Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 211 of 213
Found at i:63367521 original size:16 final size:16
Alignment explanation
Indices: 63367500--63367556 Score: 78
Period size: 16 Copynumber: 3.6 Consensus size: 16
63367490 TTTGGTTCGC
*
63367500 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
* *
63367516 TGTATTGGATTAGATG
1 TGTAATGGATTAGAGG
*
63367532 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
63367548 TGTAATGGA
1 TGTAATGGA
63367557 AAAGCTGTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.30, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:63367566 original size:16 final size:16
Alignment explanation
Indices: 63367527--63367569 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
63367517 GTATTGGATT
*
63367527 AGATGTGTAATGGAAT
1 AGATGTGTAATGGAAA
*
63367543 AGAGGTGTAATGGAAA
1 AGATGTGTAATGGAAA
*
63367559 AGCTGTGTAAT
1 AGATGTGTAAT
63367570 AGCAAATCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.37, C:0.02, G:0.33, T:0.28
Consensus pattern (16 bp):
AGATGTGTAATGGAAA
Found at i:63367566 original size:32 final size:32
Alignment explanation
Indices: 63367500--63367569 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
63367490 TTTGGTTCGC
* * * **
63367500 TGTATTGGATTAGAGGTGTATTGGATTAGATG
1 TGTAATGGAATAGAGGTGTAATGGAAAAGATG
*
63367532 TGTAATGGAATAGAGGTGTAATGGAAAAGCTG
1 TGTAATGGAATAGAGGTGTAATGGAAAAGATG
63367564 TGTAAT
1 TGTAAT
63367570 AGCAAATCAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.01, G:0.33, T:0.34
Consensus pattern (32 bp):
TGTAATGGAATAGAGGTGTAATGGAAAAGATG
Found at i:63367599 original size:45 final size:44
Alignment explanation
Indices: 63367548--63367642 Score: 109
Period size: 44 Copynumber: 2.1 Consensus size: 44
63367538 GGAATAGAGG
** *
63367548 TGTAATGGAAAAGCTGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAAAAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* * ***
63367593 TGTAATGGAATAGAGGCGTAATAGTAATCCTGTGTTTGGTTGAA
1 TGTAATGGAAAAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
63367637 TGTAAT
1 TGTAAT
63367643 AGAGGTGTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
44 22 0.52
45 20 0.48
ACGTcount: A:0.33, C:0.07, G:0.26, T:0.34
Consensus pattern (44 bp):
TGTAATGGAAAAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:63367823 original size:18 final size:17
Alignment explanation
Indices: 63367802--63367836 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
63367792 TTATTATTAA
*
63367802 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
63367820 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
63367837 TCTTAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:63371456 original size:4 final size:4
Alignment explanation
Indices: 63371447--63371472 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
63371437 ATCTATTTAG
63371447 ATAA ATAA ATAA ATAA ATAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA AT
63371473 TATATATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:63389494 original size:24 final size:24
Alignment explanation
Indices: 63389467--63389517 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
63389457 TAAACAAACA
63389467 ATTAACTCAGCACTTACAGAGACT
1 ATTAACTCAGCACTTACAGAGACT
63389491 ATTAACTCAGCACTTACAGAGACT
1 ATTAACTCAGCACTTACAGAGACT
63389515 ATT
1 ATT
63389518 TTTTAACACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (24 bp):
ATTAACTCAGCACTTACAGAGACT
Found at i:63397105 original size:12 final size:12
Alignment explanation
Indices: 63397088--63397114 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
63397078 TTAATTTTAT
63397088 TTATTTTATTAA
1 TTATTTTATTAA
63397100 TTATTTTATTAA
1 TTATTTTATTAA
63397112 TTA
1 TTA
63397115 AAAATAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTATTTTATTAA
Found at i:63402163 original size:40 final size:37
Alignment explanation
Indices: 63402119--63402228 Score: 118
Period size: 37 Copynumber: 2.9 Consensus size: 37
63402109 ATTTTCACTA
63402119 TTTTAATCTTA-AGTTTCAGGTACTTGAATCTCTTCTGGAG
1 TTTTAA-CTTATAG-TT-AGGT-CTTGAATCTCTTCTGGAG
*
63402159 TTTT-ACTTATTAGTTATGTCTTGAATCTCTTCTGGAG
1 TTTTAACTTA-TAGTTAGGTCTTGAATCTCTTCTGGAG
* *
63402196 TTTT-ACTTATTAGTTATGTCTTGAGTCTCTTCT
1 TTTTAACTTA-TAGTTAGGTCTTGAATCTCTTCT
63402229 AAAGCACCCA
Statistics
Matches: 66, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
37 50 0.76
38 7 0.11
39 3 0.05
40 6 0.09
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.51
Consensus pattern (37 bp):
TTTTAACTTATAGTTAGGTCTTGAATCTCTTCTGGAG
Found at i:63402182 original size:37 final size:37
Alignment explanation
Indices: 63402141--63402228 Score: 167
Period size: 37 Copynumber: 2.4 Consensus size: 37
63402131 GTTTCAGGTA
63402141 CTTGAATCTCTTCTGGAGTTTTACTTATTAGTTATGT
1 CTTGAATCTCTTCTGGAGTTTTACTTATTAGTTATGT
63402178 CTTGAATCTCTTCTGGAGTTTTACTTATTAGTTATGT
1 CTTGAATCTCTTCTGGAGTTTTACTTATTAGTTATGT
*
63402215 CTTGAGTCTCTTCT
1 CTTGAATCTCTTCT
63402229 AAAGCACCCA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.17, C:0.16, G:0.16, T:0.51
Consensus pattern (37 bp):
CTTGAATCTCTTCTGGAGTTTTACTTATTAGTTATGT
Found at i:63406092 original size:55 final size:55
Alignment explanation
Indices: 63406008--63406118 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
63405998 CACCATGATA
63406008 TAGCCACCATCGAGTCTGACCCAACAATCAGATTCTTCTTAGACACCCAAGCATT
1 TAGCCACCATCGAGTCTGACCCAACAATCAGATTCTTCTTAGACACCCAAGCATT
63406063 TAGCCACCATCGAGTCTGACCCAACAATCAGATTCTTCTTAGACACCCAAGCATT
1 TAGCCACCATCGAGTCTGACCCAACAATCAGATTCTTCTTAGACACCCAAGCATT
63406118 T
1 T
63406119 TTTATAGCTG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.31, C:0.32, G:0.13, T:0.24
Consensus pattern (55 bp):
TAGCCACCATCGAGTCTGACCCAACAATCAGATTCTTCTTAGACACCCAAGCATT
Found at i:63412674 original size:5 final size:5
Alignment explanation
Indices: 63412655--63412705 Score: 61
Period size: 5 Copynumber: 10.4 Consensus size: 5
63412645 TTAGTTTATT
* *
63412655 TAATA T-ATAA TAATA TAATA TAATA TAAT- TAATA TAATA TATTA TATTA
1 TAATA TAAT-A TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
63412704 TA
1 TA
63412706 TAAAACATAA
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
4 6 0.14
5 34 0.81
6 2 0.05
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (5 bp):
TAATA
Found at i:63412689 original size:19 final size:19
Alignment explanation
Indices: 63412659--63412708 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
63412649 TTTATTTAAT
63412659 ATATAA-TAATATAATATA
1 ATATAATTAATATAATATA
63412677 ATATAATTAATATAATATA
1 ATATAATTAATATAATATA
*
63412696 TTAT-ATT-ATATAA
1 ATATAATTAATATAA
63412709 AACATAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 6 0.20
18 9 0.30
19 15 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATATAATTAATATAATATA
Found at i:63412715 original size:24 final size:26
Alignment explanation
Indices: 63412661--63412715 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
63412651 TATTTAATAT
*
63412661 ATAATAATATAATATAATATAATTAAT
1 ATAATAATATAATATAATATAA-TAAC
* *
63412688 ATAAT-ATATTATATTATATAA-AAC
1 ATAATAATATAATATAATATAATAAC
63412712 ATAA
1 ATAA
63412716 AAATCTAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 6 0.24
26 14 0.56
27 5 0.20
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (26 bp):
ATAATAATATAATATAATATAATAAC
Found at i:63413680 original size:14 final size:14
Alignment explanation
Indices: 63413655--63413689 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
63413645 ACATACATAT
63413655 ATATATAGATATAG
1 ATATATAGATATAG
* *
63413669 ATATAGATATATAG
1 ATATATAGATATAG
63413683 ATATATA
1 ATATATA
63413690 CACGCAAGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.37
Consensus pattern (14 bp):
ATATATAGATATAG
Found at i:63423082 original size:28 final size:30
Alignment explanation
Indices: 63423033--63423091 Score: 77
Period size: 32 Copynumber: 2.0 Consensus size: 30
63423023 ATTATACTTT
*
63423033 TTAAATAAGTCCTTATATTTTTTTATTTTTAA
1 TTAAATAAGTCCTTAT-TTTTGTT-TTTTTAA
63423065 TTAAATAAGTCC-TA-TTTTGTTTTTTTA
1 TTAAATAAGTCCTTATTTTTGTTTTTTTA
63423092 TTCATAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 6 0.23
29 6 0.23
31 2 0.08
32 12 0.46
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.59
Consensus pattern (30 bp):
TTAAATAAGTCCTTATTTTTGTTTTTTTAA
Found at i:63424053 original size:13 final size:14
Alignment explanation
Indices: 63423979--63424056 Score: 56
Period size: 13 Copynumber: 5.6 Consensus size: 14
63423969 AATAAACACC
*
63423979 AAAAAAT-AAATTT
1 AAAAAATAAAAATT
*
63423992 AAAAATAAAAAAATT
1 AAAAA-ATAAAAATT
63424007 --AAAATAAAAGTATTT
1 AAAAAATAAAA--A-TT
* *
63424022 TAAAATTAAAAATT
1 AAAAAATAAAAATT
63424036 AAAAAATAAAAA-T
1 AAAAAATAAAAATT
63424049 AAAAAATA
1 AAAAAATA
63424057 TATATTTTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
12 5 0.10
13 17 0.33
14 14 0.27
15 8 0.15
17 8 0.15
ACGTcount: A:0.73, C:0.00, G:0.01, T:0.26
Consensus pattern (14 bp):
AAAAAATAAAAATT
Found at i:63424166 original size:30 final size:34
Alignment explanation
Indices: 63424132--63424201 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 34
63424122 GTTTTCTAAA
* *
63424132 CGGGCCTCT-TTTTTGCCC-AA-ACT-CATATTT
1 CGGGCCTATATTTTTACCCGAACACTCCATATTT
63424162 CGGGCCTATATTTTTACCCGAACACTCCCATATTT
1 CGGGCCTATATTTTTACCCGAACACT-CCATATTT
63424197 CGGGC
1 CGGGC
63424202 AGGCCGCCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
30 8 0.24
31 8 0.24
32 2 0.06
33 3 0.09
35 12 0.36
ACGTcount: A:0.19, C:0.31, G:0.16, T:0.34
Consensus pattern (34 bp):
CGGGCCTATATTTTTACCCGAACACTCCATATTT
Found at i:63425846 original size:31 final size:31
Alignment explanation
Indices: 63425808--63425872 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
63425798 CTTCTATCCC
* *
63425808 TGAATTTGATAATTAGGT-TCATTTTGGTCCT
1 TGAATTTGACAATTAGATCT-ATTTTGGTCCT
63425839 TGAATTTGACAATTAGATCTATTTTGGTCCT
1 TGAATTTGACAATTAGATCTATTTTGGTCCT
63425870 TGA
1 TGA
63425873 CACGAATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.46
Consensus pattern (31 bp):
TGAATTTGACAATTAGATCTATTTTGGTCCT
Found at i:63431191 original size:86 final size:86
Alignment explanation
Indices: 63431035--63431195 Score: 241
Period size: 86 Copynumber: 1.9 Consensus size: 86
63431025 TGCTTTAACT
* * * *
63431035 CACTCGAACCTACATATTCTTATATTGACAATAATACTCATATAATCTAATTAAGACTCAAATAA
1 CACTCAAACCTACATATTCTTATATTAACAACAATACTCATATAATCTAATTAAGACTCAAACAA
63431100 CTTTTGATCGATAATTTATCG
66 CTTTTGATCGATAATTTATCG
* * * *
63431121 CACTCAAACCTATATTTTTTTATATTAACAACAATACTCATATAATCTAATTAAGACTCAAACGA
1 CACTCAAACCTACATATTCTTATATTAACAACAATACTCATATAATCTAATTAAGACTCAAACAA
*
63431186 GTTTTGATCG
66 CTTTTGATCG
63431196 GATTGAAATC
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
86 66 1.00
ACGTcount: A:0.39, C:0.19, G:0.07, T:0.36
Consensus pattern (86 bp):
CACTCAAACCTACATATTCTTATATTAACAACAATACTCATATAATCTAATTAAGACTCAAACAA
CTTTTGATCGATAATTTATCG
Found at i:63438566 original size:29 final size:28
Alignment explanation
Indices: 63438525--63438584 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 28
63438515 TAATATAGAG
*
63438525 AAATGATCAATTTAGTTTCTCAACTATT
1 AAATGATCAATTTAGTTCCTCAACTATT
**
63438553 AAATGGATCAATTTAGTTCCTGTACTATT
1 AAAT-GATCAATTTAGTTCCTCAACTATT
63438582 AAA
1 AAA
63438585 AAGAATTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 4 0.14
29 24 0.86
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (28 bp):
AAATGATCAATTTAGTTCCTCAACTATT
Found at i:63440163 original size:15 final size:15
Alignment explanation
Indices: 63440145--63440177 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
63440135 TTAAATTTTA
63440145 AAAAATGCAT-AAATT
1 AAAAATG-ATCAAATT
63440160 AAAAATGATCAAATT
1 AAAAATGATCAAATT
63440175 AAA
1 AAA
63440178 GTATAGAGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 2 0.12
15 15 0.88
ACGTcount: A:0.64, C:0.06, G:0.06, T:0.24
Consensus pattern (15 bp):
AAAAATGATCAAATT
Found at i:63443640 original size:15 final size:16
Alignment explanation
Indices: 63443616--63443646 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
63443606 TGAAATTTGC
63443616 AAAAGAAAAAAGAAAA
1 AAAAGAAAAAAGAAAA
63443632 AAAAG-AAAAAGAAAA
1 AAAAGAAAAAAGAAAA
63443647 TCGGGGTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAA
Found at i:63445665 original size:4 final size:4
Alignment explanation
Indices: 63445652--63445703 Score: 97
Period size: 4 Copynumber: 13.2 Consensus size: 4
63445642 CCAAGATCCA
63445652 ACAT -CAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
63445699 ACAT A
1 ACAT A
63445704 TATTGTTTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 3 0.06
4 44 0.94
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:63448780 original size:12 final size:12
Alignment explanation
Indices: 63448763--63448787 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
63448753 ACCAGCTTGC
63448763 GCCTCCGCCTCA
1 GCCTCCGCCTCA
63448775 GCCTCCGCCTCA
1 GCCTCCGCCTCA
63448787 G
1 G
63448788 GCCGGTGAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.56, G:0.20, T:0.16
Consensus pattern (12 bp):
GCCTCCGCCTCA
Found at i:63450957 original size:24 final size:24
Alignment explanation
Indices: 63450930--63450979 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
63450920 ATTATTTTTA
63450930 ATTTAATAT-TTAATAATATTATAT
1 ATTTAATATATTAA-AATATTATAT
* * *
63450954 ATTTTATTTATTAAAATTTTATAT
1 ATTTAATATATTAAAATATTATAT
63450978 AT
1 AT
63450980 AATCATCTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
ATTTAATATATTAAAATATTATAT
Found at i:63450976 original size:22 final size:22
Alignment explanation
Indices: 63450936--63450977 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
63450926 TTTAATTTAA
*
63450936 TATTTAATAATATTATATATTT
1 TATTTAATAAAATTATATATTT
* *
63450958 TATTTATTAAAATTTTATAT
1 TATTTAATAAAATTATATAT
63450978 ATAATCATCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTTAATAAAATTATATATTT
Found at i:63451158 original size:18 final size:19
Alignment explanation
Indices: 63451135--63451173 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
63451125 CCGACCTATA
*
63451135 TTTTAA-ACGAGCCTATTT
1 TTTTAACACAAGCCTATTT
*
63451153 TTTTAACACAATCCTATTT
1 TTTTAACACAAGCCTATTT
63451172 TT
1 TT
63451174 GAGCTAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.28, C:0.18, G:0.05, T:0.49
Consensus pattern (19 bp):
TTTTAACACAAGCCTATTT
Found at i:63458427 original size:11 final size:11
Alignment explanation
Indices: 63458405--63458438 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
63458395 ATTGAATTGG
63458405 TTTAATAATTTT
1 TTTAA-AATTTT
63458417 TTTAAAATTTT
1 TTTAAAATTTT
*
63458428 TATAAAATTTT
1 TTTAAAATTTT
63458439 AAATATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTAAAATTTT
Found at i:63460328 original size:33 final size:33
Alignment explanation
Indices: 63460286--63460352 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
63460276 GCCACTCTAG
63460286 TGACAGCTTTTAAAAATGGTATAATAATAATCT
1 TGACAGCTTTTAAAAATGGTATAATAATAATCT
63460319 TGACAGCTTTTAAAAATGGTATAATAATAATCT
1 TGACAGCTTTTAAAAATGGTATAATAATAATCT
63460352 T
1 T
63460353 AACTCTCAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (33 bp):
TGACAGCTTTTAAAAATGGTATAATAATAATCT
Found at i:63463614 original size:19 final size:19
Alignment explanation
Indices: 63463590--63463627 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
63463580 AATACAATAA
*
63463590 CATCCATAGTATTTTTACC
1 CATCCATAGTACTTTTACC
63463609 CATCCATAGTACTTTTACC
1 CATCCATAGTACTTTTACC
63463628 TATACATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.29, G:0.05, T:0.39
Consensus pattern (19 bp):
CATCCATAGTACTTTTACC
Found at i:63463635 original size:19 final size:19
Alignment explanation
Indices: 63463594--63463635 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
63463584 CAATAACATC
* *
63463594 CATAGTATTTTTACCCATC
1 CATAGTACTTTTACCCATA
*
63463613 CATAGTACTTTTACCTATA
1 CATAGTACTTTTACCCATA
63463632 CATA
1 CATA
63463636 TATGATGGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.40
Consensus pattern (19 bp):
CATAGTACTTTTACCCATA
Found at i:63463800 original size:4 final size:4
Alignment explanation
Indices: 63463783--63463822 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
63463773 AGAAAAAAAC
* * *
63463783 GTAT GCAT GCAT GTAT GTAT GTAT GTAT GTAT GTAA GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
63463823 TGATATTAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.28, C:0.05, G:0.25, T:0.42
Consensus pattern (4 bp):
GTAT
Found at i:63470522 original size:14 final size:16
Alignment explanation
Indices: 63470487--63470526 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 16
63470477 ATTGAAATAT
63470487 TTAAAATCTAAATTAA
1 TTAAAATCTAAATTAA
63470503 TT-AAATCT-AATT-A
1 TTAAAATCTAAATTAA
63470516 TTAAAAT-TAAA
1 TTAAAATCTAAA
63470527 AGTTGATACC
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 4 0.18
14 10 0.45
15 6 0.27
16 2 0.09
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (16 bp):
TTAAAATCTAAATTAA
Found at i:63471325 original size:17 final size:17
Alignment explanation
Indices: 63471303--63471335 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
63471293 TATAATAATT
*
63471303 TATATTATGTTATTTAA
1 TATATTATGTAATTTAA
63471320 TATATTATGTAATTTA
1 TATATTATGTAATTTA
63471336 GAATACATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (17 bp):
TATATTATGTAATTTAA
Found at i:63473666 original size:21 final size:21
Alignment explanation
Indices: 63473640--63473680 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
63473630 AGCAATTATA
*
63473640 TTTAATTATGATAATCAAAAT
1 TTTAATTATGATAATAAAAAT
63473661 TTTAATTATGATAATAAAAA
1 TTTAATTATGATAATAAAAA
63473681 ATAATTACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.41
Consensus pattern (21 bp):
TTTAATTATGATAATAAAAAT
Found at i:63475092 original size:27 final size:26
Alignment explanation
Indices: 63475061--63475126 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
63475051 TAATTTTTAC
* *
63475061 CCTAAATTTGAATCTCGAATTTCAAA
1 CCTAAATTTGAAACTCGAACTTCAAA
*
63475087 TCCTAAATTTTAAACTCGAACTTCAAA
1 -CCTAAATTTGAAACTCGAACTTCAAA
*
63475114 CCTGAACTTTGAA
1 CCT-AAATTTGAA
63475127 CCCTGAATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
26 3 0.09
27 30 0.91
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (26 bp):
CCTAAATTTGAAACTCGAACTTCAAA
Found at i:63475197 original size:21 final size:20
Alignment explanation
Indices: 63475173--63475242 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 20
63475163 TATGATTGGA
*
63475173 GGTTCAAGATTTGAGGTTTAG
1 GGTTCAAGATTTG-GGTTCAG
* * *
63475194 GGTTC-AGGTTAGGGGTTCAA
1 GGTTCAAGATT-TGGGTTCAG
63475214 GGTTCAAGATTTTGGGTTCAG
1 GGTTCAAGA-TTTGGGTTCAG
*
63475235 AGTTCAAG
1 GGTTCAAG
63475243 GTAAAAAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
20 14 0.37
21 22 0.58
22 2 0.05
ACGTcount: A:0.23, C:0.09, G:0.34, T:0.34
Consensus pattern (20 bp):
GGTTCAAGATTTGGGTTCAG
Found at i:63478509 original size:16 final size:17
Alignment explanation
Indices: 63478490--63478521 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
63478480 GTCAATTTGG
63478490 AGTTT-AGGTCATTTTA
1 AGTTTGAGGTCATTTTA
63478506 AGTTTGAGGTCATTTT
1 AGTTTGAGGTCATTTT
63478522 TGTTTTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.22, C:0.06, G:0.22, T:0.50
Consensus pattern (17 bp):
AGTTTGAGGTCATTTTA
Found at i:63480927 original size:30 final size:32
Alignment explanation
Indices: 63480878--63480966 Score: 78
Period size: 31 Copynumber: 2.9 Consensus size: 32
63480868 CCCTTAAAGT
*
63480878 TTTTGAAAAATCTTAATTAA-ACCACTAAAAC
1 TTTTGAAAATTCTTAATTAAGACCACTAAAAC
* * * *
63480909 TTTTGAAAATTC-TCATTAAGTCCTCTAAAAG
1 TTTTGAAAATTCTTAATTAAGACCACTAAAAC
* * *
63480940 TTTT-AAAATTTTTATTTAA-ACCCCTAA
1 TTTTGAAAATTCTTAATTAAGACCACTAA
63480967 TTTTTTTGAA
Statistics
Matches: 46, Mismatches: 10, Indels: 5
0.75 0.16 0.08
Matches are distributed among these distances:
30 18 0.39
31 28 0.61
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.39
Consensus pattern (32 bp):
TTTTGAAAATTCTTAATTAAGACCACTAAAAC
Found at i:63501722 original size:46 final size:44
Alignment explanation
Indices: 63501655--63501939 Score: 186
Period size: 46 Copynumber: 6.6 Consensus size: 44
63501645 ATAATACAGG
*
63501655 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-A-TTCAGA
* *
63501701 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGA-T-AGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAG--A
* * * * * *
63501745 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG-----GA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
* * * * *
63501784 TCTTATCTCTCT-AAAGTTACAGTAGAGA-AGATC--ACA-TCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGA-ACAGATCAAAGATTCAGA
*
63501825 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-A-TTCAGA
* * * * *
63501871 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGA--CACTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCA-GA
*
63501914 TCCTATCTCCCTGA-AGTTACAGTGGA
1 TCTTATCTCCCTGAGA-TTACAGTGGA
63501940 GTGGATTAAA
Statistics
Matches: 187, Mismatches: 35, Indels: 37
0.72 0.14 0.14
Matches are distributed among these distances:
37 1 0.01
38 2 0.01
39 21 0.11
40 1 0.01
41 26 0.14
42 6 0.03
43 25 0.13
44 33 0.18
45 2 0.01
46 70 0.37
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
Found at i:63503564 original size:3 final size:3
Alignment explanation
Indices: 63503468--63503555 Score: 133
Period size: 3 Copynumber: 29.3 Consensus size: 3
63503458 GTACTTTTGC
63503468 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
63503516 TAT TAT TAT TAT TAT TAT CAT CT-T TAC TAT TAT TAG TAT T
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT T
63503556 GGTATTATTG
Statistics
Matches: 77, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
2 1 0.01
3 76 0.99
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:63503764 original size:36 final size:36
Alignment explanation
Indices: 63503685--63503764 Score: 101
Period size: 36 Copynumber: 2.2 Consensus size: 36
63503675 AATTTGTTTA
*
63503685 ATATATATACATATACTCATATTTCTTTTTATATAT
1 ATATATATACATATACTCATATTTATTTTTATATAT
* *
63503721 ATCTATATACATATACAT-ATTTTTATTTTTATA-AGT
1 ATATATATACATATAC-TCATATTTATTTTTATATA-T
63503757 ATATATAT
1 ATATATAT
63503765 TTATATGTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 1 0.03
36 36 0.95
37 1 0.03
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.53
Consensus pattern (36 bp):
ATATATATACATATACTCATATTTATTTTTATATAT
Found at i:63504025 original size:18 final size:19
Alignment explanation
Indices: 63503991--63504029 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
63503981 TATACACCTA
63503991 TATATATATGTACATATTTT
1 TATATATATGTA-ATATTTT
63504011 TATATATATGT-ATATTTT
1 TATATATATGTAATATTTT
63504029 T
1 T
63504030 TTCTTTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.42
20 11 0.58
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (19 bp):
TATATATATGTAATATTTT
Found at i:63508545 original size:15 final size:16
Alignment explanation
Indices: 63508520--63508550 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
63508510 TGAAGACAAC
63508520 ATTATCAAAAAGGGAA
1 ATTATCAAAAAGGGAA
63508536 ATTA-CAAAAAGGGAA
1 ATTATCAAAAAGGGAA
63508551 CTTTGAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.58, C:0.06, G:0.19, T:0.16
Consensus pattern (16 bp):
ATTATCAAAAAGGGAA
Found at i:63517074 original size:21 final size:20
Alignment explanation
Indices: 63517034--63517094 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
63517024 TAATAATGAG
* * *
63517034 AATACCAATTTTGTAGTAAT
1 AATATCAATTTTATAATAAT
63517054 AATATCAATTTTTATAATAAT
1 AATATCAA-TTTTATAATAAT
*
63517075 AATATCGATTTTATAATAAT
1 AATATCAATTTTATAATAAT
63517095 TATGGTACTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
20 19 0.53
21 17 0.47
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (20 bp):
AATATCAATTTTATAATAAT
Found at i:63517189 original size:3 final size:3
Alignment explanation
Indices: 63517183--63517213 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
63517173 AGGAAAAAGA
63517183 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
63517214 CAATAAATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:63519038 original size:22 final size:24
Alignment explanation
Indices: 63519012--63519055 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
63519002 AAAAAATATT
63519012 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
63519034 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
63519056 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:63519262 original size:16 final size:16
Alignment explanation
Indices: 63519241--63519282 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
63519231 AATAATTTGA
*
63519241 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
63519257 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
63519273 TAGTTTTAAT
1 TAATTTTAAT
63519283 TTTATTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:63519266 original size:22 final size:23
Alignment explanation
Indices: 63519256--63519317 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 23
63519246 TTACTAACAA
* * *
63519256 TTAATTTTA-ATAACAATTAGTT
1 TTAATTTTATATAAAAAATAATT
*
63519278 TTAATTTTATTTAAAAAATAATT
1 TTAATTTTATATAAAAAATAATT
*
63519301 TTAATTTTA-ATTAAAAA
1 TTAATTTTATATAAAAAA
63519318 CGGGCCGGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
22 15 0.45
23 18 0.55
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
TTAATTTTATATAAAAAATAATT
Found at i:63520967 original size:24 final size:23
Alignment explanation
Indices: 63520908--63520974 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 23
63520898 GAATAGAAAT
**
63520908 TAAATTATAATTT-TTATAATAA
1 TAAATTATAATTTATTATTTTAA
*
63520930 -AAAATATAATTTTATTATTTTAA
1 TAAATTATAA-TTTATTATTTTAA
*
63520953 TAAATTATATATTTATAATTTT
1 TAAATTATA-ATTTATTATTTT
63520975 TAAAAGATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
21 8 0.22
22 3 0.08
23 7 0.19
24 17 0.47
25 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TAAATTATAATTTATTATTTTAA
Found at i:63525240 original size:21 final size:20
Alignment explanation
Indices: 63525200--63525260 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
63525190 TAATAATGAG
* * *
63525200 AATACCAATTTTGTAGTAAT
1 AATATCAATTTTATAATAAT
63525220 AATATCAATTTTTATAATAAT
1 AATATCAA-TTTTATAATAAT
*
63525241 AATATCGATTTTATAATAAT
1 AATATCAATTTTATAATAAT
63525261 TATGGTACTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
20 19 0.53
21 17 0.47
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (20 bp):
AATATCAATTTTATAATAAT
Found at i:63526320 original size:3 final size:3
Alignment explanation
Indices: 63526312--63526340 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
63526302 AATCTATCCT
63526312 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
63526341 TAACTAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:63529551 original size:34 final size:35
Alignment explanation
Indices: 63529507--63529573 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
63529497 CAGTAAAATA
* *
63529507 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
*
63529541 TTTTCTGTAAAATAATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTT
63529574 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
Found at i:63529559 original size:20 final size:20
Alignment explanation
Indices: 63529522--63529561 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
63529512 CGTAAAATGA
**
63529522 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATAATTTACT
*
63529542 TTTCTGTAAAATAATTTACT
1 TTTCTGGAAAATAATTTACT
63529562 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATAATTTACT
Found at i:63531212 original size:28 final size:27
Alignment explanation
Indices: 63531156--63531214 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
63531146 CAACAAAAAA
* * **
63531156 TTTATTTTTTTACTGTTTTGTTATTAT
1 TTTATTTTTTTACTATTTTATTACCAT
63531183 TTTATTTTTTTCACTATTTTATTACCAT
1 TTTATTTTTTT-ACTATTTTATTACCAT
63531211 TTTA
1 TTTA
63531215 ATATTATGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 11 0.41
28 16 0.59
ACGTcount: A:0.19, C:0.08, G:0.03, T:0.69
Consensus pattern (27 bp):
TTTATTTTTTTACTATTTTATTACCAT
Found at i:63531293 original size:24 final size:28
Alignment explanation
Indices: 63531234--63531295 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 28
63531224 TACTACTATT
63531234 TTACTATTTTT-TTGTTTGAATATTGTA
1 TTACTATTTTTATTGTTTGAATATTGTA
*
63531261 TAACT-TTTTTATTG-TT-AAT-TT-TA
1 TTACTATTTTTATTGTTTGAATATTGTA
63531284 TTACTATTTTTA
1 TTACTATTTTTA
63531296 AAGGGATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
23 6 0.19
24 8 0.26
25 3 0.10
26 7 0.23
27 7 0.23
ACGTcount: A:0.24, C:0.05, G:0.06, T:0.65
Consensus pattern (28 bp):
TTACTATTTTTATTGTTTGAATATTGTA
Found at i:63531366 original size:18 final size:18
Alignment explanation
Indices: 63531319--63531377 Score: 73
Period size: 18 Copynumber: 3.1 Consensus size: 18
63531309 GTTAAGTTAC
63531319 ATTTATCTTAATATTATTTA
1 ATTTAT-TTAATATT-TTTA
* *
63531339 AGTATATTTATTATTTTTA
1 A-TTTATTTAATATTTTTA
63531358 ATTTATTTAATATTTTTA
1 ATTTATTTAATATTTTTA
63531376 AT
1 AT
63531378 AATTTTTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
18 17 0.50
19 5 0.15
20 8 0.24
21 4 0.12
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (18 bp):
ATTTATTTAATATTTTTA
Found at i:63531378 original size:9 final size:9
Alignment explanation
Indices: 63531326--63531384 Score: 57
Period size: 9 Copynumber: 6.2 Consensus size: 9
63531316 TACATTTATC
63531326 TTAATATTAT
1 TTAATATT-T
*
63531336 TTAAGTATAT
1 TTAA-TATTT
*
63531346 TTATTATTT
1 TTAATATTT
63531355 TTAAT-TTAT
1 TTAATATT-T
63531364 TTAATATTT
1 TTAATATTT
63531373 TTAATAATTT
1 TTAAT-ATTT
63531383 TT
1 TT
63531385 TATGTATTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
8 2 0.05
9 20 0.49
10 16 0.39
11 3 0.07
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (9 bp):
TTAATATTT
Found at i:63531677 original size:38 final size:38
Alignment explanation
Indices: 63531635--63531718 Score: 159
Period size: 38 Copynumber: 2.2 Consensus size: 38
63531625 CACTCTCCAT
63531635 TTATCTTTAGAAAATGCCTTATTTCCTCCCGGTTTTGC
1 TTATCTTTAGAAAATGCCTTATTTCCTCCCGGTTTTGC
63531673 TTATCTTTAGAAAATGCCTTATTTCCTCCCGGTTTTGC
1 TTATCTTTAGAAAATGCCTTATTTCCTCCCGGTTTTGC
63531711 TTACTCTT
1 TTA-TCTT
63531719 ATCCCCCTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 41 0.91
39 4 0.09
ACGTcount: A:0.18, C:0.24, G:0.12, T:0.46
Consensus pattern (38 bp):
TTATCTTTAGAAAATGCCTTATTTCCTCCCGGTTTTGC
Found at i:63535239 original size:22 final size:21
Alignment explanation
Indices: 63535199--63535240 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
63535189 ATTTTTTGAA
*
63535199 AATATTAAAATATTGATATTG
1 AATATTAAAATATTAATATTG
*
63535220 AATATTATAAATTTTAATATT
1 AATATTA-AAATATTAATATT
63535241 ATTAAATAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (21 bp):
AATATTAAAATATTAATATTG
Found at i:63541465 original size:33 final size:33
Alignment explanation
Indices: 63541428--63541525 Score: 90
Period size: 33 Copynumber: 3.3 Consensus size: 33
63541418 TTACTATATG
63541428 ATAAAATTTATACTTTTACCCCTCCTTAAAATA
1 ATAAAATTTATACTTTTACCCCTCCTTAAAATA
** * *
63541461 ATAAAATTT-TA-AGTTA-------TT-ATATG
1 ATAAAATTTATACTTTTACCCCTCCTTAAAATA
63541484 ATAAAATTTATACTTTTACCCCTCCTTAAAATA
1 ATAAAATTTATACTTTTACCCCTCCTTAAAATA
63541517 ATAAAATTT
1 ATAAAATTT
63541526 TAATTTAGTC
Statistics
Matches: 47, Mismatches: 8, Indels: 20
0.63 0.11 0.27
Matches are distributed among these distances:
23 12 0.26
24 4 0.09
25 3 0.06
31 3 0.06
32 4 0.09
33 21 0.45
ACGTcount: A:0.42, C:0.14, G:0.02, T:0.42
Consensus pattern (33 bp):
ATAAAATTTATACTTTTACCCCTCCTTAAAATA
Found at i:63541471 original size:56 final size:56
Alignment explanation
Indices: 63541410--63541528 Score: 229
Period size: 56 Copynumber: 2.1 Consensus size: 56
63541400 AGTTTGTCAT
63541410 ATTTTAAGTTACTATATGATAAAATTTATACTTTTACCCCTCCTTAAAATAATAAA
1 ATTTTAAGTTACTATATGATAAAATTTATACTTTTACCCCTCCTTAAAATAATAAA
*
63541466 ATTTTAAGTTATTATATGATAAAATTTATACTTTTACCCCTCCTTAAAATAATAAA
1 ATTTTAAGTTACTATATGATAAAATTTATACTTTTACCCCTCCTTAAAATAATAAA
63541522 ATTTTAA
1 ATTTTAA
63541529 TTTAGTCCTT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.41, C:0.13, G:0.03, T:0.43
Consensus pattern (56 bp):
ATTTTAAGTTACTATATGATAAAATTTATACTTTTACCCCTCCTTAAAATAATAAA
Found at i:63543468 original size:4 final size:4
Alignment explanation
Indices: 63543459--63543492 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
63543449 CAAAAATAAT
* *
63543459 ATAC ATAC ATAC ATAT ATAT ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
63543493 TGAATGTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (4 bp):
ATAC
Found at i:63543482 original size:16 final size:16
Alignment explanation
Indices: 63543457--63543489 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
63543447 TTCAAAAATA
63543457 ATATACATACATACAT
1 ATATACATACATACAT
*
63543473 ATATATATACATACAT
1 ATATACATACATACAT
63543489 A
1 A
63543490 CATTGAATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (16 bp):
ATATACATACATACAT
Found at i:63555681 original size:27 final size:27
Alignment explanation
Indices: 63555646--63555700 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
63555636 GGTTACTATT
*
63555646 TGATTTAATGTACAAATGTAATCTAAC
1 TGATCTAATGTACAAATGTAATCTAAC
63555673 TGATCTAATGTACAAATGTAATCTAAC
1 TGATCTAATGTACAAATGTAATCTAAC
63555700 T
1 T
63555701 CCTAGTATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (27 bp):
TGATCTAATGTACAAATGTAATCTAAC
Found at i:63560910 original size:3 final size:3
Alignment explanation
Indices: 63560904--63560928 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
63560894 TTCTCTTCTT
63560904 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
63560929 GTGGTTTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:63575610 original size:21 final size:21
Alignment explanation
Indices: 63575580--63575631 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
63575570 TGAAAGTTAA
*
63575580 ATTAATTATTATAGC-GATGAG
1 ATTAAATATTATAGCAG-TGAG
*
63575601 ATTAAATATTGTAGCAGTGAG
1 ATTAAATATTATAGCAGTGAG
*
63575622 AGTAAA-ATTA
1 ATTAAATATTA
63575632 CTGGTTAGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 3 0.12
21 22 0.85
22 1 0.04
ACGTcount: A:0.42, C:0.04, G:0.19, T:0.35
Consensus pattern (21 bp):
ATTAAATATTATAGCAGTGAG
Found at i:63582790 original size:31 final size:30
Alignment explanation
Indices: 63582687--63582790 Score: 90
Period size: 31 Copynumber: 3.5 Consensus size: 30
63582677 CTAAACTTTT
*
63582687 TTTTGTCCCAATTTGGTATCTAAACTTGACA
1 TTTTGTCCCAATTTGGTACCTAAACTTG-CA
* *
63582718 GTTTT-TCCTAATTTGGTACTTAAACTT---
1 -TTTTGTCCCAATTTGGTACCTAAACTTGCA
* * *
63582745 TTTGGACCCAATTTGGTACCTGAACTTGGCA
1 TTTTGTCCCAATTTGGTACCTAAACTT-GCA
*
63582776 TTTTGTCCTAATTTG
1 TTTTGTCCCAATTTG
63582791 AAATCTAAGC
Statistics
Matches: 56, Mismatches: 11, Indels: 11
0.72 0.14 0.14
Matches are distributed among these distances:
26 3 0.05
27 18 0.32
31 31 0.55
32 4 0.07
ACGTcount: A:0.22, C:0.18, G:0.15, T:0.44
Consensus pattern (30 bp):
TTTTGTCCCAATTTGGTACCTAAACTTGCA
Found at i:63582804 original size:58 final size:58
Alignment explanation
Indices: 63582659--63582805 Score: 163
Period size: 58 Copynumber: 2.5 Consensus size: 58
63582649 AATTTGATAC
* * * *
63582659 TTTTTTCTAATTTGATATCTAAACTTTTTTTTGTCCCAATTTGGTATCTAAACTTGACAG
1 TTTTTCCTAATTTGATATCTAAAC--TTTTTGGACCCAATTTGGTACCTAAACTTGACAG
* * *
63582719 TTTTTCCTAATTTGGTA-CTTAAACTTTTTGGACCCAATTTGGTACCTGAACTTGGCA-
1 TTTTTCCTAATTTGATATC-TAAACTTTTTGGACCCAATTTGGTACCTAAACTTGACAG
* *
63582776 TTTTGTCCTAATTTGAAATCTAAGCTTTTT
1 TTTT-TCCTAATTTGATATCTAAACTTTTT
63582806 TTTAAGTTCA
Statistics
Matches: 74, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
57 4 0.05
58 48 0.65
59 2 0.03
60 20 0.27
ACGTcount: A:0.24, C:0.16, G:0.12, T:0.48
Consensus pattern (58 bp):
TTTTTCCTAATTTGATATCTAAACTTTTTGGACCCAATTTGGTACCTAAACTTGACAG
Found at i:63583301 original size:31 final size:31
Alignment explanation
Indices: 63583266--63583332 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
63583256 GACCCCCAAA
*
63583266 AAGTTTAAGCACCAACTTAAGAAAAAGTATC
1 AAGTTTAAGCACCAAATTAAGAAAAAGTATC
* * * *
63583297 AAGTTTAGGTACCAAATTAGGAAAAAGTGTC
1 AAGTTTAAGCACCAAATTAAGAAAAAGTATC
63583328 AAGTT
1 AAGTT
63583333 GAGGTACCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.25
Consensus pattern (31 bp):
AAGTTTAAGCACCAAATTAAGAAAAAGTATC
Found at i:63583338 original size:31 final size:31
Alignment explanation
Indices: 63583276--63583344 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
63583266 AAGTTTAAGC
* *
63583276 ACCAACTTAAGAAAAAGTATCAAGTTTAGGT
1 ACCAAATTAAGAAAAAGTATCAAGTTGAGGT
* *
63583307 ACCAAATTAGGAAAAAGTGTCAAGTTGAGGT
1 ACCAAATTAAGAAAAAGTATCAAGTTGAGGT
63583338 ACCAAAT
1 ACCAAAT
63583345 GTTATATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.45, C:0.13, G:0.19, T:0.23
Consensus pattern (31 bp):
ACCAAATTAAGAAAAAGTATCAAGTTGAGGT
Found at i:63585608 original size:52 final size:51
Alignment explanation
Indices: 63585537--63585895 Score: 434
Period size: 52 Copynumber: 7.1 Consensus size: 51
63585527 ATCAAGTGAC
*
63585537 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGT-G
* ** *
63585589 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
63585635 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGT-G
* ** *
63585687 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
** *
63585733 AAAGTGATAAGTGATAGCTTCGGCTACACTTCTCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* *
63585784 AAAAGTGATAAGTGATAGC-TTCGACTACACTTATCTGATCAAATGACAAGTG
1 -AAAGTGATAAGTGATAGCTTTAG-CTACACTTATCTGATCAAGTGACAAGTG
*
63585836 AAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG
1 -AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGTG
63585889 ATAAGTG
1 A-AAGTG
63585896 GCTACACTTA
Statistics
Matches: 266, Mismatches: 25, Indels: 31
0.83 0.08 0.10
Matches are distributed among these distances:
46 84 0.32
51 2 0.01
52 167 0.63
53 13 0.05
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:63585643 original size:98 final size:98
Alignment explanation
Indices: 63585523--63585884 Score: 571
Period size: 98 Copynumber: 3.6 Consensus size: 98
63585513 TTTGAGTACT
*
63585523 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
63585588 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
63585621 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
63585686 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
** *
63585719 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTCTCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* * * *
63585784 AAAAGTGATAAGTGATAGCTTCGACTACACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
63585817 TCTGATCAAATGACAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGA
63585882 CAA
60 CAA
63585885 AGTGATAAGT
Statistics
Matches: 245, Mismatches: 13, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
98 201 0.82
104 44 0.18
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:63585813 original size:150 final size:144
Alignment explanation
Indices: 63585529--63585932 Score: 486
Period size: 150 Copynumber: 2.8 Consensus size: 144
63585519 TACTTCTGAT
*
63585529 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGT
1 CAAGTGA-AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC------AAAGT
* * * *
63585594 GATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGC
59 GATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCTTGAGC
*
63585659 TACACTTATCTGATCAAGTGA
124 TACACTTATCTGATCAAATGA
* * ** *
63585680 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
*
63585745 GATAGCTTCGGCTACACTTCTCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGA-C
66 GATAGCTTCGGCTACACTTATCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTT-GAGC
63585809 TACACTTATCTGATCAAATGA
124 TACACTTATCTGATCAAATGA
*
63585830 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG---A-T
1 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
*
63585891 -A-AG--T-GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
66 GATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
63585933 GCTACACTTA
Statistics
Matches: 226, Mismatches: 20, Indels: 30
0.82 0.07 0.11
Matches are distributed among these distances:
135 13 0.06
141 23 0.10
142 1 0.00
144 45 0.20
145 1 0.00
146 1 0.00
147 1 0.00
150 134 0.59
151 7 0.03
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (144 bp):
CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
GATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCTTGAGCTACACTT
ATCTGATCAAATGA
Found at i:63585903 original size:37 final size:37
Alignment explanation
Indices: 63585859--63586004 Score: 251
Period size: 37 Copynumber: 4.0 Consensus size: 37
63585849 GATAGCTTTA
63585859 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
63585896 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
63585933 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
63585970 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
63586005 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:63590500 original size:20 final size:17
Alignment explanation
Indices: 63590457--63590500 Score: 52
Period size: 20 Copynumber: 2.4 Consensus size: 17
63590447 AGTTAAACTG
63590457 ATTTTTTTATTTTTAAA
1 ATTTTTTTATTTTTAAA
63590474 ATATTTTTGTGATTTTTAATA
1 AT-TTTTT-T-ATTTTTAA-A
63590495 ATTTTT
1 ATTTTT
63590501 ATATGGTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 2 0.09
18 5 0.22
19 1 0.04
20 12 0.52
21 3 0.13
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (17 bp):
ATTTTTTTATTTTTAAA
Found at i:63597585 original size:101 final size:101
Alignment explanation
Indices: 63597398--63597736 Score: 480
Period size: 101 Copynumber: 3.4 Consensus size: 101
63597388 AATTCGTCTT
* * * *
63597398 TTACATTCGTAGTGTCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAACCCAACTATGGT
1 TTACGTTCATAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAACCCAACTATGGT
* *
63597463 CTTAGATATAAACACTACCATGGTCCAACCATGGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
* * * * *
63597499 TTACGCTCATAGTGTCATAAACCAATTATGGTATTATCATCAGAATGCCATAGCCCAACTATGGT
1 TTACGTTCATAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAACCCAACTATGGT
*
63597564 CTTACATATAAGCACTGCCATGGTCCAACCATGGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
* ** * * * * * * *
63597600 TTATGTTCATAGTGCCATAACCCTGTTATGGTCTTATAATTAGAATGTCATATCCCATCTGTGGC
1 TTACGTTCATAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAACCCAACTATGGT
63597665 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
63597701 TTACGTTCATAGTGCCATAACCCAATTATGGTCTTA
1 TTACGTTCATAGTGCCATAACCCAATTATGGTCTTA
63597737 ACCGTCAATT
Statistics
Matches: 210, Mismatches: 28, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
101 210 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.31
Consensus pattern (101 bp):
TTACGTTCATAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAACCCAACTATGGT
CTTACATATAAACACTGCCATGGTCCAACCATGGTC
Found at i:63614444 original size:21 final size:20
Alignment explanation
Indices: 63614391--63614446 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 20
63614381 AGCCGAACTT
* *
63614391 TTAATTTAAATAT-TCTGAA
1 TTAATTTAAATTTATATGAA
*
63614410 TTAA-TTAATTTTTATATGAGA
1 TTAATTTAA-ATTTATATGA-A
63614431 TTAATTTAAATTTATA
1 TTAATTTAAATTTATA
63614447 ATATATTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
18 4 0.14
19 6 0.21
20 4 0.14
21 11 0.38
22 4 0.14
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (20 bp):
TTAATTTAAATTTATATGAA
Found at i:63617477 original size:18 final size:18
Alignment explanation
Indices: 63617454--63617492 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
63617444 TGAACTTTAC
*
63617454 AATTCGAATAACTCAAAT
1 AATTCGAATAAATCAAAT
*
63617472 AATTCGAATAAATTAAAT
1 AATTCGAATAAATCAAAT
63617490 AAT
1 AAT
63617493 AGCTTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.31
Consensus pattern (18 bp):
AATTCGAATAAATCAAAT
Found at i:63617615 original size:19 final size:19
Alignment explanation
Indices: 63617560--63617627 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
63617550 TCACTCAACA
* * *
63617560 AAAAT-TTTAAAAAAAATA
1 AAAATATTTATAAAAATTC
*
63617578 AAAATAATTTTTAAAAATTC
1 AAAAT-ATTTATAAAAATTC
63617598 AAAATATTTATAAAAATTC
1 AAAATATTTATAAAAATTC
*
63617617 TAAA-ATTTATA
1 AAAATATTTATA
63617628 TTTTTTAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
18 12 0.29
19 16 0.38
20 14 0.33
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATATTTATAAAAATTC
Found at i:63617674 original size:46 final size:44
Alignment explanation
Indices: 63617585--63617675 Score: 103
Period size: 45 Copynumber: 2.0 Consensus size: 44
63617575 ATAAAAATAA
* *
63617585 TTTTTAAAAATTCAAAATATTTATAAAAATTCTAAAATTTATAT
1 TTTTTAAAAATTCAAAATATTTAAAAAAATTCTAAAATATATAT
*
63617629 TTTTTAAAAAATTATAAAAT-TTTAAAAACAATTCTAAAGAATATATA
1 TTTTT-AAAAATT-CAAAATATTTAAAAA-AATTCT-AA-AATATATA
63617676 AAGAAAGTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
44 5 0.13
45 14 0.36
46 11 0.28
47 2 0.05
48 7 0.18
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (44 bp):
TTTTTAAAAATTCAAAATATTTAAAAAAATTCTAAAATATATAT
Found at i:63618519 original size:10 final size:10
Alignment explanation
Indices: 63618504--63618613 Score: 74
Period size: 10 Copynumber: 11.3 Consensus size: 10
63618494 GAAGGAGAGG
63618504 GAAAGAAGAA
1 GAAAGAAGAA
63618514 GAAAGAAG--
1 GAAAGAAGAA
*
63618522 GAAAGAAAAA
1 GAAAGAAGAA
63618532 GAAAGAA-AA
1 GAAAGAAGAA
* *
63618541 GGAAAGGAGAG
1 -GAAAGAAGAA
63618552 GAAAG-A-AA
1 GAAAGAAGAA
63618560 GAAA-AAGAA
1 GAAAGAAGAA
63618569 GGAAAGAA-AA
1 -GAAAGAAGAA
*
63618579 GGAAAGGAGAA
1 -GAAAGAAGAA
63618590 G-AAGAAAGAAA
1 GAAAG-AAG-AA
*
63618601 GAAAGAAAAA
1 GAAAGAAGAA
63618611 GAA
1 GAA
63618614 GGAAAGAAAG
Statistics
Matches: 81, Mismatches: 7, Indels: 24
0.72 0.06 0.21
Matches are distributed among these distances:
8 13 0.16
9 8 0.10
10 47 0.58
11 10 0.12
12 3 0.04
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (10 bp):
GAAAGAAGAA
Found at i:63618522 original size:24 final size:24
Alignment explanation
Indices: 63618488--63618616 Score: 108
Period size: 24 Copynumber: 5.5 Consensus size: 24
63618478 GTGGGTGGGG
63618488 GAAAAAGAAGGAGAGGGAAAG-AA
1 GAAAAAGAAGGAGAGGGAAAGAAA
* **
63618511 GAAGAAAGAAGGAAAGAAAAAGAAA
1 GAA-AAAGAAGGAGAGGGAAAGAAA
*
63618536 GAAAAGGAAAGGAGA-GGAAAGAAA
1 GAAAAAG-AAGGAGAGGGAAAGAAA
* *
63618560 GAAAAAGAAGGA-AAGAAAAGGAAA
1 GAAAAAGAAGGAGAGGGAAA-GAAA
* * *
63618584 GGAGAAGAA-GA-A-AGAAAGAAA
1 GAAAAAGAAGGAGAGGGAAAGAAA
63618605 GAAAAAGAAGGA
1 GAAAAAGAAGGA
63618617 AAGAAAGGGA
Statistics
Matches: 85, Mismatches: 15, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
21 11 0.13
22 6 0.07
23 15 0.18
24 42 0.49
25 11 0.13
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (24 bp):
GAAAAAGAAGGAGAGGGAAAGAAA
Found at i:63618526 original size:18 final size:18
Alignment explanation
Indices: 63618503--63618621 Score: 109
Period size: 18 Copynumber: 6.4 Consensus size: 18
63618493 AGAAGGAGAG
63618503 GGAAAGAAGAAGAAAGAA
1 GGAAAGAAGAAGAAAGAA
*
63618521 GGAAAGAAAAAGAAAGAAAA
1 GGAAAGAAGAAGAAAG--AA
* *
63618541 GGAAAGGAGAGGAAAGAA
1 GGAAAGAAGAAGAAAGAA
*
63618559 AGAAA-AAGAAGGAAAGAAAA
1 GGAAAGAAGAA-GAAAG--AA
*
63618579 GGAAAGGAGAAG-AAGAA
1 GGAAAGAAGAAGAAAGAA
*
63618596 AGAAAGAAAGAA-AAAGAA
1 GGAAAG-AAGAAGAAAGAA
63618614 GGAAAGAA
1 GGAAAGAA
63618622 AGGGAAAGGA
Statistics
Matches: 81, Mismatches: 12, Indels: 17
0.74 0.11 0.15
Matches are distributed among these distances:
17 12 0.15
18 40 0.49
19 3 0.04
20 22 0.27
21 4 0.05
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (18 bp):
GGAAAGAAGAAGAAAGAA
Found at i:63618534 original size:14 final size:14
Alignment explanation
Indices: 63618509--63618622 Score: 102
Period size: 14 Copynumber: 7.4 Consensus size: 14
63618499 AGAGGGAAAG
63618509 AAGAAGAAAGAAGGA
1 AAGAA-AAAGAAGGA
*
63618524 AAGAAAAAGAAAGAA
1 AAGAAAAAG-AAGGA
*
63618539 AAGGAAAGGAGAGGAAAGA
1 AA-GAAA--A-A-GAAGGA
63618558 AAGAAAAAGAAGGA
1 AAGAAAAAGAAGGA
*
63618572 AAGAAAAGGAAAGGA
1 AAGAAAAAG-AAGGA
*
63618587 GAAGAAGAAAGAAAGA
1 -AAGAA-AAAGAAGGA
63618603 AAGAAAAAGAAGGA
1 AAGAAAAAGAAGGA
63618617 AAGAAA
1 AAGAAA
63618623 GGGAAAGGAG
Statistics
Matches: 82, Mismatches: 8, Indels: 19
0.75 0.07 0.17
Matches are distributed among these distances:
14 31 0.38
15 22 0.27
16 14 0.17
17 3 0.04
18 5 0.06
19 6 0.07
20 1 0.01
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (14 bp):
AAGAAAAAGAAGGA
Found at i:63618534 original size:38 final size:38
Alignment explanation
Indices: 63618488--63618689 Score: 140
Period size: 38 Copynumber: 5.1 Consensus size: 38
63618478 GTGGGTGGGG
* *
63618488 GAAAAAGAAGGAGAGGGAAAGAAGAAGAAAGAAGGAAA
1 GAAAAAGAAGGAAAGGGAAAGAAGAAGAAAGAAAGAAA
* * * *
63618526 GAAAAAGAAAGAAAAGGAAAGGAGAGGAAAGAAAGAAA
1 GAAAAAGAAGGAAAGGGAAAGAAGAAGAAAGAAAGAAA
* * *
63618564 -AAGAAGGAAAGAAAAGGAAAGGAGAAGAAGAAAGAAAGAAA
1 GAA-AAAG-AAGGAAAGGGAA--AGAAGAAGAAAGAAAGAAA
* * *
63618605 GAAAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAAAAAAAAAA
1 GAAAAAGAA-G---GAAAGGGAAAGAAGAAGA-AAGAAAGAAA
* * * *
63618648 GTAGAAGAA-GAAGAGGGGAGGAAGGAA-AAAGAAAGAAA
1 GAAAAAGAAGGAA-AGGGAAAGAA-GAAGAAAGAAAGAAA
63618686 GAAA
1 GAAA
63618690 GACAATTTTT
Statistics
Matches: 124, Mismatches: 28, Indels: 24
0.70 0.16 0.14
Matches are distributed among these distances:
37 2 0.02
38 48 0.39
39 16 0.13
40 5 0.04
41 21 0.17
42 10 0.08
43 15 0.12
44 7 0.06
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (38 bp):
GAAAAAGAAGGAAAGGGAAAGAAGAAGAAAGAAAGAAA
Found at i:63618611 original size:27 final size:27
Alignment explanation
Indices: 63618559--63618609 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
63618549 GAGGAAAGAA
* *
63618559 AGAAAAAGAAGGAAAGAAAAGGAAAGG
1 AGAAAAAGAAAGAAAGAAAAGAAAAGG
*
63618586 AGAAGAAGAAAGAAAG-AAAGAAAA
1 AGAAAAAGAAAGAAAGAAAAGAAAA
63618610 AGAAGGAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 7 0.33
27 14 0.67
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (27 bp):
AGAAAAAGAAAGAAAGAAAAGAAAAGG
Found at i:63618616 original size:45 final size:45
Alignment explanation
Indices: 63618504--63618691 Score: 176
Period size: 45 Copynumber: 4.2 Consensus size: 45
63618494 GAAGGAGAGG
* * *
63618504 GAAAG-AAGAAGAAAGAAGGAAAGAAAAAGAAA-GAAAAGGAAAGGAGAG
1 GAAAGAAAGAA-AAAGAAGGAAAGAAAAGGAAAGGAGAA-G-AA-GA-AA
63618552 GAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAGAAA
1 GAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAGAAA
*
63618597 GAAAGAAAGAAAAAGAAGGAAAGAAAGGGAAAGGAGAAG-AGAAA
1 GAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAGAAA
* * * ***
63618641 -AAAAAAAGTAGAAGAA-GAAGAGGGGAGG-AAGGA-AA-AAGAAA
1 GAAAGAAAGAAAAAGAAGGAA-AGAAAAGGAAAGGAGAAGAAGAAA
63618682 GAAAGAAAGA
1 GAAAGAAAGA
63618692 CAATTTTTTA
Statistics
Matches: 122, Mismatches: 13, Indels: 16
0.81 0.09 0.11
Matches are distributed among these distances:
41 7 0.06
42 15 0.12
43 17 0.14
44 5 0.04
45 39 0.32
46 2 0.02
47 2 0.02
48 26 0.21
49 9 0.07
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (45 bp):
GAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAGAAA
Found at i:63619357 original size:16 final size:16
Alignment explanation
Indices: 63619336--63619374 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
63619326 AAAAACACAC
*
63619336 TAAATTAATAAATTTA
1 TAAATTAATAAAATTA
*
63619352 TAAATTTATAAAATTA
1 TAAATTAATAAAATTA
*
63619368 GAAATTA
1 TAAATTA
63619375 TGATATTTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
TAAATTAATAAAATTA
Found at i:63619602 original size:293 final size:293
Alignment explanation
Indices: 63619059--63620055 Score: 1436
Period size: 285 Copynumber: 3.4 Consensus size: 293
63619049 TGAAATAAAG
* *
63619059 TAAAATTATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATAGGA
1 TAAATTTATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGA
* * * * *
63619124 AGAAATTGCCGAAGTAAGAGCGTTTTACAAAATCTTATAAAAATTCAGAAATAATTAATACAAAT
66 AGAAATGGCCGAAGTAAGAGTGTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAAT
* *
63619189 ATTTCAAACAAAATATACTGAAATAATATAAAATAATAAAATACGAAAATAATATTTTTATTTAA
131 ATTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATTTTTATTGAA
* * * * * *
63619254 AGTAATAAAGTTCGAGAAAATAATAAGAGCAAATGGCGGGAATAAGAGTTTTTTTTACACTAAAT
196 AGTAATAAAATTCGGGAAAATAATAAGAGCAAAGGGCAGGAATAAGGGTTTTTTTGACACTAAAT
63619319 TAATTTAAAAAACACACTAAATTAATAAATTTA
261 TAATTTAAAAAACACACTAAATTAATAAATTTA
* *
63619352 TAAATTTATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATACGGAGAAAAAAATACAA
1 TAAATTTATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGA
*
63619417 AGAAATGGCCGAAGTAAGAGTGTTTTGCTAAATTTTTTAAAAATTCAGAAATAATTAATACAAAT
66 AGAAATGGCCGAAGTAAGAGTGTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAAT
* *
63619482 ATTTCAAACAAAATGTATTGAAACAATATAAAATAATAAAATACGAAAATAATATTTTTTATTGA
131 ATTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATA-TTTTTATTGA
* *
63619547 AAGTAACAAAATTCGGGAAAATAATATGAGCAAAGGGCAGGAATAAGGGTTTTTTTGACACTAAA
195 AAGTAATAAAATTCGGGAAAATAATAAGAGCAAAGGGCAGGAATAAGGGTTTTTTTGACACTAAA
* *
63619612 TTAATTTTAAAAAGA-ACTAAA-T--T--A---A
260 TTAATTTAAAAAACACACTAAATTAATAAATTTA
63619637 TAAATTTATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGA
1 TAAATTTATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGA
* *
63619702 AGAAATGACCGAAGTAAGAGTGTTTTACTAATTTTTTTAAAAATTCAGAAATAATTAATACAAAT
66 AGAAATGGCCGAAGTAAGAGTGTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAAT
63619767 ATTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATTTTTATTGAA
131 ATTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATTTTTATTGAA
* *
63619832 AGTAATAAAATTCGGGAAAATAATACGAGCAAAGGGCATGAATAAGGGTTTTTTTGACACTAAAT
196 AGTAATAAAATTCGGGAAAATAATAAGAGCAAAGGGCAGGAATAAGGGTTTTTTTGACACTAAAT
63619897 TAATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGCACTTAAA
261 TAATTTAAAAAACACACTAAA-T--T-AA--T-----A-AAT----TT--A
* *
63619948 TAAAGTAAAATTATAAAATTAGAAATTATGGTATTTTTTAAAATAATAAAATGCGGAGAAAAAAA
1 TAAA-T----TTATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAA
*
63620013 TACGAAGAAATGGCCGAAGTAAGAGTGTTTTACTAACTTTTTT
61 TACGAAGAAATGGCCGAAGTAAGAGTGTTTTACTAAATTTTTT
63620056 TTTCAACATG
Statistics
Matches: 631, Mismatches: 40, Indels: 43
0.88 0.06 0.06
Matches are distributed among these distances:
284 85 0.13
285 184 0.29
288 1 0.00
289 1 0.00
290 1 0.00
292 1 0.00
293 177 0.28
294 80 0.13
302 1 0.00
311 5 0.01
312 1 0.00
316 94 0.15
ACGTcount: A:0.50, C:0.07, G:0.12, T:0.31
Consensus pattern (293 bp):
TAAATTTATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGA
AGAAATGGCCGAAGTAAGAGTGTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAAT
ATTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATTTTTATTGAA
AGTAATAAAATTCGGGAAAATAATAAGAGCAAAGGGCAGGAATAAGGGTTTTTTTGACACTAAAT
TAATTTAAAAAACACACTAAATTAATAAATTTA
Found at i:63620009 original size:158 final size:154
Alignment explanation
Indices: 63619629--63620048 Score: 410
Period size: 158 Copynumber: 2.7 Consensus size: 154
63619619 TAAAAAGAAC
* *
63619629 TAAATTAATAAATTTATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAA
1 TAAATAAATAAAATTATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAA
* ** * *
63619694 AAATACGAAGAAATGACCGAAGTAAGAGTGTTTTACTAATTTTTTTAAAAATTCAGAAATAATTA
66 AAATACG-AGAAAGGACCGAAGTAAGAGTGTTTTACTAATTAATTTAAAAATACACAAATAATTA
*
63619759 ATACAAATATTTCAAACAAAATGTACT
130 AT--AAATATTTCAAACAAAATGCACT
* * * *
63619786 GAAATAATATAAAATAATAAAA-TACGAAA--ATAATATTTTTATTGAAAGTAATAAAATTCGG-
1 TAAATAA-ATAAAATTATAAAATTA-GAAATTATGATA-TTTT-TT-AAAGTAATAAAATGCGGA
* * * * *
63619847 GAAAATAATACGAGCAAAGGGCATGAA-TAAGGGTTTTTTTGACACTAAATTAATTTAAAAA-AC
61 GAAAAAAATACGAG-AAAGGAC-CGAAGTAAGAG-TGTTTT---ACT-AATTAATTTAAAAATAC
* *
63619910 AC-ACTAAATTAAT-AA-ATTTCAAACATAATGCACT
119 ACAAAT-AATTAATAAATATTTCAAACAAAATGCACT
* *
63619944 TAAATAAAGTAAAATTATAAAATTAGAAATTATGGTATTTTTTAAAATAATAAAATGCGGAGAAA
1 TAAATAAA-TAAAATTATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAA
63620009 AAAATACGAAGAAATGG-CCGAAGTAAGAGTGTTTTACTAA
65 AAAATACG-AGAAA-GGACCGAAGTAAGAGTGTTTTACTAA
63620049 CTTTTTTTTT
Statistics
Matches: 213, Mismatches: 29, Indels: 46
0.74 0.10 0.16
Matches are distributed among these distances:
153 2 0.01
154 3 0.01
156 5 0.02
157 37 0.17
158 100 0.47
159 36 0.17
160 4 0.02
161 2 0.01
162 12 0.06
163 12 0.06
ACGTcount: A:0.50, C:0.07, G:0.12, T:0.30
Consensus pattern (154 bp):
TAAATAAATAAAATTATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAA
AAATACGAGAAAGGACCGAAGTAAGAGTGTTTTACTAATTAATTTAAAAATACACAAATAATTAA
TAAATATTTCAAACAAAATGCACT
Found at i:63625655 original size:27 final size:27
Alignment explanation
Indices: 63625595--63625656 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
63625585 ATAACACGAG
*
63625595 TGGTGCCGCCCATGGGAATGGCACCAT
1 TGGTGCCGCCCATAGGAATGGCACCAT
* * *
63625622 CGATGCCGCCCATAGGAATGGCACCTT
1 TGGTGCCGCCCATAGGAATGGCACCAT
63625649 TGGTGCCG
1 TGGTGCCG
63625657 TCTATCAGTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.18, C:0.31, G:0.32, T:0.19
Consensus pattern (27 bp):
TGGTGCCGCCCATAGGAATGGCACCAT
Found at i:63630334 original size:22 final size:22
Alignment explanation
Indices: 63630298--63630343 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
63630288 TTTTAAAACA
*
63630298 ACAATTAATCCAATCCAAATAG
1 ACAATTAATCAAATCCAAATAG
* *
63630320 ACAATTGATCAAATCTAAATAG
1 ACAATTAATCAAATCCAAATAG
63630342 AC
1 AC
63630344 TCGATTCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.50, C:0.20, G:0.07, T:0.24
Consensus pattern (22 bp):
ACAATTAATCAAATCCAAATAG
Found at i:63633918 original size:30 final size:30
Alignment explanation
Indices: 63633877--63633934 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
63633867 TGCTACAAGT
63633877 TCTTATACTTTT-TATTTTCAGAAATTTAATC
1 TCTTATACTTTTATATTTT-A-AAATTTAATC
63633908 TCTT-TACTTTTCATATTTTAAAATTTA
1 TCTTATACTTTT-ATATTTTAAAATTTA
63633935 TGTCTGCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
30 14 0.56
31 5 0.20
32 6 0.24
ACGTcount: A:0.29, C:0.12, G:0.02, T:0.57
Consensus pattern (30 bp):
TCTTATACTTTTATATTTTAAAATTTAATC
Found at i:63638120 original size:210 final size:206
Alignment explanation
Indices: 63637754--63638166 Score: 555
Period size: 210 Copynumber: 2.0 Consensus size: 206
63637744 ATGAAAACCA
* *
63637754 GATCCACAATAATAAACAGAATTCAGATAATCGAATCTGAACTGGTAATCTGCAAAAGTAGAGCG
1 GATCCACAATAATAAACAGAATTCAGATAATCGAATCTGAACTGGAAATCTGCAAAAGTAGAGAG
*
63637819 AATTTGAACAATAAATATCTACACTCGTTCCAAATGCATTATGGATAATAATTAAAATATCGAAT
66 AATTTGAACAATAAATATCTACACTCGTTCCAAATGCATTACGGATAATAATTAAAATATCGAAT
** ** **
63637884 CTATATAATATACGAATCTGCATTATCCATTGCCGTGCATAAACTCAACAAACATTTCTTGAAGA
131 CTATATAATATACGAATCCACATTATCCATTGCAATGCATAAACTCAACAAACATTTCCAGAAGA
63637949 AACTAAAACTG
196 AACTAAAACTG
63637960 GATCCACAATAATAAACAGAATTCAGATAATCAATATATGAATCTGAAC-GGAAATCTGCAAAAG
1 GATCCACAATAATAAACAGAATTCAGATAATC-------GAATCTGAACTGGAAATCTGCAAAAG
* * * * * *
63638024 TGGAGAGGATTTGAGCAAT-AA-AT-TAGCATTCTTTCCAAATGCGTTACGGATAATAATTAAAA
59 TAGAGAGAATTTGAACAATAAATATCTA-CACTCGTTCCAAATGCATTACGGATAATAATTAAAA
* * *
63638086 TATCGAATCTATATATTATACGAATCCACATTATCCATTGCAATGCTTAAACTCAACCAACATTT
123 TATCGAATCTATATAATATACGAATCCACATTATCCATTGCAATGCATAAACTCAACAAACATTT
*
63638151 CCAGAATAAACTAAAA
188 CCAGAAGAAACTAAAA
63638167 GAAACAGGTT
Statistics
Matches: 180, Mismatches: 19, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
206 32 0.18
209 2 0.01
210 105 0.58
211 2 0.01
212 29 0.16
213 10 0.06
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.28
Consensus pattern (206 bp):
GATCCACAATAATAAACAGAATTCAGATAATCGAATCTGAACTGGAAATCTGCAAAAGTAGAGAG
AATTTGAACAATAAATATCTACACTCGTTCCAAATGCATTACGGATAATAATTAAAATATCGAAT
CTATATAATATACGAATCCACATTATCCATTGCAATGCATAAACTCAACAAACATTTCCAGAAGA
AACTAAAACTG
Found at i:63639309 original size:56 final size:55
Alignment explanation
Indices: 63639230--63639400 Score: 207
Period size: 56 Copynumber: 3.0 Consensus size: 55
63639220 GTTCATACCT
* * *
63639230 CAATATGAGAACAATTGTAAAGTTTAGGGATTAACTTAAAAAAAAAGTTCATGCC
1 CAATATGAGAACAATTGTCAAGTTTAGGGACTAACTTAAAAAAAAAGTTCAAGCC
* * * *
63639285 CAAATATGAGAACAATTGTCAAGTTCAGGGGCTAACTTGAAACAAAAGTTCAAGCCC
1 C-AATATGAGAACAATTGTCAAGTTTAGGGACTAACTTAAAAAAAAAGTTCAAG-CC
* * *
63639342 CAATGTGAGAACAATTGCCAAGTTTAAGGACTAACTTAGACAAAGAAAAGTTCAAGCC
1 CAATATGAGAACAATTGTCAAGTTTAGGGACTAACTTA-A-AAA-AAAAGTTCAAGCC
63639400 C
1 C
63639401 CAATGTGAAA
Statistics
Matches: 97, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
55 1 0.01
56 76 0.78
57 4 0.04
58 5 0.05
59 11 0.11
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.23
Consensus pattern (55 bp):
CAATATGAGAACAATTGTCAAGTTTAGGGACTAACTTAAAAAAAAAGTTCAAGCC
Found at i:63643146 original size:11 final size:11
Alignment explanation
Indices: 63643127--63643160 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
63643117 GCTGAAGTAA
*
63643127 TTTATATTTTT
1 TTTACATTTTT
63643138 TTTACATTTTT
1 TTTACATTTTT
*
63643149 TGTACATTTTT
1 TTTACATTTTT
63643160 T
1 T
63643161 ATTTAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.74
Consensus pattern (11 bp):
TTTACATTTTT
Found at i:63646106 original size:30 final size:30
Alignment explanation
Indices: 63646055--63646124 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 30
63646045 TAAAATTAGT
63646055 AAATGATAAAATTACACTTTAGCCC-TTCAA
1 AAATGATAAAATTACACTTTAGCCCGTT-AA
63646085 AAATGATAAAA-TATCGA-TTTAGCCCGTTAA
1 AAATGATAAAATTA-C-ACTTTAGCCCGTTAA
*
63646115 AAATTATAAA
1 AAATGATAAA
63646125 GATAAAAGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
29 2 0.06
30 31 0.86
31 3 0.08
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.30
Consensus pattern (30 bp):
AAATGATAAAATTACACTTTAGCCCGTTAA
Found at i:63647045 original size:12 final size:12
Alignment explanation
Indices: 63647028--63647052 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
63647018 TTTAGGGGTC
63647028 TAAAACAAAAAT
1 TAAAACAAAAAT
63647040 TAAAACAAAAAT
1 TAAAACAAAAAT
63647052 T
1 T
63647053 CCTTATTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (12 bp):
TAAAACAAAAAT
Found at i:63650051 original size:3 final size:3
Alignment explanation
Indices: 63650043--63650067 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
63650033 TTGGAGTTTC
63650043 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
63650068 TGATGATGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:63656443 original size:5 final size:5
Alignment explanation
Indices: 63656433--63656460 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
63656423 ATCAGTCCCT
63656433 TTTAA TTTAA TTTAA TTTAA TTTAA TTT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTT
63656461 GGCAGTAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (5 bp):
TTTAA
Found at i:63659330 original size:6 final size:6
Alignment explanation
Indices: 63659319--63659353 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
63659309 ACAAATTTGC
63659319 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
63659354 GGTTTTGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:63659359 original size:18 final size:18
Alignment explanation
Indices: 63659320--63659364 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
63659310 CAAATTTGCT
*
63659320 TTTTATTTTTATTTTTAT
1 TTTTATTTTTATTTTTAG
*
63659338 TTTTATTTTTATTTTTGG
1 TTTTATTTTTATTTTTAG
*
63659356 TTTTGTTTT
1 TTTTATTTT
63659365 CTTTTAATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.11, C:0.00, G:0.07, T:0.82
Consensus pattern (18 bp):
TTTTATTTTTATTTTTAG
Found at i:63662674 original size:29 final size:29
Alignment explanation
Indices: 63662632--63662690 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
63662622 CATGCGAGCT
63662632 CAATGACATCCAACCCGAACTCATTCGGG
1 CAATGACATCCAACCCGAACTCATTCGGG
63662661 CAATGACATCCAACCCGAACTCATTCGGG
1 CAATGACATCCAACCCGAACTCATTCGGG
63662690 C
1 C
63662691 TTTGGACTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.36, G:0.17, T:0.17
Consensus pattern (29 bp):
CAATGACATCCAACCCGAACTCATTCGGG
Found at i:63663771 original size:4 final size:4
Alignment explanation
Indices: 63663762--63663787 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
63663752 ATGTTGCTTT
63663762 TTTG TTTG TTTG TTTG TTTG TTTG TT
1 TTTG TTTG TTTG TTTG TTTG TTTG TT
63663788 AAGGAGGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (4 bp):
TTTG
Found at i:63664753 original size:29 final size:29
Alignment explanation
Indices: 63664716--63664791 Score: 143
Period size: 29 Copynumber: 2.6 Consensus size: 29
63664706 AACGATAACG
63664716 TAAGTGACTAAAATGTAACATTTTAAACA
1 TAAGTGACTAAAATGTAACATTTTAAACA
63664745 TAAGTGACTAAAATGTAACATTTTAAACA
1 TAAGTGACTAAAATGTAACATTTTAAACA
*
63664774 TAAATGACTAAAATGTAA
1 TAAGTGACTAAAATGTAA
63664792 TATGAGGCAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (29 bp):
TAAGTGACTAAAATGTAACATTTTAAACA
Found at i:63666976 original size:29 final size:30
Alignment explanation
Indices: 63666914--63666980 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
63666904 TTACAAAATG
*
63666914 GTCATTGAATTATTCAAAAATTTTCATTTAA
1 GTCATTGAACTATTC-AAAATTTTCATTTAA
* *
63666945 GTCATTGAACTATTC-AAGTTTTTATTTAA
1 GTCATTGAACTATTCAAAATTTTCATTTAA
63666974 GTCATTG
1 GTCATTG
63666981 GATTGTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 19 0.58
31 14 0.42
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (30 bp):
GTCATTGAACTATTCAAAATTTTCATTTAA
Found at i:63667287 original size:17 final size:17
Alignment explanation
Indices: 63667265--63667299 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
63667255 TTTTCCCCTG
*
63667265 ATTTTGTTGTTTCAGAT
1 ATTTTGTTATTTCAGAT
63667282 ATTTTGTTATTTCAGAT
1 ATTTTGTTATTTCAGAT
63667299 A
1 A
63667300 ATGTTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.23, C:0.06, G:0.14, T:0.57
Consensus pattern (17 bp):
ATTTTGTTATTTCAGAT
Found at i:63670898 original size:31 final size:31
Alignment explanation
Indices: 63670819--63670901 Score: 80
Period size: 31 Copynumber: 2.7 Consensus size: 31
63670809 TCACTAAAAC
* * *
63670819 TTCAAAAAGTTTCAAATTAA-TCATTGAACTA
1 TTCAAAAATTTTC-ATTTAAGTAATTGAACTA
** *
63670850 TTCAAATGTTTTCATTTAAGTAATTGGACTA
1 TTCAAAAATTTTCATTTAAGTAATTGAACTA
63670881 TTCAAAAAATTTT-ATTTAAGT
1 TTC-AAAAATTTTCATTTAAGT
63670902 CGCTGAGCTA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
30 5 0.12
31 30 0.71
32 7 0.17
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (31 bp):
TTCAAAAATTTTCATTTAAGTAATTGAACTA
Found at i:63671485 original size:24 final size:26
Alignment explanation
Indices: 63671457--63671510 Score: 69
Period size: 23 Copynumber: 2.2 Consensus size: 26
63671447 TCGCTCACTT
63671457 TTTTTTTATTTTC-ATTTTC-CTCTG
1 TTTTTTTATTTTCTATTTTCGCTCTG
*
63671481 -TTTTTTCTTTTCTATTTTCGTCTCTG
1 TTTTTTTATTTTCTATTTTCG-CTCTG
63671507 TTTT
1 TTTT
63671511 CTCTTTGCTG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 11 0.44
24 6 0.24
26 5 0.20
27 3 0.12
ACGTcount: A:0.06, C:0.17, G:0.06, T:0.72
Consensus pattern (26 bp):
TTTTTTTATTTTCTATTTTCGCTCTG
Found at i:63671505 original size:26 final size:23
Alignment explanation
Indices: 63671458--63671516 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 23
63671448 CGCTCACTTT
*
63671458 TTTTTTATTTTCATTTTCCTCTG
1 TTTTTTCTTTTCATTTTCCTCTG
63671481 TTTTTTCTTTTCTATTTTCGTCTCTG
1 TTTTTTCTTTTC-ATTTTC--CTCTG
*
63671507 TTTTCTCTTT
1 TTTTTTCTTT
63671517 GCTGGCCACA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
23 11 0.35
24 6 0.19
26 14 0.45
ACGTcount: A:0.05, C:0.19, G:0.05, T:0.71
Consensus pattern (23 bp):
TTTTTTCTTTTCATTTTCCTCTG
Found at i:63671511 original size:24 final size:23
Alignment explanation
Indices: 63671460--63671512 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
63671450 CTCACTTTTT
* * *
63671460 TTTTATTTTCATTTTCCTCTGTT
1 TTTTCTTTTCATTTTCCTCTCTG
*
63671483 TTTTCTTTTCTATTTTCGTCTCTG
1 TTTTCTTTTC-ATTTTCCTCTCTG
63671507 TTTTCT
1 TTTTCT
63671513 CTTTGCTGGC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.06, C:0.19, G:0.06, T:0.70
Consensus pattern (23 bp):
TTTTCTTTTCATTTTCCTCTCTG
Found at i:63679540 original size:26 final size:25
Alignment explanation
Indices: 63679494--63679544 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
63679484 CTTTTTCTCC
**
63679494 AAAAATGACATATTTTTCTAAATTAA
1 AAAAATGACATATTTAGCT-AATTAA
63679520 AAAAATGATC-TATTTAGCTAATTAA
1 AAAAATGA-CATATTTAGCTAATTAA
63679545 TTTTTTTCCG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 6 0.27
26 15 0.68
27 1 0.05
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.37
Consensus pattern (25 bp):
AAAAATGACATATTTAGCTAATTAA
Found at i:63683943 original size:148 final size:149
Alignment explanation
Indices: 63683628--63684062 Score: 561
Period size: 148 Copynumber: 2.9 Consensus size: 149
63683618 TTTAATTCAA
* * * * * *
63683628 CAAATAGCTAACAATTCACCTAAATATTCAAGAAACAGTACGATTCAGCTTTGAACTAGGATCTA
1 CAAATAGCTAACAGTTCACATAAAGATTCAAAAAACAGTACGATTCAGCTTCGAACTAGAATCTA
* * * * *
63683693 AAAACAAGCTAAGGTTGTTCTCCCTACGTAAATCTTGGAAAACTTAGCTCGTAAACTTCAGATCT
66 AAAACAAGCTAAAGCTGTTCTTCCTACGTAAATCTTAGCAAACTTAGCTCGTAAACTTCAGATCT
* *
63683758 GTATTTTTTTGTAATTCAT
131 GTATTTTTTTGCAACTCAT
* * * *
63683777 CAAATAGCT-ACAGCTCACATAAGGATACAAAAAACAGTACGATTCAGCTTCGAACTATAATCTA
1 CAAATAGCTAACAGTTCACATAAAGATTCAAAAAACAGTACGATTCAGCTTCGAACTAGAATCTA
* * *
63683841 AAAACAAGCTAAAGCTGTTCTTCCTACGCT-AGTCATAGCAAACTTAGCTCGTAAACTTCAG-TT
66 AAAACAAGCTAAAGCTGTTCTTCCTACG-TAAATCTTAGCAAACTTAGCTCGTAAACTTCAGATC
* *
63683904 TTTTTTTTTTTGCAACTCAT
130 TGTATTTTTTTGCAACTCAT
* * *
63683924 CAAATAGCTAACAGTTCACATAAAGATTCAAAAAGCGGTACCATTCAAGCTTCGAACTAGAATCT
1 CAAATAGCTAACAGTTCACATAAAGATTCAAAAAACAGTACGATTC-AGCTTCGAACTAGAATCT
* * ** *
63683989 AAAAACAAGTTAAATCTGTTCTTCCTACGTAAATCTTAGCAGTCTTAGCTCGTAAGCTTCAGATC
65 AAAAACAAGCTAAAGCTGTTCTTCCTACGTAAATCTTAGCAAACTTAGCTCGTAAACTTCAGATC
63684054 TGTATTTTT
130 TGTATTTTT
63684063 AAGCAAAACA
Statistics
Matches: 242, Mismatches: 39, Indels: 9
0.83 0.13 0.03
Matches are distributed among these distances:
147 26 0.11
148 128 0.53
149 80 0.33
150 8 0.03
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.31
Consensus pattern (149 bp):
CAAATAGCTAACAGTTCACATAAAGATTCAAAAAACAGTACGATTCAGCTTCGAACTAGAATCTA
AAAACAAGCTAAAGCTGTTCTTCCTACGTAAATCTTAGCAAACTTAGCTCGTAAACTTCAGATCT
GTATTTTTTTGCAACTCAT
Found at i:63695968 original size:16 final size:15
Alignment explanation
Indices: 63695928--63695969 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
63695918 GCTTGAGTGT
63695928 CAAATCTG-AATGAC
1 CAAATCTGAAATGAC
* *
63695942 AAAACCTGAAATGACC
1 CAAATCTGAAATGA-C
63695958 CAAATCTGAAAT
1 CAAATCTGAAAT
63695970 TATCCGACCT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 6 0.27
15 5 0.23
16 11 0.50
ACGTcount: A:0.48, C:0.21, G:0.12, T:0.19
Consensus pattern (15 bp):
CAAATCTGAAATGAC
Found at i:63711079 original size:17 final size:17
Alignment explanation
Indices: 63711057--63711092 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
63711047 TTTGTTTAGG
63711057 AATATTTTTATCTCAAA
1 AATATTTTTATCTCAAA
* *
63711074 AATATTTTTTTGTCAAA
1 AATATTTTTATCTCAAA
63711091 AA
1 AA
63711093 AATATTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (17 bp):
AATATTTTTATCTCAAA
Found at i:63711413 original size:13 final size:13
Alignment explanation
Indices: 63711395--63711424 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
63711385 TTGTTTCTAT
63711395 TGTTTTGTTGTTG
1 TGTTTTGTTGTTG
63711408 TGTTTTGTTGTTG
1 TGTTTTGTTGTTG
63711421 -GTTT
1 TGTTT
63711425 GCTACTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.00, C:0.00, G:0.30, T:0.70
Consensus pattern (13 bp):
TGTTTTGTTGTTG
Found at i:63714933 original size:115 final size:114
Alignment explanation
Indices: 63714732--63714961 Score: 363
Period size: 115 Copynumber: 2.0 Consensus size: 114
63714722 TCATTTTCTG
*
63714732 GCCTTTTGTTTTGGTATGAAATCTAGCATTTGAATTAGGGTTTAAGGTGTTACTTTTATCTTGTT
1 GCCTTTTGTTTTGGTATGAAATCTAGCATTTGAATTAGGGTTTAAGGTGTTACTTTTATCTTGAT
* * *
63714797 TCTCGAAAGAATATCGGGTCATTTGAGATTGTTTAGTGTGTGTTTATGT
66 TCTCGAAAGAATATCAGGTCATTCGAGATTGTTTAGGGTGTGTTTATGT
*
63714846 GCCTTTTGTTTTGGTATTGAAATGTAGCATTTGAATTAGGGTTTAAGGTGTTACTTTTATGC-TG
1 GCCTTTTGTTTTGGTA-TGAAATCTAGCATTTGAATTAGGGTTTAAGGTGTTACTTTTAT-CTTG
* * *
63714910 ATTCTCGAAAGAATTTCAGGTCATTCGTGTTTGTTTAGGGTGTGTTTATGT
64 ATTCTCGAAAGAATATCAGGTCATTCGAGATTGTTTAGGGTGTGTTTATGT
63714961 G
1 G
63714962 TTACAAAGTT
Statistics
Matches: 106, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
114 16 0.15
115 89 0.84
116 1 0.01
ACGTcount: A:0.20, C:0.09, G:0.25, T:0.46
Consensus pattern (114 bp):
GCCTTTTGTTTTGGTATGAAATCTAGCATTTGAATTAGGGTTTAAGGTGTTACTTTTATCTTGAT
TCTCGAAAGAATATCAGGTCATTCGAGATTGTTTAGGGTGTGTTTATGT
Found at i:63715177 original size:156 final size:155
Alignment explanation
Indices: 63714846--63715187 Score: 503
Period size: 155 Copynumber: 2.2 Consensus size: 155
63714836 GTGTTTATGT
* *
63714846 GCCTTTTGTTTTGGTATTGAAATGTAGCATTTGAATTAGGGTTTAAGGTGTTACTTTTATGCTGA
1 GCCTTTTGTTTTGGTACTGAAATGTAGCATTTGAATTAGGGTTTAAGGTGTTACTTTTATGCTCA
* * *
63714911 TTCTCGAAAGAATTTCAGGTCATTCGTGTTTGTTTAGGGTGTGTTTATGTGTTACAAAGTTCAAG
66 TTCTCGAAAGAATTTCAGGTCATTCGAGATTGTTTAGGGTGTGTTTATGCGTTACAAAGTTCAAG
* *
63714976 TATACTTAATTATGTTCATTTTTTG
131 TATACTTAATTATGTTCATTATCTG
* *
63715001 GCCTTCTGTTTTGGTACTGAAATGTAGCATTTGAATTAGGGTTTAAGTTGTTACTTTTACT-CTC
1 GCCTTTTGTTTTGGTACTGAAATGTAGCATTTGAATTAGGGTTTAAGGTGTTACTTTTA-TGCTC
* * *
63715065 TTTCTCGAAAGAATTTCAGGGTCATTTGAGATTGTTTAGTGTGTGTTTATGCGTTACAAAGTTCA
65 ATTCTCGAAAGAATTTCA-GGTCATTCGAGATTGTTTAGGGTGTGTTTATGCGTTACAAAGTTCA
63715130 AGTATACTTAATTATAG-TCA-TATCTG
129 AGTATACTTAATTAT-GTTCATTATCTG
*
63715156 GCCTTTTTATTTTGGTACTGAAATGT-GCATTT
1 GCC-TTTTGTTTTGGTACTGAAATGTAGCATTT
63715188 TGCTCTCTGA
Statistics
Matches: 169, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
155 88 0.52
156 80 0.47
157 1 0.01
ACGTcount: A:0.23, C:0.11, G:0.21, T:0.45
Consensus pattern (155 bp):
GCCTTTTGTTTTGGTACTGAAATGTAGCATTTGAATTAGGGTTTAAGGTGTTACTTTTATGCTCA
TTCTCGAAAGAATTTCAGGTCATTCGAGATTGTTTAGGGTGTGTTTATGCGTTACAAAGTTCAAG
TATACTTAATTATGTTCATTATCTG
Done.