Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 272 of 322
Found at i:90260406 original size:47 final size:47
Alignment explanation
Indices: 90260298--90260459 Score: 252
Period size: 47 Copynumber: 3.4 Consensus size: 47
90260288 NNNNNNNNNN
* * *
90260298 TCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACACTT
1 TCACATTCATCACATCGGCTATTAGGCCTTATCAC--ACATATACACTT
* *
90260347 TCACATTCATCACCTCGGCTATTAGGCCTTATCACACATATACATTT
1 TCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTT
*
90260394 TCACATTCATCACGTCGGCTATTAGGCCTTATCACACATATACACTT
1 TCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTT
90260441 TCACATTCATCACATCGGC
1 TCACATTCATCACATCGGC
90260460 NNNNNNNNNN
Statistics
Matches: 105, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
47 73 0.70
49 32 0.30
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
TCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTT
Found at i:90263389 original size:91 final size:92
Alignment explanation
Indices: 90263241--90263470 Score: 266
Period size: 91 Copynumber: 2.5 Consensus size: 92
90263231 TTTGACATGA
* * * * *
90263241 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TATCATGTTGCCATGGTATATT
1 TGCCATGGTATCTTTCAACCATGGTC-T--T-ATTCA-TTTCATATCACGTTGACATGGTATATT
* ** * *
90263305 TCAACCATGGTTTTATTCTTTTCATGTCACGT
61 TCAACCATGGTCTTACACATTTCATATCACGT
* *
90263337 TGCCATGGTATGTTTCAACCATGGT-TTATTCATTTCATATCACGTTGACATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGACATGGTATATTTCAAC
*
90263401 CATGGTCTTACACATTTCATATCAGGT
66 CATGGTCTTACACATTTCATATCACGT
**
90263428 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCA
90263471 GAGAGCACAC
Statistics
Matches: 116, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
90 4 0.03
91 74 0.64
92 16 0.14
94 1 0.01
96 21 0.18
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.42
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGACATGGTATATTTCAAC
CATGGTCTTACACATTTCATATCACGT
Found at i:90263471 original size:46 final size:46
Alignment explanation
Indices: 90263241--90263470 Score: 266
Period size: 46 Copynumber: 4.9 Consensus size: 46
90263231 TTTGACATGA
* * * *
90263241 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTA--CA--CA-TTTCATATCACGT
* * ** * *
90263291 TGCCATGGTATATTTCAACCATGGTTTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
* **
90263337 TGCCATGGTATGTTTCAACCATGGT-TTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
* *
90263382 TGACATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
90263428 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
90263471 GAGAGCACAC
Statistics
Matches: 159, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
45 45 0.28
46 90 0.57
50 24 0.15
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.42
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
Found at i:90263571 original size:54 final size:54
Alignment explanation
Indices: 90263505--90263749 Score: 490
Period size: 54 Copynumber: 4.5 Consensus size: 54
90263495 TCCTTACAGT
90263505 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
90263559 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
90263613 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
90263667 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
90263721 GGGATTACCAGTCCAGGCTAAATCCCCTG
1 GGGATTACCAGTCCAGGCTAAATCCCCTG
90263750 CAATGACAAT
Statistics
Matches: 191, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 191 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (54 bp):
GGGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTC
Found at i:90266655 original size:82 final size:82
Alignment explanation
Indices: 90266547--90266709 Score: 281
Period size: 82 Copynumber: 2.0 Consensus size: 82
90266537 CCCTATTCTG
* *
90266547 CTGTCTGACAGTTCCGACTATTCTTCACTAAAAATTAATTATCTCACAGTACAGAACTCGGATAA
1 CTGTCTGACAGTTACGACCATTCTTCACTAAAAATTAATTATCTCACAGTACAGAACTCGGATAA
90266612 TATTCCCGTTGATTTAA
66 TATTCCCGTTGATTTAA
* *
90266629 CTGTCTGACAGTTATGACCCTTCTTCACTAAAAATTAATTATCTCACAGTACAGAACTCGGATAA
1 CTGTCTGACAGTTACGACCATTCTTCACTAAAAATTAATTATCTCACAGTACAGAACTCGGATAA
*
90266694 TATTCCTGTTGATTTA
66 TATTCCCGTTGATTTA
90266710 TCCTGAAAAT
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 76 1.00
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.35
Consensus pattern (82 bp):
CTGTCTGACAGTTACGACCATTCTTCACTAAAAATTAATTATCTCACAGTACAGAACTCGGATAA
TATTCCCGTTGATTTAA
Found at i:90267239 original size:16 final size:15
Alignment explanation
Indices: 90267216--90267254 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
90267206 AATTTTTCCC
*
90267216 TTTTTCCTTCTTTCT
1 TTTTTCCTTCCTTCT
90267231 TTTTGTCCTTCCTTCT
1 TTTT-TCCTTCCTTCT
90267247 TTCTTTCC
1 TT-TTTCC
90267255 CTTGCTCTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 4 0.19
16 15 0.71
17 2 0.10
ACGTcount: A:0.00, C:0.31, G:0.03, T:0.67
Consensus pattern (15 bp):
TTTTTCCTTCCTTCT
Found at i:90267907 original size:56 final size:56
Alignment explanation
Indices: 90267821--90268052 Score: 446
Period size: 56 Copynumber: 4.1 Consensus size: 56
90267811 ACAAGGGATG
90267821 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
90267877 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
90267933 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
* *
90267989 ATGGGCAAAACATGTCATCAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
90268045 ATGGGCAA
1 ATGGGCAA
90268053 TAAACTAATA
Statistics
Matches: 174, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 174 1.00
ACGTcount: A:0.46, C:0.09, G:0.22, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:90269850 original size:16 final size:18
Alignment explanation
Indices: 90269821--90269856 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
90269811 TCATCCTTTC
90269821 TTTCTTTTTCTATT-CTT
1 TTTCTTTTTCTATTCCTT
90269838 TTTCTTTTT-TATTCCTT
1 TTTCTTTTTCTATTCCTT
90269855 TT
1 TT
90269857 ACTATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTCTTTTTCTATTCCTT
Found at i:90277500 original size:98 final size:98
Alignment explanation
Indices: 90277340--90277631 Score: 530
Period size: 98 Copynumber: 3.0 Consensus size: 98
90277330 CAAAGCCATC
* * * *
90277340 GATAACGGGTCTATAATCGGCACGAACCCCACAATATCGATATGAAGCCCACAATAATGGCACAC
1 GATAACGGGTCTATAATCGGCACGAAGCCTACAATATCGATACGAAGCCCACAATAACGGCACAC
*
90277405 AGCCTTCGGTAACATGATCGGCACTCAACCACT
66 AGCCTTTGGTAACATGATCGGCACTCAACCACT
90277438 GATAACGGGTCTATAATCGGCACGAAGCCTACAATATCGATACGAAGCCCACAATAACGGCACAC
1 GATAACGGGTCTATAATCGGCACGAAGCCTACAATATCGATACGAAGCCCACAATAACGGCACAC
90277503 AGCCTTTGGTAACATGATCGGCACTCAACCACT
66 AGCCTTTGGTAACATGATCGGCACTCAACCACT
90277536 GATAACGGGTCTATAATCGGCACGAAGCCTACAATATCGATACGAAGCCCACAATAACGGCACAC
1 GATAACGGGTCTATAATCGGCACGAAGCCTACAATATCGATACGAAGCCCACAATAACGGCACAC
*
90277601 AGCCTTTGGTAACATGATCGGCACTCGACCA
66 AGCCTTTGGTAACATGATCGGCACTCAACCA
90277632 TCGATCGGTC
Statistics
Matches: 188, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 188 1.00
ACGTcount: A:0.34, C:0.29, G:0.20, T:0.18
Consensus pattern (98 bp):
GATAACGGGTCTATAATCGGCACGAAGCCTACAATATCGATACGAAGCCCACAATAACGGCACAC
AGCCTTTGGTAACATGATCGGCACTCAACCACT
Found at i:90277692 original size:27 final size:26
Alignment explanation
Indices: 90277642--90277724 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
90277632 TCGATCGGTC
* * *
90277642 AACAGATATTATGACAAAGTCACCAG
1 AACAGATATTGTGGCAAAGCCACCAG
*
90277668 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAAAGCCACCAG
* *
90277695 AACAGATATTTGTGGCATAGCCATCAG
1 AACAGATA-TTGTGGCAAAGCCACCAG
90277722 AAC
1 AAC
90277725 GCTTCCTCCG
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
26 8 0.16
27 41 0.84
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (26 bp):
AACAGATATTGTGGCAAAGCCACCAG
Found at i:90277921 original size:27 final size:28
Alignment explanation
Indices: 90277859--90277924 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
90277849 CAGTCACTTG
* *
90277859 CCCACAAGGGCAAAATAGTCATTTAACA
1 CCCACAAGGGTAAAATAGTAATTTAACA
* * *
90277887 CCC-TAAGGGTAAAATGGTAATTTTAC-
1 CCCACAAGGGTAAAATAGTAATTTAACA
90277913 CCCACAAGGGTA
1 CCCACAAGGGTA
90277925 TCTCGGTAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
26 3 0.10
27 25 0.81
28 3 0.10
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (28 bp):
CCCACAAGGGTAAAATAGTAATTTAACA
Found at i:90277932 original size:27 final size:27
Alignment explanation
Indices: 90277902--90278289 Score: 438
Period size: 27 Copynumber: 14.4 Consensus size: 27
90277892 AGGGTAAAAT
* * *
90277902 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
90277929 GGTAATTCTACCCGACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
90277956 AGTAATTCTACCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
90277983 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
90278010 GGTATTTCTAACCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
90278037 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
90278064 GTTATTTCTACCATACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
90278091 AGTAATTTTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
90278118 AGTAATTCTACCTTA-TAGAGGTATTTT
1 GGTAATTCTACCCTACAAG-GGTATTTC
* * *
90278145 AGTAATTCTACCCTATATGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
90278172 GATATTTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
90278199 GGTAATTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
90278226 GGTAATTCTACCCTA-TAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
90278252 GGTATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
90278279 AGTAATTCTAC
1 GGTAATTCTAC
90278290 AAATCGAGGG
Statistics
Matches: 308, Mismatches: 50, Indels: 6
0.85 0.14 0.02
Matches are distributed among these distances:
26 25 0.08
27 282 0.92
28 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:90278032 original size:81 final size:81
Alignment explanation
Indices: 90277903--90278289 Score: 494
Period size: 81 Copynumber: 4.8 Consensus size: 81
90277893 GGGTAAAATG
* * * * * *
90277903 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCGACAGGGGTATTTCAGTAATTCTACC
1 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACC
90277968 CTATAAGGGTATTTTA
66 CTATAAGGGTATTTTA
* *
90277984 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTAACCTACAAGGGTATTTCAGTAATTCTACC
1 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACC
* *
90278049 CTACAAGGGTA-TTTC
66 CTATAAGGGTATTTTA
* * * * *
90278064 GTTATTTCTACCATACAAGGGTATTTCAGTAATTT-TACCCTACAGGGGTATTTTAGTAATTCTA
1 G-TAATTCTACCCTACAAGGGTATTTCGGT-ATTTCTACCCTACAAGGGTATTTCAGTAATTCTA
*
90278128 CCTTAT-AGAGGTATTTTA
64 CCCTATAAG-GGTATTTTA
* * * * *
90278146 GTAATTCTACCCTATATGGGTATTTCGATATTTCTACCCTATAAGGGTATTTCGGTAATTCTACC
1 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACC
**
90278211 CTATAAGGGTATTTCG
66 CTATAAGGGTATTTTA
* *
90278227 GTAATTCTACCCTA-TAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTTAGTAATTCTAC
1 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTAC
90278290 AAATCGAGGG
Statistics
Matches: 261, Mismatches: 39, Indels: 13
0.83 0.12 0.04
Matches are distributed among these distances:
80 53 0.20
81 198 0.76
82 10 0.04
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (81 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACC
CTATAAGGGTATTTTA
Found at i:90278299 original size:27 final size:27
Alignment explanation
Indices: 90278269--90278447 Score: 177
Period size: 27 Copynumber: 6.7 Consensus size: 27
90278259 CTACCCTACA
* *
90278269 AGGGTATTTTAGTAATTCTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
90278296 AGGGTATTTCAGTAATTTTAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
90278322 ACGGTATTTCGGTAATTTTATAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
90278349 ATGGTACTTT-GGTAATTTTA-AAAGTCA
1 AGGGTA-TTTCAGTAATTTTACAAA-TCG
* *
90278376 AGGGTATTTCAGTAATTTTGCAAATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
90278403 ATGGTATTTCAGTAATTTTGCAAA-CTA
1 AGGGTATTTCAGTAATTTTACAAATC-G
*
90278430 AGGGTATTTCGGTAATTT
1 AGGGTATTTCAGTAATTT
90278448 GGTAAACTAA
Statistics
Matches: 129, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
26 29 0.22
27 94 0.73
28 6 0.05
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:90278394 original size:54 final size:53
Alignment explanation
Indices: 90278267--90278447 Score: 195
Period size: 54 Copynumber: 3.4 Consensus size: 53
90278257 TTCTACCCTA
* * * *
90278267 CAAGGGTATTTTAGTAATTCTACAAATCGAGGGTATTTCAGTAATTTTACAAT
1 CAAGGGTATTTCAGTAATTTTACAAATCGATGGTATTTCAGTAATTTTAAAAT
* * * * *
90278320 CGACGGTATTTCGGTAATTTTATAAATCGATGGTACTTT-GGTAATTTTAAAAGT
1 CAAGGGTATTTCAGTAATTTTACAAATCGATGGTA-TTTCAGTAATTTTAAAA-T
* * *
90278374 CAAGGGTATTTCAGTAATTTTGCAAATTGATGGTATTTCAGTAATTTTGCAAA-
1 CAAGGGTATTTCAGTAATTTTACAAATCGATGGTATTTCAGTAATTTT-AAAAT
*
90278427 CTAAGGGTATTTCGGTAATTT
1 C-AAGGGTATTTCAGTAATTT
90278448 GGTAAACTAA
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
53 43 0.41
54 59 0.56
55 3 0.03
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (53 bp):
CAAGGGTATTTCAGTAATTTTACAAATCGATGGTATTTCAGTAATTTTAAAAT
Found at i:90278454 original size:27 final size:27
Alignment explanation
Indices: 90278375--90278457 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 27
90278365 TTTAAAAGTC
*
90278375 AAGGGTATTTCAGTAATTTTGCAAATT
1 AAGGGTATTTCAGTAATTTTGCAAACT
* *
90278402 GATGGTATTTCAGTAATTTTGCAAACT
1 AAGGGTATTTCAGTAATTTTGCAAACT
* * *
90278429 AAGGGTATTTCGGTAATTTGGTAAACT
1 AAGGGTATTTCAGTAATTTTGCAAACT
90278456 AA
1 AA
90278458 AGTACTCTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (27 bp):
AAGGGTATTTCAGTAATTTTGCAAACT
Found at i:90278463 original size:107 final size:107
Alignment explanation
Indices: 90278267--90278463 Score: 252
Period size: 107 Copynumber: 1.8 Consensus size: 107
90278257 TTCTACCCTA
* * *
90278267 CAAGGGTATTTTAGTAATTCTACAAATCGAGGGTATTTCAGTAATTTTACAATCGACGGTATTTC
1 CAAGGGTATTTCAGTAATTCTACAAATCGAGGGTATTTCAGTAATTTTACAAACAACGGTATTTC
* **
90278332 GGTAATTTTATAAATCGATGGTACTTTGGTAATTTTAAAAGT
66 GGTAATTTGATAAATCGAAAGTACTTTGGTAATTTTAAAAGT
* * * * * *
90278374 CAAGGGTATTTCAGTAATTTTGCAAATTGATGGTATTTCAGTAATTTTGCAAACTAAGGGTATTT
1 CAAGGGTATTTCAGTAATTCTACAAATCGAGGGTATTTCAGTAATTTTACAAAC-AACGGTATTT
* *
90278439 CGGTAATTTGGTAAA-CTAAAGTACT
65 CGGTAATTTGATAAATCGAAAGTACT
90278464 CTAAACAGGG
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
107 54 0.72
108 21 0.28
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (107 bp):
CAAGGGTATTTCAGTAATTCTACAAATCGAGGGTATTTCAGTAATTTTACAAACAACGGTATTTC
GGTAATTTGATAAATCGAAAGTACTTTGGTAATTTTAAAAGT
Found at i:90279522 original size:40 final size:40
Alignment explanation
Indices: 90279473--90279569 Score: 117
Period size: 40 Copynumber: 2.4 Consensus size: 40
90279463 GCTATCGCGG
* *
90279473 AATCGCACACTTAGTGCCTCA-TATAGCTGAAGCTATTCCA
1 AATCGCACACTTAGTGCCT-ATTATAGCCGAAACTATTCCA
* *
90279513 ATTCGCACACTTAGTG-CTATTTATAGCCGAAACTATTTCA
1 AATCGCACACTTAGTGCCTA-TTATAGCCGAAACTATTCCA
*
90279553 AATCACACACTTAGTGC
1 AATCGCACACTTAGTGC
90279570 AGAACATAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
38 1 0.02
39 2 0.04
40 45 0.94
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (40 bp):
AATCGCACACTTAGTGCCTATTATAGCCGAAACTATTCCA
Found at i:90282617 original size:42 final size:42
Alignment explanation
Indices: 90282505--90282619 Score: 140
Period size: 43 Copynumber: 2.7 Consensus size: 42
90282495 TACCATACCA
**** *
90282505 ATGCCATATCCCAAATATGGTCTTACATGGGATCTCATATCG
1 ATGCCATATCCCAAATATGGTCTTACACAAAATCTCATAGCG
* **
90282547 ATTCCAATATCCCAGCTATGGTCTTACACAAAATCTCATAGCG
1 ATGCC-ATATCCCAAATATGGTCTTACACAAAATCTCATAGCG
*
90282590 ATGCCATATCCCAAATATGGTCATACACAA
1 ATGCCATATCCCAAATATGGTCTTACACAA
90282620 CCTTAATGTC
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 26 0.43
43 34 0.57
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (42 bp):
ATGCCATATCCCAAATATGGTCTTACACAAAATCTCATAGCG
Found at i:90287118 original size:48 final size:46
Alignment explanation
Indices: 90287060--90287361 Score: 295
Period size: 48 Copynumber: 6.3 Consensus size: 46
90287050 AAGACTAGGC
* *
90287060 CTGGGACATGGCATCAACGATGGTATATGTGGCTATGTAAGACCATGT
1 CTGGGACATGGCATCAGCGAT-G-ATATGTGGCAATGTAAGACCATGT
*
90287108 CTGGGACATGGCATC-GACGATGATATGTGTGCCA-GTAAAAGACCATGT
1 CTGGGACATGGCATCAG-CGATGATATGTG-GCAATGT--AAGACCATGT
* * * *
90287156 CTGGGACATGGTATCGGCGATAATATGTGTGCCAATGCAAGACCATGT
1 CTGGGACATGGCATCAGCGATGATATGTG-G-CAATGTAAGACCATGT
* *
90287204 TTGGGATATGGCATCAGCGATGATATGTGTGCAAGTGTAAGACCATGT
1 CTGGGACATGGCATCAGCGATGATATGTG-GCAA-TGTAAGACCATGT
* * *
90287252 CTAGGACATGGCATCAGCGATGATATCTGTGCCAGTGTAAGACCATGT
1 CTGGGACATGGCATCAGCGATGATA--TGTGGCAATGTAAGACCATGT
* * * *
90287300 CTGGGACATGGCATTAGCGCTGATATGTGG-ATTCATGTAAAACTATGT
1 CTGGGACATGGCATCAGCGATGATATGTGGCA---ATGTAAGACCATGT
*
90287348 CAGGGACATGGCAT
1 CTGGGACATGGCAT
90287362 TGGTACTTTA
Statistics
Matches: 216, Mismatches: 25, Indels: 26
0.81 0.09 0.10
Matches are distributed among these distances:
45 1 0.00
46 13 0.06
47 7 0.03
48 185 0.86
49 5 0.02
50 5 0.02
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.26
Consensus pattern (46 bp):
CTGGGACATGGCATCAGCGATGATATGTGGCAATGTAAGACCATGT
Found at i:90287215 original size:96 final size:96
Alignment explanation
Indices: 90287063--90287328 Score: 327
Period size: 96 Copynumber: 2.8 Consensus size: 96
90287053 ACTAGGCCTG
* ** * * * *
90287063 GGACATGGCATCAACGATGGTATATGTGGCTATGTAAGACCATGTCTGGGACATGGCATC-GACG
1 GGACATGGCATCAGCGATAATATCTGTGCCAATGCAAGACCATGTCTGGGACATGGCATCAG-CG
* *
90287127 ATGATATGTGTGCCAGTAAAAGACCATGTCTG
65 ATGATATGTGTGCAAGTAAAAGACCATGTCTA
* * * * *
90287159 GGACATGGTATCGGCGATAATATGTGTGCCAATGCAAGACCATGTTTGGGATATGGCATCAGCGA
1 GGACATGGCATCAGCGATAATATCTGTGCCAATGCAAGACCATGTCTGGGACATGGCATCAGCGA
**
90287224 TGATATGTGTGCAAGTGTAAGACCATGTCTA
66 TGATATGTGTGCAAGTAAAAGACCATGTCTA
* * * * *
90287255 GGACATGGCATCAGCGATGATATCTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATTAGCGC
1 GGACATGGCATCAGCGATAATATCTGTGCCAATGCAAGACCATGTCTGGGACATGGCATCAGCGA
90287320 TGATATGTG
66 TGATATGTG
90287329 GATTCATGTA
Statistics
Matches: 144, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
96 143 0.99
97 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (96 bp):
GGACATGGCATCAGCGATAATATCTGTGCCAATGCAAGACCATGTCTGGGACATGGCATCAGCGA
TGATATGTGTGCAAGTAAAAGACCATGTCTA
Found at i:90287326 original size:144 final size:144
Alignment explanation
Indices: 90287061--90287328 Score: 380
Period size: 144 Copynumber: 1.9 Consensus size: 144
90287051 AGACTAGGCC
* *
90287061 TGGGACATGGCATCAACGATGGTATATGTGGCTATGTAAGACCATGTCTGGGACATGGCATCGAC
1 TGGGACATGGCATCAACGATGGTATATGTGGCAATGTAAGACCATGTCTAGGACATGGCATCGAC
* * *
90287126 GATGATATGTGTGCCAGTAAAAGACCATGTCTGGGACATGGTATCGGCGATAATATGTGTGCCAA
66 GATGATATCTGTGCCAGTAAAAGACCATGTCTGGGACATGGCATCAGCGATAATATGTGTGCCAA
90287191 TGCAAGACCATGTT
131 TGCAAGACCATGTT
* *
90287205 TGGGATATGGCATCAGCGAT-G-ATATGTGTGCAAGTGTAAGACCATGTCTAGGACATGGCATC-
1 TGGGACATGGCATCAACGATGGTATATGTG-GCAA-TGTAAGACCATGTCTAGGACATGGCATCG
** * * *
90287267 AGCGATGATATCTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATTAGCGCTGATATGTG
64 A-CGATGATATCTGTGCCAGTAAAAGACCATGTCTGGGACATGGCATCAGCGATAATATGTG
90287329 GATTCATGTA
Statistics
Matches: 109, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
142 7 0.06
143 5 0.05
144 97 0.89
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (144 bp):
TGGGACATGGCATCAACGATGGTATATGTGGCAATGTAAGACCATGTCTAGGACATGGCATCGAC
GATGATATCTGTGCCAGTAAAAGACCATGTCTGGGACATGGCATCAGCGATAATATGTGTGCCAA
TGCAAGACCATGTT
Found at i:90287359 original size:144 final size:144
Alignment explanation
Indices: 90287062--90287361 Score: 358
Period size: 144 Copynumber: 2.1 Consensus size: 144
90287052 GACTAGGCCT
* *
90287062 GGGACATGGCATCAACGATGGTATATGTGGCTATGTAAGACCATGTCTGGGACATGGCATCGACG
1 GGGACATGGCATCAACGATGGTATATGTGGCAATGTAAGACCATGTCTAGGACATGGCATCGACG
* * *
90287127 ATGATATGTGTGCCAGTAAAAGACCATGTCTGGGACATGGTATCGGCGATAATATGTGTGCCAAT
66 ATGATATCTGTGCCAGTAAAAGACCATGTCTGGGACATGGCATCAGCGATAATATGTGTGCCAAT
* **
90287192 GCAAGACCATGTTT
131 GCAAAACCATGTCA
* *
90287206 GGGATATGGCATCAGCGAT-G-ATATGTGTGCAAGTGTAAGACCATGTCTAGGACATGGCATC-A
1 GGGACATGGCATCAACGATGGTATATGTG-GCAA-TGTAAGACCATGTCTAGGACATGGCATCGA
** * * *
90287268 GCGATGATATCTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATTAGCGCTGATATGTG-GAT
64 -CGATGATATCTGTGCCAGTAAAAGACCATGTCTGGGACATGGCATCAGCGATAATATGTGTG--
* * *
90287332 TC-ATGTAAAACTATGTCA
126 CCAATGCAAAACCATGTCA
90287350 GGGACATGGCAT
1 GGGACATGGCAT
90287362 TGGTACTTTA
Statistics
Matches: 132, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
142 7 0.05
143 6 0.05
144 118 0.89
145 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (144 bp):
GGGACATGGCATCAACGATGGTATATGTGGCAATGTAAGACCATGTCTAGGACATGGCATCGACG
ATGATATCTGTGCCAGTAAAAGACCATGTCTGGGACATGGCATCAGCGATAATATGTGTGCCAAT
GCAAAACCATGTCA
Found at i:90289668 original size:34 final size:34
Alignment explanation
Indices: 90289625--90289692 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
90289615 ATACGCTTGG
* *
90289625 GAATGTGTATCTACTGAAGCCGTCATGTGTAAAA
1 GAATGTGTATCTACCGAAGCCATCATGTGTAAAA
90289659 GAATGTGTATCTACCGAAGCCATCATGTGTAAAA
1 GAATGTGTATCTACCGAAGCCATCATGTGTAAAA
90289693 AATTTAAGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (34 bp):
GAATGTGTATCTACCGAAGCCATCATGTGTAAAA
Found at i:90295140 original size:47 final size:46
Alignment explanation
Indices: 90294896--90295205 Score: 302
Period size: 48 Copynumber: 6.5 Consensus size: 46
90294886 AAGTGTACCT
* * * *
90294896 ATGTAAGACCATGTCTGGGACATCGCATTGACAATGATATAAGTG-CC
1 ATGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT--GTGTCC
* * * * *
90294943 TGTGTAAGACCATCTTTGGGACATGGCATCGGTGATTATATGTGTGCC
1 -ATGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGT-CC
* *
90294991 AGTGTAAGGCCATGTCTGGGACATGGCATCGGCGATGATATATGTGCC
1 A-TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGT-CC
* ** ** *
90295039 AATGTAAGACCATGTCTGGGGCATCACATCGATGATGATATGTGTGCA
1 -ATGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGT-CC
*
90295087 AGTGTAAGACCATGTCT-GGACATGGCATCGGCGATGATATGTGGATTC
1 A-TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGT-G-TCC
*
90295135 ATGTAAGACCATGTCT-GGACATGGCATCGGCGATGATATGTTGATTC
1 ATGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATG-TG-TCC
*
90295182 ATGTAAGACCATGTCTTGGACATG
1 ATGTAAGACCATGTCTGGGACATG
90295206 TCATTGGTAC
Statistics
Matches: 222, Mismatches: 31, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
46 3 0.01
47 81 0.36
48 136 0.61
49 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (46 bp):
ATGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTCC
Found at i:90296837 original size:48 final size:48
Alignment explanation
Indices: 90296766--90296924 Score: 194
Period size: 48 Copynumber: 3.3 Consensus size: 48
90296756 GGTGTTACAG
90296766 ACATGGTCTTACACTGGCTCTCATTACATTGCCGATGCCATGTTCCAA
1 ACATGGTCTTACACTGGCTCTCATTACATTGCCGATGCCATGTTCCAA
* * * * ** * *
90296814 ACATGGTCTTACAATGGTTCTCA-TATCGTGGGTGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTCTCATTA-CATTGCCGATGCCATGTTCCAA
* * *
90296862 ACATGGTCTTACGCTAGCTCTCATTACATTGTCGATGCCATGTTCCAA
1 ACATGGTCTTACACTGGCTCTCATTACATTGCCGATGCCATGTTCCAA
*
90296910 ACATGGTTTTACACT
1 ACATGGTCTTACACT
90296925 AGCACACATA
Statistics
Matches: 89, Mismatches: 20, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
47 2 0.02
48 85 0.96
49 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.33
Consensus pattern (48 bp):
ACATGGTCTTACACTGGCTCTCATTACATTGCCGATGCCATGTTCCAA
Found at i:90296935 original size:96 final size:96
Alignment explanation
Indices: 90296763--90296936 Score: 267
Period size: 96 Copynumber: 1.8 Consensus size: 96
90296753 AGGGGTGTTA
*
90296763 CAGACATGGTCTTACACTGGCTCTCATTACATTGCCGATGCCATGTTCCAAACATGGTCTTACAA
1 CAGACATGGTCTTACACTAGCTCTCATTACATTGCCGATGCCATGTTCCAAACATGGTCTTACAA
* ** *
90296828 TGGTTCTCATATCGTGGGTGATGCCATGTCC
66 TAGCACACATATCGTGGGTGATGCCATGTCC
* * * *
90296859 CAGACATGGTCTTACGCTAGCTCTCATTACATTGTCGATGCCATGTTCCAAACATGGTTTTACAC
1 CAGACATGGTCTTACACTAGCTCTCATTACATTGCCGATGCCATGTTCCAAACATGGTCTTACAA
90296924 TAGCACACATATC
66 TAGCACACATATC
90296937 ACCCAAATGT
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 69 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.31
Consensus pattern (96 bp):
CAGACATGGTCTTACACTAGCTCTCATTACATTGCCGATGCCATGTTCCAAACATGGTCTTACAA
TAGCACACATATCGTGGGTGATGCCATGTCC
Found at i:90298812 original size:8 final size:8
Alignment explanation
Indices: 90298787--90298837 Score: 61
Period size: 8 Copynumber: 6.4 Consensus size: 8
90298777 ATGTATCAGT
90298787 AAAAGCC-
1 AAAAGCCG
90298794 AAAATGCCG
1 AAAA-GCCG
90298803 AAAAGCCG
1 AAAAGCCG
90298811 AAAAGCCG
1 AAAAGCCG
90298819 AAATA-CCG
1 AAA-AGCCG
*
90298827 AAAAGTCG
1 AAAAGCCG
90298835 AAA
1 AAA
90298838 GTTTGGCTAC
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
7 5 0.13
8 29 0.74
9 5 0.13
ACGTcount: A:0.53, C:0.22, G:0.20, T:0.06
Consensus pattern (8 bp):
AAAAGCCG
Found at i:90298822 original size:24 final size:24
Alignment explanation
Indices: 90298787--90298837 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
90298777 ATGTATCAGT
*
90298787 AAAAGCCAAAATGCCGAAAAGCCG
1 AAAAGCCAAAATACCGAAAAGCCG
* *
90298811 AAAAGCCGAAATACCGAAAAGTCG
1 AAAAGCCAAAATACCGAAAAGCCG
90298835 AAA
1 AAA
90298838 GTTTGGCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.22, G:0.20, T:0.06
Consensus pattern (24 bp):
AAAAGCCAAAATACCGAAAAGCCG
Found at i:90299128 original size:28 final size:28
Alignment explanation
Indices: 90299047--90299132 Score: 118
Period size: 28 Copynumber: 3.0 Consensus size: 28
90299037 GTGAGCATGA
* *
90299047 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
*
90299075 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGA-TTGGGCCTAATGGGCC
* *
90299104 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
90299132 A
1 A
90299133 GATACAGGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
28 27 0.53
29 24 0.47
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:90307720 original size:39 final size:39
Alignment explanation
Indices: 90307546--90307704 Score: 255
Period size: 39 Copynumber: 4.1 Consensus size: 39
90307536 TGTGAATATA
*
90307546 TATATGCGAGAATTATATCCGGACTTCAGGTCCGTAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* *
90307585 TATAAGCGAGAATTATATCCGGACTTCATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* * *
90307624 TATATGCGAAAATTATATCTGGACTTCATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
*
90307663 TATATGCGAGAATTATATCCGGACTTTAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
90307702 TAT
1 TAT
90307705 GTGCTGGACA
Statistics
Matches: 110, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 110 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
Found at i:90309441 original size:43 final size:42
Alignment explanation
Indices: 90309354--90309483 Score: 127
Period size: 42 Copynumber: 3.1 Consensus size: 42
90309344 AACTTAGTAC
* * * * * **
90309354 CATACCAATGCTATATCCCAGATATAGTCTTACATGGGATCT
1 CATACCGATGCCATAGCCCATATATGGTCTTACATGAAATCT
**
90309396 CATATTGATGCCAATAGCCCA-ACTATGGTCTTACATGAAATCT
1 CATACCGATGCC-ATAGCCCATA-TATGGTCTTACATGAAATCT
* * *
90309439 CATACCGATGTCATATCCCATATATGGTTTTACATGAAATCT
1 CATACCGATGCCATAGCCCATATATGGTCTTACATGAAATCT
90309481 CAT
1 CAT
90309484 CTAACCCTAA
Statistics
Matches: 72, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
42 38 0.53
43 34 0.47
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (42 bp):
CATACCGATGCCATAGCCCATATATGGTCTTACATGAAATCT
Found at i:90309475 original size:42 final size:42
Alignment explanation
Indices: 90309366--90309483 Score: 130
Period size: 43 Copynumber: 2.8 Consensus size: 42
90309356 TACCAATGCT
* ** **
90309366 ATATCCCAGATATAGTCTTACATGGGATCTCATATTGATGCCA
1 ATATCCCA-ATATGGTCTTACATGAAATCTCATACCGATGCCA
* *
90309409 ATAGCCCAACTATGGTCTTACATGAAATCTCATACCGATGTC-
1 ATATCCCAA-TATGGTCTTACATGAAATCTCATACCGATGCCA
*
90309451 ATATCCCATATATGGTTTTACATGAAATCTCAT
1 ATATCCCA-ATATGGTCTTACATGAAATCTCAT
90309484 CTAACCCTAA
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
42 30 0.47
43 34 0.53
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (42 bp):
ATATCCCAATATGGTCTTACATGAAATCTCATACCGATGCCA
Found at i:90314335 original size:15 final size:15
Alignment explanation
Indices: 90314315--90314362 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 15
90314305 GGAAATTCAC
90314315 TTATGTTTTATTTTA
1 TTATGTTTTATTTTA
90314330 TTATGTTTTCATTATTATA
1 TTATGTTTT-A-T-TT-TA
*
90314349 TTATTTTTTATTTT
1 TTATGTTTTATTTT
90314363 TACGTTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
15 10 0.36
16 3 0.11
17 2 0.07
18 3 0.11
19 10 0.36
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.73
Consensus pattern (15 bp):
TTATGTTTTATTTTA
Found at i:90316124 original size:13 final size:13
Alignment explanation
Indices: 90316106--90316139 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
90316096 AATTTGGAGC
90316106 CACACGGGTAAGG
1 CACACGGGTAAGG
90316119 CACACGGGTAAGG
1 CACACGGGTAAGG
90316132 CACACGGG
1 CACACGGG
90316140 CGTCTGTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.29, C:0.26, G:0.38, T:0.06
Consensus pattern (13 bp):
CACACGGGTAAGG
Found at i:90320182 original size:24 final size:25
Alignment explanation
Indices: 90320143--90320195 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
90320133 GCTCCTCCTG
90320143 AGCTGATAAACAGTAAGCTCTATTA
1 AGCTGATAAACAGTAAGCTCTATTA
* * *
90320168 AGCTGA-AAACGGTAAGCTTTATTG
1 AGCTGATAAACAGTAAGCTCTATTA
90320192 AGCT
1 AGCT
90320196 AAATAGTAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 19 0.76
25 6 0.24
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (25 bp):
AGCTGATAAACAGTAAGCTCTATTA
Found at i:90320229 original size:23 final size:22
Alignment explanation
Indices: 90320191--90320241 Score: 75
Period size: 23 Copynumber: 2.3 Consensus size: 22
90320181 AAGCTTTATT
* *
90320191 GAGCTAAATAGTAAGCTCTTAC
1 GAGCTGAATAGTAAGCTCATAC
90320213 GAGCTGAATCAGTAAGCTCATAC
1 GAGCTGAAT-AGTAAGCTCATAC
90320236 GAGCTG
1 GAGCTG
90320242 TGGTGAGTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 8 0.31
23 18 0.69
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.24
Consensus pattern (22 bp):
GAGCTGAATAGTAAGCTCATAC
Found at i:90331079 original size:39 final size:40
Alignment explanation
Indices: 90331025--90331135 Score: 145
Period size: 39 Copynumber: 2.8 Consensus size: 40
90331015 CGGAATTTAA
* ** *
90331025 CCGGATATAGCAACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGTTATAGCAACTCGCACAAATGCCTTCGGGACATAAC
*
90331065 CCGGTTATAG-AACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGTTATAGCAACTCGCACAAATGCCTTCGGGACATAAC
*
90331104 CCGGATT-TAGTAACTCGCACAAATGCCTTCGG
1 CCGG-TTATAGCAACTCGCACAAATGCCTTCGG
90331136 ATCTTAGTCC
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
39 32 0.50
40 32 0.50
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGTTATAGCAACTCGCACAAATGCCTTCGGGACATAAC
Found at i:90331130 original size:40 final size:40
Alignment explanation
Indices: 90331025--90331188 Score: 190
Period size: 40 Copynumber: 4.1 Consensus size: 40
90331015 CGGAATTTAA
* ** *
90331025 CCGGATATAGCAACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
90331065 CCGGTTATAG-AACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
90331104 CCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
90331144 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
90331184 CCGGA
1 CCGGA
90331189 CATCATTCAA
Statistics
Matches: 106, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
39 36 0.34
40 59 0.56
41 11 0.10
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:90337268 original size:23 final size:22
Alignment explanation
Indices: 90337242--90337315 Score: 64
Period size: 21 Copynumber: 3.3 Consensus size: 22
90337232 AAAGAACACA
90337242 CCACAAAAGTGTCAT-AGAATACG
1 CCACAAAAG-GT-ATCAGAATACG
*
90337265 CCAC-ACAGGTATCAGAATACG
1 CCACAAAAGGTATCAGAATACG
* *
90337286 CCA-AAAAGGCTTTACAGAATACA
1 CCACAAAAGG-TAT-CAGAATACG
90337309 CCACAAA
1 CCACAAA
90337316 GCCTTTACAA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
20 2 0.05
21 17 0.40
22 5 0.12
23 15 0.36
24 3 0.07
ACGTcount: A:0.45, C:0.26, G:0.15, T:0.15
Consensus pattern (22 bp):
CCACAAAAGGTATCAGAATACG
Found at i:90337316 original size:23 final size:23
Alignment explanation
Indices: 90337277--90337336 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
90337267 ACACAGGTAT
* * *
90337277 CAGAATACGCCAAAAAGGCTTTA
1 CAGAATACACCACAAAGCCTTTA
90337300 CAGAATACACCACAAAGCCTTTA
1 CAGAATACACCACAAAGCCTTTA
* *
90337323 CAAAATACTCCACA
1 CAGAATACACCACA
90337337 CAGGTGTCAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.45, C:0.28, G:0.10, T:0.17
Consensus pattern (23 bp):
CAGAATACACCACAAAGCCTTTA
Found at i:90340674 original size:27 final size:27
Alignment explanation
Indices: 90340643--90340820 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
90340633 TAAATTGTAC
*
90340643 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
90340670 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
90340696 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
*
90340724 GGCACTAAGTGTGCGAGATTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
90340752 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
90340779 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
90340806 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
90340821 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:90340757 original size:82 final size:81
Alignment explanation
Indices: 90340644--90340799 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
90340634 AAATTGTACA
* * *
90340644 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
90340708 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
90340725 GCACTAAGTGTGCGAGATTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
90340790 TGCGAGTTGA
65 TGCGAATTGA
90340800 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:90340811 original size:82 final size:81
Alignment explanation
Indices: 90340640--90340820 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
90340630 GATTAAATTG
* * *
90340640 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
90340705 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
90340721 TGCGGCACTAAGTGTGCGAGATTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
90340785 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
90340803 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
90340821 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:90342198 original size:20 final size:20
Alignment explanation
Indices: 90342170--90342213 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
90342160 GGGTGTTACA
*
90342170 CACATGATATGTATAAAATG
1 CACACGATATGTATAAAATG
*
90342190 CACACGATATGTATGAAATG
1 CACACGATATGTATAAAATG
90342210 CACA
1 CACA
90342214 TGATGTATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (20 bp):
CACACGATATGTATAAAATG
Found at i:90342366 original size:25 final size:26
Alignment explanation
Indices: 90342267--90342492 Score: 305
Period size: 26 Copynumber: 8.8 Consensus size: 26
90342257 GAGGAACTGC
*
90342267 AAAAGGGCATATGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
** *
90342293 AAAAGGGCTTATGCCTTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* *
90342319 AAAAGGGATTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* *
90342345 AAAACGGCTT-TCCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* *
90342370 AAAAGGGTTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
90342396 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* *
90342422 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
90342448 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
90342473 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
90342493 ATTAAAGAGG
Statistics
Matches: 173, Mismatches: 26, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
25 53 0.31
26 120 0.69
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATCG
Found at i:90342408 original size:77 final size:78
Alignment explanation
Indices: 90342280--90342492 Score: 297
Period size: 77 Copynumber: 2.8 Consensus size: 78
90342270 AGGGCATATG
** * **
90342280 CCCCAGTTTATCGAAAAGGGCTTATGCCTTAGTTTACCGAAAAGGGATTATGCCCCAGTTTATTG
1 CCCCAGTTTATCGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTACCG
90342345 AAAACGGCTT-TC
66 AAAACGGCTTATC
* **
90342357 CCCCAGTTTATCGAAAAGGGTTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 CCCCAGTTTATCGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTACCG
* *
90342422 AAAAGGGCTTATG
66 AAAACGGCTTATC
* *
90342435 CCCTAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCGAAAAGGGCTT-TGCCCCAGTT
1 CCCCAGTTTATCGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTT
90342493 ATTAAAGAGG
Statistics
Matches: 120, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
76 10 0.08
77 89 0.74
78 21 0.17
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (78 bp):
CCCCAGTTTATCGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTACCG
AAAACGGCTTATC
Found at i:90342446 original size:103 final size:103
Alignment explanation
Indices: 90342267--90342492 Score: 355
Period size: 103 Copynumber: 2.2 Consensus size: 103
90342257 GAGGAACTGC
* **
90342267 AAAAGGGCATATGCCCCAGTTTATCGAAAAGGGCTTATGCCTTAGTTTACCGAAAAGGGATTATG
1 AAAAGGGCTTATGCCCCAGTTTATCGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGATTATG
*
90342332 CCCCAGTTTATTGAAAACGGCTTTCCCCCAGTTTATCG
66 CCCCAGTTTATTGAAAACGGCTTTCCCCCAGTTTACCG
* * *
90342370 AAAAGGGTTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATG
1 AAAAGGGCTTATGCCCCAGTTTATCGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGATTATG
* * *
90342435 CCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
66 CCCCAGTTTATTGAAAACGGCTTTCCCCCAGTTTACCG
90342473 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
90342493 ATTAAAGAGG
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
102 10 0.09
103 102 0.91
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (103 bp):
AAAAGGGCTTATGCCCCAGTTTATCGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGATTATG
CCCCAGTTTATTGAAAACGGCTTTCCCCCAGTTTACCG
Found at i:90342745 original size:31 final size:31
Alignment explanation
Indices: 90342710--90342784 Score: 132
Period size: 31 Copynumber: 2.4 Consensus size: 31
90342700 CATTTACAGT
90342710 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
* *
90342741 AAAGGCTTCGGGCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
90342772 AAAGGCTTCGGCC
1 AAAGGCTTCGGCC
90342785 TAGTAACCGT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATGATATGATTTATGA
Found at i:90342969 original size:104 final size:104
Alignment explanation
Indices: 90342789--90342996 Score: 398
Period size: 104 Copynumber: 2.0 Consensus size: 104
90342779 TCGGCCTAGT
*
90342789 AACCGTTAAACGAAAGGCTTCGGCCCAGTATATGTTAAGACTAAATAGGGCTTTGGCCCAGATTG
1 AACCGTTAAACGAAAGGCTTCGGCCCAGTATATGTCAAGACTAAATAGGGCTTTGGCCCAGATTG
90342854 TACTGATACTGTGTTTTCACTGCTTGTATGTTATTGGGA
66 TACTGATACTGTGTTTTCACTGCTTGTATGTTATTGGGA
*
90342893 AACCGTTAAACGAAAGGTTTCGGCCCAGTATATGTCAAGACTAAATAGGGCTTTGGCCCAGATTG
1 AACCGTTAAACGAAAGGCTTCGGCCCAGTATATGTCAAGACTAAATAGGGCTTTGGCCCAGATTG
90342958 TACTGATACTGTGTTTTCACTGCTTGTATGTTATTGGGA
66 TACTGATACTGTGTTTTCACTGCTTGTATGTTATTGGGA
90342997 TTACACACTA
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
104 102 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (104 bp):
AACCGTTAAACGAAAGGCTTCGGCCCAGTATATGTCAAGACTAAATAGGGCTTTGGCCCAGATTG
TACTGATACTGTGTTTTCACTGCTTGTATGTTATTGGGA
Found at i:90345169 original size:27 final size:27
Alignment explanation
Indices: 90345139--90345282 Score: 189
Period size: 27 Copynumber: 5.3 Consensus size: 27
90345129 TACTGAAATG
** *
90345139 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* * *
90345166 CCCTCGATTTATAGAATTACTGTTTCA
1 CCCTCGATTTACAGAATTACCGTTTTA
*
90345193 CCCTCGATTTACAGAATTATCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
90345220 CCCTCGATTTAAAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
90345247 CCCTCGATTTACAAAATTATCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
90345274 CCCTCGATT
1 CCCTCGATT
90345283 GTGAAATTAC
Statistics
Matches: 102, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 102 1.00
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCGTTTTA
Found at i:90345417 original size:27 final size:27
Alignment explanation
Indices: 90345272--90345515 Score: 147
Period size: 27 Copynumber: 9.0 Consensus size: 27
90345262 ATTATCGTTT
* * *
90345272 TACCCTCGA-TTGTGAAATTACTAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
* * *
90345298 TACCCCTG-TATGATAGAATTACCAAAA
1 TACCCTTGATTTG-TAAAATTACCAAAA
*
90345325 TACCCCT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTGTAAAATTACCAAAA
* * *
90345352 TACCAC-TGGTTTGTGAAATTACCGAAA
1 TACC-CTTGATTTGTAAAATTACCAAAA
**
90345379 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
** *
90345406 TACCCTTGATTTACAAAATGA-CAGAAA
1 TACCCTTGATTTGTAAAATTACCA-AAA
* * **
90345433 CACCCTTGACTTTCTAAAAATTATAAAAA
1 TACCCTTGA-TTTGT-AAAATTACCAAAA
** * ** **
90345462 TACTATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
* *
90345489 TACCCTTGATTTGTAGATTTACCAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
90345516 CACCTTTGTA
Statistics
Matches: 163, Mismatches: 44, Indels: 21
0.71 0.19 0.09
Matches are distributed among these distances:
26 11 0.07
27 127 0.78
28 10 0.06
29 14 0.09
30 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
TACCCTTGATTTGTAAAATTACCAAAA
Found at i:90345584 original size:27 final size:27
Alignment explanation
Indices: 90345541--90345614 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
90345531 AAATGACTAA
*
90345541 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
90345568 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
90345595 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
90345615 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:90345618 original size:27 final size:27
Alignment explanation
Indices: 90345554--90345618 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
90345544 ACCCCTAATA
*
90345554 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
90345581 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
90345608 GGTAAAATGAC
1 GGTAAAATGAC
90345619 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:90346288 original size:25 final size:25
Alignment explanation
Indices: 90346241--90346288 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
90346231 TTATAGTATG
* * * *
90346241 AAAATGACCGTTTTGCCCGTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
90346266 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
90346289 GTTTAATTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:90346349 original size:20 final size:20
Alignment explanation
Indices: 90346324--90346430 Score: 144
Period size: 20 Copynumber: 5.3 Consensus size: 20
90346314 GATATGATAT
*
90346324 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
90346344 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
*
90346364 ACATGAAATGTATGAAATGC
1 ACATGATATGTATGAAATGC
* *
90346384 GCATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
*
90346404 ACATGATATGTATGAAACGC
1 ACATGATATGTATGAAATGC
90346424 ACATGAT
1 ACATGAT
90346431 GTATTCATAA
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
20 74 0.97
21 2 0.03
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.29
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:90346516 original size:26 final size:26
Alignment explanation
Indices: 90346480--90346705 Score: 278
Period size: 26 Copynumber: 8.8 Consensus size: 26
90346470 GAGGAAGTGC
*
90346480 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
* * *
90346506 CAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
90346532 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
* * *
90346558 AAAACGGCTT-TGCCTCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
* *
90346583 AAAAGGGTTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
90346609 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
* *
90346635 AAAAGGGCTTATGCCCTAGTTTAATG
1 AAAAGGGCTTATGCCCCAGTTTACTG
* **
90346661 AAAAGGGCTT-TACCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
90346686 AAAAGGGCTT-TGCCGCAGTT
1 AAAAGGGCTTATGCCCCAGTT
90346706 ATTAAAGAGG
Statistics
Matches: 169, Mismatches: 30, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
25 48 0.28
26 121 0.72
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACTG
Found at i:90346567 original size:52 final size:51
Alignment explanation
Indices: 90346480--90346705 Score: 337
Period size: 52 Copynumber: 4.4 Consensus size: 51
90346470 GAGGAAGTGC
* *
90346480 AAAAGGGCTTATGCCCCAGTTTATTGCAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
* *
90346532 AAAAGGGCTTATGCCCCAGTTTATTGAAAACGGCTTTGCCTCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
*
90346583 AAAAGGGTTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
* * * *
90346635 AAAAGGGCTTATGCCCTAGTTTAATGAAAAGGGCTTTACCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
*
90346686 AAAAGGGCTT-TGCCGCAGTT
1 AAAAGGGCTTATGCCCCAGTT
90346706 ATTAAAGAGG
Statistics
Matches: 159, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
50 8 0.05
51 70 0.44
52 81 0.51
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:90346663 original size:103 final size:103
Alignment explanation
Indices: 90346480--90346705 Score: 355
Period size: 103 Copynumber: 2.2 Consensus size: 103
90346470 GAGGAAGTGC
* *
90346480 AAAAGGGCTTATGCCCCAGTTTATTGCAAAGGGCTTATGCCCTAGTTTACCGAAAAGGGCTTATG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATG
* * * *
90346545 CCCCAGTTTATTGAAAACGGCTTTGCCTCAGTTTACCG
66 CCCCAGTTTAATGAAAACGGCTTTACCCCAGTTTACCA
*
90346583 AAAAGGGTTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATG
* *
90346648 CCCTAGTTTAATGAAAAGGGCTTTACCCCAGTTTACCA
66 CCCCAGTTTAATGAAAACGGCTTTACCCCAGTTTACCA
*
90346686 AAAAGGGCTT-TGCCGCAGTT
1 AAAAGGGCTTATGCCCCAGTT
90346706 ATTAAAGAGG
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
102 9 0.08
103 103 0.92
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (103 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATG
CCCCAGTTTAATGAAAACGGCTTTACCCCAGTTTACCA
Found at i:90346958 original size:31 final size:31
Alignment explanation
Indices: 90346923--90347090 Score: 291
Period size: 31 Copynumber: 5.4 Consensus size: 31
90346913 CATTTACAGT
*
90346923 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
90346954 AAAGGCTTCGGGCCATTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
90346985 AAAGGCTTCGGCCTAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
90347016 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
90347047 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
90347078 AAAGGCTTCGGCC
1 AAAGGCTTCGGCC
90347091 TAGTAACCGT
Statistics
Matches: 129, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 129 1.00
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:90347155 original size:93 final size:93
Alignment explanation
Indices: 90346923--90347128 Score: 294
Period size: 93 Copynumber: 2.2 Consensus size: 93
90346913 CATTTACAGT
* * * *
90346923 AAAGGCTTCGGCCCAATGATATGATTTATGAAAAGGCTTCGGGCCATTGATATGATTTATGAAAA
1 AAAGGCTTCGGCCCAGTGATATGATTGATGAAAAGGCTTCGGCCCAGTGATATGATTTATGAAAA
* * *
90346988 GGCTTCGGCCTAGTGAAATGATTTATGA
66 GGCTTCGGCCTAGTGAAACGATTAACGA
*
90347016 AAAGGCTTCGGCCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGTGATATGATTTATGAAAA
1 AAAGGCTTCGGCCCAGTGATATGATTGATGAAAAGGCTTCGGCCCAGTGATATGATTTATGAAAA
*
90347081 GGCTTCGGCCTAGT-AACCG-TTAAACG-
66 GGCTTCGGCCTAGTGAAACGATT-AACGA
90347107 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
90347129 TTAAGACTAA
Statistics
Matches: 105, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
90 5 0.05
91 19 0.18
92 5 0.05
93 76 0.72
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (93 bp):
AAAGGCTTCGGCCCAGTGATATGATTGATGAAAAGGCTTCGGCCCAGTGATATGATTTATGAAAA
GGCTTCGGCCTAGTGAAACGATTAACGA
Found at i:90368639 original size:27 final size:27
Alignment explanation
Indices: 90368609--90368786 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
90368599 ATATTGAGTC
* * * *
90368609 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
90368636 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
90368663 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
90368691 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
90368718 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
90368745 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
90368772 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
90368787 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:90368748 original size:82 final size:81
Alignment explanation
Indices: 90368630--90368785 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
90368620 TGCTATATAA
* *
90368630 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
90368695 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
90368712 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
90368776 CACTTAGTGC
65 CACTTAGTGC
90368786 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:90376829 original size:27 final size:27
Alignment explanation
Indices: 90376799--90376976 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
90376789 ATATTGAGTC
* * * *
90376799 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
90376826 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
90376853 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
90376881 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
90376908 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
90376935 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
90376962 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
90376977 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:90376938 original size:82 final size:81
Alignment explanation
Indices: 90376820--90376975 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
90376810 TGCTATATAA
* *
90376820 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
90376885 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
90376902 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
90376966 CACTTAGTGC
65 CACTTAGTGC
90376976 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:90377477 original size:12 final size:12
Alignment explanation
Indices: 90377460--90377486 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
90377450 ATGGCATACT
90377460 TATGTATATATA
1 TATGTATATATA
90377472 TATGTATATATA
1 TATGTATATATA
90377484 TAT
1 TAT
90377487 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:90382868 original size:22 final size:22
Alignment explanation
Indices: 90382837--90382915 Score: 86
Period size: 22 Copynumber: 3.6 Consensus size: 22
90382827 AATACAATTT
*
90382837 GCACAAAGCCATAATCAACATA
1 GCACAGAGCCATAATCAACATA
* * *** *
90382859 GCACAGAGCCATATTTAGGTTG
1 GCACAGAGCCATAATCAACATA
90382881 GCACAGAGCCATAATCAACATA
1 GCACAGAGCCATAATCAACATA
*
90382903 GCACGGAGCCATA
1 GCACAGAGCCATA
90382916 TATAGGTTGG
Statistics
Matches: 43, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.39, C:0.25, G:0.19, T:0.16
Consensus pattern (22 bp):
GCACAGAGCCATAATCAACATA
Found at i:90382891 original size:44 final size:44
Alignment explanation
Indices: 90382837--90382941 Score: 174
Period size: 44 Copynumber: 2.4 Consensus size: 44
90382827 AATACAATTT
* *
90382837 GCACAAAGCCATAATCAACATAGCACAGAGCCATATTTAGGTTG
1 GCACAGAGCCATAATCAACATAGCACAGAGCCATATATAGGTTG
*
90382881 GCACAGAGCCATAATCAACATAGCACGGAGCCATATATAGGTTG
1 GCACAGAGCCATAATCAACATAGCACAGAGCCATATATAGGTTG
*
90382925 GCACAGAGGCATAATCA
1 GCACAGAGCCATAATCA
90382942 GATTAAGCAG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (44 bp):
GCACAGAGCCATAATCAACATAGCACAGAGCCATATATAGGTTG
Found at i:90382928 original size:22 final size:22
Alignment explanation
Indices: 90382859--90382937 Score: 79
Period size: 22 Copynumber: 3.6 Consensus size: 22
90382849 AATCAACATA
*
90382859 GCACAGAGCCATATTTAGGTTG
1 GCACAGAGCCATATATAGGTTG
*** *
90382881 GCACAGAGCCATA-ATCAACATA
1 GCACAGAGCCATATAT-AGGTTG
*
90382903 GCACGGAGCCATATATAGGTTG
1 GCACAGAGCCATATATAGGTTG
*
90382925 GCACAGAGGCATA
1 GCACAGAGCCATA
90382938 ATCAGATTAA
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
21 1 0.02
22 40 0.93
23 2 0.05
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (22 bp):
GCACAGAGCCATATATAGGTTG
Found at i:90383322 original size:27 final size:26
Alignment explanation
Indices: 90383292--90383376 Score: 116
Period size: 27 Copynumber: 3.2 Consensus size: 26
90383282 CAAAATAGTC
90383292 ATTTTATCCTACAAGGGTATTTTGGTA
1 ATTTTA-CCTACAAGGGTATTTTGGTA
90383319 ATTTTACACTACAAGGGTATTTTGGTA
1 ATTTTAC-CTACAAGGGTATTTTGGTA
** * *
90383346 ATTTTACAAACTAGGGTATTTCGGTA
1 ATTTTACCTACAAGGGTATTTTGGTA
90383372 ATTTT
1 ATTTT
90383377 CCAAACTGGG
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 21 0.40
27 32 0.60
ACGTcount: A:0.28, C:0.11, G:0.18, T:0.44
Consensus pattern (26 bp):
ATTTTACCTACAAGGGTATTTTGGTA
Found at i:90383416 original size:80 final size:81
Alignment explanation
Indices: 90383310--90383462 Score: 220
Period size: 80 Copynumber: 1.9 Consensus size: 81
90383300 CTACAAGGGT
* * * * *
90383310 ATTTTGGTAATTTTACACTACAAGGGTATTTTGGTAATTTTACAAACTAGG-GTATTTCGGTAAT
1 ATTTAGGTAATTTTACAATACAAGGGTATTTCGATAATTTTACAAACTAGGAGTATTTCAGTAAT
*
90383374 TTTCCAAACTGGGGAC
66 TTTACAAACTGGGGAC
*
90383390 ATTTAGGTAATTTTACAA-ATCGAGGGTATTTCGATAATTTTACAAACTAGGAGTATTTCAGTAA
1 ATTTAGGTAATTTTACAATA-CAAGGGTATTTCGATAATTTTACAAACTAGGAGTATTTCAGTAA
90383454 TTTTACAAA
65 TTTTACAAA
90383463 ACGGGGGTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
79 1 0.02
80 44 0.69
81 19 0.30
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.39
Consensus pattern (81 bp):
ATTTAGGTAATTTTACAATACAAGGGTATTTCGATAATTTTACAAACTAGGAGTATTTCAGTAAT
TTTACAAACTGGGGAC
Found at i:90383429 original size:54 final size:53
Alignment explanation
Indices: 90383305--90383482 Score: 173
Period size: 54 Copynumber: 3.3 Consensus size: 53
90383295 TTATCCTACA
* * * * * * *
90383305 AGGGTATTTTGGTAATTTTACACTACAAGG-GTATTTTGGTAATTTTACAAACT
1 AGGGTATTTCGATAATTTTACA-AACTAGGAGCATTTAGGTAATTTTACAAACG
* * *
90383358 AGGGTATTTCGGTAATTTTCCAAACT-GGGGACATTTAGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAACTAGGAG-CATTTAGGTAATTTTACAAA-CG
*
90383412 AGGGTATTTCGATAATTTTACAAACTAGGAGTATTTCA-GTAATTTTACAAAACG
1 AGGGTATTTCGATAATTTTACAAACTAGGAGCATTT-AGGTAATTTTAC-AAACG
* *
90383466 GGGGTATTTCGCTAATT
1 AGGGTATTTCGATAATT
90383483 CCACAAATCA
Statistics
Matches: 106, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
51 2 0.02
52 3 0.03
53 38 0.36
54 56 0.53
55 7 0.07
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (53 bp):
AGGGTATTTCGATAATTTTACAAACTAGGAGCATTTAGGTAATTTTACAAACG
Found at i:90383472 original size:27 final size:27
Alignment explanation
Indices: 90383302--90383508 Score: 147
Period size: 27 Copynumber: 7.7 Consensus size: 27
90383292 ATTTTATCCT
** **
90383302 ACAAGGGTATTTTGGTAATTTTACACT
1 ACAAGGGTATTTCAGTAATTTTACAAA
**
90383329 ACAAGGGTATTTTGGTAATTTTAC-AA
1 ACAAGGGTATTTCAGTAATTTTACAAA
* * *
90383355 ACTAGGGTATTTCGGTAATTTT-CCAA
1 ACAAGGGTATTTCAGTAATTTTACAAA
** *
90383381 ACTGGGGACATTT-AGGTAATTTTACAAA
1 ACAAGGG-TATTTCA-GTAATTTTACAAA
* *
90383409 TCGAGGGTATTTC-GATAATTTTAC-AA
1 ACAAGGGTATTTCAG-TAATTTTACAAA
*
90383435 ACTAGGAGTATTTCAGTAATTTTACAAA
1 ACAAGG-GTATTTCAGTAATTTTACAAA
** **
90383463 ACGGGGGTATTTC-GCTAATTCCACAAA
1 ACAAGGGTATTTCAG-TAATTTTACAAA
*
90383490 TCAAGGGTATTTCAGTAAT
1 ACAAGGGTATTTCAGTAAT
90383509 CTAAACAATT
Statistics
Matches: 148, Mismatches: 21, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
25 1 0.01
26 36 0.24
27 96 0.65
28 15 0.10
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (27 bp):
ACAAGGGTATTTCAGTAATTTTACAAA
Found at i:90383490 original size:81 final size:80
Alignment explanation
Indices: 90383330--90383502 Score: 222
Period size: 81 Copynumber: 2.1 Consensus size: 80
90383320 TTTTACACTA
* * * *
90383330 CAAGGGTATTTTGGTAATTTTACAAACTAGGGTATTTCGGTAATTTTCCAAACTGGGGACATTTA
1 CAAGGGTATTTCGATAATTTTACAAACTAGGGTATTTCAGTAATTTTCAAAACTGGGGACATTTA
* **
90383395 GGTAATTTTACAAAT
66 GCTAATTCCACAAAT
* **
90383410 CGAGGGTATTTCGATAATTTTACAAACTAGGAGTATTTCAGTAATTTTACAAAAC-GGGGGTATT
1 CAAGGGTATTTCGATAATTTTACAAACTAGG-GTATTTCAGTAATTTT-CAAAACTGGGGACATT
*
90383474 TCGCTAATTCCACAAAT
64 TAGCTAATTCCACAAAT
90383491 CAAGGGTATTTC
1 CAAGGGTATTTC
90383503 AGTAATCTAA
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
80 28 0.35
81 46 0.58
82 5 0.06
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (80 bp):
CAAGGGTATTTCGATAATTTTACAAACTAGGGTATTTCAGTAATTTTCAAAACTGGGGACATTTA
GCTAATTCCACAAAT
Found at i:90392934 original size:43 final size:43
Alignment explanation
Indices: 90392887--90392969 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 43
90392877 ACTGCCAACA
**
90392887 TCCCAGAC-GTGGTCTTACAT-GTAGTCACATATCGATGCCACTG
1 TCCCAGACAG-GGTCTTAC-TCGTAAACACATATCGATGCCACTG
*
90392930 TCCCAGACAGGGTCTTACTCGTAAACAGATATCGATGCCA
1 TCCCAGACAGGGTCTTACTCGTAAACACATATCGATGCCA
90392970 TGGTCCTACT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 1 0.03
43 33 0.94
44 1 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (43 bp):
TCCCAGACAGGGTCTTACTCGTAAACACATATCGATGCCACTG
Found at i:90396735 original size:41 final size:41
Alignment explanation
Indices: 90396629--90396740 Score: 143
Period size: 41 Copynumber: 2.7 Consensus size: 41
90396619 TTCAGCTTTA
* * * *
90396629 TGCCTAGCAGGCTTTATGCAAGTATATTATTTCAGGCTTAT
1 TGCCTAGCAGGCTTTATGCAGGTGTATTATTTCAGGCCTAC
* *
90396670 TGCCTAGCAGGCTTTATGCCGGTGTATTATTTTAGGCCTAC
1 TGCCTAGCAGGCTTTATGCAGGTGTATTATTTCAGGCCTAC
* * *
90396711 TGCCTAGCAGGCTCTGTGCTGGTGTATTAT
1 TGCCTAGCAGGCTTTATGCAGGTGTATTAT
90396741 ACTAGGCTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.38
Consensus pattern (41 bp):
TGCCTAGCAGGCTTTATGCAGGTGTATTATTTCAGGCCTAC
Found at i:90396747 original size:41 final size:41
Alignment explanation
Indices: 90396627--90396760 Score: 121
Period size: 41 Copynumber: 3.3 Consensus size: 41
90396617 TATTCAGCTT
* ** * *
90396627 TATGCCTAGCAGGCTTTATGCAAGTATATTAT-TTCAGGCT-
1 TATGCCTAGCAGGCTCTATGCCGGTGTATTATACT-AGGCTC
* **
90396667 TATTGCCTAGCAGGCTTTATGCCGGTGTATTATTTTAGGC-C
1 TA-TGCCTAGCAGGCTCTATGCCGGTGTATTATACTAGGCTC
* * *
90396708 TACTGCCTAGCAGGCTCTGTGCTGGTGTATTATACTAGGCTT
1 TA-TGCCTAGCAGGCTCTATGCCGGTGTATTATACTAGGCTC
90396750 TATGCCTAGCA
1 TATGCCTAGCA
90396761 AATTTTATGT
Statistics
Matches: 80, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
40 2 0.03
41 74 0.93
42 4 0.05
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (41 bp):
TATGCCTAGCAGGCTCTATGCCGGTGTATTATACTAGGCTC
Found at i:90399284 original size:39 final size:41
Alignment explanation
Indices: 90399183--90399366 Score: 224
Period size: 39 Copynumber: 4.6 Consensus size: 41
90399173 TTGAATGATG
* *
90399183 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA
*
90399223 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAATA
90399263 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
*
90399302 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
90399341 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
90399367 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 7, Indels: 14
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.02
39 71 0.55
40 44 0.34
41 12 0.09
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
Found at i:90409018 original size:40 final size:41
Alignment explanation
Indices: 90408922--90409026 Score: 126
Period size: 40 Copynumber: 2.6 Consensus size: 41
90408912 TGAATGATGT
*
90408922 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAA
* * * *
90408962 CCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTATAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGTGACCATAA
*
90409002 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
90409027 AACGAGTAGC
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 1 0.02
40 46 0.84
41 8 0.15
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAA
Found at i:90424711 original size:25 final size:26
Alignment explanation
Indices: 90424683--90424737 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
90424673 ATGTGTTACA
* *
90424683 AATTTTAATGCTTTAA-TGTTAT-ATG
1 AATTTAAATGC-TTAATTGCTATCATG
90424708 AATTTAAATGCTTAATTGCTATCATG
1 AATTTAAATGCTTAATTGCTATCATG
90424734 AATT
1 AATT
90424738 ATACGCATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 4 0.15
25 15 0.58
26 7 0.27
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.47
Consensus pattern (26 bp):
AATTTAAATGCTTAATTGCTATCATG
Found at i:90427455 original size:46 final size:46
Alignment explanation
Indices: 90427286--90427460 Score: 158
Period size: 46 Copynumber: 3.8 Consensus size: 46
90427276 AATATTCACA
* * **
90427286 TATTCTCGATTCCACAACATATTCAAGAGCT-TAAAACCTAAACTTG
1 TATTCTCGATTCCACAACATATGCAGGAGCTCT-AAACCTATTCTTG
* * **
90427332 TATTCTCG-TGTCCGCAACATATGTAGGAGCTC-AGAATTTATTCTTG
1 TATTCTCGAT-TCCACAACATATGCAGGAGCTCTA-AACCTATTCTTG
* * * * * *
90427378 TATTCTTGAATCCGCAACATGTGTAGGAGCTCTAAACCTATTCATG
1 TATTCTCGATTCCACAACATATGCAGGAGCTCTAAACCTATTCTTG
* *
90427424 TATCCTCGATTCCACAACATATGCAGGAGCTCGAAAC
1 TATTCTCGATTCCACAACATATGCAGGAGCTCTAAAC
90427461 ATGGGCAAAA
Statistics
Matches: 103, Mismatches: 21, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
45 2 0.02
46 100 0.97
47 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.31
Consensus pattern (46 bp):
TATTCTCGATTCCACAACATATGCAGGAGCTCTAAACCTATTCTTG
Found at i:90429543 original size:46 final size:46
Alignment explanation
Indices: 90429474--90429634 Score: 141
Period size: 46 Copynumber: 3.5 Consensus size: 46
90429464 TGTAACCCGC
* * * * *
90429474 CCATAAGCAAACTCAGACGCAACTCAACAAACTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
* *
90429520 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C-A-TTCGCAT
* * *
90429570 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
* *
90429613 CCACAAGTGAACTCGGACTCAA
1 CCATAAGCGAACTCGGACTCAA
90429635 ATTAATGAGT
Statistics
Matches: 91, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 1 0.01
46 44 0.48
47 27 0.30
48 3 0.03
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.32, C:0.31, G:0.18, T:0.19
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
Found at i:90429652 original size:93 final size:93
Alignment explanation
Indices: 90429483--90429653 Score: 234
Period size: 93 Copynumber: 1.8 Consensus size: 93
90429473 CCCATAAGCA
* * *
90429483 AACTCAGACGCAACTCAACAAACTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCAGACGCAACTCAACAAACTCGGACATTCGCATCCACAAGTGAACTCGGACTCAAATCAAC
*
90429548 GAGCTCGGATGCCTAGTTACATCTCACG
66 GAGCTCAGATGCCTAGTTACATCTCACG
* * * ** * *
90429576 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCACAAGTGAACTCGGACTCAAATTAAT
1 AACTCAGACGCAACTCAACAAACTCGGACATTCGCATCCACAAGTGAACTCGGACTCAAATCAAC
*
90429641 GAGTTCAGATGCC
66 GAGCTCAGATGCC
90429654 CAAATATCCT
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
93 66 1.00
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (93 bp):
AACTCAGACGCAACTCAACAAACTCGGACATTCGCATCCACAAGTGAACTCGGACTCAAATCAAC
GAGCTCAGATGCCTAGTTACATCTCACG
Found at i:90431034 original size:22 final size:22
Alignment explanation
Indices: 90430986--90431063 Score: 113
Period size: 22 Copynumber: 3.6 Consensus size: 22
90430976 CATTTTCCAA
* **
90430986 AACCACTTG-ACTTTACGAACG
1 AACCACTTGTACTTTAGGATTG
*
90431007 AGCCACTTGTACTTTAGGATTG
1 AACCACTTGTACTTTAGGATTG
90431029 AACCACTTGTACTTTAGGATTG
1 AACCACTTGTACTTTAGGATTG
90431051 AACCACTTGTACT
1 AACCACTTGTACT
90431064 AAACTAATTA
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
21 8 0.16
22 43 0.84
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (22 bp):
AACCACTTGTACTTTAGGATTG
Found at i:90431477 original size:18 final size:19
Alignment explanation
Indices: 90431456--90431509 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
90431446 AAAATAAAAG
*
90431456 AAAAG-AAAAATAGATTTA
1 AAAAGAAAAAATAAATTTA
90431474 AAAAGAAAAAATAAATTTA
1 AAAAGAAAAAATAAATTTA
*
90431493 AGAAA-ATAAAATAAATT
1 A-AAAGAAAAAATAAATT
90431510 GGTAAATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
18 5 0.16
19 24 0.75
20 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.22
Consensus pattern (19 bp):
AAAAGAAAAAATAAATTTA
Found at i:90432384 original size:13 final size:13
Alignment explanation
Indices: 90432366--90432397 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
90432356 AGATTTTTCT
90432366 TAAATATTATCAC
1 TAAATATTATCAC
90432379 TAAATATTATCAC
1 TAAATATTATCAC
90432392 TAAATA
1 TAAATA
90432398 ACTTAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAATATTATCAC
Found at i:90432986 original size:15 final size:15
Alignment explanation
Indices: 90432966--90432999 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
90432956 CAATATATAC
90432966 TTTTATTTATATATT
1 TTTTATTTATATATT
* *
90432981 TTTTATTTTTTTATT
1 TTTTATTTATATATT
90432996 TTTT
1 TTTT
90433000 TCAAACTTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTATTTATATATT
Found at i:90443539 original size:13 final size:13
Alignment explanation
Indices: 90443498--90443553 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
90443488 TAGGTTTTTC
*
90443498 CTAAATATTATCT
1 CTAAATATTATCA
*
90443511 C-AAA-ATAATC-
1 CTAAATATTATCA
90443521 CTAAATATT-TCCA
1 CTAAATATTAT-CA
90443534 CTAAATATTATCA
1 CTAAATATTATCA
90443547 CTAAATA
1 CTAAATA
90443554 ATTTAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
10 1 0.03
11 9 0.25
12 6 0.17
13 19 0.53
14 1 0.03
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:90443808 original size:6 final size:5
Alignment explanation
Indices: 90443775--90443807 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
90443765 TTGTGTGTTC
90443775 TTTAT TTTA- TTTAT TTTAT TTTATT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTA-T TTTAT TTT
90443808 TTTCACAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 17 0.65
6 5 0.19
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:90450007 original size:46 final size:46
Alignment explanation
Indices: 90449954--90450218 Score: 256
Period size: 47 Copynumber: 5.7 Consensus size: 46
90449944 TGTCTGGGCT
* *
90449954 AGTGTAAGACATTTCTGGGACATGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-GATGAGAGCC
* * *
90450000 AGTGTAAGACCATGTCTGGGACATGGCATCAG-CATTGAGATGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CGAGATGAGAGCC
*
90450048 AGTGTAAGACATGTC-GGGACATGCATCGGCCACGAGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATG-AGAGCC
* * *
90450093 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAGAGCC
* * **
90450139 AATGTAAGACCATGTCTGGGACATGGCATC-GACTTGAGAT-ATGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACGAGATGA-GAGCC
*
90450186 AGTGTAAGACCGTGT-TAGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCT-GGGACAT-GCATCGGC
90450219 ACCTTACCCA
Statistics
Matches: 184, Mismatches: 22, Indels: 24
0.80 0.10 0.10
Matches are distributed among these distances:
45 30 0.16
46 54 0.29
47 70 0.38
48 29 0.16
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAGAGCC
Found at i:90450160 original size:93 final size:94
Alignment explanation
Indices: 90449951--90450215 Score: 266
Period size: 93 Copynumber: 2.8 Consensus size: 94
90449941 ATGTGTCTGG
* * * *
90449951 GCTAGTGTAAGACATTTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAATGTAAGACATGTCTGGGACATGCATCGGCCACATGACGAGAGCCAGTGTAAGACCATGTC
*
90450016 TGGGACATGGCATCAGCATTGAGATGAGA
66 TGGGACATGGCATCAGCATCGAGATGAGA
*
90450045 GCTAGTGTAAGACATGTC-GGGACATGCATCGGCCACGA-GACGTA-AGCCAGTGTAAGA-CATG
1 GCTAATGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGACG-AGAGCCAGTGTAAGACCATG
* *
90450106 TCTGGGACAT-GCATCGGC-TACGAGATGATA
64 TCTGGGACATGGCATCAGCAT-CGAGATGAGA
*
90450136 G-TCAATGTAAGACCATGTCTGGGACATGGCATC-G--ACTTGA-GATATGAGCCAGTGTAAGAC
1 GCT-AATGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATGACG--A-GAGCCAGTGTAAGAC
*
90450196 CGTGT-TAGGGACATGGCATC
60 CATGTCT-GGGACATGGCATC
90450216 GGCACCTTAC
Statistics
Matches: 148, Mismatches: 9, Indels: 27
0.80 0.05 0.15
Matches are distributed among these distances:
90 3 0.02
91 30 0.20
92 20 0.14
93 55 0.37
94 35 0.24
95 5 0.03
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (94 bp):
GCTAATGTAAGACATGTCTGGGACATGCATCGGCCACATGACGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCAGCATCGAGATGAGA
Found at i:90451251 original size:13 final size:13
Alignment explanation
Indices: 90451233--90451269 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
90451223 AATTAATTCT
90451233 ACACGGGTGTGGG
1 ACACGGGTGTGGG
90451246 ACACGGGTGTGGG
1 ACACGGGTGTGGG
90451259 ACACGGGTGTG
1 ACACGGGTGTG
90451270 TCCCAGGGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.16, C:0.16, G:0.51, T:0.16
Consensus pattern (13 bp):
ACACGGGTGTGGG
Found at i:90458846 original size:46 final size:46
Alignment explanation
Indices: 90458796--90458968 Score: 169
Period size: 46 Copynumber: 3.7 Consensus size: 46
90458786 TGGTTGAGCA
*
90458796 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
90458842 TCCGAACTCGTTGAGTTGAGTCCGAG----CTTGTGAAATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
* *
90458887 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
90458935 -CCTGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
90458969 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 12, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
42 7 0.07
43 4 0.04
45 2 0.02
46 54 0.52
47 25 0.24
48 1 0.01
50 3 0.03
51 7 0.07
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:90471115 original size:44 final size:42
Alignment explanation
Indices: 90471023--90471127 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 42
90471013 AATGGCACTA
* * * *
90471023 TCCCAGACAGGGTCTTACACAAAATCATATACGATGCTAATG
1 TCCCAGACATGGTCTTACACAAAATCAAATACGATGCCAACG
*
90471065 TCCCAGACATGGTCTTACACGTAAATCTCAAAT-CGATGCCAACG
1 TCCCAGACATGGTCTTACAC--AAA-ATCAAATACGATGCCAACG
* *
90471109 TCCCAGACGTGGTCATACA
1 TCCCAGACATGGTCTTACA
90471128 TGAAATCACA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 19 0.36
44 29 0.55
45 5 0.09
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACAAAATCAAATACGATGCCAACG
Found at i:90472955 original size:13 final size:13
Alignment explanation
Indices: 90472937--90472962 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
90472927 CCCAAGTTAT
90472937 TTTTTTATTTTTA
1 TTTTTTATTTTTA
90472950 TTTTTTATTTTTA
1 TTTTTTATTTTTA
90472963 CATATGATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:90473818 original size:127 final size:127
Alignment explanation
Indices: 90473592--90473914 Score: 479
Period size: 127 Copynumber: 2.5 Consensus size: 127
90473582 GAAAATTCCA
* * *
90473592 TAAAACGAAGGCAATGTTTGATGTTTGGAAATTCAGGG-ATCGTGCCCTATCGTGCTGGGTTTCG
1 TAAAAC-AAGGCAATGTTTAATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCA
* * * *
90473656 ACTTCCTGTTTGTTCAAAATAATCAAATATTCCTTTAGAATTTCACTCGTGTTTT-TCACATTC
65 ATTTTCGGTTTGTTCAAAATAATCAAATATTCCTTTAGAATTTCACTCGTGTTTTAT-AAATTC
*
90473719 TAAAACAAGGCAATGTTTAATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGTTGGGTTTCAA
1 TAAAACAAGGCAATGTTTAATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCAA
**
90473784 TTTTCGGTTTGTTCAAAATAATTGAATATTCCTTTAGAATTTCACTCGTGTTTTATAAATTC
66 TTTTCGGTTTGTTCAAAATAATCAAATATTCCTTTAGAATTTCACTCGTGTTTTATAAATTC
* * * * *
90473846 TAAAGCAAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTACCGTGCTGGGTTTCAG
1 TAAAACAAGGCAATGTTTAATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCAA
90473911 TTTT
66 TTTT
90473915 TTGTTGGAGT
Statistics
Matches: 178, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
126 29 0.16
127 148 0.83
128 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.37
Consensus pattern (127 bp):
TAAAACAAGGCAATGTTTAATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCAA
TTTTCGGTTTGTTCAAAATAATCAAATATTCCTTTAGAATTTCACTCGTGTTTTATAAATTC
Found at i:90498209 original size:25 final size:25
Alignment explanation
Indices: 90498181--90498275 Score: 145
Period size: 25 Copynumber: 3.8 Consensus size: 25
90498171 CTCTTTTAAT
* *
90498181 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
* *
90498206 AACTAGGGCAAATCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
90498231 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
90498256 AACTGGGGCAAAGGCCTTTT
1 AACTGGGGCAAAGCCCTTTT
90498276 AGCACTTCCT
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 63 1.00
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:90498555 original size:27 final size:26
Alignment explanation
Indices: 90498525--90498737 Score: 149
Period size: 27 Copynumber: 7.9 Consensus size: 26
90498515 TACCCTACAG
**
90498525 GGGTATTTTAGTAATTTTTTAAATCGA
1 GGGTATTTTAGTAATTTTACAAA-CGA
*** * * *
90498552 GGGTAAAATAATAATTCTGTA-AAATGG
1 GGGTATTTTAGTAATT-T-TACAAACGA
* * * *
90498579 GGGTACTTTGGTAATTTCACAAGTCGA
1 GGGTATTTTAGTAATTTTACAA-ACGA
* *
90498606 GGGTATTTTAGTAATTTCACAAACCA
1 GGGTATTTTAGTAATTTTACAAACGA
* *
90498632 GGGGTATTTTGGTAATTTTACAAACTA
1 -GGGTATTTTAGTAATTTTACAAACGA
* *
90498659 GGGGTATTTTGGTAATTTTACAAACCA
1 -GGGTATTTTAGTAATTTTACAAACGA
* * * *
90498686 GTGGTATTTTGGTAAATTTATAAACCAA
1 G-GGTATTTTAGTAATTTTACAAA-CGA
90498714 GGGTATTTTAGTAATTTTACAAAC
1 GGGTATTTTAGTAATTTTACAAAC
90498738 CAAGGGTAAT
Statistics
Matches: 149, Mismatches: 30, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
25 1 0.01
26 7 0.05
27 133 0.89
28 7 0.05
29 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (26 bp):
GGGTATTTTAGTAATTTTACAAACGA
Found at i:90498738 original size:27 final size:27
Alignment explanation
Indices: 90498579--90498754 Score: 210
Period size: 27 Copynumber: 6.5 Consensus size: 27
90498569 TGTAAAATGG
* * ** *
90498579 GGGTACTTTGGTAATTTCACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * *
90498606 GGGTATTTTAGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
90498633 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAA
90498660 GGGTATTTTGGTAATTTTACAAACC-A
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
90498686 GTGGTATTTTGGTAAATTTATAAACCAA
1 G-GGTATTTTGGTAATTTTACAAACCAA
*
90498714 GGGTATTTTAGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
*
90498741 GGGTAATTTGGTAA
1 GGGTATTTTGGTAA
90498755 ACTAAAGTAT
Statistics
Matches: 129, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 1 0.01
27 126 0.98
28 2 0.02
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAA
Found at i:90512900 original size:123 final size:123
Alignment explanation
Indices: 90512681--90512926 Score: 465
Period size: 123 Copynumber: 2.0 Consensus size: 123
90512671 GTATTTGATA
*
90512681 TTTGGTTGTTTTGATCTTAGTTATGAGTCTGGTAATGCCTCTTAACCTAATCCAGCGACGGGTAC
1 TTTGGTTGTTTTGATCTTAGTTATGAGTCTGGTAATGCCTCTTAACCTAAGCCAGCGACGGGTAC
90512746 GGGTTAGGGGGGTTACATTTTATTGGTAGTTTAGTCAGTTCTAGCACTACCATAGCAT
66 GGGTTAGGGGGGTTACATTTTATTGGTAGTTTAGTCAGTTCTAGCACTACCATAGCAT
90512804 TTTGGTTGTTTTGATCTTAGTTATGAGTCTGGTAATGCCTCTTAACCTAAGCCAGCGACGGGTAC
1 TTTGGTTGTTTTGATCTTAGTTATGAGTCTGGTAATGCCTCTTAACCTAAGCCAGCGACGGGTAC
* *
90512869 GGGTTAGGGGTGTTACATTTTATTGGTAGTTTAGTCAGTTCTAGGACTACCATAGCAT
66 GGGTTAGGGGGGTTACATTTTATTGGTAGTTTAGTCAGTTCTAGCACTACCATAGCAT
90512927 ATGTGAGTCT
Statistics
Matches: 120, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
123 120 1.00
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.37
Consensus pattern (123 bp):
TTTGGTTGTTTTGATCTTAGTTATGAGTCTGGTAATGCCTCTTAACCTAAGCCAGCGACGGGTAC
GGGTTAGGGGGGTTACATTTTATTGGTAGTTTAGTCAGTTCTAGCACTACCATAGCAT
Found at i:90517477 original size:6 final size:6
Alignment explanation
Indices: 90517468--90517547 Score: 67
Period size: 6 Copynumber: 13.7 Consensus size: 6
90517458 CTCAATCTCA
* * * * * * *
90517468 TTTTCT TTTTCT TTCTCT ATTTCT TTTTCA CTTTCT TTTTCA CTTTCG
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
90517516 TTTTCT TTTTC- -TTTCT TTTCTCT TTTT-T TTTT
1 TTTTCT TTTTCT TTTTCT TTT-TCT TTTTCT TTTT
90517548 ATTTCTTTAC
Statistics
Matches: 58, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
4 4 0.07
5 5 0.09
6 43 0.74
7 6 0.10
ACGTcount: A:0.04, C:0.20, G:0.01, T:0.75
Consensus pattern (6 bp):
TTTTCT
Found at i:90517484 original size:24 final size:24
Alignment explanation
Indices: 90517457--90517531 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
90517447 TTAGGCTCAA
*
90517457 TCTCAATCTCATTTTCTTTTTCTT
1 TCTCAATTTCATTTTCTTTTTCTT
* * **
90517481 TCTCTATTTCTTTTTCACTTTCTT
1 TCTCAATTTCATTTTCTTTTTCTT
* * *
90517505 TTTCACTTTCGTTTTCTTTTTCTT
1 TCTCAATTTCATTTTCTTTTTCTT
90517529 TCT
1 TCT
90517532 TTTCTCTTTT
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.08, C:0.24, G:0.01, T:0.67
Consensus pattern (24 bp):
TCTCAATTTCATTTTCTTTTTCTT
Found at i:90517541 original size:16 final size:16
Alignment explanation
Indices: 90517499--90517541 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
90517489 TCTTTTTCAC
90517499 TTTCTTTTTCACTTTCGT
1 TTTCTTTTT--CTTTCGT
90517517 TTTCTTTTTCTTTC-T
1 TTTCTTTTTCTTTCGT
90517532 TTTCTCTTTT
1 TTTCT-TTTT
90517542 TTTTTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.25
16 9 0.38
18 9 0.38
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.74
Consensus pattern (16 bp):
TTTCTTTTTCTTTCGT
Found at i:90520016 original size:46 final size:46
Alignment explanation
Indices: 90519966--90520141 Score: 164
Period size: 46 Copynumber: 3.8 Consensus size: 46
90519956 TGGTTGAGCA
*
90519966 TCCGAACTCGTTGAGTTGAGT-TCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCT-GAGTTCACTTATGGATGCAAACG
* * * * *
90520012 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAA--A--CG
* * *
90520059 TCCGAACTCATTGAGTTGAGTCTGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACG
* *
90520105 -CCTGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGG
90520142 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 58 0.56
47 27 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACG
Found at i:90520122 original size:93 final size:93
Alignment explanation
Indices: 90519963--90520134 Score: 258
Period size: 93 Copynumber: 1.8 Consensus size: 93
90519953 GGATGGTTGA
* * *
90519963 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTTCGAGTTCACTCATGGATGCAAACGTCCGAACTCGTTGAGT
90520028 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
90520056 GCATCCGAACTCATTGAGTTGAG-TCTGAGTTCACTCATGGATGCGAACG-CCTGAGCTCGTTGA
1 GCATCCGAACTCATTGAGTTGAGTTC-GAGTTCACTCATGGATGCAAACGTCC-GAACTCGTTGA
*
90520119 GTTGAGTCTGAGTTCG
64 GTTGAGTCCGAGTTCG
90520135 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
92 4 0.06
93 67 0.94
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTTCGAGTTCACTCATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:90522485 original size:29 final size:30
Alignment explanation
Indices: 90522446--90522504 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
90522436 TTCATGCTAG
* * *
90522446 ACAACTCCTTTAATGTTGTTCTATGCACCA
1 ACAACTCCTTTAATGCTATTCCATGCACCA
90522476 ACAACT-CTTTAATGCTATTCCATGCACCA
1 ACAACTCCTTTAATGCTATTCCATGCACCA
90522505 GCAGCTCAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 20 0.77
30 6 0.23
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (30 bp):
ACAACTCCTTTAATGCTATTCCATGCACCA
Found at i:90523423 original size:50 final size:50
Alignment explanation
Indices: 90523339--90523438 Score: 139
Period size: 50 Copynumber: 2.0 Consensus size: 50
90523329 AATGCTAGGG
*
90523339 AAAGAGTAATAACCGAGCTTGTTATAGTTGTGGTTCA-AGAAATCATTTTA
1 AAAGAGTAATAACCGAGCTTGTTAGAGTTGTGGTTCACA-AAATCATTTTA
** * *
90523389 AAAGAGTAATAATTGGGCTTGTTAGAGTTTTGGTTCACAAAATCATTTTA
1 AAAGAGTAATAACCGAGCTTGTTAGAGTTGTGGTTCACAAAATCATTTTA
90523439 TAAAAGATTG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
50 43 0.98
51 1 0.02
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (50 bp):
AAAGAGTAATAACCGAGCTTGTTAGAGTTGTGGTTCACAAAATCATTTTA
Found at i:90529195 original size:30 final size:30
Alignment explanation
Indices: 90529161--90529218 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
90529151 TTGTGTGTCT
** * *
90529161 CAGCCATGTGTGACACACGGTCTCGTTACA
1 CAGCCATGTGCAACACACAGTCACGTTACA
90529191 CAGCCATGTGCAACACACAGTCACGTTA
1 CAGCCATGTGCAACACACAGTCACGTTA
90529219 TATAGCCGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.21
Consensus pattern (30 bp):
CAGCCATGTGCAACACACAGTCACGTTACA
Found at i:90532546 original size:29 final size:29
Alignment explanation
Indices: 90532514--90532596 Score: 121
Period size: 29 Copynumber: 2.9 Consensus size: 29
90532504 AATTTCACAT
* *
90532514 ACCTGTATCTGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCTATTAGGCCCAAATC
*
90532543 ACCTGTATATGTCCTATTAGGCCCAAATC
1 ACCTGTATATGGCCTATTAGGCCCAAATC
* *
90532572 ACATTTATATGGCCTATTAGGCCCA
1 ACCTGTATATGGCCTATTAGGCCCA
90532597 GTCACATTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (29 bp):
ACCTGTATATGGCCTATTAGGCCCAAATC
Found at i:90533951 original size:16 final size:16
Alignment explanation
Indices: 90533932--90533963 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
90533922 GGAATTCTAA
90533932 ATTTCAGGATTTTTGG
1 ATTTCAGGATTTTTGG
*
90533948 ATTTCGGGATTTTTGG
1 ATTTCAGGATTTTTGG
90533964 GGCATTACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.06, G:0.28, T:0.50
Consensus pattern (16 bp):
ATTTCAGGATTTTTGG
Found at i:90534246 original size:48 final size:48
Alignment explanation
Indices: 90534191--90534983 Score: 281
Period size: 48 Copynumber: 17.1 Consensus size: 48
90534181 GTTTACGCTA
* *
90534191 TTTTAAGGGCTACTGTTTGATGTATTAATGCAGCAGAAAAATATGTTG
1 TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTG
* * *
90534239 TTTTAAGGAC-AGCTGTTTGGTGTATTAATGTAGTAGAAAAAT-TATTG
1 TTTTAAGGACTA-CTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTG
* * * * * **
90534286 -TTT-AGG-CGTCAAT-TAATGTTGT-TTAAGTG-A-C-TATATTTATGTTG
1 TTTTAAGGAC-T-ACTGT-TTGGTGTATTAA-TGCAGCAGAAAAATATGTTG
* * * *
90534330 TTTTAAGGACTGCTGTTTAGTGTATTAATACAGTAGAAAAATATGTTG
1 TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTG
** * * *
90534378 TTTTAAGGACTGTTGTTTGGTGTATTAATGCAGCAAAAAAAT-TCTAG
1 TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTG
* * * * * * * **
90534425 -TTT-A-GTCGTCAAT-TAATGTTGT-TTAGGTG-A-CTG-TATTTATGTTG
1 TTTTAAGGAC-T-ACTGT-TTGGTGTATTA-ATGCAGCAGAAAAATATGTTG
** * *
90534469 TTTTAAGGACTGTTGTTTGGTGTATTACTGCAGTAGAAAAATATGTTG
1 TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTG
*
90534517 TTTTAAGGACTACTGTTTGATGTATTAATGCAGCAGAAAAAT-TGTTG
1 TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTG
* * * * ** * * * * **
90534564 -TTTAGATGTCAAAT-AATGTTGT-CTAAGTG-A-CTG-TATTTAT-TCTG
1 TTTTA-AGGACTACTGTTTGGTGTATTAA-TGCAGCAGAAAAATATGT-TG
* *
90534608 TTTTAAGGACTACTATTTGGTGTACTAATGCAGCAGAAAAATATGTTG
1 TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTG
** *
90534656 TTTTAAGGACTGTTGTTTGGTGTATTAATGCAGTAGAAAAAT-TGTTG
1 TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTG
* **** * * * * * ** * *
90534703 -TTT-AGG-CATCAAT-TAACATTGTCTGAGTG-A-CTG-TATTTATGCTA
1 TTTTAAGGAC-T-ACTGT-TTGGTGTATTAATGCAGCAGAAAAATATGTTG
** *
90534747 TTTTAAGGACTGTTGTTTGGTGTATTAATGTAGCAGAAAAATATGTTG
1 TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTG
** *
90534795 TTTTAAGGACTGTTGTTTGGTGTATTAATGCAACAGAAAAAT-TGTTG
1 TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTG
* * * * * * ** *
90534842 -TTTAGACGTCAATTAATG-TT-GTGTA--AGTG-A-C-TATATGTATGCTG
1 TTTTA-A-G--GACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTG
* * * * *
90534886 TCTTAAGGACTATTGTTTAGTGTATTAATGCAGCAGAAAAATATGCTA
1 TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTG
* * ** *
90534934 TTTTAGGGATTGTTGTTTGGTGTATTAATGCAGCAGAAAAAT-TATTG
1 TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTG
90534981 TTT
1 TTT
90534984 AGACATCAAT
Statistics
Matches: 532, Mismatches: 150, Indels: 127
0.66 0.19 0.16
Matches are distributed among these distances:
41 5 0.01
42 2 0.00
43 19 0.04
44 32 0.06
45 75 0.14
46 80 0.15
47 45 0.08
48 267 0.50
49 3 0.01
50 4 0.01
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.41
Consensus pattern (48 bp):
TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTG
Found at i:90534441 original size:139 final size:139
Alignment explanation
Indices: 90534191--90535025 Score: 1114
Period size: 139 Copynumber: 6.0 Consensus size: 139
90534181 GTTTACGCTA
* * * *
90534191 TTTTAAGGGCTACTGTTTGATGTATTAATGCAGCAGAAAAATATGTTGTTTTAAGGACAGCTGTT
1 TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTGTTTTAAGGACTGTTGTT
* * * * *
90534256 TGGTGTATTAATGTAGTAGAAAAATTATTGTTTAGGCGTCAATTAATGTTGTTTAAGTGACTATA
66 TGGTGTATTAATGCAGCAGAAAAATTGTTGTTTAGACGTCAATTAATGTTGTCTAAGTGACTATA
90534321 TTTATGTTG
131 TTTATGTTG
* * * *
90534330 TTTTAAGGACTGCTGTTTAGTGTATTAATACAGTAGAAAAATATGTTGTTTTAAGGACTGTTGTT
1 TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTGTTTTAAGGACTGTTGTT
* * * * * * *
90534395 TGGTGTATTAATGCAGCAAAAAAATTCTAGTTTAGTCGTCAATTAATGTTGTTTAGGTGACTGTA
66 TGGTGTATTAATGCAGCAGAAAAATTGTTGTTTAGACGTCAATTAATGTTGTCTAAGTGACTATA
90534460 TTTATGTTG
131 TTTATGTTG
** * * **
90534469 TTTTAAGGACTGTTGTTTGGTGTATTACTGCAGTAGAAAAATATGTTGTTTTAAGGACTACTGTT
1 TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTGTTTTAAGGACTGTTGTT
* * * *
90534534 TGATGTATTAATGCAGCAGAAAAATTGTTGTTTAGATGTCAAATAATGTTGTCTAAGTGACTGTA
66 TGGTGTATTAATGCAGCAGAAAAATTGTTGTTTAGACGTCAATTAATGTTGTCTAAGTGACTATA
90534599 TTTAT-TCTG
131 TTTATGT-TG
* *
90534608 TTTTAAGGACTACTATTTGGTGTACTAATGCAGCAGAAAAATATGTTGTTTTAAGGACTGTTGTT
1 TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTGTTTTAAGGACTGTTGTT
* * * ** * *
90534673 TGGTGTATTAATGCAGTAGAAAAATTGTTGTTTAGGCATCAATTAACATTGTCTGAGTGACTGTA
66 TGGTGTATTAATGCAGCAGAAAAATTGTTGTTTAGACGTCAATTAATGTTGTCTAAGTGACTATA
* *
90534738 TTTATGCTA
131 TTTATGTTG
** *
90534747 TTTTAAGGACTGTTGTTTGGTGTATTAATGTAGCAGAAAAATATGTTGTTTTAAGGACTGTTGTT
1 TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTGTTTTAAGGACTGTTGTT
* *
90534812 TGGTGTATTAATGCAACAGAAAAATTGTTGTTTAGACGTCAATTAATGTTGTGTAAGTGACTATA
66 TGGTGTATTAATGCAGCAGAAAAATTGTTGTTTAGACGTCAATTAATGTTGTCTAAGTGACTATA
* *
90534877 TGTATGCTG
131 TTTATGTTG
* * * * * * *
90534886 TCTTAAGGACTATTGTTTAGTGTATTAATGCAGCAGAAAAATATGCTATTTTAGGGATTGTTGTT
1 TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTGTTTTAAGGACTGTTGTT
* * *
90534951 TGGTGTATTAATGCAGCAGAAAAATTATTGTTTAGACATCAATTAATGTTGTCTAAGTGATTATA
66 TGGTGTATTAATGCAGCAGAAAAATTGTTGTTTAGACGTCAATTAATGTTGTCTAAGTGACTAT-
90535016 AATTTATGTT
130 -ATTTATGTT
90535026 AATAACGGTT
Statistics
Matches: 611, Mismatches: 81, Indels: 6
0.88 0.12 0.01
Matches are distributed among these distances:
138 1 0.00
139 603 0.99
141 7 0.01
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (139 bp):
TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTGTTTTAAGGACTGTTGTT
TGGTGTATTAATGCAGCAGAAAAATTGTTGTTTAGACGTCAATTAATGTTGTCTAAGTGACTATA
TTTATGTTG
Found at i:90536038 original size:101 final size:101
Alignment explanation
Indices: 90535896--90536108 Score: 345
Period size: 101 Copynumber: 2.1 Consensus size: 101
90535886 TATTCAAACA
* *
90535896 TAAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGGGCTATGGCATTCTAA
1 TAAGACCATGGTTGGACCATGGCACTATTTATATGTAAGACCATAGCTGGGCTATGGCATTCTAA
* * *
90535961 TGGTAAGACCATAACTGGGTTATGGCACTATGTATG
66 TGATAAGACCATAACTGGGTTATGGCACTATGGACG
* * * *
90535997 TAAGACCATGGTTGGACCATGGTACTATTTATATGTAAGACCATAGTTGGGCTATGGCATTTTGA
1 TAAGACCATGGTTGGACCATGGCACTATTTATATGTAAGACCATAGCTGGGCTATGGCATTCTAA
90536062 TGATAAGACCATAACTGGGTTATGGCACTATGGACG
66 TGATAAGACCATAACTGGGTTATGGCACTATGGACG
90536098 TAAGACCATGG
1 TAAGACCATGG
90536109 CAGTGTTTAT
Statistics
Matches: 103, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
101 103 1.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGGCACTATTTATATGTAAGACCATAGCTGGGCTATGGCATTCTAA
TGATAAGACCATAACTGGGTTATGGCACTATGGACG
Found at i:90536102 original size:33 final size:33
Alignment explanation
Indices: 90535928--90536106 Score: 137
Period size: 33 Copynumber: 5.4 Consensus size: 33
90535918 CAGTGTTTAT
* * *
90535928 ATGTAAGACCATAGCTGGGCTATGGCATTCT-A
1 ATGTAAGACCATAGCTGGGCTATGGCACTATGG
* * *
90535960 ATGGTAAGACCATAACTGGGTTATGGCACTATGT
1 AT-GTAAGACCATAGCTGGGCTATGGCACTATGG
* * * * * **
90535994 ATGTAAGACCATGGTTGGACCATGGTACTATTTAT
1 ATGTAAGACCATAGCTGGGCTATGGCACTA--TGG
* * *
90536029 ATGTAAGACCATAGTTGGGCTATGGCA-TTTTG
1 ATGTAAGACCATAGCTGGGCTATGGCACTATGG
* *
90536061 ATGATAAGACCATAACTGGGTTATGGCACTATGG
1 ATG-TAAGACCATAGCTGGGCTATGGCACTATGG
*
90536095 ACGTAAGACCAT
1 ATGTAAGACCAT
90536107 GGCAGTGTTT
Statistics
Matches: 115, Mismatches: 26, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
32 6 0.05
33 76 0.66
34 8 0.07
35 25 0.22
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (33 bp):
ATGTAAGACCATAGCTGGGCTATGGCACTATGG
Found at i:90536160 original size:86 final size:88
Alignment explanation
Indices: 90536024--90536197 Score: 262
Period size: 86 Copynumber: 2.0 Consensus size: 88
90536014 CATGGTACTA
*
90536024 TTTATATGTAAGACCATAGTTGGGCTATGGCATTTTGATGATAAGACCATAACTGGGTTATGGCA
1 TTTATATGTAAGACCA-AG-TGGGCTATGGCAATTTGATGATAAGACCATAACTGGGTTATGGCA
* *
90536089 CTATGGACGTAAGACCATGGCAGTG
64 CTACGAACGTAAGACCATGGCAGTG
* *
90536114 TTTATATGTAAGACC-A-TGGGCTATGGCAATTTGGTGATAAGACCATAATTGGGTTATGGCACT
1 TTTATATGTAAGACCAAGTGGGCTATGGCAATTTGATGATAAGACCATAACTGGGTTATGGCACT
*
90536177 ACGAATGTAAGACCATGGCAG
66 ACGAACGTAAGACCATGGCAG
90536198 GGTCATGGCA
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
86 62 0.79
88 1 0.01
90 15 0.19
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (88 bp):
TTTATATGTAAGACCAAGTGGGCTATGGCAATTTGATGATAAGACCATAACTGGGTTATGGCACT
ACGAACGTAAGACCATGGCAGTG
Found at i:90544529 original size:57 final size:57
Alignment explanation
Indices: 90544441--90544554 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
90544431 GAAGAGGAGG
90544441 TGAGTCCGTCGGACTGCTTAAGTACCAAGCTCCCTTCGGATCCAATCCTAGACATGC
1 TGAGTCCGTCGGACTGCTTAAGTACCAAGCTCCCTTCGGATCCAATCCTAGACATGC
*
90544498 TGAGTCCGTCGGACTGCTTAAGTACCAAGCTCCCTTCGGATCCTATCCTAGACATGC
1 TGAGTCCGTCGGACTGCTTAAGTACCAAGCTCCCTTCGGATCCAATCCTAGACATGC
90544555 ACACCGCCAT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.25
Consensus pattern (57 bp):
TGAGTCCGTCGGACTGCTTAAGTACCAAGCTCCCTTCGGATCCAATCCTAGACATGC
Found at i:90561779 original size:46 final size:46
Alignment explanation
Indices: 90561712--90561979 Score: 391
Period size: 46 Copynumber: 5.8 Consensus size: 46
90561702 TGTAACCCGC
* * *
90561712 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
90561758 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGGTGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC--G-GAC-A-TTCGCAT
* *
90561808 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
90561851 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
90561897 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
90561943 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
90561980 TGCTCAACCA
Statistics
Matches: 201, Mismatches: 12, Indels: 18
0.87 0.05 0.08
Matches are distributed among these distances:
42 2 0.01
43 4 0.02
44 3 0.01
45 3 0.01
46 153 0.76
47 25 0.12
48 3 0.01
49 3 0.01
50 3 0.01
51 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:90574674 original size:40 final size:40
Alignment explanation
Indices: 90574619--90574876 Score: 432
Period size: 40 Copynumber: 6.5 Consensus size: 40
90574609 CGGATGATAA
* *
90574619 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
90574659 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
90574699 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
90574739 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
90574779 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
90574819 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
90574859 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
90574877 TACTTGGTTT
Statistics
Matches: 210, Mismatches: 6, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
39 17 0.08
40 192 0.91
41 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:90579237 original size:66 final size:66
Alignment explanation
Indices: 90579111--90579251 Score: 171
Period size: 66 Copynumber: 2.1 Consensus size: 66
90579101 ATGGCCAGTC
* * *
90579111 GGAAAGGGT-GATTCAGATTTTAGAAGCCATGTTGTGGTACTATGTTCTAGAATTTTAAGGTAGT
1 GGAAA-GGTAGATTCAGATTTTAGAAGACATGTTGTGGTACTATGTTCTAGAAGTTCAAGGTAGT
90579175 TA
65 TA
* * *
90579177 GGAAAGGTAGATTCAGATTTTAGAAGACATGTTGTGGT-GT-TGTGTCTTCGAGGTTCAAGGTAG
1 GGAAAGGTAGATTCAGATTTTAGAAGACATGTTGTGGTACTATGT-TC-TAGAAGTTCAAGGTAG
*
90579240 TTG
64 TTA
90579243 GGAAAGGTA
1 GGAAAGGTA
90579252 CTTACCAGTG
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
64 3 0.05
65 6 0.09
66 56 0.86
ACGTcount: A:0.28, C:0.07, G:0.31, T:0.34
Consensus pattern (66 bp):
GGAAAGGTAGATTCAGATTTTAGAAGACATGTTGTGGTACTATGTTCTAGAAGTTCAAGGTAGTT
A
Found at i:90581528 original size:69 final size:69
Alignment explanation
Indices: 90581452--90581797 Score: 347
Period size: 69 Copynumber: 5.0 Consensus size: 69
90581442 AAACAGTTAT
* *
90581452 AGAGCAAAGCTCCTAACTGTCATATTAAGGCTTGCAGGCGAAGAGCCGTAGCCTTCAA-AGCAAT
1 AGAGCAAAGCTCCTAGCTGTCATATTAAGGCTTGCAGGCGAAGAGCCGCAGCCTTCAACA-CAAT
90581516 TAGTG
65 TAGTG
* * * * * * *
90581521 AGAGCAAAGCTCCCAGCTTTCATATTAAGGCTCGTAGGTGAAGAGCCGTAGCCTTCAACACAGTT
1 AGAGCAAAGCTCCTAGCTGTCATATTAAGGCTTGCAGGCGAAGAGCCGCAGCCTTCAACACAATT
90581586 AGTG
66 AGTG
* * * * * * * * *
90581590 AGAGCAAAACTTCC-AGCTGTCATATTAAGGCTCGGAAGCAAAGAGCCACAGCCTCCAACATAGT
1 AGAGCAAAGC-TCCTAGCTGTCATATTAAGGCTTGCAGGCGAAGAGCCGCAGCCTTCAACACAAT
**
90581654 TAAAG
65 TAGTG
* * * * * * *
90581659 AAAACAAAGCT-CTGAACTATCATATTAAGGTTTGCAGGCGAAGAGCTGCAGCCTTCAACACAGT
1 AGAGCAAAGCTCCT-AGCTGTCATATTAAGGCTTGCAGGCGAAGAGCCGCAGCCTTCAACACAAT
*
90581723 TAGCG
65 TAGTG
* * * * *
90581728 AGTGCAAAGCTCCTAGCTTTCATAGTAAGGCTTGCAGGAGAAGAGTCGCAGCCTTCAACACAATT
1 AGAGCAAAGCTCCTAGCTGTCATATTAAGGCTTGCAGGCGAAGAGCCGCAGCCTTCAACACAATT
90581793 AGTG
66 AGTG
90581797 A
1 A
90581798 AACCTAAAAA
Statistics
Matches: 225, Mismatches: 47, Indels: 10
0.80 0.17 0.04
Matches are distributed among these distances:
67 1 0.00
68 1 0.00
69 217 0.96
70 6 0.03
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (69 bp):
AGAGCAAAGCTCCTAGCTGTCATATTAAGGCTTGCAGGCGAAGAGCCGCAGCCTTCAACACAATT
AGTG
Done.