Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 122 of 185
Found at i:37642681 original size:23 final size:23
Alignment explanation
Indices: 37642655--37642752 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
37642645 ATAAGTGCCA
37642655 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
37642678 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
37642701 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
37642723 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
37642746 CACTGAT
1 CACTGAT
37642753 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:37642720 original size:45 final size:45
Alignment explanation
Indices: 37642662--37642750 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
37642652 CCACACTGAT
* *
37642662 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
37642707 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
37642751 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:37651320 original size:14 final size:15
Alignment explanation
Indices: 37651296--37651324 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
37651286 TTTTTCTGTG
37651296 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
37651311 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
37651325 AGTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:37652546 original size:43 final size:41
Alignment explanation
Indices: 37652477--37652632 Score: 156
Period size: 43 Copynumber: 3.7 Consensus size: 41
37652467 CTGTGTTTTT
*
37652477 GTGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGTGAAC
1 GTGTAAGACCACGTCTGGGACATTGGCATCGA-TTATGT-AAC
* * *
37652520 GTGAAAGACCATGTCTGGGACATTGGCATCGTATT-T-TATTC
1 GTGTAAGACCACGTCTGGGACATTGGCATCG-ATTATGTA-AC
* *
37652561 GTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATATGATTAC
1 GTGTAAGACCAC-GTCTGGGACATTGGCATCGAT-TATG-TAAC
* *
37652604 ATGTAAGACCACGTCTGGGACGTTGGCAT
1 GTGTAAGACCACGTCTGGGACATTGGCAT
37652633 TGTATGAGTT
Statistics
Matches: 93, Mismatches: 12, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
40 3 0.03
41 30 0.32
42 2 0.02
43 55 0.59
44 3 0.03
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (41 bp):
GTGTAAGACCACGTCTGGGACATTGGCATCGATTATGTAAC
Found at i:37652620 original size:84 final size:84
Alignment explanation
Indices: 37652477--37652637 Score: 204
Period size: 84 Copynumber: 1.9 Consensus size: 84
37652467 CTGTGTTTTT
* *
37652477 GTGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGTGAACGTGAAAGACCATGTCTGGGACA
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGTGAACATGAAAGACCACGTCTGGGACA
37652542 TTGGCATCGTATTTTATTC
66 TTGGCATCGTATTTTATTC
* *
37652561 GTGTAAGACC-CTGTCTGGGACAG-TGGCATCGA-TATATGAT-TACATGTAAGACCACGTCTGG
1 GTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGACT-TATG-TGAACATGAAAGACCACGTCTGG
* *
37652622 GACGTTGGCATTGTAT
62 GACATTGGCATCGTAT
37652638 GAGTTTCCGA
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
83 2 0.03
84 63 0.94
85 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (84 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGTGAACATGAAAGACCACGTCTGGGACA
TTGGCATCGTATTTTATTC
Found at i:37654531 original size:25 final size:26
Alignment explanation
Indices: 37654496--37654552 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
37654486 ACTGTATTTG
*
37654496 ATATACATATACACGCATATTTTTAT
1 ATATACATATACACGCATATTTTAAT
***
37654522 ATATA-ATATATGTGCATATTTTAAT
1 ATATACATATACACGCATATTTTAAT
37654547 ATATAC
1 ATATAC
37654553 TTTAAAGGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.44
Consensus pattern (26 bp):
ATATACATATACACGCATATTTTAAT
Found at i:37656759 original size:24 final size:24
Alignment explanation
Indices: 37656697--37656748 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
37656687 TTTCTAGAAG
* *
37656697 ATTTAGTATTTA-TAAGTATAATAT
1 ATTTAGCATTTATTAA-CATAATAT
37656721 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATTAACATAATAT
37656745 ATTT
1 ATTT
37656749 GACTTTGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAACATAATAT
Found at i:37661104 original size:24 final size:24
Alignment explanation
Indices: 37661042--37661093 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
37661032 TTTCTAGAAG
*
37661042 ATTTAGTATTTA-TAAGTATAATAT
1 ATTTAGCATTTATTAA-TATAATAT
37661066 ATTTAGCATTTATTAATATAATAT
1 ATTTAGCATTTATTAATATAATAT
37661090 ATTT
1 ATTT
37661094 GATTTTGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (24 bp):
ATTTAGCATTTATTAATATAATAT
Found at i:37662575 original size:18 final size:17
Alignment explanation
Indices: 37662543--37662576 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
37662533 TAATTAATAA
*
37662543 TTTTAATTTTAATTATT
1 TTTTAATTATAATTATT
37662560 TTTTAATGTATAATTAT
1 TTTTAAT-TATAATTAT
37662577 CACAACTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (17 bp):
TTTTAATTATAATTATT
Found at i:37662602 original size:44 final size:44
Alignment explanation
Indices: 37662547--37662633 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 44
37662537 TAATAATTTT
*
37662547 AATTTTAATTATTTTTTAATGTATAATTATCACAACTTCTATTA
1 AATTATAATTATTTTTTAATGTATAATTATCACAACTTCTATTA
* **
37662591 AATTATAATTATTTTTTAATGTATAATTTTTGCAACTTCTATT
1 AATTATAATTATTTTTTAATGTATAATTATCACAACTTCTATT
37662634 TTATTTCAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.34, C:0.08, G:0.03, T:0.54
Consensus pattern (44 bp):
AATTATAATTATTTTTTAATGTATAATTATCACAACTTCTATTA
Found at i:37663188 original size:2 final size:2
Alignment explanation
Indices: 37663181--37663205 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
37663171 CAAGATTCAC
37663181 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
37663206 CTACTAGAAA
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:37671229 original size:24 final size:24
Alignment explanation
Indices: 37671202--37671251 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
37671192 AGGTTTTGTA
*
37671202 CTATTTTCACCGATACGTCTTTTC
1 CTATTTTCACCAATACGTCTTTTC
*
37671226 CTATTTTCACCAATGCGTCTTTTC
1 CTATTTTCACCAATACGTCTTTTC
37671250 CT
1 CT
37671252 TGTCAATTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.16, C:0.30, G:0.08, T:0.46
Consensus pattern (24 bp):
CTATTTTCACCAATACGTCTTTTC
Found at i:37671543 original size:85 final size:88
Alignment explanation
Indices: 37671382--37671597 Score: 323
Period size: 85 Copynumber: 2.5 Consensus size: 88
37671372 CTTAAGGGTG
* * *
37671382 CAAAAA-ACCCTCAAACTTTTTGAAAAAAAGCAATTAAGCCCCTACTTTTTCTTGCACTCAATTA
1 CAAAAAGACCCTCAAAC-TTTTCAAAAAAAACAATTAAGCCCCTACTTTTTCTTACACTCAATTA
37671446 GGTACTTAAACTTTCAAAATGCAT
65 GGTACTTAAACTTTCAAAATGCAT
* *
37671470 CAAAAAGACCCTCAAAC-TTT-AAAAAAAACAATTAAGCCTCTACTTTTT-TTACACTCAATTGG
1 CAAAAAGACCCTCAAACTTTTCAAAAAAAACAATTAAGCCCCTACTTTTTCTTACACTCAATTAG
*
37671532 GTACTTGAACTTTCAAAATGCAT
66 GTACTTAAACTTTCAAAATGCAT
37671555 CAAAAAGACCCTCAAACTTTTTCAAAAAAAATCAATTAAGCCC
1 CAAAAAGACCCTCAAAC-TTTTCAAAAAAAA-CAATTAAGCCC
37671598 TCGCTTTTAT
Statistics
Matches: 117, Mismatches: 6, Indels: 9
0.89 0.05 0.07
Matches are distributed among these distances:
85 51 0.44
86 26 0.22
87 6 0.05
88 14 0.12
89 20 0.17
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.29
Consensus pattern (88 bp):
CAAAAAGACCCTCAAACTTTTCAAAAAAAACAATTAAGCCCCTACTTTTTCTTACACTCAATTAG
GTACTTAAACTTTCAAAATGCAT
Found at i:37671671 original size:10 final size:10
Alignment explanation
Indices: 37671642--37671696 Score: 57
Period size: 9 Copynumber: 6.0 Consensus size: 10
37671632 AATAAAAGCT
37671642 ATAAATATTA
1 ATAAATATTA
*
37671652 TTAAAT-TTA
1 ATAAATATTA
37671661 ATAAATATT-
1 ATAAATATTA
37671670 A-AAATATTA
1 ATAAATATTA
37671679 A-AAAT-TTA
1 ATAAATATTA
*
37671687 ATAAAAATTA
1 ATAAATATTA
37671697 GAAAAAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
8 11 0.29
9 17 0.45
10 10 0.26
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
ATAAATATTA
Found at i:37671683 original size:26 final size:27
Alignment explanation
Indices: 37671644--37671696 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
37671634 TAAAAGCTAT
* *
37671644 AAATATTATTAAATTTAATAAATATTA
1 AAATATTATAAAATTTAATAAAAATTA
37671671 AAATATTA-AAAATTTAATAAAAATTA
1 AAATATTATAAAATTTAATAAAAATTA
37671697 GAAAAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (27 bp):
AAATATTATAAAATTTAATAAAAATTA
Found at i:37671711 original size:18 final size:18
Alignment explanation
Indices: 37671687--37671730 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
37671677 TAAAAATTTA
37671687 ATAAAAATTAGAAAAAAAT
1 ATAAAAA-TAGAAAAAAAT
* *
37671706 ATAAAAATCGTAAAAAAT
1 ATAAAAATAGAAAAAAAT
37671724 ATAAAAA
1 ATAAAAA
37671731 AATTGTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (18 bp):
ATAAAAATAGAAAAAAAT
Found at i:37671720 original size:39 final size:38
Alignment explanation
Indices: 37671663--37671760 Score: 90
Period size: 39 Copynumber: 2.5 Consensus size: 38
37671653 TAAATTTAAT
* ** *
37671663 AAATATTAAAATATTAAAAATTTAATAAAAATTAG-AAAA
1 AAATATAAAAATCGTAAAAATATAA-AAAAATT-GTAAAA
37671702 AAATATAAAAATCGTAAAAAATATAAAAAAATTGTAAAA
1 AAATATAAAAATCGT-AAAAATATAAAAAAATTGTAAAA
*** *
37671741 TTTTATAAAAAACGTAAAAA
1 AAATATAAAAATCGTAAAAA
37671761 AATTATAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
38 6 0.12
39 34 0.69
40 9 0.18
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (38 bp):
AAATATAAAAATCGTAAAAATATAAAAAAATTGTAAAA
Found at i:37671738 original size:20 final size:20
Alignment explanation
Indices: 37671678--37671740 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
37671668 TTAAAATATT
*
37671678 AAAAATTTAATAAAAATTAG-A
1 AAAAATATAA-AAAAATT-GTA
* *
37671699 AAAAA-ATATAAAAATCGTA
1 AAAAATATAAAAAAATTGTA
37671718 AAAAATATAAAAAAATTGTA
1 AAAAATATAAAAAAATTGTA
37671738 AAA
1 AAA
37671741 TTTTATAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
18 1 0.03
19 12 0.34
20 17 0.49
21 5 0.14
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.24
Consensus pattern (20 bp):
AAAAATATAAAAAAATTGTA
Found at i:37671760 original size:20 final size:20
Alignment explanation
Indices: 37671705--37671770 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
37671695 TAGAAAAAAA
* *
37671705 TATAAAAATCGTAAAAAATA
1 TATAAAAAACGTAAAAAATT
* *
37671725 TA-AAAAAATTGT-AAAATTT
1 TATAAAAAA-CGTAAAAAATT
*
37671744 TATAAAAAACGTAAAAAAAT
1 TATAAAAAACGTAAAAAATT
37671764 TATAAAA
1 TATAAAA
37671771 TATATAATTA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
19 14 0.39
20 22 0.61
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (20 bp):
TATAAAAAACGTAAAAAATT
Found at i:37671770 original size:10 final size:10
Alignment explanation
Indices: 37671689--37671770 Score: 53
Period size: 10 Copynumber: 8.3 Consensus size: 10
37671679 AAAATTTAAT
*
37671689 AAAAATTAGA
1 AAAAATTATA
*
37671699 AAAAAATAT-
1 AAAAATTATA
**
37671708 AAAAATCGTA
1 AAAAATTATA
37671718 AAAAA-TATAA
1 AAAAATTAT-A
*
37671728 AAAAATTGTA
1 AAAAATTATA
**
37671738 AAATTTTATA
1 AAAAATTATA
*
37671748 AAAAACGTA-A
1 AAAAA-TTATA
37671758 AAAAATTATA
1 AAAAATTATA
37671768 AAA
1 AAA
37671771 TATATAATTA
Statistics
Matches: 52, Mismatches: 15, Indels: 10
0.68 0.19 0.13
Matches are distributed among these distances:
9 9 0.17
10 39 0.75
11 4 0.08
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.24
Consensus pattern (10 bp):
AAAAATTATA
Found at i:37672059 original size:19 final size:20
Alignment explanation
Indices: 37672012--37672066 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
37672002 TTATAAAAAA
**
37672012 TTATAATTTTTAATATTTTT
1 TTATAATTTTTTTTATTTTT
*
37672032 TCTAAAATTTTTTTTA-TTTT
1 T-TATAATTTTTTTTATTTTT
37672052 TTATAATTTATTTTT
1 TTATAATTT-TTTTT
37672067 CTAATTTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 7 0.24
20 11 0.38
21 11 0.38
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (20 bp):
TTATAATTTTTTTTATTTTT
Found at i:37672232 original size:89 final size:87
Alignment explanation
Indices: 37672079--37672280 Score: 225
Period size: 89 Copynumber: 2.3 Consensus size: 87
37672069 AATTTTTAAT
* * ** *
37672079 AAGAGTAGGGGCTTAATTGC-TTTTTTGAAAAATTTTGAGGGTTTTTTAGATGCATTTTGAAAGT
1 AAGAG-AGGGGCTTAATTGCTTTTTTTGAAAAAGTGTGAGGCCTTTTTAGATGCATTTTAAAAGT
* *
37672143 TCAGGT-ATCCAATTGAGTGGAAAA
65 TCAAGTGCT-CAATTGAGT-GAAAA
*
37672167 AAGAGCAGGGGCTTAATTGCTTTTTTTGAAGAAGTGTGAAGGCCTTTTT-GATGCATTTTAAAAG
1 AAGAG-AGGGGCTTAATTGCTTTTTTTGAAAAAGTGTG-AGGCCTTTTTAGATGCATTTTAAAAG
*
37672231 TTTAAGTGCTCAATTGAGTGAAAA
64 TTCAAGTGCTCAATTGAGTGAAAA
37672255 AA-A-AGGGGACTTAATTGCTCTTTTTT
1 AAGAGAGGGG-CTTAATTGCT-TTTTTT
37672281 TTTAAAAGTT
Statistics
Matches: 99, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
85 5 0.05
86 10 0.10
87 7 0.07
88 26 0.26
89 42 0.42
90 9 0.09
ACGTcount: A:0.30, C:0.08, G:0.24, T:0.37
Consensus pattern (87 bp):
AAGAGAGGGGCTTAATTGCTTTTTTTGAAAAAGTGTGAGGCCTTTTTAGATGCATTTTAAAAGTT
CAAGTGCTCAATTGAGTGAAAA
Found at i:37675129 original size:20 final size:19
Alignment explanation
Indices: 37675106--37675149 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
37675096 TTTTGATGTA
37675106 TTTTATAATTTTTTTAC-AAT
1 TTTTAT-ATTTTTTT-CTAAT
37675126 TTTTATATTTTTTTCTAAT
1 TTTTATATTTTTTTCTAAT
37675145 TTTTA
1 TTTTA
37675150 ATAAATCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 1 0.04
19 16 0.70
20 6 0.26
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTATATTTTTTTCTAAT
Found at i:37677655 original size:30 final size:29
Alignment explanation
Indices: 37677619--37677679 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 29
37677609 ACAATATACG
**
37677619 AAAATTAGATTAAATTAAAATTTCATATAT
1 AAAATTAGACAAAATTAAAATTT-ATATAT
* *
37677649 AAAATTATACAAAATTAAAATTTATGTAT
1 AAAATTAGACAAAATTAAAATTTATATAT
37677678 AA
1 AA
37677680 TTTTGAGGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 7 0.26
30 20 0.74
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (29 bp):
AAAATTAGACAAAATTAAAATTTATATAT
Found at i:37679854 original size:29 final size:29
Alignment explanation
Indices: 37679779--37679854 Score: 66
Period size: 29 Copynumber: 2.6 Consensus size: 29
37679769 AAAATCAAGG
* * *
37679779 GTTCATGTATACATATGAACCAACATTCAA
1 GTTCATGTAT-CAAATTAACCAACATTAAA
*
37679809 GTTTCATGTGT-ATAATTACACCAA-ATTAAA
1 G-TTCATGTATCA-AATTA-ACCAACATTAAA
37679839 GTTCATGTATCAAATT
1 GTTCATGTATCAAATT
37679855 GCATATTGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
29 13 0.35
30 11 0.30
31 13 0.35
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.36
Consensus pattern (29 bp):
GTTCATGTATCAAATTAACCAACATTAAA
Found at i:37681417 original size:24 final size:24
Alignment explanation
Indices: 37681390--37681441 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
37681380 TTAGTAAGTC
*
37681390 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
37681414 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
37681438 AAAT
1 AAAT
37681442 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:37684543 original size:3 final size:3
Alignment explanation
Indices: 37684535--37684575 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
37684525 AAATTAGTTA
37684535 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
37684576 AAGGATAGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:37690947 original size:22 final size:23
Alignment explanation
Indices: 37690913--37690957 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
37690903 AGATTAAATG
*
37690913 TTAAATTTGATATCTGAATTTTT
1 TTAAATTTGATATCTAAATTTTT
*
37690936 TTAAA-TTGATATTTAAATTTTT
1 TTAAATTTGATATCTAAATTTTT
37690958 CTTTATTCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (23 bp):
TTAAATTTGATATCTAAATTTTT
Found at i:37691506 original size:3 final size:3
Alignment explanation
Indices: 37691498--37691537 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
37691488 ATTCATCTCT
37691498 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
37691538 TTTTATTATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:37698026 original size:14 final size:14
Alignment explanation
Indices: 37698004--37698041 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
37697994 CGTGATTTAA
*
37698004 ATTTGGAGTTCAGG
1 ATTTAGAGTTCAGG
*
37698018 ATTTAGAGTTCATG
1 ATTTAGAGTTCAGG
37698032 ATTTA-AGTTC
1 ATTTAGAGTTC
37698042 GGGGTTTAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.26, C:0.08, G:0.24, T:0.42
Consensus pattern (14 bp):
ATTTAGAGTTCAGG
Found at i:37701287 original size:14 final size:14
Alignment explanation
Indices: 37701251--37701284 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
37701241 TCATCATTTG
37701251 CCTATAACCAAAAC
1 CCTATAACCAAAAC
37701265 CCTATAACCAAAAC
1 CCTATAACCAAAAC
37701279 CC-ATAA
1 CCTATAA
37701285 ACCCATACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (14 bp):
CCTATAACCAAAAC
Found at i:37704197 original size:27 final size:27
Alignment explanation
Indices: 37704161--37704245 Score: 100
Period size: 27 Copynumber: 3.1 Consensus size: 27
37704151 TATAAGAGTA
* *
37704161 GTGGTGCCTATCTCAGAGGCGCCAATG
1 GTGGAGCCTATCTGAGAGGCGCCAATG
* *
37704188 GTGGAGCCTATCTGAGAGGCGCCACTA
1 GTGGAGCCTATCTGAGAGGCGCCAATG
* *
37704215 GTTGAGCC-ATGTTGAGAGGCGCCAATG
1 GTGGAGCCTAT-CTGAGAGGCGCCAATG
37704242 GTGG
1 GTGG
37704246 GGCCCACAGC
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
26 2 0.04
27 46 0.96
ACGTcount: A:0.20, C:0.22, G:0.36, T:0.21
Consensus pattern (27 bp):
GTGGAGCCTATCTGAGAGGCGCCAATG
Found at i:37705604 original size:14 final size:14
Alignment explanation
Indices: 37705585--37705612 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
37705575 TCCAAAACTA
37705585 TTTGTACGTGCATC
1 TTTGTACGTGCATC
37705599 TTTGTACGTGCATC
1 TTTGTACGTGCATC
37705613 ATGTCAATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.43
Consensus pattern (14 bp):
TTTGTACGTGCATC
Found at i:37707441 original size:16 final size:16
Alignment explanation
Indices: 37707422--37707460 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
37707412 ATAATCAAAT
37707422 AAAATTACATTATATA
1 AAAATTACATTATATA
37707438 AAAATTACATTATATA
1 AAAATTACATTATATA
37707454 AAAATTA
1 AAAATTA
37707461 AATGAGTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAATTACATTATATA
Found at i:37708248 original size:25 final size:26
Alignment explanation
Indices: 37708209--37708257 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
37708199 TACTAAACTA
*
37708209 AACACAACAATTTATAACTTAATCTT
1 AACACAACAATTTATAACATAATCTT
37708235 AACACAA-AATTTATAACATAATC
1 AACACAACAATTTATAACATAATC
37708258 CTAAACAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (26 bp):
AACACAACAATTTATAACATAATCTT
Found at i:37708264 original size:26 final size:26
Alignment explanation
Indices: 37708206--37708264 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
37708196 AAATACTAAA
*
37708206 CTAAACACAACAATTTATAACTTAAT
1 CTAAACACAACAATTTATAACATAAT
*
37708232 CTTAACACAA-AATTTATAACATAAT
1 CTAAACACAACAATTTATAACATAAT
37708257 CCTAAACA
1 -CTAAACA
37708265 GATATTGTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 14 0.48
26 15 0.52
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (26 bp):
CTAAACACAACAATTTATAACATAAT
Found at i:37708361 original size:44 final size:44
Alignment explanation
Indices: 37708312--37708895 Score: 153
Period size: 44 Copynumber: 13.3 Consensus size: 44
37708302 AGACCCTAGC
37708312 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGAT
1 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGAT
* * *** * * * ** * ** *
37708356 TTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA-CCCTAG-C
1 CTTGTCTCCCTG-AGCAGCAGTGGAGTAGGTTAAAAATAGC-AGAT
* *
37708400 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGTAGAT
1 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGAT
* * *** * * * * * * * *
37708444 CTTGTCTTCCTATATTGGTAGCGAAGTAGATCAAAGATACCAG-C
1 CTTGTCTCCCT-GAGCAGCAGTGGAGTAGGTTAAAAATAGCAGAT
*
37708488 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAAAT
1 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGAT
* *** * * * ** * *** *
37708532 CTTGTCTTCCTGTATTGGTAGTGAAGTAGATCGAAGACCCCAG-C
1 CTTGTCTCCCTG-AGCAGCAGTGGAGTAGGTTAAAAATAGCAGAT
* * *
37708576 CTTGTCTCTCTGAGCACCAGTGGAGTAGGTTAAAAATAACAGAT
1 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGAT
** *** * * ** * ** *
37708620 CTTGTCTTTCTGTATTGGCAGTGAAGTAGATCGAAGA-CCCTAGCT
1 CTTGTCTCCCTG-AGCAGCAGTGGAGTAGGTTAAAAATAGC-AGAT
* * *
37708665 -TTGTCTCCTTGAGCAGCAGTGGATTAGGTTAAAAATAGTAGAT
1 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGAT
* * * * ** * *** *
37708708 CTTGTCTTCCTGTATTG-A-CAGCGAAGTAGATCGAAGACCCCAG-G
1 CTTGTCTCCCTG-A--GCAGCAGTGGAGTAGGTTAAAAATAGCAGAT
* * *
37708752 CTTGTCTCCCTGAGCAACAGTGAAGTAGGTTGAAAATAGCAGAT
1 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGAT
* * * *** *** * ** * * *
37708796 CTTGTCTTCATATATTGGCAGCAAAGTAGATCGAAGATACCAG-C
1 CTTGTCTCCCT-GAGCAGCAGTGGAGTAGGTTAAAAATAGCAGAT
* *
37708840 CTTGTCTCCTTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGAT
1 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGAT
*
37708884 CTTGTCTTCCTG
1 CTTGTCTCCCTG
37708896 TATTCGCAGC
Statistics
Matches: 350, Mismatches: 170, Indels: 40
0.62 0.30 0.07
Matches are distributed among these distances:
41 1 0.00
42 1 0.00
43 111 0.32
44 130 0.37
45 105 0.30
46 1 0.00
47 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28
Consensus pattern (44 bp):
CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGAT
Found at i:37708412 original size:88 final size:87
Alignment explanation
Indices: 37708263--37708958 Score: 955
Period size: 88 Copynumber: 7.9 Consensus size: 87
37708253 TAATCCTAAA
* **
37708263 CAGATATTGTCTTCCTGTATTACCAGCGAAGTAGATCGAAGACCCTAGCCTTGTCTCCCTGAGCA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACCC-AGCCTTGTCTCCCTGAGCA
37708328 GCAGTGGAGTAGGTTAAAAATAG
65 GCAGTGGAGTAGGTTAAAAATAG
*
37708351 CAGATTTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACCCTAGCCTTGTCTCCCTGAGCA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACCC-AGCCTTGTCTCCCTGAGCA
*
37708416 GCAGTGGAGTAGGTTGAAAATAG
65 GCAGTGGAGTAGGTTAAAAATAG
* * * * *
37708439 TAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCAAAGATACCAGCCTTGTCTCCCTGAGCA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA-CCCAGCCTTGTCTCCCTGAGCA
37708504 GCAGTGGAGTAGGTTAAAAATAG
65 GCAGTGGAGTAGGTTAAAAATAG
* * * *
37708527 CAAATCTTGTCTTCCTGTATTGGTAGTGAAGTAGATCGAAGACCCCAGCCTTGTCTCTCTGAGCA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA-CCCAGCCTTGTCTCCCTGAGCA
* *
37708592 CCAGTGGAGTAGGTTAAAAATAA
65 GCAGTGGAGTAGGTTAAAAATAG
* * * *
37708615 CAGATCTTGTCTTTCTGTATTGGCAGTGAAGTAGATCGAAGACCCTAGCTTTGTCTCCTTGAGCA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACCC-AGCCTTGTCTCCCTGAGCA
*
37708680 GCAGTGGATTAGGTTAAAAATAG
65 GCAGTGGAGTAGGTTAAAAATAG
* * *
37708703 TAGATCTTGTCTTCCTGTATTGACAGCGAAGTAGATCGAAGACCCCAGGCTTGTCTCCCTGAGCA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA-CCCAGCCTTGTCTCCCTGAGCA
* * *
37708768 ACAGTGAAGTAGGTTGAAAATAG
65 GCAGTGGAGTAGGTTAAAAATAG
* * * * *
37708791 CAGATCTTGTCTTCATATATTGGCAGCAAAGTAGATCGAAGATACCAGCCTTGTCTCCTTGAGCA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA-CCCAGCCTTGTCTCCCTGAGCA
*
37708856 GCAGTGGAGTAGGTTGAAAATAG
65 GCAGTGGAGTAGGTTAAAAATAG
* * *
37708879 CAGATCTTGTCTTCCTGTATTCGCAGCGAAGTAGATCGAAGATACCAGTCC-TATCTCCCTTGA-
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA-CCCAG-CCTTGTCTCCC-TGAG
*
37708942 CAGCAGTGGAATAGGTT
63 CAGCAGTGGAGTAGGTT
37708959 GAAGATTGTA
Statistics
Matches: 544, Mismatches: 59, Indels: 10
0.89 0.10 0.02
Matches are distributed among these distances:
87 3 0.01
88 531 0.98
89 10 0.02
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (87 bp):
CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACCCAGCCTTGTCTCCCTGAGCAG
CAGTGGAGTAGGTTAAAAATAG
Found at i:37709091 original size:132 final size:131
Alignment explanation
Indices: 37708923--37709347 Score: 575
Period size: 132 Copynumber: 3.2 Consensus size: 131
37708913 ATCGAAGATA
* *
37708923 CCAGTCCTATCTCCCTTGACAGCAGTGGAATAGGTTGAAGATTGTAGATCATGTCTCCCTAAACA
1 CCAGTCCTATCTCCCTAGACAACAGTGGAATAGGTTGAAGATTGTAGATCATGTCTCCCTAAACA
* * *
37708988 ATAGCGGAACAGATCAAAGACAGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAAATTTAAGT
66 ATAGTGGAACAAATCAAAGAC-GTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGT
37709053 CG
130 CG
* * * *
37709055 TCAGTCCTATCTTCCTGGACAACAGTGGAATAGGTTGAAGATTGTAGATCATGTCTCCCTGAACA
1 CCAGTCCTATCTCCCTAGACAACAGTGGAATAGGTTGAAGATTGTAGATCATGTCTCCCTAAACA
* * * * *
37709120 GTAGTAGAACAAATCAAAAACGGTGAATCTTATCTTCTCACGGTAGTAGGGAAGCAGATTTAAGT
66 ATAGTGGAACAAATCAAAGAC-GTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGT
37709185 CG
130 CG
37709187 CCAGTCCTATCTCCCTAGACAGA-AGTGGAATAGGTTGAAGATTGTAGATCATGTCTCCCTAAAC
1 CCAGTCCTATCTCCCTAGACA-ACAGTGGAATAGGTTGAAGATTGTAGATCATGTCTCCCTAAAC
* * * * * *
37709251 ATTAGTGGAACATATCAAAGACGACGAATATTATCTTCCCAATGTAGGAGGGAAGCAGATTTAAG
65 AATAGTGGAACAAATCAAAGACG-TGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAG
* *
37709316 CCA
129 TCG
* *
37709319 CCAATCCTATCTCCCT-GAGCAGCAGTGGA
1 CCAGTCCTATCTCCCTAGA-CAACAGTGGA
37709348 GTAGACAAGA
Statistics
Matches: 257, Mismatches: 32, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
131 3 0.01
132 253 0.98
133 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.25
Consensus pattern (131 bp):
CCAGTCCTATCTCCCTAGACAACAGTGGAATAGGTTGAAGATTGTAGATCATGTCTCCCTAAACA
ATAGTGGAACAAATCAAAGACGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGTC
G
Found at i:37709573 original size:131 final size:129
Alignment explanation
Indices: 37709326--37709640 Score: 308
Period size: 131 Copynumber: 2.4 Consensus size: 129
37709316 CCACCAATCC
* *
37709326 TATCTCCCTGAGCAGCAGTGGAGTAGACAAGAGAAACCAATCCTATCTCCCTG-AGCAGCAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGACAAGAGAAACCAATCCTATCTCCCTGAAACAGCAGGGG
* * * *
37709390 AGTAGGTTAAAAATAGCAGATCTCGTCTTCCTGTATTGGCAACGAAGTAGATCGAAGACCTCAGC
66 AGTAGGTTAAAAATAGCAGATATCGTCTTCCTGAATTGGCAACGAAGCAGATC--ACACC-CAGC
37709455 CT
128 CT
*
37709457 TATCTCCCTGAGCAGCAGTGGAGTAGACAAGAGAAACCAATCCTATCTCCCTGAAATAGCAGGGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGACAAGAGAAACCAATCCTATCTCCCTGAAACAGCAGGGG
* * * *
37709522 AG-CGGATT-AAAATGATGGATATTATCG-C-T-CTGAAGTT-GC-A-GTAGAGCAGATCACATC
66 AGTAGG-TTAAAAAT-A-GCAGA-TATCGTCTTCCTGAA-TTGGCAACG-A-AGCAGATCACACC
*
37709579 CAGTCT
124 CAGCCT
** * *
37709585 TATCTCCCTGAAGTTGCAGTGGAGTAGAC-AGAAGAAACTAATCCTATTTCCCTGAA
1 TATCTCCCTG-AGCAGCAGTGGAGTAGACAAG-AGAAACCAATCCTATCTCCCTGAA
37709641 GTCACAGTGG
Statistics
Matches: 158, Mismatches: 16, Indels: 22
0.81 0.08 0.11
Matches are distributed among these distances:
128 17 0.11
129 42 0.27
130 2 0.01
131 73 0.46
132 16 0.10
133 4 0.03
134 4 0.03
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.23
Consensus pattern (129 bp):
TATCTCCCTGAGCAGCAGTGGAGTAGACAAGAGAAACCAATCCTATCTCCCTGAAACAGCAGGGG
AGTAGGTTAAAAATAGCAGATATCGTCTTCCTGAATTGGCAACGAAGCAGATCACACCCAGCCT
Found at i:37709961 original size:15 final size:15
Alignment explanation
Indices: 37709941--37709975 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
37709931 TACAAACCCA
*
37709941 AACTACGCCTAGCCC
1 AACTACACCTAGCCC
37709956 AACTACACCTAGCCC
1 AACTACACCTAGCCC
37709971 AACTA
1 AACTA
37709976 TCATATGGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.34, C:0.43, G:0.09, T:0.14
Consensus pattern (15 bp):
AACTACACCTAGCCC
Found at i:37711072 original size:22 final size:22
Alignment explanation
Indices: 37711028--37711086 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
37711018 ATGAATGTTG
*
37711028 TTTAAATTTATCACATATTATTAT
1 TTTAAATTTAT--CATATAATTAT
37711052 TTTAAATTTATCATATAATTAT
1 TTTAAATTTATCATATAATTAT
*
37711074 TTTAAGTTT-TCAT
1 TTTAAATTTATCAT
37711087 GTATCATTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 4 0.12
22 18 0.55
24 11 0.33
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTAAATTTATCATATAATTAT
Found at i:37716260 original size:8 final size:8
Alignment explanation
Indices: 37716247--37716294 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
37716237 ATTAAATAAA
*
37716247 ATAAAATT
1 ATAAAACT
37716255 ATAAAACT
1 ATAAAACT
*
37716263 GTAAAA-T
1 ATAAAACT
37716270 AT-AAA-T
1 ATAAAACT
37716276 ATAAAACT
1 ATAAAACT
37716284 A-AAAACT
1 ATAAAACT
37716291 ATAA
1 ATAA
37716295 TATATATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
6 6 0.18
7 12 0.35
8 16 0.47
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (8 bp):
ATAAAACT
Found at i:37716267 original size:21 final size:21
Alignment explanation
Indices: 37716243--37716300 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 21
37716233 CTTTATTAAA
37716243 TAAAATA-AAATTATAAAACTG
1 TAAAATATAAA-TATAAAACTG
37716264 TAAAATATAAATATAAAACT-
1 TAAAATATAAATATAAAACTG
*
37716284 AAAAACTATAATATATA
1 TAAAA-TATAA-ATATA
37716301 TATATAAAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
20 4 0.12
21 21 0.64
22 8 0.24
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (21 bp):
TAAAATATAAATATAAAACTG
Found at i:37716288 original size:28 final size:29
Alignment explanation
Indices: 37716242--37716309 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 29
37716232 GCTTTATTAA
* *
37716242 ATAAA-ATAAAATTATAAAACTGTAAAAT
1 ATAAATATAAAACTATAAAACTATAAAAT
*
37716270 ATAAATATAAAACTA-AAAACTATAATAT
1 ATAAATATAAAACTATAAAACTATAAAAT
*
37716298 ATATATATAAAA
1 ATAAATATAAAA
37716310 GAAAAGTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 27 0.77
29 8 0.23
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.29
Consensus pattern (29 bp):
ATAAATATAAAACTATAAAACTATAAAAT
Found at i:37726671 original size:14 final size:13
Alignment explanation
Indices: 37726654--37726693 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 13
37726644 AAATAAAACT
37726654 ATAAAAACTATAAA
1 ATAAAAA-TATAAA
37726668 ATAAAAATATAAA
1 ATAAAAATATAAA
37726681 ACTAACAAATATA
1 A-TAA-AAATATA
37726694 TAATTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.29
14 10 0.42
15 7 0.29
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (13 bp):
ATAAAAATATAAA
Found at i:37728775 original size:933 final size:933
Alignment explanation
Indices: 37726969--37728835 Score: 3725
Period size: 933 Copynumber: 2.0 Consensus size: 933
37726959 CCCCTTTTTT
37726969 ATTGAATCATATTCTGTCTATATATATGATTACGAAATACAACAGTTTGGTTTAATTTTATTATT
1 ATTGAATCATATTCTGTCTATATATATGATTACGAAATACAACAGTTTGGTTTAATTTTATTATT
37727034 ATTATTGATAAGAAATGTACAGAATATGCTTTTATTTATTTGTTAAGGATTTTAAAGATTCCTAG
66 ATTATTGATAAGAAATGTACAGAATATGCTTTTATTTATTTGTTAAGGATTTTAAAGATTCCTAG
37727099 AAAAGGTTGCAGTTGTGTTGTGTAGCCTTGGAGAAATTAAAATAGGGTGAAGTTAGGCCGAGACA
131 AAAAGGTTGCAGTTGTGTTGTGTAGCCTTGGAGAAATTAAAATAGGGTGAAGTTAGGCCGAGACA
*
37727164 TAACATGACAACTCATTATTACTCGACATGACTTGAGCTTTCAACTTCCAAATGATGCCTACATA
196 TAACATGACAACTCATTATTACTCGACATGACTTGAGCATTCAACTTCCAAATGATGCCTACATA
37727229 CCTTGCTTTTACAGCTTAGCTTAGCTTTTTGTACATCCTCAGACTTGGCTACTTCATACACCTAC
261 CCTTGCTTTTACAGCTTAGCTTAGCTTTTTGTACATCCTCAGACTTGGCTACTTCATACACCTAC
37727294 CCTTTCTATTTCAACATCATATCATTTTCAGGTTTTAAGGTTATTTTCATCTTGAAATTATTTTG
326 CCTTTCTATTTCAACATCATATCATTTTCAGGTTTTAAGGTTATTTTCATCTTGAAATTATTTTG
37727359 GGTTTATGTTATTTTAAAGCCCAAGTTATTCAGGTTTTAAATTTAGGGACATACTTTTTTTTAAA
391 GGTTTATGTTATTTTAAAGCCCAAGTTATTCAGGTTTTAAATTTAGGGACATACTTTTTTTTAAA
37727424 TTATATAAGTTCCAATTTTTAGATTTAATCAATTTATTATATCAAATCATTTTACATTTTAAAAA
456 TTATATAAGTTCCAATTTTTAGATTTAATCAATTTATTATATCAAATCATTTTACATTTTAAAAA
37727489 TCATTTCGAGTTAGGTCATCCTCATTTTCTCATTTTCAAATCATTTGAGTTTGTGATTTTAAATT
521 TCATTTCGAGTTAGGTCATCCTCATTTTCTCATTTTCAAATCATTTGAGTTTGTGATTTTAAATT
37727554 TATCAAATGAGACCATTTCTTTCGTTTACATCATTTCAAGTTCAGTATAGATGAATTTCTTAAGT
586 TATCAAATGAGACCATTTCTTTCGTTTACATCATTTCAAGTTCAGTATAGATGAATTTCTTAAGT
37727619 TATGATCGAATAAGATGGGTTGACAAGCATCATCTAAAAACAGGTGCAAGGAAGGCCGAAAATTG
651 TATGATCGAATAAGATGGGTTGACAAGCATCATCTAAAAACAGGTGCAAGGAAGGCCGAAAATTG
37727684 ATTCATCTCATGCTATCATCTTTATGCCAAAAACTCTAATTTACAACCTCTACCAAACCCCTAAA
716 ATTCATCTCATGCTATCATCTTTATGCCAAAAACTCTAATTTACAACCTCTACCAAACCCCTAAA
37727749 AAACCATAAATCAATTAAATTATACTAAAAGGAAATTACATTGAAACCAACAAATATATTGTTAC
781 AAACCATAAATCAATTAAATTATACTAAAAGGAAATTACATTGAAACCAACAAATATATTGTTAC
37727814 AATCTGGTCATAAAAGGGTCAACATTACTCATTAAGGTCTTTAAGGGCAGATACTCTCAAGTTTT
846 AATCTGGTCATAAAAGGGTCAACATTACTCATTAAGGTCTTTAAGGGCAGATACTCTCAAGTTTT
37727879 GTTTTTTCTACAAAAGGGAGAAG
911 GTTTTTTCTACAAAAGGGAGAAG
37727902 ATTGAATCATATTCTGTCTATATATATGATTACGAAATACAACAGTTTGGTTTAATTTTATTATT
1 ATTGAATCATATTCTGTCTATATATATGATTACGAAATACAACAGTTTGGTTTAATTTTATTATT
37727967 ATTATTGATAAGAAATGTACAGAATATGCTTTTATTTATTTGTTAAGGATTTTAAAGATTCCTAG
66 ATTATTGATAAGAAATGTACAGAATATGCTTTTATTTATTTGTTAAGGATTTTAAAGATTCCTAG
37728032 AAAAGGTTGCAGTTGTGTTGTGTAGCCTTGGAGAAATTAAAATAGGGTGAAGTTAGGCCGAGACA
131 AAAAGGTTGCAGTTGTGTTGTGTAGCCTTGGAGAAATTAAAATAGGGTGAAGTTAGGCCGAGACA
37728097 TAACATGACAACTCATTATTACTCGACATGACTTGAGCATTCAACTTCCAAATGATGCCTACATA
196 TAACATGACAACTCATTATTACTCGACATGACTTGAGCATTCAACTTCCAAATGATGCCTACATA
37728162 CCTTGCTTTTACAGCTTAGCTTAGCTTTTTGTACATCCTCAGACTTGGCTACTTCATACACCTAC
261 CCTTGCTTTTACAGCTTAGCTTAGCTTTTTGTACATCCTCAGACTTGGCTACTTCATACACCTAC
37728227 CCTTTCTATTTCAACATCATATCATTTTCAGGTTTTAAGGTTATTTTCATCTTGAAATTATTTTG
326 CCTTTCTATTTCAACATCATATCATTTTCAGGTTTTAAGGTTATTTTCATCTTGAAATTATTTTG
37728292 GGTTTATGTTATTTTAAAGCCCAAGTTATTCAGGTTTTAAATTTAGGGACATACTTTTTTTTAAA
391 GGTTTATGTTATTTTAAAGCCCAAGTTATTCAGGTTTTAAATTTAGGGACATACTTTTTTTTAAA
37728357 TTATATAAGTTCCAATTTTTAGATTTAATCAATTTATTATATCAAATCATTTTACATTTTAAAAA
456 TTATATAAGTTCCAATTTTTAGATTTAATCAATTTATTATATCAAATCATTTTACATTTTAAAAA
37728422 TCATTTCGAGTTAGGTCATCCTCATTTTCTCATTTTCAAATCATTTGAGTTTGTGATTTTAAATT
521 TCATTTCGAGTTAGGTCATCCTCATTTTCTCATTTTCAAATCATTTGAGTTTGTGATTTTAAATT
37728487 TATCAAATGAGACCATTTCTTTCGTTTACATCATTTCAAGTTCAGTATAGATGAATTTCTTAAGT
586 TATCAAATGAGACCATTTCTTTCGTTTACATCATTTCAAGTTCAGTATAGATGAATTTCTTAAGT
37728552 TATGATCGAATAAGATGGGTTGACAAGCATCATCTAAAAACAGGTGCAAGGAAGGCCGAAAATTG
651 TATGATCGAATAAGATGGGTTGACAAGCATCATCTAAAAACAGGTGCAAGGAAGGCCGAAAATTG
37728617 ATTCATCTCATGCTATCATCTTTATGCCAAAAACTCTAATTTACAACCTCTACCAAACCCCTAAA
716 ATTCATCTCATGCTATCATCTTTATGCCAAAAACTCTAATTTACAACCTCTACCAAACCCCTAAA
37728682 AAACCATAAATCAATTAAATTATACTAAAAGGAAATTACATTGAAACCAACAAATATATTGTTAC
781 AAACCATAAATCAATTAAATTATACTAAAAGGAAATTACATTGAAACCAACAAATATATTGTTAC
37728747 AATCTGGTCATAAAAGGGTCAACATTACTCATTAAGGTCTTTAAGGGCAGATACTCTCAAGTTTT
846 AATCTGGTCATAAAAGGGTCAACATTACTCATTAAGGTCTTTAAGGGCAGATACTCTCAAGTTTT
37728812 GTTTTTTCTACAAAAGGGAGAAG
911 GTTTTTTCTACAAAAGGGAGAAG
37728835 A
1 A
37728836 AAAAAAAGAG
Statistics
Matches: 933, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
933 933 1.00
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (933 bp):
ATTGAATCATATTCTGTCTATATATATGATTACGAAATACAACAGTTTGGTTTAATTTTATTATT
ATTATTGATAAGAAATGTACAGAATATGCTTTTATTTATTTGTTAAGGATTTTAAAGATTCCTAG
AAAAGGTTGCAGTTGTGTTGTGTAGCCTTGGAGAAATTAAAATAGGGTGAAGTTAGGCCGAGACA
TAACATGACAACTCATTATTACTCGACATGACTTGAGCATTCAACTTCCAAATGATGCCTACATA
CCTTGCTTTTACAGCTTAGCTTAGCTTTTTGTACATCCTCAGACTTGGCTACTTCATACACCTAC
CCTTTCTATTTCAACATCATATCATTTTCAGGTTTTAAGGTTATTTTCATCTTGAAATTATTTTG
GGTTTATGTTATTTTAAAGCCCAAGTTATTCAGGTTTTAAATTTAGGGACATACTTTTTTTTAAA
TTATATAAGTTCCAATTTTTAGATTTAATCAATTTATTATATCAAATCATTTTACATTTTAAAAA
TCATTTCGAGTTAGGTCATCCTCATTTTCTCATTTTCAAATCATTTGAGTTTGTGATTTTAAATT
TATCAAATGAGACCATTTCTTTCGTTTACATCATTTCAAGTTCAGTATAGATGAATTTCTTAAGT
TATGATCGAATAAGATGGGTTGACAAGCATCATCTAAAAACAGGTGCAAGGAAGGCCGAAAATTG
ATTCATCTCATGCTATCATCTTTATGCCAAAAACTCTAATTTACAACCTCTACCAAACCCCTAAA
AAACCATAAATCAATTAAATTATACTAAAAGGAAATTACATTGAAACCAACAAATATATTGTTAC
AATCTGGTCATAAAAGGGTCAACATTACTCATTAAGGTCTTTAAGGGCAGATACTCTCAAGTTTT
GTTTTTTCTACAAAAGGGAGAAG
Found at i:37742438 original size:9 final size:9
Alignment explanation
Indices: 37742407--37742446 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
37742397 AAATTATCAT
37742407 ATTAATTTTA
1 ATTAA-TTTA
* *
37742417 ATTAATCTG
1 ATTAATTTA
37742426 ATTAATTTA
1 ATTAATTTA
37742435 ATTAATTTA
1 ATTAATTTA
37742444 ATT
1 ATT
37742447 TTACTTGATC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
9 21 0.81
10 5 0.19
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (9 bp):
ATTAATTTA
Found at i:37744293 original size:21 final size:21
Alignment explanation
Indices: 37744269--37744309 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
37744259 TTTACTTTCC
*
37744269 GTTTAACTCTTACGAGTTTTT
1 GTTTAACTCATACGAGTTTTT
*
37744290 GTTTAACTCATATGAGTTTT
1 GTTTAACTCATACGAGTTTT
37744310 CGTTCAGCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.12, G:0.15, T:0.51
Consensus pattern (21 bp):
GTTTAACTCATACGAGTTTTT
Found at i:37744361 original size:42 final size:42
Alignment explanation
Indices: 37744305--37744414 Score: 107
Period size: 42 Copynumber: 2.6 Consensus size: 42
37744295 ACTCATATGA
* * ** *
37744305 GTTTTCGTTCAGCTCCTT-TGAGCTTCTGTTTAACCCTTATAG
1 GTTTCCGTTAAGCT-CTTATGAGCTTCCATTCAACCCTTATAG
37744347 GTTTCCGTTAAGCTCTTATGAGCTTCCATTCAACCCTTAT-G
1 GTTTCCGTTAAGCTCTTATGAGCTTCCATTCAACCCTTATAG
* * * *
37744388 AGTTTCTGTTTAGCACTTATGTGCTTC
1 -GTTTCCGTTAAGCTCTTATGAGCTTC
37744415 TGTTCAGCCT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
41 4 0.07
42 53 0.93
ACGTcount: A:0.16, C:0.24, G:0.16, T:0.44
Consensus pattern (42 bp):
GTTTCCGTTAAGCTCTTATGAGCTTCCATTCAACCCTTATAG
Found at i:37744373 original size:21 final size:21
Alignment explanation
Indices: 37744349--37744414 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 21
37744339 CCTTATAGGT
*
37744349 TTCCGTTAAGCTCTTATGAGC
1 TTCCGTTAAGCACTTATGAGC
* * *
37744370 TTCCATTCAA-CCCTTATGAGT
1 TTCCGTT-AAGCACTTATGAGC
* * *
37744391 TTCTGTTTAGCACTTATGTGC
1 TTCCGTTAAGCACTTATGAGC
37744412 TTC
1 TTC
37744415 TGTTCAGCCT
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
20 1 0.03
21 31 0.91
22 2 0.06
ACGTcount: A:0.18, C:0.24, G:0.15, T:0.42
Consensus pattern (21 bp):
TTCCGTTAAGCACTTATGAGC
Found at i:37745696 original size:254 final size:255
Alignment explanation
Indices: 37745184--37745679 Score: 771
Period size: 254 Copynumber: 1.9 Consensus size: 255
37745174 CACGGGCAGA
* * * *
37745184 GACACGGGTGTGTGTCTCAGCCGTGTGTAACACATGGCCAAGCACATGGGCATGTGGTCTGGTCG
1 GACACGGGCGTGTGTCTCAGCCGTGTGTAACACACGGCCAAGCACATGGGCATGAGGTCTGGTCC
* *
37745249 TGTGTCCACTGCATCCTTAAAATTTAGAAACAAAATGCTCAGGCTTTTTCACATGGACTAGGACA
66 TGTGTCCACTGCATCCTTAAAATTTAGAAACAAAATGCTCAGGCTTTTTCACACGGACTAGCACA
* * * * *
37745314 CGGGCGTGTGGCTTGGCCGTGTGACCCATGCACCTTATTTTCATAACATACGGCCTAGCGCACGG
131 CGGGAGTGTGACTTGGCCGTGTGACCCATGCACCTTAATTTCATAACACACGGCCTAGCACACGG
*
37745379 GCGTGTGACTTGGCCATGTGACCCAAGTTAGAGAGTTACACGGGCATGAACACGGAATGG
196 GCGTGTGACTTGGCCATGTGACCCAAGTCAGAGAGTTACACGGGCATGAACACGGAATGG
*
37745439 GACACGGGCGTGTGTCTCAGCCGTGTGTGACACACGGCCAAGCACATGGGCATGAGGTCTGGTCC
1 GACACGGGCGTGTGTCTCAGCCGTGTGTAACACACGGCCAAGCACATGGGCATGAGGTCTGGTCC
* * *
37745504 TGTGTCCTCTGCATCCTT-AAATTTAGAAACAGAATGCTCAGG-TTTTTGCACACGGCCTAGCAC
66 TGTGTCCACTGCATCCTTAAAATTTAGAAACAAAATGCTCAGGCTTTTT-CACACGGACTAGCAC
* *
37745567 ACGGGAGTGTGACTTGGCCGTGTGACCCTTGCACCTTAATTTCATAACACACGGCCTAGTACACG
130 ACGGGAGTGTGACTTGGCCGTGTGACCCATGCACCTTAATTTCATAACACACGGCCTAGCACACG
* * * *
37745632 GGTGTGTTACTTGGTCATGTGACCTAAGTCAGAGAGTTACACGGGCAT
195 GGCGTGTGACTTGGCCATGTGACCCAAGTCAGAGAGTTACACGGGCAT
37745680 AGAGACAGGC
Statistics
Matches: 218, Mismatches: 22, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
253 5 0.02
254 136 0.62
255 77 0.35
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (255 bp):
GACACGGGCGTGTGTCTCAGCCGTGTGTAACACACGGCCAAGCACATGGGCATGAGGTCTGGTCC
TGTGTCCACTGCATCCTTAAAATTTAGAAACAAAATGCTCAGGCTTTTTCACACGGACTAGCACA
CGGGAGTGTGACTTGGCCGTGTGACCCATGCACCTTAATTTCATAACACACGGCCTAGCACACGG
GCGTGTGACTTGGCCATGTGACCCAAGTCAGAGAGTTACACGGGCATGAACACGGAATGG
Found at i:37745985 original size:16 final size:16
Alignment explanation
Indices: 37745964--37745995 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37745954 ACCCTATTTT
*
37745964 AGCGACGGATAAAGGG
1 AGCGACGAATAAAGGG
37745980 AGCGACGAATAAAGGG
1 AGCGACGAATAAAGGG
37745996 TTTGGAGTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.12, G:0.41, T:0.06
Consensus pattern (16 bp):
AGCGACGAATAAAGGG
Found at i:37753454 original size:41 final size:41
Alignment explanation
Indices: 37753403--37753520 Score: 137
Period size: 41 Copynumber: 2.9 Consensus size: 41
37753393 AAAAATCTTA
**
37753403 ATATGATACACCGGCACGAAGCCTGCTAGGCGTAAAGCCTG
1 ATATGATACACCGGCATAAAGCCTGCTAGGCGTAAAGCCTG
* * * * *
37753444 TTATGGTACACCGACATTAAGCCTACTAGGCGTAAAGCCTG
1 ATATGATACACCGGCATAAAGCCTGCTAGGCGTAAAGCCTG
* * * *
37753485 ATATAATTCACCGGCATAAAGCTTGCTAGGCATAAA
1 ATATGATACACCGGCATAAAGCCTGCTAGGCGTAAA
37753521 ACCCGATTAT
Statistics
Matches: 62, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (41 bp):
ATATGATACACCGGCATAAAGCCTGCTAGGCGTAAAGCCTG
Found at i:37756209 original size:13 final size:13
Alignment explanation
Indices: 37756171--37756211 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
37756161 ACCTAATAGT
*
37756171 TTTTTATATTTTA
1 TTTTTAAATTTTA
37756184 TTTTATAAA--TTA
1 TTTT-TAAATTTTA
37756196 TTTTTAAATTTTA
1 TTTTTAAATTTTA
37756209 TTT
1 TTT
37756212 ATGTTTTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
11 4 0.17
12 7 0.29
13 10 0.42
14 3 0.12
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTTAAATTTTA
Found at i:37776224 original size:50 final size:50
Alignment explanation
Indices: 37776147--37776462 Score: 239
Period size: 50 Copynumber: 6.4 Consensus size: 50
37776137 TGGTAGTGTC
* ** *
37776147 TGGGACATGGCGTTGGCACCGAGATGAGAGGTCCTC-CGTAAGACCATGTT
1 TGGGACATGGCATTGGCACCGAGATGAGAAATCC-CATGTAAGACCATGTT
* * * *
37776197 TGGGACATGGCATGGGCACCGATATGAGAAATCCCATGTAAGACCATATC
1 TGGGACATGGCATTGGCACCGAGATGAGAAATCCCATGTAAGACCATGTT
* * * * * *
37776247 TGGGATATGTCATTGG-A-AGTACAT-AAAACATCCCATGTAAGACCATGTC
1 TGGGACATGGCATTGGCACCG-AGATGAGAA-ATCCCATGTAAGACCATGTT
* * ** ** *
37776296 TGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCCCGTAAGACTATGTT
1 TGGGACATGGCATTGGCACCGAGATGAGAAATCCCATGTAAGACCATGTT
* * * * *
37776346 TGGGACATGGCATGGGCACTGATATGAGAACTCCCATGTAAGACCATATT
1 TGGGACATGGCATTGGCACCGAGATGAGAAATCCCATGTAAGACCATGTT
* * * * * ** *
37776396 TGGGATATGGCATTAGCA-CTACAAGA-AACATCCCATACAAGACCATGTA
1 TGGGACATGGCATTGGCACCGAGATGAGAA-ATCCCATGTAAGACCATGTT
*
37776445 TGGGACATGGCTTTGGCA
1 TGGGACATGGCATTGGCA
37776463 TGTTATTATC
Statistics
Matches: 205, Mismatches: 54, Indels: 15
0.75 0.20 0.05
Matches are distributed among these distances:
48 6 0.03
49 71 0.35
50 126 0.61
51 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
TGGGACATGGCATTGGCACCGAGATGAGAAATCCCATGTAAGACCATGTT
Found at i:37776425 original size:149 final size:149
Alignment explanation
Indices: 37776143--37776462 Score: 498
Period size: 149 Copynumber: 2.1 Consensus size: 149
37776133 TTTATGGTAG
* *
37776143 TGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCTCCGTAAGACCATGTTTGGGACATGGC
1 TGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCCCGTAAGACCATGTTTGGGACATGGC
* * *
37776208 ATGGGCACCGATATGAGAAATCCCATGTAAGACCATATCTGGGATATGTCATTGGAAGTACATAA
66 ATGGGCACCGATATGAGAAATCCCATGTAAGACCATATCTGGGATATGGCATTAGAACTACATAA
**
37776273 AACATCCCATGTAAGACCA
131 AACATCCCATACAAGACCA
*
37776292 TGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCCCGTAAGACTATGTTTGGGACATGGC
1 TGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCCCGTAAGACCATGTTTGGGACATGGC
* * * *
37776357 ATGGGCACTGATATGAGAACTCCCATGTAAGACCATATTTGGGATATGGCATTAGCACTACA-AG
66 ATGGGCACCGATATGAGAAATCCCATGTAAGACCATATCTGGGATATGGCATTAGAACTACATA-
37776421 AAACATCCCATACAAGACCA
130 AAACATCCCATACAAGACCA
* *
37776441 TGTATGGGACATGGCTTTGGCA
1 TGTCTGGGACATGGCGTTGGCA
37776463 TGTTATTATC
Statistics
Matches: 156, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
148 1 0.01
149 155 0.99
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (149 bp):
TGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCCCGTAAGACCATGTTTGGGACATGGC
ATGGGCACCGATATGAGAAATCCCATGTAAGACCATATCTGGGATATGGCATTAGAACTACATAA
AACATCCCATACAAGACCA
Found at i:37790027 original size:12 final size:12
Alignment explanation
Indices: 37790012--37790040 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
37790002 ATTTAACAGC
37790012 ATTGCTCAATAT
1 ATTGCTCAATAT
37790024 ATTGCTCAATAT
1 ATTGCTCAATAT
37790036 -TTGCT
1 ATTGCT
37790041 TGAGTTTCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.28, C:0.17, G:0.10, T:0.45
Consensus pattern (12 bp):
ATTGCTCAATAT
Found at i:37801490 original size:105 final size:105
Alignment explanation
Indices: 37801299--37801507 Score: 337
Period size: 105 Copynumber: 2.0 Consensus size: 105
37801289 ATATGGTAGA
* *
37801299 CGCCACTAGTAGAGGAGCATTGGTCAACATGACTTCCCAACAAGCAAGAGACTTGATCTCCGCGA
1 CGCCACTAGTAGAGGAGCATTGGTCAACATGACTCCCCAACAAGCAAGAGACTTGATCTCCACGA
* * *
37801364 TGGTTGCAAATTCTTAGCAGTTCCGAGCCAATACTGAACT
66 TGGCTGCAAATTCTCAACAGTTCCGAGCCAATACTGAACT
* **
37801404 CGCCGCTAGTAGAGGAGCATTGGTCAACATGACTCCCCAACAAGTGAGAGACTTGATCTCCACGA
1 CGCCACTAGTAGAGGAGCATTGGTCAACATGACTCCCCAACAAGCAAGAGACTTGATCTCCACGA
*
37801469 TGGCTGTAAATTCTCAACAGTTCCGAGCCAATACTGAAC
66 TGGCTGCAAATTCTCAACAGTTCCGAGCCAATACTGAAC
37801508 CCCCTAGAAG
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
105 95 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (105 bp):
CGCCACTAGTAGAGGAGCATTGGTCAACATGACTCCCCAACAAGCAAGAGACTTGATCTCCACGA
TGGCTGCAAATTCTCAACAGTTCCGAGCCAATACTGAACT
Found at i:37805959 original size:4 final size:4
Alignment explanation
Indices: 37805950--37806029 Score: 62
Period size: 4 Copynumber: 19.5 Consensus size: 4
37805940 CAACTCAATT
37805950 TTTA TTTA -TTA TTTA TTTA TTTA -TTA TTTTA TTT- TATTA TTTTA CTTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA T-TTA -TTTA -TTTA
37805999 TTTA -TTA CTTTA TTTTA TTT- TATTA TTTA TT
1 TTTA TTTA -TTTA -TTTA TTTA T-TTA TTTA TT
37806030 ACTTATTTGG
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
3 11 0.17
4 34 0.53
5 18 0.28
6 1 0.02
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:37805983 original size:5 final size:5
Alignment explanation
Indices: 37805973--37806022 Score: 50
Period size: 5 Copynumber: 10.0 Consensus size: 5
37805963 TATTTATTTA
* *
37805973 TTATT TTATT TTA-- TTATT TTACT TTATTT ATTACT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTA-TT -TTATT TTATT TTATT TTATT
37806023 ATTTATTACT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
3 3 0.08
5 29 0.78
6 2 0.05
7 3 0.08
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (5 bp):
TTATT
Found at i:37806012 original size:35 final size:33
Alignment explanation
Indices: 37805949--37806026 Score: 106
Period size: 35 Copynumber: 2.3 Consensus size: 33
37805939 GCAACTCAAT
*
37805949 TTTTATT-TATTATTTATTTATTTATTATTTTA
1 TTTTATTATTTTATTTATTTATTTATTATTTTA
37805981 TTTTATTATTTTACTTTATTTA-TTACTTTATTTTA
1 TTTTATTATTTTA-TTTATTTATTTA--TTATTTTA
37806016 TTTTATTATTT
1 TTTTATTATTT
37806027 ATTACTTATT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
32 7 0.17
33 7 0.17
34 8 0.20
35 19 0.46
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (33 bp):
TTTTATTATTTTATTTATTTATTTATTATTTTA
Found at i:37807402 original size:24 final size:23
Alignment explanation
Indices: 37807353--37807402 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
37807343 TAAAAAATAT
* *
37807353 AAATAATAAATAAATCAAAATCA
1 AAATAATAAAAAAATCAAAAACA
* *
37807376 AAATAAGTAAAAAAATGAAAAAGA
1 AAATAA-TAAAAAAATCAAAAACA
37807400 AAA
1 AAA
37807403 AAAAATAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.74, C:0.04, G:0.06, T:0.16
Consensus pattern (23 bp):
AAATAATAAAAAAATCAAAAACA
Found at i:37807684 original size:108 final size:107
Alignment explanation
Indices: 37807545--37807759 Score: 403
Period size: 108 Copynumber: 2.0 Consensus size: 107
37807535 TTACTTAAAG
37807545 CAAGTTTAGGGTTCTCTTTATTTTTCATATGCATTTTTGACTGATTTTTATAAAACTTTAGAGTG
1 CAAGTTTAGGGTTCTCTTTATTTTTCATATGCATTTTTGACTGATTTTTATAAAACTTTAGAGTG
* *
37807610 GTATTTCTTTTATGGCAGAATCTAACTTTCACAGTAGATAGA
66 ATATTTCTTTTATGGAAGAATCTAACTTTCACAGTAGATAGA
37807652 NCAAGTTTAGGGTTCTCTTTATTTTTCATATGCATTTTTGACTGATTTTTATAAAACTTTAGAGT
1 -CAAGTTTAGGGTTCTCTTTATTTTTCATATGCATTTTTGACTGATTTTTATAAAACTTTAGAGT
37807717 GATATTTCTTTTATGGAAGAATCTAACTTTCACAGTAGATAGA
65 GATATTTCTTTTATGGAAGAATCTAACTTTCACAGTAGATAGA
37807760 AACCATACTT
Statistics
Matches: 105, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 105 1.00
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (107 bp):
CAAGTTTAGGGTTCTCTTTATTTTTCATATGCATTTTTGACTGATTTTTATAAAACTTTAGAGTG
ATATTTCTTTTATGGAAGAATCTAACTTTCACAGTAGATAGA
Found at i:37808117 original size:18 final size:18
Alignment explanation
Indices: 37808096--37808137 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
37808086 AATATTAAAA
37808096 TAATTATTA-AATTTTATT
1 TAATT-TTAGAATTTTATT
*
37808114 TAATTTTAGGATTTTATT
1 TAATTTTAGAATTTTATT
*
37808132 TTATTT
1 TAATTT
37808138 ATCTTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (18 bp):
TAATTTTAGAATTTTATT
Found at i:37809838 original size:46 final size:46
Alignment explanation
Indices: 37809771--37809893 Score: 239
Period size: 46 Copynumber: 2.7 Consensus size: 46
37809761 NNNNNNNNNN
37809771 GCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAA
1 GCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAA
37809817 GCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAA
1 GCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAA
37809863 GCTACCACTTATCACTTTGTCAC-TGATCAGA
1 GCTACCACTTATCACTTTGTCACTTGATCAGA
37809894 AGTACTCAAA
Statistics
Matches: 77, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
45 8 0.10
46 69 0.90
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.33
Consensus pattern (46 bp):
GCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAA
Found at i:37819837 original size:32 final size:32
Alignment explanation
Indices: 37819796--37819860 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
37819786 TACAAGTTAG
37819796 AATTTTATTTTAAGACAAACTCAAAAAGGCGT
1 AATTTTATTTTAAGACAAACTCAAAAAGGCGT
37819828 AATTTTATTTTAAGACAAACTCAAAAAGGCGT
1 AATTTTATTTTAAGACAAACTCAAAAAGGCGT
37819860 A
1 A
37819861 TTCAAGACTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (32 bp):
AATTTTATTTTAAGACAAACTCAAAAAGGCGT
Found at i:37820863 original size:27 final size:27
Alignment explanation
Indices: 37820791--37820864 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 27
37820781 CTAACAGAAC
* *
37820791 ACGCCACAAAGGC-AACCATATAGAGT
1 ACGCCACAAAGGCTAATCTTATAGAGT
* * *
37820817 ACGCCACAAAGGTTATTCTTCTAGAGT
1 ACGCCACAAAGGCTAATCTTATAGAGT
*
37820844 TCGCCACAAAGGCTAATCTTA
1 ACGCCACAAAGGCTAATCTTA
37820865 GCTGTCGTGC
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
26 12 0.32
27 26 0.68
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.22
Consensus pattern (27 bp):
ACGCCACAAAGGCTAATCTTATAGAGT
Found at i:37824310 original size:16 final size:16
Alignment explanation
Indices: 37824291--37824326 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
37824281 TATTTGATTA
37824291 AATATATGATACTACT
1 AATATATGATACTACT
37824307 AATATATGATACTACT
1 AATATATGATACTACT
37824323 AATA
1 AATA
37824327 AAGAATGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.36
Consensus pattern (16 bp):
AATATATGATACTACT
Found at i:37841314 original size:31 final size:30
Alignment explanation
Indices: 37841252--37841317 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
37841242 TTTAGTCATA
*
37841252 TAATAAATTATTAATATAATTTATTATTTT
1 TAATAAATTATTAATATAAATTATTATTTT
37841282 TAATAAATTATTTAATATTTAAATT-TTA-TTT
1 TAATAAATTA-TTAATA--TAAATTATTATTTT
37841313 TAATA
1 TAATA
37841318 GTAAATTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
30 10 0.31
31 14 0.44
32 3 0.09
33 5 0.16
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (30 bp):
TAATAAATTATTAATATAAATTATTATTTT
Found at i:37842576 original size:22 final size:23
Alignment explanation
Indices: 37842538--37842593 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
37842528 CAAACGTGGG
*
37842538 TTTAAAAGTAAATAATAAAATATATAA
1 TTTAAAA--AAATAA-AAAATA-AAAA
37842565 TTTAAAAAAATAAAAAATAAAAA
1 TTTAAAAAAATAAAAAATAAAAA
37842588 TTTAAA
1 TTTAAA
37842594 TTATGAGTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 9 0.32
24 6 0.21
25 6 0.21
27 7 0.25
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (23 bp):
TTTAAAAAAATAAAAAATAAAAA
Found at i:37849234 original size:14 final size:14
Alignment explanation
Indices: 37849228--37849257 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
37849218 TTAATGATTA
37849228 ATGATTAATTAATT
1 ATGATTAATTAATT
37849242 ATGATTAAGTTAATT
1 ATGATTAA-TTAATT
37849257 A
1 A
37849258 ATTAAGTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (14 bp):
ATGATTAATTAATT
Found at i:37849268 original size:14 final size:13
Alignment explanation
Indices: 37849231--37849272 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
37849221 ATGATTAATG
37849231 ATTAA-TTAATTA
1 ATTAAGTTAATTA
37849243 TGATTAAGTTAATTA
1 --ATTAAGTTAATTA
37849258 ATTAAGTTTAATTA
1 ATTAAG-TTAATTA
37849272 A
1 A
37849273 AACTAAACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 6 0.23
14 13 0.50
15 7 0.27
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (13 bp):
ATTAAGTTAATTA
Found at i:37849268 original size:19 final size:18
Alignment explanation
Indices: 37849231--37849272 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
37849221 ATGATTAATG
*
37849231 ATTAATTAATTATGATTA
1 ATTAATTAATTAAGATTA
*
37849249 AGTTAATTAATTAAGTTTA
1 A-TTAATTAATTAAGATTA
37849268 ATTAA
1 ATTAA
37849273 AACTAAACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (18 bp):
ATTAATTAATTAAGATTA
Found at i:37871210 original size:47 final size:47
Alignment explanation
Indices: 37871158--37871430 Score: 312
Period size: 47 Copynumber: 5.6 Consensus size: 47
37871148 GATAATTGTG
* *
37871158 ATGTGAATGTATATATATGTGATAAGGCCGAATGACCGATGTGATGA
1 ATGTGAAAGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGA
37871205 ATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCGAATGGCCAATGTGATGA
1 ATGTGAAA--GTATATATATGTGATAAGGCCGAATGGCC-----G---ATGTGATGA
*
37871262 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGA
* *
37871309 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGTCGATGTGATGA
1 ATGTGAAA--GTATATATATGTGATAAGGCCGAATGGCCGATGTGATGA
* * * * * * *
37871358 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGA
* *
37871405 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTATATATATGTGATAAG
37871431 TCCCGAAGGG
Statistics
Matches: 196, Mismatches: 18, Indels: 24
0.82 0.08 0.10
Matches are distributed among these distances:
47 77 0.39
49 72 0.37
50 1 0.01
54 1 0.01
55 28 0.14
57 17 0.09
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGAAAGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGA
Found at i:37871218 original size:49 final size:49
Alignment explanation
Indices: 37871158--37871430 Score: 337
Period size: 49 Copynumber: 5.6 Consensus size: 49
37871148 GATAATTGTG
*
37871158 ATGTG-AA-TGTATATATATGTGATAAGGCCGAATGACCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGA
37871205 ATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCC-----G---ATGTGATGA
37871262 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGA
* *
37871309 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGTCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGA
* * * * * *
37871358 ATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGA
37871405 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
37871431 TCCCGAAGGG
Statistics
Matches: 199, Mismatches: 13, Indels: 28
0.83 0.05 0.12
Matches are distributed among these distances:
47 72 0.36
48 3 0.02
49 76 0.38
50 1 0.01
54 1 0.01
55 26 0.13
57 20 0.10
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGA
Found at i:37871289 original size:104 final size:96
Alignment explanation
Indices: 37871240--37871430 Score: 287
Period size: 96 Copynumber: 2.0 Consensus size: 96
37871230 AAGGCCGAAT
*
37871240 GGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTG
1 GGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTG
37871305 ATGAATGTGAAAGTGTATATATATGTGATAA
66 ATGAATGTGAAAGTGTATATATATGTGATAA
* * * * * * *
37871336 GGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTG
1 GGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTG
*
37871401 ATGGATGTGAAAGTGTATA-A-ATGTGATAA
66 ATGAATGTGAAAGTGTATATATATGTGATAA
37871430 G
1 G
37871431 TCCCGAAGGG
Statistics
Matches: 86, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
94 10 0.12
95 1 0.01
96 75 0.87
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.27
Consensus pattern (96 bp):
GGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTG
ATGAATGTGAAAGTGTATATATATGTGATAA
Found at i:37882672 original size:21 final size:21
Alignment explanation
Indices: 37882646--37882686 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
37882636 ATCTGCTCAA
* *
37882646 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
37882667 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
37882687 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:37890678 original size:26 final size:26
Alignment explanation
Indices: 37890630--37890688 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
37890620 TTAATACTGT
*
37890630 TTATTAGTATTATTATTACTATATTA
1 TTATTAGTATTATTATTACTATATCA
* *
37890656 TTATTAGT-TTTTTATTTATTATATCA
1 TTATTAGTATTATTA-TTACTATATCA
37890682 TATATTA
1 T-TATTA
37890689 TTATACCTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 5 0.18
26 18 0.64
27 5 0.18
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.61
Consensus pattern (26 bp):
TTATTAGTATTATTATTACTATATCA
Found at i:37890840 original size:7 final size:7
Alignment explanation
Indices: 37890815--37890874 Score: 57
Period size: 7 Copynumber: 7.7 Consensus size: 7
37890805 ATAGTTTTTA
37890815 TATATTT
1 TATATTT
37890822 TATATACATT
1 TATAT---TT
37890832 TATATTT
1 TATATTT
37890839 TATACTATT
1 TATA-T-TT
37890848 TATATTT
1 TATATTT
37890855 TCATATTT
1 T-ATATTT
*
37890863 TATAATT
1 TATATTT
37890870 TATAT
1 TATAT
37890875 ATGTTTATAC
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
7 23 0.51
8 9 0.20
9 6 0.13
10 7 0.16
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (7 bp):
TATATTT
Found at i:37890847 original size:10 final size:9
Alignment explanation
Indices: 37890778--37890883 Score: 63
Period size: 8 Copynumber: 12.4 Consensus size: 9
37890768 GCATATTATG
37890778 TATATATTT
1 TATATATTT
37890787 TAT-TATTAT
1 TATATATT-T
37890796 T-T-TATTT
1 TATATATTT
37890803 TCATAGT-TTT
1 T-ATA-TATTT
37890813 TATATATTT
1 TATATATTT
**
37890822 TATATACAT
1 TATATATTT
37890831 T-TATATTT
1 TATATATTT
37890839 TATACTA--T
1 TATA-TATTT
37890847 T-TATATTT
1 TATATATTT
*
37890855 T-CATATTT
1 TATATATTT
37890863 TATA-A-TT
1 TATATATTT
37890870 TATATATGTT
1 TATATAT-TT
37890880 TATA
1 TATA
37890884 CATTCTTTGT
Statistics
Matches: 77, Mismatches: 6, Indels: 27
0.70 0.05 0.25
Matches are distributed among these distances:
6 2 0.03
7 10 0.13
8 29 0.38
9 23 0.30
10 12 0.16
11 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (9 bp):
TATATATTT
Found at i:37890850 original size:35 final size:36
Alignment explanation
Indices: 37890769--37890860 Score: 93
Period size: 35 Copynumber: 2.6 Consensus size: 36
37890759 AATACATATG
* * *
37890769 CATATTATGTATATATTTTAT-TATTATTTTATTTT
1 CATACTATTTATATATTTTATATATCATTTTATTTT
* *
37890804 CATAGTTTTTATATATTTTATATA-CATTTATATTTT
1 CATACTATTTATATATTTTATATATCATTT-TATTTT
*
37890840 -ATACTATTTATAT-TTTCATAT
1 CATACTATTTATATATTTTATAT
37890861 TTTATAATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
34 7 0.15
35 33 0.69
36 8 0.17
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.62
Consensus pattern (36 bp):
CATACTATTTATATATTTTATATATCATTTTATTTT
Found at i:37890854 original size:52 final size:50
Alignment explanation
Indices: 37890780--37890876 Score: 135
Period size: 52 Copynumber: 1.9 Consensus size: 50
37890770 ATATTATGTA
*
37890780 TATATTTTATTATTATTTTATTTTCATAGTTTTTATATATTT-TATATACATT
1 TATATTTTATTACTATTTTATTTTCATA--TTTTATA-ATTTATATATACATT
37890832 TATATTTTA-TACTATTTATATTTTCATATTTTATAATTTATATAT
1 TATATTTTATTACTATTT-TATTTTCATATTTTATAATTTATATAT
37890877 GTTTATACAT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
49 4 0.10
50 12 0.29
51 7 0.17
52 19 0.45
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (50 bp):
TATATTTTATTACTATTTTATTTTCATATTTTATAATTTATATATACATT
Found at i:37890870 original size:22 final size:23
Alignment explanation
Indices: 37890781--37890874 Score: 86
Period size: 26 Copynumber: 3.8 Consensus size: 23
37890771 TATTATGTAT
37890781 ATATTTTATTATTATTT-TATTTTC
1 ATATTTTA-TA-TATTTATATTTTC
37890805 ATAGTTTTTATATATTTTATATACATTT-
1 ATA--TTTTATATA-TTTATAT---TTTC
37890833 ATATTTTATACTATTTATATTTTC
1 ATATTTTATA-TATTTATATTTTC
37890857 ATATTTTATA-ATTTATAT
1 ATATTTTATATATTTATAT
37890875 ATGTTTATAC
Statistics
Matches: 61, Mismatches: 0, Indels: 20
0.75 0.00 0.25
Matches are distributed among these distances:
22 8 0.13
23 3 0.05
24 15 0.25
25 5 0.08
26 22 0.36
27 2 0.03
28 3 0.05
29 3 0.05
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (23 bp):
ATATTTTATATATTTATATTTTC
Found at i:37895688 original size:23 final size:23
Alignment explanation
Indices: 37895662--37895707 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
37895652 CAAAATATAA
37895662 AAAAAAACAAAAAAAATAGAGAG
1 AAAAAAACAAAAAAAATAGAGAG
* * * *
37895685 AAAAGAAGAAAGAAAATGGAGAG
1 AAAAAAACAAAAAAAATAGAGAG
37895708 GCCAAGATGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.72, C:0.02, G:0.22, T:0.04
Consensus pattern (23 bp):
AAAAAAACAAAAAAAATAGAGAG
Found at i:37895843 original size:42 final size:42
Alignment explanation
Indices: 37895775--37895855 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
37895765 CCCGAAAAGG
*
37895775 GCAGCTCAAATATTGATTAGAATGGGGCATGA-GATGATCAGA
1 GCAGCTCAAATATTGATCAGAATGGGGCAT-ATGATGATCAGA
* * *
37895817 GCAGTTCAAATTTTGATCAGATTGGGGCATATGATGATC
1 GCAGCTCAAATATTGATCAGAATGGGGCATATGATGATC
37895856 TTGAATCAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.03
42 33 0.97
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.28
Consensus pattern (42 bp):
GCAGCTCAAATATTGATCAGAATGGGGCATATGATGATCAGA
Found at i:37897443 original size:7 final size:7
Alignment explanation
Indices: 37897431--37897490 Score: 66
Period size: 7 Copynumber: 8.3 Consensus size: 7
37897421 GTTTTGGGGT
37897431 TTTAAGG
1 TTTAAGG
37897438 TTTAAGG
1 TTTAAGG
**
37897445 TTTTAACC
1 -TTTAAGG
37897453 TTTAAGG
1 TTTAAGG
37897460 TTTAAGG
1 TTTAAGG
37897467 TTTTAAGG
1 -TTTAAGG
*
37897475 TTTAGGG
1 TTTAAGG
*
37897482 TTTATGG
1 TTTAAGG
37897489 TT
1 TT
37897491 AAAAATTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
7 33 0.73
8 12 0.27
ACGTcount: A:0.23, C:0.03, G:0.25, T:0.48
Consensus pattern (7 bp):
TTTAAGG
Found at i:37897448 original size:15 final size:15
Alignment explanation
Indices: 37897428--37897490 Score: 67
Period size: 15 Copynumber: 4.3 Consensus size: 15
37897418 CCTGTTTTGG
37897428 GGTTTTAAGGTTTAA
1 GGTTTTAAGGTTTAA
**
37897443 GGTTTTAACCTTTAA
1 GGTTTTAAGGTTTAA
37897458 GG-TTTAAGGTTTTAA
1 GGTTTTAAGG-TTTAA
* *
37897473 GG-TTTAGGGTTTAT
1 GGTTTTAAGGTTTAA
37897487 GGTT
1 GGTT
37897491 AAAAATTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
14 11 0.28
15 29 0.73
ACGTcount: A:0.22, C:0.03, G:0.27, T:0.48
Consensus pattern (15 bp):
GGTTTTAAGGTTTAA
Found at i:37897457 original size:22 final size:22
Alignment explanation
Indices: 37897431--37897490 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
37897421 GTTTTGGGGT
37897431 TTTAAGGTTTAAGGTTTTAACC
1 TTTAAGGTTTAAGGTTTTAACC
**
37897453 TTTAAGGTTTAAGGTTTTAAGG
1 TTTAAGGTTTAAGGTTTTAACC
* *
37897475 TTTAGGGTTTATGGTT
1 TTTAAGGTTTAAGGTT
37897491 AAAAATTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.23, C:0.03, G:0.25, T:0.48
Consensus pattern (22 bp):
TTTAAGGTTTAAGGTTTTAACC
Found at i:37898306 original size:6 final size:6
Alignment explanation
Indices: 37898297--37898346 Score: 64
Period size: 6 Copynumber: 8.2 Consensus size: 6
37898287 AAAAATTAGA
* * *
37898297 TTAGGG TTAGGG TTAGGG TTAAGG TTAAGG TTAGGG TTAAGGT TTAGGG
1 TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TT-AGGG TTAGGG
37898346 T
1 T
37898347 GTTTTTAAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
6 34 0.87
7 5 0.13
ACGTcount: A:0.22, C:0.00, G:0.42, T:0.36
Consensus pattern (6 bp):
TTAGGG
Found at i:37898328 original size:18 final size:18
Alignment explanation
Indices: 37898301--37898340 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
37898291 ATTAGATTAG
*
37898301 GGTTAGGGTTAGGGTTAA
1 GGTTAAGGTTAGGGTTAA
37898319 GGTTAAGGTTAGGGTTAA
1 GGTTAAGGTTAGGGTTAA
37898337 GGTT
1 GGTT
37898341 TAGGGTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.42, T:0.35
Consensus pattern (18 bp):
GGTTAAGGTTAGGGTTAA
Found at i:37898527 original size:245 final size:243
Alignment explanation
Indices: 37898085--37898561 Score: 780
Period size: 246 Copynumber: 2.0 Consensus size: 243
37898075 AAAAATTAGA
* * *
37898085 TTAGGGTTAGGGTTTAGGGTGTTTTTAAGTTAAGGGTTTTTAAGGAAAAATCAAATAAATTAGTG
1 TTAGGGTTAAGGTTTAGGGTGTTTTTAAGTTAAGGGTTTTTAAGGAAAAATCAAACAAATTAGAG
* *
37898150 TTTAGAGTTTAGGGTTTGTCAATTAAATTATTTATAAATTTTTCAAAATTGGATTAGTTTTTGTG
66 TTTAGAGTTTAGGGTTTGTCAATTAAATTATTTATAAATTTTCCAAAATTGGATTAGTTTTCGTG
*
37898215 TTTATTATCTTTTATGAAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAATAATTTAATTAA
131 TTTATTATCTTTTAAGAAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAATAATTTAATTAA
**
37898280 AAAA-ATTAAAAATTAGATTAGGGTTAGGGTTAGGGTTAAGGTTAAGG
196 AAAATATTAAAAATTAGATTAGAATTAGGGTTAGGGTTAAGGTTAAGG
37898327 TTAGGGTTAAGGTTTAGGGTGTTTTTAAGTTAAGGGTTTTTAAGGAAAAAT-AAACAAATTAGAG
1 TTAGGGTTAAGGTTTAGGGTGTTTTTAAGTTAAGGGTTTTTAAGGAAAAATCAAACAAATTAGAG
*
37898391 TTTAGAGTTTATGGTTTGTCAATTAAATTATTTATAAATATTCGTAGCCAAAATTGGATTAGTTT
66 TTTAGAGTTTAGGGTTTGTCAATTAAATTATTTATAAAT-TT--T--CCAAAATTGGATTAGTTT
* *
37898456 TCGTGTTTATTATTTTTTAAG-AAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTA
126 TCGTGTTTATTATCTTTTAAGAAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAATAATTTA
*
37898520 ATTAAAAAATTTTAAAAATTAGATTAGAATTAGGGTTAGGGT
191 ATTAAAAAATATTAAAAATTAGATTAGAATTAGGGTTAGGGT
37898562 CAGGGTTTAG
Statistics
Matches: 217, Mismatches: 12, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
241 49 0.23
242 52 0.24
244 1 0.00
245 51 0.24
246 64 0.29
ACGTcount: A:0.35, C:0.03, G:0.20, T:0.42
Consensus pattern (243 bp):
TTAGGGTTAAGGTTTAGGGTGTTTTTAAGTTAAGGGTTTTTAAGGAAAAATCAAACAAATTAGAG
TTTAGAGTTTAGGGTTTGTCAATTAAATTATTTATAAATTTTCCAAAATTGGATTAGTTTTCGTG
TTTATTATCTTTTAAGAAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAATAATTTAATTAA
AAAATATTAAAAATTAGATTAGAATTAGGGTTAGGGTTAAGGTTAAGG
Found at i:37902739 original size:49 final size:51
Alignment explanation
Indices: 37902680--37902777 Score: 139
Period size: 49 Copynumber: 2.0 Consensus size: 51
37902670 AATAATTAAA
*
37902680 AAATAGGGATTTAAGAGAAATTT-GAGAGGAAATT-A-AGCAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTGGA-AGCAAATTGAGAGCAAATTGAGATT
* *
37902729 AAATATGGATTTGAGAGAAATTTGGAAGCAAATTGAGAGCAAATTGAGA
1 AAATAGGGATTTAAGAGAAATTTGGAAGCAAATTGAGAGCAAATTGAGA
37902778 GGAAATTAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
49 28 0.65
50 3 0.07
51 12 0.28
ACGTcount: A:0.46, C:0.03, G:0.26, T:0.26
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTGGAAGCAAATTGAGAGCAAATTGAGATT
Found at i:37902751 original size:11 final size:12
Alignment explanation
Indices: 37902737--37902784 Score: 50
Period size: 11 Copynumber: 4.2 Consensus size: 12
37902727 TTAAATATGG
37902737 ATTTGAGAG-AA
1 ATTTGAGAGCAA
37902748 ATTTG-GAAGCAA
1 ATTTGAG-AGCAA
37902760 A-TTGAGAGCAA
1 ATTTGAGAGCAA
*
37902771 A-TTGAGAGGAA
1 ATTTGAGAGCAA
37902782 ATT
1 ATT
37902785 AAGATGTTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
10 1 0.03
11 26 0.81
12 5 0.16
ACGTcount: A:0.44, C:0.04, G:0.27, T:0.25
Consensus pattern (12 bp):
ATTTGAGAGCAA
Found at i:37903439 original size:23 final size:22
Alignment explanation
Indices: 37903403--37903453 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
37903393 TGCTCTTATT
37903403 AAAAATTAGAAAAATTATTAAATA
1 AAAAATTAGAAAAATT-TTAAA-A
* *
37903427 AAAAATT-GTAAAATTTTATAA
1 AAAAATTAGAAAAATTTTAAAA
37903448 AAAAAT
1 AAAAAT
37903454 CATAAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 7 0.28
22 4 0.16
23 7 0.28
24 7 0.28
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (22 bp):
AAAAATTAGAAAAATTTTAAAA
Found at i:37903656 original size:20 final size:19
Alignment explanation
Indices: 37903628--37903766 Score: 60
Period size: 19 Copynumber: 7.2 Consensus size: 19
37903618 GAAAATTATA
37903628 TTTCTTTACATTTTGTATAAT
1 TTTC-TTACATTTT-TATAAT
* *
37903649 TTTCTTACGACTTTATAAAAT
1 TTTCTTAC-A-TTTTTATAAT
* *
37903670 TTTATAAC-TTTTTAT-A-
1 TTTCTTACATTTTTATAAT
*
37903686 TTTCTATA-TTTTTTATAAT
1 TTTCT-TACATTTTTATAAT
*
37903705 TTT-TTACGATTTTTATAAA
1 TTTCTTAC-ATTTTTATAAT
*
37903724 ATT-TTACAATTTTT-TATAT
1 TTTCTTAC-ATTTTTATA-AT
37903743 TTT-TTAACGATTTTTATATAT
1 TTTCTT-AC-ATTTTTATA-AT
37903764 TTT
1 TTT
37903767 TCTAGTTTTT
Statistics
Matches: 92, Mismatches: 15, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
16 4 0.04
17 11 0.12
18 9 0.10
19 29 0.32
20 12 0.13
21 24 0.26
22 3 0.03
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTCTTACATTTTTATAAT
Found at i:37903682 original size:10 final size:9
Alignment explanation
Indices: 37903669--37903788 Score: 66
Period size: 10 Copynumber: 12.6 Consensus size: 9
37903659 CTTTATAAAA
37903669 TTTTATAACT
1 TTTTATAA-T
37903679 TTTTAT-AT
1 TTTTATAAT
* *
37903687 TTCTATATT
1 TTTTATAAT
37903696 TTTTATAAT
1 TTTTATAAT
37903705 TTTT-TACGAT
1 TTTTATA--AT
*
37903715 TTTTATAAAA
1 TTTTAT-AAT
*
37903725 TTTTACAATT
1 TTTTATAA-T
*
37903735 TTTTATATT
1 TTTTATAAT
37903744 TTTTA-ACGAT
1 TTTTATA--AT
37903754 TTTTATATAT
1 TTTTATA-AT
* *
37903764 TTTTCTAGT
1 TTTTATAAT
37903773 TTTTAATAACT
1 TTTT-ATAA-T
37903784 TTTTA
1 TTTTA
37903789 ATATTTGAAT
Statistics
Matches: 84, Mismatches: 15, Indels: 22
0.69 0.12 0.18
Matches are distributed among these distances:
8 9 0.11
9 26 0.31
10 41 0.49
11 7 0.08
12 1 0.01
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:37903703 original size:56 final size:57
Alignment explanation
Indices: 37903623--37903767 Score: 170
Period size: 56 Copynumber: 2.5 Consensus size: 57
37903613 ATTACGAAAA
*
37903623 TTATATTTCTTTACATTTTGTATAATTTTCTTACGA-CTTTATAAAATTTTATAACTTT
1 TTATATTTC-TTACATTTTGTATAATTTT-TTACGATCTTTATAAAATTTTACAACTTT
* * * *
37903681 TTATATTTC-TATATTTTTTATAATTTTTTACGATTTTTATAAAATTTTACAATTTT
1 TTATATTTCTTACATTTTGTATAATTTTTTACGATCTTTATAAAATTTTACAACTTT
*
37903737 TTATATTTTTTAACGATTTT-TATATATTTTT
1 TTATATTTCTT-AC-ATTTTGTATA-ATTTTT
37903768 CTAGTTTTTA
Statistics
Matches: 75, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
55 6 0.08
56 43 0.57
57 1 0.01
58 14 0.19
59 11 0.15
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (57 bp):
TTATATTTCTTACATTTTGTATAATTTTTTACGATCTTTATAAAATTTTACAACTTT
Found at i:37903719 original size:19 final size:19
Alignment explanation
Indices: 37903695--37903788 Score: 86
Period size: 19 Copynumber: 4.8 Consensus size: 19
37903685 ATTTCTATAT
37903695 TTTTTATAATTTTTTACGA
1 TTTTTATAATTTTTTACGA
** *
37903714 TTTTTATAAAATTTTACAA
1 TTTTTATAATTTTTTACGA
37903733 TTTTT-TATATTTTTTAACGA
1 TTTTTATA-ATTTTTT-ACGA
37903753 TTTTTATATATTTTTCTA-G-
1 TTTTTATA-ATTTTT-TACGA
*
37903772 TTTTTAATAACTTTTTA
1 TTTTT-ATAATTTTTTA
37903789 ATATTTGAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 11
0.78 0.09 0.14
Matches are distributed among these distances:
18 4 0.06
19 36 0.57
20 12 0.19
21 10 0.16
22 1 0.02
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (19 bp):
TTTTTATAATTTTTTACGA
Found at i:37903776 original size:39 final size:38
Alignment explanation
Indices: 37903678--37903788 Score: 118
Period size: 39 Copynumber: 2.9 Consensus size: 38
37903668 ATTTTATAAC
* *
37903678 TTTT-TATATTTCTATATTTTTTATAATTTTTTACGAT
1 TTTTATATATTTTTCTATTTTTTATAATTTTTTACGAT
* * *
37903715 TTTTATAAAATTTTACAATTTTTTAT-ATTTTTTAACGAT
1 TTTTAT-ATATTTTTCTATTTTTTATAATTTTTT-ACGAT
* *
37903754 TTTTATATATTTTTCTAGTTTTTAATAACTTTTTA
1 TTTTATATATTTTTCTA-TTTTTTATAATTTTTTA
37903789 ATATTTGAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
37 4 0.07
38 16 0.27
39 33 0.56
40 6 0.10
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (38 bp):
TTTTATATATTTTTCTATTTTTTATAATTTTTTACGAT
Found at i:37904056 original size:90 final size:90
Alignment explanation
Indices: 37903885--37904059 Score: 235
Period size: 90 Copynumber: 1.9 Consensus size: 90
37903875 ATAAAAGCAT
* * *
37903885 GGGCTTAATTGCTTTTTTTGAAAAACTTTGAGGGTCTTTTTGATGCATTTTGAAAATTGAAGGAC
1 GGGCCTAATTGCTTTTTTTGAAAAACTTTGAGAGTCTTTTTGATGCATTTTGAAAATTCAAGGAC
* * *
37903950 CCAATTGAGTGCAAAAAAAAACTAG
66 CAAAATGAATGCAAAAAAAAACTAG
* * * *
37903975 GGGCCTAATTG-TTTTTTTTAAAAAGGTTTGAGAGTCTTTTTGATGCATTTTGAAAGTTCAAGTA
1 GGGCCTAATTGCTTTTTTTGAAAAA-CTTTGAGAGTCTTTTTGATGCATTTTGAAAATTCAAGGA
*
37904039 CCAAAATGAATGTAAAAAAAA
65 CCAAAATGAATGCAAAAAAAA
37904060 GGGCTTATTT
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
89 12 0.16
90 61 0.84
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (90 bp):
GGGCCTAATTGCTTTTTTTGAAAAACTTTGAGAGTCTTTTTGATGCATTTTGAAAATTCAAGGAC
CAAAATGAATGCAAAAAAAAACTAG
Found at i:37904184 original size:21 final size:23
Alignment explanation
Indices: 37904160--37904211 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
37904150 AGGTCTATAC
37904160 ATATATATT-T-TAATTTTTAAA
1 ATATATATTATATAATTTTTAAA
*
37904181 ATATATATTATATTATTTTTAAA
1 ATATATATTATATAATTTTTAAA
*
37904204 TTATATAT
1 ATATATAT
37904212 ATTCGTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 9 0.33
22 1 0.04
23 17 0.63
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
ATATATATTATATAATTTTTAAA
Found at i:37905899 original size:37 final size:36
Alignment explanation
Indices: 37905835--37905908 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 36
37905825 CCGAATATAA
*
37905835 TAAAATATTTTTTATTTTTTAATTTTAAAATACTTT
1 TAAAATATTTTTTATTTTTTAATTTTAAAATAATTT
*
37905871 TAAAAT-TTTTTTATTTTTTTTATTTTTAAAATAATTT
1 TAAAATATTTTTTA--TTTTTTAATTTTAAAATAATTT
37905908 T
1 T
37905909 TTAATGTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
35 7 0.21
36 6 0.18
37 21 0.62
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (36 bp):
TAAAATATTTTTTATTTTTTAATTTTAAAATAATTT
Found at i:37906696 original size:17 final size:18
Alignment explanation
Indices: 37906673--37906715 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
37906663 TTATATTTTT
*
37906673 TAAAAAATTATAAAAATTA
1 TAAAAAATTA-AAAAAATA
37906692 TAAAAAATT-AAAAAATA
1 TAAAAAATTAAAAAAATA
37906709 TAAAAAA
1 TAAAAAA
37906716 AATTGAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 14 0.61
19 9 0.39
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
TAAAAAATTAAAAAAATA
Found at i:37906697 original size:9 final size:9
Alignment explanation
Indices: 37906675--37906714 Score: 57
Period size: 8 Copynumber: 4.6 Consensus size: 9
37906665 ATATTTTTTA
37906675 AAAAATTAT
1 AAAAATTAT
37906684 AAAAATTAT
1 AAAAATTAT
37906693 AAAAAATTA-
1 -AAAAATTAT
37906702 AAAAA-TAT
1 AAAAATTAT
37906710 AAAAA
1 AAAAA
37906715 AAATTGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 2 0.07
8 10 0.34
9 9 0.31
10 8 0.28
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (9 bp):
AAAAATTAT
Found at i:37906716 original size:19 final size:18
Alignment explanation
Indices: 37906674--37906738 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 18
37906664 TATATTTTTT
*
37906674 AAAAAATTATAAAAATTAT
1 AAAAAATTA-AAAAATTAA
37906693 AAAAAATTAAAAAATATAA
1 AAAAAATTAAAAAAT-TAA
**
37906712 AAAAAATTGAAAATTTTAA
1 AAAAAATT-AAAAAATTAA
37906731 AAAAAATT
1 AAAAAATT
37906739 CTAAAATAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
18 6 0.15
19 30 0.73
20 5 0.12
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.28
Consensus pattern (18 bp):
AAAAAATTAAAAAATTAA
Found at i:37906724 original size:10 final size:9
Alignment explanation
Indices: 37906674--37906735 Score: 61
Period size: 9 Copynumber: 6.7 Consensus size: 9
37906664 TATATTTTTT
37906674 AAAAAATTA
1 AAAAAATTA
*
37906683 TAAAAATTA
1 AAAAAATTA
37906692 TAAAAAATTA
1 -AAAAAATTA
*
37906702 AAAAATATAA
1 AAAAA-ATTA
*
37906712 AAAAAATTG
1 AAAAAATTA
**
37906721 AAAATTTTA
1 AAAAAATTA
37906730 AAAAAA
1 AAAAAA
37906736 ATTCTAAAAT
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
9 25 0.61
10 16 0.39
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.26
Consensus pattern (9 bp):
AAAAAATTA
Found at i:37906936 original size:19 final size:19
Alignment explanation
Indices: 37906912--37907003 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
37906902 AATTTTTGAG
37906912 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
37906931 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
37906950 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
37906969 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
37906988 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
37907004 ATATATGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:37907233 original size:19 final size:19
Alignment explanation
Indices: 37907196--37907234 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
37907186 GGTGGCTTAC
*
37907196 TATTTTTTTTTCTTCCGAT
1 TATTTTTTTTTCTTACGAT
37907215 TATTTTTTTTAT-TTACGAT
1 TATTTTTTTT-TCTTACGAT
37907234 T
1 T
37907235 TTAAAAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (19 bp):
TATTTTTTTTTCTTACGAT
Found at i:37907821 original size:98 final size:98
Alignment explanation
Indices: 37907698--37907892 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
37907688 AAAAATCATG
*
37907698 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
37907763 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
* *
37907796 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
*
37907861 AAATCTTGGATGAGTGGATGTTCTTTTAAAGT
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGT
37907893 TTTATTGTAT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
Found at i:37910629 original size:27 final size:27
Alignment explanation
Indices: 37910599--37910650 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
37910589 TAAGAATTCC
*
37910599 TTTATGAAATAGGCTCATGTCTGAAAA
1 TTTATGAAATAGGCTAATGTCTGAAAA
37910626 TTTATGAAATAGGCTAATGTCTGAA
1 TTTATGAAATAGGCTAATGTCTGAA
37910651 CGTCGTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.35
Consensus pattern (27 bp):
TTTATGAAATAGGCTAATGTCTGAAAA
Found at i:37911460 original size:6 final size:6
Alignment explanation
Indices: 37911444--37911473 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
37911434 TTCAGATAAA
37911444 AAAAAC AAAAAAC AAAAAC AAAAAC AAAAA
1 AAAAAC -AAAAAC AAAAAC AAAAAC AAAAA
37911474 AATGAAAGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:37913084 original size:132 final size:133
Alignment explanation
Indices: 37912724--37913247 Score: 641
Period size: 132 Copynumber: 4.0 Consensus size: 133
37912714 TTCCTCGTTT
* * *
37912724 GTAGTCGAGCAGATCGAAGATGGTGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
* ** * * ** * *
37912789 CAGTAATTCTACTTCCCTGGGCAGTAGTGGAATAGATTAAAG-ATAGCAGATCTTGCCTTCCTGC
66 CAGTAATTCTACTTCCCTGAGCAACAGTGGAATAGATTGAAGAATATCAGATCTTATCTCCCT-A
*
37912853 A-TT
130 AGTA
* * * * *
37912856 GACAGCGAAACAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAG
1 G-TAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAG
*
37912921 CCAGTAATTCTACTTCCCT-AGGCAACCGTGGAATAGATTGAAGAAT-TCAGATCTTATCTCCCT
65 CCAGTAATTCTACTTCCCTGA-GCAACAGTGGAATAGATTGAAGAATATCAGATCTTATCTCCCT
37912984 AAGTA
129 AAGTA
* * * * *
37912989 GTAGTGGAGCAGATCGAAAATGACGGATTTTACCTCCATGTGGTTACAGTGCAGTAAATTGAAGC
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
* *
37913054 CAGTAATTCTACTTCCCTGAACAACAGTGGAATAGATTGAAG-ATTTCAGATCTTATCTCCCTAA
66 CAGTAATTCTACTTCCCTGAGCAACAGTGGAATAGATTGAAGAATATCAGATCTTATCTCCCTAA
*
37913118 GCA
131 GTA
* *
37913121 GTAGTGGAGCAGATCGAAGATGGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGT
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
* * * * *
37913186 CAGTAATTCTA-TCTCCCTG-GTCAGCAGTGGAATAGGTTGAAGATTGTAAG-TCTTATCTCCCT
66 CAGTAATTCTACT-TCCCTGAG-CAACAGTGGAATAGATTGAAGAATATCAGATCTTATCTCCCT
37913248 GCAGTTGCAG
Statistics
Matches: 340, Mismatches: 43, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
131 3 0.01
132 221 0.65
133 114 0.34
134 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (133 bp):
GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
CAGTAATTCTACTTCCCTGAGCAACAGTGGAATAGATTGAAGAATATCAGATCTTATCTCCCTAA
GTA
Found at i:37913226 original size:43 final size:44
Alignment explanation
Indices: 37913078--37913272 Score: 114
Period size: 44 Copynumber: 4.4 Consensus size: 44
37913068 CCCTGAACAA
* * * *
37913078 CAGTGGAATAGATTGAAGAT-TTCAGATCTTATCTCCCTAAGCAG
1 CAGTGGAATAGATTGAAGATAGTAAG-TCTTATCTCCCTGAGTAG
* ** * * * * * *
37913122 TAGTGGAGCAGATCGAAGATGGT-GGATTTTACCTCCCTGTGGTTA-
1 CAGTGGAATAGATTGAAGATAGTAAG-TCTTATCTCCCTG-AG-TAG
* * *
37913167 CAGTGGAGTACATTGAAG-TCAGTAATTC-TATCTCCCTG-GTCAG
1 CAGTGGAATAGATTGAAGAT-AGTAAGTCTTATCTCCCTGAGT-AG
* * *
37913210 CAGTGGAATAGGTTGAAGATTGTAAGTCTTATCTCCCTGCAGTTG
1 CAGTGGAATAGATTGAAGATAGTAAGTCTTATCTCCCTG-AGTAG
37913255 CAGTGGAATAGATTGAAG
1 CAGTGGAATAGATTGAAG
37913273 CACTAGCTCC
Statistics
Matches: 113, Mismatches: 27, Indels: 21
0.70 0.17 0.13
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 21 0.19
44 49 0.43
45 37 0.33
46 3 0.03
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (44 bp):
CAGTGGAATAGATTGAAGATAGTAAGTCTTATCTCCCTGAGTAG
Found at i:37913499 original size:19 final size:19
Alignment explanation
Indices: 37913475--37913547 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
37913465 AATTTTTGAG
37913475 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
37913494 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
37913513 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
37913532 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
37913548 ATATATGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:37914726 original size:98 final size:98
Alignment explanation
Indices: 37914603--37914797 Score: 320
Period size: 98 Copynumber: 2.0 Consensus size: 98
37914593 AAAAATCATG
* **
37914603 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACATATTGGGTGTGATTTCTT
1 AAGGAAATATTCCAAGTTTGAGATTCTAAAGGAATCATGCCCTAACATATTGGGTGTGATTTCTT
37914668 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
* *
37914701 AAGGAAATATTCCAAGTTT-AGGATTCTAAAGGGATCATGCCCTAACGTATTGGGTGTGATTTCT
1 AAGGAAATATTCCAAGTTTGA-GATTCTAAAGGAATCATGCCCTAACATATTGGGTGTGATTTCT
*
37914765 TAAATCTTGGATGAGTGGATGTTCTTTTAAAGT
65 TAAATCTTGGATAAGTGGATGTTCTTTTAAAGT
37914798 TTTATTGTAT
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
97 1 0.01
98 89 0.99
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (98 bp):
AAGGAAATATTCCAAGTTTGAGATTCTAAAGGAATCATGCCCTAACATATTGGGTGTGATTTCTT
AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
Found at i:37926041 original size:22 final size:24
Alignment explanation
Indices: 37925997--37926042 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
37925987 TTTTGAGCAC
* *
37925997 TTTAATTTTTTTCTTTTATGTTCT
1 TTTAACTTTTTTCTTTTACGTTCT
37926021 TTTAACTTTTTT-TTTT-CGTTCT
1 TTTAACTTTTTTCTTTTACGTTCT
37926043 CTTCTGCTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 4 0.20
24 11 0.55
ACGTcount: A:0.11, C:0.11, G:0.04, T:0.74
Consensus pattern (24 bp):
TTTAACTTTTTTCTTTTACGTTCT
Found at i:37937652 original size:277 final size:276
Alignment explanation
Indices: 37937108--37937659 Score: 1068
Period size: 276 Copynumber: 2.0 Consensus size: 276
37937098 AATGCCTTAG
37937108 CTGTATAAAGAGGTGCAGCCATGTTCTTGAAAGGAACCAACACTTGGCCTTTGTAGACCCTCACT
1 CTGTATAAAGAGGTGCAGCCATGTTCTTGAAAGGAACCAACACTTGGCCTTTGTAGACCCTCACT
37937173 TGTCCCATGGGTTTCCAATGCATATGGTCCCCAAGCTTATGGGAGCAATGAAAAGAGGAGAAGAA
66 TGTCCCATGGGTTTCCAATGCATATGGTCCCCAAGCTTATGGGAGCAATGAAAAGAGGAGAAGAA
37937238 AAAAAAATACATTTGAAAACTGCCAAACTGGGTTAACTAATATATCATATTTAACGTCATCATTC
131 AAAAAAATACATTTGAAAACTGCCAAACTGGGTTAACTAATATATCATATTTAACGTCATCATTC
37937303 TTTCTAGAAAATCTTGAATTATTTCATATGTTTTTAAATAAGTTGTTACATTTTTATGGGTAAAT
196 TTTCTAGAAAATCTTGAATTATTTCATATGTTTTTAAATAAGTTGTTACATTTTTATGGGTAAAT
37937368 TACACATAGTAAGTTT
261 TACACATAGTAAGTTT
37937384 CTGTATAAAGAGGTGCAGCCATGTTCTTGAAAGGAACCAACACTTGGCCTTTGTAGACCCTCACT
1 CTGTATAAAGAGGTGCAGCCATGTTCTTGAAAGGAACCAACACTTGGCCTTTGTAGACCCTCACT
37937449 TGTCCCATGGGTTTCCAATGCATATGGTCCCCAAGCTTATGGGAGCAATGAAAAGAGGAGAAGAA
66 TGTCCCATGGGTTTCCAATGCATATGGTCCCCAAGCTTATGGGAGCAATGAAAAGAGGAGAAGAA
* *
37937514 AAAAAACATACATTTGAAAACTGCCAGACTGGGTTAACTAATATATCATGTTTAACGTCATCATT
131 AAAAAA-ATACATTTGAAAACTGCCAAACTGGGTTAACTAATATATCATATTTAACGTCATCATT
*
37937579 CTTTCTAGAAAATCTTGAATTATTTCATATGTTTTTAAATAAGTTGTTATATTTTTATGGGTAAA
195 CTTTCTAGAAAATCTTGAATTATTTCATATGTTTTTAAATAAGTTGTTACATTTTTATGGGTAAA
37937644 TTACACATAGTAAGTT
260 TTACACATAGTAAGTT
37937660 CTTTTTTTAT
Statistics
Matches: 272, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
276 136 0.50
277 136 0.50
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (276 bp):
CTGTATAAAGAGGTGCAGCCATGTTCTTGAAAGGAACCAACACTTGGCCTTTGTAGACCCTCACT
TGTCCCATGGGTTTCCAATGCATATGGTCCCCAAGCTTATGGGAGCAATGAAAAGAGGAGAAGAA
AAAAAAATACATTTGAAAACTGCCAAACTGGGTTAACTAATATATCATATTTAACGTCATCATTC
TTTCTAGAAAATCTTGAATTATTTCATATGTTTTTAAATAAGTTGTTACATTTTTATGGGTAAAT
TACACATAGTAAGTTT
Found at i:37950428 original size:35 final size:35
Alignment explanation
Indices: 37950389--37950461 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
37950379 CATCTACCAT
37950389 ATTTTAAAAATACCAATTTTGGTATCTAAAGTTTC
1 ATTTTAAAAATACCAATTTTGGTATCTAAAGTTTC
37950424 ATTTTAAAAATACCAATTTTGGTATCTAAAGTTTC
1 ATTTTAAAAATACCAATTTTGGTATCTAAAGTTTC
37950459 ATT
1 ATT
37950462 CCTTCCACTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (35 bp):
ATTTTAAAAATACCAATTTTGGTATCTAAAGTTTC
Found at i:37954771 original size:20 final size:22
Alignment explanation
Indices: 37954746--37954820 Score: 90
Period size: 20 Copynumber: 3.7 Consensus size: 22
37954736 TAAATCTATT
37954746 AATATATTAT-TTA-ATTATAA
1 AATATATTATATTATATTATAA
37954766 AATATATTATATTATATTAT--
1 AATATATTATATTATATTATAA
*
37954786 ATTATATTATATTATATTAT--
1 AATATATTATATTATATTATAA
*
37954806 ATTATATTATATTAT
1 AATATATTATATTAT
37954821 TATGTAAAAT
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
20 44 0.85
21 3 0.06
22 5 0.10
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
AATATATTATATTATATTATAA
Done.