Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 135 of 226
Found at i:45151238 original size:39 final size:39
Alignment explanation
Indices: 45151195--45151298 Score: 181
Period size: 39 Copynumber: 2.7 Consensus size: 39
45151185 TTAAACCAAC
* * *
45151195 CTTTTTAAAAGCACTTCTTAAAAGTACTTTTCCACAGCA
1 CTTTTCAAAAGCACTTTTTAAAAGCACTTTTCCACAGCA
45151234 CTTTTCAAAAGCACTTTTTAAAAGCACTTTTCCACAGCA
1 CTTTTCAAAAGCACTTTTTAAAAGCACTTTTCCACAGCA
45151273 CTTTTCAAAAGCACTTTTTAAAAGCA
1 CTTTTCAAAAGCACTTTTTAAAAGCA
45151299 ATGAAGAACT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 62 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.35
Consensus pattern (39 bp):
CTTTTCAAAAGCACTTTTTAAAAGCACTTTTCCACAGCA
Found at i:45158945 original size:11 final size:11
Alignment explanation
Indices: 45158925--45158957 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
45158915 TCAGAAAAAA
45158925 TATATGAAAATT
1 TATAT-AAAATT
45158937 TATATAAAATT
1 TATATAAAATT
45158948 TATA-AAAATT
1 TATATAAAATT
45158958 AACAAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 6 0.29
11 10 0.48
12 5 0.24
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (11 bp):
TATATAAAATT
Found at i:45159285 original size:18 final size:18
Alignment explanation
Indices: 45159262--45159296 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
45159252 TTTTGACAAT
45159262 TTTTTTTTGTATTTTATC
1 TTTTTTTTGTATTTTATC
*
45159280 TTTTTTTTGTGTTTTAT
1 TTTTTTTTGTATTTTAT
45159297 GTATTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.09, C:0.03, G:0.09, T:0.80
Consensus pattern (18 bp):
TTTTTTTTGTATTTTATC
Found at i:45159303 original size:18 final size:18
Alignment explanation
Indices: 45159264--45159303 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
45159254 TTGACAATTT
*
45159264 TTTTTTGTATTTTATCTT
1 TTTTTTGTATTTTATCTA
* *
45159282 TTTTTTGTGTTTTATGTA
1 TTTTTTGTATTTTATCTA
45159300 TTTT
1 TTTT
45159304 AAAAAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.10, C:0.03, G:0.10, T:0.78
Consensus pattern (18 bp):
TTTTTTGTATTTTATCTA
Found at i:45159643 original size:15 final size:16
Alignment explanation
Indices: 45159619--45159657 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
45159609 TGAATTTAAT
45159619 TTATTTTAAA-AA-TA
1 TTATTTTAAATAACTA
45159633 TTATATTTAAATAACTA
1 TTAT-TTTAAATAACTA
45159650 TTATTTTA
1 TTATTTTA
45159658 TTTTTATCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 4 0.18
15 6 0.27
16 6 0.27
17 6 0.27
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (16 bp):
TTATTTTAAATAACTA
Found at i:45161095 original size:79 final size:79
Alignment explanation
Indices: 45160963--45161120 Score: 289
Period size: 79 Copynumber: 2.0 Consensus size: 79
45160953 AAGACAATCC
*
45160963 AGTACTTGATTGGATCGGGAATGGTAAGACTAACATACTTGCCATACAATTTAGGAGATTGATTG
1 AGTACTTGATTGGATCGGGAATGGTAAGAATAACATACTTGCCATACAATTTAGGAGATTGATTG
*
45161028 AGTGATTGACATTT
66 AGTGATCGACATTT
*
45161042 AGTACTTGATTGGATCGGGAATGGTAAGAATAACATACTTGCCATACAGTTTAGGAGATTGATTG
1 AGTACTTGATTGGATCGGGAATGGTAAGAATAACATACTTGCCATACAATTTAGGAGATTGATTG
45161107 AGTGATCGACATTT
66 AGTGATCGACATTT
45161121 CATTACTCTA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 76 1.00
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (79 bp):
AGTACTTGATTGGATCGGGAATGGTAAGAATAACATACTTGCCATACAATTTAGGAGATTGATTG
AGTGATCGACATTT
Found at i:45163539 original size:21 final size:20
Alignment explanation
Indices: 45163491--45163616 Score: 144
Period size: 21 Copynumber: 6.1 Consensus size: 20
45163481 ATTAGTACAT
*
45163491 AGCAAAACAATCGATTGGAA
1 AGCAAAACAATCGATTGAAA
*
45163511 AGCAAAACAATCAATTGAAA
1 AGCAAAACAATCGATTGAAA
* *
45163531 CAACAAAACAATCGATTGTAA
1 -AGCAAAACAATCGATTGAAA
* *
45163552 AGTGAAAACAATCAATTGAAA
1 AG-CAAAACAATCGATTGAAA
*
45163573 CAGCAAAACAATCGATTGTAA
1 -AGCAAAACAATCGATTGAAA
*
45163594 AGTGAAAACAATCGATTGAAA
1 AG-CAAAACAATCGATTGAAA
45163615 AG
1 AG
45163617 AATCATTTCA
Statistics
Matches: 88, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
20 21 0.24
21 65 0.74
22 2 0.02
ACGTcount: A:0.53, C:0.14, G:0.15, T:0.17
Consensus pattern (20 bp):
AGCAAAACAATCGATTGAAA
Found at i:45163570 original size:42 final size:42
Alignment explanation
Indices: 45163493--45163614 Score: 201
Period size: 42 Copynumber: 2.9 Consensus size: 42
45163483 TAGTACATAG
* *
45163493 CAAAACAATCGATTGGAAAG-CAAAACAATCAATTGAAACAA
1 CAAAACAATCGATTGTAAAGTGAAAACAATCAATTGAAACAA
*
45163534 CAAAACAATCGATTGTAAAGTGAAAACAATCAATTGAAACAG
1 CAAAACAATCGATTGTAAAGTGAAAACAATCAATTGAAACAA
*
45163576 CAAAACAATCGATTGTAAAGTGAAAACAATCGATTGAAA
1 CAAAACAATCGATTGTAAAGTGAAAACAATCAATTGAAA
45163615 AGAATCATTT
Statistics
Matches: 76, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
41 19 0.25
42 57 0.75
ACGTcount: A:0.53, C:0.15, G:0.14, T:0.18
Consensus pattern (42 bp):
CAAAACAATCGATTGTAAAGTGAAAACAATCAATTGAAACAA
Found at i:45171720 original size:25 final size:25
Alignment explanation
Indices: 45171686--45171749 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
45171676 GATTCTCAGT
* *
45171686 TCGTATGAGCTTACTGA-TCTATAGC
1 TCGTATGAGCATACCGATTC-ATAGC
*
45171711 TCGTAAGAGCATACCGATTCATAGC
1 TCGTATGAGCATACCGATTCATAGC
45171736 TCGTATGAGCATAC
1 TCGTATGAGCATAC
45171750 ATGTACAGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 32 0.94
26 2 0.06
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (25 bp):
TCGTATGAGCATACCGATTCATAGC
Found at i:45171937 original size:30 final size:28
Alignment explanation
Indices: 45171903--45171958 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 28
45171893 GAAATACATG
45171903 GAAATGAT-ATTACATGATATATTGAAACGT
1 GAAATGATGA-TACATG-TATA-TGAAACGT
*
45171933 GAAATGGTGATACATGTATATGAAAC
1 GAAATGATGATACATGTATATGAAAC
45171959 TTGCTTAGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 6 0.25
29 4 0.17
30 13 0.54
31 1 0.04
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (28 bp):
GAAATGATGATACATGTATATGAAACGT
Found at i:45176232 original size:49 final size:49
Alignment explanation
Indices: 45176158--45176284 Score: 182
Period size: 49 Copynumber: 2.6 Consensus size: 49
45176148 GATAATAACA
* * * *
45176158 TGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATGTTTCCTGCAG
1 TGCCAAAGCCATATCCTAGATATGGTCTTACATGAGATGTTTCCTGCAC
* *
45176207 TGCCAATGCTATATCCTAGATATGGTCTTACATGAGATGTTTCCTGCAC
1 TGCCAAAGCCATATCCTAGATATGGTCTTACATGAGATGTTTCCTGCAC
* *
45176256 TGCCAAAGCCATATCCCAGATATAGTCTT
1 TGCCAAAGCCATATCCTAGATATGGTCTT
45176285 TTGCACTGCC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 68 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (49 bp):
TGCCAAAGCCATATCCTAGATATGGTCTTACATGAGATGTTTCCTGCAC
Found at i:45176297 original size:35 final size:35
Alignment explanation
Indices: 45176251--45176319 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
45176241 AGATGTTTCC
45176251 TGCACTGCCAAAGCCATATCCCAGATATAGTCTTT
1 TGCACTGCCAAAGCCATATCCCAGATATAGTCTTT
45176286 TGCACTGCCAAAGCCATATCCCAGATATAGTCTT
1 TGCACTGCCAAAGCCATATCCCAGATATAGTCTT
45176320 ACATGAGAGT
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:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (35 bp):
TGCACTGCCAAAGCCATATCCCAGATATAGTCTTT
Found at i:45176430 original size:50 final size:49
Alignment explanation
Indices: 45176291--45176480 Score: 173
Period size: 50 Copynumber: 3.7 Consensus size: 49
45176281 TCTTTTGCAC
* * * ** *
45176291 TGCCAAAGCCATATCCCAGATATAGTCTTACATGAGAGTTCTCATATCGG
1 TGCC-AAGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
* *** *
45176341 TGCCCAAGCCATGTCCTAGACATGGTCTTATGGGGGACCTCTCATCTCGG
1 TG-CCAAGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
*
45176391 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATAATCTCAATGA
1 TGCCAA-GCCATGTCCCAGACATGGTCTTACATGAGACCTCTC---ATCTC---GG
*
45176447 TGCCAATGCCATGTCCCATACATGGTCTTACATG
1 TGCCAA-GCCATGTCCCAGACATGGTCTTACATG
45176481 GGATCTCATT
Statistics
Matches: 113, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
49 4 0.04
50 69 0.61
51 2 0.02
53 5 0.04
56 33 0.29
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (49 bp):
TGCCAAGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
Found at i:45179646 original size:17 final size:16
Alignment explanation
Indices: 45179624--45179657 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45179614 GGGGATGGCG
45179624 TTTGTTTGATGTTTATT
1 TTTGTTTG-TGTTTATT
*
45179641 TTTGTTTGTTTTTATT
1 TTTGTTTGTGTTTATT
45179657 T
1 T
45179658 CATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (16 bp):
TTTGTTTGTGTTTATT
Found at i:45180994 original size:21 final size:21
Alignment explanation
Indices: 45180964--45181023 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
45180954 ATTAGCACCC
45180964 TTAGATGCATCCACAACA-AA
1 TTAGATGCATCCACAACAGAA
* *
45180984 GTTAGAGGCATCCACACCAGAA
1 -TTAGATGCATCCACAACAGAA
*
45181006 TCAGATGCATCCACAACA
1 TTAGATGCATCCACAACA
45181024 CTCTTCAATG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
21 31 0.94
22 2 0.06
ACGTcount: A:0.40, C:0.28, G:0.15, T:0.17
Consensus pattern (21 bp):
TTAGATGCATCCACAACAGAA
Found at i:45194798 original size:26 final size:26
Alignment explanation
Indices: 45194768--45194819 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
45194758 AAAATTAATG
45194768 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTGAAATATTGAATGTT
45194794 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTGAAATATTGAATGTT
45194820 TTCTTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (26 bp):
CTAATTAAACTGAAATATTGAATGTT
Found at i:45196878 original size:82 final size:81
Alignment explanation
Indices: 45196730--45196929 Score: 213
Period size: 82 Copynumber: 2.4 Consensus size: 81
45196720 GAGTTTTTGG
* * * * * * * *
45196730 GGGCATTTAGTGGCGTTTTTGAAAAAGCGGCACAAATGCTTGGGCCTTTAGTAGCGTTTTTTAAA
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGC-GCGCTAATGCTCGGGCCTTTAGCAGCGTTGTTGAAA
** * *
45196795 AATCGCTGCTAATGCTC
65 AAGAGCAGCTAATACTC
* * *
45196812 GGGCCTTTAGCGGCGGTTTTGAAAAAGCGCTGCTAATGCTCGGGCTTTTAGCGGCGTTGTTGAAA
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGC-GCTAATGCTCGGGCCTTTAGCAGCGTTGTTGAAA
45196877 AAGAGCAGCTAATACTC
65 AAGAGCAGCTAATACTC
* *
45196894 -GACCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAAT
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCG-CGCTAAT
45196930 AATAATAAAA
Statistics
Matches: 98, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
81 33 0.34
82 65 0.66
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.29
Consensus pattern (81 bp):
GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCGCTAATGCTCGGGCCTTTAGCAGCGTTGTTGAAAA
AGAGCAGCTAATACTC
Found at i:45196919 original size:40 final size:41
Alignment explanation
Indices: 45196735--45196930 Score: 180
Period size: 41 Copynumber: 4.8 Consensus size: 41
45196725 TTTGGGGGCA
* * * * *
45196735 TTTAGTGGCGTTTTTGAAAAAGCGGCA-CAAATGCTTGGGCC
1 TTTAGCGGCGTTTTTGAAAAAGC-GCAGCTAATACTCGGACC
** * * * * *
45196776 TTTAGTAGCGTTTTTTAAAAATCGCTGCTAATGCTCGGGCC
1 TTTAGCGGCGTTTTTGAAAAAGCGCAGCTAATACTCGGACC
* * * * *
45196817 TTTAGCGGCGGTTTTGAAAAAGCGCTGCTAATGCTCGGGCT
1 TTTAGCGGCGTTTTTGAAAAAGCGCAGCTAATACTCGGACC
* *
45196858 TTTAGCGGCGTTGTTGAAAAAGAGCAGCTAATACTC-GACC
1 TTTAGCGGCGTTTTTGAAAAAGCGCAGCTAATACTCGGACC
* *
45196898 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATA
1 TTTAGCGGCGTTTTTGAAAAAGCGCAGCTAATA
45196931 ATAATAAAAT
Statistics
Matches: 131, Mismatches: 23, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
40 33 0.25
41 98 0.75
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAAAAAGCGCAGCTAATACTCGGACC
Found at i:45197575 original size:33 final size:33
Alignment explanation
Indices: 45197529--45197601 Score: 119
Period size: 33 Copynumber: 2.2 Consensus size: 33
45197519 ATTAAATAAT
* * *
45197529 GTTTAGGGGTTAGGGATTCGGGGTCGGGTTAGG
1 GTTTAGGGATTAGGGATTCAGGGTCGAGTTAGG
45197562 GTTTAGGGATTAGGGATTCAGGGTCGAGTTAGG
1 GTTTAGGGATTAGGGATTCAGGGTCGAGTTAGG
45197595 GTTTAGG
1 GTTTAGG
45197602 ATTTAGATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.16, C:0.05, G:0.47, T:0.32
Consensus pattern (33 bp):
GTTTAGGGATTAGGGATTCAGGGTCGAGTTAGG
Found at i:45197661 original size:7 final size:7
Alignment explanation
Indices: 45197643--45197682 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
45197633 TATTAAATAA
45197643 GGTTTAGG
1 GGTTT-GG
45197651 GGTTTGG
1 GGTTTGG
*
45197658 GGTTAGG
1 GGTTTGG
*
45197665 GGTTTGA
1 GGTTTGG
45197672 GGTTTGG
1 GGTTTGG
45197679 GGTT
1 GGTT
45197683 AAAATTTAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
7 23 0.82
8 5 0.18
ACGTcount: A:0.07, C:0.00, G:0.53, T:0.40
Consensus pattern (7 bp):
GGTTTGG
Found at i:45198754 original size:21 final size:21
Alignment explanation
Indices: 45198730--45198775 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
45198720 TCCCTCCCCC
*
45198730 TCCCCCC-GAAATCCCCAACTT
1 TCCCCCCTAAAATCCCCAA-TT
*
45198751 TCCCCCCTAAAATCCCTAATT
1 TCCCCCCTAAAATCCCCAATT
45198772 TCCC
1 TCCC
45198776 ACATCCAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.24, C:0.50, G:0.02, T:0.24
Consensus pattern (21 bp):
TCCCCCCTAAAATCCCCAATT
Found at i:45198756 original size:22 final size:21
Alignment explanation
Indices: 45198731--45198775 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
45198721 CCCTCCCCCT
*
45198731 CCCCCCGAAATCCCCAACTTTC
1 CCCCCCAAAATCCCCAA-TTTC
* *
45198753 CCCCCTAAAATCCCTAATTTC
1 CCCCCCAAAATCCCCAATTTC
45198774 CC
1 CC
45198776 ACATCCAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.24, C:0.51, G:0.02, T:0.22
Consensus pattern (21 bp):
CCCCCCAAAATCCCCAATTTC
Found at i:45203281 original size:43 final size:43
Alignment explanation
Indices: 45203232--45203352 Score: 143
Period size: 43 Copynumber: 2.8 Consensus size: 43
45203222 AGGTTATATT
* *
45203232 TTTAGCGGCGTTTGTGGAAAAAGCATCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGAAAAAGCACCGCTAAAGATCATGGTC
* * * *
45203275 TTTAGCGACGTTTGTGGGAAAAGCGCCGCTAAATATCATGGTC
1 TTTAGCGGCGTTTGTGGAAAAAGCACCGCTAAAGATCATGGTC
* * * *
45203318 TATAGCGGCGTTTTTGGGTAAAAGCGCCGCTAAAG
1 TTTAGCGGCGTTTGT-GGAAAAAGCACCGCTAAAG
45203353 TTAGCGACGC
Statistics
Matches: 66, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
43 49 0.74
44 17 0.26
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGAAAAAGCACCGCTAAAGATCATGGTC
Found at i:45203755 original size:26 final size:26
Alignment explanation
Indices: 45203725--45203776 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
45203715 AAAATTAATG
45203725 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTGAAATATTGAATGTT
45203751 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTGAAATATTGAATGTT
45203777 TTCATTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (26 bp):
CTAATTAAACTGAAATATTGAATGTT
Found at i:45206013 original size:28 final size:26
Alignment explanation
Indices: 45205955--45206023 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 26
45205945 AAATATAATT
* *
45205955 ATAATTTTTATTATTTATTTATTTTTA
1 ATAATTTTTA-TATTAATTAATTTTTA
*
45205982 ATAATTTTTATATGTAATTAATGTTTTC
1 ATAATTTTTATAT-TAATTAAT-TTTTA
*
45206010 ATAATTTATATATT
1 ATAATTTTTATATT
45206024 TTTATTAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 3 0.08
27 17 0.47
28 16 0.44
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.62
Consensus pattern (26 bp):
ATAATTTTTATATTAATTAATTTTTA
Found at i:45206268 original size:16 final size:16
Alignment explanation
Indices: 45206249--45206280 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
45206239 ATTTTTTAAC
45206249 ATATATTTTAATTTAT
1 ATATATTTTAATTTAT
*
45206265 ATATATTTTTATTTAT
1 ATATATTTTAATTTAT
45206281 TTTCATAAAT
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
ATATATTTTAATTTAT
Found at i:45219219 original size:45 final size:45
Alignment explanation
Indices: 45219150--45219657 Score: 205
Period size: 44 Copynumber: 11.6 Consensus size: 45
45219140 TAAGCAAAGC
* ** * * *
45219150 CTTATCCCCCTTGAAGTTATAGTGGGGCAGGCTGAAGATAGGGAAT
1 CTTATCTCCC-TGAAGTTGCAGTGGAGCAGACTGAAGATAGAGAAT
* * * ** *
45219196 CTTATCTCCCTGAAGTTGCAGTGGACCAGATTAAAGCCA-ATAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGAGAAT
* * * * * *
45219240 CCTATCTCCCTGAAGTTTCAGTGGAGCGGA-TTAAAATCACAG-AT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT-AGAGAAT
* * * * * **
45219284 CTTATCTCTCTGAAGTTGCAG-AGAGCA-AAT-CACATCTAG--T
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGAGAAT
*
45219324 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-TA-AGCAAAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGAG--AA-T
* ** * * *
45219369 CTTATCCCCCTTGAAGTTATAGTGGGGCAGGCTGAAGATAGGGAAT
1 CTTATCTCCC-TGAAGTTGCAGTGGAGCAGACTGAAGATAGAGAAT
* * * ** *
45219415 CTTATCTCCCTGAAGTTGCAGTGGACCAGATTAAAGCCA-ATAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGAGAAT
* ** * * *
45219459 CCTATCTCCCTGAAGTTGCAGTGGAGTGGA-TTAAAATTACAG-AT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA-TAGAGAAT
* * * * * * * * *
45219503 CTTATCTCTCTGAAGGTGTAGTAGAGTAGA-T-CACATCG-G-GT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGAGAAT
45219544 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTG-AG-TA-AGAAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGAG-AA-T
* * * * * * * *
45219588 CTTATCCCCCTAAAATTACAGTGGGGCAGACTGAATAAACA-AAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGAGAAT
* * *
45219632 CCTATCTCCCTAAAGTTGTAGTGGAG
1 CTTATCTCCCTGAAGTTGCAGTGGAG
45219658 TGTATTAGAA
Statistics
Matches: 340, Mismatches: 97, Indels: 52
0.70 0.20 0.11
Matches are distributed among these distances:
40 23 0.07
41 37 0.11
42 10 0.03
43 13 0.04
44 157 0.46
45 54 0.16
46 37 0.11
47 6 0.02
48 2 0.01
49 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGAGAAT
Found at i:45219378 original size:219 final size:220
Alignment explanation
Indices: 45219126--45219622 Score: 838
Period size: 219 Copynumber: 2.3 Consensus size: 220
45219116 NNNNNNNNNN
45219126 TGGAGCAGACTAAGTAAGCAAAGCCTTATCCCCCTTGAAGTTATAGTGGGGCAGGCTGAAGATAG
1 TGGAGCAGACTAAGTAAGCAAAGCCTTATCCCCCTTGAAGTTATAGTGGGGCAGGCTGAAGATAG
45219191 GGAATCTTATCTCCCTGAAGTTGCAGTGGACCAGATTAAAGCCAATAATCCTATCTCCCTGAAGT
66 GGAATCTTATCTCCCTGAAGTTGCAGTGGACCAGATTAAAGCCAATAATCCTATCTCCCTGAAGT
* *
45219256 TTCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAAATCACATC
131 TGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGGTGCAGTAGAGCAAATCACATC
*
45219320 TAGTCTTATCTCCCTGAAGTTGCAG
196 GAGTCTTATCTCCCTGAAGTTGCAG
45219345 TGGAGCAGACTAAGTAAGCAAAGCCTTATCCCCCTTGAAGTTATAGTGGGGCAGGCTGAAGATAG
1 TGGAGCAGACTAAGTAAGCAAAGCCTTATCCCCCTTGAAGTTATAGTGGGGCAGGCTGAAGATAG
45219410 GGAATCTTATCTCCCTGAAGTTGCAGTGGACCAGATTAAAGCCAATAATCCTATCTCCCTGAAGT
66 GGAATCTTATCTCCCTGAAGTTGCAGTGGACCAGATTAAAGCCAATAATCCTATCTCCCTGAAGT
* * * * *
45219475 TGCAGTGGAGTGGATTAAAATTACAGATCTTATCTCTCTGAAGGTGTAGTAGAGTAGATCACATC
131 TGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGGTGCAGTAGAGCAAATCACATC
*
45219540 GGGTCTTATCTCCCTGAAGTTGCAG
196 GAGTCTTATCTCCCTGAAGTTGCAG
* * * * * *
45219565 TGGAGCAGACTGAGTAAG-AAAGTCTTATCCCCC-TAAAATTACAGTGGGGCAGACTGAA
1 TGGAGCAGACTAAGTAAGCAAAGCCTTATCCCCCTTGAAGTTATAGTGGGGCAGGCTGAA
45219623 TAAACAAATC
Statistics
Matches: 262, Mismatches: 15, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
218 21 0.08
219 188 0.72
220 53 0.20
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (220 bp):
TGGAGCAGACTAAGTAAGCAAAGCCTTATCCCCCTTGAAGTTATAGTGGGGCAGGCTGAAGATAG
GGAATCTTATCTCCCTGAAGTTGCAGTGGACCAGATTAAAGCCAATAATCCTATCTCCCTGAAGT
TGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGGTGCAGTAGAGCAAATCACATC
GAGTCTTATCTCCCTGAAGTTGCAG
Found at i:45219509 original size:44 final size:43
Alignment explanation
Indices: 45219194--45219573 Score: 215
Period size: 44 Copynumber: 8.7 Consensus size: 43
45219184 AAGATAGGGA
* *
45219194 ATCTTATCTCCCTGAAGTTGCAGTGGACCAGATTAAAGCCA-ATA-
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA---ATACAG
* * *
45219238 ATCCTATCTCCCTGAAGTTTCAGTGGAGCGGATTAAAATCACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAT-ACAG
* * * * *
45219282 ATCTTATCTCTCTGAAGTTGCAG-AGAGCA-AATCACAT-CTAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAC-AG
* * *
45219323 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAA-GCAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AATACAG
* * ** * * * * **
45219366 AGCCTTATCCCCCTTGAAGTTATAGTGGGGCAGGCTGAAGATAGGG
1 A-TCTTATCTCCC-TGAAGTTGCAGTGGAGCA-GATTAAAATACAG
* *
45219412 AATCTTATCTCCCTGAAGTTGCAGTGGACCAGATTAAAGCCA-ATA-
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA---ATACAG
* **
45219457 ATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATTACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA-TACAG
* * * * * * * *
45219501 ATCTTATCTCTCTGAAGGTGTAGTAGAGTAGA-TCACAT-CGG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATACAG
*
45219542 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
45219574 CTGAGTAAGA
Statistics
Matches: 252, Mismatches: 63, Indels: 45
0.70 0.17 0.12
Matches are distributed among these distances:
40 22 0.09
41 37 0.15
42 9 0.04
43 12 0.05
44 118 0.47
45 24 0.10
46 25 0.10
47 5 0.02
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (43 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATACAG
Found at i:45221248 original size:49 final size:52
Alignment explanation
Indices: 45221176--45221325 Score: 150
Period size: 49 Copynumber: 2.9 Consensus size: 52
45221166 TTTTTAGAGA
* * * *
45221176 ATTAATTAATTTCAA-AATATAATTATA-ATTTTGATTATTTATTTATTTATT
1 ATTAATTAATTTCAATAATGTAATTATATATTTTCATAATTTATATATTT-TT
** *
45221227 -TTAA-TAATTTTTAT-ATGTAATTA-ATGTTTTCATAATTTATATATTTTT
1 ATTAATTAATTTCAATAATGTAATTATATATTTTCATAATTTATATATTTTT
*
45221275 ATTAATTAATTTCAATAATGTAATTATTATTATTTTATATAATTTATATAT
1 ATTAATTAATTTCAATAATGTAATTA-TA-TATTTT-CATAATTTATATAT
45221326 ATGTATAGAT
Statistics
Matches: 79, Mismatches: 11, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
48 3 0.04
49 36 0.46
50 12 0.15
51 9 0.11
53 1 0.01
54 5 0.06
55 13 0.16
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (52 bp):
ATTAATTAATTTCAATAATGTAATTATATATTTTCATAATTTATATATTTTT
Found at i:45223785 original size:26 final size:26
Alignment explanation
Indices: 45223755--45223806 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
45223745 AAAATTAATG
45223755 CTAATTAAACTAAAATATTGAATGTT
1 CTAATTAAACTAAAATATTGAATGTT
*
45223781 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTAAAATATTGAATGTT
45223807 TTCTTTCCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (26 bp):
CTAATTAAACTAAAATATTGAATGTT
Found at i:45228792 original size:51 final size:50
Alignment explanation
Indices: 45228731--45228961 Score: 232
Period size: 51 Copynumber: 4.6 Consensus size: 50
45228721 ATACCCGGTT
* * * *
45228731 CACATAGTAGCTTGTACATAGTACTACGCACGTGATCGAAGCTATCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCAAGCTATCTGGTA
* * * * *
45228782 CGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATC-ATTCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAAGCTA-TCTGGTA
* * *** **
45228832 CACATAGCAGCCTGCACATAGTACTACACACATGACCATTTTCATCTAATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAAGCT-ATCTGGTA
* *
45228883 CACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTAT-TCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCAAGCTATCT-GGTA
*
45228934 CGCATAGTAGCCTGCACATAGTACTACA
1 CACATAGTAGCCTGCACATAGTACTACA
45228962 AATACGACCT
Statistics
Matches: 145, Mismatches: 30, Indels: 10
0.78 0.16 0.05
Matches are distributed among these distances:
49 1 0.01
50 44 0.30
51 96 0.66
52 4 0.03
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCAAGCTATCTGGTA
Found at i:45228844 original size:50 final size:50
Alignment explanation
Indices: 45228775--45229010 Score: 233
Period size: 50 Copynumber: 4.7 Consensus size: 50
45228765 ATCGAAGCTA
* **
45228775 TCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCAT
1 TCTGGTACACATAGTAGCCTGCACATAGTACTACACACACGACCTATCAT
* * *
45228825 TCTGGTACACATAGCAGCCTGCACATAGTACTACACACATGACCATTTTCA-
1 TCTGGTACACATAGTAGCCTGCACATAGTACTACACACACGACC--TATCAT
** * ** ** *
45228876 TCTAATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTAT
1 TCTGGTACACATAGTAGCCTGCACATAGTACTACACACACGA-CCTATC-AT
* * *
45228928 TC-GGTACGCATAGTAGCCTGCACATAGTACTACAAATACGACCTATCAT
1 TCTGGTACACATAGTAGCCTGCACATAGTACTACACACACGACCTATCAT
* ** *
45228977 TCCGGTACATGTAGTAGCCTGCACATAGTGCTAC
1 TCTGGTACACATAGTAGCCTGCACATAGTACTAC
45229011 CCACGTGATC
Statistics
Matches: 150, Mismatches: 30, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
49 4 0.03
50 70 0.47
51 69 0.46
52 7 0.05
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACATAGTACTACACACACGACCTATCAT
Found at i:45228954 original size:152 final size:152
Alignment explanation
Indices: 45228735--45229010 Score: 446
Period size: 152 Copynumber: 1.8 Consensus size: 152
45228725 CCGGTTCACA
* * *
45228735 TAGTAGCTTGTACATAGTACTACGCACGTGATCGAAGCTATCTGGTACGCATAGTAGCCTGCACA
1 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATCTGGTACGCATAGTAGCCTGCACA
* * *
45228800 TAGTACTACACATGCGACCTATCATTCTGGTACACATAGCAGCCTGCACATAGTACTACACACAT
66 TAGTACTACAAATACGACCTATCATTCCGGTACACATAGCAGCCTGCACATAGTACTACACACAT
45228865 GACCATTTTCATCTAATACACG
131 GACCATTTTCATCTAATACACG
45228887 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTAT-TCGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATCT-GGTACGCATAGTAGCCTGCAC
** * *
45228951 ATAGTACTACAAATACGACCTATCATTCCGGTACATGTAGTAGCCTGCACATAGTGCTAC
65 ATAGTACTACAAATACGACCTATCATTCCGGTACACATAGCAGCCTGCACATAGTACTAC
45229011 CCACGTGATC
Statistics
Matches: 113, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
151 1 0.01
152 112 0.99
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (152 bp):
TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATCTGGTACGCATAGTAGCCTGCACA
TAGTACTACAAATACGACCTATCATTCCGGTACACATAGCAGCCTGCACATAGTACTACACACAT
GACCATTTTCATCTAATACACG
Found at i:45228991 original size:101 final size:101
Alignment explanation
Indices: 45228786--45229020 Score: 269
Period size: 101 Copynumber: 2.3 Consensus size: 101
45228776 CTGGTACGCA
* * * *
45228786 TAGTAGCCTGCACATAGTACTACACATGCGA-CCTATCATTCTGGTACACATAGCAGCCTGCACA
1 TAGTAGCCTGCACATAGTACTACACACGTGATCCAAGCATTCTGGTACACATAGCAGCCTGCACA
* * * *
45228850 TAGTACTACACACATGACCATTTTCATCTAATACACG
66 TAGTACTACAAACACGACCA-TATCATCCAATACACG
* * *
45228887 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATTC-GGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACATAGTACTACACACGTGATCCAAGC-ATTCTGGTACACATAGCAGCCTGCAC
* ** *
45228951 ATAGTACTACAAATACGACC-TATCATTCCGGTACATG
65 ATAGTACTACAAACACGACCATATCA-TCCAATACACG
* *
45228988 TAGTAGCCTGCACATAGTGCTACCCACGTGATC
1 TAGTAGCCTGCACATAGTACTACACACGTGATC
45229021 TAGCAACTTC
Statistics
Matches: 114, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
100 4 0.04
101 67 0.59
102 39 0.34
103 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (101 bp):
TAGTAGCCTGCACATAGTACTACACACGTGATCCAAGCATTCTGGTACACATAGCAGCCTGCACA
TAGTACTACAAACACGACCATATCATCCAATACACG
Found at i:45231809 original size:42 final size:44
Alignment explanation
Indices: 45231744--45231843 Score: 116
Period size: 47 Copynumber: 2.2 Consensus size: 44
45231734 CTTAGTCCAA
*
45231744 CTATGGTCTTACACATATTTACATAT-T-GATGCCATAGCCCAG
1 CTATGGTCTTACACATATGTACATATATCGATGCCATAGCCCAG
*
45231786 CTATGGTCTTACACAGTA-GTACATATCACATCGATGCCATATCCCAG
1 CTATGGTCTTACACA-TATGTACATAT---ATCGATGCCATAGCCCAG
*
45231833 ATATGGTCTTA
1 CTATGGTCTTA
45231844 TACGGAAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
42 22 0.45
43 2 0.04
46 1 0.02
47 24 0.49
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (44 bp):
CTATGGTCTTACACATATGTACATATATCGATGCCATAGCCCAG
Found at i:45231872 original size:47 final size:47
Alignment explanation
Indices: 45231771--45231862 Score: 121
Period size: 47 Copynumber: 1.9 Consensus size: 47
45231761 TTTACATATT
* * *
45231771 GATGCCATAGCCCAGCTATGGTCTTACACAGTAGTACATATCACATC
1 GATGCCATAGCCCAGATATGGTCTTACACAGAAATACATATCACATC
* * *
45231818 GATGCCATATCCCAGATATGGTCTTATACGGAAATCACATATCAC
1 GATGCCATAGCCCAGATATGGTCTTACACAGAAAT-ACATATCAC
45231863 TTGTTGCCAT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
47 29 0.76
48 9 0.24
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (47 bp):
GATGCCATAGCCCAGATATGGTCTTACACAGAAATACATATCACATC
Found at i:45236209 original size:26 final size:26
Alignment explanation
Indices: 45236179--45236230 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
45236169 AAAATTAATG
45236179 CTAATTAAACAAAAATATTGAATGTT
1 CTAATTAAACAAAAATATTGAATGTT
**
45236205 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACAAAAATATTGAATGTT
45236231 TTCTTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.37
Consensus pattern (26 bp):
CTAATTAAACAAAAATATTGAATGTT
Found at i:45238387 original size:26 final size:26
Alignment explanation
Indices: 45238358--45238409 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
45238348 AATTAATGCA
*
45238358 AATTAAACTGAAACATTGAATGTTTT
1 AATTAAACTAAAACATTGAATGTTTT
*
45238384 AATTAAACTAAAATATTGAATGTTTT
1 AATTAAACTAAAACATTGAATGTTTT
45238410 CTTTTATTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (26 bp):
AATTAAACTAAAACATTGAATGTTTT
Found at i:45240477 original size:26 final size:26
Alignment explanation
Indices: 45240448--45240498 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
45240438 AATTAATGCA
*
45240448 AATTAAACTGAAACATTGAATGTTTT
1 AATTAAACTAAAACATTGAATGTTTT
*
45240474 AATTAAACTAAAATATTGAATGTTT
1 AATTAAACTAAAACATTGAATGTTT
45240499 GCTTTTATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (26 bp):
AATTAAACTAAAACATTGAATGTTTT
Found at i:45242565 original size:26 final size:26
Alignment explanation
Indices: 45242536--45242585 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
45242526 AATTAATGCA
*
45242536 AATTAAACTGAAACATTGAATGTTCT
1 AATTAAACTAAAACATTGAATGTTCT
*
45242562 AATTAAACTAAAATATTGAATGTT
1 AATTAAACTAAAACATTGAATGTT
45242586 TTCTTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (26 bp):
AATTAAACTAAAACATTGAATGTTCT
Found at i:45244734 original size:26 final size:26
Alignment explanation
Indices: 45244705--45244754 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
45244695 AATTAATGCA
*
45244705 AATTAAACTGAAACATTGAATGTTCT
1 AATTAAACTAAAACATTGAATGTTCT
*
45244731 AATTAAACTAAAATATTGAATGTT
1 AATTAAACTAAAACATTGAATGTT
45244755 TTCTTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (26 bp):
AATTAAACTAAAACATTGAATGTTCT
Found at i:45245632 original size:26 final size:26
Alignment explanation
Indices: 45245603--45245652 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
45245593 AATTAATGCA
*
45245603 AATTAAACTGAAACATTGAATGTTCT
1 AATTAAACTAAAACATTGAATGTTCT
*
45245629 AATTAAACTAAAATATTGAATGTT
1 AATTAAACTAAAACATTGAATGTT
45245653 TTCTTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (26 bp):
AATTAAACTAAAACATTGAATGTTCT
Found at i:45245896 original size:898 final size:897
Alignment explanation
Indices: 45244162--45245927 Score: 3325
Period size: 898 Copynumber: 2.0 Consensus size: 897
45244152 TCAGAACGAG
45244162 AAATTTTTTGATATATTAATTTTGAATTTCAATCATTCATTTGCCATTTTCCATTTTACAAATAT
1 AAATTTTTTGATATATTAATTTTGAATTTCAATCATTCATTTGCCATTTTCCATTTTACAAATAT
45244227 GATAAGAGTTATAAAAACTTTTTAACAACAACAAAGTTATAAGATTTTGCGGTTCGCATAATTAT
66 GATAAGAGTTATAAAAACTTTTTAACAACAACAAAGTTATAAGATTTTGCGGTTCGCATAATTAT
*
45244292 TTCTATATTGTGCCACATCCATACACTGGCAGAGGAATCTGGAATAGCTCATTCAATTTTGAGAT
131 TTCTATATTGTGCCACATCCATACACTGGCAGAGGAATCTGGAAAAGCTCATTCAATTTTGAGAT
*
45244357 ACACGTGAGTTTTTAACCATCAACATAACAAGTACGTACACAACTTCAAAAAGTTAGAAAAATAG
196 ACACGTGAATTTTTAACCATCAACATAACAAGTACGTACACAACTTCAAAAAGTTAGAAAAATAG
*
45244422 GACGACACACATATCGAATATGTGTGCCTATAATTCAAGTGTACTATATCCTGTATTGCTTTTTC
261 GACAACACACATATCGAATATGTGTGCCTATAATTCAAGTGTACTATATCCTGTATTGCTTTTTC
*
45244487 CATATGTTGTTTCCTCCATATTATCTTCCAGGTCTTTGGTTTGGAGTGGACGTAATAGTTCAATC
326 CATATGTTGTTTCCTCCATAATATCTTCCAGGTCTTTGGTTTGGAGTGGACGTAATAGTTCAATC
*
45244552 CCAGTTTCAACGGTGAAACACATGTACTAGAGAATCATCTTTATTGAACCTTATTTTCGTGATCC
391 CCAGTTTCAACGGTGAAACACATGTACTACAGAATCATCTTTATTGAACCTTATTTTCGTGATCC
*
45244617 ATTTAATGCCATTTAAGAATTACAAAGGGAAGTATAAATGTGCGTCTTTGAATTAATATTTAGAT
456 ATTTAATGCCATATAAGAATTACAAAGGGAAGTATAAATGTGCGTCTTTGAATTAATATTTAGAT
45244682 TTGTAGTAATTAAAATTAATGCAAATTAAACTGAAACATTGAATGTTCTAATTAAACTAAAATAT
521 TTGTAGTAATTAAAATTAATGCAAATTAAACTGAAACATTGAATGTTCTAATTAAACTAAAATAT
45244747 TGAATGTTTTCTTTTATTGTAACGTATTCTAGTACAATGTGGTTAAAACACTTCCTAAAAATGCC
586 TGAATGTTTTCTTTTATTGTAACGTATTCTAGTACAATGTGGTTAAAACACTTCCTAAAAATGCC
*
45244812 AGTTTTTTCCCTGCAAATCTTGTTCAAAATTAATTTTACGAACCAAATTTAACTAGTAACATTAG
651 AGTTTTTTCCCTCCAAATCTTGTTCAAAATTAATTTTACGAACCAAATTTAACTAGTAACATTAG
* *
45244877 ATTCGAGCAGTATGGCTAGCCTTAATGTTTATTCCGTACTAGTGGTTTTTTTCTTAACTTGCGGG
716 ATTCGAGCAGTATGGCAAGCCTTAATGTTTATTCCGTACTAGTGGTTTTATTCTTAACTTGCGGG
* * *
45244942 GCAGTAATGGCTACGAAGGAGAACGACCAGCTTATTAAGGAAAATAATTGCGAAACTAAAATGGG
781 GCAGTAATGGCTACGAAGGAGAACAACCAGATTATTAAGGAAAATAATTGCGAAACTAAAATGGA
*
45245007 TTTGCTTTGTGTTCTAGAAGCTTCCGTTCATATTCCATTTTACAAATGGCTA
846 TTTGCTTTCTGTTCTAGAAGCTTCCGTTCATATTCCATTTTACAAATGGCTA
* *
45245059 AAATTTTTTGATCTATTAATTTTGAATTTCAATCATTCATTTGCCATTTTCCATTTTACAAATCT
1 AAATTTTTTGATATATTAATTTTGAATTTCAATCATTCATTTGCCATTTTCCATTTTACAAATAT
45245124 GATAAGAGTTATAAAAACTTTTTAACAACAACAAAGTTATAAGATTTTGCGGTTCGCATAATTAT
66 GATAAGAGTTATAAAAACTTTTTAACAACAACAAAGTTATAAGATTTTGCGGTTCGCATAATTAT
45245189 TTCTATATTGTGCCACATCCATACCACTGGCAGAGGAATCTGGAAAAGCTCATTCAATTTTGAGA
131 TTCTATATTGTGCCACATCCATA-CACTGGCAGAGGAATCTGGAAAAGCTCATTCAATTTTGAGA
*
45245254 TACACGTGAATTTTTAACCATCAACATAACAAGTGCGTACACAACTTCAAAAAGTTAGAAAAATA
195 TACACGTGAATTTTTAACCATCAACATAACAAGTACGTACACAACTTCAAAAAGTTAGAAAAATA
*
45245319 GGACAACACACATATTGAATATGTGTGCCTATAATTCAAGTGTACTATATCCTGTATTGCTTTTT
260 GGACAACACACATATCGAATATGTGTGCCTATAATTCAAGTGTACTATATCCTGTATTGCTTTTT
45245384 CCATATGTTGTTTCCTCCATAATATCTTCCAGGTCTTTGGTTTGGAGTGGACGTAATAGTTCAAT
325 CCATATGTTGTTTCCTCCATAATATCTTCCAGGTCTTTGGTTTGGAGTGGACGTAATAGTTCAAT
* *
45245449 CCCAGTTTCAATGGTGAAACATATGTACTACAGAATCATCTTTATTGAACCTTATTTTCGTGATC
390 CCCAGTTTCAACGGTGAAACACATGTACTACAGAATCATCTTTATTGAACCTTATTTTCGTGATC
45245514 CATTTAATGCCATATAAGAATTACAAAGGGAAGTATAAATGTGCGTCTTTGAATTAATATTTAGA
455 CATTTAATGCCATATAAGAATTACAAAGGGAAGTATAAATGTGCGTCTTTGAATTAATATTTAGA
45245579 TTTGTAGTAATTAAAATTAATGCAAATTAAACTGAAACATTGAATGTTCTAATTAAACTAAAATA
520 TTTGTAGTAATTAAAATTAATGCAAATTAAACTGAAACATTGAATGTTCTAATTAAACTAAAATA
*
45245644 TTGAATGTTTTCTTTTATTGTAACGTATTCTAGTCCAATGTGGTTAAAACACTTCCTAAAAATGC
585 TTGAATGTTTTCTTTTATTGTAACGTATTCTAGTACAATGTGGTTAAAACACTTCCTAAAAATGC
*
45245709 CAGTTTTTTCCCTCCAAATCTTGTTCGAAATTAATTTTACGAACCAAATTTAACTAGTAACATTA
650 CAGTTTTTTCCCTCCAAATCTTGTTCAAAATTAATTTTACGAACCAAATTTAACTAGTAACATTA
*
45245774 GATTCGAGCGGTATGGCAAGCCTTAATGTTTATTCCGTACTAGTGGTTTTATTCTTAACTTGCGG
715 GATTCGAGCAGTATGGCAAGCCTTAATGTTTATTCCGTACTAGTGGTTTTATTCTTAACTTGCGG
45245839 GGCAGTAATGGCTACGAAGGAGAACAACCAGATTATTAAGGAAAATAATTGCGAAACTAAAATGG
780 GGCAGTAATGGCTACGAAGGAGAACAACCAGATTATTAAGGAAAATAATTGCGAAACTAAAATGG
45245904 ATTTGCTTTCTGTTCTAGAAGCTT
845 ATTTGCTTTCTGTTCTAGAAGCTT
45245928 TCATGAGTAT
Statistics
Matches: 846, Mismatches: 22, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
897 151 0.18
898 695 0.82
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (897 bp):
AAATTTTTTGATATATTAATTTTGAATTTCAATCATTCATTTGCCATTTTCCATTTTACAAATAT
GATAAGAGTTATAAAAACTTTTTAACAACAACAAAGTTATAAGATTTTGCGGTTCGCATAATTAT
TTCTATATTGTGCCACATCCATACACTGGCAGAGGAATCTGGAAAAGCTCATTCAATTTTGAGAT
ACACGTGAATTTTTAACCATCAACATAACAAGTACGTACACAACTTCAAAAAGTTAGAAAAATAG
GACAACACACATATCGAATATGTGTGCCTATAATTCAAGTGTACTATATCCTGTATTGCTTTTTC
CATATGTTGTTTCCTCCATAATATCTTCCAGGTCTTTGGTTTGGAGTGGACGTAATAGTTCAATC
CCAGTTTCAACGGTGAAACACATGTACTACAGAATCATCTTTATTGAACCTTATTTTCGTGATCC
ATTTAATGCCATATAAGAATTACAAAGGGAAGTATAAATGTGCGTCTTTGAATTAATATTTAGAT
TTGTAGTAATTAAAATTAATGCAAATTAAACTGAAACATTGAATGTTCTAATTAAACTAAAATAT
TGAATGTTTTCTTTTATTGTAACGTATTCTAGTACAATGTGGTTAAAACACTTCCTAAAAATGCC
AGTTTTTTCCCTCCAAATCTTGTTCAAAATTAATTTTACGAACCAAATTTAACTAGTAACATTAG
ATTCGAGCAGTATGGCAAGCCTTAATGTTTATTCCGTACTAGTGGTTTTATTCTTAACTTGCGGG
GCAGTAATGGCTACGAAGGAGAACAACCAGATTATTAAGGAAAATAATTGCGAAACTAAAATGGA
TTTGCTTTCTGTTCTAGAAGCTTCCGTTCATATTCCATTTTACAAATGGCTA
Found at i:45247771 original size:26 final size:26
Alignment explanation
Indices: 45247728--45247777 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
45247718 AATTAAAACA
*
45247728 AATTAAACTGAAACATTGAATGTTCT
1 AATTAAACTAAAACATTGAATGTTCT
*
45247754 AATTAAACTAAAATATTGAATGTT
1 AATTAAACTAAAACATTGAATGTT
45247778 TTCTTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (26 bp):
AATTAAACTAAAACATTGAATGTTCT
Found at i:45251939 original size:26 final size:26
Alignment explanation
Indices: 45251908--45251957 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
45251898 AATGAATGCA
*
45251908 AATTAAACTGAAATATTGAATGTTCT
1 AATTAAACTAAAATATTGAATGTTCT
45251934 AATTAAACTAAAATATTGAATGTT
1 AATTAAACTAAAATATTGAATGTT
45251958 TTCTTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (26 bp):
AATTAAACTAAAATATTGAATGTTCT
Found at i:45264370 original size:26 final size:26
Alignment explanation
Indices: 45264331--45264380 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
45264321 AATTAATACA
*
45264331 AATTAAACTTAAATATTGAATGTTCT
1 AATTAAACTGAAATATTGAATGTTCT
45264357 AATTAAACTGAAATATTGAATGTT
1 AATTAAACTGAAATATTGAATGTT
45264381 TTCATTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (26 bp):
AATTAAACTGAAATATTGAATGTTCT
Found at i:45268454 original size:26 final size:26
Alignment explanation
Indices: 45268423--45268472 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
45268413 AATTAATGCA
45268423 AATTAAACTGAAACATTAAATGTTCT
1 AATTAAACTGAAACATTAAATGTTCT
* *
45268449 AATTAAACTGAAATATTGAATGTT
1 AATTAAACTGAAACATTAAATGTT
45268473 TTCTTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (26 bp):
AATTAAACTGAAACATTAAATGTTCT
Found at i:45270575 original size:26 final size:26
Alignment explanation
Indices: 45270537--45270588 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
45270527 ATTAAAATTA
*
45270537 ATTCTAATTAAACTAAAATATTGAAT
1 ATTCTAATCAAACTAAAATATTGAAT
*
45270563 ATTCTAATCAAACTGAAATATTGAAT
1 ATTCTAATCAAACTAAAATATTGAAT
45270589 GTTTTCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.37
Consensus pattern (26 bp):
ATTCTAATCAAACTAAAATATTGAAT
Found at i:45272352 original size:15 final size:15
Alignment explanation
Indices: 45272332--45272407 Score: 57
Period size: 15 Copynumber: 5.1 Consensus size: 15
45272322 TTTATGGAAA
45272332 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
45272347 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
45272361 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
45272377 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
45272391 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
45272407 A
1 A
45272408 CCGAGATATT
Statistics
Matches: 43, Mismatches: 14, Indels: 7
0.67 0.22 0.11
Matches are distributed among these distances:
14 8 0.19
15 27 0.63
16 8 0.19
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.25
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:45272369 original size:30 final size:30
Alignment explanation
Indices: 45272328--45272407 Score: 133
Period size: 30 Copynumber: 2.7 Consensus size: 30
45272318 CATATTTATG
*
45272328 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
* *
45272358 GAAAGTCAAAGATATGGGTATCAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATAATA
45272388 GAAAGTCAAAGATATGGGTA
1 GAAAGTCAAAGATATGGGTA
45272408 CCGAGATATT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.47, C:0.06, G:0.23, T:0.24
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:45277041 original size:30 final size:30
Alignment explanation
Indices: 45276997--45277076 Score: 124
Period size: 30 Copynumber: 2.7 Consensus size: 30
45276987 CATATTTATG
*
45276997 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
* * *
45277027 GAAAGTCGAAGATATGGGTATCAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATAATA
45277057 GAAAGTCAAAGATATGGGTA
1 GAAAGTCAAAGATATGGGTA
45277077 CCGAGATATT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.46, C:0.06, G:0.24, T:0.24
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:45277682 original size:12 final size:12
Alignment explanation
Indices: 45277659--45277689 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
45277649 CTTATTGCTT
45277659 TTTCCATATGTTG
1 TTTCC-TATGTTG
45277672 TTTCCTATGTTG
1 TTTCCTATGTTG
45277684 TTTCCT
1 TTTCCT
45277690 CCATATTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.10, C:0.19, G:0.13, T:0.58
Consensus pattern (12 bp):
TTTCCTATGTTG
Found at i:45277908 original size:26 final size:26
Alignment explanation
Indices: 45277879--45277928 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
45277869 AACTAATGCA
45277879 AATTAAACTGAAACATTGAATGTTCT
1 AATTAAACTGAAACATTGAATGTTCT
*
45277905 AATTAAACTGAAATATTGAATGTT
1 AATTAAACTGAAACATTGAATGTT
45277929 TTCTTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (26 bp):
AATTAAACTGAAACATTGAATGTTCT
Found at i:45279985 original size:26 final size:26
Alignment explanation
Indices: 45279928--45279977 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
45279918 AATTAATGCA
*
45279928 AATTAAACTGAAACATTAAATGTTCT
1 AATTTAACTGAAACATTAAATGTTCT
* *
45279954 AATTTAACTGAAATATTGAATGTT
1 AATTTAACTGAAACATTAAATGTT
45279978 TTCTTTTAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (26 bp):
AATTTAACTGAAACATTAAATGTTCT
Found at i:45282010 original size:26 final size:26
Alignment explanation
Indices: 45281981--45282030 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
45281971 AATTAATGCA
* *
45281981 AATTAAACTGAACTATTGAATGTTCT
1 AATTAAACTGAAATATAGAATGTTCT
45282007 AATTAAACTGAAATATAGAATGTT
1 AATTAAACTGAAATATAGAATGTT
45282031 TTCTTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (26 bp):
AATTAAACTGAAATATAGAATGTTCT
Found at i:45284063 original size:26 final size:26
Alignment explanation
Indices: 45284034--45284083 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
45284024 AATTAATGCA
* *
45284034 AATTAAGCTTAAATATTGAATGTTCT
1 AATTAAACTAAAATATTGAATGTTCT
45284060 AATTAAACTAAAATATTGAATGTT
1 AATTAAACTAAAATATTGAATGTT
45284084 TTCTTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (26 bp):
AATTAAACTAAAATATTGAATGTTCT
Found at i:45287755 original size:26 final size:26
Alignment explanation
Indices: 45287718--45287767 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
45287708 AATTAATACA
45287718 AATTAAAATGAAATATTGAATGTTCT
1 AATTAAAATGAAATATTGAATGTTCT
*
45287744 AATTAAACTGAAATATTGAATGTT
1 AATTAAAATGAAATATTGAATGTT
45287768 TTCTTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.38
Consensus pattern (26 bp):
AATTAAAATGAAATATTGAATGTTCT
Found at i:45291758 original size:16 final size:16
Alignment explanation
Indices: 45291737--45291771 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
45291727 AATTAGTAAT
*
45291737 TTTTTTATATTTCTTA
1 TTTTTTATATTTCATA
*
45291753 TTTTTTATTTTTCATA
1 TTTTTTATATTTCATA
45291769 TTT
1 TTT
45291772 AATTATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTTATATTTCATA
Found at i:45291769 original size:23 final size:24
Alignment explanation
Indices: 45291737--45291782 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
45291727 AATTAGTAAT
* *
45291737 TTTTTTATATTT-CTTATTTTTTA
1 TTTTTCATATTTAATTATTTTTTA
45291760 TTTTTCATATTTAATTATTTTTT
1 TTTTTCATATTTAATTATTTTTT
45291783 GAAATCTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTTTCATATTTAATTATTTTTTA
Found at i:45291864 original size:22 final size:23
Alignment explanation
Indices: 45291838--45291929 Score: 75
Period size: 22 Copynumber: 4.0 Consensus size: 23
45291828 ATACGCATAT
45291838 TTATTTTTTTAATATA-ATGTAA
1 TTATTTTTTTAATATATATGTAA
* *
45291860 TTATTTTTTTATTTTTTATATGTAA
1 TTATTTTTTTA--ATATATATGTAA
* *
45291885 TTATTTTTTATAATCTATACGT-A
1 TTATTTTTT-TAATATATATGTAA
45291908 TATATTTATTTT--TATATATGTA
1 T-TATTT-TTTTAATATATATGTA
45291930 TGTATACATA
Statistics
Matches: 56, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
22 18 0.32
23 2 0.04
24 16 0.29
25 18 0.32
26 2 0.04
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.63
Consensus pattern (23 bp):
TTATTTTTTTAATATATATGTAA
Found at i:45293714 original size:24 final size:25
Alignment explanation
Indices: 45293670--45293716 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
45293660 TTTTCTAAGG
45293670 TCCATTGCATATCCCACTAAAAGCT
1 TCCATTGCATATCCCACTAAAAGCT
* *
45293695 TCCATT-CATATTCCAGTAAAAG
1 TCCATTGCATATCCCACTAAAAG
45293717 TGGGTCGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.34, C:0.28, G:0.09, T:0.30
Consensus pattern (25 bp):
TCCATTGCATATCCCACTAAAAGCT
Found at i:45296487 original size:26 final size:26
Alignment explanation
Indices: 45296458--45296512 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
45296448 ATTAATGCAA
45296458 ATTAAACTGAAATATTGAATGTTCTC
1 ATTAAACTGAAATATTGAATGTTCTC
*
45296484 ATTAAACTGAAATATTGAATGTTTTC
1 ATTAAACTGAAATATTGAATGTTCTC
45296510 ATT
1 ATT
45296513 TATTGTAACG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (26 bp):
ATTAAACTGAAATATTGAATGTTCTC
Found at i:45298519 original size:26 final size:26
Alignment explanation
Indices: 45298490--45298544 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
45298480 ATTAATGCAA
45298490 ATTAAACTGAAATACTGAATGTTCTC
1 ATTAAACTGAAATACTGAATGTTCTC
* *
45298516 ATTAAACTGAAATATTGAATGTTTTC
1 ATTAAACTGAAATACTGAATGTTCTC
45298542 ATT
1 ATT
45298545 TATTGTAACG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (26 bp):
ATTAAACTGAAATACTGAATGTTCTC
Found at i:45302199 original size:26 final size:26
Alignment explanation
Indices: 45302170--45302224 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
45302160 ATTAATGCAA
45302170 ATTAAACTGAAATATTGAATGTTCTC
1 ATTAAACTGAAATATTGAATGTTCTC
*
45302196 ATTAAACTGAAATATTGAATGTTTTC
1 ATTAAACTGAAATATTGAATGTTCTC
45302222 ATT
1 ATT
45302225 TATTGTAACG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (26 bp):
ATTAAACTGAAATATTGAATGTTCTC
Found at i:45304462 original size:26 final size:26
Alignment explanation
Indices: 45304433--45304482 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
45304423 AATTAATGCA
45304433 AATTAAACTGAAATATTGAATGTTAT
1 AATTAAACTGAAATATTGAATGTTAT
45304459 AATTAAACTGAAATATTGAATGTT
1 AATTAAACTGAAATATTGAATGTT
45304483 TTCTTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.38
Consensus pattern (26 bp):
AATTAAACTGAAATATTGAATGTTAT
Found at i:45307448 original size:35 final size:35
Alignment explanation
Indices: 45307402--45307472 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
45307392 TGGAATTGAA
45307402 ACAATCTCGATTCCTTGAAAGTCTTTATACAATAT
1 ACAATCTCGATTCCTTGAAAGTCTTTATACAATAT
45307437 ACAATCTCGATTCCTTGAAAGTCTTTATACAATAT
1 ACAATCTCGATTCCTTGAAAGTCTTTATACAATAT
45307472 A
1 A
45307473 AATTCGCATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (35 bp):
ACAATCTCGATTCCTTGAAAGTCTTTATACAATAT
Found at i:45310770 original size:26 final size:26
Alignment explanation
Indices: 45310741--45310790 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
45310731 AATTAATGCA
45310741 AATTAAACTGAAATATTGAATGTTCT
1 AATTAAACTGAAATATTGAATGTTCT
45310767 AATTAAACTGAAATATTGAATGTT
1 AATTAAACTGAAATATTGAATGTT
45310791 TTCTTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (26 bp):
AATTAAACTGAAATATTGAATGTTCT
Found at i:45314350 original size:15 final size:15
Alignment explanation
Indices: 45314330--45314405 Score: 57
Period size: 15 Copynumber: 5.1 Consensus size: 15
45314320 TTTATGGAAA
45314330 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
45314345 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
45314359 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
45314375 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
45314389 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
45314405 A
1 A
45314406 CCGAGATATT
Statistics
Matches: 43, Mismatches: 14, Indels: 7
0.67 0.22 0.11
Matches are distributed among these distances:
14 8 0.19
15 27 0.63
16 8 0.19
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.25
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:45314367 original size:30 final size:30
Alignment explanation
Indices: 45314326--45314405 Score: 133
Period size: 30 Copynumber: 2.7 Consensus size: 30
45314316 CATATTTATG
*
45314326 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
* *
45314356 GAAAGTCAAAGATATGGGTATCAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATAATA
45314386 GAAAGTCAAAGATATGGGTA
1 GAAAGTCAAAGATATGGGTA
45314406 CCGAGATATT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.47, C:0.06, G:0.23, T:0.24
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:45314777 original size:22 final size:22
Alignment explanation
Indices: 45314749--45314901 Score: 225
Period size: 22 Copynumber: 7.0 Consensus size: 22
45314739 TTTATTGTTC
*
45314749 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTT
45314771 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
**
45314793 AGCCATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
** * * *
45314815 AGCCATGAGGGTTTAGTTCGTT
1 AAACATGAGAGCTTAGTACGTT
45314837 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
*
45314859 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTT
45314881 AAACATGAGAGCTTAGTACGT
1 AAACATGAGAGCTTAGTACGT
45314902 ACTATCAACA
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 119 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTT
Found at i:45322919 original size:15 final size:15
Alignment explanation
Indices: 45322899--45322974 Score: 57
Period size: 15 Copynumber: 5.1 Consensus size: 15
45322889 TTTATGGAAA
45322899 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
45322914 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
45322928 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
45322944 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
45322958 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
45322974 A
1 A
45322975 CCGAGATATT
Statistics
Matches: 43, Mismatches: 14, Indels: 7
0.67 0.22 0.11
Matches are distributed among these distances:
14 8 0.19
15 27 0.63
16 8 0.19
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.25
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:45322936 original size:30 final size:30
Alignment explanation
Indices: 45322895--45322974 Score: 133
Period size: 30 Copynumber: 2.7 Consensus size: 30
45322885 CATATTTATG
*
45322895 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
* *
45322925 GAAAGTCAAAGATATGGGTATCAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATAATA
45322955 GAAAGTCAAAGATATGGGTA
1 GAAAGTCAAAGATATGGGTA
45322975 CCGAGATATT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.47, C:0.06, G:0.23, T:0.24
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:45332972 original size:23 final size:23
Alignment explanation
Indices: 45332929--45332974 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
45332919 ATAAATATAT
*
45332929 AAATATACATATTTTAATATGTA
1 AAATATACATATTATAATATGTA
*
45332952 AAATATATATA-TATAAGTATGTA
1 AAATATACATATTATAA-TATGTA
45332975 TATAAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (23 bp):
AAATATACATATTATAATATGTA
Found at i:45333630 original size:21 final size:21
Alignment explanation
Indices: 45333604--45333658 Score: 96
Period size: 19 Copynumber: 2.7 Consensus size: 21
45333594 AATCATATCT
45333604 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
45333625 TCTAAGATTGC--ATATCATA
1 TCTAAGATTGCATATATCATA
45333644 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
45333659 CCTTGAAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 19 0.59
21 13 0.41
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:45335196 original size:3 final size:3
Alignment explanation
Indices: 45335188--45335227 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
45335178 ATAAAGAAGG
45335188 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
45335228 GGATTAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:45335272 original size:5 final size:6
Alignment explanation
Indices: 45335253--45335310 Score: 53
Period size: 6 Copynumber: 9.2 Consensus size: 6
45335243 TTTGGAATTC
* * *
45335253 AAATAA AAATAA AAATAA AACATTAC AAATAG AAATAA AAAGGAA AAATAA
1 AAATAA AAATAA AAATAA AA-A-TAA AAATAA AAATAA AAA-TAA AAATAA
*
45335304 AGATAA A
1 AAATAA A
45335311 CTAAATTGGT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
6 32 0.74
7 7 0.16
8 4 0.09
ACGTcount: A:0.74, C:0.03, G:0.07, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:45341594 original size:33 final size:33
Alignment explanation
Indices: 45341557--45341634 Score: 104
Period size: 33 Copynumber: 2.4 Consensus size: 33
45341547 TAGTTTGTTG
45341557 GGACAATAAACACAAAACAAAGATAGTCCT-CCA
1 GGACAATAAACACAAAACAAAGATAGT-CTGCCA
* * * *
45341590 GGACAGTAAACACGAAACAGAGATAGTCTGTCA
1 GGACAATAAACACAAAACAAAGATAGTCTGCCA
45341623 GGACAATAAACA
1 GGACAATAAACA
45341635 TGAGGTAAGT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
32 2 0.05
33 37 0.95
ACGTcount: A:0.49, C:0.21, G:0.18, T:0.13
Consensus pattern (33 bp):
GGACAATAAACACAAAACAAAGATAGTCTGCCA
Found at i:45351067 original size:27 final size:27
Alignment explanation
Indices: 45351035--45351090 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
45351025 AAAGGTTGTT
*
45351035 AAATGATCGTAATACCCCTATAAGGTA
1 AAATGATCGTAATACCCCTAGAAGGTA
* *
45351062 AAATGATCGTAATGCCCCTAGAGGGTA
1 AAATGATCGTAATACCCCTAGAAGGTA
45351089 AA
1 AA
45351091 TGACTATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (27 bp):
AAATGATCGTAATACCCCTAGAAGGTA
Found at i:45351103 original size:26 final size:27
Alignment explanation
Indices: 45351074--45351126 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 27
45351064 ATGATCGTAA
45351074 TGCCCCTAGAGGGTAAATGACT-ATTT
1 TGCCCCTAGAGGGTAAATGACTGATTT
*
45351100 TGCCCCTCGAGGGTAAATGACTGATTT
1 TGCCCCTAGAGGGTAAATGACTGATTT
45351127 GTGCTATGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (27 bp):
TGCCCCTAGAGGGTAAATGACTGATTT
Found at i:45355752 original size:26 final size:26
Alignment explanation
Indices: 45355698--45355752 Score: 60
Period size: 26 Copynumber: 2.1 Consensus size: 26
45355688 AAAATTCATA
* *
45355698 TAAGAAATTTTATTACTTATAATTAT
1 TAAGAAATTTTATTAATCATAATTAT
45355724 TAAG-AATTTTATTAAATCATATATT-T
1 TAAGAAATTTTATT-AATCATA-ATTAT
45355750 TAA
1 TAA
45355753 TTAAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
25 9 0.36
26 13 0.52
27 3 0.12
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.49
Consensus pattern (26 bp):
TAAGAAATTTTATTAATCATAATTAT
Found at i:45355854 original size:120 final size:120
Alignment explanation
Indices: 45355717--45356265 Score: 940
Period size: 120 Copynumber: 4.6 Consensus size: 120
45355707 TTATTACTTA
* *
45355717 TAATTATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTA
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTA
* *
45355782 AATTATCTTTTATAGTAT-ATGATATTATGATTTGAGTAAATTCATATAAGAATAT
66 AATTATATTTTATAGTATCAT-ATATTATGATTTCAGTAAATTCATATAAGAATAT
45355837 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTA
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTA
45355902 AATTATATTTTATAGTATCATATATTATGATTTCAGTAAATTCATATAAGAATAT
66 AATTATATTTTATAGTATCATATATTATGATTTCAGTAAATTCATATAAGAATAT
*
45355957 TAATTATTAAAAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTA
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTA
*
45356022 AATTATATTTTATAGTATCATATATTATGATTTCAGTAAATTCACATAAGAATAT
66 AATTATATTTTATAGTATCATATATTATGATTTCAGTAAATTCATATAAGAATAT
* * * *
45356077 TGATTATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTC
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-
* *
45356141 AAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATAT
65 AAATTATATTTTATAGTATCATATATTATGATTTCAGTAAATTCATATAAGAATAT
*
45356197 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATTATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TT
45356262 AAAT
65 AAAT
45356266 ATGATTAAAT
Statistics
Matches: 406, Mismatches: 19, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
119 2 0.00
120 396 0.98
121 6 0.01
122 2 0.00
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTA
AATTATATTTTATAGTATCATATATTATGATTTCAGTAAATTCATATAAGAATAT
Found at i:45355867 original size:66 final size:63
Alignment explanation
Indices: 45355797--45356227 Score: 253
Period size: 66 Copynumber: 7.1 Consensus size: 63
45355787 TCTTTTATAG
45355797 TATATGATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 TATAT-ATATTATGATTT-AGTAAATTCATATAAGAATATTAATTATTAA-AATTTTATTAAATT
45355862 A
63 A
** * * * **
45355863 TATAT-T-TTA--A-TTA-T-AA-T-ATAT-TTAATAATAATTATGTTAAATTATATTTTA-TA
1 TATATATATTATGATTTAGTAAATTCATATAAGAATATTAATTAT-TAAAATTTTATTAAATTA
45355916 GTATCATATATTATGATTTCAGTAAATTCATATAAGAATATTAATTATTAAAAATTTTATTAAAT
1 -TAT-ATATATTATGATTT-AGTAAATTCATATAAGAATATTAATTATT-AAAATTTTATTAAAT
45355981 TA
62 TA
** * * * **
45355983 TATAT-T-TTA--A-TTA-T-AA-T-ATAT-TTAATAATAATTATGTTAAATTATATTTTA-TA
1 TATATATATTATGATTTAGTAAATTCATATAAGAATATTAATTAT-TAAAATTTTATTAAATTA
* *
45356036 GTATCATATATTATGATTTCAGTAAATTCACATAAGAATATTGATTATTAAGAATTTTATTAAAT
1 -TAT-ATATATTATGATTT-AGTAAATTCATATAAGAATATTAATTATTAA-AATTTTATTAAAT
*
45356101 CA
62 TA
** * * * *
45356103 TATAT-T-TTA--A-TTA--AAA-T-ATAT-TTAATATTAATTATTTCAAATTATCTTTTATAGT
1 TATATATATTATGATTTAGTAAATTCATATAAGAATATTAATTA-TTAAAATT-T-TATTAAATT
45356158 A
63 A
*
45356159 T-CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 TATATATATTATGATTT-AGTAAATTCATATAAGAATATTAATTATTAA-AATTTTATTAAATTA
45356223 TATAT
1 TATAT
45356228 TTTAATTATA
Statistics
Matches: 269, Mismatches: 48, Indels: 97
0.65 0.12 0.23
Matches are distributed among these distances:
53 4 0.01
54 61 0.23
55 24 0.09
56 13 0.05
57 16 0.06
58 2 0.01
59 6 0.02
60 12 0.04
61 6 0.02
62 2 0.01
63 16 0.06
64 14 0.05
65 24 0.09
66 66 0.25
67 3 0.01
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (63 bp):
TATATATATTATGATTTAGTAAATTCATATAAGAATATTAATTATTAAAATTTTATTAAATTA
Found at i:45355883 original size:16 final size:16
Alignment explanation
Indices: 45355862--45355908 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
45355852 TTATTAAATT
45355862 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
45355878 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
45355893 AT-TATGTTAAATTATA
1 ATATAT-TTTAATTATA
45355909 TTTTATAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.42
16 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:45356003 original size:16 final size:16
Alignment explanation
Indices: 45355982--45356028 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
45355972 TTATTAAATT
45355982 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
45355998 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
45356013 AT-TATGTTAAATTATA
1 ATATAT-TTTAATTATA
45356029 TTTTATAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.42
16 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:45356488 original size:45 final size:44
Alignment explanation
Indices: 45356408--45356498 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 44
45356398 ACCTCTATTC
45356408 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
* *
45356452 CATTCAACCAAACA-ATTGATTTGCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACA-AGA-TTACTATTACGCCTCTATTCCATTA
45356497 CA
1 CA
45356499 CCTCTATTTC
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 16 0.37
45 26 0.60
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
Found at i:45356502 original size:16 final size:16
Alignment explanation
Indices: 45356477--45356541 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
45356467 TTGATTTGCT
45356477 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
* *
45356493 ATTACACCTCTATTTC
1 ATTACGCCTCTATTCC
*
45356509 ATTACGCCTCTATTTC
1 ATTACGCCTCTATTCC
45356525 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
45356541 A
1 A
45356542 ATACAGCGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.22, C:0.34, G:0.05, T:0.40
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:45360736 original size:21 final size:22
Alignment explanation
Indices: 45360712--45360754 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
45360702 TAAATTTGTA
*
45360712 AAAACTCATTATA-AAATAATT
1 AAAACTCAATATATAAATAATT
* *
45360733 AAAATTCAATATATTAATAATT
1 AAAACTCAATATATAAATAATT
45360755 TAAGTGAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (22 bp):
AAAACTCAATATATAAATAATT
Found at i:45363576 original size:13 final size:13
Alignment explanation
Indices: 45363560--45363635 Score: 84
Period size: 13 Copynumber: 5.8 Consensus size: 13
45363550 ATTCATTTAA
*
45363560 CATTTCATATGTC
1 CATTTCATATATC
*
45363573 CATTTCA-AGTAAC
1 CATTTCATA-TATC
45363586 CATTTCATATATC
1 CATTTCATATATC
*
45363599 TATTTCGATATAAT-
1 CATTTC-ATAT-ATC
45363613 CATTTCATATATC
1 CATTTCATATATC
45363626 CATTTCATAT
1 CATTTCATAT
45363636 CACCATTTTC
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
12 3 0.06
13 38 0.72
14 10 0.19
15 2 0.04
ACGTcount: A:0.32, C:0.20, G:0.04, T:0.45
Consensus pattern (13 bp):
CATTTCATATATC
Found at i:45368768 original size:33 final size:33
Alignment explanation
Indices: 45368731--45368795 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
45368721 AAGTTTAAGT
*
45368731 GGTGAGTCAAGTCACTAATAAGAAATGATATTG
1 GGTGAGTCAAGTCACTAATAAGAAAGGATATTG
45368764 GGTGAGTCAAGTCACTAATAAGAAAGGATATT
1 GGTGAGTCAAGTCACTAATAAGAAAGGATATT
45368796 AGGTTTTGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.40, C:0.09, G:0.25, T:0.26
Consensus pattern (33 bp):
GGTGAGTCAAGTCACTAATAAGAAAGGATATTG
Found at i:45371346 original size:20 final size:18
Alignment explanation
Indices: 45371309--45371348 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
45371299 CAAACAAACA
*
45371309 TATTTTTTTTTGTGTACT
1 TATTTTTTTTTGTATACT
45371327 TATTTTTTCTTTGGTATACT
1 TATTTTTT-TTT-GTATACT
45371347 TA
1 TA
45371349 ACACACTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 3 0.16
20 8 0.42
ACGTcount: A:0.15, C:0.07, G:0.10, T:0.68
Consensus pattern (18 bp):
TATTTTTTTTTGTATACT
Found at i:45380192 original size:81 final size:81
Alignment explanation
Indices: 45380057--45380219 Score: 281
Period size: 81 Copynumber: 2.0 Consensus size: 81
45380047 TTTCTTAAAC
* * *
45380057 TCTTTTCTTTTATTATATGTCTACCATGTGTTTAATAAAATGTTTGATTGAAATTAAAGTTTGAT
1 TCTTTACTTTTATTATATGCCTACCATGTGTTTAATAAAATGCTTGATTGAAATTAAAGTTTGAT
*
45380122 TATGTGCTAAATTGGT
66 TATGTGCTAAAGTGGT
*
45380138 TCTTTACTTTTATTATATGCCTACCATGTGTTTAATAAAATGCTTGTTTGAAATTAAAGTTTGAT
1 TCTTTACTTTTATTATATGCCTACCATGTGTTTAATAAAATGCTTGATTGAAATTAAAGTTTGAT
45380203 TATGTGCTAAAGTGGT
66 TATGTGCTAAAGTGGT
45380219 T
1 T
45380220 GTTGGTTGAT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.48
Consensus pattern (81 bp):
TCTTTACTTTTATTATATGCCTACCATGTGTTTAATAAAATGCTTGATTGAAATTAAAGTTTGAT
TATGTGCTAAAGTGGT
Found at i:45380994 original size:370 final size:370
Alignment explanation
Indices: 45380294--45381028 Score: 1177
Period size: 370 Copynumber: 2.0 Consensus size: 370
45380284 TTATTATATT
* * * *
45380294 GAATTGCTTAATAGCTAGAATTGATGCCTCTAGTAGACAATCTAGATTAACAAGACAGAGAGGAG
1 GAATTGCTTAATAGCTAGAATTGATGCCTCTAGTAGAAAATCTAGATAAAAAAGACAAAGAGGAG
* *
45380359 AGTTTATCCTTAATAGTTCGATATAATTGTACCAAGTAGTGAGATTGAGAGAAGAACTACTTGTC
66 AGTTTATCCTTAATAGTTAGACATAATTGTACCAAGTAGTGAGATTGAGAGAAGAACTACTTGTC
* * * * * *
45380424 AAAGTGAGATTGAGAGAATAACTTAGGCTGTAATTTCAAATTAGGATGAGACTGAGAGGAGATTC
131 AAAGTGAGACTGAGAGAAAAACTTAGGCTGCAATTCCAAATTAGGATGAGACTAAGACGAGATTC
* * *
45380489 TAGTGAGGAGTGACAAGTGATCTAATCGGTATAGGTTATTGGCTTAGTTAGTAATCGACTAATCA
196 TAGTGAGGAGTGACAAGCGATCTAATCGGGATAGGTTATTGGCTTAATTAGTAATCGACTAATCA
* * * *
45380554 ATCAACCATCATTTTTATCATTTTCATAGTCGAATGCAATAGGAAGAAATCTTAGTTTAGGTAGT
261 ATCAACCATCATTTTTATCATTTGCATAGTCGAATACAACAGGAAGAAATCTTAATTTAGGTAGT
45380619 TTAATTGATAATTTAGAATTAGTCTCATT-TATTTTCATACGCTA
326 TTAATTGATAATTTAGAATTAGTCTCATTATATTTTCATACGCTA
*
45380663 GAATTGCTTAATACGCTAGAATTGATGCCTCTAGTGGAAAATCTAGATAAAAAAGACAAAGAGGA
1 GAATTGCTTAATA-GCTAGAATTGATGCCTCTAGTAGAAAATCTAGATAAAAAAGACAAAGAGGA
***
45380728 GAGTTTATCCTTAATAGTTAGACATAATTGTATTGAGTAGTGAGATTGAGAGAAGAACTACTTGT
65 GAGTTTATCCTTAATAGTTAGACATAATTGTACCAAGTAGTGAGATTGAGAGAAGAACTACTTGT
* * *
45380793 CTAAGTGAGACTGAGAGAAAAACTTA-GTTGGCAATTCCGAATTAGGATGAGACTAAGACGAGAT
130 CAAAGTGAGACTGAGAGAAAAACTTAGGCT-GCAATTCCAAATTAGGATGAGACTAAGACGAGAT
* *
45380857 TCTAGTGAGGAGTGGCAAGCGATCTAATCGGGATAGGTTATTGGCTTAATTAGTAATTGACTAAT
194 TCTAGTGAGGAGTGACAAGCGATCTAATCGGGATAGGTTATTGGCTTAATTAGTAATCGACTAAT
45380922 CAATCAACCATCATTTTTATCATTTGCATAGTCGAATACAACAGGAAGAAATCTTAATTTAGGTA
259 CAATCAACCATCATTTTTATCATTTGCATAGTCGAATACAACAGGAAGAAATCTTAATTTAGGTA
*
45380987 TTTTAATTGATAATTTAGAATTAGTCTCATTATATTTTCATA
324 GTTTAATTGATAATTTAGAATTAGTCTCATTATATTTTCATA
45381029 TCTAGTTTGC
Statistics
Matches: 334, Mismatches: 29, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
369 15 0.04
370 309 0.93
371 10 0.03
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.32
Consensus pattern (370 bp):
GAATTGCTTAATAGCTAGAATTGATGCCTCTAGTAGAAAATCTAGATAAAAAAGACAAAGAGGAG
AGTTTATCCTTAATAGTTAGACATAATTGTACCAAGTAGTGAGATTGAGAGAAGAACTACTTGTC
AAAGTGAGACTGAGAGAAAAACTTAGGCTGCAATTCCAAATTAGGATGAGACTAAGACGAGATTC
TAGTGAGGAGTGACAAGCGATCTAATCGGGATAGGTTATTGGCTTAATTAGTAATCGACTAATCA
ATCAACCATCATTTTTATCATTTGCATAGTCGAATACAACAGGAAGAAATCTTAATTTAGGTAGT
TTAATTGATAATTTAGAATTAGTCTCATTATATTTTCATACGCTA
Found at i:45382983 original size:12 final size:12
Alignment explanation
Indices: 45382966--45382993 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
45382956 ACCTGTAATC
45382966 AAAATTAATCCA
1 AAAATTAATCCA
45382978 AAAATTAATCCA
1 AAAATTAATCCA
45382990 AAAA
1 AAAA
45382994 CCAAAAGCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.64, C:0.14, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAATTAATCCA
Found at i:45383880 original size:14 final size:13
Alignment explanation
Indices: 45383861--45383904 Score: 61
Period size: 14 Copynumber: 3.2 Consensus size: 13
45383851 AGGATTAATA
45383861 TATTATAACATTGT
1 TATTATAACA-TGT
45383875 TATTATAACACTGT
1 TATTATAACA-TGT
*
45383889 TATTATAGCATGT
1 TATTATAACATGT
45383902 TAT
1 TAT
45383905 GAAACAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
13 6 0.21
14 22 0.79
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.48
Consensus pattern (13 bp):
TATTATAACATGT
Found at i:45386745 original size:35 final size:35
Alignment explanation
Indices: 45386706--45386800 Score: 109
Period size: 35 Copynumber: 2.7 Consensus size: 35
45386696 GTTTTCACGG
45386706 TGTCACCCCGAAGGACCTATATACCATTTATACGA
1 TGTCACCCCGAAGGACCTATATACCATTTATACGA
* * * * *
45386741 TGTCACCCTGAATGACCTATATATCATTTATATGG
1 TGTCACCCCGAAGGACCTATATACCATTTATACGA
** * *
45386776 TGTTGCCCCAAAGGACCAATATACC
1 TGTCACCCCGAAGGACCTATATACC
45386801 GTTGTCATAG
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 48 1.00
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (35 bp):
TGTCACCCCGAAGGACCTATATACCATTTATACGA
Found at i:45390905 original size:18 final size:18
Alignment explanation
Indices: 45390865--45390920 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
45390855 TTTCGCGATA
*
45390865 AATAACGTTTTGAAAATT
1 AATAACGTTTTGAAAATG
*
45390883 TATAACGTTTTG-AAATAG
1 AATAACGTTTTGAAAAT-G
* *
45390901 AATAAC-TTATGAATATG
1 AATAACGTTTTGAAAATG
45390918 AAT
1 AAT
45390921 CAAATTTGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
17 12 0.39
18 19 0.61
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (18 bp):
AATAACGTTTTGAAAATG
Found at i:45390934 original size:16 final size:16
Alignment explanation
Indices: 45390891--45390937 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
45390881 TTTATAACGT
*
45390891 TTTGAAATAGAAT-AAC
1 TTTGAAAT-GAATCAAA
45390907 TTATGAATATGAATCAAA
1 TT-TGAA-ATGAATCAAA
45390925 TTTGAAATGAATC
1 TTTGAAATGAATC
45390938 GGCACGTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 9 0.33
17 12 0.44
18 6 0.22
ACGTcount: A:0.47, C:0.06, G:0.13, T:0.34
Consensus pattern (16 bp):
TTTGAAATGAATCAAA
Found at i:45397711 original size:18 final size:18
Alignment explanation
Indices: 45397671--45397726 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
45397661 TTTCGCGATA
*
45397671 AATAACGTTTTGAAAATT
1 AATAACGTTTTGAAAATG
*
45397689 TATAACGTTTTGAAAGA-G
1 AATAACGTTTTGAAA-ATG
* *
45397707 AATAAC-TTATGAATATG
1 AATAACGTTTTGAAAATG
45397724 AAT
1 AAT
45397727 CACATTTGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
16 1 0.03
17 10 0.32
18 19 0.61
19 1 0.03
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (18 bp):
AATAACGTTTTGAAAATG
Found at i:45398239 original size:14 final size:13
Alignment explanation
Indices: 45398220--45398258 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
45398210 TTGATTGCCA
45398220 GTAAAATGTCTTCT
1 GTAAAATGT-TTCT
45398234 GTAAAATGATTTCT
1 GTAAAATG-TTTCT
*
45398248 GGAAAATGTTT
1 GTAAAATGTTT
45398259 TACTTTTCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 3 0.13
14 19 0.83
15 1 0.04
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (13 bp):
GTAAAATGTTTCT
Found at i:45398268 original size:20 final size:20
Alignment explanation
Indices: 45398243--45398282 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
45398233 TGTAAAATGA
*
45398243 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
45398263 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
45398283 GGAAAATATT
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:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:45398298 original size:14 final size:15
Alignment explanation
Indices: 45398230--45398298 Score: 52
Period size: 14 Copynumber: 4.4 Consensus size: 15
45398220 GTAAAATGTC
*
45398230 TTCTGTAAAATGA-T
1 TTCTGGAAAATGATT
45398244 TTCTGGAAAATGTTTTACTT
1 TTCTGGAAAATG----A-TT
*
45398264 TTCTGTAAAATGATT
1 TTCTGGAAAATGATT
*
45398279 TACTGGAAAAT-ATT
1 TTCTGGAAAATGATT
45398293 TTCTGG
1 TTCTGG
45398299 TGTTTGATTG
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
14 19 0.43
15 11 0.25
16 1 0.02
18 1 0.02
20 12 0.27
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (15 bp):
TTCTGGAAAATGATT
Found at i:45398477 original size:22 final size:24
Alignment explanation
Indices: 45398452--45398502 Score: 56
Period size: 26 Copynumber: 2.2 Consensus size: 24
45398442 TTATTTATAA
45398452 ATAAATAA-A-TCAA-ATT-AAAT
1 ATAAATAATACTCAATATTAAAAT
45398472 ATATAATAATACTCAATTATTAAAAT
1 ATA-AATAATACTCAA-TATTAAAAT
45398498 ATAAA
1 ATAAA
45398503 AGCATTGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
20 3 0.12
21 5 0.20
22 1 0.04
23 4 0.16
25 5 0.20
26 7 0.28
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (24 bp):
ATAAATAATACTCAATATTAAAAT
Found at i:45401545 original size:6 final size:6
Alignment explanation
Indices: 45401494--45401543 Score: 82
Period size: 6 Copynumber: 8.3 Consensus size: 6
45401484 CAGGTGTCAA
* *
45401494 GGGAAG GGGAAG GGGAAG GGGAAG GGGAAG GGGAAG GGAAAG GGAAAG
1 GGGAAG GGGAAG GGGAAG GGGAAG GGGAAG GGGAAG GGGAAG GGGAAG
45401542 GG
1 GG
45401544 AAGATCGGTG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (6 bp):
GGGAAG
Found at i:45417876 original size:32 final size:32
Alignment explanation
Indices: 45417837--45417897 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
45417827 TTTCTGGTTG
* *
45417837 TGTGGGATGGATGAATTTATGTGCAATTTGGT
1 TGTGGGATAGATGAACTTATGTGCAATTTGGT
* *
45417869 TGTGGGATAGATGCACTTGTGTGCAATTT
1 TGTGGGATAGATGAACTTATGTGCAATTT
45417898 TCTTGTATTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.21, C:0.07, G:0.33, T:0.39
Consensus pattern (32 bp):
TGTGGGATAGATGAACTTATGTGCAATTTGGT
Found at i:45418107 original size:20 final size:21
Alignment explanation
Indices: 45418075--45418114 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
45418065 ATTAAGATTC
45418075 AACTATAAACCATACAATTTT
1 AACTATAAACCATACAATTTT
*
45418096 AACTAT-AACCATACGATTT
1 AACTATAAACCATACAATTT
45418115 AATTGGAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.33
Consensus pattern (21 bp):
AACTATAAACCATACAATTTT
Found at i:45421736 original size:6 final size:6
Alignment explanation
Indices: 45421727--45421768 Score: 75
Period size: 6 Copynumber: 7.0 Consensus size: 6
45421717 GGTTATCTCC
*
45421727 AAAATG AAAATG AAAATG AAAATG AAAATG GAAATG AAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
45421769 GAGAAATGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.64, C:0.00, G:0.19, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:45425498 original size:43 final size:43
Alignment explanation
Indices: 45425444--45425570 Score: 154
Period size: 43 Copynumber: 3.0 Consensus size: 43
45425434 CATAGGATTT
45425444 TCGATATGTGTTATCGTGTAAGACCACGTCTGGGACATTGGCA
1 TCGATATGTGTTATCGTGTAAGACCACGTCTGGGACATTGGCA
*
45425487 TCGACT-TGTGTT-TACGTGTAAGACC-CTGTCTGGGACAGTGGCA
1 TCGA-TATGTGTTAT-CGTGTAAGACCAC-GTCTGGGACATTGGCA
* * *
45425530 TCGATATGTGATTA-CATGTAAGACCACGTCTAGGACGTTGG
1 TCGATATGTG-TTATCGTGTAAGACCACGTCTGGGACATTGG
45425571 TATTGTACGA
Statistics
Matches: 72, Mismatches: 5, Indels: 14
0.79 0.05 0.15
Matches are distributed among these distances:
42 3 0.04
43 65 0.90
44 4 0.06
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (43 bp):
TCGATATGTGTTATCGTGTAAGACCACGTCTGGGACATTGGCA
Found at i:45426437 original size:23 final size:23
Alignment explanation
Indices: 45426410--45426574 Score: 168
Period size: 23 Copynumber: 7.0 Consensus size: 23
45426400 ATGAGTTGAA
*
45426410 CCAATTTGTTACATATATGCTGT
1 CCAATTTGTTGCATATATGCTGT
* * * *
45426433 CCAATTTTGATGCTTAAATGCTGC
1 CCAA-TTTGTTGCATATATGCTGT
*
45426457 CCAATTTGTTACATATATGCTGT
1 CCAATTTGTTGCATATATGCTGT
* * * *
45426480 CCAATTTTGATGCTTAAATGCTGC
1 CCAA-TTTGTTGCATATATGCTGT
*
45426504 CCAATTTGTTACATATATGCTGT
1 CCAATTTGTTGCATATATGCTGT
* * * *
45426527 CCAATTTTGATGCTTAAATGCTGC
1 CCAA-TTTGTTGCATATATGCTGT
45426551 CCAATTTGTTGCATATATGCTGT
1 CCAATTTGTTGCATATATGCTGT
45426574 C
1 C
45426575 TAGTTTTGGT
Statistics
Matches: 110, Mismatches: 29, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
23 56 0.51
24 54 0.49
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.41
Consensus pattern (23 bp):
CCAATTTGTTGCATATATGCTGT
Found at i:45426593 original size:47 final size:47
Alignment explanation
Indices: 45426410--45426574 Score: 321
Period size: 47 Copynumber: 3.5 Consensus size: 47
45426400 ATGAGTTGAA
45426410 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGC
1 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGC
45426457 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGC
1 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGC
45426504 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGC
1 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGC
*
45426551 CCAATTTGTTGCATATATGCTGTC
1 CCAATTTGTTACATATATGCTGTC
45426575 TAGTTTTGGT
Statistics
Matches: 117, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 117 1.00
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.41
Consensus pattern (47 bp):
CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGC
Found at i:45426614 original size:94 final size:94
Alignment explanation
Indices: 45426418--45426626 Score: 276
Period size: 94 Copynumber: 2.2 Consensus size: 94
45426408 AACCAATTTG
45426418 TTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATATATGCTGTCCA
1 TTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATATATGCTGTCCA
* ** *
45426483 ATTTTGATGCTTAAATGCTGCCCAATTTG
66 ATTTTGATGCTAAAATGCTGCCCAAACTA
* *
45426512 TTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTGCATATATGCTGTCTA
1 TTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATATATGCTGTCCA
* * * *
45426577 GTTTTGGTG-TAAAAATGTTGCTCAAACTA
66 ATTTTGATGCT-AAAATGCTGCCCAAACTA
* *
45426606 TTGTATATATATGCTGCCCAA
1 -T-TACATATATGCTGTCCAA
45426627 ATTGATGTAT
Statistics
Matches: 100, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
93 1 0.01
94 82 0.82
95 1 0.01
96 16 0.16
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (94 bp):
TTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATATATGCTGTCCA
ATTTTGATGCTAAAATGCTGCCCAAACTA
Found at i:45426950 original size:2 final size:2
Alignment explanation
Indices: 45426943--45426981 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
45426933 AAGAAAATGT
45426943 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
45426982 TCGAATGTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:45429387 original size:16 final size:16
Alignment explanation
Indices: 45429368--45429399 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
45429358 CCAATTACAA
45429368 CCAAAACTAAACTAAG
1 CCAAAACTAAACTAAG
45429384 CCAAAACTAAACTAAG
1 CCAAAACTAAACTAAG
45429400 TCCCGGAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.25, G:0.06, T:0.12
Consensus pattern (16 bp):
CCAAAACTAAACTAAG
Found at i:45429850 original size:11 final size:11
Alignment explanation
Indices: 45429832--45429863 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
45429822 ATATTTTGAA
45429832 GCTGTTGATTT
1 GCTGTTGATTT
*
45429843 GTTGTTGATTT
1 GCTGTTGATTT
45429854 GCTGTTGATT
1 GCTGTTGATT
45429864 AAGAGTTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.09, C:0.06, G:0.28, T:0.56
Consensus pattern (11 bp):
GCTGTTGATTT
Found at i:45432487 original size:13 final size:13
Alignment explanation
Indices: 45432469--45432504 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
45432459 ACTCAAATTT
45432469 CTCAAAAGCACTA
1 CTCAAAAGCACTA
*
45432482 CTCAAAAGCACTT
1 CTCAAAAGCACTA
45432495 CTCAAAAGCA
1 CTCAAAAGCA
45432505 ATAAAGAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.44, C:0.31, G:0.08, T:0.17
Consensus pattern (13 bp):
CTCAAAAGCACTA
Found at i:45438522 original size:8 final size:8
Alignment explanation
Indices: 45438509--45438538 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
45438499 CTTTGGGGTG
45438509 AATTTTGT
1 AATTTTGT
45438517 AATTTTGT
1 AATTTTGT
45438525 AATTTTGT
1 AATTTTGT
45438533 AATTTT
1 AATTTT
45438539 TTTTATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (8 bp):
AATTTTGT
Found at i:45448147 original size:2 final size:2
Alignment explanation
Indices: 45448140--45448165 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
45448130 TCTATCTATC
45448140 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
45448166 AAGTAGAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:45448180 original size:2 final size:2
Alignment explanation
Indices: 45448170--45448211 Score: 75
Period size: 2 Copynumber: 20.5 Consensus size: 2
45448160 TATATAAAGT
45448170 AG AG TAG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG -AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
45448212 TTAGACTCCT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 37 0.95
3 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.48, T:0.02
Consensus pattern (2 bp):
AG
Found at i:45453396 original size:49 final size:50
Alignment explanation
Indices: 45453290--45453430 Score: 164
Period size: 49 Copynumber: 2.9 Consensus size: 50
45453280 ATATCTGAAT
* ** *
45453290 ATGATGGGCCACTGGTAGGACATGTTAGTTGCTAACTAGATTGGTGTATG
1 ATGATGGGCCACTGGTAGGACATGTTAGTTGCTAACAAGATTGGTCAAAG
* * * *
45453340 -TGTTGGGCCACTAGTAGGGCATGCTAGTTGCTAACCAAG-TTGG-CAAAG
1 ATGATGGGCCACTGGTAGGACATGTTAGTTGCTAA-CAAGATTGGTCAAAG
45453388 ATGATGGGCCACTGGTAGGACATGTTAGTTGCTAATCAA-ATTG
1 ATGATGGGCCACTGGTAGGACATGTTAGTTGCTAA-CAAGATTG
45453431 ACGTATGTGC
Statistics
Matches: 75, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
48 2 0.03
49 70 0.93
50 3 0.04
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.29
Consensus pattern (50 bp):
ATGATGGGCCACTGGTAGGACATGTTAGTTGCTAACAAGATTGGTCAAAG
Found at i:45453459 original size:98 final size:98
Alignment explanation
Indices: 45453290--45453474 Score: 246
Period size: 98 Copynumber: 1.9 Consensus size: 98
45453280 ATATCTGAAT
* ** * *
45453290 ATGATGGGCCACTGGTAGGACATGTTAGTTGCTAACTAGATTGGTGTATGTGTTGGGCCACTAGT
1 ATGATGGGCCACTGGTAGGACATGTTAGTTGCTAACTAAATTGACGTATGTGCTGAGCCACTAGT
*
45453355 AGGGCATGCTAGTTGCTAACCAAGTTGGCAAAG
66 AAGGCATGCTAGTTGCTAACCAAGTTGGCAAAG
**** *
45453388 ATGATGGGCCACTGGTAGGACATGTTAGTTGCTAA-TCAAATTGACGTATGTGCTGAGTTTTTGG
1 ATGATGGGCCACTGGTAGGACATGTTAGTTGCTAACT-AAATTGACGTATGTGCTGAGCCACTAG
*
45453452 TAAGGCATGTTAGTTGCTAACCA
65 TAAGGCATGCTAGTTGCTAACCA
45453475 GCCTGACGTT
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
97 1 0.01
98 73 0.99
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.31
Consensus pattern (98 bp):
ATGATGGGCCACTGGTAGGACATGTTAGTTGCTAACTAAATTGACGTATGTGCTGAGCCACTAGT
AAGGCATGCTAGTTGCTAACCAAGTTGGCAAAG
Done.