Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, whole genome shotgun sequence
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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 71 of 121
Found at i:12225583 original size:23 final size:23
Alignment explanation
Indices: 12225541--12225588 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
12225531 TATTTTTTAT
12225541 TTTTTTAATTTTAATTTTTAAAA
1 TTTTTTAATTTTAATTTTTAAAA
12225564 TTTTTT-ATTTTAATTTTTTAAAA
1 TTTTTTAATTTTAA-TTTTTAAAA
12225587 TT
1 TT
12225589 AAAAAATTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTTTTAATTTTAATTTTTAAAA
Found at i:12228756 original size:8 final size:8
Alignment explanation
Indices: 12228743--12228784 Score: 57
Period size: 8 Copynumber: 5.0 Consensus size: 8
12228733 TACTTTTTAA
12228743 ATATAAAT
1 ATATAAAT
12228751 ATATAAAT
1 ATATAAAT
12228759 ATATAAAT
1 ATATAAAT
12228767 ATAAATAAAT
1 AT--ATAAAT
*
12228777 AAATAAAT
1 ATATAAAT
12228785 TTTTATATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 24 0.77
10 7 0.23
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
ATATAAAT
Found at i:12228757 original size:14 final size:14
Alignment explanation
Indices: 12228740--12228781 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
12228730 TATTACTTTT
12228740 TAAATATA-AATATA
1 TAAATATATAA-ATA
12228754 TAAATATATAAATA
1 TAAATATATAAATA
*
12228768 TAAATAAATAAATA
1 TAAATATATAAATA
12228782 AATTTTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 24 0.92
15 2 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAATATATAAATA
Found at i:12228765 original size:22 final size:22
Alignment explanation
Indices: 12228740--12228781 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
12228730 TATTACTTTT
*
12228740 TAAATATAAATATATAAATATA
1 TAAATATAAATAAATAAATATA
12228762 TAAATATAAATAAATAAATA
1 TAAATATAAATAAATAAATA
12228782 AATTTTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAATATAAATAAATAAATATA
Found at i:12231632 original size:22 final size:22
Alignment explanation
Indices: 12231583--12231624 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
12231573 AAGAGAACCA
12231583 AGCTACAAGGTGAGCAAGTGGT
1 AGCTACAAGGTGAGCAAGTGGT
12231605 AGCTACAAGGTGAGCAAGTG
1 AGCTACAAGGTGAGCAAGTG
12231625 TTGGCTACCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.14, G:0.36, T:0.17
Consensus pattern (22 bp):
AGCTACAAGGTGAGCAAGTGGT
Found at i:12235675 original size:16 final size:17
Alignment explanation
Indices: 12235644--12235676 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12235634 TTGATAAGAG
12235644 AAGGCAGAACTTTTTCT
1 AAGGCAGAACTTTTTCT
*
12235661 AAGGTAGAA-TTTTTCT
1 AAGGCAGAACTTTTTCT
12235677 TGTTGTGGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.39
Consensus pattern (17 bp):
AAGGCAGAACTTTTTCT
Found at i:12236070 original size:56 final size:56
Alignment explanation
Indices: 12235984--12236093 Score: 175
Period size: 56 Copynumber: 2.0 Consensus size: 56
12235974 TTGGCAAATA
** * *
12235984 GGAGGATAATATCACACTTTGGTATCCATAAGGGAAAATTTGGTGATAGAATTTAG
1 GGAGGATAATATCACACCCTGGTATCCATAAGGAAAAATTTGGCGATAGAATTTAG
*
12236040 GGAGGATAATATCACACCCTGGTGTCCATAAGGAAAAATTTGGCGATAGAATTT
1 GGAGGATAATATCACACCCTGGTATCCATAAGGAAAAATTTGGCGATAGAATTT
12236094 GATGAGGGGT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (56 bp):
GGAGGATAATATCACACCCTGGTATCCATAAGGAAAAATTTGGCGATAGAATTTAG
Found at i:12237161 original size:27 final size:29
Alignment explanation
Indices: 12237131--12237196 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 29
12237121 AATAATAAAA
12237131 ATAAAATAAAAT-AATTTATTAGA-TTA-T
1 ATAAAATAAAATGAATTTATTA-ATTTATT
* *
12237158 ATAATA-AAAATGTATTTATTAATTTATT
1 ATAAAATAAAATGAATTTATTAATTTATT
*
12237186 ATATAATAAAA
1 ATAAAATAAAA
12237197 AGCTAAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
26 6 0.19
27 16 0.52
28 5 0.16
29 4 0.13
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (29 bp):
ATAAAATAAAATGAATTTATTAATTTATT
Found at i:12245248 original size:27 final size:28
Alignment explanation
Indices: 12245190--12245262 Score: 78
Period size: 27 Copynumber: 2.6 Consensus size: 28
12245180 TATCAAATAT
**
12245190 ATTTTTTAAAAAA-AAAAATTAAAAATT
1 ATTTTTTAAAAAATAAAAATTAAAAAAA
*
12245217 GTTTTTTAAAAAATAAAAA-TAAAAAAA
1 ATTTTTTAAAAAATAAAAATTAAAAAAA
* *
12245244 ATTTTCTCACAAAATAAAA
1 ATTTT-TTAAAAAATAAAA
12245263 CCTAATTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (28 bp):
ATTTTTTAAAAAATAAAAATTAAAAAAA
Found at i:12246234 original size:25 final size:25
Alignment explanation
Indices: 12246187--12246234 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
12246177 TTTTGAATTT
** * *
12246187 TTTTTGTTTTCTTAAGATTTTAACA
1 TTTTTGTTTAATTAAAATATTAACA
12246212 TTTTTGTTTAATTAAAATATTAA
1 TTTTTGTTTAATTAAAATATTAA
12246235 AATATATTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.58
Consensus pattern (25 bp):
TTTTTGTTTAATTAAAATATTAACA
Found at i:12246474 original size:25 final size:26
Alignment explanation
Indices: 12246446--12246505 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 26
12246436 TACTATTTTT
* *
12246446 ATAAAATATAT-AAAATTTCTAATAA
1 ATAAAATATATGAAAATTTCCAAGAA
*
12246471 ATAAAAAAT-TGAAAATTTCCAAGAA
1 ATAAAATATATGAAAATTTCCAAGAA
12246496 ATAAAATATA
1 ATAAAATATA
12246506 ATTTTAGAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 1 0.03
25 28 0.97
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (26 bp):
ATAAAATATATGAAAATTTCCAAGAA
Found at i:12247498 original size:32 final size:32
Alignment explanation
Indices: 12247454--12247549 Score: 88
Period size: 32 Copynumber: 3.0 Consensus size: 32
12247444 TTTAAAATTT
*
12247454 TTAATGTGATATTTTAAAAATAAATATATTAA
1 TTAATGTAATATTTTAAAAATAAATATATTAA
* * * *
12247486 TTAATGTAATATTTAAAAAAT-TATTTATTCA
1 TTAATGTAATATTTTAAAAATAAATATATTAA
* * *
12247517 TTATATGTTATCA-TTTAAAATTAATTATATTAA
1 TTA-ATGTAAT-ATTTTAAAAATAAATATATTAA
12247550 AAATAAATAT
Statistics
Matches: 49, Mismatches: 12, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
31 10 0.20
32 32 0.65
33 7 0.14
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (32 bp):
TTAATGTAATATTTTAAAAATAAATATATTAA
Found at i:12247504 original size:31 final size:31
Alignment explanation
Indices: 12247454--12247549 Score: 86
Period size: 31 Copynumber: 3.0 Consensus size: 31
12247444 TTTAAAATTT
*
12247454 TTAATGTGATATTTTAAAAATAAATATATTAA
1 TTAATGTAATA-TTTAAAAATAAATATATTAA
* * *
12247486 TTAATGTAATATTTAAAAA-ATTATTTATTCA
1 TTAATGTAATATTTAAAAATA-AATATATTAA
* * *
12247517 TTATATGTTATCATTTAAAATTAATTATATTAA
1 TTA-ATGTAAT-ATTTAAAAATAAATATATTAA
12247550 AAATAAATAT
Statistics
Matches: 50, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
30 1 0.02
31 18 0.36
32 16 0.32
33 14 0.28
34 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (31 bp):
TTAATGTAATATTTAAAAATAAATATATTAA
Found at i:12247563 original size:18 final size:19
Alignment explanation
Indices: 12247540--12247581 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
12247530 TTTAAAATTA
12247540 ATTATATTAA-AAATAAAT
1 ATTATATTAATAAATAAAT
*
12247558 ATTATATTAATTAATAAAT
1 ATTATATTAATAAATAAAT
12247577 -TTATA
1 ATTATA
12247582 ATTTACATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTATATTAATAAATAAAT
Found at i:12247649 original size:35 final size:35
Alignment explanation
Indices: 12247596--12247665 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
12247586 ACATATGAAG
12247596 ATGATAAGCTAAGAGGATTTTCAATCATCAAACTA
1 ATGATAAGCTAAGAGGATTTTCAATCATCAAACTA
* ** *
12247631 ATGATAAGCTCATTGGATTTTCCATCATCAAACTA
1 ATGATAAGCTAAGAGGATTTTCAATCATCAAACTA
12247666 TCTCATTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (35 bp):
ATGATAAGCTAAGAGGATTTTCAATCATCAAACTA
Found at i:12247837 original size:14 final size:15
Alignment explanation
Indices: 12247815--12247851 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
12247805 TGGATCAAAT
12247815 ATTTTTTAAA-A-AA
1 ATTTTTTAAAGATAA
12247828 ATTATTTTAAAGATAA
1 ATT-TTTTAAAGATAA
12247844 ATTTTTTA
1 ATTTTTTA
12247852 TATTAATTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 3 0.14
14 7 0.33
15 6 0.29
16 5 0.24
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (15 bp):
ATTTTTTAAAGATAA
Found at i:12254781 original size:22 final size:23
Alignment explanation
Indices: 12254749--12254792 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
12254739 TTAAAGAATA
12254749 AAGAAGATTCATTGCTTTCACAC
1 AAGAAGATTCATTGCTTTCACAC
*
12254772 AAGAA-ATTCATTGGTTTCACA
1 AAGAAGATTCATTGCTTTCACA
12254793 GAATAAAGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (23 bp):
AAGAAGATTCATTGCTTTCACAC
Found at i:12257774 original size:26 final size:26
Alignment explanation
Indices: 12257740--12257791 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
12257730 AAAAAGATAT
* * *
12257740 TTTTATGTAGAAAAATGGGAAAAAAA
1 TTTTATGTAAAAAAAAGAGAAAAAAA
*
12257766 TTTTCTGTAAAAAAAAGAGAAAAAAA
1 TTTTATGTAAAAAAAAGAGAAAAAAA
12257792 CTGATGATGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.58, C:0.02, G:0.15, T:0.25
Consensus pattern (26 bp):
TTTTATGTAAAAAAAAGAGAAAAAAA
Found at i:12260747 original size:27 final size:27
Alignment explanation
Indices: 12260717--12260775 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
12260707 TTTTCAAAAT
*
12260717 TTTTTTGAACTTT-TTGATTTTTTGGAA
1 TTTTTTAAACTTTGTT-ATTTTTTGGAA
* *
12260744 TTTTCTAAACTTTGTTTTTTTTTGGAA
1 TTTTTTAAACTTTGTTATTTTTTGGAA
*
12260771 ATTTT
1 TTTTT
12260776 CTTTTTTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 24 0.92
28 2 0.08
ACGTcount: A:0.19, C:0.05, G:0.12, T:0.64
Consensus pattern (27 bp):
TTTTTTAAACTTTGTTATTTTTTGGAA
Found at i:12260926 original size:24 final size:24
Alignment explanation
Indices: 12260898--12260972 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 24
12260888 CTCTTTTAGG
12260898 TAAATGTTCAATAATTTTTAAAAA
1 TAAATGTTCAATAATTTTTAAAAA
** *
12260922 TAAAT-TT-AA-AATTTTCTTTAGA
1 TAAATGTTCAATAATTTT-TAAAAA
* *
12260944 TAAAAGCTCAATAATTTTTAAAAA
1 TAAATGTTCAATAATTTTTAAAAA
12260968 TAAAT
1 TAAAT
12260973 ATAAAAGGTC
Statistics
Matches: 38, Mismatches: 9, Indels: 8
0.69 0.16 0.15
Matches are distributed among these distances:
21 6 0.16
22 9 0.24
23 3 0.08
24 14 0.37
25 6 0.16
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.41
Consensus pattern (24 bp):
TAAATGTTCAATAATTTTTAAAAA
Found at i:12260942 original size:46 final size:46
Alignment explanation
Indices: 12260872--12261018 Score: 170
Period size: 46 Copynumber: 3.2 Consensus size: 46
12260862 GACAAAGTTG
* *
12260872 AAAATAAATTTAAAAACTCTTTTAGGTAAATGTTCAATAATTTTTA
1 AAAATAAATTTAAAAACTCATTTAGGTAAAAGTTCAATAATTTTTA
** * *
12260918 AAAATAAATTTAAAATTTTC-TTTAGATAAAAGCTCAATAATTTTTA
1 AAAATAAATTTAAAA-ACTCATTTAGGTAAAAGTTCAATAATTTTTA
* ** * * *
12260964 AAAATAAATATAAAAGGTCATTTACGTAAAAGTTCAACAACTTTTA
1 AAAATAAATTTAAAAACTCATTTAGGTAAAAGTTCAATAATTTTTA
12261010 AAAATAAAT
1 AAAATAAAT
12261019 CTCATTTTGG
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
45 2 0.02
46 82 0.95
47 2 0.02
ACGTcount: A:0.50, C:0.07, G:0.06, T:0.37
Consensus pattern (46 bp):
AAAATAAATTTAAAAACTCATTTAGGTAAAAGTTCAATAATTTTTA
Found at i:12261154 original size:33 final size:33
Alignment explanation
Indices: 12261111--12261177 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
12261101 AATCTTCATA
***
12261111 GATACCAGTTAAATTGGGTTTAAATCTCATTTG
1 GATACCAGTTAAATTGAAATTAAATCTCATTTG
*
12261144 GATACTAGTTAAATTGAAATTAAATCTCATTTG
1 GATACCAGTTAAATTGAAATTAAATCTCATTTG
12261177 G
1 G
12261178 GTGCTAGCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.39
Consensus pattern (33 bp):
GATACCAGTTAAATTGAAATTAAATCTCATTTG
Found at i:12261305 original size:70 final size:69
Alignment explanation
Indices: 12261130--12261312 Score: 185
Period size: 70 Copynumber: 2.6 Consensus size: 69
12261120 TAAATTGGGT
* * * *** *
12261130 TTAAATCTCATTTGGATACTAGTTAAATTGAAATTAAATCTCATTTGGGTGCTAGCTAAGCTGAG
1 TTAAATCTCATTTGGGTATTAGCTAAATTGGGCTTAAATCTCA-TTGGGTGCTAGCTAAACTGAG
12261195 CTTAA
65 CTTAA
* * * *
12261200 TTAAAT-T-ATTCTCGGTACTTA-CTAAATTGGGCTTAAAACTCATTGTG-GCTAGCTAAACTGG
1 TTAAATCTCATT-TGGGTA-TTAGCTAAATTGGGCTTAAATCTCATTGGGTGCTAGCTAAACTGA
*
12261261 GCTTAGGC
64 GCTTA--A
12261269 TTAAATCTCATTTGGGTATTAGCTAAATTGGGCTTAAATCTCAT
1 TTAAATCTCATTTGGGTATTAGCTAAATTGGGCTTAAATCTCAT
12261313 CTAGGTATCT
Statistics
Matches: 92, Mismatches: 14, Indels: 14
0.77 0.12 0.12
Matches are distributed among these distances:
67 17 0.18
68 7 0.08
69 30 0.33
70 35 0.38
71 3 0.03
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (69 bp):
TTAAATCTCATTTGGGTATTAGCTAAATTGGGCTTAAATCTCATTGGGTGCTAGCTAAACTGAGC
TTAA
Found at i:12261308 original size:33 final size:33
Alignment explanation
Indices: 12261266--12261338 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
12261256 ACTGGGCTTA
* *
12261266 GGCTTAAATCTCATTTGGGTAT-TAGCTAAATTG
1 GGCTTAAATCTCATCTAGGTATCT-GCTAAATTG
*
12261299 GGCTTAAATCTCATCTAGGTATCTGTTAAATTG
1 GGCTTAAATCTCATCTAGGTATCTGCTAAATTG
12261332 GGCTTAA
1 GGCTTAA
12261339 TTGAATTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 35 0.97
34 1 0.03
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (33 bp):
GGCTTAAATCTCATCTAGGTATCTGCTAAATTG
Found at i:12261506 original size:33 final size:31
Alignment explanation
Indices: 12261420--12261508 Score: 90
Period size: 31 Copynumber: 2.8 Consensus size: 31
12261410 AATCTTTATA
* * *
12261420 GATGCAAGCTAAATTAGCCTTAATTTTCATG
1 GATGCTAGCTAAATTAGACTTAAATTTCATG
* *
12261451 GATGTTAACTAAATTAGACTTAAATTTCATTTAG
1 GATGCTAGCTAAATTAGACTTAAATTTCA--T-G
*
12261485 G-TGCTAGCTAAATTAGGCTTAAAT
1 GATGCTAGCTAAATTAGACTTAAAT
12261509 CTCTTTTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
31 24 0.51
33 21 0.45
34 2 0.04
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (31 bp):
GATGCTAGCTAAATTAGACTTAAATTTCATG
Found at i:12261781 original size:21 final size:23
Alignment explanation
Indices: 12261733--12261786 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 23
12261723 GTCTCTTTTA
12261733 TTTTCTTCCTTTTCTTTCTCCCAAT
1 TTTTCTTCCTTTTCTTTCT-CC-AT
*
12261758 TTTTCTTTCTTTTCTTTCT-C-T
1 TTTTCTTCCTTTTCTTTCTCCAT
12261779 TTTTCTTC
1 TTTTCTTC
12261787 AAACTCTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 8 0.30
23 1 0.04
25 18 0.67
ACGTcount: A:0.04, C:0.28, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTTCTTCCTTTTCTTTCTCCAT
Found at i:12263116 original size:12 final size:11
Alignment explanation
Indices: 12263096--12263195 Score: 101
Period size: 11 Copynumber: 8.7 Consensus size: 11
12263086 CTATGTTCTT
*
12263096 TTTTTTTTTTA
1 TTTTTATTTTA
*
12263107 ATTTTATTTTCA
1 TTTTTATTTT-A
*
12263119 TTTTCATTTTCA
1 TTTTTATTTT-A
*
12263131 TTTTCATTTTTA
1 TTTTTA-TTTTA
12263143 TTTTTATTTTA
1 TTTTTATTTTA
*
12263154 TTTTTATTCTA
1 TTTTTATTTTA
*
12263165 TTTCTATTTTA
1 TTTTTATTTTA
12263176 TTTTTATTATTA
1 TTTTTATT-TTA
*
12263188 TTATTATT
1 TTTTTATT
12263196 AGTTTTTATA
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
11 39 0.51
12 33 0.43
13 4 0.05
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:12263122 original size:18 final size:18
Alignment explanation
Indices: 12263101--12263159 Score: 77
Period size: 17 Copynumber: 3.3 Consensus size: 18
12263091 TTCTTTTTTT
12263101 TTTTTAATTTTATTTTCA
1 TTTTTAATTTTATTTTCA
*
12263119 -TTTTCATTTTCATTTTCA
1 TTTTTAATTTT-ATTTTCA
*
12263137 TTTTTATTTTTATTTT-A
1 TTTTTAATTTTATTTTCA
12263154 TTTTTA
1 TTTTTA
12263160 TTCTATTTCT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
17 16 0.44
18 12 0.33
19 8 0.22
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTTAATTTTATTTTCA
Found at i:12263158 original size:6 final size:6
Alignment explanation
Indices: 12263095--12263195 Score: 91
Period size: 6 Copynumber: 17.3 Consensus size: 6
12263085 TCTATGTTCT
* * * * * *
12263095 TTTTTT TTTTTA ATTTTA TTTTCA TTTTCA TTTTCA TTTTCA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* * *
12263143 TTTTTA -TTTTA TTTTTA -TTCTA TTTCTA -TTTTA TTTTTA TTATTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
12263188 TTATTA TT
1 TTTTTA TT
12263196 AGTTTTTATA
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
5 13 0.15
6 71 0.85
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (6 bp):
TTTTTA
Found at i:12263201 original size:22 final size:20
Alignment explanation
Indices: 12263124--12263224 Score: 84
Period size: 22 Copynumber: 4.9 Consensus size: 20
12263114 TTTCATTTTC
12263124 ATTTTCATTTTCA-TTTT-TAT
1 ATTTT-ATTTT-ATTTTTATAT
*
12263144 -TTTTATTTTATTTTTATTCT
1 ATTTTATTTTATTTTTA-TAT
12263164 ATTTCTATTTTATTTTTAT-T
1 ATTT-TATTTTATTTTTATAT
12263184 ATTATTATTATTAGTTTTTATAT
1 ATT-TTATT-TTA-TTTTTATAT
**
12263207 ATTTTCCTTTATTTTTAT
1 ATTTTATTTTATTTTTAT
12263225 CTTTGCTATT
Statistics
Matches: 69, Mismatches: 3, Indels: 18
0.77 0.03 0.20
Matches are distributed among these distances:
17 1 0.01
18 9 0.13
19 4 0.06
20 17 0.25
21 11 0.16
22 23 0.33
23 4 0.06
ACGTcount: A:0.21, C:0.06, G:0.01, T:0.72
Consensus pattern (20 bp):
ATTTTATTTTATTTTTATAT
Found at i:12263862 original size:19 final size:20
Alignment explanation
Indices: 12263838--12263877 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
12263828 GAACTTTCGA
*
12263838 TAAAAAACTC-AGATTCCGG
1 TAAAAAACTCTAGAATCCGG
*
12263857 TAAAAAATTCTAGAATCCGG
1 TAAAAAACTCTAGAATCCGG
12263877 T
1 T
12263878 GAAACATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.25
Consensus pattern (20 bp):
TAAAAAACTCTAGAATCCGG
Found at i:12264276 original size:4 final size:4
Alignment explanation
Indices: 12264218--12264260 Score: 68
Period size: 4 Copynumber: 10.8 Consensus size: 4
12264208 CTTTTTTTGA
* *
12264218 ATTT ATTT ATTT ATTT ATTT GTTT ATTT ATTT TTTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT
12264261 AGATTAAGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (4 bp):
ATTT
Found at i:12264298 original size:12 final size:10
Alignment explanation
Indices: 12264291--12264351 Score: 50
Period size: 11 Copynumber: 5.6 Consensus size: 10
12264281 TCTTTTTATC
12264291 TTTATTTTTTT
1 TTTA-TTTTTT
12264302 TTTACTTTTTT
1 TTTA-TTTTTT
*
12264313 TATTATTTTTA
1 T-TTATTTTTT
*
12264324 TTTATTTTCACT
1 TTTATTTT--TT
*
12264336 TTTATTTTGT
1 TTTATTTTTT
12264346 TTTATT
1 TTTATT
12264352 ATTCTATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
10 14 0.33
11 17 0.40
12 11 0.26
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.79
Consensus pattern (10 bp):
TTTATTTTTT
Found at i:12264312 original size:9 final size:8
Alignment explanation
Indices: 12264278--12264364 Score: 52
Period size: 9 Copynumber: 10.1 Consensus size: 8
12264268 GTTTATTTAA
12264278 TATTCTTTT
1 TATT-TTTT
12264287 TATCTTTATT
1 TAT-TTT-TT
12264297 T-TTTTTT
1 TATTTTTT
12264304 TACTTTTTT
1 TA-TTTTTT
12264313 TATTATTTT
1 TATT-TTTT
12264322 TATTTATTT
1 TATTT-TTT
*
12264331 TCACTTTTAT
1 T-A-TTTTTT
*
12264341 T-TTGTTT
1 TATTTTTT
* *
12264348 TATTATTC
1 TATTTTTT
12264356 TATTTTTT
1 TATTTTTT
12264364 T
1 T
12264365 TAAATAAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 19
0.70 0.08 0.22
Matches are distributed among these distances:
7 8 0.13
8 17 0.27
9 26 0.42
10 8 0.13
11 3 0.05
ACGTcount: A:0.15, C:0.07, G:0.01, T:0.77
Consensus pattern (8 bp):
TATTTTTT
Found at i:12264365 original size:17 final size:16
Alignment explanation
Indices: 12264278--12264366 Score: 62
Period size: 15 Copynumber: 5.7 Consensus size: 16
12264268 GTTTATTTAA
* *
12264278 TATTCTTTTTA-TCTT
1 TATTTTTTTTATTATT
*
12264293 TATTTTTTTT-TTACT
1 TATTTTTTTTATTATT
*
12264308 T-TTTTTATTATT-TT
1 TATTTTTTTTATTATT
* *
12264322 TATTTATTTTCACT-TT
1 TATTT-TTTTTATTATT
12264338 TATTTTGTTTTATTATT
1 TATTTT-TTTTATTATT
12264355 CTATTTTTTTTA
1 -TATTTTTTTTA
12264367 AATAAAAATA
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
14 9 0.16
15 18 0.32
16 17 0.30
17 7 0.12
18 6 0.11
ACGTcount: A:0.16, C:0.07, G:0.01, T:0.76
Consensus pattern (16 bp):
TATTTTTTTTATTATT
Found at i:12264438 original size:59 final size:58
Alignment explanation
Indices: 12264378--12264713 Score: 431
Period size: 59 Copynumber: 5.7 Consensus size: 58
12264368 ATAAAAATAA
*
12264378 AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTAA
1 AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTT-C
* * * *
12264437 AAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAATATCAATTTTTCTTTAAAATAAAATTTC
1 AAAAAAATA--TTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTC
** * * *
12264497 AAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATGTTTCTTGAAAATTAAAATTTC
1 AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTT-AAAAATAAAATTTC
* * *
12264556 TAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTTAAAATAAAATTTC
1 AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTC
*** * * *
12264614 AAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAGTTTC
1 AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAAATTTC
*
12264673 CAAAAAATATTTTTG-GAGAAAAGTTGAAAGTATCAATTTTT
1 AAAAAAATATTTTTGAGA-AAAAGTTGAAAGTATCAATTTTT
12264714 TCTGCACAAA
Statistics
Matches: 240, Mismatches: 32, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
58 89 0.37
59 99 0.41
60 7 0.03
61 45 0.19
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.35
Consensus pattern (58 bp):
AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTC
Found at i:12264531 original size:58 final size:58
Alignment explanation
Indices: 12264357--12264713 Score: 441
Period size: 58 Copynumber: 6.1 Consensus size: 58
12264347 TTATTATTCT
* ** * *
12264357 ATTTTT-TTT-AAATAAAAATAAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCA
1 ATTTTTCTTTAAAATAAAATTTCAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCA
* * * *
12264413 ATTTTTCTTAAAAATAAAATTTAAAAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAATATCA
1 ATTTTTCTTTAAAATAAAATTT---CAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCA
*
12264474 ATTTTTCTTTAAAATAAAATTTCAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTTCTTTAAAATAAAATTTCAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCA
* * * * *
12264532 ATGTTTCTTGAAAATTAAAATTTCTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCA
1 ATTTTTCTTTAAAA-TAAAATTTCAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCA
* * *
12264591 ATTTTCCTTTAAAATAAAATTTCAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTTCTTTAAAATAAAATTTCAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCA
* * * *
12264649 ATTTTTCTTGAAAATCAAAGTTTCCAAAAAATATTTTTG-GAGAAAAGTTGAAAGTATCA
1 ATTTTTCTTTAAAAT-AAAATTTCAAAAAAAGATTTTTGAG-GAAAAGTTGAAAGTATCA
12264708 ATTTTT
1 ATTTTT
12264714 TCTGCACAAA
Statistics
Matches: 262, Mismatches: 31, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
56 6 0.02
57 2 0.01
58 108 0.41
59 93 0.35
61 53 0.20
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.36
Consensus pattern (58 bp):
ATTTTTCTTTAAAATAAAATTTCAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCA
Found at i:12264603 original size:117 final size:117
Alignment explanation
Indices: 12264378--12264712 Score: 485
Period size: 117 Copynumber: 2.8 Consensus size: 117
12264368 ATAAAAATAA
** * * *
12264378 AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTT-AAAAATAAAATTTAAAAAAA
1 AAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATTAAAATTT-CAAAAA
* * * *
12264442 AAAAGGTTTTTGAGGAAAAGTTGAAAATATCAATTTTTCTTTAAAATAAAATTTC
65 AATA--TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTTAAAATAAAATTTC
* *
12264497 AAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATGTTTCTTGAAAATTAAAATTTCTAAAAA
1 AAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATTAAAATTTCAAAAAA
12264562 ATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTTAAAATAAAATTTC
66 ATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTTAAAATAAAATTTC
* * * *
12264614 AAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAGTTTCCAAAAA
1 AAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATTAAAATTTCAAAAAA
12264679 ATATTTTTG-GAGAAAAGTTGAAAGTATCAATTTT
66 ATATTTTTGAGA-AAAAGTTGAAAGTATCAATTTT
12264713 TTCTGCACAA
Statistics
Matches: 198, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
116 2 0.01
117 137 0.69
119 47 0.24
120 12 0.06
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.35
Consensus pattern (117 bp):
AAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATTAAAATTTCAAAAAA
ATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTTAAAATAAAATTTC
Found at i:12270142 original size:42 final size:42
Alignment explanation
Indices: 12269947--12270408 Score: 619
Period size: 41 Copynumber: 11.0 Consensus size: 42
12269937 ATGATTGTCA
* * *
12269947 AGGAGTAATTTACTTTCT-AAAGTCATGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * *
12269988 AGGAGCAATTTAC-TTTTCAAAGTTGTGGTGTCTTTGTTTAG
1 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
12270029 AAGAGCAATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
12270070 AGGAGCAATTTAC-TTTTCAAAGTCATGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *
12270111 AGGAGCAATTCACTTTTTCAAAGTCGTGGTGCCTCTATTTAG
1 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * *
12270153 AGGAGCGATTTATTTTTTTCAAAAGTCATGGTGCCTCTGTTTAG
1 AGGAGCAATTTA-CTTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
* * *
12270197 AGGAGCAATTTACTTTCTAAAAGTCGTGGTGCCTCTATTTAG
1 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
12270239 AGGAGCAATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * *
12270280 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGTCTCTGTTCAA
1 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
**
12270322 AGGAGCAATTTACTTTTTCCAAAAGTAATGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTT-C-AAAGTCGTGGTGCCTCTGTTTAG
* * * * *
12270366 AGGAGCGATTTACTTTCTAAAAGTCATGGTGCTTCTGTTTAG
1 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
12270408 A
1 A
12270409 AATTCGTGGT
Statistics
Matches: 372, Mismatches: 42, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
40 3 0.01
41 157 0.42
42 135 0.36
43 11 0.03
44 66 0.18
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (42 bp):
AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:12270247 original size:169 final size:166
Alignment explanation
Indices: 12269947--12270597 Score: 747
Period size: 169 Copynumber: 4.0 Consensus size: 166
12269937 ATGATTGTCA
* *
12269947 AGGAGTAATTTACTTTCT-AAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT
1 AGGAGCAATTTACTTTTTCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT
** * * * * *
12270011 TGTGGTGTCTTTGTTTAGAAGAGCAATTTACTTT-TCAAAGTCGTGGTGCCTCTGTTTAGAGGAG
66 CATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTAAAAGTCGTGGTGCCTCTATTTAGAGGAG
*
12270075 CAATTTACTTTTCAAAGTCATGGTGCCTCTGTTTAG
131 CAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * * * *
12270111 AGGAGCAATTCACTTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGCGATTTATTTTTTTCAAA
1 AGGAGCAATTTACTTTTTCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTA--CTTTTC-AA
12270176 AGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTAAAAGTCGTGGTGCCTCTATTTAGAG
63 AGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTAAAAGTCGTGGTGCCTCTATTTAGAG
12270241 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
128 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * * *
12270280 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGTCTCTGTTCAAAGGAGCAATTTACTTTTTCCAAA
1 AGGAGCAATTTACTTTTTCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTAC-TTTT-C-AA
* * * * *
12270345 AGTAATGGTGCCTCTGTTTAGAGGAGCGATTTACTTTCTAAAAGTCATGGTGCTTCTGTTT----
63 AGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTAAAAGTCGTGGTGCCTCTATTTAGAG
12270406 -AG-AA---A----T-----TCGTGGTGCCTCTGTTTAG
128 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
12270431 AGGAGCAATTTAC--TTTCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT
1 AGGAGCAATTTACTTTTTCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT
* * * * * *
12270494 CGTGGTGCCTCTGTTTAGAGGAGCAATTTA-TTTTTCAAAA-TCGTTGAGCCTCTAATTAGATGA
66 CATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCT-AAAAGTCGTGGTGCCTCTATTTAGAGGA
* * * *
12270557 GCCATTTATGTTTTTCAAAGTCGTTGAGCCTCTGTTTAG
130 GCAATTTA--CTTTTCAAAGTCGTGGTGCCTCTGTTTAG
12270596 AG
1 AG
12270598 AAGCTTTGAT
Statistics
Matches: 415, Mismatches: 44, Indels: 55
0.81 0.09 0.11
Matches are distributed among these distances:
145 15 0.04
146 36 0.09
147 1 0.00
148 4 0.01
149 36 0.09
150 2 0.00
151 33 0.08
154 1 0.00
156 1 0.00
160 2 0.00
163 2 0.00
164 17 0.04
165 51 0.12
167 5 0.01
168 38 0.09
169 171 0.41
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (166 bp):
AGGAGCAATTTACTTTTTCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT
CATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTAAAAGTCGTGGTGCCTCTATTTAGAGGAG
CAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:12270501 original size:41 final size:41
Alignment explanation
Indices: 12270412--12270597 Score: 239
Period size: 41 Copynumber: 4.5 Consensus size: 41
12270402 GTTTAGAAAT
12270412 TCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC-TTTCAAAG
1 TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG
*
12270452 TCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG
1 TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG
* *
12270493 TCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAA
1 TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG
* * ** * * *
12270534 TCGTTGAGCCTCTAATTAGATGAGCCATTTATGTTTTTCAAAG
1 TCGTGGTGCCTCTGTTTAGAGGAGCAATTTA--CTTTTCAAAG
* *
12270577 TCGTTGAGCCTCTGTTTAGAG
1 TCGTGGTGCCTCTGTTTAGAG
12270598 AAGCTTTGAT
Statistics
Matches: 129, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
40 31 0.24
41 71 0.55
43 27 0.21
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.38
Consensus pattern (41 bp):
TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG
Found at i:12270626 original size:10 final size:10
Alignment explanation
Indices: 12270608--12270637 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
12270598 AAGCTTTGAT
12270608 AAAAA-AAAA
1 AAAAACAAAA
12270617 AAAAACAAAA
1 AAAAACAAAA
12270627 AAAAACAAAA
1 AAAAACAAAA
12270637 A
1 A
12270638 GTAAAAAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.25
10 15 0.75
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAACAAAA
Found at i:12270643 original size:16 final size:16
Alignment explanation
Indices: 12270607--12270644 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
12270597 GAAGCTTTGA
12270607 TAAAAAAAAAAAAAAC
1 TAAAAAAAAAAAAAAC
*
12270623 -AAAAAAAAACAAAAAG
1 TAAAAAAAAA-AAAAAC
12270639 TAAAAA
1 TAAAAA
12270645 GGTCAAGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 9 0.47
16 5 0.26
17 5 0.26
ACGTcount: A:0.87, C:0.05, G:0.03, T:0.05
Consensus pattern (16 bp):
TAAAAAAAAAAAAAAC
Found at i:12270815 original size:6 final size:5
Alignment explanation
Indices: 12270792--12270856 Score: 67
Period size: 5 Copynumber: 11.8 Consensus size: 5
12270782 CTATGTTCCT
*
12270792 TTTTA TTTTA TTTTA TTTTCA TTTTTA TTTTTA TTCTA TTTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTT-A -TTTTA -TTTTA TTTTA -TTTTA TTTTA
12270841 TTATTA TTATTA TTTT
1 TT-TTA TT-TTA TTTT
12270857 TTATATATAT
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
5 27 0.50
6 23 0.43
7 4 0.07
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:12270819 original size:17 final size:17
Alignment explanation
Indices: 12270797--12270856 Score: 70
Period size: 17 Copynumber: 3.5 Consensus size: 17
12270787 TTCCTTTTTA
12270797 TTTTATTTTATTTTCAT
1 TTTTATTTTATTTTCAT
*
12270814 TTTTATTTT-TATTCTAT
1 TTTTATTTTATTTTC-AT
12270831 TTTTATTTTATTATT-AT
1 TTTTATTTTATT-TTCAT
*
12270848 TATTATTTT
1 TTTTATTTT
12270857 TTATATATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
16 4 0.11
17 30 0.81
18 1 0.03
19 2 0.05
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTATTTTATTTTCAT
Found at i:12270831 original size:28 final size:28
Alignment explanation
Indices: 12270791--12270854 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
12270781 TCTATGTTCC
* *
12270791 TTTTTATTTTA-TTTTATTTTCATTTTTA
1 TTTTTATTCTATTTTTATTTT-ATTATTA
12270819 TTTTTATTCTATTTTTATTTTATTATTA
1 TTTTTATTCTATTTTTATTTTATTATTA
*
12270847 TTATTATT
1 TTTTTATT
12270855 TTTTATATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 23 0.72
29 9 0.28
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (28 bp):
TTTTTATTCTATTTTTATTTTATTATTA
Found at i:12270869 original size:18 final size:17
Alignment explanation
Indices: 12270794--12270860 Score: 61
Period size: 17 Copynumber: 4.1 Consensus size: 17
12270784 ATGTTCCTTT
12270794 TTATT-TTATTTTATT-
1 TTATTATTATTTTATTA
*
12270809 TTCATTTTTATTTTTATT-
1 TT-ATTATTA-TTTTATTA
* *
12270827 CTATTTTTATTTTATTA
1 TTATTATTATTTTATTA
12270844 TTATTATTATTTT-TTA
1 TTATTATTATTTTATTA
12270860 T
1 T
12270861 ATATATATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
15 2 0.04
16 14 0.31
17 21 0.47
18 8 0.18
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (17 bp):
TTATTATTATTTTATTA
Found at i:12271918 original size:11 final size:10
Alignment explanation
Indices: 12271904--12271942 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
12271894 TCTTTTTATC
12271904 TTTATTTTTGT
1 TTTATTTTT-T
12271915 TTTATTATTTT
1 TTTATT-TTTT
*
12271926 TTTATTTTTA
1 TTTATTTTTT
12271936 TTTATTT
1 TTTATTT
12271943 GCACTTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 10 0.38
11 13 0.50
12 3 0.12
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (10 bp):
TTTATTTTTT
Found at i:12272057 original size:59 final size:57
Alignment explanation
Indices: 12271986--12272258 Score: 336
Period size: 59 Copynumber: 4.7 Consensus size: 57
12271976 TTAAATAAAA
* *
12271986 AAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAAATTTCCTTGAAAATCAAAGTTTTC
1 AAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAA-ATTTC
* * *
12272045 AAAAAATATTTTTG-GAAAAAAGTTGAAAATATCAATTTTCCTTTAAAATAAAATTTC
1 AAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTC
* * *
12272102 AAAAAA-AGGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTACTTGAAAATTAAAATTTTT
1 AAAAAATA--TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAA-TAAAA-TTTC
* *
12272162 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTTAAAATAAAATTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTC
**
12272219 AAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
12272259 TTCTGCACAA
Statistics
Matches: 189, Mismatches: 16, Indels: 19
0.84 0.07 0.08
Matches are distributed among these distances:
56 1 0.01
57 19 0.10
58 75 0.40
59 84 0.44
60 9 0.05
61 1 0.01
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.36
Consensus pattern (57 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTC
Found at i:12272123 original size:58 final size:58
Alignment explanation
Indices: 12272003--12272258 Score: 320
Period size: 58 Copynumber: 4.4 Consensus size: 58
12271993 ATTTTTAGGG
* *
12272003 AAAAGTTGAAAGTATCAAATTTCCTTGAAAATCAAAGTTTTCAAAAAATA--TTTTTG-GAA
1 AAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAA-ATTTCAAAAAA-AGGTTTTTGAG-A
* *
12272062 AAAAGTTGAAAATATCAATTTTCCTTTAAAATAAAATTTCAAAAAAAGGTTTTTGAGA
1 AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTCAAAAAAAGGTTTTTGAGA
* ** ** *
12272120 AAAAGTTGAAAGTATCAATTTTACTTGAAAATTAAAATTTTTAAAAAATATTTTTGAGG
1 AAAAGTTGAAAGTATCAATTTTCCTTGAAAA-TAAAATTTCAAAAAAAGGTTTTTGAGA
* * * *
12272179 AAAAGTTGAAAGTATCAATTTTCTTTTAAAATAAAATTTCAAAAAAGGGTTTTTGAGG
1 AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTCAAAAAAAGGTTTTTGAGA
12272237 AAAAGTTGAAAGTATCAATTTT
1 AAAAGTTGAAAGTATCAATTTT
12272259 TTCTGCACAA
Statistics
Matches: 173, Mismatches: 20, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
56 1 0.01
57 10 0.06
58 82 0.47
59 80 0.46
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.36
Consensus pattern (58 bp):
AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTCAAAAAAAGGTTTTTGAGA
Found at i:12272255 original size:117 final size:117
Alignment explanation
Indices: 12272001--12272258 Score: 410
Period size: 117 Copynumber: 2.2 Consensus size: 117
12271991 ATATTTTTAG
* * *
12272001 GGAAAAGTTGAAAGTATCAAATTTCCTTGAAAATCAAAGTTTTCAAAAAATATTTTTGGAAAAAA
1 GGAAAAGTTGAAAGTATCAATTTTACTTGAAAATCAAAATTTTCAAAAAATATTTTTGGAAAAAA
12272066 GTTGAAAATATCAATTTTCCTTTAAAATAAAATTTCAAAAAAAGGTTTTTGA
66 GTTGAAAATATCAATTTTCCTTTAAAATAAAATTTCAAAAAAAGGTTTTTGA
* * * *
12272118 GAAAAAGTTGAAAGTATCAATTTTACTTGAAAATTAAAATTTTTAAAAAATATTTTT-GAGGAAA
1 GGAAAAGTTGAAAGTATCAATTTTACTTGAAAATCAAAATTTTCAAAAAATATTTTTGGA-AAAA
* * *
12272182 AGTTGAAAGTATCAATTTTCTTTTAAAATAAAATTTCAAAAAAGGGTTTTTGA
65 AGTTGAAAATATCAATTTTCCTTTAAAATAAAATTTCAAAAAAAGGTTTTTGA
12272235 GGAAAAGTTGAAAGTATCAATTTT
1 GGAAAAGTTGAAAGTATCAATTTT
12272259 TTCTGCACAA
Statistics
Matches: 129, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
116 2 0.02
117 127 0.98
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.36
Consensus pattern (117 bp):
GGAAAAGTTGAAAGTATCAATTTTACTTGAAAATCAAAATTTTCAAAAAATATTTTTGGAAAAAA
GTTGAAAATATCAATTTTCCTTTAAAATAAAATTTCAAAAAAAGGTTTTTGA
Found at i:12286374 original size:5 final size:5
Alignment explanation
Indices: 12286358--12286397 Score: 53
Period size: 5 Copynumber: 7.4 Consensus size: 5
12286348 TCATTTTCCT
12286358 TTTAA TTTTAA TTTAA TTTAA TTTAA TTTTTAA TTTAA TT
1 TTTAA -TTTAA TTTAA TTTAA TTTAA --TTTAA TTTAA TT
12286398 ATTTTTCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 22 0.69
6 5 0.16
7 5 0.16
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (5 bp):
TTTAA
Found at i:12286413 original size:3 final size:3
Alignment explanation
Indices: 12286395--12286479 Score: 77
Period size: 3 Copynumber: 28.0 Consensus size: 3
12286385 TTTTAATTTA
* *
12286395 ATT ATT TTT CATT ATT ATT ATG ATT ATT ATT ATT ATT ATTT ATCT ATT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT AT-T ATT
* *
12286443 AAT ATT -TT -TT ATCT ATT ATT A-T CTT ATT ATT ATT ATT
1 ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
12286480 TTCTTTTAGT
Statistics
Matches: 68, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
2 5 0.07
3 52 0.76
4 11 0.16
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:12286476 original size:17 final size:16
Alignment explanation
Indices: 12286395--12286479 Score: 81
Period size: 17 Copynumber: 5.4 Consensus size: 16
12286385 TTTTAATTTA
12286395 ATTATT-TTTCATTATT
1 ATTATTATTT-ATTATT
*
12286411 ATTATGA-TTATTATT
1 ATTATTATTTATTATT
12286426 ATTATTATTTATCTATT
1 ATTATTATTTAT-TATT
*
12286443 A--A-TATTTTTTATCT
1 ATTATTATTTATTAT-T
12286457 ATTATTATCTTATTATT
1 ATTATTAT-TTATTATT
12286474 ATTATT
1 ATTATT
12286480 TTCTTTTAGT
Statistics
Matches: 57, Mismatches: 4, Indels: 15
0.75 0.05 0.20
Matches are distributed among these distances:
13 3 0.05
14 8 0.14
15 13 0.23
16 12 0.21
17 15 0.26
18 6 0.11
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (16 bp):
ATTATTATTTATTATT
Found at i:12287271 original size:3 final size:3
Alignment explanation
Indices: 12287260--12287338 Score: 58
Period size: 3 Copynumber: 26.0 Consensus size: 3
12287250 CTTTTTTTTA
**
12287260 ATT ATTT ATT ATT ATT ATT ATT ATT ATT ATTT AGA ATT ATT -TGGT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT AT--T ATT
*
12287308 CCTT ATT ATT -TT ATT -TT ATT ATT -TT ATT ATT
1 -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
12287339 TATTTTTTTA
Statistics
Matches: 61, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
2 7 0.11
3 44 0.72
4 9 0.15
5 1 0.02
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:12287278 original size:13 final size:13
Alignment explanation
Indices: 12287260--12287338 Score: 65
Period size: 13 Copynumber: 6.0 Consensus size: 13
12287250 CTTTTTTTTA
12287260 ATTATTTATTATT
1 ATTATTTATTATT
12287273 ATTA-TTATTATT
1 ATTATTTATTATT
**
12287285 ATTATTTAGAATT
1 ATTATTTATTATT
* *
12287298 ATT-TGGTATTCCTT
1 ATTAT-TTATT-ATT
12287312 ATTATTTTATT-TT
1 ATTA-TTTATTATT
12287325 ATTATTTTATTATT
1 ATTA-TTTATTATT
12287339 TATTTTTTTA
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
12 13 0.25
13 28 0.53
14 7 0.13
15 4 0.08
16 1 0.02
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.66
Consensus pattern (13 bp):
ATTATTTATTATT
Found at i:12287439 original size:14 final size:15
Alignment explanation
Indices: 12287420--12287452 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
12287410 TTCCTTAAAA
12287420 AAAAT-AAAATTTTC
1 AAAATAAAAATTTTC
12287434 AAAATAAAAATTTTC
1 AAAATAAAAATTTTC
12287449 AAAA
1 AAAA
12287453 GCATTTTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAATAAAAATTTTC
Found at i:12287563 original size:53 final size:56
Alignment explanation
Indices: 12287464--12287596 Score: 173
Period size: 59 Copynumber: 2.4 Consensus size: 56
12287454 CATTTTGGGG
* * * *
12287464 AAAGTTGAAAGTATCAATTTCCCTTAAAGATAAAAGGATTTAAAAAATATTTTTAGGAA
1 AAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAA-GA--TAAAAAACATTTTAAGGAA
*
12287523 AAAGTTGAAAGTATCAATTTTCTTTAAAAATAAAA-A-AAAAAACATTTTAAGGAA
1 AAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAGATAAAAAACATTTTAAGGAA
12287577 AAA-TTGAAAGTATCAATTTT
1 AAAGTTGAAAGTATCAATTTT
12287597 TATTGTGCAA
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
53 17 0.25
54 19 0.28
57 1 0.01
59 32 0.46
ACGTcount: A:0.50, C:0.06, G:0.11, T:0.32
Consensus pattern (56 bp):
AAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAGATAAAAAACATTTTAAGGAA
Found at i:12290120 original size:20 final size:21
Alignment explanation
Indices: 12290078--12290120 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
12290068 ATCAGAATTG
* *
12290078 AAGTTTGCAACAAGAGAATTT
1 AAGTTTGCAAAAAGAGAAGTT
*
12290099 AAGTTTG-AAAAAGATAAGTT
1 AAGTTTGCAAAAAGAGAAGTT
12290119 AA
1 AA
12290121 AGCAAGAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.49, C:0.05, G:0.19, T:0.28
Consensus pattern (21 bp):
AAGTTTGCAAAAAGAGAAGTT
Found at i:12299206 original size:41 final size:41
Alignment explanation
Indices: 12299128--12299560 Score: 336
Period size: 41 Copynumber: 10.3 Consensus size: 41
12299118 AGGCATTTAC
**
12299128 TTTCAAAGTTCGTT--GCCTCTGTTTAGAGGAGTTATTTATT
1 TTTCAAAGTT-GTTGAGCCTCTGTTTAGAGGAGCAATTTATT
* *
12299168 TTTCAAAGTTGTTGAGCCTTTGTTTAGATGAGCAATTTATT
1 TTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCAATTTATT
* * * **
12299209 TTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGTTATTTATT
1 TTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCAATTTATT
* * * *
12299250 TCTTCAAAAGTTGTTAAGCTTCTGCTTAGAGGAGCTTTATTTATTT
1 T-TTC-AAAGTTGTTGAGCCTCTGTTTAGAGGAGC--AATTTA-TT
* * * * *
12299296 TTTAAAAGTTATGGAGCCTTTGTTTAGAGGAGCAATTTACT
1 TTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCAATTTATT
*
12299337 TTTCAAAAGTCT-TTGAGCATCTGTTTAGAGGAGCAATTTA-T
1 TTTC-AAAGT-TGTTGAGCCTCTGTTTAGAGGAGCAATTTATT
* ** * * **
12299378 TTTAAAAGTCATTGAGCTTCTATTTAGAGGAGCTTTGTTTATT
1 TTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGC--AATTTATT
** ** * **
12299421 TTTCCAAAGTCATTGAGCCTCTGACTAGAGAAGCTTTGTTTATTT
1 TTT-CAAAGTTGTTGAGCCTCTGTTTAGAGGAGC--AATTTA-TT
*
12299466 TTCTCAAAGTTGTTGAGCCTCTGTTTAGATGAGCAATTTATT
1 TT-TCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCAATTTATT
* * * * *
12299508 TTTCAAAGTTGTGGTGCCTCTATTTAGAAGAGCAATTTA-C
1 TTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCAATTTATT
12299548 TTTCAAAAGTTGT
1 TTTC-AAAGTTGT
12299561 ATTGCCTCTA
Statistics
Matches: 320, Mismatches: 56, Indels: 33
0.78 0.14 0.08
Matches are distributed among these distances:
39 3 0.01
40 39 0.12
41 106 0.33
42 46 0.14
43 31 0.10
44 55 0.17
45 36 0.11
46 4 0.01
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.43
Consensus pattern (41 bp):
TTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCAATTTATT
Found at i:12299378 original size:170 final size:169
Alignment explanation
Indices: 12299142--12299602 Score: 489
Period size: 170 Copynumber: 2.7 Consensus size: 169
12299132 AAAGTTCGTT
** * *
12299142 GCCTCTGTTTAGAGGAGTTATTTATTTTTCAAAGTTGTTGAGCCTTTGTTTAGATGAGCAATTTA
1 GCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTGTTGAGCCTCTGTTTAGAAGAGCAATTTA
* ** *
12299207 TTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAG-TTATTTATTTCTTCAAAAGTTGTTAAGCTT
66 -TTTTCAAAGTTGTAGTGCCTCTATTTAGAGGAGCTTATTTATTT-TTCAAAAGTCATTAAGCCT
*
12299271 CTG-CTTAGAGGAGCTTTATTTATTTTT-TAAAAGTTATGGA
129 CTGAC-TAGAGAAGCTTTATTTATTTTTCTAAAAGTTATGGA
* * * *
12299311 GCCTTTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCT-TTGAGCATCTGTTTAGAGGAGCAATT
1 GCCTCTGTTTAGAGGAGCAATTTATTTTTC-AAAGT-TGTTGAGCCTCTGTTTAGAAGAGCAATT
* ** * * * * * *
12299375 TATTTTAAAAGTCATTGAGCTTCTATTTAGAGGAGCTTTGTTTATTTTTCCAAAGTCATTGAGCC
64 TATTTTCAAAGTTGTAGTGCCTCTATTTAGAGGAGC-TTATTTATTTTTCAAAAGTCATTAAGCC
* * * *
12299440 TCTGACTAGAGAAGCTTTGTTTATTTTTCTCAAAGTTGTTGA
128 TCTGACTAGAGAAGCTTTATTTATTTTTCTAAAAGTTATGGA
* * * *
12299482 GCCTCTGTTTAGATGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTATTTAGAAGAGCAATTTA
1 GCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTGTTGAGCCTCTGTTTAGAAGAGCAATTTA
* * * ** *
12299547 CTTTCAAAAGTTGTATTGCCTCTATCTAGAAAAGCTTTATTTTTTTTTCCAAAAGT
66 TTTTC-AAAGTTGTAGTGCCTCTATTTAGAGGAGC-TTATTTATTTTT-CAAAAGT
12299603 TGAGCCTTTG
Statistics
Matches: 237, Mismatches: 46, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
169 54 0.23
170 98 0.41
171 79 0.33
172 6 0.03
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.43
Consensus pattern (169 bp):
GCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTGTTGAGCCTCTGTTTAGAAGAGCAATTTA
TTTTCAAAGTTGTAGTGCCTCTATTTAGAGGAGCTTATTTATTTTTCAAAAGTCATTAAGCCTCT
GACTAGAGAAGCTTTATTTATTTTTCTAAAAGTTATGGA
Found at i:12299430 original size:84 final size:83
Alignment explanation
Indices: 12299149--12299558 Score: 317
Period size: 84 Copynumber: 4.9 Consensus size: 83
12299139 GTTGCCTCTG
* * *
12299149 TTTAGAGGAGTTATTTATTTTTC-AAAGTTGTTGAGCCTTTGTTTAGATGAGCAATTTATTTTTC
1 TTTAGAGGAGTTATTTATTTTTCAAAAGTTGTTGAGCCTCTGTTTAGAGGAGCAATTTATTTTTA
* * *
12299213 AAAGTTGTGGTGCCTCTA
66 AAAGTTATGGAGCTTCTA
* * * *
12299231 TTTAGAGGAGTTATTTATTTCTTCAAAAGTTGTTAAGCTTCTGCTTAGAGGAGCTTTATTTATTT
1 TTTAGAGGAGTTATTTATTT-TTCAAAAGTTGTTGAGCCTCTGTTTAGAGGAGC--AATTTA-TT
*
12299296 TTTAAAAGTTATGGAGCCTT-TG
62 TTTAAAAGTTATGGAG-CTTCTA
** * *
12299318 TTTAGAGGAGCAATTTACTTTTCAAAAGTCT-TTGAGCATCTGTTTAGAGGAGCAATTTA-TTTT
1 TTTAGAGGAGTTATTTATTTTTCAAAAGT-TGTTGAGCCTCTGTTTAGAGGAGCAATTTATTTTT
* *
12299381 AAAAGTCATTGAGCTTCTA
65 AAAAGTTATGGAGCTTCTA
* * ** ** * **
12299400 TTTAGAGGAGCTTTGTTTATTTTTCCAAAGTCATTGAGCCTCTGACTAGAGAAGCTTTGTTTATT
1 TTTAGAGGAG--TTATTTATTTTTCAAAAGTTGTTGAGCCTCTGTTTAGAGGAGC--AATTTA-T
* * * * *
12299465 TTTCTCAAAGTTGTTGAGCCTCTG
61 TTT-TAAAAGTTATGGAGCTTCTA
* ** * * * * * *
12299489 TTTAGATGAGCAATTTATTTTTC-AAAGTTGTGGTGCCTCTATTTAGAAGAGCAATTTACTTTCA
1 TTTAGAGGAGTTATTTATTTTTCAAAAGTTGTTGAGCCTCTGTTTAGAGGAGCAATTTATTTTTA
12299553 AAAGTT
66 AAAGTT
12299559 GTATTGCCTC
Statistics
Matches: 256, Mismatches: 56, Indels: 32
0.74 0.16 0.09
Matches are distributed among these distances:
81 3 0.01
82 52 0.20
83 6 0.02
84 65 0.25
86 57 0.22
87 44 0.17
88 5 0.02
89 24 0.09
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.43
Consensus pattern (83 bp):
TTTAGAGGAGTTATTTATTTTTCAAAAGTTGTTGAGCCTCTGTTTAGAGGAGCAATTTATTTTTA
AAAGTTATGGAGCTTCTA
Found at i:12299567 original size:41 final size:41
Alignment explanation
Indices: 12299469--12299577 Score: 130
Period size: 41 Copynumber: 2.7 Consensus size: 41
12299459 TTTATTTTTC
* * * * *
12299469 TCAAAGTTGTTGAGCCTCTGTTTAGATGAGCAATTTATTTT
1 TCAAAGTTGTAGTGCCTCTATTTAGAAGAGCAATTTATCTT
*
12299510 TCAAAGTTGTGGTGCCTCTATTTAGAAGAGCAATTTA-CTT
1 TCAAAGTTGTAGTGCCTCTATTTAGAAGAGCAATTTATCTT
* *
12299550 TCAAAAGTTGTATTGCCTCTATCTAGAA
1 TC-AAAGTTGTAGTGCCTCTATTTAGAA
12299578 AAGCTTTATT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
40 4 0.07
41 55 0.93
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (41 bp):
TCAAAGTTGTAGTGCCTCTATTTAGAAGAGCAATTTATCTT
Found at i:12299747 original size:45 final size:43
Alignment explanation
Indices: 12299614--12299747 Score: 132
Period size: 40 Copynumber: 3.1 Consensus size: 43
12299604 GAGCCTTTGT
* * *
12299614 TTAGAAGAGCTTTGTTTACTTTC-CAAAGTCATTAAGCCTCTAT
1 TTAGAGGAGCTTTGTTTA-TTTCACAAAGTCATTGAGCCTCTAC
* * *
12299657 TTAGAGGAGCTTT-ATT-TTTCA-AAAGTCATTGAGCCTTTGC
1 TTAGAGGAGCTTTGTTTATTTCACAAAGTCATTGAGCCTCTAC
* * *
12299697 CTAGAGGAGCTTTGTTTATTTCACTTAAAATCGTTGAGCCTCTAC
1 TTAGAGGAGCTTTGTTTATTTCAC--AAAGTCATTGAGCCTCTAC
12299742 TTAGAG
1 TTAGAG
12299748 AAGTTTTGAT
Statistics
Matches: 72, Mismatches: 13, Indels: 10
0.76 0.14 0.11
Matches are distributed among these distances:
40 31 0.43
41 2 0.03
42 7 0.10
43 12 0.17
45 20 0.28
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (43 bp):
TTAGAGGAGCTTTGTTTATTTCACAAAGTCATTGAGCCTCTAC
Found at i:12299794 original size:11 final size:11
Alignment explanation
Indices: 12299778--12299812 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
12299768 ACCAAAAAAC
12299778 AACAAAACAAA
1 AACAAAACAAA
12299789 AACAAAACAAA
1 AACAAAACAAA
12299800 AA-AAAAGCAAA
1 AACAAAA-CAAA
12299811 AA
1 AA
12299813 AATAAGTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 4 0.17
11 19 0.83
ACGTcount: A:0.83, C:0.14, G:0.03, T:0.00
Consensus pattern (11 bp):
AACAAAACAAA
Found at i:12299797 original size:16 final size:16
Alignment explanation
Indices: 12299778--12299811 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
12299768 ACCAAAAAAC
12299778 AACAAAACAAAAA-CAA
1 AACAAAA-AAAAAGCAA
12299794 AACAAAAAAAAAGCAA
1 AACAAAAAAAAAGCAA
12299810 AA
1 AA
12299812 AAATAAGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.82, C:0.15, G:0.03, T:0.00
Consensus pattern (16 bp):
AACAAAAAAAAAGCAA
Found at i:12299995 original size:16 final size:16
Alignment explanation
Indices: 12299971--12300004 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
12299961 TCATTTTCTT
12299971 TTTAATTTTAATTTAA
1 TTTAATTTTAATTTAA
*
12299987 TTTACTTTTAATTTAA
1 TTTAATTTTAATTTAA
12300003 TT
1 TT
12300005 ATTTTTCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTAATTTTAATTTAA
Found at i:12300020 original size:3 final size:3
Alignment explanation
Indices: 12300002--12300114 Score: 72
Period size: 3 Copynumber: 36.7 Consensus size: 3
12299992 TTTTAATTTA
* *
12300002 ATT ATT TTT CATT ATT ATT ATG ATT ATT ATT ATT ATTT ATCT ATT ATT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT A-TT AT-T ATT ATT
* * *
12300050 -TT TTT ATT ATT ATT ATT -TT CTT -TT AGTT ATCT ATT AAT A-T ATTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT AT-T ATT ATT ATT A-TT
* *
12300094 ATCT ATT ATT TTT ATT TTT AT
1 AT-T ATT ATT ATT ATT ATT AT
12300115 CTTTTTTTTC
Statistics
Matches: 89, Mismatches: 10, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
2 8 0.09
3 62 0.70
4 19 0.21
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:12300041 original size:25 final size:25
Alignment explanation
Indices: 12300013--12300114 Score: 72
Period size: 28 Copynumber: 4.0 Consensus size: 25
12300003 TTATTTTTCA
12300013 TTAT-TATTATGATTATTATTATTAT
1 TTATCTATTAT-ATTATTATTATTAT
*
12300038 TTATCTATTATTTTTTTATTATTATTAT
1 TTATCTATTA---TATTATTATTATTAT
12300066 TT-TCT-TT-TAGTTATCTATTAATATAT
1 TTATCTATTATA-TTAT-TATT-AT-TAT
*
12300092 TTATCTATTAT-TT-TTATTTTTAT
1 TTATCTATTATATTATTATTATTAT
12300115 CTTTTTTTTC
Statistics
Matches: 63, Mismatches: 3, Indels: 24
0.70 0.03 0.27
Matches are distributed among these distances:
22 1 0.02
23 7 0.11
24 5 0.08
25 10 0.16
26 13 0.21
27 8 0.13
28 17 0.27
29 2 0.03
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (25 bp):
TTATCTATTATATTATTATTATTAT
Found at i:12300923 original size:20 final size:20
Alignment explanation
Indices: 12300883--12300922 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
12300873 AATTATTTGG
*
12300883 TATTTCTTATTATTTTATTT
1 TATTTCTTATTATCTTATTT
12300903 TATTTCTTATT-TCTTATTT
1 TATTTCTTATTATCTTATTT
12300922 T
1 T
12300923 TTAATGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.75
Consensus pattern (20 bp):
TATTTCTTATTATCTTATTT
Found at i:12300936 original size:27 final size:27
Alignment explanation
Indices: 12300837--12300925 Score: 85
Period size: 27 Copynumber: 3.3 Consensus size: 27
12300827 GTTTTTTTAA
* *
12300837 ATTATTTTAT-TTATTTATTTATTTATT
1 ATTATTTTATATTATTT-CTTATTTCTT
* **
12300864 ATTA-TTTAGAATTATTTGGTATTTCTT
1 ATTATTTTA-TATTATTTCTTATTTCTT
*
12300891 ATTATTTTATTTTATTTCTTATTTCTT
1 ATTATTTTATATTATTTCTTATTTCTT
12300918 ATT-TTTTA
1 ATTATTTTA
12300926 ATGATTTTTC
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
26 9 0.18
27 32 0.63
28 10 0.20
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (27 bp):
ATTATTTTATATTATTTCTTATTTCTT
Found at i:12301025 original size:14 final size:15
Alignment explanation
Indices: 12301008--12301040 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
12300998 AAAAAATAAA
12301008 AAAAT-AAAATTTCT
1 AAAATAAAAATTTCT
12301022 AAAATAAAAATTTCT
1 AAAATAAAAATTTCT
12301037 AAAA
1 AAAA
12301041 GCATTTTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAATAAAAATTTCT
Found at i:12301156 original size:59 final size:56
Alignment explanation
Indices: 12301052--12301245 Score: 166
Period size: 59 Copynumber: 3.5 Consensus size: 56
12301042 CATTTTGGGG
* *** ** * * *
12301052 AAAGTTGAAAGTATCAATTTCCCTTGAAGATAAAAAGATTTAAAAAATATTTTTAGAAA
1 AAAGTTGAAAGTATCAATTTTCCTTGAA-ATAAATTTA-AAAAAAAACATTTTAAG-GA
*
12301111 AAAGTTGAAAGTATCAATTTTTCCTTGAAATTAAATTTAAAAAAAAACATTTTGAGGA
1 AAAGTTGAAAGTATCAA-TTTTCCTTGAAA-TAAATTTAAAAAAAAACATTTTAAGGA
* *
12301169 AAAGTTGGAAA-TACCAATTTT-CTT-TAA-AAA--TAAAAAAAAACATTTTAAGGA
1 AAAGTT-GAAAGTATCAATTTTCCTTGAAATAAATTTAAAAAAAAACATTTTAAGGA
* *
12301220 AAAGTTGAAAGTATCGATTTTTCTTG
1 AAAGTTGAAAGTATCAATTTTCCTTG
12301246 TGCAAAAGCA
Statistics
Matches: 115, Mismatches: 14, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
50 4 0.03
51 34 0.30
52 3 0.03
53 3 0.03
55 2 0.02
56 3 0.03
57 4 0.03
58 12 0.10
59 35 0.30
60 15 0.13
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.34
Consensus pattern (56 bp):
AAAGTTGAAAGTATCAATTTTCCTTGAAATAAATTTAAAAAAAAACATTTTAAGGA
Found at i:12302183 original size:22 final size:21
Alignment explanation
Indices: 12302139--12302181 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
12302129 AATTTTCTTG
*
12302139 ATTTTTTTTATTTATTAGAAA
1 ATTTTTTTTATTTATGAGAAA
12302160 ATTTTTTTTATTCT-TGAGAAA
1 ATTTTTTTTATT-TATGAGAAA
12302181 A
1 A
12302182 ATAAATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTTTTTTTATTTATGAGAAA
Found at i:12303014 original size:9 final size:9
Alignment explanation
Indices: 12303002--12303029 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
12302992 AAAATAATAT
12303002 ATATAAAAA
1 ATATAAAAA
12303011 ATATAAAAA
1 ATATAAAAA
12303020 ATATAAAAA
1 ATATAAAAA
12303029 A
1 A
12303030 AAAATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
ATATAAAAA
Found at i:12303031 original size:22 final size:23
Alignment explanation
Indices: 12302991--12303034 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
12302981 TTAAAATAAC
* *
12302991 TAAAATAATATATATAAAAAATA
1 TAAAATAATATAAAAAAAAAATA
12303014 TAAAA-AATATAAAAAAAAAAT
1 TAAAATAATATAAAAAAAAAAT
12303035 TTTTTTTACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (23 bp):
TAAAATAATATAAAAAAAAAATA
Found at i:12303948 original size:27 final size:29
Alignment explanation
Indices: 12303894--12303953 Score: 88
Period size: 27 Copynumber: 2.1 Consensus size: 29
12303884 CAGTGGGATA
*
12303894 GGTGATCAGAGGGGTAGAGGGTAGGGTAT
1 GGTGATCAGAAGGGTAGAGGGTAGGGTAT
*
12303923 GGTGATTAGAAGGGT-G-GGGTAGGGTAT
1 GGTGATCAGAAGGGTAGAGGGTAGGGTAT
12303950 GGTG
1 GGTG
12303954 GCAGTGGTGC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 15 0.52
28 1 0.03
29 13 0.45
ACGTcount: A:0.22, C:0.02, G:0.53, T:0.23
Consensus pattern (29 bp):
GGTGATCAGAAGGGTAGAGGGTAGGGTAT
Found at i:12304029 original size:18 final size:18
Alignment explanation
Indices: 12304008--12304046 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
12303998 TATTCTTTTT
12304008 TTTTTTTAGTATTTTGTA
1 TTTTTTTAGTATTTTGTA
*
12304026 TTTTTTTGGTATTTTGTA
1 TTTTTTTAGTATTTTGTA
12304044 TTT
1 TTT
12304047 AATAATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.74
Consensus pattern (18 bp):
TTTTTTTAGTATTTTGTA
Found at i:12304452 original size:47 final size:47
Alignment explanation
Indices: 12304260--12304658 Score: 446
Period size: 48 Copynumber: 8.4 Consensus size: 47
12304250 CTTCTCACTT
* * *
12304260 GAGGCTCGACAACTTTTGAAAATTTAAAATCTGAAAAAGACTCCTCTCAGAA
1 GAGGCTCAACAAC-TTT-AAAATTT--CATCTGAAAAAG-CTCCTCTCAGCA
* *
12304312 GAGGCTCAACAACTTTAAAAATTTCATCTTAAAAGGGCTCCTCTCAGCA
1 GAGGCTCAACAACTTT-AAAATTTCATCTGAAAA-AGCTCCTCTCAGCA
* ** *
12304361 AAGGCTCAACGGCTTTAAAAATTTCATCTGAAAAAGCTCATCTCAGCA
1 GAGGCTCAACAACTTT-AAAATTTCATCTGAAAAAGCTCCTCTCAGCA
* * * *
12304409 GAGGCTCGACAATTTTAAAATCTCATCTGAAAAAGCTTCTCTCAGCA
1 GAGGCTCAACAACTTTAAAATTTCATCTGAAAAAGCTCCTCTCAGCA
** * * *
12304456 GAGGCTCAATGACTTTAAAATCTCATTTAAAAAAGCTCCTCTCAGCA
1 GAGGCTCAACAACTTTAAAATTTCATCTGAAAAAGCTCCTCTCAGCA
* * * * *
12304503 AAGGCTCAATAACTTTAAATTTTCATCTTGGAAAAGCTCCTCTTAGCA
1 GAGGCTCAACAACTTTAAAATTTCATC-TGAAAAAGCTCCTCTCAGCA
* * *
12304551 GAGGCTTAACAACTTTAAAATCTCATCTTGAAAAAGCTCCTCTCAGTA
1 GAGGCTCAACAACTTTAAAATTTCATC-TGAAAAAGCTCCTCTCAGCA
12304599 GAGGCTCAACAACTTTAAAA--TC-T-TGAAAAAGCTCCTCTCAGCA
1 GAGGCTCAACAACTTTAAAATTTCATCTGAAAAAGCTCCTCTCAGCA
12304642 GAGGCTCAACAACTTTA
1 GAGGCTCAACAACTTTA
12304659 TCTCTTAACA
Statistics
Matches: 300, Mismatches: 45, Indels: 13
0.84 0.13 0.04
Matches are distributed among these distances:
43 36 0.12
45 1 0.00
46 2 0.01
47 90 0.30
48 99 0.33
49 49 0.16
50 1 0.00
51 10 0.03
52 12 0.04
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (47 bp):
GAGGCTCAACAACTTTAAAATTTCATCTGAAAAAGCTCCTCTCAGCA
Found at i:12304678 original size:59 final size:62
Alignment explanation
Indices: 12304606--12304721 Score: 159
Period size: 63 Copynumber: 1.9 Consensus size: 62
12304596 GTAGAGGCTC
12304606 AACAACTTTAAAA-TC-T-TGA-AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTATCTCTT
1 AACAACTTTAAAACTCATCTGAGAAAAGCTCCTCTCAG-AGAGGCTCAACAACTTTATCTCTT
* * *
12304665 AACAACTTTAAAATCTCATCTTAGAAAAGCTCCTCTCAGAGAGGCTTAATAACTTTA
1 AACAACTTTAAAA-CTCATCTGAGAAAAGCTCCTCTCAGAGAGGCTCAACAACTTTA
12304722 AAAATCTCAT
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
59 13 0.27
61 2 0.04
62 1 0.02
63 18 0.37
64 15 0.31
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.29
Consensus pattern (62 bp):
AACAACTTTAAAACTCATCTGAGAAAAGCTCCTCTCAGAGAGGCTCAACAACTTTATCTCTT
Found at i:12304743 original size:48 final size:49
Alignment explanation
Indices: 12304665--12305110 Score: 528
Period size: 48 Copynumber: 9.4 Consensus size: 49
12304655 TTTATCTCTT
*
12304665 AACAACTTT-AAAATCTCATCTT-AGAAAAGCTCCTCTCAG-AGAGGCTT
1 AACAACTTTAAAAATCTCATCTTGA-AAAAGCTCCTCTCAGCAGAGGCTC
* * *
12304712 AATAACTTTAAAAATCTCATCTTGAATAAGCTCCTCCCAGCAGAGGCTC
1 AACAACTTTAAAAATCTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTC
*
12304761 AACAACTTTAAAAA--TCATCTTGAAAAAGCTCCTCTTAGCAGAGGCTC
1 AACAACTTTAAAAATCTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTC
* *
12304808 AACAACTTT-AAAATCTCAT-TTGAAAAAACTCCTCTCAGTAGAGGCTC
1 AACAACTTTAAAAATCTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTC
* *
12304855 AACAACTTAAAAAATTTCATC-TGAAAAAGCTCCTCTCAGCAGAGGCTC
1 AACAACTTTAAAAATCTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTC
* * * *
12304903 AATAA--GT-AAAATC-CATCTTGAAAAAGCTCATCTCAACAGAGGCTC
1 AACAACTTTAAAAATCTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTC
* * ** * *
12304948 AACAACTTTAAAAATTTCATC-TGAAAAAGCTACTCTCAATAGAGGTTG
1 AACAACTTTAAAAATCTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTC
* * * * *
12304996 GACAACTTTAAAAA--TCATCTTGAAAAAGCTTCTTTCAACAAAGGCTC
1 AACAACTTTAAAAATCTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTC
* * *
12305043 AACAACTTTAAAAA-ATCATCTTGAAAAAGCTTCTCTCAGTAGAGGCTC
1 AACAACTTTAAAAATCTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTC
12305091 AACAACTTTAAAAATCTCAT
1 AACAACTTTAAAAATCTCAT
12305111 TTGTTCTTCA
Statistics
Matches: 342, Mismatches: 42, Indels: 28
0.83 0.10 0.07
Matches are distributed among these distances:
44 4 0.01
45 34 0.10
46 9 0.03
47 115 0.34
48 151 0.44
49 29 0.08
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.26
Consensus pattern (49 bp):
AACAACTTTAAAAATCTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTC
Found at i:12304789 original size:95 final size:96
Alignment explanation
Indices: 12304665--12305110 Score: 520
Period size: 95 Copynumber: 4.7 Consensus size: 96
12304655 TTTATCTCTT
* * *
12304665 AACAACTTTAAAATCTCATCTT-AGAAAAGCTCCTCTCAG-AGAGGCTTAATAACTTTAAAAATC
1 AACAACTTTAAAA-ATCATCTTGA-AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATC
* * *
12304728 TCATCTTGAATAAGCTCCTCCCAGCAGAGGCTC
64 TCATCTTGAAAAAGCTCCTCTCAACAGAGGCTC
*
12304761 AACAACTTTAAAAATCATCTTGAAAAAGCTCCTCTTAGCAGAGGCTCAACAACTTT-AAAATCTC
1 AACAACTTTAAAAATCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTC
* **
12304825 AT-TTGAAAAAACTCCTCTCAGTAGAGGCTC
66 ATCTTGAAAAAGCTCCTCTCAACAGAGGCTC
* * *
12304855 AACAACTTAAAAAATTTCATC-TGAAAAAGCTCCTCTCAGCAGAGGCTCAATAA--GT-AAAATC
1 AACAACTTTAAAAA--TCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATC
*
12304916 -CATCTTGAAAAAGCTCATCTCAACAGAGGCTC
64 TCATCTTGAAAAAGCTCCTCTCAACAGAGGCTC
* ** * **
12304948 AACAACTTTAAAAATTTCATC-TGAAAAAGCTACTCTCAATAGAGGTTGGACAACTTTAAAAA--
1 AACAACTTTAAAAA--TCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATC
* * *
12305010 TCATCTTGAAAAAGCTTCTTTCAACAAAGGCTC
64 TCATCTTGAAAAAGCTCCTCTCAACAGAGGCTC
* *
12305043 AACAACTTTAAAAAATCATCTTGAAAAAGCTTCTCTCAGTAGAGGCTCAACAACTTTAAAAATCT
1 AACAACTTT-AAAAATCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCT
12305108 CAT
65 CAT
12305111 TTGTTCTTCA
Statistics
Matches: 303, Mismatches: 34, Indels: 25
0.84 0.09 0.07
Matches are distributed among these distances:
92 3 0.01
93 76 0.25
94 42 0.14
95 135 0.45
96 43 0.14
97 4 0.01
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.26
Consensus pattern (96 bp):
AACAACTTTAAAAATCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTC
ATCTTGAAAAAGCTCCTCTCAACAGAGGCTC
Found at i:12309373 original size:14 final size:14
Alignment explanation
Indices: 12309351--12309394 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
12309341 TAAAAATGGA
*
12309351 ATGGCAAGAAAATG
1 ATGGAAAGAAAATG
12309365 ATGGAAAGAAAA-G
1 ATGGAAAGAAAATG
12309378 AATGGAAAGTAAAATG
1 -ATGGAAAG-AAAATG
12309394 A
1 A
12309395 AGATGAAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 1 0.04
14 19 0.73
15 5 0.19
16 1 0.04
ACGTcount: A:0.57, C:0.02, G:0.27, T:0.14
Consensus pattern (14 bp):
ATGGAAAGAAAATG
Found at i:12315918 original size:13 final size:12
Alignment explanation
Indices: 12315897--12315950 Score: 56
Period size: 12 Copynumber: 4.4 Consensus size: 12
12315887 TTTGTGTGAA
12315897 TTTTTTTTGCTT
1 TTTTTTTTGCTT
*
12315909 TTTATTTTTGATT
1 TTT-TTTTTGCTT
12315922 TTTTTTGTT-CTT
1 TTTTTT-TTGCTT
**
12315934 TTTTTTTACCTT
1 TTTTTTTTGCTT
12315946 TTTTT
1 TTTTT
12315951 ACTGAAAATG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
11 1 0.03
12 22 0.61
13 13 0.36
ACGTcount: A:0.06, C:0.07, G:0.06, T:0.81
Consensus pattern (12 bp):
TTTTTTTTGCTT
Found at i:12316445 original size:22 final size:21
Alignment explanation
Indices: 12316402--12316443 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
12316392 TTTTCTTTCT
*
12316402 TTTTTTTTATTTATTAGAAAA
1 TTTTTTTTATTTATGAGAAAA
12316423 TTTTTTTTATTCT-TGAGAAAA
1 TTTTTTTTATT-TATGAGAAAA
12316444 ATAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.60
Consensus pattern (21 bp):
TTTTTTTTATTTATGAGAAAA
Found at i:12317691 original size:13 final size:13
Alignment explanation
Indices: 12317673--12317698 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12317663 CTGTTACCTC
12317673 CGCCGTCGTCGGT
1 CGCCGTCGTCGGT
12317686 CGCCGTCGTCGGT
1 CGCCGTCGTCGGT
12317699 GATAAAAAAA
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:0.00, C:0.38, G:0.38, T:0.23
Consensus pattern (13 bp):
CGCCGTCGTCGGT
Found at i:12318187 original size:29 final size:29
Alignment explanation
Indices: 12318142--12318209 Score: 109
Period size: 29 Copynumber: 2.3 Consensus size: 29
12318132 CAGTAGGATG
*
12318142 GGTGATCAGAGGGGTGGAGGGTAAGGTAT
1 GGTGATCAGAGGCGTGGAGGGTAAGGTAT
* *
12318171 GGTGATCAGAGGCGTGGGGGGTAGGGTAT
1 GGTGATCAGAGGCGTGGAGGGTAAGGTAT
12318200 GGTGATCAGA
1 GGTGATCAGA
12318210 AGGGTGAGGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.22, C:0.06, G:0.51, T:0.21
Consensus pattern (29 bp):
GGTGATCAGAGGCGTGGAGGGTAAGGTAT
Found at i:12318224 original size:29 final size:28
Alignment explanation
Indices: 12318142--12318232 Score: 103
Period size: 29 Copynumber: 3.1 Consensus size: 28
12318132 CAGTAGGATG
* *
12318142 GGTGATCAGAGGGGTGGAGGGTAAGGTAT
1 GGTGATCAGAAGGGT-GAGGGTAGGGTAT
*
12318171 GGTGATCAG-AGGCGTGGGGGGTAGGGTAT
1 GGTGATCAGAAGG-GT-GAGGGTAGGGTAT
*
12318200 GGTGATCAGAAGGGTGAGGGATAGGGCAT
1 GGTGATCAGAAGGGTGAGGG-TAGGGTAT
12318229 GGTG
1 GGTG
12318233 GTCGAGGGGC
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
28 6 0.11
29 45 0.83
30 3 0.06
ACGTcount: A:0.22, C:0.05, G:0.53, T:0.20
Consensus pattern (28 bp):
GGTGATCAGAAGGGTGAGGGTAGGGTAT
Found at i:12318311 original size:17 final size:17
Alignment explanation
Indices: 12318291--12318327 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
12318281 CTGTTTGTTT
*
12318291 TTTTTTTGTATTTTATA
1 TTTTTTTATATTTTATA
12318308 TTTTTTTATATTTTATA
1 TTTTTTTATATTTTATA
12318325 TTT
1 TTT
12318328 AATAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTTTTTATATTTTATA
Found at i:12319143 original size:18 final size:19
Alignment explanation
Indices: 12319120--12319166 Score: 78
Period size: 18 Copynumber: 2.5 Consensus size: 19
12319110 TACTATACTT
12319120 AAAAAAAAGAAAAAAA-GA
1 AAAAAAAAGAAAAAAAGGA
*
12319138 AAAAAAAATAAAAAAAGGA
1 AAAAAAAAGAAAAAAAGGA
12319157 AAAAAAAAGA
1 AAAAAAAAGA
12319167 GAAAGAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.87, C:0.00, G:0.11, T:0.02
Consensus pattern (19 bp):
AAAAAAAAGAAAAAAAGGA
Found at i:12320353 original size:39 final size:37
Alignment explanation
Indices: 12320270--12320561 Score: 181
Period size: 39 Copynumber: 7.5 Consensus size: 37
12320260 AGTGTTATCC
* *
12320270 TATTTTTAAAATTGTGTGCCTATATTATGAGGAGCCTT
1 TATTTTTAAAATTGTGTG-CTTTATTATAAGGAGCCTT
*
12320308 TATTTTTAAAATTGAGTGACTTTATTATAAAGGAGCCTT
1 TATTTTTAAAATTGTGTG-CTTTATTAT-AAGGAGCCTT
* * *
12320347 TATTTTTAAAGTTGTGTGCTTCTATTATGAAGAAGCATT
1 TATTTTTAAAATTGTGTGCTT-TATTAT-AAGGAGCCTT
* * * * *
12320386 TATTTTTAAAATCGTGTGCCTCTATTGTTAAAGAGCTTT
1 TATTTTTAAAATTGTGTG-CTTTATT-ATAAGGAGCCTT
* * * * * *
12320425 TATCTTTAAAGTTTTATGCCTTAATTGTTAAGGAGCCTT
1 TATTTTTAAAATTGTGTG-CTTTATT-ATAAGGAGCCTT
* * * * *
12320464 TA-TTTTAAAAGTTATGTGTCTCTGTTATGGAGAAGCCTT
1 TATTTTTAAAA-TTGTGTG-CTTTATTAT-AAGGAGCCTT
* ** * *
12320503 TATTTTTAAAGTCATGTGCCTTTATTGTTGAGGAGCCCCTT
1 TATTTTTAAAATTGTGTG-CTTTATT-ATAAGGAG--CCTT
*
12320544 TATTTTTAAAGTTGTGTG
1 TATTTTTAAAATTGTGTG
12320562 TCTCTATTTT
Statistics
Matches: 199, Mismatches: 45, Indels: 17
0.76 0.17 0.07
Matches are distributed among these distances:
38 35 0.18
39 133 0.67
40 11 0.06
41 20 0.10
ACGTcount: A:0.26, C:0.11, G:0.18, T:0.46
Consensus pattern (37 bp):
TATTTTTAAAATTGTGTGCTTTATTATAAGGAGCCTT
Found at i:12320505 original size:78 final size:79
Alignment explanation
Indices: 12320423--12320584 Score: 200
Period size: 80 Copynumber: 2.1 Consensus size: 79
12320413 TTAAAGAGCT
**
12320423 TTTATCTTTAAAGTTTTATGCCTTAATTGTTAAGGAG-CCTTTATTTTAAAAGTTATGTGTCTCT
1 TTTATCTTTAAAGTCATATGCCTTAATTGTTAAGGAGCCCTTTATTTTAAAAGTTATGTGTCTCT
* * *
12320487 GTTATGGAGAAGCC
66 ATTATCGAGAAACC
* * * * * *
12320501 TTTATTTTTAAAGTCATGTGCCTTTATTGTTGAGGAGCCCCTTTATTTTTAAAGTTGTGTGTCTC
1 TTTATCTTTAAAGTCATATGCCTTAATTGTTAAGGAG-CCCTTTATTTTAAAAGTTATGTGTCTC
*
12320566 TATTTTCGAGAAACC
65 TATTATCGAGAAACC
12320581 TTTA
1 TTTA
12320585 GTAAAAAAAA
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
78 31 0.44
80 39 0.56
ACGTcount: A:0.23, C:0.13, G:0.17, T:0.46
Consensus pattern (79 bp):
TTTATCTTTAAAGTCATATGCCTTAATTGTTAAGGAGCCCTTTATTTTAAAAGTTATGTGTCTCT
ATTATCGAGAAACC
Found at i:12335823 original size:3 final size:3
Alignment explanation
Indices: 12335817--12335865 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
12335807 AATAATAATC
*
12335817 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
12335865 T
1 T
12335866 AAAATTTTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:12335905 original size:9 final size:9
Alignment explanation
Indices: 12335817--12335905 Score: 58
Period size: 9 Copynumber: 9.9 Consensus size: 9
12335807 AATAATAATC
*
12335817 TTATTATTA
1 TTATTATAA
*
12335826 TTATTATTA
1 TTATTATAA
*
12335835 TTATTATTA
1 TTATTATAA
*
12335844 TTATTATTA
1 TTATTATAA
*
12335853 TTATTATCA
1 TTATTATAA
*
12335862 TTA-TAAAA
1 TTATTATAA
12335870 TT-TTAATAA
1 TTATT-ATAA
*
12335879 -TATAATAA
1 TTATTATAA
*
12335887 TAATAATATAA
1 T--TATTATAA
12335898 TTATTATA
1 TTATTATA
12335906 TAAGTAAAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
8 11 0.17
9 48 0.73
11 7 0.11
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (9 bp):
TTATTATAA
Found at i:12338313 original size:16 final size:17
Alignment explanation
Indices: 12338294--12338335 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
12338284 TAATTATAAG
12338294 ATAATTTATTATT-TTA
1 ATAATTTATTATTATTA
*
12338310 ATAATTTTATTTTTAATTA
1 ATAA-TTTATTATT-ATTA
12338329 ATAATTT
1 ATAATTT
12338336 TCTTATTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 4 0.18
17 8 0.36
18 3 0.14
19 7 0.32
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATAATTTATTATTATTA
Found at i:12338331 original size:19 final size:20
Alignment explanation
Indices: 12338307--12338351 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
12338297 ATTTATTATT
*
12338307 TTAATAATTTTATT-TTTAA
1 TTAATAATTTTATTATTAAA
*
12338326 TTAATAATTTTCTTATTAAA
1 TTAATAATTTTATTATTAAA
12338346 TTAATA
1 TTAATA
12338352 TATTGATTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
TTAATAATTTTATTATTAAA
Found at i:12349263 original size:32 final size:32
Alignment explanation
Indices: 12349225--12349290 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
12349215 GATTTTGAAG
12349225 AATGAAACTCTAGACATATAATGGAGATGGGT
1 AATGAAACTCTAGACATATAATGGAGATGGGT
12349257 AATGAAACTCTAGACATATAATGGAGATGGGT
1 AATGAAACTCTAGACATATAATGGAGATGGGT
12349289 AA
1 AA
12349291 CCTTTAAACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.42, C:0.09, G:0.24, T:0.24
Consensus pattern (32 bp):
AATGAAACTCTAGACATATAATGGAGATGGGT
Found at i:12351352 original size:14 final size:14
Alignment explanation
Indices: 12351333--12351363 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
12351323 TTATTCTTAA
12351333 TTTATTAGTTAATT
1 TTTATTAGTTAATT
*
12351347 TTTATTATTTAATT
1 TTTATTAGTTAATT
12351361 TTT
1 TTT
12351364 TAACAAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (14 bp):
TTTATTAGTTAATT
Found at i:12351711 original size:24 final size:24
Alignment explanation
Indices: 12351684--12351732 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
12351674 TTAAATATTT
* *
12351684 TAATATGCATAAATATTATAAAAA
1 TAATATACATAAATATTAAAAAAA
*
12351708 TAATATATATAAATATTAAAAAAA
1 TAATATACATAAATATTAAAAAAA
12351732 T
1 T
12351733 TCAAAATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (24 bp):
TAATATACATAAATATTAAAAAAA
Found at i:12352721 original size:6 final size:6
Alignment explanation
Indices: 12352704--12352733 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
12352694 AATAAAATAT
*
12352704 TTCGAG TCCGAG TTCGAG TTCGAG TTCGAG
1 TTCGAG TTCGAG TTCGAG TTCGAG TTCGAG
12352734 CATGAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.20, G:0.33, T:0.30
Consensus pattern (6 bp):
TTCGAG
Found at i:12353204 original size:17 final size:19
Alignment explanation
Indices: 12353177--12353214 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
12353167 TTGTTTTTCC
12353177 TTTTCATTTTTCTTGT-TT
1 TTTTCATTTTTCTTGTATT
12353195 TTTTCATTTTT-TTGTATT
1 TTTTCATTTTTCTTGTATT
12353213 TT
1 TT
12353215 GTTTAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.08, C:0.08, G:0.05, T:0.79
Consensus pattern (19 bp):
TTTTCATTTTTCTTGTATT
Found at i:12353618 original size:51 final size:51
Alignment explanation
Indices: 12353563--12354009 Score: 439
Period size: 51 Copynumber: 8.8 Consensus size: 51
12353553 ATTTAAAATC
* * *
12353563 TGAAAAAATCTCCTTTCAGTA-AGGGCTTAACAACTTTAAAAATTTTCATCT
1 TGAAAAAAGCTCCTTTCAGTAGA-GGCTCAACAACTTTAAAAATTCTCATCT
* * *
12353614 TG-AAAAAGGTTCTTCTAAGTAGAGGCTCAACAACTTT-AAAATT-TCATCT
1 TGAAAAAAGCTCCTT-TCAGTAGAGGCTCAACAACTTTAAAAATTCTCATCT
* *
12353663 TG-AAAAAGCT-CTTCTCAGCAGAGGCTCAATAACTTT-AAAATTCT-ATCT
1 TGAAAAAAGCTCCTT-TCAGTAGAGGCTCAACAACTTTAAAAATTCTCATCT
* *
12353711 TGAAAAAAGCTCCTTTCAGTAGAGGCTTAATAACTTTTAAAAATTCTCATCT
1 TGAAAAAAGCTCCTTTCAGTAGAGGCTCAACAAC-TTTAAAAATTCTCATCT
* * * * *
12353763 TG-AAAAAGACTCCTCTAAGCAGAGGCTTAACAATTTTAAAGAAATTCTCATCT
1 TGAAAAAAG-CTCCTTTCAGTAGAGGCTCAACAACTTT-AA-AAATTCTCATCT
* * *
12353816 TGAAAAAGGCTCCTTTCAATAGAGGCTCAACAATTTTAAAAATTCTCATCT
1 TGAAAAAAGCTCCTTTCAGTAGAGGCTCAACAACTTTAAAAATTCTCATCT
* * * ** * ***
12353867 TGAAAAAGGCTCCTCTAAACAGAGGCTCAACAACTTTAAAATTTAAAATC-
1 TGAAAAAAGCTCCTTTCAGTAGAGGCTCAACAACTTTAAAAATTCTCATCT
* * * *
12353917 T-AAAAAAGGCTCATTTCAGCAGAGGCTCAGCAACTTTATAAATTCTCATCT
1 TGAAAAAA-GCTCCTTTCAGTAGAGGCTCAACAACTTTAAAAATTCTCATCT
* * *
12353968 TGAAAAAGGCTCCTTTAAGCAGAGGCTCAACAACTTTAAAAA
1 TGAAAAAAGCTCCTTTCAGTAGAGGCTCAACAACTTTAAAAA
12354010 AGTCTCTTTC
Statistics
Matches: 335, Mismatches: 46, Indels: 30
0.82 0.11 0.07
Matches are distributed among these distances:
48 35 0.10
49 46 0.14
50 54 0.16
51 122 0.36
52 36 0.11
53 37 0.11
54 5 0.01
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (51 bp):
TGAAAAAAGCTCCTTTCAGTAGAGGCTCAACAACTTTAAAAATTCTCATCT
Found at i:12353962 original size:205 final size:201
Alignment explanation
Indices: 12353586--12354015 Score: 559
Period size: 205 Copynumber: 2.1 Consensus size: 201
12353576 TTTCAGTAAG
* *
12353586 GGCTTAACAACTTT-AAAAATTTTCATCTTGAAAAAGGTTCTTCTAAGTAGAGGCTCAACAACTT
1 GGCTTAACAACTTTAAAAAATTCTCATCTTGAAAAAGGTCCTTCTAAGTAGAGGCTCAACAACTT
* * * *
12353650 TAAAATTTCATCTTGAAAAAGCTCTTCTCAGCAGAGGCTCAATAACTTTAAAATTCTATCTTGAA
66 TAAAATTTCATCTTGAAAAAGCTCCTCTAAACAGAGGCTCAACAACTTTAAAATTCTATCTTGAA
* * * *
12353715 AAAAGCTCCTTTCAGTAGAGGCTTAATAACTTTTAAAAATTCTCATCTTGAAAAAGACTCCTCTA
131 AAAAGCTCATTTCAGCAGAGGCTCAACAACTTTTAAAAATTCTCATCTTGAAAAAGACTCCTCTA
12353780 AGCAGA
196 AGCAGA
*
12353786 GGCTTAACAATTTTAAAGAAATTCTCATCTTGAAAAAGGCTCCTT-TCAA-TAGAGGCTCAACAA
1 GGCTTAACAACTTTAAA-AAATTCTCATCTTGAAAAAGG-TCCTTCT-AAGTAGAGGCTCAACAA
*
12353849 TTTTAAAAATTCTCATCTTGAAAAAGGCTCCTCTAAACAGAGGCTCAACAACTTTAAAATT-TAA
63 CTTT-AAAATT-TCATCTTGAAAAA-GCTCCTCTAAACAGAGGCTCAACAACTTTAAAATTCT--
* *
12353913 AATC-T-AAAAAAGGCTCATTTCAGCAGAGGCTCAGCAAC-TTTATAAATTCTCATCTTGAAAAA
123 -ATCTTGAAAAAA-GCTCATTTCAGCAGAGGCTCAACAACTTTTAAAAATTCTCATCTTGAAAAA
* *
12353975 GGCTCCTTTAAGCAGA
186 GACTCCTCTAAGCAGA
* *
12353991 GGCTCAACAACTTTAAAAAAGTCTC
1 GGCTTAACAACTTTAAAAAATTCTC
12354016 TTTCCTCGAA
Statistics
Matches: 200, Mismatches: 19, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
200 13 0.06
201 2 0.01
202 38 0.19
203 12 0.06
204 21 0.10
205 89 0.44
206 22 0.11
207 3 0.01
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (201 bp):
GGCTTAACAACTTTAAAAAATTCTCATCTTGAAAAAGGTCCTTCTAAGTAGAGGCTCAACAACTT
TAAAATTTCATCTTGAAAAAGCTCCTCTAAACAGAGGCTCAACAACTTTAAAATTCTATCTTGAA
AAAAGCTCATTTCAGCAGAGGCTCAACAACTTTTAAAAATTCTCATCTTGAAAAAGACTCCTCTA
AGCAGA
Found at i:12353978 original size:101 final size:99
Alignment explanation
Indices: 12353586--12354008 Score: 480
Period size: 101 Copynumber: 4.2 Consensus size: 99
12353576 TTTCAGTAAG
* * * *
12353586 GGCTTAACAACTTTAAAAATTTTCATCTTGAAAAAGG-TTCTTCTAAGTAGAGGCTCAACAACTT
1 GGCTCAACAACTTT-AAAA-TTT-ATCTTAAAAAAGGCTCCTT-TCAGTAGAGGCTCAACAACTT
* *
12353650 T-AAAATT-TCATCTTGAAAAA-GCTCTTCTCAGCAGA
62 TAAAAATTCTCATCTTGAAAAAGGCTCCTCTAAGCAGA
* * *
12353685 GGCTCAATAACTTTAAAATTCTATCTTGAAAAAA-GCTCCTTTCAGTAGAGGCTTAATAACTTTT
1 GGCTCAACAACTTTAAAATT-TATCTT-AAAAAAGGCTCCTTTCAGTAGAGGCTCAACAAC-TTT
*
12353749 AAAAATTCTCATCTTGAAAAAGACTCCTCTAAGCAGA
63 AAAAATTCTCATCTTGAAAAAGGCTCCTCTAAGCAGA
* * * * *
12353786 GGCTTAACAATTTTAAAGAAATTCTCATCTTGAAAAAGGCTCCTTTCAATAGAGGCTCAACAATT
1 GGCTCAACAACTTT--A-AAATT-T-ATCTTAAAAAAGGCTCCTTTCAGTAGAGGCTCAACAACT
*
12353851 TTAAAAATTCTCATCTTGAAAAAGGCTCCTCTAAACAGA
61 TTAAAAATTCTCATCTTGAAAAAGGCTCCTCTAAGCAGA
* * *
12353890 GGCTCAACAACTTTAAAATTTAAAATC-TAAAAAAGGCTCATTTCAGCAGAGGCTCAGCAACTTT
1 GGCTCAACAACTTTAAAATTT---ATCTTAAAAAAGGCTCCTTTCAGTAGAGGCTCAACAACTTT
* *
12353954 ATAAATTCTCATCTTGAAAAAGGCTCCTTTAAGCAGA
63 AAAAATTCTCATCTTGAAAAAGGCTCCTCTAAGCAGA
12353991 GGCTCAACAACTTTAAAA
1 GGCTCAACAACTTTAAAA
12354009 AAGTCTCTTT
Statistics
Matches: 278, Mismatches: 32, Indels: 26
0.83 0.10 0.08
Matches are distributed among these distances:
97 24 0.09
98 17 0.06
99 18 0.06
100 14 0.05
101 111 0.40
102 4 0.01
103 1 0.00
104 62 0.22
105 27 0.10
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (99 bp):
GGCTCAACAACTTTAAAATTTATCTTAAAAAAGGCTCCTTTCAGTAGAGGCTCAACAACTTTAAA
AATTCTCATCTTGAAAAAGGCTCCTCTAAGCAGA
Found at i:12375741 original size:21 final size:21
Alignment explanation
Indices: 12375711--12375751 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
12375701 TAAATATTTG
*
12375711 TAAAAGTAAATTTGATGTGGT
1 TAAAAATAAATTTGATGTGGT
12375732 TAAAAATAAATTTGATGTGG
1 TAAAAATAAATTTGATGTGG
12375752 ATAGTTAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (21 bp):
TAAAAATAAATTTGATGTGGT
Found at i:12376864 original size:19 final size:19
Alignment explanation
Indices: 12376840--12376886 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
12376830 GTGCTAGATG
12376840 AACTTAATTGGTTGTCTAC
1 AACTTAATTGGTTGTCTAC
12376859 AACTTAATTGGTTGTCTAC
1 AACTTAATTGGTTGTCTAC
*
12376878 AATTTAATT
1 AACTTAATT
12376887 TGTATTTGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.45
Consensus pattern (19 bp):
AACTTAATTGGTTGTCTAC
Found at i:12383240 original size:10 final size:11
Alignment explanation
Indices: 12383220--12383244 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
12383210 AAAAGATGTC
12383220 TTTTTATTTTT
1 TTTTTATTTTT
12383231 TTTTTATTTTT
1 TTTTTATTTTT
12383242 TTT
1 TTT
12383245 GTGTGAGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTATTTTT
Found at i:12384398 original size:149 final size:149
Alignment explanation
Indices: 12384117--12384414 Score: 384
Period size: 149 Copynumber: 2.0 Consensus size: 149
12384107 TTCGTAATTG
* * *
12384117 GATAAAGTCAACTTCCATTGTTCTATAACTTTTTGAGTCAGAATATCACTCTTGATAAGATCTTC
1 GATAAAGTCAACTTCCATTGTTCTATAACTTTTTGAGTCAAAATACCACTCTTGATAAAATCTTC
* * * *
12384182 AACTTTTTCTTTTAGCTGATTACATTTTTAAGTTGAGTGGTCATTTACCCCCATATGATAATTAC
66 AACCTTTTCTTTTAGCTGATTACATTTTTAAGTTAAATGGTCATTTACCCCCATATGATAATCAC
12384247 ACTTACCATTAGGATCATA
131 ACTTACCATTAGGATCATA
* * * * *
12384266 GATAGAGTTAACTTTCATTGTTCTATCA-TTTTTGGAGTCAAAATACCATTCTTGATAAAATCTT
1 GATAAAGTCAACTTCCATTGTTCTATAACTTTTT-GAGTCAAAATACCACTCTTGATAAAATCTT
* * * ** * *
12384330 CAACCTTTTCTTTTAGTTG-TCTGCATTTTTTAGTTAAATGGTTGTTTGCCCCTATATGATAATC
65 CAACCTTTTCTTTTAGCTGAT-TACATTTTTAAGTTAAATGGTCATTTACCCCCATATGATAATC
*
12384394 ACACTTGCCATTAGGATCATA
129 ACACTTACCATTAGGATCATA
12384415 ATTCCTTGTC
Statistics
Matches: 127, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
148 6 0.05
149 121 0.95
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (149 bp):
GATAAAGTCAACTTCCATTGTTCTATAACTTTTTGAGTCAAAATACCACTCTTGATAAAATCTTC
AACCTTTTCTTTTAGCTGATTACATTTTTAAGTTAAATGGTCATTTACCCCCATATGATAATCAC
ACTTACCATTAGGATCATA
Found at i:12387867 original size:20 final size:20
Alignment explanation
Indices: 12387842--12387889 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
12387832 CGTGTACGGG
12387842 ATGCATGTGTATGAAATGGA
1 ATGCATGTGTATGAAATGGA
12387862 ATGCATGTGTATGAAATGGA
1 ATGCATGTGTATGAAATGGA
12387882 ATGCATGT
1 ATGCATGT
12387890 ACTATTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.31
Consensus pattern (20 bp):
ATGCATGTGTATGAAATGGA
Found at i:12388214 original size:25 final size:25
Alignment explanation
Indices: 12388185--12388236 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
12388175 CTACATGTCA
* *
12388185 AAAGAGAAAT-TTTTTTCTTTTTTTT
1 AAAGA-AAATATTTTCTCTTATTTTT
12388210 AAAGAAAATACTTTTCTCTTATTTTT
1 AAAGAAAATA-TTTTCTCTTATTTTT
12388236 A
1 A
12388237 CAAAAAGACA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.17
25 5 0.22
26 14 0.61
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.54
Consensus pattern (25 bp):
AAAGAAAATATTTTCTCTTATTTTT
Found at i:12391951 original size:179 final size:175
Alignment explanation
Indices: 12391649--12391989 Score: 538
Period size: 179 Copynumber: 1.9 Consensus size: 175
12391639 TAGAAACATG
* * *
12391649 AGACCAACCGAAACCATGTTAAACTATGTCATTTTCCGTTTATATAATTTCTCTTTTTTTCTTTT
1 AGACCAACCGAAACCATGTCAAACTATGTCATTTTCCATTTATACAATTTCTCTTTTTTTCTTTT
*
12391714 TATGAACTGCTAATTTTTTTAGTCAAACTAATCTTACTTTATTGATCCAAAAGAACAAGCACAGT
66 TATGAACTGCTAATTTTTTTAGTCAAACTAATCATACTTTATTGATCCAAAAGAACAAGCACAGT
*
12391779 CAGAGAAGGCAGCTACCAGCCAAAGAATAAAAAAACAAAAGAACA
131 CAGAGAAGGCAGCTAACAGCCAAAGAATAAAAAAACAAAAGAACA
* *
12391824 AGACCAACCGGAACCATGTCAAACTATGTCATTTTCCTTATTTATACAATTTCTCTCTTTTTTTT
1 AGACCAACCGAAACCATGTCAAACTATGTCATTTTCC--ATTTATACAATTTCTCT-TTTTTTCT
* * *
12391889 TTTTATGAACTGTTAATTTTTTTGAGTCAAACTAATCATACTTTGTTGATCTAAAAGAACAAGCA
63 TTTTATGAACTGCTAATTTTTTT-AGTCAAACTAATCATACTTTATTGATCCAAAAGAACAAGCA
* *
12391954 CGGTCAGAGAAGGCTGCTAACAGCCAAAGAATAAAA
127 CAGTCAGAGAAGGCAGCTAACAGCCAAAGAATAAAA
12391990 TCTGGAAAAA
Statistics
Matches: 150, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
175 35 0.23
177 15 0.10
178 29 0.19
179 71 0.47
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (175 bp):
AGACCAACCGAAACCATGTCAAACTATGTCATTTTCCATTTATACAATTTCTCTTTTTTTCTTTT
TATGAACTGCTAATTTTTTTAGTCAAACTAATCATACTTTATTGATCCAAAAGAACAAGCACAGT
CAGAGAAGGCAGCTAACAGCCAAAGAATAAAAAAACAAAAGAACA
Found at i:12392106 original size:55 final size:55
Alignment explanation
Indices: 12392040--12392150 Score: 179
Period size: 55 Copynumber: 2.0 Consensus size: 55
12392030 CATGTCAAAC
* *
12392040 TATGTCATTTTCCTCAGTTTATATAATTTCTATTTTTTTT-ATGAACTGTTAATTT
1 TATGTCATTTTCCTCAGTTTATATAATTTCT-TTTTTTTTAATGAACCGTAAATTT
*
12392095 TATGTCATTTTCCTTAGTTTATATAATTTCTTTTTTTTTAATGAACCGTAAATTT
1 TATGTCATTTTCCTCAGTTTATATAATTTCTTTTTTTTTAATGAACCGTAAATTT
12392150 T
1 T
12392151 TTGTGTCAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
54 8 0.15
55 44 0.85
ACGTcount: A:0.24, C:0.11, G:0.07, T:0.58
Consensus pattern (55 bp):
TATGTCATTTTCCTCAGTTTATATAATTTCTTTTTTTTTAATGAACCGTAAATTT
Found at i:12401177 original size:46 final size:46
Alignment explanation
Indices: 12401106--12401204 Score: 137
Period size: 46 Copynumber: 2.2 Consensus size: 46
12401096 CCCCTCTCAA
* *
12401106 TGAATAATTCATGGATTATTAAAGGTATTTTTGGCCAAAAACACCT
1 TGAATAATTCATGAATTATTAAAGGTATTTTTAGCCAAAAACACCT
* *
12401152 TGAATAA-TCTATGAATTATTTAAGGTATTTTTAGCCAAAAACGCCT
1 TGAATAATTC-ATGAATTATTAAAGGTATTTTTAGCCAAAAACACCT
*
12401198 TCAATAA
1 TGAATAA
12401205 CCCATTGAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 2 0.04
46 45 0.96
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (46 bp):
TGAATAATTCATGAATTATTAAAGGTATTTTTAGCCAAAAACACCT
Found at i:12401218 original size:46 final size:46
Alignment explanation
Indices: 12401115--12401218 Score: 129
Period size: 46 Copynumber: 2.3 Consensus size: 46
12401105 ATGAATAATT
* * * * *
12401115 CATGGATTATTAAAGGTATTTTTGGCCAAAAACACCTTGAATAATC
1 CATGAATTATTTAAGGTATTTTTAGCCAAAAACACCTTCAATAACC
* *
12401161 TATGAATTATTTAAGGTATTTTTAGCCAAAAACGCCTTCAATAACC
1 CATGAATTATTTAAGGTATTTTTAGCCAAAAACACCTTCAATAACC
12401207 CATTGAA-TATTT
1 CA-TGAATTATTT
12401219 TGTAAGAAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
46 45 0.92
47 4 0.08
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (46 bp):
CATGAATTATTTAAGGTATTTTTAGCCAAAAACACCTTCAATAACC
Found at i:12401540 original size:206 final size:204
Alignment explanation
Indices: 12401165--12401553 Score: 510
Period size: 206 Copynumber: 1.9 Consensus size: 204
12401155 ATAATCTATG
* * *
12401165 AATTATTTAAGGTATTTTTAGCCAAAAACGCCTTCAATAACCCATTGAATATTTTGTAAGAAATT
1 AATTATTCAAGGTATTTTTAGCCAAAAACACCTTCAATAACCCATTCAATATTTTGTAAGAAATT
** ** *
12401230 ATTCAAGGTATTTTCTGATCAAAAATGCCTTCAATATTCCCCTCATAAAAATTGAAAGGGATTAT
66 ATTCAAAATATTTTCTGATCAAAAACACCTTCAATATTCCCCTCATAAAAATTGAAAGAGATTAT
* * *
12401295 TCAAGGCATTTTTAGCCATAAAAGCCGTGACTAACCCTATTCAATTTTTTCTAAAAATGCCTTCA
131 TCAAAGCATTTTTAGCAATAAAAGCCGTAACTAACCCTATTCAA-TTTTTCTAAAAATGCCTTCA
12401360 ATAATTCACA
195 ATAATTCACA
* * * *
12401370 AATTATTCAAGGTGTTTTTAGCCAGAAACATCTTCAATAACCCTATTCAATATTTTGTAAGAGAT
1 AATTATTCAAGGTATTTTTAGCCAAAAACACCTTCAATAACCC-ATTCAATATTTTGTAAGAAAT
* * **
12401435 TATTCAAAATATTTTCT-AGCTAAAAACACTTTCAATATTCCTTTCATAAAAATTGAAAGAGATT
65 TATTCAAAATATTTTCTGATC-AAAAACACCTTCAATATTCCCCTCATAAAAATTGAAAGAGATT
** * * * * *
12401499 ATTCAAAGTGTTTTTGGTAATAAATGCCTTAACTTACCCTATTCAATTTTTCTAA
129 ATTCAAAGCATTTTTAGCAATAAAAGCCGTAACTAACCCTATTCAATTTTTCTAA
12401554 GGAATTATTC
Statistics
Matches: 156, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
205 49 0.31
206 107 0.69
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (204 bp):
AATTATTCAAGGTATTTTTAGCCAAAAACACCTTCAATAACCCATTCAATATTTTGTAAGAAATT
ATTCAAAATATTTTCTGATCAAAAACACCTTCAATATTCCCCTCATAAAAATTGAAAGAGATTAT
TCAAAGCATTTTTAGCAATAAAAGCCGTAACTAACCCTATTCAATTTTTCTAAAAATGCCTTCAA
TAATTCACA
Found at i:12402186 original size:62 final size:61
Alignment explanation
Indices: 12401993--12402186 Score: 196
Period size: 62 Copynumber: 3.2 Consensus size: 61
12401983 GGCTAAAATG
* ** * *
12401993 CCTTGAATAATCCTTTCATAAAAAATGAA-GGATTATTGAAGGCATTTTTGGT-AGAAAACA
1 CCTTCAATAATCCCCTCATAAAAATTTAAGGGATTATTGAAGGCATTTTTGGTCA-AAAACA
* * * *
12402053 CCTTCAATAATCCCCT-ATAAAAAATTTTTAGGGATTATTGAAGGTATTTTTGGCCAAAAATA
1 CCTTCAATAATCCCCTCAT-AAAAA-TTTAAGGGATTATTGAAGGCATTTTTGGTCAAAAACA
* * * * *
12402115 CCTTCAATAAACCCCTCATAAAAATTTAAGGGGATTATTCAAGGCATTTTTTGTCACAAACG
1 CCTTCAATAATCCCCTCATAAAAATTTAA-GGGATTATTGAAGGCATTTTTGGTCAAAAACA
*
12402177 CCTTGAATAA
1 CCTTCAATAA
12402187 CCATATGCCA
Statistics
Matches: 109, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
59 2 0.02
60 18 0.17
61 6 0.06
62 80 0.73
63 3 0.03
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (61 bp):
CCTTCAATAATCCCCTCATAAAAATTTAAGGGATTATTGAAGGCATTTTTGGTCAAAAACA
Found at i:12406956 original size:55 final size:55
Alignment explanation
Indices: 12406883--12407033 Score: 151
Period size: 55 Copynumber: 2.7 Consensus size: 55
12406873 TTGTCAATAA
* * * *
12406883 AATATA-ATAAACAAATTAAAATATATAAGTCTATATTGACAATCTCTAACCATC
1 AATATAGATAAAAAAATTAAAACATACAAGTCTATACTGACAATCTCTAACCATC
** * * * * *
12406937 GGTATAGATAAAAAAATTAAAGCATACAATTCTATACTGATAGTTTCTAACCATC
1 AATATAGATAAAAAAATTAAAACATACAAGTCTATACTGACAATCTCTAACCATC
* * * *
12406992 AATATAGGTAAAAAAAATTAAAAAATACATGTTTATACTGAC
1 AATATAGAT-AAAAAAATTAAAACATACAAGTCTATACTGAC
12407034 GAATGCTAAG
Statistics
Matches: 75, Mismatches: 20, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
54 4 0.05
55 45 0.60
56 26 0.35
ACGTcount: A:0.49, C:0.13, G:0.08, T:0.30
Consensus pattern (55 bp):
AATATAGATAAAAAAATTAAAACATACAAGTCTATACTGACAATCTCTAACCATC
Found at i:12407151 original size:56 final size:57
Alignment explanation
Indices: 12407091--12407294 Score: 153
Period size: 54 Copynumber: 3.8 Consensus size: 57
12407081 CAAGCATTAA
* * * * * *
12407091 CCATCAGTATAGGCAAGAAAAATTAAAATATATAAGTCTATACTGATGGGCGCT-AG
1 CCATCAGTATAGGTAAGAAAAATTAAAACATACAAATCTACACTGACGGGCGCTAAG
* **
12407147 CCATCGGTATAGGTAAG--AAATTAAAACATACAAATCTACACTGACGGGCTTTAAG
1 CCATCAGTATAGGTAAGAAAAATTAAAACATACAAATCTACACTGACGGGCGCTAAG
* * * * * * *
12407202 -CATCAGTATAGGTAA-AAAAATT------TACGAGTTTATATTGACGGACGTTAA-
1 CCATCAGTATAGGTAAGAAAAATTAAAACATACAAATCTACACTGACGGGCGCTAAG
* * *
12407250 CCATCGGTATAGGCAAGAAAAATTAAAACATACAAGTCTACACTG
1 CCATCAGTATAGGTAAGAAAAATTAAAACATACAAATCTACACTG
12407295 GTAGGTGTTA
Statistics
Matches: 114, Mismatches: 23, Indels: 22
0.72 0.14 0.14
Matches are distributed among these distances:
49 32 0.28
50 7 0.06
54 42 0.37
55 7 0.06
56 26 0.23
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (57 bp):
CCATCAGTATAGGTAAGAAAAATTAAAACATACAAATCTACACTGACGGGCGCTAAG
Found at i:12419988 original size:30 final size:30
Alignment explanation
Indices: 12419932--12419989 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
12419922 AATATTTTCT
***
12419932 AAATGTAAAACATACTTTTTGGCAAAAAGA
1 AAATGTAAAACATACTTTTAACCAAAAAGA
*
12419962 AAATGTAGAACATACTTTTAACCAAAAA
1 AAATGTAAAACATACTTTTAACCAAAAA
12419990 ATTTTTGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.26
Consensus pattern (30 bp):
AAATGTAAAACATACTTTTAACCAAAAAGA
Found at i:12424024 original size:16 final size:16
Alignment explanation
Indices: 12423986--12424025 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
12423976 ACAAGAAATA
*
12423986 TTATTTTTATTTTTTT
1 TTATTTTTATTTTTCT
12424002 TTATTTTTATTTTTGCT
1 TTATTTTTATTTTT-CT
12424019 TT-TTTTT
1 TTATTTTT
12424026 CAAACTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.10, C:0.03, G:0.03, T:0.85
Consensus pattern (16 bp):
TTATTTTTATTTTTCT
Done.