Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 34 of 133
Found at i:7678658 original size:48 final size:47
Alignment explanation
Indices: 7678606--7678699 Score: 118
Period size: 47 Copynumber: 2.0 Consensus size: 47
7678596 GATAAAAAGT
* *
7678606 AAAAAAGAATTTTCTAAATAGACCCAAATTA-TGAAAAATTTAGAAATC
1 AAAAAAAAAATTTCTAAATAG-CCCAAA-TAGTGAAAAATTTAGAAATC
* **
7678654 AAAAAAAAAATTTCTAAATTGGTCAAATAGTGAAAAATTTAGAAAT
1 AAAAAAAAAATTTCTAAATAGCCCAAATAGTGAAAAATTTAGAAAT
7678700 AAAGCATGTA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
46 2 0.05
47 20 0.50
48 18 0.45
ACGTcount: A:0.55, C:0.07, G:0.10, T:0.28
Consensus pattern (47 bp):
AAAAAAAAAATTTCTAAATAGCCCAAATAGTGAAAAATTTAGAAATC
Found at i:7681235 original size:24 final size:24
Alignment explanation
Indices: 7681208--7681263 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
7681198 TTGTTTAGGC
*
7681208 TTTTTCTCCTTTGGAACTTTGGGT
1 TTTTTCTCCTTTGGAACTCTGGGT
7681232 TTTTTCTCCTTTGGAACTCTGGGT
1 TTTTTCTCCTTTGGAACTCTGGGT
7681256 TTTTTCTC
1 TTTTTCTC
7681264 TTTCACAGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.07, C:0.20, G:0.18, T:0.55
Consensus pattern (24 bp):
TTTTTCTCCTTTGGAACTCTGGGT
Found at i:7682707 original size:27 final size:27
Alignment explanation
Indices: 7682675--7682732 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
7682665 TATTAATAAA
7682675 TAATATA-AAAAATAATAAATTA-TTT
1 TAATATATAAAAATAATAAATTATTTT
***
7682700 TAATATATTTTAATAATAAATTATTTT
1 TAATATATAAAAATAATAAATTATTTT
7682727 TAATAT
1 TAATAT
7682733 TTTAATAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 7 0.25
26 12 0.43
27 9 0.32
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
TAATATATAAAAATAATAAATTATTTT
Found at i:7682748 original size:26 final size:26
Alignment explanation
Indices: 7682685--7682739 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
7682675 TAATATAAAA
7682685 AATAATAAATTATTTTAATATATTTT
1 AATAATAAATTATTTTAATATATTTT
*
7682711 AATAATAAATTATTTTTA-ATATTTT
1 AATAATAAATTATTTTAATATATTTT
7682736 AATA
1 AATA
7682740 GTTATATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 11 0.39
26 17 0.61
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
AATAATAAATTATTTTAATATATTTT
Found at i:7693799 original size:16 final size:17
Alignment explanation
Indices: 7693767--7693799 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7693757 AAACAACATA
*
7693767 AAACTTGAAATTAAATT
1 AAACATGAAATTAAATT
7693784 AAACATGAAA-TAAATT
1 AAACATGAAATTAAATT
7693800 TTCATCCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (17 bp):
AAACATGAAATTAAATT
Found at i:7695454 original size:16 final size:16
Alignment explanation
Indices: 7695433--7695474 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
7695423 AAACCAATAC
7695433 AATTCAAATTCGTCAT
1 AATTCAAATTCGTCAT
* *
7695449 AATTCAAATACGTTAT
1 AATTCAAATTCGTCAT
*
7695465 AACTCAAATT
1 AATTCAAATT
7695475 TGTAATGATC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.43, C:0.17, G:0.05, T:0.36
Consensus pattern (16 bp):
AATTCAAATTCGTCAT
Found at i:7696098 original size:21 final size:22
Alignment explanation
Indices: 7696063--7696106 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
7696053 ATAAAACAAA
7696063 ATTATCTTATAAATTAAAATAT
1 ATTATCTTATAAATTAAAATAT
*
7696085 ATTATTTTA-AAATTAAAATAT
1 ATTATCTTATAAATTAAAATAT
7696106 A
1 A
7696107 AAGATGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
ATTATCTTATAAATTAAAATAT
Found at i:7699982 original size:16 final size:16
Alignment explanation
Indices: 7699963--7700053 Score: 74
Period size: 16 Copynumber: 5.6 Consensus size: 16
7699953 GAAATTATCT
*
7699963 AAATCTAAAAAAATTC
1 AAATCTAAAAAAATCC
* **
7699979 AAATCCAAAAGTATCC
1 AAATCTAAAAAAATCC
* *
7699995 AAATTTAAAAATATCC
1 AAATCTAAAAAAATCC
* *
7700011 AAATCCAAAACAATCC
1 AAATCTAAAAAAATCC
*
7700027 AAACCTAAAATAAATCC
1 AAATCTAAAA-AAATCC
* *
7700044 GAATATAAAA
1 AAATCTAAAA
7700054 GATTCGAAAC
Statistics
Matches: 57, Mismatches: 17, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
16 45 0.79
17 12 0.21
ACGTcount: A:0.58, C:0.19, G:0.02, T:0.21
Consensus pattern (16 bp):
AAATCTAAAAAAATCC
Found at i:7699988 original size:48 final size:47
Alignment explanation
Indices: 7699931--7700037 Score: 106
Period size: 48 Copynumber: 2.2 Consensus size: 47
7699921 GAAATTGTCT
** * * * * *
7699931 AAACTCAAAATTATTTAAATTTGAAATTATCTAAATCTAAAAAAATTC
1 AAAC-CAAAATTATCCAAATTTAAAAATATCCAAATCCAAAAAAATCC
* *
7699979 AAATCCAAAAGTATCCAAATTTAAAAATATCCAAATCCAAAACAATCC
1 AAA-CCAAAATTATCCAAATTTAAAAATATCCAAATCCAAAAAAATCC
7700027 AAACCTAAAAT
1 AAACC-AAAAT
7700038 AAATCCGAAT
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
47 2 0.04
48 44 0.94
49 1 0.02
ACGTcount: A:0.54, C:0.17, G:0.02, T:0.27
Consensus pattern (47 bp):
AAACCAAAATTATCCAAATTTAAAAATATCCAAATCCAAAAAAATCC
Found at i:7700005 original size:32 final size:32
Alignment explanation
Indices: 7699958--7700043 Score: 100
Period size: 32 Copynumber: 2.7 Consensus size: 32
7699948 AATTTGAAAT
* * *
7699958 TATCTAAATCTAAAAAAATTCAAATCCAAAAG
1 TATCCAAATCTAAAAAAATCCAAATCCAAAAC
* *
7699990 TATCCAAATTTAAAAATATCCAAATCCAAAAC
1 TATCCAAATCTAAAAAAATCCAAATCCAAAAC
* *
7700022 AATCCAAACCTAAAATAAATCC
1 TATCCAAATCTAAAA-AAATCC
7700044 GAATATAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 39 0.89
33 5 0.11
ACGTcount: A:0.55, C:0.21, G:0.01, T:0.23
Consensus pattern (32 bp):
TATCCAAATCTAAAAAAATCCAAATCCAAAAC
Found at i:7700532 original size:25 final size:24
Alignment explanation
Indices: 7700481--7700533 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
7700471 TAAAACTAGT
*
7700481 ATATATTATTTAAAAATACATTTA
1 ATATATTATTTAAAAATACATTAA
7700505 ATATATCTATTTAAAAATTACA-TAA
1 ATATAT-TATTTAAAAA-TACATTAA
7700530 ATAT
1 ATAT
7700534 TTAAGATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 6 0.23
25 16 0.62
26 4 0.15
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (24 bp):
ATATATTATTTAAAAATACATTAA
Found at i:7712103 original size:22 final size:22
Alignment explanation
Indices: 7712078--7712123 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
7712068 ATAAAAATAC
* *
7712078 AATAATCATAA-AATAATGTGAA
1 AATAATAATAATAAT-ATGTAAA
7712100 AATAATAATAATAATATGTAAA
1 AATAATAATAATAATATGTAAA
7712122 AA
1 AA
7712124 CTATATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (22 bp):
AATAATAATAATAATATGTAAA
Found at i:7717559 original size:22 final size:22
Alignment explanation
Indices: 7717523--7717578 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
7717513 ATATTACGTT
* *
7717523 TTATATT-T-AATATTATATTA
1 TTATATTATAAATATTAAAATA
7717543 TTATATTATAAATATTAAAATA
1 TTATATTATAAATATTAAAATA
7717565 TTATATTA-AAATAT
1 TTATATTATAAATAT
7717579 AAACTATCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
20 7 0.22
21 7 0.22
22 18 0.56
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATATTATAAATATTAAAATA
Found at i:7717570 original size:13 final size:13
Alignment explanation
Indices: 7717554--7717578 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7717544 TATATTATAA
7717554 ATATTAAAATATT
1 ATATTAAAATATT
7717567 ATATTAAAATAT
1 ATATTAAAATAT
7717579 AAACTATCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATTAAAATATT
Found at i:7718481 original size:2 final size:2
Alignment explanation
Indices: 7718474--7718505 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7718464 AGTTCATGTT
7718474 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7718506 AATAATTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7720471 original size:19 final size:20
Alignment explanation
Indices: 7720429--7720472 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
7720419 TGTCTAACTC
* * *
7720429 ATTTAATTTGATTGATAGTG
1 ATTTAATGTGATTAATAGTA
7720449 ATTTAATGT-ATTAATAGTA
1 ATTTAATGTGATTAATAGTA
7720468 ATTTA
1 ATTTA
7720473 TTTATTGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (20 bp):
ATTTAATGTGATTAATAGTA
Found at i:7721885 original size:12 final size:12
Alignment explanation
Indices: 7721884--7721914 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
7721874 GGTGGTGATG
7721884 GTGGTGGCTGTC
1 GTGGTGGCTGTC
7721896 GTGGTGGCTGTC
1 GTGGTGGCTGTC
7721908 GTGGTGG
1 GTGGTGG
7721915 TGGTTGGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.13, G:0.55, T:0.32
Consensus pattern (12 bp):
GTGGTGGCTGTC
Found at i:7721900 original size:15 final size:14
Alignment explanation
Indices: 7721870--7721917 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 14
7721860 CTTCTTCTTG
*
7721870 TGGTGGTGG-TG-A
1 TGGTGGTGGCTGTC
7721882 TGGTGGTGGCTGTC
1 TGGTGGTGGCTGTC
7721896 --GTGGTGGCTGTC
1 TGGTGGTGGCTGTC
7721908 GTGGTGGTGG
1 -TGGTGGTGG
7721918 TTGGTGTAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
12 21 0.70
13 2 0.07
15 7 0.23
ACGTcount: A:0.02, C:0.08, G:0.56, T:0.33
Consensus pattern (14 bp):
TGGTGGTGGCTGTC
Found at i:7725264 original size:16 final size:17
Alignment explanation
Indices: 7725245--7725289 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
7725235 TAAAATAAAT
7725245 AAATAATAAAA-AATCA
1 AAATAATAAAAGAATCA
*
7725261 AAATAAGAATAAGAATCA
1 AAATAATAA-AAGAATCA
7725279 AAATAAATAAA
1 AAAT-AATAAA
7725290 TAACAAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 8 0.33
17 2 0.08
18 10 0.42
19 4 0.17
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.18
Consensus pattern (17 bp):
AAATAATAAAAGAATCA
Found at i:7725569 original size:41 final size:42
Alignment explanation
Indices: 7725510--7725635 Score: 105
Period size: 42 Copynumber: 3.0 Consensus size: 42
7725500 GCTCAATGAT
* *
7725510 TTTGAGAAAAA-AAA-TGCTCATCTGAATAGAGGCACCAC-AC
1 TTTG-GAAAAATAAATTGCTCATCTAAATAAAGGCACCACAAC
* * **
7725550 TTTGGAAAAATAAATTGCTCCTCTAAATAAATGCATTACAAC
1 TTTGGAAAAATAAATTGCTCATCTAAATAAAGGCACCACAAC
* ** * * * *
7725592 TTTGAAAAAATAAATTATTCCTCTAAACAGAGGCATCACAAC
1 TTTGGAAAAATAAATTGCTCATCTAAATAAAGGCACCACAAC
7725634 TT
1 TT
7725636 AAAAAATAAT
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
39 6 0.09
40 7 0.10
41 18 0.26
42 39 0.56
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (42 bp):
TTTGGAAAAATAAATTGCTCATCTAAATAAAGGCACCACAAC
Found at i:7725633 original size:42 final size:42
Alignment explanation
Indices: 7725537--7725654 Score: 130
Period size: 42 Copynumber: 2.8 Consensus size: 42
7725527 TCATCTGAAT
* * * *
7725537 AGAGGCACCAC-ACTTTGGAAAAATAAATTGCTCCTCTAAAT
1 AGAGGCATCACAACTTTGAAAAAATAAATTACTCCTCTAAAC
* * * *
7725578 AAATGCATTACAACTTTGAAAAAATAAATTATTCCTCTAAAC
1 AGAGGCATCACAACTTTGAAAAAATAAATTACTCCTCTAAAC
**
7725620 AGAGGCATCACAACTTAAAAAATAATAAATTACTC
1 AGAGGCATCACAACTTTGAAAA-AATAAATTACTC
7725655 TTCGACAATC
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
41 7 0.11
42 43 0.70
43 11 0.18
ACGTcount: A:0.46, C:0.19, G:0.09, T:0.26
Consensus pattern (42 bp):
AGAGGCATCACAACTTTGAAAAAATAAATTACTCCTCTAAAC
Found at i:7726121 original size:22 final size:22
Alignment explanation
Indices: 7726093--7726153 Score: 97
Period size: 21 Copynumber: 2.8 Consensus size: 22
7726083 GCCTCATACT
7726093 TCAAAGATTCTCATTTGAAAAC
1 TCAAAGATTCTCATTTGAAAAC
* *
7726115 TCAAAGATTCTTATTTG-AAAT
1 TCAAAGATTCTCATTTGAAAAC
7726136 TCAAAGATTCTCATTTGA
1 TCAAAGATTCTCATTTGA
7726154 TGATTCACAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
21 19 0.54
22 16 0.46
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (22 bp):
TCAAAGATTCTCATTTGAAAAC
Found at i:7731750 original size:26 final size:25
Alignment explanation
Indices: 7731692--7731750 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
7731682 AATTTTCACC
7731692 TAGAAATTTTATAGAAATTTACCAT
1 TAGAAATTTTATAGAAATTTACCAT
* * *
7731717 TTGAAATTTT-TATAAATTTCATCAT
1 TAGAAATTTTATAGAAATTT-ACCAT
7731742 TAGATAATT
1 TAGA-AATT
7731751 AATATTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 8 0.29
25 16 0.57
26 4 0.14
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.46
Consensus pattern (25 bp):
TAGAAATTTTATAGAAATTTACCAT
Found at i:7731786 original size:17 final size:18
Alignment explanation
Indices: 7731765--7731805 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
7731755 TTTATTCTCA
7731765 AAATTTATTATT-ATTTTT
1 AAATTTATT-TTAATTTTT
7731783 -AATTT-TTTTAATTTTT
1 AAATTTATTTTAATTTTT
7731799 AAATTTA
1 AAATTTA
7731806 ATCATACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
15 2 0.10
16 8 0.40
17 10 0.50
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
AAATTTATTTTAATTTTT
Found at i:7732805 original size:18 final size:18
Alignment explanation
Indices: 7732758--7732810 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
7732748 TAAAATAAAT
7732758 AAAT-AATAAAA-AATCA
1 AAATAAATAAAAGAATCA
*
7732774 AAATAAGA-ATAAGAATCA
1 AAATAA-ATAAAAGAATCA
7732792 AAATAAATAAAAGAA-CA
1 AAATAAATAAAAGAATCA
7732809 AA
1 AA
7732811 TAATTGGGCC
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
16 4 0.13
17 9 0.29
18 18 0.58
ACGTcount: A:0.74, C:0.06, G:0.06, T:0.15
Consensus pattern (18 bp):
AAATAAATAAAAGAATCA
Found at i:7733828 original size:21 final size:19
Alignment explanation
Indices: 7733804--7733878 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 19
7733794 GCCCAGAACC
7733804 GATCGATCCCCTTCTTGAGGG
1 GATCGAT-CCCTTCTTG-GGG
*
7733825 GATCAATCCCTTACTTGGGG
1 GATCGATCCCTT-CTTGGGG
* *
7733845 TGATTGATCCCTTATGTGGGGG
1 -GATCGATCCCTTCT-T-GGGG
7733867 GATCGATCCCTT
1 GATCGATCCCTT
7733879 TTTTGAAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
20 9 0.20
21 32 0.71
22 4 0.09
ACGTcount: A:0.16, C:0.24, G:0.28, T:0.32
Consensus pattern (19 bp):
GATCGATCCCTTCTTGGGG
Found at i:7740355 original size:16 final size:15
Alignment explanation
Indices: 7740330--7740359 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
7740320 ATTTTTTATT
7740330 ATTTTTAATTATTTA
1 ATTTTTAATTATTTA
7740345 ATTTATTAATTATTT
1 ATTT-TTAATTATTT
7740360 TAAAACAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATTTTTAATTATTTA
Found at i:7741721 original size:16 final size:16
Alignment explanation
Indices: 7741702--7741753 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
7741692 TCTTTTTTCT
7741702 TTTTTTATATTTTGTA
1 TTTTTTATATTTTGTA
*
7741718 TTTTATATATTTTGT-
1 TTTTTTATATTTTGTA
7741733 TTAATTTT-TATTATTGTA
1 TT--TTTTATATT-TTGTA
7741751 TTT
1 TTT
7741754 AATAATATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
15 2 0.07
16 19 0.63
17 7 0.23
18 2 0.07
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (16 bp):
TTTTTTATATTTTGTA
Found at i:7741754 original size:19 final size:20
Alignment explanation
Indices: 7741718--7741756 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
7741708 ATATTTTGTA
* *
7741718 TTTTATATATTTTGTTTAAT
1 TTTTATATATTGTATTTAAT
7741738 TTTTAT-TATTGTATTTAAT
1 TTTTATATATTGTATTTAAT
7741757 AATATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (20 bp):
TTTTATATATTGTATTTAAT
Found at i:7742067 original size:48 final size:48
Alignment explanation
Indices: 7742015--7742341 Score: 380
Period size: 47 Copynumber: 6.9 Consensus size: 48
7742005 ATTTGAAAAA
* * *
7742015 AAAAAGCTCATCTCAGTAGAGGTTTAACAACTTTAAAAATTTATTTGG
1 AAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAAATTTATTTGG
* * *
7742063 AAAAAGTTCCTC-CAAGTAGAGGCTCAACAACTTT-AAAATCTCATCTTAG
1 AAAAAGCTCCTCTC-AGTAGAGGCTCAACAACTTTAAAAAT-TTAT-TTGG
* * *
7742112 AAAAAGCTCATCTCAGTAGAGGCTCAATAACTTT-AAAATCTCATTT-G
1 AAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAAAT-TTATTTGG
* * *
7742159 AAAAAGCTCTTCTTAGCAGAGGCTCAACAACTTTAAAAATTTATTTGG
1 AAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAAATTTATTTGG
* * *
7742207 AAAAAGCTCCTCTCAATAGAGTCTCAACAAC-TTAAAAATTTCATCT-G
1 AAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAAATTT-ATTTGG
* * *
7742254 AAAAAGCTCTTCTTAGTAGAGGCTCAACAACTTTAAAAATCTATTTGG
1 AAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAAATTTATTTGG
* *
7742302 -AAAAGCTCCTCTCAGCAGAGGCTCAATAACTTTAAAAATT
1 AAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAAATT
7742342 CATATGTTCT
Statistics
Matches: 239, Mismatches: 31, Indels: 19
0.83 0.11 0.07
Matches are distributed among these distances:
47 118 0.49
48 78 0.33
49 42 0.18
50 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.29
Consensus pattern (48 bp):
AAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAAATTTATTTGG
Found at i:7742245 original size:95 final size:95
Alignment explanation
Indices: 7742015--7742344 Score: 416
Period size: 95 Copynumber: 3.5 Consensus size: 95
7742005 ATTTGAAAAA
* * * * * **
7742015 AAAAAGCTCATCTCAGTAGAGGTTTAACAACTTTAAAAATTTATTTGGAAAAAGTTCCTCCAAGT
1 AAAAAGCTCATCTCAGTAGAGGCTCAACAACTTTAAAAATTCATTT-GAAAAAGCTCTTCTTAGT
* *
7742080 AGAGGCTCAACAACTTT-AAAATCTCATCTTAG
65 AGAGGCTCAACAACTTTAAAAAT-TTAT-TTGG
* *
7742112 AAAAAGCTCATCTCAGTAGAGGCTCAATAACTTT-AAAATCTCATTTGAAAAAGCTCTTCTTAGC
1 AAAAAGCTCATCTCAGTAGAGGCTCAACAACTTTAAAAAT-TCATTTGAAAAAGCTCTTCTTAGT
7742176 AGAGGCTCAACAACTTTAAAAATTTATTTGG
65 AGAGGCTCAACAACTTTAAAAATTTATTTGG
* * * *
7742207 AAAAAGCTCCTCTCAATAGAGTCTCAACAAC-TTAAAAATTTCATCTGAAAAAGCTCTTCTTAGT
1 AAAAAGCTCATCTCAGTAGAGGCTCAACAACTTTAAAAA-TTCATTTGAAAAAGCTCTTCTTAGT
*
7742271 AGAGGCTCAACAACTTTAAAAATCTATTTGG
65 AGAGGCTCAACAACTTTAAAAATTTATTTGG
* * *
7742302 -AAAAGCTCCTCTCAGCAGAGGCTCAATAACTTTAAAAATTCAT
1 AAAAAGCTCATCTCAGTAGAGGCTCAACAACTTTAAAAATTCAT
7742345 ATGTTCTTAA
Statistics
Matches: 206, Mismatches: 22, Indels: 13
0.85 0.09 0.05
Matches are distributed among these distances:
94 33 0.16
95 93 0.45
96 39 0.19
97 41 0.20
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.29
Consensus pattern (95 bp):
AAAAAGCTCATCTCAGTAGAGGCTCAACAACTTTAAAAATTCATTTGAAAAAGCTCTTCTTAGTA
GAGGCTCAACAACTTTAAAAATTTATTTGG
Found at i:7742378 original size:142 final size:141
Alignment explanation
Indices: 7742015--7742341 Score: 401
Period size: 144 Copynumber: 2.3 Consensus size: 141
7742005 ATTTGAAAAA
* * * * *
7742015 AAAAAGCTCATCTCAGTAGAGGTTTAACAACTTTAAAAATTTATTTGGAAAAAGTTC-CTCCAAG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTATTTGGAAAAAGCTCTCT-CAA-
** * *
7742079 TAGAGGCTCAACAACTTTAAAATCTCATCTTAGAAAAAGCTCATCTCAGTAGAGGCTCAATAACT
64 T--ACTCTCAACAACTTAAAAATCTCATCTTAGAAAAAGCTCATCTCAGTAGAGGCTCAACAACT
7742144 TTAAAATCTCATTTG
127 TTAAAATCTCATTTG
* *
7742159 AAAAAGCTCTTCTTAGCAGAGGCTCAACAACTTTAAAAATTTATTTGGAAAAAGCTCCTCTCAAT
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTATTTGGAAAAAGCT-CTCTCAAT
* * * *
7742224 AGAGTCTCAACAACTTAAAAATTTCATC-T-GAAAAAGCTCTTCTTAGTAGAGGCTCAACAACTT
65 --ACTCTCAACAACTTAAAAATCTCATCTTAGAAAAAGCTCATCTCAGTAGAGGCTCAACAACTT
7742287 TAAAAATCT-ATTTG
128 T-AAAATCTCATTTG
* *
7742301 GAAAAGCTCCTCTCAGCAGAGGCTCAATAACTTTAAAAATT
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATT
7742342 CATATGTTCT
Statistics
Matches: 164, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
142 74 0.45
143 8 0.05
144 76 0.46
145 4 0.02
146 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.29
Consensus pattern (141 bp):
AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTATTTGGAAAAAGCTCTCTCAATA
CTCTCAACAACTTAAAAATCTCATCTTAGAAAAAGCTCATCTCAGTAGAGGCTCAACAACTTTAA
AATCTCATTTG
Found at i:7749316 original size:19 final size:19
Alignment explanation
Indices: 7749294--7749341 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
7749284 GACCTCTGCC
7749294 TTTCTTTACTCCA-CTTGTT
1 TTTCTTTA-TCCAGCTTGTT
*
7749313 TTTCTTGTATCGAGCTTGTT
1 TTTCTT-TATCCAGCTTGTT
*
7749333 ATTCTTTAT
1 TTTCTTTAT
7749342 GGCATTTGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.12, C:0.19, G:0.10, T:0.58
Consensus pattern (19 bp):
TTTCTTTATCCAGCTTGTT
Found at i:7754759 original size:24 final size:22
Alignment explanation
Indices: 7754714--7754758 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
7754704 AAAAATATTT
* *
7754714 TAATATATAAATATTAATAAAA
1 TAATATATAAAAATTAAAAAAA
7754736 TAATATATAAAAATTGAAAAAAA
1 TAATATATAAAAATT-AAAAAAA
7754759 AATCTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (22 bp):
TAATATATAAAAATTAAAAAAA
Found at i:7756090 original size:20 final size:21
Alignment explanation
Indices: 7756044--7756092 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
7756034 GCCCAGAACC
7756044 GATCGATCCCTTCCTTGAGGG
1 GATCGATCCCTTCCTTGAGGG
*
7756065 GATCGATCCCTTGCC-TG-GGT
1 GATCGATCCCTT-CCTTGAGGG
7756085 GATCGATC
1 GATCGATC
7756093 TCCTATGTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 10 0.38
21 14 0.54
22 2 0.08
ACGTcount: A:0.14, C:0.29, G:0.29, T:0.29
Consensus pattern (21 bp):
GATCGATCCCTTCCTTGAGGG
Found at i:7757425 original size:25 final size:24
Alignment explanation
Indices: 7757371--7757427 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
7757361 TGTTTTCATT
* *
7757371 TTATTTTTATTTTTATTCTAATTC
1 TTATTTTTATTTTTATTCTAACTA
* * *
7757395 TAATTTTTAATTTTTATTGTTACTA
1 TTATTTTT-ATTTTTATTCTAACTA
7757420 TTATTTTT
1 TTATTTTT
7757428 TACTTTTTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (24 bp):
TTATTTTTATTTTTATTCTAACTA
Found at i:7760963 original size:39 final size:37
Alignment explanation
Indices: 7760920--7761043 Score: 122
Period size: 39 Copynumber: 3.1 Consensus size: 37
7760910 TCATTCAAAG
7760920 ATTTAAGATTTTGCTTGGAGGTCTTAACAATATTTAAAA
1 ATTTAA-ATTTTGCTTGGAGGTCTTAA-AATATTTAAAA
* ** *
7760959 ATTTAAAGTTTTGCCTAAATGTCTTAGAAATATTTAAAAA
1 ATTTAAA-TTTTGCTTGGAGGTCTTA-AAATATTT-AAAA
* *
7760999 ATCTAAAATTTTTCTTGGAGGTCTTGAAAATCATTTAAAA
1 AT-TTAAATTTTGCTTGGAGGTCTT-AAAAT-ATTTAAAA
7761039 ATTTA
1 ATTTA
7761044 TAGTTTAAAC
Statistics
Matches: 68, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
38 1 0.01
39 29 0.43
40 29 0.43
41 9 0.13
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (37 bp):
ATTTAAATTTTGCTTGGAGGTCTTAAAATATTTAAAA
Found at i:7761040 original size:40 final size:40
Alignment explanation
Indices: 7760722--7761153 Score: 200
Period size: 40 Copynumber: 10.8 Consensus size: 40
7760712 CGAATCATTT
* * * *
7760722 AAATCTTTGCTTGGAGATCTTGGGAAATCATTTAAAAATTTA
1 AAAT-TTTGCTTAGAGGTCTT-GAAAATCATTTAAAAATCTA
* * * *
7760764 AAATTTTGCTT-GAAGGTCTTTAAAAATCTTTTAAAATTTTA
1 AAATTTTGCTTAG-AGGTC-TTGAAAATCATTTAAAAATCTA
* * ** * * ** *
7760805 AAAATTTACCCAAAGGTTTTGGGAATCATTCAAAAATCTA
1 AAATTTTGCTTAGAGGTCTTGAAAATCATTTAAAAATCTA
* * *
7760845 AAATTTTGCCTAGAGGTCTTTG-AAATCCA-TTCAAAATCCA
1 AAATTTTGCTTAGAGGTC-TTGAAAAT-CATTTAAAAATCTA
* *** * * * * * *
7760885 AAATTTTACACGGAGATCTTGGAGATCATTCAAAGATTTA
1 AAATTTTGCTTAGAGGTCTTGAAAATCATTTAAAAATCTA
* * *
7760925 AGATTTTGCTTGGAGGTCTT-AACAAT-ATTTAAAAATTTA
1 AAATTTTGCTTAGAGGTCTTGAA-AATCATTTAAAAATCTA
* * * *
7760964 AAGTTTTGCCTAAATGTCTT-AGAAAT-ATTTAAAAAATCTA
1 AAATTTTGCTTAGAGGTCTTGA-AAATCATTT-AAAAATCTA
* * *
7761004 AAATTTTTCTTGGAGGTCTTGAAAATCATTTAAAAATTTA
1 AAATTTTGCTTAGAGGTCTTGAAAATCATTTAAAAATCTA
* * ** ** *
7761044 TAGTTTAAACTT-GAGGTCTTGAAAATTGTTTAAAACTCTA
1 AAATTT-TGCTTAGAGGTCTTGAAAATCATTTAAAAATCTA
* * * ** *
7761084 AAATTTTACCTAGAGGTTTTGAAAATTGTTCAAAAATCTA
1 AAATTTTGCTTAGAGGTCTTGAAAATCATTTAAAAATCTA
*
7761124 AAATTTT-ATCTAGAGGTCTT-AAAGATCATT
1 AAATTTTGCT-TAGAGGTCTTGAAA-ATCATT
7761154 ATAAGTTTAA
Statistics
Matches: 293, Mismatches: 81, Indels: 34
0.72 0.20 0.08
Matches are distributed among these distances:
39 45 0.15
40 191 0.65
41 51 0.17
42 6 0.02
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (40 bp):
AAATTTTGCTTAGAGGTCTTGAAAATCATTTAAAAATCTA
Found at i:7761416 original size:31 final size:32
Alignment explanation
Indices: 7761376--7761448 Score: 82
Period size: 31 Copynumber: 2.3 Consensus size: 32
7761366 ATCTAACTTG
*
7761376 GGCTT-AAATCTTATCT-GTGCTAGCT-AACTA
1 GGCTTGAAATCTAAT-TGGTGCTAGCTGAACTA
*
7761406 GGCTTGAAATCTAATTGGTGCTAGCTGAATTA
1 GGCTTGAAATCTAATTGGTGCTAGCTGAACTA
7761438 GG-TTGGAAATC
1 GGCTT-GAAATC
7761449 CTATTGATGC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
30 6 0.16
31 19 0.51
32 12 0.32
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.34
Consensus pattern (32 bp):
GGCTTGAAATCTAATTGGTGCTAGCTGAACTA
Found at i:7762168 original size:21 final size:21
Alignment explanation
Indices: 7762118--7762169 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
7762108 TGTAGATGTG
* *
7762118 AATACGAATACAAGTGATACA
1 AATACAAATGCAAGTGATACA
** *
7762139 AATGTAAATGCAAGTGATGCA
1 AATACAAATGCAAGTGATACA
7762160 AATACAAATG
1 AATACAAATG
7762170 TCTCTGTTTT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.21
Consensus pattern (21 bp):
AATACAAATGCAAGTGATACA
Found at i:7767419 original size:122 final size:123
Alignment explanation
Indices: 7767280--7767503 Score: 289
Period size: 122 Copynumber: 1.8 Consensus size: 123
7767270 AAAAATTAGA
* *
7767280 AGGGATTATTCAAGGTATCTTTGGTCAAAAAC-ACTTTCAATAATC-CTTTGTAA-TTTTTTTA-
1 AGGGATTATTCAAGGTATCTTTGGCCAAAAACGACTTT-AATAATCTC-TTCTAATTTTTTTTAG
* *
7767341 GGACTATTCAAGG-TGTTTCTGGCTAAAAATGCCTTGAATAGGCCTTTACAAAAAAATTGAAT
64 GGA-TATTCAAGGAT-TTTCTGGCAAAAAAT-ACTTGAATAGGCCTTTACAAAAAAATTGAAT
* *
7767403 AGGG-TTATTCAAGGTATTTTTGGCCAAAAACGCCTTTAATAATCTCTTCTAATTTTTTTTTAGG
1 AGGGATTATTCAAGGTATCTTTGGCCAAAAACGACTTTAATAATCTCTTCTAA-TTTTTTTTAGG
*
7767467 GATTTTCAAGGATTTTCTGGCAAAAAATACTTGAATA
65 GATATTCAAGGATTTTCTGGCAAAAAATACTTGAATA
7767504 ATCCCTTCCA
Statistics
Matches: 88, Mismatches: 7, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
122 37 0.42
123 17 0.19
124 30 0.34
125 4 0.05
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.38
Consensus pattern (123 bp):
AGGGATTATTCAAGGTATCTTTGGCCAAAAACGACTTTAATAATCTCTTCTAATTTTTTTTAGGG
ATATTCAAGGATTTTCTGGCAAAAAATACTTGAATAGGCCTTTACAAAAAAATTGAAT
Found at i:7767667 original size:182 final size:179
Alignment explanation
Indices: 7767332--7767810 Score: 466
Period size: 182 Copynumber: 2.6 Consensus size: 179
7767322 ATCCTTTGTA
* * * * **
7767332 ATTTTTTTAGGACTATTCAAGGTGTTTCTGGCTAAAAATGCCTTGAATAGGCCTTTACAAAAAAA
1 ATTTTTTTAGGATTATTCAACGTGTTTTTGGCCAAAAAT-CCTTGAATAATCCTTTAC-AAAAAA
* * * * * ** *
7767397 TTGAATAGGGTTATTCAAGGTATTTTTGGCCAAAAACGCCTTTAATAATCTCTTCTAATTTTTTT
64 TTGAATGGGGTTATTCAAGGCATTTCTGGCCAAAAATGCCTTAAATAATCTC-TAAAATATTTTT
* * * * *
7767462 TTAGGGATTTTCAAGGATTTTCTGGCAAAAA-ATACTTGAATAATC-CCTTCC-
128 TTAGGAATTTTCAAGCATTTTCTGCCAAAAACA-ACTTCAATAATCTCC-GCCT
* *
7767513 ATTTTTTGAAGGATTATTCAATGTGTTTTTGGCCAGAAAATACCTTGAATAATCCTTTACAAAAA
1 ATTTTTT-TAGGATTATTCAACGTGTTTTTGGCCA-AAAAT-CCTTGAATAATCCTTTACAAAAA
* * *
7767578 ATTGAATGGGGTTATTCAAGGCATTTCTGGCAAAAAATACCTTGAATAATCTC-AAAATATTTTT
63 ATTGAATGGGGTTATTCAAGGCATTTCTGGCCAAAAATGCCTTAAATAATCTCTAAAATATTTTT
* *
7767642 TT-GGAATTATTTAAGACATTTTTCTGCCAAAAACACCTTCAATAATCTCCGCCT
128 TTAGGAATT-TTCAAG-CA-TTTTCTGCCAAAAACAACTTCAATAATCTCCGCCT
* ** ** * *
7767696 ATTTTTTTTGGGATTATTCAACGCATTTTTAACCAAAAACTCCTTGAATTAT-CTCTTATAAAAA
1 A-TTTTTTTAGGATTATTCAACGTGTTTTTGGCCAAAAA-TCCTTGAATAATCCT-TTACAAAAA
* *
7767760 ATTGAATGAGGTTATTTAAGGCATTTTCTGGCCAAAAATGCCTTAAATAAT
63 ATTGAATGGGGTTATTCAAGGCA-TTTCTGGCCAAAAATGCCTTAAATAAT
7767811 TCCTTCCAAT
Statistics
Matches: 247, Mismatches: 39, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
179 5 0.02
180 15 0.06
181 10 0.04
182 141 0.57
183 70 0.28
184 6 0.02
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (179 bp):
ATTTTTTTAGGATTATTCAACGTGTTTTTGGCCAAAAATCCTTGAATAATCCTTTACAAAAAATT
GAATGGGGTTATTCAAGGCATTTCTGGCCAAAAATGCCTTAAATAATCTCTAAAATATTTTTTTA
GGAATTTTCAAGCATTTTCTGCCAAAAACAACTTCAATAATCTCCGCCT
Found at i:7767732 original size:60 final size:61
Alignment explanation
Indices: 7767637--7767750 Score: 142
Period size: 61 Copynumber: 1.9 Consensus size: 61
7767627 TCTCAAAATA
* **
7767637 TTTTTTTGGAATTATTTAAGACATTTTTCTGCCAAAAACACCTTCAATAATCTCCGCCTAT
1 TTTTTTTGGAATTATTCAAGACATTTTTCAACCAAAAACACCTTCAATAATCTCCGCCTAT
* * * *
7767698 TTTTTTTGGGATTATTCAACG-CATTTTT-AACCAAAAACTCCTTGAATTATCTC
1 TTTTTTTGGAATTATTCAA-GACATTTTTCAACCAAAAACACCTTCAATAATCTC
7767751 TTATAAAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
60 20 0.44
61 24 0.53
62 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.42
Consensus pattern (61 bp):
TTTTTTTGGAATTATTCAAGACATTTTTCAACCAAAAACACCTTCAATAATCTCCGCCTAT
Found at i:7770956 original size:15 final size:17
Alignment explanation
Indices: 7770931--7770970 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
7770921 ACAAAAGTTT
7770931 CTTTTTT-TATT-ATTA
1 CTTTTTTATATTCATTA
7770946 -TTTTTTATATTCATTA
1 CTTTTTTATATTCATTA
7770962 CTTTTTTAT
1 CTTTTTTAT
7770971 TACATATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 6 0.27
15 4 0.18
16 4 0.18
17 8 0.36
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.72
Consensus pattern (17 bp):
CTTTTTTATATTCATTA
Found at i:7770971 original size:15 final size:14
Alignment explanation
Indices: 7770933--7770972 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
7770923 AAAAGTTTCT
*
7770933 TTTTTTATTATTAT
1 TTTTTTATTATTAC
7770947 TTTTTATATTCATTAC
1 TTTTT-TATT-ATTAC
7770963 TTTTTTATTA
1 TTTTTTATTA
7770973 CATATTTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 6 0.26
15 8 0.35
16 9 0.39
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTTTATTATTAC
Found at i:7771272 original size:14 final size:13
Alignment explanation
Indices: 7771250--7771307 Score: 57
Period size: 12 Copynumber: 4.5 Consensus size: 13
7771240 GTTTCCTTCA
7771250 TTTTT-ATTTTAT
1 TTTTTAATTTTAT
7771262 TTTTCTAATTTTAT
1 TTTT-TAATTTTAT
*
7771276 TTTTTATTTTTA-
1 TTTTTAATTTTAT
* * *
7771288 TTATTACTATTAT
1 TTTTTAATTTTAT
7771301 TTTTTAA
1 TTTTTAA
7771308 AATTTTTTTG
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
12 13 0.35
13 13 0.35
14 11 0.30
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTTAATTTTAT
Found at i:7771289 original size:13 final size:12
Alignment explanation
Indices: 7771250--7771285 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 12
7771240 GTTTCCTTCA
7771250 TTTTTATTTTAT
1 TTTTTATTTTAT
7771262 TTTTCTAATTTTAT
1 TTTT-T-ATTTTAT
7771276 TTTTTATTTT
1 TTTTTATTTT
7771286 TATTATTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 9 0.41
13 2 0.09
14 11 0.50
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTTTATTTTAT
Found at i:7771623 original size:12 final size:13
Alignment explanation
Indices: 7771596--7771627 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
7771586 ATTTTCATTC
7771596 TTATTATTACTTG
1 TTATTATTACTTG
7771609 TTATTATTA-TTG
1 TTATTATTACTTG
7771621 TTATTAT
1 TTATTAT
7771628 ATATATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.25, C:0.03, G:0.06, T:0.66
Consensus pattern (13 bp):
TTATTATTACTTG
Found at i:7771726 original size:34 final size:37
Alignment explanation
Indices: 7771665--7771732 Score: 88
Period size: 35 Copynumber: 1.9 Consensus size: 37
7771655 GCATGGATGA
* *
7771665 TAAATTGCATCAAAAATAAATTAAAGCAT-TAAAGAT
1 TAAATTACATCAAAAATAAAGTAAAGCATATAAAGAT
*
7771701 TAAATTACAT-AAAATTAAAGT-AAGCATATAAA
1 TAAATTACATCAAAAATAAAGTAAAGCATATAAA
7771733 TTTAAACAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 6 0.21
35 13 0.46
36 9 0.32
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.28
Consensus pattern (37 bp):
TAAATTACATCAAAAATAAAGTAAAGCATATAAAGAT
Found at i:7773521 original size:24 final size:23
Alignment explanation
Indices: 7773474--7773518 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
7773464 TTTTTATTTT
* * *
7773474 ATTTTAGGAAAAATTGGTGCTTC
1 ATTTAAGGAAAAATTGATACTTC
7773497 ATTTAAGGAAAAATTGATACTT
1 ATTTAAGGAAAAATTGATACTT
7773519 TCAACTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (23 bp):
ATTTAAGGAAAAATTGATACTTC
Found at i:7773675 original size:59 final size:54
Alignment explanation
Indices: 7773550--7773801 Score: 215
Period size: 59 Copynumber: 4.5 Consensus size: 54
7773540 GAAATATTTT
* * * ** *
7773550 AAAAATTGATACTTTAACCTTTCCTTAAATATTTTTTTGAAATATTTTTACTTAAG
1 AAAAATTGATACTTCAACTTTTTCTTAAA-AAATTTTT-AAATATTTTTATTTAAG
*
7773606 AAAAATTGATACTTCAACTTTTTCTTAAAAACTTTTTAAAGTTATGTTTTTTATTTAAG
1 AAAAATTGATACTTCAACTTTTTCTTAAAAAATTTTTAAA--TA---TTTTTATTTAAG
*
7773665 AAAAATTGATACTTCAACCTTTTTTTTCAAAATATATTTTTAAATATTTTTAGTTTCAA-
1 AAAAATTGATACTTCAA-CTTTTTCTT-AAAA-A-ATTTTTAAATATTTTTA-TTT-AAG
* * **
7773724 AAAAATTGATACTTCAACTGTTCCTTAAAAAATTTTTAAA-A--AATATTTAAG
1 AAAAATTGATACTTCAACTTTTTCTTAAAAAATTTTTAAATATTTTTATTTAAG
* * *
7773775 AAATATTAATATTTCAACTTTTCTCTT
1 AAAAATTGATACTTCAACTTTT-TCTT
7773802 GAATTTTTTG
Statistics
Matches: 165, Mismatches: 18, Indels: 30
0.77 0.08 0.14
Matches are distributed among these distances:
50 2 0.01
51 21 0.13
52 5 0.03
54 4 0.02
55 15 0.09
56 29 0.18
57 4 0.02
58 12 0.07
59 48 0.29
60 10 0.06
61 6 0.04
62 1 0.01
63 8 0.05
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.47
Consensus pattern (54 bp):
AAAAATTGATACTTCAACTTTTTCTTAAAAAATTTTTAAATATTTTTATTTAAG
Found at i:7773728 original size:118 final size:115
Alignment explanation
Indices: 7773550--7773763 Score: 297
Period size: 118 Copynumber: 1.8 Consensus size: 115
7773540 GAAATATTTT
* *
7773550 AAAAATTGATACTTTAACCTTTCCTTAAATATTTTTTTGAAATATTTTTACTTAAGAAAAATTGA
1 AAAAATTGATACTTCAACCTTTCCTTAAATATATTTTTGAAATATTTTTACTTAAGAAAAATTGA
* * *
7773615 TACTTCAACTTTTTCTTAAAAACTTTTTAAAGTTATGTTTTTTATTTAAG
66 TACTTCAACTGTTCCTTAAAAAATTTTTAAAGTTATGTTTTTTATTTAAG
** *
7773665 AAAAATTGATACTTCAACCTTTTTTTTCAAAATATATTTTT-AAATATTTTTAGTTTCAA-AAAA
1 AAAAATTGATACTTCAACC-TTTCCTT--AAATATATTTTTGAAATATTTTTA-CTT-AAGAAAA
7773728 ATTGATACTTCAACTGTTCCTTAAAAAATTTTTAAA
61 ATTGATACTTCAACTGTTCCTTAAAAAATTTTTAAA
7773764 AAATATTTAA
Statistics
Matches: 86, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
115 18 0.21
116 5 0.06
117 11 0.13
118 50 0.58
119 2 0.02
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.47
Consensus pattern (115 bp):
AAAAATTGATACTTCAACCTTTCCTTAAATATATTTTTGAAATATTTTTACTTAAGAAAAATTGA
TACTTCAACTGTTCCTTAAAAAATTTTTAAAGTTATGTTTTTTATTTAAG
Found at i:7773783 original size:10 final size:11
Alignment explanation
Indices: 7773748--7773781 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
7773738 CAACTGTTCC
*
7773748 TTAAAAAATTT
1 TTAAAAAATAT
7773759 TTAAAAAATAT
1 TTAAAAAATAT
*
7773770 TTAAGAAATAT
1 TTAAAAAATAT
7773781 T
1 T
7773782 AATATTTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (11 bp):
TTAAAAAATAT
Found at i:7775806 original size:18 final size:18
Alignment explanation
Indices: 7775785--7775819 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7775775 TTCACAAAAA
*
7775785 TTTCAAATTCGTAAGAAC
1 TTTCAAATTCGCAAGAAC
7775803 TTTCAAATTCGCAAGAA
1 TTTCAAATTCGCAAGAA
7775820 TTTACAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.31
Consensus pattern (18 bp):
TTTCAAATTCGCAAGAAC
Found at i:7776248 original size:41 final size:41
Alignment explanation
Indices: 7776176--7776255 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
7776166 AATTTTATTC
* * *
7776176 AAAATACTTTAGCAATTCACATCTAATATTTCAAAGATTTG
1 AAAATACTTTAGCAATTCACAACCAAGATTTCAAAGATTTG
*
7776217 AAAA-ACTTCTAGGAATTCACAACCAAGATTTCAAAGATT
1 AAAATACTT-TAGCAATTCACAACCAAGATTTCAAAGATT
7776256 CTCATTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 4 0.12
41 30 0.88
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (41 bp):
AAAATACTTTAGCAATTCACAACCAAGATTTCAAAGATTTG
Found at i:7776393 original size:21 final size:23
Alignment explanation
Indices: 7776367--7776416 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 23
7776357 AAAAATTTTC
*
7776367 AAGATTCTTATTT-AAA-ACTTA
1 AAGATTCTCATTTGAAATACTTA
*
7776388 AAGATTCTCATTTGAAATTCTTA
1 AAGATTCTCATTTGAAATACTTA
7776411 AAGATT
1 AAGATT
7776417 ATATCTGAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 12 0.48
22 3 0.12
23 10 0.40
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (23 bp):
AAGATTCTCATTTGAAATACTTA
Found at i:7776414 original size:23 final size:22
Alignment explanation
Indices: 7776359--7776416 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
7776349 TCACATTAAA
* *
7776359 AAATT-TTCAAGATTCTTATTT
1 AAATTCTTAAAGATTCTCATTT
*
7776380 AAA-ACTTAAAGATTCTCATTT
1 AAATTCTTAAAGATTCTCATTT
7776401 GAAATTCTTAAAGATT
1 -AAATTCTTAAAGATT
7776417 ATATCTGAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 17 0.57
22 3 0.10
23 10 0.33
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (22 bp):
AAATTCTTAAAGATTCTCATTT
Found at i:7776729 original size:24 final size:24
Alignment explanation
Indices: 7776693--7776748 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
7776683 TTACTATATA
*
7776693 ATGCAAATGCATGACCAAACCATG
1 ATGCAAATACATGACCAAACCATG
*
7776717 ATGCAAATACATGACCAAATCATG
1 ATGCAAATACATGACCAAACCATG
7776741 ATGCAAAT
1 ATGCAAAT
7776749 GCAATTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.45, C:0.21, G:0.14, T:0.20
Consensus pattern (24 bp):
ATGCAAATACATGACCAAACCATG
Found at i:7781725 original size:56 final size:57
Alignment explanation
Indices: 7781618--7781871 Score: 245
Period size: 59 Copynumber: 4.4 Consensus size: 57
7781608 TTAGTGCTTC
* * * *
7781618 ATTTAAGGAAAAATTGACACTTTCAACTTTTTCTCAAATA---TTTTTGAAATATTTTT
1 ATTTAA-GAAAAATTGATAC-TTCAACATTTCCTTAAATACTTTTTTTGAAATATTTTT
* *
7781674 ACTTAAGAAAAATTGATATTTCAACATTTCCTTAAATA-TTTTTTTGAAATATTTTT
1 ATTTAAGAAAAATTGATACTTCAACATTTCCTTAAATACTTTTTTTGAAATATTTTT
* * * * *
7781730 AGTTAAGGAAAATTGATACTTC-A-ATTATACCTTAAAAACTTCTTTT-AAGATTTTTTTTT
1 ATTTAAGAAAAATTGATACTTCAACATT-T-CCTTAAATACTTTTTTTGAA-A--TATTTTT
* *
7781789 ATTTAAGAAAAATTGATACTTCAACTTTTCCTTAAAATATTTTTTTTGAAA-ATTTTT
1 ATTTAAGAAAAATTGATACTTCAACATTTCCTT-AAATACTTTTTTTGAAATATTTTT
7781846 ATTTCTAAGAAAAATTGATACTTCAA
1 A-TT-TAAGAAAAATTGATACTTCAA
7781872 TTGTTTTTTA
Statistics
Matches: 165, Mismatches: 19, Indels: 25
0.79 0.09 0.12
Matches are distributed among these distances:
54 19 0.12
55 13 0.08
56 50 0.30
57 13 0.08
58 2 0.01
59 51 0.31
60 13 0.08
61 4 0.02
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.46
Consensus pattern (57 bp):
ATTTAAGAAAAATTGATACTTCAACATTTCCTTAAATACTTTTTTTGAAATATTTTT
Found at i:7781898 original size:57 final size:56
Alignment explanation
Indices: 7781618--7781930 Score: 200
Period size: 59 Copynumber: 5.6 Consensus size: 56
7781608 TTAGTGCTTC
* * * *
7781618 ATTTAAGGAAAAATTGACACTTTCAACTTTT-TCTCAAATA--TTTTTGAAATATTTTT
1 ATTTAA-GAAAAATTGATAC-TTCAACTTTTCT-TAAAATATTTTTTTAAAAAATTTTT
* * * * *
7781674 ACTTAAGAAAAATTGATATTTCAACATTTCCTT-AAATATTTTTTTGAAATATTTTT
1 ATTTAAGAAAAATTGATACTTCAAC-TTTTCTTAAAATATTTTTTTAAAAAATTTTT
* * * * ***
7781730 AGTTAAGGAAAATTGATACTTCAA-TTATACCTTAAAA-ACTTCTTTTAAGATTTTTTTTT
1 ATTTAAGAAAAATTGATACTTCAACTT-T-TCTTAAAATA-TTTTTTTAA-A-AAATTTTT
**
7781789 ATTTAAGAAAAATTGATACTTCAACTTTTCCTTAAAATATTTTTTTTGAAAATTTTT
1 ATTTAAGAAAAATTGATACTTCAACTTTT-CTTAAAATATTTTTTTAAAAAATTTTT
** *
7781846 ATTTCTAAGAAAAATTGATACTTCAA-TTGTT-TTTTAAT-TTTTTTTAAAAAA---AT
1 A-TT-TAAGAAAAATTGATACTTCAACTT-TTCTTAAAATATTTTTTTAAAAAATTTTT
* * * *
7781899 ATTTAAGAAATATTAATATTTCAAGTTTTCTT
1 ATTTAAGAAAAATTGATACTTCAACTTTTCTT
7781931 TTGAACTTTT
Statistics
Matches: 211, Mismatches: 28, Indels: 40
0.76 0.10 0.14
Matches are distributed among these distances:
51 20 0.09
52 6 0.03
53 2 0.01
54 13 0.06
55 16 0.08
56 59 0.28
57 21 0.10
58 6 0.03
59 65 0.31
60 3 0.01
ACGTcount: A:0.37, C:0.09, G:0.06, T:0.48
Consensus pattern (56 bp):
ATTTAAGAAAAATTGATACTTCAACTTTTCTTAAAATATTTTTTTAAAAAATTTTT
Found at i:7783294 original size:13 final size:14
Alignment explanation
Indices: 7783275--7783312 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
7783265 TTAGGTTTTG
7783275 CTCTGTATTTTT-A
1 CTCTGTATTTTTCA
*
7783288 CTTTGTATTTTTCA
1 CTCTGTATTTTTCA
7783302 CTCTG-ATTTTT
1 CTCTGTATTTTT
7783313 TTACCCCTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.13, C:0.16, G:0.08, T:0.63
Consensus pattern (14 bp):
CTCTGTATTTTTCA
Found at i:7783537 original size:4 final size:4
Alignment explanation
Indices: 7783528--7783552 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
7783518 TAATAAAAGT
7783528 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
7783553 ACAATAAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:7783890 original size:24 final size:24
Alignment explanation
Indices: 7783842--7783893 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 24
7783832 TTTTTTTTAG
7783842 TTTTTTCTTTTTGAGCCCTTGCTCA
1 TTTTTTCTTTTTGAG-CCTTGCTCA
7783867 TTTTTTCTTTTCT-AG-CTTGCCTCA
1 TTTTTTCTTTT-TGAGCCTTG-CTCA
7783891 TTT
1 TTT
7783894 CCTCCCACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
23 4 0.16
24 7 0.28
25 13 0.52
26 1 0.04
ACGTcount: A:0.08, C:0.23, G:0.10, T:0.60
Consensus pattern (24 bp):
TTTTTTCTTTTTGAGCCTTGCTCA
Found at i:7784899 original size:58 final size:58
Alignment explanation
Indices: 7784828--7785277 Score: 413
Period size: 59 Copynumber: 7.6 Consensus size: 58
7784818 TTTTGTAGAA
* *
7784828 AAAATTGAAACTTTCAACTTTTCCCCAAAAATATTCTTTT-AAAACTTTAATTTTGAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATT-TTTTGAAAACTTTAATTTTGAAG
* *
7784886 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTGAAAAC-TT-ATTTTTAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTGAAAACTTTAATTTTGAAG
* * * *
7784943 AAAAATTGATACTTTTAACTTTT-CTCAAAAAAAATTTTTTTTTTTGGAAAGC-TT-ATTTTAAA
1 -AAAATTGATACTTTCAACTTTTCCTC---AAAAA---TATTTTTT-GAAAACTTTAATTTTGAA
7785005 GG
58 -G
*
7785007 AAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTTTTGAAAACTTTTAATTTCG-AG
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATA---TTTTTTGAAAAC-TTTAATTTTGAAG
* * * *
7785068 AAAAATTTATACTTTCAACTTTTCCTCAAAAATCTCCTTTTTGAATA-TTT-ATTTTTAAG
1 -AAAATTGATACTTTCAACTTTTCCTCAAAAATAT--TTTTTGAAAACTTTAATTTTGAAG
* * * *
7785127 AAAAATTGACACTTTCAACTTTTTCC-CAAAAATATTTTTTGGAAACTTTTAATTTCGAAA
1 -AAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTGAAAAC-TTTAATTTTGAAG
* * *
7785187 AAAATTGATACTTTCAACTTTTCCTCAAAACCT-TTTTTTGAAAA-TTTATTTTTAAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAA-ATATTTTTTGAAAACTTTAATTTTGAAG
*
7785244 AAAATTGATACTTTCAACTTTTCCTTAAAAATAT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATAT
7785278 ATATTTTTTA
Statistics
Matches: 327, Mismatches: 34, Indels: 63
0.77 0.08 0.15
Matches are distributed among these distances:
56 1 0.00
57 58 0.18
58 69 0.21
59 72 0.22
60 23 0.07
61 27 0.08
62 32 0.10
63 38 0.12
64 6 0.02
65 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.44
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAACTTTAATTTTGAAG
Found at i:7785036 original size:121 final size:120
Alignment explanation
Indices: 7784827--7785265 Score: 407
Period size: 116 Copynumber: 3.7 Consensus size: 120
7784817 TTTTTGTAGA
* * * * *
7784827 AAAAATTGAAACTTTCAACTTTTCC-CCAAAAATAT-T-C-TTTT-AAAACTTTAATTTTGAA-G
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAAAAATCTCCTTTTTGAATAC-TT-ATTTTAAAGG
7784886 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATTTATTTTTGAAAACTTATT-TTT-AAG
64 AAAATTGATACTTTCAACTTTTTCC-CAAAAATTT-TTTTTGAAAACTT-TTATTTCAAG
* * **
7784943 AAAAATTGATACTTTTAACTTTT-CTCAAAAAAAATTTTTTTTTTTGGAA-AGCTTATTTTAAAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAAAAA-TCTCCTTTTT-GAATA-CTTATTTTAAAG
*
7785006 GAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTTTGAAAACTTTTAATTTCGAG
63 GAAAATTGATACTTTCAACTTTTTCCC-AAAA-A-TTTTTTTTGAAAACTTTT-ATTTCAAG
* * * *
7785068 AAAAATTTATACTTTCAACTTTTCCTC---AAAAATCTCCTTTTTGAATATTTATTTTTAAGAAA
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAAAAATCTCCTTTTTGAATACTTATTTTAAAGGAA
* * *
7785130 AATTGACACTTTCAACTTTTTCCCAAAAATATTTTTTGGAAACTTTTAATTTCGAA-
66 AATTGATACTTTCAACTTTTTCCCAAAAATTTTTTTTGAAAACTTTT-ATTTC-AAG
* * * *
7785186 AAAAATTGATACTTTCAACTTTTCCTC----AAAACCT-TTTTTTGAAAATTTATTTTTAAA-GA
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAAAAATCTCCTTTTTGAATACTTA-TTTTAAAGGA
7785245 AAATTGATACTTTCAACTTTT
65 AAATTGATACTTTCAACTTTT
7785266 CCTTAAAAAT
Statistics
Matches: 277, Mismatches: 26, Indels: 40
0.81 0.08 0.12
Matches are distributed among these distances:
115 1 0.00
116 62 0.22
117 13 0.05
118 49 0.18
119 2 0.01
120 15 0.05
121 61 0.22
122 23 0.08
123 19 0.07
124 6 0.02
125 23 0.08
126 3 0.01
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.44
Consensus pattern (120 bp):
AAAAATTGATACTTTCAACTTTTCCTCAAAAAAAATCTCCTTTTTGAATACTTATTTTAAAGGAA
AATTGATACTTTCAACTTTTTCCCAAAAATTTTTTTTGAAAACTTTTATTTCAAG
Found at i:7785309 original size:5 final size:5
Alignment explanation
Indices: 7785301--7785366 Score: 63
Period size: 5 Copynumber: 13.8 Consensus size: 5
7785291 TTATTTAAAG
7785301 AAAAT AAAAT AAAAT --AAT AAAAT AAAAT -AAAT AAAAAT GAAAAT -AAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT AAAAT
7785349 -AAAT -AAAT AAAAAT AAAA
1 AAAAT AAAAT -AAAAT AAAA
7785367 ATATTAAACA
Statistics
Matches: 54, Mismatches: 1, Indels: 12
0.81 0.01 0.18
Matches are distributed among these distances:
3 3 0.06
4 16 0.30
5 22 0.41
6 13 0.24
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:7785334 original size:4 final size:4
Alignment explanation
Indices: 7785302--7785422 Score: 60
Period size: 4 Copynumber: 29.5 Consensus size: 4
7785292 TATTTAAAGA
7785302 AAAT AAAAT AAA- ATAAT AAAAT AAAAT AAAT -AA- AAAT GAAAAT AAAT
1 AAAT -AAAT AAAT A-AAT -AAAT -AAAT AAAT AAAT AAAT --AAAT AAAT
* * *
7785349 AAAT AAAT -AA- AAAT AAA- AATATT AAAC AATT CTAAT ATAAT -AAT
1 AAAT AAAT AAAT AAAT AAAT AA-A-T AAAT AAAT -AAAT A-AAT AAAT
7785393 AATAT AAAT -AAT AAAT AAAT AAAT AAAT AA
1 AA-AT AAAT AAAT AAAT AAAT AAAT AAAT AA
7785423 CGAAAAAAAA
Statistics
Matches: 93, Mismatches: 6, Indels: 35
0.69 0.04 0.26
Matches are distributed among these distances:
3 17 0.18
4 47 0.51
5 22 0.24
6 7 0.08
ACGTcount: A:0.72, C:0.02, G:0.01, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:7785343 original size:6 final size:6
Alignment explanation
Indices: 7785301--7785369 Score: 52
Period size: 6 Copynumber: 11.0 Consensus size: 6
7785291 TTATTTAAAG
* *
7785301 AAAAT- AAAATAA AATAATA AAATAAA ATAAATA AAAATG AAAATA AATAA-A
1 AAAATA AAAAT-A AA-AATA AAA-ATA A-AAATA AAAATA AAAATA AA-AATA
*
7785352 TAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA
7785370 TTAAACAATT
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
5 7 0.14
6 26 0.51
7 13 0.25
8 5 0.10
ACGTcount: A:0.78, C:0.00, G:0.01, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:7785345 original size:34 final size:33
Alignment explanation
Indices: 7785301--7785422 Score: 92
Period size: 34 Copynumber: 3.6 Consensus size: 33
7785291 TTATTTAAAG
7785301 AAAATAAAATAAA-ATAATAAA-ATAAAATAAATA
1 AAAATAAAATAAATA-AATAAATA-AAAATAAATA
7785334 AAAATGAAAATAAATAAATAAATAAAAAT-AA-A
1 AAAAT-AAAATAAATAAATAAATAAAAATAAATA
* * * * *
7785366 AATATTAAACAATTCTAATATAATAATAATATAAATA
1 AAAATAAAATAAAT-AAATA-AATAA-AA-ATAAATA
7785403 ATAAAT-AAATAAATAAATAA
1 A-AAATAAAATAAATAAATAA
7785423 CGAAAAAAAA
Statistics
Matches: 70, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
31 6 0.09
32 9 0.13
33 12 0.17
34 21 0.30
35 5 0.07
36 6 0.09
37 8 0.11
38 3 0.04
ACGTcount: A:0.72, C:0.02, G:0.01, T:0.25
Consensus pattern (33 bp):
AAAATAAAATAAATAAATAAATAAAAATAAATA
Found at i:7785356 original size:24 final size:25
Alignment explanation
Indices: 7785302--7785369 Score: 86
Period size: 24 Copynumber: 2.7 Consensus size: 25
7785292 TATTTAAAGA
7785302 AAAT-AAAATAAAATAATAAAATAAAAT
1 AAATAAAAAT-AAA-AAT-AAATAAAAT
*
7785329 AAATAAAAATGAAAATAAAT-AAAT
1 AAATAAAAATAAAAATAAATAAAAT
7785353 AAATAAAAATAAAAATA
1 AAATAAAAATAAAAATA
7785370 TTAAACAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
24 20 0.53
25 4 0.11
26 3 0.08
27 6 0.16
28 5 0.13
ACGTcount: A:0.78, C:0.00, G:0.01, T:0.21
Consensus pattern (25 bp):
AAATAAAAATAAAAATAAATAAAAT
Found at i:7785409 original size:24 final size:25
Alignment explanation
Indices: 7785302--7785407 Score: 84
Period size: 24 Copynumber: 4.4 Consensus size: 25
7785292 TATTTAAAGA
7785302 AAATAAA-ATAAAATAATAA-AATA-
1 AAATAAATA-AAAATAATAATAATAT
7785325 AAATAAATAAAAATGAA-AATAA-AT
1 AAATAAATAAAAAT-AATAATAATAT
*
7785349 AAATAAATAAAAATAAAAAT-AT-T
1 AAATAAATAAAAATAATAATAATAT
* * * *
7785372 AAACAATTCTAATATAATAATAATAT
1 AAATAAAT-AAAAATAATAATAATAT
7785398 AAAT-AATAAA
1 AAATAAATAAA
7785408 TAAATAAATA
Statistics
Matches: 66, Mismatches: 8, Indels: 17
0.73 0.09 0.19
Matches are distributed among these distances:
23 25 0.38
24 33 0.50
25 4 0.06
26 4 0.06
ACGTcount: A:0.72, C:0.02, G:0.01, T:0.25
Consensus pattern (25 bp):
AAATAAATAAAAATAATAATAATAT
Found at i:7785972 original size:14 final size:15
Alignment explanation
Indices: 7785953--7785982 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7785943 AAATTTTTTC
7785953 AAAAATT-TCCAAAA
1 AAAAATTCTCCAAAA
7785967 AAAAATTCTCCAAAA
1 AAAAATTCTCCAAAA
7785982 A
1 A
7785983 CTCCTATCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.63, C:0.17, G:0.00, T:0.20
Consensus pattern (15 bp):
AAAAATTCTCCAAAA
Found at i:7786280 original size:16 final size:18
Alignment explanation
Indices: 7786254--7786286 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7786244 TCTTCAGTCG
7786254 AAAAAAGTCAAA-AAAAT
1 AAAAAAGTCAAATAAAAT
7786271 AAAAAA-TCAAATAAAA
1 AAAAAAGTCAAATAAAA
7786287 AATATTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.79, C:0.06, G:0.03, T:0.12
Consensus pattern (18 bp):
AAAAAAGTCAAATAAAAT
Found at i:7786381 original size:22 final size:22
Alignment explanation
Indices: 7786338--7786395 Score: 91
Period size: 22 Copynumber: 2.7 Consensus size: 22
7786328 AAGAATTAAC
* *
7786338 AGATAAATTA-AAAATAATAAT
1 AGATAAATTATAATATAAAAAT
7786359 AGATAAATTATAATATAAAAAT
1 AGATAAATTATAATATAAAAAT
7786381 AGATAAATTATAATA
1 AGATAAATTATAATA
7786396 AATATATAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
21 10 0.29
22 24 0.71
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (22 bp):
AGATAAATTATAATATAAAAAT
Found at i:7786404 original size:18 final size:17
Alignment explanation
Indices: 7786361--7786441 Score: 54
Period size: 14 Copynumber: 5.2 Consensus size: 17
7786351 ATAATAATAG
7786361 ATAAAT-TAT-AATATA
1 ATAAATATATAAATATA
*
7786376 A-AAATAGATAAATTATA
1 ATAAATATATAAA-TATA
* *
7786393 ATAAATATATAACTA-G
1 ATAAATATATAAATATA
7786409 ATAAATA-A-AAATAT-
1 ATAAATATATAAATATA
7786423 AT--ATATATAAATATTA
1 ATAAATATATAAATA-TA
7786439 ATA
1 ATA
7786442 GAAAAGAAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
12 3 0.06
13 1 0.02
14 15 0.29
15 5 0.10
16 11 0.22
17 7 0.14
18 9 0.18
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (17 bp):
ATAAATATATAAATATA
Found at i:7786409 original size:26 final size:25
Alignment explanation
Indices: 7786334--7786414 Score: 88
Period size: 22 Copynumber: 3.5 Consensus size: 25
7786324 ACCAAAGAAT
7786334 TAAC-AGATAAA-T-TAA-AAATAA
1 TAACTAGATAAATTATAATAAATAA
7786355 TAA-TAGATAAATTATAAT--ATAA
1 TAACTAGATAAATTATAATAAATAA
*
7786377 -AAATAGATAAATTATAATAAATATA
1 TAACTAGATAAATTATAATAAATA-A
7786402 TAACTAGATAAAT
1 TAACTAGATAAAT
7786415 AAAAATATAT
Statistics
Matches: 50, Mismatches: 1, Indels: 13
0.78 0.02 0.20
Matches are distributed among these distances:
21 12 0.24
22 20 0.40
23 3 0.06
24 3 0.06
25 1 0.02
26 11 0.22
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (25 bp):
TAACTAGATAAATTATAATAAATAA
Found at i:7786421 original size:26 final size:26
Alignment explanation
Indices: 7786370--7786435 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
7786360 GATAAATTAT
* * *
7786370 AATATAAAAATAGATAAATTATAATA
1 AATATATAAATAGATAAATAAAAATA
*
7786396 AATATATAACTAGATAAATAAAAATA
1 AATATATAAATAGATAAATAAAAATA
7786422 TATATATATAAATA
1 -A-ATATATAAATA
7786436 TTAATAGAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
26 22 0.67
27 1 0.03
28 10 0.30
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.32
Consensus pattern (26 bp):
AATATATAAATAGATAAATAAAAATA
Found at i:7786423 original size:22 final size:22
Alignment explanation
Indices: 7786334--7786425 Score: 82
Period size: 22 Copynumber: 4.1 Consensus size: 22
7786324 ACCAAAGAAT
7786334 TAAC-AGATAAATTAAAAATA-A
1 TAACTAGATAAA-TAAAAATATA
* *
7786355 TAA-TAGATAAATTATAATATA
1 TAACTAGATAAATAAAAATATA
* *
7786376 AAAATAGATAAATTATAATAAATATA
1 TAACTAGAT-AA--ATAA-AAATATA
7786402 TAACTAGATAAATAAAAATATA
1 TAACTAGATAAATAAAAATATA
7786424 TA
1 TA
7786426 TATATAAATA
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
20 6 0.11
21 13 0.23
22 14 0.25
23 6 0.11
25 5 0.09
26 13 0.23
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (22 bp):
TAACTAGATAAATAAAAATATA
Found at i:7786432 original size:20 final size:20
Alignment explanation
Indices: 7786367--7786435 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
7786357 ATAGATAAAT
* *
7786367 TATAATATAAAAATAGATAAA
1 TATAA-ATAAAAATATATATA
*
7786388 T-TATAATAAATATATA-ACTA
1 TATA-AATAAAAATATATA-TA
*
7786408 GATAAATAAAAATATATATA
1 TATAAATAAAAATATATATA
7786428 TATAAATA
1 TATAAATA
7786436 TTAATAGAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
19 1 0.03
20 32 0.84
21 5 0.13
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.33
Consensus pattern (20 bp):
TATAAATAAAAATATATATA
Found at i:7786471 original size:15 final size:15
Alignment explanation
Indices: 7786441--7786471 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7786431 AAATATTAAT
*
7786441 AGAAAAGAAAGAAAA
1 AGAAAAGAAAAAAAA
7786456 AGAAAAGAAAAAAAA
1 AGAAAAGAAAAAAAA
7786471 A
1 A
7786472 TAATAACGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AGAAAAGAAAAAAAA
Found at i:7786519 original size:15 final size:15
Alignment explanation
Indices: 7786489--7786529 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
7786479 GATATATATT
7786489 AATAAATAGTAATAATA
1 AATAAATA--AATAATA
7786506 AATAAATAAATAATA
1 AATAAATAAATAATA
*
7786521 AATACATAA
1 AATAAATAA
7786530 GATACAAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 15 0.65
17 8 0.35
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (15 bp):
AATAAATAAATAATA
Found at i:7786520 original size:7 final size:7
Alignment explanation
Indices: 7786488--7786529 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
7786478 CGATATATAT
7786488 TAATAAA
1 TAATAAA
*
7786495 TAGT-AA
1 TAATAAA
7786501 TAATAAA
1 TAATAAA
7786508 TAAATAAA
1 T-AATAAA
7786516 TAATAAA
1 TAATAAA
7786523 TACATAA
1 TA-ATAA
7786530 GATACAAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
6 5 0.17
7 14 0.47
8 11 0.37
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (7 bp):
TAATAAA
Found at i:7786561 original size:7 final size:7
Alignment explanation
Indices: 7786539--7786594 Score: 71
Period size: 7 Copynumber: 8.0 Consensus size: 7
7786529 AGATACAAAG
7786539 TAAAATA
1 TAAAATA
7786546 TATATAATA
1 TA-A-AATA
7786555 TAAAATA
1 TAAAATA
7786562 -AAAATA
1 TAAAATA
7786568 -AAAATA
1 TAAAATA
7786574 TAAAATA
1 TAAAATA
7786581 TAAAATA
1 TAAAATA
*
7786588 CAAAATA
1 TAAAATA
7786595 AAAGCAAAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
6 12 0.27
7 25 0.56
8 2 0.04
9 6 0.13
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (7 bp):
TAAAATA
Found at i:7786563 original size:21 final size:19
Alignment explanation
Indices: 7786499--7786587 Score: 70
Period size: 22 Copynumber: 4.2 Consensus size: 19
7786489 AATAAATAGT
*
7786499 AATAATAAATAAATAAATAATA
1 AATAAT-AATATA-AAATAA-A
*
7786521 AATACATAAGATACAAAGTAAA
1 AATA-ATAATATA-AAA-TAAA
7786543 ATATATATAATATAAAATAAA
1 A-ATA-ATAATATAAAATAAA
*
7786564 AATAAAAATATAAAATATAA
1 AATAATAATATAAAATA-AA
7786584 AATA
1 AATA
7786588 CAAAATAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
19 12 0.21
20 9 0.16
21 5 0.09
22 16 0.28
23 15 0.26
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (19 bp):
AATAATAATATAAAATAAA
Found at i:7786575 original size:19 final size:21
Alignment explanation
Indices: 7786551--7786594 Score: 74
Period size: 19 Copynumber: 2.2 Consensus size: 21
7786541 AAATATATAT
7786551 AATATAAAATA-AAAATA-AA
1 AATATAAAATATAAAATACAA
7786570 AATATAAAATATAAAATACAA
1 AATATAAAATATAAAATACAA
7786591 AATA
1 AATA
7786595 AAAGCAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 11 0.48
20 6 0.26
21 6 0.26
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (21 bp):
AATATAAAATATAAAATACAA
Found at i:7786581 original size:26 final size:28
Alignment explanation
Indices: 7786509--7786597 Score: 105
Period size: 27 Copynumber: 3.3 Consensus size: 28
7786499 AATAATAAAT
* *
7786509 AAAT-AAATA-ATAAATACATAAGATACA
1 AAATAAAATATATAAA-ATATAAAATACA
* *
7786536 AAGTAAAATATATATAATATAAAATA-A
1 AAATAAAATATATAAAATATAAAATACA
7786563 AAATAAAA-ATATAAAATATAAAATACA
1 AAATAAAATATATAAAATATAAAATACA
7786590 AAATAAAA
1 AAATAAAA
7786598 GCAAAATTGA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
26 16 0.30
27 20 0.38
28 13 0.25
29 4 0.08
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (28 bp):
AAATAAAATATATAAAATATAAAATACA
Found at i:7786831 original size:43 final size:43
Alignment explanation
Indices: 7786784--7786918 Score: 184
Period size: 44 Copynumber: 3.1 Consensus size: 43
7786774 TTGATCAAAA
* * *
7786784 CTCCTCTAAGT-AGAGGCTCAACGACTTTGAAAATGAATACAGG
1 CTCCTCTAA-TCAGAGGCTCAACAACTTTGAAAATAAATAAAGG
7786827 CTCCTCTAATCAGAGGCTCAACAACTTTGAAAAATAAATAAAGG
1 CTCCTCTAATCAGAGGCTCAACAACTTTG-AAAATAAATAAAGG
* *
7786871 CTCCTCTAATCAGAGGCTCAACAACTTTTAAAA-AAGTAAATGG
1 CTCCTCTAATCAGAGGCTCAACAACTTTGAAAATAAATAAA-GG
7786914 CTCCT
1 CTCCT
7786919 TGACAATCAT
Statistics
Matches: 84, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
42 7 0.08
43 37 0.44
44 40 0.48
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (43 bp):
CTCCTCTAATCAGAGGCTCAACAACTTTGAAAATAAATAAAGG
Found at i:7787914 original size:14 final size:14
Alignment explanation
Indices: 7787895--7787961 Score: 56
Period size: 14 Copynumber: 5.1 Consensus size: 14
7787885 TTGGTCTTCC
7787895 TTTTTCATTCATTT
1 TTTTTCATTCATTT
*
7787909 TTTTTC-TT-TTTT
1 TTTTTCATTCATTT
*
7787921 TCTTTTCATT-TTTT
1 T-TTTTCATTCATTT
7787935 TCTTTTCA-TCATTT
1 T-TTTTCATTCATTT
7787949 TTTTT--TTCATTT
1 TTTTTCATTCATTT
7787961 T
1 T
7787962 CATTTCTTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
12 11 0.23
13 12 0.26
14 24 0.51
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTTCATTCATTT
Found at i:7787949 original size:15 final size:14
Alignment explanation
Indices: 7787917--7787958 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
7787907 TTTTTTTCTT
*
7787917 TTTTTCTTTTCATT
1 TTTTTCTTTTCATA
7787931 TTTTTCTTTTCATCA
1 TTTTTCTTTTCAT-A
*
7787946 TTTTTTTTTTCAT
1 TTTTTCTTTTCAT
7787959 TTTCATTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTTCTTTTCATA
Found at i:7787973 original size:21 final size:20
Alignment explanation
Indices: 7787906--7787964 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 20
7787896 TTTTCATTCA
** *
7787906 TTTTTTTTCTTTTTTTCTTT
1 TTTTTTTTCTTTTCATCATT
7787926 TCATTTTTTTCTTTTCATCATT
1 T--TTTTTTTCTTTTCATCATT
7787948 TTTTTTTTCATTTTCAT
1 TTTTTTTTC-TTTTCAT
7787965 TTCTTTTTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
20 9 0.27
21 7 0.21
22 17 0.52
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTTTTTCTTTTCATCATT
Found at i:7787980 original size:40 final size:42
Alignment explanation
Indices: 7787891--7787980 Score: 107
Period size: 40 Copynumber: 2.2 Consensus size: 42
7787881 ACCTTTGGTC
* * *
7787891 TTCCTTTTTCATTCATTTTTTTTCTTTTTTTCTTTTCATTTT
1 TTCCCTTTTCATTCATTTTTTTTCTTATTTTCATTTCATTTT
*
7787933 TT-TCTTTTCA-TCATTTTTTTT-TTCATTTTCATTTC-TTTT
1 TTCCCTTTTCATTCATTTTTTTTCTT-ATTTTCATTTCATTTT
7787972 TTCCCTTTT
1 TTCCCTTTT
7787981 TTTTATTTCA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
39 8 0.20
40 25 0.61
41 6 0.15
42 2 0.05
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (42 bp):
TTCCCTTTTCATTCATTTTTTTTCTTATTTTCATTTCATTTT
Found at i:7798605 original size:59 final size:60
Alignment explanation
Indices: 7798390--7798726 Score: 383
Period size: 60 Copynumber: 5.7 Consensus size: 60
7798380 TTTTGTGCAG
* * *
7798390 GAAAAATTGATACTTTTAACTTTTCCC-CAAAAATATTTTTCTG-AAACTTTAATTTCGA
1 GAAAAATTGATACTTTCAACTTTTCCCTCAAAAATATTTTTTTGAAAACTTTATTTTCGA
* * * **
7798448 GGAAAATTGATACTTTCAA-TTTTTCCTCAAAAAT-TCATTTTTGAAAAC-TTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCCTCAAAAATAT-TTTTTTGAAAACTTTATTTTCGA
* * * * *
7798506 GGAAAATTGACACTTTCAACTTTT-TCTCAAAAATATTTTTTTTGGAAAGC-TTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCCTCAAAAATA-TTTTTTT-GAAAACTTTATTTTCGA
*
7798566 GAAAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTTTAAAACTTTAATTTT-GA
1 GAAAAATTGATACTTTCAACTTTTCCCTCAAAAATA-TTTTTTTGAAAACTTT-ATTTTCGA
* *
7798626 GAAAAATTGATACTTTCAACTTTTCGC-CAAAAATA-TTTTTTGAAAACTTTTAATTTCGA
1 GAAAAATTGATACTTTCAACTTTTCCCTCAAAAATATTTTTTTGAAAAC-TTTATTTTCGA
*
7798685 GAAAAATTGATACTTTCAACTTTT-CCTCAAAAAAATTTTTTT
1 GAAAAATTGATACTTTCAACTTTTCCCTCAAAAATATTTTTTT
7798727 TGAATTTTAT
Statistics
Matches: 240, Mismatches: 24, Indels: 28
0.82 0.08 0.10
Matches are distributed among these distances:
57 7 0.03
58 79 0.33
59 53 0.22
60 94 0.39
61 7 0.03
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.43
Consensus pattern (60 bp):
GAAAAATTGATACTTTCAACTTTTCCCTCAAAAATATTTTTTTGAAAACTTTATTTTCGA
Found at i:7798765 original size:4 final size:4
Alignment explanation
Indices: 7798756--7798838 Score: 57
Period size: 4 Copynumber: 20.5 Consensus size: 4
7798746 ATAAAAATGA
* * *
7798756 AAAT AAAT AAAT AAAT -AAT AAA- AATT AAAT AAA- AATATT AAAC AATT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA-A-T AAAT AAAT
*
7798803 CTAAT ATAAT -AAT AATAT AAAT AAAT AAAT AAAT AA
1 -AAAT A-AAT AAAT AA-AT AAAT AAAT AAAT AAAT AA
7798839 TGAAAAAAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 18
0.70 0.09 0.20
Matches are distributed among these distances:
3 10 0.16
4 40 0.65
5 10 0.16
6 2 0.03
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (4 bp):
AAAT
Found at i:7799780 original size:20 final size:20
Alignment explanation
Indices: 7799710--7799802 Score: 80
Period size: 20 Copynumber: 4.5 Consensus size: 20
7799700 AAAATATTAG
7799710 TAGAT-AATTAAATGAAAATAA
1 TAGATAAATTAAA--AAAATAA
** *
7799731 TCAGATAAAACAAAAAATTAA
1 T-AGATAAATTAAAAAAATAA
*
7799752 CAGATAAATTAAAAAAATAA
1 TAGATAAATTAAAAAAATAA
* *
7799772 TAGATAAATTATAATATATGAA
1 TAGATAAATTA-AAAAAAT-AA
7799794 TAGATAAAT
1 TAGATAAAT
7799803 AATAATAAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
20 26 0.45
21 12 0.21
22 15 0.26
23 5 0.09
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.27
Consensus pattern (20 bp):
TAGATAAATTAAAAAAATAA
Found at i:7799798 original size:22 final size:21
Alignment explanation
Indices: 7799753--7799813 Score: 79
Period size: 22 Copynumber: 2.9 Consensus size: 21
7799743 AAAAATTAAC
*
7799753 AGATAAATTA-AAAAAATAAT
1 AGATAAATTATAATAAATAAT
*
7799773 AGATAAATTATAATATATGAAT
1 AGATAAATTATAATAAAT-AAT
*
7799795 AGATAAATAATAATAAATA
1 AGATAAATTATAATAAATA
7799814 TATAACTAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 10 0.29
21 6 0.17
22 19 0.54
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.30
Consensus pattern (21 bp):
AGATAAATTATAATAAATAAT
Found at i:7799804 original size:26 final size:25
Alignment explanation
Indices: 7799767--7799843 Score: 79
Period size: 26 Copynumber: 3.1 Consensus size: 25
7799757 AAATTAAAAA
*
7799767 AATA-ATAGATAAATTATAATATAT
1 AATAGATAAATAAATTATAATATAT
*
7799791 GAATAGATAAAT-AATAATAAATATAT
1 -AATAGATAAATAAATTAT-AATATAT
*
7799817 AACTAGATAAATAAAATAT-ATATAT
1 AA-TAGATAAATAAATTATAATATAT
7799842 AA
1 AA
7799844 ATATTAACAG
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
25 19 0.43
26 21 0.48
27 4 0.09
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.32
Consensus pattern (25 bp):
AATAGATAAATAAATTATAATATAT
Found at i:7799932 original size:7 final size:7
Alignment explanation
Indices: 7799900--7799941 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
7799890 ATATATATAT
7799900 TAATAAA
1 TAATAAA
*
7799907 TAGT-AA
1 TAATAAA
7799913 TAATAAA
1 TAATAAA
7799920 TAAATAAA
1 T-AATAAA
7799928 TAATAAA
1 TAATAAA
7799935 TACATAA
1 TA-ATAA
7799942 GATACAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
6 5 0.17
7 14 0.47
8 11 0.37
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (7 bp):
TAATAAA
Found at i:7799973 original size:7 final size:7
Alignment explanation
Indices: 7799952--7800014 Score: 92
Period size: 7 Copynumber: 8.9 Consensus size: 7
7799942 GATACAAAGG
7799952 AAAATAT
1 AAAATAT
7799959 ATATAATAT
1 A-A-AATAT
7799968 AAAATAT
1 AAAATAT
7799975 -AAATAT
1 AAAATAT
7799981 AAAATAT
1 AAAATAT
7799988 AAAATAT
1 AAAATAT
7799995 AAAATAT
1 AAAATAT
*
7800002 AAAATAC
1 AAAATAT
7800009 AAAATA
1 AAAATA
7800015 AAAGTAAAAT
Statistics
Matches: 52, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
6 6 0.12
7 38 0.73
8 2 0.04
9 6 0.12
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.29
Consensus pattern (7 bp):
AAAATAT
Found at i:7799993 original size:27 final size:26
Alignment explanation
Indices: 7799952--7800017 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 26
7799942 GATACAAAGG
7799952 AAAATATATATAATATAAAATATAAATAT
1 AAAATATA-A-AATATAAAATATAAA-AT
7799981 AAAATATAAAATATAAAATATAAAAT
1 AAAATATAAAATATAAAATATAAAAT
7800007 ACAAA-ATAAAA
1 A-AAATATAAAA
7800018 GTAAAATTGG
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
26 9 0.25
27 18 0.50
28 1 0.03
29 8 0.22
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (26 bp):
AAAATATAAAATATAAAATATAAAAT
Found at i:7801964 original size:22 final size:22
Alignment explanation
Indices: 7801936--7801979 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
7801926 ATTTTTTATC
*
7801936 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
*
7801958 CTTAATTCTAGATATACAAATA
1 CTTAATTCTAGAGATACAAATA
7801980 TAAATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:7806758 original size:25 final size:25
Alignment explanation
Indices: 7806730--7806780 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
7806720 AATCGAGTTC
7806730 AGATAATGAATATCCTAATATCACT
1 AGATAATGAATATCCTAATATCACT
7806755 AGATAATGAATATCCTAATATCACT
1 AGATAATGAATATCCTAATATCACT
7806780 A
1 A
7806781 TAGAACCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.31
Consensus pattern (25 bp):
AGATAATGAATATCCTAATATCACT
Found at i:7809389 original size:12 final size:13
Alignment explanation
Indices: 7809372--7809399 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
7809362 ATAATCCAAC
7809372 AAAAAAAAAAGAA
1 AAAAAAAAAAGAA
7809385 AAAAAAAAAAGAA
1 AAAAAAAAAAGAA
7809398 AA
1 AA
7809400 CAATACGGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAGAA
Found at i:7809827 original size:25 final size:24
Alignment explanation
Indices: 7809773--7809833 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
7809763 CATAACCCCC
* * *
7809773 CTAAAAAAA-AAAAGAGAAAAACT
1 CTAAAAAAACAAAAAAAAAAAACA
*
7809796 CTCAAAAAACAAAAAAAAAAAACCA
1 CTAAAAAAACAAAAAAAAAAAA-CA
*
7809821 CTAAAAATACAAA
1 CTAAAAAAACAAA
7809834 GAACTCTACT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
23 8 0.27
24 10 0.33
25 12 0.40
ACGTcount: A:0.74, C:0.15, G:0.03, T:0.08
Consensus pattern (24 bp):
CTAAAAAAACAAAAAAAAAAAACA
Found at i:7812769 original size:22 final size:23
Alignment explanation
Indices: 7812730--7812786 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
7812720 TTTTTTTTTT
7812730 ATAAAAA-ATTAACTAAAATAAGA
1 ATAAAAATATTAAC-AAAATAAGA
7812753 ATAAAAATATTAA-AAAATAAGA
1 ATAAAAATATTAACAAAATAAGA
*
7812775 AAAAGAAATATT
1 ATAA-AAATATT
7812787 TATCTCATGA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 12 0.39
23 14 0.45
24 5 0.16
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (23 bp):
ATAAAAATATTAACAAAATAAGA
Found at i:7824560 original size:50 final size:50
Alignment explanation
Indices: 7824482--7824659 Score: 185
Period size: 52 Copynumber: 3.5 Consensus size: 50
7824472 AAAAAATAAA
* * * *
7824482 AATTTTTAAAAATTGTTGAACCTTTGCTTATAGGAACCTTTTTCAAGATGAG
1 AATTTTT--AAATTGTTGAGCCTCTGCTTAGAGGAACTTTTTTCAAGATGAG
* * *
7824534 AATTTTTAAATTATTGAGCCTCTGCTTAGAGAAACTTTTTTCAAGATAAG
1 AATTTTTAAATTGTTGAGCCTCTGCTTAGAGGAACTTTTTTCAAGATGAG
* * * * *
7824584 AGTATTTAAAAGTTGTTAAGCCTCTACTTAGAGGAAATTTTTTCAAGATGAG
1 AAT-TTTTAAA-TTGTTGAGCCTCTGCTTAGAGGAACTTTTTTCAAGATGAG
**
7824636 AATTTTTAAAGTTGTCAAGCCTCT
1 AATTTTTAAA-TTGTTGAGCCTCT
7824660 ATTTAGAATA
Statistics
Matches: 106, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
50 38 0.36
51 25 0.24
52 43 0.41
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (50 bp):
AATTTTTAAATTGTTGAGCCTCTGCTTAGAGGAACTTTTTTCAAGATGAG
Found at i:7824656 original size:51 final size:51
Alignment explanation
Indices: 7824520--7824666 Score: 190
Period size: 52 Copynumber: 2.9 Consensus size: 51
7824510 TATAGGAACC
* * *
7824520 TTTTTCAAGATGAGAATTTTTAAA-TTATTGAGCCTCTGCTTAGAGAAACT
1 TTTTTCAAGATGAGAATTTTTAAAGTTGTTAAGCCTCTACTTAGAGAAACT
* * *
7824570 TTTTTCAAGATAAGAGTATTTAAAAGTTGTTAAGCCTCTACTTAGAGGAAA-T
1 TTTTTCAAGATGAGAAT-TTTTAAAGTTGTTAAGCCTCTACTTAGA-GAAACT
* *
7824622 TTTTTCAAGATGAGAATTTTTAAAGTTGTCAAGCCTCTATTTAGA
1 TTTTTCAAGATGAGAATTTTTAAAGTTGTTAAGCCTCTACTTAGA
7824667 ATAGCTTTCT
Statistics
Matches: 83, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
50 15 0.18
51 31 0.37
52 33 0.40
53 4 0.05
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.39
Consensus pattern (51 bp):
TTTTTCAAGATGAGAATTTTTAAAGTTGTTAAGCCTCTACTTAGAGAAACT
Found at i:7825648 original size:22 final size:20
Alignment explanation
Indices: 7825619--7825679 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
7825609 CCCAAAAAAG
7825619 AAAAAAAAAAAACTCTACCTT
1 AAAAAAAAAAAACTCTACC-T
** *
7825640 AAAACAAAAAAAAAACCACCT
1 AAAA-AAAAAAAACTCTACCT
*
7825661 AAAATACAAAAAACTCTAC
1 AAAA-AAAAAAAACTCTAC
7825680 AAAACAAGAA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
21 19 0.61
22 12 0.39
ACGTcount: A:0.66, C:0.21, G:0.00, T:0.13
Consensus pattern (20 bp):
AAAAAAAAAAAACTCTACCT
Found at i:7825669 original size:23 final size:24
Alignment explanation
Indices: 7825621--7825673 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
7825611 CAAAAAAGAA
*
7825621 AAAAAAAAAACTCTACCTTAAAAC
1 AAAAAAAAAACTCTACCTAAAAAC
7825645 AAAAAAAAAAC-C-ACCTAAAATAC
1 AAAAAAAAAACTCTACCTAAAA-AC
7825668 AAAAAA
1 AAAAAA
7825674 CTCTACAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 7 0.26
23 9 0.33
24 11 0.41
ACGTcount: A:0.70, C:0.19, G:0.00, T:0.11
Consensus pattern (24 bp):
AAAAAAAAAACTCTACCTAAAAAC
Found at i:7826692 original size:11 final size:11
Alignment explanation
Indices: 7826662--7826692 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
7826652 ATAAAATAGT
7826662 AAAAATAATTA
1 AAAAATAATTA
7826673 AAAAGATAATTA
1 AAAA-ATAATTA
7826685 AAAAATAA
1 AAAAATAA
7826693 AGAAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (11 bp):
AAAAATAATTA
Found at i:7826860 original size:6 final size:6
Alignment explanation
Indices: 7826849--7826889 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
7826839 TTCTTCTATA
* *
7826849 AAAAAT AAAAAT -AAACT -AAAAT AAGAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A
7826890 TTAAAAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 8 0.27
6 22 0.73
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:7834660 original size:56 final size:56
Alignment explanation
Indices: 7834595--7834806 Score: 142
Period size: 56 Copynumber: 3.8 Consensus size: 56
7834585 CCTATGTGGT
*
7834595 CAAGTTAAGCCTTTATGAAGGTAATTTATCGAGATGAACTCTTTGGTTAATATGGC
1 CAAGCTAAGCCTTTATGAAGGTAATTTATCGAGATGAACTCTTTGGTTAATATGGC
* * * * * * * * *
7834651 CAAGCTAAGCTTTTATGGTA-GTAATTTAACAAGAT-AAGATTTTTGGCTGAGATGGTC
1 CAAGCTAAGCCTTTAT-GAAGGTAATTTATCGAGATGAA-CTCTTTGGTTAATATGG-C
* * * * * * * *
7834708 CAA-TTAAACATTTATGAAGGTAATTTATCGAGATGAGCTCTTTCGTAAATGTGAC
1 CAAGCTAAGCCTTTATGAAGGTAATTTATCGAGATGAACTCTTTGGTTAATATGGC
** * * * * * *
7834763 TGAGCTAAGCCTTTATAAAAGCAATTTATAGAAATGAGCTCTTT
1 CAAGCTAAGCCTTTATGAAGGTAATTTATCGAGATGAACTCTTT
7834807 TAGCCAAAGT
Statistics
Matches: 114, Mismatches: 36, Indels: 12
0.70 0.22 0.07
Matches are distributed among these distances:
55 6 0.05
56 101 0.89
57 7 0.06
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (56 bp):
CAAGCTAAGCCTTTATGAAGGTAATTTATCGAGATGAACTCTTTGGTTAATATGGC
Found at i:7834846 original size:57 final size:56
Alignment explanation
Indices: 7834718--7834846 Score: 145
Period size: 57 Copynumber: 2.3 Consensus size: 56
7834708 CAATTAAACA
* * * * *
7834718 TTTATGAAGGTAATTTATCGAGATGAGCTCTTTCGTAAATGTGACTGAGCTAAGCC
1 TTTATAAAGGTAATTTATAGAAATGAGCTCTTTAGCAAATGTGACTGAGCTAAGCC
* * *
7834774 TTTATAAAAGCAATTTATAGAAATGAGCTCTTTTAGCCAAA-GTGACCT-AGCTAAGCT
1 TTTATAAAGGTAATTTATAGAAATGAGCTC-TTTAG-CAAATGTGA-CTGAGCTAAGCC
7834831 TTTATAAAGGTAATTT
1 TTTATAAAGGTAATTT
7834847 GTTGGGATAA
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
56 25 0.42
57 30 0.50
58 5 0.08
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (56 bp):
TTTATAAAGGTAATTTATAGAAATGAGCTCTTTAGCAAATGTGACTGAGCTAAGCC
Found at i:7841347 original size:16 final size:15
Alignment explanation
Indices: 7841320--7841380 Score: 63
Period size: 16 Copynumber: 4.0 Consensus size: 15
7841310 TTTTTGGATT
7841320 TAAAA-AAATAAAAA
1 TAAAATAAATAAAAA
*
7841334 TAGAAATTAATAAAAA
1 TA-AAATAAATAAAAA
7841350 TTAAAATAAATAAAAA
1 -TAAAATAAATAAAAA
*
7841366 TCAAAAGAAA-AAAAA
1 T-AAAATAAATAAAAA
7841381 AGAATGATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
14 2 0.05
15 9 0.22
16 27 0.68
17 2 0.05
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.18
Consensus pattern (15 bp):
TAAAATAAATAAAAA
Found at i:7841381 original size:32 final size:31
Alignment explanation
Indices: 7841319--7841381 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 31
7841309 TTTTTTGGAT
** *
7841319 TTAAAAAAATAAAAATAGAAATTAATAAAAA
1 TTAAAAAAATAAAAATAGAAAGAAAAAAAAA
7841350 TTAAAATAAATAAAAATCA-AAAGAAAAAAAAA
1 TTAAAA-AAATAAAAAT-AGAAAGAAAAAAAAA
7841382 GAATGATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 6 0.22
32 20 0.74
33 1 0.04
ACGTcount: A:0.76, C:0.02, G:0.03, T:0.19
Consensus pattern (31 bp):
TTAAAAAAATAAAAATAGAAAGAAAAAAAAA
Found at i:7841865 original size:19 final size:21
Alignment explanation
Indices: 7841841--7841880 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7841831 TCTTTAATAA
7841841 TTAA-TTAAAC-TATAAAAAT
1 TTAATTTAAACATATAAAAAT
*
7841860 TTAATTTAAACATATTAAAAT
1 TTAATTTAAACATATAAAAAT
7841881 AAAAATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 6 0.33
21 8 0.44
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
TTAATTTAAACATATAAAAAT
Found at i:7855531 original size:81 final size:81
Alignment explanation
Indices: 7855396--7855556 Score: 295
Period size: 81 Copynumber: 2.0 Consensus size: 81
7855386 AACAGATAAT
*
7855396 AGAAATACTTAAAGGCTGCAAACCTTCAAATAATTAAAGGAAGCTCCATCTTTCACTTTATCCCC
1 AGAAATACTTAAAGGCTGCAAACCTTCAAATAATTAAAGGAAGCTCCATATTTCACTTTATCCCC
7855461 TTGTCTTTAAGTCCAC
66 TTGTCTTTAAGTCCAC
* *
7855477 AGAAATACTTAAAGGCTGCAAACCTTCCAATAATTAAAGGAAGCTCCATATTTCACTTTATCTCC
1 AGAAATACTTAAAGGCTGCAAACCTTCAAATAATTAAAGGAAGCTCCATATTTCACTTTATCCCC
7855542 TTGTCTTTAAGTCCA
66 TTGTCTTTAAGTCCA
7855557 TATTATGAAT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (81 bp):
AGAAATACTTAAAGGCTGCAAACCTTCAAATAATTAAAGGAAGCTCCATATTTCACTTTATCCCC
TTGTCTTTAAGTCCAC
Found at i:7858075 original size:19 final size:19
Alignment explanation
Indices: 7858031--7858068 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
7858021 TCTCAGAATA
7858031 AAGAAATAGATTGTAGGTC
1 AAGAAATAGATTGTAGGTC
7858050 AAGAAATAGATTGTAGGTC
1 AAGAAATAGATTGTAGGTC
7858069 GTGAAATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.26, T:0.26
Consensus pattern (19 bp):
AAGAAATAGATTGTAGGTC
Found at i:7863911 original size:59 final size:59
Alignment explanation
Indices: 7863842--7864130 Score: 217
Period size: 59 Copynumber: 5.0 Consensus size: 59
7863832 TGCTTTTATA
*
7863842 CAAAGAAAATTGATACTTTCAACTTTTTCTTAAAATGTTTTTTTTATAATTTTTATTTT
1 CAAAGAAAATTGATACTTTCAACTTTTTCTTAAAATATTTTTTTTATAATTTTTATTTT
* * * * * *
7863901 TAAAGAAAATTG-TACATTCAGCTTTTTC-TCAAA-A-TGTTTTT-T--TTTTTAATTT
1 CAAAGAAAATTGATACTTTCAACTTTTTCTTAAAATATTTTTTTTATAATTTTTATTTT
* *** * * *
7863953 CAAGGAAAATTGATACTTTCAACTTTCTCTCCCCCCAAATATATTTTTT-T-ATTTGT-GTTT
1 CAAAGAAAATTGATACTTTCAACTTT-T-T--CTTAAAATATTTTTTTTATAATTTTTATTTT
* ** * *
7864013 -AAAGAAAATTGATACATTCAACTTTTT-TTCAAAAATATTTTTTAAAAAATATTTATTTT
1 CAAAGAAAATTGATACTTTCAACTTTTTCTT--AAAATATTTTTTTTATAATTTTTATTTT
* * * *
7864072 CAAGGAAAATTGATATTTTCAAC-TTTTCTTAAAAATATTTTTTTGAGAATTTTTATTTT
1 CAAAGAAAATTGATACTTTCAACTTTTTCTT-AAAATATTTTTTTTATAATTTTTATTTT
7864131 AGGGAAATCA
Statistics
Matches: 179, Mismatches: 35, Indels: 32
0.73 0.14 0.13
Matches are distributed among these distances:
52 19 0.11
53 11 0.06
54 2 0.01
55 7 0.04
56 10 0.06
57 6 0.03
58 23 0.13
59 67 0.37
60 30 0.17
61 4 0.02
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.49
Consensus pattern (59 bp):
CAAAGAAAATTGATACTTTCAACTTTTTCTTAAAATATTTTTTTTATAATTTTTATTTT
Found at i:7864055 original size:15 final size:15
Alignment explanation
Indices: 7864035--7864074 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
7864025 TACATTCAAC
7864035 TTTTTTTCAAAAATA
1 TTTTTTTCAAAAATA
*
7864050 -TTTTTTAAAAAATA
1 TTTTTTTCAAAAATA
7864064 TTTATTTTCAA
1 TTT-TTTTCAA
7864075 GGAAAATTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 13 0.62
15 2 0.10
16 6 0.29
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTTTTTCAAAAATA
Found at i:7864200 original size:3 final size:3
Alignment explanation
Indices: 7864192--7864232 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
7864182 AAGGAATACC
7864192 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7864233 AAATCTCGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Done.