Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 269 of 284
Found at i:90394739 original size:79 final size:79
Alignment explanation
Indices: 90394589--90394750 Score: 188
Period size: 79 Copynumber: 2.1 Consensus size: 79
90394579 CTAAGATCCA
* ** *
90394589 AAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATC
1 AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATC
*
90394654 CGGGTTAAGTCCCG
66 CGGGTTAAATCCCG
*
90394668 AAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTA
1 AAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTA
* *
90394730 TATCC-GGTTAAATTCCG
62 AATCCGGGTTAAATCCCG
90394747 AAGG
1 AAGG
90394751 TACGTGATTT
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 43 0.61
80 25 0.35
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATC
CGGGTTAAATCCCG
Found at i:90395553 original size:101 final size:101
Alignment explanation
Indices: 90395378--90395580 Score: 397
Period size: 101 Copynumber: 2.0 Consensus size: 101
90395368 CTATTTATGC
90395378 AAAAAGGGCTAGTTGAATCATGGAAACCATGAAACAGGTAAAGTCTACCTTAAAGGCAGATGCTG
1 AAAAAGGGCTAGTTGAATCATGGAAACCATGAAACAGGTAAAGTCTACCTTAAAGGCAGATGCTG
90395443 ACAGCAGCAGTGATGTAGATTTAGAAAATCACTAAA
66 ACAGCAGCAGTGATGTAGATTTAGAAAATCACTAAA
*
90395479 AAAAAGGGCTAGTTGAATCATGGAAACCATGAAATAGGTAAAGTCTACCTTAAAGGCAGATGCTG
1 AAAAAGGGCTAGTTGAATCATGGAAACCATGAAACAGGTAAAGTCTACCTTAAAGGCAGATGCTG
90395544 ACAGCAGCAGTGATGTAGATTTAGAAAATCACTAAA
66 ACAGCAGCAGTGATGTAGATTTAGAAAATCACTAAA
90395580 A
1 A
90395581 CTAGTAGGAA
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 101 1.00
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (101 bp):
AAAAAGGGCTAGTTGAATCATGGAAACCATGAAACAGGTAAAGTCTACCTTAAAGGCAGATGCTG
ACAGCAGCAGTGATGTAGATTTAGAAAATCACTAAA
Found at i:90396022 original size:65 final size:64
Alignment explanation
Indices: 90395940--90396071 Score: 246
Period size: 65 Copynumber: 2.0 Consensus size: 64
90395930 AACAAACGGC
90395940 ATCAGTATTGAAGCCCTGTACAGGGAGATATCCAAGTCGTAATGCGCAAAGGTCAGGGTAGTCGA
1 ATCAGTATTGAAGCCCTGTACAGGGAGATATCCAAGTCGTAATGCGCAAAGGTCAGGGTAGTC-A
*
90396005 ATCAGTATTGAGGCCCTGTACAGGGAGATATCCAAGTCGTAATGCGCAAAGGTCAGGGTAGTCA
1 ATCAGTATTGAAGCCCTGTACAGGGAGATATCCAAGTCGTAATGCGCAAAGGTCAGGGTAGTCA
90396069 ATC
1 ATC
90396072 CCTGTAACAT
Statistics
Matches: 66, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
64 4 0.06
65 62 0.94
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (64 bp):
ATCAGTATTGAAGCCCTGTACAGGGAGATATCCAAGTCGTAATGCGCAAAGGTCAGGGTAGTCA
Found at i:90402842 original size:39 final size:41
Alignment explanation
Indices: 90402747--90402930 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 41
90402737 TTGAATGCTG
*
90402747 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
90402786 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
90402826 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
90402865 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
90402905 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
90402931 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
39 54 0.43
40 61 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:90402882 original size:79 final size:81
Alignment explanation
Indices: 90402747--90402930 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
90402737 TTGAATGCTG
90402747 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
90402810 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * **
90402825 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
90402886 ATTTGTGCGAATTACTATA
63 ATTTGTGCGAATTACTATA
* *
90402905 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
90402931 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 11 0.12
79 58 0.63
80 23 0.25
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:90402952 original size:79 final size:79
Alignment explanation
Indices: 90402799--90402963 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
90402789 GGACTAAGAT
* ** *
90402799 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
90402864 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
90402878 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
90402940 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
90402957 CCGAAGG
1 CCGAAGG
90402964 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 46 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:90411360 original size:21 final size:22
Alignment explanation
Indices: 90411319--90411360 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
90411309 CTTATTTTGT
*
90411319 GGAGAAATAAGAGGTGAGAGAG
1 GGAGAAATAAGAGGGGAGAGAG
90411341 GGAGAAATAA-AGGGGAGAGA
1 GGAGAAATAAGAGGGGAGAGA
90411361 AGTATTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.48, C:0.00, G:0.45, T:0.07
Consensus pattern (22 bp):
GGAGAAATAAGAGGGGAGAGAG
Found at i:90413055 original size:68 final size:68
Alignment explanation
Indices: 90412946--90413080 Score: 261
Period size: 68 Copynumber: 2.0 Consensus size: 68
90412936 AAAACAGAGG
*
90412946 AAACAGAGTAAACGGAGTAAGCATTACAATGCTTAGTAAGTTTTAAGCAGTGTCAACATATAACA
1 AAACAAAGTAAACGGAGTAAGCATTACAATGCTTAGTAAGTTTTAAGCAGTGTCAACATATAACA
90413011 ATA
66 ATA
90413014 AAACAAAGTAAACGGAGTAAGCATTACAATGCTTAGTAAGTTTTAAGCAGTGTCAACATATAACA
1 AAACAAAGTAAACGGAGTAAGCATTACAATGCTTAGTAAGTTTTAAGCAGTGTCAACATATAACA
90413079 AT
66 AT
90413081 CAAATTATAA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.44, C:0.13, G:0.17, T:0.25
Consensus pattern (68 bp):
AAACAAAGTAAACGGAGTAAGCATTACAATGCTTAGTAAGTTTTAAGCAGTGTCAACATATAACA
ATA
Found at i:90413577 original size:37 final size:37
Alignment explanation
Indices: 90413470--90413587 Score: 184
Period size: 37 Copynumber: 3.2 Consensus size: 37
90413460 CTCAGACAAA
* * *
90413470 ATCTCCACACGGAGTTATCGGGTCTTACCCGGACA-AA
1 ATCTCCACACGTAGTCATCGGGTCTTACCCGGA-ATAT
90413507 ATCTCCACACGTAGTCATCGGGTCTTACCCGGAATAT
1 ATCTCCACACGTAGTCATCGGGTCTTACCCGGAATAT
90413544 ATCTCCACACGTAGTCATCGGGTCTTACCCGGAATAT
1 ATCTCCACACGTAGTCATCGGGTCTTACCCGGAATAT
*
90413581 ATTTCCA
1 ATCTCCA
90413588 AGTTTCATGT
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
36 1 0.01
37 75 0.99
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (37 bp):
ATCTCCACACGTAGTCATCGGGTCTTACCCGGAATAT
Found at i:90413895 original size:50 final size:47
Alignment explanation
Indices: 90413815--90413960 Score: 186
Period size: 48 Copynumber: 3.0 Consensus size: 47
90413805 CATATGCATG
* *
90413815 CATATCTCATACATAGTTCACACTAGCCATTCGGCTTTACAACATATA
1 CATATCTCATACATATTTCACATTAGCCATTCGGCTTTAC-ACATATA
* *
90413863 CATATCTCATATATATATTTCACATT-GACCATTCGGCTTTACCACATATG
1 CATATCTC--ATACATATTTCACATTAG-CCATTCGGCTTTA-CACATATA
*
90413913 CATATCTCATACATATTTCACATTAGCCATTCGGCCTTATCACATATA
1 CATATCTCATACATATTTCACATTAGCCATTCGGCTTTA-CACATATA
90413961 TGCATGTTCA
Statistics
Matches: 85, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
48 42 0.49
49 2 0.02
50 40 0.47
51 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.35
Consensus pattern (47 bp):
CATATCTCATACATATTTCACATTAGCCATTCGGCTTTACACATATA
Found at i:90413962 original size:50 final size:50
Alignment explanation
Indices: 90413786--90414054 Score: 224
Period size: 47 Copynumber: 5.5 Consensus size: 50
90413776 CACCATATTG
* *
90413786 GCCATTCGGCCTTATCACACATATGCATGCATATCTCATACATAGTTCACACTA
1 GCCATTCGGCCTTAT--CACATAT--ATGCATATCTCATACATATTTCACATTA
* *
90413840 GCCATTCGGCTTTA-CAACATATA--CATATCTCATATATATATTTCACATT-
1 GCCATTCGGCCTTATC-ACATATATGCATATCTC--ATACATATTTCACATTA
* *
90413889 GACCATTCGGCTTTA-C-CACATATGCATATCTCATACATATTTCACATTA
1 G-CCATTCGGCCTTATCACATATATGCATATCTCATACATATTTCACATTA
* * *
90413938 GCCATTCGGCCTTATCACATATATGCATGT-TCAT--AT-TCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATATCTCATACATAT-TTCACATTA
* * * *
90413985 GCCATTCGGCCTTATCACACATATGCATGT-TC--ACAT-TCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATATCTCATACATAT-TTCACATTA
*
90414032 GCCATTCGGCCTTATCTCATATA
1 GCCATTCGGCCTTATCACATATA
90414055 CACACAATCA
Statistics
Matches: 189, Mismatches: 14, Indels: 31
0.81 0.06 0.13
Matches are distributed among these distances:
46 1 0.01
47 74 0.39
48 40 0.21
49 7 0.04
50 47 0.25
51 1 0.01
52 6 0.03
54 13 0.07
ACGTcount: A:0.28, C:0.27, G:0.10, T:0.34
Consensus pattern (50 bp):
GCCATTCGGCCTTATCACATATATGCATATCTCATACATATTTCACATTA
Found at i:90417258 original size:23 final size:23
Alignment explanation
Indices: 90417232--90417296 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
90417222 AGGAGGAAGT
* * *
90417232 TCTACTTGCGATTTATCCGCATA
1 TCTACTAGCGATTCATCCGCAAA
* *
90417255 TCTACTAGCAATTCATCTGCAAA
1 TCTACTAGCGATTCATCCGCAAA
*
90417278 TCTACTGGCGATTCATCCG
1 TCTACTAGCGATTCATCCG
90417297 TAAAATATTA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.25, C:0.28, G:0.14, T:0.34
Consensus pattern (23 bp):
TCTACTAGCGATTCATCCGCAAA
Found at i:90417728 original size:21 final size:21
Alignment explanation
Indices: 90417702--90417742 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
90417692 ATAACTGAAG
90417702 TATATAAAATTGTAGATATTA
1 TATATAAAATTGTAGATATTA
* * *
90417723 TATATATAATTTTATATATT
1 TATATAAAATTGTAGATATT
90417743 TTTTACTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (21 bp):
TATATAAAATTGTAGATATTA
Found at i:90417754 original size:17 final size:16
Alignment explanation
Indices: 90417729--90417794 Score: 71
Period size: 17 Copynumber: 4.0 Consensus size: 16
90417719 ATTATATATA
90417729 TAATTTTATATATTTTT
1 TAATTTT-TATATTTTT
* *
90417746 TACTTTTATTTATTTTT
1 TAATTTT-TATATTTTT
*
90417763 ATAATTTTTTTA-TTTT
1 -TAATTTTTATATTTTT
90417779 TAATTTTTATATTTTT
1 TAATTTTTATATTTTT
90417795 AAATATATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
15 10 0.23
16 8 0.19
17 19 0.44
18 6 0.14
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (16 bp):
TAATTTTTATATTTTT
Found at i:90417784 original size:15 final size:15
Alignment explanation
Indices: 90417742--90417796 Score: 65
Period size: 15 Copynumber: 3.5 Consensus size: 15
90417732 TTTTATATAT
*
90417742 TTTTTACTTTTATTTA
1 TTTTTAATTTT-TTTA
90417758 TTTTTATAATTTTTTTA
1 -TTTT-TAATTTTTTTA
*
90417775 TTTTTAATTTTTATA
1 TTTTTAATTTTTTTA
90417790 TTTTTAA
1 TTTTTAA
90417797 ATATATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 17 0.49
16 4 0.11
17 8 0.23
18 6 0.17
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTTAATTTTTTTA
Found at i:90420433 original size:30 final size:29
Alignment explanation
Indices: 90420393--90420453 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 29
90420383 GAGATTGATG
* **
90420393 TTTGAAACAACATAGTGCATAATTAGCTA
1 TTTGAAACAACAAAGACCATAATTAGCTA
90420422 TTTGAAAACAACAAAGACCATAATTAGCTA
1 TTTG-AAACAACAAAGACCATAATTAGCTA
90420452 TT
1 TT
90420454 AGTAAAAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 4 0.14
30 24 0.86
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (29 bp):
TTTGAAACAACAAAGACCATAATTAGCTA
Found at i:90423459 original size:43 final size:44
Alignment explanation
Indices: 90423316--90423474 Score: 112
Period size: 43 Copynumber: 3.7 Consensus size: 44
90423306 AAAAAATTCA
* * * * * ***
90423316 CCACTGGGCTGTGGATACATAGCAAAATTCGTAGATAAAATCAA
1 CCACTAGGCTGTGGATACACAACAAAATTCGCAAATAAAATTTG
* * * *
90423360 CCAAT-GAGCTATGAATACACAGA-AAAA-TCGCAAATAAAATTTT
1 CCACTAG-GCTGTGGATACACA-ACAAAATTCGCAAATAAAATTTG
* *
90423403 CCACTAGGTTGTGG-TACACAACAAAATTCGCAGATAAAATTTG
1 CCACTAGGCTGTGGATACACAACAAAATTCGCAAATAAAATTTG
* *
90423446 CCACT-GGACTGTGGATGCACAACATAATT
1 CCACTAGG-CTGTGGATACACAACAAAATT
90423475 GTCTGTAAAA
Statistics
Matches: 89, Mismatches: 19, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
41 1 0.01
42 12 0.13
43 44 0.49
44 32 0.36
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.24
Consensus pattern (44 bp):
CCACTAGGCTGTGGATACACAACAAAATTCGCAAATAAAATTTG
Found at i:90425855 original size:23 final size:24
Alignment explanation
Indices: 90425811--90425888 Score: 86
Period size: 23 Copynumber: 3.2 Consensus size: 24
90425801 TCGTTACATA
**
90425811 GCTCTTTGTGAGCTTCTTGATA-G
1 GCTCTTTGTGAGCTTCCCGATATG
*
90425834 GCTCTTCGTGAGCTTCCCGATATG
1 GCTCTTTGTGAGCTTCCCGATATG
* * *
90425858 GTTCTTTGTGAACTTCCCAATTATG
1 GCTCTTTGTGAGCTTCCCGA-TATG
90425883 GCTCTT
1 GCTCTT
90425889 ACGAGCTTCC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
23 19 0.42
24 17 0.38
25 9 0.20
ACGTcount: A:0.14, C:0.23, G:0.22, T:0.41
Consensus pattern (24 bp):
GCTCTTTGTGAGCTTCCCGATATG
Found at i:90425888 original size:25 final size:24
Alignment explanation
Indices: 90425833--90425888 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
90425823 CTTCTTGATA
* *
90425833 GGCTCTTCGTGAGCTTCCCGATAT
1 GGCTCTTCGTGAACTTCCCAATAT
* *
90425857 GGTTCTTTGTGAACTTCCCAATTAT
1 GGCTCTTCGTGAACTTCCCAA-TAT
90425882 GGCTCTT
1 GGCTCTT
90425889 ACGAGCTTCC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.14, C:0.25, G:0.21, T:0.39
Consensus pattern (24 bp):
GGCTCTTCGTGAACTTCCCAATAT
Found at i:90428710 original size:18 final size:18
Alignment explanation
Indices: 90428672--90428704 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
90428662 AATTTAACTT
90428672 TAATTAAATTATTTAAAA
1 TAATTAAATTATTTAAAA
90428690 TAATT-AATT-TTTAAA
1 TAATTAAATTATTTAAA
90428705 TTATAAGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TAATTAAATTATTTAAAA
Found at i:90428757 original size:18 final size:17
Alignment explanation
Indices: 90428715--90428758 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
90428705 TTATAAGCAA
*
90428715 ACATTTTTTATTCTTTT
1 ACATTTTTTAATCTTTT
*
90428732 ACAATTTTTAATCATTTT
1 ACATTTTTTAATC-TTTT
*
90428750 ATATTTTTT
1 ACATTTTTT
90428759 TCAAAAGTCT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (17 bp):
ACATTTTTTAATCTTTT
Found at i:90428874 original size:14 final size:14
Alignment explanation
Indices: 90428855--90428884 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
90428845 AAATTGTTTT
90428855 TATTTCATATTATA
1 TATTTCATATTATA
90428869 TATTTCATATTATA
1 TATTTCATATTATA
90428883 TA
1 TA
90428885 AACTAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTTCATATTATA
Found at i:90429725 original size:14 final size:14
Alignment explanation
Indices: 90429706--90429778 Score: 51
Period size: 13 Copynumber: 5.0 Consensus size: 14
90429696 TATATTTAAA
90429706 ATTTATTAAATATC
1 ATTTATTAAATATC
*
90429720 ATTTATGTAATATTATAA
1 ATTTAT-TAA-A-TAT-C
* *
90429738 ATATTTTTATATAT-
1 AT-TTATTAAATATC
*
90429752 ATTTATTAAATATT
1 ATTTATTAAATATC
90429766 ATTT-TTAAATATC
1 ATTTATTAAATATC
90429779 GATAAATTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
13 17 0.36
14 12 0.26
15 3 0.06
16 4 0.09
17 4 0.09
18 4 0.09
19 3 0.06
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (14 bp):
ATTTATTAAATATC
Found at i:90429733 original size:32 final size:32
Alignment explanation
Indices: 90429691--90429767 Score: 88
Period size: 32 Copynumber: 2.4 Consensus size: 32
90429681 AATTGATGAA
*
90429691 TATTATATATT-TAAA-ATTTATTAAATATCATT
1 TATTAAATATTATAAATATTT-TTAAATAT-ATT
*
90429723 TATGT-AATATTATAAATATTTTTATATATATT
1 TAT-TAAATATTATAAATATTTTTAAATATATT
90429755 TATTAAATATTAT
1 TATTAAATATTAT
90429768 TTTTAAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
31 1 0.03
32 22 0.56
33 12 0.31
34 4 0.10
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (32 bp):
TATTAAATATTATAAATATTTTTAAATATATT
Found at i:90429761 original size:23 final size:22
Alignment explanation
Indices: 90429705--90429765 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
90429695 ATATATTTAA
* *
90429705 AATTTATTAAATATCATTTATGT
1 AATTTATTAAATAT-TTTTATAT
90429728 AATATTA-TAAATATTTTTATAT
1 AAT-TTATTAAATATTTTTATAT
90429750 ATATTTATTAAATATT
1 A-ATTTATTAAATATT
90429766 ATTTTTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
22 10 0.30
23 20 0.61
24 3 0.09
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (22 bp):
AATTTATTAAATATTTTTATAT
Found at i:90429773 original size:13 final size:13
Alignment explanation
Indices: 90429739--90429777 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
90429729 ATATTATAAA
*
90429739 TATTTTTATATA-
1 TATTTTTAAATAT
90429751 TATTTATTAAATAT
1 TATTT-TTAAATAT
90429765 TATTTTTAAATAT
1 TATTTTTAAATAT
90429778 CGATAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 5 0.21
13 14 0.58
14 5 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATTTTTAAATAT
Found at i:90432539 original size:24 final size:25
Alignment explanation
Indices: 90432507--90432589 Score: 64
Period size: 25 Copynumber: 3.4 Consensus size: 25
90432497 ACATGTATGC
90432507 TCTTACGAGCT-ATAATA-GGTAAGT
1 TCTTACGAGCTGA-AATACGGTAAGT
* *
90432531 TCTTTCGAGCTGAAATACGGTAAGC
1 TCTTACGAGCTGAAATACGGTAAGT
* * * *
90432556 TCTCAAGAGCTACAAAT-CGGTAAGC
1 TCTTACGAGCT-GAAATACGGTAAGT
*
90432581 TCATACGAG
1 TCTTACGAG
90432590 TTGTGGTGGG
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
24 14 0.30
25 29 0.62
26 4 0.09
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (25 bp):
TCTTACGAGCTGAAATACGGTAAGT
Found at i:90433356 original size:54 final size:54
Alignment explanation
Indices: 90433230--90433368 Score: 145
Period size: 54 Copynumber: 2.5 Consensus size: 54
90433220 TGTCGGCCTA
* *** * *
90433230 TCAATGGCCGGCACTAGACTCAGTATTTAAAAAAATCTTTTTTTTGGTGCTTACCTG
1 TCAATGGCC-GCACCAGACTCAGTATTTAAAAAAA--TAAATTTTGGTGCTGACCTC
* *
90433287 TCAATGGTCGACACCAGACTCAGTATTTAAAAAAA-AAATTTTGGTGCTGACTTC
1 TCAATGGCCG-CACCAGACTCAGTATTTAAAAAAATAAATTTTGGTGCTGACCTC
*
90433341 TCAATGGCCAGCACCAGACTCAATATTT
1 TCAATGGCC-GCACCAGACTCAGTATTT
90433369 TAAATTTTTT
Statistics
Matches: 70, Mismatches: 10, Indels: 7
0.80 0.11 0.08
Matches are distributed among these distances:
54 37 0.53
55 1 0.01
56 1 0.01
57 31 0.44
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.32
Consensus pattern (54 bp):
TCAATGGCCGCACCAGACTCAGTATTTAAAAAAATAAATTTTGGTGCTGACCTC
Found at i:90433604 original size:113 final size:117
Alignment explanation
Indices: 90433485--90433760 Score: 327
Period size: 112 Copynumber: 2.4 Consensus size: 117
90433475 TTTCAAAAAG
* * * *
90433485 ATTTTTTTTTTAAAATACTGGTAGTCTAGTGCCGGCCATTGATAGGCCAAAACTAAAA-AAAAAA
1 ATTTTTTTTTTAAAATACTGGTAGTCTGGTGCTGGCCATTGACAGGCCAAAACCAAAATAAAAAA
* *
90433549 AGAAAAATTT-AAATATTGAGTCTGGTGCCCG-CCATTGACAGGCCAACA-C-A
66 A-AAAAATTTAAAATATTGAGTCTAGTG-CCGACAATTGACAGGCCAACACCAA
* * * * *
90433599 A-TTTTTTTTT-AAATGCTGGTAGTCTGGTGCTGACCATTGACAGGCCAAAACCAAAATATATAT
1 ATTTTTTTTTTAAAATACTGGTAGTCTGGTGCTGGCCATTGACAGGCCAAAACCAAAATAAAAAA
* * * *
90433662 ATATATTTTAAAATATTGAGTCTAGTGCCGACAATTGACAGGCCAGCACCAA
66 AAAAAATTTAAAATATTGAGTCTAGTGCCGACAATTGACAGGCCAACACCAA
*
90433714 ATTTTTTTTTTAAAATACT-G-AGTCTGGTGCTAGCCATTGACAGGCCA
1 ATTTTTTTTTTAAAATACTGGTAGTCTGGTGCTGGCCATTGACAGGCCA
90433761 GCACAAAAAA
Statistics
Matches: 137, Mismatches: 18, Indels: 13
0.82 0.11 0.08
Matches are distributed among these distances:
112 48 0.35
113 44 0.32
114 2 0.01
115 27 0.20
116 10 0.07
117 6 0.04
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (117 bp):
ATTTTTTTTTTAAAATACTGGTAGTCTGGTGCTGGCCATTGACAGGCCAAAACCAAAATAAAAAA
AAAAAATTTAAAATATTGAGTCTAGTGCCGACAATTGACAGGCCAACACCAA
Found at i:90433713 original size:61 final size:58
Alignment explanation
Indices: 90433601--90433829 Score: 209
Period size: 59 Copynumber: 3.9 Consensus size: 58
90433591 CCAACACAAT
* * **
90433601 TTTTTTTTAAATGCTGGTAGTCTGGTGCTGA-CCATTGACAGGCCAAAACCAAAATATATA
1 TTTTTTTAAAATACT-G-AGTCTGGTGC-GAGCCATTGACAGGCCAGCACCAAAATATATA
* * *
90433661 TATATATTTTAAAATATTGAGTCTAGTGCCGA-CAATTGACAGGCCAGCACC-AAAT-T-T-
1 T-T-T-TTTTAAAATACTGAGTCTGGTG-CGAGCCATTGACAGGCCAGCACCAAAATATATA
* * * * *
90433718 TTTTTTTAAAATACTGAGTCTGGTGCTAGCCATTGACAGGCCAGCACAAAAAAAAGATT
1 TTTTTTTAAAATACTGAGTCTGGTGCGAGCCATTGACAGGCCAGCAC-CAAAATATATA
* * *
90433777 TTTTTTTTAAATACTAAGTCTGGTGCTAGCCATTGACAGGCCAGCACCAAAAT
1 TTTTTTTAAAATACTGAGTCTGGTGCGAGCCATTGACAGGCCAGCACCAAAAT
90433830 TTTTCTTTTA
Statistics
Matches: 141, Mismatches: 18, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
53 2 0.01
54 37 0.26
55 1 0.01
56 4 0.03
57 1 0.01
58 6 0.04
59 46 0.33
60 5 0.04
61 27 0.19
62 3 0.02
63 9 0.06
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (58 bp):
TTTTTTTAAAATACTGAGTCTGGTGCGAGCCATTGACAGGCCAGCACCAAAATATATA
Found at i:90433753 original size:54 final size:53
Alignment explanation
Indices: 90433556--90433846 Score: 241
Period size: 54 Copynumber: 5.2 Consensus size: 53
90433546 AAAAGAAAAA
* ** *
90433556 TTTAAATATTGAGTCTGGTGCCCGCCATTGACAGGCCAACA-C-AA-TTTTTT
1 TTTAAATACTGAGTCTGGTGCTAGCCATTGACAGGCCAGCACCAAATTTTTTT
* **
90433606 TTTAAATGCTGGTAGTCTGGTGCT-GACCATTGACAGGCCAAAACCAAAATATATATATATAT
1 TTTAAATACT-G-AGTCTGGTGCTAG-CCATTGACAGGCCAGCACC-AAAT-T-T-T-T-T-T
* * * *
90433668 TTTAAAATATTGAGTCTAGTGC-CGACAATTGACAGGCCAGCACCAAATTTTTTT
1 TTT-AAATACTGAGTCTGGTGCTAG-CCATTGACAGGCCAGCACCAAATTTTTTT
*
90433722 TTTAAAATACTGAGTCTGGTGCTAGCCATTGACAGGCCAGCACAAAAAAAAGATTTTTTT
1 TTT-AAATACTGAGTCTGGTGCTAGCCATTGACAGGCCAGCAC-----CAA-ATTTTTTT
* *
90433782 TTTAAATACTAAGTCTGGTGCTAGCCATTGACAGGCCAGCACCAAAATTTTTCT
1 TTTAAATACTGAGTCTGGTGCTAGCCATTGACAGGCCAGCACC-AAATTTTTTT
90433836 TTTAAATACTG
1 TTTAAATACTG
90433847 GATTTTTGTA
Statistics
Matches: 199, Mismatches: 19, Indels: 42
0.77 0.07 0.16
Matches are distributed among these distances:
50 8 0.04
51 2 0.01
52 26 0.13
53 1 0.01
54 55 0.28
55 6 0.03
56 1 0.01
57 2 0.01
58 2 0.01
59 42 0.21
60 16 0.08
61 28 0.14
62 5 0.03
63 5 0.03
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (53 bp):
TTTAAATACTGAGTCTGGTGCTAGCCATTGACAGGCCAGCACCAAATTTTTTT
Found at i:90433789 original size:113 final size:115
Alignment explanation
Indices: 90433485--90433846 Score: 348
Period size: 113 Copynumber: 3.2 Consensus size: 115
90433475 TTTCAAAAAG
* * * * * *
90433485 ATTTTTTTTTTAAAATACTGGTAGTCTAGTGCCGGCCATTGATAGGCCAAAACTAAAAAAAA-AA
1 ATTTTTTTTTT-AAATACT-GTAGTCTGGTGCTGACCATTGACAGGCCAAAACCAAAAAAAAGAT
* * ** *
90433549 AGAAAAATTTAAATATTGAGTCTGGTGCCCG-CCATTGACAGGCCAACA-C-A
64 ATATATTTTTAAATATTGAGTCTGGTG-CCGACCATTGACAGGCCAGCACCAA
* * * *
90433599 A-TTTTTTTTTAAATGCTGGTAGTCTGGTGCTGACCATTGACAGGCCAAAACCAAAATATATATA
1 ATTTTTTTTTTAAATACT-GTAGTCTGGTGCTGACCATTGACAGGCCAAAACCAAAAAAAAGATA
* * *
90433663 TATATTTTAAAATATTGAGTCTAGTGCCGACAATTGACAGGCCAGCACCAA
65 TATATTTTTAAATATTGAGTCTGGTGCCGACCATTGACAGGCCAGCACCAA
**
90433714 ATTTTTTTTTTAAAATACTG-AGTCTGGTGCT-AGCCATTGACAGGCCAGCA-CAAAAAAAAGAT
1 ATTTTTTTTTT-AAATACTGTAGTCTGGTGCTGA-CCATTGACAGGCCAAAACCAAAAAAAAGAT
* * * * *
90433776 -TTTTTTTTTAAATACTAAGTCTGGTG-CTAGCCATTGACAGGCCAGCACCAAA
64 ATATATTTTTAAATATTGAGTCTGGTGCCGA-CCATTGACAGGCCAGCACC-AA
*
90433828 ATTTTTCTTTTAAATACTG
1 ATTTTTTTTTTAAATACTG
90433847 GATTTTTGTA
Statistics
Matches: 207, Mismatches: 32, Indels: 19
0.80 0.12 0.07
Matches are distributed among these distances:
112 47 0.23
113 92 0.44
114 24 0.12
115 28 0.14
116 10 0.05
117 6 0.03
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (115 bp):
ATTTTTTTTTTAAATACTGTAGTCTGGTGCTGACCATTGACAGGCCAAAACCAAAAAAAAGATAT
ATATTTTTAAATATTGAGTCTGGTGCCGACCATTGACAGGCCAGCACCAA
Found at i:90438304 original size:25 final size:26
Alignment explanation
Indices: 90438271--90438320 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
90438261 CTCCGAGCTA
90438271 AAATACGATAAGCTC-TCATGAGTTGC
1 AAATACGATAAGCTCAT-ATGAGTTGC
90438297 AAAT-CGATAAGCTCATATGAGTTG
1 AAATACGATAAGCTCATATGAGTTG
90438321 TGGTGGGTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (26 bp):
AAATACGATAAGCTCATATGAGTTGC
Found at i:90440133 original size:2 final size:2
Alignment explanation
Indices: 90440128--90440154 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
90440118 CATATATATA
90440128 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
90440155 CATTCATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:90451105 original size:18 final size:19
Alignment explanation
Indices: 90451056--90451106 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
90451046 TATAAAAATA
90451056 ATTATATT-AATTATATAT
1 ATTATATTAAATTATATAT
* *
90451074 ATTAAATAATAATTATATAT
1 ATTATATTA-AATTATATAT
90451094 -TTATATTAAATTA
1 ATTATATTAAATTA
90451107 CTAGTCCAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 11 0.41
19 6 0.22
20 10 0.37
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTATATTAAATTATATAT
Found at i:90451106 original size:29 final size:28
Alignment explanation
Indices: 90451048--90451106 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
90451038 TATTATGTTA
*
90451048 TAAAAATAATTATATTAATTATATATAT
1 TAAAAATAATTATATTAATTATATAAAT
*
90451076 TAAATAATAATTATA-TATTTATATTAAAT
1 TAAA-AATAATTATATTAATTATA-TAAAT
90451105 TA
1 TA
90451107 CTAGTCCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
TAAAAATAATTATATTAATTATATAAAT
Found at i:90454426 original size:39 final size:39
Alignment explanation
Indices: 90454372--90454628 Score: 390
Period size: 39 Copynumber: 6.5 Consensus size: 39
90454362 TAATGAAGAA
* *
90454372 TTATATCAGGGCTAAGTCCGGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
90454411 TTATATCCGGGCTAAGTCTCGAAGGCATTCGTGCTAGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
90454450 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
90454489 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
90454528 TTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
90454567 TTATATCCGGGCTAAAGTCCCGTAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
*
90454606 TTATATTCGGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
90454629 CATATTTTGT
Statistics
Matches: 202, Mismatches: 14, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
39 181 0.90
40 21 0.10
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:90460138 original size:40 final size:40
Alignment explanation
Indices: 90460094--90460314 Score: 283
Period size: 40 Copynumber: 5.6 Consensus size: 40
90460084 GCTCCTCGTT
* * *
90460094 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
90460134 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
90460174 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
90460214 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
90460253 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
90460294 C-AA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
90460315 AGACAGCATT
Statistics
Matches: 162, Mismatches: 13, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.01
39 47 0.29
40 104 0.64
41 9 0.06
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:90460272 original size:79 final size:80
Alignment explanation
Indices: 90460094--90460314 Score: 283
Period size: 79 Copynumber: 2.8 Consensus size: 80
90460084 GCTCCTCGTT
* * * *
90460094 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGTACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
90460158 GATTTAGTAACTCGCA
65 GAATTAGTAACTCGCA
90460174 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
90460238 AATTAGTATCTCGCA
66 AATTAGTAACTCGCA
* * *
90460253 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCAC-AA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCC
90460314 C
63 C
90460315 AGACAGCATT
Statistics
Matches: 127, Mismatches: 9, Indels: 11
0.86 0.06 0.07
Matches are distributed among these distances:
78 12 0.09
79 58 0.46
80 55 0.43
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:90466110 original size:30 final size:30
Alignment explanation
Indices: 90466070--90466186 Score: 112
Period size: 30 Copynumber: 3.9 Consensus size: 30
90466060 CAAAAAATAA
*
90466070 AAATTGTATTTTGACCCCTAAACTTT-TTCT
1 AAATTTTATTTTGACCCCTAAACTTTCTT-T
*
90466100 AAATTTTATTTTGACCCTTAAACTTTCTTT
1 AAATTTTATTTTGACCCCTAAACTTTCTTT
* * * * *
90466130 AAATTTCACTTAGGCCCCTAAACTTTCCTT
1 AAATTTTATTTTGACCCCTAAACTTTCTTT
** * *
90466160 AAATTGCATTTT-AACCCTAAATTTTCT
1 AAATTTTATTTTGACCCCTAAACTTTCT
90466187 AAAAATTACA
Statistics
Matches: 71, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
29 11 0.15
30 58 0.82
31 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.05, T:0.45
Consensus pattern (30 bp):
AAATTTTATTTTGACCCCTAAACTTTCTTT
Found at i:90466431 original size:16 final size:17
Alignment explanation
Indices: 90466412--90466452 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
90466402 AAAAAGAGCA
90466412 AAAAAAAAAATT-CAGC
1 AAAAAAAAAATTCCAGC
**
90466428 -AAAAAAATTTTCCAGC
1 AAAAAAAAAATTCCAGC
90466444 AAAAAAAAA
1 AAAAAAAAA
90466453 GAAAAAAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
15 9 0.45
16 4 0.20
17 7 0.35
ACGTcount: A:0.68, C:0.12, G:0.05, T:0.15
Consensus pattern (17 bp):
AAAAAAAAAATTCCAGC
Found at i:90466940 original size:31 final size:34
Alignment explanation
Indices: 90466872--90466944 Score: 85
Period size: 36 Copynumber: 2.1 Consensus size: 34
90466862 GGGTGATATG
* *
90466872 TTAAGTTAGTGGGTTGGGTTGGTTGTGTTGGGTTTA
1 TTAAGTTAGTGAGTTGGGTTGGTTGTGTT--GATTA
*
90466908 TTAAGTTAGTGAGTTGGGTTGGTT-TGTATTATTA
1 TTAAGTTAGTGAGTTGGGTTGGTTGTGT-TGATTA
90466942 TTA
1 TTA
90466945 TTATTATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
34 6 0.18
35 3 0.09
36 24 0.73
ACGTcount: A:0.16, C:0.00, G:0.34, T:0.49
Consensus pattern (34 bp):
TTAAGTTAGTGAGTTGGGTTGGTTGTGTTGATTA
Found at i:90466942 original size:3 final size:3
Alignment explanation
Indices: 90466934--90466973 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
90466924 GGTTGGTTTG
90466934 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
90466974 TTAAATTAGT
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:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:90468225 original size:29 final size:29
Alignment explanation
Indices: 90468191--90468248 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
90468181 ATGGAAGAGT
90468191 CAATTATACAAACAACCGAGAGGAATGCC
1 CAATTATACAAACAACCGAGAGGAATGCC
*
90468220 CAATTATACAATCAACCGAGAGGAATGCC
1 CAATTATACAAACAACCGAGAGGAATGCC
90468249 GCGGTTCGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.43, C:0.24, G:0.17, T:0.16
Consensus pattern (29 bp):
CAATTATACAAACAACCGAGAGGAATGCC
Found at i:90470435 original size:4 final size:4
Alignment explanation
Indices: 90470428--90470455 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
90470418 GACATTTATG
90470428 CATT CATT CATT CATT CATT CATT CATT
1 CATT CATT CATT CATT CATT CATT CATT
90470456 GCATCGCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (4 bp):
CATT
Found at i:90472096 original size:227 final size:227
Alignment explanation
Indices: 90471701--90472113 Score: 781
Period size: 227 Copynumber: 1.8 Consensus size: 227
90471691 GCTTGTTGGG
* * *
90471701 TATGGAGTTGAATTGAAATGTTTTAGGCAAACATGTTATTTTACGTATCTGAATTGTGGTATTTT
1 TATGGAGTTGAATTGAAATGTTTCAGGCAAACATGTTATTTTACGTATCGGAATTGTCGTATTTT
90471766 ATAAAGATATGATCTAGTTTTAAATATGAATGCTTGATGATTAAGCTGAAGATATTTTGTAAGAT
66 ATAAAGATATGATCTAGTTTTAAATATGAATGCTTGATGATTAAGCTGAAGATATTTTGTAAGAT
90471831 GATAATCCTGGTATAAATATATAAGTGGTACTATAATAAACAAGGTAAAATAAGTAAGGACTACT
131 GATAATCCTGGTATAAATATATAAGTGGTACTATAATAAACAAGGTAAAATAAGTAAGGACTACT
90471896 TGGTCGCTAATGGAATATTAAAGAATAACAGA
196 TGGTCGCTAATGGAATATTAAAGAATAACAGA
90471928 TATGGAGTTGAATTGAAATGTTTCAGGCAAACATGTTATTTTACGTATCGGAATTGTCGTATTTT
1 TATGGAGTTGAATTGAAATGTTTCAGGCAAACATGTTATTTTACGTATCGGAATTGTCGTATTTT
90471993 ATAAAGATATGATCTAGTTTTAAATATGAATGCTTGATGATTAAGCTGAAGATATTTTGTAAGAT
66 ATAAAGATATGATCTAGTTTTAAATATGAATGCTTGATGATTAAGCTGAAGATATTTTGTAAGAT
* *
90472058 GATAATCTTGGTATAAATATATAAGTGGTACTATAATAAACAAGGTAAAATGAGTA
131 GATAATCCTGGTATAAATATATAAGTGGTACTATAATAAACAAGGTAAAATAAGTA
90472114 TGAGAGACAC
Statistics
Matches: 181, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
227 181 1.00
ACGTcount: A:0.38, C:0.07, G:0.19, T:0.36
Consensus pattern (227 bp):
TATGGAGTTGAATTGAAATGTTTCAGGCAAACATGTTATTTTACGTATCGGAATTGTCGTATTTT
ATAAAGATATGATCTAGTTTTAAATATGAATGCTTGATGATTAAGCTGAAGATATTTTGTAAGAT
GATAATCCTGGTATAAATATATAAGTGGTACTATAATAAACAAGGTAAAATAAGTAAGGACTACT
TGGTCGCTAATGGAATATTAAAGAATAACAGA
Found at i:90474597 original size:11 final size:11
Alignment explanation
Indices: 90474581--90474609 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
90474571 TAGATCCATA
90474581 ATCACAAGGTC
1 ATCACAAGGTC
90474592 ATCACAAGGTC
1 ATCACAAGGTC
90474603 ATCACAA
1 ATCACAA
90474610 AATCATTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.41, C:0.28, G:0.14, T:0.17
Consensus pattern (11 bp):
ATCACAAGGTC
Found at i:90474892 original size:48 final size:48
Alignment explanation
Indices: 90474821--90475006 Score: 162
Period size: 48 Copynumber: 3.9 Consensus size: 48
90474811 AGGGTAAACC
* * * * *
90474821 GCCGATGCCATGTCCCAAACATGGTCTTACATTGGCTCACATGTCGAG
1 GCCGATGTCATGTCCTAGACATGGTCTTACACTGGCTCACATCTCGAG
* * * *
90474869 GCCGATGTCATGTCCTAGACATGGTCTTACACTAGCTCTCGTCTCGAT
1 GCCGATGTCATGTCCTAGACATGGTCTTACACTGGCTCACATCTCGAG
* * * *
90474917 GCCGATGTCATGT-TTCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATGTCATGTCCT-AGACATGGTCTTACACTGGCTCACAT-CTCGAG
* * * * *
90474965 GCTGATGCCATGTTCC-AAACATGGTCTTACACTAGCACACAT
1 GCCGATGTCATG-TCCTAGACATGGTCTTACACTGGCTCACAT
90475007 ATCACCCAAA
Statistics
Matches: 112, Mismatches: 22, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
47 1 0.01
48 109 0.97
49 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (48 bp):
GCCGATGTCATGTCCTAGACATGGTCTTACACTGGCTCACATCTCGAG
Found at i:90474987 original size:96 final size:96
Alignment explanation
Indices: 90474821--90475000 Score: 229
Period size: 96 Copynumber: 1.9 Consensus size: 96
90474811 AGGGTAAACC
* * *
90474821 GCCGATGCCATGTCCCAAACATGGTCTTACATTGGCTCACATGTCGAGGCCGATGTCATGTCCTA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCTA
*
90474886 GACATGGTCTTACACTAGCTCTCGTCTCGAT
66 AACATGGTCTTACACTAGCTCTCGTCTCGAT
* ** * * * *
90474917 GCCGATGTCATGTTTCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCTGATGCCATGTTCC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACAT-ATCGAGGCCGATGCCATG-TCC
90474981 -AAACATGGTCTTACACTAGC
64 TAAACATGGTCTTACACTAGC
90475001 ACACATATCA
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
96 67 0.94
97 4 0.06
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCTA
AACATGGTCTTACACTAGCTCTCGTCTCGAT
Found at i:90475496 original size:70 final size:70
Alignment explanation
Indices: 90475395--90475766 Score: 602
Period size: 70 Copynumber: 5.3 Consensus size: 70
90475385 TTCCTTGATC
* * *
90475395 TATAACAACA-CATTTTAATTAGCTAAACACCATGAATTTGTCCTAATTTGGACAGCCAATAATT
1 TATAACAGCAGCATATTAATTAGCTAAGCACCATGAATTTGTCCTAATTTGGACAGCCAATAATT
*
90475459 TACAA
66 TACAG
* * *
90475464 TATTACAGCAGCATATTAGTTAGCTAAGCACCATGAATTTTTCCTAATTTGGACAGCCAATAATT
1 TATAACAGCAGCATATTAATTAGCTAAGCACCATGAATTTGTCCTAATTTGGACAGCCAATAATT
*
90475529 TAAAG
66 TACAG
*
90475534 TATAACAGCAGAATATTAATTAGCTAAGCACCATGAATTTGTCCTAATTTGGACAGCCAATAATT
1 TATAACAGCAGCATATTAATTAGCTAAGCACCATGAATTTGTCCTAATTTGGACAGCCAATAATT
90475599 TACAG
66 TACAG
* * *
90475604 TATAACAGCAGTATATTAATTAGCTAAGCACCATGAATTTGTCCTAATTTTGACAGCTAATAATT
1 TATAACAGCAGCATATTAATTAGCTAAGCACCATGAATTTGTCCTAATTTGGACAGCCAATAATT
*
90475669 TATAG
66 TACAG
* *
90475674 TATAACAGCAGCATATTCATTAGCTAAGCACCATGAATTTGTCCAAATTTGGACAGCCAATAATT
1 TATAACAGCAGCATATTAATTAGCTAAGCACCATGAATTTGTCCTAATTTGGACAGCCAATAATT
90475739 TACAG
66 TACAG
90475744 TATAACAGCAGCATATTAATTAG
1 TATAACAGCAGCATATTAATTAG
90475767 TAATAAACTA
Statistics
Matches: 278, Mismatches: 24, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
69 8 0.03
70 270 0.97
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (70 bp):
TATAACAGCAGCATATTAATTAGCTAAGCACCATGAATTTGTCCTAATTTGGACAGCCAATAATT
TACAG
Found at i:90477624 original size:16 final size:17
Alignment explanation
Indices: 90477603--90477637 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
90477593 ATTGTTCAAA
*
90477603 TTATTTAAGA-ACAATT
1 TTATTTAAAACACAATT
90477619 TTATTTAAAACACAATT
1 TTATTTAAAACACAATT
90477636 TT
1 TT
90477638 GAAGCCCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.46
Consensus pattern (17 bp):
TTATTTAAAACACAATT
Found at i:90478008 original size:38 final size:38
Alignment explanation
Indices: 90477957--90478032 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
90477947 GCAAAGTAAG
*
90477957 TACTAAAACGAAAGTCCAAATCCAAAAGAAAACTAGCC
1 TACTAAAACGAAAGTCAAAATCCAAAAGAAAACTAGCC
90477995 TACTAAAACGAAAGTCAAAATCCAAAAGAAAACTAGCC
1 TACTAAAACGAAAGTCAAAATCCAAAAGAAAACTAGCC
90478033 AAAAAGTTCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.54, C:0.22, G:0.11, T:0.13
Consensus pattern (38 bp):
TACTAAAACGAAAGTCAAAATCCAAAAGAAAACTAGCC
Found at i:90494418 original size:29 final size:29
Alignment explanation
Indices: 90494376--90494449 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
90494366 GTTGTGAGAT
* *
90494376 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
90494405 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
90494434 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
90494450 CGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:90500288 original size:28 final size:28
Alignment explanation
Indices: 90500250--90500356 Score: 160
Period size: 28 Copynumber: 3.8 Consensus size: 28
90500240 GAATCATTCG
* *
90500250 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
90500278 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
90500306 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
90500334 ATATTTCGTACACTAAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
90500357 ATTTGATTGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:90507529 original size:13 final size:13
Alignment explanation
Indices: 90507511--90507557 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 13
90507501 GTTTCGGCTA
90507511 GAAGAAAAAAAAG
1 GAAGAAAAAAAAG
90507524 GAAGAAAAAAAATG
1 GAAGAAAAAAAA-G
* *
90507538 GAGGAAAAAGAGAG
1 GAAGAAAAA-AAAG
90507552 GAAGAA
1 GAAGAA
90507558 GAAATCGACA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 12 0.41
14 15 0.52
15 2 0.07
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (13 bp):
GAAGAAAAAAAAG
Found at i:90508893 original size:44 final size:45
Alignment explanation
Indices: 90508709--90508894 Score: 193
Period size: 44 Copynumber: 4.2 Consensus size: 45
90508699 AAGAGGAAGA
** *
90508709 ATTGGTGGCTTCGTCCACAACCTACATGGCAACTTGTCTGCAAA-
1 ATTGGTGGCTTTATCCACAACCTACATGGCAACTTGTCTACAAAT
* * * * *
90508753 ATTGGTTG-TTTATCCGCAACCTACATGGTAGCTTGTCTTCAAAT
1 ATTGGTGGCTTTATCCACAACCTACATGGCAACTTGTCTACAAAT
* * *
90508797 ATTGGTGG-TTTATCCACAACTTACATGGAAAC-TGTCTACGAAT
1 ATTGGTGGCTTTATCCACAACCTACATGGCAACTTGTCTACAAAT
* * * * *
90508840 ATTGTTGGCTTTGTCCATAACCTACATGGCAGCTTGTCTACGAAT
1 ATTGGTGGCTTTATCCACAACCTACATGGCAACTTGTCTACAAAT
90508885 -TTGGTGGCTT
1 ATTGGTGGCTT
90508895 CAACCACATA
Statistics
Matches: 118, Mismatches: 21, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
43 45 0.38
44 62 0.53
45 11 0.09
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (45 bp):
ATTGGTGGCTTTATCCACAACCTACATGGCAACTTGTCTACAAAT
Found at i:90511129 original size:200 final size:200
Alignment explanation
Indices: 90510786--90511188 Score: 779
Period size: 200 Copynumber: 2.0 Consensus size: 200
90510776 ATCATGCTCT
90510786 TTGTATGTGGCTATTGAGCCGAAATTTGTAAGTGTGATAAGTGTTTTGTGTTTGAGCTTTGGTAA
1 TTGTATGTGGCTATTGAGCCGAAATTTGTAAGTGTGATAAGTGTTTTGTGTTTGAGCTTTGGTAA
90510851 TGAAAATGAAATATGGATGTGTCATGATTTATTGATATATGTGCATGGTTATTCGAATGATATCC
66 TGAAAATGAAATATGGATGTGTCATGATTTATTGATATATGTGCATGGTTATTCGAATGATATCC
*
90510916 GGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACGAAGATCCGAAGGCATTCGT
131 GGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACGAAGACCCGAAGGCATTCGT
90510981 GCGAG
196 GCGAG
90510986 TTGTATGTGGCTATTGAGCCGAAATTTGTAAGTGTGATAAGTGTTTTGTGTTTGAGCTTTGGTAA
1 TTGTATGTGGCTATTGAGCCGAAATTTGTAAGTGTGATAAGTGTTTTGTGTTTGAGCTTTGGTAA
90511051 TGAAAATGAAATATGGATGTGTCATGATTTATTGATATATGTGCATGGTTATTCGAATGATATCC
66 TGAAAATGAAATATGGATGTGTCATGATTTATTGATATATGTGCATGGTTATTCGAATGATATCC
*
90511116 GGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGACCCGAAGGCATTCGT
131 GGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACGAAGACCCGAAGGCATTCGT
*
90511181 GTGAG
196 GCGAG
90511186 TTG
1 TTG
90511189 CTATATCCGG
Statistics
Matches: 200, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
200 200 1.00
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (200 bp):
TTGTATGTGGCTATTGAGCCGAAATTTGTAAGTGTGATAAGTGTTTTGTGTTTGAGCTTTGGTAA
TGAAAATGAAATATGGATGTGTCATGATTTATTGATATATGTGCATGGTTATTCGAATGATATCC
GGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACGAAGACCCGAAGGCATTCGT
GCGAG
Found at i:90511204 original size:40 final size:40
Alignment explanation
Indices: 90511110--90511334 Score: 292
Period size: 40 Copynumber: 5.6 Consensus size: 40
90511100 TATTCGAATG
* *
90511110 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* * *
90511151 ATAACCGGACTAAGACCCGAAGGCATTCGTG-TGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT-AG-TGACT
* *
90511191 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
90511231 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
90511271 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
90511311 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
90511335 CTTGTGCAAG
Statistics
Matches: 161, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 130 0.81
41 30 0.19
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:90511290 original size:80 final size:80
Alignment explanation
Indices: 90511110--90511370 Score: 305
Period size: 80 Copynumber: 3.3 Consensus size: 80
90511100 TATTCGAATG
* * *
90511110 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
90511175 ATTCGTGTGAGTTGCT
65 ATTCGTGTGAGTCGCT
* * * *
90511191 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
*
90511256 TTTGTGCT-AG-CGACT
66 TTCGTG-TGAGTCG-CT
* * * *
90511271 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
** * *
90511336 TT-GTGCAAGTAGTT
66 TTCGTGTGAGTCGCT
*
90511350 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
90511371 ATTTCTTGAG
Statistics
Matches: 155, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
78 14 0.09
79 13 0.08
80 95 0.61
81 33 0.21
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGTGAGTCGCT
Found at i:90511324 original size:120 final size:120
Alignment explanation
Indices: 90511110--90511370 Score: 325
Period size: 120 Copynumber: 2.2 Consensus size: 120
90511100 TATTCGAATG
* * *
90511110 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGACCCGAAGGC
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGACCCGAAGGC
* * * * *
90511175 ATTCGTGTGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGA-TT
66 ATTCATGTGAGTTGCCACATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAG-GAGTT
* * * *
90511231 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAGTCCCGAAGGC
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGACCCGAAGGC
* *
90511295 ATTTATGCT-AG-TGACCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGTAGTT
66 ATTCATG-TGAGTTG-CCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
90511350 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAATCCCGAAG
90511371 ATTTCTTGAG
Statistics
Matches: 122, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
118 15 0.12
119 18 0.15
120 57 0.47
121 32 0.26
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (120 bp):
ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGACCCGAAGGC
ATTCATGTGAGTTGCCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
Found at i:90518396 original size:46 final size:46
Alignment explanation
Indices: 90518329--90518500 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
90518319 ACCCGCCCCC
* *
90518329 AAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCAT
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
* * *
90518375 AAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTT-ACAT--TT
1 AAGTGAACTCGGACTCAACTCAACGAGTTC-G--GAC-A-TTCGCATCCAT
* *
90518423 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
*
90518468 AAGTGAACTCGGACTAAACTCAACGAGTTCGGA
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGA
90518501 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 58 0.55
47 27 0.26
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (46 bp):
AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
Found at i:90518440 original size:93 final size:93
Alignment explanation
Indices: 90518333--90518503 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
90518323 GCCCCCAAGT
* *
90518333 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTAAACTCAA
90518398 CGAGTTCAGATGCCTAGTTACATTTCAC
66 CGAGTTCAGATGCCTAGTTACATTTCAC
*
90518426 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTAAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTAAACTCAA
*
90518491 CGAGTTCGGATGC
66 CGAGTTCAGATGC
90518504 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTAAACTCAA
CGAGTTCAGATGCCTAGTTACATTTCAC
Found at i:90520929 original size:30 final size:30
Alignment explanation
Indices: 90520885--90520953 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
90520875 CAAAGATAAT
*
90520885 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCAGAATAAAGAAATCCAAGATA
* * *
90520914 GAGAAACCCAGAATAAAGAGATCCAGGATA
1 AAGAAACCCAGAATAAAGAAATCCAAGATA
90520944 AAGAAACCCA
1 AAGAAACCCA
90520954 AGATACGATA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 7 0.21
30 27 0.79
ACGTcount: A:0.57, C:0.17, G:0.17, T:0.09
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATA
Found at i:90520958 original size:15 final size:15
Alignment explanation
Indices: 90520896--90520958 Score: 65
Period size: 15 Copynumber: 4.2 Consensus size: 15
90520886 AGAAAACCGA
*
90520896 ATAAAGAAATCCAAG
1 ATAAAGAAACCCAAG
*
90520911 ATAGAGAAACCC-AG
1 ATAAAGAAACCCAAG
* * *
90520925 AATAAAGAGATCCAGG
1 -ATAAAGAAACCCAAG
90520941 ATAAAGAAACCCAAG
1 ATAAAGAAACCCAAG
90520956 ATA
1 ATA
90520959 CGATATTATG
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
14 2 0.05
15 34 0.92
16 1 0.03
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.11
Consensus pattern (15 bp):
ATAAAGAAACCCAAG
Found at i:90533374 original size:21 final size:20
Alignment explanation
Indices: 90533344--90533386 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
90533334 TAATATTGGT
* *
90533344 AAGTGGATTAGAAAATAAAAG
1 AAGTGAATTA-AAAAGAAAAG
90533365 AAGTGAATTAAAAAGAAAAG
1 AAGTGAATTAAAAAGAAAAG
90533385 AA
1 AA
90533387 AGGATGAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.21, T:0.16
Consensus pattern (20 bp):
AAGTGAATTAAAAAGAAAAG
Found at i:90534159 original size:13 final size:13
Alignment explanation
Indices: 90534141--90534165 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90534131 TAATGGTATA
90534141 TTGAATCCATGAC
1 TTGAATCCATGAC
90534154 TTGAATCCATGA
1 TTGAATCCATGA
90534166 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:90534748 original size:27 final size:26
Alignment explanation
Indices: 90534718--90534839 Score: 93
Period size: 27 Copynumber: 4.5 Consensus size: 26
90534708 AAATTGTACA
*
90534718 GCACTAAGTGTGCGATTTAACTATGTT
1 GCACTAAGTGTGCGA-TTAACTATGAT
** *
90534745 GCACTAAGTGTGCGAAAAGAATATGAT
1 GCACTAAGTGTGCGATTA-ACTATGAT
* * **
90534772 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTAACTATGAT
* *
90534799 GCACTAAGTGTGCGAGTTGATTAT-AT
1 GCACTAAGTGTGCGA-TTAACTATGAT
*
90534825 AGCACTGAGTGTGCG
1 -GCACTAAGTGTGCG
90534840 GGCTCAATAT
Statistics
Matches: 75, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
26 2 0.03
27 72 0.96
28 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTAACTATGAT
Found at i:90534830 original size:54 final size:55
Alignment explanation
Indices: 90534717--90534839 Score: 142
Period size: 54 Copynumber: 2.3 Consensus size: 55
90534707 TAAATTGTAC
* * **
90534717 AGCACTAAGTGTGCGATTTAACTATGTTGCACTAAGTGTGCGAAAAGAATATGAT
1 AGCACTAAGTGTGCGAATTAACCATGCGGCACTAAGTGTGCGAAAAGAATATGAT
* *** *
90534772 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGAATTAACCATGCGGCACTAAGTGTGCGAAAAGAATATGAT
*
90534825 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
90534840 GGCTCAATAT
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
53 2 0.04
54 55 0.96
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAATTAACCATGCGGCACTAAGTGTGCGAAAAGAATATGAT
Found at i:90545155 original size:25 final size:26
Alignment explanation
Indices: 90545127--90545183 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
90545117 TATATAACAG
*
90545127 GAAGCTCACATAGAGCCAT-AATCAA
1 GAAGCTCACATAGAACCATAAATCAA
* **
90545152 GAAGTTCACATAGAACTTTAAATCAA
1 GAAGCTCACATAGAACCATAAATCAA
90545178 GAAGCT
1 GAAGCT
90545184 TACGAAGAGC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 15 0.58
26 11 0.42
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (26 bp):
GAAGCTCACATAGAACCATAAATCAA
Found at i:90548919 original size:15 final size:15
Alignment explanation
Indices: 90548894--90548935 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
90548884 ATATATATGT
*
90548894 AAATAAAAAATTATC
1 AAATAACAAATTATC
* *
90548909 CAATAACAAATAATC
1 AAATAACAAATTATC
90548924 AAATAACAAATT
1 AAATAACAAATT
90548936 TCATTCTCTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATAACAAATTATC
Found at i:90552444 original size:40 final size:40
Alignment explanation
Indices: 90552414--90552545 Score: 169
Period size: 40 Copynumber: 3.3 Consensus size: 40
90552404 GCTCCTCGTT
* *
90552414 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATATAGTAACTCGCA
* * *
90552454 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATATAGTAACTCGCA
* * *
90552494 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATA-TAGTAACTCGCA
90552533 CAAATGCCTTCGG
1 CAAATGCCTTCGG
90552546 ATCTTAGTCC
Statistics
Matches: 82, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
39 33 0.40
40 49 0.60
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATATAGTAACTCGCA
Found at i:90552558 original size:79 final size:82
Alignment explanation
Indices: 90552414--90552598 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 82
90552404 GCTCCTCGTT
* *
90552414 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
*
90552478 GAT-TTAATAAC-TCGCA
66 GATATT-ATAACTTAGCA
* **
90552494 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
90552556 GGATATTGTCACTTAGCA
65 GGATATTATAACTTAGCA
*
90552574 TAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
90552599 CATCATTCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 3 0.03
79 53 0.58
80 35 0.38
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
GATATTATAACTTAGCA
Found at i:90571068 original size:13 final size:13
Alignment explanation
Indices: 90571050--90571089 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
90571040 GCCCAACAGG
90571050 GACACGCCCATGT
1 GACACGCCCATGT
* *
90571063 GACACGACCGTGT
1 GACACGCCCATGT
*
90571076 GACACGCCCTTGT
1 GACACGCCCATGT
90571089 G
1 G
90571090 CAATTGCTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.20, C:0.35, G:0.28, T:0.17
Consensus pattern (13 bp):
GACACGCCCATGT
Found at i:90576234 original size:45 final size:44
Alignment explanation
Indices: 90576122--90576289 Score: 225
Period size: 44 Copynumber: 3.8 Consensus size: 44
90576112 TATGGTACTA
* *
90576122 ATCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAAATGAT
1 ATCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGAT
* *
90576166 ATCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT-ACT
1 ATCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGA-T
* *
90576210 ATTCTGGCCTTCGAACCTAGCAGGCTATAATGCCGGTGAAATGAT
1 A-TCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGAT
* *
90576255 ATTGGG-CTTCGAGCCTAGCAGGCGA-AATGCCGGTG
1 ATCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTG
90576290 GATGAATTCG
Statistics
Matches: 111, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
42 10 0.09
43 18 0.16
44 44 0.40
45 38 0.34
46 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (44 bp):
ATCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGAT
Found at i:90576318 original size:41 final size:42
Alignment explanation
Indices: 90576136--90576331 Score: 155
Period size: 45 Copynumber: 4.5 Consensus size: 42
90576126 GGCCTTTGAG
* * ** *
90576136 CCTAGCAGGCTATAATGCTGGTGAAATGATATCGGGCCTTTGAG
1 CCTAGCAGGCTA-AATGCCGGTGAAATGATATTGGG-CTTAAAA
* * **
90576180 CCTAGCAGGCTATAATGCCGGTGAGAT-ACTATTCTGGCCTTCGAA
1 CCTAGCAGGCTA-AATGCCGGTGAAATGA-TA-T-TGGGCTTAAAA
** *
90576225 CCTAGCAGGCTATAATGCCGGTGAAATGATATTGGGCTTCGAG
1 CCTAGCAGGCTA-AATGCCGGTGAAATGATATTGGGCTTAAAA
* * *
90576268 CCTAGCAGGCGAAATGCCGGTG-GATGA-ATTCGGGTTTAAAA
1 CCTAGCAGGCTAAATGCCGGTGAAATGATATT-GGGCTTAAAA
*
90576309 CCTAGCAGGCTAAATACCGGTGA
1 CCTAGCAGGCTAAATGCCGGTGA
90576332 TTTGATAAAA
Statistics
Matches: 129, Mismatches: 17, Indels: 14
0.81 0.11 0.09
Matches are distributed among these distances:
40 3 0.02
41 30 0.23
42 10 0.08
43 21 0.16
44 28 0.22
45 34 0.26
46 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (42 bp):
CCTAGCAGGCTAAATGCCGGTGAAATGATATTGGGCTTAAAA
Found at i:90583455 original size:25 final size:25
Alignment explanation
Indices: 90583400--90583466 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
90583390 ATTTTTTTCC
*
90583400 CAATTTTACCTTAGTAAAACTTTGA
1 CAATTTTACCCTAGTAAAACTTTGA
*
90583425 CAATTTTACCCTAGTAAAA-TATTGG
1 CAATTTTACCCTAGTAAAACT-TTGA
* *
90583450 CGATTTTACCCTGGTAA
1 CAATTTTACCCTAGTAA
90583467 TATTTTGAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
24 1 0.03
25 36 0.97
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (25 bp):
CAATTTTACCCTAGTAAAACTTTGA
Found at i:90583681 original size:16 final size:16
Alignment explanation
Indices: 90583660--90583698 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
90583650 GAACCTATAG
90583660 TCATTTCCAAATGATT
1 TCATTTCCAAATGATT
90583676 TCATTTCCAAATGATT
1 TCATTTCCAAATGATT
90583692 TCATTTC
1 TCATTTC
90583699 GGTGAAAACC
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:0.28, C:0.21, G:0.05, T:0.46
Consensus pattern (16 bp):
TCATTTCCAAATGATT
Found at i:90587828 original size:43 final size:43
Alignment explanation
Indices: 90587656--90587828 Score: 122
Period size: 43 Copynumber: 4.0 Consensus size: 43
90587646 AGCTCGTACA
* * * *
90587656 ATGCCAACATCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAAACGTGGTCTTACACGAAATCAAATATCG
*
90587699 ATTG-C-ACTGTCCCAAACAG-GGTCTTACACGAAATCAAATA-CA
1 A-TGCCAAC-GTCCCAAAC-GTGGTCTTACACGAAATCAAATATCG
* * * *** * *
90587741 ATGTCGATGTCCCAAACACAGTCTTACAAGTAAATCTCAA-ATCG
1 ATGCCAACGTCCCAAACGTGGTCTTACACG-AAATC-AAATATCG
* * *
90587785 ATGCCAACGTCTCAGACGTGGTCTTACACGAAATCACATATCG
1 ATGCCAACGTCCCAAACGTGGTCTTACACGAAATCAAATATCG
90587828 A
1 A
90587829 AAATCCTATG
Statistics
Matches: 98, Mismatches: 22, Indels: 20
0.70 0.16 0.14
Matches are distributed among these distances:
41 2 0.02
42 24 0.24
43 45 0.46
44 27 0.28
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAAACGTGGTCTTACACGAAATCAAATATCG
Found at i:90603541 original size:28 final size:28
Alignment explanation
Indices: 90603499--90603610 Score: 111
Period size: 28 Copynumber: 4.0 Consensus size: 28
90603489 CATGACTATA
* *
90603499 AATGTGATTTTGGCCTAGT-GGCCATATG
1 AATGTGA-TTGGGCCTAATGGGCCATATG
* *
90603527 AATGTGATTTGGGCCTAATGGGCCACATA
1 AATGTGA-TTGGGCCTAATGGGCCATATG
* *
90603556 AATGTGAATGGGCTTAATGGGCCATATGG
1 AATGTGATTGGGCCTAATGGGCCATAT-G
* *
90603585 AA-GAGATTGGGCCTAGTGGGCCATAT
1 AATGTGATTGGGCCTAATGGGCCATAT
90603611 ATATATATAG
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
28 54 0.77
29 16 0.23
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCATATG
Found at i:90604627 original size:17 final size:18
Alignment explanation
Indices: 90604594--90604627 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
90604584 TTTAAGGAAG
90604594 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
90604612 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
90604628 CTTCCATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:90608704 original size:50 final size:49
Alignment explanation
Indices: 90608640--90608875 Score: 244
Period size: 50 Copynumber: 4.7 Consensus size: 49
90608630 CTGGTATGCA
*
90608640 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGAACTCG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATC-GGAACTCG
* * * *
90608690 TAGTAGCCTGCACTTAGTACTAAACATGTGACCTAACCATCAGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCGGA-ACTCG
* * * * *
90608740 TAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAAGCTATCAGGTACTCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCT-AA-CAATC-GGAACTCG
* ** *
90608791 TAGTAGCCTACACTTAGTACTACACATGCAACCTAACAATCCGGTACAT-G
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAAT-CGGAAC-TCG
* *
90608841 TAGTAGCTTGCACTT-GTACTACACACGTGACCTAA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
90608876 AACCATTTTA
Statistics
Matches: 154, Mismatches: 25, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
49 20 0.13
50 94 0.61
51 38 0.25
52 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCGGAACTCG
Found at i:90608818 original size:101 final size:100
Alignment explanation
Indices: 90608640--90608875 Score: 296
Period size: 101 Copynumber: 2.4 Consensus size: 100
90608630 CTGGTATGCA
* * * * *
90608640 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGAACTCGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCAGGAACTCATAGTAGCCTACACTT
** *
90608705 AGTACTAAACATGTGACCTAACCATCAGATACACG
66 AGTACTAAACATGCAACCTAACAATCAGATACACG
* * *
90608740 TAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAAGCTATCAGGTACTCATAGTAGCCTACAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA-CAATCAGGAACTCATAGTAGCCTACAC
* * * *
90608804 TTAGTACTACACATGCAACCTAACAATCCGGTACATG
64 TTAGTACTAAACATGCAACCTAACAATCAGATACACG
*
90608841 TAGTAGCTTGCACTT-GTACTACACACGTGACCTAA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
90608876 AACCATTTTA
Statistics
Matches: 116, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
99 1 0.01
100 48 0.41
101 67 0.58
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (100 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCAGGAACTCATAGTAGCCTACACTT
AGTACTAAACATGCAACCTAACAATCAGATACACG
Found at i:90608916 original size:151 final size:151
Alignment explanation
Indices: 90608638--90608916 Score: 377
Period size: 151 Copynumber: 1.8 Consensus size: 151
90608628 CTCTGGTATG
* * *
90608638 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGAACTCGTAGTAGCCTGCAC
1 CATAGTAGCCTACACTTAGTACTACACATGCAACCTAACAATCCGGAACTCGTAGTAGCCTGCAC
* * * *
90608703 TTAGTACTAAACATGTGACCTAACCATCAGATACACGTAGTAGCCTGCACTTAGTACTACACACG
66 TTAGTACTAAACACGTGACCTAACCATCAGAAACACATAGTAGCCTGCACTTACTACTACACACG
90608768 TGATTGAAGCTATCAGGTACT
131 TGATTGAAGCTATCAGGTACT
* *
90608789 CATAGTAGCCTACACTTAGTACTACACATGCAACCTAACAATCCGGTACAT-GTAGTAGCTTGCA
1 CATAGTAGCCTACACTTAGTACTACACATGCAACCTAACAATCCGGAAC-TCGTAGTAGCCTGCA
* ***
90608853 CTT-GTACTACACACGTGACCTAAAACCATTTTAAACACATAGTAGCCTGCA-TATACTAC-ACA
65 CTTAGTACTAAACACGTGACCT--AACCATCAGAAACACATAGTAGCCTGCACT-TACTACTACA
90608915 CA
127 CA
90608917 TGTGTTCTCA
Statistics
Matches: 111, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
150 16 0.14
151 66 0.59
152 29 0.26
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (151 bp):
CATAGTAGCCTACACTTAGTACTACACATGCAACCTAACAATCCGGAACTCGTAGTAGCCTGCAC
TTAGTACTAAACACGTGACCTAACCATCAGAAACACATAGTAGCCTGCACTTACTACTACACACG
TGATTGAAGCTATCAGGTACT
Found at i:90613129 original size:62 final size:62
Alignment explanation
Indices: 90613018--90613137 Score: 159
Period size: 62 Copynumber: 1.9 Consensus size: 62
90613008 TGTCATACTA
* * * * *
90613018 AGCTATGGTCATAGACCTTAATCCCTATGTTTAATGTCCTAGTGGACTCCACTAGTTAGTTG
1 AGCTATGGTCATACACCTTAATCCCCATGTTTAACGTCCTAGCGAACTCCACTAGTTAGTTG
* * * *
90613080 AGCTATGGTCTTACACCTTAATCCCCATGTTTAACGTCTTGGCGAACTCCACTGGTTA
1 AGCTATGGTCATACACCTTAATCCCCATGTTTAACGTCCTAGCGAACTCCACTAGTTA
90613138 CCATAATCAA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
62 49 1.00
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.34
Consensus pattern (62 bp):
AGCTATGGTCATACACCTTAATCCCCATGTTTAACGTCCTAGCGAACTCCACTAGTTAGTTG
Found at i:90614597 original size:48 final size:48
Alignment explanation
Indices: 90614533--90614658 Score: 157
Period size: 48 Copynumber: 2.6 Consensus size: 48
90614523 AGAGATTCTG
90614533 TATAAGACCATGTCTAGGACATGGCATCGGCAATAG-TATGAGATCCCA
1 TATAAGACCATGTCTAGGACATGGCATCGGC-ATAGATATGAGATCCCA
* * * * * * *
90614581 TGTAAGACCATATCTAGGATATGGCATTGGCATTGATGTGAGGTCCCA
1 TATAAGACCATGTCTAGGACATGGCATCGGCATAGATATGAGATCCCA
90614629 TATAAGACCATGT-TAGGGACATGGCATCGG
1 TATAAGACCATGTCTA-GGACATGGCATCGG
90614659 TACCAATATG
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
47 5 0.08
48 60 0.92
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.25
Consensus pattern (48 bp):
TATAAGACCATGTCTAGGACATGGCATCGGCATAGATATGAGATCCCA
Found at i:90614727 original size:186 final size:185
Alignment explanation
Indices: 90614384--90614743 Score: 398
Period size: 186 Copynumber: 1.9 Consensus size: 185
90614374 ACCATGGTTA
** * *
90614384 ATGAGATCCTGTGTAAGACCATATCTGGGACATGGCATTGGCACCAAAATGTGATCCTATATAAG
1 ATGAGATCCCATGTAAGACCATATCTAGGACATGGCATTGGCA-CAAAATGTGATCCCATATAAG
* * ** * * * * **
90614449 ACCATATCAGGGATATGGCTTCGGCGTCATTAAGTGATTTCGTGTAAGACCATGTCTGGGATATG
65 ACCATATCAGGGACATGGCATCGGCACCAATAAGAGACTTCGTATAAGACCATACCTGGGATATG
* * * *
90614514 GCATTGATAAGAGATTCTGTATAAGACCATGTCTAGGACATGGCATCGGCAATAGT
130 GCATCGATAAGAGATCCTATATAAGACCATATCTAGGACATGGCATCGGCAATAGT
* ***
90614570 ATGAGATCCCATGTAAGACCATATCTAGGATATGGCATTGGCA-TTGATGTGAGGTCCCATATAA
1 ATGAGATCCCATGTAAGACCATATCTAGGACATGGCATTGGCACAAAATGTGA--TCCCATATAA
* * * *
90614634 GACCATGTTAGGGACATGGCATCGGTACCAATATGAGACTTCGTATAAGACCATACCTGGGATAT
64 GACCATATCAGGGACATGGCATCGGCACCAATAAGAGACTTCGTATAAGACCATACCTGGGATAT
* * * * * *
90614699 GGCATCGATATGTGGTCCTATGTAAGACCATATTTGGGACATGGC
129 GGCATCGATAAGAGATCCTATATAAGACCATATCTAGGACATGGC
90614744 TTTGGCACTT
Statistics
Matches: 140, Mismatches: 32, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
184 6 0.04
186 134 0.96
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (185 bp):
ATGAGATCCCATGTAAGACCATATCTAGGACATGGCATTGGCACAAAATGTGATCCCATATAAGA
CCATATCAGGGACATGGCATCGGCACCAATAAGAGACTTCGTATAAGACCATACCTGGGATATGG
CATCGATAAGAGATCCTATATAAGACCATATCTAGGACATGGCATCGGCAATAGT
Found at i:90617220 original size:40 final size:40
Alignment explanation
Indices: 90617165--90617389 Score: 312
Period size: 40 Copynumber: 5.6 Consensus size: 40
90617155 TATTCGGATG
*
90617165 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
90617205 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
90617245 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
*
90617288 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * *
90617328 ATATCCAGGCTAAGACCCGAAGGCATGTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
90617368 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
90617390 TACTTGGGTT
Statistics
Matches: 168, Mismatches: 11, Indels: 13
0.88 0.06 0.07
Matches are distributed among these distances:
39 16 0.10
40 113 0.67
41 2 0.01
43 35 0.21
44 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:90617322 original size:83 final size:81
Alignment explanation
Indices: 90617165--90617389 Score: 332
Period size: 83 Copynumber: 2.8 Consensus size: 81
90617155 TATTCGGATG
*
90617165 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-TAG-TGACCATATCCGGGCTAAGTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGTAGTTG-CTATATCCGGGCTAAGTCCCGAAGG
90617228 CATTTGTGCTAGTGACT
65 CATTTGTGCTAGTGACT
* *
90617245 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--GTAGTTGCTATATCCGGGCTAAGTCCCGAAG
90617310 GCATTTGTGCTAGTGACT
64 GCATTTGTGCTAGTGACT
* * * *
90617328 ATATCCAGGCTAAGACCCGAAGGCATGTGTGCG-AGTTGCTATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGTAGTTGCTATATCCGGGCTAAGTCCCGAAGG
90617390 TACTTGGGTT
Statistics
Matches: 132, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
79 15 0.11
80 43 0.33
81 1 0.01
83 71 0.54
84 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (81 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGTAGTTGCTATATCCGGGCTAAGTCCCGAAGGC
ATTTGTGCTAGTGACT
Found at i:90620324 original size:49 final size:49
Alignment explanation
Indices: 90620242--90620437 Score: 189
Period size: 49 Copynumber: 3.9 Consensus size: 49
90620232 ACACGGGTAC
* * * *
90620242 CTTAACATTTCCATGACTTGTCATGGTCTTACATGGTATCCTTTTGAAA
1 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTTTGAAA
* *
90620291 CTTACCATTGCCATGTCTTGACATGGTCTTACATGCCT-TGCCTTATG-AA
1 CTTACCATTGCCATGTCTTGACATGGTCTTACATG-GTAT-CCTTTTGAAA
* * * *
90620340 CTCACCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAA
1 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTT---TT-GAAA
* * *
90620393 CCTTACCAATTGTCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACC-ATTGCCATGTCTTGACATGGTCTTACATGGTATCCTT
90620438 GAACCCTAAT
Statistics
Matches: 120, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
48 5 0.04
49 68 0.57
50 7 0.06
51 1 0.01
52 1 0.01
53 2 0.02
54 5 0.04
55 31 0.26
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (49 bp):
CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTTTGAAA
Found at i:90625920 original size:31 final size:31
Alignment explanation
Indices: 90625882--90625944 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
90625872 CTTTTTACAC
*
90625882 TTCATATTTCATAACACTGGGCCGAAGTCTT
1 TTCATATTTCATAACACTGGGCCGAAGCCTT
** *
90625913 TTCATATTTCATATTATTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTGGGCCGAAGCCTT
90625944 T
1 T
90625945 ACTGTAAATG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.40
Consensus pattern (31 bp):
TTCATATTTCATAACACTGGGCCGAAGCCTT
Found at i:90626210 original size:23 final size:23
Alignment explanation
Indices: 90626155--90626251 Score: 158
Period size: 23 Copynumber: 4.1 Consensus size: 23
90626145 CCTAGCCTCT
* *
90626155 TTTAATAACTGGGGGAAAAAGCCC
1 TTTAATAACT-GGGGCATAAGCCC
90626179 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
90626203 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
90626226 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
90626249 TTT
1 TTT
90626252 TGCACTTCTT
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
23 49 0.70
24 11 0.16
25 10 0.14
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:90626327 original size:20 final size:20
Alignment explanation
Indices: 90626302--90626368 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
90626292 TTATGAATAC
90626302 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
90626322 ATCATGTGCATA-CTATACAT
1 ATCATGTGCATATC-ATACAT
* *
90626342 GTCATGTGCATATCATATAT
1 ATCATGTGCATATCATACAT
*
90626362 ACCATGT
1 ATCATGT
90626369 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
19 1 0.02
20 39 0.95
21 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:90633782 original size:33 final size:33
Alignment explanation
Indices: 90633744--90633809 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
90633734 AGGTTTAAAG
90633744 TTATTAAAAATAAAATAATCCCGAAAAGAAATA
1 TTATTAAAAATAAAATAATCCCGAAAAGAAATA
*
90633777 TTATTAAAAATAAAATAATCCCGTAAAGAAATA
1 TTATTAAAAATAAAATAATCCCGAAAAGAAATA
90633810 AAAGGAAGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.59, C:0.09, G:0.06, T:0.26
Consensus pattern (33 bp):
TTATTAAAAATAAAATAATCCCGAAAAGAAATA
Found at i:90634138 original size:31 final size:31
Alignment explanation
Indices: 90634100--90634162 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
90634090 CTTTTCACAC
90634100 TTCATATTTCATAACACTCGGCCGAAGCCTT
1 TTCATATTTCATAACACTCGGCCGAAGCCTT
** *
90634131 TTCATATTTCATATTACTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTCGGCCGAAGCCTT
90634162 T
1 T
90634163 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (31 bp):
TTCATATTTCATAACACTCGGCCGAAGCCTT
Found at i:90634399 original size:25 final size:24
Alignment explanation
Indices: 90634352--90634447 Score: 133
Period size: 25 Copynumber: 4.0 Consensus size: 24
90634342 CTGCTTTCGT
*
90634352 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
90634377 ATAACTGGGGCAAAAAGCCCTTTTA
1 ATAACTGGGGC-ATAAGCCCTTTTA
90634402 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
90634425 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
90634448 GCACTTCCTC
Statistics
Matches: 65, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
23 23 0.35
24 13 0.20
25 25 0.38
26 4 0.06
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:90634428 original size:23 final size:23
Alignment explanation
Indices: 90634373--90634446 Score: 121
Period size: 23 Copynumber: 3.1 Consensus size: 23
90634363 CCTAGCCTCT
*
90634373 TTTAATAACTGGGGCAAAAAGCCC
1 TTTAATAACTGGGGC-ATAAGCCC
90634397 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
90634421 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
90634444 TTT
1 TTT
90634447 TGCACTTCCT
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
23 26 0.54
24 7 0.15
25 15 0.31
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:90634523 original size:20 final size:20
Alignment explanation
Indices: 90634498--90634536 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
90634488 TATGAATACA
90634498 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATG
90634518 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
90634537 ACCATGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATG
Found at i:90634542 original size:20 final size:20
Alignment explanation
Indices: 90634499--90634543 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
90634489 ATGAATACAT
**
90634499 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAC
90634519 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAC
90634539 CATGT
1 CATGT
90634544 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (20 bp):
CATGTGCATATCATACATAC
Found at i:90639779 original size:54 final size:53
Alignment explanation
Indices: 90639721--90639842 Score: 124
Period size: 54 Copynumber: 2.2 Consensus size: 53
90639711 ATATAAGATA
*
90639721 ATATATATTATTATATACATCTTTATAAATTTTATTATATG-T-TATATTTTTA-AT
1 ATATATATTATTATAT-CATCTTTAT--A-TTTATTATATGTTATATATTTTTACAC
* * *
90639775 ATATATTATTTATTCTATTATGTTTATATTTATTATATGTTATATATTTTTACTAC
1 ATATA-TA-TTATTATATCATCTTTATATTTATTATATGTTATATATTTTTAC-AC
90639831 ATATATATTATT
1 ATATATATTATT
90639843 TATTTTACCA
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
52 11 0.19
53 2 0.03
54 20 0.34
55 11 0.19
56 14 0.24
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.59
Consensus pattern (53 bp):
ATATATATTATTATATCATCTTTATATTTATTATATGTTATATATTTTTACAC
Found at i:90639826 original size:20 final size:18
Alignment explanation
Indices: 90639749--90639824 Score: 61
Period size: 18 Copynumber: 4.3 Consensus size: 18
90639739 ATCTTTATAA
90639749 ATTTTATTATATG-TTAT
1 ATTTTATTATATGTTTAT
* * *
90639766 ATTTTTAATATATATTATTT
1 A-TTTTATTATATGTT-TAT
*
90639786 ATTCTA-T-TATGTTTAT
1 ATTTTATTATATGTTTAT
90639802 A-TTTATTATATGTTATAT
1 ATTTTATTATATGTT-TAT
90639820 ATTTT
1 ATTTT
90639825 TACTACATAT
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
15 3 0.07
16 4 0.09
17 12 0.27
18 15 0.33
19 8 0.18
20 3 0.07
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.64
Consensus pattern (18 bp):
ATTTTATTATATGTTTAT
Found at i:90641522 original size:110 final size:110
Alignment explanation
Indices: 90641315--90642165 Score: 1609
Period size: 110 Copynumber: 7.8 Consensus size: 110
90641305 AACTTACTAT
* * ** * * *
90641315 TGCCATGTATTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA-CTCACTAA-TGCCATGCC
1 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAACCTTACCAATTGTCATGCC
90641377 TTGGCATGGTCTTACATGGGACCTTTAGCTTATAGTAACTTATCAA
65 TTGGCATGGTCTTACATGGGACCTTTAGCTTATAGTAACTTATCAA
90641423 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAATTGTCATGCCT
1 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAATTGTCATGCCT
90641488 TGGCATGGTCTTACATGGGACCTTTAGCTTATAGTAACTTATCAA
66 TGGCATGGTCTTACATGGGACCTTTAGCTTATAGTAACTTATCAA
90641533 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAATTGTCATGCCT
1 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAATTGTCATGCCT
90641598 TGGCATGGTCTTACATGGGACCTTTAGCTTATAGTAACTTATCAA
66 TGGCATGGTCTTACATGGGACCTTTAGCTTATAGTAACTTATCAA
90641643 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAATTGTCATGCCT
1 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAATTGTCATGCCT
90641708 TGGCATGGTCTTACATGGGACCTTTAGCTTATAGTAACTTATCAA
66 TGGCATGGTCTTACATGGGACCTTTAGCTTATAGTAACTTATCAA
90641753 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAATTGTCATGCCT
1 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAATTGTCATGCCT
90641818 TGGCATGGTCTTACATGGGACCTTTAGCTTATAGTAACTTATCAA
66 TGGCATGGTCTTACATGGGACCTTTAGCTTATAGTAACTTATCAA
90641863 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAATTGTCATGCCT
1 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAATTGTCATGCCT
90641928 TGGCATGGTCTTACATGGGACCTTTAGCTTATAGTAACTTATCAA
66 TGGCATGGTCTTACATGGGACCTTTAGCTTATAGTAACTTATCAA
90641973 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAATTGTCATGCCT
1 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAATTGTCATGCCT
90642038 TGGCATGGTCTTACATGGGACCTTTAGCTTATAGTAACTTATCAA
66 TGGCATGGTCTTACATGGGACCTTTAGCTTATAGTAACTTATCAA
90642083 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAATTGTCATGCCT
1 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAATTGTCATGCCT
90642148 TGGCATGGTCTTACATGG
66 TGGCATGGTCTTACATGG
90642166 TATCCTTGAA
Statistics
Matches: 733, Mismatches: 7, Indels: 4
0.99 0.01 0.01
Matches are distributed among these distances:
107 1 0.00
108 39 0.05
109 6 0.01
110 687 0.94
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (110 bp):
TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAATTGTCATGCCT
TGGCATGGTCTTACATGGGACCTTTAGCTTATAGTAACTTATCAA
Found at i:90644414 original size:42 final size:44
Alignment explanation
Indices: 90644313--90644458 Score: 153
Period size: 42 Copynumber: 3.4 Consensus size: 44
90644303 TGGGATTTCA
**
90644313 TGTAAGACCACATCTGGGAC-GTTGGCATC-A-ATTTGATATTTACG
1 TGTAAGACCATGTCTGGGACAG-TGGCATCGATATTTG--ATTTACG
90644357 TGTAAGACCATGTCTGGGACA-TCGGCATCG-TATTTGATTT-CG
1 TGTAAGACCATGTCTGGGACAGT-GGCATCGATATTTGATTTACG
* * *
90644399 TGTAATACCCTGTCTGGGACAGTGGCATCGATATTTGA-TTACA
1 TGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATTTACG
*
90644442 TGTAAGACCACGTCTGG
1 TGTAAGACCATGTCTGG
90644459 AACGTTGGCA
Statistics
Matches: 87, Mismatches: 8, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
42 30 0.34
43 28 0.32
44 24 0.28
45 5 0.06
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (44 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATTTACG
Found at i:90644468 original size:43 final size:43
Alignment explanation
Indices: 90644306--90644469 Score: 158
Period size: 43 Copynumber: 3.8 Consensus size: 43
90644296 TTTGATATGG
* *
90644306 GATTTCATGTAAGACCACATCTGGGACGTTGGCATC-A-ATTT
1 GATTACATGTAAGACCACGTCTGGGACGTTGGCATCGATATTT
* * * *
90644347 GATATTTACGTGTAAGACCATGTCTGGGACATCGGCATCG-TATTT
1 G--A-TTACATGTAAGACCACGTCTGGGACGTTGGCATCGATATTT
* * *
90644392 GATTTCGTGTAATACC-CTGTCTGGGACAG-TGGCATCGATATTT
1 GATTACATGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTT
*
90644435 GATTACATGTAAGACCACGTCTGGAACGTTGGCAT
1 GATTACATGTAAGACCACGTCTGGGACGTTGGCAT
90644470 TTTACGGCTT
Statistics
Matches: 98, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
41 1 0.01
42 29 0.30
43 34 0.35
44 29 0.30
45 5 0.05
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (43 bp):
GATTACATGTAAGACCACGTCTGGGACGTTGGCATCGATATTT
Found at i:90646537 original size:23 final size:22
Alignment explanation
Indices: 90646506--90646549 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
90646496 TTGATCATAT
*
90646506 GTTTAGGTATGATTTTAGTTTAA
1 GTTTAGGTATGAATTTA-TTTAA
*
90646529 GTTTTGGTATGAATTTATTTA
1 GTTTAGGTATGAATTTATTTA
90646550 TGAATTGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.25, C:0.00, G:0.20, T:0.55
Consensus pattern (22 bp):
GTTTAGGTATGAATTTATTTAA
Found at i:90651156 original size:28 final size:27
Alignment explanation
Indices: 90651117--90651169 Score: 97
Period size: 28 Copynumber: 1.9 Consensus size: 27
90651107 CTGCCAGAAC
90651117 AGATATTGTGGTAGAGCCACCAGAAAT
1 AGATATTGTGGTAGAGCCACCAGAAAT
90651144 AGATATTTGTGGTAGAGCCACCAGAA
1 AGATA-TTGTGGTAGAGCCACCAGAA
90651170 CGCTTCCTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (27 bp):
AGATATTGTGGTAGAGCCACCAGAAAT
Found at i:90677283 original size:42 final size:42
Alignment explanation
Indices: 90677231--90677374 Score: 155
Period size: 42 Copynumber: 3.4 Consensus size: 42
90677221 TGTATGACAT
*
90677231 TATCTGGGATATGGCATCAGTATGAGATTTCGTGTAAGACCA
1 TATCTAGGATATGGCATCAGTATGAGATTTCGTGTAAGACCA
*
90677273 TATCTAGGATATGGAATC-GATATGAGATTTCGTGTAAGACCA
1 TATCTAGGATATGGCATCAG-TATGAGATTTCGTGTAAGACCA
* * ** ** * *
90677315 TAGCTAGGCTATTGGCATCAAAATGAGATCCCATGTAAAACCA
1 TATCTAGGATA-TGGCATCAGTATGAGATTTCGTGTAAGACCA
* *
90677358 TATCGAGGATAAGGCAT
1 TATCTAGGATATGGCAT
90677375 TGGTACGGTA
Statistics
Matches: 84, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
41 1 0.01
42 52 0.62
43 31 0.37
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (42 bp):
TATCTAGGATATGGCATCAGTATGAGATTTCGTGTAAGACCA
Found at i:90684232 original size:12 final size:12
Alignment explanation
Indices: 90684215--90684239 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
90684205 TTATTAAATG
90684215 AATTAAAAGCCA
1 AATTAAAAGCCA
90684227 AATTAAAAGCCA
1 AATTAAAAGCCA
90684239 A
1 A
90684240 TTTTTGTCCA
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:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AATTAAAAGCCA
Found at i:90685109 original size:42 final size:42
Alignment explanation
Indices: 90685045--90685199 Score: 177
Period size: 42 Copynumber: 3.7 Consensus size: 42
90685035 ACTAAGATAT
*
90685045 GTGTAAGACCATATCTGTGATATGGCATCAG-TATGAGATTTC
1 GTGTAAGACCATATCTGGGATATGGCAT-AGATATGAGATTTC
* * *
90685087 GTGTAAGACCATATCTAGGATATGGCATGGATATGAGTTTTC
1 GTGTAAGACCATATCTGGGATATGGCATAGATATGAGATTTC
* * * * * *
90685129 GTGTAAGACCATAGCTGGGCTATTGGCATTGAAACGAGATCTC
1 GTGTAAGACCATATCTGGGATA-TGGCATAGATATGAGATTTC
* *
90685172 ATGTAACACCATATCTGGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
90685200 TAGTATGGTA
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
41 1 0.01
42 61 0.64
43 33 0.35
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATAGATATGAGATTTC
Found at i:90689094 original size:47 final size:47
Alignment explanation
Indices: 90689025--90689855 Score: 1564
Period size: 47 Copynumber: 17.7 Consensus size: 47
90689015 GGATGGTTGA
90689025 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG
90689072 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG
90689119 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG
90689166 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG
90689213 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG
90689260 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG
90689307 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG
90689354 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG
90689401 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG
90689448 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG
90689495 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG
90689542 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG
90689589 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG
90689636 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG
90689683 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG
*
90689730 GCATCCGAACTCGTTGAGTTGAGTCTGAGTGTCACT-AGGATGGT---T-G
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGT-TC-GTGA-GAT-GTAACTAG
90689776 AGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG
1 -GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG
*
90689824 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTC
90689856 ATTTATGGAT
Statistics
Matches: 771, Mismatches: 3, Indels: 20
0.97 0.00 0.03
Matches are distributed among these distances:
44 2 0.00
45 4 0.01
46 4 0.01
47 751 0.97
48 4 0.01
49 4 0.01
50 2 0.00
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG
Found at i:90692398 original size:59 final size:59
Alignment explanation
Indices: 90692299--90692417 Score: 202
Period size: 59 Copynumber: 2.0 Consensus size: 59
90692289 AGCCAGTGTA
*
90692299 GGGACCTCGAGATTTGTTAAACCCGAGTGCCAGCGATGTGGTAGAAATCATTTTGGTCC
1 GGGAACTCGAGATTTGTTAAACCCGAGTGCCAGCGATGTGGTAGAAATCATTTTGGTCC
* * *
90692358 GGGAACTCGAGATTTGTTAAACCGGAGTGCTAGCGGTGTGGTAGAAATCATTTTGGTCC
1 GGGAACTCGAGATTTGTTAAACCCGAGTGCCAGCGATGTGGTAGAAATCATTTTGGTCC
90692417 G
1 G
90692418 TGTAGAGCAA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.28
Consensus pattern (59 bp):
GGGAACTCGAGATTTGTTAAACCCGAGTGCCAGCGATGTGGTAGAAATCATTTTGGTCC
Found at i:90697478 original size:93 final size:93
Alignment explanation
Indices: 90697319--90698192 Score: 1650
Period size: 93 Copynumber: 9.4 Consensus size: 93
90697309 GGATGGTTGA
90697319 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
90697384 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCTGAGTTCGTGAGATGTAACTAG
90697412 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
90697477 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCTGAGTTCGTGAGATGTAACTAG
90697505 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
90697570 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCTGAGTTCGTGAGATGTAACTAG
90697598 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
90697663 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCTGAGTTCGTGAGATGTAACTAG
90697691 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
90697756 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCTGAGTTCGTGAGATGTAACTAG
90697784 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
90697849 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCTGAGTTCGTGAGATGTAACTAG
90697877 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
90697942 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCTGAGTTCGTGAGATGTAACTAG
90697970 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
*
90698035 TGAGTCTGAGTGTCACT-AGGATGGT---T-G
66 TGAGTCTGAGT-TC-GTGA-GAT-GTAACTAG
90698062 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 -GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
90698127 TTGAGTCTGAGTTCGTGAGATGTAACTAG
65 TTGAGTCTGAGTTCGTGAGATGTAACTAG
*
90698156 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
90698193 GGGGCGGGTT
Statistics
Matches: 768, Mismatches: 3, Indels: 20
0.97 0.00 0.03
Matches are distributed among these distances:
90 2 0.00
91 4 0.01
92 4 0.01
93 748 0.97
94 4 0.01
95 4 0.01
96 2 0.00
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
TGAGTCTGAGTTCGTGAGATGTAACTAG
Found at i:90704444 original size:20 final size:20
Alignment explanation
Indices: 90704421--90704459 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
90704411 GTTTGTTTGG
90704421 TTCAAGATT-TGTTTTATTTC
1 TTCAA-ATTGTGTTTTATTTC
*
90704441 TTCAATTTGTGTTTTATTT
1 TTCAAATTGTGTTTTATTT
90704460 TTATATGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.18, C:0.08, G:0.10, T:0.64
Consensus pattern (20 bp):
TTCAAATTGTGTTTTATTTC
Found at i:90704547 original size:8 final size:8
Alignment explanation
Indices: 90704534--90704663 Score: 260
Period size: 8 Copynumber: 16.2 Consensus size: 8
90704524 TAAATTGTGT
90704534 AATATATA
1 AATATATA
90704542 AATATATA
1 AATATATA
90704550 AATATATA
1 AATATATA
90704558 AATATATA
1 AATATATA
90704566 AATATATA
1 AATATATA
90704574 AATATATA
1 AATATATA
90704582 AATATATA
1 AATATATA
90704590 AATATATA
1 AATATATA
90704598 AATATATA
1 AATATATA
90704606 AATATATA
1 AATATATA
90704614 AATATATA
1 AATATATA
90704622 AATATATA
1 AATATATA
90704630 AATATATA
1 AATATATA
90704638 AATATATA
1 AATATATA
90704646 AATATATA
1 AATATATA
90704654 AATATATA
1 AATATATA
90704662 AA
1 AA
90704664 AAGATATATA
Statistics
Matches: 122, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 122 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
AATATATA
Found at i:90707286 original size:29 final size:30
Alignment explanation
Indices: 90707241--90707299 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
90707231 ATTAACTTAG
90707241 TATCACCTCATAACTCAATGAGTTAAAATT
1 TATCACCTCATAACTCAATGAGTTAAAATT
*
90707271 TATCACC-CGTAACTCAATGAGTTAAAATT
1 TATCACCTCATAACTCAATGAGTTAAAATT
90707300 ATGATACTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 21 0.75
30 7 0.25
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.32
Consensus pattern (30 bp):
TATCACCTCATAACTCAATGAGTTAAAATT
Found at i:90713123 original size:28 final size:26
Alignment explanation
Indices: 90713092--90713155 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
90713082 AATTACTATA
* *
90713092 ATACCCCTATGTATGGAAAATTACTGCT
1 ATACCCCTA-G-ATGCAAAATTACCGCT
* *
90713120 ATACCCCTAGGTGCAAAATTACCGTT
1 ATACCCCTAGATGCAAAATTACCGCT
90713146 ATACCCCTAG
1 ATACCCCTAG
90713156 GGTTAATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 22 0.69
27 1 0.03
28 9 0.28
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACCGCT
Found at i:90713328 original size:27 final size:26
Alignment explanation
Indices: 90713260--90713365 Score: 104
Period size: 27 Copynumber: 3.9 Consensus size: 26
90713250 AGGAAGCATC
* * **
90713260 CTGGTGGCTATGCCACAATTTATATAAT
1 CTGGTGGCTCTGCCACAA--TATCTGTT
*
90713288 CTGGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACA-ATATCTGTT
90713315 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGT-T
* * *
90713342 CTGGTGACTCCGTCACAATATCTG
1 CTGGTGGCTCTGCCACAATATCTG
90713366 GCAGCCTCGC
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 8 0.12
27 43 0.63
28 16 0.24
29 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATATCTGTT
Found at i:90716968 original size:28 final size:28
Alignment explanation
Indices: 90716927--90717027 Score: 148
Period size: 28 Copynumber: 3.6 Consensus size: 28
90716917 AGCTATGTAC
* * *
90716927 GGCAGTTAATGTGCAAGATATCGAGTGT
1 GGCACTTAGTGTGCGAGATATCGAGTGT
90716955 GGCACTTAGTGTGCGAGATATCGAGTGT
1 GGCACTTAGTGTGCGAGATATCGAGTGT
* *
90716983 GGCACTTACTGTGCGAGATATCGAGTAT
1 GGCACTTAGTGTGCGAGATATCGAGTGT
*
90717011 GGAACTTAGTGTGCGAG
1 GGCACTTAGTGTGCGAG
90717028 GCATTGAGTA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 66 1.00
ACGTcount: A:0.25, C:0.14, G:0.34, T:0.28
Consensus pattern (28 bp):
GGCACTTAGTGTGCGAGATATCGAGTGT
Found at i:90722244 original size:47 final size:48
Alignment explanation
Indices: 90722016--90722281 Score: 153
Period size: 47 Copynumber: 5.7 Consensus size: 48
90722006 GTTATTGTGG
* * *
90722016 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCAC-A-TTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAACTACGAGATAT--GA
* * * * ** ** *
90722062 GCCAGTGTAAGACCATGTTTGGGACAAGACATCGGC-ATCGAGATGGGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAACTA-CGAGATATGA
* * ** ** *
90722110 GCTAGTGTAAGA-CAAGTCTGGGACAT-GCATCAGCCCCGAGACGTAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAACTACGAGATATGA
* *
90722156 GCCT-GTGTAAGA-CATGTCTGGGAC-TTGCATCGACTACGAGATGAT-A
1 G-CTAGTGTAAGACCATGTCTGGGACATGGCATCAACTACGAGAT-ATGA
* *
90722202 G-TCAGTGTAAGACCATGTTTGGGACATGGCATCAAC-ATGAGATATGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCAACTACGAGATATGA
* * *
90722249 GCTATTGTAAGACCGTGTCTGCGACATGGCATC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC
90722282 GACACCTTAC
Statistics
Matches: 170, Mismatches: 35, Indels: 29
0.73 0.15 0.12
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 66 0.39
47 72 0.42
48 28 0.16
49 1 0.01
50 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCAACTACGAGATATGA
Found at i:90722275 original size:140 final size:141
Alignment explanation
Indices: 90722020--90722281 Score: 325
Period size: 140 Copynumber: 1.9 Consensus size: 141
90722010 TTGTGGGCTA
*
90722020 GTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTTTGGG
1 GTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGCCAGTGTAAGACCATGTTTGGG
** * * *
90722085 ACAAGACATCGGCATCGAGATGGGTGCTAGTGTAAGACAAGTCTGGGACAT-GCATCAGCCCCGA
66 ACAAGACATCAACATCGAGATAGGAGCTAGTGTAAGACAAGTCTGCGACATGGCATCAGCCCCGA
90722149 GACGTAAGCCT
131 GACGTAAGCCT
* * * *
90722160 GTGTAAGACATGTCTGGGACTTGCATC-GACTACGA-GATGATAGTCAGTGTAAGACCATGTTTG
1 GTGTAAGACATGTCTGGGACATGCATCAG-CCAC-ATGATGAGAGCCAGTGTAAGACCATGTTTG
* * * * **
90722223 GGACATGGCATCAACAT-GAGATATGAGCTATTGTAAGACCGTGTCTGCGACATGGCATC
64 GGACAAGACATCAACATCGAGATAGGAGCTAGTGTAAGA-CAAGTCTGCGACATGGCATC
90722282 GACACCTTAC
Statistics
Matches: 102, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
139 18 0.18
140 78 0.76
141 6 0.06
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (141 bp):
GTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGCCAGTGTAAGACCATGTTTGGG
ACAAGACATCAACATCGAGATAGGAGCTAGTGTAAGACAAGTCTGCGACATGGCATCAGCCCCGA
GACGTAAGCCT
Found at i:90736780 original size:47 final size:47
Alignment explanation
Indices: 90736711--90736932 Score: 197
Period size: 46 Copynumber: 4.8 Consensus size: 47
90736701 TAAGGTTCCA
** * * *
90736711 ATGCCATGTCCTTGACATGGTCTTACACTGGCTCATATCTCAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGCCG
* * *
90736758 ATGCCATGTCCCAGACATGGTCTTACAC-AG-ACACATCTCGTAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTC-AAGCCG
* * * * * *
90736804 ATG-CAAGTCCCAAACAT-GTCTTATACTGGCAT-ACATCTTGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGC-TCACATC-TCAAGCCG
* * *
90736850 ATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCGTCTCAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAA-GCCG
*
90736896 ATGCCATGTCCCAGACATGATCTTACACTAGCTCACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACA
90736933 ATAACCCATA
Statistics
Matches: 138, Mismatches: 28, Indels: 17
0.75 0.15 0.09
Matches are distributed among these distances:
44 8 0.06
45 22 0.16
46 53 0.38
47 41 0.30
48 14 0.10
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.27
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGCCG
Done.