
Alignment explanation
Indices: 61336846--61336918 Score: 69
Period size: 18 Copynumber: 3.9 Consensus size: 19
61336836 AATTGATCGG
* *
61336846 TTATCCAGTAACAGTC-AA
1 TTATTCAGTAACAATCAAA
* *
61336864 TTATTCACTAAAAATCAAA
1 TTATTCAGTAACAATCAAA
* *
61336883 -TATACAGTAACAATTAAA
1 TTATTCAGTAACAATCAAA
*
61336901 TTATTCAGTAACAGTCAA
1 TTATTCAGTAACAATCAA
61336919 TCTTTCCAGT
Statistics
Matches: 42, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
18 26 0.62
19 16 0.38
ACGTcount: A:0.47, C:0.16, G:0.07, T:0.30
Consensus pattern (19 bp):
TTATTCAGTAACAATCAAA
Found at i:61337295 original size:28 final size:23
Alignment explanation
Indices: 61337240--61337284 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
61337230 CTAGCCTGAC
61337240 TAGTTAATAGGGTATTTAATTTT
1 TAGTTAATAGGGTATTTAATTTT
61337263 TAGTTAATAGGGTATTTAATTT
1 TAGTTAATAGGGTATTTAATTT
61337285 ACTTTTCAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (23 bp):
TAGTTAATAGGGTATTTAATTTT
Found at i:61337324 original size:20 final size:22
Alignment explanation
Indices: 61337296--61337351 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 22
61337286 CTTTTCAGTT
61337296 TTCAATTAATTCATATTTT-AA
1 TTCAATTAATTCATATTTTCAA
*
61337317 TT-AATTAATTATATATTTTCAA
1 TTCAATTAATT-CATATTTTCAA
61337339 TTCAATATAATTC
1 TTCAAT-TAATTC
61337352 CATTCACTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 8 0.28
21 9 0.31
22 4 0.14
23 3 0.10
24 5 0.17
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (22 bp):
TTCAATTAATTCATATTTTCAA
Found at i:61345960 original size:38 final size:38
Alignment explanation
Indices: 61345902--61346161 Score: 299
Period size: 38 Copynumber: 7.1 Consensus size: 38
61345892 ATTTGATGGG
* *
61345902 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGATAATA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAATA
* *
61345942 TATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * *
61345980 TATCCGAGTTAAATCCCGTAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
61346018 TATCC-GG----A------AGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
*
61346045 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGATAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* *
61346083 TATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * * *
61346121 TATCCGGGTTAAATCCCGCAGGCCTAGTACTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
61346159 TAT
1 TAT
61346162 TCAGGCCTTG
Statistics
Matches: 192, Mismatches: 17, Indels: 24
0.82 0.07 0.10
Matches are distributed among these distances:
27 23 0.12
28 2 0.01
32 1 0.01
33 1 0.01
37 1 0.01
38 152 0.79
39 5 0.03
40 7 0.04
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
Found at i:61346030 original size:27 final size:27
Alignment explanation
Indices: 61345999--61346051 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
61345989 TAAATCCCGT
*
61345999 AGGCTTCGTGCTGGTATTATATCCGGA
1 AGGCTTCGTGCTGGTAATATATCCGGA
61346026 AGGCTTCGTGCTGGTAATATATCCGG
1 AGGCTTCGTGCTGGTAATATATCCGG
61346052 GTTAAATCCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.32
Consensus pattern (27 bp):
AGGCTTCGTGCTGGTAATATATCCGGA
Found at i:61346068 original size:65 final size:68
Alignment explanation
Indices: 61345960--61346161 Score: 239
Period size: 65 Copynumber: 2.9 Consensus size: 68
61345950 TTAAATCCCG
* *
61345960 CAGGCTTCGTGCTGGTATTATATCCGAGTTAAATCCCGTAGGCTTCGTGCTGGTATTATATCC-G
1 CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGG
61346024 G-A
66 GAA
* * *
61346026 -AGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGATAATATATCCGG
1 CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGG
61346090 GTTAAA
66 G---AA
* * *
61346096 TCCTGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTAGTACTGGTATTATA
1 -----CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATA
61346161 T
61 T
61346162 TCAGGCCTTG
Statistics
Matches: 114, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
65 57 0.50
66 2 0.02
70 1 0.01
76 54 0.47
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.32
Consensus pattern (68 bp):
CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGG
GAA
Found at i:61346106 original size:103 final size:103
Alignment explanation
Indices: 61345923--61346127 Score: 347
Period size: 103 Copynumber: 2.0 Consensus size: 103
61345913 AAAGACCCGC
* *
61345923 AGGCTTCGTGCTGATAATATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGAG
1 AGGCTTCGTGCTGATAATATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGATAATATATCCGAG
*
61345988 TTAAATCCCGTAGGCTTCGTGCTGGTATTATATCCGGA
66 TTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGA
* * *
61346026 AGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGATAATATATCCGGG
1 AGGCTTCGTGCTGATAATATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGATAATATATCCGAG
*
61346091 TTAAATCCTGCAGGCTTCGTGCTGGTATTATATCCGG
66 TTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGG
61346128 GTTAAATCCC
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 95 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.32
Consensus pattern (103 bp):
AGGCTTCGTGCTGATAATATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGATAATATATCCGAG
TTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGA
Found at i:61346214 original size:44 final size:43
Alignment explanation
Indices: 61346166--61346288 Score: 144
Period size: 45 Copynumber: 2.9 Consensus size: 43
61346156 TTATATTCAG
* * *
61346166 GCCTTGAGCCTAGCAGGTTATTATGCCGGTGAGAT-ACTATTCGA
1 GCCTTGAGCCTAGCAGGCTATAATGCCGGTGACATGA-TA-TCGA
*
61346210 GCCTTTGAGCTTAGCAGGCTATAATGCCGGTGACATGATATCGA
1 GCC-TTGAGCCTAGCAGGCTATAATGCCGGTGACATGATATCGA
* *
61346254 GCCTCGAGCCTAGCAGGCGA-AATGCCGGTGA-ATGA
1 GCCTTGAGCCTAGCAGGCTATAATGCCGGTGACATGA
61346289 ATAAAAGTCT
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
41 4 0.06
42 11 0.16
43 14 0.20
44 10 0.14
45 30 0.43
46 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (43 bp):
GCCTTGAGCCTAGCAGGCTATAATGCCGGTGACATGATATCGA
Found at i:61348433 original size:97 final size:97
Alignment explanation
Indices: 61348315--61348492 Score: 250
Period size: 97 Copynumber: 1.8 Consensus size: 97
61348305 CGCCTCTATT
* * * *
61348315 GTGGAAGATGGTTAGGAATGAGTAATAAAGTATTAAATTTCCAAAGTAGACAGATAAATGCATAA
1 GTGGAAGATGATTAAGAATGAGTAATAAAGCATTAAATTTCCAAAGTAGACAGATAAATGCACAA
61348380 GTGAG-AAAAACTAAAATTTCTGATTTTGCCCC
66 GTG-GCAAAAACTAAAATTTCTGATTTTGCCCC
* * * ***
61348412 GTGGAAGATGATTAAGCATGAGTAATGAAGCATTAAATTTTCAAAGTAGTTGGATAAATGCACAA
1 GTGGAAGATGATTAAGAATGAGTAATAAAGCATTAAATTTCCAAAGTAGACAGATAAATGCACAA
61348477 GTGGCAAAAACTAAAA
66 GTGGCAAAAACTAAAA
61348493 GTTTATATTC
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
96 1 0.01
97 69 0.99
ACGTcount: A:0.43, C:0.10, G:0.21, T:0.26
Consensus pattern (97 bp):
GTGGAAGATGATTAAGAATGAGTAATAAAGCATTAAATTTCCAAAGTAGACAGATAAATGCACAA
GTGGCAAAAACTAAAATTTCTGATTTTGCCCC
Found at i:61349229 original size:22 final size:21
Alignment explanation
Indices: 61349204--61349253 Score: 84
Period size: 20 Copynumber: 2.4 Consensus size: 21
61349194 GAATAGTCCA
61349204 TGTTGATAGGCAATTGTCTTCG
1 TGTTGA-AGGCAATTGTCTTCG
61349226 TGTTG-AGGCAATTGTCTTCG
1 TGTTGAAGGCAATTGTCTTCG
61349246 TGTTGAAG
1 TGTTGAAG
61349254 TTTTGCTTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 20 0.74
21 2 0.07
22 5 0.19
ACGTcount: A:0.18, C:0.12, G:0.30, T:0.40
Consensus pattern (21 bp):
TGTTGAAGGCAATTGTCTTCG
Found at i:61352860 original size:7 final size:7
Alignment explanation
Indices: 61352848--61352873 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
61352838 TCACTTTAAA
61352848 AATTTAT
1 AATTTAT
61352855 AATTTAT
1 AATTTAT
61352862 AATTTAT
1 AATTTAT
61352869 AATTT
1 AATTT
61352874 TTTACATCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
AATTTAT
Found at i:61363470 original size:9 final size:9
Alignment explanation
Indices: 61363458--61363512 Score: 53
Period size: 9 Copynumber: 6.2 Consensus size: 9
61363448 ATTTTTTTGG
61363458 AATTTTTAA
1 AATTTTTAA
61363467 AATTTTTAA
1 AATTTTTAA
*
61363476 AA-ATTT-A
1 AATTTTTAA
*
61363483 AA-TTTTGA
1 AATTTTTAA
61363491 AATTTTTATA
1 AATTTTTA-A
61363501 AATATTTTAA
1 AAT-TTTTAA
61363511 AA
1 AA
61363513 ATTAAAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
7 6 0.15
8 6 0.15
9 15 0.38
10 7 0.18
11 5 0.13
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (9 bp):
AATTTTTAA
Found at i:61364318 original size:15 final size:15
Alignment explanation
Indices: 61364272--61364318 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
61364262 AGTTATATAT
61364272 ATATATATAATTCAA
1 ATATATATAATTCAA
** *
61364287 ATATA-CCAATTAAAA
1 ATATATATAATT-CAA
61364302 ATATATATAATTCAA
1 ATATATATAATTCAA
61364317 AT
1 AT
61364319 GTGTTTTTAC
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
14 4 0.17
15 16 0.67
16 4 0.17
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (15 bp):
ATATATATAATTCAA
Found at i:61373558 original size:29 final size:30
Alignment explanation
Indices: 61373499--61373556 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
61373489 TCCGAGCCTT
*
61373499 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
61373529 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
61373557 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:61373786 original size:13 final size:13
Alignment explanation
Indices: 61373768--61373799 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
61373758 TTTCCAGCAA
61373768 TTATGAATTTATT
1 TTATGAATTTATT
61373781 TTATGAATTTATT
1 TTATGAATTTATT
*
61373794 TGATGA
1 TTATGA
61373800 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:61374007 original size:50 final size:50
Alignment explanation
Indices: 61373894--61374135 Score: 288
Period size: 50 Copynumber: 4.7 Consensus size: 50
61373884 ATTTGGGTAA
* * *
61373894 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
61373950 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
61374000 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * * *
61374050 AGAGGTCCCCTATAAGACCATGTCTGGGACATGACATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
61374100 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
61374136 TTTGGCATGT
Statistics
Matches: 164, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 90 0.55
51 28 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.24
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:61374088 original size:100 final size:103
Alignment explanation
Indices: 61373894--61374143 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 103
61373884 ATTTGGGTAA
61373894 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* * *
61373959 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGACATGGGCACC-ATCACG
* * *
61374000 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
61374062 TAAGACCATGTCTGGGACATGACATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGACATGGGCACCATCACG
* *
61374100 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
61374144 GTTATTATCA
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 39 0.30
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGACATGGGCACCATCACG
Found at i:61377352 original size:6 final size:6
Alignment explanation
Indices: 61377341--61377367 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
61377331 TCTTCTACAT
61377341 CAAGGC CAAGGC CAAGGC CAAGGC CAA
1 CAAGGC CAAGGC CAAGGC CAAGGC CAA
61377368 ACCCTCTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.37, C:0.33, G:0.30, T:0.00
Consensus pattern (6 bp):
CAAGGC
Found at i:61380023 original size:46 final size:46
Alignment explanation
Indices: 61379973--61380105 Score: 178
Period size: 46 Copynumber: 2.9 Consensus size: 46
61379963 ATAATTTCAC
* * * *
61379973 CCATAATGAAATCGGAACGCAACTCAACGAGCTCGGGTG-TTCACAT
1 CCATAATGAACTCGAAACGCAACTCAACGAGTTCGGATGCTT-ACAT
* *
61380019 CCATAATGAACTCGAAACACAACTCAACGAGTTCGGATGCTTGCAT
1 CCATAATGAACTCGAAACGCAACTCAACGAGTTCGGATGCTTACAT
*
61380065 CGATAAGTGAACTCGAAACGCAACTCAACGAGTTCGGATGC
1 CCATAA-TGAACTCGAAACGCAACTCAACGAGTTCGGATGC
61380106 CTCATAATTC
Statistics
Matches: 77, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
46 42 0.55
47 35 0.45
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAATGAACTCGAAACGCAACTCAACGAGTTCGGATGCTTACAT
Found at i:61380083 original size:47 final size:47
Alignment explanation
Indices: 61379973--61380150 Score: 182
Period size: 47 Copynumber: 3.8 Consensus size: 47
61379963 ATAATTTCAC
* * * *
61379973 CCATAATGAAATCGGAACGCAACTCAACGAGCTCGGGTG-TTCACAT
1 CCATAATGAACTCGAAACGCAACTCAACGAGTTCGGATGCTTCACAT
* *
61380019 CCATAATGAACTCGAAACACAACTCAACGAGTTCGGATGCTT-GCAT
1 CCATAATGAACTCGAAACGCAACTCAACGAGTTCGGATGCTTCACAT
* * *
61380065 CGATAAGTGAACTCGAAACGCAACTCAACGAGTTCGGATGCCTCATAAT
1 CCATAA-TGAACTCGAAACGCAACTCAACGAGTTCGGATGCTTCA-CAT
* * * * * *
61380114 TC-TCACGAATTCGGAATGCAACTCAACGAGTTCGGAT
1 CCATAATGAACTCGAAACGCAACTCAACGAGTTCGGAT
61380151 CTCAATTTCC
Statistics
Matches: 110, Mismatches: 18, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
46 42 0.38
47 64 0.58
48 2 0.02
49 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.21
Consensus pattern (47 bp):
CCATAATGAACTCGAAACGCAACTCAACGAGTTCGGATGCTTCACAT
Found at i:61383217 original size:25 final size:23
Alignment explanation
Indices: 61383191--61383235 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
61383181 TATACTAAAT
* *
61383191 ATATATATTTTTTATTTTTAATC
1 ATATTTATATTTTATTTTTAATC
61383214 ATATTTATATTTTATTTTTAAT
1 ATATTTATATTTTATTTTTAAT
61383236 TTTAATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (23 bp):
ATATTTATATTTTATTTTTAATC
Found at i:61383232 original size:29 final size:27
Alignment explanation
Indices: 61383199--61383253 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 27
61383189 ATATATATAT
* *
61383199 TTTTTATTTTTAATCATATTTATATTTTA
1 TTTTTAATTTTAAT-ATAATTA-ATTTTA
61383228 TTTTTAATTTTAATATAATTAATTTT
1 TTTTTAATTTTAATATAATTAATTTT
61383254 TATTATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 5 0.21
28 6 0.25
29 13 0.54
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTTTAATTTTAATATAATTAATTTTA
Found at i:61391575 original size:62 final size:62
Alignment explanation
Indices: 61391509--61391633 Score: 225
Period size: 62 Copynumber: 2.0 Consensus size: 62
61391499 GCTGTTCAAA
61391509 AAAAATTATCAATTAAATGTAATAGTTT-AGATTAAACTATGATGAGTGGATTAATCTATTAC
1 AAAAATTATCAATTAAATGTAATAGTTTGA-ATTAAACTATGATGAGTGGATTAATCTATTAC
*
61391571 AAAAATTATCAATTAAATGTAATAGTTTGAATTAAACTATGATGAGTGGATTTATCTATTAC
1 AAAAATTATCAATTAAATGTAATAGTTTGAATTAAACTATGATGAGTGGATTAATCTATTAC
61391633 A
1 A
61391634 TATTTTATTA
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
62 60 0.98
63 1 0.02
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.38
Consensus pattern (62 bp):
AAAAATTATCAATTAAATGTAATAGTTTGAATTAAACTATGATGAGTGGATTAATCTATTAC
Found at i:61397422 original size:31 final size:31
Alignment explanation
Indices: 61397364--61397423 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
61397354 TTAACAGCCT
* **
61397364 AATGACTTAAATGAACACTTTTGAATAGTTC
1 AATGACTTAAATAAACACTTTCAAATAGTTC
61397395 AATGACTTAAATAAA-ACCTTTCAAATAGT
1 AATGACTTAAATAAACA-CTTTCAAATAGT
61397424 CCAGTGTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.04
31 24 0.96
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.33
Consensus pattern (31 bp):
AATGACTTAAATAAACACTTTCAAATAGTTC
Found at i:61400195 original size:42 final size:42
Alignment explanation
Indices: 61400149--61400242 Score: 134
Period size: 42 Copynumber: 2.2 Consensus size: 42
61400139 CTTCTGCTGG
* * *
61400149 TCCTACTTCTTCCGGGTTACTTAGGAGTTCTCCTATGACTGC
1 TCCTACTTCTTCCAGGTTACTTAGGAGTTCTCCTATAACTAC
* *
61400191 TCCTACTTCTTCTAGGTTACTTAGGAGTTTTCCTATAACTAC
1 TCCTACTTCTTCCAGGTTACTTAGGAGTTCTCCTATAACTAC
*
61400233 TCATACTTCT
1 TCCTACTTCT
61400243 CCTATGATTG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.18, C:0.27, G:0.14, T:0.41
Consensus pattern (42 bp):
TCCTACTTCTTCCAGGTTACTTAGGAGTTCTCCTATAACTAC
Found at i:61400255 original size:63 final size:63
Alignment explanation
Indices: 61400176--61400305 Score: 224
Period size: 63 Copynumber: 2.1 Consensus size: 63
61400166 TACTTAGGAG
61400176 TTCTCCTATGACTGCTCCTACTTCTTCTAGGTTACTTAGGAGTTTTCCTATAACTACTCATAC
1 TTCTCCTATGACTGCTCCTACTTCTTCTAGGTTACTTAGGAGTTTTCCTATAACTACTCATAC
* * * *
61400239 TTCTCCTATGATTGCTCCTACTTCTTCTGGGTTACTTAGGAGTTTTTCTATAACTACTCCTAC
1 TTCTCCTATGACTGCTCCTACTTCTTCTAGGTTACTTAGGAGTTTTCCTATAACTACTCATAC
61400302 TTCT
1 TTCT
61400306 TCCGGGTAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.18, C:0.26, G:0.12, T:0.44
Consensus pattern (63 bp):
TTCTCCTATGACTGCTCCTACTTCTTCTAGGTTACTTAGGAGTTTTCCTATAACTACTCATAC
Found at i:61401800 original size:19 final size:19
Alignment explanation
Indices: 61401768--61401805 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
61401758 TCACTGCCGA
* *
61401768 AATGGTCTAGATTCAATGT
1 AATGGCCTAAATTCAATGT
61401787 AATGGCCTAAATTCAATGT
1 AATGGCCTAAATTCAATGT
61401806 TATCGGAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34
Consensus pattern (19 bp):
AATGGCCTAAATTCAATGT
Found at i:61404607 original size:57 final size:59
Alignment explanation
Indices: 61404536--61404647 Score: 165
Period size: 57 Copynumber: 1.9 Consensus size: 59
61404526 GTGCCCACTG
* *
61404536 ACCGATCTCGCACACATAGTGCTT-GGTT-GAAGAACTCGCCCACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTTGGGTTAAAAGAACTCGCACACACAGTGCCTCAATT
* * *
61404593 ACCGATTTCGCACACATAGTGCTTGGGTTAAAAGAATTTGCACACACAGTGCCTC
1 ACCGATCTCGCACACATAGTGCTTGGGTTAAAAGAACTCGCACACACAGTGCCTC
61404648 TAATCTTTTG
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
57 23 0.48
58 4 0.08
59 21 0.44
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.24
Consensus pattern (59 bp):
ACCGATCTCGCACACATAGTGCTTGGGTTAAAAGAACTCGCACACACAGTGCCTCAATT
Found at i:61406486 original size:38 final size:38
Alignment explanation
Indices: 61406398--61406601 Score: 219
Period size: 38 Copynumber: 5.3 Consensus size: 38
61406388 CAAGGTATAA
* * * * *
61406398 AACCCGAACATAACACCAGCACGAAGCCTACGGGACTTT
1 AACCCGGATATAATACCAACACGAAGCCTGCGGGA-TTT
* * * * *
61406437 AAACTCAGATATAATACCAACACTAGGCCTGGGGGATTT
1 -AACCCGGATATAATACCAACACGAAGCCTGCGGGATTT
*
61406476 AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
1 AACCCGGATATAATACCAACACGAAGCCTGCGGGATTT
*
61406514 AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
1 AACCCGGATATAATACCAACACGAAGCCTGCGGGATTT
* ** * *
61406552 AACCCGGATATAATTCCAACATAAAGCCTGTGGGCCTTT
1 AACCCGGATATAATACCAACACGAAGCCTGCGGG-ATTT
61406591 AAGCCCGGATA
1 AA-CCCGGATA
61406602 CACATCAAAT
Statistics
Matches: 140, Mismatches: 22, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
38 99 0.71
39 8 0.06
40 33 0.24
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.19
Consensus pattern (38 bp):
AACCCGGATATAATACCAACACGAAGCCTGCGGGATTT
Found at i:61411741 original size:984 final size:984
Alignment explanation
Indices: 61409826--61411786 Score: 3494
Period size: 984 Copynumber: 2.0 Consensus size: 984
61409816 AATGTGTTTT
61409826 TCTTATAGTAAATGTCTACCGACAAAGCTCAATCTGAGGAAGCTGGGAGTCATGCTCCGGCTTCA
1 TCTTATAGTAAATGTCTACCGACAAAGCTCAATCTGAGGAAGCTGGGAGTCATGCTCCGGCTTCA
* * *
61409891 GTACAAAGAGAAGAAACTAGCAGTAGAAGGCCCGAGACAAAGGGTCAAAGGGAGGAGGCAAAAAC
66 GTACAAAGAGAAAAAACTACCAGTAGAAGGCCCGAGACAAAGGGACAAAGGGAGGAGGCAAAAAC
*
61409956 AGCCTTCTTTCAAATGATGAATGAATGGTTTAATTAATACTTAAGAACTAACCCTATAGTGCAGC
131 AGCCTTCTTTAAAATGATGAATGAATGGTTTAATTAATACTTAAGAACTAACCCTATAGTGCAGC
* *
61410021 AAGTTCAAGCTCCCCCTCCTACTCCTCCACCGGTTCCCGAGATTCCACAGGGTATAGATACTGAA
196 AAGTTCAAACTCCCCCTCCTACTCCTCCACCGGTTCCCGAGATTCCACAGGGTACAGATACTGAA
* *
61410086 TCTATCAGAAAAGAGAAAGCTCCAGTAGATAAAATTCGAAAATATGGGGCCGAAAAATTTCGAGC
261 TCTATCAGAAAAGAGAAAGCTCCAGTAGATAAAATTCAAAAATATAGGGCCGAAAAATTTCGAGC
* * *
61410151 AGCAGTTGATGATGATTCTGAACGGGCTGAATTCTGGTTAGAAAACACTACTCGGGTTCTGGAGG
326 AGCAGTTGATGATGATTCCGAACAGGCTGAATTCTGGTTAAAAAACACTACTCGGGTTCTGGAGG
61410216 AATTATCTTGTACAACAGAAGAATATCTGAAATGTGACGTCTCACTGCTAAAAGACACAGCTTAC
391 AATTATCTTGTACAACAGAAGAATATCTGAAATGTGACGTCTCACTGCTAAAAGACACAGCTTAC
61410281 CATTGGTGGAATACTAAAGCTTCAGTTTTCCGTAAGAAGAAATTACATGGGAATTCTTTCAGACT
456 CATTGGTGGAATACTAAAGCTTCAGTTTTCCGTAAGAAGAAATTACATGGGAATTCTTTCAGACT
*
61410346 GAGTTCAGAAAGAAATATATCAGTCAGAGGTTTCTCAATCAGAAGAGAAAAGAATTTCTTGAGCT
521 GAGTTCAGAAAGAAATATATCAGTCAGAGGTTTCTCAATCAAAAGAGAAAAGAATTTCTTGAGCT
* *
61410411 GAAACAGGGTAACAGATCAGTATTTGAGTATGAAAGAGAATTTGTTCGATTGAGTAAATATGCTC
586 GAAACAGGGTAACAGATCAGTATCTGAGTATGAAAGAGAATTTGTTCAATTGAGTAAATATGCTC
61410476 GAGAATGGGTACAGTCAGAATCTGAAATGTGCAAACGATTCGAAGAAGGGTTGAATGAAGATATT
651 GAGAATGGGTACAGTCAGAATCTGAAATGTGCAAACGATTCGAAGAAGGGTTGAATGAAGATATT
61410541 AAACTACTGATCGGAATTCTTGAAATTCGAGAGTTTGCTACATTGGCAAAGAAAGCTTATAAAGC
716 AAACTACTGATCGGAATTCTTGAAATTCGAGAGTTTGCTACATTGGCAAAGAAAGCTTATAAAGC
* * * * *
61410606 AGAAGAATTGAGTAAAGAAAAGAAATAGGCTGAGAGGGAAGCTCGAATTTTTAGTAAAAGACCAA
781 AGAAGAATTGAGCAAAGAAAAGAAACAGGCTAAGAGGAAAGCTAGAATTTTTAGTAAAAGACCAA
61410671 TGGAAAAATCTCATTTTTCTGCCTCAAAGAAATTGAAGGAGTATCAGGATCGTTCTACCTCAGCC
846 TGGAAAAATCTCATTTTTCTGCCTCAAAGAAATTGAAGGAGTATCAGGATCGTTCTACCTCAGCC
* * *
61410736 ACTGGGTATTTGGGTAGAGAGCGAGGTTCTCAACGCACTAATCCAAGACCTTCTACTCCATCAGT
911 ACTGGATATTCGGGCAGAGAGCGAGGTTCTCAACGCACTAATCCAAGACCTTCTACTCCATCAGT
61410801 GATTCAGTA
976 GATTCAGTA
*
61410810 TCTTATAGTAAATGTCTACCGACAGAGCTCAATCTGAGGAAGCTGGGAGTCATGCTCCGGCTTCA
1 TCTTATAGTAAATGTCTACCGACAAAGCTCAATCTGAGGAAGCTGGGAGTCATGCTCCGGCTTCA
* * *
61410875 GTACAAAGAGAAAAAACTACCAGTAGAAGGCCCGAGACAGAGGGACGAGGGGAGGAGGCAAAAAC
66 GTACAAAGAGAAAAAACTACCAGTAGAAGGCCCGAGACAAAGGGACAAAGGGAGGAGGCAAAAAC
61410940 AGCCTTCTTTAAAATGATGAATGAATGGTTTAATTAATACTTAAGAACTAACCCTATAGTGCAGC
131 AGCCTTCTTTAAAATGATGAATGAATGGTTTAATTAATACTTAAGAACTAACCCTATAGTGCAGC
* *
61411005 AAGTTCAAACTCCCCCTCCTACTCCTCCACTGGTTCCCGAGATTTCACAGGGTACAGATACTGAA
196 AAGTTCAAACTCCCCCTCCTACTCCTCCACCGGTTCCCGAGATTCCACAGGGTACAGATACTGAA
* * * *
61411070 TCTATCAGAAAAGGGAAAGCTCCAGTAGATAAAATTTAAAAATATAGGGTCGAAGAATTTCGAGC
261 TCTATCAGAAAAGAGAAAGCTCCAGTAGATAAAATTCAAAAATATAGGGCCGAAAAATTTCGAGC
*
61411135 AGCAGTTGATGATGATTCCGAACAGGCTGAATTCTGGTTAAAAAACACTAGTCGGGTT-TGGAGG
326 AGCAGTTGATGATGATTCCGAACAGGCTGAATTCTGGTTAAAAAACACTACTCGGGTTCTGGAGG
* *
61411199 AATTATCTTGTACAACAGAAGAATGTCTGAAATGTGCCGTCTCACTGCTAAAAGACACAGCTTAC
391 AATTATCTTGTACAACAGAAGAATATCTGAAATGTGACGTCTCACTGCTAAAAGACACAGCTTAC
*
61411264 CATTGGTGGAATACTAAAGCTTCAGTTGTTCTGTAAGAAGAAATTACATGGGAATTCTTTCAGAC
456 CATTGGTGGAATACTAAAGCTTCAGTT-TTCCGTAAGAAGAAATTACATGGGAATTCTTTCAGAC
*
61411329 TGAGTTCAGAAAGAAATATATCAGTTAGAGGTTTCTCAATCAAAAGAGAAAAGAATTTCTTGAGC
520 TGAGTTCAGAAAGAAATATATCAGTCAGAGGTTTCTCAATCAAAAGAGAAAAGAATTTCTTGAGC
61411394 TGAAACAGGGTAACAGATCAGTATCTGAGTATGAAAGAGAATTTGTTCAATTGAGTAAATATGCT
585 TGAAACAGGGTAACAGATCAGTATCTGAGTATGAAAGAGAATTTGTTCAATTGAGTAAATATGCT
61411459 CGAGAATGGGTACAGTCAGAATCTGAAATGTGCAAACGATTCGAAGAAGGGTTGAATGAAGATAT
650 CGAGAATGGGTACAGTCAGAATCTGAAATGTGCAAACGATTCGAAGAAGGGTTGAATGAAGATAT
* * *
61411524 TAAGCTACTGATCGGAATTCTTGAAATTTGAGAGTTTGCTACATTGGCAGAA-AGAGCTTATAAA
715 TAAACTACTGATCGGAATTCTTGAAATTCGAGAGTTTGCTACATTGGCA-AAGAAAGCTTATAAA
61411588 GCAGAAGAATTGAGCAAAGAAAAGAAACAGGCTAAGAGGAAAGCTAGAATTTTTAGTAAAAGACC
779 GCAGAAGAATTGAGCAAAGAAAAGAAACAGGCTAAGAGGAAAGCTAGAATTTTTAGTAAAAGACC
* * *
61411653 GATGGAAAAATCTCATTTTTTTGCTTCAAAGAAATTGAAGGAGTATCAGGATCGTTCTACCTCAG
844 AATGGAAAAATCTCATTTTTCTGCCTCAAAGAAATTGAAGGAGTATCAGGATCGTTCTACCTCAG
*
61411718 CCACTGGATATTCGGGCAGAGAGCGAGGTTCTCAACGCACTAATCCAAGACCTTCTACTCCATTA
909 CCACTGGATATTCGGGCAGAGAGCGAGGTTCTCAACGCACTAATCCAAGACCTTCTACTCCATCA
61411783 GTGA
974 GTGA
61411787 CCAGTGTTGG
Statistics
Matches: 931, Mismatches: 44, Indels: 4
0.95 0.04 0.00
Matches are distributed among these distances:
983 96 0.10
984 833 0.89
985 2 0.00
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (984 bp):
TCTTATAGTAAATGTCTACCGACAAAGCTCAATCTGAGGAAGCTGGGAGTCATGCTCCGGCTTCA
GTACAAAGAGAAAAAACTACCAGTAGAAGGCCCGAGACAAAGGGACAAAGGGAGGAGGCAAAAAC
AGCCTTCTTTAAAATGATGAATGAATGGTTTAATTAATACTTAAGAACTAACCCTATAGTGCAGC
AAGTTCAAACTCCCCCTCCTACTCCTCCACCGGTTCCCGAGATTCCACAGGGTACAGATACTGAA
TCTATCAGAAAAGAGAAAGCTCCAGTAGATAAAATTCAAAAATATAGGGCCGAAAAATTTCGAGC
AGCAGTTGATGATGATTCCGAACAGGCTGAATTCTGGTTAAAAAACACTACTCGGGTTCTGGAGG
AATTATCTTGTACAACAGAAGAATATCTGAAATGTGACGTCTCACTGCTAAAAGACACAGCTTAC
CATTGGTGGAATACTAAAGCTTCAGTTTTCCGTAAGAAGAAATTACATGGGAATTCTTTCAGACT
GAGTTCAGAAAGAAATATATCAGTCAGAGGTTTCTCAATCAAAAGAGAAAAGAATTTCTTGAGCT
GAAACAGGGTAACAGATCAGTATCTGAGTATGAAAGAGAATTTGTTCAATTGAGTAAATATGCTC
GAGAATGGGTACAGTCAGAATCTGAAATGTGCAAACGATTCGAAGAAGGGTTGAATGAAGATATT
AAACTACTGATCGGAATTCTTGAAATTCGAGAGTTTGCTACATTGGCAAAGAAAGCTTATAAAGC
AGAAGAATTGAGCAAAGAAAAGAAACAGGCTAAGAGGAAAGCTAGAATTTTTAGTAAAAGACCAA
TGGAAAAATCTCATTTTTCTGCCTCAAAGAAATTGAAGGAGTATCAGGATCGTTCTACCTCAGCC
ACTGGATATTCGGGCAGAGAGCGAGGTTCTCAACGCACTAATCCAAGACCTTCTACTCCATCAGT
GATTCAGTA
Found at i:61420049 original size:24 final size:24
Alignment explanation
Indices: 61420011--61420059 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 24
61420001 AATTTAACTC
61420011 AAAAAATAATAAAATTAAATTGAT
1 AAAAAATAATAAAATTAAATTGAT
61420035 AAAAAA-AATATAAATTAAATTGAT
1 AAAAAATAATA-AAATTAAATTGAT
61420059 A
1 A
61420060 TTATGCCCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (24 bp):
AAAAAATAATAAAATTAAATTGAT
Found at i:61421495 original size:26 final size:26
Alignment explanation
Indices: 61421459--61421513 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
61421449 TTAAAAATTT
*
61421459 AAAATCTTAAAAAT-AAAAAAATTCAA
1 AAAATATT-AAAATCAAAAAAATTCAA
**
61421485 AAAATATTAAAATCTTAAAAATTCAA
1 AAAATATTAAAATCAAAAAAATTCAA
61421511 AAA
1 AAA
61421514 TAATGAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 5 0.20
26 20 0.80
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.25
Consensus pattern (26 bp):
AAAATATTAAAATCAAAAAAATTCAA
Found at i:61421506 original size:17 final size:17
Alignment explanation
Indices: 61421449--61421506 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
61421439 TAATATAGTA
61421449 TTAAAAAT-TTAAAATC
1 TTAAAAATATTAAAATC
**
61421465 TTAAAAATAAAAAAAT-
1 TTAAAAATATTAAAATC
*
61421481 TCAAAAAATATTAAAATC
1 T-TAAAAATATTAAAATC
61421499 TTAAAAAT
1 TTAAAAAT
61421507 TCAAAAATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
16 9 0.27
17 23 0.70
18 1 0.03
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (17 bp):
TTAAAAATATTAAAATC
Found at i:61421513 original size:17 final size:16
Alignment explanation
Indices: 61421449--61421514 Score: 53
Period size: 17 Copynumber: 3.9 Consensus size: 16
61421439 TAATATAGTA
*
61421449 TTAAAAATTTAAAATC
1 TTAAAAATTAAAAATC
*
61421465 TTAAAAATAAAAAAAT-
1 TTAAAAAT-TAAAAATC
* *
61421481 TCAAAAAATATTAAAATC
1 T-TAAAAAT-TAAAAATC
61421499 TTAAAAATTCAAAAAT
1 TTAAAAATT-AAAAAT
61421515 AATGAATTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
16 10 0.26
17 28 0.72
18 1 0.03
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAAAAATTAAAAATC
Found at i:61421614 original size:20 final size:19
Alignment explanation
Indices: 61421589--61421633 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
61421579 AGGTTTTGAA
*
61421589 AAAATTACAAAATAATCTTT
1 AAAATT-CAAAATAATCATT
* *
61421609 AAAATTCCAAATATTCATT
1 AAAATTCAAAATAATCATT
61421628 AAAATT
1 AAAATT
61421634 TCTAAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAATTCAAAATAATCATT
Found at i:61425407 original size:29 final size:27
Alignment explanation
Indices: 61425375--61425449 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 27
61425365 ATTAATAATT
61425375 AGACTTAAATTTTAAAATAAAAAAATAAA
1 AGAC-TAAATTTTAAAATAAAAAAAT-AA
* *
61425404 AGACTAAATTCTTAGAAATAAAAGAATAT
1 AGACTAAATT-TTA-AAATAAAAAAATAA
*
61425433 ATACTAAATTTTAAAAT
1 AGACTAAATTTTAAAAT
61425450 TTTGAAAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 4 0.10
28 9 0.22
29 17 0.41
30 11 0.27
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (27 bp):
AGACTAAATTTTAAAATAAAAAAATAA
Found at i:61431535 original size:47 final size:46
Alignment explanation
Indices: 61431467--61431560 Score: 152
Period size: 47 Copynumber: 2.0 Consensus size: 46
61431457 AGTTAGCTGA
* *
61431467 TCATAGGACAAACTAGCCTAACAGCAAAGCTAAAATGCTGGACAGT
1 TCATAGGACAAACTAGCCTAACAACAAAGCTAAAATACTGGACAGT
*
61431513 TCATAGGGACAAACTAGCCTAACAACGAAGCTAAAATACTGGACAGT
1 TCATA-GGACAAACTAGCCTAACAACAAAGCTAAAATACTGGACAGT
61431560 T
1 T
61431561 TATGTGGATG
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
46 5 0.11
47 39 0.89
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.18
Consensus pattern (46 bp):
TCATAGGACAAACTAGCCTAACAACAAAGCTAAAATACTGGACAGT
Found at i:61436660 original size:19 final size:20
Alignment explanation
Indices: 61436624--61436674 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
61436614 AAAATTACAA
*
61436624 AAAAATTCAATATAATTT-T
1 AAAAATTCAAAATAATTTAT
61436643 CAAAAATTCAAAAT-ATTTAT
1 -AAAAATTCAAAATAATTTAT
61436663 AAAAATTTCAAA
1 AAAAA-TTCAAA
61436675 TTTTATATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 9 0.32
20 19 0.68
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTAT
Found at i:61436675 original size:19 final size:18
Alignment explanation
Indices: 61436644--61436681 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
61436634 TATAATTTTC
61436644 AAAAATTCAAAATATTTAT
1 AAAAATTCAAAAT-TTTAT
61436663 AAAAATTTC-AAATTTTAT
1 AAAAA-TTCAAAATTTTAT
61436681 A
1 A
61436682 TTTTAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 9 0.50
20 3 0.17
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAAATTCAAAATTTTAT
Found at i:61437359 original size:131 final size:131
Alignment explanation
Indices: 61437081--61437896 Score: 957
Period size: 131 Copynumber: 6.2 Consensus size: 131
61437071 CACCCCTAAT
* * *
61437081 GATCACAACCTAAGTTTATTTGATTTAC-TATCATGAACAAATTT-TTTGAGTTAGTTGATTTTC
1 GATCACAACCTAAGTTCATTTGATTT-CTTATCATGAACAATTTTCTTTGAGTTACTTGATTTTC
* * *
61437144 TATCGCTACTCCAAACAACTCGTTGATTT-AGTATCACAGTTGATATTATTAAGGCTCATTGATT
65 TATCGCTACTCCAAACAACTCGCTGATTTAAG-ATCACAGCTGATATTATTAAGGCTCGTTGATT
*
61437208 AAA
129 AAC
* * * * *
61437211 AATCA-AAGCCTATGTTCATTTGATTTATTATCGTGAATAATTTTCTTTGAGTTACTTGATTTTC
1 GATCACAA-CCTAAGTTCATTTGATTTCTTATCATGAACAATTTTCTTTGAGTTACTTGATTTTC
* * *
61437275 TATCGCTATTCCAAACAGCTCGCTGATTTAAGATCACAGCTGATATTATTAAGGCTTGTTGATTA
65 TATCGCTACTCCAAACAACTCGCTGATTTAAGATCACAGCTGATATTATTAAGGCTCGTTGATTA
*
61437340 GC
130 AC
*
61437342 GATCACAACCTAAGTTCATTTGATTTCTTATCATGAACAATTTTCTTTGAGTTAGC-TGATTTTG
1 GATCACAACCTAAGTTCATTTGATTTCTTATCATGAACAATTTTCTTTGAGTTA-CTTGATTTTC
* * * *
61437406 TATCGCTACTCTAAACAACTCGCTCATTTAAGATCACA-CATGATATTATTAAGGCTCGCTAATT
65 TATCGCTACTCCAAACAACTCGCTGATTTAAGATCACAGC-TGATATTATTAAGGCTCGTTGATT
61437470 AAC
129 AAC
** * *
61437473 GATCTGAGCCTAAGTTCATTTGATTT-TCTATCATGAACAATTTTCTTTGAGTTAGC-TAATTTT
1 GATCACAACCTAAGTTCATTTGATTTCT-TATCATGAACAATTTTCTTTGAGTTA-CTTGATTTT
* * * * * *
61437536 CTATCGCTACTCTAAACAACTTG-TCGATTTAAGATCACAGTTGATATTATTAAGCCTCATCGAT
64 CTATCGCTACTCCAAACAACTCGCT-GATTTAAGATCACAGCTGATATTATTAAGGCTCGTTGAT
*
61437600 TAAT
128 TAAC
* * * ** * * *
61437604 AATCACAGCCTATGTTCATTTGATTTCTTATCGCGAATAATTTTCTCTGAGTTAGTTGATTTTCT
1 GATCACAACCTAAGTTCATTTGATTTCTTATCATGAACAATTTTCTTTGAGTTACTTGATTTTCT
* * * * * *
61437669 ATCACTACTCCAAACAGCTCGCTGATTTAAGATCACAACTAATATTATGAATGCTCGTTGATTAA
66 ATCGCTACTCCAAACAACTCGCTGATTTAAGATCACAGCTGATATTATTAAGGCTCGTTGATTAA
*
61437734 T
131 C
* * *
61437735 GATCACAACCTAAGTTCATTTGATTTCCTATCATGAACAATTTTCTTTGAGTTAGTTAATTTTCT
1 GATCACAACCTAAGTTCATTTGATTTCTTATCATGAACAATTTTCTTTGAGTTACTTGATTTTCT
* * * * * * * *
61437800 ATCGCTACTCCAAACAGCTCTCTAATTTAATACCACACCTAATATTATTAAGGCTTGTTGATTAA
66 ATCGCTACTCCAAACAACTCGCTGATTTAAGATCACAGCTGATATTATTAAGGCTCGTTGATTAA
61437865 C
131 C
* *
61437866 GATCAGAGCCTAAGTTCATTTGATTTCTTAT
1 GATCACAACCTAAGTTCATTTGATTTCTTAT
61437897 TGATACGATC
Statistics
Matches: 585, Mismatches: 88, Indels: 25
0.84 0.13 0.04
Matches are distributed among these distances:
129 2 0.00
130 36 0.06
131 540 0.92
132 7 0.01
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.40
Consensus pattern (131 bp):
GATCACAACCTAAGTTCATTTGATTTCTTATCATGAACAATTTTCTTTGAGTTACTTGATTTTCT
ATCGCTACTCCAAACAACTCGCTGATTTAAGATCACAGCTGATATTATTAAGGCTCGTTGATTAA
C
Found at i:61437850 original size:393 final size:392
Alignment explanation
Indices: 61437089--61437891 Score: 1212
Period size: 393 Copynumber: 2.0 Consensus size: 392
61437079 ATGATCACAA
* * *
61437089 CCTAAGTTTATTTGATTTACTATCATGAACAAATTTTTTGAGTTAGTTGATTTTCTATCGCTACT
1 CCTAAGTTCATTTGATTTACTATCATGAACAAATTTTTTGAGTTAGCTAATTTTCTATCGCTACT
* * *
61437154 CCAAACAACTCGTTGATTTAGTATCACAGTTGATATTATTAAGGCTCATTGATTAAAAATCAAAG
66 CCAAACAACTCGTCGATTTAGTATCACAGTTGATATTATTAAGCCTCATCGATTAAAAATCAAAG
* * * *
61437219 CCTATGTTCATTTGATTTATTATCGTGAATAATTTTCTTTGAGTTACTTGATTTTCTATCGCTAT
131 CCTATGTTCATTTGATTTATTATCGCGAATAATTTTCTCTGAGTTACTTGATTTTCTATCACTAC
* * * * *
61437284 TCCAAACAGCTCGCTGATTTAAGATCACAGCTGATATTATTAAGGCTTGTTGATTAGCGATCACA
196 TCCAAACAGCTCGCTGATTTAAGATCACAACTAATATTATGAAGGCTCGTTGATTAACGATCACA
* * *
61437349 ACCTAAGTTCATTTGATTTCTTATCATGAACAATTTTCTTTGAGTTAGCTGATTTTGTATCGCTA
261 ACCTAAGTTCATTTGATTTCCTATCATGAACAATTTTCTTTGAGTTAGCTAATTTTCTATCGCTA
* * * * *
61437414 CTCTAAACAACTCGCTCATTTAAGATCACACATGATATTATTAAGGCTCGCTAATTAACGATCTG
326 CTCCAAACAACTCGCTAATTTAAGACCACACATAATATTATTAAGGCTCGCTAATTAACGATCAG
61437479 AG
391 AG
* *
61437481 CCTAAGTTCATTTGATTTTCTATCATGAACAATTTTCTTTGAGTTAGCTAATTTTCTATCGCTAC
1 CCTAAGTTCATTTGATTTACTATCATGAACAAATTT-TTTGAGTTAGCTAATTTTCTATCGCTAC
* * * *
61437546 TCTAAACAACTTGTCGATTTAAG-ATCACAGTTGATATTATTAAGCCTCATCGATTAATAATCAC
65 TCCAAACAACTCGTCGATTT-AGTATCACAGTTGATATTATTAAGCCTCATCGATTAAAAATCAA
* *
61437610 AGCCTATGTTCATTTGATTTCTTATCGCGAATAATTTTCTCTGAGTTAGTTGATTTTCTATCACT
129 AGCCTATGTTCATTTGATTTATTATCGCGAATAATTTTCTCTGAGTTACTTGATTTTCTATCACT
* *
61437675 ACTCCAAACAGCTCGCTGATTTAAGATCACAACTAATATTATGAATGCTCGTTGATTAATGATCA
194 ACTCCAAACAGCTCGCTGATTTAAGATCACAACTAATATTATGAAGGCTCGTTGATTAACGATCA
*
61437740 CAACCTAAGTTCATTTGATTTCCTATCATGAACAATTTTCTTTGAGTTAGTTAATTTTCTATCGC
259 CAACCTAAGTTCATTTGATTTCCTATCATGAACAATTTTCTTTGAGTTAGCTAATTTTCTATCGC
* * * * * * *
61437805 TACTCCAAACAGCTCTCTAATTTAATACCACACCTAATATTATTAAGGCTTGTTGATTAACGATC
324 TACTCCAAACAACTCGCTAATTTAAGACCACACATAATATTATTAAGGCTCGCTAATTAACGATC
61437870 AGAG
389 AGAG
61437874 CCTAAGTTCATTTGATTT
1 CCTAAGTTCATTTGATTT
61437892 CTTATTGATA
Statistics
Matches: 368, Mismatches: 41, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
392 33 0.09
393 333 0.90
394 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (392 bp):
CCTAAGTTCATTTGATTTACTATCATGAACAAATTTTTTGAGTTAGCTAATTTTCTATCGCTACT
CCAAACAACTCGTCGATTTAGTATCACAGTTGATATTATTAAGCCTCATCGATTAAAAATCAAAG
CCTATGTTCATTTGATTTATTATCGCGAATAATTTTCTCTGAGTTACTTGATTTTCTATCACTAC
TCCAAACAGCTCGCTGATTTAAGATCACAACTAATATTATGAAGGCTCGTTGATTAACGATCACA
ACCTAAGTTCATTTGATTTCCTATCATGAACAATTTTCTTTGAGTTAGCTAATTTTCTATCGCTA
CTCCAAACAACTCGCTAATTTAAGACCACACATAATATTATTAAGGCTCGCTAATTAACGATCAG
AG
Found at i:61438377 original size:72 final size:72
Alignment explanation
Indices: 61438298--61438441 Score: 288
Period size: 72 Copynumber: 2.0 Consensus size: 72
61438288 AATATAATGA
61438298 GTTGCTTCTTTAATTAATCTAGTTACTAGGTTAATTTATTGGTGCATGAGTTAAAGTTCATTAAA
1 GTTGCTTCTTTAATTAATCTAGTTACTAGGTTAATTTATTGGTGCATGAGTTAAAGTTCATTAAA
61438363 TACTTCT
66 TACTTCT
61438370 GTTGCTTCTTTAATTAATCTAGTTACTAGGTTAATTTATTGGTGCATGAGTTAAAGTTCATTAAA
1 GTTGCTTCTTTAATTAATCTAGTTACTAGGTTAATTTATTGGTGCATGAGTTAAAGTTCATTAAA
61438435 TACTTCT
66 TACTTCT
61438442 TTTAATTAAC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (72 bp):
GTTGCTTCTTTAATTAATCTAGTTACTAGGTTAATTTATTGGTGCATGAGTTAAAGTTCATTAAA
TACTTCT
Found at i:61439382 original size:29 final size:29
Alignment explanation
Indices: 61439349--61439406 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
61439339 ATAACCAAAC
*
61439349 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
61439378 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
61439407 ATTTGAATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:61439401 original size:15 final size:15
Alignment explanation
Indices: 61439355--61439402 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
61439345 AAACCTACAA
*
61439355 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
61439370 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
61439384 AAACTTCATATCCAT
1 AAACTTCATATCCAT
61439399 AAAC
1 AAAC
61439403 CCATATTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:61441044 original size:20 final size:21
Alignment explanation
Indices: 61441006--61441045 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
61440996 GGACTAATTT
* *
61441006 GAAACAAGTTAGAAGATTTGG
1 GAAACAAGTTACAAAATTTGG
61441027 GAAA-AAGTTACAAAATTTG
1 GAAACAAGTTACAAAATTTG
61441046 AAAACAGGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.47, C:0.05, G:0.23, T:0.25
Consensus pattern (21 bp):
GAAACAAGTTACAAAATTTGG
Found at i:61445771 original size:50 final size:50
Alignment explanation
Indices: 61445647--61445895 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
61445637 GATAATAACA
* * ** * *
61445647 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
61445698 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
61445748 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
61445798 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
61445853 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
61445896 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:61445825 original size:100 final size:104
Alignment explanation
Indices: 61445646--61445895 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
61445636 TGATAATAAC
**
61445646 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
61445711 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
61445748 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
61445811 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
61445853 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
61445896 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:61446011 original size:13 final size:13
Alignment explanation
Indices: 61445990--61446021 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
61445980 GCTTGGATCA
*
61445990 TCATCAAATAAAT
1 TCATAAAATAAAT
61446003 TCATAAAATAAAT
1 TCATAAAATAAAT
61446016 TCATAA
1 TCATAA
61446022 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:61446267 original size:30 final size:30
Alignment explanation
Indices: 61446233--61446290 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
61446223 CCTCGACTCT
*
61446233 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
61446263 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
61446291 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:61448904 original size:302 final size:302
Alignment explanation
Indices: 61448358--61448967 Score: 992
Period size: 302 Copynumber: 2.0 Consensus size: 302
61448348 AAAGTGTATA
*
61448358 CAATAAGTTTCTCTCTCAGTAATCTCGCACCTCGCGAAGCCAAGTTCTCAAAAGAGTCACTTTAT
1 CAATAAGTTTCTCTCTCAATAATCTCGCACCTCGCGAAGCCAAGTTCTCAAAAGAGTCACTTTAT
* *
61448423 AACTCTTCTTCGAACTAGGTGGGGGACAAATTATTATGGTATTCATCAGTACCATCCCGCTACCT
66 AACTCTTATTCGAACTAGGTGGGGGACAAATTATTATGGTATTCATCAGTACCATCCCACTACCT
* * *
61448488 AGTTACCTGATTGGATTTCGACCCGTAGCCTACATTGTTCGCACCCTGAGTTCATACATGAGGTG
131 AGTTACCTAATCGGATTCCGACCCGTAGCCTACATTGTTCGCACCCTGAGTTCATACATGAGGTG
* * *
61448553 TTAGTGTCTTTTAATGAGCTCGCACGATGTGGATTCGCACTACCATGCAGGCAAACCCATATATA
196 TTAGCGTCTTTTAATGAGCTCGCACGATGTGGATTCGCACTACCATGCAGGCAAACCCATACACA
* **
61448618 GAAAACACGTGTTAATTTTAGAGTAG-GATAGGTATTGGCATG
261 GAAAACACGTGTTAATTTTAAAGTAGAG-TACATATTGGCATG
* * *
61448660 CAATAAGTTTCTCTCTCAATAATCTCTCACCTCGCGAAGCCAAGTTCTTAGAAGAGTCACTTTAT
1 CAATAAGTTTCTCTCTCAATAATCTCGCACCTCGCGAAGCCAAGTTCTCAAAAGAGTCACTTTAT
* * *
61448725 AACTCTTATTCGAACTAGGTGGGGGACAAATTGTTATGGTATTCATCATTACCATCGCACTACCT
66 AACTCTTATTCGAACTAGGTGGGGGACAAATTATTATGGTATTCATCAGTACCATCCCACTACCT
*
61448790 AGTTACCTAATCGGATTCCGACCTGTAGCCTACATTGTTCGCACCCTGAGTTCATACATGAGGTG
131 AGTTACCTAATCGGATTCCGACCCGTAGCCTACATTGTTCGCACCCTGAGTTCATACATGAGGTG
*
61448855 TTAGCGT-TCTTTAATGAGCTCGCACGATGTGGGTTCGCACTACCATGCAGGCAAACCCATACAC
196 TTAGCGTCT-TTTAATGAGCTCGCACGATGTGGATTCGCACTACCATGCAGGCAAACCCATACAC
*
61448919 AGAAAACATGTGTTAATTTTAAAGTAGAGTACATATTGGCATG
260 AGAAAACACGTGTTAATTTTAAAGTAGAGTACATATTGGCATG
61448962 C-ATAAG
1 CAATAAG
61448968 AACCTACCTA
Statistics
Matches: 285, Mismatches: 21, Indels: 5
0.92 0.07 0.02
Matches are distributed among these distances:
301 6 0.02
302 278 0.98
303 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (302 bp):
CAATAAGTTTCTCTCTCAATAATCTCGCACCTCGCGAAGCCAAGTTCTCAAAAGAGTCACTTTAT
AACTCTTATTCGAACTAGGTGGGGGACAAATTATTATGGTATTCATCAGTACCATCCCACTACCT
AGTTACCTAATCGGATTCCGACCCGTAGCCTACATTGTTCGCACCCTGAGTTCATACATGAGGTG
TTAGCGTCTTTTAATGAGCTCGCACGATGTGGATTCGCACTACCATGCAGGCAAACCCATACACA
GAAAACACGTGTTAATTTTAAAGTAGAGTACATATTGGCATG
Found at i:61453694 original size:38 final size:38
Alignment explanation
Indices: 61453633--61453705 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
61453623 AAGTTCAGAT
*
61453633 TCTACATTTAGATTTTATAGTTTTCGGGTTTAGTTAAAA
1 TCTACATTTAGATTTTATAGTTTT-GGATTTAGTTAAAA
* *
61453672 TCTACA-TTAGTTTTTATGGTTTTGGATTTAGTTA
1 TCTACATTTAGATTTTATAGTTTTGGATTTAGTTA
61453706 TTGTATTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 10 0.32
38 15 0.48
39 6 0.19
ACGTcount: A:0.25, C:0.07, G:0.16, T:0.52
Consensus pattern (38 bp):
TCTACATTTAGATTTTATAGTTTTGGATTTAGTTAAAA
Found at i:61454434 original size:18 final size:18
Alignment explanation
Indices: 61454399--61454436 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
61454389 AACTGACCGA
*
61454399 TTAACCGAATTCAGTCGG
1 TTAACCGAATTAAGTCGG
*
61454417 TTAACCGAATTAATTCGG
1 TTAACCGAATTAAGTCGG
61454435 TT
1 TT
61454437 TTATCGGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (18 bp):
TTAACCGAATTAAGTCGG
Found at i:61454701 original size:28 final size:28
Alignment explanation
Indices: 61454661--61454717 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
61454651 TCTATTAGGG
61454661 ATCGTTACCATCAGTGTCTGAGAAATTA
1 ATCGTTACCATCAGTGTCTGAGAAATTA
61454689 ATCGTTACCATCAGTGTCTGAGAAATTA
1 ATCGTTACCATCAGTGTCTGAGAAATTA
61454717 A
1 A
61454718 CTTCATCTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Consensus pattern (28 bp):
ATCGTTACCATCAGTGTCTGAGAAATTA
Found at i:61456153 original size:9 final size:9
Alignment explanation
Indices: 61456141--61456196 Score: 51
Period size: 9 Copynumber: 5.8 Consensus size: 9
61456131 ATATTTTTAT
61456141 TTTAAAAAA
1 TTTAAAAAA
61456150 TTT-AAAAA
1 TTTAAAAAA
61456158 TTCTAAAAAATA
1 TT-T-AAAAA-A
61456170 TATTAAAAAA
1 T-TTAAAAAA
*
61456180 GTTAAAAAA
1 TTTAAAAAA
61456189 TTATAAAA
1 TT-TAAAA
61456197 TATAATTTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
8 7 0.18
9 13 0.33
10 6 0.15
11 9 0.23
12 3 0.08
13 1 0.03
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:61456177 original size:30 final size:29
Alignment explanation
Indices: 61456142--61456200 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
61456132 TATTTTTATT
* *
61456142 TTAAAAAATTTAAAAATTCTAAAAAATATA
1 TTAAAAAAGTTAAAAAAT-TAAAAAATATA
*
61456172 TTAAAAAAGTTAAAAAATTATAAAATATA
1 TTAAAAAAGTTAAAAAATTAAAAAATATA
61456201 ATTTTGGGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 10 0.38
30 16 0.62
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (29 bp):
TTAAAAAAGTTAAAAAATTAAAAAATATA
Found at i:61457796 original size:3 final size:3
Alignment explanation
Indices: 61457788--61458289 Score: 169
Period size: 3 Copynumber: 168.3 Consensus size: 3
61457778 GATGAAAACG
* * * * * * * *
61457788 ATA ATA ATA ATA ATA TTG TTG ATA ATA ATA ATA GTA GTA GTA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
61457836 ATA ATA CTA ATG ATA ATA ATA A-A AGTA ATA ATA AGA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
* * * *
61457881 TTA GTA ATA ATA ATA ATA ATA ATA ATA ATA GTA CATTA ATA ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -A-TA ATA ATA ATA
* * * * *
61457928 GTA TATG TTA ATA ATA ATA ATA ATA TATA AAA ATA GGA-A ATA ATA TATG
1 ATA -ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA --ATA ATA ATA -ATA
* * * * * * * *
61457977 GTA A-A AAA ATA ATA ATA ATA ATA ACA AAA ATA GTA ATA ATA GTA TGTG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * * * * *
61458025 A-A ATA ATA ATT GTA A-A A-A ACTA ATA GTA ATA ATT ATA TTG ATA
1 ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA
* * * *
61458068 ATA CTA ATA ATA ATA GTA GTA A-A A-A ATA A-A A-A AT- ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
61458111 ATA ATA ATA GTA AAA ATG ACA ATA A-A ATA A-G ATA ATA ATA ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * ** *
61458157 ATA AAA ATA A-A A-A ATA A-A A-A AGTA ATA ATG GCA ATA CTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
* * * * * *
61458199 CCATA ATA A-A AGA AAA AGAA ATA ATA ACA TGTAA ATA ATA ATA ACA
1 --ATA ATA ATA ATA ATA A-TA ATA ATA ATA -AT-A ATA ATA ATA ATA
* * * * * *
61458245 ATA ATA AAA ATA AT- ATA TTT ATA ATA ATA GTA GTA AAA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
61458290 AATTAACTAA
Statistics
Matches: 366, Mismatches: 103, Indels: 60
0.69 0.19 0.11
Matches are distributed among these distances:
2 35 0.10
3 304 0.83
4 20 0.05
5 7 0.02
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:61458121 original size:37 final size:36
Alignment explanation
Indices: 61458072--61458185 Score: 105
Period size: 34 Copynumber: 3.2 Consensus size: 36
61458062 TTGATAATAC
61458072 TAATAATAATAGTAGTAAAAAATAAAAAATATAAAAA
1 TAATAATAATAGTA-TAAAAAATAAAAAATATAAAAA
* * * *
61458109 TAATAATAATAGTA-AAAATGACAATAAA-AT-AAGA
1 TAATAATAATAGTATAAAA-AATAAAAAATATAAAAA
61458143 TAATAATAAT-G-ATAATAAAAATAAAAAATA-AAAAA
1 TAATAATAATAGTAT-A-AAAAATAAAAAATATAAAAA
61458178 GTAATAAT
1 -TAATAAT
61458186 GGCAATACTA
Statistics
Matches: 62, Mismatches: 8, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
32 1 0.02
33 1 0.02
34 20 0.32
35 13 0.21
36 13 0.21
37 14 0.23
ACGTcount: A:0.68, C:0.01, G:0.06, T:0.25
Consensus pattern (36 bp):
TAATAATAATAGTATAAAAAATAAAAAATATAAAAA
Found at i:61458172 original size:25 final size:25
Alignment explanation
Indices: 61458125--61458173 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
61458115 TAATAGTAAA
*
61458125 AATGACAATAAAATAAGATAATAAT
1 AATGACAATAAAATAAGAAAATAAT
*
61458150 AATGATAATAAAAATAA-AAAATAA
1 AATGACAAT-AAAATAAGAAAATAA
61458174 AAAAGTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.22
Consensus pattern (25 bp):
AATGACAATAAAATAAGAAAATAAT
Found at i:61458931 original size:5 final size:5
Alignment explanation
Indices: 61458921--61458974 Score: 67
Period size: 5 Copynumber: 10.8 Consensus size: 5
61458911 AAATAGGTTC
*
61458921 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAACA- AAAACG AAAAT -AAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AAAA-T AAAAT AAAAT
61458971 AAAA
1 AAAA
61458975 CTTTTATTTC
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
4 5 0.11
5 34 0.77
6 5 0.11
ACGTcount: A:0.80, C:0.04, G:0.02, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:61459720 original size:85 final size:84
Alignment explanation
Indices: 61459577--61459757 Score: 213
Period size: 85 Copynumber: 2.1 Consensus size: 84
61459567 ACTTTTAAGA
* * * * *
61459577 AGATAAGATCTTCAACTTCAATCTGTTCCATTGCCACTTTAGGGAGATGGAATTTGTTTTGATCT
1 AGATAAGATCTTCAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATGG-ATTTGTTTTGATCT
* * *
61459642 ACTCTGCTGCAACTTTAGGG
65 ACTCTACTGCAACTTCAGAG
*
61459662 AGATAAGA-CTTGCAACTTCAACCTGCTGCACTGCAACTTCAGGGAGATAAGG-TTTGTTTTGAT
1 AGATAAGATCTT-CAACTTCAACCTGCTCCACTGCAACTTCAGGGAGAT--GGATTTGTTTTGAT
* *
61459725 CTGCTTTACTGCAACTTCAGAG
63 CTACTCTACTGCAACTTCAGAG
61459747 AGATAAGATCT
1 AGATAAGATCT
61459758 GTTTATTCAT
Statistics
Matches: 81, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
84 3 0.04
85 74 0.91
86 2 0.02
87 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.33
Consensus pattern (84 bp):
AGATAAGATCTTCAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATGGATTTGTTTTGATCTA
CTCTACTGCAACTTCAGAG
Found at i:61459984 original size:68 final size:68
Alignment explanation
Indices: 61459870--61460274 Score: 571
Period size: 68 Copynumber: 6.0 Consensus size: 68
61459860 TTCAATCTAC
* * * * *
61459870 TCCGCTGAAACTTTAAGGAGATCTGCTGTGGCTTCGAGCCGTTCCAATGCCATTTCAGGGAGAAG
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAA
61459935 AGA
66 AGA
* * * *
61459938 TCTGCTGAAACTTTAAGGAGATCTGCTGTGGCTTCTAGCTGCTCCAACGCCATTTCAAGGAGAAA
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAA
61460003 AGAA
66 AG-A
*
61460007 TCAGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAA
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAA
*
61460072 AAA
66 AGA
* * * * * * *
61460075 TCCGCTGAAACTTCAAGGAGATCTGTTATGGATTTTAGCCGCTCCAATGCCATTTCAAGGAGAAG
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAA
61460140 AGA
66 AGA
* * * *
61460143 TCCGCTGAAACTTTAAGGAGATCTGTTGTGGCTTCTAGCCGTTCCAACGCCATTTTA-GGAG-AA
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAA
61460206 AGA
66 AGA
* *
61460209 TCTGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGAGAGAAA
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAA
61460274 A
66 A
61460275 AATCTATAAT
Statistics
Matches: 299, Mismatches: 35, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
66 56 0.19
67 7 0.02
68 173 0.58
69 63 0.21
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (68 bp):
TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAA
AGA
Found at i:61460119 original size:137 final size:137
Alignment explanation
Indices: 61459873--61460278 Score: 606
Period size: 137 Copynumber: 3.0 Consensus size: 137
61459863 AATCTACTCC
* * *
61459873 GCTGAAACTTTAAGGAGATCTGCTGTGGCTTCGAGCCGTTCCAATGCCATTTCAGGGAGAAGAGA
1 GCTGAAACTTTAAGGAGATCTGCTGTGGCTTCTAGCCGTTCCAACGCCATTTCAGGGAGAAAAGA
* *
61459938 TCTGCTGAAACTTTAAGGAGATCTGCTGTGGCTTCTAGCTGCTCCAACGCCATTTCAAGGAGAAA
66 TCTGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAAGGAGAAA
61460003 AGAATCA
131 AGAATCA
* * *
61460010 GCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAAAAA
1 GCTGAAACTTTAAGGAGATCTGCTGTGGCTTCTAGCCGTTCCAACGCCATTTCAGGGAGAAAAGA
* * * * * * *
61460075 TCCGCTGAAACTTCAAGGAGATCTGTTATGGATTTTAGCCGCTCCAATGCCATTTCAAGGAGAAG
66 TCTGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAAGGAGAAA
*
61460140 AG-ATCC
131 AGAATCA
* *
61460146 GCTGAAACTTTAAGGAGATCTGTTGTGGCTTCTAGCCGTTCCAACGCCATTTTA-GGAG-AAAGA
1 GCTGAAACTTTAAGGAGATCTGCTGTGGCTTCTAGCCGTTCCAACGCCATTTCAGGGAGAAAAGA
61460209 TCTGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTC-AGAGAGAA
66 TCTGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAAG-GAGAA
61460273 AA-AATC
130 AAGAATC
61460279 TATAATTTTC
Statistics
Matches: 239, Mismatches: 28, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
133 2 0.01
134 63 0.26
135 4 0.02
136 53 0.22
137 117 0.49
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.25
Consensus pattern (137 bp):
GCTGAAACTTTAAGGAGATCTGCTGTGGCTTCTAGCCGTTCCAACGCCATTTCAGGGAGAAAAGA
TCTGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAAGGAGAAA
AGAATCA
Found at i:61460432 original size:87 final size:87
Alignment explanation
Indices: 61460286--61460897 Score: 804
Period size: 87 Copynumber: 7.0 Consensus size: 87
61460276 ATCTATAATT
* * * * *
61460286 TTCAGCCTGTTACCCTACTGCTTAGGGGGTCAAGGCTCATTGCCTTCAATCTGTTTCCCTACTGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGCTTTCGATCTGTTTCCCTACTGC
*
61460351 TTAGTGTGATAAGATCTGTAAA
66 TTAGGGTGATAAGATCTGTAAA
* *
61460373 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCACTTTCGATCTGTTTCCCTACTAC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGCTTTCGATCTGTTTCCCTACTGC
61460438 TTAGGGTGATAAGATCTGTAAA
66 TTAGGGTGATAAGATCTGTAAA
* * *
61460460 TTCAGCCTGTTACCCTACTACCTAGGGGGTTAAGGCCCATCGCATTT-GATCTGTTTCCCTACTA
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGC-TTTCGATCTGTTTCCCTACTG
* *
61460524 CTTAGGGTGATAAAATCTATAAA
65 CTTAGGGTGATAAGATCTGTAAA
* * * * *
61460547 TTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCACCTTCGATCTGTTTCCCTACTGT
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGCTTTCGATCTGTTTCCCTACTGC
61460612 TTAGGGTGATAAGATCTGTAAA
66 TTAGGGTGATAAGATCTGTAAA
* * *
61460634 TTCAGCCTGTTATCCTACTGCTTAGGGGGTTAAAGCCCATCGCCTTCGATCTGTTTCCCTACTGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGCTTTCGATCTGTTTCCCTACTGC
*
61460699 TTAGGGTGATAAGATCTGTAAT
66 TTAGGGTGATAAGATCTGTAAA
* * * * *
61460721 TTCAACCTGTTACCCTACTACTTAGGAGGTTAAGGCCCATCG-TCTTCGATCTG-CTCCACCACT
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGCT-TTCGATCTGTTTCC-CTACT
* * *
61460784 ACTTAGGGAGACAAGATCTGT-AA
64 GCTTAGGGTGATAAGATCTGTAAA
* * * * *
61460807 TTCGGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCG-TCTTCGATCTG-CTCCACTACC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGCT-TTCGATCTGTTTCC-CTACT
* *
61460870 GCTTAGGGAGATAAGATCTGTGAA
64 GCTTAGGGTGATAAGATCTGTAAA
61460894 TTCA
1 TTCA
61460898 CCGATGTTGC
Statistics
Matches: 469, Mismatches: 51, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
86 80 0.17
87 386 0.82
88 3 0.01
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (87 bp):
TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGCTTTCGATCTGTTTCCCTACTGC
TTAGGGTGATAAGATCTGTAAA
Found at i:61460754 original size:261 final size:261
Alignment explanation
Indices: 61460268--61460897 Score: 890
Period size: 261 Copynumber: 2.4 Consensus size: 261
61460258 CCATTTCAGA
* * * *
61460268 GAGAAAAAATCTATAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTCAAGGCTCATTGCCTTC
1 GAGACAAAATCTATAAATTT-AGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGCCTTC
* *
61460333 AATCTGTTTCCCTACTGCTTAGTGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAG
65 GATCTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAG
* *
61460398 GGGGTTAAGGCCCATCACTTTCGATCTGTTTCCCTACTACTTAGGGTGATAAGATCTGTAAATTC
130 GGGGTTAAAGCCCATCACCTTCGATCTGTTTCCCTACTACTTAGGGTGATAAGATCTGTAAATTC
* * * * *
61460463 AGCCTGTTACCCTACTACCTAGGGGGTTAAGGCCCATCG-CATTTGATCTGTTTCC-CTACTACT
195 AACCTGTTACCCTACTACCTAGGAGGTTAAGGCCCATCGTC-TTCGATCTG-CTCCACCACTACT
61460526 TAGG
258 TAGG
* * * * *
61460530 GTGATAAAATCTATAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCACCTTCG
1 GAGACAAAATCTATAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGCCTTCG
* *
61460595 ATCTGTTTCCCTACTGTTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTATCCTACTGCTTAGG
66 ATCTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGG
* * *
61460660 GGGTTAAAGCCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTAATTTCA
131 GGGTTAAAGCCCATCACCTTCGATCTGTTTCCCTACTACTTAGGGTGATAAGATCTGTAAATTCA
*
61460725 ACCTGTTACCCTACTACTTAGGAGGTTAAGGCCCATCGTCTTCGATCTGCTCCACCACTACTTAG
196 ACCTGTTACCCTACTACCTAGGAGGTTAAGGCCCATCGTCTTCGATCTGCTCCACCACTACTTAG
61460790 G
261 G
* * ** * *
61460791 GAGACAAGATCTGT-AATTCGGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCG
1 GAGACAAAATCTATAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGCCTTCG
* * * *
61460855 ATCTG-CTCCACTACCGCTTAGGGAGATAAGATCTGTGAATTCA
66 ATCTGTTTCC-CTACTGCTTAGGGTGATAAGATCTGTAAATTCA
61460898 CCGATGTTGC
Statistics
Matches: 326, Mismatches: 39, Indels: 8
0.87 0.10 0.02
Matches are distributed among these distances:
259 3 0.01
260 80 0.25
261 225 0.69
262 18 0.06
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.32
Consensus pattern (261 bp):
GAGACAAAATCTATAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGCCTTCG
ATCTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGG
GGGTTAAAGCCCATCACCTTCGATCTGTTTCCCTACTACTTAGGGTGATAAGATCTGTAAATTCA
ACCTGTTACCCTACTACCTAGGAGGTTAAGGCCCATCGTCTTCGATCTGCTCCACCACTACTTAG
G
Found at i:61461116 original size:66 final size:66
Alignment explanation
Indices: 61460965--61461153 Score: 346
Period size: 66 Copynumber: 2.9 Consensus size: 66
61460955 ATGTTTATGC
*
61460965 CAAATAATTAGGATGCTATGATCGGAATGAATCAAATGCTCCTAACTAGATGTG--ATGCTTGTG
1 CAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGCTTGTG
61461028 T
66 T
61461029 CAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGCTTGTG
1 CAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGCTTGTG
61461094 T
66 T
*
61461095 CAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAATTAGATGTGTTATG
1 CAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATG
61461154 AATGATATAT
Statistics
Matches: 121, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
64 53 0.44
66 68 0.56
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.32
Consensus pattern (66 bp):
CAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGCTTGTG
T
Found at i:61466214 original size:3 final size:3
Alignment explanation
Indices: 61466206--61466396 Score: 104
Period size: 3 Copynumber: 63.7 Consensus size: 3
61466196 GATGAAAACG
* * * * * *
61466206 ATA ATA ATA ATA ATA ATA ATA ATG TTG ATA ATA ATA ATA GTA GTA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
61466254 AAA ATA ATA ATA CTA ATG ATA ATA ATA A-A AGTA ATA ATA AGA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA
* * * * * * * *
61466299 TTA ATA TTA GTA TTA ATA ATA ATG ATA ATA GTA ATA GAAA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
* * * *
61466345 A-A AAA ATA A-A AAA AGTA ATA GTA ATA A-A AGTGA AT- ATA ATA GTA
1 ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA A-T-A ATA ATA ATA ATA
61466389 ATA ATA AT
1 ATA ATA AT
61466397 GGTAAATACA
Statistics
Matches: 146, Mismatches: 32, Indels: 20
0.74 0.16 0.10
Matches are distributed among these distances:
2 10 0.07
3 127 0.87
4 7 0.05
5 2 0.01
ACGTcount: A:0.60, C:0.01, G:0.09, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:61466274 original size:39 final size:39
Alignment explanation
Indices: 61466207--61466353 Score: 116
Period size: 39 Copynumber: 3.6 Consensus size: 39
61466197 ATGAAAACGA
* **
61466207 TAATAATAATAATAATAATAATGTTGATAATAATAATAG
1 TAATAATAAAAATAATAATAATAATGATAATAATAATAG
* * * *
61466246 TAGTAGTAAAAATAATAATACTAATGATAATAATAAAAG
1 TAATAATAAAAATAATAATAATAATGATAATAATAATAG
* * *
61466285 TAATAATAAGAATATTAATATTAGTATTAATAATAATGATAATAG
1 TAATAATAA-AA-A-TAATA--A-TAATAATGATAATAATAATAG
* *
61466330 TAATAGAAAAAAATAA-AAAAATAA
1 TAATA-ATAAAAATAATAATAATAA
61466354 AAAAAGTAAT
Statistics
Matches: 85, Mismatches: 16, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
39 43 0.51
40 3 0.04
41 1 0.01
42 6 0.07
43 3 0.04
44 2 0.02
45 24 0.28
46 3 0.04
ACGTcount: A:0.60, C:0.01, G:0.08, T:0.31
Consensus pattern (39 bp):
TAATAATAAAAATAATAATAATAATGATAATAATAATAG
Found at i:61466404 original size:24 final size:22
Alignment explanation
Indices: 61466360--61466414 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 22
61466350 ATAAAAAAAG
*
61466360 TAATAGTAATAAAAGTGAATA-
1 TAATAGTAATAAAAGTAAATAC
61466381 TAATAGTAATAATAATGGTAAATAC
1 TAATAGTAATAA-AA--GTAAATAC
*
61466406 AAATAGTAA
1 TAATAGTAA
61466415 CAACAATGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 12 0.43
22 2 0.07
24 6 0.21
25 8 0.29
ACGTcount: A:0.56, C:0.02, G:0.13, T:0.29
Consensus pattern (22 bp):
TAATAGTAATAAAAGTAAATAC
Found at i:61466610 original size:3 final size:3
Alignment explanation
Indices: 61466604--61467114 Score: 177
Period size: 3 Copynumber: 169.3 Consensus size: 3
61466594 AGAAAATATT
* * * * *
61466604 ATA ATA ATA ATA ATA ATA GTA ATA AT- ACA ATA GTA ACA ATA ATA AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
61466651 AGGT- ATA ATA ATA ATA ACA ACA ATA ATA ATA ATA ATA ATA ATG GTA
1 A--TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * * * *
61466697 ATA GTG ATA TTA GTA ATA ATA ATA AGA AGA AGA AGAA ATA AGA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA
* * * * * *
61466743 CATTA ATA ATG ATA GTA TATG TTA ATA ACA ATA ATA ATA TATA AAA ATA
1 -A-TA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
* * * * *
61466792 GGA-A ATA ATA AT- ATG GTA AAA ATA ATA ATA ATA ATA ACA AAA ATA
1 --ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
61466837 GTA ATA ATA GTA TGTG A-A ATA ATA ATT GTA A-A A-A ATA ATA GTA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
61466880 ATA ATT ATA TTG ATA ATA CTA ATA ATA ATA GTA GTA A-A AAA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
61466926 AAA ATA ATA ATA ATA GTA AAA ATG ACA ATA A-A ATA A-G ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * **
61466972 ATG ATA ATA ATA ATAA ATA A-A AAA AGTA ATA ATG GCA ATA ATA ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
* * * * *
61467018 ATA CCATA ATA A-A AGA AAA AGAA ATA ATA ACA TGTAA ATA ATA ATA
1 ATA --ATA ATA ATA ATA ATA A-TA ATA ATA ATA -AT-A ATA ATA ATA
* * * * * *
61467064 ACA ATA ATA ACA ATA AT- ATA TTT ATA ATA ATA ATA ATA GTA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
61467111 ATA A
1 ATA A
61467115 AATTAACTAA
Statistics
Matches: 367, Mismatches: 111, Indels: 60
0.68 0.21 0.11
Matches are distributed among these distances:
2 23 0.06
3 317 0.86
4 20 0.05
5 7 0.02
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:61466802 original size:23 final size:22
Alignment explanation
Indices: 61466772--61466845 Score: 80
Period size: 23 Copynumber: 3.3 Consensus size: 22
61466762 TGTTAATAAC
61466772 AATAATAATATATAAAAATAGGA
1 AATAATAATATATAAAAATA-GA
*
61466795 AATAATAATATGGTAAAAATA-A
1 AATAATAATAT-ATAAAAATAGA
* *
61466817 TAATAATAATA-ACAAAAATAGT
1 -AATAATAATATATAAAAATAGA
61466839 AATAATA
1 AATAATA
61466846 GTATGTGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
21 14 0.32
22 1 0.02
23 21 0.48
24 8 0.18
ACGTcount: A:0.65, C:0.01, G:0.07, T:0.27
Consensus pattern (22 bp):
AATAATAATATATAAAAATAGA
Found at i:61466830 original size:58 final size:58
Alignment explanation
Indices: 61466765--61466884 Score: 147
Period size: 58 Copynumber: 2.1 Consensus size: 58
61466755 TAGTATATGT
*
61466765 TAATAACAATAATAATATATAAAAATA-G-GAAATAATAATATGGT-AAAAATAATAATAA
1 TAATAACAAAAATAATA-ATAAAAATATGTGAAATAATAAT-T-GTAAAAAATAATAATAA
* * * *
61466823 TAATAACAAAAATAGTAATAATAGTATGTGAAATAATAATTGTAAAAAATAATAGTAA
1 TAATAACAAAAATAATAATAAAAATATGTGAAATAATAATTGTAAAAAATAATAATAA
61466881 TAAT
1 TAAT
61466885 TATATTGATA
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
57 9 0.17
58 34 0.63
59 11 0.20
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.29
Consensus pattern (58 bp):
TAATAACAAAAATAATAATAAAAATATGTGAAATAATAATTGTAAAAAATAATAATAA
Found at i:61466937 original size:31 final size:31
Alignment explanation
Indices: 61466899--61467004 Score: 110
Period size: 34 Copynumber: 3.2 Consensus size: 31
61466889 TTGATAATAC
61466899 TAATAATAATAGTAGTAAAA-AAATAAAAAAA
1 TAATAATAATAGTA-TAAAATAAATAAAAAAA
61466930 TAATAATAATAGTA-AAAATGACAATAAAATAAGA
1 TAATAATAATAGTATAAAAT-A-AATAAAA-AA-A
61466964 TAATAATAAT-GATAATAATAATAAATAAAAAAA
1 TAATAATAATAG-T-ATAA-AATAAATAAAAAAA
61466997 GTAATAAT
1 -TAATAAT
61467005 GGCAATAATA
Statistics
Matches: 65, Mismatches: 0, Indels: 17
0.79 0.00 0.21
Matches are distributed among these distances:
29 4 0.06
31 15 0.23
32 7 0.11
33 4 0.06
34 21 0.32
35 8 0.12
36 3 0.05
37 3 0.05
ACGTcount: A:0.67, C:0.01, G:0.07, T:0.25
Consensus pattern (31 bp):
TAATAATAATAGTATAAAATAAATAAAAAAA
Found at i:61467359 original size:23 final size:23
Alignment explanation
Indices: 61467333--61467377 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
61467323 AATTGCAGGG
*
61467333 TAAAATTAAAAATAATAAAAAAT
1 TAAAATTAAAAACAATAAAAAAT
* *
61467356 TAAATTTCAAAACAATAAAAAA
1 TAAAATTAAAAACAATAAAAAA
61467378 GCAGAAGGGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (23 bp):
TAAAATTAAAAACAATAAAAAAT
Found at i:61469188 original size:34 final size:34
Alignment explanation
Indices: 61469147--61469213 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
61469137 AAAGAGTTGT
*
61469147 TTTTTAATGTTATCGTTGGTGAGATTATCTCATG
1 TTTTTAATGATATCGTTGGTGAGATTATCTCATG
*
61469181 TTTTTAATGATATCGTTGGTGAGATTATTTCAT
1 TTTTTAATGATATCGTTGGTGAGATTATCTCAT
61469214 ATAAAAGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.51
Consensus pattern (34 bp):
TTTTTAATGATATCGTTGGTGAGATTATCTCATG
Found at i:61471572 original size:14 final size:13
Alignment explanation
Indices: 61471540--61471575 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
61471530 AAAGCCTCAT
61471540 TTATTTATTTTTA
1 TTATTTATTTTTA
*
61471553 TCATTTATTTTTA
1 TTATTTATTTTTA
61471566 TATATTTATT
1 T-TATTTATT
61471576 ATATAAATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (13 bp):
TTATTTATTTTTA
Found at i:61471695 original size:19 final size:18
Alignment explanation
Indices: 61471671--61471720 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
61471661 TCCACTTAAA
* *
61471671 TTAATTATTTGTTTTAATT
1 TTAATTATTT-TTTGAAAT
61471690 TTAATTTATTTTTTGAAAT
1 TTAA-TTATTTTTTGAAAT
*
61471709 ATAATTATTTTT
1 TTAATTATTTTT
61471721 AATGAATACT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 8 0.30
19 13 0.48
20 6 0.22
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (18 bp):
TTAATTATTTTTTGAAAT
Found at i:61471919 original size:17 final size:17
Alignment explanation
Indices: 61471899--61471954 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
61471889 TTCAATACTA
*
61471899 TATATTTTAAT-ATAAT
1 TATATTATAATAATAAT
*
61471915 CTATAATATAATAATAAT
1 -TATATTATAATAATAAT
*
61471933 TATA-TATAGTAATACAT
1 TATATTATAATAATA-AT
61471950 TATAT
1 TATAT
61471955 ATTAATTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
16 9 0.27
17 19 0.58
18 5 0.15
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (17 bp):
TATATTATAATAATAAT
Found at i:61471955 original size:17 final size:16
Alignment explanation
Indices: 61471906--61471956 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
61471896 CTATATATTT
61471906 TAAT-ATAATCTATAATA
1 TAATAATAAT-TAT-ATA
61471923 TAATAATAATTATATA
1 TAATAATAATTATATA
*
61471939 TAGTAATACATTATATA
1 TAATAATA-ATTATATA
61471956 T
1 T
61471957 TAATTATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 10 0.32
17 16 0.52
18 5 0.16
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (16 bp):
TAATAATAATTATATA
Found at i:61472202 original size:17 final size:17
Alignment explanation
Indices: 61472180--61472214 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
61472170 ATAGTAGTAC
61472180 ATTATATATTACATATT
1 ATTATATATTACATATT
*
61472197 ATTATATATTATATATT
1 ATTATATATTACATATT
61472214 A
1 A
61472215 CTGTTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTATATATTACATATT
Found at i:61472208 original size:24 final size:25
Alignment explanation
Indices: 61472180--61472232 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
61472170 ATAGTAGTAC
61472180 ATTATATATTACAT-ATTATTA-TAT
1 ATTATATATTAC-TGATTATTATTAT
*
61472204 ATTATATATTACTGTTTATTATTAT
1 ATTATATATTACTGATTATTATTAT
61472229 ATTA
1 ATTA
61472233 GTTGAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 1 0.04
24 18 0.69
25 7 0.27
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (25 bp):
ATTATATATTACTGATTATTATTAT
Found at i:61472239 original size:249 final size:248
Alignment explanation
Indices: 61471948--61472456 Score: 622
Period size: 248 Copynumber: 2.0 Consensus size: 248
61471938 ATAGTAATAC
* * * *
61471948 ATTATATATTA-ATTATTATTGTTTATAATTGTATTGGTTGAAATATACTCTAAATCCCTATA-T
1 ATTATATATTATATTATTACTGTTTATAATTATATTAGTTGAAATATACTCTAAATCCATATACT
* * * *
61472011 TTTCCATGCGTATATGAAAGTTAGCCCTCTTATCATATTATATAATACTATAT-TATACCAT-TT
66 TTT-CATAC--ATATGAAAGATAGCACTC--AT-ATATTATATAATACTATATATATAACATATT
* * * * *
61472074 AGTAGTTTATATATATTCATAAATGGA-TAAACGTTATAATGTTATGTAATA-T-TATATCTTTT
125 AATAGTTTATATATATGCATAAAT-GATTAAACATTATAATATCATGTAATACTATATAT-TTTT
* *
61472136 ATTATAATATATAATATAATAATAGTTATATATAATAGTAGTACATTATATATTACATATT
188 ATTATAATACATAATATAATAATAGTTATATATAATAGTAGTACATGATATATTACATATT
* *
61472197 ATTATATATTATA-TATTACTGTTTATTATTATATTAGTTGAAATATACTCTAAGTCCATATACT
1 ATTATATATTATATTATTACTGTTTATAATTATATTAGTTGAAATATACTCTAAATCCATATACT
* * * * *
61472261 TTTCATACATTTGGAAGATAGCACTCCTATATTATATAATGCTATATCATATAATATATTAATAG
66 TTTCATACATATGAAAGATAGCACTCATATATTATATAATACTATAT-ATATAACATATTAATAG
61472326 TTTATATATATGCATAAATGATTAAACATTATAATATCATGTAATACTATATATTTTTATTATAA
130 TTTATATATATGCATAAATGATTAAACATTATAATATCATGTAATACTATATATTTTTATTATAA
* * * * *
61472391 TCCATATTATAATAATAGTTATATATAATAGTAGTATATGATATATTACTTGTT
195 TACATAATATAATAATAGTTATATATAATAGTAGTACATGATATATTACATATT
61472445 A-TATATTATTAT
1 ATTATA-TATTAT
61472457 TTACTATTAT
Statistics
Matches: 224, Mismatches: 27, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
244 18 0.08
245 1 0.00
246 8 0.04
247 63 0.28
248 66 0.29
249 63 0.28
250 5 0.02
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.46
Consensus pattern (248 bp):
ATTATATATTATATTATTACTGTTTATAATTATATTAGTTGAAATATACTCTAAATCCATATACT
TTTCATACATATGAAAGATAGCACTCATATATTATATAATACTATATATATAACATATTAATAGT
TTATATATATGCATAAATGATTAAACATTATAATATCATGTAATACTATATATTTTTATTATAAT
ACATAATATAATAATAGTTATATATAATAGTAGTACATGATATATTACATATT
Found at i:61472419 original size:16 final size:16
Alignment explanation
Indices: 61472398--61472450 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
61472388 TAATCCATAT
61472398 TATAATAATAGTTATA
1 TATAATAATAGTTATA
*
61472414 TATAATAGTAGTATATGA
1 TATAATAATAGT-TAT-A
* * *
61472432 TATATTACTTGTTATA
1 TATAATAATAGTTATA
61472448 TAT
1 TAT
61472451 TATTATTTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
16 15 0.48
17 6 0.19
18 10 0.32
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (16 bp):
TATAATAATAGTTATA
Found at i:61472855 original size:20 final size:20
Alignment explanation
Indices: 61472815--61472867 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
61472805 TTTAGATTTT
**
61472815 TTTAAATTAAAAATATTAAA
1 TTTAAATTAAAAATAGAAAA
61472835 TTTAAATTAAAAATAGAAAA
1 TTTAAATTAAAAATAGAAAA
61472855 TTATAATATTAAA
1 TT-TAA-ATTAAA
61472868 CATTTCAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 20 0.69
21 3 0.10
22 6 0.21
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
TTTAAATTAAAAATAGAAAA
Found at i:61473420 original size:19 final size:19
Alignment explanation
Indices: 61473357--61473420 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
61473347 TTTTGTAAAT
61473357 TTTAT-TTTTATATATTT-
1 TTTATATTTTATATATTTA
* * *
61473374 TTAATAATTTATATATATA
1 TTTATATTTTATATATTTA
*
61473393 TTTAGATTTTATATATTTA
1 TTTATATTTTATATATTTA
*
61473412 TTTCTATTT
1 TTTATATTT
61473421 CCATTTTTTT
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
17 4 0.11
18 10 0.28
19 22 0.61
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTATATTTTATATATTTA
Found at i:61480033 original size:38 final size:40
Alignment explanation
Indices: 61479973--61480057 Score: 111
Period size: 39 Copynumber: 2.1 Consensus size: 40
61479963 CTAAGCCCAT
** *
61479973 TACAGATTCAGATACAGTTTA-GGCCTTAGCCCAT-TTAGA
1 TACAG-TTCAGATACAACTTAGGGCCTTAGCCCATCTCAGA
*
61480012 TACAGTTCAGATATAACTTAGGGCCTTAGCCCATCTCAGA
1 TACAGTTCAGATACAACTTAGGGCCTTAGCCCATCTCAGA
61480052 TACAGT
1 TACAGT
61480058 ATGTATACAG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
38 12 0.30
39 18 0.45
40 10 0.25
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (40 bp):
TACAGTTCAGATACAACTTAGGGCCTTAGCCCATCTCAGA
Found at i:61488163 original size:23 final size:24
Alignment explanation
Indices: 61488132--61488186 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 24
61488122 TGCATTTTGG
*
61488132 TTTT-ATTGCTTCTCTGCTT-ATT
1 TTTTGATTGCTTCTCTACTTGATT
*
61488154 TTTTGATTGCTTCTCTACTTGTTT
1 TTTTGATTGCTTCTCTACTTGATT
61488178 TTTTGATTG
1 TTTTGATTG
61488187 GTTTTTATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 4 0.14
23 14 0.48
24 11 0.38
ACGTcount: A:0.09, C:0.15, G:0.13, T:0.64
Consensus pattern (24 bp):
TTTTGATTGCTTCTCTACTTGATT
Found at i:61492790 original size:16 final size:16
Alignment explanation
Indices: 61492742--61492791 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 16
61492732 TAAGAATAAT
*
61492742 AAATAAAATAAATTAGTA
1 AAATAAAATAAA--AATA
61492760 AAATAAAA-AATAAATA
1 AAATAAAATAA-AAATA
61492776 AAATAAAATAAAAATA
1 AAATAAAATAAAAATA
61492792 GGGTGATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
16 16 0.55
17 4 0.14
18 9 0.31
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (16 bp):
AAATAAAATAAAAATA
Found at i:61496833 original size:132 final size:132
Alignment explanation
Indices: 61496599--61496861 Score: 386
Period size: 132 Copynumber: 2.0 Consensus size: 132
61496589 ACTTAAAACT
*
61496599 TCTTGAAAACGAAGGCGAGATTTGATATTTGGCAACTCGCAGAATCGTGCCCTAACGTGCTGGAT
1 TCTTGAAAACGAAGGCGAGACTTGATATTTGGCAACTCGCAGAATCGTGCCCTAACGTGCTGGAT
*
61496664 TGCAAATTCGCGTTTGCTCAAAATAATCAAATGTCCCTTCAAAATTTCA-TCCATGTCTTCTAAA
66 TGCAAATTCGCGTTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACT-CATGTCTTCTAAA
61496728 AAG
130 AAG
* * ** * *
61496731 TCTTGAAAACGAAGGCGAGGCTTGATATTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGT
1 TCTTGAAAACGAAGGCGAGACTTGATATTTGGCAACTCGCAGAATCGTGCCCTAACGTGCTGGAT
* ** *
61496796 TGC-AATTCCTCGTTTGCTCAAAATGTTCAAATATCCCTTCAAAATTTTACTCATGTCTTCTAAA
66 TGCAAATT-CGCGTTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTCATGTCTTCTAAA
61496860 AA
130 AA
61496862 TCCTTTAAGA
Statistics
Matches: 117, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
131 4 0.03
132 112 0.96
133 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (132 bp):
TCTTGAAAACGAAGGCGAGACTTGATATTTGGCAACTCGCAGAATCGTGCCCTAACGTGCTGGAT
TGCAAATTCGCGTTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTCATGTCTTCTAAAA
AG
Found at i:61496899 original size:132 final size:131
Alignment explanation
Indices: 61496599--61496928 Score: 335
Period size: 132 Copynumber: 2.5 Consensus size: 131
61496589 ACTTAAAACT
* * * * * * *
61496599 TCTTGAAAACGAAGGCGAGATTTGATATTTGGCAACTC-GCAGAATCGTGCCCTAACGTGCTGGA
1 TCTTGAAAACAAAGGCAAGACTCGATATTTGACAATTCAG--GAATCGTGCCCTAACGTGCTGGG
*
61496663 TTGCAAATTCGCGTTTGCTCAAAATAATCAAATGTCCCTTCAAAATTTCATCCATGTCTTCTAAA
64 TTGCAAATTCGCGTTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCATCCATGTCTTCTAAA
61496728 AAG
129 AAG
* * * * * * *
61496731 TCTTGAAAACGAAGGCGAGGCTTGATATTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGT
1 TCTTGAAAACAAAGGCAAGACTCGATATTTGACAATTC-AGGAATCGTGCCCTAACGTGCTGGGT
* ** *
61496796 TGC-AATTCCTCGTTTGCTCAAAATGTTCAAATATCCCTTCAAAATTTTA-CTCATGTCTTCTAA
65 TGCAAATT-CGCGTTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCATC-CATGTCTTCTAA
61496859 AAA-
128 AAAG
* * * * * * * *
61496862 TCCTTTAAGATAAAGGCAATACTCGGTGTTTGACAATTCAGGAATCATGCCCTATCGTGCTGGGT
1 T-CTTGAAAACAAAGGCAAGACTCGATATTTGACAATTCAGGAATCGTGCCCTAACGTGCTGGGT
61496927 TG
65 TG
61496929 TGATTTATTG
Statistics
Matches: 168, Mismatches: 25, Indels: 11
0.82 0.12 0.05
Matches are distributed among these distances:
131 30 0.18
132 137 0.82
134 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (131 bp):
TCTTGAAAACAAAGGCAAGACTCGATATTTGACAATTCAGGAATCGTGCCCTAACGTGCTGGGTT
GCAAATTCGCGTTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCATCCATGTCTTCTAAAAA
G
Found at i:61500706 original size:42 final size:42
Alignment explanation
Indices: 61500594--61500750 Score: 158
Period size: 42 Copynumber: 3.7 Consensus size: 42
61500584 TTTCGATATG
* *
61500594 TGATTTCGTGTAAGACCACGTCTGGGACA-CTGGCATCG-ATT
1 TGATTACGTGTAAGACCATGTCTGGGACATC-GGCATCGTATT
* *
61500635 TGAGAATTACGTGTAAGACCATGTTTGGGACATCGACATCGTATT
1 T--G-ATTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATT
* *
61500680 TGATTTCGTGTAAGACCTTGTCTGGGACAGT-GGCATCGATATT
1 TGATTACGTGTAAGACCATGTCTGGGACA-TCGGCATCG-TATT
* **
61500723 TGATTACATGTAAGACCACATCTGGGAC
1 TGATTACGTGTAAGACCATGTCTGGGAC
61500751 GTTGACATTG
Statistics
Matches: 96, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
41 1 0.01
42 30 0.31
43 30 0.31
44 30 0.31
45 5 0.05
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
TGATTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATT
Found at i:61500747 original size:43 final size:42
Alignment explanation
Indices: 61500586--61500750 Score: 172
Period size: 43 Copynumber: 3.9 Consensus size: 42
61500576 ACATAGGATT
* *
61500586 TCGATATGTGATTTCGTGTAAGACCACGTCTGGGACACTGGCA
1 TCGATATTTGATTACGTGTAAGACCACGTCTGGGACA-TGGCA
* * * *
61500629 TCGAT-TTGAGAATTACGTGTAAGACCATGTTTGGGACATCGACA
1 TCGATATT-TG-ATTACGTGTAAGACCACGTCTGGGACAT-GGCA
* **
61500673 TCG-TATTTGATTTCGTGTAAGACCTTGTCTGGGACAGTGGCA
1 TCGATATTTGATTACGTGTAAGACCACGTCTGGGACA-TGGCA
* *
61500715 TCGATATTTGATTACATGTAAGACCACATCTGGGAC
1 TCGATATTTGATTACGTGTAAGACCACGTCTGGGAC
61500751 GTTGACATTG
Statistics
Matches: 100, Mismatches: 16, Indels: 12
0.78 0.12 0.09
Matches are distributed among these distances:
42 31 0.31
43 37 0.37
44 32 0.32
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
TCGATATTTGATTACGTGTAAGACCACGTCTGGGACATGGCA
Found at i:61512627 original size:19 final size:20
Alignment explanation
Indices: 61512599--61512637 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
61512589 TCTTATTTTT
61512599 TATTTATTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
*
61512618 TATTTGTTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
61512638 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:61512655 original size:25 final size:23
Alignment explanation
Indices: 61512618--61512663 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
61512608 TTTGTTTTAA
*
61512618 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
61512641 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
61512664 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:61513057 original size:13 final size:13
Alignment explanation
Indices: 61513039--61513065 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
61513029 CGAGGGAATA
61513039 ACGTCTGATATGC
1 ACGTCTGATATGC
61513052 ACGTCTGATATGC
1 ACGTCTGATATGC
61513065 A
1 A
61513066 TAACTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (13 bp):
ACGTCTGATATGC
Found at i:61522317 original size:16 final size:16
Alignment explanation
Indices: 61522296--61522366 Score: 90
Period size: 16 Copynumber: 4.4 Consensus size: 16
61522286 ATTTGGTTCA
61522296 CTGTAATGGAATA-AGG
1 CTGTAATGGAATAGA-G
*
61522312 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
* *
61522328 TTATAATGGAATAGAG
1 CTGTAATGGAATAGAG
61522344 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
*
61522360 TTGTAAT
1 CTGTAAT
61522367 CAGTAATTCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
16 46 0.98
17 1 0.02
ACGTcount: A:0.38, C:0.04, G:0.27, T:0.31
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:61522340 original size:32 final size:32
Alignment explanation
Indices: 61522299--61522366 Score: 102
Period size: 32 Copynumber: 2.1 Consensus size: 32
61522289 TGGTTCACTG
*
61522299 TAATGGAATA-AGGCTGTAATTGAATAGAGTTA
1 TAATGGAATAGA-GCTGTAATGGAATAGAGTTA
*
61522331 TAATGGAATAGAGCTGTAATGGAATAGAGTTG
1 TAATGGAATAGAGCTGTAATGGAATAGAGTTA
61522363 TAAT
1 TAAT
61522367 CAGTAATTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 32 0.97
33 1 0.03
ACGTcount: A:0.40, C:0.03, G:0.26, T:0.31
Consensus pattern (32 bp):
TAATGGAATAGAGCTGTAATGGAATAGAGTTA
Found at i:61522404 original size:46 final size:44
Alignment explanation
Indices: 61522348--61522436 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
61522338 ATAGAGCTGT
**
61522348 AATGGAATAGAGTTGTAATCAGTAATTCAACTGTTTGGTTGAATGA
1 AATGGAATAGAACTGTAAT-AGT-ATTCAACTGTTTGGTTGAATGA
***
61522394 AATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAATG
1 AATGGAATAGAACTGTAATAGTATTCAACTGTTTGGTTGAATG
61522437 GAATAATGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
44 18 0.47
45 3 0.08
46 17 0.45
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.37
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCAACTGTTTGGTTGAATGA
Done.