Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 150 of 213
Found at i:45049391 original size:21 final size:20
Alignment explanation
Indices: 45049334--45049393 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
45049324 CCTTAAATCA
*
45049334 CTAACTCTTAACCTCTAACCC
1 CTAACTC-TAACCCCTAACCC
* * *
45049355 CTAACCCCAAATCCCTAACCC
1 CTAA-CTCTAACCCCTAACCC
45049376 CTAACTACTAACCCCTAA
1 CTAACT-CTAACCCCTAA
45049394 ACCTTATTTA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
20 1 0.03
21 27 0.90
22 2 0.07
ACGTcount: A:0.33, C:0.45, G:0.00, T:0.22
Consensus pattern (20 bp):
CTAACTCTAACCCCTAACCC
Found at i:45049444 original size:7 final size:7
Alignment explanation
Indices: 45049432--45049477 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
45049422 ACTAATTAAT
45049432 CTAAACC
1 CTAAACC
45049439 CTAAACC
1 CTAAACC
45049446 CT-AACC
1 CTAAACC
45049452 C-AAATCC
1 CTAAA-CC
*
45049459 CTAACCC
1 CTAAACC
*
45049466 CTAATCC
1 CTAAACC
45049473 CTAAA
1 CTAAA
45049478 TCTTATTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
6 7 0.21
7 24 0.73
8 2 0.06
ACGTcount: A:0.39, C:0.43, G:0.00, T:0.17
Consensus pattern (7 bp):
CTAAACC
Found at i:45049463 original size:90 final size:82
Alignment explanation
Indices: 45049348--45049524 Score: 214
Period size: 81 Copynumber: 2.1 Consensus size: 82
45049338 CTCTTAACCT
*
45049348 CTAACCCCTAACCCCAAATCCCTAACCCCTAACTACTAACCCCTAAACCTTATTTAATATATAAA
1 CTAAACCCTAACCCCAAATCCCTAACCCCT-A--A-T---CCCTAAACCTTATTT-A-ATATAAA
45049413 TTTAAAA-ACACTAATTAATCTAAACC
57 -TTAAAACACACTAATTAATCTAAACC
*
45049439 CTAAACCCTAA-CCCAAATCCCTAACCCCTAATCCCTAAATCTTATTTAATATAAATTAAAACAC
1 CTAAACCCTAACCCCAAATCCCTAACCCCTAATCCCTAAACCTTATTTAATATAAATTAAAACAC
*
45049503 TCTAATTAATCTAAACC
66 ACTAATTAATCTAAACC
*
45049520 TTAAA
1 CTAAA
45049525 GCTTGACCTG
Statistics
Matches: 81, Mismatches: 4, Indels: 12
0.84 0.04 0.12
Matches are distributed among these distances:
80 6 0.07
81 29 0.36
82 1 0.01
83 14 0.17
86 1 0.01
87 1 0.01
89 1 0.01
90 18 0.22
91 10 0.12
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (82 bp):
CTAAACCCTAACCCCAAATCCCTAACCCCTAATCCCTAAACCTTATTTAATATAAATTAAAACAC
ACTAATTAATCTAAACC
Found at i:45049473 original size:14 final size:13
Alignment explanation
Indices: 45049435--45049476 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
45049425 AATTAATCTA
*
45049435 AACCCTAAACCCT
1 AACCCTAATCCCT
*
45049448 AACCCAAATCCCT
1 AACCCTAATCCCT
45049461 AACCCCTAATCCCT
1 AA-CCCTAATCCCT
45049475 AA
1 AA
45049477 ATCTTATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.38, C:0.45, G:0.00, T:0.17
Consensus pattern (13 bp):
AACCCTAATCCCT
Found at i:45049631 original size:14 final size:15
Alignment explanation
Indices: 45049612--45049644 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
45049602 CTTAAACCAA
45049612 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
45049626 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
45049641 AATC
1 AATC
45049645 TATGAACGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:45050099 original size:41 final size:41
Alignment explanation
Indices: 45050033--45050173 Score: 176
Period size: 41 Copynumber: 3.4 Consensus size: 41
45050023 GCCGCTAATG
*
45050033 CTCAGAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCTTT
1 CTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCTTT
* * *
45050074 CTCAAAAACGCTGCT-AAAGCTCTGAGAATTAGCGGTGCTTT
1 CTCAAAAACGCCGCTAAAAGC-CTGAGCATTAGCGGCGCTTT
* ** *
45050115 CCCAAAAACGCCGCTAAAAGCCCAATCATTAGCGGCGCTTT
1 CTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCTTT
* *
45050156 TTTAAAAACGCCGCTAAA
1 CTCAAAAACGCCGCTAAA
45050174 GCCCCGAAAG
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 5 0.06
41 74 0.88
42 5 0.06
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (41 bp):
CTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCTTT
Found at i:45057587 original size:7 final size:7
Alignment explanation
Indices: 45057577--45057602 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
45057567 TACTAACTCT
45057577 TAACCTC
1 TAACCTC
45057584 TAACCTC
1 TAACCTC
45057591 TAACCTC
1 TAACCTC
45057598 TAACC
1 TAACC
45057603 ACAAACCACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.42, G:0.00, T:0.27
Consensus pattern (7 bp):
TAACCTC
Found at i:45057629 original size:21 final size:22
Alignment explanation
Indices: 45057592--45057643 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
45057582 TCTAACCTCT
*
45057592 AACCTCTAA-CCACAAACCAC-A
1 AACCCCTAACCCACAAACC-CGA
*
45057613 AACCCCTAACCCA-AAACCCGT
1 AACCCCTAACCCACAAACCCGA
45057634 AACCCCTAAC
1 AACCCCTAAC
45057644 TACTAACCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 1 0.04
21 23 0.85
22 3 0.11
ACGTcount: A:0.42, C:0.46, G:0.02, T:0.10
Consensus pattern (22 bp):
AACCCCTAACCCACAAACCCGA
Found at i:45057815 original size:81 final size:80
Alignment explanation
Indices: 45057647--45057819 Score: 208
Period size: 81 Copynumber: 2.1 Consensus size: 80
45057637 CCCTAACTAC
*
45057647 TAACCCTAAACCTTATTTAATATATAAATTAAAAAATACTAATTAATCTAAACCCTAAACCCTAA
1 TAACCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCCTAA
*
45057712 CCTGAATCCCTAATCCC
66 CCTGAAT--CTAATCCA
* * *
45057729 TAACCCCTAAACCTTATTT-A-ATATAAATTAAAACACACTAATTAATCTAAACCTTGAACCCTA
1 TAA-CCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCCTA
* *
45057792 ACTTGACAT-TGAATCTA
65 ACCTGA-ATCT-AATCCA
45057809 TAAACCCTAAA
1 T-AACCCTAAA
45057820 TCACAACCCT
Statistics
Matches: 80, Mismatches: 7, Indels: 10
0.82 0.07 0.10
Matches are distributed among these distances:
79 1 0.01
80 12 0.15
81 46 0.57
82 6 0.08
83 15 0.19
ACGTcount: A:0.44, C:0.24, G:0.02, T:0.29
Consensus pattern (80 bp):
TAACCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCCTAA
CCTGAATCTAATCCA
Found at i:45057855 original size:14 final size:15
Alignment explanation
Indices: 45057838--45057870 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
45057828 CTTAAACTAA
*
45057838 AATCCTTAA-TCCAT
1 AATCCCTAATTCCAT
45057852 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
45057867 AATC
1 AATC
45057871 TATAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.36, C:0.30, G:0.00, T:0.33
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:45058327 original size:41 final size:41
Alignment explanation
Indices: 45058266--45058376 Score: 179
Period size: 41 Copynumber: 2.7 Consensus size: 41
45058256 TTTTGTGGAA
* *
45058266 CTTTTTCAAAAATGCTGCTAAAGCCCCGAGCATTAGCGGCG
1 CTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCG
45058307 CTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCG
1 CTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCG
*
45058348 CTTGTTT-AAAAACGCCACTAAAGCCCCGA
1 CTT-TTTCAAAAACGCCGCTAAAGCCCCGA
45058377 AAGGTCAGAA
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
41 63 0.95
42 3 0.05
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (41 bp):
CTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCG
Found at i:45066906 original size:14 final size:14
Alignment explanation
Indices: 45066887--45066913 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
45066877 TTAATTTAAT
45066887 AATATAAATAAAAG
1 AATATAAATAAAAG
45066901 AATATAAATAAAA
1 AATATAAATAAAA
45066914 TTATTACTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (14 bp):
AATATAAATAAAAG
Found at i:45067831 original size:18 final size:19
Alignment explanation
Indices: 45067803--45067872 Score: 74
Period size: 19 Copynumber: 3.7 Consensus size: 19
45067793 TCTTTACAAG
45067803 AAAATTCAAAATAATTTAA
1 AAAATTCAAAATAATTTAA
*
45067822 AAAATT-AAAATAAATTT-T
1 AAAATTCAAAAT-AATTTAA
*
45067840 AAAATTCCAAAT-ATTTATA
1 AAAATTCAAAATAATTTA-A
45067859 AAAATTTCAAAATA
1 AAAA-TTCAAAATA
45067873 TATATATTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
17 4 0.10
18 11 0.27
19 19 0.46
20 7 0.17
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAATTCAAAATAATTTAA
Found at i:45067874 original size:16 final size:18
Alignment explanation
Indices: 45067854--45067898 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
45067844 TTCCAAATAT
45067854 TTATAAAAATTT-CAAAA
1 TTATAAAAATTTACAAAA
* *
45067871 -TATATATATTTACAAAA
1 TTATAAAAATTTACAAAA
45067888 TTATAAAAATT
1 TTATAAAAATT
45067899 CTAAAACAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
16 9 0.41
17 5 0.23
18 8 0.36
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (18 bp):
TTATAAAAATTTACAAAA
Found at i:45067876 original size:18 final size:17
Alignment explanation
Indices: 45067840--45067898 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 17
45067830 AATAAATTTT
*
45067840 AAAATTCCAAATATTTATA
1 AAAATTTCAAA-A-TTATA
45067859 AAAATTTCAAAA-TATA
1 AAAATTTCAAAATTATA
* *
45067875 TATATTTACAAAATTATA
1 AAAATTT-CAAAATTATA
45067893 AAAATT
1 AAAATT
45067899 CTAAAACAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
16 9 0.27
17 5 0.15
18 9 0.27
19 10 0.30
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (17 bp):
AAAATTTCAAAATTATA
Found at i:45070719 original size:128 final size:128
Alignment explanation
Indices: 45070547--45070937 Score: 525
Period size: 128 Copynumber: 3.0 Consensus size: 128
45070537 CACTGTTGTC
** *
45070547 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCAAACAAACGCCGTTATAGATCAGGACC
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGG-CC
* *
45070612 TTTAGCGGCGCTTTTTCCACAAACACCGCTATAGATCAGGACCTTTAGCGGCGC-TTTCCCACA
65 TTTAGCGGCGCTTTTTCCACAAACACCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAAA
* * *
45070675 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAAATTAGGGCC
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCA-GGCC
** *
45070740 TTTAGCGGCGCTTTTTTTACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAAA
65 TTTAGCGGCGCTTTTTCCACAAACACCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAAA
* * *
45070804 AACGCCGCTATAGCTCAGGACCTTTAGCGGTGCTTTTCCCACAAACGCCGCTATAGGTCAAGGCC
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATC-AGGCC
** * ** * * * * *
45070869 TTTAGCGGCGCTTTTTTTACAAACGCTACTATAGACCAA-AGCTTTAGCGACGCTTCTCGCAAA
65 TTTAGCGGCGCTTTTTCCACAAACACCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAAA
45070932 AACGCC
1 AACGCC
45070938 ACTAAAAACA
Statistics
Matches: 236, Mismatches: 24, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
128 132 0.56
129 103 0.44
130 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (128 bp):
AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGCCT
TTAGCGGCGCTTTTTCCACAAACACCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAAA
Found at i:45070902 original size:43 final size:43
Alignment explanation
Indices: 45070547--45070883 Score: 498
Period size: 43 Copynumber: 7.9 Consensus size: 43
45070537 CACTGTTGTC
**
45070547 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCAAACA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACA
* *
45070590 AACGCCGTTATAGATCAGGACCTTTAGCGGCGCTTTTTCCACA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACA
*
45070633 AACACCGCTATAGATCAGGACCTTTAGCGGCGC-TTTCCCACA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACA
*
45070675 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACA
* * * ***
45070718 AACGCCGCTATAAATTAGGGCCTTTAGCGGCGCTTTTTTTACA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACA
* *
45070761 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAAA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACA
* *
45070804 AACGCCGCTATAGCTCAGGACCTTTAGCGGTGCTTTTCCCACA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACA
*
45070847 AACGCCGCTATAGGTCAAGG-CCTTTAGCGGCGCTTTT
1 AACGCCGCTATAGATC-AGGACCTTTAGCGGCGCTTTT
45070884 TTTACAAACG
Statistics
Matches: 262, Mismatches: 30, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
42 39 0.15
43 220 0.84
44 3 0.01
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (43 bp):
AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACA
Found at i:45075568 original size:16 final size:16
Alignment explanation
Indices: 45075540--45075572 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45075530 TCTCTTTTAC
45075540 AATTATATAATAAATT
1 AATTATATAATAAATT
45075556 AATTA-ATATATAAATT
1 AATTATATA-ATAAATT
45075572 A
1 A
45075573 GAAAACACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AATTATATAATAAATT
Found at i:45075685 original size:7 final size:7
Alignment explanation
Indices: 45075673--45075726 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
45075663 CCCCATCATT
45075673 TAAACCA
1 TAAACCA
*
45075680 TAAACCC
1 TAAACCA
45075687 TAAACCA
1 TAAACCA
* *
45075694 TAATCCC
1 TAAACCA
45075701 TAAACTCA
1 TAAAC-CA
*
45075709 TAATCCA
1 TAAACCA
*
45075716 TAAACCT
1 TAAACCA
45075723 TAAA
1 TAAA
45075727 ATGGTAGCAC
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
7 32 0.86
8 5 0.14
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (7 bp):
TAAACCA
Found at i:45075690 original size:14 final size:14
Alignment explanation
Indices: 45075673--45075784 Score: 64
Period size: 14 Copynumber: 7.4 Consensus size: 14
45075663 CCCCATCATT
45075673 TAAACCATAAACCC
1 TAAACCATAAACCC
*
45075687 TAAACCATAATCCC
1 TAAACCATAAACCC
* *
45075701 TAAACTCATAATCCA
1 TAAAC-CATAAACCC
*
45075716 TAAACCTTAAAATGGTAGCACC
1 TAAACC--ATAA----A-C-CC
*
45075738 TAAA-CATTAAACTC
1 TAAACCA-TAAACCC
*
45075752 TAAACCATATACCC
1 TAAACCATAAACCC
*
45075766 TAAACCAAAAACCC
1 TAAACCATAAACCC
45075780 TAAAC
1 TAAAC
45075785 TATAGTGATA
Statistics
Matches: 76, Mismatches: 11, Indels: 22
0.70 0.10 0.20
Matches are distributed among these distances:
14 46 0.61
15 16 0.21
16 4 0.05
19 1 0.01
20 2 0.03
21 2 0.03
22 5 0.07
ACGTcount: A:0.47, C:0.29, G:0.03, T:0.21
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:45075712 original size:15 final size:14
Alignment explanation
Indices: 45075673--45075721 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
45075663 CCCCATCATT
*
45075673 TAAACCATAAACCC
1 TAAACCATAATCCC
45075687 TAAACCATAATCCC
1 TAAACCATAATCCC
*
45075701 TAAACTCATAATCCA
1 TAAAC-CATAATCCC
45075716 TAAACC
1 TAAACC
45075722 TTAAAATGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 19 0.59
15 13 0.41
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:45076011 original size:41 final size:41
Alignment explanation
Indices: 45075954--45076353 Score: 592
Period size: 41 Copynumber: 9.9 Consensus size: 41
45075944 TAAATCCCTA
* *
45075954 AGCATTAGCGGCGCTTTATCAAAAACGCCACTAAAGACCCG
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
*
45075995 AGCATTAGCTGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
45076036 AGCATTAGCGGCG---T-TCAAAAACGCCGCTAAAGACCCG
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
* *
45076073 AGCATTAGCGGTGCTTTCTCAAAAACGCCGCTAAAGACCAG
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
* *
45076114 AGCATTAGTGGCGCTTTCTCAAAAACGCCGCTAAAGACCAG
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
* * *
45076155 AGCATTAGCGGCGCTTCCCCAAAAACGCCGCTAAAGACCCT
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
* * *
45076196 AGCTTTAGCGGCGCTTTATCAAAAACGCCGTTAAAGACCCG
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
** * * *
45076237 AGCATTAGTAGCGCTTTCTCAAAAATGCCGTTAAAGACCAG
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
45076278 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
* *
45076319 AGCATTAGCGGCGCTTTCTAAAAAACGCCACTAAA
1 AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAA
45076354 TCTTTGAAAG
Statistics
Matches: 323, Mismatches: 32, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
37 35 0.11
38 1 0.00
40 1 0.00
41 286 0.89
ACGTcount: A:0.32, C:0.29, G:0.21, T:0.19
Consensus pattern (41 bp):
AGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGACCCG
Found at i:45076487 original size:40 final size:40
Alignment explanation
Indices: 45076411--45076526 Score: 137
Period size: 40 Copynumber: 3.0 Consensus size: 40
45076401 GCGCTTTCTG
* *
45076411 AAAAA-CGCCGCTAATGCT-TATATTTAGCGGCTTTTTCC
1 AAAAAGCGCCGCTAATGCTCGATATTTAGCGGCGTTTTCC
** * * *
45076449 ATGAAGCGCCACTAATGCTCGATCTTTAGTGGCGTTTTCC
1 AAAAAGCGCCGCTAATGCTCGATATTTAGCGGCGTTTTCC
* *
45076489 AAAAAGTGCCGCTAATGCTCGATTTTTAGCGGCGTTTT
1 AAAAAGCGCCGCTAATGCTCGATATTTAGCGGCGTTTT
45076527 TTATCCAAAC
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
38 3 0.05
39 12 0.19
40 48 0.76
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (40 bp):
AAAAAGCGCCGCTAATGCTCGATATTTAGCGGCGTTTTCC
Found at i:45083426 original size:12 final size:11
Alignment explanation
Indices: 45083409--45083446 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
45083399 TTATGTTATT
45083409 AAAAAAAATTG
1 AAAAAAAATTG
45083420 AAAAAAAATT-
1 AAAAAAAATTG
* *
45083430 TAAAAAAATTT
1 AAAAAAAATTG
45083441 AAAAAA
1 AAAAAA
45083447 TTTCCATTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (11 bp):
AAAAAAAATTG
Found at i:45083449 original size:9 final size:10
Alignment explanation
Indices: 45083410--45083446 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
45083400 TATGTTATTA
*
45083410 AAAAAAATTGA
1 AAAAAAATT-T
45083421 AAAAAAATTT
1 AAAAAAATTT
45083431 AAAAAAATTT
1 AAAAAAATTT
45083441 AAAAAA
1 AAAAAA
45083447 TTTCCATTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (10 bp):
AAAAAAATTT
Found at i:45083791 original size:16 final size:16
Alignment explanation
Indices: 45083766--45083812 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 16
45083756 CACCCCTTGA
*
45083766 ATATTTGTTTATTATT
1 ATATTAGTTTATTATT
45083782 ATATTAG-TT-TTATT
1 ATATTAGTTTATTATT
*
45083796 ATATATATTTTATTATT
1 ATAT-TAGTTTATTATT
45083813 GTTACTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 9 0.35
15 4 0.15
16 8 0.31
17 5 0.19
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (16 bp):
ATATTAGTTTATTATT
Found at i:45083795 original size:17 final size:15
Alignment explanation
Indices: 45083773--45083812 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 15
45083763 TGAATATTTG
45083773 TTTATTATTATATTAGT
1 TTTATTATTATA-TA-T
45083790 TTTATTA-TATATAT
1 TTTATTATTATATAT
45083804 TTTATTATT
1 TTTATTATT
45083813 GTTACTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 8 0.36
15 3 0.14
16 4 0.18
17 7 0.32
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (15 bp):
TTTATTATTATATAT
Found at i:45084578 original size:6 final size:6
Alignment explanation
Indices: 45084567--45084594 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
45084557 TTGTTTATTT
45084567 ATTTTA ATTTTA ATTTTA ATTTTA ATTT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTT
45084595 CATTTTTAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
ATTTTA
Found at i:45084601 original size:18 final size:18
Alignment explanation
Indices: 45084567--45084602 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
45084557 TTGTTTATTT
*
45084567 ATTTTAATTTTAATTTTA
1 ATTTTAATTTCAATTTTA
*
45084585 ATTTTAATTTCATTTTTA
1 ATTTTAATTTCAATTTTA
45084603 GTTGTATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTAATTTCAATTTTA
Found at i:45091250 original size:84 final size:84
Alignment explanation
Indices: 45091140--45091377 Score: 449
Period size: 84 Copynumber: 2.8 Consensus size: 84
45091130 AAGGATCCCA
*
45091140 GTGGAATGAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCC
1 GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCC
45091205 TTTCACAATCAAGGATACG
66 TTTCACAATCAAGGATACG
* *
45091224 GTGGATTCATCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCC
1 GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCC
45091289 TTTCACAATCAAGGATACG
66 TTTCACAATCAAGGATACG
45091308 GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCC
1 GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCC
45091373 TTTCA
66 TTTCA
45091378 TTCATAGAAT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 149 1.00
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (84 bp):
GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCC
TTTCACAATCAAGGATACG
Found at i:45091257 original size:42 final size:40
Alignment explanation
Indices: 45091142--45091374 Score: 295
Period size: 41 Copynumber: 5.6 Consensus size: 40
45091132 GGATCCCAGT
* *
45091142 GGAATGAGCACTTAGCAACCACCTTATAATCAATGATACGG
1 GGAATCAGCACATAGCAACC-CCTTATAATCAATGATACGG
* *
45091183 GGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATACGG
1 GGAATCAGCACATAGCAACCCC-TT-ATAATCAATGATACGG
* * *
45091225 TGGATTCATCACTTAGCAACCACCTTATAATCAATGATACGG
1 -GGAATCAGCACATAGCAACC-CCTTATAATCAATGATACGG
* *
45091267 GGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATACGG
1 GGAATCAGCACATAGCAACCCC-TT-ATAATCAATGATACGG
*
45091309 TGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGG
1 -GGAATCAGCACATAGCAACC-CCTTATAATCAATGATACGG
45091351 GGAATCAGCACATAGCAACCCCTT
1 GGAATCAGCACATAGCAACCCCTT
45091375 TCATTCATAG
Statistics
Matches: 166, Mismatches: 18, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
40 8 0.05
41 58 0.35
42 56 0.34
43 40 0.24
44 4 0.02
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (40 bp):
GGAATCAGCACATAGCAACCCCTTATAATCAATGATACGG
Found at i:45093561 original size:27 final size:27
Alignment explanation
Indices: 45093515--45093578 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
45093505 GGAGGCTTGC
45093515 AGATTGTCCATCTGTAAGAATGTTGGT
1 AGATTGTCCATCTGTAAGAATGTTGGT
* * *
45093542 AGATTGTCTATGTGTGAGAATGTTGGT
1 AGATTGTCCATCTGTAAGAATGTTGGT
* *
45093569 GGACTGTCCA
1 AGATTGTCCA
45093579 AGTGAGAACA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.23, C:0.11, G:0.30, T:0.36
Consensus pattern (27 bp):
AGATTGTCCATCTGTAAGAATGTTGGT
Found at i:45093876 original size:41 final size:41
Alignment explanation
Indices: 45093816--45094051 Score: 332
Period size: 41 Copynumber: 5.8 Consensus size: 41
45093806 CTGACCTTTC
* *
45093816 GGGGCTTTAGCGGCGTTTTTGAAAAAGCGCTGCTAATGCTT
1 GGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTA
* * * * *
45093857 GGGGCTTTGGCGGCATTTTTCAAAAAGTGCCGCTAATTCTCA
1 GGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCT-A
* * *
45093899 -GGGATTTAGCAGCGTTTTTGAAAAAGCGTCGCTAATGCTA
1 GGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTA
45093939 GGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTA
1 GGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTA
* * *
45093980 GGGGCTTTAGCGGCGTTTCTGAAAAGGCGCCACTAATGC-A
1 GGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTA
45094020 GGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCG
1 GGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCG
45094052 TTAAAAACAT
Statistics
Matches: 169, Mismatches: 24, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
40 31 0.18
41 138 0.82
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (41 bp):
GGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTA
Found at i:45094421 original size:15 final size:15
Alignment explanation
Indices: 45094396--45094432 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
45094386 GTTACTATTT
45094396 TATGG-TTTAGGGAG
1 TATGGATTTAGGGAG
*
45094410 TATGGATTTAGGGAT
1 TATGGATTTAGGGAG
45094425 TATGGATT
1 TATGGATT
45094433 ACTGATTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (15 bp):
TATGGATTTAGGGAG
Found at i:45094512 original size:15 final size:16
Alignment explanation
Indices: 45094459--45094512 Score: 55
Period size: 15 Copynumber: 3.6 Consensus size: 16
45094449 GGGTTGAGAT
45094459 TTAAG-GTT-TAGGGG
1 TTAAGAGTTATAGGGG
*
45094473 TTAGGAGTT-TAGGGG
1 TTAAGAGTTATAGGGG
45094488 TT-AGACGTTAT-GGGG
1 TTAAGA-GTTATAGGGG
45094503 TTAAGAGTTA
1 TTAAGAGTTA
45094513 GGGATTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
14 6 0.18
15 24 0.71
16 4 0.12
ACGTcount: A:0.24, C:0.02, G:0.39, T:0.35
Consensus pattern (16 bp):
TTAAGAGTTATAGGGG
Found at i:45094849 original size:21 final size:20
Alignment explanation
Indices: 45094788--45094854 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
45094778 GGGATTTAAG
*
45094788 GATTAGGGGTTAGGGGTTTAT
1 GATTAGGGTTTA-GGGTTTAT
* * * *
45094809 GATTTATGTTTTATGTTTTAT
1 GA-TTAGGGTTTAGGGTTTAT
45094830 GATTCAGGGTTTAGGGTTTA-
1 GATT-AGGGTTTAGGGTTTAT
45094850 GATTA
1 GATTA
45094855 ATTAGGGTTT
Statistics
Matches: 35, Mismatches: 9, Indels: 6
0.70 0.18 0.12
Matches are distributed among these distances:
19 1 0.03
20 6 0.17
21 21 0.60
22 7 0.20
ACGTcount: A:0.21, C:0.01, G:0.30, T:0.48
Consensus pattern (20 bp):
GATTAGGGTTTAGGGTTTAT
Found at i:45098127 original size:27 final size:27
Alignment explanation
Indices: 45098097--45098152 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
45098087 AATTTCGAGG
*
45098097 TTTACAATTTT-TAATTTTTATTAATTA
1 TTTAC-ATTTTCTAACTTTTATTAATTA
* *
45098124 TTTACGTTTTCTCACTTTTATTAATTA
1 TTTACATTTTCTAACTTTTATTAATTA
45098151 TT
1 TT
45098153 ATTATTTAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.27, C:0.09, G:0.02, T:0.62
Consensus pattern (27 bp):
TTTACATTTTCTAACTTTTATTAATTA
Found at i:45099360 original size:43 final size:43
Alignment explanation
Indices: 45099300--45099390 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
45099290 CTTTGAGTTC
* * *
45099300 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
* *
45099342 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATTTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
45099385 ATTACC
1 ATTACC
45099391 TTGCAATGTG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 4 0.09
43 39 0.91
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.45
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
Found at i:45099854 original size:43 final size:43
Alignment explanation
Indices: 45099741--45099868 Score: 136
Period size: 43 Copynumber: 3.0 Consensus size: 43
45099731 TTTAAATGTT
* * * *
45099741 ATGTT-TTTAGCGGCCTTT-TTACGAGAAGCGTCGCTAAAGGT-
1 ATGTTCTTTAGCGGCGTTTGTGAC-AAAAGCGCCGCTAAAGGTC
* * * *
45099782 TTGTTCTATAGCAGCGTTTGTGATAAAAAGCGCCGCTAAAGGTC
1 ATGTTCTTTAGCGGCGTTTGTGA-CAAAAGCGCCGCTAAAGGTC
*
45099826 ATGTTCTTTAGCGGCGTTTGTGACAAAAGCGCCACTAAAGGTC
1 ATGTTCTTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTC
45099869 GTTTGTGATA
Statistics
Matches: 70, Mismatches: 13, Indels: 6
0.79 0.15 0.07
Matches are distributed among these distances:
41 4 0.06
42 10 0.14
43 36 0.51
44 20 0.29
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
ATGTTCTTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTC
Found at i:45099881 original size:28 final size:28
Alignment explanation
Indices: 45099840--45099896 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
45099830 TCTTTAGCGG
45099840 CGTTTGTGACAAAAGCGCCACTAAAGGT
1 CGTTTGTGACAAAAGCGCCACTAAAGGT
* * **
45099868 CGTTTGTGATAAAAGTGCCGTTAAAGGT
1 CGTTTGTGACAAAAGCGCCACTAAAGGT
45099896 C
1 C
45099897 ATGATTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (28 bp):
CGTTTGTGACAAAAGCGCCACTAAAGGT
Found at i:45099914 original size:71 final size:72
Alignment explanation
Indices: 45099796--45099939 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
45099786 TCTATAGCAG
*
45099796 CGTTTGTGATAAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGACAAAAGCGCCAC
1 CGTTTGTGATAAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCAGCGTTTGTGACAAAAGCGCCAC
45099861 TAAAGGT
66 TAAAGGT
* * * *
45099868 CGTTTGTGAT-AAAAGTGCCGTTAAAGGTCATGATT-TTTAGCAGCGTTTGTGATAAAAGCGCCT
1 CGTTTGTGATAAAAAGCGCCGCTAAAGGTCATG-TTCTTTAGCAGCGTTTGTGACAAAAGCGCCA
45099931 CTAAAGGT
65 CTAAAGGT
45099939 C
1 C
45099940 ATGGTATTTA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (72 bp):
CGTTTGTGATAAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCAGCGTTTGTGACAAAAGCGCCAC
TAAAGGT
Found at i:45099950 original size:43 final size:43
Alignment explanation
Indices: 45099868--45099950 Score: 123
Period size: 43 Copynumber: 1.9 Consensus size: 43
45099858 CACTAAAGGT
* *
45099868 CGTTTGTGATAAAAGTGCCGTTAAAGGTCATGATTTTTAGCAG
1 CGTTTGTGATAAAAGCGCCGTTAAAGGTCATGATATTTAGCAG
*
45099911 CGTTTGTGATAAAAGCGCC-TCTAAAGGTCATGGTATTTAG
1 CGTTTGTGATAAAAGCGCCGT-TAAAGGTCATGATATTTAG
45099951 TGGCATTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 1 0.03
43 35 0.97
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (43 bp):
CGTTTGTGATAAAAGCGCCGTTAAAGGTCATGATATTTAGCAG
Found at i:45100083 original size:22 final size:22
Alignment explanation
Indices: 45100053--45100095 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
45100043 AGTGGCGCTT
* *
45100053 AAAAGCGCCGCTAAAGACCTAA
1 AAAAACGCCGCTAAAAACCTAA
45100075 AAAAACGCCGCTAAAAACCTA
1 AAAAACGCCGCTAAAAACCTA
45100096 TTTTGTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.28, G:0.14, T:0.09
Consensus pattern (22 bp):
AAAAACGCCGCTAAAAACCTAA
Found at i:45103560 original size:41 final size:41
Alignment explanation
Indices: 45103495--45103769 Score: 426
Period size: 41 Copynumber: 6.7 Consensus size: 41
45103485 CCTTTCAAGG
** *
45103495 CTTTAGCGGCGTTTTTACAAAAGCGCCGCTAATGCTCAGGT
1 CTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCAGGT
*
45103536 CTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCAGGT
* *
45103577 CTTTAGCGGCGTTTTTGGAGAAGCGCTGCTAATGCTCAGGG
1 CTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCAGGT
* *
45103618 CTTTAGCGGCGTTTTTGGAGAAGTGCCGCTAATGCTCAGTT
1 CTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCAGGT
45103659 CTTTAGCGGCGTTTTCTGG-GAAGCGCCGCTAATGCTCAGGT
1 CTTTAGCGGCGTTTT-TGGAGAAGCGCCGCTAATGCTCAGGT
* *
45103700 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCAGGT
* *
45103741 CTTTAGCAGCGTTTTTGGAAAAGCGCCGC
1 CTTTAGCGGCGTTTTTGGAGAAGCGCCGC
45103770 AAAAACATTT
Statistics
Matches: 216, Mismatches: 16, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
40 3 0.01
41 210 0.97
42 3 0.01
ACGTcount: A:0.17, C:0.22, G:0.30, T:0.31
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCAGGT
Found at i:45104318 original size:7 final size:7
Alignment explanation
Indices: 45104295--45104339 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
45104285 TAAATAAGGT
45104295 TTAGGGG
1 TTAGGGG
**
45104302 TTAGTAG
1 TTAGGGG
*
45104309 TTATGGG
1 TTAGGGG
45104316 TTAGGGG
1 TTAGGGG
45104323 TTAGGGG
1 TTAGGGG
45104330 TTAGGGG
1 TTAGGGG
45104337 TTA
1 TTA
45104340 AGAGTTAGTG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.18, C:0.00, G:0.47, T:0.36
Consensus pattern (7 bp):
TTAGGGG
Found at i:45104346 original size:21 final size:21
Alignment explanation
Indices: 45104308--45104347 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
45104298 GGGGTTAGTA
* * *
45104308 GTTATGGGTTAGGGGTTAGGG
1 GTTAGGGGTTAAGAGTTAGGG
45104329 GTTAGGGGTTAAGAGTTAG
1 GTTAGGGGTTAAGAGTTAG
45104348 TGATTTAAGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.47, T:0.33
Consensus pattern (21 bp):
GTTAGGGGTTAAGAGTTAGGG
Found at i:45104977 original size:27 final size:27
Alignment explanation
Indices: 45104945--45104998 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
45104935 TTACATGTTG
45104945 AAATTAATTAAGGGAATGTAAACAAGA
1 AAATTAATTAAGGGAATGTAAACAAGA
45104972 AAATTAATTAAGGGAATGTAAACAAGA
1 AAATTAATTAAGGGAATGTAAACAAGA
45104999 GAAAAGAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.56, C:0.04, G:0.19, T:0.22
Consensus pattern (27 bp):
AAATTAATTAAGGGAATGTAAACAAGA
Found at i:45109827 original size:24 final size:23
Alignment explanation
Indices: 45109799--45109846 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 23
45109789 AATTTAAAAA
45109799 ATAAAACATAATATAATATTT-ATT
1 ATAAAA-ATAA-ATAATATTTGATT
*
45109823 ATAAAAATAAATATTATTTGATT
1 ATAAAAATAAATAATATTTGATT
45109846 A
1 A
45109847 AAATAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 8 0.36
24 6 0.27
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
ATAAAAATAAATAATATTTGATT
Found at i:45109945 original size:42 final size:43
Alignment explanation
Indices: 45109899--45110007 Score: 141
Period size: 43 Copynumber: 2.6 Consensus size: 43
45109889 CTAGAATCGT
* *
45109899 CGCTAAAGG-ATTGTTCTTTAGCGGCGTTTGTGAGAAAAGCGC
1 CGCTAAAGGTAGTGGTCTTTAGCGGCGTTTGTGAGAAAAGCGC
* *
45109941 CGCTAAAGGTAGTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGT
1 CGCTAAAGGTAGTGGTCTTTAGCGGCGTTTGTGAGAAAAGCGC
* *
45109984 TGCTAAAGGTCA-CGGTCTTTAGCG
1 CGCTAAAGGT-AGTGGTCTTTAGCG
45110008 AGTGAAAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
42 9 0.15
43 49 0.83
44 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.33, T:0.28
Consensus pattern (43 bp):
CGCTAAAGGTAGTGGTCTTTAGCGGCGTTTGTGAGAAAAGCGC
Found at i:45110097 original size:44 final size:42
Alignment explanation
Indices: 45110017--45110099 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 42
45110007 GAGTGAAAAA
* *
45110017 ACGATCTTTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACC
1 ACGACCTTTAGCAGCGCTTTTCCAAAAACGCCGCTAAAGACC
* * *
45110059 ACGACCTTTAGCAGCGTTTATTTCAAGAAACGCTGCTAAAG
1 ACGACCTTTAGCAGCGCTT-TTCCAA-AAACGCCGCTAAAG
45110100 TTAGCGACAC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 16 0.47
43 5 0.15
44 13 0.38
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
ACGACCTTTAGCAGCGCTTTTCCAAAAACGCCGCTAAAGACC
Found at i:45111868 original size:22 final size:23
Alignment explanation
Indices: 45111843--45111902 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
45111833 TGGACTGAAT
45111843 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
45111865 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
45111887 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
45111903 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:45111870 original size:4 final size:4
Alignment explanation
Indices: 45111852--45111885 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
45111842 TATAAAAATT
45111852 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
45111886 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:45113290 original size:23 final size:22
Alignment explanation
Indices: 45113239--45113290 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
45113229 CCTCGTCTTT
*
45113239 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
45113261 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
45113284 TTCTTTT
1 TTCTTTT
45113291 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:45113305 original size:18 final size:18
Alignment explanation
Indices: 45113284--45113322 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
45113274 TTTCTTCAAC
* *
45113284 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
45113302 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
45113320 TTC
1 TTC
45113323 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:45115679 original size:22 final size:23
Alignment explanation
Indices: 45115654--45115713 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
45115644 TGGACTGAAT
45115654 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
45115676 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
45115698 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
45115714 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:45115681 original size:4 final size:4
Alignment explanation
Indices: 45115663--45115696 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
45115653 TATAAAAATT
45115663 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
45115697 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:45117681 original size:47 final size:47
Alignment explanation
Indices: 45117623--45118280 Score: 814
Period size: 47 Copynumber: 13.5 Consensus size: 47
45117613 ATTCAGCCAA
*
45117623 GAAAGTGTATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
45117670 GAAAGTGTATATGTGTGATAAGGCCTAATCGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
45117717 GAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
45117764 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * *
45117811 GAAAGTGTATATGTGTGATAAGGCCTAATCGCTGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
45117858 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
45117905 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
45117954 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
45118003 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
** *** * * *
45118050 GAAAGTGTATGTGATGAATGTGA-AAGTGTATATATGTGATAAGGCCTAATAGCCGATGT
1 GAAAGTGTA--T-AT--ATGTGATAAG-GCCTA-ATG-GCCGATG--TGAT-G--AATGT
*
45118109 GATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGT
1 GA---------AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
45118165 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * * * * * *
45118212 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
45118259 GAAAGTGCATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
45118281 TCCCGAAGGG
Statistics
Matches: 543, Mismatches: 43, Indels: 50
0.85 0.07 0.08
Matches are distributed among these distances:
47 381 0.70
49 97 0.18
50 2 0.00
51 3 0.01
52 8 0.01
53 2 0.00
54 3 0.01
56 9 0.02
57 1 0.00
58 1 0.00
59 9 0.02
61 3 0.01
62 3 0.01
63 8 0.01
64 3 0.01
65 2 0.00
66 1 0.00
68 7 0.01
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:45118063 original size:21 final size:21
Alignment explanation
Indices: 45118037--45118080 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
45118027 CTAATAGCCG
45118037 ATGTGATGAATGTGAAAGTGT
1 ATGTGATGAATGTGAAAGTGT
45118058 ATGTGATGAATGTGAAAGTGT
1 ATGTGATGAATGTGAAAGTGT
45118079 AT
1 AT
45118081 ATATGTGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (21 bp):
ATGTGATGAATGTGAAAGTGT
Found at i:45118064 original size:68 final size:68
Alignment explanation
Indices: 45117990--45118127 Score: 267
Period size: 68 Copynumber: 2.0 Consensus size: 68
45117980 CTAATGGCCG
*
45117990 ATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
45118055 TGT
66 TGT
45118058 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
45118123 TGT
66 TGT
45118126 AT
1 AT
45118128 ATATGTAATA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 69 1.00
ACGTcount: A:0.33, C:0.06, G:0.30, T:0.31
Consensus pattern (68 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
TGT
Found at i:45118145 original size:115 final size:116
Alignment explanation
Indices: 45117941--45118174 Score: 416
Period size: 115 Copynumber: 2.0 Consensus size: 116
45117931 CTAATGGCCG
*
45117941 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
45118006 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGT
65 AGTGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGT
45118058 ATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA
*
45118122 GTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
66 GTGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGT
45118173 AT
1 AT
45118175 ATATGTGATA
Statistics
Matches: 113, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
115 93 0.82
117 20 0.18
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.31
Consensus pattern (116 bp):
ATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA
GTGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGT
Found at i:45118187 original size:162 final size:164
Alignment explanation
Indices: 45117892--45118221 Score: 592
Period size: 162 Copynumber: 2.0 Consensus size: 164
45117882 CTAATGGCCG
*
45117892 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
45117957 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGAT
65 AGTG-ATATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
45118022 AAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGT
129 AAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGT
45118058 ATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA
45118122 GTG-TATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
66 GTGATATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
45118186 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
131 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGT
45118220 AT
1 AT
45118222 ATATGTGACA
Statistics
Matches: 160, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
162 94 0.59
164 46 0.29
166 20 0.12
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.31
Consensus pattern (164 bp):
ATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA
GTGATATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
GGCCTAATAGCCGATGTGATGAATGTGAAAGTGT
Found at i:45118455 original size:37 final size:37
Alignment explanation
Indices: 45118399--45118477 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
45118389 CCGAGCTCTA
* * *
45118399 AAGACCCGGTGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
45118436 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
45118473 AAGAC
1 AAGAC
45118478 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:45121821 original size:33 final size:33
Alignment explanation
Indices: 45121784--45121851 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
45121774 TGTTTTGACT
*
45121784 TTTTGGTTAGTATCCTTTTTGGGCTTAACAAAA
1 TTTTGGTTAGTATCCTTTTTGGACTTAACAAAA
45121817 TTTTGGTTAGTATCCTTTTTGGACTTAACAAAA
1 TTTTGGTTAGTATCCTTTTTGGACTTAACAAAA
45121850 TT
1 TT
45121852 ATATTTTGGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.25, C:0.12, G:0.16, T:0.47
Consensus pattern (33 bp):
TTTTGGTTAGTATCCTTTTTGGACTTAACAAAA
Found at i:45124532 original size:14 final size:14
Alignment explanation
Indices: 45124513--45124543 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
45124503 AGCTTGGCAA
45124513 TTGGGAACTATTTG
1 TTGGGAACTATTTG
45124527 TTGGGAACTATTTG
1 TTGGGAACTATTTG
45124541 TTG
1 TTG
45124544 TTAATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.29, T:0.45
Consensus pattern (14 bp):
TTGGGAACTATTTG
Found at i:45125490 original size:91 final size:91
Alignment explanation
Indices: 45125349--45125556 Score: 265
Period size: 91 Copynumber: 2.3 Consensus size: 91
45125339 TTGATTTTAG
* * *
45125349 TAAATTCATATAAGAACATTTTATTATTAACAATTTCATGAGATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAACAATTTCATGAAATTATATATCACTATTAAATTAT
* *
45125414 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
* * * * *
45125441 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTTTATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAACAATTTCATGAAATTATATATCACTATTAAATTATA
45125506 TGTAATAATTATTATTTTAAATTATA
66 TGTAATAATTATTATTTTAAATTATA
* * * *
45125532 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
45125557 GTTATAATTA
Statistics
Matches: 101, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
91 82 0.81
92 19 0.19
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAACAATTTCATGAAATTATATATCACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:45125605 original size:16 final size:17
Alignment explanation
Indices: 45125586--45125617 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
45125576 TTATTAAATC
45125586 ATATATTTAA-ATTAAA
1 ATATATTTAATATTAAA
45125602 ATATATTTAATATTAA
1 ATATATTTAATATTAA
45125618 TTATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATTTAATATTAAA
Found at i:45125681 original size:66 final size:63
Alignment explanation
Indices: 45125610--45125822 Score: 194
Period size: 61 Copynumber: 3.4 Consensus size: 63
45125600 AAATATATTT
45125610 AATATTAATTATTTAA-AATTTTATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTA-TTAAGAATTTTA--TTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
45125674 AG
62 AG
* * * * * * *
45125676 AATATTAATTATTAAGAATTTTATTAA--ATTATATATTTTAATTAT-ATTATATTTA-ATAAT
1 AATATTAATTATTAAGAATTTTATTAAGTATCATATATTATGATT-TGAGTAAATTCATATAAG
* * * *
45125736 AATTATGTTATT-TT-A-TATTTTA--CAGTATCATATATTATGGTTTGAGTAAATTCATATAAG
1 AA-TAT-TAATTATTAAGAATTTTATTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
45125796 AATATTAATTATTAAGAATTTTATTAA
1 AATATTAATTATTAAGAATTTTATTAA
45125823 ATTATATATT
Statistics
Matches: 113, Mismatches: 21, Indels: 29
0.69 0.13 0.18
Matches are distributed among these distances:
57 1 0.01
58 5 0.04
59 30 0.27
60 14 0.12
61 31 0.27
62 5 0.04
63 2 0.02
64 3 0.03
65 4 0.04
66 18 0.16
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (63 bp):
AATATTAATTATTAAGAATTTTATTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:45125696 original size:120 final size:120
Alignment explanation
Indices: 45125572--45125864 Score: 482
Period size: 120 Copynumber: 2.4 Consensus size: 120
45125562 AATTATTTTA
* * *
45125572 AATTTTATTAAATCATATATTTAAATTAAAATATATTTAATATTAATTAT-TTAAAATTT-TATT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT--AATTTATATT
*
45125635 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * *
45125692 AATTTTATTAAATTATATATTTTAATTATATTATATTTAATAATAATTATGTTATTTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
*
45125757 ACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
45125812 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
45125865 TAAATATGAT
Statistics
Matches: 161, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
119 4 0.02
120 155 0.96
121 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:45125724 original size:18 final size:17
Alignment explanation
Indices: 45125693--45125727 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
45125683 ATTATTAAGA
45125693 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
45125710 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
45125728 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:45125841 original size:18 final size:17
Alignment explanation
Indices: 45125813--45125847 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
45125803 ATTATTAAGA
*
45125813 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
45125830 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
45125848 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:45125961 original size:147 final size:149
Alignment explanation
Indices: 45125801--45126075 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
45125791 ATAAGAATAT
*
45125801 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
45125866 AAATATGATTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
45125929 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
45125948 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
45126013 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
45126076 CAATAATCAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 91 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:45125988 original size:18 final size:17
Alignment explanation
Indices: 45125960--45125994 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
45125950 ATTATTAAGA
*
45125960 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
45125977 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
45125995 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:45126205 original size:44 final size:45
Alignment explanation
Indices: 45126156--45126250 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
45126146 TTACACCTCT
* *
45126156 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
45126200 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
45126245 ATTACA
1 ATTACA
45126251 CCTTTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:45126250 original size:16 final size:16
Alignment explanation
Indices: 45126231--45126282 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
45126221 GATTTGCTAT
* *
45126231 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
*
45126247 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
45126263 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
45126279 TACA
1 TACA
45126283 GCGAACCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:45127159 original size:6 final size:6
Alignment explanation
Indices: 45127148--45127179 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
45127138 CTGCAGGAGC
45127148 CATTGG CATTGG CATTGG CATTGG CATTGG CA
1 CATTGG CATTGG CATTGG CATTGG CATTGG CA
45127180 CCCCCAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.31
Consensus pattern (6 bp):
CATTGG
Found at i:45130296 original size:18 final size:18
Alignment explanation
Indices: 45130245--45130300 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
45130235 TATATTTAAA
*
45130245 ATAAATTTTA-ATAAGAAA
1 ATAAATTTTATATAA-AAT
** *
45130263 AT-AATTAAATACAAAAT
1 ATAAATTTTATATAAAAT
45130280 ATAAATTTTATATAAAAT
1 ATAAATTTTATATAAAAT
45130298 ATA
1 ATA
45130301 TTATAAGAGT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
17 9 0.31
18 20 0.69
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
ATAAATTTTATATAAAAT
Found at i:45134385 original size:4 final size:4
Alignment explanation
Indices: 45134378--45134420 Score: 59
Period size: 4 Copynumber: 10.0 Consensus size: 4
45134368 AGATTAATAC
45134378 TAAA TAAAA TAAA TTTAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA T-AAA TAAA --TAAA TAAA TAAA TAAA TAAA TAAA TAAA
45134421 AACTAAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
4 28 0.78
5 4 0.11
6 4 0.11
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:45136243 original size:30 final size:30
Alignment explanation
Indices: 45136209--45136269 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
45136199 CACGGGCTGG
* * *
45136209 CACATGGGTGTGTGTCCAGCCCGTGTGGCT
1 CACATAGGTGTGTGCCCAACCCGTGTGGCT
45136239 CACATAGGTGTGTGCCCAACCCGTGTGGCT
1 CACATAGGTGTGTGCCCAACCCGTGTGGCT
45136269 C
1 C
45136270 CTAAAATCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.13, C:0.30, G:0.33, T:0.25
Consensus pattern (30 bp):
CACATAGGTGTGTGCCCAACCCGTGTGGCT
Found at i:45138076 original size:5 final size:6
Alignment explanation
Indices: 45138062--45138143 Score: 60
Period size: 6 Copynumber: 13.5 Consensus size: 6
45138052 GAAATTTAAG
* * * *
45138062 AAAATA AAAATAA AACAACTA AAAACA AAAATA AAAGTA AACATA AAAAGA
1 AAAATA AAAAT-A AA-AA-TA AAAATA AAAATA AAAATA AAAATA AAAATA
* * *
45138113 AAAAGA AAACTA AAAA-G AAAA-A AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAA
45138144 TCAATGATCC
Statistics
Matches: 60, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
5 8 0.13
6 41 0.68
7 5 0.08
8 5 0.08
9 1 0.02
ACGTcount: A:0.79, C:0.06, G:0.05, T:0.10
Consensus pattern (6 bp):
AAAATA
Found at i:45144199 original size:30 final size:30
Alignment explanation
Indices: 45144165--45144225 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
45144155 CACGGGCTAG
** * * *
45144165 CACATGGGTGTGTGTCCAGCCCGTGTGGCT
1 CACATGGGCATGTGGCCAACCCATGTGGCT
45144195 CACATGGGCATGTGGCCAACCCATGTGGCT
1 CACATGGGCATGTGGCCAACCCATGTGGCT
45144225 C
1 C
45144226 TTGAAATCTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.23
Consensus pattern (30 bp):
CACATGGGCATGTGGCCAACCCATGTGGCT
Found at i:45146353 original size:15 final size:14
Alignment explanation
Indices: 45146319--45146358 Score: 71
Period size: 14 Copynumber: 2.8 Consensus size: 14
45146309 CTTTCAAGGA
45146319 ATTTTGTGGGTTCTT
1 ATTTT-TGGGTTCTT
45146334 ATTTTTGGGTTCTT
1 ATTTTTGGGTTCTT
45146348 ATTTTTGGGTT
1 ATTTTTGGGTT
45146359 TCGAGGTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 20 0.80
15 5 0.20
ACGTcount: A:0.07, C:0.05, G:0.25, T:0.62
Consensus pattern (14 bp):
ATTTTTGGGTTCTT
Found at i:45151240 original size:15 final size:15
Alignment explanation
Indices: 45151220--45151250 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
45151210 GTTATGTAAG
45151220 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
45151235 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
45151250 T
1 T
45151251 ATGTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:45152236 original size:22 final size:22
Alignment explanation
Indices: 45152208--45152250 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
45152198 ACAAGTATTT
**
45152208 TTTTTAAATTTCAAATATAATA
1 TTTTTAAAAATCAAATATAATA
45152230 TTTTTAAAAATCAAATATAAT
1 TTTTTAAAAATCAAATATAAT
45152251 CACAAGCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (22 bp):
TTTTTAAAAATCAAATATAATA
Found at i:45166483 original size:46 final size:46
Alignment explanation
Indices: 45166432--45166525 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
45166422 ATAGTGTGGT
* *
45166432 GTTCATCATATACCAAGGTTTCTATCATCCTTAATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTAATAGTGAGTCGAG
* *
45166478 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGAGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTAATAGTGAGTCGAG
45166524 GT
1 GT
45166526 CTTTTAAACC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCCTATCATCCTTAATAGTGAGTCGAG
Found at i:45174004 original size:25 final size:25
Alignment explanation
Indices: 45173943--45174019 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 25
45173933 AAGATAACAA
** *
45173943 GCCACAAAGGC-TTCCAGAAAGAGGTA
1 GCCACAAAGGCTTTCCAG--AGAATTC
*
45173969 GCCACATAGGCTTTCCAGAGAATTC
1 GCCACAAAGGCTTTCCAGAGAATTC
**
45173994 GCCACAAAGGCTTTTTAGAGAATTC
1 GCCACAAAGGCTTTCCAGAGAATTC
45174019 G
1 G
45174020 TGTTTATTGT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
25 27 0.63
26 10 0.23
27 6 0.14
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.21
Consensus pattern (25 bp):
GCCACAAAGGCTTTCCAGAGAATTC
Found at i:45175267 original size:109 final size:111
Alignment explanation
Indices: 45175089--45175381 Score: 434
Period size: 111 Copynumber: 2.7 Consensus size: 111
45175079 TCTGGCTATA
* * * ** * *
45175089 TGGTTAAACGAG--AAATCGAAACCCAGCACCTTAGGGTA-CATTCCTCAAATTTCCAAACGCAA
1 TGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAA
*
45175151 AACATTGCCTTATTTT-GAA-ATTTTTAAAAGGATATTTAGCCATT
66 AACATTGCCTTATTTTAGAATATTTTTAAAAGGATATTAAGCCATT
*
45175195 TGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAA
1 TGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAA
*
45175260 AACATTGCCTTATTTTAGAATTTTTTTAAAAGGATATTAAGCCATT
66 AACATTGCCTTATTTTAGAATATTTTTAAAAGGATATTAAGCCATT
*
45175306 TGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCT
1 TGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTT-CCAAACGCA
*
45175371 AAATATTGCCT
65 AAACATTGCCT
45175382 CAATTAGAAA
Statistics
Matches: 168, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
106 10 0.06
108 24 0.14
109 36 0.21
110 3 0.02
111 77 0.46
112 18 0.11
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.30
Consensus pattern (111 bp):
TGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAA
AACATTGCCTTATTTTAGAATATTTTTAAAAGGATATTAAGCCATT
Found at i:45175460 original size:21 final size:18
Alignment explanation
Indices: 45175428--45175467 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
45175418 ATTTATATGC
45175428 ATAATGGAATAATAAACATG
1 ATAATGGAATAA-AAA-ATG
45175448 ATAATGTGAATAAAAAATG
1 ATAATG-GAATAAAAAATG
45175467 A
1 A
45175468 ACAAAAACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 9 0.47
21 6 0.32
ACGTcount: A:0.57, C:0.03, G:0.15, T:0.25
Consensus pattern (18 bp):
ATAATGGAATAAAAAATG
Found at i:45175788 original size:3 final size:3
Alignment explanation
Indices: 45175780--45175810 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
45175770 ATATAAAAGC
*
45175780 AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
45175811 TGAAATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:45177317 original size:50 final size:50
Alignment explanation
Indices: 45177250--45177355 Score: 140
Period size: 50 Copynumber: 2.1 Consensus size: 50
45177240 CTATCATCTC
* * ** *
45177250 CAATCTGTTTAACTGCAATGTCGAGGAAGTAAGATTCACCGTCATAGCTT
1 CAATCTATTTAACTGCAATGTCAAGGAAACAAAATTCACCGTCATAGCTT
* **
45177300 CAATCTATTTAATTGCAATGTCAAGGAAACAAAATTCACCGTTGTAGCTT
1 CAATCTATTTAACTGCAATGTCAAGGAAACAAAATTCACCGTCATAGCTT
45177350 CAATCT
1 CAATCT
45177356 GTTCCGCTGC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (50 bp):
CAATCTATTTAACTGCAATGTCAAGGAAACAAAATTCACCGTCATAGCTT
Found at i:45177387 original size:50 final size:49
Alignment explanation
Indices: 45177333--45177705 Score: 209
Period size: 50 Copynumber: 7.5 Consensus size: 49
45177323 AGGAAACAAA
* * * * *
45177333 ATTCACCGTTGTAGCTTCAATCTGTTCCGCTGCACCACCTGGAAAGTAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATCGCCTGGAAA-TGAG
* * * ** * *
45177383 ATTCACC-TTAGTAGCTTCAATATTTTGAATTGCAAT-G-TTGGAGAAGTGAG
1 ATTCGCCGTT-GTAGCTTCAATCTGTTCCACTGC-ATCGCCTGGA-AA-TGAG
* * * *
45177433 ATTCGCCATCGTAGCTTCAATCTGTTCCACTGCATCACTCGGGAAATGAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATCGC-CTGGAAATGAG
* * ** * * *
45177483 ATTTGCCGTTGT-GACTTCAATCTTTTGAATTGCAAT-GTCGGGAAAGTGAG
1 ATTCGCCGTTGTAG-CTTCAATCTGTTCCACTGC-ATCGCCTGGAAA-TGAG
* * * *
45177533 ATTCGCCGTCGTAGCTTCAATTTGTTCCGCTGCATCGCCTAGGAAATAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATCGCCT-GGAAATGAG
* * * * ** * *
45177583 ATTCGCCATTGTGGCTTCGATCTTTTAAACTGCAAT-GTCGGGAAAATGAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGC-ATCGCCTGG-AAATGAG
* * * *
45177633 ATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATTGCCTAGGAAATAAG
1 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATCGCCT-GGAAATGAG
* * *
45177683 ATTCACCGTTGTGGCTTCGATCT
1 ATTCGCCGTTGTAGCTTCAATCT
45177706 TTTTAAACTA
Statistics
Matches: 239, Mismatches: 67, Indels: 34
0.70 0.20 0.10
Matches are distributed among these distances:
49 22 0.09
50 198 0.83
51 16 0.07
52 3 0.01
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (49 bp):
ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATCGCCTGGAAATGAG
Found at i:45177447 original size:100 final size:98
Alignment explanation
Indices: 45177333--45177906 Score: 598
Period size: 100 Copynumber: 5.8 Consensus size: 98
45177323 AGGAAACAAA
* * * *
45177333 ATTCACCGTTGTAGCTTCAATCTGTTCCGCTGCACCACCTGGAAAGTAAGATTCACC-TTAGTAG
1 ATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCACCTGGAAA-TAAGATTCACCGTT-GTGG
* *
45177397 CTTCAATATTTTGAATTGCAATGTTGGAGAAGTGAG
64 CTTCGATATTTTGAATTGCAATGTCGG-GAAGTGAG
* * * * ** *
45177433 ATTCGCCATCGTAGCTTCAATCTGTTCCACTGCATCACTCGGGAAATGAGATTTGCCGTTGTGAC
1 ATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCAC-CTGGAAATAAGATTCACCGTTGTGGC
* *
45177498 TTCAATCTTTTGAATTGCAATGTCGGGAAAGTGAG
65 TTCGATATTTTGAATTGCAATGTCGGG-AAGTGAG
* * * *
45177533 ATTCGCCGTCGTAGCTTCAATTTGTTCCGCTGCATCGCCTAGGAAATAAGATTCGCCATTGTGGC
1 ATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCACCT-GGAAATAAGATTCACCGTTGTGGC
* * * *
45177598 TTCGATCTTTTAAACTGCAATGTCGGGAAAATGAG
65 TTCGATATTTTGAATTGCAATGTCGGG-AAGTGAG
**
45177633 ATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATTGCCTAGGAAATAAGATTCACCGTTGTGGC
1 ATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCACCT-GGAAATAAGATTCACCGTTGTGGC
* * * * **
45177698 TTCGATCTTTTTAAACTACAATGTCTTAGAAGTGAG
65 TTCGAT-ATTTTGAATTGCAATGTC-GGGAAGTGAG
* * * **
45177734 ATTCACCGTCGTAGCTCCAATTTGTTCCGCTGCATCGTCTGGGAGAA-AA-ATTCACCGTTGTGG
1 ATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCACCT-GGA-AATAAGATTCACCGTTGTGG
**
45177797 CTTCGATATTTTGAATTGCAATGTCGGGGAAGCAAG
64 CTTCGATATTTTGAATTGCAATGTC-GGGAAGTGAG
* * * * * *
45177833 ATTCGCTGTTGTAGCTTCAATTTGTTCCACTGCATCACCTAGAAGTAAGATTCACC-TTGTGGCT
1 ATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCACCTGGAAATAAGATTCACCGTTGTGGCT
*
45177897 TCGATCTTTT
66 TCGATATTTT
45177907 AAACTATTCC
Statistics
Matches: 405, Mismatches: 60, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
97 1 0.00
98 21 0.05
99 62 0.15
100 248 0.61
101 70 0.17
102 3 0.01
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (98 bp):
ATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCACCTGGAAATAAGATTCACCGTTGTGGCT
TCGATATTTTGAATTGCAATGTCGGGAAGTGAG
Found at i:45178041 original size:46 final size:46
Alignment explanation
Indices: 45177989--45179323 Score: 1788
Period size: 46 Copynumber: 29.2 Consensus size: 46
45177979 AAGATTCACC
*** * * *
45177989 ATCTTCGATCTCCTCCGCTGCTGGATACAAGAAGATAATATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
45178035 ACCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAATATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
45178081 ATCTTCGATCTCCTCTGCTGCCAAATATAGGAAGACAAGATCTGCC
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
45178127 ATCTTTGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
45178173 ATCTTCGATCTCCTCCACAGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * * *
45178219 ATCTTCGATCTCTTTCGCTGCCAAATACAGTAAGATAAGATCGGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * *
45178265 ATCTTCGATCTCCTTCACTACCAAATACAGGAAGATAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * *
45178311 ATTTTCGATCTCCTCCGCTGCCAAATACAAGAAGATAAGATCTGCC
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
45178357 ATCTTCGATCTCTTCCGCTGCCAAATACAGGAAGATAAGATCTACT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
45178403 ATCTTCGATCTCCTTCGCTACCAAATACAGCAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
45178449 ATCTTCGATCTCTTCCGCTGCCAAATACAGGAAAACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
45178495 ATCTTCGATCTCCTCCACTGCCCAAATACAGGAAGACAAGATCTACT
1 ATCTTCGATCTCCTCCGCTG-CCAAATACAGGAAGACAAGATCTGCT
* * *
45178542 ATCTTTGATCTACTCCGCTGCCAAATACAGGAAGACAAGATTTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * ** *
45178588 ATCTTTGATCTACTCTACTGCCAAATACAGGAAGATAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
45178634 ATCTTCGATCTACT-C-C-G-C---T--AGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
45178671 ATCTTCGATCTCTTCCACTGCCCAAATACAGTAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTG-CCAAATACAGGAAGACAAGATCTGCT
*
45178718 ATCTTCGATCTCCTCAGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
45178764 ATCTTTGATCTACTCCGCTGCCAAATACAGGAAGATAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
45178810 ATCTTCTATCTCCTCCGCTGCCAAATACAGGAACACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
45178856 ATCTTTGATCTACTCCGCTGCCAAATACAGGAAGATAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
45178902 ATCTTCGATCTACTCTGCTGCCAAATATAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
45178948 ATCTTCGATCTCCTCCCCTACCCAAATACAAGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCT-GCCAAATACAGGAAGACAAGATCTGCT
* *
45178995 ATCTTCGATCTTCTCCGCTGCCAAATGCAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
45179041 ATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * * * * * *
45179087 ATATTTGATTTACTCCGTTGCTAAATACAAGAAGATAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
45179133 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGATAAGATCTGCC
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
45179179 ATCTTCGATCTCCTCTGCTGCTAAATACAGGAAGACAAGATCTGAT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* ** **
45179225 ATCTTCGATCTTCTCTACTGCCAAATACAGGAAGACTGGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
45179271 ATCTTTGATCTCCTCCGCTGCCAAATATAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
45179317 ATCTTCG
1 ATCTTCG
45179324 TTGATCTGTT
Statistics
Matches: 1134, Mismatches: 143, Indels: 24
0.87 0.11 0.02
Matches are distributed among these distances:
37 29 0.03
38 1 0.00
39 2 0.00
40 1 0.00
42 2 0.00
43 1 0.00
44 1 0.00
45 1 0.00
46 980 0.86
47 116 0.10
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (46 bp):
ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
Found at i:45180553 original size:9 final size:9
Alignment explanation
Indices: 45180539--45180592 Score: 55
Period size: 9 Copynumber: 6.6 Consensus size: 9
45180529 CCATTTTTAC
45180539 TTTTTCATT
1 TTTTTCATT
45180548 TTTTTCA--
1 TTTTTCATT
45180555 TTTTTCA-T
1 TTTTTCATT
45180563 TTTTT--TT
1 TTTTTCATT
**
45180570 TCATTCATT
1 TTTTTCATT
45180579 TTTTTCATT
1 TTTTTCATT
45180588 TTTTT
1 TTTTT
45180593 TGTTTGACTC
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
7 11 0.30
8 5 0.14
9 21 0.57
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTTCATT
Found at i:45180558 original size:15 final size:15
Alignment explanation
Indices: 45180540--45180589 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
45180530 CATTTTTACT
45180540 TTTTCATTTTTTTCA
1 TTTTCATTTTTTTCA
45180555 TTTTTCATTTTTTT--
1 -TTTTCATTTTTTTCA
45180569 TTCATTCATTTTTTTCA
1 TT--TTCATTTTTTTCA
45180586 TTTT
1 TTTT
45180590 TTTTGTTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
13 2 0.07
15 13 0.43
16 13 0.43
17 2 0.07
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTCATTTTTTTCA
Found at i:45180580 original size:13 final size:11
Alignment explanation
Indices: 45180555--45180593 Score: 60
Period size: 11 Copynumber: 3.4 Consensus size: 11
45180545 ATTTTTTTCA
45180555 TTTTTCATTTT
1 TTTTTCATTTT
45180566 TTTTTCATTCATT
1 TTTTTCATT--TT
45180579 TTTTTCATTTT
1 TTTTTCATTTT
45180590 TTTT
1 TTTT
45180594 GTTTGACTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 15 0.58
13 11 0.42
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTCATTTT
Found at i:45181414 original size:19 final size:18
Alignment explanation
Indices: 45181387--45181438 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 18
45181377 CGCCTTGACC
45181387 TCTCATTTTTCTTTTCTTTT
1 TCTC-TTTTT-TTTTCTTTT
45181407 TCTCTTTTTTTTTTCTTTT
1 TCTC-TTTTTTTTTCTTTT
45181426 TCTCTTTTTTTTT
1 TCTCTTTTTTTTT
45181439 GATTTTTTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 9 0.29
19 13 0.42
20 9 0.29
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (18 bp):
TCTCTTTTTTTTTCTTTT
Found at i:45181438 original size:13 final size:13
Alignment explanation
Indices: 45181392--45181433 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
45181382 TGACCTCTCA
45181392 TTTT-TCTTTTCT
1 TTTTCTCTTTTCT
*
45181404 TTTTCTCTTTTTT
1 TTTTCTCTTTTCT
45181417 TTTTCT-TTTTCT
1 TTTTCTCTTTTCT
45181429 CTTTT
1 -TTTT
45181434 TTTTTGATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 9 0.35
13 17 0.65
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTCTCTTTTCT
Found at i:45181444 original size:8 final size:8
Alignment explanation
Indices: 45181433--45181470 Score: 60
Period size: 8 Copynumber: 4.8 Consensus size: 8
45181423 TTTTCTCTTT
45181433 TTTTTTGA
1 TTTTTTGA
45181441 TTTTTTG-
1 TTTTTTGA
45181448 TTTGTTTGA
1 TTT-TTTGA
45181457 TTTTTTGA
1 TTTTTTGA
45181465 TTTTTT
1 TTTTTT
45181471 TACTTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 3 0.11
8 22 0.79
9 3 0.11
ACGTcount: A:0.08, C:0.00, G:0.13, T:0.79
Consensus pattern (8 bp):
TTTTTTGA
Found at i:45181444 original size:19 final size:19
Alignment explanation
Indices: 45181403--45181445 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
45181393 TTTTCTTTTC
**
45181403 TTTTTCTCTTTTTTTTTTC
1 TTTTTCTCTTTTTTTTTGA
45181422 TTTTTCTCTTTTTTTTTGA
1 TTTTTCTCTTTTTTTTTGA
45181441 TTTTT
1 TTTTT
45181446 TGTTTGTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.84
Consensus pattern (19 bp):
TTTTTCTCTTTTTTTTTGA
Found at i:45181480 original size:12 final size:11
Alignment explanation
Indices: 45181392--45181491 Score: 51
Period size: 11 Copynumber: 9.2 Consensus size: 11
45181382 TGACCTCTCA
* *
45181392 TTTTTCTTTTC
1 TTTTTATTTTT
* *
45181403 TTTTTCTCTTT
1 TTTTTATTTTT
*
45181414 TTTTT-TTCTT
1 TTTTTATTTTT
* *
45181424 TTTCTCTTTTT
1 TTTTTATTTTT
*
45181435 TTTTGATTTTT
1 TTTTTATTTTT
* * **
45181446 TGTTTGTTTGA
1 TTTTTATTTTT
**
45181457 TTTTT-TGATT
1 TTTTTATTTTT
45181467 TTTTTACTTTTT
1 TTTTTA-TTTTT
45181479 TTTTTATTTTT
1 TTTTTATTTTT
45181490 TT
1 TT
45181492 ATTTTTCTTT
Statistics
Matches: 65, Mismatches: 21, Indels: 6
0.71 0.23 0.07
Matches are distributed among these distances:
10 13 0.20
11 43 0.66
12 9 0.14
ACGTcount: A:0.05, C:0.08, G:0.05, T:0.82
Consensus pattern (11 bp):
TTTTTATTTTT
Found at i:45185050 original size:109 final size:110
Alignment explanation
Indices: 45184850--45185157 Score: 390
Period size: 110 Copynumber: 2.8 Consensus size: 110
45184840 GAAATTCGAG
* * * * * * * * *
45184850 AGGATATTTGGCTATTTGGTTAAACGAG--AAATTGAAACCCAGCACCTTAGGGTACG-TTCCAC
1 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
* * * *
45184912 AAAATTCCAAACACAAAACATTGCTTTATTTTGAAA-TTTTTAAA
66 AAATTTCCAAACGCAAAACATTGCCTTATTTTAAAATTTTTTAAA
*
45184956 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
* *
45185021 GAATTTCCAAATGCAAAACATTGCCTTATTTTAAAATTTTTTAAA
66 AAATTTCCAAACGCAAAACATTGCCTTATTTTAAAATTTTTTAAA
* * *
45185066 AGGATATTAAGCCATTTGGTTGAACGAGAAAAATCGACACCTAGCACCTTAGGGCATGTCTTCTC
1 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
* *
45185131 AAATTTCCCAAACGCTAAATATTGCCT
66 AAATTT-CCAAACGCAAAACATTGCCT
45185158 CAATTAGAAA
Statistics
Matches: 173, Mismatches: 24, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
106 24 0.14
108 24 0.14
109 34 0.20
110 74 0.43
111 17 0.10
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (110 bp):
AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
AAATTTCCAAACGCAAAACATTGCCTTATTTTAAAATTTTTTAAA
Found at i:45185236 original size:21 final size:18
Alignment explanation
Indices: 45185204--45185243 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
45185194 ATTTATATGC
45185204 ATAATGGAATAATAAACATG
1 ATAATGGAATAA-AAA-ATG
45185224 ATAATGTGAATAAAAAATG
1 ATAATG-GAATAAAAAATG
45185243 A
1 A
45185244 ACAAAAACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 9 0.47
21 6 0.32
ACGTcount: A:0.57, C:0.03, G:0.15, T:0.25
Consensus pattern (18 bp):
ATAATGGAATAAAAAATG
Found at i:45185565 original size:3 final size:3
Alignment explanation
Indices: 45185557--45185596 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
45185547 ATATAAAAGC
*
45185557 AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
45185597 TGAAATTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:45187720 original size:42 final size:42
Alignment explanation
Indices: 45187666--45187765 Score: 173
Period size: 42 Copynumber: 2.4 Consensus size: 42
45187656 GCTCTCGGTA
*
45187666 TCGCACACTTAGTGCCCGTTATTCAACATCATCATTTTAATT
1 TCGCACACTTAGTGCCCATTATTCAACATCATCATTTTAATT
* *
45187708 TCGCACACTTAGTGCCCATTATTCAACATCGTCATTTTAGTT
1 TCGCACACTTAGTGCCCATTATTCAACATCATCATTTTAATT
45187750 TCGCACACTTAGTGCC
1 TCGCACACTTAGTGCC
45187766 ATTCATATAG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.24, C:0.28, G:0.12, T:0.36
Consensus pattern (42 bp):
TCGCACACTTAGTGCCCATTATTCAACATCATCATTTTAATT
Found at i:45199029 original size:3 final size:3
Alignment explanation
Indices: 45199021--45199102 Score: 55
Period size: 3 Copynumber: 27.3 Consensus size: 3
45199011 TATGCGTAGG
* *
45199021 ATA ATA ATA ATA TATC AT- ATA ATA ATA ATA A-A CTA ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
45199065 CAGTA ATA GA-A ATA ATA TTA ACA ATA TTA ATA A-A ATA A
1 -A-TA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
45199103 ACTAAAAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 16
0.71 0.10 0.18
Matches are distributed among these distances:
2 6 0.10
3 49 0.79
4 5 0.08
5 2 0.03
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:45200534 original size:43 final size:43
Alignment explanation
Indices: 45200428--45200786 Score: 285
Period size: 43 Copynumber: 8.6 Consensus size: 43
45200418 CCTCAGTCTG
* * * *
45200428 CTCCACTGCAACTTCAAGGAGATAAGA-CT-TGATGTGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTAATCTA
* * ** *
45200469 CT-CTCTGCAACCTCAGAAAGATAAGATCTGTGATTTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTAATCTA
* * *
45200511 CTCCACTGCAACTTCAGGGAGATAGGAT-TG-GTTCTTCAGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGAT-TT-AATCTA
* * *
45200554 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATATGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTAATCTA
* * * * * *
45200595 CT-CTCTACAACCTCAGAGAGATAAGATCTGTGACTTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTAATCTA
* * * *
45200637 CTCCACTACAACTTCAGGGAGATAGGAT-TG-GTTCTTCAGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGAT-TT-AATCTA
* * * * *
45200680 CTCCACTACAACTTCAGGGAGATAAGA-CT-TGATGTGATTTT
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTAATCTA
* * * *
45200721 CT-CTCTGCAACCTCAGAGAGATAAGATCTGTGATTTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTAATCTA
45200763 CTCCACTGCAACTTCAGGGAGATA
1 CTCCACTGCAACTTCAGGGAGATA
45200787 GGATTGGTTC
Statistics
Matches: 242, Mismatches: 59, Indels: 32
0.73 0.18 0.10
Matches are distributed among these distances:
40 59 0.24
41 20 0.08
42 38 0.16
43 125 0.52
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.28
Consensus pattern (43 bp):
CTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTAATCTA
Found at i:45200592 original size:126 final size:126
Alignment explanation
Indices: 45200290--45200799 Score: 768
Period size: 126 Copynumber: 4.0 Consensus size: 126
45200280 GGAATTAATG
* * * * * * *
45200290 CTTCAATCCACTCCACTGTAACTTTAAGGAGATAGGACTTGATGGGATCTGTTCTCTGCAACCTC
1 CTTCAGTCTACTCCACTGCAACTTCAAGGAGATAAGACTTGATGTGATCTGCTCTCTGCAACCTC
* * * * * *
45200355 AGAAAGATAAGATCTATGGTTTTAATCCGCTCCACTGCGACCTCAGGGAGATAGGATTTGGGT
66 AGAAAGATAAGATCTGT-GATTTAATCCACTCCACTGCAACTTCAGGGAGATAGGA-TTGGTT
* *
45200418 CCTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGATGTGATCTGCTCTCTGCAACCTC
1 CTTCAGTCTACTCCACTGCAACTTCAAGGAGATAAGACTTGATGTGATCTGCTCTCTGCAACCTC
45200483 AGAAAGATAAGATCTGTGATTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTGGTT
66 AGAAAGATAAGATCTGTGATTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTGGTT
* * *
45200544 CTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGATATGATCTGCTCTCTACAACCTC
1 CTTCAGTCTACTCCACTGCAACTTCAAGGAGATAAGACTTGATGTGATCTGCTCTCTGCAACCTC
* * *
45200609 AGAGAGATAAGATCTGTGACTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTGGTT
66 AGAAAGATAAGATCTGTGATTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTGGTT
* * * *
45200670 CTTCAGTCTACTCCACTACAACTTCAGGGAGATAAGACTTGATGTGATTTTCTCTCTGCAACCTC
1 CTTCAGTCTACTCCACTGCAACTTCAAGGAGATAAGACTTGATGTGATCTGCTCTCTGCAACCTC
*
45200735 AGAGAGATAAGATCTGTGATTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTGGTT
66 AGAAAGATAAGATCTGTGATTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTGGTT
45200796 CTTC
1 CTTC
45200800 GGTTTGTTCT
Statistics
Matches: 352, Mismatches: 30, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
126 246 0.70
127 34 0.10
128 72 0.20
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (126 bp):
CTTCAGTCTACTCCACTGCAACTTCAAGGAGATAAGACTTGATGTGATCTGCTCTCTGCAACCTC
AGAAAGATAAGATCTGTGATTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTGGTT
Found at i:45205521 original size:25 final size:25
Alignment explanation
Indices: 45205488--45205552 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 25
45205478 ATTATGAAAT
*
45205488 GAATAAAAGAATGATGTA-GAAAAAA
1 GAATAAAAGAATAAT-TACGAAAAAA
45205513 GAATAAAAGAATAATTACTCGAAAAAA
1 GAATAAAAGAATAATTA--CGAAAAAA
45205540 GAATAAAAGAATA
1 GAATAAAAGAATA
45205553 CTGGCTCAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
24 2 0.06
25 14 0.39
27 20 0.56
ACGTcount: A:0.65, C:0.03, G:0.15, T:0.17
Consensus pattern (25 bp):
GAATAAAAGAATAATTACGAAAAAA
Found at i:45205564 original size:27 final size:27
Alignment explanation
Indices: 45205507--45205564 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
45205497 AATGATGTAG
* *
45205507 AAAAAAGAATAAAAGAATAATTACTCG
1 AAAAAAGAATAAAAGAATAATGACTCA
* *
45205534 AAAAAAGAATAAAAGAATACTGGCTCA
1 AAAAAAGAATAAAAGAATAATGACTCA
45205561 AAAA
1 AAAA
45205565 TGCATACGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.64, C:0.09, G:0.12, T:0.16
Consensus pattern (27 bp):
AAAAAAGAATAAAAGAATAATGACTCA
Found at i:45216897 original size:3 final size:3
Alignment explanation
Indices: 45216889--45216926 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
45216879 TATCACATAA
45216889 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
45216927 ATATATATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:45217361 original size:15 final size:15
Alignment explanation
Indices: 45217341--45217375 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
45217331 TAGATTTAGG
45217341 ATCAAGTTC-AATCGA
1 ATCAAG-TCGAATCGA
45217356 ATCAAGTCGAATCGA
1 ATCAAGTCGAATCGA
45217371 ATCAA
1 ATCAA
45217376 TTGAGAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 2 0.11
15 17 0.89
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.23
Consensus pattern (15 bp):
ATCAAGTCGAATCGA
Found at i:45217787 original size:20 final size:20
Alignment explanation
Indices: 45217750--45217812 Score: 78
Period size: 19 Copynumber: 3.3 Consensus size: 20
45217740 TAAAATTTGA
* *
45217750 AATTTTTATAAA-TATTTTG
1 AATTTTTAAAAATTATTTTT
*
45217769 AA-TTTTAAAATTTATTTTT
1 AATTTTTAAAAATTATTTTT
45217788 AATTTTTAAAAATTA-TTTT
1 AATTTTTAAAAATTATTTTT
45217807 AATTTT
1 AATTTT
45217813 CTTGTAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
18 7 0.18
19 20 0.53
20 11 0.29
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
AATTTTTAAAAATTATTTTT
Found at i:45218156 original size:26 final size:26
Alignment explanation
Indices: 45218101--45218167 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 26
45218091 GAATTATAAA
* * *
45218101 TTTTTACTTATTAATTTGGGTTTGGG
1 TTTTTATTTTTTAATTTGGGTATGGG
45218127 -TTTTATTTTTTATATTTGGG-ATGGG
1 TTTTTATTTTTTA-ATTTGGGTATGGG
45218152 TTTTTAGTTTATTTAA
1 TTTTTA-TTT-TTTAA
45218168 AAAAATATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
25 14 0.41
26 12 0.35
27 4 0.12
28 4 0.12
ACGTcount: A:0.18, C:0.01, G:0.19, T:0.61
Consensus pattern (26 bp):
TTTTTATTTTTTAATTTGGGTATGGG
Found at i:45218427 original size:16 final size:16
Alignment explanation
Indices: 45218406--45218454 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
45218396 CGTTTGGTTC
45218406 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
45218422 GCTGTAATGAAATAGAA
1 GCTGTAATGGAATAG-A
*
45218439 AC-GTAATGGAATAGA
1 GCTGTAATGGAATAGA
45218454 G
1 G
45218455 GCGTAATAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
15 1 0.04
16 25 0.89
17 2 0.07
ACGTcount: A:0.43, C:0.06, G:0.29, T:0.22
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:45218459 original size:16 final size:15
Alignment explanation
Indices: 45218409--45218461 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 15
45218399 TTGGTTCGCT
45218409 GTAATGGAATAGAGC
1 GTAATGGAATAGAGC
* *
45218424 TGTAATGAAATAGAAAC
1 -GTAATGGAATAG-AGC
45218441 GTAATGGAATAGAGGC
1 GTAATGGAATAGA-GC
45218457 GTAAT
1 GTAAT
45218462 AGGTAATCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
15 1 0.03
16 28 0.90
17 2 0.06
ACGTcount: A:0.43, C:0.06, G:0.28, T:0.23
Consensus pattern (15 bp):
GTAATGGAATAGAGC
Found at i:45218496 original size:46 final size:44
Alignment explanation
Indices: 45218443--45218536 Score: 134
Period size: 44 Copynumber: 2.1 Consensus size: 44
45218433 ATAGAAACGT
* *
45218443 AATGGAATAGAGGCGTAATAGGTAATCCTTTTGTTTGGTTGAATGA
1 AATGGAATAAAGGCGTAATA-GT-ATCCTTGTGTTTGGTTGAATGA
* *
45218489 AATGGAATAAAGGCGTAATAGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAAAGGCGTAATAGTATCCTTGTGTTTGGTTGAATGA
45218533 AATG
1 AATG
45218537 ATGTTGTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 23 0.52
45 2 0.05
46 19 0.43
ACGTcount: A:0.31, C:0.05, G:0.29, T:0.35
Consensus pattern (44 bp):
AATGGAATAAAGGCGTAATAGTATCCTTGTGTTTGGTTGAATGA
Found at i:45218657 original size:21 final size:22
Alignment explanation
Indices: 45218642--45218686 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
45218632 TAATAAGATT
45218642 TTTAAT-ATAAATAATAAATAA
1 TTTAATCATAAATAATAAATAA
*
45218663 TTTAATCATATATAATAAATAA
1 TTTAATCATAAATAATAAATAA
45218685 TT
1 TT
45218687 ATTATTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
TTTAATCATAAATAATAAATAA
Found at i:45218725 original size:28 final size:29
Alignment explanation
Indices: 45218648--45218850 Score: 97
Period size: 28 Copynumber: 6.9 Consensus size: 29
45218638 GATTTTTAAT
* *
45218648 ATAAATAATAAATAATTTAATCAT-ATATA
1 ATAAATAATATATAATTTAAT-ATAATTTA
* *
45218677 ATAAATAAT-TATTATTAAATATAATTTA
1 ATAAATAATATATAATTTAATATAATTTA
*
45218705 ATAAA-AATATATAATTTAATAAAATTCTTA
1 ATAAATAATATATAATTTAATATAA-T-TTA
*
45218735 AT-ATTAA-ATAT--TCTT-ATATGAATTTA
1 ATAAATAATATATAAT-TTAATAT-AATTTA
*
45218761 CTAAAATCATAATATATAATACTATAAAATATAATTT-
1 --ATAA--ATAATATATAAT--T-T--AATATAATTTA
* *
45218798 A-AAATAAT-TATTATTAAATATAATTTA
1 ATAAATAATATATAATTTAATATAATTTA
* *
45218825 ATAAA-AATATATAATTTGATAAAATT
1 ATAAATAATATATAATTTAATATAATT
45218851 CTTAGTATTA
Statistics
Matches: 134, Mismatches: 17, Indels: 47
0.68 0.09 0.24
Matches are distributed among these distances:
26 13 0.10
27 14 0.10
28 50 0.37
29 17 0.13
30 7 0.05
31 8 0.06
32 9 0.07
34 3 0.02
35 3 0.02
36 1 0.01
38 5 0.04
39 4 0.03
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (29 bp):
ATAAATAATATATAATTTAATATAATTTA
Found at i:45218780 original size:61 final size:60
Alignment explanation
Indices: 45218710--45218910 Score: 212
Period size: 61 Copynumber: 3.3 Consensus size: 60
45218700 ATTTAATAAA
45218710 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATTT-ATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
* * * * * * ** * *
45218771 AATATATAATACTATAAAA-T-ATAAT-TTAAAATAATTATTAT-TAAATATAATTTAATAAA
1 AATATATAAT-TTATAAAATTCTTAATATT-AAAT-ATTCTTATATGAATTTACTAAAATCAT
*
45218830 AATATATAATTTGATAAAATTCTTAGTATTAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATTT-ATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
*
45218891 AATATATAATACTATAAAAT
1 AATATATAAT-TTATAAAAT
45218911 ATAATTTAAA
Statistics
Matches: 109, Mismatches: 22, Indels: 18
0.73 0.15 0.12
Matches are distributed among these distances:
58 3 0.03
59 35 0.32
60 16 0.15
61 51 0.47
62 4 0.04
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (60 bp):
AATATATAATTTATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
Found at i:45218823 original size:120 final size:120
Alignment explanation
Indices: 45218679--45218944 Score: 514
Period size: 120 Copynumber: 2.2 Consensus size: 120
45218669 CATATATAAT
45218679 AAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAAT
1 AAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAAT
45218744 ATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTA
66 ATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTA
* *
45218799 AAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTGATAAAATTCTTAGTATTAAAT
1 AAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAAT
45218864 ATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTA
66 ATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTA
45218919 AAATAATTATTATTAAATATAATTTA
1 AAATAATTATTATTAAATATAATTTA
45218945 TAATCTACTT
Statistics
Matches: 144, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 144 1.00
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (120 bp):
AAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAAT
ATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTA
Done.