Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 143 of 185
Found at i:44225489 original size:26 final size:26
Alignment explanation
Indices: 44225453--44225506 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
44225443 TTGAATGTGA
44225453 AAGGGGTTGCTAAGTGCTGATTCCCC
1 AAGGGGTTGCTAAGTGCTGATTCCCC
*
44225479 AAGGGGTTGCTAAGTGTTGATTCCCC
1 AAGGGGTTGCTAAGTGCTGATTCCCC
44225505 AA
1 AA
44225507 CTCTTCGGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (26 bp):
AAGGGGTTGCTAAGTGCTGATTCCCC
Found at i:44225510 original size:102 final size:102
Alignment explanation
Indices: 44225352--44225580 Score: 413
Period size: 102 Copynumber: 2.2 Consensus size: 102
44225342 GAATAACAAG
* *
44225352 GGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTACTGATTCCCCGACTCTTTGGTGGT
1 GGGGTTGCTAAGTGCTGATT-CCCCAAGGGGTTGCTAAGTACTGATTCCCCAACTCTTCGGTGGT
44225417 TGCTAAGTGCTGATTCCACCATATCCTTGAATGTGAAA
65 TGCTAAGTGCTGATTCCACCATATCCTTGAATGTGAAA
**
44225455 GGGGTTGCTAAGTGCTGATTCCCCAAGGGGTTGCTAAGTGTTGATTCCCCAACTCTTCGGTGGTT
1 GGGGTTGCTAAGTGCTGATTCCCCAAGGGGTTGCTAAGTACTGATTCCCCAACTCTTCGGTGGTT
44225520 GCTAAGTGCTGATTCCACCATATCCTTGAATGTGAAA
66 GCTAAGTGCTGATTCCACCATATCCTTGAATGTGAAA
44225557 GGGGTTGCTAAGTGCTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
44225581 GAATCACTGG
Statistics
Matches: 122, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
102 102 0.84
103 20 0.16
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.31
Consensus pattern (102 bp):
GGGGTTGCTAAGTGCTGATTCCCCAAGGGGTTGCTAAGTACTGATTCCCCAACTCTTCGGTGGTT
GCTAAGTGCTGATTCCACCATATCCTTGAATGTGAAA
Found at i:44225609 original size:76 final size:77
Alignment explanation
Indices: 44225479--44225695 Score: 305
Period size: 76 Copynumber: 2.8 Consensus size: 77
44225469 CTGATTCCCC
*
44225479 AAGGGGTTGCTAAGTGTTGATTCCCC-AACTC-TTCGGTGGTTGCTAAGTGCTGATTCCACCATA
1 AAGGGGTTGCTAAGTGTTGATTCCCCGAA-TCACT-GGTGGTTGCTAAGTGCTGATTCCACCATA
*
44225542 TCCTTGAATGT-GA
64 TCCTTGAATGTAAA
* *
44225555 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGTTGATTCCACCATATC
1 AAGGGGTTGCTAAGTGTTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATTCCACCATATC
44225620 CTTGAATGTAAAAA
66 CTTGAATGT--AAA
* *
44225634 AAGGGGGGTTACTAAGTGTTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGAATCCACC
1 AA--GGGGTTGCTAAGTGTTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATTCCACC
44225696 GATAACGGTT
Statistics
Matches: 126, Mismatches: 8, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
76 66 0.52
77 3 0.02
79 3 0.02
81 54 0.43
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (77 bp):
AAGGGGTTGCTAAGTGTTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATTCCACCATATC
CTTGAATGTAAA
Found at i:44228174 original size:22 final size:24
Alignment explanation
Indices: 44228132--44228175 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
44228122 TAACTAAGCT
44228132 TACTTACTTTTCTAACTTAATTCA
1 TACTTACTTTTCTAACTTAATTCA
44228156 TACTT-CTTTTCT-ACTTAATT
1 TACTTACTTTTCTAACTTAATT
44228176 TCTTGTCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 7 0.35
24 5 0.25
ACGTcount: A:0.25, C:0.20, G:0.00, T:0.55
Consensus pattern (24 bp):
TACTTACTTTTCTAACTTAATTCA
Found at i:44228565 original size:15 final size:15
Alignment explanation
Indices: 44228545--44228573 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
44228535 TTCTTTCCTG
44228545 TTTTTCTTTTGTTTC
1 TTTTTCTTTTGTTTC
44228560 TTTTTCTTTTGTTT
1 TTTTTCTTTTGTTT
44228574 TACTTACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (15 bp):
TTTTTCTTTTGTTTC
Found at i:44228775 original size:17 final size:16
Alignment explanation
Indices: 44228752--44228809 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 16
44228742 GTTTATTTAA
44228752 TATATAATAATATAAT
1 TATATAATAATATAAT
44228768 TAATATAAT-ATAATATAT
1 T-ATATAATAAT-ATA-AT
*
44228786 TATATAATAAAATAAT
1 TATATAATAATATAAT
44228802 ATATATAA
1 -TATATAA
44228810 AACATAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
16 5 0.14
17 27 0.75
18 4 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TATATAATAATATAAT
Found at i:44228776 original size:5 final size:5
Alignment explanation
Indices: 44228749--44228809 Score: 60
Period size: 5 Copynumber: 12.6 Consensus size: 5
44228739 TTGGTTTATT
44228749 TAATA T-ATAA TAATA TAAT- TAATA TAATA TAATA TATTATA TAATA
1 TAATA TAAT-A TAATA TAATA TAATA TAATA TAATA TA--ATA TAATA
44228795 -AA-A TAATA T-ATA TAA
1 TAATA TAATA TAATA TAA
44228810 AACATAAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
3 1 0.02
4 14 0.29
5 26 0.54
6 2 0.04
7 5 0.10
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:44231568 original size:46 final size:46
Alignment explanation
Indices: 44231508--44231605 Score: 187
Period size: 46 Copynumber: 2.1 Consensus size: 46
44231498 TTTAATTGAG
*
44231508 TCAATTTATTCGAAGTAGAATTAAGTTAAGTGGTCGTAATAATTGT
1 TCAACTTATTCGAAGTAGAATTAAGTTAAGTGGTCGTAATAATTGT
44231554 TCAACTTATTCGAAGTAGAATTAAGTTAAGTGGTCGTAATAATTGT
1 TCAACTTATTCGAAGTAGAATTAAGTTAAGTGGTCGTAATAATTGT
44231600 TCAACT
1 TCAACT
44231606 AGAGAATTTG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (46 bp):
TCAACTTATTCGAAGTAGAATTAAGTTAAGTGGTCGTAATAATTGT
Found at i:44236321 original size:19 final size:19
Alignment explanation
Indices: 44236297--44236335 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
44236287 GAATCTTTTC
44236297 CATTGTTGTGTAGAAGCCT
1 CATTGTTGTGTAGAAGCCT
44236316 CATTGTTGTGTAGAAGCCT
1 CATTGTTGTGTAGAAGCCT
44236335 C
1 C
44236336 TCTTATCCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.36
Consensus pattern (19 bp):
CATTGTTGTGTAGAAGCCT
Found at i:44239723 original size:21 final size:20
Alignment explanation
Indices: 44239697--44239739 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
44239687 TTTAAAAATT
*
44239697 AAAAACATTAAAATTAGTAAA
1 AAAAACATAAAAATTA-TAAA
44239718 AAAAACATAAAAATTATAAA
1 AAAAACATAAAAATTATAAA
44239738 AA
1 AA
44239740 TATATTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.21
Consensus pattern (20 bp):
AAAAACATAAAAATTATAAA
Found at i:44241489 original size:17 final size:16
Alignment explanation
Indices: 44241456--44241496 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
44241446 AAAATGACCC
*
44241456 AAAAATAAATAATTAT
1 AAAAATAAATAAGTAT
*
44241472 AAAAATAACTCAAGTAT
1 AAAAATAAAT-AAGTAT
44241489 AAAAATAA
1 AAAAATAA
44241497 TTATTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.24
Consensus pattern (16 bp):
AAAAATAAATAAGTAT
Found at i:44241655 original size:90 final size:90
Alignment explanation
Indices: 44241555--44241723 Score: 223
Period size: 89 Copynumber: 1.9 Consensus size: 90
44241545 GGCATGTATA
* * * *** *
44241555 ACCTTAATTTTTGACCAAATTATTACCTTATAATTGTGTCACGCTTAAAATTTTTAATTTTTTGG
1 ACCTTAA-TTTTGACCAAATAATCACCTGATAATTGTGTCACGCTTAAAAAAATTAAATTTTTGG
44241620 GTT-GGGGGACTTAACGGCCGACACC
65 GTTGGGGGGACTTAACGGCCGACACC
* * * *
44241645 ACCTTGATTTTGACCCAATAATCATCTGATAATTGTGTCAGGCTTAAAAAAATTAAATTTTTGGG
1 ACCTTAATTTTGACCAAATAATCACCTGATAATTGTGTCACGCTTAAAAAAATTAAATTTTTGGG
44241710 TTGGGGGGACTTAA
66 TTGGGGGGACTTAA
44241724 GGCTATTTGA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
89 50 0.75
90 17 0.25
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.37
Consensus pattern (90 bp):
ACCTTAATTTTGACCAAATAATCACCTGATAATTGTGTCACGCTTAAAAAAATTAAATTTTTGGG
TTGGGGGGACTTAACGGCCGACACC
Found at i:44244021 original size:42 final size:42
Alignment explanation
Indices: 44243955--44244088 Score: 155
Period size: 42 Copynumber: 3.2 Consensus size: 42
44243945 CTTTCACGAA
* * * *
44243955 CTTCTATTTAACTCATATGAGTTTCCT-TTCAGCT-TTATTGAG
1 CTTCTGTTTAACCCTTATGGGTTT-CTGTTCAGCTCTTA-TGAG
* *
44243997 CTTCTGTTTAACCCTTATGGGTTTCTGTTCAACTCTTACGAG
1 CTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTATGAG
* * *
44244039 CTTCTGTTAAACCCTTATGGGTTTCTGTTTAGCTCTCATGAG
1 CTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTATGAG
44244081 CTTCTGTT
1 CTTCTGTT
44244089 CAGCCTTTGA
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
41 2 0.03
42 74 0.94
43 3 0.04
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.46
Consensus pattern (42 bp):
CTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTATGAG
Found at i:44244085 original size:21 final size:21
Alignment explanation
Indices: 44243993--44244105 Score: 95
Period size: 21 Copynumber: 5.5 Consensus size: 21
44243983 TCAGCTTTAT
*
44243993 TGAGCTTCTGTTTAACCCTTA
1 TGAGCTTCTGTTCAACCCTTA
* * *
44244014 TGGGTTTCTGTTCAACTCTTA
1 TGAGCTTCTGTTCAACCCTTA
* *
44244035 CGAGCTTCTGTTAAACCCTTA
1 TGAGCTTCTGTTCAACCCTTA
* * * * * *
44244056 TGGGTTTCTGTTTAGCTCTCA
1 TGAGCTTCTGTTCAACCCTTA
*
44244077 TGAGCTTCTGTTC-AGCCTT-
1 TGAGCTTCTGTTCAACCCTTA
44244096 TGAGCTTCTG
1 TGAGCTTCTG
44244106 ATAATGATAT
Statistics
Matches: 69, Mismatches: 23, Indels: 2
0.73 0.24 0.02
Matches are distributed among these distances:
19 10 0.14
20 2 0.03
21 57 0.83
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.42
Consensus pattern (21 bp):
TGAGCTTCTGTTCAACCCTTA
Found at i:44250874 original size:42 final size:41
Alignment explanation
Indices: 44250827--44250960 Score: 137
Period size: 42 Copynumber: 3.2 Consensus size: 41
44250817 TATCTCTCAC
* *
44250827 GAGCTTCTGTTTAACTCATATGAATTTCCGTTTAGCTCTATT
1 GAGCTTCTGTTTAAC-CTTATGAGTTTCCGTTTAGCTCTATT
* *
44250869 GAGCTTCTGTTTAACCTTTATGGGTTTCCGTTTAGCTCT-TAC
1 GAGCTTCTGTTTAACC-TTATGAGTTTCCGTTTAGCTCTAT-T
* * * *
44250911 GAGATTCCGTTCAACCCTTATGAGTTTCTGTTTAGCTCTCA-T
1 GAGCTTCTGTTTAA-CCTTATGAGTTTCCGTTTAGCTCT-ATT
44250953 GAGCTTCT
1 GAGCTTCT
44250961 ATTCAGCCTT
Statistics
Matches: 75, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
41 2 0.03
42 71 0.95
43 2 0.03
ACGTcount: A:0.18, C:0.22, G:0.17, T:0.43
Consensus pattern (41 bp):
GAGCTTCTGTTTAACCTTATGAGTTTCCGTTTAGCTCTATT
Found at i:44250960 original size:21 final size:21
Alignment explanation
Indices: 44250827--44250960 Score: 83
Period size: 21 Copynumber: 6.4 Consensus size: 21
44250817 TATCTCTCAC
*
44250827 GAGCTTCTGTTTAACTCATAT
1 GAGCTTCTGTTTAACTCTTAT
** * *
44250848 GAATTTCCGTTTAGCTC-TATT
1 GAGCTTCTGTTTAACTCTTA-T
44250869 GAGCTTCTGTTTAAC-CTTTAT
1 GAGCTTCTGTTTAACTC-TTAT
* * * * *
44250890 GGGTTTCCGTTTAGCTCTTAC
1 GAGCTTCTGTTTAACTCTTAT
* * * *
44250911 GAGATTCCGTTCAACCCTTAT
1 GAGCTTCTGTTTAACTCTTAT
* * *
44250932 GAGTTTCTGTTTAGCTCTCAT
1 GAGCTTCTGTTTAACTCTTAT
44250953 GAGCTTCT
1 GAGCTTCT
44250961 ATTCAGCCTT
Statistics
Matches: 83, Mismatches: 26, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
20 3 0.04
21 77 0.93
22 3 0.04
ACGTcount: A:0.18, C:0.22, G:0.17, T:0.43
Consensus pattern (21 bp):
GAGCTTCTGTTTAACTCTTAT
Found at i:44253405 original size:47 final size:47
Alignment explanation
Indices: 44253352--44253498 Score: 233
Period size: 47 Copynumber: 3.1 Consensus size: 47
44253342 AAATGTTTTA
44253352 AATAAATAAATTATTAAGTTATTATATAGTGTAAAGTAAAATAATTT
1 AATAAATAAATTATTAAGTTATTATATAGTGTAAAGTAAAATAATTT
* *
44253399 AATAAATAAATTATTAAGATATTATATAGTGTAAA-AAAAATAATTT
1 AATAAATAAATTATTAAGTTATTATATAGTGTAAAGTAAAATAATTT
* * *
44253445 AATAAATAAATTGTAAAGTTATTAAATAGTGTAAAGTAAAATAATTT
1 AATAAATAAATTATTAAGTTATTATATAGTGTAAAGTAAAATAATTT
44253492 AAATAAA
1 -AATAAA
44253499 ATATTAATAC
Statistics
Matches: 91, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
46 41 0.45
47 44 0.48
48 6 0.07
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (47 bp):
AATAAATAAATTATTAAGTTATTATATAGTGTAAAGTAAAATAATTT
Found at i:44253519 original size:93 final size:94
Alignment explanation
Indices: 44253334--44253507 Score: 244
Period size: 93 Copynumber: 1.9 Consensus size: 94
44253324 TCATGATTAT
* ** * *
44253334 TGTAAAATAAATGTTTTAAATAAATAAATTATTAAGTTATTATATAGTGTAAAGTAAAATAATTT
1 TGTAAAAAAAATAATTTAAATAAATAAATTATAAAGTTATTAAATAGTGTAAAGTAAAATAATTT
* *
44253399 AATAAATAAATTATTAAGATATTATATAG
66 AATAAATAAATTAATAACATATTATATAG
*
44253428 TGTAAAAAAAATAATTT-AATAAATAAATTGTAAAGTTATTAAATAGTGTAAAGTAAAATAATTT
1 TGTAAAAAAAATAATTTAAATAAATAAATTATAAAGTTATTAAATAGTGTAAAGTAAAATAATTT
*
44253492 AAATAAA-ATATTAATA
66 -AATAAATAAATTAATA
44253508 CATTTAAATA
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
93 51 0.72
94 20 0.28
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (94 bp):
TGTAAAAAAAATAATTTAAATAAATAAATTATAAAGTTATTAAATAGTGTAAAGTAAAATAATTT
AATAAATAAATTAATAACATATTATATAG
Found at i:44253527 original size:23 final size:21
Alignment explanation
Indices: 44253494--44253540 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
44253484 AATAATTTAA
*
44253494 ATAAAATATTAATACATTTAAAT
1 ATAAAAAATT-AT-CATTTAAAT
*
44253517 ATAAAAAATTATTATTTAAAT
1 ATAAAAAATTATCATTTAAAT
44253538 ATA
1 ATA
44253541 CATTTAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.50
22 2 0.09
23 9 0.41
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
ATAAAAAATTATCATTTAAAT
Found at i:44253655 original size:24 final size:23
Alignment explanation
Indices: 44253623--44253684 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 23
44253613 TTATATACAG
44253623 TAAAGTAAATAAATTATTCAATTA
1 TAAAGTAAATAAATTATTC-ATTA
*
44253647 TAAAGTAAATAAATTATTCATTT
1 TAAAGTAAATAAATTATTCATTA
44253670 TAAAGATTAAATAAA
1 TAAAG--TAAATAAA
44253685 AAACTAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
23 8 0.23
24 19 0.54
25 8 0.23
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (23 bp):
TAAAGTAAATAAATTATTCATTA
Found at i:44255742 original size:21 final size:22
Alignment explanation
Indices: 44255701--44255742 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
44255691 AAAACTAATT
*
44255701 TACGAAAATATTTATAATTTATA
1 TACGAAAATA-TTAAAATTTATA
44255724 TACGAAAATA-TAAAATTTA
1 TACGAAAATATTAAAATTTA
44255743 ACCAACAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
23 10 0.56
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (22 bp):
TACGAAAATATTAAAATTTATA
Found at i:44256713 original size:30 final size:30
Alignment explanation
Indices: 44256679--44256741 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
44256669 ACTTATTTCA
44256679 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
44256709 TTGTTAATTTTGTTATTATTTTATAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
44256739 TTG
1 TTG
44256742 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.13, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:44260881 original size:32 final size:32
Alignment explanation
Indices: 44260835--44260895 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
44260825 ATCACTAACT
* *
44260835 AATACTAATGTAATATTAATAGAATAGAATAG
1 AATACTAATCTAATACTAATAGAATAGAATAG
44260867 AATACTAATCTAATACTAATAGAATAGAA
1 AATACTAATCTAATACTAATAGAATAGAA
44260896 AAATAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.54, C:0.07, G:0.10, T:0.30
Consensus pattern (32 bp):
AATACTAATCTAATACTAATAGAATAGAATAG
Found at i:44260892 original size:11 final size:11
Alignment explanation
Indices: 44260835--44260892 Score: 57
Period size: 11 Copynumber: 5.4 Consensus size: 11
44260825 ATCACTAACT
44260835 AATACTAAT-G
1 AATACTAATAG
*
44260845 TAATATTAATAG
1 -AATACTAATAG
*
44260857 AATA-GAATAG
1 AATACTAATAG
**
44260867 AATACTAATCT
1 AATACTAATAG
44260878 AATACTAATAG
1 AATACTAATAG
44260889 AATA
1 AATA
44260893 GAAAAATAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
10 9 0.24
11 28 0.74
12 1 0.03
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.31
Consensus pattern (11 bp):
AATACTAATAG
Found at i:44262310 original size:22 final size:23
Alignment explanation
Indices: 44262276--44262318 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
44262266 ATATGATATG
44262276 TAATATTAGAAGATATGATTTTA
1 TAATATTAGAAGATATGATTTTA
* *
44262299 TAATCTTA-AAGATTTGATTT
1 TAATATTAGAAGATATGATTT
44262319 GTAGATAGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.47
Consensus pattern (23 bp):
TAATATTAGAAGATATGATTTTA
Found at i:44270638 original size:12 final size:12
Alignment explanation
Indices: 44270623--44270661 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
44270613 AAAAATAGAA
44270623 ATAATAATATAT
1 ATAATAATATAT
44270635 ATAATAATATAT
1 ATAATAATATAT
44270647 A-AA-AATGATAT
1 ATAATAAT-ATAT
44270658 ATAA
1 ATAA
44270662 ATATAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 3 0.12
11 7 0.28
12 15 0.60
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (12 bp):
ATAATAATATAT
Found at i:44270714 original size:22 final size:22
Alignment explanation
Indices: 44270638--44270730 Score: 65
Period size: 22 Copynumber: 4.4 Consensus size: 22
44270628 AATATATATA
44270638 ATAATATAT-AA-AAAT-GATAT
1 ATAATATATAAATAAATAGA-AT
**
44270658 ATAA-ATATAAAATATTTAGAAT
1 ATAATATAT-AAATAAATAGAAT
*
44270680 AT-ATA-AAATAATAAAATAG-AT
1 ATAATATATA-AAT-AAATAGAAT
*
44270701 ATAATATATAAATAAATTGAAT
1 ATAATATATAAATAAATAGAAT
44270723 ATAATATA
1 ATAATATA
44270731 ATATTAAATA
Statistics
Matches: 56, Mismatches: 7, Indels: 18
0.69 0.09 0.22
Matches are distributed among these distances:
19 4 0.07
20 5 0.09
21 16 0.29
22 27 0.48
23 4 0.07
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.34
Consensus pattern (22 bp):
ATAATATATAAATAAATAGAAT
Found at i:44270723 original size:26 final size:28
Alignment explanation
Indices: 44270614--44270746 Score: 92
Period size: 26 Copynumber: 5.1 Consensus size: 28
44270604 ATGTATACAA
* *
44270614 AAAATAGAA-ATAATA-ATATATATAAT
1 AAAATATAATATAATATATAAATATAAT
*
44270640 AATATATAA-A-AATGATATATAA-AT-AT
1 AAAATATAATATAAT-ATATA-AATATAAT
* *
44270666 AAAATAT-TTAGAATATATAAA-ATAAT
1 AAAATATAATATAATATATAAATATAAT
*
44270692 AAAATA-GATATAATATATAAATA-AAT
1 AAAATATAATATAATATATAAATATAAT
**
44270718 TGAATATAATATAATAT-TAAATAT-AT
1 AAAATATAATATAATATATAAATATAAT
44270744 AAA
1 AAA
44270747 TAAATTAAAC
Statistics
Matches: 85, Mismatches: 12, Indels: 20
0.73 0.10 0.17
Matches are distributed among these distances:
25 7 0.08
26 59 0.69
27 18 0.21
28 1 0.01
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (28 bp):
AAAATATAATATAATATATAAATATAAT
Found at i:44270753 original size:17 final size:17
Alignment explanation
Indices: 44270628--44270755 Score: 73
Period size: 17 Copynumber: 7.1 Consensus size: 17
44270618 TAGAAATAAT
44270628 AATATATATAATAATATATA
1 AATATATA-AATAA-AT-TA
* *
44270648 AAAATGATATATAAATATAA
1 AATAT-ATAAATAAAT-T-A
* * *
44270668 AATATTTAGAATATATAA
1 AATATATA-AATAAATTA
*
44270686 AATA-ATAAAATAGA-TA
1 AATATAT-AAATAAATTA
*
44270702 TAATATATAAATAAATTG
1 -AATATATAAATAAATTA
*
44270720 AATATA-ATATAATATTA
1 AATATATAAATAA-ATTA
44270737 AATATATAAATAAATTA
1 AATATATAAATAAATTA
44270754 AA
1 AA
44270756 CCAAAAGAGT
Statistics
Matches: 84, Mismatches: 15, Indels: 21
0.70 0.12 0.17
Matches are distributed among these distances:
16 6 0.07
17 37 0.44
18 14 0.17
19 6 0.07
20 18 0.21
21 3 0.04
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (17 bp):
AATATATAAATAAATTA
Found at i:44275487 original size:13 final size:13
Alignment explanation
Indices: 44275471--44275495 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44275461 CTTTTAGCTG
44275471 TTACTTTAATTTA
1 TTACTTTAATTTA
44275484 TTACTTTAATTT
1 TTACTTTAATTT
44275496 CATTTATCCT
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:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (13 bp):
TTACTTTAATTTA
Found at i:44282225 original size:12 final size:11
Alignment explanation
Indices: 44282204--44282234 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
44282194 ATTGAGTTTA
44282204 TTTCTTTTCTT
1 TTTCTTTTCTT
44282215 TTTCGTTTTCTT
1 TTTC-TTTTCTT
44282227 TTTCTTTT
1 TTTCTTTT
44282235 AGCTTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.81
Consensus pattern (11 bp):
TTTCTTTTCTT
Found at i:44283259 original size:21 final size:21
Alignment explanation
Indices: 44283233--44283276 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
44283223 TGCTGAATTA
*
44283233 TTTAAATTCATGTTTCTATAC
1 TTTAAAATCATGTTTCTATAC
44283254 TTTAAAATCATGTTTCTATAC
1 TTTAAAATCATGTTTCTATAC
44283275 TT
1 TT
44283277 AGGAGAGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.14, G:0.05, T:0.52
Consensus pattern (21 bp):
TTTAAAATCATGTTTCTATAC
Found at i:44285699 original size:51 final size:51
Alignment explanation
Indices: 44285627--44285731 Score: 147
Period size: 51 Copynumber: 2.1 Consensus size: 51
44285617 TAATTAAAAT
* * * *
44285627 AAAATAATTAATTAAAGGATAAATTATATTTAAAGCAAAAAATTTAAATTA
1 AAAATAATCAACTAAAGGATAAATCATATTTAAAACAAAAAATTTAAATTA
* * *
44285678 AAAATAATCAACTAAATGATAAATCATATTTAAAACAATAAATTTCAATTA
1 AAAATAATCAACTAAAGGATAAATCATATTTAAAACAAAAAATTTAAATTA
44285729 AAA
1 AAA
44285732 TAAAATAATT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.59, C:0.06, G:0.04, T:0.31
Consensus pattern (51 bp):
AAAATAATCAACTAAAGGATAAATCATATTTAAAACAAAAAATTTAAATTA
Found at i:44285730 original size:70 final size:70
Alignment explanation
Indices: 44285656--44285801 Score: 195
Period size: 70 Copynumber: 2.1 Consensus size: 70
44285646 TAAATTATAT
* *
44285656 TTAAAGCAAAA-AATTTAAATTAAAAATAATCAACTAAATGATAAATCATATTTAAAACAATAAA
1 TTAAAACAAAATAATTTAAA-TAAAAATAATCAACTAAAGGATAAATCATATTTAAAACAATAAA
*
44285720 TTTCAA
65 TTTAAA
* * * * * *
44285726 TTAAAATAAAATAATTTAAATAAAAATAATTAAGTATAGGATAAATTATATTTAAAGCAATAAAT
1 TTAAAACAAAATAATTTAAATAAAAATAATCAACTAAAGGATAAATCATATTTAAAACAATAAAT
44285791 TTAAA
66 TTAAA
44285796 TTAAAA
1 TTAAAA
44285802 ATAATAAATT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
70 58 0.88
71 8 0.12
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (70 bp):
TTAAAACAAAATAATTTAAATAAAAATAATCAACTAAAGGATAAATCATATTTAAAACAATAAAT
TTAAA
Found at i:44285741 original size:14 final size:15
Alignment explanation
Indices: 44285724--44285758 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
44285714 AATAAATTTC
44285724 AATTAAAAT-AAAAT
1 AATTAAAATAAAAAT
*
44285738 AATTTAAATAAAAAT
1 AATTAAAATAAAAAT
44285753 AATTAA
1 AATTAA
44285759 GTATAGGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AATTAAAATAAAAAT
Found at i:44285788 original size:19 final size:19
Alignment explanation
Indices: 44285766--44285843 Score: 93
Period size: 19 Copynumber: 4.1 Consensus size: 19
44285756 TAAGTATAGG
**
44285766 ATAAATTATATTTAAAGCA
1 ATAAATTATATTTAAAATA
* *
44285785 ATAAATTTAAATTAAAAATA
1 ATAAA-TTATATTTAAAATA
44285805 ATAAATTATATTTAAAATA
1 ATAAATTATATTTAAAATA
* *
44285824 ATAAATTTTAATTAAAATA
1 ATAAATTATATTTAAAATA
44285843 A
1 A
44285844 AATAATTTAA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
19 35 0.70
20 15 0.30
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (19 bp):
ATAAATTATATTTAAAATA
Found at i:44285809 original size:20 final size:20
Alignment explanation
Indices: 44285784--44285864 Score: 96
Period size: 19 Copynumber: 4.2 Consensus size: 20
44285774 TATTTAAAGC
44285784 AATAAATTTAAATTAAAAAT
1 AATAAATTTAAATTAAAAAT
* *
44285804 AATAAA-TTATATTTAAAAT
1 AATAAATTTAAATTAAAAAT
*
44285823 AATAAATTTTAATT-AAAAT
1 AATAAATTTAAATTAAAAAT
*
44285842 AAAATAATTTAAA-TAAAAAT
1 AATA-AATTTAAATTAAAAAT
44285862 AAT
1 AAT
44285865 TAAGTATAGG
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
19 26 0.51
20 25 0.49
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AATAAATTTAAATTAAAAAT
Found at i:44285811 original size:39 final size:39
Alignment explanation
Indices: 44285766--44285920 Score: 141
Period size: 39 Copynumber: 4.2 Consensus size: 39
44285756 TAAGTATAGG
44285766 ATAAATTATATTTAAAGCAATAAATTTAAATTAAAAATA
1 ATAAATTATATTTAAAGCAATAAATTTAAATTAAAAATA
** *
44285805 ATAAATTATATTTAAAATAATAAATTTTAATT-AAAAT-
1 ATAAATTATATTTAAAGCAATAAATTTAAATTAAAAATA
* **
44285842 A-AAA-TA-ATTTAAA-TAA-AAA--T-AATTAAGTATA
1 ATAAATTATATTTAAAGCAATAAATTTAAATTAAAAATA
* *
44285873 GGATAAATCATATTTAAAGCAATAAATTTAAATTAGAAATA
1 --ATAAATTATATTTAAAGCAATAAATTTAAATTAAAAATA
*
44285914 ATTAATT
1 ATAAATT
44285921 GAATGATAAA
Statistics
Matches: 92, Mismatches: 12, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
29 4 0.04
30 4 0.04
32 3 0.03
33 4 0.04
34 10 0.11
35 3 0.03
36 10 0.11
37 3 0.03
38 8 0.09
39 34 0.37
40 1 0.01
41 8 0.09
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (39 bp):
ATAAATTATATTTAAAGCAATAAATTTAAATTAAAAATA
Found at i:44285829 original size:109 final size:109
Alignment explanation
Indices: 44285691--44285920 Score: 397
Period size: 109 Copynumber: 2.1 Consensus size: 109
44285681 ATAATCAACT
* *
44285691 AAATGATAAATCATATTTAAAACAATAAATTTCAATTAAAATAAAATAATTTAAATAAAAATAAT
1 AAATAATAAATTATATTTAAAACAATAAATTTCAATTAAAATAAAATAATTTAAATAAAAATAAT
*
44285756 TAAGTATAGGATAAATTATATTTAAAGCAATAAATTTAAATTAA
66 TAAGTATAGGATAAATCATATTTAAAGCAATAAATTTAAATTAA
* *
44285800 AAATAATAAATTATATTTAAAATAATAAATTTTAATTAAAATAAAATAATTTAAATAAAAATAAT
1 AAATAATAAATTATATTTAAAACAATAAATTTCAATTAAAATAAAATAATTTAAATAAAAATAAT
*
44285865 TAAGTATAGGATAAATCATATTTAAAGCAATAAATTTAAATTAG
66 TAAGTATAGGATAAATCATATTTAAAGCAATAAATTTAAATTAA
*
44285909 AAATAATTAATT
1 AAATAATAAATT
44285921 GAATGATAAA
Statistics
Matches: 114, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
109 114 1.00
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (109 bp):
AAATAATAAATTATATTTAAAACAATAAATTTCAATTAAAATAAAATAATTTAAATAAAAATAAT
TAAGTATAGGATAAATCATATTTAAAGCAATAAATTTAAATTAA
Found at i:44285849 original size:14 final size:15
Alignment explanation
Indices: 44285832--44285867 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
44285822 TAATAAATTT
44285832 TAATTAAAAT-AAAA
1 TAATTAAAATAAAAA
*
44285846 TAATTTAAATAAAAA
1 TAATTAAAATAAAAA
44285861 TAATTAA
1 TAATTAA
44285868 GTATAGGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TAATTAAAATAAAAA
Found at i:44285853 original size:15 final size:15
Alignment explanation
Indices: 44285832--44285865 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
44285822 TAATAAATTT
*
44285832 TAATTAAAAT-AAAA
1 TAATTTAAATAAAAA
44285846 TAATTTAAATAAAAA
1 TAATTTAAATAAAAA
44285861 TAATT
1 TAATT
44285866 AAGTATAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
TAATTTAAATAAAAA
Found at i:44285981 original size:17 final size:17
Alignment explanation
Indices: 44285956--44285989 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44285946 AATTATATTA
*
44285956 TAATTAAAGGATAAATT
1 TAATGAAAGGATAAATT
*
44285973 TAATGAAAGGCTAAATT
1 TAATGAAAGGATAAATT
44285990 AGATTTTAAG
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:0.50, C:0.03, G:0.15, T:0.32
Consensus pattern (17 bp):
TAATGAAAGGATAAATT
Found at i:44286882 original size:12 final size:14
Alignment explanation
Indices: 44286852--44286886 Score: 56
Period size: 12 Copynumber: 2.6 Consensus size: 14
44286842 ACAACCATGA
44286852 TTTTAATTACTTGT
1 TTTTAATTACTTGT
44286866 TTTTAATTA-TT-T
1 TTTTAATTACTTGT
44286878 TTTTAATTA
1 TTTTAATTA
44286887 GAATTATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 10 0.48
13 2 0.10
14 9 0.43
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (14 bp):
TTTTAATTACTTGT
Found at i:44287402 original size:24 final size:24
Alignment explanation
Indices: 44287375--44287422 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
44287365 AAATACATCA
* *
44287375 TGTGAAAAAAAAGAAGGAAAAAAT
1 TGTGAAAAAAAAAAAGAAAAAAAT
44287399 TGTGAAAAAAAAAAAGAAAAAAAT
1 TGTGAAAAAAAAAAAGAAAAAAAT
44287423 GGACCATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (24 bp):
TGTGAAAAAAAAAAAGAAAAAAAT
Found at i:44296105 original size:3 final size:3
Alignment explanation
Indices: 44296097--44296122 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
44296087 GAAAGATGTA
44296097 CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CA
44296123 ACATGTGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:44305839 original size:16 final size:16
Alignment explanation
Indices: 44305820--44305851 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
44305810 AAAATAACCC
44305820 AAATTTAAAACGATTT
1 AAATTTAAAACGATTT
*
44305836 AAATTTAAAATGATTT
1 AAATTTAAAACGATTT
44305852 GGATAATTGA
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:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (16 bp):
AAATTTAAAACGATTT
Found at i:44313108 original size:25 final size:27
Alignment explanation
Indices: 44313060--44313124 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 27
44313050 ATTTTATTTT
44313060 AATAGTTAATAATAAACTAATTTATAA
1 AATAGTTAATAATAAACTAATTTATAA
* * *
44313087 AATA-TTAA-AATAAATTATTTTATAT
1 AATAGTTAATAATAAACTAATTTATAA
*
44313112 AATAAGATAATAA
1 AAT-AGTTAATAA
44313125 ATTAACATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
25 17 0.55
26 5 0.16
27 7 0.23
28 2 0.06
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (27 bp):
AATAGTTAATAATAAACTAATTTATAA
Found at i:44315369 original size:18 final size:18
Alignment explanation
Indices: 44315328--44315369 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
44315318 GATAAGATAG
*
44315328 AATTTTGAAATTTTTTGT
1 AATTTTAAAATTTTTTGT
*
44315346 ATTTTTAAAATATTTTT-T
1 AATTTTAAAAT-TTTTTGT
44315364 AATTTT
1 AATTTT
44315370 TTAATTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (18 bp):
AATTTTAAAATTTTTTGT
Found at i:44332062 original size:14 final size:15
Alignment explanation
Indices: 44332043--44332072 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
44332033 GTGATTCAGC
44332043 ATTCAA-TCAACAAT
1 ATTCAACTCAACAAT
44332057 ATTCAACTCAACAAT
1 ATTCAACTCAACAAT
44332072 A
1 A
44332073 CTTATATAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (15 bp):
ATTCAACTCAACAAT
Found at i:44332620 original size:47 final size:47
Alignment explanation
Indices: 44332567--44332664 Score: 178
Period size: 47 Copynumber: 2.1 Consensus size: 47
44332557 GCATACAAAA
*
44332567 ACATTGAATGATTTATAGGATGGGATGGTGAAATATGAGGAAAGGGT
1 ACATTGAATGATTTATAGGATGGGATGGTGAAATATGAGGAAAGGGC
*
44332614 ACATTGAATGATTTATGGGATGGGATGGTGAAATATGAGGAAAGGGC
1 ACATTGAATGATTTATAGGATGGGATGGTGAAATATGAGGAAAGGGC
44332661 ACAT
1 ACAT
44332665 CACATTAGGG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.36, C:0.04, G:0.34, T:0.27
Consensus pattern (47 bp):
ACATTGAATGATTTATAGGATGGGATGGTGAAATATGAGGAAAGGGC
Found at i:44332980 original size:16 final size:16
Alignment explanation
Indices: 44332959--44332989 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44332949 GACTTAAAAG
44332959 TTAAAACTAATTGTTT
1 TTAAAACTAATTGTTT
*
44332975 TTAAAATTAATTGTT
1 TTAAAACTAATTGTT
44332990 ATTGAATTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.52
Consensus pattern (16 bp):
TTAAAACTAATTGTTT
Found at i:44333094 original size:25 final size:25
Alignment explanation
Indices: 44333064--44333111 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
44333054 AAGATTACTT
44333064 ATTTGAATTTAATTACAAACAATTA
1 ATTTGAATTTAATTACAAACAATTA
44333089 ATTTGAATTTAATTACAAACAAT
1 ATTTGAATTTAATTACAAACAAT
44333112 CAAATCTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (25 bp):
ATTTGAATTTAATTACAAACAATTA
Found at i:44333195 original size:7 final size:8
Alignment explanation
Indices: 44333177--44333201 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
44333167 ATTTAATTCC
44333177 TTTTAACT
1 TTTTAACT
44333185 TTTTAACT
1 TTTTAACT
44333193 TTTTAACT
1 TTTTAACT
44333201 T
1 T
44333202 AAATATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (8 bp):
TTTTAACT
Found at i:44336376 original size:13 final size:13
Alignment explanation
Indices: 44336358--44336490 Score: 103
Period size: 13 Copynumber: 10.2 Consensus size: 13
44336348 AATTTAAAAG
*
44336358 TTAAAACATTATA
1 TTAAAACAGTATA
*
44336371 TTAAAACAATATAA
1 TTAAAACAGTAT-A
*
44336385 TTATAACAGTATA
1 TTAAAACAGTATA
*
44336398 TTAAAACAATATA
1 TTAAAACAGTATA
44336411 TTAAAA-AGTATA
1 TTAAAACAGTATA
* *
44336423 TTTATAATAGTATA
1 -TTAAAACAGTATA
*
44336437 TTAAAATAGTATA
1 TTAAAACAGTATA
* * *
44336450 TTATAA-ATTTTA
1 TTAAAACAGTATA
*
44336462 -TAACAATA-TATTA
1 TTAA-AACAGTA-TA
44336475 TTAAAACAGTATA
1 TTAAAACAGTATA
44336488 TTA
1 TTA
44336491 CATTTAAAAT
Statistics
Matches: 98, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
11 2 0.02
12 12 0.12
13 62 0.63
14 22 0.22
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.39
Consensus pattern (13 bp):
TTAAAACAGTATA
Found at i:44336392 original size:27 final size:27
Alignment explanation
Indices: 44336326--44336424 Score: 105
Period size: 27 Copynumber: 3.7 Consensus size: 27
44336316 AAATTAAATG
* **
44336326 TATATTTATAACAGTATATTAAAA-TT
1 TATAATTATAACAGTATATTAAAACAA
* * *
44336352 TAAAAGTTAAAACATTATATTAAAACAA
1 TATAA-TTATAACAGTATATTAAAACAA
44336380 TATAATTATAACAGTATATTAAAACAA
1 TATAATTATAACAGTATATTAAAACAA
*
44336407 TAT-ATTA-AAAAGTATATT
1 TATAATTATAACAGTATATT
44336425 TATAATAGTA
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
25 10 0.16
26 7 0.11
27 40 0.66
28 4 0.07
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.37
Consensus pattern (27 bp):
TATAATTATAACAGTATATTAAAACAA
Found at i:44336439 original size:39 final size:40
Alignment explanation
Indices: 44336358--44336452 Score: 129
Period size: 39 Copynumber: 2.4 Consensus size: 40
44336348 AATTTAAAAG
*
44336358 TTAAAACATTATATTAAAACAATATAATTATAACAGTATA
1 TTAAAACAATATATTAAAACAATATAATTATAACAGTATA
* * *
44336398 TTAAAACAATATATTAAAA-AGTATATTTATAATAGTATA
1 TTAAAACAATATATTAAAACAATATAATTATAACAGTATA
* *
44336437 TTAAAATAGTATATTA
1 TTAAAACAATATATTA
44336453 TAAATTTTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
39 31 0.63
40 18 0.37
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (40 bp):
TTAAAACAATATATTAAAACAATATAATTATAACAGTATA
Found at i:44338196 original size:38 final size:39
Alignment explanation
Indices: 44338145--44338224 Score: 153
Period size: 38 Copynumber: 2.1 Consensus size: 39
44338135 AATAAAAAAC
44338145 ACAACCATTAACAGCAAAATCAAAATCAGAACACCATTA
1 ACAACCATTAACAGCAAAATCAAAATCAGAACACCATTA
44338184 ACAA-CATTAACAGCAAAATCAAAATCAGAACACCATTA
1 ACAACCATTAACAGCAAAATCAAAATCAGAACACCATTA
44338222 ACA
1 ACA
44338225 GCAAAAATCA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 37 0.90
39 4 0.10
ACGTcount: A:0.55, C:0.25, G:0.05, T:0.15
Consensus pattern (39 bp):
ACAACCATTAACAGCAAAATCAAAATCAGAACACCATTA
Found at i:44338220 original size:29 final size:30
Alignment explanation
Indices: 44338183--44338250 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
44338173 GAACACCATT
44338183 AACAACATTAACAGC-AAAATCAAAATCAG
1 AACAACATTAACAGCAAAAATCAAAATCAG
* *
44338212 AACACCATTAACAGCAAAAATCAAAATCAC
1 AACAACATTAACAGCAAAAATCAAAATCAG
44338242 AACCAACAT
1 AA-CAACAT
44338251 CAAAAAGCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 14 0.41
30 15 0.44
31 5 0.15
ACGTcount: A:0.57, C:0.25, G:0.04, T:0.13
Consensus pattern (30 bp):
AACAACATTAACAGCAAAAATCAAAATCAG
Found at i:44372957 original size:37 final size:37
Alignment explanation
Indices: 44372894--44372983 Score: 103
Period size: 37 Copynumber: 2.4 Consensus size: 37
44372884 ATTCCAAAAA
*
44372894 TAATATTATTTTAATAGTTTTATATTAAATTAA-ATT
1 TAATATTATCTTAATAGTTTTATATTAAATTAATATT
*
44372930 TAATACTTATCTTAATAGTATTT-TATTAATTTAATATT
1 TAATA-TTATCTTAATAGT-TTTATATTAAATTAATATT
*
44372968 AAAGTAATTATCTTAA
1 TAA-T-ATTATCTTAA
44372984 AATTAAAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
36 5 0.11
37 22 0.48
38 8 0.17
39 10 0.22
40 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.52
Consensus pattern (37 bp):
TAATATTATCTTAATAGTTTTATATTAAATTAATATT
Found at i:44374958 original size:40 final size:41
Alignment explanation
Indices: 44374878--44374977 Score: 166
Period size: 40 Copynumber: 2.4 Consensus size: 41
44374868 TGATTCTGTA
*
44374878 CACCGGCATTAAGCCTGCTATAGATGTATAGTATGAATATTT
1 CACCGGCATTAAGCCTGC-ATAGACGTATAGTATGAATATTT
*
44374920 CACCGGCATTAAGCCTGC-TAGACGTATAGTCTGAATATTT
1 CACCGGCATTAAGCCTGCATAGACGTATAGTATGAATATTT
44374960 CACCGGCATTAAGCCTGC
1 CACCGGCATTAAGCCTGC
44374978 CAGGCACAAG
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
40 38 0.68
42 18 0.32
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCATAGACGTATAGTATGAATATTT
Found at i:44378062 original size:21 final size:22
Alignment explanation
Indices: 44378038--44378084 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
44378028 AGTAGAGGAG
*
44378038 ACACGGT-CGTGTGGTTGAGAT
1 ACACGGTCCGTGTGGCTGAGAT
44378059 ACAC-GTCCGTGTGGCTGAGAT
1 ACACGGTCCGTGTGGCTGAGAT
44378080 ACACG
1 ACACG
44378085 ACCATGTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.23
Consensus pattern (22 bp):
ACACGGTCCGTGTGGCTGAGAT
Found at i:44378092 original size:21 final size:21
Alignment explanation
Indices: 44378047--44378092 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
44378037 GACACGGTCG
* * *
44378047 TGTGGTTGAGATACACGTCCG
1 TGTGGCTGAGATACACGACCA
44378068 TGTGGCTGAGATACACGACCA
1 TGTGGCTGAGATACACGACCA
44378089 TGTG
1 TGTG
44378093 TACAGGCCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.26
Consensus pattern (21 bp):
TGTGGCTGAGATACACGACCA
Found at i:44379545 original size:23 final size:23
Alignment explanation
Indices: 44379519--44379568 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
44379509 CAATTAGAGG
44379519 GGGATCCATAGCCATGGGCATAA
1 GGGATCCATAGCCATGGGCATAA
44379542 GGGATCCATAGCCATGGGCATAA
1 GGGATCCATAGCCATGGGCATAA
44379565 GGGA
1 GGGA
44379569 CTCTGTAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.30, C:0.20, G:0.34, T:0.16
Consensus pattern (23 bp):
GGGATCCATAGCCATGGGCATAA
Found at i:44380744 original size:29 final size:29
Alignment explanation
Indices: 44380702--44380770 Score: 138
Period size: 29 Copynumber: 2.4 Consensus size: 29
44380692 CATGTGATTC
44380702 CACACGGCCTAGTACATGCCCGTGTGCCT
1 CACACGGCCTAGTACATGCCCGTGTGCCT
44380731 CACACGGCCTAGTACATGCCCGTGTGCCT
1 CACACGGCCTAGTACATGCCCGTGTGCCT
44380760 CACACGGCCTA
1 CACACGGCCTA
44380771 ACACCCACCC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.19, C:0.39, G:0.23, T:0.19
Consensus pattern (29 bp):
CACACGGCCTAGTACATGCCCGTGTGCCT
Found at i:44382314 original size:50 final size:50
Alignment explanation
Indices: 44382199--44382391 Score: 305
Period size: 50 Copynumber: 3.8 Consensus size: 50
44382189 GATAAGAACA
* ** *
44382199 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *
44382250 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
44382300 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
44382350 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
44382392 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 98 0.74
51 34 0.26
ACGTcount: A:0.21, C:0.32, G:0.22, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:44382763 original size:30 final size:30
Alignment explanation
Indices: 44382729--44382786 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
44382719 CATCGACTTT
44382729 AACTTTGGA-AAAATTATGATTTTGCCCCTA
1 AACTTT-GACAAAATTATGATTTTGCCCCTA
* * *
44382759 AACTTTTACATAATTATGCTTTTGCCCC
1 AACTTTGACAAAATTATGATTTTGCCCC
44382787 AAAGTTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (30 bp):
AACTTTGACAAAATTATGATTTTGCCCCTA
Found at i:44386927 original size:15 final size:16
Alignment explanation
Indices: 44386897--44386929 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
44386887 TTTTCCCTTA
44386897 TTATTCATTTTCAAAT
1 TTATTCATTTTCAAAT
*
44386913 TTATT-ATTTTTAAAT
1 TTATTCATTTTCAAAT
44386928 TT
1 TT
44386930 GTTTACATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATTCATTTTCAAAT
Found at i:44389579 original size:43 final size:43
Alignment explanation
Indices: 44389530--44389713 Score: 169
Period size: 43 Copynumber: 4.3 Consensus size: 43
44389520 CGCTTCTCCA
* * * *
44389530 ACAAACGCCACTAAAGGCCATGACCTTTAGCGACACTTTTACG
1 ACAAACGCCACTATAGACCAAGACCTTTAGCGACACTTTTACC
* * * * * * *
44389573 AGAAACGCCGCTATAGATCAAGATCTTTAGCGGCGCTTTTCCC
1 ACAAACGCCACTATAGACCAAGACCTTTAGCGACACTTTTACC
* *
44389616 ACAAACGCCGCTATAG-CTAAAGACCTTTAGC-AGCACTTTTACC
1 ACAAACGCCACTATAGAC-CAAGACCTTTAGCGA-CACTTTTACC
* *
44389659 ACAAACGCCACTATAGAACAA-ACCTTTAGCGACGCTTCTTA-C
1 ACAAACGCCACTATAGACCAAGACCTTTAGCGACACTT-TTACC
*
44389701 AAAAACGCCACTA
1 ACAAACGCCACTA
44389714 AAAACATAAC
Statistics
Matches: 113, Mismatches: 23, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
42 26 0.23
43 87 0.77
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.22
Consensus pattern (43 bp):
ACAAACGCCACTATAGACCAAGACCTTTAGCGACACTTTTACC
Found at i:44389609 original size:86 final size:85
Alignment explanation
Indices: 44389511--44389715 Score: 236
Period size: 86 Copynumber: 2.4 Consensus size: 85
44389501 GCGTCGCTGA
* * *
44389511 CTTTAGCGGCGCTTCTCCAACAAACGCCACTAAAGGC-CATGACCTTTAGC-GACACTTTTACGA
1 CTTTAGCGGCGCTTCTCCAACAAACGCCACTAAA-GCTAAAGACCTTTAGCAG-CACTTTTACCA
* * * *
44389574 GAAACGCCGCTATAGATCAAGAT
64 CAAACGCCACTATAGAACAA-AC
* * * *
44389597 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGCTAAAGACCTTTAGCAGCACTTTTACCACA
1 CTTTAGCGGCGCTTCTCCAACAAACGCCACTAAAGCTAAAGACCTTTAGCAGCACTTTTACCACA
44389662 AACGCCACTATAGAACAAAC
66 AACGCCACTATAGAACAAAC
* *
44389682 CTTTAGCGACGCTTCTTACAA-AAACGCCACTAAA
1 CTTTAGCGGCGCTTC-TCCAACAAACGCCACTAAA
44389716 AACATAACAT
Statistics
Matches: 99, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
85 27 0.27
86 71 0.72
87 1 0.01
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (85 bp):
CTTTAGCGGCGCTTCTCCAACAAACGCCACTAAAGCTAAAGACCTTTAGCAGCACTTTTACCACA
AACGCCACTATAGAACAAAC
Found at i:44396515 original size:16 final size:17
Alignment explanation
Indices: 44396479--44396520 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
44396469 CACTATAATC
44396479 ATTATTTTAATATATTAA
1 ATTA-TTTAATATATTAA
44396497 ATTATTTAATATA-TAA
1 ATTATTTAATATATTAA
44396513 ATTATTTA
1 ATTATTTA
44396521 TAAATAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 11 0.46
17 9 0.38
18 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTATTTAATATATTAA
Found at i:44396687 original size:14 final size:14
Alignment explanation
Indices: 44396657--44396709 Score: 63
Period size: 14 Copynumber: 3.7 Consensus size: 14
44396647 CCCTAACTCT
*
44396657 TAACCCTCAACCCCC
1 TAACCCTTAA-CCCC
44396672 TAACCCTTAACCCC
1 TAACCCTTAACCCC
*
44396686 TAAACCTTAAACCCC
1 TAACCCTT-AACCCC
44396701 -AACCCTTAA
1 TAACCCTTAA
44396710 TCTATACCCT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
13 2 0.06
14 17 0.50
15 15 0.44
ACGTcount: A:0.34, C:0.47, G:0.00, T:0.19
Consensus pattern (14 bp):
TAACCCTTAACCCC
Found at i:44396725 original size:21 final size:20
Alignment explanation
Indices: 44396671--44396754 Score: 64
Period size: 21 Copynumber: 4.1 Consensus size: 20
44396661 CCTCAACCCC
* *
44396671 CTAACCCTTAACCCCTAAAC
1 CTAACCCTTAAACCCTAAAT
* *
44396691 CTTAAACCC--CAACCCTTAAT
1 C-T-AACCCTTAAACCCTAAAT
* *
44396711 CTATACCCTTAAACCATAAAC
1 CTA-ACCCTTAAACCCTAAAT
44396732 CGTAACCCTTAAACCCTAAAT
1 C-TAACCCTTAAACCCTAAAT
44396753 CT
1 CT
44396755 TAAACCATAA
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
18 1 0.02
19 5 0.10
20 10 0.21
21 25 0.52
22 7 0.15
ACGTcount: A:0.37, C:0.38, G:0.01, T:0.24
Consensus pattern (20 bp):
CTAACCCTTAAACCCTAAAT
Found at i:44396732 original size:7 final size:7
Alignment explanation
Indices: 44396720--44396808 Score: 70
Period size: 7 Copynumber: 12.6 Consensus size: 7
44396710 TCTATACCCT
44396720 TAAACCA
1 TAAACCA
*
44396727 TAAACCG
1 TAAACCA
* *
44396734 TAACCCT
1 TAAACCA
*
44396741 TAAACCC
1 TAAACCA
* *
44396748 TAAATCT
1 TAAACCA
44396755 TAAACCA
1 TAAACCA
*
44396762 TAAACTA
1 TAAACCA
44396769 TAAACCA
1 TAAACCA
* *
44396776 TAACCCC
1 TAAACCA
44396783 TAAACTCA
1 TAAAC-CA
*
44396791 TAATCCA
1 TAAACCA
*
44396798 TAAACCT
1 TAAACCA
44396805 TAAA
1 TAAA
44396809 ATAGTAACTC
Statistics
Matches: 63, Mismatches: 18, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
7 58 0.92
8 5 0.08
ACGTcount: A:0.47, C:0.29, G:0.01, T:0.22
Consensus pattern (7 bp):
TAAACCA
Found at i:44396808 original size:22 final size:23
Alignment explanation
Indices: 44396783--44396833 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
44396773 CCATAACCCC
44396783 TAAACTCA-TAA-TCCATAAACCT
1 TAAACTCAGTAACTCC-TAAACCT
*
44396805 TAAAAT-AGTAACTCCTAAACCT
1 TAAACTCAGTAACTCCTAAACCT
44396827 TAAACTC
1 TAAACTC
44396834 TAAATCATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
21 1 0.04
22 20 0.83
23 3 0.12
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.27
Consensus pattern (23 bp):
TAAACTCAGTAACTCCTAAACCT
Found at i:44397241 original size:41 final size:41
Alignment explanation
Indices: 44397179--44397345 Score: 248
Period size: 41 Copynumber: 4.1 Consensus size: 41
44397169 ATGTTTTTGT
* * *
44397179 GGCGCTTTTCCAAAAATGCCGCTAAAGACTAGAGCATTAGC
1 GGCGCTTCTCCAAAAACGCCGCTAAAGACCAGAGCATTAGC
44397220 GGCGCTTCTCCAAAAACGCCGCTAAAGACCAGAGCATTAGC
1 GGCGCTTCTCCAAAAACGCCGCTAAAGACCAGAGCATTAGC
*
44397261 GACGCTTCTCCAAAAACGCCGCTAAAGACCAGAGCATTAGC
1 GGCGCTTCTCCAAAAACGCCGCTAAAGACCAGAGCATTAGC
* * *
44397302 AGCGCTT-TCCAAAAACGCCGCTAAA-ACCCTGAGCATTAGT
1 GGCGCTTCTCCAAAAACGCCGCTAAAGA-CCAGAGCATTAGC
44397342 GGCG
1 GGCG
44397346 TTTTATGTAA
Statistics
Matches: 116, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 32 0.28
41 83 0.72
ACGTcount: A:0.32, C:0.29, G:0.22, T:0.17
Consensus pattern (41 bp):
GGCGCTTCTCCAAAAACGCCGCTAAAGACCAGAGCATTAGC
Found at i:44398770 original size:22 final size:24
Alignment explanation
Indices: 44398720--44398770 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 24
44398710 TTGCAATGCT
44398720 TTTATATTTTAATAATTGAATATTA
1 TTTATATTTTAAT-ATTGAATATTA
44398745 -TTATATATTTAAT-TTG-AT-TTA
1 TTTATAT-TTTAATATTGAATATTA
44398766 TTTAT
1 TTTAT
44398771 TTATAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
21 3 0.12
22 6 0.25
23 3 0.12
24 6 0.25
25 6 0.25
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (24 bp):
TTTATATTTTAATATTGAATATTA
Found at i:44398946 original size:14 final size:15
Alignment explanation
Indices: 44398924--44399000 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
44398914 CAATCAAACA
44398924 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
44398938 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
44398953 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
44398973 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
44398987 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
44399001 ACTGGCAATT
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:44398965 original size:20 final size:20
Alignment explanation
Indices: 44398940--44398979 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
44398930 AATATTTTCC
*
44398940 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
44398960 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
44398980 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:44398985 original size:34 final size:35
Alignment explanation
Indices: 44398928--44398994 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
44398918 CAAACACCAG
*
44398928 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
44398963 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
44398995 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:44401034 original size:11 final size:11
Alignment explanation
Indices: 44401018--44401060 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
44401008 TAGAATATAT
44401018 CCCATACCTTG
1 CCCATACCTTG
*
44401029 CCCATACCTTT
1 CCCATACCTTG
*
44401040 CCCATACC-TA
1 CCCATACCTTG
44401050 CCCATACCTTG
1 CCCATACCTTG
44401061 GAAAGGTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.21, C:0.47, G:0.05, T:0.28
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:44401042 original size:22 final size:21
Alignment explanation
Indices: 44401017--44401059 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
44401007 TTAGAATATA
*
44401017 TCCCATACCTTGCCCATACCTT
1 TCCCATACC-TACCCATACCTT
44401039 TCCCATACCTACCCATACCTT
1 TCCCATACCTACCCATACCTT
44401060 GGAAAGGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.21, C:0.47, G:0.02, T:0.30
Consensus pattern (21 bp):
TCCCATACCTACCCATACCTT
Found at i:44406389 original size:23 final size:23
Alignment explanation
Indices: 44406359--44406407 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
44406349 CTAAATCAGG
44406359 CTCAATTAATGACGTTGAATTTA
1 CTCAATTAATGACGTTGAATTTA
*
44406382 CTCAATTAATTACGTTGAATTTA
1 CTCAATTAATGACGTTGAATTTA
44406405 CTC
1 CTC
44406408 TTTTTTTAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (23 bp):
CTCAATTAATGACGTTGAATTTA
Found at i:44407147 original size:12 final size:12
Alignment explanation
Indices: 44407130--44407183 Score: 62
Period size: 11 Copynumber: 4.8 Consensus size: 12
44407120 AACTAATCCT
44407130 CTCTCAAATTTC
1 CTCTCAAATTTC
*
44407142 CTCTC-AATTTG
1 CTCTCAAATTTC
44407153 CTCTC-AATTTC
1 CTCTCAAATTTC
44407164 CT-TCCAAATTT-
1 CTCT-CAAATTTC
44407175 CTCTCAAAT
1 CTCTCAAAT
44407184 CCATATTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
10 1 0.03
11 25 0.68
12 11 0.30
ACGTcount: A:0.24, C:0.31, G:0.02, T:0.43
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:44407156 original size:11 final size:11
Alignment explanation
Indices: 44407130--44407218 Score: 55
Period size: 11 Copynumber: 8.4 Consensus size: 11
44407120 AACTAATCCT
44407130 CTCTCAAATTTC
1 CTCTC-AATTTC
*
44407142 CTCTCAATTTG
1 CTCTCAATTTC
44407153 CTCTCAATTTC
1 CTCTCAATTTC
44407164 CT-TCCAAATTT-
1 CTCT-C-AATTTC
*
44407175 CTCTCAA-ATC
1 CTCTCAATTTC
* *
44407185 C-AT--ATTTA
1 CTCTCAATTTC
* *
44407193 ATCTCAATTTG
1 CTCTCAATTTC
44407204 CTCTCAATTTC
1 CTCTCAATTTC
44407215 CTCT
1 CTCT
44407219 TAAATTTCTC
Statistics
Matches: 58, Mismatches: 11, Indels: 17
0.67 0.13 0.20
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 3 0.05
10 4 0.07
11 38 0.66
12 11 0.19
ACGTcount: A:0.24, C:0.30, G:0.02, T:0.44
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:44407198 original size:51 final size:51
Alignment explanation
Indices: 44407143--44407242 Score: 157
Period size: 51 Copynumber: 2.0 Consensus size: 51
44407133 TCAAATTTCC
44407143 TCTCAATTTGCTCTCAATTTCCT-TCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAATTTGCTCTCAATTTCCTCT-CAAATTTCTCTCAAATCCATATTTAA
* * *
44407194 TCTCAATTTGCTCTCAATTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAATTTCCTCTCAAATTTCTCTCAAATCCATATTT
44407243 TAAAATAATT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 44 0.98
52 1 0.02
ACGTcount: A:0.25, C:0.27, G:0.02, T:0.46
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAATTTCCTCTCAAATTTCTCTCAAATCCATATTTAA
Found at i:44407253 original size:51 final size:51
Alignment explanation
Indices: 44407145--44407253 Score: 141
Period size: 51 Copynumber: 2.1 Consensus size: 51
44407135 AAATTTCCTC
**
44407145 TCAATTTGCTCTCAATTTCCTTCCAAATTTCTCTCAAATCCATATTTAATC
1 TCAATTTGCTCTCAATTTCCTTCCAAATTTCTCTCAAATCCATATTTAAAA
* * *
44407196 TCAATTTGCTCTCAATTTCC-TCTTAAATTTCTCTTAAATCCCTATTTTAAAA
1 TCAATTTGCTCTCAATTTCCTTC-CAAATTTCTCTCAAATCCATA-TTTAAAA
44407248 T-AATTT
1 TCAATTT
44407254 TTTTTTAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
50 2 0.04
51 43 0.84
52 6 0.12
ACGTcount: A:0.28, C:0.24, G:0.02, T:0.46
Consensus pattern (51 bp):
TCAATTTGCTCTCAATTTCCTTCCAAATTTCTCTCAAATCCATATTTAAAA
Found at i:44407261 original size:16 final size:16
Alignment explanation
Indices: 44407240--44407279 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
44407230 TAAATCCCTA
*
44407240 TTTTAAAATAATTTTT
1 TTTTAAAATAATATTT
44407256 TTTTAAAA-AATATTT
1 TTTTAAAATAATATTT
44407271 TTTTAAAAT
1 TTTTAAAAT
44407280 TTTTTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTTAAAATAATATTT
Found at i:44407271 original size:15 final size:14
Alignment explanation
Indices: 44407240--44407289 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 14
44407230 TAAATCCCTA
44407240 TTTTAAAATAATTTTT
1 TTTTAAAA-AA-TTTT
44407256 TTTTAAAAAATATTT
1 TTTTAAAAAAT-TTT
44407271 TTTT--AAAATTTT
1 TTTTAAAAAATTTT
44407283 TTTTAAA
1 TTTTAAA
44407290 TCGTAAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 7 0.23
13 5 0.16
14 2 0.06
15 9 0.29
16 8 0.26
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTAAAAAATTTT
Found at i:44409686 original size:22 final size:22
Alignment explanation
Indices: 44409660--44409711 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
44409650 CCTAAACCCT
* *
44409660 AACCCTTAACTTCAAAACCTTA
1 AACCCTTAACTTAAAAACCATA
44409682 AACCCTTAACTTAAAAACCATA
1 AACCCTTAACTTAAAAACCATA
44409704 AA-CCTTAA
1 AACCCTTAA
44409712 ACCCTAACCC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
21 6 0.21
22 22 0.79
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.25
Consensus pattern (22 bp):
AACCCTTAACTTAAAAACCATA
Found at i:44409715 original size:57 final size:57
Alignment explanation
Indices: 44409645--44409769 Score: 196
Period size: 57 Copynumber: 2.2 Consensus size: 57
44409635 TGACAAATTC
* * *
44409645 TAAACCCTAAACCCTAACCCTTAACTTCAAAACCTTAAACCCTTAACTTAAAAACCA
1 TAAACCTTAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCA
* *
44409702 TAAACCTTAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTGACTTAAAAACCT
1 TAAACCTTAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCA
44409759 TAAACCCTTAA
1 TAAA-CCTTAA
44409770 CTTAACTTAA
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
57 56 0.90
58 6 0.10
ACGTcount: A:0.43, C:0.32, G:0.01, T:0.24
Consensus pattern (57 bp):
TAAACCTTAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCA
Found at i:44409745 original size:22 final size:22
Alignment explanation
Indices: 44409710--44409774 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
44409700 CATAAACCTT
44409710 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
44409731 AAACCCTAAACCCTTGACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
44409753 AAACCTTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
44409775 CTTAAAAACC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
21 7 0.17
22 33 0.82
ACGTcount: A:0.43, C:0.31, G:0.02, T:0.25
Consensus pattern (22 bp):
AAACCCTAAACCCTTAACTTAA
Found at i:44409790 original size:29 final size:27
Alignment explanation
Indices: 44409732--44409803 Score: 83
Period size: 29 Copynumber: 2.6 Consensus size: 27
44409722 TTAACTTAAA
*
44409732 AACCCTAAACCCTTGACTTAAAAACCTT
1 AACCCTAAA-CCTTAACTTAAAAACCTT
*
44409760 AAACCCTTAA-CTTAACTTAAAAACCTTTT
1 -AACCCTAAACCTTAACTTAAAAACC--TT
44409789 AACCCTAAACCTTAA
1 AACCCTAAACCTTAA
44409804 ACCCTAACCC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
27 14 0.38
28 8 0.22
29 15 0.41
ACGTcount: A:0.42, C:0.29, G:0.01, T:0.28
Consensus pattern (27 bp):
AACCCTAAACCTTAACTTAAAAACCTT
Found at i:44409834 original size:13 final size:13
Alignment explanation
Indices: 44409787--44409833 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
44409777 TAAAAACCTT
*
44409787 TTAACCCTAAACC
1 TTAACCCTAACCC
44409800 TTAAACCCTAACCC
1 TT-AACCCTAACCC
*
44409814 TTAACCTTAACCC
1 TTAACCCTAACCC
44409827 -TAACCCT
1 TTAACCCT
44409834 TGACTGGTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
12 6 0.20
13 12 0.40
14 12 0.40
ACGTcount: A:0.34, C:0.40, G:0.00, T:0.26
Consensus pattern (13 bp):
TTAACCCTAACCC
Found at i:44413459 original size:252 final size:252
Alignment explanation
Indices: 44412945--44413515 Score: 853
Period size: 252 Copynumber: 2.3 Consensus size: 252
44412935 CCCAAACATG
* **
44412945 CTACTGTAGCAAAAGCGCGTCCACGTGGGCATGATTTCACAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGACCACGTGGGCGCGATTTCACAAATTCTTCTGATAAAGCATCCTGC
*
44413010 TTGAAGCGTTTTTATACTATTTGCTCAGAAATGTCAAGTCGAAATTATTTTTTCCAGGACCTACT
66 TTGAAGCGTTTTTATACTATTTGCTCAGAAATGTCAAGTCGAAATTATTTCTTCCAGGACCTACT
*
44413075 GTAGCAAAAACGCGTCCACAAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAA
131 GTAGCAAAAACACGTCCACAAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAA
* *
44413140 GCGTTTTTTTAAACTATTTGCTCAGAAACATCAAGTCGAAATTATTTTTTCCAGGAC
196 GCGTTTTTTTAAACTATTTACTCAGAAACATCAACTCGAAATTATTTTTTCCAGGAC
* * *
44413197 CTACTGTAGCAAAAGCACGACCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGACCACGTGGGCGCGATTTCACAAATTCTTCTGATAAAGCATCCTGC
* *
44413262 TTGAAGCGTTTTTTTTAATTATTTGCTCAGAAATGTCAAGTCGAAATTATTTCTTCCAGGACCTA
66 TTGAAGCG-TTTTTAT-ACTATTTGCTCAGAAATGTCAAGTCGAAATTATTTCTTCCAGGACCTA
* * * *
44413327 CTGTAGCAAAAGCACGTCCACGAA-GGCGTGATTTCAGAAATTCTTCTCATAAAGCATTCTGCTT
129 CTGTAGCAAAAACACGTCCAC-AAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
* * *
44413391 GACGCG-TTTTTTAAACTATTTACTCAGAAACGTCAACTCGAAATTA-TTTTTGCAGGAC
193 GAAGCGTTTTTTTAAACTATTTACTCAGAAACATCAACTCGAAATTATTTTTTCCAGGAC
* * * * * *
44413449 CTACTGTAGCAAAAGTGCGTA-CACGTTGGCGCAACTTCAGAAATTCTTCTGATAAAGCATCATG
1 CTACTGTAGCAAAAGCGCG-ACCACGTGGGCGCGATTTCACAAATTCTTCTGATAAAGCATCCTG
44413513 CTT
65 CTT
44413516 TGATTTTATA
Statistics
Matches: 287, Mismatches: 28, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
252 134 0.47
253 44 0.15
254 107 0.37
255 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (252 bp):
CTACTGTAGCAAAAGCGCGACCACGTGGGCGCGATTTCACAAATTCTTCTGATAAAGCATCCTGC
TTGAAGCGTTTTTATACTATTTGCTCAGAAATGTCAAGTCGAAATTATTTCTTCCAGGACCTACT
GTAGCAAAAACACGTCCACAAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAA
GCGTTTTTTTAAACTATTTACTCAGAAACATCAACTCGAAATTATTTTTTCCAGGAC
Found at i:44413491 original size:125 final size:127
Alignment explanation
Indices: 44412945--44413515 Score: 817
Period size: 127 Copynumber: 4.5 Consensus size: 127
44412935 CCCAAACATG
* ** *
44412945 CTACTGTAGCAAAAGCGCGTCCACGTGGGCATGATTTCACAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* *
44413010 TTGAAGCG--TTTTTATACTATTTGCTCAGAAATGTCAAGTCGAAATTATTTTTTCCAGGAC
66 TTGAAGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTTCCAGGAC
* *
44413070 CTACTGTAGCAAAAACGCGTCCACAAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
*
44413135 TTGAAGCGTTTTTTTAAACTATTTGCTCAGAAACATCAAGTCGAAATTATTTTTTCCAGGAC
66 TTGAAGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTTCCAGGAC
* *
44413197 CTACTGTAGCAAAAGCACGACCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * * *
44413262 TTGAAGCGTTTTTTTTAATTATTTGCTCAGAAATGTCAAGTCGAAATTATTTCTTCCAGGAC
66 TTGAAGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTTCCAGGAC
* * * * *
44413324 CTACTGTAGCAAAAGCACGTCCACGAAGGCGTGATTTCAGAAATTCTTCTCATAAAGCATTCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * * *
44413389 TTGACGCG-TTTTTTAAACTATTTACTCAGAAACGTCAACTCGAAATTA-TTTTTGCAGGAC
66 TTGAAGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTTCCAGGAC
* * ** * * * * *
44413449 CTACTGTAGCAAAAGTGCGTACACGTTGGCGCAACTTCAGAAATTCTTCTGATAAAGCATCATGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
44413514 TT
66 TT
44413516 TGATTTTATA
Statistics
Matches: 402, Mismatches: 42, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
125 133 0.33
126 35 0.09
127 234 0.58
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (127 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTTCCAGGAC
Found at i:44429811 original size:28 final size:33
Alignment explanation
Indices: 44429753--44429817 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 33
44429743 GCATGAGAAT
* *
44429753 TTTTCCTTTTTTTATCTCTCTTGTTCTTTT-CC
1 TTTTCCTTTCTTTATCTCTCCTGTTCTTTTCCC
44429785 TTTT-CTTTCTTT-TCTCTCCT-TTC-TTTCCC
1 TTTTCCTTTCTTTATCTCTCCTGTTCTTTTCCC
44429814 TTTT
1 TTTT
44429818 ATTTTTGCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
28 3 0.10
29 9 0.30
30 7 0.23
31 7 0.23
32 4 0.13
ACGTcount: A:0.02, C:0.28, G:0.02, T:0.69
Consensus pattern (33 bp):
TTTTCCTTTCTTTATCTCTCCTGTTCTTTTCCC
Found at i:44435498 original size:21 final size:22
Alignment explanation
Indices: 44435474--44435524 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
44435464 CGTATGGCAC
*
44435474 AATAATTTATTTTTC-TATTTA
1 AATAATTTATTTTTCATAATTA
*
44435495 AAT-ATGTATTTTTCATAATTA
1 AATAATTTATTTTTCATAATTA
*
44435516 ATTAATTTA
1 AATAATTTA
44435525 ATGAATTCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 10 0.42
21 10 0.42
22 4 0.17
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (22 bp):
AATAATTTATTTTTCATAATTA
Found at i:44435986 original size:44 final size:44
Alignment explanation
Indices: 44435927--44436017 Score: 128
Period size: 44 Copynumber: 2.1 Consensus size: 44
44435917 GTTGAAGCAA
* * *
44435927 AATAAAAGTTGTGATAATTATACATTTAAAAACAATTATATTTT
1 AATAAAAGTTATGATAATTACACATTTAAAAACAATTATAATTT
* * *
44435971 AATAGAAGTTATGATAATTACATATTTAAAAATAATTATAATTT
1 AATAAAAGTTATGATAATTACACATTTAAAAACAATTATAATTT
44436015 AAT
1 AAT
44436018 TTACAATTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.49, C:0.03, G:0.07, T:0.41
Consensus pattern (44 bp):
AATAAAAGTTATGATAATTACACATTTAAAAACAATTATAATTT
Found at i:44436029 original size:256 final size:254
Alignment explanation
Indices: 44435627--44436096 Score: 619
Period size: 256 Copynumber: 1.8 Consensus size: 254
44435617 TATTTTTTTT
*
44435627 ATATTACTAAATTCACATTTAAAAAAAAATTAACGTAAAATAAAAGCTGCGATAATTATACATTT
1 ATATTACTAAATTCACATTTAAAAAAAAATTAACGCAAAATAAAAGCTGCGATAATTATACATTT
* *
44435692 AAAATAATCATAATTTATTAAAAGTTAAAATTGAGACTAATTACACATTTAAAAATAATTATAAT
66 AAAACAATCATAATTTAATAAAAGTT--AATT-AGACTAATTACACATTTAAAAATAATTATAAT
* * * * *
44435757 TTAATTTACAATTATTAATTAAAAAATGTTGTGCTAA-TTCTAAAATAAATTTATTACTTAAATA
128 TTAATTTACAATTATTAACTAAAAAA-ATTCTGCTAACTT-TAAAATAAAGTTATTACTTAAACA
*
44435821 AAAATCTAAGCTTAAAATATAGGGAAAACGTTAAATATAATTATAATTATAATTATTTTCAATC
191 AAAATCTAAGCATAAAATATAGGGAAAACGTTAAATATAATTATAATTATAATTATTTTCAATC
* *
44435885 ATATTACTAAATTCACATTTAAAAATTAAATAGTTGAA-GCAAAATAAAAGTTGTGATAATTATA
1 ATATTACTAAATTCACATTTAAAAA--AAA-A-TT-AACGCAAAATAAAAGCTGCGATAATTATA
* * * *
44435949 CATTTAAAAACAATTATATTTTAATAGAAGTT-A-T-GA-TAATTACATATTTAAAAATAATTAT
61 CATTT-AAAACAATCATAATTTAATAAAAGTTAATTAGACTAATTACACATTTAAAAATAATTAT
* *
44436010 AATTTAATTTACAATTATTAGCTAAAAAAATTCTGCTAACTTTAAAATAGAGTTATTACTTAAAC
125 AATTTAATTTACAATTATTAACTAAAAAAATTCTGCTAACTTTAAAATAAAGTTATTACTTAAAC
* * *
44436075 AGAACTCTAAGCATAGAATATA
190 AAAAATCTAAGCATAAAATATA
44436097 AGAAAAAGTT
Statistics
Matches: 185, Mismatches: 20, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
255 46 0.25
256 53 0.29
257 2 0.01
258 25 0.14
259 1 0.01
260 4 0.02
261 1 0.01
262 30 0.16
263 23 0.12
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.37
Consensus pattern (254 bp):
ATATTACTAAATTCACATTTAAAAAAAAATTAACGCAAAATAAAAGCTGCGATAATTATACATTT
AAAACAATCATAATTTAATAAAAGTTAATTAGACTAATTACACATTTAAAAATAATTATAATTTA
ATTTACAATTATTAACTAAAAAAATTCTGCTAACTTTAAAATAAAGTTATTACTTAAACAAAAAT
CTAAGCATAAAATATAGGGAAAACGTTAAATATAATTATAATTATAATTATTTTCAATC
Found at i:44455154 original size:31 final size:30
Alignment explanation
Indices: 44455085--44455154 Score: 70
Period size: 31 Copynumber: 2.3 Consensus size: 30
44455075 AGGTTTCATT
* *
44455085 TCAGTCACTCAACTTTAGAAAAATAACAAA
1 TCAGTCACTCAACATTACAAAAATAACAAA
* * *
44455115 ACAATCACT-AACATTATCAAAAAGTGACAAA
1 TCAGTCACTCAACATTA-CAAAAA-TAACAAA
44455146 TCAGTCACT
1 TCAGTCACT
44455155 TATTAACATT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
29 6 0.19
30 12 0.39
31 13 0.42
ACGTcount: A:0.49, C:0.21, G:0.07, T:0.23
Consensus pattern (30 bp):
TCAGTCACTCAACATTACAAAAATAACAAA
Found at i:44455216 original size:21 final size:21
Alignment explanation
Indices: 44455190--44455229 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
44455180 AATGGGACCA
44455190 CTGATGTGGCAAGTTAACTAG
1 CTGATGTGGCAAGTTAACTAG
*
44455211 CTGATGTGGCTAGTTAACT
1 CTGATGTGGCAAGTTAACT
44455230 TGCCACGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.33
Consensus pattern (21 bp):
CTGATGTGGCAAGTTAACTAG
Found at i:44457813 original size:143 final size:145
Alignment explanation
Indices: 44457614--44457907 Score: 468
Period size: 143 Copynumber: 2.0 Consensus size: 145
44457604 TTACGATGGT
* * *
44457614 AAAAATACAATTTCATCATTTTAATAGTCTCCATCTTTATAATTTTTAAAGGATTAAATTAAAAT
1 AAAATTACAATTTCATCATTTTAATAGCCTCCATCTTTATAATTTTTAAAGGATTAAATCAAAAT
*
44457679 TTTATCATTTTT-AGGGGGTCAAAGTGCAATTGTACCTTTACTAATTTAAAATTTTAAAAATTTC
66 TTTATCATTTTTAAGGGGGCCAAAGTGCAATTGTACCTTTACTAATTTAAAATTTTAAAAATTTC
*
44457743 AAAGGGCCTAAAT-G
131 AAAGGGCATAAATAG
*
44457757 AAAATTACAATTTCA-CAATTTTAATAGCCTCTATCTTTATAATTTTTAAAGGATTAAATCAAAA
1 AAAATTACAATTTCATC-ATTTTAATAGCCTCCATCTTTATAATTTTTAAAGGATTAAATCAAAA
* * * *
44457821 TTTTATCATTTTTAAGGGGGCCAAAGTGTAATTTTATCTTTATTAATTTAAAATTTTAAAAATTT
65 TTTTATCATTTTTAAGGGGGCCAAAGTGCAATTGTACCTTTACTAATTTAAAATTTTAAAAATTT
44457886 CAAAGGGCATAAATAG
130 CAAAGGGCATAAATAG
44457902 AAAATT
1 AAAATT
44457908 TTCCATTTTA
Statistics
Matches: 138, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
142 1 0.01
143 71 0.51
144 59 0.43
145 7 0.05
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (145 bp):
AAAATTACAATTTCATCATTTTAATAGCCTCCATCTTTATAATTTTTAAAGGATTAAATCAAAAT
TTTATCATTTTTAAGGGGGCCAAAGTGCAATTGTACCTTTACTAATTTAAAATTTTAAAAATTTC
AAAGGGCATAAATAG
Found at i:44458554 original size:3 final size:3
Alignment explanation
Indices: 44458546--44458570 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
44458536 ATTTTATTTG
44458546 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
44458571 TATCTCAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:44460216 original size:30 final size:30
Alignment explanation
Indices: 44460182--44460273 Score: 84
Period size: 30 Copynumber: 3.2 Consensus size: 30
44460172 CCTTATATAA
44460182 TATTTATTTTAAAATTTATTTGGATACTAT
1 TATTTATTTTAAAATTTATTTGGATACTAT
* ** * ** *
44460212 TATTT-TATGTAGCATCTCCTT--ATA-TAA
1 TATTTAT-TTTAAAATTTATTTGGATACTAT
44460239 TATTTATTTTAAAATTTATTTGGATACTAT
1 TATTTATTTTAAAATTTATTTGGATACTAT
44460269 TATTT
1 TATTT
44460274 TATGTAGCAT
Statistics
Matches: 43, Mismatches: 14, Indels: 10
0.64 0.21 0.15
Matches are distributed among these distances:
27 15 0.35
28 4 0.09
29 4 0.09
30 20 0.47
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.55
Consensus pattern (30 bp):
TATTTATTTTAAAATTTATTTGGATACTAT
Found at i:44460218 original size:26 final size:26
Alignment explanation
Indices: 44460185--44460275 Score: 74
Period size: 26 Copynumber: 3.3 Consensus size: 26
44460175 TATATAATAT
44460185 TTATTTTAAAATTTATTTGGATACTA
1 TTATTTTAAAATTTATTTGGATACTA
* * ** ** *
44460211 TTATTTTATGTAGCATCTCCTTATATAATA
1 TTATTTTA---A-AATTTATTTGGATACTA
44460241 TTTATTTTAAAATTTATTTGGATACTA
1 -TTATTTTAAAATTTATTTGGATACTA
44460268 TTATTTTA
1 TTATTTTA
44460276 TGTAGCATTT
Statistics
Matches: 46, Mismatches: 14, Indels: 10
0.66 0.20 0.14
Matches are distributed among these distances:
26 16 0.35
27 10 0.22
28 1 0.02
29 1 0.02
30 10 0.22
31 8 0.17
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.55
Consensus pattern (26 bp):
TTATTTTAAAATTTATTTGGATACTA
Found at i:44460219 original size:31 final size:31
Alignment explanation
Indices: 44460184--44460276 Score: 88
Period size: 27 Copynumber: 3.2 Consensus size: 31
44460174 TTATATAATA
44460184 TTTATTTTAAAATTTATTTGGATACTATTAT
1 TTTATTTTAAAATTTATTTGGATACTATTAT
* ** * ** *
44460215 TTTA-TGTAGCATCTCCTT--ATA-TAATA-
1 TTTATTTTAAAATTTATTTGGATACTATTAT
44460241 TTTATTTTAAAATTTATTTGGATACTATTAT
1 TTTATTTTAAAATTTATTTGGATACTATTAT
44460272 TTTAT
1 TTTAT
44460277 GTAGCATTTA
Statistics
Matches: 43, Mismatches: 14, Indels: 10
0.64 0.21 0.15
Matches are distributed among these distances:
26 4 0.09
27 12 0.28
28 3 0.07
29 3 0.07
30 12 0.28
31 9 0.21
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.56
Consensus pattern (31 bp):
TTTATTTTAAAATTTATTTGGATACTATTAT
Found at i:44460233 original size:57 final size:57
Alignment explanation
Indices: 44460169--44460283 Score: 230
Period size: 57 Copynumber: 2.0 Consensus size: 57
44460159 ATTTTGATTT
44460169 TCTCCTTATATAATATTTATTTTAAAATTTATTTGGATACTATTATTTTATGTAGCA
1 TCTCCTTATATAATATTTATTTTAAAATTTATTTGGATACTATTATTTTATGTAGCA
44460226 TCTCCTTATATAATATTTATTTTAAAATTTATTTGGATACTATTATTTTATGTAGCA
1 TCTCCTTATATAATATTTATTTTAAAATTTATTTGGATACTATTATTTTATGTAGCA
44460283 T
1 T
44460284 TTACTTTTAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.53
Consensus pattern (57 bp):
TCTCCTTATATAATATTTATTTTAAAATTTATTTGGATACTATTATTTTATGTAGCA
Found at i:44460286 original size:30 final size:30
Alignment explanation
Indices: 44460195--44460286 Score: 84
Period size: 30 Copynumber: 3.2 Consensus size: 30
44460185 TTATTTTAAA
44460195 ATTTATTTGGATACTATTATTTTATGTAGC
1 ATTTATTTGGATACTATTATTTTATGTAGC
* ** * * **
44460225 ATCTCCTT--ATA-TAATA-TTTATTTTAAA
1 ATTTATTTGGATACTATTATTTTA-TGTAGC
44460252 ATTTATTTGGATACTATTATTTTATGTAGC
1 ATTTATTTGGATACTATTATTTTATGTAGC
44460282 ATTTA
1 ATTTA
44460287 CTTTTAACTA
Statistics
Matches: 43, Mismatches: 14, Indels: 10
0.64 0.21 0.15
Matches are distributed among these distances:
26 4 0.09
27 12 0.28
28 3 0.07
29 3 0.07
30 17 0.40
31 4 0.09
ACGTcount: A:0.30, C:0.08, G:0.09, T:0.53
Consensus pattern (30 bp):
ATTTATTTGGATACTATTATTTTATGTAGC
Found at i:44463116 original size:13 final size:13
Alignment explanation
Indices: 44463098--44463127 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
44463088 GCACTAAAAG
*
44463098 ACAACAGAAGCAA
1 ACAACAGAAACAA
44463111 ACAACAGAAACAA
1 ACAACAGAAACAA
44463124 ACAA
1 ACAA
44463128 AAACAATAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.67, C:0.23, G:0.10, T:0.00
Consensus pattern (13 bp):
ACAACAGAAACAA
Found at i:44464081 original size:12 final size:12
Alignment explanation
Indices: 44464061--44464093 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
44464051 ATAAAAAAAC
44464061 ATTTTATTTAAT
1 ATTTTATTTAAT
*
44464073 ATTTCATTTAAT
1 ATTTTATTTAAT
44464085 -TTTTATTTA
1 ATTTTATTTA
44464094 TTTACTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (12 bp):
ATTTTATTTAAT
Found at i:44464744 original size:40 final size:39
Alignment explanation
Indices: 44464700--44464809 Score: 109
Period size: 41 Copynumber: 2.7 Consensus size: 39
44464690 CGTCGTTTTT
44464700 AGCGGCG-TTTGGATAAAAACGCCGCTAAAGATCGAGCATG
1 AGCGGCGTTTTGG--AAAAACGCCGCTAAAGATCGAGCATG
* *
44464740 AGCGGCGCTTTTTGGCAAAACGCCGCTAAAGATCGAG-ATTT
1 AGCGGCG--TTTTGGAAAAACGCCGCTAAAGATCGAGCA-TG
*
44464781 AGAGGCGCTTTATGG-AAAACGCCGCTAAA
1 AGCGGCG-TTT-TGGAAAAACGCCGCTAAA
44464810 ATAAGCATTA
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
40 25 0.41
41 31 0.51
43 5 0.08
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.20
Consensus pattern (39 bp):
AGCGGCGTTTTGGAAAAACGCCGCTAAAGATCGAGCATG
Found at i:44464762 original size:41 final size:40
Alignment explanation
Indices: 44464715--44464809 Score: 138
Period size: 41 Copynumber: 2.4 Consensus size: 40
44464705 CGTTTGGATA
* *
44464715 AAAACGCCGCTAAAGATCGAGCA-TGAGCGGCGCTTTTTGG
1 AAAACGCCGCTAAAGATCGAG-ATTGAGAGGCGCTTTATGG
*
44464755 CAAAACGCCGCTAAAGATCGAGATTTAGAGGCGCTTTATGG
1 -AAAACGCCGCTAAAGATCGAGATTGAGAGGCGCTTTATGG
44464796 AAAACGCCGCTAAA
1 AAAACGCCGCTAAA
44464810 ATAAGCATTA
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
40 15 0.30
41 35 0.70
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (40 bp):
AAAACGCCGCTAAAGATCGAGATTGAGAGGCGCTTTATGG
Found at i:44465056 original size:83 final size:81
Alignment explanation
Indices: 44464888--44465069 Score: 258
Period size: 83 Copynumber: 2.2 Consensus size: 81
44464878 CTTTCGGAGA
*
44464888 TTTAGCGGCGTTTTTAGGAAAGCGCCGCTAATGCCCAGGGCTTTAGCGGCGTTTTTTGGAAAGCG
1 TTTAGCGGCGTTTTT-GGAAAGCGCCGCTAATGCCCAGGCCTTTAGCGGCGTTTTTTGGAAAGCG
*
44464953 CCGCTAATGCCCAGGCC
65 CCGCCAATGCCCAGGCC
* *
44464970 TTTAGCGGCGTTTTTGTGAAAGTGCCGCTAATGCCCCAGGCCTTTAGCGGTG-TTTTTGTGAAAG
1 TTTAGCGGCGTTTTTG-GAAAGCGCCGCTAATG-CCCAGGCCTTTAGCGGCGTTTTTTG-GAAAG
* *
44465034 CGCCGCCAATGCCTAGGGC
63 CGCCGCCAATGCCCAGGCC
*
44465053 TTTAGCAGCGTTTTTGG
1 TTTAGCGGCGTTTTTGG
44465070 GAGGGAAAGC
Statistics
Matches: 90, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
81 1 0.01
82 37 0.41
83 52 0.58
ACGTcount: A:0.17, C:0.24, G:0.30, T:0.29
Consensus pattern (81 bp):
TTTAGCGGCGTTTTTGGAAAGCGCCGCTAATGCCCAGGCCTTTAGCGGCGTTTTTTGGAAAGCGC
CGCCAATGCCCAGGCC
Found at i:44465068 original size:41 final size:41
Alignment explanation
Indices: 44464888--44465068 Score: 258
Period size: 41 Copynumber: 4.4 Consensus size: 41
44464878 CTTTCGGAGA
*
44464888 TTTAGCGGCGTTTTTAG-GAAAGCGCCGCTAATGCCCAGGGC
1 TTTAGCGGCGTTTTT-GTGAAAGCGCCGCTAATGCCCAGGCC
44464929 TTTAGCGGCGTTTTT-TGGAAAGCGCCGCTAATGCCCAGGCC
1 TTTAGCGGCGTTTTTGT-GAAAGCGCCGCTAATGCCCAGGCC
*
44464970 TTTAGCGGCGTTTTTGTGAAAGTGCCGCTAATGCCCCAGGCC
1 TTTAGCGGCGTTTTTGTGAAAGCGCCGCTAATG-CCCAGGCC
* * * *
44465012 TTTAGCGGTGTTTTTGTGAAAGCGCCGCCAATGCCTAGGGC
1 TTTAGCGGCGTTTTTGTGAAAGCGCCGCTAATGCCCAGGCC
*
44465053 TTTAGCAGCGTTTTTG
1 TTTAGCGGCGTTTTTG
44465069 GGAGGGAAAG
Statistics
Matches: 127, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
41 88 0.69
42 39 0.31
ACGTcount: A:0.17, C:0.24, G:0.30, T:0.29
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGTGAAAGCGCCGCTAATGCCCAGGCC
Found at i:44465279 original size:66 final size:66
Alignment explanation
Indices: 44465208--44465341 Score: 259
Period size: 66 Copynumber: 2.0 Consensus size: 66
44465198 ATTTATATAT
44465208 TAAATAATTTCTTATATAATCGTAAAAGAGATAGTATTAATTTGAAAATATTGAATTAATTATCA
1 TAAATAATTTCTTATATAATCGTAAAAGAGATAGTATTAATTTGAAAATATTGAATTAATTATCA
44465273 C
66 C
*
44465274 TAAATAATTTCTTATATAATCGTAAAAGAGATAGTATTAATTTTAAAATATTGAATTAATTATCA
1 TAAATAATTTCTTATATAATCGTAAAAGAGATAGTATTAATTTGAAAATATTGAATTAATTATCA
44465339 C
66 C
44465340 TA
1 TA
44465342 TAGTTTAGGG
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (66 bp):
TAAATAATTTCTTATATAATCGTAAAAGAGATAGTATTAATTTGAAAATATTGAATTAATTATCA
C
Found at i:44465873 original size:20 final size:19
Alignment explanation
Indices: 44465848--44465919 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 19
44465838 TTTTTCGTGA
44465848 TTTAAAATTTTAAAATCAAT
1 TTTAAAATTTTAAAAT-AAT
* **
44465868 TTTAAAATATTTTAAATTTT
1 TTTAAAAT-TTTAAAATAAT
44465888 TTTAGAAATTTTAAAA-AGAT
1 TTTA-AAATTTTAAAATA-AT
*
44465908 TTTAAACTTTTA
1 TTTAAAATTTTA
44465920 TTTTTATAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
19 7 0.17
20 24 0.57
21 11 0.26
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (19 bp):
TTTAAAATTTTAAAATAAT
Found at i:44465881 original size:10 final size:10
Alignment explanation
Indices: 44465854--44465913 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
44465844 GTGATTTAAA
44465854 ATTTTAAAAT
1 ATTTTAAAAT
44465864 CAATTTTAAAAT
1 --ATTTTAAAAT
*
44465876 ATTTTAAATT
1 ATTTTAAAAT
*
44465886 TTTTTAGAAAT
1 ATTTTA-AAAT
* *
44465897 -TTTAAAAAG
1 ATTTTAAAAT
44465906 ATTTTAAA
1 ATTTTAAA
44465914 CTTTTATTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
9 3 0.08
10 24 0.60
11 3 0.08
12 10 0.25
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (10 bp):
ATTTTAAAAT
Found at i:44469768 original size:42 final size:42
Alignment explanation
Indices: 44469707--44470055 Score: 479
Period size: 42 Copynumber: 8.3 Consensus size: 42
44469697 GATATATTTT
* *
44469707 TAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCTGTTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTGATCTA
* *
44469749 TAGCGGCGTTTATGGGAAAAGCGCCGCTAAAGGTCTGCTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTGATCTA
* *
44469791 TAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTGTTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTGATCTA
*
44469833 TAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC-TGATCTA
* * * *
44469876 TAGTGGCGTTTGTGGGGAAAGCGCCGCTAAAGATCTTGAGCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC-TGATCTA
44469919 TAGCGGCGTTTGTGGG-AAAGCGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGT-CTGATCTA
* **
44469961 TAGCGGCGTTTGTGGG-GAAGCATCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGT-CTGATCTA
* * *
44470003 TAGCGGCGTTT-TTGGAAAAGCGCCGTTAAAGGTCATGACCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC-TGATCTA
44470045 TAGCGGCGTTT
1 TAGCGGCGTTT
44470056 ATTTCTATAA
Statistics
Matches: 279, Mismatches: 24, Indels: 8
0.90 0.08 0.03
Matches are distributed among these distances:
41 4 0.01
42 213 0.76
43 62 0.22
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.26
Consensus pattern (42 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTGATCTA
Found at i:44470997 original size:42 final size:42
Alignment explanation
Indices: 44470897--44471007 Score: 199
Period size: 41 Copynumber: 2.7 Consensus size: 42
44470887 TGGCGTAAAA
*
44470897 CCTGCTAGGCTCA-AGCCTGATAAAAACTCACCGGCACTAGG
1 CCTGCTAGGCTTATAGCCTGATAAAAACTCACCGGCACTAGG
44470938 -CTGCTAGGCTTATAGCCTGATAAAAACTCACCGGCACTAGG
1 CCTGCTAGGCTTATAGCCTGATAAAAACTCACCGGCACTAGG
44470979 CCTGCTAGGCTTATAGCCTGATAAAAACT
1 CCTGCTAGGCTTATAGCCTGATAAAAACT
44471008 GATACATAGT
Statistics
Matches: 67, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
40 11 0.16
41 28 0.42
42 28 0.42
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.22
Consensus pattern (42 bp):
CCTGCTAGGCTTATAGCCTGATAAAAACTCACCGGCACTAGG
Found at i:44473658 original size:19 final size:20
Alignment explanation
Indices: 44473587--44473661 Score: 61
Period size: 19 Copynumber: 3.9 Consensus size: 20
44473577 TAACTATTTA
*
44473587 TATTTAATCATATAATAAAT
1 TATTTAATCATTTAATAAAT
*
44473607 TA-TTAATACAATTAATACAAT
1 TATTTAAT-CATTTAATA-AAT
*
44473628 T-TATT-AT-TTTTAATAAAT
1 TAT-TTAATCATTTAATAAAT
44473646 TATTTAAT-ATTTAATA
1 TATTTAATCATTTAATA
44473662 TTTATTTTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
18 6 0.14
19 21 0.48
20 9 0.20
21 6 0.14
22 2 0.05
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTTAATCATTTAATAAAT
Done.