Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 272 of 276
Found at i:90120998 original size:27 final size:26
Alignment explanation
Indices: 90120962--90121074 Score: 145
Period size: 27 Copynumber: 4.2 Consensus size: 26
90120952 CAGCATGGCT
* *
90120962 ACCAGAACAGATAATGTGACAGAGTC
1 ACCAGAACAGATAATGTGGCAGAGCC
90120988 ACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGA-ACAGATAAT-GTGGCAGAGCC
*
90121016 ACCAGAACAGAAATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
* *
90121043 ACCAGATCAGATAATTGTGGCATAGCC
1 ACCAGAACAGATAA-TGTGGCAGAGCC
90121070 ACCAG
1 ACCAG
90121075 GACGCTTCCT
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
26 7 0.09
27 53 0.69
28 17 0.22
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:90121026 original size:54 final size:54
Alignment explanation
Indices: 90120962--90121074 Score: 165
Period size: 54 Copynumber: 2.1 Consensus size: 54
90120952 CAGCATGGCT
* *
90120962 ACCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGAACAGAAATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCC
* * *
90121016 ACCAGAACAGAAATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCC
1 ACCAGAACAGAAATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCC
90121070 ACCAG
1 ACCAG
90121075 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 35 0.66
55 18 0.34
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (54 bp):
ACCAGAACAGAAATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCC
Found at i:90122641 original size:13 final size:13
Alignment explanation
Indices: 90122623--90122647 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90122613 CATATATGCA
90122623 TCTATAATTTTTT
1 TCTATAATTTTTT
90122636 TCTATAATTTTT
1 TCTATAATTTTT
90122648 GGTCAGGCCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (13 bp):
TCTATAATTTTTT
Found at i:90127110 original size:40 final size:40
Alignment explanation
Indices: 90127061--90127341 Score: 393
Period size: 40 Copynumber: 7.0 Consensus size: 40
90127051 CGAATACACG
* * * *
90127061 TCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * ** ** *
90127101 ACACCAGCATGAATGCTCTTCGGGGTTTAGTACGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
90127141 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
90127181 TCACTAGCACGAATGCTCTTCGAGACTTAGTCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
90127221 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
90127261 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
90127301 TCACTAGCACGAATGTTCTTCGGGACTTAGCCCGGAT-CA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
90127340 TC
1 TC
90127342 GTCGAGACCT
Statistics
Matches: 220, Mismatches: 21, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
39 4 0.02
40 216 0.98
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:90127437 original size:38 final size:38
Alignment explanation
Indices: 90127395--90127469 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
90127385 GAATTTTAAT
*
90127395 CCGGACATAATCTCTAT-ACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCT-TCACATAGCCAGCGGGTCTTTAC
* *
90127433 CCGGACATAATCTCTTCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTA
90127470 AACTCGGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTAC
Found at i:90131762 original size:24 final size:24
Alignment explanation
Indices: 90131735--90131805 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
90131725 CTAGATTTCC
**
90131735 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
90131759 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
*
90131783 TCCCTTAGCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
90131806 CTCCTGACAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.25, C:0.38, G:0.03, T:0.34
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:90139161 original size:31 final size:31
Alignment explanation
Indices: 90139118--90139231 Score: 180
Period size: 31 Copynumber: 3.7 Consensus size: 31
90139108 TCAGTCCCGA
90139118 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
90139148 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
90139179 CATATCACTGGACCGATA-CCTTTTCATAAAT
1 CATATCACTGGGCCGA-AGCCTTTTCATAAAT
*
90139210 CATATCACT-GGCCAAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
90139232 ACTGTAAGCG
Statistics
Matches: 78, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
29 1 0.01
30 14 0.18
31 62 0.79
32 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:90139479 original size:25 final size:25
Alignment explanation
Indices: 90139451--90139520 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
90139441 CTCTTTTAAT
*
90139451 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
90139476 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
90139501 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
90139521 AGCACTTTCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:90140358 original size:27 final size:26
Alignment explanation
Indices: 90140328--90140405 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 26
90140318 GGGCATATTC
*
90140328 GTCATTTTACCATATAAGGGTATTACG
1 GTCATTTTACC-TATAGGGGTATTACG
* *
90140355 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTATAGGGG-TATTACG
*
90140382 GTCTTTTTACCTATTAGGGGTATT
1 GTCATTTTACCTA-TAGGGGTATT
90140406 TTAGTCATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
26 5 0.12
27 33 0.80
28 3 0.07
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (26 bp):
GTCATTTTACCTATAGGGGTATTACG
Found at i:90140476 original size:27 final size:27
Alignment explanation
Indices: 90140423--90140662 Score: 119
Period size: 27 Copynumber: 8.7 Consensus size: 27
90140413 TTTCTTCCTA
* * * *
90140423 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
**
90140450 CAAGGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * * *
90140477 CAATGGTATTCCTA-TAATTTTTTAAAAAAAGT
1 CAAGGGTATT-TTAGTAA--TTTT--ACAAA-C
* ** *
90140509 TAAGGGTATTTCT-GTAATTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTACAAAC
* *
90140536 CAGGGGTA-TTTAGGTAATTTTACAAAT
1 CAAGGGTATTTTA-GTAATTTTACAAAC
** * *
90140563 TGAGGGTATTTTGGTAATTTCACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* *
90140590 C-AGCAGTATTTCAGTAATTTTACAAAC
1 CAAG-GGTATTTTAGTAATTTTACAAAC
* * *
90140617 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * *
90140644 TAGGGGTATTTTGGTAATT
1 CAAGGGTATTTTAGTAATT
90140663 CTATCCTACA
Statistics
Matches: 164, Mismatches: 36, Indels: 26
0.73 0.16 0.12
Matches are distributed among these distances:
25 1 0.01
26 4 0.02
27 127 0.77
28 9 0.05
29 4 0.02
30 4 0.02
31 3 0.02
32 12 0.07
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTACAAAC
Found at i:90140599 original size:54 final size:54
Alignment explanation
Indices: 90140541--90140694 Score: 161
Period size: 54 Copynumber: 2.9 Consensus size: 54
90140531 TAAATCAGGG
*
90140541 GTATTTAGGTAATTTTACAAA-TTGAGGGTATTTTGGTAATTTCACAAACCAGCA
1 GTATTTAGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTCACAAACCAGCA
* * **
90140595 GTATTTCA-GTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGG
1 GTATTT-AGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTCACAAACCAGCA
* * ** **
90140649 GTATTTTGGTAATTCTATCCTAC-AGGGGTATTTCAGTAATTTCACA
1 GTATTTAGGTAATTTTA-CAAACTAGGGGTATTTTGGTAATTTCACA
90140695 GTCGAGGGTA
Statistics
Matches: 84, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
54 78 0.93
55 6 0.07
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.39
Consensus pattern (54 bp):
GTATTTAGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTCACAAACCAGCA
Found at i:90140633 original size:81 final size:81
Alignment explanation
Indices: 90140514--90140662 Score: 221
Period size: 81 Copynumber: 1.8 Consensus size: 81
90140504 AAAGTTAAGG
* ** *
90140514 GTATTTCTGTAATTTTGTAAATCAGGGGTATTTAGGTAATTTTACAAA-TTGAGGGTATTTTGGT
1 GTATTTCAGTAATTTTACAAATCAGGGGTATTTAGGTAATTTTACAAACTAG-GGGTATTTTGGT
90140578 AATTTCACAAACCAGCA
65 AATTTCACAAACCAGCA
*
90140595 GTATTTCAGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGT
1 GTATTTCAGTAATTTTACAAATC-AGGGGTATTTAGGTAATTTTACAAACTAGGGGTATTTTGGT
90140659 AATT
65 AATT
90140663 CTATCCTACA
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
80 1 0.02
81 58 0.95
82 2 0.03
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (81 bp):
GTATTTCAGTAATTTTACAAATCAGGGGTATTTAGGTAATTTTACAAACTAGGGGTATTTTGGTA
ATTTCACAAACCAGCA
Found at i:90140680 original size:81 final size:81
Alignment explanation
Indices: 90140512--90140690 Score: 213
Period size: 81 Copynumber: 2.2 Consensus size: 81
90140502 AAAAAGTTAA
* ** *
90140512 GGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTAGGTAATTTTACAAATTGAGGGTATTTTGG
1 GGGTATTTCAGTAATTTTACAAATCAGGGGTATTTAGGTAATTTTACAAATAGAGGGTATTTTGG
90140577 TAATTTCACAAACCAG
66 TAATTTCACAAACCAG
** *
90140593 CAGTATTTCAGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTT
1 GGGTATTTCAGTAATTTTACAAATC-AGGGGTATTTAGGTAATTTTACAAA-TAGAGGGTATTTT
**
90140656 GGTAA-TTCTATCCTA-CAG
64 GGTAATTTC-A-CAAACCAG
90140674 GGGTATTTCAGTAATTT
1 GGGTATTTCAGTAATTT
90140691 CACAGTCGAG
Statistics
Matches: 83, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
80 4 0.05
81 75 0.90
82 4 0.05
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (81 bp):
GGGTATTTCAGTAATTTTACAAATCAGGGGTATTTAGGTAATTTTACAAATAGAGGGTATTTTGG
TAATTTCACAAACCAG
Found at i:90140681 original size:27 final size:27
Alignment explanation
Indices: 90140537--90140665 Score: 136
Period size: 27 Copynumber: 4.8 Consensus size: 27
90140527 TTTGTAAATC
* *
90140537 AGGGGTATTTAGGTAATTTTACAAA-T
1 AGGGGTATTTTGGTAATTCTACAAACT
* *
90140563 TGAGGGTATTTTGGTAATT-TCACAAACC
1 AG-GGGTATTTTGGTAATTCT-ACAAACT
** ** *
90140591 AGCAGTATTTCAGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTCTACAAACT
*
90140618 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTCTACAAACT
90140645 AGGGGTATTTTGGTAATTCTA
1 AGGGGTATTTTGGTAATTCTA
90140666 TCCTACAGGG
Statistics
Matches: 85, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
26 2 0.02
27 81 0.95
28 2 0.02
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTCTACAAACT
Found at i:90140728 original size:27 final size:27
Alignment explanation
Indices: 90140696--90140892 Score: 216
Period size: 27 Copynumber: 7.3 Consensus size: 27
90140686 AATTTCACAG
* * *
90140696 TCGAGGGTAAAACGATAATTTTGTAAA
1 TCGAGGGTAAAACGGTAATTCTATAAA
*
90140723 -CTGAGGGTAAAATGGTAATTCTATAAA
1 TC-GAGGGTAAAACGGTAATTCTATAAA
* * *
90140750 TCAAGGGTAAAACGATAATTCTGTAAA
1 TCGAGGGTAAAACGGTAATTCTATAAA
* * * *
90140777 TCAATGGTAAAATGGTAATTCTACAAAA
1 TCGAGGGTAAAACGGTAATTCTA-TAAA
* *
90140805 TCGAGGGTAAAACGGTAATTTTGTAAA
1 TCGAGGGTAAAACGGTAATTCTATAAA
* *
90140832 TCGAGGGTGAAATGGTAATTCTATAAA
1 TCGAGGGTAAAACGGTAATTCTATAAA
* *
90140859 TCGAGGGTAAAATGGTAATTCTACAAA
1 TCGAGGGTAAAACGGTAATTCTATAAA
90140886 TCGAGGG
1 TCGAGGG
90140893 CATTTCAGTA
Statistics
Matches: 142, Mismatches: 25, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
26 1 0.01
27 119 0.84
28 22 0.15
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
TCGAGGGTAAAACGGTAATTCTATAAA
Found at i:90140768 original size:54 final size:54
Alignment explanation
Indices: 90140696--90140870 Score: 262
Period size: 54 Copynumber: 3.2 Consensus size: 54
90140686 AATTTCACAG
90140696 TCGAGGGTAAAACGATAATTTTGTAAA-CTGAGGGTAAAATGGTAATTCTATAAA
1 TCGAGGGTAAAACGATAATTTTGTAAATC-GAGGGTAAAATGGTAATTCTATAAA
* * * * *
90140750 TCAAGGGTAAAACGATAATTCTGTAAATCAATGGTAAAATGGTAATTCTACAAAA
1 TCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATGGTAATTCTA-TAAA
* *
90140805 TCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTGAAATGGTAATTCTATAAA
1 TCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAA
90140859 TCGAGGGTAAAA
1 TCGAGGGTAAAA
90140871 TGGTAATTCT
Statistics
Matches: 107, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
54 59 0.55
55 48 0.45
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (54 bp):
TCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAA
Found at i:90140832 original size:82 final size:81
Alignment explanation
Indices: 90140725--90140892 Score: 237
Period size: 82 Copynumber: 2.1 Consensus size: 81
90140715 TTTGTAAACT
* * *
90140725 GAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACGATAATTCTGTAAATCAATGGTAAAAT
1 GAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAACGATAATTCTATAAATCAAGGGTAAAAT
90140790 GGTAATTCTACAAAATC
66 GGTAATTCTAC-AAATC
* * * * * * *
90140807 GAGGGTAAAACGGTAATTTTGTAAATCGAGGGTGAAATGGTAATTCTATAAATCGAGGGTAAAAT
1 GAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAACGATAATTCTATAAATCAAGGGTAAAAT
90140872 GGTAATTCTACAAATC
66 GGTAATTCTACAAATC
90140888 GAGGG
1 GAGGG
90140893 CATTTCAGTA
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
81 10 0.13
82 66 0.87
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.27
Consensus pattern (81 bp):
GAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAACGATAATTCTATAAATCAAGGGTAAAAT
GGTAATTCTACAAATC
Found at i:90140887 original size:54 final size:54
Alignment explanation
Indices: 90140696--90140892 Score: 261
Period size: 54 Copynumber: 3.6 Consensus size: 54
90140686 AATTTCACAG
* *
90140696 TCGAGGGTAAAACGATAATTTTGTAAA-CTGAGGGTAAAATGGTAATTCTATAAA
1 TCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAATGGTAATTCTATAAA
* * * * *
90140750 TCAAGGGTAAAACGATAATTCTGTAAATCAATGGTAAAATGGTAATTCTACAAAA
1 TCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTA-TAAA
* *
90140805 TCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTGAAATGGTAATTCTATAAA
1 TCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAA
* **
90140859 TCGAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 TCGAGGGTAAAACGGTAATTCTGTAAATCGAGGG
90140893 CATTTCAGTA
Statistics
Matches: 125, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
54 77 0.62
55 48 0.38
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (54 bp):
TCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAA
Found at i:90140904 original size:109 final size:108
Alignment explanation
Indices: 90140678--90140906 Score: 275
Period size: 109 Copynumber: 2.1 Consensus size: 108
90140668 CTACAGGGGT
* *
90140678 ATTTCAGTAATTTCACAGTCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTAAAATGGTAATT
1 ATTTCAGTAATTTCAAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTAAAATGGTAATT
** *
90140743 CTATAAATCAAGGGTAAAACGATAATTCTGTAAATCAATGGTA
66 CTATAAATCAAGGGTAAAACGATAATTCTACAAATCAATGGGA
** * * *
90140786 AAAT-GGTAATTCTACAAAATCGAGGGTAAAACGGTAATTTTGTAAA-TCGAGGGTGAAATGGTA
1 ATTTCAGTAATT-T-CAAAATCGAGGGTAAAACGATAATTTTGTAAACT-GAGGGTAAAATGGTA
* * * * *
90140849 ATTCTATAAATCGAGGGTAAAATGGTAATTCTACAAATCGA-GGGC
63 ATTCTATAAATCAAGGGTAAAACGATAATTCTACAAATCAATGGGA
90140894 ATTTCAGTAATTT
1 ATTTCAGTAATTT
90140907 GGTAAACTAA
Statistics
Matches: 99, Mismatches: 18, Indels: 8
0.79 0.14 0.06
Matches are distributed among these distances:
107 6 0.06
108 9 0.09
109 84 0.85
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.30
Consensus pattern (108 bp):
ATTTCAGTAATTTCAAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTAAAATGGTAATT
CTATAAATCAAGGGTAAAACGATAATTCTACAAATCAATGGGA
Found at i:90145368 original size:3 final size:3
Alignment explanation
Indices: 90145360--90145401 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
90145350 CATTGAACCA
* * *
90145360 ATC ATC ATC ATC ATC AAC ATC ATC ATT ATC ACC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
90145402 TCCATGACGG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.31
Consensus pattern (3 bp):
ATC
Found at i:90145910 original size:71 final size:71
Alignment explanation
Indices: 90145811--90145957 Score: 276
Period size: 71 Copynumber: 2.1 Consensus size: 71
90145801 AAGAAACGTA
* *
90145811 GGATGCGCCCAAACGGTTTTATCGGCAGGCCACGTGGATCTTTGTCTCAAAAAGGATTCACATGG
1 GGATTCGCCAAAACGGTTTTATCGGCAGGCCACGTGGATCTTTGTCTCAAAAAGGATTCACATGG
90145876 AACTTG
66 AACTTG
90145882 GGATTCGCCAAAACGGTTTTATCGGCAGGCCACGTGGATCTTTGTCTCAAAAAGGATTCACATGG
1 GGATTCGCCAAAACGGTTTTATCGGCAGGCCACGTGGATCTTTGTCTCAAAAAGGATTCACATGG
90145947 AACTTG
66 AACTTG
90145953 GGATT
1 GGATT
90145958 AGGTTTTGAA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 74 1.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (71 bp):
GGATTCGCCAAAACGGTTTTATCGGCAGGCCACGTGGATCTTTGTCTCAAAAAGGATTCACATGG
AACTTG
Found at i:90155734 original size:30 final size:30
Alignment explanation
Indices: 90155693--90155750 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
90155683 CCTATGCATT
*
90155693 TTCACATGGGTAAACCACACGCCCGTGTGA
1 TTCACACGGGTAAACCACACGCCCGTGTGA
** *
90155723 TTCACACGGGTAGGCTACACGCCCGTGT
1 TTCACACGGGTAAACCACACGCCCGTGT
90155751 ATCATGGCCG
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:0.22, C:0.31, G:0.26, T:0.21
Consensus pattern (30 bp):
TTCACACGGGTAAACCACACGCCCGTGTGA
Found at i:90156890 original size:17 final size:17
Alignment explanation
Indices: 90156842--90156881 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
90156832 CAATTCATAT
90156842 CAAATCTACCTTATAGC
1 CAAATCTACCTTATAGC
90156859 CAAATCTACCTTATAGC
1 CAAATCTACCTTATAGC
90156876 CAAATC
1 CAAATC
90156882 ACATTTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.38, C:0.30, G:0.05, T:0.28
Consensus pattern (17 bp):
CAAATCTACCTTATAGC
Found at i:90160544 original size:8 final size:8
Alignment explanation
Indices: 90160531--90160556 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
90160521 ATAAAATAAT
90160531 ATTATTAA
1 ATTATTAA
90160539 ATTATTAA
1 ATTATTAA
90160547 ATTATTAA
1 ATTATTAA
90160555 AT
1 AT
90160557 AAAATTATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
ATTATTAA
Found at i:90172058 original size:326 final size:325
Alignment explanation
Indices: 90171465--90172114 Score: 1077
Period size: 326 Copynumber: 2.0 Consensus size: 325
90171455 AATTTTAATC
*
90171465 TCTTTTACAATTAGGTCCCCAAATATTCACTTTCTTTATAATTCTTTCGATAAAATCAACATATA
1 TCTTTTACAATTAGGTCCCCAAATATTCACTTTCTTTATAATTCTTTCAATAAAATCAACATATA
* * * * *
90171530 AACAAATTAAAGCTTTAATTCCATGTTAAATCATCATAAAATTCCAGCACTTATTCATGACAACT
66 AACAAATTAAAGCTTTAATTACATGGTAAATCATCACAAAACTCCAGAACTTATTCATGACAACT
* *
90171595 TTCAAAATCAACCATGAAATCAAAAACTAATGGATTAGATGATAGGACCTAGTTGTAAAAATCCC
131 TTCAAAATCAACCATGAAATCAAAAACTAATGAATTAAATGATAGGACCTAGTTGTAAAAATCCC
90171660 AAAAACACAAAAATCTCAAGAAATAATTAAGATTAGAACTTACTTGCAGTAAAAATATGAAAAAC
196 AAAAACACAAAAATCTCAAGAAATAATTAAGATTAGAACTTACTTGCAGTAAAAATATGAAAAAC
* *
90171725 CAGCTCTAAGGTTTCTTCAATGGCTGTTTTTAATTGAAGAGGATGAAGAAAATTGAAGAAATCTN
261 AAGCTCTAAGGTTTCTTCAATGGCTGTTTTTAACTGAAGAGGATGAAGAAAATTGAAGAAATCT-
90171790 T
325 T
* *
90171791 TCTTTTATAATTAGGTCCCCAAATATTCACTTTCTTTATAATTCTTTCAATAAAATCAACATCTA
1 TCTTTTACAATTAGGTCCCCAAATATTCACTTTCTTTATAATTCTTTCAATAAAATCAACATATA
* *
90171856 AACAAATTAAAGCTTTAATTACATGGTAAATCATCACAAACCTCCAGAAGTTATTCATGGA-AAC
66 AACAAATTAAAGCTTTAATTACATGGTAAATCATCACAAAACTCCAGAACTTATTCAT-GACAAC
* * * *
90171920 TTTCAAAATCAACCATGAAATCAAAAACTAATGAATTAAATGATGGGACCTCGTTGTAAAAGTTC
130 TTTCAAAATCAACCATGAAATCAAAAACTAATGAATTAAATGATAGGACCTAGTTGTAAAAATCC
* *
90171985 CAAAAACACAAAAATTTCAAGAAATAATTAAGATTTGAACTTACTTGCAGTAAAAATATGAAAAA
195 CAAAAACACAAAAATCTCAAGAAATAATTAAGATTAGAACTTACTTGCAGTAAAAATATGAAAAA
* *
90172050 TAAGCTCTAAGGTTTCTTCAATGGCTGTTTTTAGCTGAAGAGGATGAAGAAAATTGAAGAAATCT
260 CAAGCTCTAAGGTTTCTTCAATGGCTGTTTTTAACTGAAGAGGATGAAGAAAATTGAAGAAATCT
90172115 CTAGATTTCC
Statistics
Matches: 301, Mismatches: 22, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
326 299 0.99
327 2 0.01
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.31
Consensus pattern (325 bp):
TCTTTTACAATTAGGTCCCCAAATATTCACTTTCTTTATAATTCTTTCAATAAAATCAACATATA
AACAAATTAAAGCTTTAATTACATGGTAAATCATCACAAAACTCCAGAACTTATTCATGACAACT
TTCAAAATCAACCATGAAATCAAAAACTAATGAATTAAATGATAGGACCTAGTTGTAAAAATCCC
AAAAACACAAAAATCTCAAGAAATAATTAAGATTAGAACTTACTTGCAGTAAAAATATGAAAAAC
AAGCTCTAAGGTTTCTTCAATGGCTGTTTTTAACTGAAGAGGATGAAGAAAATTGAAGAAATCTT
Found at i:90174359 original size:14 final size:14
Alignment explanation
Indices: 90174313--90174350 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
90174303 CCAAATTTTA
90174313 AAAAGTGCATCAAG
1 AAAAGTGCATCAAG
90174327 AAAAGTGCATCAAG
1 AAAAGTGCATCAAG
90174341 AAAAGTGCAT
1 AAAAGTGCAT
90174351 TGACAAAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.50, C:0.13, G:0.21, T:0.16
Consensus pattern (14 bp):
AAAAGTGCATCAAG
Found at i:90183684 original size:178 final size:177
Alignment explanation
Indices: 90183373--90183700 Score: 455
Period size: 178 Copynumber: 1.8 Consensus size: 177
90183363 CTACATCTTA
* * **
90183373 ATTTAAGATTAACTTTTTTCCCTTTTAGTGAGGTTTGGTCATTCAAAAAAGTGTATACGGATTTC
1 ATTTAAGATTAAATTTTTTCCCTTTTAGTAAGGTTTGGTCATTCAAAAAAGCATATACGGATTTC
* * *
90183438 AGTTTTAATTATGATTATACTCAGCATATATGGATTTCATTTTTCTTTGATATTAACTTCCTGTT
66 AGTTTTAATTATGATTATACTCACCATATATGGATTTCATTTATCTTTGATATGAACTTCCTGTT
90183503 GCTGCCGCTCTCACTGTTCCTGTTGCACTTCCAATTTAAGATTAATTGG
131 GCTGCCG--CTCACTGTTCCTGTTGCACTTCCAATTTAAGATTAATTGG
* ** **
90183552 ATTT-AGATTAAATCTTTTTCCCTTTTATTAAGGTTTGGTCATT-TGAAAAGCATATTTGGATTT
1 ATTTAAGATTAAAT-TTTTTCCCTTTTAGTAAGGTTTGGTCATTCAAAAAAGCATATACGGATTT
* * * *
90183615 CATTTTTAATTATGATTATACTTACCGTATATGGATTTCATTTATCTTTGATGTGAACTTTCC-G
65 CAGTTTTAATTATGATTATACTCACCATATATGGATTTCATTTATCTTTGATATGAAC-TTCCTG
90183679 TTGCTGCCGCTCACTGTTCCTG
129 TTGCTGCCGCTCACTGTTCCTG
90183701 ATGGTCATGT
Statistics
Matches: 131, Mismatches: 16, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
176 13 0.10
178 83 0.63
179 35 0.27
ACGTcount: A:0.24, C:0.16, G:0.15, T:0.45
Consensus pattern (177 bp):
ATTTAAGATTAAATTTTTTCCCTTTTAGTAAGGTTTGGTCATTCAAAAAAGCATATACGGATTTC
AGTTTTAATTATGATTATACTCACCATATATGGATTTCATTTATCTTTGATATGAACTTCCTGTT
GCTGCCGCTCACTGTTCCTGTTGCACTTCCAATTTAAGATTAATTGG
Found at i:90185819 original size:17 final size:15
Alignment explanation
Indices: 90185771--90185820 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 15
90185761 ATATATATAT
*
90185771 ATATATATTATAAAAA
1 ATATAT-TTTTAAAAA
90185787 GATATATTTTTAAAAA
1 -ATATATTTTTAAAAA
90185803 ATATATTCTTTACAAAA
1 ATATATT-TTTA-AAAA
90185820 A
1 A
90185821 AATCTTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 7 0.23
16 12 0.40
17 11 0.37
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (15 bp):
ATATATTTTTAAAAA
Found at i:90185959 original size:31 final size:31
Alignment explanation
Indices: 90185924--90185986 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
90185914 CTAACTCACC
** *
90185924 TTAAAAAAATTTAATTATTTA-TTCGAATTAA
1 TTAAAAAAATAAAATAATTTATTTC-AATTAA
90185955 TTAAAAAAATAAAATAATTTATTTCAATTAA
1 TTAAAAAAATAAAATAATTTATTTCAATTAA
90185986 T
1 T
90185987 CCAAAATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 25 0.89
32 3 0.11
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (31 bp):
TTAAAAAAATAAAATAATTTATTTCAATTAA
Found at i:90193143 original size:35 final size:34
Alignment explanation
Indices: 90193104--90193172 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 34
90193094 AGAAATTAGT
90193104 AGTGGGAATGTCTCTGCAGGTAATCCTCTTTCCC
1 AGTGGGAATGTCTCTGCAGGTAATCCTCTTTCCC
90193138 NAGTGGGAATGTCTCTGCAGGTAATCCTCTTTCCC
1 -AGTGGGAATGTCTCTGCAGGTAATCCTCTTTCCC
90193173 TCCCTCTCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.32
Consensus pattern (34 bp):
AGTGGGAATGTCTCTGCAGGTAATCCTCTTTCCC
Found at i:90198511 original size:16 final size:18
Alignment explanation
Indices: 90198484--90198520 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
90198474 TAAACAAATT
90198484 TTTTTAATAATTTTTA-A
1 TTTTTAATAATTTTTACA
90198501 TTTTTAA-AATTTTTACA
1 TTTTTAATAATTTTTACA
90198518 TTT
1 TTT
90198521 AGTTATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTTAATAATTTTTACA
Found at i:90214036 original size:21 final size:21
Alignment explanation
Indices: 90214010--90214050 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
90214000 GCGGTGGCGG
*
90214010 TGATGGTGATGGTGGCGATGT
1 TGATGGTGAGGGTGGCGATGT
*
90214031 TGATGGTGGGGGTGGCGATG
1 TGATGGTGAGGGTGGCGATG
90214051 GAGTTGACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.05, G:0.54, T:0.29
Consensus pattern (21 bp):
TGATGGTGAGGGTGGCGATGT
Found at i:90214072 original size:3 final size:3
Alignment explanation
Indices: 90214064--90214104 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
90214054 TTGACTCTGC
* *
90214064 TGG TGG TGG TGG TGG TGA TGG TGA TGG TGG TGG TGG TGG TG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TG
90214105 AAGAAGAAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.05, C:0.00, G:0.61, T:0.34
Consensus pattern (3 bp):
TGG
Found at i:90216128 original size:20 final size:18
Alignment explanation
Indices: 90216096--90216142 Score: 67
Period size: 20 Copynumber: 2.5 Consensus size: 18
90216086 ATAATTTAAT
90216096 AAATAAAAATAAAAATCTA
1 AAATAAAAATAAAAAT-TA
*
90216115 AAACTAAAACTAAAAATTA
1 AAA-TAAAAATAAAAATTA
90216134 AAATAAAAA
1 AAATAAAAA
90216143 ACATATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 5 0.20
19 8 0.32
20 12 0.48
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.19
Consensus pattern (18 bp):
AAATAAAAATAAAAATTA
Found at i:90216144 original size:20 final size:20
Alignment explanation
Indices: 90216096--90216142 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
90216086 ATAATTTAAT
90216096 AAATAAAAA-TAAAAATCTA
1 AAATAAAAACTAAAAATCTA
90216115 AAACT-AAAACTAAAAAT-TA
1 AAA-TAAAAACTAAAAATCTA
90216134 AAATAAAAA
1 AAATAAAAA
90216143 ACATATAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 1 0.04
19 16 0.64
20 8 0.32
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.19
Consensus pattern (20 bp):
AAATAAAAACTAAAAATCTA
Found at i:90217474 original size:31 final size:31
Alignment explanation
Indices: 90217436--90217496 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
90217426 TACCCATACA
90217436 ATGTAGGTACTTTAAGGACTTAACTAAAACC
1 ATGTAGGTACTTTAAGGACTTAACTAAAACC
90217467 ATGTAGGTACTTTAAGGACTTAACTAAAAC
1 ATGTAGGTACTTTAAGGACTTAACTAAAAC
90217497 ATTATGAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (31 bp):
ATGTAGGTACTTTAAGGACTTAACTAAAACC
Found at i:90223251 original size:17 final size:17
Alignment explanation
Indices: 90223229--90223285 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
90223219 GAAAAGTTAT
90223229 ATTTTAAGTATTGTAAC
1 ATTTTAAGTATTGTAAC
* * *
90223246 ATTTT-AGCTCA-AGTTAT
1 ATTTTAAG-T-ATTGTAAC
90223263 ATTTTAAGTATTGTAAC
1 ATTTTAAGTATTGTAAC
90223280 ATTTTA
1 ATTTTA
90223286 GTTATTGAGC
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
16 3 0.10
17 24 0.80
18 3 0.10
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.49
Consensus pattern (17 bp):
ATTTTAAGTATTGTAAC
Found at i:90223260 original size:34 final size:34
Alignment explanation
Indices: 90223222--90223286 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
90223212 TATGTTTGAA
90223222 AAGTTATATTTTAAGTATTGTAACATTTTAGCTC
1 AAGTTATATTTTAAGTATTGTAACATTTTAGCTC
90223256 AAGTTATATTTTAAGTATTGTAACATTTTAG
1 AAGTTATATTTTAAGTATTGTAACATTTTAG
90223287 TTATTGAGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.48
Consensus pattern (34 bp):
AAGTTATATTTTAAGTATTGTAACATTTTAGCTC
Found at i:90228230 original size:16 final size:15
Alignment explanation
Indices: 90228206--90228245 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
90228196 TACTAATTAG
90228206 TATAAAAAAAATTTC
1 TATAAAAAAAATTTC
* *
90228221 TATCAAAAAATATTTT
1 TAT-AAAAAAAATTTC
90228237 TATAAAAAA
1 TATAAAAAA
90228246 GTCGATTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (15 bp):
TATAAAAAAAATTTC
Found at i:90236624 original size:18 final size:18
Alignment explanation
Indices: 90236583--90236624 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
90236573 TTAGGATTCA
90236583 ATGATTTTGAGGTTTAGG
1 ATGATTTTGAGGTTTAGG
90236601 ATTGATTTTGA-GTTTAGGG
1 A-TGATTTTGAGGTTTA-GG
90236620 ATGAT
1 ATGAT
90236625 AATAGAAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (18 bp):
ATGATTTTGAGGTTTAGG
Found at i:90238248 original size:30 final size:29
Alignment explanation
Indices: 90238206--90238307 Score: 141
Period size: 30 Copynumber: 3.4 Consensus size: 29
90238196 TTGTAGGTAC
90238206 AAGTGGTGGTGGAGCAAGTGTGGCTAGTG
1 AAGTGGTGGTGGAGCAAGTGTGGCTAGTG
*
90238235 AAGTAGGTAGTGGAGCAAGTGTGGCTAGTG
1 AAGT-GGTGGTGGAGCAAGTGTGGCTAGTG
* *
90238265 GAGTTGGTGGTGGAGCAATTGTGGCTAGTGG
1 AAG-TGGTGGTGGAGCAAGTGTGGCTAGT-G
*
90238296 AGGTGGTGGTGG
1 AAGTGGTGGTGG
90238308 CAAAGGCTAG
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
29 4 0.06
30 57 0.89
31 3 0.05
ACGTcount: A:0.20, C:0.06, G:0.49, T:0.25
Consensus pattern (29 bp):
AAGTGGTGGTGGAGCAAGTGTGGCTAGTG
Found at i:90238265 original size:18 final size:18
Alignment explanation
Indices: 90238214--90238267 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
90238204 ACAAGTGGTG
90238214 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
90238232 GT---G-AAGT-AGG-TA
1 GTGGAGCAAGTGTGGCTA
90238244 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
90238262 GTGGAG
1 GTGGAG
90238268 TTGGTGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 4 0.14
13 2 0.07
14 4 0.14
15 2 0.07
16 4 0.14
17 2 0.07
18 10 0.36
ACGTcount: A:0.24, C:0.07, G:0.46, T:0.22
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:90238297 original size:18 final size:17
Alignment explanation
Indices: 90238242--90238297 Score: 50
Period size: 18 Copynumber: 3.5 Consensus size: 17
90238232 GTGAAGTAGG
90238242 TAGTGGAGCAAGTGTGGC
1 TAGTGGAGCAA-TGTGGC
90238260 TAGTGGAG---T-TGG-
1 TAGTGGAGCAATGTGGC
*
90238272 TGGTGGAGCAATTGTGGC
1 TAGTGGAGCAA-TGTGGC
90238290 TAGTGGAG
1 TAGTGGAG
90238298 GTGGTGGTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
12 7 0.23
13 3 0.10
14 1 0.03
16 1 0.03
17 3 0.10
18 15 0.50
ACGTcount: A:0.20, C:0.07, G:0.46, T:0.27
Consensus pattern (17 bp):
TAGTGGAGCAATGTGGC
Found at i:90241550 original size:7 final size:7
Alignment explanation
Indices: 90241538--90241574 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
90241528 TTGTTTGGTC
*
90241538 ATTTCAT
1 ATTTAAT
*
90241545 ATTTCAT
1 ATTTAAT
90241552 ATTTAAT
1 ATTTAAT
90241559 ATTTAAT
1 ATTTAAT
90241566 ATTTAAT
1 ATTTAAT
90241573 AT
1 AT
90241575 ATACTTCTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (7 bp):
ATTTAAT
Found at i:90251306 original size:17 final size:17
Alignment explanation
Indices: 90251273--90251306 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
90251263 AAAAATTATT
* *
90251273 TTAAAAATATTTTAAAA
1 TTAAAAAAATTTAAAAA
90251290 TTAAAAAAATTTAAAAA
1 TTAAAAAAATTTAAAAA
90251307 AAGTATTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAAAAAAATTTAAAAA
Found at i:90251318 original size:41 final size:40
Alignment explanation
Indices: 90251230--90251348 Score: 141
Period size: 41 Copynumber: 2.8 Consensus size: 40
90251220 ATAAATATCA
* *
90251230 AAAAATTATTTTAAAAATTAAAACAAAAATAAAAAAAATTATTTT
1 AAAAA-TATTTT-AAAATT--AA-AAAAATTAAAAAAAGTATTTT
90251275 AAAAATATTTTAAAATTAAAAAAATTTAAAAAAAGTATTTT
1 AAAAATATTTTAAAATTAAAAAAA-TTAAAAAAAGTATTTT
*
90251316 AAAAGTATTTTAAAATTTAAAAAAA-TAAAAAAA
1 AAAAATATTTTAAAA-TTAAAAAAATTAAAAAAA
90251349 TAAAAAATTA
Statistics
Matches: 69, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
40 13 0.19
41 30 0.43
42 9 0.13
43 6 0.09
44 6 0.09
45 5 0.07
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.33
Consensus pattern (40 bp):
AAAAATATTTTAAAATTAAAAAAATTAAAAAAAGTATTTT
Found at i:90251319 original size:11 final size:11
Alignment explanation
Indices: 90251305--90251330 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
90251295 AAAATTTAAA
90251305 AAAAGTATTTT
1 AAAAGTATTTT
90251316 AAAAGTATTTT
1 AAAAGTATTTT
90251327 AAAA
1 AAAA
90251331 TTTAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:90252247 original size:3 final size:3
Alignment explanation
Indices: 90252226--90252602 Score: 80
Period size: 3 Copynumber: 126.0 Consensus size: 3
90252216 CTCTACAGTC
* * * **
90252226 ATT ATT AAT ATAT ACT ATT ATT ATT AAT A-T ATT GCT ATT ATT ATT
1 ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * ** * *
90252271 ACT AAT ATC ACT ATT ACC ATT -TT -TT ATT ACT GTT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
90252317 ATT ATTT ACT ATCT AAT A-T ATT ATT ATT ACCTT TTT ATT ATT ATT ACT
1 ATT A-TT ATT AT-T ATT ATT ATT ATT ATT A--TT ATT ATT ATT ATT ATT
* * *
90252365 ACT ATT -GT ATT ATT ACT ATT ATT A-T ATT -TT CATCT A-T ATTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -AT-T ATT A-TT ATT
* * *
90252409 -TT CTT ATT ATTT ATCT AGTT TTT ATTT ATCT ATT -TGT ATT -TT GTT
1 ATT ATT ATT A-TT AT-T A-TT ATT A-TT AT-T ATT AT-T ATT ATT ATT
*
90252454 ATT ATT A-T ATT -TT AGGT ATT A-T ATCT -TT ATT -TAT ATTT ATGT
1 ATT ATT ATT ATT ATT A-TT ATT ATT AT-T ATT ATT AT-T A-TT AT-T
* * * **
90252496 ATT AAT ATC ATT ATT -TT ACT ATT GCT A-T ATT -TT -TT A-T ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
90252539 ATT ATT ATC ATT ACT ATT A-T ACTT -TT ATT ACT ACT ACT ACGGT ATT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT A--TT ATT
90252585 ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT
90252603 TACTTATTTT
Statistics
Matches: 274, Mismatches: 57, Indels: 86
0.66 0.14 0.21
Matches are distributed among these distances:
2 42 0.15
3 192 0.70
4 33 0.12
5 7 0.03
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:90252313 original size:28 final size:31
Alignment explanation
Indices: 90252282--90252360 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 31
90252272 CTAATATCAC
*
90252282 TATTACCATTTTTTATTA-CT-GT-TATTAT
1 TATTACCATTTTTTATTATCTAATATATTAT
** * *
90252310 TATTATTATTATTTACTATCTAATATATTAT
1 TATTACCATTTTTTATTATCTAATATATTAT
*
90252341 TATTACCTTTTTATTATTAT
1 TATTACCATTTT-TTATTAT
90252361 TACTACTATT
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
28 14 0.38
29 2 0.05
30 1 0.03
31 14 0.38
32 6 0.16
ACGTcount: A:0.29, C:0.09, G:0.01, T:0.61
Consensus pattern (31 bp):
TATTACCATTTTTTATTATCTAATATATTAT
Found at i:90252360 original size:20 final size:20
Alignment explanation
Indices: 90252310--90252385 Score: 66
Period size: 20 Copynumber: 3.7 Consensus size: 20
90252300 CTGTTATTAT
90252310 TATTATTATTATTTACTATCT-
1 TATTATTATTA-TTACTAT-TG
* *
90252331 AATATATTATTATTACCT-TTT
1 TAT-TATTATTATTA-CTATTG
*
90252352 TATTATTATTACTACTATTG
1 TATTATTATTATTACTATTG
*
90252372 TATTATTACTATTA
1 TATTATTATTATTA
90252386 TTATATTTTC
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
19 2 0.04
20 25 0.56
21 8 0.18
22 10 0.22
ACGTcount: A:0.32, C:0.09, G:0.01, T:0.58
Consensus pattern (20 bp):
TATTATTATTATTACTATTG
Found at i:90252375 original size:17 final size:17
Alignment explanation
Indices: 90252310--90252392 Score: 67
Period size: 17 Copynumber: 4.5 Consensus size: 17
90252300 CTGTTATTAT
90252310 TATTATTATTATTTACTATC
1 TATTA-TATTA-TTACTA-C
* *
90252330 TAATATATTATTATTACC
1 TATTATATTATTACTA-C
*
90252348 TTTTTATTATTATTACTAC
1 -TATTA-TATTATTACTAC
* *
90252367 TATTGTATTATTACTAT
1 TATTATATTATTACTAC
90252384 TATTATATT
1 TATTATATT
90252393 TTCATCTATA
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
17 19 0.37
18 9 0.18
19 9 0.18
20 14 0.27
ACGTcount: A:0.31, C:0.08, G:0.01, T:0.59
Consensus pattern (17 bp):
TATTATATTATTACTAC
Found at i:90252503 original size:26 final size:26
Alignment explanation
Indices: 90252454--90252511 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
90252444 GTATTTTGTT
90252454 ATTA-TTATATTTTAGGTATTATATC
1 ATTATTTATATTTTAGGTATTATATC
* *
90252479 TTTATTTATA-TTTATGTATTAATATC
1 ATTATTTATATTTTAGGTATT-ATATC
90252505 ATTATTT
1 ATTATTT
90252512 TACTATTGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 12 0.43
26 16 0.57
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.60
Consensus pattern (26 bp):
ATTATTTATATTTTAGGTATTATATC
Found at i:90252640 original size:26 final size:26
Alignment explanation
Indices: 90252611--90252676 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
90252601 TTTACTTATT
*
90252611 TTTTTGTTTATTTTATTCTATTTTTA
1 TTTTTATTTATTTTATTCTATTTTTA
* * * *
90252637 TTTTTATTTTTTTTCTTCTCTTTTTC
1 TTTTTATTTATTTTATTCTATTTTTA
*
90252663 TTTCTTATTGATTT
1 TTT-TTATTTATTT
90252677 GTTTAAAGTT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
26 24 0.75
27 8 0.25
ACGTcount: A:0.11, C:0.09, G:0.03, T:0.77
Consensus pattern (26 bp):
TTTTTATTTATTTTATTCTATTTTTA
Found at i:90252665 original size:6 final size:6
Alignment explanation
Indices: 90252581--90252647 Score: 50
Period size: 6 Copynumber: 11.2 Consensus size: 6
90252571 ACTACTACGG
* * * *
90252581 TATTAT TATTAT TATTAT TATTTACT TATTTT T-TTGTT TA-TTT TA-TTC
1 TATTTT TATTTT TATTTT TATTT--T TATTTT TATT-TT TATTTT TATTTT
90252629 TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT T
90252648 TTTCTTCTCT
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
5 10 0.19
6 37 0.70
8 6 0.11
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.75
Consensus pattern (6 bp):
TATTTT
Found at i:90261639 original size:31 final size:28
Alignment explanation
Indices: 90261575--90261657 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 28
90261565 AAAAAAATTG
* * *
90261575 GGTTTAATTAATTTTTTTCAAAATTTTGG
1 GGTTTAATGAAATTTTTT-AAAATTTTGA
90261604 GGTTTAATGAAATTTTTTAAAATTATTAAGA
1 GGTTTAATGAAATTTTTTAAAATT-TT--GA
*
90261635 GGTTTAATTGAAATTTTTAAAAA
1 GGTTTAA-TGAAATTTTTTAAAA
90261658 AGTAATGAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
28 6 0.13
29 18 0.39
31 8 0.17
32 14 0.30
ACGTcount: A:0.37, C:0.01, G:0.13, T:0.48
Consensus pattern (28 bp):
GGTTTAATGAAATTTTTTAAAATTTTGA
Found at i:90270324 original size:21 final size:21
Alignment explanation
Indices: 90270299--90270341 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
90270289 AAATTCCATA
90270299 CATATTTCACAGAGACAGAGT
1 CATATTTCACAGAGACAGAGT
90270320 CATATTTCACAGAGACAGAGT
1 CATATTTCACAGAGACAGAGT
90270341 C
1 C
90270342 TTTTATATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (21 bp):
CATATTTCACAGAGACAGAGT
Found at i:90270573 original size:42 final size:43
Alignment explanation
Indices: 90270492--90270583 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 43
90270482 TCCCTGATGT
** ** *
90270492 GGTCTTACATGTAATTCAATATCGATGCCTCTGTTCCAGACAG
1 GGTCTTACATAAAATTCAATATCGATGCCGATGTCCCAGACAG
*
90270535 GGTCTTACATAAAATT-AGATA-CGATGCCGATGTCCCAGACAT
1 GGTCTTACATAAAATTCA-ATATCGATGCCGATGTCCCAGACAG
90270577 GGTCTTA
1 GGTCTTA
90270584 TACGTAAATA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 25 0.60
43 17 0.40
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (43 bp):
GGTCTTACATAAAATTCAATATCGATGCCGATGTCCCAGACAG
Found at i:90286349 original size:92 final size:93
Alignment explanation
Indices: 90286228--90286545 Score: 290
Period size: 92 Copynumber: 3.3 Consensus size: 93
90286218 CATTATGAGA
* *
90286228 GCCAGTATAAGACCATGTCTGGGACATGGCATTGGCATTGATACGAGAGTTAGTGTAAGA-CATG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATCGATACGAGAGTTAGTGTAAGACCATG
90286292 TCTGAGACATGCATCGGCTACGAGATGT
66 TCTGAGACATGCATCGGCTACGAGATGT
* *
90286320 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CGTATA-GAG-GTGTCAGTGTAAGACC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATCG-ATACGAGAGT-T-AGTGTAAGACC
90286382 ATGTCT-AGGACATGGCATCGGC-ACGGAGATGT
63 ATGTCTGA-GACAT-GCATCGGCTAC-GAGATGT
* * ** * * * *
90286414 GAGAGCCAATGTAAGACCATGTCTGGGACATGGCGTTAACCTCGATTTCGATAGTTAGTGCAAGA
1 ----GCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATCGA-TACGAGAGTTAGTGTAAGA
* * * * *
90286479 CCATGTCTGGGACATGACACCGACT-TGATGGATGA
61 CCATGTCTGAGACATG-CATCGGCTACGA--GATGT
* *
90286514 GCCAGCGTAAGACCATGTCTAGGACATGGCAT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCAT
90286546 CGACATTACA
Statistics
Matches: 183, Mismatches: 23, Indels: 36
0.76 0.10 0.15
Matches are distributed among these distances:
90 2 0.01
91 5 0.03
92 47 0.26
93 14 0.08
94 15 0.08
96 28 0.15
98 34 0.19
99 29 0.16
100 7 0.04
101 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (93 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATCGATACGAGAGTTAGTGTAAGACCATG
TCTGAGACATGCATCGGCTACGAGATGT
Found at i:90286379 original size:48 final size:50
Alignment explanation
Indices: 90286230--90286447 Score: 226
Period size: 48 Copynumber: 4.6 Consensus size: 50
90286220 TTATGAGAGC
* * *
90286230 CAGTATAAGACCATGTCTGGGACATGGCATTGGCA-TTGATACGAGAGT-T
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGT-ATACGAGAGTGT
*
90286279 -AGTGTAAGA-CATGTCTGAGACAT-GCATCGG--C---TACGAGATGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATACGAGA-GTGT
90286322 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATA-GAG-GTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATACGAGAGTGT
* * * * * * *
90286370 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCACGGAGATGTGAGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATACGAGAGTGT
*
90286420 CAATGTAAGACCATGTCTGGGACATGGC
1 CAGTGTAAGACCATGTCTGGGACATGGC
90286448 GTTAACCTCG
Statistics
Matches: 144, Mismatches: 12, Indels: 25
0.80 0.07 0.14
Matches are distributed among these distances:
41 7 0.05
42 2 0.01
43 1 0.01
44 9 0.06
45 13 0.09
46 13 0.09
47 13 0.09
48 51 0.35
49 2 0.01
50 31 0.22
51 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (50 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATACGAGAGTGT
Found at i:90298322 original size:17 final size:17
Alignment explanation
Indices: 90298286--90298326 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
90298276 CGAAATAATT
*
90298286 AAATTATTTAAAATCTA
1 AAATTATTGAAAATCTA
90298303 AAATTGATTGAAAATC-A
1 AAATT-ATTGAAAATCTA
90298320 AAATTAT
1 AAATTAT
90298327 CTTAATCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 2 0.09
17 11 0.50
18 9 0.41
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.37
Consensus pattern (17 bp):
AAATTATTGAAAATCTA
Found at i:90299016 original size:6 final size:6
Alignment explanation
Indices: 90299005--90299035 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
90298995 CCAGAACAAC
90299005 AAGAAA AAGAAA AAGAAA AAGAAA AA-AAA AA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AA
90299036 CACTGTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:90319864 original size:16 final size:16
Alignment explanation
Indices: 90319840--90319877 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
90319830 ACATTCATAA
90319840 TTATAAAA-TACATTAT
1 TTATAAAATTA-ATTAT
*
90319856 TTATTAAATTAATTAT
1 TTATAAAATTAATTAT
90319872 TTATAA
1 TTATAA
90319878 CAACACATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 17 0.89
17 2 0.11
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
TTATAAAATTAATTAT
Found at i:90319968 original size:16 final size:17
Alignment explanation
Indices: 90319947--90320000 Score: 67
Period size: 16 Copynumber: 3.2 Consensus size: 17
90319937 AATTACCATT
90319947 TATTAAATAAAA-ATTA
1 TATTAAATAAAATATTA
* *
90319963 TATTAATTAAAATACTA
1 TATTAAATAAAATATTA
90319980 T-TTAAATAAAATGATTA
1 TATTAAATAAAAT-ATTA
90319997 TATT
1 TATT
90320001 TCACGTTAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
16 21 0.68
17 8 0.26
18 2 0.06
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
TATTAAATAAAATATTA
Found at i:90324558 original size:18 final size:18
Alignment explanation
Indices: 90324535--90324574 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
90324525 TATTATTTTA
*
90324535 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
90324553 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
90324571 AAAA
1 AAAA
90324575 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:90324700 original size:29 final size:30
Alignment explanation
Indices: 90324658--90324718 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 30
90324648 CTTAACAGGT
*
90324658 AAATGCCTCTAAAATAATAA-AAATTTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
*
90324687 AAATGCCTTTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
90324717 AA
1 AA
90324719 GAAAATAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 19 0.66
30 10 0.34
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.26
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAC
Found at i:90331252 original size:11 final size:11
Alignment explanation
Indices: 90331238--90331276 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
90331228 GAAGCTCACC
90331238 AGAAAAAAAAA
1 AGAAAAAAAAA
*
90331249 AGAAAAAAGAA
1 AGAAAAAAAAA
*
90331260 AG-AAAACAAA
1 AGAAAAAAAAA
90331270 AGAAAAA
1 AGAAAAA
90331277 GGACAACCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.85, C:0.03, G:0.13, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAAA
Found at i:90331256 original size:10 final size:10
Alignment explanation
Indices: 90331241--90331276 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
90331231 GCTCACCAGA
90331241 AAAAAAAAAG
1 AAAAAAAAAG
90331251 AAAAAAGAAAG
1 AAAAAA-AAAG
*
90331262 AAAACAAAAG
1 AAAAAAAAAG
90331272 AAAAA
1 AAAAA
90331277 GGACAACCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:90334980 original size:20 final size:20
Alignment explanation
Indices: 90334934--90334980 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
90334924 TATTTAAATT
*
90334934 AAATTTAATGTAAATTATCA
1 AAATTTAATGAAAATTATCA
* *
90334954 TATTTTAATGAAATATTA-CA
1 AAATTTAATGAAA-ATTATCA
90334974 AAATTTA
1 AAATTTA
90334981 TGACAAAAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (20 bp):
AAATTTAATGAAAATTATCA
Found at i:90338817 original size:25 final size:25
Alignment explanation
Indices: 90338789--90338840 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
90338779 TTTTTAATTT
*
90338789 TTAAAAATTATT-TATATTATTTTAA
1 TTAAAAATTATTATATATT-TTTCAA
*
90338814 TTAAATATTATTATATATTTTTCAA
1 TTAAAAATTATTATATATTTTTCAA
90338839 TT
1 TT
90338841 TATTGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 18 0.75
26 6 0.25
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (25 bp):
TTAAAAATTATTATATATTTTTCAA
Found at i:90349642 original size:17 final size:17
Alignment explanation
Indices: 90349622--90349655 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
90349612 ATTTTTAATT
90349622 TTTTAATATTT-TTTTAA
1 TTTTAAT-TTTATTTTAA
90349639 TTTTAATTTTATTTTAA
1 TTTTAATTTTATTTTAA
90349656 CCCTCCACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTAATTTTATTTTAA
Found at i:90361937 original size:20 final size:22
Alignment explanation
Indices: 90361912--90361954 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
90361902 ATTGTCCAAA
*
90361912 TTAATTT-TTTA-TGTATAATT
1 TTAATTTGTTTATTGAATAATT
90361932 TTAATTTGTTTATTGAATAATT
1 TTAATTTGTTTATTGAATAATT
90361954 T
1 T
90361955 CATTATAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 4 0.20
22 9 0.45
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (22 bp):
TTAATTTGTTTATTGAATAATT
Found at i:90362925 original size:16 final size:17
Alignment explanation
Indices: 90362896--90362927 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
90362886 GAGAAATATA
90362896 AATAGAATAGAAAGAGC
1 AATAGAATAGAAAGAGC
90362913 AATAGAA-AGAAAGAG
1 AATAGAATAGAAAGAG
90362928 GAAGGCGGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.62, C:0.03, G:0.25, T:0.09
Consensus pattern (17 bp):
AATAGAATAGAAAGAGC
Found at i:90371354 original size:37 final size:37
Alignment explanation
Indices: 90371310--90372178 Score: 1720
Period size: 37 Copynumber: 23.5 Consensus size: 37
90371300 CACTTGTCCC
90371310 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
90371347 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
90371384 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
90371421 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
90371458 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
90371495 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
90371532 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
90371569 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
90371606 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
90371643 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
90371680 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
90371717 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
90371754 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
90371791 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
90371828 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
90371865 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
90371902 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
90371939 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
90371976 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
90372013 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
90372050 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
90372087 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
* *
90372124 TGATCAGATAAGTGTAGCCACTTATCACTTTGTCTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
90372161 TGATCAGATAAGTGTAGC
1 TGATCAGATAAGTGTAGC
90372179 TAAAGCTATC
Statistics
Matches: 830, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 830 1.00
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (37 bp):
TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
Found at i:90372221 original size:52 final size:52
Alignment explanation
Indices: 90372142--90372358 Score: 284
Period size: 52 Copynumber: 4.2 Consensus size: 52
90372132 TAAGTGTAGC
* * *
90372142 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
*
90372195 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
* * *
90372247 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
* * *
90372293 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
90372345 CACTTTGTCACTTG
1 CACTTT-TCACTTG
90372359 ATCAGAAGTA
Statistics
Matches: 144, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
46 43 0.30
49 1 0.01
52 85 0.59
53 15 0.10
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
Found at i:90372264 original size:46 final size:46
Alignment explanation
Indices: 90372192--90372364 Score: 231
Period size: 46 Copynumber: 3.7 Consensus size: 46
90372182 AGCTATCACT
*
90372192 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
90372237 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* **
90372283 TATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
90372335 TACCACTTATCACTTTGTCACTTGATCAGA
1 TATCACTTATCACTTTGTCACTTGATCAGA
90372365 AGTACTCAAA
Statistics
Matches: 113, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
45 12 0.11
46 59 0.52
48 1 0.01
50 1 0.01
52 40 0.35
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (46 bp):
TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
Found at i:90372308 original size:98 final size:98
Alignment explanation
Indices: 90372141--90372364 Score: 367
Period size: 98 Copynumber: 2.3 Consensus size: 98
90372131 ATAAGTGTAG
* * * *
90372141 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACT
*
90372206 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
* * *
90372239 TCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACT
*
90372304 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
90372337 CCACTTATCACTTTGTCACTTGATCAGA
1 CCACTTATCACTTTGTCACTTGATCAGA
90372365 AGTACTCAAA
Statistics
Matches: 116, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 116 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (98 bp):
CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACT
TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
Found at i:90382085 original size:129 final size:129
Alignment explanation
Indices: 90381865--90382104 Score: 351
Period size: 129 Copynumber: 1.9 Consensus size: 129
90381855 AACTCACTTT
* * *
90381865 TCGCAATATGAGTTGATTTTTTTTTGACAACAGAAATTGAAATTACCTCGGCGTGTCCCGAGGCT
1 TCGCAATATGAGTTGA-TTTTTTTTGACAACAGAAATTGAAAATACCTCGGCGTGCCCCGAGACT
**
90381930 CAACTCATTTCTCGCAATATGAGTTGAATTTT-AAAAAGGTAGAAATTAAAAGGTTCAACCCACC
65 CAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAA--TAGAAATTAAAAGGTTCAACCCACC
90381994 TC
128 TC
* *
90381996 TCGCAATATGAGTTGA-TTTTTTTGA-AAGTAGAATTTGAAAATACCTCGGCGTGCCCCGAGACT
1 TCGCAATATGAGTTGATTTTTTTTGACAA-CAGAAATTGAAAATACCTCGGCGTGCCCCGAGACT
*
90382059 CAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATT
65 CAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAATAGAAATT
90382105 GAAATTAACT
Statistics
Matches: 99, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
128 10 0.10
129 68 0.69
130 5 0.05
131 16 0.16
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (129 bp):
TCGCAATATGAGTTGATTTTTTTTGACAACAGAAATTGAAAATACCTCGGCGTGCCCCGAGACTC
AACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAATAGAAATTAAAAGGTTCAACCCACCTC
Found at i:90382303 original size:72 final size:72
Alignment explanation
Indices: 90381984--90382610 Score: 636
Period size: 72 Copynumber: 8.7 Consensus size: 72
90381974 ATTAAAAGGT
* ** * *
90381984 TCAACCCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGTAGAATTTGAAAA-TACCTCGGCGT
1 TCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAACAGAAATT-AAAATTACCTCAGCGT
* * *
90382048 GCCCCGAGAC
63 GTCCTGAGGC
* * *
90382058 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTGAAATTAACTCAGCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTAAAATTACCTCAGCGTGT
90382123 CCTGAGGC
65 CCTGAGGC
* * **
90382131 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAAAAAAATGAAAA-TACCTCAATGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-C--AGAAATTAAAATTACCTCAGCGT
*
90382195 GTCTTGAGGC
63 GTCCTGAGGC
** * * *
90382205 TCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTAAAATTACCTCAACGTGTC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTAAAATTACCTCAGCGTGTC
*
90382270 TTGAGGC
66 CTGAGGC
** *
90382277 TCAACTCATTTCTCGCAATATGAGTTGAATTTTTG-AAACAGAAATT-GAA--A--T-----TGT
1 TCAACTCACCTCTCGCAATATGAGTTG-ATTTTTGAAAACAGAAATTAAAATTACCTCAGCGTGT
90382331 CCTGAGGC
65 CCTGAGGC
** * * *
90382339 TCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTACAACAGAAATTGAAATTACCTCAGCGT
1 TCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAAACAGAAATTAAAATTACCTCAGCGT
90382404 GTCCTGAGGC
63 GTCCTGAGGC
* * *
90382414 TCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACAAAAATTGAAATTACCTCAGCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTAAAATTACCTCAGCGTGT
*
90382478 CCTAAGGC
65 CCTGAGGC
** * * *
90382486 TCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTACAACAGAAATTGAAATTACCTCAGCGT
1 TCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAAACAGAAATTAAAATTACCTCAGCGT
90382551 GTCCTGAGGC
63 GTCCTGAGGC
* *
90382561 TCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACAAAAATTAAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTAAAA
90382611 GGCTTAACTC
Statistics
Matches: 474, Mismatches: 52, Indels: 56
0.81 0.09 0.10
Matches are distributed among these distances:
61 1 0.00
62 37 0.08
64 5 0.01
65 10 0.02
66 2 0.00
67 1 0.00
68 1 0.00
69 1 0.00
70 1 0.00
71 19 0.04
72 143 0.30
73 67 0.14
74 78 0.16
75 104 0.22
76 4 0.01
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (72 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTAAAATTACCTCAGCGTGTC
CTGAGGC
Found at i:90382309 original size:147 final size:144
Alignment explanation
Indices: 90382057--90382606 Score: 694
Period size: 147 Copynumber: 3.8 Consensus size: 144
90382047 TGCCCCGAGA
** * *
90382057 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATAGAAATTGAAATTAACTCAGCGT
1 CTCAACTCATTTCTCGCAATATGAGTTGATTTTTTG-AAAACAGAAATTGAAATTACCTCAGCGT
* * *
90382121 GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAAAAAAATGAAAATA
65 GTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAAC-AAAAATTG-AAATA
*
90382186 CCTCAATGTGTCTTGAGG
127 CCTCAATGTGTCCTGAGG
* * * *
90382204 CTCAACTCATTTCTCGCAATATAAGTTGA-ATTTTGAAAACAGAAATTAAAATTACCTCAACGTG
1 CTCAACTCATTTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
* ** * *
90382268 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTG--AAACAGAAATTG----A--
66 TCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTG-A-TTTTGAAAAACAAAAATTGAAATACC
90382325 --AAT-TGTCCTGAGG
129 TCAATGTGTCCTGAGG
* *
90382338 CTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTACAACAGAAATTGAAATTACCTCAGCG
1 CTCAACTCATTTCTCGCAATATGAGTTGA--TTTTTTGAAAACAGAAATTGAAATTACCTCAGCG
90382403 TGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTGAAATTAC
64 TGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTGAAA-TAC
** *
90382468 CTCAGCGTGTCCTAAGG
128 CTCAATGTGTCCTGAGG
* *
90382485 CTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTACAACAGAAATTGAAATTACCTCAGCG
1 CTCAACTCATTTCTCGCAATATGAGTTGA--TTTTTTGAAAACAGAAATTGAAATTACCTCAGCG
90382550 TGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATT
64 TGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATT
90382607 AAAAGGCTTA
Statistics
Matches: 358, Mismatches: 29, Indels: 32
0.85 0.07 0.08
Matches are distributed among these distances:
134 37 0.10
135 8 0.02
136 1 0.00
137 73 0.20
139 1 0.00
142 1 0.00
144 6 0.02
145 3 0.01
146 59 0.16
147 169 0.47
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (144 bp):
CTCAACTCATTTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
TCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTGAAATACCTC
AATGTGTCCTGAGG
Found at i:90382416 original size:75 final size:75
Alignment explanation
Indices: 90382328--90382592 Score: 410
Period size: 75 Copynumber: 3.6 Consensus size: 75
90382318 AAATTGAAAT
** *
90382328 TGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTACAACAGAAATTGAAAT
1 TGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTTTTACAACAGAAATTGAAAT
90382393 TACCTCAGCG
66 TACCTCAGCG
** * *
90382403 TGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA---TTTTGAAAAACAAAAATTGAAAT
1 TGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTTTTACAACAGAAATTGAAAT
90382465 TACCTCAGCG
66 TACCTCAGCG
* ** *
90382475 TGTCCTAAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTACAACAGAAATTGAAAT
1 TGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTTTTACAACAGAAATTGAAAT
90382540 TACCTCAGCG
66 TACCTCAGCG
90382550 TGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 TGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
90382593 GAAAAACAAA
Statistics
Matches: 168, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
72 64 0.38
75 104 0.62
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (75 bp):
TGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTTTTACAACAGAAATTGAAAT
TACCTCAGCG
Found at i:90382494 original size:209 final size:210
Alignment explanation
Indices: 90382120--90382604 Score: 593
Period size: 209 Copynumber: 2.3 Consensus size: 210
90382110 TAACTCAGCG
90382120 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAAAAAAATGAAAAT
1 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAAAAAAATGAAAAT
* * ** * *
90382185 ACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAAT
66 ACCTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATAAGTTGAATTTTGAAAACAAAAAT
* *
90382250 TAAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTTGA-
131 TAAAATTACCTCAACGTGTCCTAAGGCTCAACTCATTTCTCGCAATATGAGTTGATATTTTTGAC
90382313 AACAGAAATTGAAAT
196 AACAGAAATTGAAAT
** **** *
90382328 TGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTA-CAACAGAAATTGAAA
1 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAA-A-AAAATGAAA
* * *
90382392 TTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACAAA
64 ATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATAAGTTGAATTTTG-AAAACAAA
* * *
90382456 AATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTT
128 AATTAAAATTACCTCAACGTGTCCTAAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TATTTT
*
90382521 TTACAACAGAAATTGAAATTACCT
192 TGACAACAGAAATTG-AA--A--T
* *
90382545 CAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACAAAAA
1 -----TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAAAAA
90382605 TTAAAAGGCT
Statistics
Matches: 231, Mismatches: 29, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
207 3 0.01
208 50 0.22
209 110 0.48
211 6 0.03
212 11 0.05
213 2 0.01
215 1 0.00
217 1 0.00
220 2 0.01
221 6 0.03
222 39 0.17
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (210 bp):
TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAAAAAAATGAAAAT
ACCTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATAAGTTGAATTTTGAAAACAAAAAT
TAAAATTACCTCAACGTGTCCTAAGGCTCAACTCATTTCTCGCAATATGAGTTGATATTTTTGAC
AACAGAAATTGAAAT
Found at i:90392930 original size:219 final size:219
Alignment explanation
Indices: 90392551--90392987 Score: 847
Period size: 219 Copynumber: 2.0 Consensus size: 219
90392541 GTTAAAAGCC
90392551 AGAGGAAAATTAGGGTTCGGGAGTCGGTTACGCGCAAGGAAGGTATTAGCACCCTCACGACGCCC
1 AGAGGAAAATTAGGGTTCGGGAGTCGGTTACGCGCAAGGAAGGTATTAGCACCCTCACGACGCCC
90392616 AAAAATTGGTATCTCATAAACACATGTTGTCTTAATTTTCAAAAATACGGTTCAATATAAAATTT
66 AAAAATTGGTATCTCATAAACACATGTTGTCTTAATTTTCAAAAATACGGTTCAATATAAAATTT
*
90392681 AGTCGTGATCCGATTAAAAAACAAGAAACTTTAGTTTATTCTGTTTTTTCTTTTAGAAGGGTATA
131 AGTCGTGATCCGATTAAAAAACAAGAAACTTTAGTTTATTCCGTTTTTTCTTTTAGAAGGGTATA
90392746 TCGCTTTAACACGAGTCAATTGAT
196 TCGCTTTAACACGAGTCAATTGAT
*
90392770 AGAGGAAAATTAGGGTTCGGGAGTCGGTTACGCGCAAGGAAGGTATTAGCACCCTCGCGACGCCC
1 AGAGGAAAATTAGGGTTCGGGAGTCGGTTACGCGCAAGGAAGGTATTAGCACCCTCACGACGCCC
*
90392835 AAAAATTGGTATCTCATAAACACATGTTGTCTTAATTTTCAAAAATACGGTTCAATGTAAAATTT
66 AAAAATTGGTATCTCATAAACACATGTTGTCTTAATTTTCAAAAATACGGTTCAATATAAAATTT
90392900 AGTCGTGATCCGATTAAAAAACAAGAAACTTTAGTTTATTCCGTTTTTTCTTTTAGAAGGGTATA
131 AGTCGTGATCCGATTAAAAAACAAGAAACTTTAGTTTATTCCGTTTTTTCTTTTAGAAGGGTATA
90392965 TCGCTTTAACACGAGTCAATTGA
196 TCGCTTTAACACGAGTCAATTGA
90392988 CGTTCACCCA
Statistics
Matches: 215, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
219 215 1.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (219 bp):
AGAGGAAAATTAGGGTTCGGGAGTCGGTTACGCGCAAGGAAGGTATTAGCACCCTCACGACGCCC
AAAAATTGGTATCTCATAAACACATGTTGTCTTAATTTTCAAAAATACGGTTCAATATAAAATTT
AGTCGTGATCCGATTAAAAAACAAGAAACTTTAGTTTATTCCGTTTTTTCTTTTAGAAGGGTATA
TCGCTTTAACACGAGTCAATTGAT
Found at i:90393479 original size:24 final size:26
Alignment explanation
Indices: 90393452--90393501 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
90393442 AAATGTATGT
90393452 ACATAACAT-ATATG-AAAAATATAA
1 ACATAACATAATATGTAAAAATATAA
* *
90393476 ACATGATATAATATGTAAAAATATAA
1 ACATAACATAATATGTAAAAATATAA
90393502 TATAGTATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 5 0.23
26 10 0.45
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (26 bp):
ACATAACATAATATGTAAAAATATAA
Found at i:90394270 original size:16 final size:16
Alignment explanation
Indices: 90394249--90394280 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
90394239 TTTTGTGTAA
*
90394249 TGGGCTGTTAGTTTAG
1 TGGGCTGGTAGTTTAG
90394265 TGGGCTGGTAGTTTAG
1 TGGGCTGGTAGTTTAG
90394281 GTTATTGGGC
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:0.12, C:0.06, G:0.41, T:0.41
Consensus pattern (16 bp):
TGGGCTGGTAGTTTAG
Found at i:90397307 original size:29 final size:31
Alignment explanation
Indices: 90397265--90397326 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 31
90397255 GAGTAAAGTT
* *
90397265 AAAATTATATTTTAA-TCTTTTAAAATAATA
1 AAAATTATAATTTAATTCTTTAAAAATAATA
*
90397295 AAAATT-TAATTTAATTCTTTAAAAATTATA
1 AAAATTATAATTTAATTCTTTAAAAATAATA
90397325 AA
1 AA
90397327 GATATAGGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 7 0.25
30 21 0.75
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (31 bp):
AAAATTATAATTTAATTCTTTAAAAATAATA
Found at i:90398764 original size:6 final size:6
Alignment explanation
Indices: 90398755--90398789 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
90398745 CTTAGAGGAG
90398755 CCCCAA CCCCAA CCCCAA CCCCAA CCCCAA CCCCA
1 CCCCAA CCCCAA CCCCAA CCCCAA CCCCAA CCCCA
90398790 GCCAGTATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.31, C:0.69, G:0.00, T:0.00
Consensus pattern (6 bp):
CCCCAA
Found at i:90400003 original size:19 final size:21
Alignment explanation
Indices: 90399979--90400029 Score: 70
Period size: 22 Copynumber: 2.5 Consensus size: 21
90399969 CAGAATTTTT
90399979 TTTATAAAAAAAT-ATA-AAA
1 TTTATAAAAAAATCATACAAA
90399998 TTTATAAGAAAAATCATACAAA
1 TTTATAA-AAAAATCATACAAA
*
90400020 ATTATAAAAA
1 TTTATAAAAA
90400030 CTTGAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 7 0.25
20 6 0.21
21 6 0.21
22 9 0.32
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (21 bp):
TTTATAAAAAAATCATACAAA
Found at i:90400314 original size:30 final size:31
Alignment explanation
Indices: 90400253--90400315 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 31
90400243 AGTTTATATC
* *
90400253 TTTATAATTTTTAAAGGATTAAATTGAAATT
1 TTTATAATTTTTAAAGGATCAAAGTGAAATT
* *
90400284 TTTATAA-TTTTAAAGGGTCAAAGTGTAATT
1 TTTATAATTTTTAAAGGATCAAAGTGAAATT
90400314 TT
1 TT
90400316 ACTTTTACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 21 0.75
31 7 0.25
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.48
Consensus pattern (31 bp):
TTTATAATTTTTAAAGGATCAAAGTGAAATT
Found at i:90400636 original size:30 final size:31
Alignment explanation
Indices: 90400575--90400637 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 31
90400565 AGTTTATATC
* *
90400575 TTTATAATTTTTAAAGGATTAAATTGAAATT
1 TTTATAATTTTTAAAGGATCAAAGTGAAATT
* *
90400606 TTTATAA-TTTTAAAGGGTCAAAGTGTAATT
1 TTTATAATTTTTAAAGGATCAAAGTGAAATT
90400636 TT
1 TT
90400638 ACTTTTACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 21 0.75
31 7 0.25
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.48
Consensus pattern (31 bp):
TTTATAATTTTTAAAGGATCAAAGTGAAATT
Found at i:90400739 original size:322 final size:322
Alignment explanation
Indices: 90400154--90400798 Score: 1281
Period size: 322 Copynumber: 2.0 Consensus size: 322
90400144 AGTTAAATTT
90400154 AGCCCTTAACTTAAGAAAAATGAATTTAATCAACAGGGGCGAAGTCAAAATAATTTTGTAGGGGG
1 AGCCCTTAACTTAAGAAAAATGAATTTAATCAACAGGGGCGAAGTCAAAATAATTTTGTAGGGGG
90400219 TCGGATGAAATTTTAATTTTTTATAGTTTATATCTTTATAATTTTTAAAGGATTAAATTGAAATT
66 TCGGATGAAATTTTAATTTTTTATAGTTTATATCTTTATAATTTTTAAAGGATTAAATTGAAATT
90400284 TTTATAATTTTAAAGGGTCAAAGTGTAATTTTACTTTTACTAGTTTACAATTTTTAAATAGTAAT
131 TTTATAATTTTAAAGGGTCAAAGTGTAATTTTACTTTTACTAGTTTACAATTTTTAAATAGTAAT
90400349 TTTACATTTTAAGAGGACTAGCAGGGCTAGATTCACAGCTGTTAATCAACTTTTCAAAAAGAATG
196 TTTACATTTTAAGAGGACTAGCAGGGCTAGATTCACAGCTGTTAATCAACTTTTCAAAAAGAATG
90400414 GAGTTGTTATTATTTTTAACAAAAATAATGAAAATACTAATTAAAATATTAAAAATTTAAAC
261 GAGTTGTTATTATTTTTAACAAAAATAATGAAAATACTAATTAAAATATTAAAAATTTAAAC
*
90400476 AGCCCTTAACTTAAGAAAACTGAATTTAATCAACAGGGGCGAAGTCAAAATAATTTTGTAGGGGG
1 AGCCCTTAACTTAAGAAAAATGAATTTAATCAACAGGGGCGAAGTCAAAATAATTTTGTAGGGGG
90400541 TCGGATGAAATTTTAATTTTTTATAGTTTATATCTTTATAATTTTTAAAGGATTAAATTGAAATT
66 TCGGATGAAATTTTAATTTTTTATAGTTTATATCTTTATAATTTTTAAAGGATTAAATTGAAATT
90400606 TTTATAATTTTAAAGGGTCAAAGTGTAATTTTACTTTTACTAGTTTACAATTTTTAAATAGTAAT
131 TTTATAATTTTAAAGGGTCAAAGTGTAATTTTACTTTTACTAGTTTACAATTTTTAAATAGTAAT
90400671 TTTACATTTTAAGAGGACTAGCAGGGCTAGATTCACAGCTGTTAATCAACTTTTCAAAAAGAATG
196 TTTACATTTTAAGAGGACTAGCAGGGCTAGATTCACAGCTGTTAATCAACTTTTCAAAAAGAATG
90400736 GAGTTGTTATTATTTTTAACAAAAATAATGAAAATACTAATTAAAATATTAAAAATTTAAAC
261 GAGTTGTTATTATTTTTAACAAAAATAATGAAAATACTAATTAAAATATTAAAAATTTAAAC
90400798 A
1 A
90400799 TACTAGCTTA
Statistics
Matches: 322, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
322 322 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (322 bp):
AGCCCTTAACTTAAGAAAAATGAATTTAATCAACAGGGGCGAAGTCAAAATAATTTTGTAGGGGG
TCGGATGAAATTTTAATTTTTTATAGTTTATATCTTTATAATTTTTAAAGGATTAAATTGAAATT
TTTATAATTTTAAAGGGTCAAAGTGTAATTTTACTTTTACTAGTTTACAATTTTTAAATAGTAAT
TTTACATTTTAAGAGGACTAGCAGGGCTAGATTCACAGCTGTTAATCAACTTTTCAAAAAGAATG
GAGTTGTTATTATTTTTAACAAAAATAATGAAAATACTAATTAAAATATTAAAAATTTAAAC
Found at i:90400877 original size:18 final size:17
Alignment explanation
Indices: 90400856--90400917 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 17
90400846 TTTTATGATT
90400856 TTTTTATAATTTCTTAAA
1 TTTTTATAATTT-TTAAA
* *
90400874 TTTTGAGT-TTTGTTTAATA
1 TTTTTA-TAATT-TTTAA-A
90400893 TTTTTATAATTTTTAAA
1 TTTTTATAATTTTTAAA
90400910 TTATTTAT
1 TT-TTTAT
90400918 TGACGAATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
17 3 0.09
18 22 0.63
19 10 0.29
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.65
Consensus pattern (17 bp):
TTTTTATAATTTTTAAA
Found at i:90403021 original size:20 final size:20
Alignment explanation
Indices: 90402996--90403042 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
90402986 TAATTTATGC
*
90402996 ATTTTTATAATTCTTGTATA
1 ATTTTTATAATTCTTATATA
* *
90403016 ATTTTTATAATTTTTATATG
1 ATTTTTATAATTCTTATATA
90403036 ATTTTTA
1 ATTTTTA
90403043 ATAAAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (20 bp):
ATTTTTATAATTCTTATATA
Found at i:90403042 original size:11 final size:9
Alignment explanation
Indices: 90402996--90403033 Score: 58
Period size: 9 Copynumber: 4.0 Consensus size: 9
90402986 TAATTTATGC
90402996 ATTTTTATA
1 ATTTTTATA
90403005 ATTCTTGTATA
1 ATT-TT-TATA
90403016 ATTTTTATA
1 ATTTTTATA
90403025 ATTTTTATA
1 ATTTTTATA
90403034 TGATTTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 16 0.59
10 4 0.15
11 7 0.26
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (9 bp):
ATTTTTATA
Found at i:90413452 original size:27 final size:27
Alignment explanation
Indices: 90413422--90413562 Score: 130
Period size: 27 Copynumber: 5.2 Consensus size: 27
90413412 GTGACGAAGT
90413422 CACCAGATACAGATATTGTGGTAGAGC
1 CACCAGATACAGATATTGTGGTAGAGC
*
90413449 CACCAGA-ACAGATATATGTGATAGAGC
1 CACCAGATACAGATAT-TGTGGTAGAGC
* * *
90413476 CACCAAAT-CAGATAATCGT-GTCATAGC
1 CACCAGATACAGAT-ATTGTGGT-AGAGC
*
90413503 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGTAGAGC
* * *
90413530 CACTAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGTAGAGC
90413557 CACCAG
1 CACCAG
90413563 GACGCTTCCT
Statistics
Matches: 93, Mismatches: 12, Indels: 18
0.76 0.10 0.15
Matches are distributed among these distances:
26 11 0.12
27 77 0.83
28 5 0.05
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGTAGAGC
Found at i:90413504 original size:54 final size:54
Alignment explanation
Indices: 90413404--90413562 Score: 180
Period size: 54 Copynumber: 3.0 Consensus size: 54
90413394 GCGAGGCTGC
* * * * *
90413404 CAGATAT-TGTGAC-GAAGTCACCAGATACAGAT-ATTGTGGTAGAGCCACCAGAA
1 CAGATATATGTGACAG-AGCCACCAAAT-CAGATAATCGTGGCATAGCCACCAGAA
* *
90413457 CAGATATATGTGATAGAGCCACCAAATCAGATAATCGTGTCATAGCCACCAGAA
1 CAGATATATGTGACAGAGCCACCAAATCAGATAATCGTGGCATAGCCACCAGAA
* * * *
90413511 CAGATATATGTGGCAGAGCCACTAGATCAGATAATTGTGGCATAGCCACCAG
1 CAGATATATGTGACAGAGCCACCAAATCAGATAATCGTGGCATAGCCACCAG
90413563 GACGCTTCCT
Statistics
Matches: 90, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
53 12 0.13
54 77 0.86
55 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (54 bp):
CAGATATATGTGACAGAGCCACCAAATCAGATAATCGTGGCATAGCCACCAGAA
Found at i:90415208 original size:26 final size:26
Alignment explanation
Indices: 90415169--90415276 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
90415159 TGAAATGCTC
90415169 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
90415195 ATCATGGAATATTTACCT-AACTCATT
1 ATCATGGAACATTTACCTAAAC-CATT
* *
90415221 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
90415247 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
90415273 ATCA
1 ATCA
90415277 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
25 3 0.04
26 71 0.93
27 2 0.03
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:90418122 original size:22 final size:21
Alignment explanation
Indices: 90418072--90418124 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
90418062 AGTTATGAAA
*
90418072 TAAAAAAAATAAAAATAAAAG
1 TAAAAAAAACAAAAATAAAAG
*
90418093 -AAGCAAAAAACAAAAATAGATAG
1 TAA--AAAAAACAAAAATA-AAAG
90418116 TAAAAAAAA
1 TAAAAAAAA
90418125 TCCACCTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
20 2 0.08
22 19 0.73
23 3 0.12
24 2 0.08
ACGTcount: A:0.77, C:0.04, G:0.08, T:0.11
Consensus pattern (21 bp):
TAAAAAAAACAAAAATAAAAG
Found at i:90419286 original size:13 final size:13
Alignment explanation
Indices: 90419268--90419293 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
90419258 TAATTATCTA
90419268 ATTAACTAAGATT
1 ATTAACTAAGATT
90419281 ATTAACTAAGATT
1 ATTAACTAAGATT
90419294 GCGACAGAGT
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:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
ATTAACTAAGATT
Found at i:90421993 original size:93 final size:93
Alignment explanation
Indices: 90421881--90422052 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
90421871 GCCCATAAGT
* *
90421881 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
90421946 TGAGCTCGGATGCCTAGTTACATCTCTC
66 TGAGCTCGGATGCCTAGTTACATCTCTC
* *
90421974 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
90422039 TGAGTTCGGATGCC
66 TGAGCTCGGATGCC
90422053 CAAACATCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
TGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:90422048 original size:46 final size:46
Alignment explanation
Indices: 90421873--90422048 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
90421863 TGTAACCCGC
* * *
90421873 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* * *
90421919 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
90421969 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* *
90422012 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
90422049 TGCCCAAACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 63 0.58
47 27 0.25
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:90423886 original size:225 final size:232
Alignment explanation
Indices: 90423571--90424140 Score: 561
Period size: 225 Copynumber: 2.5 Consensus size: 232
90423561 ACTCCGCTGG
** **
90423571 AACTTCAAAGAGATAAGACTTGGTAATTTCAACCTGCTCCACTGCATCTTCAAGGAGATGGGGTT
1 AACTTCAGGGAGATAAGACTT-GTAATTTCAACCTGCTCCACTGCATCTTCAAGGAGATAAGGTT
* *
90423636 TGCGACTTCAATATGCTCCACTGCAACTTCA-AGGAGATAAGATCCGTCATGGTA-ACTTGAT-G
65 TGCGACTTCAATATGCTCCACTGCAACTTCAGA-GAGATAAGATCCGCCATGGTAGACTTGATCA
* * * *
90423698 ACCTACTGCAACTTCAGAGGTATAGGA-CT-T-A-TAGCA-T-TAATCTGCTCTACTACAACTTC
129 ACCCACTGCAACTTCAGACGTATAGGATCTGTAACTAGCAGTGTAACCTGCTCCACTACAACTTC
* * * **
90423757 AGAGAGATAAGATTTGCTATTTTTAGTCTATTCCACTGC
194 AGAGAAATAAGATTTGCTATCTTCAGTCTACCCCACTGC
* *
90423796 AACTTCAGGGAGGTAAGACTTGATAATTTCAAACTGCTCCACTGCATCTTCAAGGAGATAAGGTT
1 AACTTCAGGGAGATAAGACTTG-TAATTTCAACCTGCTCCACTGCATCTTCAAGGAGATAAGGTT
* * * * * **
90423861 AATG-G-CTTTAATCTGCTCTACTGCAATTTCAGAGAGATAAGGTTTGCCATGGTAGACTTGATC
65 --TGCGACTTCAATATGCTCCACTGCAACTTCAGAGAGATAAGATCCGCCATGGTAGACTTGAT-
* * * * * *
90423924 CAACCCAGTGCAACTTCAGACGTATAGGATTTGTAACTCGTAGTTGTAACCTGTTCCACTGCAAC
127 CAACCCACTGCAACTTCAGACGTATAGGATCTGTAACTAGCAG-TGTAACCTGCTCCACTACAAC
* *
90423989 TTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCCCCACTGC
191 TTCAGAGAAATAAGATTTGCTATCTTCAGTCTACCCCACTGC
* * * * * *
90424031 AATTTCAGGGAGATAAGACTTGTAACTTT-AACCTGCCCCACTGCAACCTCAGGGGGATAAGGTT
1 AACTTCAGGGAGATAAGACTTGTAA-TTTCAACCTGCTCCACTGCATCTTCAAGGAGATAAGGTT
* * ** ** *
90424095 TGCTATTCTTCTATATATTCCACTATAACTTCAGGGAGATAAGATC
65 TGCGA--CTTCAATATGCTCCACTGCAACTTCAGAGAGATAAGATC
90424141 TGTAACTTCA
Statistics
Matches: 273, Mismatches: 53, Indels: 27
0.77 0.15 0.08
Matches are distributed among these distances:
224 1 0.00
225 96 0.35
226 9 0.03
227 2 0.01
228 24 0.09
229 1 0.00
230 1 0.00
231 1 0.00
232 5 0.02
234 33 0.12
235 73 0.27
236 27 0.10
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (232 bp):
AACTTCAGGGAGATAAGACTTGTAATTTCAACCTGCTCCACTGCATCTTCAAGGAGATAAGGTTT
GCGACTTCAATATGCTCCACTGCAACTTCAGAGAGATAAGATCCGCCATGGTAGACTTGATCAAC
CCACTGCAACTTCAGACGTATAGGATCTGTAACTAGCAGTGTAACCTGCTCCACTACAACTTCAG
AGAAATAAGATTTGCTATCTTCAGTCTACCCCACTGC
Found at i:90424083 original size:44 final size:45
Alignment explanation
Indices: 90423970--90424091 Score: 138
Period size: 44 Copynumber: 2.7 Consensus size: 45
90423960 CTCGTAGTTG
** * * *
90423970 TAACCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTT
1 TAACCTGCCCCACTGCAACTTCAGGGAGATAAGACTTGCTAACTT
* ** *
90424015 CAGTCTGCCCCACTGCAATTTCAGGGAGATAAGACTTG-TAACTT
1 TAACCTGCCCCACTGCAACTTCAGGGAGATAAGACTTGCTAACTT
* *
90424059 TAACCTGCCCCACTGCAACCTCAGGGGGATAAG
1 TAACCTGCCCCACTGCAACTTCAGGGAGATAAG
90424092 GTTTGCTATT
Statistics
Matches: 62, Mismatches: 15, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
44 32 0.52
45 30 0.48
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (45 bp):
TAACCTGCCCCACTGCAACTTCAGGGAGATAAGACTTGCTAACTT
Found at i:90424177 original size:44 final size:44
Alignment explanation
Indices: 90424113--90424228 Score: 135
Period size: 44 Copynumber: 2.6 Consensus size: 44
90424103 TTCTATATAT
*
90424113 TCCACTATAACTTCAGGGAGATAAGA-TCTGTAACTTCAATCTAC
1 TCCACTATAACTTCAGGGAGATAAGATTC-GCAACTTCAATCTAC
* * * * *
90424157 TCCTCTATAACTTCAAGGAGATGAGATTCGCGACTTCAATCTGC
1 TCCACTATAACTTCAGGGAGATAAGATTCGCAACTTCAATCTAC
** *
90424201 TCCACTGCAACTTCAGGGAGACAAGATT
1 TCCACTATAACTTCAGGGAGATAAGATT
90424229 TGCCATGGTG
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 57 0.97
45 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (44 bp):
TCCACTATAACTTCAGGGAGATAAGATTCGCAACTTCAATCTAC
Found at i:90429078 original size:14 final size:14
Alignment explanation
Indices: 90429040--90429083 Score: 56
Period size: 13 Copynumber: 3.2 Consensus size: 14
90429030 TAAAATGTAC
90429040 AATATAATTAAA-T
1 AATATAATTAAATT
90429053 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
90429068 AA-ATAATTTAATT
1 AATATAATTAAATT
90429081 AAT
1 AAT
90429084 TGTTTACCCG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:90432578 original size:17 final size:18
Alignment explanation
Indices: 90432556--90432589 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
90432546 AACGCCTTTG
90432556 TTCTTC-TACTTCTTCAC
1 TTCTTCTTACTTCTTCAC
*
90432573 TTCTTCTTATTTCTTCA
1 TTCTTCTTACTTCTTCA
90432590 AATCAAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.12, C:0.29, G:0.00, T:0.59
Consensus pattern (18 bp):
TTCTTCTTACTTCTTCAC
Found at i:90436340 original size:20 final size:20
Alignment explanation
Indices: 90436317--90436356 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
90436307 TATAAGAGAA
90436317 AGAGAAATAAAAGAAGTAAG
1 AGAGAAATAAAAGAAGTAAG
90436337 AGAGAAATAAAAGAAGTAAG
1 AGAGAAATAAAAGAAGTAAG
90436357 CATAAAGCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.25, T:0.10
Consensus pattern (20 bp):
AGAGAAATAAAAGAAGTAAG
Found at i:90436808 original size:50 final size:50
Alignment explanation
Indices: 90436684--90436932 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
90436674 GATAATAACA
* * ** * *
90436684 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
90436735 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
90436785 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
90436835 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
90436890 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
90436933 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:90436862 original size:100 final size:104
Alignment explanation
Indices: 90436683--90436932 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
90436673 TGATAATAAC
**
90436683 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
90436748 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
90436785 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
90436848 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
90436890 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
90436933 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:90437048 original size:13 final size:13
Alignment explanation
Indices: 90437027--90437058 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
90437017 GCTTGGATCA
*
90437027 TCATCAAATAAAT
1 TCATAAAATAAAT
90437040 TCATAAAATAAAT
1 TCATAAAATAAAT
90437053 TCATAA
1 TCATAA
90437059 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:90437306 original size:30 final size:30
Alignment explanation
Indices: 90437270--90437327 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
90437260 CCTCGACTCT
*
90437270 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* * *
90437300 AACTTTTACATAATTATATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
90437328 AAGGCTCGGA
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:0.31, C:0.22, G:0.03, T:0.43
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:90438094 original size:40 final size:40
Alignment explanation
Indices: 90438032--90438126 Score: 145
Period size: 40 Copynumber: 2.3 Consensus size: 40
90438022 TTTTCTTTTT
* *
90438032 TTTCTTTCCTTCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
1 TTTCTTT-CTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
*
90438073 TTTCTTTCTTTCTCCCTTCTCTGTTTTGTTTTGCTCTCTG
1 TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
90438113 TTTCTTTTCTTTCT
1 TTTC-TTTCTTTCT
90438127 TTCTTTGTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
40 34 0.68
41 16 0.32
ACGTcount: A:0.00, C:0.28, G:0.08, T:0.63
Consensus pattern (40 bp):
TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
Found at i:90438152 original size:3 final size:3
Alignment explanation
Indices: 90438144--90438194 Score: 51
Period size: 3 Copynumber: 19.0 Consensus size: 3
90438134 TCATATATAT
*
90438144 ATA ATA AT- ATA ATA AT- ATA AT- ATA AT- ATA AT- ATA TTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
90438187 AT- ATA ATA
1 ATA ATA ATA
90438195 TAAAAACATA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
2 12 0.30
3 28 0.70
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:90438155 original size:8 final size:8
Alignment explanation
Indices: 90438142--90438197 Score: 62
Period size: 8 Copynumber: 6.8 Consensus size: 8
90438132 TGTCATATAT
90438142 ATATAATA
1 ATATAATA
90438150 ATATAATA
1 ATATAATA
90438158 ATATAATATA
1 ATAT-A-ATA
90438168 ATATAAT-
1 ATATAATA
90438175 ATATTAATA
1 ATA-TAATA
90438184 ATA-ATATA
1 ATATA-ATA
90438192 ATATAA
1 ATATAA
90438198 AAACATAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
7 4 0.10
8 25 0.60
9 6 0.14
10 7 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATAATA
Found at i:90438157 original size:5 final size:5
Alignment explanation
Indices: 90438136--90438197 Score: 67
Period size: 5 Copynumber: 12.2 Consensus size: 5
90438126 TTTCTTTGTC
90438136 ATATA TATATA ATA-A TATAATA ATATA ATATA ATATA ATAT- AT-TA
1 ATATA -ATATA ATATA -AT-ATA ATATA ATATA ATATA ATATA ATATA
90438181 ATAATA ATATA ATATA A
1 AT-ATA ATATA ATATA A
90438198 AAACATAATT
Statistics
Matches: 50, Mismatches: 0, Indels: 13
0.79 0.00 0.21
Matches are distributed among these distances:
3 1 0.02
4 5 0.10
5 31 0.62
6 12 0.24
7 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:90438205 original size:13 final size:13
Alignment explanation
Indices: 90438147--90438206 Score: 57
Period size: 13 Copynumber: 4.4 Consensus size: 13
90438137 TATATATATA
*
90438147 ATAATATAATAAT
1 ATAATATAAAAAT
90438160 ATAATATAATATAAT
1 ATAATATAA-A-AAT
* *
90438175 ATATTAATAATAAT
1 ATAAT-ATAAAAAT
*
90438189 ATAATATAAAAAC
1 ATAATATAAAAAT
90438202 ATAAT
1 ATAAT
90438207 TATTACTTAC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
13 20 0.53
14 7 0.18
15 7 0.18
16 4 0.11
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAATATAAAAAT
Found at i:90438206 original size:37 final size:37
Alignment explanation
Indices: 90438136--90438206 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
90438126 TTTCTTTGTC
* *
90438136 ATATATATATAATAATATAATAATATAATATAATATA
1 ATATATATATAATAATATAATAATAAAACATAATATA
90438173 ATATAT-TAATAATAATATAAT-ATAAAAACATAAT
1 ATATATAT-ATAATAATATAATAAT-AAAACATAAT
90438207 TATTACTTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 3 0.10
37 27 0.90
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (37 bp):
ATATATATATAATAATATAATAATAAAACATAATATA
Found at i:90444636 original size:27 final size:26
Alignment explanation
Indices: 90444601--90444661 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 26
90444591 ATAATTAATT
*
90444601 AATTTAATGTGTCTAGTTTA-GGACA
1 AATTTAATGTGTCTAGCTTAGGGACA
90444626 TCAATTTAATGTGTCTAGCTTAGGGACA
1 --AATTTAATGTGTCTAGCTTAGGGACA
90444654 AATTTAAT
1 AATTTAAT
90444662 TGTTGCTGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 8 0.25
27 19 0.59
28 5 0.16
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (26 bp):
AATTTAATGTGTCTAGCTTAGGGACA
Found at i:90448439 original size:3 final size:3
Alignment explanation
Indices: 90448433--90448465 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
90448423 TTTTACAGTC
*
90448433 TCT TCT TCT TCT TCT TCT TCT TCT TCT TTT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
90448466 CTGTTATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TCT
Found at i:90448676 original size:30 final size:31
Alignment explanation
Indices: 90448612--90448679 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
90448602 CTGTTAATCG
* * *
90448612 GTGACTGTTTTGTCATTTTTTTATAATGTTA
1 GTGACTGTTTTGTCATTTTTTAAAAATGTGA
*
90448643 GTGACTGTTTTGTTATTTTTTAAAAAT-TGA
1 GTGACTGTTTTGTCATTTTTTAAAAATGTGA
90448673 GTGACTG
1 GTGACTG
90448680 ATATGAAACC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
30 9 0.27
31 24 0.73
ACGTcount: A:0.22, C:0.06, G:0.19, T:0.53
Consensus pattern (31 bp):
GTGACTGTTTTGTCATTTTTTAAAAATGTGA
Found at i:90448778 original size:15 final size:15
Alignment explanation
Indices: 90448758--90448791 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
90448748 AAAAAAGAGT
90448758 GAAAAA-GAGAGAAAA
1 GAAAAATGAGA-AAAA
90448773 GAAAAATGAGAAAAA
1 GAAAAATGAGAAAAA
90448788 GAAA
1 GAAA
90448792 GGAAAACAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.03
Consensus pattern (15 bp):
GAAAAATGAGAAAAA
Done.