Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 2 of 145
Found at i:561706 original size:75 final size:75
Alignment explanation
Indices: 561583--561783 Score: 402
Period size: 75 Copynumber: 2.7 Consensus size: 75
561573 TTGGCTGAGA
561583 ATTTTTTTTTGCAGAGTTTTCCGTTCGTATATGGGAACTAATGAATTTCAACAAGTATATGTATA
1 ATTTTTTTTTGCAGAGTTTTCCGTTCGTATATGGGAACTAATGAATTTCAACAAGTATATGTATA
561648 TATATATATT
66 TATATATATT
561658 ATTTTTTTTTGCAGAGTTTTCCGTTCGTATATGGGAACTAATGAATTTCAACAAGTATATGTATA
1 ATTTTTTTTTGCAGAGTTTTCCGTTCGTATATGGGAACTAATGAATTTCAACAAGTATATGTATA
561723 TATATATATT
66 TATATATATT
561733 ATTTTTTTTTGCAGAGTTTTCCGTTCGTATATGGGAACTAATGAATTTCAA
1 ATTTTTTTTTGCAGAGTTTTCCGTTCGTATATGGGAACTAATGAATTTCAA
561784 GAAAAAAAAA
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 126 1.00
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.45
Consensus pattern (75 bp):
ATTTTTTTTTGCAGAGTTTTCCGTTCGTATATGGGAACTAATGAATTTCAACAAGTATATGTATA
TATATATATT
Found at i:577629 original size:30 final size:30
Alignment explanation
Indices: 577598--577695 Score: 110
Period size: 29 Copynumber: 3.3 Consensus size: 30
577588 AGGGCTGAAG
*
577598 TGTAATTTTGAGAAAGTTTAGGGGTCAAAG
1 TGTAATTTTGAGAAAGTTTAGGGGTCAAAA
* * *
577628 TGTAA-TATGAGGAAAGTTAAAGGGTCAAAA
1 TGTAATTTTGA-GAAAGTTTAGGGGTCAAAA
* *
577658 TATAATTTTG-GGAAGTTTAGGGGTCAAAA
1 TGTAATTTTGAGAAAGTTTAGGGGTCAAAA
*
577687 TGCAATTTT
1 TGTAATTTT
577696 TTTAAAAACA
Statistics
Matches: 55, Mismatches: 11, Indels: 5
0.77 0.15 0.07
Matches are distributed among these distances:
29 27 0.49
30 25 0.45
31 3 0.05
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.33
Consensus pattern (30 bp):
TGTAATTTTGAGAAAGTTTAGGGGTCAAAA
Found at i:577638 original size:29 final size:30
Alignment explanation
Indices: 577595--577695 Score: 107
Period size: 30 Copynumber: 3.4 Consensus size: 30
577585 TCTAGGGCTG
577595 AAGTGTAATTTTGAGAAAGTTTAGGGGTCA
1 AAGTGTAATTTTGAGAAAGTTTAGGGGTCA
* * *
577625 AAGTGTAA-TATGAGGAAAGTTAAAGGGTCA
1 AAGTGTAATTTTGA-GAAAGTTTAGGGGTCA
* * *
577655 AAATATAATTTTG-GGAAGTTTAGGGGTCA
1 AAGTGTAATTTTGAGAAAGTTTAGGGGTCA
* *
577684 AAATGCAATTTT
1 AAGTGTAATTTT
577696 TTTAAAAACA
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
29 27 0.47
30 28 0.48
31 3 0.05
ACGTcount: A:0.38, C:0.04, G:0.27, T:0.32
Consensus pattern (30 bp):
AAGTGTAATTTTGAGAAAGTTTAGGGGTCA
Found at i:586027 original size:2 final size:2
Alignment explanation
Indices: 586009--586046 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
585999 GAATAGAAGC
* *
586009 TA TA TA CA TA TA CA 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 TA TA TA TA TA TA
586047 AACACACACA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:590057 original size:17 final size:17
Alignment explanation
Indices: 590035--590072 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
590025 CTCAACCAAC
590035 AAATCTACCTTAATTTT
1 AAATCTACCTTAATTTT
*
590052 AAATCTACTTTAATTTT
1 AAATCTACCTTAATTTT
590069 AAAT
1 AAAT
590073 GGAAAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATCTACCTTAATTTT
Found at i:593491 original size:19 final size:16
Alignment explanation
Indices: 593455--593487 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
593445 AAAAAAACAC
593455 TAAGCTTAATTTATCA
1 TAAGCTTAATTTATCA
593471 TAAGCTTAATTTATCA
1 TAAGCTTAATTTATCA
593487 T
1 T
593488 CATATGTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.45
Consensus pattern (16 bp):
TAAGCTTAATTTATCA
Found at i:594357 original size:5 final size:6
Alignment explanation
Indices: 594341--594368 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
594331 ATAACGTAAA
594341 ATTTTT ATTTTT ATTTTT ATTTTT ATTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTT
594369 AATTTGGGTC
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:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
ATTTTT
Found at i:611467 original size:11 final size:11
Alignment explanation
Indices: 611430--611499 Score: 61
Period size: 11 Copynumber: 6.4 Consensus size: 11
611420 CAATAACAAT
611430 AAAATAGTAGC
1 AAAATAGTAGC
* *
611441 AAGATAGTAGT
1 AAAATAGTAGC
* *
611452 GAAATGGTAGC
1 AAAATAGTAGC
611463 AAAATAGTGAG-
1 AAAATAGT-AGC
* *
611474 AAAATAATAGG
1 AAAATAGTAGC
*
611485 AAAATAGCAGC
1 AAAATAGTAGC
611496 AAAA
1 AAAA
611500 CAATAAAAAA
Statistics
Matches: 45, Mismatches: 12, Indels: 4
0.74 0.20 0.07
Matches are distributed among these distances:
10 2 0.04
11 41 0.91
12 2 0.04
ACGTcount: A:0.54, C:0.06, G:0.23, T:0.17
Consensus pattern (11 bp):
AAAATAGTAGC
Found at i:613533 original size:77 final size:77
Alignment explanation
Indices: 613443--613599 Score: 269
Period size: 77 Copynumber: 2.0 Consensus size: 77
613433 TTTAAAAGTA
* * *
613443 CTGCACATTAAATTGCTTTGGAAAGTGAACAATGCAGAGAAATTTTAATTACATGTGAGGGGACC
1 CTGCACATTAAATTGCTTCGAAAAGTGAACAATGCAGAGAAATTTTAATTACATGTGAGAGGACC
613508 AGTCCCTTCTGC
66 AGTCCCTTCTGC
613520 CTGCACATTAAATTGCTTCGAAAAGTGAACAATGCAGAGAAATTTTAATTACATGTGAGAGGACC
1 CTGCACATTAAATTGCTTCGAAAAGTGAACAATGCAGAGAAATTTTAATTACATGTGAGAGGACC
**
613585 TTTCCCTTCTGC
66 AGTCCCTTCTGC
613597 CTG
1 CTG
613600 TAATTCTTTT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.29
Consensus pattern (77 bp):
CTGCACATTAAATTGCTTCGAAAAGTGAACAATGCAGAGAAATTTTAATTACATGTGAGAGGACC
AGTCCCTTCTGC
Found at i:614152 original size:21 final size:21
Alignment explanation
Indices: 614123--614164 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
614113 NNNNNNNTTG
*
614123 AAAAGGTAAGACATTTTCCCT
1 AAAAGGTAACACATTTTCCCT
* *
614144 AAAATGTAACCCATTTTCCCT
1 AAAAGGTAACACATTTTCCCT
614165 TGTTTTGGAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.31
Consensus pattern (21 bp):
AAAAGGTAACACATTTTCCCT
Found at i:615926 original size:26 final size:26
Alignment explanation
Indices: 615874--615928 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
615864 TAATAATTGT
* *
615874 ATCTAAAAAAACTCGAAACTCCTAAA
1 ATCTAAAAAAACTCCAAACTCCAAAA
*
615900 ATCTAAACTAAACTCCAAACT-CAAAA
1 ATCTAAA-AAAACTCCAAACTCCAAAA
615926 ATC
1 ATC
615929 AAGAAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.53, C:0.25, G:0.02, T:0.20
Consensus pattern (26 bp):
ATCTAAAAAAACTCCAAACTCCAAAA
Found at i:618794 original size:17 final size:18
Alignment explanation
Indices: 618772--618808 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
618762 TCCTTTATAC
618772 ATATATT-GA-ATTTCTAT
1 ATATATTAGATATTT-TAT
618789 ATATATTAGATATTTTAT
1 ATATATTAGATATTTTAT
618807 AT
1 AT
618809 TTTCTTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 7 0.39
19 4 0.22
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (18 bp):
ATATATTAGATATTTTAT
Found at i:618824 original size:7 final size:7
Alignment explanation
Indices: 618814--618839 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
618804 TATATTTTCT
618814 TTTTGAA
1 TTTTGAA
618821 TTTTGAA
1 TTTTGAA
618828 TTTTGAA
1 TTTTGAA
618835 TTTTG
1 TTTTG
618840 TTATAATGGA
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:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (7 bp):
TTTTGAA
Found at i:619038 original size:39 final size:40
Alignment explanation
Indices: 618995--619072 Score: 115
Period size: 39 Copynumber: 2.0 Consensus size: 40
618985 TAATATATAT
618995 ATATATATATATAACTAAT-TAAT-TTATTGAACTTTTTCC
1 ATATATATATATAACTAATAT-ATCTTATTGAACTTTTTCC
* *
619034 ATATATCTATATGACTAATATATCTTATTGAACTTTTTC
1 ATATATATATATAACTAATATATCTTATTGAACTTTTTC
619073 TAGGGTCGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
39 19 0.54
40 16 0.46
ACGTcount: A:0.36, C:0.12, G:0.04, T:0.49
Consensus pattern (40 bp):
ATATATATATATAACTAATATATCTTATTGAACTTTTTCC
Found at i:624703 original size:30 final size:30
Alignment explanation
Indices: 624669--624737 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 30
624659 TGAGTTTGTC
624669 GTTCAATTT-TATTCTTGAGTTT-GCTTCAAT
1 GTTCAATTTGTA-TC-TGAGTTTGGCTTCAAT
*
624699 GTTCAATTTGGTATCTGAGTTTGGCTTTAAT
1 GTTCAATTT-GTATCTGAGTTTGGCTTCAAT
624730 GTTCAATT
1 GTTCAATT
624738 CGATACCTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
30 16 0.46
31 17 0.49
32 2 0.06
ACGTcount: A:0.20, C:0.12, G:0.17, T:0.51
Consensus pattern (30 bp):
GTTCAATTTGTATCTGAGTTTGGCTTCAAT
Found at i:624748 original size:31 final size:30
Alignment explanation
Indices: 624684--624749 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 30
624674 ATTTTATTCT
* * *
624684 TGAGTTTGCTTCAATGTTCAATTTGGTATC
1 TGAGTTTGCTTCAATGTTCAATTCGATACC
*
624714 TGAGTTTGGCTTTAATGTTCAATTCGATACC
1 TGAGTTT-GCTTCAATGTTCAATTCGATACC
624745 TGAGT
1 TGAGT
624750 GTTTTTGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 7 0.23
31 24 0.77
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.44
Consensus pattern (30 bp):
TGAGTTTGCTTCAATGTTCAATTCGATACC
Found at i:629023 original size:20 final size:18
Alignment explanation
Indices: 628965--629038 Score: 69
Period size: 19 Copynumber: 4.0 Consensus size: 18
628955 TATTAAATTT
628965 TTTTATAAATTTTATAACA
1 TTTTATAAATTTTATAA-A
* * * *
628984 TGTTATGAATTTAATTAA
1 TTTTATAAATTTTATAAA
629002 TTTCTAATAAATTTTATAAA
1 TTT-T-ATAAATTTTATAAA
*
629022 TTTTA-AAATTTTTTAAA
1 TTTTATAAATTTTATAAA
629039 ATAAGTAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
17 11 0.25
18 4 0.09
19 15 0.34
20 14 0.32
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTTATAAATTTTATAAA
Found at i:629032 original size:8 final size:9
Alignment explanation
Indices: 628965--629038 Score: 69
Period size: 9 Copynumber: 8.0 Consensus size: 9
628955 TATTAAATTT
628965 TTTTATAAA
1 TTTTATAAA
628974 TTTTATAACA
1 TTTTATAA-A
* *
628984 TGTTATGAA
1 TTTTATAAA
* *
628993 TTTAATTAA
1 TTTTATAAA
629002 TTTCTAATAAA
1 TTT-T-ATAAA
629013 TTTTATAAA
1 TTTTATAAA
629022 TTTTA-AAA
1 TTTTATAAA
*
629030 TTTTTTAAA
1 TTTTATAAA
629039 ATAAGTAAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
8 7 0.13
9 31 0.58
10 8 0.15
11 7 0.13
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (9 bp):
TTTTATAAA
Found at i:629107 original size:18 final size:17
Alignment explanation
Indices: 629084--629142 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 17
629074 GATATGTGGC
629084 AAAAAATGACAAAAAA-AT
1 AAAAAAT-A-AAAAAATAT
629102 AAAAAATAAAAAAATAT
1 AAAAAATAAAAAAATAT
*
629119 ATAAAAATTATAAAAATTAT
1 A-AAAAA-TA-AAAAAATAT
629139 AAAA
1 AAAA
629143 TTTTCTGATT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
16 6 0.17
17 4 0.11
18 12 0.33
19 5 0.14
20 9 0.25
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (17 bp):
AAAAAATAAAAAAATAT
Found at i:629122 original size:19 final size:18
Alignment explanation
Indices: 629100--629142 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
629090 TGACAAAAAA
629100 ATAAAAAATAAAAAAATAT
1 ATAAAAAATAAAAAAAT-T
* *
629119 ATAAAAATTATAAAAATT
1 ATAAAAAATAAAAAAATT
629137 ATAAAA
1 ATAAAA
629143 TTTTCTGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
ATAAAAAATAAAAAAATT
Found at i:629144 original size:8 final size:9
Alignment explanation
Indices: 629100--629142 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
629090 TGACAAAAAA
*
629100 ATAAAAAAT
1 ATAAAAATT
*
629109 AAAAAAATAT
1 ATAAAAAT-T
629119 ATAAAAATT
1 ATAAAAATT
629128 ATAAAAATT
1 ATAAAAATT
629137 ATAAAA
1 ATAAAA
629143 TTTTCTGATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
9 22 0.73
10 8 0.27
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (9 bp):
ATAAAAATT
Found at i:629213 original size:20 final size:22
Alignment explanation
Indices: 629176--629215 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
629166 AATTATTTTT
*
629176 TTATAAAATTTTATAATTTTAA
1 TTATAAAATTATATAATTTTAA
629198 TTAT-AAATTATA-AATTTT
1 TTATAAAATTATATAATTTT
629216 TAATAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 7 0.41
22 4 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTATAAAATTATATAATTTTAA
Found at i:629230 original size:29 final size:28
Alignment explanation
Indices: 629176--629232 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
629166 AATTATTTTT
629176 TTATAAAATTTTATAATTTTAATTATAAA
1 TTATAAAATTTTATAATTTT-ATTATAAA
*
629205 TTATAAATTTTTAATAAATTTT-TTATAA
1 TTATAAAATTTT-AT-AATTTTATTATAA
629233 TTCCAGAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 17 0.68
30 2 0.08
31 6 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
TTATAAAATTTTATAATTTTATTATAAA
Found at i:630349 original size:9 final size:9
Alignment explanation
Indices: 630335--630359 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
630325 GCAAAGAGCA
630335 AAGATGATG
1 AAGATGATG
630344 AAGATGATG
1 AAGATGATG
630353 AAGATGA
1 AAGATGA
630360 AAATAGGCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.32, T:0.20
Consensus pattern (9 bp):
AAGATGATG
Found at i:632907 original size:20 final size:18
Alignment explanation
Indices: 632849--632922 Score: 69
Period size: 19 Copynumber: 4.0 Consensus size: 18
632839 TATTAAATTT
632849 TTTTATAAATTTTATAACA
1 TTTTATAAATTTTATAA-A
* * * *
632868 TGTTATGAATTTAATTAA
1 TTTTATAAATTTTATAAA
632886 TTTCTAATAAATTTTATAAA
1 TTT-T-ATAAATTTTATAAA
*
632906 TTTTA-AAATTTTTTAAA
1 TTTTATAAATTTTATAAA
632923 ATTCCAAAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
17 11 0.25
18 4 0.09
19 15 0.34
20 14 0.32
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTTATAAATTTTATAAA
Found at i:632916 original size:8 final size:9
Alignment explanation
Indices: 632849--632922 Score: 69
Period size: 9 Copynumber: 8.0 Consensus size: 9
632839 TATTAAATTT
632849 TTTTATAAA
1 TTTTATAAA
632858 TTTTATAACA
1 TTTTATAA-A
* *
632868 TGTTATGAA
1 TTTTATAAA
* *
632877 TTTAATTAA
1 TTTTATAAA
632886 TTTCTAATAAA
1 TTT-T-ATAAA
632897 TTTTATAAA
1 TTTTATAAA
632906 TTTTA-AAA
1 TTTTATAAA
*
632914 TTTTTTAAA
1 TTTTATAAA
632923 ATTCCAAAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
8 7 0.13
9 31 0.58
10 8 0.15
11 7 0.13
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (9 bp):
TTTTATAAA
Found at i:635065 original size:16 final size:17
Alignment explanation
Indices: 635035--635067 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
635025 ATTTATGTCC
*
635035 TTTTAAAATTTATAAAA
1 TTTTAAAATTAATAAAA
635052 TTTT-AAATTAATAAAA
1 TTTTAAAATTAATAAAA
635068 GTAAAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TTTTAAAATTAATAAAA
Found at i:636062 original size:18 final size:18
Alignment explanation
Indices: 636039--636092 Score: 72
Period size: 21 Copynumber: 2.8 Consensus size: 18
636029 AGAATCTAAG
636039 TTGGATTCTCCATAAGCA
1 TTGGATTCTCCATAAGCA
*
636057 TTGGATTCTCACCCTTAAGCA
1 TTGGATTCT---CCATAAGCA
636078 TTGGATTCTCCATAA
1 TTGGATTCTCCATAA
636093 TCTCTAGCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
18 14 0.45
21 17 0.55
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (18 bp):
TTGGATTCTCCATAAGCA
Found at i:639627 original size:14 final size:14
Alignment explanation
Indices: 639605--639634 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
639595 AGAAAAATAG
639605 TTTTCTTTTTCTTT
1 TTTTCTTTTTCTTT
*
639619 TTTTTTTTTTCTTT
1 TTTTCTTTTTCTTT
639633 TT
1 TT
639635 AGTATCTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTTCTTTTTCTTT
Found at i:643273 original size:31 final size:31
Alignment explanation
Indices: 643237--643309 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
643227 CAAAATAGTT
*
643237 ACTGAACTATTC-GAAAGTTTTCATTTAAGTC
1 ACTGAACTATTCAG-AAGTTTTCATTCAAGTC
*
643268 ACTGAACTATTCAGAAGTTTTTATTCAAGTC
1 ACTGAACTATTCAGAAGTTTTCATTCAAGTC
*
643299 ACTAAACTATT
1 ACTGAACTATT
643310 ATAGTTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 37 0.97
32 1 0.03
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.38
Consensus pattern (31 bp):
ACTGAACTATTCAGAAGTTTTCATTCAAGTC
Found at i:665483 original size:114 final size:114
Alignment explanation
Indices: 665332--665878 Score: 893
Period size: 114 Copynumber: 4.8 Consensus size: 114
665322 TTTAAATCCT
* * *
665332 TGAGCATTAGCGGCGCTTTCCTAAAAACGCCGCTAAATCCCCGACAGCTCAGAAAACGGCGTCGT
1 TGAGCATTAGCGGCGCTTACCTAGAAACGCCACTAAATCCCCGACAGCTCAGAAAACGGCGTCGT
665397 TGGTCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCC
66 TGGTCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCC
*
665446 TGAGCGTTAGCGGCGCTTACCTAGAAACGCCACTAAATCCCCGACAGCTCAGAAAACGGCGTCGT
1 TGAGCATTAGCGGCGCTTACCTAGAAACGCCACTAAATCCCCGACAGCTCAGAAAACGGCGTCGT
665511 TGGTCTTAGGTATTTTTTGC-GCGCTTTCCCAAAAACGCCGCTAAAGCCC
66 TGGTCTTAGGTA-TTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCC
* *
665560 TAAGCATTAGCGGCGCTTACATAGAAACGCCACTAAATCCCCGACAGCTCAGAAAACGGCGTCGT
1 TGAGCATTAGCGGCGCTTACCTAGAAACGCCACTAAATCCCCGACAGCTCAGAAAACGGCGTCGT
*
665625 TGGTCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAATCCC
66 TGGTCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCC
* **
665674 TAAGCATTAGCGGCGCTTACCTAGAAACGCCACTAAATCCCCGATGGCTCAGAAAACGGCGTCGT
1 TGAGCATTAGCGGCGCTTACCTAGAAACGCCACTAAATCCCCGACAGCTCAGAAAACGGCGTCGT
* * * *
665739 TGGCCTTAGGTATTTTTGTGGCACTTTCCCAAAAACGCCGCTAAATCCC
66 TGGTCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCC
* * *
665788 TGAGCATTAGCGGCACTTACATAGAAACGCCACTAAATCCCCGAAAGCTCCA-AAAACGGCGTCG
1 TGAGCATTAGCGGCGCTTACCTAGAAACGCCACTAAATCCCCGACAGCT-CAGAAAACGGCGTCG
*
665852 TTGGGCTTAGGTA-TTTTGCGGCGCTTT
65 TTGGTCTTAGGTATTTTTGCGGCGCTTT
665879 TCTGGAAACG
Statistics
Matches: 408, Mismatches: 22, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
113 19 0.05
114 380 0.93
115 9 0.02
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (114 bp):
TGAGCATTAGCGGCGCTTACCTAGAAACGCCACTAAATCCCCGACAGCTCAGAAAACGGCGTCGT
TGGTCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCC
Found at i:676924 original size:27 final size:27
Alignment explanation
Indices: 676888--676941 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
676878 TTTAACTTGT
*
676888 CCCTCATTAAATTAGTATAGCCTTTTC
1 CCCTCATTAAATTAGTAAAGCCTTTTC
* *
676915 CCCTGATTAAATTAGTAAAGCTTTTTC
1 CCCTCATTAAATTAGTAAAGCCTTTTC
676942 TTTTTGGTCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CCCTCATTAAATTAGTAAAGCCTTTTC
Found at i:680241 original size:19 final size:19
Alignment explanation
Indices: 680202--680241 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
680192 TAAATTTTAT
*
680202 ATTTTTAAAAAAATTATAA
1 ATTTTTAAAAAAATTAAAA
680221 ATTTTT-AAAAAATCTAAAA
1 ATTTTTAAAAAAAT-TAAAA
680240 AT
1 AT
680242 ATATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (19 bp):
ATTTTTAAAAAAATTAAAA
Found at i:680254 original size:27 final size:27
Alignment explanation
Indices: 680210--680261 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
680200 ATATTTTTAA
**
680210 AAAAATTATAAATTTTTAA-AAAATCT
1 AAAAATTATAAAAATTTAATAAAATCT
680236 AAAAATATATAAAAATTTAATAAAAT
1 AAAAAT-TATAAAAATTTAATAAAAT
680262 AATAATTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 6 0.27
27 11 0.50
28 5 0.23
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (27 bp):
AAAAATTATAAAAATTTAATAAAATCT
Found at i:682046 original size:22 final size:20
Alignment explanation
Indices: 682009--682048 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
681999 TTATGTAAAA
*
682009 ATATATAGTATTTTAGATCT
1 ATATATAGTATATTAGATCT
682029 ATATGATAGATATATTAGAT
1 ATAT-ATAG-TATATTAGAT
682049 TAGTTTCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 4 0.24
22 9 0.53
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.45
Consensus pattern (20 bp):
ATATATAGTATATTAGATCT
Found at i:683465 original size:35 final size:34
Alignment explanation
Indices: 683416--683481 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
683406 AAACATTAAG
*
683416 TTTTGAGGGGTTTAATTAATAATTTTTAAAAAGGT
1 TTTTGAGGGATTTAA-TAATAATTTTTAAAAAGGT
* **
683451 TTTTTAGGGATTTAATAATTTTTTTTAAAAA
1 TTTTGAGGGATTTAATAATAATTTTTAAAAA
683482 AACTTAGTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
34 14 0.52
35 13 0.48
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (34 bp):
TTTTGAGGGATTTAATAATAATTTTTAAAAAGGT
Found at i:686825 original size:33 final size:30
Alignment explanation
Indices: 686756--686817 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
686746 ACTTATTTTA
686756 TTGTTAATTTTATTATTATTTTAAAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
* *
686786 TTGTTAATTTTGTTATTATTTTAGA-ACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
686815 TTG
1 TTG
686818 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.23
30 23 0.77
ACGTcount: A:0.29, C:0.03, G:0.10, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGACAT
Found at i:686865 original size:11 final size:11
Alignment explanation
Indices: 686845--686881 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
686835 ATTGTATTAT
*
686845 ATTATTTAAAA
1 ATTATATAAAA
686856 ATTATATAAAA
1 ATTATATAAAA
*
686867 ATAATATAAAA
1 ATTATATAAAA
686878 ATTA
1 ATTA
686882 ATTCTGGCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
ATTATATAAAA
Found at i:687393 original size:19 final size:20
Alignment explanation
Indices: 687371--687424 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
687361 AAAAATAATT
*
687371 TTTTTATAAAT-ATTTTGAA
1 TTTTTAAAAATCATTTTGAA
687390 -TTTTAAAAATCATTTTGAA
1 TTTTTAAAAATCATTTTGAA
* *
687409 TTTTTGAAAATTATTT
1 TTTTTAAAAATCATTT
687425 CAATTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 9 0.30
19 8 0.27
20 13 0.43
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.56
Consensus pattern (20 bp):
TTTTTAAAAATCATTTTGAA
Found at i:687399 original size:18 final size:19
Alignment explanation
Indices: 687372--687412 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
687362 AAAATAATTT
*
687372 TTTTATAAAT-ATTTTGAA
1 TTTTAAAAATCATTTTGAA
687390 TTTTAAAAATCATTTTGAA
1 TTTTAAAAATCATTTTGAA
687409 TTTT
1 TTTT
687413 TGAAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (19 bp):
TTTTAAAAATCATTTTGAA
Found at i:694199 original size:26 final size:26
Alignment explanation
Indices: 694165--694215 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
694155 GTTCAAATAA
*
694165 TTTTGAATTTTTGTAA-GTTATAATTT
1 TTTTGAATTTTT-TAATGTAATAATTT
*
694191 TTTTTAATTTTTTAATGTAATAATT
1 TTTTGAATTTTTTAATGTAATAATT
694216 CATTTTACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (26 bp):
TTTTGAATTTTTTAATGTAATAATTT
Found at i:694221 original size:26 final size:26
Alignment explanation
Indices: 694164--694227 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
694154 GGTTCAAATA
* *
694164 ATTTTGAATTTTTGTAAGTTATAATTT
1 ATTTT-AATTTTTGTAAGTAATAATTC
*
694191 TTTTTAATTTTT-TAATGTAATAATTC
1 ATTTTAATTTTTGTAA-GTAATAATTC
*
694217 ATTTTACTTTT
1 ATTTTAATTTT
694228 ATAAGATAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
25 3 0.10
26 24 0.77
27 4 0.13
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.62
Consensus pattern (26 bp):
ATTTTAATTTTTGTAAGTAATAATTC
Found at i:694660 original size:15 final size:14
Alignment explanation
Indices: 694632--694684 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 14
694622 TTTGGAAACC
*
694632 TTAAAACTAATATTT
1 TTAAAA-TATTATTT
694647 TTAAAATATCTATTT
1 TTAAAATAT-TATTT
*
694662 TTATAATATTCATTTT
1 TTAAAATATT-A-TTT
694678 TTAAAAT
1 TTAAAAT
694685 TTCATTTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
14 3 0.09
15 20 0.62
16 9 0.28
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.53
Consensus pattern (14 bp):
TTAAAATATTATTT
Found at i:694688 original size:15 final size:15
Alignment explanation
Indices: 694644--694692 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
694634 AAAACTAATA
*
694644 TTTTTAAAATATC-T
1 TTTTTAAAATTTCAT
*
694658 ATTTTTATAATATTCAT
1 -TTTTTAAAAT-TTCAT
694675 TTTTTAAAATTTCAT
1 TTTTTAAAATTTCAT
694690 TTT
1 TTT
694693 AAACTATGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 17 0.59
16 11 0.38
17 1 0.03
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTTTAAAATTTCAT
Found at i:703389 original size:14 final size:15
Alignment explanation
Indices: 703370--703403 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
703360 CGATTAACAG
703370 TATTAAAATTAT-TT
1 TATTAAAATTATGTT
*
703384 TATTAAATTTATGTT
1 TATTAAAATTATGTT
703399 TATTA
1 TATTA
703404 CAATATCAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (15 bp):
TATTAAAATTATGTT
Found at i:719314 original size:27 final size:28
Alignment explanation
Indices: 719266--719320 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
719256 ATATAAGTAT
* *
719266 TAATATAAATTATATTTTAAACATTTAA
1 TAATATAAATTATATTTCAAACAGTTAA
*
719294 TAATATATA-TATATTTCAAACAGTTAA
1 TAATATAAATTATATTTCAAACAGTTAA
719321 CCAACACATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (28 bp):
TAATATAAATTATATTTCAAACAGTTAA
Found at i:734246 original size:21 final size:22
Alignment explanation
Indices: 734208--734248 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
734198 AATTTTAGAT
* *
734208 TTTTTTCAATGTTTATATTTGA
1 TTTTTTCAATCTTAATATTTGA
734230 TTTTTT-AATCTTAATATTT
1 TTTTTTCAATCTTAATATTT
734249 TTTGAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (22 bp):
TTTTTTCAATCTTAATATTTGA
Found at i:734680 original size:27 final size:25
Alignment explanation
Indices: 734646--734699 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
734636 AAAAATTGAG
* *
734646 TTAAAATGACTTAAATTATCATTTTT
1 TTAAAATGA-TGAAATTATAATTTTT
734672 TTAATAATGATGAAATTATAATTTTT
1 TTAA-AATGATGAAATTATAATTTTT
734698 TT
1 TT
734700 CATTTAACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.52
Consensus pattern (25 bp):
TTAAAATGATGAAATTATAATTTTT
Found at i:735171 original size:4 final size:4
Alignment explanation
Indices: 735164--735305 Score: 214
Period size: 4 Copynumber: 35.5 Consensus size: 4
735154 TTTGAAAGAA
735164 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
735212 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * *
735260 ATAC ATA- AGTAC GTAC GTAC GTAT GTAC ATAC ATAC ATAC AAAC AT
1 ATAC ATAC A-TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
735306 TGTTTGATTT
Statistics
Matches: 130, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
3 1 0.01
4 129 0.99
ACGTcount: A:0.48, C:0.23, G:0.04, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:737325 original size:331 final size:331
Alignment explanation
Indices: 736714--737376 Score: 1308
Period size: 331 Copynumber: 2.0 Consensus size: 331
736704 TAAATTAAAA
*
736714 TTAATTTAATTTTAAAAAATAATATGGGCAAGCCTAAAACGGTTATAAGTTAGTCATTTACAAAT
1 TTAATATAATTTTAAAAAATAATATGGGCAAGCCTAAAACGGTTATAAGTTAGTCATTTACAAAT
736779 ATGGACTGTTTTGGATAAAATTTTAGGCTCATATCTCAGGTCAAACTAGGTTTAACCAAATATAA
66 ATGGACTGTTTTGGATAAAATTTTAGGCTCATATCTCAGGTCAAACTAGGTTTAACCAAATATAA
736844 AGTGTACTAATGTCATACATAGGCTCGACATAAACCCAGCCTAACCCGACCCAAGGATATTTTCT
131 AGTGTACTAATGTCATACATAGGCTCGACATAAACCCAGCCTAACCCGACCCAAGGATATTTTCT
736909 TTTTAAACTCTTAACTTATGCTTAATCGAACTCTTGTATTTATATTTCTTTTTAAATATATATTT
196 TTTTAAACTCTTAACTTATGCTTAATCGAACTCTTGTATTTATATTTCTTTTTAAATATATATTT
736974 ATTTAGTTTGGATATCCGATATCTTGTAGTTACATGGTCCTAACTAAAATTGAAGTTGAATCCGA
261 ATTTAGTTTGGATATCCGATATCTTGTAGTTACATGGTCCTAACTAAAATTGAAGTTGAATCCGA
737039 TCAAAC
326 TCAAAC
*
737045 TTAATATATTTTTAAAAAATAATATGGGCAAGCCTAAAACGGTTATAAGTTAGTCATTTACAAAT
1 TTAATATAATTTTAAAAAATAATATGGGCAAGCCTAAAACGGTTATAAGTTAGTCATTTACAAAT
737110 ATGGACTGTTTTGGATAAAATTTTAGGCTCATATCTCAGGTCAAACTAGGTTTAACCAAATATAA
66 ATGGACTGTTTTGGATAAAATTTTAGGCTCATATCTCAGGTCAAACTAGGTTTAACCAAATATAA
737175 AGTGTACTAATGTCATACATAGGCTCGACATAAACCCAGCCTAACCCGACCCAAGGATATTTTCT
131 AGTGTACTAATGTCATACATAGGCTCGACATAAACCCAGCCTAACCCGACCCAAGGATATTTTCT
737240 TTTTAAACTCTTAACTTATGCTTAATCGAACTCTTGTATTTATATTTCTTTTTAAATATATATTT
196 TTTTAAACTCTTAACTTATGCTTAATCGAACTCTTGTATTTATATTTCTTTTTAAATATATATTT
737305 ATTTAGTTTGGATATCCGATATCTTGTAGTTACATGGTCCTAACTAAAATTGAAGTTGAATCCGA
261 ATTTAGTTTGGATATCCGATATCTTGTAGTTACATGGTCCTAACTAAAATTGAAGTTGAATCCGA
737370 TCAAAC
326 TCAAAC
737376 T
1 T
737377 CTTAAATAAG
Statistics
Matches: 330, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
331 330 1.00
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (331 bp):
TTAATATAATTTTAAAAAATAATATGGGCAAGCCTAAAACGGTTATAAGTTAGTCATTTACAAAT
ATGGACTGTTTTGGATAAAATTTTAGGCTCATATCTCAGGTCAAACTAGGTTTAACCAAATATAA
AGTGTACTAATGTCATACATAGGCTCGACATAAACCCAGCCTAACCCGACCCAAGGATATTTTCT
TTTTAAACTCTTAACTTATGCTTAATCGAACTCTTGTATTTATATTTCTTTTTAAATATATATTT
ATTTAGTTTGGATATCCGATATCTTGTAGTTACATGGTCCTAACTAAAATTGAAGTTGAATCCGA
TCAAAC
Found at i:738320 original size:32 final size:33
Alignment explanation
Indices: 738274--738339 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 33
738264 TCAAAATTTG
* *
738274 TTTTTCAATGAAAATGACTTATATATATATTTTT
1 TTTTTCAA-GAAAATAACTTATATATAAATTTTT
* *
738308 TTTTTCAA-AAAATAATTTTTATATAAATTTTT
1 TTTTTCAAGAAAATAACTTATATATAAATTTTT
738340 ACGTTTTTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 20 0.71
34 8 0.29
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.55
Consensus pattern (33 bp):
TTTTTCAAGAAAATAACTTATATATAAATTTTT
Found at i:747171 original size:33 final size:32
Alignment explanation
Indices: 747106--747171 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 32
747096 AATTTTATAC
*
747106 AATTTTACCACTAAATTTGATTTGTTTAATTA
1 AATTTTACCACTAAATTTGATTTGATTAATTA
* *
747138 AATTTTACCTCTCAATATTGATTTTGATT-ATTA
1 AATTTTACCACTAAAT-TTGA-TTTGATTAATTA
747171 A
1 A
747172 CAAAATTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 14 0.48
33 9 0.31
34 6 0.21
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.50
Consensus pattern (32 bp):
AATTTTACCACTAAATTTGATTTGATTAATTA
Found at i:751772 original size:20 final size:20
Alignment explanation
Indices: 751747--751786 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
751737 AAATATTTGT
751747 GTATGCAATATATAAACATA
1 GTATGCAATATATAAACATA
751767 GTATGCAATATATAAACATA
1 GTATGCAATATATAAACATA
751787 AAATGTTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
GTATGCAATATATAAACATA
Found at i:751878 original size:29 final size:30
Alignment explanation
Indices: 751836--751916 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 30
751826 GCATTGGATC
*
751836 AAATCAAAATTTCATGTATAAAATTGCACA-
1 AAATC-AAAGTTCATGTATAAAATTGCACAT
* *
751866 AAATCAAAGTTCATGTATGAATTTGCACATT
1 AAATCAAAGTTCATGTATAAAATTGCACA-T
* *
751897 AAACCAAAGTCCATGTATAA
1 AAATCAAAGTTCATGTATAA
751917 TTTTGAGATT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
29 21 0.49
30 5 0.12
31 17 0.40
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.30
Consensus pattern (30 bp):
AAATCAAAGTTCATGTATAAAATTGCACAT
Found at i:758212 original size:6 final size:6
Alignment explanation
Indices: 758194--758228 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
758184 ATTCGTTTGG
* *
758194 CTTTTT CTGTTT CTTTTT CTTTTT CTATTT CTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTT
758229 ATTTATTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.77
Consensus pattern (6 bp):
CTTTTT
Found at i:758215 original size:18 final size:18
Alignment explanation
Indices: 758194--758228 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
758184 ATTCGTTTGG
*
758194 CTTTTTCTGTTTCTTTTT
1 CTTTTTCTATTTCTTTTT
758212 CTTTTTCTATTTCTTTT
1 CTTTTTCTATTTCTTTT
758229 ATTTATTTAA
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:0.03, C:0.17, G:0.03, T:0.77
Consensus pattern (18 bp):
CTTTTTCTATTTCTTTTT
Found at i:759635 original size:24 final size:26
Alignment explanation
Indices: 759581--759638 Score: 77
Period size: 24 Copynumber: 2.3 Consensus size: 26
759571 TTTAATTGAA
759581 TTTTATATTATGAAAAGTAAATTTAT
1 TTTTATATTATGAAAAGTAAATTTAT
*
759607 TTTTATATT-TGATAAA-TATA-TTAT
1 TTTTATATTATGA-AAAGTAAATTTAT
759631 TTTTATAT
1 TTTTATAT
759639 ATAAAATTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 12 0.40
25 6 0.20
26 12 0.40
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (26 bp):
TTTTATATTATGAAAAGTAAATTTAT
Found at i:760787 original size:106 final size:106
Alignment explanation
Indices: 760667--760897 Score: 462
Period size: 106 Copynumber: 2.2 Consensus size: 106
760657 GCCCAGGCCC
760667 GGCCCGGCCCATTTTTTAATAAACATTAAAAAATTATTTTAAAAATAATAAAAATATTTATTATA
1 GGCCCGGCCCATTTTTTAATAAACATTAAAAAATTATTTTAAAAATAATAAAAATATTTATTATA
760732 TTCGGGCCGGGCCGGGCACGGGCCAAAAAAGTGGTACCCGA
66 TTCGGGCCGGGCCGGGCACGGGCCAAAAAAGTGGTACCCGA
760773 GGCCCGGCCCATTTTTTAATAAACATTAAAAAATTATTTTAAAAATAATAAAAATATTTATTATA
1 GGCCCGGCCCATTTTTTAATAAACATTAAAAAATTATTTTAAAAATAATAAAAATATTTATTATA
760838 TTCGGGCCGGGCCGGGCACGGGCCAAAAAAGTGGTACCCGA
66 TTCGGGCCGGGCCGGGCACGGGCCAAAAAAGTGGTACCCGA
760879 GGCCCGGCCCATTTTTTAA
1 GGCCCGGCCCATTTTTTAA
760898 ACGGGCCTCG
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 125 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (106 bp):
GGCCCGGCCCATTTTTTAATAAACATTAAAAAATTATTTTAAAAATAATAAAAATATTTATTATA
TTCGGGCCGGGCCGGGCACGGGCCAAAAAAGTGGTACCCGA
Found at i:761612 original size:28 final size:28
Alignment explanation
Indices: 761547--761602 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
761537 AGGATTAAAT
761547 TATAACAAATTTAAAATAAACAAACTAA
1 TATAACAAATTTAAAATAAACAAACTAA
*
761575 TATAACAAATTTAAAATAAACTAACTAA
1 TATAACAAATTTAAAATAAACAAACTAA
761603 CTTTTTAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.62, C:0.11, G:0.00, T:0.27
Consensus pattern (28 bp):
TATAACAAATTTAAAATAAACAAACTAA
Found at i:762486 original size:29 final size:29
Alignment explanation
Indices: 762422--762486 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
762412 TAAGAATTGG
762422 ATCAAATTAATCATTCTATTATTAAATAA
1 ATCAAATTAATCATTCTATTATTAAATAA
* *
762451 ATTAAATTAATC-TCTGTATTATTAAA-ATA
1 ATCAAATTAATCAT-TCTATTATTAAATA-A
762480 ATCAAAT
1 ATCAAAT
762487 AAACTCAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 2 0.06
29 29 0.94
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.42
Consensus pattern (29 bp):
ATCAAATTAATCATTCTATTATTAAATAA
Found at i:764051 original size:3 final size:3
Alignment explanation
Indices: 764043--764090 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
764033 ATCCACCATA
764043 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
764091 TTATTATTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:765190 original size:22 final size:23
Alignment explanation
Indices: 765150--765198 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
765140 TATTTTGAAT
765150 TTTTAAAATTTATAATATTACAA
1 TTTTAAAATTTATAATATTACAA
* *
765173 TTTTAATATTT-TAATATTATAA
1 TTTTAAAATTTATAATATTACAA
765195 TTTT
1 TTTT
765199 CTATTTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTTAAAATTTATAATATTACAA
Found at i:765206 original size:22 final size:21
Alignment explanation
Indices: 765156--765208 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
765146 GAATTTTTAA
*
765156 AATTTATAATATTACAATTTT
1 AATTTTTAATATTACAATTTT
*
765177 AATATTTTAATATTATAATTTT
1 AAT-TTTTAATATTACAATTTT
*
765199 CTATTTTTAA
1 -AATTTTTAA
765209 ATTTAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.11
22 22 0.81
23 2 0.07
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.57
Consensus pattern (21 bp):
AATTTTTAATATTACAATTTT
Found at i:765228 original size:21 final size:19
Alignment explanation
Indices: 765151--765236 Score: 55
Period size: 22 Copynumber: 4.1 Consensus size: 19
765141 ATTTTGAATT
*
765151 TTTAAAATTTATAATATTACAA
1 TTTAATATTT-TAAT-TTA-AA
765173 TTTTAATATTTTAATATTATAA
1 -TTTAATATTTTAAT-TTA-AA
**
765195 TTTTCTATTTTTAAATTTAAA
1 TTTAATA-TTTT-AATTTAAA
*
765216 TTTAATATATTTATTTTAAA
1 TTTAATAT-TTTAATTTAAA
765236 T
1 T
765237 AAATCTAATT
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
20 9 0.17
21 15 0.28
22 17 0.32
23 12 0.23
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTAATATTTTAATTTAAA
Found at i:766963 original size:113 final size:113
Alignment explanation
Indices: 766765--766980 Score: 432
Period size: 113 Copynumber: 1.9 Consensus size: 113
766755 TTTTTTTTGT
766765 TTTAAGTAAATTAGGAGTATAATTAAGTGAAAAGGGTGTTAAAGAATCTTTTCTACAGTTCATTG
1 TTTAAGTAAATTAGGAGTATAATTAAGTGAAAAGGGTGTTAAAGAATCTTTTCTACAGTTCATTG
766830 GAAGACCATTTTTTTTTTTCATTAAATAGCTTCGGTGGTTTTGCTGAG
66 GAAGACCATTTTTTTTTTTCATTAAATAGCTTCGGTGGTTTTGCTGAG
766878 TTTAAGTAAATTAGGAGTATAATTAAGTGAAAAGGGTGTTAAAGAATCTTTTCTACAGTTCATTG
1 TTTAAGTAAATTAGGAGTATAATTAAGTGAAAAGGGTGTTAAAGAATCTTTTCTACAGTTCATTG
766943 GAAGACCATTTTTTTTTTTCATTAAATAGCTTCGGTGG
66 GAAGACCATTTTTTTTTTTCATTAAATAGCTTCGGTGG
766981 ATAGTGAAAT
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 103 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (113 bp):
TTTAAGTAAATTAGGAGTATAATTAAGTGAAAAGGGTGTTAAAGAATCTTTTCTACAGTTCATTG
GAAGACCATTTTTTTTTTTCATTAAATAGCTTCGGTGGTTTTGCTGAG
Found at i:773647 original size:24 final size:24
Alignment explanation
Indices: 773615--773662 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
773605 AAATGAGAGT
773615 ATCCAGTCAGCTGATGGGTCGTGA
1 ATCCAGTCAGCTGATGGGTCGTGA
773639 ATCCAGTCAGCTGATGGGTCGTGA
1 ATCCAGTCAGCTGATGGGTCGTGA
773663 TCAAACTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.25
Consensus pattern (24 bp):
ATCCAGTCAGCTGATGGGTCGTGA
Found at i:774996 original size:20 final size:21
Alignment explanation
Indices: 774971--775009 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
774961 TTGCTCATCT
774971 TAACAG-CAATGAAAATAACA
1 TAACAGTCAATGAAAATAACA
774991 TAACAGTCAATGAAAATAA
1 TAACAGTCAATGAAAATAA
775010 TGATGACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.59, C:0.13, G:0.10, T:0.18
Consensus pattern (21 bp):
TAACAGTCAATGAAAATAACA
Found at i:780000 original size:27 final size:27
Alignment explanation
Indices: 779951--780002 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
779941 TAAGGTGTCT
*
779951 ATATATAAAGTTTTAATAGATTAAAAG
1 ATATATAAAATTTTAATAGATTAAAAG
*
779978 ATATATAAAATTATTAA-ATATTAAA
1 ATATATAAAATT-TTAATAGATTAAA
780003 TTAAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (27 bp):
ATATATAAAATTTTAATAGATTAAAAG
Found at i:782543 original size:4 final size:4
Alignment explanation
Indices: 782534--782564 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
782524 TTGAAAAGTT
782534 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
782565 TTCTGGCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:783299 original size:17 final size:18
Alignment explanation
Indices: 783260--783299 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
783250 GGTATTTGAT
*
783260 AATTTATTGAAATTTTAA
1 AATTTATTGAAATATTAA
783278 AATTTATTGAAA-ATTAA
1 AATTTATTGAAATATTAA
*
783295 TATTT
1 AATTT
783300 TCAGTGTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (18 bp):
AATTTATTGAAATATTAA
Found at i:784598 original size:2 final size:2
Alignment explanation
Indices: 784591--784617 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
784581 TTTAAAATAC
784591 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 T
784618 CAATGTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:784727 original size:23 final size:23
Alignment explanation
Indices: 784697--784743 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
784687 TTTGTCATGC
784697 ATGATTTATATGAATGGAATGTG
1 ATGATTTATATGAATGGAATGTG
784720 ATGATTTATATGAATGGAATGTG
1 ATGATTTATATGAATGGAATGTG
784743 A
1 A
784744 AATATGATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.00, G:0.26, T:0.38
Consensus pattern (23 bp):
ATGATTTATATGAATGGAATGTG
Found at i:784750 original size:18 final size:20
Alignment explanation
Indices: 784703--784748 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 20
784693 ATGCATGATT
784703 TATATGAATGGAATGTGATGA
1 TATATGAATGGAATGTGA-GA
*
784724 TTTATATGAATGGAATGTGAAA
1 --TATATGAATGGAATGTGAGA
784746 TAT
1 TAT
784749 GATGGTTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
22 1 0.05
23 18 0.82
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (20 bp):
TATATGAATGGAATGTGAGA
Found at i:786939 original size:25 final size:25
Alignment explanation
Indices: 786858--786941 Score: 66
Period size: 25 Copynumber: 3.4 Consensus size: 25
786848 GGAGTTACCC
* *
786858 GTTAT-TGGCTTACATGAGCTTCTT
1 GTTATATGGCTCACATGAGCTTCCT
** * *
786882 GATTA-A-GGCTCTTATAAGCTTCCC
1 G-TTATATGGCTCACATGAGCTTCCT
**
786906 GTTGCATGGCTCACATGAGCTTCCT
1 GTTATATGGCTCACATGAGCTTCCT
786931 GTTATATGGCT
1 GTTATATGGCT
786942 TGATAGAGAG
Statistics
Matches: 43, Mismatches: 13, Indels: 7
0.68 0.21 0.11
Matches are distributed among these distances:
23 2 0.05
24 15 0.35
25 26 0.60
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (25 bp):
GTTATATGGCTCACATGAGCTTCCT
Found at i:789980 original size:45 final size:45
Alignment explanation
Indices: 789916--790006 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
789906 TATGTGAACT
*
789916 GGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGATTCCACC
1 GGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACC
789961 GGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACC
1 GGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACC
790006 G
1 G
790007 AGTATCTGTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (45 bp):
GGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACC
Found at i:794289 original size:24 final size:25
Alignment explanation
Indices: 794262--794313 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
794252 AATTTGGAAA
794262 TAATATAATATT-ATTTAAT-AAAAT
1 TAATA-AATATTGATTTAATGAAAAT
* *
794286 TAATAATTATTGTTTTAATGAAAAT
1 TAATAAATATTGATTTAATGAAAAT
794311 TAA
1 TAA
794314 AATTTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.21
24 11 0.46
25 8 0.33
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (25 bp):
TAATAAATATTGATTTAATGAAAAT
Found at i:794506 original size:21 final size:23
Alignment explanation
Indices: 794482--794524 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
794472 AGGACCTAAC
794482 ATTAACATTT-TAA-AAAAATAA
1 ATTAACATTTCTAATAAAAATAA
*
794503 ATTAACTTTTCTAATAAAAATA
1 ATTAACATTTCTAATAAAAATA
794525 CTAATTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 3 0.16
23 7 0.37
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (23 bp):
ATTAACATTTCTAATAAAAATAA
Found at i:797177 original size:219 final size:220
Alignment explanation
Indices: 796798--797256 Score: 848
Period size: 219 Copynumber: 2.1 Consensus size: 220
796788 AGATTCAATA
*
796798 ATTTTGTAAGAAATTTAGTAATTTAAAGGAAACATTACACTATTAGAACAAATTCGGTAATTTTA
1 ATTTTGTAAGAAATTTAGTAATTTAAAGGAAACATTACACTATTAGAACAAATTCCGTAATTTTA
*
796863 GTAATTCTAGTATTATCTTCATGCTTGGAGAGGTTGGTTGTTAACATATTGAACTAGCTGTCTTT
66 GTAATTCTAGTATTATCTTCATGCTTGGAGAGCTTGGTTGTTAACATATTGAACTAGCTGTCTTT
*
796928 TCGAGGAATTTGCAGTTTTGTTTTCAATACATGTTTGTGGAAAATTCTACAAAATGCACCTTAAA
131 TCGAGGAATTTGCAGTATTGTTTTCAATACATGTTTGTGGAAAATTCTACAAAATGCACCTTAAA
796993 ATGAGTTTCTTACGAG-TCAATAGT
196 ATGAGTTTCTTACGAGCTCAATAGT
* *
797017 ATTTTGTAAGAAATTTCGTAATTTAATGGAAACATTACACTATTAGAACAAATTCCGTAATTTTA
1 ATTTTGTAAGAAATTTAGTAATTTAAAGGAAACATTACACTATTAGAACAAATTCCGTAATTTTA
797082 GTAATTCTAGTATTATCTTCATGCTTGGAGAGCTTGGTTGTTAACATATTGAACTAGCTGTCTTT
66 GTAATTCTAGTATTATCTTCATGCTTGGAGAGCTTGGTTGTTAACATATTGAACTAGCTGTCTTT
797147 TCGAGGAATTTGCAGTATTGTTTTCAATACATGTTTGTGGAAAATTCTACAAAATGCACCTTAAA
131 TCGAGGAATTTGCAGTATTGTTTTCAATACATGTTTGTGGAAAATTCTACAAAATGCACCTTAAA
797212 ATGAGTTTCTTACGAGCTCAATAGT
196 ATGAGTTTCTTACGAGCTCAATAGT
* *
797237 ATTTTGTAAGAGATTCAGTA
1 ATTTTGTAAGAAATTTAGTA
797257 GTTTTGCAAG
Statistics
Matches: 231, Mismatches: 8, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
219 206 0.89
220 25 0.11
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (220 bp):
ATTTTGTAAGAAATTTAGTAATTTAAAGGAAACATTACACTATTAGAACAAATTCCGTAATTTTA
GTAATTCTAGTATTATCTTCATGCTTGGAGAGCTTGGTTGTTAACATATTGAACTAGCTGTCTTT
TCGAGGAATTTGCAGTATTGTTTTCAATACATGTTTGTGGAAAATTCTACAAAATGCACCTTAAA
ATGAGTTTCTTACGAGCTCAATAGT
Found at i:803745 original size:203 final size:202
Alignment explanation
Indices: 803261--803745 Score: 516
Period size: 207 Copynumber: 2.3 Consensus size: 202
803251 TGCTCAGATT
* * *
803261 CTTCATTCTTTTTGAAGTACCCGTCTGACATTAGTG-CTTGGTACATGGATATGGAGACACGACC
1 CTTCATTCTTTTTGAAGTACCC--CTGACATTAGTGTC-TGATACACGGATATGGAGACATGACC
* * *
803325 TTCAAAGATCCCTTAATATATGGAAAAACTTGACAAAGTCTAATCATACCCACGTCGGGGATATT
63 TCCAAAGATCCCTTAATATATGG----ACTTGACAAAATCTAATCATACCCACGTCGGGGATACT
* * *
803390 CACACCTGAGTCGAGTAACATATGAACAATGCCGGTGCAACGAAGAACTAAAATGAAAACCATCT
124 CAAACCCGAGTCGAGTAACATATGAACAATGCCGGTGCAACCAAGAACTAAAATGAAAACCATCT
803455 ACCCCAATTGTTGG
189 ACCCCAATTGTTGG
* * *
803469 CTTCATTCTTCTTGAAGTACCCCTGTCCCACATCAGTGTTTGATACACGGATATGGAGACATGAC
1 CTTCATTCTTTTTGAAGTACCCCTG----ACATTAGTGTCTGATACACGGATATGGAGACATGAC
* * * * **
803534 CCCCAAAGATCCCTTAATATATGG-TTTTA-AAACATCTAATCATACTCGTGTCGGGGACT-CTC
62 CTCCAAAGATCCCTTAATATATGGACTTGACAAA-ATCTAATCATACCCACGTCGGGGA-TACTC
* * * * *
803596 AAACCCGAGTCTAGGTAAACCTATG-ACAATGCCGGTGTAACCAAGAACTTACAA-GAAAAACTA
125 AAACCCGAGTCGA-GT-AACATATGAACAATGCCGGTGCAACCAAGAAC-TAAAATG-AAAACCA
803659 TCTACTCCC-ATTGTTGG
186 TCTAC-CCCAATTGTTGG
* * * *
803676 CTTCATTCTTTTTGAAGCACCCCTGACATTAGTGTCCGATACACGGATATCGATACATGACCTCC
1 CTTCATTCTTTTTGAAGTACCCCTGACATTAGTGTCTGATACACGGATATGGAGACATGACCTCC
803741 AAAGA
66 AAAGA
803746 ACCCCAATGT
Statistics
Matches: 234, Mismatches: 31, Indels: 29
0.80 0.11 0.10
Matches are distributed among these distances:
203 39 0.17
204 3 0.01
205 35 0.15
206 28 0.12
207 53 0.23
208 24 0.10
210 52 0.22
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (202 bp):
CTTCATTCTTTTTGAAGTACCCCTGACATTAGTGTCTGATACACGGATATGGAGACATGACCTCC
AAAGATCCCTTAATATATGGACTTGACAAAATCTAATCATACCCACGTCGGGGATACTCAAACCC
GAGTCGAGTAACATATGAACAATGCCGGTGCAACCAAGAACTAAAATGAAAACCATCTACCCCAA
TTGTTGG
Found at i:804811 original size:59 final size:60
Alignment explanation
Indices: 804747--804878 Score: 169
Period size: 60 Copynumber: 2.2 Consensus size: 60
804737 TACACTGATA
* * ** *
804747 GTCACCCAACTAT-GATTTTTTT-CTTTTTTGGTCACTCAACTATGAGTAGTTACAACATG
1 GTCACCCAACTATGGATTTTTTTCCTTTTTTAGTCAC-CAACCATGAAAAGTTACAAAATG
* *
804806 GTCACCCAGCTATGGTTTTTTTTCCTTTTTTAGTCACCAACCATGAAAAGTTACAAAATG
1 GTCACCCAACTATGGATTTTTTTCCTTTTTTAGTCACCAACCATGAAAAGTTACAAAATG
*
804866 GTCACTCAACTAT
1 GTCACCCAACTAT
804879 TCAATTTTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
59 12 0.19
60 38 0.61
61 12 0.19
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (60 bp):
GTCACCCAACTATGGATTTTTTTCCTTTTTTAGTCACCAACCATGAAAAGTTACAAAATG
Found at i:809784 original size:183 final size:173
Alignment explanation
Indices: 809405--809893 Score: 672
Period size: 183 Copynumber: 2.8 Consensus size: 173
809395 TAAAACTAGA
*
809405 GTAAACCATAAAATACCAGGAAAAAGCTTCTGCATTCATAAAAAAAAATCTCTAGAACTAGGCTT
1 GTAAACCATAAAATACCAGGAAAAAGCTTCTGCATTCATAAAAAAAAATCTCTAGAACTAGGCTG
* *
809470 TAAAAATTCAGT-AAAAGTCATTCAACATGAAAATATGAT---AAAATAAAAAGGGTATTCTAAG
66 TAAAAATTCAGTAAAAAGTCATTCAACATGTAAATATGATAAAAAAATAAAAAGGGTATTCAAAG
*
809531 AATTAAGCTTTATTTTTAACGAAAATACATAGAATTAAGCTGG
131 AATTAAGCTTTATTTTTAACGAAAATACAGAGAATTAAGCTGG
*
809574 GTAAACCATAAAATACCAGGAAAAAGCTTCTGCATTCATAAAAAAGAAAAATCTATAGAACTTAG
1 GTAAACCATAAAATACCAGGAAAAAGCTTCTGCATTCAT--AAAA-AAAAATCTCTAGAAC-TAG
*
809639 GCTGTAAAAATTCAGTAAAAAGTCATTCGACATGTAAATATGATAAAACAAACTACAAAAAAAGG
62 GCTGTAAAAATTCAGTAAAAAGTCATTCAACATGTAAATATGATAAAA-AAA-T----AAAAAGG
*
809704 GTATTCAAAGAATTAAGCTTTAATTTTT-ATGAAAATACAGAGAATTAAGCTCGG
121 GTATTCAAAGAATTAAGCTTT-ATTTTTAACGAAAATACAGAGAATTAAGCT-GG
*
809758 GTAAACCATAAAATACCAGG-AAAAGCTTCTGCATTCAT--GAAAAAATCTCTAGAACTAGGCTG
1 GTAAACCATAAAATACCAGGAAAAAGCTTCTGCATTCATAAAAAAAAATCTCTAGAACTAGGCTG
* * * * * *
809820 TAAAAGATTCGGTAAAAA-TCATCCAACATGTAAATATGATCAAAAAACAGACAGGGTATTCAAA
66 TAAAA-ATTCAGTAAAAAGTCATTCAACATGTAAATATGATAAAAAAATAAAAAGGGTATTCAAA
809884 GAATTAAGCT
130 GAATTAAGCT
809894 CGGGTAAACC
Statistics
Matches: 287, Mismatches: 16, Indels: 32
0.86 0.05 0.10
Matches are distributed among these distances:
169 39 0.14
171 28 0.10
172 14 0.05
173 18 0.06
174 25 0.09
176 3 0.01
177 36 0.13
178 28 0.10
179 2 0.01
183 66 0.23
184 28 0.10
ACGTcount: A:0.47, C:0.13, G:0.14, T:0.25
Consensus pattern (173 bp):
GTAAACCATAAAATACCAGGAAAAAGCTTCTGCATTCATAAAAAAAAATCTCTAGAACTAGGCTG
TAAAAATTCAGTAAAAAGTCATTCAACATGTAAATATGATAAAAAAATAAAAAGGGTATTCAAAG
AATTAAGCTTTATTTTTAACGAAAATACAGAGAATTAAGCTGG
Found at i:809905 original size:139 final size:140
Alignment explanation
Indices: 809744--810017 Score: 439
Period size: 140 Copynumber: 2.0 Consensus size: 140
809734 GAAAATACAG
* *
809744 AGAATTAAGCTCGGGTAAACCATAAAATACCAGGAAAAGCTTCTGCATTCATGAAAAA-ATCTCT
1 AGAATTAAGCTCGGGTAAACCATAAAATACCAAGAAAAGCTTCTGCATTCATAAAAAAGATCTCT
* * *
809808 AGAACTAGGCTGTAAA-AGATTCGGTAAAAATCA-TCCAACATGTAAATATGATCAAA-AAACAG
66 AGAACTAGGCTGTAAATA-ATTCAGTAAAAACCACT-CAACATGTAAATATGAT-AAAGAAACAA
*
809870 ACAGGGTATTCAA
128 AAAGGGTATTCAA
809883 AGAATTAAGCTCGGGTAAACCATAAAATACCAAGAAAAGCTTCTGCATTCATAAAAAAGATCTCT
1 AGAATTAAGCTCGGGTAAACCATAAAATACCAAGAAAAGCTTCTGCATTCATAAAAAAGATCTCT
809948 AGAACTAGGCTGTAAATAATTCAGTAAAAACCACTCAACATGTAAATATGATAAAGAAACAAAAA
66 AGAACTAGGCTGTAAATAATTCAGTAAAAACCACTCAACATGTAAATATGATAAAGAAACAAAAA
810013 GGGTA
131 GGGTA
810018 GAGTGGAGAT
Statistics
Matches: 125, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
139 59 0.47
140 64 0.51
141 2 0.02
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.22
Consensus pattern (140 bp):
AGAATTAAGCTCGGGTAAACCATAAAATACCAAGAAAAGCTTCTGCATTCATAAAAAAGATCTCT
AGAACTAGGCTGTAAATAATTCAGTAAAAACCACTCAACATGTAAATATGATAAAGAAACAAAAA
GGGTATTCAA
Found at i:813647 original size:91 final size:92
Alignment explanation
Indices: 813530--813712 Score: 359
Period size: 91 Copynumber: 2.0 Consensus size: 92
813520 GACTTTAAAA
813530 TTTTATTAAATAATATTTAAAAACCACGTATAAAAATTTAACCTTAATAATAATAAAAAATTGAA
1 TTTTATTAAATAATATTTAAAAACCACGTATAAAAATTTAACCTTAATAATAATAAAAAATTGAA
813595 CCGAAGTAAATTATCATAAAAAAGTTT
66 CCGAAGTAAATTATCATAAAAAAGTTT
813622 TTTTATTAAA-AATATTTAAAAACCACGTATAAAAATTTAACCTTAATAATAATAAAAAATTGAA
1 TTTTATTAAATAATATTTAAAAACCACGTATAAAAATTTAACCTTAATAATAATAAAAAATTGAA
813686 CCGAAGTAAATTATCATAAAAAAGTTT
66 CCGAAGTAAATTATCATAAAAAAGTTT
813713 AAAATTTCCG
Statistics
Matches: 91, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
91 81 0.89
92 10 0.11
ACGTcount: A:0.52, C:0.09, G:0.05, T:0.33
Consensus pattern (92 bp):
TTTTATTAAATAATATTTAAAAACCACGTATAAAAATTTAACCTTAATAATAATAAAAAATTGAA
CCGAAGTAAATTATCATAAAAAAGTTT
Found at i:813951 original size:29 final size:28
Alignment explanation
Indices: 813902--813956 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 28
813892 AAAGTCAATT
* *
813902 TTTTTTAAATTTATCGAAATGGGCCCAG
1 TTTTTTAAATTTACCGAAATGAGCCCAG
* *
813930 TTTTTTATTATTTACCGGAATGAGCCC
1 TTTTTTA-AATTTACCGAAATGAGCCC
813957 CTTTCCCCTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 7 0.32
29 15 0.68
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.42
Consensus pattern (28 bp):
TTTTTTAAATTTACCGAAATGAGCCCAG
Found at i:814621 original size:125 final size:123
Alignment explanation
Indices: 814317--814754 Score: 576
Period size: 125 Copynumber: 3.5 Consensus size: 123
814307 ATAAAATCAA
* * * * * * * * *
814317 AGCAGGATG-ATTATCAGAAGGATTTTTGCAGTCGCGCCCGCATGTACGCGCTTTTGCTACAGTA
1 AGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTA
814381 GGTCCT-AGAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCT
66 GGTCCTGA-AAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCT
* * *
814439 ACCAGGATGTTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTATAGTA
1 AGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTA
* * * *
814504 GGTCCTGAAAAATTATTTCGAGTTGACGTTTCTGAGCAAGTAGTATAAAAAAACGCTTCA
66 GGTCCTGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT--AAAATCGCTTCT
* * *
814564 AGCAGGATGCTATT-TGAGAAGAATTTCTGAAATCGCGCCCTCGTGGACACGCTTTTGCTACAGT
1 AGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * *
814628 TGGTCCTGAAAGAAATAATTTCGAGTTGACGTTTCTAAGCAAATAGTATAAAATCACTTCT
65 AGGTCCTG-AA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCT
* * *
814689 AGCAGAATGCTTTATGAGAAGAATTTGTGAAATTGCGCCAACGTGGACGCGCTTTTGCTACAGTA
1 AGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTA
814754 G
66 G
814755 CATGTTTGGG
Statistics
Matches: 273, Mismatches: 35, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
122 8 0.03
123 87 0.32
124 3 0.01
125 137 0.50
126 4 0.01
127 34 0.12
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (123 bp):
AGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTA
GGTCCTGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCT
Found at i:814985 original size:51 final size:51
Alignment explanation
Indices: 814925--815042 Score: 191
Period size: 51 Copynumber: 2.3 Consensus size: 51
814915 AAAAATAGGG
* *
814925 ATTTAAGAGAAATTTAAAAGGAAATTGAGAGCTAATTGAGATTAAATATAA
1 ATTTGAGAGAAATTTAAAAGAAAATTGAGAGCTAATTGAGATTAAATATAA
**
814976 ATTTGAGAGAAATTTGGAAGAAAATTGAGAGCTAATTGAGATTAAATATAA
1 ATTTGAGAGAAATTTAAAAGAAAATTGAGAGCTAATTGAGATTAAATATAA
815027 ATTTGAGAGGAAATTT
1 ATTTGAGA-GAAATTT
815043 GAGAGAGGAT
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
51 55 0.89
52 7 0.11
ACGTcount: A:0.47, C:0.02, G:0.20, T:0.31
Consensus pattern (51 bp):
ATTTGAGAGAAATTTAAAAGAAAATTGAGAGCTAATTGAGATTAAATATAA
Found at i:816802 original size:31 final size:30
Alignment explanation
Indices: 816760--816819 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
816750 GAGTTAATCT
* * *
816760 TTTTCATTTTTTTTGAATTTTTTATATATTA
1 TTTTCA-TTTTTTAGAAATATTTATATATTA
*
816791 TTTTGATTTTTTAGAAATATTTATATATT
1 TTTTCATTTTTTAGAAATATTTATATATT
816820 TTTGGGTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.67
Consensus pattern (30 bp):
TTTTCATTTTTTAGAAATATTTATATATTA
Found at i:823220 original size:31 final size:31
Alignment explanation
Indices: 823172--823257 Score: 84
Period size: 31 Copynumber: 2.7 Consensus size: 31
823162 GGGGCCTTGG
* * *
823172 TCCCCAAAGTTTTTGAAAATTTTAGTTA-TA
1 TCCCTAAAATTTTTGAAAATTTTAATTAGTA
* * * *
823202 TCCTTAAATTTTTCTGAAATTTTTAATTAGGTC
1 TCCCTAAAATTTT-TGAAAATTTTAATTA-GTA
823235 TCCCTAAAATTTTTGAAAATTTT
1 TCCCTAAAATTTTTGAAAATTTT
823258 TAAATATTTC
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
30 10 0.23
31 13 0.30
32 9 0.20
33 12 0.27
ACGTcount: A:0.31, C:0.13, G:0.08, T:0.48
Consensus pattern (31 bp):
TCCCTAAAATTTTTGAAAATTTTAATTAGTA
Found at i:823258 original size:33 final size:31
Alignment explanation
Indices: 823172--823260 Score: 83
Period size: 33 Copynumber: 2.8 Consensus size: 31
823162 GGGGCCTTGG
* * *
823172 TCCCCAAAGTTTTTGAAAA-TTTTAGTTATA
1 TCCCTAAAATTTTTGAAAATTTTTAATTATA
* * *
823202 TCCTTAAATTTTTCTG-AAATTTTTAATTAGGTC
1 TCCCTAAAATTTT-TGAAAATTTTTAATTA--TA
823235 TCCCTAAAATTTTTGAAAATTTTTAA
1 TCCCTAAAATTTTTGAAAATTTTTAA
823261 ATATTTCAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
30 13 0.28
31 10 0.21
32 2 0.04
33 22 0.47
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (31 bp):
TCCCTAAAATTTTTGAAAATTTTTAATTATA
Found at i:824738 original size:18 final size:20
Alignment explanation
Indices: 824702--824739 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
824692 ATTTTACTAT
*
824702 TTTTTCTATTTTAATAAATA
1 TTTTTCTATTTGAATAAATA
824722 TTTTTCT-TTTGAA-AAATA
1 TTTTTCTATTTGAATAAATA
824740 ACTTGATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 5 0.29
20 7 0.41
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (20 bp):
TTTTTCTATTTGAATAAATA
Found at i:824877 original size:3 final size:3
Alignment explanation
Indices: 824869--824944 Score: 143
Period size: 3 Copynumber: 25.0 Consensus size: 3
824859 AATTAATTAC
824869 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
824917 ATT ATT ATT ATT ATT ATT ATT ATAT ATT
1 ATT ATT ATT ATT ATT ATT ATT AT-T ATT
824945 TTACATTATT
Statistics
Matches: 72, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 69 0.96
4 3 0.04
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:826774 original size:30 final size:28
Alignment explanation
Indices: 826740--826810 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 28
826730 ACGATTGAAC
*
826740 TTAAATTTTAAAATATTAAAAATA-AAGAGA
1 TTAAATTCTAAAA-A-TAAAAATATAAGA-A
*
826770 TTAAATTCTAAGAAATAAAAGTATAAGAA
1 TTAAATTCTAA-AAATAAAAATATAAGAA
826799 TTAAATTCTAAA
1 TTAAATTCTAAA
826811 TTTGTGAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
28 1 0.03
29 19 0.51
30 15 0.41
31 2 0.05
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.32
Consensus pattern (28 bp):
TTAAATTCTAAAAATAAAAATATAAGAA
Found at i:832554 original size:23 final size:23
Alignment explanation
Indices: 832522--832567 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
832512 CAAATATAAT
*
832522 AAATA-TTTTTATTTTTTATTTTA
1 AAATACTTTTT-TTATTTATTTTA
*
832545 AAATACTTTTTTTATTTTTTTTA
1 AAATACTTTTTTTATTTATTTTA
832568 TTTTTAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (23 bp):
AAATACTTTTTTTATTTATTTTA
Found at i:832565 original size:9 final size:9
Alignment explanation
Indices: 832551--832603 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
832541 TTTAAAATAC
832551 TTTTTTTAT
1 TTTTTTTAT
832560 TTTTTTTAT
1 TTTTTTTAT
***
832569 TTTTAAAAT
1 TTTTTTTAT
832578 ATTTTTTTAT
1 -TTTTTTTAT
* *
832588 TTTTTTAAA
1 TTTTTTTAT
832597 TTTTTTT
1 TTTTTTT
832604 GGTGTTTATT
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
9 28 0.82
10 6 0.18
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:832582 original size:28 final size:28
Alignment explanation
Indices: 832533--832593 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
832523 AATATTTTTA
832533 TTTTTTATTTTAAAATACTTTTTTTATT
1 TTTTTTATTTTAAAATACTTTTTTTATT
832561 TTTTTTATTTTTAAAATA-TTTTTTTATT
1 TTTTTTA-TTTTAAAATACTTTTTTTATT
832589 TTTTT
1 TTTTT
832594 AAATTTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 22 0.69
29 10 0.31
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (28 bp):
TTTTTTATTTTAAAATACTTTTTTTATT
Found at i:832599 original size:29 final size:29
Alignment explanation
Indices: 832527--832601 Score: 104
Period size: 28 Copynumber: 2.7 Consensus size: 29
832517 ATAATAAATA
832527 TTTTTA-TTTTTT-A-TTTTAAAATACTT
1 TTTTTATTTTTTTAATTTTTAAAATACTT
*
832553 TTTTTATTTTTTTTATTTTTAAAATA-TT
1 TTTTTATTTTTTTAATTTTTAAAATACTT
832581 TTTTTATTTTTTTAAATTTTT
1 TTTTTATTTTTTT-AATTTTT
832602 TTGGTGTTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
26 6 0.14
27 6 0.14
28 16 0.36
29 16 0.36
ACGTcount: A:0.24, C:0.01, G:0.00, T:0.75
Consensus pattern (29 bp):
TTTTTATTTTTTTAATTTTTAAAATACTT
Found at i:832601 original size:19 final size:18
Alignment explanation
Indices: 832558--832603 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
832548 TACTTTTTTT
832558 ATTTTTTTTATTTTTAAA
1 ATTTTTTTTATTTTTAAA
*
832576 ATATTTTTTTATTTTTTTAA
1 AT-TTTTTTTA-TTTTTAAA
832596 ATTTTTTT
1 ATTTTTTT
832604 GGTGTTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 2 0.08
19 14 0.56
20 9 0.36
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (18 bp):
ATTTTTTTTATTTTTAAA
Found at i:833586 original size:28 final size:29
Alignment explanation
Indices: 833555--833609 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
833545 TTGAATGAAA
*
833555 ATTTAACT-TTTAAGAT-ATAAAAATAAAT
1 ATTTAA-TATTTAAAATAATAAAAATAAAT
*
833583 ATTTTATATTTAAAATAATAAAAATAA
1 ATTTAATATTTAAAATAATAAAAATAA
833610 TTTAATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 1 0.04
28 12 0.52
29 10 0.43
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (29 bp):
ATTTAATATTTAAAATAATAAAAATAAAT
Found at i:840087 original size:17 final size:17
Alignment explanation
Indices: 840065--840105 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
840055 CCGGTTCTCG
840065 ATTCGACTAGTTTAACT
1 ATTCGACTAGTTTAACT
840082 ATTCGACTAGTTTAACT
1 ATTCGACTAGTTTAACT
840099 AGTTCGA
1 A-TTCGA
840106 TAGCCAGACT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (17 bp):
ATTCGACTAGTTTAACT
Found at i:843326 original size:19 final size:20
Alignment explanation
Indices: 843299--843340 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
843289 TTGCTATTTG
* *
843299 AAAATTTTTATTAAGCTCCA
1 AAAATTTTAATTAAGCCCCA
843319 AAAATTTTAATTAAGCCCCA
1 AAAATTTTAATTAAGCCCCA
843339 AA
1 AA
843341 TGTTTTTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (20 bp):
AAAATTTTAATTAAGCCCCA
Found at i:843356 original size:30 final size:30
Alignment explanation
Indices: 843319--843391 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
843309 TTAAGCTCCA
843319 AAAATTTTAATTAAGCC-CCA-AATGTTTTTG
1 AAAATTTTAATTAAGCCTCCAGAA--TTTTTG
* * *
843349 GAAATTTTCATTAAGCCTCTAGAATTTTTG
1 AAAATTTTAATTAAGCCTCCAGAATTTTTG
843379 AAAATTTTAATTA
1 AAAATTTTAATTA
843392 CCCCCTCCCC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 32 0.89
31 2 0.06
32 2 0.06
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.42
Consensus pattern (30 bp):
AAAATTTTAATTAAGCCTCCAGAATTTTTG
Found at i:848975 original size:22 final size:22
Alignment explanation
Indices: 848947--848991 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
848937 TGGGAATATA
*
848947 CAATTAGTCACTCAATTATTAG
1 CAATTAGCCACTCAATTATTAG
848969 CAATTAGCCACTCAATTATTAG
1 CAATTAGCCACTCAATTATTAG
848991 C
1 C
848992 GCGCTCATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.22, G:0.09, T:0.33
Consensus pattern (22 bp):
CAATTAGCCACTCAATTATTAG
Found at i:850592 original size:16 final size:17
Alignment explanation
Indices: 850571--850608 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
850561 CGTATAATTC
850571 AAAAAT-AA-AAATATTT
1 AAAAATAAACAAAT-TTT
850587 AAAAATAAACAAATTTT
1 AAAAATAAACAAATTTT
850604 AAAAA
1 AAAAA
850609 AAGTTTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.30
17 10 0.50
18 4 0.20
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAAATAAACAAATTTT
Found at i:850604 original size:17 final size:16
Alignment explanation
Indices: 850571--850608 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
850561 CGTATAATTC
850571 AAAAATAAAAATATTT
1 AAAAATAAAAATATTT
850587 AAAAATAAACAA-ATTTT
1 AAAAATAAA-AATA-TTT
850604 AAAAA
1 AAAAA
850609 AAGTTTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAATAAAAATATTT
Found at i:857122 original size:3 final size:3
Alignment explanation
Indices: 857116--857144 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
857106 ATGATGATGA
857116 TGG TGG TGG TGG TGG TGG TGG TGG TGG TG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TG
857145 TTTGTTGTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.66, T:0.34
Consensus pattern (3 bp):
TGG
Found at i:860826 original size:415 final size:415
Alignment explanation
Indices: 860056--860887 Score: 1655
Period size: 415 Copynumber: 2.0 Consensus size: 415
860046 ACGGGAATTC
860056 TTCGAAATTCAATTTTTATGAGATCGTTAATATTGTACCAAATATATTTTTAGAGCATATTGAAT
1 TTCGAAATTCAATTTTTATGAGATCGTTAATATTGTACCAAATATATTTTTAGAGCATATTGAAT
860121 CAGTATAGTACCAAAAATCTTGTGTTTTAAAAGTTAAATTTTTTTATATATTTTTAAATTATTAA
66 CAGTATAGTACCAAAAATCTTGTGTTTTAAAAGTTAAATTTTTTTATATATTTTTAAATTATTAA
860186 TCTAATTTGACCACTGATCAAGTTAAAAAAACCTTAACGATTAGTATGGGGAACTACATTGTTAC
131 TCTAATTTGACCACTGATCAAGTTAAAAAAACCTTAACGATTAGTATGGGGAACTACATTGTTAC
860251 TATAATGGCTTTTTTAGAACGCCAATGCGATACAAACATCAATGGATACACGGCATAAGTCATCC
196 TATAATGGCTTTTTTAGAACGCCAATGCGATACAAACATCAATGGATACACGGCATAAGTCATCC
860316 AAACGTTGCTTTACACTACAATTAAGAGAAGAAAAAAAGGAGAGGGAAAAAAAAGTTGTCTCGAG
261 AAACGTTGCTTTACACTACAATTAAGAGAAGAAAAAAAGGAGAGGGAAAAAAAAGTTGTCTCGAG
860381 TTTGAACTGTAATGGCCTGAATTTTTAGGGGTGTCGGAATGGTGATTTGAGATCACTAAATCCGA
326 TTTGAACTGTAATGGCCTGAATTTTTAGGGGTGTCGGAATGGTGATTTGAGATCACTAAATCCGA
860446 CAAATGAGTAGAAAATATTATTAAT
391 CAAATGAGTAGAAAATATTATTAAT
860471 TTCGAAATTCAATTTTTATGAGATCGTTAATATTGTACCAAATATATTTTTAGAGCATATTGAAT
1 TTCGAAATTCAATTTTTATGAGATCGTTAATATTGTACCAAATATATTTTTAGAGCATATTGAAT
860536 CAGTATAGTACCAAAAATCTTGTGTTTTAAAAGTTAAATTTTTTTATATATTTTTAAATTATTAA
66 CAGTATAGTACCAAAAATCTTGTGTTTTAAAAGTTAAATTTTTTTATATATTTTTAAATTATTAA
860601 TCTAATTTGACCACTGATCAAGTTAAAAAAACCTTAACGATTAGTATGGGGAACTACATTGTTAC
131 TCTAATTTGACCACTGATCAAGTTAAAAAAACCTTAACGATTAGTATGGGGAACTACATTGTTAC
*
860666 TATAATGGCTTTTTTAGAATGCCAATGCGATACAAACATCAATGGATACACGGCATAAGTCATCC
196 TATAATGGCTTTTTTAGAACGCCAATGCGATACAAACATCAATGGATACACGGCATAAGTCATCC
860731 AAACGTTGCTTTACACTACAATTAAGAGAAGAAAAAAAGGAGAGGGAAAAAAAAGTTGTCTCGAG
261 AAACGTTGCTTTACACTACAATTAAGAGAAGAAAAAAAGGAGAGGGAAAAAAAAGTTGTCTCGAG
860796 TTTGAACTGTAATGGCCTGAATTTTTAGGGGTGTCGGAATGGTGATTTGAGATCACTAAATCCGA
326 TTTGAACTGTAATGGCCTGAATTTTTAGGGGTGTCGGAATGGTGATTTGAGATCACTAAATCCGA
860861 CAAATGAGTAGAAAATATTATTAAT
391 CAAATGAGTAGAAAATATTATTAAT
860886 TT
1 TT
860888 AGTGAATATA
Statistics
Matches: 416, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
415 416 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.34
Consensus pattern (415 bp):
TTCGAAATTCAATTTTTATGAGATCGTTAATATTGTACCAAATATATTTTTAGAGCATATTGAAT
CAGTATAGTACCAAAAATCTTGTGTTTTAAAAGTTAAATTTTTTTATATATTTTTAAATTATTAA
TCTAATTTGACCACTGATCAAGTTAAAAAAACCTTAACGATTAGTATGGGGAACTACATTGTTAC
TATAATGGCTTTTTTAGAACGCCAATGCGATACAAACATCAATGGATACACGGCATAAGTCATCC
AAACGTTGCTTTACACTACAATTAAGAGAAGAAAAAAAGGAGAGGGAAAAAAAAGTTGTCTCGAG
TTTGAACTGTAATGGCCTGAATTTTTAGGGGTGTCGGAATGGTGATTTGAGATCACTAAATCCGA
CAAATGAGTAGAAAATATTATTAAT
Found at i:862771 original size:24 final size:24
Alignment explanation
Indices: 862739--862785 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
862729 TTTGAGTACT
*
862739 TCTGATCAGTAACCAGTGACAAGA
1 TCTGATCAGTAACAAGTGACAAGA
*
862763 TCTGATCAGTGACAAGTGACAAG
1 TCTGATCAGTAACAAGTGACAAG
862786 TGATAAGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.21
Consensus pattern (24 bp):
TCTGATCAGTAACAAGTGACAAGA
Found at i:865152 original size:2 final size:2
Alignment explanation
Indices: 865145--865169 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
865135 AATTGTGGTT
865145 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 T
865170 GAAACTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:865206 original size:24 final size:24
Alignment explanation
Indices: 865171--865219 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
865161 TATATATATG
865171 AAACTTTAATTTTGATTCAATTGT
1 AAACTTTAATTTTGATTCAATTGT
* *
865195 AAACTTTGATTTTGATTTAATTGT
1 AAACTTTAATTTTGATTCAATTGT
865219 A
1 A
865220 TACATTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.51
Consensus pattern (24 bp):
AAACTTTAATTTTGATTCAATTGT
Found at i:869491 original size:15 final size:15
Alignment explanation
Indices: 869473--869511 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
869463 TATCATTTTT
869473 AAATTTTTTTAAAAA
1 AAATTTTTTTAAAAA
*
869488 AAATATTTTTAAAAA
1 AAATTTTTTTAAAAA
869503 ATAATTTTT
1 A-AATTTTT
869512 ATAGATATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AAATTTTTTTAAAAA
Found at i:873342 original size:136 final size:137
Alignment explanation
Indices: 873170--873443 Score: 541
Period size: 136 Copynumber: 2.0 Consensus size: 137
873160 CCATGCAAAA
873170 ATGGCTTGTTTATTTTGATATGTATGGTTTCATGCTTGATTAAATAACATGGTTAATTGTTTGGA
1 ATGGCTTGTTTATTTTGATATGTATGGTTTCATGCTTGATTAAATAACATGGTTAATTGTTTGGA
873235 TTGTGTTTCGAAAAAGGTTGAAATAGGGAACTAAAGTTATTTCATAATGATTAGCTATTGAGATG
66 TTGTGTTTCGAAAAAGGTTGAAATAGGGAACTAAAGTTATTTCATAATGATTAGCTATTGAGATG
873300 GCTAATT
131 GCTAATT
873307 ATGGCTTGTTT-TTTTGATATGTATGGTTTCATGCTTGATTAAATAACATGGTTAATTGTTTGGA
1 ATGGCTTGTTTATTTTGATATGTATGGTTTCATGCTTGATTAAATAACATGGTTAATTGTTTGGA
873371 TTGTGTTTCGAAAAAGGTTGAAATAGGGAACTAAAGTTATTTCATAATGATTAGCTATTGAGATG
66 TTGTGTTTCGAAAAAGGTTGAAATAGGGAACTAAAGTTATTTCATAATGATTAGCTATTGAGATG
873436 GCTAATT
131 GCTAATT
873443 A
1 A
873444 AGAATATGTT
Statistics
Matches: 137, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
136 126 0.92
137 11 0.08
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.42
Consensus pattern (137 bp):
ATGGCTTGTTTATTTTGATATGTATGGTTTCATGCTTGATTAAATAACATGGTTAATTGTTTGGA
TTGTGTTTCGAAAAAGGTTGAAATAGGGAACTAAAGTTATTTCATAATGATTAGCTATTGAGATG
GCTAATT
Found at i:873477 original size:136 final size:136
Alignment explanation
Indices: 873201--873477 Score: 448
Period size: 136 Copynumber: 2.0 Consensus size: 136
873191 GTATGGTTTC
873201 ATGCTTGATTAAATAACATGGTTAATTGTTTGGATTGTGTTTCGAAAAAGGTTGAAATAGGGAAC
1 ATGCTTGATTAAATAACATGGTTAATTGTTTGGATTGTGTTTCGAAAAAGGTTGAAATAGGGAAC
* ** **
873266 TAAAGTTATTTCATAATGATTAGCTATTGAGATGGCTAATTATGGCTTGTTTTTTTGATATGTAT
66 TAAAGTTATTTCATAATGATTAGCTATTGAGATGGCTAATTAAGAATTGTTTTAGTGATATGTAT
** **
873331 GGTTTC
131 GCCTAA
873337 ATGCTTGATTAAATAACATGGTTAATTGTTTGGATTGTGTTTCGAAAAAGGTTGAAATAGGGAAC
1 ATGCTTGATTAAATAACATGGTTAATTGTTTGGATTGTGTTTCGAAAAAGGTTGAAATAGGGAAC
*
873402 TAAAGTTATTTCATAATGATTAGCTATTGAGATGGCTAATTAAGAATATG-TTTAGTGTTATGTA
66 TAAAGTTATTTCATAATGATTAGCTATTGAGATGGCTAATTAAGAAT-TGTTTTAGTGATATGTA
873466 TGCCTAA
130 TGCCTAA
873473 ATGCT
1 ATGCT
873478 AGTTAATACA
Statistics
Matches: 130, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
136 128 0.98
137 2 0.02
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.40
Consensus pattern (136 bp):
ATGCTTGATTAAATAACATGGTTAATTGTTTGGATTGTGTTTCGAAAAAGGTTGAAATAGGGAAC
TAAAGTTATTTCATAATGATTAGCTATTGAGATGGCTAATTAAGAATTGTTTTAGTGATATGTAT
GCCTAA
Found at i:879794 original size:24 final size:23
Alignment explanation
Indices: 879768--879811 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
879758 AAATGAAAAA
*
879768 AAAAAT-TACATTTTAACTTTCAT
1 AAAAATATACAATTTAA-TTTCAT
879791 AAAAATATACAATTTAATTTC
1 AAAAATATACAATTTAATTTC
879812 GACTCTTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (23 bp):
AAAAATATACAATTTAATTTCAT
Found at i:880172 original size:15 final size:16
Alignment explanation
Indices: 880154--880189 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 16
880144 TATTTTTAAA
880154 ATTTTTAAAAAAAAT-
1 ATTTTTAAAAAAAATG
880169 A-TTTT-AAAAAAATG
1 ATTTTTAAAAAAAATG
880183 ATTTTTA
1 ATTTTTA
880190 TAGATATCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 5
0.78 0.00 0.22
Matches are distributed among these distances:
13 8 0.44
14 5 0.28
15 5 0.28
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
ATTTTTAAAAAAAATG
Found at i:880187 original size:14 final size:14
Alignment explanation
Indices: 880151--880180 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
880141 TATTATTTTT
880151 AAAAT-TTTTAAAA
1 AAAATATTTTAAAA
880164 AAAATATTTTAAAA
1 AAAATATTTTAAAA
880178 AAA
1 AAA
880181 TGATTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AAAATATTTTAAAA
Found at i:882558 original size:1 final size:1
Alignment explanation
Indices: 882552--882603 Score: 104
Period size: 1 Copynumber: 52.0 Consensus size: 1
882542 CAAGCACTGC
882552 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
882604 TATAATCACT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:884926 original size:30 final size:30
Alignment explanation
Indices: 884891--884954 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
884881 ATATACCCGA
884891 TCCTCCACCCCTTAGCTCCTTTGTTAGTTC
1 TCCTCCACCCCTTAGCTCCTTTGTTAGTTC
*
884921 TCCTCCACTCCTTAGCTCCTTTGTTAGTTC
1 TCCTCCACCCCTTAGCTCCTTTGTTAGTTC
884951 TCCT
1 TCCT
884955 TAGATCATGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.09, C:0.39, G:0.09, T:0.42
Consensus pattern (30 bp):
TCCTCCACCCCTTAGCTCCTTTGTTAGTTC
Found at i:885355 original size:5 final size:5
Alignment explanation
Indices: 885345--885370 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
885335 TTAACTAAGA
885345 TGGGT TGGGT TGGGT TGGGT TGGGT T
1 TGGGT TGGGT TGGGT TGGGT TGGGT T
885371 CTATTGGGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.58, T:0.42
Consensus pattern (5 bp):
TGGGT
Found at i:885823 original size:18 final size:19
Alignment explanation
Indices: 885782--885825 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
885772 ATTATTTGGA
*
885782 TATTGTATAACTTTTGTTT
1 TATTGTATAACTTTTGTAT
885801 TATTGT-TAA-TTTTGCTAT
1 TATTGTATAACTTTTG-TAT
885819 TATTGTA
1 TATTGTA
885826 GAGACAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.23
18 11 0.50
19 6 0.27
ACGTcount: A:0.23, C:0.05, G:0.11, T:0.61
Consensus pattern (19 bp):
TATTGTATAACTTTTGTAT
Found at i:885887 original size:5 final size:5
Alignment explanation
Indices: 885877--885908 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
885867 TAAGTATAAC
885877 TAATT TAATT TAATT TAATT TAATT TCAATT T
1 TAATT TAATT TAATT TAATT TAATT T-AATT T
885909 GTTGGGAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (5 bp):
TAATT
Done.