Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 39 of 325
Found at i:11681433 original size:19 final size:19
Alignment explanation
Indices: 11681409--11681449 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
11681399 AAACTTAGAC
11681409 TCCCGATGTACTCGATTCA
1 TCCCGATGTACTCGATTCA
11681428 TCCCGATGTACTCGATTCA
1 TCCCGATGTACTCGATTCA
11681447 TCC
1 TCC
11681450 AATCAAATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.20, C:0.34, G:0.15, T:0.32
Consensus pattern (19 bp):
TCCCGATGTACTCGATTCA
Found at i:11691972 original size:18 final size:18
Alignment explanation
Indices: 11691949--11691987 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
11691939 TAATTAACTT
11691949 TTAAAAAATTTTAAAAAA
1 TTAAAAAATTTTAAAAAA
* *
11691967 TTAAAAAGTTTTAATAAA
1 TTAAAAAATTTTAAAAAA
11691985 TTA
1 TTA
11691988 TTTAAAAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
TTAAAAAATTTTAAAAAA
Found at i:11692750 original size:21 final size:22
Alignment explanation
Indices: 11692707--11692751 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
11692697 TTTTTAACTT
* *
11692707 TTTTTTAAAAAAAGTTTACAAA
1 TTTTTTAAAAAAAGTTCAAAAA
11692729 TTTTTTAAAAAAA-TTCAAAAA
1 TTTTTTAAAAAAAGTTCAAAAA
11692750 TT
1 TT
11692752 ATGAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.42
Consensus pattern (22 bp):
TTTTTTAAAAAAAGTTCAAAAA
Found at i:11699249 original size:23 final size:23
Alignment explanation
Indices: 11699222--11699265 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
11699212 CCTAAAAGGT
11699222 GTTTAATGTGAAATATGAAAAGC
1 GTTTAATGTGAAATATGAAAAGC
11699245 GTTTAATGTGAAATATGAAAA
1 GTTTAATGTGAAATATGAAAA
11699266 TGAATGTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.45, C:0.02, G:0.20, T:0.32
Consensus pattern (23 bp):
GTTTAATGTGAAATATGAAAAGC
Found at i:11700492 original size:22 final size:21
Alignment explanation
Indices: 11700447--11700500 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
11700437 CACAATAGTC
*
11700447 CTCTCACAATTCTCTTTAAATT
1 CTCTCA-AATTCTCTTCAAATT
*
11700469 CTTTCCAAATTCTC-TCAAATTT
1 CTCT-CAAATTCTCTTCAAA-TT
11700491 CTCTCAAATT
1 CTCTCAAATT
11700501 TTGTCAAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 10 0.37
22 15 0.56
23 2 0.07
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.44
Consensus pattern (21 bp):
CTCTCAAATTCTCTTCAAATT
Found at i:11700507 original size:21 final size:21
Alignment explanation
Indices: 11700474--11700523 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
11700464 AAATTCTTTC
* *
11700474 CAAATTCTCTCAAATTTCTCT
1 CAAATTTTCTCAAAGTTCTCT
* *
11700495 CAAATTTTGTCAAAGTTGTCT
1 CAAATTTTCTCAAAGTTCTCT
*
11700516 CTAATTTT
1 CAAATTTT
11700524 TGCAAAAAAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.28, C:0.20, G:0.06, T:0.46
Consensus pattern (21 bp):
CAAATTTTCTCAAAGTTCTCT
Found at i:11702336 original size:18 final size:18
Alignment explanation
Indices: 11702313--11702355 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
11702303 TACCAGGTGC
*
11702313 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
*
11702331 GTATCCTAACCCTTTTAT
1 GTATCCTAACCCTTATAT
*
11702349 GTTTCCT
1 GTATCCT
11702356 TTTCCCAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:11702634 original size:21 final size:22
Alignment explanation
Indices: 11702603--11702646 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
11702593 CTACAACCAG
* *
11702603 ATCCCATACCGGAGGAACTACA
1 ATCCCATACCGGAGCAACCACA
11702625 ATCCC-TACCGGAGCAACCACA
1 ATCCCATACCGGAGCAACCACA
11702646 A
1 A
11702647 CTCTCGCTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.36, C:0.36, G:0.16, T:0.11
Consensus pattern (22 bp):
ATCCCATACCGGAGCAACCACA
Found at i:11706369 original size:123 final size:125
Alignment explanation
Indices: 11706075--11706378 Score: 499
Period size: 123 Copynumber: 2.5 Consensus size: 125
11706065 AGTCTAAGGC
11706075 TTTTTCAGATACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGAC
1 TTTTTCAGATACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGAC
11706140 AGTGCATCATTCTTGAAGCGTTTTTGACACTATTTATTCAGAAACATCTTCTCAAAATTAT
66 AGTGCATCATTCTTGAAGCGTTTTTGACACTATTTATTCAGAAACA-CTTCTCAAAATTAT
* *
11706201 TTTTTCAGATACTA---TAGCAAAAGAGCATCCACGTGAGAGTTTTTTTCCGTAATTTTGCTGAC
1 TTTTTCAGATACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGAC
* *
11706263 AGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACA-TTCTCAAAATTAT
66 AGTGCATCATTCTTGAAGCGTTTTTGACACTATTTATTCAGAAACACTTCTCAAAATTAT
* * * *
11706322 TTTTTCAAATACTACTGTAACAAAAGAGCGTCCATGTGGGAGCTTTTTTCCGTAATT
1 TTTTTCAGATACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTTCCGTAATT
11706379 AATAGTTAAT
Statistics
Matches: 165, Mismatches: 10, Indels: 8
0.90 0.05 0.04
Matches are distributed among these distances:
121 26 0.16
123 90 0.55
124 35 0.21
126 14 0.08
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (125 bp):
TTTTTCAGATACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGAC
AGTGCATCATTCTTGAAGCGTTTTTGACACTATTTATTCAGAAACACTTCTCAAAATTAT
Found at i:11706700 original size:24 final size:24
Alignment explanation
Indices: 11706673--11706722 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
11706663 TTTTTCTTAA
*
11706673 AAAAACACTAAA-ACATTAAACCCT
1 AAAAACACTAAATA-ACTAAACCCT
*
11706697 AAAAACCCTAAATAACTAAACCCT
1 AAAAACACTAAATAACTAAACCCT
11706721 AA
1 AA
11706723 CCCTAAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.58, C:0.26, G:0.00, T:0.16
Consensus pattern (24 bp):
AAAAACACTAAATAACTAAACCCT
Found at i:11706724 original size:174 final size:172
Alignment explanation
Indices: 11706414--11706756 Score: 537
Period size: 174 Copynumber: 2.0 Consensus size: 172
11706404 TAAAAAACCT
*
11706414 TAAACCTTAATTTAATTGATTTTTTTTAATTTCACAGTTAATTTAATTAATTCCCTCGACTCTAA
1 TAAACCTTAATTTAATTGATTTTTTTTAATTTCACAGTTAATTTAATTAATTCCCTCAACTCTAA
* * *
11706479 TTAAATTAATTTTTTCCTTAAAAAACACTAAAATCCTAAACCTTAAAAACTCTAAACCACTAAAC
66 TTAAATTAATTTTTTCCTTAAAAAACACTAAAATCCTAAACCCTAAAAACCCTAAACAACTAAAC
* *
11706544 CCTAACCCTAAAACAATCAAAAACCCTAACCATAAAAAATTC
131 CCTAACCCTAAAACAATAAAAAACCATAACCATAAAAAATTC
*
11706586 TAAACCTTAATTTAATTGATTTTTTTTAATTTCATAGTTAATTTAATTAATTAACCCTCAACTCT
1 TAAACCTTAATTTAATTGATTTTTTTTAATTTCACAGTTAATTTAATTAATT--CCCTCAACTCT
* *
11706651 AATTAAATTAATTTTTT-CTTAAAAAAACACTAAAA-CATTAAACCCTAAAAACCCTAAATAACT
64 AATTAAATTAATTTTTTCCTT-AAAAAACACTAAAATC-CTAAACCCTAAAAACCCTAAACAACT
* *
11706714 AAACCCTAACCCTAAAACAATAAAAAAGCATAACCCTAAAAAA
127 AAACCCTAACCCTAAAACAATAAAAAACCATAACCATAAAAAA
11706757 AGGGGCAAAA
Statistics
Matches: 156, Mismatches: 11, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
172 51 0.33
173 4 0.03
174 101 0.65
ACGTcount: A:0.45, C:0.20, G:0.02, T:0.33
Consensus pattern (172 bp):
TAAACCTTAATTTAATTGATTTTTTTTAATTTCACAGTTAATTTAATTAATTCCCTCAACTCTAA
TTAAATTAATTTTTTCCTTAAAAAACACTAAAATCCTAAACCCTAAAAACCCTAAACAACTAAAC
CCTAACCCTAAAACAATAAAAAACCATAACCATAAAAAATTC
Found at i:11716963 original size:35 final size:35
Alignment explanation
Indices: 11716915--11717190 Score: 263
Period size: 35 Copynumber: 7.9 Consensus size: 35
11716905 TTCACAAGTT
** * *
11716915 AGTATGGTTAATACCAAACCTAAGTTTCATAGCTC
1 AGTATGGACAATACCATACCTACGTTTCATAGCTC
* *
11716950 AGTATGGACAATACCATACCTACGTTTCACAACTC
1 AGTATGGACAATACCATACCTACGTTTCATAGCTC
* * *
11716985 GGTATGGGA-AATACCATACCTACGGATT-ATAGCTT
1 AGTAT-GGACAATACCATACCTAC-GTTTCATAGCTC
* * * *
11717020 GGTATGAATAATACCATACCTATGTTTCATAGCTC
1 AGTATGGACAATACCATACCTACGTTTCATAGCTC
* * *
11717055 AGAATGGACAATACCATACCTACGTTTCACAACTC
1 AGTATGGACAATACCATACCTACGTTTCATAGCTC
* *
11717090 GGTATGGGA-AATATCATACCTACGTATT-ATAGCTC
1 AGTAT-GGACAATACCATACCTACGT-TTCATAGCTC
* * * * *
11717125 GGTATAGATAATACCATATCTACGTGTCATAGCTC
1 AGTATGGACAATACCATACCTACGTTTCATAGCTC
* *
11717160 AGTATGGCCAATACCATACCTACGTGTCATA
1 AGTATGGACAATACCATACCTACGTTTCATA
11717191 ACTTTTCCAT
Statistics
Matches: 197, Mismatches: 36, Indels: 16
0.79 0.14 0.06
Matches are distributed among these distances:
34 8 0.04
35 178 0.90
36 11 0.06
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (35 bp):
AGTATGGACAATACCATACCTACGTTTCATAGCTC
Found at i:11717098 original size:105 final size:105
Alignment explanation
Indices: 11716923--11717193 Score: 418
Period size: 105 Copynumber: 2.6 Consensus size: 105
11716913 TTAGTATGGT
*
11716923 TAATACCAAACCTAAGTTTCATAGCTCAGTATGGACAATACCATACCTACGTTTCACAACTCGGT
1 TAATACCATACCTAAGTTTCATAGCTCAGTATGGACAATACCATACCTACGTTTCACAACTCGGT
*
11716988 ATGGGAAATACCATACCTACGGATTATAGCTTGGTAT-GAA
66 ATGGGAAATACCATACCTACGGATTATAGCTCGGTATAG-A
* *
11717028 TAATACCATACCTATGTTTCATAGCTCAGAATGGACAATACCATACCTACGTTTCACAACTCGGT
1 TAATACCATACCTAAGTTTCATAGCTCAGTATGGACAATACCATACCTACGTTTCACAACTCGGT
* *
11717093 ATGGGAAATATCATACCTACGTATTATAGCTCGGTATAGA
66 ATGGGAAATACCATACCTACGGATTATAGCTCGGTATAGA
* * * * * *
11717133 TAATACCATATCTACGTGTCATAGCTCAGTATGGCCAATACCATACCTACGTGTCATAACT
1 TAATACCATACCTAAGTTTCATAGCTCAGTATGGACAATACCATACCTACGTTTCACAACT
11717194 TTTCCATGGA
Statistics
Matches: 152, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
105 151 0.99
106 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (105 bp):
TAATACCATACCTAAGTTTCATAGCTCAGTATGGACAATACCATACCTACGTTTCACAACTCGGT
ATGGGAAATACCATACCTACGGATTATAGCTCGGTATAGA
Found at i:11723587 original size:37 final size:36
Alignment explanation
Indices: 11723540--11723648 Score: 103
Period size: 37 Copynumber: 3.0 Consensus size: 36
11723530 CACGTTAGAA
* *
11723540 GCTCATAAGAGCTAATCCACCCGATAACACGCCAATT
1 GCTCAGAAGAGCTAATCCACCTGATAACACGCCAA-T
* * *
11723577 GCTCCGAAGAGCTAGTCCAACTG-TAAACACGCCAGAT
1 GCTCAGAAGAGCTAATCCACCTGAT-AACACGCCA-AT
* ** *
11723614 GCTTATTAGAGCTAATCAACCTGATAACACGCCAA
1 GCTCAGAAGAGCTAATCCACCTGATAACACGCCAA
11723649 AATAAGGAGT
Statistics
Matches: 57, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
36 2 0.04
37 53 0.93
38 2 0.04
ACGTcount: A:0.35, C:0.29, G:0.17, T:0.19
Consensus pattern (36 bp):
GCTCAGAAGAGCTAATCCACCTGATAACACGCCAAT
Found at i:11726247 original size:25 final size:23
Alignment explanation
Indices: 11726217--11726326 Score: 80
Period size: 23 Copynumber: 4.7 Consensus size: 23
11726207 GACATAGCCT
*
11726217 GTAAGCTCTTCATGAGCTGATAATA
1 GTAAGCTCTT-ATGAGCTGA-AACA
11726242 GTAAGCTC-TATTGAGCT-AAACA
1 GTAAGCTCTTA-TGAGCTGAAACA
* **
11726264 GTAAGCTCTTACGAGCTGAGTCA
1 GTAAGCTCTTATGAGCTGAAACA
** * * *
11726287 GTAAGCTCCAATGAGATAAAATA
1 GTAAGCTCTTATGAGCTGAAACA
* *
11726310 GTAAGCTCATACGAGCT
1 GTAAGCTCTTATGAGCT
11726327 ATGGTGAGTT
Statistics
Matches: 66, Mismatches: 16, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
22 16 0.24
23 35 0.53
24 7 0.11
25 8 0.12
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (23 bp):
GTAAGCTCTTATGAGCTGAAACA
Found at i:11740021 original size:46 final size:46
Alignment explanation
Indices: 11739968--11740139 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
11739958 TGGGCATCCA
*
11739968 AACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAGCGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCG
* * * *
11740014 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCC-
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCGTCCG
* *
11740060 AAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCG
* *
11740107 AGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
11740140 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 61 0.59
47 31 0.30
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCG
Found at i:11740119 original size:93 final size:93
Alignment explanation
Indices: 11739960--11740132 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
11739950 GGGATATTTG
* * *
11739960 GGCATCCAAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
11740025 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
11740053 GGCATCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
11740118 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
11740133 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:11744170 original size:15 final size:16
Alignment explanation
Indices: 11744141--11744172 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
11744131 AATCTTGTCA
11744141 TGATATGGTTAATATT
1 TGATATGGTTAATATT
11744157 TGATATGG-TAATATT
1 TGATATGGTTAATATT
11744172 T
1 T
11744173 ACGCTATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (16 bp):
TGATATGGTTAATATT
Found at i:11745879 original size:27 final size:26
Alignment explanation
Indices: 11745831--11745989 Score: 176
Period size: 27 Copynumber: 5.9 Consensus size: 26
11745821 GCGAGGCTGC
* * *
11745831 CAGATATTGTGACGGAGTCACCAGAT
1 CAGATATTGTGGCAGAGCCACCAGAT
*
11745857 ACAGATATTGTGGCAGAGCCACCAGAA
1 -CAGATATTGTGGCAGAGCCACCAGAT
11745884 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
* *
11745911 CAGATAATTATGGCATAGCCACCAGGAT
1 CAGAT-ATTGTGGCAGAGCCACCA-GAT
* *
11745939 -AGATATATGTGGTAGAGGCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
*
11745965 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
11745990 GACGCTTCCT
Statistics
Matches: 112, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
26 12 0.11
27 93 0.83
28 7 0.06
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAT
Found at i:11745990 original size:54 final size:54
Alignment explanation
Indices: 11745831--11745992 Score: 220
Period size: 54 Copynumber: 3.0 Consensus size: 54
11745821 GCGAGGCTGC
* * * * *
11745831 CAGATAT-TGTGACGGAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGGA
*
11745884 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTATGGCATAGCCACCAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
* * *
11745938 TAGATATATGTGGTAGAGGCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
11745992 C
1 C
11745993 GCTTCCTCCA
Statistics
Matches: 96, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
53 12 0.12
54 84 0.88
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (54 bp):
CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
Found at i:11747613 original size:26 final size:26
Alignment explanation
Indices: 11747583--11747690 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
11747573 TGAAATTCCC
11747583 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11747609 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
11747635 ATCATGAAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11747661 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11747687 ATCA
1 ATCA
11747691 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:11753990 original size:29 final size:28
Alignment explanation
Indices: 11753948--11754014 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 28
11753938 GTTTGCATGT
*
11753948 AAAATATTTTTTGGAAAATGATTTCTGG
1 AAAATATTTCTTGGAAAATGATTTCTGG
11753976 AAAATAATTTCTTGGAAAATGATTTCTGG
1 AAAAT-ATTTCTTGGAAAATGATTTCTGG
11754005 AAAATGATTT
1 AAAAT-ATTT
11754015 ACTTTTCTGG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.14
29 31 0.86
ACGTcount: A:0.39, C:0.04, G:0.16, T:0.40
Consensus pattern (28 bp):
AAAATATTTCTTGGAAAATGATTTCTGG
Found at i:11753993 original size:15 final size:14
Alignment explanation
Indices: 11753959--11754014 Score: 94
Period size: 14 Copynumber: 3.9 Consensus size: 14
11753949 AAATATTTTT
11753959 TGGAAAATGATTTC
1 TGGAAAATGATTTC
*
11753973 TGGAAAATAATTTC
1 TGGAAAATGATTTC
11753987 TTGGAAAATGATTTC
1 -TGGAAAATGATTTC
11754002 TGGAAAATGATTT
1 TGGAAAATGATTT
11754015 ACTTTTCTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
14 26 0.67
15 13 0.33
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.38
Consensus pattern (14 bp):
TGGAAAATGATTTC
Found at i:11754498 original size:22 final size:22
Alignment explanation
Indices: 11754473--11754521 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
11754463 ATCCAAGTGC
11754473 ATAACTAATATTACACCACATG
1 ATAACTAATATTACACCACATG
11754495 ATAACTAATATTACACCACATG
1 ATAACTAATATTACACCACATG
11754517 ATAAC
1 ATAAC
11754522 AACAATATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.47, C:0.22, G:0.04, T:0.27
Consensus pattern (22 bp):
ATAACTAATATTACACCACATG
Found at i:11754519 original size:68 final size:68
Alignment explanation
Indices: 11754435--11754561 Score: 227
Period size: 68 Copynumber: 1.9 Consensus size: 68
11754425 GCATAATTAG
11754435 TATTACACCACATGATAACAACAACATTATCCAAGTGCATAACTAATATTACACCACATGATAAC
1 TATTACACCACATGATAACAACAACATTATCCAAGTGCATAACTAATATTACACCACATGATAAC
11754500 TAA
66 TAA
* * *
11754503 TATTACACCACATGATAACAACAATATTGTCCAAGTGCATAACTAATATTACACTACAT
1 TATTACACCACATGATAACAACAACATTATCCAAGTGCATAACTAATATTACACCACAT
11754562 TAAAAGTATC
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
68 56 1.00
ACGTcount: A:0.44, C:0.23, G:0.06, T:0.27
Consensus pattern (68 bp):
TATTACACCACATGATAACAACAACATTATCCAAGTGCATAACTAATATTACACCACATGATAAC
TAA
Found at i:11755439 original size:15 final size:15
Alignment explanation
Indices: 11755421--11755451 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11755411 GAAATCCAAG
11755421 ATCCAGAATAAAGAA
1 ATCCAGAATAAAGAA
11755436 ATCCAGAATAAAGAA
1 ATCCAGAATAAAGAA
11755451 A
1 A
11755452 CCCAAGATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.13, T:0.13
Consensus pattern (15 bp):
ATCCAGAATAAAGAA
Found at i:11755450 original size:22 final size:22
Alignment explanation
Indices: 11755404--11755450 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
11755394 CAAGGAAACC
**
11755404 GAATAAAGAAATCCAAGATCCA
1 GAATAAAGAAATCCAAGATAAA
11755426 GAATAAAGAAATCC-AGAATAAA
1 GAATAAAGAAATCCAAG-ATAAA
11755448 GAA
1 GAA
11755451 ACCCAAGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.60, C:0.13, G:0.15, T:0.13
Consensus pattern (22 bp):
GAATAAAGAAATCCAAGATAAA
Found at i:11758526 original size:93 final size:93
Alignment explanation
Indices: 11758414--11758583 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 93
11758404 CCCATAAGTG
* *
11758414 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
11758479 GAGCTCAGATGCCTAGTCACATCTCTCT
66 GAGCTCAGATGCCTAGTCACATCTCTCT
*
11758507 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
* *
11758572 GAGTTCGGATGC
66 GAGCTCAGATGC
11758584 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCAGATGCCTAGTCACATCTCTCT
Found at i:11758580 original size:46 final size:46
Alignment explanation
Indices: 11758405--11758580 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
11758395 TGTAACCCGC
* *
11758405 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
11758451 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-G--GAC-ATTCGCAT
* *
11758501 CTC-T--CT-AACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
11758544 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
11758581 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 2 0.02
45 1 0.01
46 63 0.57
47 25 0.23
48 1 0.01
49 2 0.02
50 7 0.06
51 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:11760245 original size:32 final size:32
Alignment explanation
Indices: 11760199--11760259 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
11760189 TGTCAATCAT
11760199 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
*
11760231 TTCAATATCTAACAAGCTTAAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
11760260 CAATATCTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.51, C:0.18, G:0.03, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:11760266 original size:27 final size:30
Alignment explanation
Indices: 11760199--11760272 Score: 100
Period size: 32 Copynumber: 2.5 Consensus size: 30
11760189 TGTCAATCAT
*
11760199 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAAC--AATAAA
11760231 TTCAATATCTAACAAGCTTAAAAC-AT-AA
1 TTCAATATCTAACAAGCTTAAAACAATAAA
11760259 -TCAATATCTAACAA
1 TTCAATATCTAACAA
11760273 AATCAAGACA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
27 14 0.34
28 2 0.05
29 2 0.05
32 23 0.56
ACGTcount: A:0.51, C:0.19, G:0.03, T:0.27
Consensus pattern (30 bp):
TTCAATATCTAACAAGCTTAAAACAATAAA
Found at i:11760283 original size:27 final size:27
Alignment explanation
Indices: 11760232--11760286 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
11760222 CATAATAAAT
** *
11760232 TCAATATCTAACAAGCTTAAAACATAA
1 TCAATATCTAACAAAATCAAAACATAA
*
11760259 TCAATATCTAACAAAATCAAGACATAA
1 TCAATATCTAACAAAATCAAAACATAA
11760286 T
1 T
11760287 AATTTCAGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.53, C:0.18, G:0.04, T:0.25
Consensus pattern (27 bp):
TCAATATCTAACAAAATCAAAACATAA
Found at i:11762566 original size:64 final size:64
Alignment explanation
Indices: 11762481--11762608 Score: 238
Period size: 64 Copynumber: 2.0 Consensus size: 64
11762471 CGAGATGATT
* *
11762481 GAGAAGAAAGTGACTGAAGCCAAGCAAGTTTGTGAAGGAGATGAGACATCTGATGAATGCAAAG
1 GAGAAGAAAATGACAGAAGCCAAGCAAGTTTGTGAAGGAGATGAGACATCTGATGAATGCAAAG
11762545 GAGAAGAAAATGACAGAAGCCAAGCAAGTTTGTGAAGGAGATGAGACATCTGATGAATGCAAAG
1 GAGAAGAAAATGACAGAAGCCAAGCAAGTTTGTGAAGGAGATGAGACATCTGATGAATGCAAAG
11762609 TAGCTTGGGA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.42, C:0.11, G:0.30, T:0.16
Consensus pattern (64 bp):
GAGAAGAAAATGACAGAAGCCAAGCAAGTTTGTGAAGGAGATGAGACATCTGATGAATGCAAAG
Found at i:11766898 original size:25 final size:23
Alignment explanation
Indices: 11766868--11766926 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 23
11766858 GAGACATGGC
11766868 CAGTAAGCTCTTCA-TGAGCTGATAA
1 CAGTAAGCTCTTCATTGAGC---TAA
11766893 CAGTAAGCTC-T-ATTGAGCTAA
1 CAGTAAGCTCTTCATTGAGCTAA
11766914 CAGTAAGCTCTTC
1 CAGTAAGCTCTTC
11766927 CAAGCTGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
21 13 0.42
22 1 0.03
23 1 0.03
24 6 0.19
25 10 0.32
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.29
Consensus pattern (23 bp):
CAGTAAGCTCTTCATTGAGCTAA
Found at i:11766932 original size:21 final size:21
Alignment explanation
Indices: 11766890--11766932 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
11766880 CATGAGCTGA
**
11766890 TAACAGTAAGCTCTATTGAGC
1 TAACAGTAAGCTCTATCAAGC
11766911 TAACAGTAAGCTCT-TCCAAGC
1 TAACAGTAAGCTCTAT-CAAGC
11766932 T
1 T
11766933 GAATCGATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (21 bp):
TAACAGTAAGCTCTATCAAGC
Found at i:11778704 original size:14 final size:14
Alignment explanation
Indices: 11778685--11778735 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
11778675 CGAATAAATT
11778685 TAATTTTTTTTTTA
1 TAATTTTTTTTTTA
* **
11778699 TAATTTGTCATTTA
1 TAATTTTTTTTTTA
11778713 TAATAGTTTTTTTTTA
1 TAAT--TTTTTTTTTA
11778729 T-ATTTTT
1 TAATTTTT
11778736 CTATAATTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
13 4 0.14
14 15 0.52
15 2 0.07
16 8 0.28
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.71
Consensus pattern (14 bp):
TAATTTTTTTTTTA
Found at i:11779974 original size:26 final size:26
Alignment explanation
Indices: 11779945--11779998 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
11779935 ATTGAACAAG
11779945 TAAATTTCTTAATTTAAAATTATCTA
1 TAAATTTCTTAATTTAAAATTATCTA
11779971 TAAATTTCTTAATTTAAAATTATCTA
1 TAAATTTCTTAATTTAAAATTATCTA
11779997 TA
1 TA
11779999 TATTATTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (26 bp):
TAAATTTCTTAATTTAAAATTATCTA
Found at i:11780769 original size:13 final size:13
Alignment explanation
Indices: 11780751--11780776 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11780741 TTTTAATTCT
11780751 AAATATTTTTAAA
1 AAATATTTTTAAA
11780764 AAATATTTTTAAA
1 AAATATTTTTAAA
11780777 TTTTACTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATATTTTTAAA
Found at i:11781523 original size:3 final size:3
Alignment explanation
Indices: 11781500--11781679 Score: 124
Period size: 3 Copynumber: 60.3 Consensus size: 3
11781490 GGAGAGAGTG
* * *
11781500 TTA TTT TTA ATA TTG TTA TTA TTA TATA TTA TTA CTTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA -TTA TTA TTA TTA
* *
11781547 -TA TTTA TTA -TA TTA -TA TT- TT- TTA TTA TTG TTA CTA TTA TTA
1 TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * **
11781588 -TA TATA TTTA TTA CCA TTA TTTA CTTA TTA TTA TTA TTA TTA GTA ACA
1 TTA T-TA -TTA TTA TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA
* * *
11781636 -TA TTG TTA TTT TTA TTA TT- TTA TTA TTA TTA TTC TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
11781680 CATGGTACTA
Statistics
Matches: 139, Mismatches: 25, Indels: 26
0.73 0.13 0.14
Matches are distributed among these distances:
2 15 0.11
3 105 0.76
4 18 0.13
5 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:11781545 original size:23 final size:22
Alignment explanation
Indices: 11781510--11781679 Score: 134
Period size: 23 Copynumber: 7.7 Consensus size: 22
11781500 TTATTTTTAA
*
11781510 TATTGTTATTATTATATATTAT
1 TATTATTATTATTATATATTAT
11781532 TACTTATTATTATTATAT-TTAT
1 TA-TTATTATTATTATATATTAT
* *
11781554 TA-TATTA-TATTTTTTATTAT
1 TATTATTATTATTATATATTAT
* *
11781574 TGTTACTATTATTATATA-TATT
1 TATTATTATTATTATATATTA-T
**
11781596 TATTACCATTATT-TACTTATTAT
1 TATTATTATTATTATA--TATTAT
* * *
11781619 TATTATTATTAGTAACATATTGT
1 TATTATTATTA-TTATATATTAT
* *
11781642 TATTTTTATTATTTTATTATTAT
1 TATTATTATTATTATA-TATTAT
*
11781665 TATTCTTATTATTAT
1 TATTATTATTATTAT
11781680 CATGGTACTA
Statistics
Matches: 116, Mismatches: 21, Indels: 21
0.73 0.13 0.13
Matches are distributed among these distances:
19 6 0.05
20 10 0.09
21 8 0.07
22 29 0.25
23 59 0.51
24 3 0.03
25 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (22 bp):
TATTATTATTATTATATATTAT
Found at i:11781571 original size:32 final size:30
Alignment explanation
Indices: 11781516--11781679 Score: 106
Period size: 32 Copynumber: 5.3 Consensus size: 30
11781506 TTAATATTGT
11781516 TATTATTATATAT-TATTACTTATTATTATTA
1 TATTATTATATATAT-TTA-TTATTATTATTA
* *
11781547 TATTTATTATATTATATTTTTTATTATTGTTA
1 TA-TTATTATA-TATATTTATTATTATTATTA
**
11781579 CTATTATTATATATATTTATTACCATTATT-
1 -TATTATTATATATATTTATTATTATTATTA
* * *
11781609 TACTTATTAT-TAT-TATTATTAGTAACATATTGT
1 TA-TTATTATATATAT-TTATTA-TTA-TTATT-A
* *
11781642 TATTTTTAT-TAT-TTTATTATTATTATTCT
1 TATTATTATATATATTTATTATTATTATT-A
11781671 TATTATTAT
1 TATTATTAT
11781680 CATGGTACTA
Statistics
Matches: 109, Mismatches: 14, Indels: 22
0.75 0.10 0.15
Matches are distributed among these distances:
28 1 0.01
29 24 0.22
30 10 0.09
31 27 0.25
32 37 0.34
33 9 0.08
34 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (30 bp):
TATTATTATATATATTTATTATTATTATTA
Found at i:11781583 original size:29 final size:29
Alignment explanation
Indices: 11781503--11781596 Score: 84
Period size: 32 Copynumber: 3.1 Consensus size: 29
11781493 GAGAGTGTTA
*
11781503 TTTTTAATATTGTTATTATTATA-TATTAT
1 TTTTTATTATTGTTATTATTATATTA-TAT
*
11781532 TACTTATTATTATT-ATATTTATTATATTATAT
1 T--TT-TTATTATTGTTA-TTATTATATTATAT
*
11781564 TTTTTATTATTGTTACTATTATTATATATAT
1 TTTTTATTATTGTTATTATTA-TAT-TATAT
11781595 TT
1 TT
11781597 ATTACCATTA
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
29 14 0.26
30 7 0.13
31 11 0.21
32 19 0.36
33 2 0.04
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (29 bp):
TTTTTATTATTGTTATTATTATATTATAT
Found at i:11788709 original size:12 final size:12
Alignment explanation
Indices: 11788692--11788716 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11788682 TTCTGTTCAT
11788692 AGCATCCTAATC
1 AGCATCCTAATC
11788704 AGCATCCTAATC
1 AGCATCCTAATC
11788716 A
1 A
11788717 TTCGGCATAA
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:0.36, C:0.32, G:0.08, T:0.24
Consensus pattern (12 bp):
AGCATCCTAATC
Found at i:11788843 original size:46 final size:46
Alignment explanation
Indices: 11788788--11789013 Score: 299
Period size: 46 Copynumber: 4.9 Consensus size: 46
11788778 CATGAAATTA
* **
11788788 CAGATCCTATACCCCTGAGACATAGTGGGATGGATTGAAGAAAATG
1 CAGATCCTATACCCTTGAGACGCAGTGGGATGGATTGAAGAAAATG
* * * *
11788834 CAGAACCTATACCCCTGAGACGCAATGGGATGGATTAAAGAAAATG
1 CAGATCCTATACCCTTGAGACGCAGTGGGATGGATTGAAGAAAATG
* * * *
11788880 CAAATCCTATATCCTTGAGACGCAGTGGGATGGATTGAAGAGAATA
1 CAGATCCTATACCCTTGAGACGCAGTGGGATGGATTGAAGAAAATG
* ** *
11788926 CAGATCCTATACCTTTGAGACGTGGTGAGATGGATTGAAGAAAATG
1 CAGATCCTATACCCTTGAGACGCAGTGGGATGGATTGAAGAAAATG
* *
11788972 TAGATCCTATACCCTTGAGACGCAGTGGAATGGATTGAAGAA
1 CAGATCCTATACCCTTGAGACGCAGTGGGATGGATTGAAGAA
11789014 GATTACAGAT
Statistics
Matches: 153, Mismatches: 27, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 153 1.00
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (46 bp):
CAGATCCTATACCCTTGAGACGCAGTGGGATGGATTGAAGAAAATG
Found at i:11789334 original size:131 final size:132
Alignment explanation
Indices: 11789011--11789574 Score: 741
Period size: 132 Copynumber: 4.3 Consensus size: 132
11789001 ATGGATTGAA
11789011 GAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATC-AA-A----GAATCTTATCTT
1 GAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTT
* * * *
11789070 CCTGAGGTAGTAGGGAAGCTGATTTAAGCCACTAGCCTTATCTCACTGAGCAGCAGTGGAGCAGG
66 CCCGAGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCTCTGAGCAGCAGTAGAGCAGG
11789135 CT
131 CT
*** * * * *
11789137 GAAGATTACAGATCTTATCTTTGTAAGTAGTAATGGAGCAGATTGAAGACAGCGAATCTCATCTT
1 GAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTT
*
11789202 CCCGAGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTTTCTGAGCAGCAGT-GAGCAGG
66 CCCGAGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCTCTGAGCAGCAGTAGAGCAGG
*
11789266 TT
131 CT
** * *
11789268 GAAGATTGTAGATCTTATCTCCCTAAGTAGTAGTGGAGTAGATCGAAGACGGCGAATATTATCTT
1 GAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTT
* * *
11789333 CCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAACCTTATCTCCCTGAGCAGCAGTAGAGCAGG
66 CCCGAGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCTCTGAGCAGCAGTAGAGCAGG
11789398 CT
131 CT
* * * *
11789400 GAAGATTACAGATCTTATCTCCTTAAGCT-GTAATGGAGCAGATCGAAGACGACAAATCTTATCT
1 GAAGATTACAGATCTTATCTCCCTAAG-TAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCT
* * * *
11789464 TCCCGGGGTAGTAAGGAAGCAGACTTAAACCACTAGCCTTATCTCTCTGAGCAGCAGT-GAGCAG
65 TCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCTCTGAGCAGCAGTAGAGCAG
11789528 GCT
130 GCT
* ** * * * *
11789531 GAAGAATGTAGATCTTATCTCCTTAAGCAGTAGCGGAGTAGATC
1 GAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATC
11789575 TAAGCTACAA
Statistics
Matches: 380, Mismatches: 49, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
126 39 0.10
127 2 0.01
128 1 0.00
131 160 0.42
132 177 0.47
133 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.26
Consensus pattern (132 bp):
GAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTT
CCCGAGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCTCTGAGCAGCAGTAGAGCAGG
CT
Found at i:11789476 original size:263 final size:257
Alignment explanation
Indices: 11789011--11789574 Score: 810
Period size: 263 Copynumber: 2.2 Consensus size: 257
11789001 ATGGATTGAA
** * * *
11789011 GAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCAAAGAATCTTATCTTCCTGAG
1 GAAGATTGTAGATCTTATCTCCCTAAGTAGTAGTGGAGTAGATCAAAGAATATTATCTTCCCGAG
* * * *
11789076 GTAGTAGGGAAGCTGATTTAAGCCACTAGCCTTATCTCACTGAGCAGCAGTGGAGCAGGCTGAAG
66 GTAGTAGGGAAGCAGATTTAAGCCACCAACCTTATCTCACTGAGCAGCAGTAGAGCAGGCTGAAG
* * *
11789141 ATTACAGATCTTATCTTTGTAAGTAGTAATGGAGCAGATTGAAGACAGCGAATCTCATCTTCCCG
131 ATTACAGATCTTATCTCTGTAAGTAGTAATGGAGCAGATCGAAGACAGCAAATCTCATCTTCCCG
* * * * *
11789206 AGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTTTCTGAGCAGCAGTGAGCAGGTT
196 AGGTAGTAAGGAAGCAGACTTAAACCACTAGCCTTATCTCTCTGAGCAGCAGTGAGCAGGCT
11789268 GAAGATTGTAGATCTTATCTCCCTAAGTAGTAGTGGAGTAGATCGAAGACGGCGAATATTATCTT
1 GAAGATTGTAGATCTTATCTCCCTAAGTAGTAGTGGAGTAGATC-AA-A----GAATATTATCTT
*
11789333 CCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAACCTTATCTCCCTGAGCAGCAGTAGAGCAGG
60 CCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAACCTTATCTCACTGAGCAGCAGTAGAGCAGG
*
11789398 CTGAAGATTACAGATCTTATCTCCT-TAAGCT-GTAATGGAGCAGATCGAAGAC-GACAAATCTT
125 CTGAAGATTACAGATCTTATCT-CTGTAAG-TAGTAATGGAGCAGATCGAAGACAG-CAAATCTC
*
11789460 ATCTTCCCGGGGTAGTAAGGAAGCAGACTTAAACCACTAGCCTTATCTCTCTGAGCAGCAGTGAG
187 ATCTTCCCGAGGTAGTAAGGAAGCAGACTTAAACCACTAGCCTTATCTCTCTGAGCAGCAGTGAG
11789525 CAGGCT
252 CAGGCT
* * * *
11789531 GAAGAATGTAGATCTTATCTCCTTAAGCAGTAGCGGAGTAGATC
1 GAAGATTGTAGATCTTATCTCCCTAAGTAGTAGTGGAGTAGATC
11789575 TAAGCTACAA
Statistics
Matches: 274, Mismatches: 24, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
257 41 0.15
258 2 0.01
259 1 0.00
262 1 0.00
263 227 0.83
264 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.26
Consensus pattern (257 bp):
GAAGATTGTAGATCTTATCTCCCTAAGTAGTAGTGGAGTAGATCAAAGAATATTATCTTCCCGAG
GTAGTAGGGAAGCAGATTTAAGCCACCAACCTTATCTCACTGAGCAGCAGTAGAGCAGGCTGAAG
ATTACAGATCTTATCTCTGTAAGTAGTAATGGAGCAGATCGAAGACAGCAAATCTCATCTTCCCG
AGGTAGTAAGGAAGCAGACTTAAACCACTAGCCTTATCTCTCTGAGCAGCAGTGAGCAGGCT
Found at i:11789871 original size:25 final size:25
Alignment explanation
Indices: 11789817--11789865 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
11789807 ACAAGTAGAG
*
11789817 CCCAAAACACTAAATAAATTAACAA
1 CCCAAAACACCAAATAAATTAACAA
11789842 CCCAAAACACCAAATAAATTAACA
1 CCCAAAACACCAAATAAATTAACA
11789866 GTCCAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.59, C:0.27, G:0.00, T:0.14
Consensus pattern (25 bp):
CCCAAAACACCAAATAAATTAACAA
Found at i:11790342 original size:3 final size:3
Alignment explanation
Indices: 11790319--11790497 Score: 95
Period size: 3 Copynumber: 59.3 Consensus size: 3
11790309 GGGGAGAGTG
* * *
11790319 TTA TTT TTA ATA TTG TTA TTA TTA TATA TTA TTA CTTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA -TTA TTA TTA TTA
* * *
11790366 -TA TTTA TTA -TA TTA -TA TTTA TT- TTA TTA CTG TTA CTA TTA TT-
1 TTA -TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * **
11790408 TTA -TA TATA TTTA TTA CCA TTA TTTA TTTA TTTA TTA TTA GTA ACA
1 TTA TTA T-TA -TTA TTA TTA TTA -TTA -TTA -TTA TTA TTA TTA TTA
* * *
11790454 -TA TTG TTA TTT TTA TTA TT- TTA TTA TTA TTA TTC TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
11790498 CATGATACTA
Statistics
Matches: 135, Mismatches: 26, Indels: 30
0.71 0.14 0.16
Matches are distributed among these distances:
2 15 0.11
3 94 0.70
4 25 0.19
5 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:11790359 original size:20 final size:19
Alignment explanation
Indices: 11790329--11790497 Score: 103
Period size: 17 Copynumber: 9.3 Consensus size: 19
11790319 TTATTTTTAA
*
11790329 TATTGTTATTATTATATAT
1 TATTATTATTATTATATAT
11790348 TATTACTTATTATTAT-TA-
1 TATTA-TTATTATTATATAT
11790366 TATTTATTA-TATTATAT-T
1 TA-TTATTATTATTATATAT
* * *
11790384 TATT-TTATTACTGT-TAC
1 TATTATTATTATTATATAT
11790401 TATTATT-TTA-TATATATT
1 TATTATTATTATTATATA-T
**
11790419 TATTACCATTATT-TAT-T
1 TATTATTATTATTATATAT
* *
11790436 TATTTATTATTAGTAACATAT
1 TA-TTATTATTA-TTATATAT
* *
11790457 TGTTATTTTTATTAT-T-T
1 TATTATTATTATTATATAT
*
11790474 TATTATTATTATTCT-TAT
1 TATTATTATTATTATATAT
11790492 TATTAT
1 TATTAT
11790498 CATGATACTA
Statistics
Matches: 115, Mismatches: 19, Indels: 33
0.69 0.11 0.20
Matches are distributed among these distances:
16 6 0.05
17 38 0.33
18 30 0.26
19 18 0.16
20 21 0.18
21 2 0.02
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (19 bp):
TATTATTATTATTATATAT
Found at i:11790364 original size:23 final size:22
Alignment explanation
Indices: 11790329--11790497 Score: 102
Period size: 23 Copynumber: 7.7 Consensus size: 22
11790319 TTATTTTTAA
*
11790329 TATTGTTATTATTATATATTAT
1 TATTATTATTATTATATATTAT
11790351 TACTTATTATTATTATAT-TTAT
1 TA-TTATTATTATTATATATTAT
*
11790373 TA-TATTA-TATT-TATTTTAT
1 TATTATTATTATTATATATTAT
* *
11790392 TACTGTTACTATTATTTTATATATATT
1 TA---TTATTATTATTATATAT-TA-T
**
11790419 TATTACCATTATT-TAT-TTA-
1 TATTATTATTATTATATATTAT
* * *
11790438 T-TTATTATTAGTAACATATTGT
1 TATTATTATTA-TTATATATTAT
* *
11790460 TATTTTTATTATTTTATTATTAT
1 TATTATTATTATTATA-TATTAT
*
11790483 TATTCTTATTATTAT
1 TATTATTATTATTAT
11790498 CATGATACTA
Statistics
Matches: 115, Mismatches: 16, Indels: 31
0.71 0.10 0.19
Matches are distributed among these distances:
18 10 0.09
19 12 0.10
20 7 0.06
21 4 0.03
22 12 0.10
23 47 0.41
24 14 0.12
25 4 0.03
26 2 0.02
27 3 0.03
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (22 bp):
TATTATTATTATTATATATTAT
Found at i:11790442 original size:31 final size:31
Alignment explanation
Indices: 11790337--11790447 Score: 77
Period size: 35 Copynumber: 3.4 Consensus size: 31
11790327 AATATTGTTA
*
11790337 TTATTATATATTATTACTTATT--ATTATTATAT
1 TTATT-TATATTA-TATTTATTCCATTATT-TAT
**
11790369 TTA-TTATATTATATTTATTTTATTACTGTTACT
1 TTATTTATATTATATTTATTCCATTA-T-TTA-T
11790402 ATTATTT-TATATATATTTATTACCATTATTTAT
1 -TTATTTATAT-TATATTTATT-CCATTATTTAT
11790435 TTATTTATTATTA
1 TTATTTA-TATTA
11790448 GTAACATATT
Statistics
Matches: 65, Mismatches: 3, Indels: 21
0.73 0.03 0.24
Matches are distributed among these distances:
29 7 0.11
30 7 0.11
31 5 0.08
32 12 0.18
33 5 0.08
34 12 0.18
35 13 0.20
36 4 0.06
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.63
Consensus pattern (31 bp):
TTATTTATATTATATTTATTCCATTATTTAT
Found at i:11792351 original size:63 final size:63
Alignment explanation
Indices: 11792252--11792376 Score: 214
Period size: 63 Copynumber: 2.0 Consensus size: 63
11792242 TCTCTCCCAC
* * *
11792252 AATTTAGGCCTCATTATGAGTCAGGTTATCTGTCCAGATTTGAATGTCCATTCGAAATGTGGA
1 AATTTAGGCCTCATCATGAGTCAGGTTATCTGTCCAGATTTGAATGTCCATTAGAAAAGTGGA
*
11792315 AATTTAGGCCTCATCATGAGTCGGGTTATCTGTCCAGATTTGAATGTCCATTAGAAAAGTGG
1 AATTTAGGCCTCATCATGAGTCAGGTTATCTGTCCAGATTTGAATGTCCATTAGAAAAGTGG
11792377 GAGGGTTTGG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (63 bp):
AATTTAGGCCTCATCATGAGTCAGGTTATCTGTCCAGATTTGAATGTCCATTAGAAAAGTGGA
Found at i:11792537 original size:11 final size:11
Alignment explanation
Indices: 11792521--11792568 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
11792511 TCTGTTGCTA
*
11792521 TTTGCTATTGT
1 TTTGCTATTAT
*
11792532 TTTGCTATCAT
1 TTTGCTATTAT
11792543 TTTGCTATTAT
1 TTTGCTATTAT
* * *
11792554 ATTGTTACTAT
1 TTTGCTATTAT
11792565 TTTG
1 TTTG
11792569 TTGTTATTAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.17, C:0.10, G:0.12, T:0.60
Consensus pattern (11 bp):
TTTGCTATTAT
Found at i:11795350 original size:20 final size:20
Alignment explanation
Indices: 11795325--11795363 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
11795315 GTTTTTACAT
11795325 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
11795345 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
11795364 TTTTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:11799327 original size:33 final size:33
Alignment explanation
Indices: 11799235--11799364 Score: 113
Period size: 33 Copynumber: 3.9 Consensus size: 33
11799225 ATATTTTCAC
* **
11799235 AGCTCACACATTACTACAGCTCACACATTA-CAT
1 AGCTCACACATTAC-ACAGCTCACACATCATTGT
** ** *
11799268 AGCTTGCACATTACACAATTCGCACATCATTGT
1 AGCTCACACATTACACAGCTCACACATCATTGT
*
11799301 AGCTCACAGATTACACAGCTCACACATCACTATG-
1 AGCTCACACATTACACAGCTCACACATCA-T-TGT
* *
11799335 A-CTCGCAAATTACACAGCTCACACATCATT
1 AGCTCACACATTACACAGCTCACACATCATT
11799365 ACGACTCGCA
Statistics
Matches: 78, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
31 1 0.01
32 12 0.15
33 61 0.78
34 2 0.03
35 2 0.03
ACGTcount: A:0.35, C:0.32, G:0.09, T:0.25
Consensus pattern (33 bp):
AGCTCACACATTACACAGCTCACACATCATTGT
Found at i:11799347 original size:66 final size:66
Alignment explanation
Indices: 11799235--11799364 Score: 165
Period size: 66 Copynumber: 2.0 Consensus size: 66
11799225 ATATTTTCAC
* * * * *
11799235 AGCTCACACATTACTACAGCTCACACATTACATAGCTTGCACATTACACAATTCGCACATCATTG
1 AGCTCACACATTACTACAGCTCACACATCACATAGCTCGCAAATTACACAACTCACACATCATTG
11799300 T
66 T
* *
11799301 AGCTCACAGATTAC-ACAGCTCACACATCAC-TATGACTCGCAAATTACACAGCTCACACATCAT
1 AGCTCACACATTACTACAGCTCACACATCACATA-G-CTCGCAAATTACACAACTCACACATCAT
11799364 T
64 T
11799365 ACGACTCGCA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
64 2 0.04
65 16 0.29
66 37 0.67
ACGTcount: A:0.35, C:0.32, G:0.09, T:0.25
Consensus pattern (66 bp):
AGCTCACACATTACTACAGCTCACACATCACATAGCTCGCAAATTACACAACTCACACATCATTG
T
Found at i:11799371 original size:33 final size:33
Alignment explanation
Indices: 11799310--11799374 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
11799300 TAGCTCACAG
*
11799310 ATTACACAGCTCACACATCACTATGACTCGCAA
1 ATTACACAGCTCACACATCACTACGACTCGCAA
*
11799343 ATTACACAGCTCACACATCATTACGACTCGCA
1 ATTACACAGCTCACACATCACTACGACTCGCA
11799375 CATTGATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.35, C:0.34, G:0.09, T:0.22
Consensus pattern (33 bp):
ATTACACAGCTCACACATCACTACGACTCGCAA
Found at i:11818134 original size:17 final size:17
Alignment explanation
Indices: 11818102--11818143 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
11818092 AAAGTCCTAG
11818102 CTTTTTCTCCTTTCTTTCT
1 CTTTTTCT-CTTTC-TTCT
11818121 CTTTTTCT-TTTCTTCT
1 CTTTTTCTCTTTCTTCT
11818137 CTGTTTT
1 CT-TTTT
11818144 GTTTCTGCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 6 0.27
17 8 0.36
19 8 0.36
ACGTcount: A:0.00, C:0.26, G:0.02, T:0.71
Consensus pattern (17 bp):
CTTTTTCTCTTTCTTCT
Found at i:11822977 original size:13 final size:13
Alignment explanation
Indices: 11822959--11822983 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11822949 CAAGTACCCA
11822959 ACCCAACCCAATT
1 ACCCAACCCAATT
11822972 ACCCAACCCAAT
1 ACCCAACCCAAT
11822984 CATAAAAATT
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:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:11823021 original size:5 final size:6
Alignment explanation
Indices: 11823008--11823048 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
11822998 ATAATTTAAT
*
11823008 AAATAA AAATAA AAATTTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
11823049 ACATATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:11823036 original size:20 final size:21
Alignment explanation
Indices: 11823000--11823043 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
11822990 AATTACAAAT
11823000 AATTTAATAAATAAAAATAAA
1 AATTTAATAAATAAAAATAAA
*
11823021 AATTTAA-AACTAAAAATAAA
1 AATTTAATAAATAAAAATAAA
11823041 AAT
1 AAT
11823044 AAAAAACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
AATTTAATAAATAAAAATAAA
Found at i:11823049 original size:20 final size:20
Alignment explanation
Indices: 11823011--11823050 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
11823001 ATTTAATAAA
**
11823011 TAAAAATAAAAATTTAAAAC
1 TAAAAATAAAAATAAAAAAC
11823031 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
11823051 ATATAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:11823091 original size:18 final size:18
Alignment explanation
Indices: 11823068--11823144 Score: 102
Period size: 18 Copynumber: 4.3 Consensus size: 18
11823058 TTTATACAAA
*
11823068 TAATTCGATTAATTTGGT
1 TAATTCGGTTAATTTGGT
11823086 TAATTCGGTTAATTTAGG-
1 TAATTCGGTTAATTT-GGT
* * *
11823104 TAATTCGGGTAATTCGGG
1 TAATTCGGTTAATTTGGT
11823122 TAATTCGGTTAATTTGGT
1 TAATTCGGTTAATTTGGT
11823140 TAATT
1 TAATT
11823145 TTATACTTAT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
17 2 0.04
18 47 0.92
19 2 0.04
ACGTcount: A:0.26, C:0.06, G:0.22, T:0.45
Consensus pattern (18 bp):
TAATTCGGTTAATTTGGT
Found at i:11823145 original size:9 final size:9
Alignment explanation
Indices: 11823068--11823144 Score: 84
Period size: 9 Copynumber: 8.6 Consensus size: 9
11823058 TTTATACAAA
*
11823068 TAATTCGAT
1 TAATTCGGT
*
11823077 TAATTTGGT
1 TAATTCGGT
11823086 TAATTCGGT
1 TAATTCGGT
*
11823095 TAATTTAGG-
1 TAA-TTCGGT
*
11823104 TAATTCGGG
1 TAATTCGGT
*
11823113 TAATTCGGG
1 TAATTCGGT
11823122 TAATTCGGT
1 TAATTCGGT
*
11823131 TAATTTGGT
1 TAATTCGGT
11823140 TAATT
1 TAATT
11823145 TTATACTTAT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
8 4 0.07
9 51 0.86
10 4 0.07
ACGTcount: A:0.26, C:0.06, G:0.22, T:0.45
Consensus pattern (9 bp):
TAATTCGGT
Found at i:11823332 original size:12 final size:12
Alignment explanation
Indices: 11823315--11823339 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11823305 TGTTATTTCG
11823315 GGTCGGTTAACC
1 GGTCGGTTAACC
11823327 GGTCGGTTAACC
1 GGTCGGTTAACC
11823339 G
1 G
11823340 ATTGAACACT
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:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:11824717 original size:4 final size:4
Alignment explanation
Indices: 11824708--11824746 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
11824698 GCTTTTTCTC
* *
11824708 CTTT CTTT CTTT CTTT TTTT CTTTT CTTT CTTT CCTT CT
1 CTTT CTTT CTTT CTTT CTTT C-TTT CTTT CTTT CTTT CT
11824747 CTGTTTCGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
4 26 0.87
5 4 0.13
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
CTTT
Found at i:11824724 original size:21 final size:21
Alignment explanation
Indices: 11824699--11824741 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
11824689 AAAATCCTAG
11824699 CTTTTTCTCCTTTCTTTCTTT
1 CTTTTTCTCCTTTCTTTCTTT
* *
11824720 CTTTTTTTCTTTTCTTTCTTT
1 CTTTTTCTCCTTTCTTTCTTT
11824741 C
1 C
11824742 CTTCTCTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (21 bp):
CTTTTTCTCCTTTCTTTCTTT
Found at i:11824746 original size:17 final size:17
Alignment explanation
Indices: 11824713--11824746 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11824703 TTCTCCTTTC
**
11824713 TTTCTTTCTTTTTTTCT
1 TTTCTTTCTTTCCTTCT
11824730 TTTCTTTCTTTCCTTCT
1 TTTCTTTCTTTCCTTCT
11824747 CTGTTTCGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTCTTTCTTTCCTTCT
Found at i:11824753 original size:25 final size:25
Alignment explanation
Indices: 11824708--11824759 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
11824698 GCTTTTTCTC
* * * *
11824708 CTTTCTTTCTTTCTTTTTTTCTTTT
1 CTTTCTTTCCTTCTCTGTTTCGTTT
11824733 CTTTCTTTCCTTCTCTGTTTCGTTT
1 CTTTCTTTCCTTCTCTGTTTCGTTT
11824758 CT
1 CT
11824760 GCTTTGGCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.00, C:0.25, G:0.04, T:0.71
Consensus pattern (25 bp):
CTTTCTTTCCTTCTCTGTTTCGTTT
Found at i:11824827 original size:5 final size:5
Alignment explanation
Indices: 11824817--11824866 Score: 100
Period size: 5 Copynumber: 10.0 Consensus size: 5
11824807 TTTTTATTAT
11824817 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
11824867 TATTTATACT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 45 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:11824917 original size:15 final size:15
Alignment explanation
Indices: 11824815--11824917 Score: 79
Period size: 15 Copynumber: 6.7 Consensus size: 15
11824805 TTTTTTTATT
11824815 ATATATAATATAATATA
1 ATATAT-AT-TAATATA
11824832 ATATA-ATATAATATA
1 ATATATAT-TAATATA
11824847 ATATA-ATATAATATA
1 ATATATAT-TAATATA
11824862 ATATATATT--TATA
1 ATATATATTAATATA
* * *
11824875 CTTATATGTTAAGTAAA
1 -ATATATATTAA-TATA
* *
11824892 AGATATTTTAATATA
1 ATATATATTAATATA
11824907 ATATATATTAA
1 ATATATATTAA
11824918 ATTCAAAAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
13 4 0.06
14 7 0.10
15 43 0.60
16 10 0.14
17 8 0.11
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (15 bp):
ATATATATTAATATA
Found at i:11827471 original size:22 final size:22
Alignment explanation
Indices: 11827445--11827493 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
11827435 GTCCAAGTGC
* *
11827445 ATAACTATTATTACACCATATG
1 ATAACTAATATTACACCACATG
11827467 ATAACTAATATTACACCACATG
1 ATAACTAATATTACACCACATG
11827489 ATAAC
1 ATAAC
11827494 AACAACATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.45, C:0.20, G:0.04, T:0.31
Consensus pattern (22 bp):
ATAACTAATATTACACCACATG
Found at i:11829739 original size:17 final size:17
Alignment explanation
Indices: 11829716--11829759 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
11829706 GAGATTGAAT
*
11829716 TGAAAAATTACT-TAAC
1 TGAAAAATTACTAAAAC
11829732 TAGAAAAA-TACTAAAAC
1 T-GAAAAATTACTAAAAC
11829749 TGAAAAATTAC
1 TGAAAAATTAC
11829760 ATTCCTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.57, C:0.11, G:0.07, T:0.25
Consensus pattern (17 bp):
TGAAAAATTACTAAAAC
Found at i:11831431 original size:13 final size:13
Alignment explanation
Indices: 11831413--11831441 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
11831403 TTTAGTTTAA
11831413 TTAGTTAATTAGT
1 TTAGTTAATTAGT
11831426 TTAGTTAATTAGT
1 TTAGTTAATTAGT
11831439 TTA
1 TTA
11831442 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:11836808 original size:6 final size:6
Alignment explanation
Indices: 11836797--11836829 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
11836787 TCCTTCTATC
*
11836797 TTTTTA TTTTTA TTTTTA TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
11836830 CAATTATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:11839808 original size:13 final size:13
Alignment explanation
Indices: 11839790--11839818 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
11839780 TTTAGTTTAA
11839790 TTAGTTAATTAGT
1 TTAGTTAATTAGT
11839803 TTAGTTAATTAGT
1 TTAGTTAATTAGT
11839816 TTA
1 TTA
11839819 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:11856127 original size:47 final size:46
Alignment explanation
Indices: 11855889--11856243 Score: 219
Period size: 47 Copynumber: 7.6 Consensus size: 46
11855879 TTGTCGATTC
* * *
11855889 CATGTCCCAGACATGGTCTTACACGGGCTCTCATA-TACGCGTGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTATCATAGTA--TG-GCTGATG
* * * *
11855938 CATGTCCCAGACATGTCTTACACTTGC-A-CA-ACTCTTAGGC-AATG
1 CATGTCCCAGACATGTCTTACACTGGCTATCATAGT-AT-GGCTGATG
* * * * *
11855982 CGTGTCCCAGACACGTCTTACACTGGCTATC-TCTGTCGA-GGCCGACG
1 CATGTCCCAGACATGTCTTACACTGGCTATCAT-AGT--ATGGCTGATG
* ** *
11856029 CATGTCCCAAACATGTCTTACACTGGC-ACTCA-CCTCTGTG-TCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTA-TCATAGTATG-GCT-GATG
*
11856075 CCATGTCCCAGACATGGTCTTACACTGGCTATTATAGTATGGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTATCATAGTATGGCTGATG
* ** * * * *
11856123 CATGTCCCAGACATGTCTTACACTAGCCCTCGTCTGGAT-GCAGATG
1 CATGTCCCAGACATGTCTTACACTGGCTATCAT-AGTATGGCTGATG
* * * *
11856169 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATATGGCCGAAG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTATCATAGTATGGCTGATG
*
11856217 GATGTCCCAGACATGTCTTACACTGGC
1 CATGTCCCAGACATGTCTTACACTGGC
11856244 GTACAAATCA
Statistics
Matches: 238, Mismatches: 45, Indels: 49
0.72 0.14 0.15
Matches are distributed among these distances:
44 27 0.11
45 5 0.02
46 47 0.20
47 88 0.37
48 52 0.22
49 19 0.08
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTATCATAGTATGGCTGATG
Found at i:11856128 original size:94 final size:93
Alignment explanation
Indices: 11855880--11856243 Score: 359
Period size: 94 Copynumber: 3.9 Consensus size: 93
11855870 TGAGATATAT
* * * * *
11855880 TGTCGATTCCATGTCCCAGACATGGTCTTACACGGGCTCTCATA-TACGCGTGCTGATGCATGTC
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTA--TG-GCCGATGCATGTC
* *
11855944 CCAGACATGTCTTACACTTGCA-CAACTCT-
63 CCAGACATGTCTTACACTGGCACCACCTCTG
* * * * * *
11855973 TAGGCAATG-CGTGTCCCAGACA-CGTCTTACACTGGCTATC-TCTGTCGA-GGCCGACGCATGT
1 T-GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGT--ATGGCCGATGCATGT
*
11856034 CCCAAACATGTCTTACACTGGCACTCACCTCTG
62 CCCAGACATGTCTTACACTGGCAC-CACCTCTG
* *
11856067 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATTATAGTATGGCTGATGCATGTCCCA
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCCGATGCATGTCCCA
* * *
11856132 GACATGTCTTACACTAGC-CCTCGTCTG
66 GACATGTCTTACACTGGCACCACCTCTG
* * * *
11856159 -GATGCAGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATATGGCCGAAGGATGTC
1 TG-T-C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCCGATGCATGTC
11856223 CCAGACATGTCTTACACTGGC
63 CCAGACATGTCTTACACTGGC
11856244 GTACAAATCA
Statistics
Matches: 224, Mismatches: 32, Indels: 29
0.79 0.11 0.10
Matches are distributed among these distances:
91 33 0.15
92 23 0.10
93 28 0.12
94 120 0.54
95 19 0.08
96 1 0.00
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.27
Consensus pattern (93 bp):
TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCCGATGCATGTCCCA
GACATGTCTTACACTGGCACCACCTCTG
Found at i:11856222 original size:141 final size:138
Alignment explanation
Indices: 11855888--11856243 Score: 362
Period size: 141 Copynumber: 2.5 Consensus size: 138
11855878 ATTGTCGATT
* * *
11855888 CCATGTCCCAGACATGGTCTTACACGGGCTCTCATATACGCGTGCTGATGCATGTCCCAGACATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATATA--TGTGCCGATGCATGTCCCAGACATG
* ** * * *
11855953 TCTTACACTTGCACAACTCTTAGGCAATGCGTGTCCCAGACACGTCTTACACTGGCTATCTCTGT
64 TCTTACACTGGCACAACTAGTAGGCAATGCATGTCCCAGACACGTCTTACACTAGCCATCTCTG-
*
11856018 CGAGGCCGACG
128 CGAGGCAGACG
* * ** * *
11856029 -CATGTCCCAAACAT-GTCTTACACTGGCACTCACCTCTGTGTCGATGCCATGTCCCAGACATGG
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGTGCCGATG-CATGTCCCAGACAT-G
** * * *
11856092 TCTTACACTGGCTATTA-TAGTATGGCTGATGCATGTCCCAGACATGTCTTACACTAGCCCTCGT
64 TCTTACACTGGC-ACAACTAGTA-GGC-AATGCATGTCCCAGACACGTCTTACACTAGCCATC-T
* *
11856156 CTG-GATGCAGATG
125 CTGCGAGGCAGACG
* *
11856169 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATATG-GCCGAAGGATGTCCCAGACATGT
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATATGTGCCGATGCATGTCCCAGACATGT
11856233 CTTACACTGGC
65 CTTACACTGGC
11856244 GTACAAATCA
Statistics
Matches: 175, Mismatches: 31, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
137 7 0.04
138 14 0.08
139 32 0.18
140 38 0.22
141 55 0.31
142 26 0.15
143 3 0.02
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (138 bp):
CCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGTGCCGATGCATGTCCCAGACATGTC
TTACACTGGCACAACTAGTAGGCAATGCATGTCCCAGACACGTCTTACACTAGCCATCTCTGCGA
GGCAGACG
Found at i:11859057 original size:12 final size:13
Alignment explanation
Indices: 11859029--11859060 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
11859019 AATTTAAAAC
11859029 TTTTAAGATAGAT
1 TTTTAAGATAGAT
11859042 TTTTAAGATAGAT
1 TTTTAAGATAGAT
11859055 TTTTAA
1 TTTTAA
11859061 TTATTATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (13 bp):
TTTTAAGATAGAT
Found at i:11859140 original size:20 final size:20
Alignment explanation
Indices: 11859076--11859139 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
11859066 ATAATGTTTG
11859076 AACAAGGGCA-CAAATGTGCA
1 AACAAGGGCACCAAA-GTGCA
* * *
11859096 TACAAGGCCACCATAGTGCA
1 AACAAGGGCACCAAAGTGCA
*
11859116 AACAGGGGCACCAAAGTGCA
1 AACAAGGGCACCAAAGTGCA
11859136 AACA
1 AACA
11859140 GAATAAGCGT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 33 0.92
21 3 0.08
ACGTcount: A:0.42, C:0.25, G:0.23, T:0.09
Consensus pattern (20 bp):
AACAAGGGCACCAAAGTGCA
Found at i:11861907 original size:41 final size:41
Alignment explanation
Indices: 11861700--11861896 Score: 308
Period size: 41 Copynumber: 4.8 Consensus size: 41
11861690 TTTATCGTTA
* * * * *
11861700 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAACGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
11861741 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
11861782 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
11861823 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
11861864 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
11861897 AAGAGCCGGT
Statistics
Matches: 147, Mismatches: 5, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 142 0.97
42 2 0.01
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:11862167 original size:33 final size:33
Alignment explanation
Indices: 11862111--11862208 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
11862101 ATAGATATGT
*
11862111 ATATATATATATGT-TGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
*
11862143 ATATATTTATGTGTATGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
* * *
11862176 AAATAAGTGTATGTATCTATGCATTCGGCATAG
1 ATAT-A-TATATG--TGTATGCATTCGGCATAG
11862209 ATGGGTATAG
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 21 0.38
34 1 0.02
35 5 0.09
37 17 0.30
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (33 bp):
ATATATATATGTGTATGCATTCGGCATAGGTGA
Found at i:11869579 original size:41 final size:41
Alignment explanation
Indices: 11869372--11869568 Score: 308
Period size: 41 Copynumber: 4.8 Consensus size: 41
11869362 TTTATCGTTA
* * * * *
11869372 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAACGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
11869413 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
11869454 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
11869495 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
11869536 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
11869569 AAGAGCCGGT
Statistics
Matches: 147, Mismatches: 5, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 142 0.97
42 2 0.01
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:11869875 original size:37 final size:32
Alignment explanation
Indices: 11869799--11869881 Score: 103
Period size: 32 Copynumber: 2.4 Consensus size: 32
11869789 ATATATATGT
* *
11869799 TGCATTCGGCATAGGTGAAATATTTATGTGTA
1 TGCATTCGGCATAGGTGAAATATGTATGTCTA
11869831 TGCATTCGGCATAGGTGAAAATAAGTGTATGTATCTA
1 TGCATTCGGCATAGGTG-AAAT-A-TGTATG--TCTA
11869868 TGCATTCGGCATAG
1 TGCATTCGGCATAG
11869882 ATGGGTATAG
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
32 17 0.39
33 4 0.09
34 1 0.02
35 5 0.11
37 17 0.39
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (32 bp):
TGCATTCGGCATAGGTGAAATATGTATGTCTA
Found at i:11872263 original size:31 final size:31
Alignment explanation
Indices: 11872228--11872310 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
11872218 CTTCCTGCAT
* *
11872228 TAAAATCCAACCAAATACAACAAATATAGTA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
* * * *
11872259 TAAAATGCAGCCAAAAACAGCAAATTTAGCA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
*
11872290 TAAAAAATACAACCAAAAACA
1 T--AAAATCCAACCAAAAACA
11872311 TTAATTCTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 26 0.62
33 16 0.38
ACGTcount: A:0.59, C:0.19, G:0.06, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAGCA
Found at i:11872592 original size:24 final size:21
Alignment explanation
Indices: 11872542--11872594 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
11872532 TCTGCTGCCA
*
11872542 TCGCTGCTGCCACTGCCTCCC
1 TCGCTGCTGCCACTACCTCCC
*
11872563 TCGCTGCTGCTACTACCTCCC
1 TCGCTGCTGCCACTACCTCCC
*
11872584 TCTCTGCTGCC
1 TCGCTGCTGCC
11872595 TCCGCTCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.06, C:0.49, G:0.17, T:0.28
Consensus pattern (21 bp):
TCGCTGCTGCCACTACCTCCC
Found at i:11878186 original size:9 final size:9
Alignment explanation
Indices: 11878165--11878285 Score: 54
Period size: 9 Copynumber: 13.6 Consensus size: 9
11878155 TATATATTAC
*
11878165 GTAAGTTAA
1 GTAAGTTAT
11878174 GTAAGCTT-T
1 GTAAG-TTAT
11878183 GTAAGTTAT
1 GTAAGTTAT
11878192 GTAAGTTAT
1 GTAAGTTAT
* *
11878201 GTTA-TGAT
1 GTAAGTTAT
* *
11878209 ATACATTTAT
1 GTA-AGTTAT
**
11878219 GTAAGGCAT
1 GTAAGTTAT
11878228 GTAAGTTAT
1 GTAAGTTAT
* *
11878237 GATATGATAT
1 G-TAAGTTAT
* *
11878247 AT-ATTTAT
1 GTAAGTTAT
*
11878255 AT-A-TTAT
1 GTAAGTTAT
*
11878262 GTAAGTTGT
1 GTAAGTTAT
11878271 GTAAGTTAT
1 GTAAGTTAT
11878280 GATAAG
1 G-TAAG
11878286 ATATATATTT
Statistics
Matches: 83, Mismatches: 21, Indels: 15
0.70 0.18 0.13
Matches are distributed among these distances:
7 5 0.06
8 13 0.16
9 48 0.58
10 17 0.20
ACGTcount: A:0.35, C:0.02, G:0.20, T:0.43
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:11878325 original size:48 final size:43
Alignment explanation
Indices: 11878215--11878302 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 43
11878205 TGATATACAT
** *
11878215 TTATGTAAGGCATGTAAGTTATGATATGATATATATTTATATA
1 TTATGTAAGTTATGTAAGTTATGATAAGATATATATTTATATA
*
11878258 TTATGTAAGTTGTGTAAGTTATGATAAGATATATATTTATGATA
1 TTATGTAAGTTATGTAAGTTATGATAAGATATATATTTAT-ATA
11878302 T
1 T
11878303 ATATTTGGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 36 0.90
44 4 0.10
ACGTcount: A:0.36, C:0.01, G:0.17, T:0.45
Consensus pattern (43 bp):
TTATGTAAGTTATGTAAGTTATGATAAGATATATATTTATATA
Found at i:11878373 original size:113 final size:112
Alignment explanation
Indices: 11878239--11878449 Score: 343
Period size: 113 Copynumber: 1.9 Consensus size: 112
11878229 TAAGTTATGA
*
11878239 TATGATATATATTTATATATTATGTAAGTTGTGTAAGTTATGATAAGATATATATTTATGATATA
1 TATGAAATATATTTATATATTATGTAAGTTGTGTAAGTTATGATAAGATATATATTTATGATATA
11878304 TATTTGGA-GCATTATGTAAGTTGTGTAAGTTATGATATGATACATATT
66 TATTT--ATGCATTATGTAAGTTGTGTAAGTTATGATATGATACATATT
* * *
11878352 TATGAAATATATTTATGTATTATGTTAGTTGTGTAAGTTATGATATGATATATATTTATGATATA
1 TATGAAATATATTTATATATTATGTAAGTTGTGTAAGTTATGATAAGATATATATTTATGATATA
* *
11878417 TATTTATGTATTATGTAAGTTTTGTAAGTTATG
66 TATTTATGCATTATGTAAGTTGTGTAAGTTATG
11878450 TAAGTTTTGT
Statistics
Matches: 91, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
111 1 0.01
112 24 0.26
113 66 0.73
ACGTcount: A:0.34, C:0.01, G:0.17, T:0.48
Consensus pattern (112 bp):
TATGAAATATATTTATATATTATGTAAGTTGTGTAAGTTATGATAAGATATATATTTATGATATA
TATTTATGCATTATGTAAGTTGTGTAAGTTATGATATGATACATATT
Found at i:11878413 original size:13 final size:13
Alignment explanation
Indices: 11878395--11878424 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
11878385 TAAGTTATGA
11878395 TATGATATATATT
1 TATGATATATATT
11878408 TATGATATATATT
1 TATGATATATATT
11878421 TATG
1 TATG
11878425 TATTATGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (13 bp):
TATGATATATATT
Found at i:11878444 original size:9 final size:9
Alignment explanation
Indices: 11878427--11878475 Score: 80
Period size: 9 Copynumber: 5.4 Consensus size: 9
11878417 TATTTATGTA
11878427 TTATGTAAG
1 TTATGTAAG
*
11878436 TTTTGTAAG
1 TTATGTAAG
11878445 TTATGTAAG
1 TTATGTAAG
*
11878454 TTTTGTAAG
1 TTATGTAAG
11878463 TTATGTAAG
1 TTATGTAAG
11878472 TTAT
1 TTAT
11878476 TATATGATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (9 bp):
TTATGTAAG
Found at i:11878450 original size:18 final size:18
Alignment explanation
Indices: 11878427--11878473 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
11878417 TATTTATGTA
11878427 TTATGTAAGTTTTGTAAG
1 TTATGTAAGTTTTGTAAG
11878445 TTATGTAAGTTTTGTAAG
1 TTATGTAAGTTTTGTAAG
11878463 TTATGTAAGTT
1 TTATGTAAGTT
11878474 ATTATATGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.51
Consensus pattern (18 bp):
TTATGTAAGTTTTGTAAG
Found at i:11878467 original size:56 final size:56
Alignment explanation
Indices: 11878239--11878453 Score: 326
Period size: 56 Copynumber: 3.8 Consensus size: 56
11878229 TAAGTTATGA
*
11878239 TATGATATATATTTATATATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
1 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
* * *
11878295 TATGATATATATTTGGA-GCATTATGTAAGTTGTGTAAGTTATGATATGATACATATT
1 TATGATATATATTT--ATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
* * *
11878352 TATGAAATATATTTATGTATTATGTTAGTTGTGTAAGTTATGATATGATATATATT
1 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
*
11878408 TATGATATATATTTATGTATTATGTAAGTTTTGTAAGTTATG-TAAG
1 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAG
11878454 TTTTGTAAGT
Statistics
Matches: 144, Mismatches: 12, Indels: 7
0.88 0.07 0.04
Matches are distributed among these distances:
55 4 0.03
56 90 0.62
57 49 0.34
58 1 0.01
ACGTcount: A:0.34, C:0.01, G:0.17, T:0.48
Consensus pattern (56 bp):
TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
Found at i:11878926 original size:37 final size:37
Alignment explanation
Indices: 11878882--11878972 Score: 104
Period size: 36 Copynumber: 2.5 Consensus size: 37
11878872 AAATTATATT
*
11878882 AATTGATAAATATTGAAATAT-TG-AAAT-ATATTTAA
1 AATTGATAAATATTGAAATATAAGCAAATCAT-TTTAA
11878917 AATGTTGAT-AA-A-TGAAATATAAGCAAATCATTTTAA
1 AA--TTGATAAATATTGAAATATAAGCAAATCATTTTAA
11878953 AATTGATAAATATTGAAATA
1 AATTGATAAATATTGAAATA
11878973 CATTAAAGAA
Statistics
Matches: 47, Mismatches: 1, Indels: 14
0.76 0.02 0.23
Matches are distributed among these distances:
34 13 0.28
35 6 0.13
36 14 0.30
37 14 0.30
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.36
Consensus pattern (37 bp):
AATTGATAAATATTGAAATATAAGCAAATCATTTTAA
Found at i:11882585 original size:26 final size:26
Alignment explanation
Indices: 11882555--11882713 Score: 266
Period size: 26 Copynumber: 6.2 Consensus size: 26
11882545 TGAAATGCCC
*
11882555 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
11882581 ATCATGAAACATTTACCT-ACCCATT
1 ATCATGAAACATTTACCTAACCCATT
*
11882606 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
11882632 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
* *
11882658 ATCATGAAATATTTACCTAATCCATT
1 ATCATGAAACATTTACCTAACCCATT
*
11882684 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
11882710 ATCA
1 ATCA
11882714 ATTTGTACCA
Statistics
Matches: 124, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
25 24 0.19
26 100 0.81
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:11882739 original size:78 final size:77
Alignment explanation
Indices: 11882555--11882713 Score: 246
Period size: 77 Copynumber: 2.1 Consensus size: 77
11882545 TGAAATGCCC
* * *
11882555 ATCATGGAACATTTACCTAACCCATTATCATGAAACATTTACCTACCCATTATCATGGAACATTT
1 ATCATGAAACATTGACATAACCCATTATCATGAAACATTTACCTACCCATTATCATGGAACATTT
11882620 ACCTAACCCATT
66 ACCTAACCCATT
* * * *
11882632 ATCATGAAACATTTACCTAACCCATTATCATGAAATATTTACCTAATCCATTATCATGGAACATT
1 ATCATGAAACATTGACATAACCCATTATCATGAAACATTTACCT-ACCCATTATCATGGAACATT
11882697 TACCTAACCCATT
65 TACCTAACCCATT
11882710 ATCA
1 ATCA
11882714 ATTTGTACCA
Statistics
Matches: 78, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
77 42 0.54
78 36 0.46
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.32
Consensus pattern (77 bp):
ATCATGAAACATTGACATAACCCATTATCATGAAACATTTACCTACCCATTATCATGGAACATTT
ACCTAACCCATT
Found at i:11884155 original size:19 final size:18
Alignment explanation
Indices: 11884131--11884179 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
11884121 TTCTCTTCAG
11884131 TTTATTTAAAAATATTTTA
1 TTTA-TTAAAAATATTTTA
*
11884150 TTTATTAAAATTATTTT-
1 TTTATTAAAAATATTTTA
*
11884167 TATTATTATAAAT
1 T-TTATTAAAAAT
11884180 TTTAATTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 1 0.04
18 21 0.81
19 4 0.15
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTATTAAAAATATTTTA
Found at i:11885753 original size:59 final size:60
Alignment explanation
Indices: 11885639--11885761 Score: 176
Period size: 60 Copynumber: 2.1 Consensus size: 60
11885629 TGCGGAAAAA
* * ** * *
11885639 GGGGTAATTATTTTAGGGTTTTGAATTAGGGAAAATGGGGGGAAATAAACTAGGGAGAAG
1 GGGGTAATTATTTTAGGGATTCGAAGAAGGGAAAATGAGGGGAAATAAACCAGGGAGAAG
*
11885699 GGGGTGATTATTTTAGGGATTCGAAGAAGGGAAAAT-AGGGGAAATAAACCAGGGAGAAG
1 GGGGTAATTATTTTAGGGATTCGAAGAAGGGAAAATGAGGGGAAATAAACCAGGGAGAAG
11885758 GGGG
1 GGGG
11885762 AAAATGAATA
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
59 25 0.45
60 31 0.55
ACGTcount: A:0.36, C:0.03, G:0.39, T:0.22
Consensus pattern (60 bp):
GGGGTAATTATTTTAGGGATTCGAAGAAGGGAAAATGAGGGGAAATAAACCAGGGAGAAG
Found at i:11886227 original size:230 final size:229
Alignment explanation
Indices: 11885852--11886302 Score: 530
Period size: 230 Copynumber: 2.0 Consensus size: 229
11885842 GTTTTCCCCT
*
11885852 AGCGCCGCTAAAGGCAAACCAATTGCGACGTTTTAACATAAACGCCACTAAAAAACAAACAAAAC
1 AGCGCCGCTAAAGGCAAACCAATTGCGACATTTTAACATAAACGCCACTAAAAAACAAACAAAAC
* *
11885917 GACACCGTTTTGATATAAACAGAATAAACTTTAATGGCGTTTTCCCATAGCGCCGCTAAAGGCAA
66 GACACCGTTTTGATATAAACAAAATAAACATTAATGGCGTTTTCCCATAGCGCCGCTAAAGGCAA
* * * * * **
11885982 ATCAATTACGGCGTTTCACCCTAAAATGCCACTAAAAATCCAAAAAAACGACGTCGTTTTCATAT
131 ACCAATTACGGCGTTTAAACCAAAAACGCCACTAAAAATCCAAAAAAACGACACCGTTTTCATAT
* * *
11886047 GAACAGAATAACATTTAGTGGCGTTTTATCTCCA
196 AAACAAAATAACACTTAGTGGCGTTTTATCTCCA
* * * * * * * *
11886081 AGCGCCGCTAAAGGCGAAA-CTATTGCGGCATTTTACCCTAAAACGCCACTAAGAATCGATCAAA
1 AGCGCCGCTAAAGGC-AAACCAATTGCGACATTTTAACAT-AAACGCCACTAAAAAACAAACAAA
* ** * *
11886145 ACTACATTGTTTTGATATAAACAAAATAACCATTAGTGGCGTTTATACCC-TAGCGCCGCTAAA-
64 ACGACACCGTTTTGATATAAACAAAATAAACATTAATGGCGTTT-T-CCCATAGCGCCGCTAAAG
* * ** * * *
11886208 TCAAACCTATTGTGGCGTTTAAACCAAAAACGCCACTAAAAATCCATAAAAACTACACCGTTTTG
127 GCAAACCAATTACGGCGTTTAAACCAAAAACGCCACTAAAAATCCAAAAAAACGACACCGTTTTC
* *
11886273 ATCTAAACAAAATAACCCTTAGTGGCGTTT
192 ATATAAACAAAATAACACTTAGTGGCGTTT
11886303 ATTCCCTTGC
Statistics
Matches: 183, Mismatches: 35, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
229 30 0.16
230 136 0.74
231 14 0.08
232 3 0.02
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.24
Consensus pattern (229 bp):
AGCGCCGCTAAAGGCAAACCAATTGCGACATTTTAACATAAACGCCACTAAAAAACAAACAAAAC
GACACCGTTTTGATATAAACAAAATAAACATTAATGGCGTTTTCCCATAGCGCCGCTAAAGGCAA
ACCAATTACGGCGTTTAAACCAAAAACGCCACTAAAAATCCAAAAAAACGACACCGTTTTCATAT
AAACAAAATAACACTTAGTGGCGTTTTATCTCCA
Found at i:11886262 original size:114 final size:114
Alignment explanation
Indices: 11885839--11886376 Score: 550
Period size: 114 Copynumber: 4.7 Consensus size: 114
11885829 TAACATTTGC
* * * *
11885839 GGCGTTTTCCCCTAGCGCCGCTAAAGGCAAACCAATTGCGACGTTTTAACAT-AAACGCCACTAA
1 GGCGTTTTACCCTAGCGCCGCTAAAGGCAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAA
* * * * *
11885903 AAA-ACAAACAAAACGACACCGTTTTGATATAAACAGAATAAACTTTAAT
66 AAATCCAAA-AAAACGACACCGTTTTGATATAAACAAAATAACCATTAGT
* * * * * *
11885952 GGCGTTTT-CCCATAGCGCCGCTAAAGGCAAATCAATTACGGCGTTTCACCCTAAAATGCCACTA
1 GGCGTTTTACCC-TAGCGCCGCTAAAGGCAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTA
** * * *
11886016 AAAATCCAAAAAAACGACGTCGTTTTCATATGAACAGAATAA-CATTTAGT
65 AAAATCCAAAAAAACGACACCGTTTTGATATAAACAAAATAACCA-TTAGT
* * *
11886066 GGCGTTTTATCTCCAAGCGCCGCTAAAGGCGAAA-CTATTGCGGCATTTTACCCTAAAACGCCAC
1 GGCGTTTTA-C-CCTAGCGCCGCTAAAGGC-AAACCTATTGCGGCGTTTTAACCTAAAACGCCAC
* * ** * **
11886130 TAAGAATCGATCAAAACTACATTGTTTTGATATAAACAAAATAACCATTAGT
63 TAAAAATCCAAAAAAACGACACCGTTTTGATATAAACAAAATAACCATTAGT
* * * *
11886182 GGCGTTTATACCCTAGCGCCGCTAAA-TCAAACCTATTGTGGCGTTTAAACCAAAAACGCCACTA
1 GGCGTTT-TACCCTAGCGCCGCTAAAGGCAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTA
* * * *
11886246 AAAATCCATAAAAACTACACCGTTTTGATCTAAACAAAATAACCCTTAGT
65 AAAATCCAAAAAAACGACACCGTTTTGATATAAACAAAATAACCATTAGT
* * * * * *
11886296 GGCGTTTATTCCCTTGCACCGCTAAA-TCAACCCTATTGTGGCGTTTTAACCTAAAACGCCACTA
1 GGCGTTT-TACCCTAGCGCCGCTAAAGGCAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTA
11886360 AAAATCCAAAGAAAACG
65 AAAATCCAAA-AAAACG
11886377 GTGTCGTCTT
Statistics
Matches: 361, Mismatches: 52, Indels: 22
0.83 0.12 0.05
Matches are distributed among these distances:
112 3 0.01
113 46 0.13
114 192 0.53
115 23 0.06
116 88 0.24
117 9 0.02
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (114 bp):
GGCGTTTTACCCTAGCGCCGCTAAAGGCAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAA
AAATCCAAAAAAACGACACCGTTTTGATATAAACAAAATAACCATTAGT
Found at i:11887270 original size:16 final size:17
Alignment explanation
Indices: 11887249--11887281 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11887239 ATAGTTTAGT
11887249 GTTTAG-GGTTTAGGGG
1 GTTTAGTGGTTTAGGGG
*
11887265 GTTTAGTGTTTTAGGGG
1 GTTTAGTGGTTTAGGGG
11887282 TTATAGATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.12, C:0.00, G:0.45, T:0.42
Consensus pattern (17 bp):
GTTTAGTGGTTTAGGGG
Found at i:11887284 original size:45 final size:43
Alignment explanation
Indices: 11887235--11887329 Score: 118
Period size: 45 Copynumber: 2.2 Consensus size: 43
11887225 AGGTTTTAAA
* *
11887235 GGTTATAGTTTAGTGTTTAGGGTTTAGGGGGTTTAGTGTTTTAGG
1 GGTTATAGATTAGTGTTTA-GGTTTAGGGGGTTTAG-GGTTTAGG
* ***
11887280 GGTTATAGATTAGTGTTTATGTTTTTTGGGTTTAGGGTTTAGG
1 GGTTATAGATTAGTGTTTAGGTTTAGGGGGTTTAGGGTTTAGG
11887323 GGTTATA
1 GGTTATA
11887330 TGACTTTTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
43 14 0.32
44 12 0.27
45 18 0.41
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.48
Consensus pattern (43 bp):
GGTTATAGATTAGTGTTTAGGTTTAGGGGGTTTAGGGTTTAGG
Found at i:11887415 original size:41 final size:40
Alignment explanation
Indices: 11887334--11887469 Score: 150
Period size: 41 Copynumber: 3.4 Consensus size: 40
11887324 GTTATATGAC
* * *
11887334 TTTTAGCGGCGTTTTATCGAAA-TGCCGCTAATGCTCTGG
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
* *
11887373 TTTCTAGCGGCGTTTTA-CATAAAGCGCCGCTAATTCTTTGG
1 TTT-TAGCGGCGTTTTACCA-AAAGCGCCGCTAATGCTCTGG
* * *
11887414 TTTTTAGTGGCGTTTTACCAAAAGCGCCACAAATGCTCTGG
1 -TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
11887455 CTTTTAGCGGCGTTT
1 -TTTTAGCGGCGTTT
11887470 CTATTGCTCT
Statistics
Matches: 81, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
39 4 0.05
40 16 0.20
41 56 0.69
42 5 0.06
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
Found at i:11894761 original size:17 final size:17
Alignment explanation
Indices: 11894700--11894760 Score: 77
Period size: 17 Copynumber: 3.6 Consensus size: 17
11894690 GTGAACTGCA
11894700 AGCTCACCAAAACTACG
1 AGCTCACCAAAACTACG
* *
11894717 AGCTCACCAAAATTGCG
1 AGCTCACCAAAACTACG
* * *
11894734 AGCTTACCAAGACCACG
1 AGCTCACCAAAACTACG
11894751 AGCTCACCAA
1 AGCTCACCAA
11894761 GCTTGAGAGC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 36 1.00
ACGTcount: A:0.38, C:0.34, G:0.15, T:0.13
Consensus pattern (17 bp):
AGCTCACCAAAACTACG
Found at i:11894771 original size:34 final size:34
Alignment explanation
Indices: 11894700--11894775 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
11894690 GTGAACTGCA
* *
11894700 AGCTCACCAAAACTACGAGCTCACCAAAATTGCG
1 AGCTCACCAAAACCACGAGCTCACCAAAATTGAG
* * **
11894734 AGCTTACCAAGACCACGAGCTCACCAAGCTTGAG
1 AGCTCACCAAAACCACGAGCTCACCAAAATTGAG
11894768 AGCTCACC
1 AGCTCACC
11894776 TGCGAGCTCT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.34, C:0.34, G:0.17, T:0.14
Consensus pattern (34 bp):
AGCTCACCAAAACCACGAGCTCACCAAAATTGAG
Found at i:11899111 original size:19 final size:19
Alignment explanation
Indices: 11899087--11899124 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
11899077 AAGTTAAGAA
*
11899087 CAAATTTGATTACGGTGGG
1 CAAATTTAATTACGGTGGG
*
11899106 CAAATTTAATTATGGTGGG
1 CAAATTTAATTACGGTGGG
11899125 TGGCAGTGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.34
Consensus pattern (19 bp):
CAAATTTAATTACGGTGGG
Found at i:11899877 original size:16 final size:17
Alignment explanation
Indices: 11899853--11899895 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
11899843 TAGTTCAATT
*
11899853 TTCATAGAT-CAACTCA
1 TTCAGAGATACAACTCA
*
11899869 TTCAGAGATAGCAGCTCA
1 TTCAGAGATA-CAACTCA
11899887 TTCAGAGAT
1 TTCAGAGAT
11899896 GGCAACAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 8 0.35
18 15 0.65
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (17 bp):
TTCAGAGATACAACTCA
Found at i:11901963 original size:25 final size:25
Alignment explanation
Indices: 11901935--11901986 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
11901925 ATTTTTCTAC
11901935 CTTTAATATCATATGGTTGGGTGTT
1 CTTTAATATCATATGGTTGGGTGTT
11901960 CTTTAATATCATATGGTTGGGTGTT
1 CTTTAATATCATATGGTTGGGTGTT
11901985 CT
1 CT
11901987 CATCTAACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.19, C:0.10, G:0.23, T:0.48
Consensus pattern (25 bp):
CTTTAATATCATATGGTTGGGTGTT
Found at i:11903773 original size:14 final size:14
Alignment explanation
Indices: 11903754--11903783 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11903744 GACATGACAC
11903754 AAAAATAATGGACT
1 AAAAATAATGGACT
*
11903768 AAAAATGATGGACT
1 AAAAATAATGGACT
11903782 AA
1 AA
11903784 CAATCAAGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.20
Consensus pattern (14 bp):
AAAAATAATGGACT
Found at i:11904453 original size:17 final size:15
Alignment explanation
Indices: 11904418--11904451 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
11904408 TAGAACATTG
*
11904418 TATACATAAAAAATT
1 TATACATAAAAAATA
*
11904433 TATACATGAAAAATA
1 TATACATAAAAAATA
11904448 TATA
1 TATA
11904452 TAAAAACGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (15 bp):
TATACATAAAAAATA
Found at i:11906039 original size:22 final size:22
Alignment explanation
Indices: 11906014--11906059 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
11906004 TCAATGTTAG
*
11906014 TTAAAAAACTTAATTGTTGCAT
1 TTAAAAAACTTAATAGTTGCAT
11906036 TTAAAAAACTTAATAGTTGCAT
1 TTAAAAAACTTAATAGTTGCAT
11906058 TT
1 TT
11906060 TTACGATTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (22 bp):
TTAAAAAACTTAATAGTTGCAT
Found at i:11912418 original size:16 final size:16
Alignment explanation
Indices: 11912397--11912429 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
11912387 TAACAAAGTA
11912397 AATTCCACCATCCATT
1 AATTCCACCATCCATT
11912413 AATTCCACCATCCATT
1 AATTCCACCATCCATT
11912429 A
1 A
11912430 TAAGGCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.36, G:0.00, T:0.30
Consensus pattern (16 bp):
AATTCCACCATCCATT
Found at i:11920364 original size:19 final size:17
Alignment explanation
Indices: 11920329--11920361 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
11920319 TACTTTTAGA
11920329 ATTCTCTCTTTGTAAAC
1 ATTCTCTCTTTGTAAAC
11920346 ATTCTCTCTTTGTAAA
1 ATTCTCTCTTTGTAAA
11920362 AACCATCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.21, G:0.06, T:0.48
Consensus pattern (17 bp):
ATTCTCTCTTTGTAAAC
Found at i:11924206 original size:12 final size:12
Alignment explanation
Indices: 11924186--11924215 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
11924176 TATGGTTAAT
*
11924186 TTCTTTAGCAGC
1 TTCTGTAGCAGC
11924198 TTCTGTAGCAGC
1 TTCTGTAGCAGC
11924210 TTCTGT
1 TTCTGT
11924216 TGTTTGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.43
Consensus pattern (12 bp):
TTCTGTAGCAGC
Found at i:11924861 original size:91 final size:91
Alignment explanation
Indices: 11924729--11924936 Score: 274
Period size: 91 Copynumber: 2.3 Consensus size: 91
11924719 TTGATTTTAG
* *
11924729 TAAATTCATATAAGAACATTTTATTATTAACAATTTCATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAACAATTTCATGAAATTATATATCACTATTAAATTAT
* *
11924794 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
* * * * *
11924821 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTTTATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAACAATTTCATGAAATTATATATCACTATTAAATTATA
11924886 TGTAATAATTATTATTTTAAATTATA
66 TGTAATAATTATTATTTTAAATTATA
* * * *
11924912 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
11924937 GTTATAATTA
Statistics
Matches: 102, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
91 83 0.81
92 19 0.19
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAACAATTTCATGAAATTATATATCACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:11924985 original size:16 final size:17
Alignment explanation
Indices: 11924966--11924997 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
11924956 TTATTAAATC
11924966 ATATATTTAA-ATTAAA
1 ATATATTTAATATTAAA
11924982 ATATATTTAATATTAA
1 ATATATTTAATATTAA
11924998 TTATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATTTAATATTAAA
Found at i:11925076 original size:120 final size:120
Alignment explanation
Indices: 11924952--11925244 Score: 459
Period size: 120 Copynumber: 2.4 Consensus size: 120
11924942 AATTATTTTA
* *
11924952 AATTTTATTAAATCATATATTTAAATTAAAATATATTTAATATTAATTAT-TTAAAATTT-TATT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTT--AATTTATATT
*
11925015 TTATAGTATCATATATTAT-GATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATAG-TTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * *
11925072 AATTTTATTAAATTC-TATATTTTAATTATATTATATTTAATAATAATTATGTTATTTTATATTT
1 AATTTTATTAAA-TCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTT
11925136 TACAGTATCATATATTATAGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATAGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
11925192 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTT
11925245 TAAATATAAT
Statistics
Matches: 159, Mismatches: 9, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
119 5 0.03
120 149 0.94
121 5 0.03
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATAGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:11925221 original size:18 final size:17
Alignment explanation
Indices: 11925193--11925227 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11925183 ATTATTAAGA
*
11925193 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
11925210 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
11925228 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:11925346 original size:147 final size:143
Alignment explanation
Indices: 11925181--11925449 Score: 450
Period size: 147 Copynumber: 1.9 Consensus size: 143
11925171 ATAAGAATAT
* *
11925181 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAAATATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
11925246 AAATATAATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAA-AATAATTT
66 AAATATAATTAAATTATTTATTATTGATA-T--T-AT-TTATTAAAATTTAAATAACAATAATTT
11925310 ACCAAAACAAATTTCTGC
126 ACCAAAACAAATTTCTGC
11925328 TAATTATTAAGAATTTTATTAAAATATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAAATATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
* *
11925393 AAATATGATTAAATTATTTATTTTTGATATTATTTATTAAAATTTAAATAACAATAA
66 AAATATAATTAAATTATTTATTATTGATATTATTTATTAAAATTTAAATAACAATAA
11925450 CAATAATCAT
Statistics
Matches: 117, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
142 18 0.15
143 7 0.06
144 1 0.01
146 1 0.01
147 90 0.77
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (143 bp):
TAATTATTAAGAATTTTATTAAAATATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATAATTAAATTATTTATTATTGATATTATTTATTAAAATTTAAATAACAATAATTTACCAA
AACAAATTTCTGC
Done.