Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, 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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 51 of 106
Found at i:8950755 original size:14 final size:14
Alignment explanation
Indices: 8950725--8950788 Score: 67
Period size: 14 Copynumber: 4.5 Consensus size: 14
8950715 AATATTAGTA
8950725 AAAGAAAGGAAAGG
1 AAAGAAAGGAAAGG
*
8950739 AAAGTAAAGTAAA-G
1 AAAG-AAAGGAAAGG
* *
8950753 AAAGGGAAGGGAAGG
1 AAA-GAAAGGAAAGG
*
8950768 AAAGAAAGTAAAGG
1 AAAGAAAGGAAAGG
8950782 AAAGAAA
1 AAAGAAA
8950789 AAAAAATATA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
14 28 0.70
15 12 0.30
ACGTcount: A:0.62, C:0.00, G:0.33, T:0.05
Consensus pattern (14 bp):
AAAGAAAGGAAAGG
Found at i:8950755 original size:19 final size:19
Alignment explanation
Indices: 8950728--8950785 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
8950718 ATTAGTAAAA
*
8950728 GAAAGGAAAGGAAAGTAAAG
1 GAAA-GAAAGGAAAGGAAAG
* * *
8950748 TAAAGAAAGGGAAGGGAAG
1 GAAAGAAAGGAAAGGAAAG
*
8950767 GAAAGAAAGTAAAGGAAAG
1 GAAAGAAAGGAAAGGAAAG
8950786 AAAAAAAAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
19 27 0.90
20 3 0.10
ACGTcount: A:0.59, C:0.00, G:0.36, T:0.05
Consensus pattern (19 bp):
GAAAGAAAGGAAAGGAAAG
Found at i:8961392 original size:62 final size:62
Alignment explanation
Indices: 8961291--8961427 Score: 148
Period size: 62 Copynumber: 2.2 Consensus size: 62
8961281 TCAATAAAAT
* ** ** * * * *
8961291 GCCTTTATTAATTTGCTCTAATTTTTTGAAGCAATTTATTGATGGTATTTTCTACATAATAC
1 GCCTTTAATAATTCACTCTAATTTTTAAAAGAAAATTATTAAAGGTATTTTCTACATAATAC
* * * *
8961353 GCCTTTAATAATTCACTCTAATTTTTAAAAGAAAATTATTAAAGGTGTTTTTTGCATCATAC
1 GCCTTTAATAATTCACTCTAATTTTTAAAAGAAAATTATTAAAGGTATTTTCTACATAATAC
*
8961415 GCCTTAAATAATT
1 GCCTTTAATAATT
8961428 TTTGTACAGA
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.45
Consensus pattern (62 bp):
GCCTTTAATAATTCACTCTAATTTTTAAAAGAAAATTATTAAAGGTATTTTCTACATAATAC
Found at i:8962355 original size:25 final size:25
Alignment explanation
Indices: 8962320--8962404 Score: 100
Period size: 25 Copynumber: 3.4 Consensus size: 25
8962310 TATGATATTG
8962320 GTTTGCTAAATGATTTGCTGAATAGT
1 GTTT-CTAAATGATTTGCTGAATAGT
* * * *
8962346 GTTTCTAAATGGTTTCCCGAATGGT
1 GTTTCTAAATGATTTGCTGAATAGT
*
8962371 GTTTCTAAAT-AGTTTGCTAAATAGT
1 GTTTCTAAATGA-TTTGCTGAATAGT
8962396 GTTTCTAAA
1 GTTTCTAAA
8962405 CACATTGTTG
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
25 45 0.92
26 4 0.08
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.42
Consensus pattern (25 bp):
GTTTCTAAATGATTTGCTGAATAGT
Found at i:8965595 original size:35 final size:35
Alignment explanation
Indices: 8965549--8965625 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
8965539 ATATATAAAC
* *
8965549 CAAATATTTTTTGAGCATAAACCTATAACTGACTT
1 CAAATATTTTTTGAGCATAAACCTACAACTAACTT
* * *
8965584 CAAATGTTTTTTTAGCATAAACGTACAACTAACTT
1 CAAATATTTTTTGAGCATAAACCTACAACTAACTT
*
8965619 CACATAT
1 CAAATAT
8965626 ATAATTAAAC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (35 bp):
CAAATATTTTTTGAGCATAAACCTACAACTAACTT
Found at i:8966591 original size:14 final size:14
Alignment explanation
Indices: 8966569--8966604 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
8966559 ATAAGTGAAA
*
8966569 TGCCGCTACAAAAC
1 TGCCACTACAAAAC
*
8966583 TGCCACTACAAAAT
1 TGCCACTACAAAAC
8966597 TGCCACTA
1 TGCCACTA
8966605 ATCTTCTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.36, C:0.33, G:0.11, T:0.19
Consensus pattern (14 bp):
TGCCACTACAAAAC
Found at i:8967994 original size:19 final size:19
Alignment explanation
Indices: 8967970--8968009 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
8967960 AGTCCTCCAA
8967970 TATGTTTGCCTATATAAGT
1 TATGTTTGCCTATATAAGT
8967989 TATGTTTGCCTATATAAGT
1 TATGTTTGCCTATATAAGT
8968008 TA
1 TA
8968010 AGATACCAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (19 bp):
TATGTTTGCCTATATAAGT
Found at i:8968125 original size:43 final size:43
Alignment explanation
Indices: 8968074--8968160 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
8968064 CCATTGATGA
*
8968074 AAAAGTTGCCTTTGAGGCTCTGAAGCTTGGCGTCCATTATCAC
1 AAAAGTTGCCTTTGAGGCTCTAAAGCTTGGCGTCCATTATCAC
*
8968117 AAAAGTTGCCTTTGAGGCTCTAAAGCTTGGTGTCCATTATCAC
1 AAAAGTTGCCTTTGAGGCTCTAAAGCTTGGCGTCCATTATCAC
8968160 A
1 A
8968161 TAGTAAGGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (43 bp):
AAAAGTTGCCTTTGAGGCTCTAAAGCTTGGCGTCCATTATCAC
Found at i:8974597 original size:17 final size:17
Alignment explanation
Indices: 8974575--8974609 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
8974565 CATCAACATC
* *
8974575 AATAACAACAAATAACA
1 AATAACAAAAAAAAACA
8974592 AATAACAAAAAAAAACA
1 AATAACAAAAAAAAACA
8974609 A
1 A
8974610 GTAAAGGATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.77, C:0.14, G:0.00, T:0.09
Consensus pattern (17 bp):
AATAACAAAAAAAAACA
Found at i:8977065 original size:17 final size:17
Alignment explanation
Indices: 8977043--8977083 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
8977033 TGACCCTAAA
8977043 AAAAAAGAAAAAACCAT
1 AAAAAAGAAAAAACCAT
*
8977060 AAAAAAGAAAAAAGCAT
1 AAAAAAGAAAAAACCAT
8977077 AAAAAAG
1 AAAAAAG
8977084 CAACCCGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.78, C:0.07, G:0.10, T:0.05
Consensus pattern (17 bp):
AAAAAAGAAAAAACCAT
Found at i:8977805 original size:28 final size:28
Alignment explanation
Indices: 8977756--8977815 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
8977746 TTTTTGGATA
* * *
8977756 ATTTTATTATTTATTTAGTTATTTATTT
1 ATTTTATTATTAAGTTAGTTATGTATTT
* * *
8977784 ATTTTATTGTTAAGTTATTTATGTGTTT
1 ATTTTATTATTAAGTTAGTTATGTATTT
8977812 ATTT
1 ATTT
8977816 ATGCACATTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.68
Consensus pattern (28 bp):
ATTTTATTATTAAGTTAGTTATGTATTT
Found at i:8977817 original size:16 final size:16
Alignment explanation
Indices: 8977762--8977817 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
8977752 GATAATTTTA
*
8977762 TTATTTATTTA-GTTAT
1 TTATTTATTTATG-TGT
8977778 TTATTTATTTTAT-TGT
1 TTATTTA-TTTATGTGT
* *
8977794 TAAGTTATTTATGTGT
1 TTATTTATTTATGTGT
8977810 TTATTTAT
1 TTATTTAT
8977818 GCACATTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
15 5 0.16
16 23 0.72
17 4 0.12
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.68
Consensus pattern (16 bp):
TTATTTATTTATGTGT
Found at i:8977849 original size:19 final size:19
Alignment explanation
Indices: 8977825--8977862 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
8977815 TATGCACATT
8977825 TAAATATTAATTAAAAAAA
1 TAAATATTAATTAAAAAAA
*
8977844 TAAATATTTATTAAAAAAA
1 TAAATATTAATTAAAAAAA
8977863 GGGGTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
TAAATATTAATTAAAAAAA
Found at i:8983312 original size:32 final size:32
Alignment explanation
Indices: 8983271--8983331 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
8983261 ATATTATCAA
*
8983271 TAAATCATATGATATCATCCTATTAATAAAAG
1 TAAACCATATGATATCATCCTATTAATAAAAG
* **
8983303 TAAACCATATGATATTATTTTATTAATAA
1 TAAACCATATGATATCATCCTATTAATAA
8983332 TTTTTTTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.39
Consensus pattern (32 bp):
TAAACCATATGATATCATCCTATTAATAAAAG
Found at i:8983415 original size:18 final size:17
Alignment explanation
Indices: 8983372--8983421 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
8983362 TTTAAAAATT
*
8983372 AAATTTATTTATTAATA
1 AAATTTATATATTAATA
8983389 AAA--TA-ATATTATATA
1 AAATTTATATATTA-ATA
8983404 AAATTTATATATTAATA
1 AAATTTATATATTAATA
8983421 A
1 A
8983422 TATATCAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
14 5 0.18
15 8 0.29
17 9 0.32
18 6 0.21
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AAATTTATATATTAATA
Found at i:8986892 original size:10 final size:9
Alignment explanation
Indices: 8986791--8986891 Score: 60
Period size: 10 Copynumber: 10.3 Consensus size: 9
8986781 TAGAAAAATA
8986791 AAAATATTTT
1 AAAA-ATTTT
8986801 AAAAATTTT
1 AAAAATTTT
*
8986810 AAACAATTCTA
1 AAA-AATT-TT
*
8986821 AAAAAATTT
1 AAAAATTTT
8986830 AAGAAATTTT
1 AA-AAATTTT
*
8986840 -AAAATTTC
1 AAAAATTTT
*
8986848 AAAAGGAGTTTA
1 AAAA--A-TTTT
*
8986860 AAAAACTTAT
1 AAAAA-TTTT
*
8986870 AAAAATTCT
1 AAAAATTTT
8986879 AAATAATTTT
1 AAA-AATTTT
8986889 AAA
1 AAA
8986892 TTTTTTTTAA
Statistics
Matches: 72, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
8 6 0.08
9 21 0.29
10 33 0.46
11 5 0.07
12 7 0.10
ACGTcount: A:0.55, C:0.05, G:0.04, T:0.36
Consensus pattern (9 bp):
AAAAATTTT
Found at i:8987032 original size:20 final size:19
Alignment explanation
Indices: 8987007--8987052 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
8986997 TGCAAAATTT
*
8987007 TTTAAAAATTTCTCAAAAAA
1 TTTAAAAAATTCT-AAAAAA
8987027 TTTAAAAAATTCTAAAAAA
1 TTTAAAAAATTCTAAAAAA
8987046 -TTAAAAA
1 TTTAAAAA
8987053 GATGAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.28
19 6 0.24
20 12 0.48
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.33
Consensus pattern (19 bp):
TTTAAAAAATTCTAAAAAA
Found at i:8987034 original size:10 final size:10
Alignment explanation
Indices: 8987009--8987047 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
8986999 CAAAATTTTT
*
8987009 TAAAAATTTC
1 TAAAAAATTC
8987019 TCAAAAAATT-
1 T-AAAAAATTC
8987029 TAAAAAATTC
1 TAAAAAATTC
8987039 TAAAAAATT
1 TAAAAAATT
8987048 AAAAAGATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
9 8 0.31
10 11 0.42
11 7 0.27
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (10 bp):
TAAAAAATTC
Found at i:8987118 original size:17 final size:17
Alignment explanation
Indices: 8987098--8987162 Score: 51
Period size: 20 Copynumber: 3.6 Consensus size: 17
8987088 AATTTGCAAA
8987098 TTTTAAAAATTCTAAATTTT
1 TTTTAAAAATTCTAAA---T
8987118 TTTTAAAAATTCTAAAAT
1 TTTTAAAAATTCT-AAAT
* * *
8987136 TTTCAAAAAAT-TAAAA
1 TTTTAAAAATTCTAAAT
*
8987152 TTTAAAAAATT
1 TTTTAAAAATT
8987163 AAAATTTCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
16 12 0.31
17 1 0.03
18 10 0.26
20 13 0.33
21 3 0.08
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.45
Consensus pattern (17 bp):
TTTTAAAAATTCTAAAT
Found at i:8987123 original size:20 final size:21
Alignment explanation
Indices: 8987098--8987138 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
8987088 AATTTGCAAA
8987098 TTTTAAAAATTCT-AAATTTT
1 TTTTAAAAATTCTAAAATTTT
8987118 TTTTAAAAATTCTAAAATTTT
1 TTTTAAAAATTCTAAAATTTT
8987139 CAAAAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTTAAAAATTCTAAAATTTT
Found at i:8987145 original size:20 final size:20
Alignment explanation
Indices: 8987102--8987145 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
8987092 TGCAAATTTT
* ***
8987102 AAAAATTCTAAATTTTTTTT
1 AAAAATTCTAAAATTTTCAA
8987122 AAAAATTCTAAAATTTTCAA
1 AAAAATTCTAAAATTTTCAA
8987142 AAAA
1 AAAA
8987146 TTAAAATTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAAATTCTAAAATTTTCAA
Found at i:8987160 original size:15 final size:15
Alignment explanation
Indices: 8987119--8987169 Score: 66
Period size: 15 Copynumber: 3.2 Consensus size: 15
8987109 CTAAATTTTT
*
8987119 TTTAAAAATTCTAAAA
1 TTTAAAAAAT-TAAAA
8987135 TTTTCAAAAAATTAAAA
1 -TTT-AAAAAATTAAAA
8987152 TTTAAAAAATTAAAA
1 TTTAAAAAATTAAAA
8987167 TTT
1 TTT
8987170 CTTACTGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 15 0.47
16 3 0.09
17 8 0.25
18 6 0.19
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (15 bp):
TTTAAAAAATTAAAA
Found at i:8987379 original size:28 final size:26
Alignment explanation
Indices: 8987348--8987452 Score: 72
Period size: 26 Copynumber: 3.9 Consensus size: 26
8987338 TTAAATTTGG
8987348 AATTTTTTGAAAATTTTTAAGTTTCGTT
1 AATTTTTTGAAAATTTTTAAGTTT--TT
*
8987376 AATTCTTTTTG--AATTTTTAGATTTTTT
1 AA-T-TTTTTGAAAATTTTTA-AGTTTTT
* * * *
8987403 AATTTCTTTCAATA-TTGTAAATTTTT
1 AATTT-TTTGAAAATTTTTAAGTTTTT
* *
8987429 AAATTTTTGAAAAATTTTAAGTTT
1 AATTTTTTGAAAATTTTTAAGTTT
8987453 CCTTAATTCT
Statistics
Matches: 60, Mismatches: 10, Indels: 16
0.70 0.12 0.19
Matches are distributed among these distances:
25 8 0.13
26 22 0.37
27 8 0.13
28 11 0.18
29 5 0.08
30 6 0.10
ACGTcount: A:0.30, C:0.04, G:0.08, T:0.58
Consensus pattern (26 bp):
AATTTTTTGAAAATTTTTAAGTTTTT
Found at i:8987563 original size:8 final size:8
Alignment explanation
Indices: 8987518--8987570 Score: 54
Period size: 8 Copynumber: 6.5 Consensus size: 8
8987508 TTTTTTCATT
8987518 ATTTTAAA
1 ATTTTAAA
*
8987526 ATGTTAAA
1 ATTTTAAA
8987534 A-TTTAAA
1 ATTTTAAA
*
8987541 ATTGTAAA
1 ATTTTAAA
*
8987549 AGTTTTTAGA
1 A--TTTTAAA
8987559 ATTTTAAA
1 ATTTTAAA
8987567 ATTT
1 ATTT
8987571 CTTTTCAGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
7 6 0.17
8 24 0.67
10 6 0.17
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (8 bp):
ATTTTAAA
Found at i:8987649 original size:19 final size:18
Alignment explanation
Indices: 8987623--8987658 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
8987613 TTTTAAAATT
8987623 ATTTTAGAATTTTTGAAA
1 ATTTTAGAATTTTTGAAA
*
8987641 ATTTGTAGATTTTTTGAA
1 ATTT-TAGAATTTTTGAA
8987659 TTTTTTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (18 bp):
ATTTTAGAATTTTTGAAA
Found at i:8987869 original size:10 final size:10
Alignment explanation
Indices: 8987827--8987874 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
8987817 AAAAGTTCTT
8987827 AATTTTTAAA
1 AATTTTTAAA
* *
8987837 ATTTTTTTGAA
1 A-ATTTTTAAA
*
8987848 AA-TTTAAAA
1 AATTTTTAAA
8987857 AATTTTTAAA
1 AATTTTTAAA
8987867 AATTTTTA
1 AATTTTTA
8987875 GAATTCTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
9 7 0.23
10 15 0.50
11 8 0.27
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (10 bp):
AATTTTTAAA
Found at i:8990301 original size:18 final size:18
Alignment explanation
Indices: 8990270--8990315 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
8990260 TTTTATTATG
*
8990270 ATTATTTAAAAATTTTTT
1 ATTATTTAAAAATTATTT
**
8990288 ATTATTTATTAATTATTT
1 ATTATTTAAAAATTATTT
8990306 -TTA-TTAAAAA
1 ATTATTTAAAAA
8990316 AATTTAGATT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
16 5 0.22
17 3 0.13
18 15 0.65
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTATTTAAAAATTATTT
Found at i:8990817 original size:11 final size:11
Alignment explanation
Indices: 8990785--8990818 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
8990775 TTTTTAGATC
8990785 TTTATTTTATT
1 TTTATTTTATT
*
8990796 TTTGTTTTATT
1 TTTATTTTATT
*
8990807 TTTATTCTATT
1 TTTATTTTATT
8990818 T
1 T
8990819 ATTTATTTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:8990899 original size:14 final size:14
Alignment explanation
Indices: 8990882--8990920 Score: 55
Period size: 12 Copynumber: 2.9 Consensus size: 14
8990872 TAATAATAGC
*
8990882 AATATCATAAAAAA
1 AATAACATAAAAAA
8990896 AATAACAT--AAAA
1 AATAACATAAAAAA
8990908 AATAACATAAAAA
1 AATAACATAAAAA
8990921 TCAACATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 12 0.55
14 10 0.45
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.18
Consensus pattern (14 bp):
AATAACATAAAAAA
Found at i:8990909 original size:12 final size:12
Alignment explanation
Indices: 8990892--8990933 Score: 68
Period size: 12 Copynumber: 3.5 Consensus size: 12
8990882 AATATCATAA
8990892 AAAAAATAACAT
1 AAAAAATAACAT
8990904 AAAAAATAACAT
1 AAAAAATAACAT
8990916 -AAAAATCAACAT
1 AAAAAAT-AACAT
8990928 AAAAAA
1 AAAAAA
8990934 AAAATAAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 6 0.21
12 17 0.61
13 5 0.18
ACGTcount: A:0.76, C:0.10, G:0.00, T:0.14
Consensus pattern (12 bp):
AAAAAATAACAT
Found at i:8990919 original size:23 final size:23
Alignment explanation
Indices: 8990893--8990965 Score: 78
Period size: 22 Copynumber: 3.2 Consensus size: 23
8990883 ATATCATAAA
*
8990893 AAAAAT-AACATAAAAAATAACAT
1 AAAAATCAACATAAAAAA-AAAAT
8990916 AAAAATCAACATAAAAAAAAAAT
1 AAAAATCAACATAAAAAAAAAAT
* * * *
8990939 -AAAGTCAAAACAAAAAAAAAAG
1 AAAAATCAACATAAAAAAAAAAT
8990961 AAAAA
1 AAAAA
8990966 GAAAAGAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
22 18 0.43
23 13 0.31
24 11 0.26
ACGTcount: A:0.78, C:0.08, G:0.03, T:0.11
Consensus pattern (23 bp):
AAAAATCAACATAAAAAAAAAAT
Found at i:8990926 original size:24 final size:22
Alignment explanation
Indices: 8990893--8990941 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 22
8990883 ATATCATAAA
*
8990893 AAAAATAACATAAAAAATAACAT
1 AAAAATAACATAAAAAA-AAAAT
8990916 AAAAATCAACATAAAAAAAAAAT
1 AAAAAT-AACATAAAAAAAAAAT
8990939 AAA
1 AAA
8990942 GTCAAAACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.78, C:0.08, G:0.00, T:0.14
Consensus pattern (22 bp):
AAAAATAACATAAAAAAAAAAT
Found at i:8990970 original size:22 final size:22
Alignment explanation
Indices: 8990923--8990977 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 22
8990913 CATAAAAATC
*
8990923 AACATAAAAAAAAAATAAAGTCAA
1 AACA-AAAAAAAAAAAAAAG-CAA
8990947 AACAAAAAAAAAAGAAAAAG-AA
1 AACAAAAAAAAAA-AAAAAGCAA
*
8990969 AAGAAAAAA
1 AACAAAAAA
8990978 CCTATGAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 10 0.36
23 9 0.32
24 9 0.32
ACGTcount: A:0.82, C:0.05, G:0.07, T:0.05
Consensus pattern (22 bp):
AACAAAAAAAAAAAAAAAGCAA
Found at i:8992121 original size:39 final size:40
Alignment explanation
Indices: 8992029--8992250 Score: 177
Period size: 40 Copynumber: 5.6 Consensus size: 40
8992019 GGCTCCTCTC
* * * *
8992029 ACCAAAGGCATCAAACTTTAGA--TTCAAAAGTGCTCATTTA
1 ACCAAAGGCAACAAACTTTAAATGTTGAAAA--GCTCTTTTA
*
8992069 ACCAAATGCAACAAACTTTAAATGTTGAAAAGCT-TTTTA
1 ACCAAAGGCAACAAACTTTAAATGTTGAAAAGCTCTTTTA
* * * *
8992108 ACCAAAGGTAACAAACTTTAAATGTTGAAAGGCTCTTCTG
1 ACCAAAGGCAACAAACTTTAAATGTTGAAAAGCTCTTTTA
* * * * * *
8992148 ACTAGAGACAACGAACTTTAAA--TTCAAAAGGCTCATTTA
1 ACCAAAGGCAACAAACTTTAAATGTTGAAAA-GCTCTTTTA
* * * *
8992187 ACCAAA-GCTAACAAACTTTAAATGTTGAAAGGTTCTTCTG
1 ACCAAAGGC-AACAAACTTTAAATGTTGAAAAGCTCTTTTA
* *
8992227 ACCAGAGGCAACGAACTTTAAATG
1 ACCAAAGGCAACAAACTTTAAATG
8992251 GCTCATTTAA
Statistics
Matches: 142, Mismatches: 32, Indels: 16
0.75 0.17 0.08
Matches are distributed among these distances:
38 6 0.04
39 57 0.40
40 66 0.46
41 7 0.05
42 6 0.04
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (40 bp):
ACCAAAGGCAACAAACTTTAAATGTTGAAAAGCTCTTTTA
Found at i:8992165 original size:79 final size:81
Alignment explanation
Indices: 8992077--8992250 Score: 257
Period size: 79 Copynumber: 2.2 Consensus size: 81
8992067 TAACCAAATG
* * * *
8992077 CAACAAACTTTAAATGTTGAAAA-GCT-TTTTAACCAAAGGTAACAAACTTTAAATGTTGAAAGG
1 CAACGAACTTTAAATGTTCAAAAGGCTCATTTAACCAAAGCTAACAAACTTTAAATGTTGAAAGG
*
8992140 CTCTTCTGACTAGAGA
66 CTCTTCTGACCAGAGA
8992156 CAACGAACTTTAAA--TTCAAAAGGCTCATTTAACCAAAGCTAACAAACTTTAAATGTTGAAAGG
1 CAACGAACTTTAAATGTTCAAAAGGCTCATTTAACCAAAGCTAACAAACTTTAAATGTTGAAAGG
* *
8992219 TTCTTCTGACCAGAGG
66 CTCTTCTGACCAGAGA
8992235 CAACGAACTTTAAATG
1 CAACGAACTTTAAATG
8992251 GCTCATTTAA
Statistics
Matches: 84, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
77 6 0.07
78 3 0.04
79 75 0.89
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (81 bp):
CAACGAACTTTAAATGTTCAAAAGGCTCATTTAACCAAAGCTAACAAACTTTAAATGTTGAAAGG
CTCTTCTGACCAGAGA
Found at i:8992244 original size:40 final size:39
Alignment explanation
Indices: 8991968--8992250 Score: 189
Period size: 39 Copynumber: 7.1 Consensus size: 39
8991958 TTTTGAAAAA
* * * *
8991968 AAAT-TTGAAAGGCTCTTTTAAACAGAGGTTATGCAAATTTT
1 AAATGTTGAAAGGCTC-TTTAACCAGAGG-CA-ACAAACTTT
* * * * *
8992009 AAAT-TTAAAAGGCTCCTCTCACCAAAGGCATCAAACTTT
1 AAATGTTGAAAGGCT-CTTTAACCAGAGGCAACAAACTTT
* ** * *
8992048 AGAT-TCAAAAGTGCTCATTTAACCAAATGCAACAAACTTT
1 AAATGTTGAAAG-GCTC-TTTAACCAGAGGCAACAAACTTT
* * * *
8992088 AAATGTTGAAAAGCTTTTTAACCAAAGGTAACAAACTTT
1 AAATGTTGAAAGGCTCTTTAACCAGAGGCAACAAACTTT
* * * *
8992127 AAATGTTGAAAGGCTCTTCTGACTAGAGACAACGAACTTT
1 AAATGTTGAAAGGCTCTT-TAACCAGAGGCAACAAACTTT
** *
8992167 AAAT-TCAAAAGGCTCATTTAACCA-AAGCTAACAAACTTT
1 AAATGTTGAAAGGCTC-TTTAACCAGAGGC-AACAAACTTT
* * *
8992206 AAATGTTGAAAGGTTCTTCTGACCAGAGGCAACGAACTTT
1 AAATGTTGAAAGGCTCTT-TAACCAGAGGCAACAAACTTT
8992246 AAATG
1 AAATG
8992251 GCTCATTTAA
Statistics
Matches: 190, Mismatches: 42, Indels: 21
0.75 0.17 0.08
Matches are distributed among these distances:
38 2 0.01
39 82 0.43
40 77 0.41
41 28 0.15
42 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (39 bp):
AAATGTTGAAAGGCTCTTTAACCAGAGGCAACAAACTTT
Found at i:9004498 original size:17 final size:19
Alignment explanation
Indices: 9004454--9004499 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 19
9004444 AAGTTTTTTA
*
9004454 TTTATATTT-TTTTAGGTC
1 TTTATTTTTATTTTAGGTC
9004472 TTTA-TTTTATTTTA-GT-
1 TTTATTTTTATTTTAGGTC
9004488 TTTATTTTTATT
1 TTTATTTTTATT
9004500 CTATTTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 4 0.16
17 12 0.48
18 9 0.36
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.74
Consensus pattern (19 bp):
TTTATTTTTATTTTAGGTC
Found at i:9004614 original size:6 final size:6
Alignment explanation
Indices: 9004579--9004656 Score: 59
Period size: 6 Copynumber: 12.8 Consensus size: 6
9004569 AATATCATAA
* * * * *
9004579 AAAAAT -AACAT AAAAAT CAACAT AAAAAAT AAAAAT AAGAAT CAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT -AAAAAT AAAAAT AAAAAT AAAAAT
* * *
9004627 GAAAAAT AAAAAG AAAAAG AAAAAG AAAAA
1 -AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
9004657 CTTACGAAAT
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
5 4 0.07
6 45 0.78
7 9 0.16
ACGTcount: A:0.77, C:0.05, G:0.06, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:9004638 original size:25 final size:25
Alignment explanation
Indices: 9004578--9004644 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
9004568 CAATATCATA
* *
9004578 AAAAAAT-AACATAAAAATCAACAT
1 AAAAAATAAAAATAAAAATCAAAAT
*
9004602 AAAAAATAAAAATAAGAATCAAAAT
1 AAAAAATAAAAATAAAAATCAAAAT
* *
9004627 GAAAAATAAAAAGAAAAA
1 AAAAAATAAAAATAAAAA
9004645 GAAAAAGAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
24 7 0.19
25 29 0.81
ACGTcount: A:0.76, C:0.06, G:0.04, T:0.13
Consensus pattern (25 bp):
AAAAAATAAAAATAAAAATCAAAAT
Found at i:9004650 original size:25 final size:24
Alignment explanation
Indices: 9004603--9004656 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
9004593 AATCAACATA
* ** *
9004603 AAAAATAAAAATAAGAATCAAAATG
1 AAAAATAAAAAGAA-AAAGAAAAAG
9004628 AAAAATAAAAAGAAAAAGAAAAAG
1 AAAAATAAAAAGAAAAAGAAAAAG
9004652 AAAAA
1 AAAAA
9004657 CTTACGAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.80, C:0.02, G:0.09, T:0.09
Consensus pattern (24 bp):
AAAAATAAAAAGAAAAAGAAAAAG
Found at i:9009536 original size:27 final size:27
Alignment explanation
Indices: 9009505--9009564 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
9009495 GATTGGAAAA
9009505 ACAAAACATGAAAATAAAAGTTAATTC
1 ACAAAACATGAAAATAAAAGTTAATTC
*
9009532 ACAAAATATGAAAATAAAAGTTAATTC
1 ACAAAACATGAAAATAAAAGTTAATTC
9009559 ACAAAA
1 ACAAAA
9009565 AATTAATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.62, C:0.10, G:0.07, T:0.22
Consensus pattern (27 bp):
ACAAAACATGAAAATAAAAGTTAATTC
Found at i:9010440 original size:20 final size:20
Alignment explanation
Indices: 9010411--9010452 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
9010401 ATGAATTTTA
* *
9010411 AAATTTTTAATGTATTACTT
1 AAATTATTAATGTATTAATT
*
9010431 AAATTATTAATTTATTAATT
1 AAATTATTAATGTATTAATT
9010451 AA
1 AA
9010453 TGTGATGTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
AAATTATTAATGTATTAATT
Found at i:9010971 original size:23 final size:24
Alignment explanation
Indices: 9010945--9010995 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
9010935 GATCTCATTT
*
9010945 TTTTCTTTTATTGAAAT-A-TCATA
1 TTTTCTTTT-TTAAAATGATTCATA
9010968 TTTTCTTTTTTAAAATGATTCATA
1 TTTTCTTTTTTAAAATGATTCATA
9010992 TTTT
1 TTTT
9010996 GCGCTTTCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 6 0.24
23 10 0.40
24 9 0.36
ACGTcount: A:0.27, C:0.08, G:0.04, T:0.61
Consensus pattern (24 bp):
TTTTCTTTTTTAAAATGATTCATA
Found at i:9010971 original size:24 final size:25
Alignment explanation
Indices: 9010933--9010995 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 25
9010923 GGCCATGATC
* *
9010933 ATGATCTCATTTTTTTCTTTTATTGAA
1 ATGAT-TCATATTTTTCTTTT-TTAAA
9010960 AT-A-TCATA-TTTTCTTTTTTAAA
1 ATGATTCATATTTTTCTTTTTTAAA
9010982 ATGATTCATATTTT
1 ATGATTCATATTTT
9010996 GCGCTTTCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
22 6 0.19
23 10 0.32
24 9 0.29
25 3 0.10
26 1 0.03
27 2 0.06
ACGTcount: A:0.27, C:0.10, G:0.05, T:0.59
Consensus pattern (25 bp):
ATGATTCATATTTTTCTTTTTTAAA
Found at i:9011892 original size:15 final size:15
Alignment explanation
Indices: 9011868--9011897 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9011858 TTTAAAAATC
9011868 GTTTAAAATTCATTT
1 GTTTAAAATTCATTT
*
9011883 GTTTAGAATTCATTT
1 GTTTAAAATTCATTT
9011898 ATGTTTGATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.10, T:0.53
Consensus pattern (15 bp):
GTTTAAAATTCATTT
Found at i:9011909 original size:21 final size:21
Alignment explanation
Indices: 9011880--9011920 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9011870 TTAAAATTCA
*
9011880 TTTGTTTAGAATTCATTTATG
1 TTTGATTAGAATTCATTTATG
*
9011901 TTTGATTAGAATTCGTTTAT
1 TTTGATTAGAATTCATTTAT
9011921 CGTTCAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.05, G:0.15, T:0.56
Consensus pattern (21 bp):
TTTGATTAGAATTCATTTATG
Found at i:9019155 original size:35 final size:35
Alignment explanation
Indices: 9019083--9019166 Score: 96
Period size: 35 Copynumber: 2.4 Consensus size: 35
9019073 AATCTGAGTT
* * **
9019083 ATTGTTATTTTCTAACTTATGGTTTAGTTTCGGTC
1 ATTGTGATTTTCTAACTTATGGTTTAGTTCCAATC
* *
9019118 ATTGTGATTTTTTAACTTGTGGTTTAGTTCCAATC
1 ATTGTGATTTTCTAACTTATGGTTTAGTTCCAATC
* *
9019153 ATTATTATTTTCTA
1 ATTGTGATTTTCTA
9019167 CTTTACGTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.20, C:0.11, G:0.14, T:0.55
Consensus pattern (35 bp):
ATTGTGATTTTCTAACTTATGGTTTAGTTCCAATC
Found at i:9019214 original size:32 final size:34
Alignment explanation
Indices: 9019138--9019301 Score: 124
Period size: 35 Copynumber: 4.8 Consensus size: 34
9019128 TTTAACTTGT
9019138 GGTTTAGT-TCCAATCATTATTATTTTCT-ACTTTAC
1 GGTTTAGTCT-CAATCATTATTATTTT-TGAC-TTAC
9019173 -GTTTCAGTCTCAATCA-TATT-TTTTTGACTTAC
1 GGTTT-AGTCTCAATCATTATTATTTTTGACTTAC
* * *
9019205 GGTTTAGTCTCGATTATTTTTATTTCTTGACTTAC
1 GGTTTAGTCTCAATCATTATTATTT-TTGACTTAC
* * *
9019240 GGTTCAATCTCAATTATCT-TTATTTTTTGACTTAC
1 GGTTTAGTCTCAATCAT-TATTA-TTTTTGACTTAC
* * ** *
9019275 AGTTCAGTCTTGATCATTTTTATTTTT
1 GGTTTAGTCTCAATCATTATTATTTTT
9019302 TGATATGCTA
Statistics
Matches: 108, Mismatches: 11, Indels: 21
0.77 0.08 0.15
Matches are distributed among these distances:
32 14 0.13
33 13 0.12
34 17 0.16
35 59 0.55
36 5 0.05
ACGTcount: A:0.21, C:0.16, G:0.10, T:0.53
Consensus pattern (34 bp):
GGTTTAGTCTCAATCATTATTATTTTTGACTTAC
Found at i:9019302 original size:35 final size:35
Alignment explanation
Indices: 9019192--9019304 Score: 154
Period size: 35 Copynumber: 3.2 Consensus size: 35
9019182 TCAATCATAT
*
9019192 TTTTTTGACTTACGGTTTAGTCTCGATTATTTTTA
1 TTTTTTGACTTACGGTTCAGTCTCGATTATTTTTA
* * * *
9019227 TTTCTTGACTTACGGTTCAATCTCAATTATCTTTA
1 TTTTTTGACTTACGGTTCAGTCTCGATTATTTTTA
* * *
9019262 TTTTTTGACTTACAGTTCAGTCTTGATCATTTTTA
1 TTTTTTGACTTACGGTTCAGTCTCGATTATTTTTA
9019297 TTTTTTGA
1 TTTTTTGA
9019305 TATGCTATTC
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 66 1.00
ACGTcount: A:0.19, C:0.14, G:0.12, T:0.55
Consensus pattern (35 bp):
TTTTTTGACTTACGGTTCAGTCTCGATTATTTTTA
Found at i:9019316 original size:70 final size:70
Alignment explanation
Indices: 9019192--9019331 Score: 174
Period size: 70 Copynumber: 2.0 Consensus size: 70
9019182 TCAATCATAT
* * * * * *
9019192 TTTTTTGACTTACGGTTTAGTCTCGATTATTTTTATTTCTTGACTTACGGTTCAATCTCAATTAT
1 TTTTTTGACTTACAGTTCAGTCTCGATCATTTTTATTTCTTGACTTACGATTCAATCCCAATCAT
9019257 CTTTA
66 CTTTA
* * * *
9019262 TTTTTTGACTTACAGTTCAGTCTTGATCATTTTTATTTTTTGA-TATGCTATTCAATCCCAATCA
1 TTTTTTGACTTACAGTTCAGTCTCGATCATTTTTATTTCTTGACT-TACGATTCAATCCCAATCA
9019326 TCTTTA
65 TCTTTA
9019332 GTTTCTAACT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
69 1 0.02
70 58 0.98
ACGTcount: A:0.21, C:0.16, G:0.10, T:0.52
Consensus pattern (70 bp):
TTTTTTGACTTACAGTTCAGTCTCGATCATTTTTATTTCTTGACTTACGATTCAATCCCAATCAT
CTTTA
Found at i:9019367 original size:105 final size:105
Alignment explanation
Indices: 9019258--9019512 Score: 275
Period size: 105 Copynumber: 2.4 Consensus size: 105
9019248 CTCAATTATC
* * *
9019258 TTTATTTTTTGACTTACAGTTCAGTCTTGATCATTTTTATTTTTTGA-TATGCT-ATTCAATCCC
1 TTTATTTTTTGACTTGCAGTTCAGTCTTGGTCATCTTTATTTTTTGACT-TG-TGATTCAATCCC
* *
9019321 AATCATCTTTAGTTTCTAACTTGTTG-TTTAGTCACAGTCAAT
64 AATCATCTTTAGTTTCTAACTTG-CGATTTAGTCACAATCAAT
* * * * *
9019363 TTTATTTTTTGACTTGCAGTTC-GGCTTTGGTCATCCTTAGTTTTTGACTTGTGGTTCAATCCTA
1 TTTATTTTTTGACTTGCAGTTCAGTC-TTGGTCATCTTTATTTTTTGACTTGTGATTCAATCCCA
* * * * * *
9019427 ATCATTTTTATTTTTTAACTTGCGATTTTGTCTCAATCATT
65 ATCATCTTTAGTTTCTAACTTGCGATTTAGTCACAATCAAT
** *
9019468 TTTATTTTTTGACTTGTGGTTCAGTCGTGGTCATCTTTATTTTTT
1 TTTATTTTTTGACTTGCAGTTCAGTCTTGGTCATCTTTATTTTTT
9019513 TTATTTATGA
Statistics
Matches: 123, Mismatches: 22, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
104 4 0.03
105 116 0.94
106 3 0.02
ACGTcount: A:0.18, C:0.15, G:0.13, T:0.53
Consensus pattern (105 bp):
TTTATTTTTTGACTTGCAGTTCAGTCTTGGTCATCTTTATTTTTTGACTTGTGATTCAATCCCAA
TCATCTTTAGTTTCTAACTTGCGATTTAGTCACAATCAAT
Found at i:9019507 original size:35 final size:34
Alignment explanation
Indices: 9019192--9019512 Score: 144
Period size: 35 Copynumber: 9.2 Consensus size: 34
9019182 TCAATCATAT
* * * * *
9019192 TTTTTTGACTTACGGTTTAGTCTCGATTATTTTTA
1 TTTTTTGACTTGCGGTTCAGTCT-AATCATCTTTA
* * * *
9019227 TTTCTTGACTTACGGTTCAATCTCAATTATCTTTA
1 TTTTTTGACTTGCGGTTCAGTCT-AATCATCTTTA
* * * *
9019262 TTTTTTGACTTACAGTTCAGTCTTGATCATTTTTA
1 TTTTTTGACTTGCGGTTCAGTC-TAATCATCTTTA
** * *
9019297 TTTTTTGA-TATGCTATTCAATCCCAATCATCTTTA
1 TTTTTTGACT-TGCGGTTCAGT-CTAATCATCTTTA
* * * ** *
9019332 GTTTCTAACTTGTTGTTTAGTC-ACAGTCAAT-TTTA
1 TTTTTTGACTTGCGGTTCAGTCTA-A-TC-ATCTTTA
* * * ** *
9019367 TTTTTTGACTTGCAGTTCGGCTTTGGTCATCCTTA
1 TTTTTTGACTTGCGGTTCAG-TCTAATCATCTTTA
* * * *
9019402 GTTTTTGACTTGTGGTTCAATCCTAATCATTTTTA
1 TTTTTTGACTTGCGGTTCAGT-CTAATCATCTTTA
* * ** *
9019437 TTTTTTAACTTGCGATTTTGTCTCAATCATTTTTA
1 TTTTTTGACTTGCGGTTCAGTCT-AATCATCTTTA
* **
9019472 TTTTTTGACTTGTGGTTCAGTCGTGGTCATCTTTA
1 TTTTTTGACTTGCGGTTCAGTC-TAATCATCTTTA
9019507 TTTTTT
1 TTTTTT
9019513 TTATTTATGA
Statistics
Matches: 212, Mismatches: 61, Indels: 26
0.71 0.20 0.09
Matches are distributed among these distances:
33 1 0.00
34 8 0.04
35 196 0.92
36 7 0.03
ACGTcount: A:0.19, C:0.16, G:0.13, T:0.53
Consensus pattern (34 bp):
TTTTTTGACTTGCGGTTCAGTCTAATCATCTTTA
Found at i:9019540 original size:70 final size:70
Alignment explanation
Indices: 9019403--9019576 Score: 181
Period size: 70 Copynumber: 2.5 Consensus size: 70
9019393 TCATCCTTAG
* ** * * *
9019403 TTTTTGACTTGTGGTTCAATCCTAATCATTTTTATTTTTTAACTTGCGATTTTGTCTCAATCATT
1 TTTTTGACTTGTGGTTCAGTCCTGGTCATCTTTATTTTTTAACTTACGATTTAGTCTCAATCATT
9019468 TTTAT
66 TTTAT
* * * *
9019473 TTTTTGACTTGTGGTTCAGTCGTGGTCATCTTTATTTTTTTTATTTATGATTTAGT-TCCAATC-
1 TTTTTGACTTGTGGTTCAGTCCTGGTCATCTTTA-TTTTTTAACTTACGATTTAGTCT-CAATCA
9019536 TTTTTAT
64 TTTTTAT
* * ** *
9019543 TTCTTGATTTACGATTCAGTCCTGGTCATCTTTA
1 TTTTTGACTTGTGGTTCAGTCCTGGTCATCTTTA
9019577 ATTTGCTAAC
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
70 65 0.76
71 21 0.24
ACGTcount: A:0.18, C:0.14, G:0.13, T:0.55
Consensus pattern (70 bp):
TTTTTGACTTGTGGTTCAGTCCTGGTCATCTTTATTTTTTAACTTACGATTTAGTCTCAATCATT
TTTAT
Found at i:9019591 original size:70 final size:71
Alignment explanation
Indices: 9019460--9019591 Score: 158
Period size: 70 Copynumber: 1.9 Consensus size: 71
9019450 GATTTTGTCT
* ** * * * ** * *
9019460 CAATCATTTTTATTTTTTGACTTGTGGTTCAGTCGTGGTCATCTTTATTTTTTTTATTTATGATT
1 CAATCATTTTTATTTCTTGACTTACGATTCAGTCCTGGTCATCTTTAATTTGCTAACTTATGATT
9019525 TAGTTC
66 TAGTTC
*
9019531 CAATC-TTTTTATTTCTTGATTTACGATTCAGTCCTGGTCATCTTTAATTTGCTAACTTATG
1 CAATCATTTTTATTTCTTGACTTACGATTCAGTCCTGGTCATCTTTAATTTGCTAACTTATG
9019592 GTTCAAATTT
Statistics
Matches: 50, Mismatches: 11, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
70 45 0.90
71 5 0.10
ACGTcount: A:0.19, C:0.14, G:0.13, T:0.54
Consensus pattern (71 bp):
CAATCATTTTTATTTCTTGACTTACGATTCAGTCCTGGTCATCTTTAATTTGCTAACTTATGATT
TAGTTC
Found at i:9019645 original size:21 final size:22
Alignment explanation
Indices: 9019604--9019653 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
9019594 TCAAATTTTG
* *
9019604 GTCATCTTTATTTTTTTGACTT
1 GTCATTTTTATTTTTTAGACTT
9019626 GTCATTTTTA-TTTTTAGACTT
1 GTCATTTTTATTTTTTAGACTT
*
9019647 GTGATTT
1 GTCATTT
9019654 AGTCCCGGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.16, C:0.10, G:0.12, T:0.62
Consensus pattern (22 bp):
GTCATTTTTATTTTTTAGACTT
Found at i:9019706 original size:35 final size:35
Alignment explanation
Indices: 9019626--9019815 Score: 159
Period size: 35 Copynumber: 5.4 Consensus size: 35
9019616 TTTTTGACTT
* * * * *
9019626 GTCATTTTTATTTTTAGACTTGTGATTTAGTCCCG
1 GTCATCTTTATTTTTTGACTTGTGATTCAGTTCCA
*
9019661 GTTATCTTTATTTTTTGACTTGTGATTCAGTTCCA
1 GTCATCTTTATTTTTTGACTTGTGATTCAGTTCCA
* * ** * *
9019696 GTCATTTTTATTTCTTGACTT-ACAGTTTAGTTTCTA
1 GTCATCTTTATTTTTTGACTTGTGA-TTCAG-TTCCA
* * **
9019732 GTCATCTTTATTTTGCTGACTTGCGATTCAGTTCTG
1 GTCATCTTTATTTT-TTGACTTGTGATTCAGTTCCA
* *
9019768 GTCATCTTTATTTTTTAACTTGTGATTCA-ATCCTA
1 GTCATCTTTATTTTTTGACTTGTGATTCAGTTCC-A
*
9019803 GTCATTTTTATTT
1 GTCATCTTTATTT
9019816 CCTTTCTTGC
Statistics
Matches: 123, Mismatches: 27, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
34 3 0.02
35 75 0.61
36 34 0.28
37 10 0.08
38 1 0.01
ACGTcount: A:0.18, C:0.15, G:0.14, T:0.53
Consensus pattern (35 bp):
GTCATCTTTATTTTTTGACTTGTGATTCAGTTCCA
Found at i:9019772 original size:36 final size:35
Alignment explanation
Indices: 9019664--9019851 Score: 139
Period size: 35 Copynumber: 5.3 Consensus size: 35
9019654 AGTCCCGGTT
* * *
9019664 ATCTTTATTTTTTGACTTGTGATTCAGTTCCAGTC
1 ATCTTTATTTTCTGACTTGCGATTCAGTTCTAGTC
* * *
9019699 ATTTTTA-TTTCTTGACTTAC-AGTTTAGTTTCTAGTC
1 ATCTTTATTTTC-TGACTTGCGA-TTCAG-TTCTAGTC
*
9019735 ATCTTTATTTTGCTGACTTGCGATTCAGTTCTGGTC
1 ATCTTTATTTT-CTGACTTGCGATTCAGTTCTAGTC
* * * * *
9019771 ATCTTTATTTTTTAACTTGTGATTCAATCCTAGTC
1 ATCTTTATTTTCTGACTTGCGATTCAGTTCTAGTC
* * ** * *
9019806 ATTTTTATTTCCTTTCTTGC-AGTTCAGTCCTGGTC
1 ATCTTTATTTTCTGACTTGCGA-TTCAGTTCTAGTC
*
9019841 ATGTTTATTTT
1 ATCTTTATTTT
9019852 TCTACTTATG
Statistics
Matches: 120, Mismatches: 26, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
34 5 0.04
35 68 0.57
36 31 0.26
37 14 0.12
38 2 0.02
ACGTcount: A:0.17, C:0.17, G:0.13, T:0.53
Consensus pattern (35 bp):
ATCTTTATTTTCTGACTTGCGATTCAGTTCTAGTC
Found at i:9019772 original size:164 final size:164
Alignment explanation
Indices: 9019463--9019783 Score: 396
Period size: 164 Copynumber: 2.0 Consensus size: 164
9019453 TTTGTCTCAA
* * ** * * *
9019463 TCATTTTTATTTTTTGACTTGTGGTTCAGTCGTGGTCATCTTTATTTTTTTTATTTATGATTTAG
1 TCATTTTTATTTTTAGACTTGTGATTCAGTCCCGGTCATCTTTATTTTTTTGACTTATGATTCAG
* * * *
9019528 TTCCAATCTTTTTATTTCTTGATTTACGATTCAGTCCTGGTCATCTTTAATTTGCTAACTTATGG
66 TTCCAATCTTTTTATTTCTTGACTTACGATTCAGTCCTAGTCATCTTTAATTTGCTAACTTACGA
*
9019593 TTCAAATTTTGGTCATCTTTATTTTTTTGACTTG
131 TTCAAATTCTGGTCATCTTTATTTTTTTGACTTG
* * *
9019627 TCATTTTTATTTTTAGACTTGTGATTTAGTCCCGGTTATCTTTA-TTTTTTGACTTGTGATTCAG
1 TCATTTTTATTTTTAGACTTGTGATTCAGTCCCGGTCATCTTTATTTTTTTGACTTATGATTCAG
* * * * * *
9019691 TTCCAGTCATTTTTATTTCTTGACTTAC-AGTTTAGTTTCTAGTCATCTTTATTTTGCTGACTTG
66 TTCCAATC-TTTTTATTTCTTGACTTACGA-TTCAG-TCCTAGTCATCTTTAATTTGCTAACTTA
*
9019755 CGATTC-AGTTCTGGTCATCTTTATTTTTT
128 CGATTCAAATTCTGGTCATCTTTATTTTTT
9019784 AACTTGTGAT
Statistics
Matches: 132, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
163 24 0.18
164 81 0.61
165 27 0.20
ACGTcount: A:0.17, C:0.14, G:0.14, T:0.55
Consensus pattern (164 bp):
TCATTTTTATTTTTAGACTTGTGATTCAGTCCCGGTCATCTTTATTTTTTTGACTTATGATTCAG
TTCCAATCTTTTTATTTCTTGACTTACGATTCAGTCCTAGTCATCTTTAATTTGCTAACTTACGA
TTCAAATTCTGGTCATCTTTATTTTTTTGACTTG
Found at i:9022402 original size:17 final size:17
Alignment explanation
Indices: 9022357--9022407 Score: 54
Period size: 15 Copynumber: 3.2 Consensus size: 17
9022347 AGGTTCATAA
*
9022357 AAATATCAA-AAACCCT
1 AAATATTAATAAACCCT
*
9022373 AAA-ATT-TTAAACCCT
1 AAATATTAATAAACCCT
*
9022388 AAATATTAATAAACCTT
1 AAATATTAATAAACCCT
9022405 AAA
1 AAA
9022408 ATAAAATAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
15 12 0.43
16 6 0.21
17 10 0.36
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (17 bp):
AAATATTAATAAACCCT
Found at i:9022547 original size:7 final size:7
Alignment explanation
Indices: 9022537--9022654 Score: 79
Period size: 7 Copynumber: 17.3 Consensus size: 7
9022527 TCTTAAACAA
9022537 AAACCCT
1 AAACCCT
9022544 AAACCCT
1 AAACCCT
*
9022551 AAACCTT
1 AAACCCT
*
9022558 AAA-CCA
1 AAACCCT
*
9022564 AAACACT
1 AAACCCT
*
9022571 AAGCCC-
1 AAACCCT
*
9022577 CAA-CCT
1 AAACCCT
9022583 AAACCCT
1 AAACCCT
9022590 AAACCAATCT
1 AAACC---CT
*
9022600 CAAACCTT
1 -AAACCCT
*
9022608 AAAACC-
1 AAACCCT
*
9022614 AGACCCT
1 AAACCCT
9022621 AAACCCT
1 AAACCCT
9022628 AAACCCT
1 AAACCCT
9022635 -AA--CT
1 AAACCCT
9022639 AAACCCT
1 AAACCCT
9022646 AAACCCT
1 AAACCCT
9022653 AA
1 AA
9022655 TCTAAACCCT
Statistics
Matches: 84, Mismatches: 16, Indels: 22
0.69 0.13 0.18
Matches are distributed among these distances:
4 2 0.02
5 4 0.05
6 13 0.15
7 57 0.68
8 1 0.01
10 2 0.02
11 5 0.06
ACGTcount: A:0.46, C:0.38, G:0.02, T:0.14
Consensus pattern (7 bp):
AAACCCT
Found at i:9022547 original size:27 final size:27
Alignment explanation
Indices: 9022517--9022572 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
9022507 CCTTAAACCA
* * *
9022517 AAACCTTAAATCTTAAACAAAAACCCT
1 AAACCCTAAACCTTAAACAAAAACACT
*
9022544 AAACCCTAAACCTTAAACCAAAACACT
1 AAACCCTAAACCTTAAACAAAAACACT
9022571 AA
1 AA
9022573 GCCCCAACCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.54, C:0.29, G:0.00, T:0.18
Consensus pattern (27 bp):
AAACCCTAAACCTTAAACAAAAACACT
Found at i:9022642 original size:18 final size:19
Alignment explanation
Indices: 9022542--9022665 Score: 94
Period size: 18 Copynumber: 6.5 Consensus size: 19
9022532 AACAAAAACC
* *
9022542 CTAAACCCTAAACCTTAAAC
1 CTAAACCCTAAACCCT-AAT
* * * * *
9022562 CAAAACACTAAGCCCCAAC
1 CTAAACCCTAAACCCTAAT
9022581 CTAAACCCTAAA-CC-AAT
1 CTAAACCCTAAACCCTAAT
* * *
9022598 CTCAAACCTTAAAACC-AGACC
1 CT-AAACCCTAAACCCTA-A-T
9022619 CTAAACCCTAAACCCTAA-
1 CTAAACCCTAAACCCTAAT
9022637 CTAAACCCTAAACCCTAAT
1 CTAAACCCTAAACCCTAAT
9022656 CTAAACCCTA
1 CTAAACCCTA
9022666 GACCAACCTC
Statistics
Matches: 85, Mismatches: 13, Indels: 13
0.77 0.12 0.12
Matches are distributed among these distances:
17 4 0.05
18 29 0.34
19 25 0.29
20 24 0.28
21 3 0.04
ACGTcount: A:0.44, C:0.38, G:0.02, T:0.16
Consensus pattern (19 bp):
CTAAACCCTAAACCCTAAT
Found at i:9022681 original size:18 final size:17
Alignment explanation
Indices: 9022576--9022694 Score: 96
Period size: 18 Copynumber: 6.4 Consensus size: 17
9022566 ACACTAAGCC
9022576 CCAACCTAAACCCTAAA
1 CCAACCTAAACCCTAAA
* *
9022593 CCAATCTCAAACCTTAAAA
1 CCAACCT-AAACCCT-AAA
9022612 CCAGACCCTAAACCCTAAA
1 CCA-A-CCTAAACCCTAAA
9022631 CCCTAA-CTAAACCCTAAA
1 -CC-AACCTAAACCCTAAA
* *
9022649 CCCTAATCTAAACCCTAGA
1 -CC-AACCTAAACCCTAAA
9022668 CCAACCTCAAACCCTATAA
1 CCAACCT-AAACCCTA-AA
9022687 CCAGACCT
1 CCA-ACCT
9022695 TAAATCTTAA
Statistics
Matches: 85, Mismatches: 7, Indels: 17
0.78 0.06 0.16
Matches are distributed among these distances:
17 10 0.12
18 34 0.40
19 24 0.28
20 14 0.16
21 3 0.04
ACGTcount: A:0.42, C:0.39, G:0.03, T:0.16
Consensus pattern (17 bp):
CCAACCTAAACCCTAAA
Found at i:9022736 original size:19 final size:19
Alignment explanation
Indices: 9022504--9022736 Score: 71
Period size: 20 Copynumber: 12.5 Consensus size: 19
9022494 CTCTAACTTC
**
9022504 AAACCTTAAACCAAAACCTT
1 AAACCTTAAACCCTAACC-T
* ***
9022524 AAATCTTAAACAAAAACCCT
1 AAACCTTAAACCCTAA-CCT
* * *
9022544 AAACCCTAAACCTTAAACCA
1 AAACCTTAAACCCT-AACCT
* *
9022564 AAACAC-TAAGCCCCAACCT
1 AAAC-CTTAAACCCTAACCT
* *
9022583 AAACCCTAAA-CC-AATCT
1 AAACCTTAAACCCTAACCT
*
9022600 CAAACCTTAAAACC-AGACCCT
1 -AAACCTTAAACCCTA-A-CCT
*
9022621 AAACCCTAAACCCTAA-CT
1 AAACCTTAAACCCTAACCT
* *
9022639 AAACCCTAAACCCTAATCT
1 AAACCTTAAACCCTAACCT
* *
9022658 AAACCCTAGA-CC-AACCT
1 AAACCTTAAACCCTAACCT
*
9022675 CAAACCCT--A---TAACC-
1 -AAACCTTAAACCCTAACCT
* * *
9022689 AGACCTTAAATCTTAACCT
1 AAACCTTAAACCCTAACCT
*
9022708 AAACAC-TAAACCCTAATCT
1 AAAC-CTTAAACCCTAACCT
9022727 AAACCTTAAA
1 AAACCTTAAA
9022737 TAAACCTCAA
Statistics
Matches: 167, Mismatches: 26, Indels: 41
0.71 0.11 0.18
Matches are distributed among these distances:
13 5 0.03
15 5 0.03
16 1 0.01
17 8 0.05
18 45 0.27
19 46 0.28
20 49 0.29
21 8 0.05
ACGTcount: A:0.46, C:0.34, G:0.02, T:0.18
Consensus pattern (19 bp):
AAACCTTAAACCCTAACCT
Found at i:9022741 original size:30 final size:30
Alignment explanation
Indices: 9022707--9022766 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
9022697 AATCTTAACC
**
9022707 TAAACACT-AAACCCTAATCTAAACCTTAAA
1 TAAAC-CTCAAACCCTAAAATAAACCTTAAA
9022737 TAAACCTCAAACCCTAAAATAAACCTTAAA
1 TAAACCTCAAACCCTAAAATAAACCTTAAA
9022767 ACCTAAACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.22
Consensus pattern (30 bp):
TAAACCTCAAACCCTAAAATAAACCTTAAA
Found at i:9022834 original size:13 final size:12
Alignment explanation
Indices: 9022817--9022865 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
9022807 AATAGACCTT
9022817 AAACCTTAAACC
1 AAACCTTAAACC
*
9022829 TAAACCTTAATCC
1 -AAACCTTAAACC
* *
9022842 AAACCCTAAAGC
1 AAACCTTAAACC
*
9022854 AACCCTTAAACC
1 AAACCTTAAACC
9022866 CTACCCTACA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
12 18 0.62
13 11 0.38
ACGTcount: A:0.45, C:0.35, G:0.02, T:0.18
Consensus pattern (12 bp):
AAACCTTAAACC
Found at i:9022837 original size:20 final size:20
Alignment explanation
Indices: 9022504--9022838 Score: 93
Period size: 19 Copynumber: 17.1 Consensus size: 20
9022494 CTCTAACTTC
* *
9022504 AAACCTTAAACCAAAACCTT
1 AAACCCTAAACCTAAACCTT
* * ** *
9022524 AAATCTTAAACAAAAACCCT
1 AAACCCTAAACCTAAACCTT
*
9022544 AAACCCTAAACCTTAAACC-A
1 AAACCCTAAACC-TAAACCTT
* * **
9022564 AAACACTAAGCCCCAACC-T
1 AAACCCTAAACCTAAACCTT
* *
9022583 AAACCCTAAACC--AATCTC
1 AAACCCTAAACCTAAACCTT
* * *
9022601 AAACCTTAAAACC-AGACCCT
1 AAACCCT-AAACCTAAACCTT
9022621 AAACCCTAAACCCT-AA-C-T
1 AAACCCTAAA-CCTAAACCTT
*
9022639 AAACCCTAAACCCT-AATC-T
1 AAACCCTAAA-CCTAAACCTT
* *
9022658 AAACCCTAGACC--AACCTC
1 AAACCCTAAACCTAAACCTT
*
9022676 AAACCCTATAACC-AGACCTT
1 AAACCCTA-AACCTAAACCTT
* *
9022696 AAA-TCTTAACCTAAACAC-T
1 AAACCCTAAACCTAAAC-CTT
*
9022715 AAACCCT-AATCTAAACCTT
1 AAACCCTAAACCTAAACCTT
9022734 AAA---TAAACCTCAAACCCTAAAAT
1 AAACCCTAAACCT-AAA-CCT----T
*
9022757 AAACCTTAAAACCTAAACC--
1 AAACCCT-AAACCTAAACCTT
* * **
9022776 AACCCCTAAACGTTAAAACCAC
1 AAACCCTAAAC-CT-AAACCTT
* *
9022798 AAACCCTAAA-ATAGACCTT
1 AAACCCTAAACCTAAACCTT
*
9022817 AAACCTTAAACCTAAACCTT
1 AAACCCTAAACCTAAACCTT
9022837 AA
1 AA
9022839 TCCAAACCCT
Statistics
Matches: 238, Mismatches: 47, Indels: 60
0.69 0.14 0.17
Matches are distributed among these distances:
16 1 0.00
17 10 0.04
18 45 0.19
19 80 0.34
20 72 0.30
21 5 0.02
22 9 0.04
23 4 0.02
25 2 0.01
26 4 0.02
27 6 0.03
ACGTcount: A:0.47, C:0.33, G:0.02, T:0.18
Consensus pattern (20 bp):
AAACCCTAAACCTAAACCTT
Found at i:9025050 original size:1 final size:1
Alignment explanation
Indices: 9025005--9025030 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
9024995 GACCAAATAG
9025005 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
9025031 CTACAAACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:9029543 original size:18 final size:18
Alignment explanation
Indices: 9029516--9029557 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
9029506 ATTTTTATTT
9029516 TATA-AAAATTTCAA-AAA
1 TATATAAAATTT-AATAAA
9029533 TATATAAAATTTAATAAA
1 TATATAAAATTTAATAAA
*
9029551 AATATAA
1 TATATAA
9029558 TTAATCTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
TATATAAAATTTAATAAA
Found at i:9029598 original size:12 final size:12
Alignment explanation
Indices: 9029583--9029611 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
9029573 TTTTTTATAT
9029583 TTTAATTTAAAA
1 TTTAATTTAAAA
9029595 TTTAA-TTAAAA
1 TTTAATTTAAAA
9029606 TTTAAT
1 TTTAAT
9029612 ATATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTAATTTAAAA
Found at i:9040295 original size:43 final size:43
Alignment explanation
Indices: 9040248--9040333 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
9040238 TAAAGATTAA
* *
9040248 ATATTCATTATAATCATTTGATTGG-AAAATTAAATTTAAAGCT
1 ATATTAATTATAATCAATTGATTGGAAAAATT-AATTTAAAGCT
9040291 ATATTAATTATAATCAATTGATTGGAAAAATTAATTTAAAGCT
1 ATATTAATTATAATCAATTGATTGGAAAAATTAATTTAAAGCT
9040334 GTCATGAGCC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
43 34 0.85
44 6 0.15
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (43 bp):
ATATTAATTATAATCAATTGATTGGAAAAATTAATTTAAAGCT
Found at i:9045426 original size:24 final size:24
Alignment explanation
Indices: 9045399--9045445 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
9045389 AGCCCAGTTA
9045399 TTTATAATTTAT-TTTATTTTTATG
1 TTTAT-ATTTATATTTATTTTTATG
*
9045423 TTTATATTTTTATTTATTTTTAT
1 TTTATATTTATATTTATTTTTAT
9045446 CCATATGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (24 bp):
TTTATATTTATATTTATTTTTATG
Found at i:9046600 original size:21 final size:21
Alignment explanation
Indices: 9046574--9046634 Score: 88
Period size: 21 Copynumber: 2.9 Consensus size: 21
9046564 GTACTTATTT
*
9046574 TTTATGTGTTTATTTTTTTTA
1 TTTATGTGTTTATTTGTTTTA
9046595 TTTATGTGTTTATTTGTTTTA
1 TTTATGTGTTTATTTGTTTTA
*
9046616 TTTATTTG-TTAGTTTGTTT
1 TTTATGTGTTTA-TTTGTTT
9046635 GTTTATTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 3 0.08
21 34 0.92
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.74
Consensus pattern (21 bp):
TTTATGTGTTTATTTGTTTTA
Found at i:9046623 original size:13 final size:12
Alignment explanation
Indices: 9046603--9046697 Score: 68
Period size: 12 Copynumber: 7.8 Consensus size: 12
9046593 TATTTATGTG
9046603 TTTATTTGTTTTA
1 TTTATTTG-TTTA
9046616 TTTATTTG-TTA
1 TTTATTTGTTTA
*
9046627 GTTTGTTTGTTTA
1 -TTTATTTGTTTA
9046640 TTTATTT-TTTA
1 TTTATTTGTTTA
* *
9046651 CTCATTTGTTTA
1 TTTATTTGTTTA
** * *
9046663 TTTGCTTATTTG
1 TTTATTTGTTTA
* *
9046675 CTTATTTTGTTCA
1 TTTA-TTTGTTTA
9046688 TTTATTTGTT
1 TTTATTTGTT
9046698 ACTTGTTCAT
Statistics
Matches: 61, Mismatches: 17, Indels: 9
0.70 0.20 0.10
Matches are distributed among these distances:
11 12 0.20
12 31 0.51
13 18 0.30
ACGTcount: A:0.14, C:0.05, G:0.11, T:0.71
Consensus pattern (12 bp):
TTTATTTGTTTA
Found at i:9051417 original size:11 final size:11
Alignment explanation
Indices: 9051396--9051429 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
9051386 AATGATTACT
*
9051396 AAGGCAAAAAA
1 AAGGAAAAAAA
*
9051407 AATGAAAAAAA
1 AAGGAAAAAAA
9051418 AAGGAAAAAAA
1 AAGGAAAAAAA
9051429 A
1 A
9051430 TCTCTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.79, C:0.03, G:0.15, T:0.03
Consensus pattern (11 bp):
AAGGAAAAAAA
Found at i:9051864 original size:9 final size:10
Alignment explanation
Indices: 9051840--9051920 Score: 60
Period size: 10 Copynumber: 7.6 Consensus size: 10
9051830 AAAGAAAAAA
9051840 GAAAAAGAAT
1 GAAAAAGAAT
9051850 GAAAAAGAAT
1 GAAAAAGAAT
9051860 GAAAAAGGAAAT
1 GAAAAA-G-AAT
9051872 -AAATAAGAAAT
1 GAAA-AAG-AAT
9051883 -AAATAAGAAAT
1 GAAA-AAG-AAT
*
9051894 -AAAAAAAAT
1 GAAAAAGAAT
9051903 GAAAAATGAAAT
1 GAAAAA-G-AAT
9051915 GAAAAA
1 GAAAAA
9051921 AAAAGGAAGA
Statistics
Matches: 63, Mismatches: 2, Indels: 10
0.84 0.03 0.13
Matches are distributed among these distances:
9 3 0.05
10 23 0.37
11 23 0.37
12 14 0.22
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (10 bp):
GAAAAAGAAT
Found at i:9051865 original size:11 final size:12
Alignment explanation
Indices: 9051841--9051921 Score: 70
Period size: 11 Copynumber: 7.4 Consensus size: 12
9051831 AAGAAAAAAG
9051841 AAAAAG-AATG-
1 AAAAAGAAATGA
9051851 AAAAAG-AATGA
1 AAAAAGAAATGA
*
9051862 AAAAGGAAAT-A
1 AAAAAGAAATGA
*
9051873 AATAAGAAAT-A
1 AAAAAGAAATGA
*
9051884 AATAAGAAAT--
1 AAAAAGAAATGA
9051894 AAAAA-AAATGA
1 AAAAAGAAATGA
*
9051905 AAAATGAAATGA
1 AAAAAGAAATGA
9051917 AAAAA
1 AAAAA
9051922 AAAGGAAGAC
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
9 4 0.07
10 14 0.23
11 29 0.48
12 13 0.22
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (12 bp):
AAAAAGAAATGA
Found at i:9053085 original size:62 final size:62
Alignment explanation
Indices: 9052959--9053101 Score: 189
Period size: 62 Copynumber: 2.3 Consensus size: 62
9052949 TTATAGGCCT
*
9052959 AAACCAAGTCATCATTTCTGACCTCGACTTAGTTCGATCATCTTCATTCTAACTTATAGACTC
1 AAACCAAGTCATCATTT-TGACCTCGACTTAGTTCGATCATCTTCATTCCAACTTATAGACTC
* * * * * * *
9053022 AAACCAAGTTATCATTTTGACTTTGGCTTAGTTTGTTCATCTTTATTCCAACTTATA-AGCTC
1 AAACCAAGTCATCATTTTGACCTCGACTTAGTTCGATCATCTTCATTCCAACTTATAGA-CTC
9053084 AAACCAAGTCATCATTTT
1 AAACCAAGTCATCATTTT
9053102 TTACTTCTGC
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
61 1 0.01
62 53 0.76
63 16 0.23
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.38
Consensus pattern (62 bp):
AAACCAAGTCATCATTTTGACCTCGACTTAGTTCGATCATCTTCATTCCAACTTATAGACTC
Found at i:9053177 original size:63 final size:63
Alignment explanation
Indices: 9052941--9053428 Score: 171
Period size: 63 Copynumber: 7.7 Consensus size: 63
9052931 TTAATCTCAT
* * * * * * * *
9052941 ATTTTGACTTATAGGC-CTAAACCAAGTCATCA-TTTCTGACCTCGACTTAGTTCGATCATCTTC
1 ATTTCGACTTCTAGGCTC-AAACCAAGTCATCAGTTT-TTACTTCGGCTCAATCCGATCATCTTC
* * * * * * * * ** * *
9053004 A-TTCTAACTTATAGACTCAAACCAAGTTATCA-TTTTGACTTTGGCTTAGTTTGTTCATCTTT
1 ATTTC-GACTTCTAGGCTCAAACCAAGTCATCAGTTTTTACTTCGGCTCAATCCGATCATCTTC
* * * * * * * * *
9053066 ATTCCAACTTATAAGCTCAAACCAAGTCATCATTTTTTACTTCTGCTCAGTCCGATCATTTTT
1 ATTTCGACTTCTAGGCTCAAACCAAGTCATCAGTTTTTACTTCGGCTCAATCCGATCATCTTC
* *
9053129 ATTTCGACTTCTAGGCTCAGACCAAGTCATCAGTTTTTACATT-GGCTCAATTCGATCATCTTC
1 ATTTCGACTTCTAGGCTCAAACCAAGTCATCAGTTTTTAC-TTCGGCTCAATCCGATCATCTTC
* * ** * * * *** *
9053192 ATTTTGACTTATAACCTTAAA-CAAGTCATTATTTTTTACCTT-AATTCAGA-CCAAGTCATCAT
1 ATTTCGACTTCTAGGCTCAAACCAAGTCATCAGTTTTTA-CTTCGGCTCA-ATCCGA-TCATC-T
9053254 T-
62 TC
* * * * **
9053255 TTTGTCGACTTAGACTA-G-TC--ACCAAGTCATCA-TTTCTGACCTT-GGCTTAGT-TTAGTCA
1 ATT-TCGACTT---CTAGGCTCAAACCAAGTCATCAGTTT-TTA-CTTCGGCTCAATCCGA-TCA
9053313 TCTTC
59 TCTTC
* * * * * * *
9053318 ATTTTGACTTATAAGCTTAAACCAAGTCATCATTTTTTACTTTGGCTCAATTCGATCATCTTC
1 ATTTCGACTTCTAGGCTCAAACCAAGTCATCAGTTTTTACTTCGGCTCAATCCGATCATCTTC
** * * * *
9053381 ATTTTAACTTATAGGCTCAGACCAAGTCATCATTTTTTTACTTTGGCT
1 ATTTCGACTTCTAGGCTCAAACCAAGTCATCA-GTTTTTACTTCGGCT
9053429 TAGTTTAGTC
Statistics
Matches: 327, Mismatches: 73, Indels: 49
0.73 0.16 0.11
Matches are distributed among these distances:
59 2 0.01
60 1 0.00
61 1 0.00
62 81 0.25
63 192 0.59
64 47 0.14
65 1 0.00
67 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.41
Consensus pattern (63 bp):
ATTTCGACTTCTAGGCTCAAACCAAGTCATCAGTTTTTACTTCGGCTCAATCCGATCATCTTC
Found at i:9053377 original size:126 final size:125
Alignment explanation
Indices: 9052941--9053434 Score: 380
Period size: 126 Copynumber: 3.9 Consensus size: 125
9052931 TTAATCTCAT
* * * * * * * * * *
9052941 ATTTTGACTTATAGGCCTAAACCAAGTCATCATTTCTGACCTCGACTTAGTTCGATCATC-TTCA
1 ATTTTGACTTATAAGCTTAAACCAAGTCATCATTTTTTACTTTG-CTCAATCCGATCATCTTTTA
* * * * * * *
9053005 T-TCTAACTTATAGACTCAAACCAAGTTATCATTTTGACTTTGGCTTAGTTTGTTCATCTTT
65 TGTC-GACTTCTAGACTCAGACCAAGTCATCATTTTGACATTGGCTTAGTTTGATCATCTTC
*** * *
9053066 ATTCCAACTTATAAGCTCAAACCAAGTCATCATTTTTTACTTCTGCTCAGTCCGATCAT-TTTTA
1 ATTTTGACTTATAAGCTTAAACCAAGTCATCATTTTTTACTT-TGCTCAATCCGATCATCTTTTA
* * * * * *
9053130 TTTCGACTTCTAGGCTCAGACCAAGTCATCAGTTTTTACATTGGCTCAATTCGATCATCTTC
65 TGTCGACTTCTAGACTCAGACCAAGTCATCA-TTTTGACATTGGCTTAGTTTGATCATCTTC
* * *** *
9053192 ATTTTGACTTATAACCTTAAA-CAAGTCATTATTTTTTACCTTAATTCAGA-CCAAGTCATCATT
1 ATTTTGACTTATAAGCTTAAACCAAGTCATCATTTTTTA-CTTTGCTCA-ATCCGA-TCATC-TT
*
9053255 TT-TGTCGAC-T-TAGACT-AGTCACCAAGTCATCATTTCTGACCTTGGCTTAGTTT-AGTCATC
62 TTATGTCGACTTCTAGACTCAG--ACCAAGTCATCATTT-TGACATTGGCTTAGTTTGA-TCATC
9053315 TTC
123 TTC
* *
9053318 ATTTTGACTTATAAGCTTAAACCAAGTCATCATTTTTTACTTTGGCTCAATTCGATCATC-TTCA
1 ATTTTGACTTATAAGCTTAAACCAAGTCATCATTTTTTACTTT-GCTCAATCCGATCATCTTTTA
* ** * * * *
9053382 TTTTAACTTATAGGCTCAGACCAAGTCATCATTTTTTTACTTTGGCTTAGTTT
65 TGTCGACTTCTAGACTCAGACCAAGTCATCA--TTTTGACATTGGCTTAGTTT
9053435 AGTCACCTTT
Statistics
Matches: 290, Mismatches: 57, Indels: 42
0.75 0.15 0.11
Matches are distributed among these distances:
124 4 0.01
125 106 0.37
126 124 0.43
127 47 0.16
128 9 0.03
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.41
Consensus pattern (125 bp):
ATTTTGACTTATAAGCTTAAACCAAGTCATCATTTTTTACTTTGCTCAATCCGATCATCTTTTAT
GTCGACTTCTAGACTCAGACCAAGTCATCATTTTGACATTGGCTTAGTTTGATCATCTTC
Found at i:9053464 original size:32 final size:31
Alignment explanation
Indices: 9053423--9053525 Score: 107
Period size: 32 Copynumber: 3.2 Consensus size: 31
9053413 TTTTTTTACT
*
9053423 TTGGCTTAGTTTAGTCACCTTTATCTTTGACC
1 TTGGCTTAGTTT-GTCACCTTCATCTTTGACC
* *
9053455 TTGGTTTAGTCTTGTCACCTTCATTTTTTGACC
1 TTGGCTTAGT-TTGTCACCTTCA-TCTTTGACC
* * * *
9053488 TTGGCTCAATATGGTCACCTCCATCTTTGACC
1 TTGGCTTAGT-TTGTCACCTTCATCTTTGACC
9053520 TTGGCT
1 TTGGCT
9053526 CAGTCTGGTG
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
32 32 0.54
33 27 0.46
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.45
Consensus pattern (31 bp):
TTGGCTTAGTTTGTCACCTTCATCTTTGACC
Found at i:9053490 original size:33 final size:33
Alignment explanation
Indices: 9053410--9053525 Score: 103
Period size: 32 Copynumber: 3.6 Consensus size: 33
9053400 GACCAAGTCA
* *
9053410 TCATTTTTTTACTTTGGCTTAGTTTAGTCACCT
1 TCATTTTTTGACCTTGGCTTAGTTTAGTCACCT
* * *
9053443 TTA-TCTTTGACCTTGGTTTAGTCTT-GTCACCT
1 TCATTTTTTGACCTTGGCTTAGT-TTAGTCACCT
* * * *
9053475 TCATTTTTTGACCTTGGCTCAATATGGTCACCT
1 TCATTTTTTGACCTTGGCTTAGTTTAGTCACCT
* *
9053508 CCA-TCTTTGACCTTGGCT
1 TCATTTTTTGACCTTGGCT
9053526 CAGTCTGGTG
Statistics
Matches: 67, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
32 39 0.58
33 28 0.42
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.47
Consensus pattern (33 bp):
TCATTTTTTGACCTTGGCTTAGTTTAGTCACCT
Found at i:9053976 original size:6 final size:6
Alignment explanation
Indices: 9053956--9054006 Score: 59
Period size: 6 Copynumber: 8.2 Consensus size: 6
9053946 AGCCCAATTA
*
9053956 TTTATT TTT-TAT TTTATT TTTATT TTTATG TTTATGT TTATATT TTTATT
1 TTTATT TTTAT-T TTTATT TTTATT TTTATT TTTAT-T TT-TATT TTTATT
9054006 T
1 T
9054007 ATTTATTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
5 1 0.03
6 29 0.74
7 6 0.15
8 3 0.08
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:9053979 original size:18 final size:18
Alignment explanation
Indices: 9053956--9054010 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
9053946 AGCCCAATTA
9053956 TTTATTTTTTATTTTATT
1 TTTATTTTTTATTTTATT
*
9053974 TTTA-TTTTTATGTTTATG
1 TTTATTTTTTAT-TTTATT
9053992 TTTATATTTTTA-TTTATT
1 TTTAT-TTTTTATTTTATT
9054010 T
1 T
9054011 ATTTATTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
17 7 0.22
18 19 0.59
20 6 0.19
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (18 bp):
TTTATTTTTTATTTTATT
Found at i:9054018 original size:18 final size:18
Alignment explanation
Indices: 9053953--9054016 Score: 60
Period size: 20 Copynumber: 3.4 Consensus size: 18
9053943 CTAAGCCCAA
9053953 TTATTTAT-TTTTTA-TT
1 TTATTTATATTTTTATTT
*
9053969 TTATTTTTATTTTTATGTT
1 TTATTTATATTTTTAT-TT
*
9053988 TATGTTTATATTTTTATTTAT
1 T-TATTTATATTTTTA-TT-T
9054009 TTATTTAT
1 TTATTTAT
9054017 TTATCCATGT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 7 0.18
17 6 0.16
19 3 0.08
20 19 0.50
21 3 0.08
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (18 bp):
TTATTTATATTTTTATTT
Found at i:9054019 original size:12 final size:11
Alignment explanation
Indices: 9053953--9054020 Score: 64
Period size: 12 Copynumber: 5.7 Consensus size: 11
9053943 CTAAGCCCAA
9053953 TTATTTATTTT
1 TTATTTATTTT
9053964 TTATTTTATTTT
1 TTA-TTTATTTT
*
9053976 TATTTTTATGTTT
1 T-TATTTAT-TTT
* *
9053989 ATGTTTATATTT
1 TTATTTAT-TTT
9054001 TTATTTATTTAT
1 TTATTTATTT-T
9054013 TTATTTAT
1 TTATTTAT
9054021 CCATGTGTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
11 5 0.11
12 38 0.81
13 4 0.09
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (11 bp):
TTATTTATTTT
Found at i:9054754 original size:20 final size:20
Alignment explanation
Indices: 9054729--9054769 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
9054719 AAATATTTGA
*
9054729 AGTTTTCGATGCCATTTCCC
1 AGTTTTCGATGCCACTTCCC
9054749 AGTTTTCGATGCCACTTCCC
1 AGTTTTCGATGCCACTTCCC
9054769 A
1 A
9054770 ATTACCGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.17, C:0.32, G:0.15, T:0.37
Consensus pattern (20 bp):
AGTTTTCGATGCCACTTCCC
Found at i:9054778 original size:20 final size:20
Alignment explanation
Indices: 9054735--9054779 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
9054725 TTGAAGTTTT
* * **
9054735 CGATGCCATTTCCCAGTTTT
1 CGATGCCACTTCCCAATTAC
9054755 CGATGCCACTTCCCAATTAC
1 CGATGCCACTTCCCAATTAC
9054775 CGATG
1 CGATG
9054780 ATCGATTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.33, G:0.16, T:0.31
Consensus pattern (20 bp):
CGATGCCACTTCCCAATTAC
Found at i:9055140 original size:8 final size:8
Alignment explanation
Indices: 9055100--9055268 Score: 63
Period size: 8 Copynumber: 20.5 Consensus size: 8
9055090 GAATTCTTAG
9055100 TTTTTTT-
1 TTTTTTTA
9055107 TTTTTTTA
1 TTTTTTTA
*
9055115 CTTTTTTTG
1 -TTTTTTTA
* **
9055124 CTTGATTA
1 TTTTTTTA
9055132 TTTTTTTA
1 TTTTTTTA
*
9055140 TTTATTTA
1 TTTTTTTA
* **
9055148 TGTAGTTA
1 TTTTTTTA
*
9055156 TTTTTATGTG
1 TTTTT-T-TA
*
9055166 TTTATTTA
1 TTTTTTTA
9055174 TTTTTTTA
1 TTTTTTTA
* *
9055182 TTTATCTA
1 TTTTTTTA
* *
9055190 TTTATTTG
1 TTTTTTTA
9055198 TTTTATTTA
1 TTTT-TTTA
9055207 TTTATTTTA
1 TTT-TTTTA
9055216 TTTGTTTT-
1 TTT-TTTTA
* *
9055224 TTTTGTTC
1 TTTTTTTA
** *
9055232 TTTAATCA
1 TTTTTTTA
*
9055240 TTTGTTTA
1 TTTTTTTA
**
9055248 TTTACTTA
1 TTTTTTTA
9055256 TTTTGTTTA
1 TTTT-TTTA
9055265 TTTT
1 TTTT
9055269 ATTTGTTACT
Statistics
Matches: 117, Mismatches: 37, Indels: 14
0.70 0.22 0.08
Matches are distributed among these distances:
7 10 0.09
8 68 0.58
9 33 0.28
10 6 0.05
ACGTcount: A:0.15, C:0.04, G:0.07, T:0.75
Consensus pattern (8 bp):
TTTTTTTA
Found at i:9055145 original size:4 final size:4
Alignment explanation
Indices: 9055129--9055272 Score: 78
Period size: 4 Copynumber: 35.5 Consensus size: 4
9055119 TTTTGCTTGA
* * * * *
9055129 TTAT TTTT TTAT TTAT TTAT GTAG TTA- TT-T TTAT GTGT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
* * * *
9055175 TTTT TTAT TTAT CTAT TTAT TTGTT TTAT TTAT TTATT TTAT TTGT TT-T
1 TTAT TTAT TTAT TTAT TTAT TT-AT TTAT TTAT TTA-T TTAT TTAT TTAT
* * * * * * *
9055224 TTTT GTTCT TTAA TCAT TTGT TTAT TTAC TTATT TTGT TTATT TTAT TT
1 TTAT -TTAT TTAT TTAT TTAT TTAT TTAT TTA-T TTAT TTA-T TTAT TT
9055273 GTTACTTGTT
Statistics
Matches: 104, Mismatches: 28, Indels: 16
0.70 0.19 0.11
Matches are distributed among these distances:
3 7 0.07
4 81 0.78
5 16 0.15
ACGTcount: A:0.17, C:0.03, G:0.06, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:9055182 original size:34 final size:33
Alignment explanation
Indices: 9055132--9055216 Score: 95
Period size: 34 Copynumber: 2.5 Consensus size: 33
9055122 TGCTTGATTA
*
9055132 TTTT-TTTATTTATTTATGTAGT-TATTT-TTATG
1 TTTTATTTATTTTTTTATGTA-TCTATTTATT-TG
*
9055164 TGTTTATTTATTTTTTTATTTATCTATTTATTTG
1 T-TTTATTTATTTTTTTATGTATCTATTTATTTG
9055198 TTTTATTTATTTATTTTAT
1 TTTTATTTATTT-TTTTAT
9055217 TTGTTTTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
32 1 0.02
33 15 0.33
34 28 0.61
35 2 0.04
ACGTcount: A:0.19, C:0.01, G:0.06, T:0.74
Consensus pattern (33 bp):
TTTTATTTATTTTTTTATGTATCTATTTATTTG
Found at i:9055227 original size:13 final size:13
Alignment explanation
Indices: 9055132--9055227 Score: 63
Period size: 13 Copynumber: 7.5 Consensus size: 13
9055122 TGCTTGATTA
9055132 TTTTTTTATTTA-
1 TTTTTTTATTTAT
* * *
9055144 TTTATGTAGTTAT
1 TTTTTTTATTTAT
* *
9055157 TTTTATGTGTTTAT
1 TTTT-TTTATTTAT
*
9055171 TTATTTT-TTTA-
1 TTTTTTTATTTAT
* *
9055182 TTTATCTATTTAT
1 TTTTTTTATTTAT
*
9055195 TTGTTTTATTTAT
1 TTTTTTTATTTAT
* *
9055208 TTATTTTATTTGT
1 TTTTTTTATTTAT
9055221 TTTTTTT
1 TTTTTTT
9055228 GTTCTTTAAT
Statistics
Matches: 63, Mismatches: 17, Indels: 7
0.72 0.20 0.08
Matches are distributed among these distances:
11 4 0.06
12 17 0.27
13 32 0.51
14 10 0.16
ACGTcount: A:0.17, C:0.01, G:0.06, T:0.76
Consensus pattern (13 bp):
TTTTTTTATTTAT
Found at i:9063944 original size:12 final size:12
Alignment explanation
Indices: 9063929--9063962 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
9063919 TTGTTTTTTA
9063929 TTTTATTTTAAT
1 TTTTATTTTAAT
9063941 TTTTAATTTTAAT
1 TTTT-ATTTTAAT
*
9063954 TTTAATTTT
1 TTTTATTTT
9063963 TCTTATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTATTTTAAT
Found at i:9063955 original size:19 final size:18
Alignment explanation
Indices: 9063922--9063963 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 18
9063912 ACAGTCTTTG
*
9063922 TTTTTTATTTTATTTTAA
1 TTTTTAATTTTATTTTAA
9063940 TTTTTAATTTTAATTTTAA
1 TTTTTAATTTT-ATTTTAA
9063959 TTTTT
1 TTTTT
9063964 CTTATATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTAATTTTATTTTAA
Found at i:9063963 original size:7 final size:6
Alignment explanation
Indices: 9063923--9063962 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
9063913 CAGTCTTTGT
*
9063923 TTTTTA TTTT-A TTTTAA TTTTTAA TTTTAA TTTTAA TTTT
1 TTTTAA TTTTAA TTTTAA -TTTTAA TTTTAA TTTTAA TTTT
9063963 TCTTATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 5 0.16
6 21 0.66
7 6 0.19
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (6 bp):
TTTTAA
Found at i:9063974 original size:19 final size:20
Alignment explanation
Indices: 9063932--9063976 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
9063922 TTTTTTATTT
*
9063932 TATTTTAATTTTTAATTTTA
1 TATTTTAATTTTTAATTATA
*
9063952 -ATTTTAATTTTT-CTTATA
1 TATTTTAATTTTTAATTATA
9063970 TATTTTA
1 TATTTTA
9063977 TAAATTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (20 bp):
TATTTTAATTTTTAATTATA
Found at i:9067805 original size:5 final size:5
Alignment explanation
Indices: 9067795--9067831 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
9067785 TTTTCAAAGT
*
9067795 TTTTA TTTTA TTTTA -TTTA TTTTA TTTTA TTTCA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
9067832 GCTTCTTGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:9067815 original size:14 final size:14
Alignment explanation
Indices: 9067796--9067831 Score: 63
Period size: 14 Copynumber: 2.5 Consensus size: 14
9067786 TTTCAAAGTT
9067796 TTTATTTTATTTTA
1 TTTATTTTATTTTA
9067810 TTTATTTTATTTTA
1 TTTATTTTATTTTA
9067824 TTTCATTT
1 TTT-ATTT
9067832 GCTTCTTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:9067819 original size:19 final size:19
Alignment explanation
Indices: 9067795--9067831 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
9067785 TTTTCAAAGT
*
9067795 TTTTATTTTATTTTATTTA
1 TTTTATTTTATTTCATTTA
9067814 TTTTATTTTATTTCATTT
1 TTTTATTTTATTTCATTT
9067832 GCTTCTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTATTTTATTTCATTTA
Found at i:9071332 original size:3 final size:3
Alignment explanation
Indices: 9071319--9071357 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
9071309 AATGTAAAGA
9071319 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9071358 AAAAAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9071568 original size:30 final size:29
Alignment explanation
Indices: 9071491--9071568 Score: 81
Period size: 30 Copynumber: 2.6 Consensus size: 29
9071481 AAAAAAATAA
*
9071491 AAAAT-TTAAACCCTTTAAACCCTAAAACT
1 AAAATCTTAAA-CCTTCAAACCCTAAAACT
9071520 AAAA-CTCTAAACCTTTCAAACCCTAAAA-T
1 AAAATCT-TAAACC-TTCAAACCCTAAAACT
9071549 CAAAATCTTAAATCCTTCAA
1 -AAAATCTTAAA-CCTTCAA
9071569 GTCTTAAAAC
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
29 8 0.19
30 30 0.71
31 4 0.10
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.27
Consensus pattern (29 bp):
AAAATCTTAAACCTTCAAACCCTAAAACT
Found at i:9071620 original size:21 final size:22
Alignment explanation
Indices: 9071595--9071649 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 22
9071585 CTTATAAATC
9071595 CCAAACCCTAAAACT-AAAACT
1 CCAAACCCTAAAACTCAAAACT
* *
9071616 CCAAACCCTAAAACTCTAAAGT
1 CCAAACCCTAAAACTCAAAACT
9071638 -CAAACCCTAAAA
1 CCAAACCCTAAAA
9071650 TCCAAAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 27 0.87
22 4 0.13
ACGTcount: A:0.51, C:0.33, G:0.02, T:0.15
Consensus pattern (22 bp):
CCAAACCCTAAAACTCAAAACT
Found at i:9072862 original size:11 final size:13
Alignment explanation
Indices: 9072845--9072877 Score: 52
Period size: 11 Copynumber: 2.7 Consensus size: 13
9072835 TGTGATCTTT
9072845 TTTTATTTTTA-A
1 TTTTATTTTTATA
9072857 -TTTATTTTTATA
1 TTTTATTTTTATA
9072869 TTTTATTTT
1 TTTTATTTT
9072878 ATAAAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 10 0.53
12 1 0.05
13 8 0.42
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTATTTTTATA
Found at i:9072872 original size:18 final size:17
Alignment explanation
Indices: 9072844--9072879 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
9072834 GTGTGATCTT
9072844 TTTTTATTTTTAATTTA
1 TTTTTATTTTTAATTTA
*
9072861 TTTTTATATTTTATTTTA
1 TTTTTAT-TTTTAATTTA
9072879 T
1 T
9072880 AAAATTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTATTTTTAATTTA
Found at i:9073379 original size:10 final size:10
Alignment explanation
Indices: 9073364--9073399 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
9073354 TTTCTTAATT
9073364 AATATTTTAA
1 AATATTTTAA
9073374 AATATTTTAA
1 AATATTTTAA
* *
9073384 ATTTTTTTAA
1 AATATTTTAA
9073394 AATATT
1 AATATT
9073400 AGGCCTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
AATATTTTAA
Found at i:9073890 original size:18 final size:18
Alignment explanation
Indices: 9073857--9073899 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
9073847 ATATAGAAAA
*
9073857 ACTAAGATCAAAGTAAGT
1 ACTAAGACCAAAGTAAGT
* *
9073875 ATTAAGACCAATGTAAGT
1 ACTAAGACCAAAGTAAGT
9073893 ACTAAGA
1 ACTAAGA
9073900 TGAACCAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.49, C:0.12, G:0.16, T:0.23
Consensus pattern (18 bp):
ACTAAGACCAAAGTAAGT
Found at i:9073986 original size:28 final size:28
Alignment explanation
Indices: 9073919--9073980 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
9073909 TTATTTGTCC
9073919 TTAAGAAAAATGAATAACAATGTAAGCA
1 TTAAGAAAAATGAATAACAATGTAAGCA
*
9073947 TTAAGAAAAATGACTAACAATGTAAGCA
1 TTAAGAAAAATGAATAACAATGTAAGCA
9073975 TTAAGA
1 TTAAGA
9073981 GCAATGTAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.55, C:0.08, G:0.15, T:0.23
Consensus pattern (28 bp):
TTAAGAAAAATGAATAACAATGTAAGCA
Found at i:9073987 original size:18 final size:18
Alignment explanation
Indices: 9073964--9073998 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
9073954 AAATGACTAA
9073964 CAATGTAAGCATTAAGAG
1 CAATGTAAGCATTAAGAG
9073982 CAATGTAAGCATTAAGA
1 CAATGTAAGCATTAAGA
9073999 TGAAGGGGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.23
Consensus pattern (18 bp):
CAATGTAAGCATTAAGAG
Found at i:9074165 original size:28 final size:28
Alignment explanation
Indices: 9074103--9074170 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
9074093 CTTTAAAGTA
*
9074103 AAAAAAAAAAAAAATCCAAATAATCAAC
1 AAAAAAAAAAAAAATCCAAATAAACAAC
* * **
9074131 TACAAAAGGAAAAA-CCAAAATAAACAAC
1 AAAAAAAAAAAAAATCC-AAATAAACAAC
9074159 AAAAAAAAAAAA
1 AAAAAAAAAAAA
9074171 TCAATTTGGA
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
27 2 0.07
28 28 0.93
ACGTcount: A:0.76, C:0.13, G:0.03, T:0.07
Consensus pattern (28 bp):
AAAAAAAAAAAAAATCCAAATAAACAAC
Found at i:9074272 original size:21 final size:22
Alignment explanation
Indices: 9074246--9074286 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
9074236 TGATAAAATA
9074246 TGTTAT-GGCATGTAT-TAGATT
1 TGTTATAGG-ATGTATCTAGATT
9074267 TGTTATAGGATGTATCTAGA
1 TGTTATAGGATGTATCTAGA
9074287 AGAAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.27, C:0.05, G:0.24, T:0.44
Consensus pattern (22 bp):
TGTTATAGGATGTATCTAGATT
Found at i:9075275 original size:12 final size:12
Alignment explanation
Indices: 9075258--9075291 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
9075248 TAAAATATTT
9075258 AAAATATCATAA
1 AAAATATCATAA
**
9075270 AAAATAAAATAA
1 AAAATATCATAA
9075282 AAAATATCAT
1 AAAATATCAT
9075292 CAAATAAGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAATATCATAA
Found at i:9075285 original size:24 final size:25
Alignment explanation
Indices: 9075258--9075305 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
9075248 TAAAATATTT
*
9075258 AAAATATCAT-AAAAAATAAAATAA
1 AAAATATCATCAAAAAAGAAAATAA
*
9075282 AAAATATCATCAAATAAGAAAATA
1 AAAATATCATCAAAAAAGAAAATA
9075306 CATAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.71, C:0.06, G:0.02, T:0.21
Consensus pattern (25 bp):
AAAATATCATCAAAAAAGAAAATAA
Found at i:9081636 original size:18 final size:18
Alignment explanation
Indices: 9081600--9081645 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
9081590 GTATCATACA
* *
9081600 AAATATTATATTAATATT
1 AAATATTATATAAAAATT
*
9081618 AAATTTTATATAAAAATT
1 AAATATTATATAAAAATT
*
9081636 ATATATTATA
1 AAATATTATA
9081646 ATTCGTATTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
AAATATTATATAAAAATT
Found at i:9081694 original size:22 final size:22
Alignment explanation
Indices: 9081669--9081715 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
9081659 TAAAAATATC
* *
9081669 AAATATATTTTTTAGTTTTATT
1 AAATATATTTATAAGTTTTATT
* *
9081691 AAATTTATTTATAATTTTTATT
1 AAATATATTTATAAGTTTTATT
9081713 AAA
1 AAA
9081716 ATTTTAAATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
AAATATATTTATAAGTTTTATT
Found at i:9086820 original size:28 final size:28
Alignment explanation
Indices: 9086789--9086849 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
9086779 AAAAAATTAC
*
9086789 AAATATT-TATTTAAAATTTAAA-TATATT
1 AAATATTATATTTAAAA--AAAATTATATT
*
9086817 AAATATTATTTTTAAAAAAAATTATATT
1 AAATATTATATTTAAAAAAAATTATATT
9086845 AAATA
1 AAATA
9086850 ATTAAATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 3 0.10
28 18 0.62
29 8 0.28
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (28 bp):
AAATATTATATTTAAAAAAAATTATATT
Found at i:9099442 original size:8 final size:8
Alignment explanation
Indices: 9099429--9099461 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
9099419 TTATTTCCAA
9099429 AAAAAAAT
1 AAAAAAAT
9099437 -AAAAAAT
1 AAAAAAAT
*
9099444 AAAAAAGT
1 AAAAAAAT
9099452 AAAAAAAT
1 AAAAAAAT
9099460 AA
1 AA
9099462 TTAAAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (8 bp):
AAAAAAAT
Found at i:9099470 original size:11 final size:11
Alignment explanation
Indices: 9099453--9099503 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
9099443 TAAAAAAGTA
9099453 AAAAAATAATT
1 AAAAAATAATT
* *
9099464 AAAAAATTGATG
1 AAAAAA-TAATT
*
9099476 AAAAAATGA-T
1 AAAAAATAATT
*
9099486 AAAAAATAATA
1 AAAAAATAATT
9099497 AAAAAAT
1 AAAAAAT
9099504 CCTTTAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
10 8 0.24
11 16 0.48
12 9 0.27
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.22
Consensus pattern (11 bp):
AAAAAATAATT
Found at i:9100582 original size:20 final size:20
Alignment explanation
Indices: 9100557--9100597 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
9100547 GTTTTATTGT
9100557 ACATTCATGAACATTTTTAC
1 ACATTCATGAACATTTTTAC
9100577 ACATTCATGAACATTTTTAC
1 ACATTCATGAACATTTTTAC
9100597 A
1 A
9100598 AATTGCATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.20, G:0.05, T:0.39
Consensus pattern (20 bp):
ACATTCATGAACATTTTTAC
Found at i:9110908 original size:178 final size:178
Alignment explanation
Indices: 9110603--9110929 Score: 431
Period size: 178 Copynumber: 1.8 Consensus size: 178
9110593 TATTTTCGAT
* * * * * ** * *
9110603 CTCGACTTGGTCTTGGTTATTTTATTTTGACTCATGGCATCGTCCCAGTCATTTGATCTTGATTC
1 CTCGACTTAGTCCTGGTCACTTTATTTTAACTCACAGCATCGTCCCAATCATTTGATCTTGACTC
* ** * *
9110668 AAGTTAGATCATCATCAGACTCGTGACATTAATTCGATCATTCATTTTTGAACTCGACTCGATCT
66 AAGTCAGATCATCATCAGACTCACGACATTAATTCGATCATTCATTTTTGAACTCAACTCGATCC
9110733 TAGTCATTTTATTATGACTTGTGGCATCGTTTGGTCATTCATTTTAAC
131 TAGTCATTTTATTATGACTTGTGGCATCGTTTGGTCATTCATTTTAAC
*
9110781 CTCGACTTAGTCCTGGTCACTTTATTTTAACTCACAGCATCGTCTCAATCATTTGATCTTGACTC
1 CTCGACTTAGTCCTGGTCACTTTATTTTAACTCACAGCATCGTCCCAATCATTTGATCTTGACTC
* * * * * *
9110846 AGGTCAGATCATCATTAGACTCACGGCATCT-GTTCGATCATTTATTTTTGACCTCAACTCGATC
66 AAGTCAGATCATCATCAGACTCACGACAT-TAATTCGATCATTCATTTTTGAACTCAACTCGATC
* *
9110910 CTGGTCATTTTATTTTGACT
130 CTAGTCATTTTATTATGACT
9110930 CACAGTATTG
Statistics
Matches: 125, Mismatches: 23, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
178 124 0.99
179 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (178 bp):
CTCGACTTAGTCCTGGTCACTTTATTTTAACTCACAGCATCGTCCCAATCATTTGATCTTGACTC
AAGTCAGATCATCATCAGACTCACGACATTAATTCGATCATTCATTTTTGAACTCAACTCGATCC
TAGTCATTTTATTATGACTTGTGGCATCGTTTGGTCATTCATTTTAAC
Found at i:9111004 original size:117 final size:117
Alignment explanation
Indices: 9110791--9111026 Score: 289
Period size: 117 Copynumber: 2.0 Consensus size: 117
9110781 CTCGACTTAG
* *
9110791 TCCTGGTCACTTTATTTTAACTCACAGCATCGTCTCAATCATTTGATCTTGACTCAGGTCAGATC
1 TCCTGGTCACTTTATTTTAACTCACAGCATCGTCCCAATCATTTGATCTTGACTCAGGTCAAATC
* * **
9110856 ATCATTAGACTCACGGCATCTGTTCGATCATTTATTTTTGACCTCAACTCGA
66 ATCATTAAACTCACGACATCTGTTCGATCATTTATTTACGACCTCAACTCGA
* * * * *
9110908 TCCTGGTCATTTTATTTTGACTCACAGTATTGTCCCAATCATTTGATCTTGACTTAGGTCAAATC
1 TCCTGGTCACTTTATTTTAACTCACAGCATCGTCCCAATCATTTGATCTTGACTCAGGTCAAATC
** * *
9110973 ATC-TTCAAACTCGTGATAT-TAGTTC-AGTCATTTATTTACGATCTCAACTCGA
66 ATCATT-AAACTCACGACATCT-GTTCGA-TCATTTATTTACGACCTCAACTCGA
9111025 TC
1 TC
9111027 TTAGTCACCT
Statistics
Matches: 101, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
116 4 0.04
117 97 0.96
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.39
Consensus pattern (117 bp):
TCCTGGTCACTTTATTTTAACTCACAGCATCGTCCCAATCATTTGATCTTGACTCAGGTCAAATC
ATCATTAAACTCACGACATCTGTTCGATCATTTATTTACGACCTCAACTCGA
Done.