Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 174 of 185
Found at i:52845972 original size:8 final size:8
Alignment explanation
Indices: 52845959--52845983 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
52845949 ATTAGCGTAC
52845959 TGATGTAT
1 TGATGTAT
52845967 TGATGTAT
1 TGATGTAT
52845975 TGATGTAT
1 TGATGTAT
52845983 T
1 T
52845984 TGAGGCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (8 bp):
TGATGTAT
Found at i:52850833 original size:12 final size:13
Alignment explanation
Indices: 52850811--52850835 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52850801 ATTAATTATC
52850811 TTTCTTTTTTTTT
1 TTTCTTTTTTTTT
52850824 TTTCTTTTTTTT
1 TTTCTTTTTTTT
52850836 GCAAAAGAAC
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
TTTCTTTTTTTTT
Found at i:52853201 original size:41 final size:41
Alignment explanation
Indices: 52853156--52853238 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
52853146 AAAAGCCCTA
* *
52853156 ACACATATTCTCATCAACCATGTTAGTATGGATTTTATATG
1 ACACATATTCTCATCAACCATGTTAGTATGAATTTCATATG
52853197 ACACATATTCTCATCAACCATGTTAGTATGAATTTCATATG
1 ACACATATTCTCATCAACCATGTTAGTATGAATTTCATATG
52853238 A
1 A
52853239 ATATCAAGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (41 bp):
ACACATATTCTCATCAACCATGTTAGTATGAATTTCATATG
Found at i:52853541 original size:25 final size:25
Alignment explanation
Indices: 52853522--52853570 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
52853512 TAGCTCTTTC
52853522 GAGCCATATAACAGG-AAGCTCATGT
1 GAGCCATATAAC-GGAAAGCTCATGT
*
52853547 GAGCCATGTAACGGAAAGCTCATG
1 GAGCCATATAACGGAAAGCTCATG
52853571 AGAACCGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (25 bp):
GAGCCATATAACGGAAAGCTCATGT
Found at i:52853650 original size:50 final size:50
Alignment explanation
Indices: 52853578--52853681 Score: 129
Period size: 50 Copynumber: 2.1 Consensus size: 50
52853568 ATGAGAACCG
* * *
52853578 TAATTAGGAAACTCATGCGAGCCA-ATATCAGGGAAGCTCTAGAGAGCCAT
1 TAATTAGGAAACTCAAGAGAGCCATATAT-AGGGAAGCTCCAGAGAGCCAT
* * * *
52853628 TAATTGGGAAGCTCAAGAGAGCCATATATTGGGTAGCTCCAGAGAGCCAT
1 TAATTAGGAAACTCAAGAGAGCCATATATAGGGAAGCTCCAGAGAGCCAT
52853678 TAAT
1 TAAT
52853682 CAAGAAGCTC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
50 42 0.91
51 4 0.09
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (50 bp):
TAATTAGGAAACTCAAGAGAGCCATATATAGGGAAGCTCCAGAGAGCCAT
Found at i:52853673 original size:27 final size:25
Alignment explanation
Indices: 52853608--52853744 Score: 107
Period size: 25 Copynumber: 5.4 Consensus size: 25
52853598 GCCAATATCA
*
52853608 GGGAAGCTCTAGAGAGCCATTAATT
1 GGGAAGCTCAAGAGAGCCATTAATT
52853633 GGGAAGCTCAAGAGAGCCA-TATATT
1 GGGAAGCTCAAGAGAGCCATTA-ATT
* * *
52853658 GGGTAGCTCCAGAGAGCCATTAATC
1 GGGAAGCTCAAGAGAGCCATTAATT
** * * *
52853683 AAGAAGCTCATGAAAGAGCCTTTAATC
1 GGGAAGCTCA--AGAGAGCCATTAATT
* * * *
52853710 AGGAAGCTCCAGAGAACCAATT-ATC
1 GGGAAGCTCAAGAGAGCC-ATTAATT
52853735 GGGAAGCTCA
1 GGGAAGCTCA
52853745 TACCATAAAT
Statistics
Matches: 90, Mismatches: 17, Indels: 10
0.77 0.15 0.09
Matches are distributed among these distances:
24 2 0.02
25 63 0.70
26 4 0.04
27 21 0.23
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.20
Consensus pattern (25 bp):
GGGAAGCTCAAGAGAGCCATTAATT
Found at i:52855503 original size:19 final size:20
Alignment explanation
Indices: 52855481--52855526 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
52855471 ATAAAAAAAA
52855481 TTAAAATAATTT-T-AAAATT
1 TTAAAAT-ATTTATAAAAATT
52855500 TTAAAATATTTATAAAAATT
1 TTAAAATATTTATAAAAATT
*
52855520 TCAAAAT
1 TTAAAAT
52855527 TTATATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 8 0.33
20 12 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
TTAAAATATTTATAAAAATT
Found at i:52855528 original size:18 final size:18
Alignment explanation
Indices: 52855476--52855531 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
52855466 TAATTATAAA
*
52855476 AAAAATTAAAATAATTT-T
1 AAAAATTTAAA-AATTTAT
*
52855494 AAAATTTTAAAATATTTAT
1 AAAAATTTAAAA-ATTTAT
*
52855513 AAAAATTTCAAAATTTAT
1 AAAAATTTAAAAATTTAT
52855531 A
1 A
52855532 TTTTTAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 1 0.03
18 20 0.62
19 11 0.34
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAAATTTAAAAATTTAT
Found at i:52860597 original size:31 final size:31
Alignment explanation
Indices: 52860549--52860610 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
52860539 ATTAAGTAGT
*
52860549 CACATTGGATCCTGATTAAATTCTGAGTTGA
1 CACATTGGATCCCGATTAAATTCTGAGTTGA
*
52860580 CACATTGTATCCCGATTAAATTCTGAGTTGA
1 CACATTGGATCCCGATTAAATTCTGAGTTGA
52860611 GTCAAGTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (31 bp):
CACATTGGATCCCGATTAAATTCTGAGTTGA
Found at i:52868418 original size:23 final size:22
Alignment explanation
Indices: 52868392--52868437 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
52868382 TAGTTAGTCT
*
52868392 TCTTTAATTTTTCTAAGGTTTAG
1 TCTTTAACTTTTCT-AGGTTTAG
* *
52868415 TCTTTAGCTTTTCTAGTTTTAG
1 TCTTTAACTTTTCTAGGTTTAG
52868437 T
1 T
52868438 TGTTTTAGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.17, C:0.11, G:0.13, T:0.59
Consensus pattern (22 bp):
TCTTTAACTTTTCTAGGTTTAG
Found at i:52879277 original size:9 final size:9
Alignment explanation
Indices: 52879263--52879289 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
52879253 CCCGAAATTC
52879263 TTGATAAAT
1 TTGATAAAT
52879272 TTGATAAAT
1 TTGATAAAT
52879281 TTGATAAAT
1 TTGATAAAT
52879290 CTTAAACATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (9 bp):
TTGATAAAT
Found at i:52892825 original size:21 final size:21
Alignment explanation
Indices: 52892799--52892876 Score: 65
Period size: 21 Copynumber: 3.8 Consensus size: 21
52892789 CACGCAGAAA
52892799 CAATGTCTCGACATTCAAATC
1 CAATGTCTCGACATTCAAATC
* *
52892820 CAATGT-TGCAACATTCAAGT-
1 CAATGTCT-CGACATTCAAATC
* *
52892840 -GATGTCAT-GACATTCAATTC
1 CAATGTC-TCGACATTCAAATC
*
52892860 CAATGTCGCGACATTCA
1 CAATGTCTCGACATTCA
52892877 TGGAAGTTTC
Statistics
Matches: 44, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
19 13 0.30
20 1 0.02
21 30 0.68
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.29
Consensus pattern (21 bp):
CAATGTCTCGACATTCAAATC
Found at i:52903009 original size:40 final size:40
Alignment explanation
Indices: 52902934--52903011 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
52902924 CACGCAGAAA
* *
52902934 CGATGCCTCAACATTCAAATCCAATGTTGCAACATTCAAG
1 CGATGCCACAACATTCAAATCCAATGTCGCAACATTCAAG
* * **
52902974 CGATGCCACGACATTCAATTCCAATGTCGTGACATTCA
1 CGATGCCACAACATTCAAATCCAATGTCGCAACATTCA
52903012 TGAAAGTTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (40 bp):
CGATGCCACAACATTCAAATCCAATGTCGCAACATTCAAG
Found at i:52904976 original size:50 final size:50
Alignment explanation
Indices: 52904852--52905100 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
52904842 GATAATAACA
* * ** * *
52904852 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
52904903 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * * *
52904953 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
52905003 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
52905058 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
52905101 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.54
51 33 0.20
53 2 0.01
54 1 0.01
55 1 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:52905031 original size:100 final size:104
Alignment explanation
Indices: 52904851--52905100 Score: 348
Period size: 100 Copynumber: 2.4 Consensus size: 104
52904841 TGATAATAAC
** *
52904851 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATAGTGCCCATGCCATG
* *
52904916 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
52904953 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCAGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-AGTGCCCATGCCATG
52905016 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
52905058 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
52905101 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 49 0.37
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATAGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:52905216 original size:13 final size:13
Alignment explanation
Indices: 52905195--52905226 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
52905185 GCTTGGATCA
*
52905195 TCATCAAATAAAT
1 TCATAAAATAAAT
52905208 TCATAAAATAAAT
1 TCATAAAATAAAT
52905221 TCATAA
1 TCATAA
52905227 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:52905474 original size:30 final size:29
Alignment explanation
Indices: 52905434--52905493 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
52905424 TAGCCCTCGA
*
52905434 CTCTAACTTTTTCAAAATTACAATTTTGC
1 CTCTAACTTTTACAAAATTACAATTTTGC
* *
52905463 CTCTAAACTTTTACATAATTACATTTTTGC
1 CTCT-AACTTTTACAAAATTACAATTTTGC
52905493 C
1 C
52905494 CCAAGGCTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 4 0.15
30 23 0.85
ACGTcount: A:0.30, C:0.22, G:0.03, T:0.45
Consensus pattern (29 bp):
CTCTAACTTTTACAAAATTACAATTTTGC
Found at i:52906060 original size:25 final size:25
Alignment explanation
Indices: 52906032--52906089 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
52906022 TGCTCTCTGT
52906032 TTCTTTCTCTGTTTC-GTCTCTTCTA
1 TTCTTTCTCT-TTTCTGTCTCTTCTA
* *
52906057 TTCTGTT-TCTTTTCTTTCTTTTCTA
1 TTCT-TTCTCTTTTCTGTCTCTTCTA
52906082 TTCTTTCT
1 TTCTTTCT
52906090 TTTGTTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
24 6 0.21
25 20 0.71
26 2 0.07
ACGTcount: A:0.03, C:0.24, G:0.05, T:0.67
Consensus pattern (25 bp):
TTCTTTCTCTTTTCTGTCTCTTCTA
Found at i:52906079 original size:14 final size:14
Alignment explanation
Indices: 52906052--52906097 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
52906042 GTTTCGTCTC
52906052 TTCTATTCTGTTTCTT
1 TTCT-TTCT-TTTCTT
*
52906068 TTCTTTCTTTTCTA
1 TTCTTTCTTTTCTT
*
52906082 TTCTTTCTTTTGTT
1 TTCTTTCTTTTCTT
52906096 TT
1 TT
52906098 ATGTATATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 19 0.70
15 4 0.15
16 4 0.15
ACGTcount: A:0.04, C:0.17, G:0.04, T:0.74
Consensus pattern (14 bp):
TTCTTTCTTTTCTT
Found at i:52906114 original size:5 final size:5
Alignment explanation
Indices: 52906101--52906145 Score: 58
Period size: 5 Copynumber: 9.0 Consensus size: 5
52906091 TTGTTTTATG
52906101 TATATA TATAA TATAA TATAA TAT-A T-TAA TAATAA TATAA TATAA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA
52906146 AAACATCATC
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
3 1 0.03
4 4 0.11
5 23 0.64
6 8 0.22
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:52906126 original size:19 final size:19
Alignment explanation
Indices: 52906102--52906144 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
52906092 TGTTTTATGT
52906102 ATATATATAAT-ATAATATA
1 ATATAT-TAATAATAATATA
52906121 ATATATTAATAATAATATA
1 ATATATTAATAATAATATA
52906140 ATATA
1 ATATA
52906145 AAAACATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATATTAATAATAATATA
Found at i:52912522 original size:17 final size:17
Alignment explanation
Indices: 52912492--52912525 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
52912482 CCAAACCCAC
*
52912492 CTATATTTATAAAAAAT
1 CTATATTTACAAAAAAT
*
52912509 CTATATTTGCAAAAAAT
1 CTATATTTACAAAAAAT
52912526 TAACCCAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.38
Consensus pattern (17 bp):
CTATATTTACAAAAAAT
Found at i:52914638 original size:30 final size:30
Alignment explanation
Indices: 52914597--52914670 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 30
52914587 TGCACAAATA
** *
52914597 GTCACCCAACTATTAGTAAATTTCTTTTTT
1 GTCACCCAACTATTAACAAATTCCTTTTTT
*
52914627 GTCACCTAACTATTAACAAATTCCTTTTTT
1 GTCACCCAACTATTAACAAATTCCTTTTTT
* *
52914657 CATTACCCAACTAT
1 -GTCACCCAACTAT
52914671 GAAAAGTTAC
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
30 26 0.72
31 10 0.28
ACGTcount: A:0.30, C:0.24, G:0.04, T:0.42
Consensus pattern (30 bp):
GTCACCCAACTATTAACAAATTCCTTTTTT
Found at i:52922277 original size:3 final size:3
Alignment explanation
Indices: 52922269--52922323 Score: 51
Period size: 3 Copynumber: 18.0 Consensus size: 3
52922259 GTAAGTAAGT
* *
52922269 ATA ATA ATA TATA AT- ATA ATA ATA TTA A-A CTA ATA ATA ATA CAGTA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -A-TA
52922315 ATA ATA ATA
1 ATA ATA ATA
52922324 TAAATAAACA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
2 3 0.07
3 33 0.77
4 5 0.12
5 2 0.05
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:52922304 original size:14 final size:13
Alignment explanation
Indices: 52922269--52922330 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 13
52922259 GTAAGTAAGT
52922269 ATAATAATATATAA
1 ATAATAATAT-TAA
52922283 TATAATAATATTAA
1 -ATAATAATATTAA
*
52922297 ACTAATAATAATACA
1 A-TAATAATATTA-A
*
52922312 GTAATAATAATATAA
1 ATAATAAT-AT-TAA
52922327 ATAA
1 ATAA
52922331 ACAGTATTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
13 1 0.03
14 20 0.51
15 16 0.41
16 2 0.05
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (13 bp):
ATAATAATATTAA
Found at i:52922326 original size:22 final size:21
Alignment explanation
Indices: 52922301--52922352 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
52922291 TATTAAACTA
*
52922301 ATAATAATACAGTAATAATAAT
1 ATAATAA-ACAGTAATAACAAT
*
52922323 ATAAATAAACAGTATTAACAAT
1 AT-AATAAACAGTAATAACAAT
52922345 ATAATAAA
1 ATAATAAA
52922353 AAACTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 6 0.22
22 16 0.59
23 5 0.19
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.29
Consensus pattern (21 bp):
ATAATAAACAGTAATAACAAT
Found at i:52928082 original size:19 final size:19
Alignment explanation
Indices: 52928055--52928108 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
52928045 AATTTCTGAG
*
52928055 GATACGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
52928074 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
52928093 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
52928109 AGATATGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:52929153 original size:9 final size:9
Alignment explanation
Indices: 52929141--52929165 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
52929131 GATGATGTAT
52929141 TTATTATTG
1 TTATTATTG
52929150 TTATTATTG
1 TTATTATTG
52929159 TTATTAT
1 TTATTAT
52929166 AGCATTTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (9 bp):
TTATTATTG
Found at i:52929562 original size:98 final size:98
Alignment explanation
Indices: 52929442--52929636 Score: 363
Period size: 98 Copynumber: 2.0 Consensus size: 98
52929432 TTAAAATAAT
* *
52929442 AAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCT
1 AAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCT
52929507 TAAATCTTGGATAAGTGGATGTTCTTTTAAAGA
66 TAAATCTTGGATAAGTGGATGTTCTTTTAAAGA
*
52929540 AAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCT
1 AAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCT
52929605 TAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TAAATCTTGGATAAGTGGATGTTCTTTTAAAG
52929637 TTTTATTGTA
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.29, C:0.10, G:0.25, T:0.36
Consensus pattern (98 bp):
AAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCT
TAAATCTTGGATAAGTGGATGTTCTTTTAAAGA
Found at i:52935192 original size:132 final size:131
Alignment explanation
Indices: 52935013--52936061 Score: 1706
Period size: 132 Copynumber: 7.9 Consensus size: 131
52935003 CTGCATTGAC
52935013 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
*
52935078 GTAATTCTACTTCCCTAGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGTA
66 GTAATTCTACTTCCCT-GGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
52935143 GT
130 GT
* *
52935145 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTAAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
*
52935210 GTAATTCTACTTCCCTGTGCAACAGTGGAATAGGTTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTG-GCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
52935275 GT
130 GT
* **
52935277 AGTGGAGCAAATCGAAGATAACGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
* * *
52935342 GCAATTCTACTTCCCTGGGCAACAGTGGAATAAATTGAAGATTTTAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCT-GGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
52935407 GT
130 GT
* *
52935409 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
* *
52935474 ATAATTCTACTTCCTTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGG-CAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
52935539 GT
130 GT
* * *
52935541 AGTGGAGCATATCGGAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
*
52935606 GTAATTCTACTTCCTTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGG-CAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
52935671 GT
130 GT
*
52935673 AGTGGAGCAGATCGGAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
52935738 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGG-CAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
52935803 GT
130 GT
*
52935805 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCTA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
*
52935870 GTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGTA
66 GTAATTCTACTTCCCT-GGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
52935935 GT
130 GT
* * * * * *
52935937 AGTGGAGTAGATCGAATATGGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTTAAGTCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
* * * * *
52936002 GTAATCCTA-TCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTAAG-TCTTATCTCCCT
66 GTAATTCTACT-TCCCT-GGCAACAGTGGAATAGATTGAAGATT-TCAGATCTTATCTCCCT
52936062 GCAGTTGCAG
Statistics
Matches: 865, Mismatches: 46, Indels: 12
0.94 0.05 0.01
Matches are distributed among these distances:
131 4 0.00
132 855 0.99
133 6 0.01
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (131 bp):
AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
GTAATTCTACTTCCCTGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG
T
Found at i:52935809 original size:44 final size:44
Alignment explanation
Indices: 52935629--52935948 Score: 124
Period size: 44 Copynumber: 7.3 Consensus size: 44
52935619 CTTGGACAAC
* *
52935629 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATGTCAGATCTTATCTCCCTAAGCAGT
* * * * * * * ** *
52935673 AGTGGAGCAGATCGGAGATGGCGGATTTTACCTCCCTGTGGTTA-T
1 AGTGGAGTAGATTGAAGATGTCAGATCTTATCTCCCT-AAG-CAGT
* * **
52935718 AGTGGAGTACATTGAAGCCA-GT-A-AT-TCTA-CTTCCCT-GGACAAC
1 AGTGGAGTAGATTGAAG--ATGTCAGATCT-TATC-TCCCTAAG-CAGT
* *
52935761 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATGTCAGATCTTATCTCCCTAAGCAGT
* * * * * * ** *
52935805 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTA-T
1 AGTGGAGTAGATTGAAGATGTCAGATCTTATCTCCCT-AAG-CAGT
* * ** **
52935850 AGTGGAGTACATTGAAGCTAGT-A-AT-TCTA-CTTCCCTGGGCAAC
1 AGTGGAGTAGATTGAAGAT-GTCAGATCT-TATC-TCCCTAAGCAGT
* * *
52935893 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGTAGT
1 AGTGGAGTAGATTGAAGATGTCAGATCTTATCTCCCTAAGCAGT
52935937 AGTGGAGTAGAT
1 AGTGGAGTAGAT
52935949 CGAATATGGT
Statistics
Matches: 196, Mismatches: 57, Indels: 46
0.66 0.19 0.15
Matches are distributed among these distances:
41 1 0.01
42 6 0.03
43 39 0.20
44 108 0.55
45 37 0.19
46 4 0.02
47 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (44 bp):
AGTGGAGTAGATTGAAGATGTCAGATCTTATCTCCCTAAGCAGT
Found at i:52936317 original size:19 final size:19
Alignment explanation
Indices: 52936290--52936343 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
52936280 AATTTCCGAG
*
52936290 GATACGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
52936309 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
52936328 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
52936344 AGATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:52936369 original size:22 final size:22
Alignment explanation
Indices: 52936303--52936366 Score: 80
Period size: 19 Copynumber: 3.0 Consensus size: 22
52936293 ACGCAATCTT
*
52936303 AGATATGATATGCAATCTT---
1 AGATATGATATGTAATCTTAGA
52936322 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTTAGA
*
52936344 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGTAATCTTAGA
52936367 GATTTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
19 18 0.46
22 8 0.21
23 13 0.33
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.39
Consensus pattern (22 bp):
AGATATGATATGTAATCTTAGA
Found at i:52936376 original size:22 final size:23
Alignment explanation
Indices: 52936332--52936376 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
52936322 AGATATGATA
*
52936332 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
52936355 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
52936377 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:52937737 original size:5 final size:5
Alignment explanation
Indices: 52937727--52937755 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
52937717 TTCTTCATTT
52937727 TTTCC TTTCC TTTCC TTTCC TTT-C TTTCC
1 TTTCC TTTCC TTTCC TTTCC TTTCC TTTCC
52937756 CATTTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (5 bp):
TTTCC
Found at i:52947638 original size:657 final size:657
Alignment explanation
Indices: 52945459--52948741 Score: 6498
Period size: 657 Copynumber: 5.0 Consensus size: 657
52945449 GATTCCTCGG
52945459 GTGCCATTTGGCCAATTTGGGTCTCAAAGCAGCATCAAAATGCACACTATCATTTATTAATGCAG
1 GTGCCATTTGGCCAATTTGGGTCTCAAAGCAGCATCAAAATGCACACTATCATTTATTAATGCAG
52945524 AGAACTAAAACTAACTAAAAACACGACAAAGACATCTAAATTGCTTGAAAATAAGCTCTTTAAGT
66 AGAACTAAAACTAACTAAAAACACGACAAAGACATCTAAATTGCTTGAAAATAAGCTCTTTAAGT
52945589 GTAATAGGGCACCTAATTTGACATATCAAATTATGATAGATCAATTCGTAACTAAAATGATGATT
131 GTAATAGGGCACCTAATTTGACATATCAAATTATGATAGATCAATTCGTAACTAAAATGATGATT
52945654 CCATGGTATGTCGATATTATCAATTATTTAGTTACTAAATCGCTACCTTATGAATTATTTAAGGC
196 CCATGGTATGTCGATATTATCAATTATTTAGTTACTAAATCGCTACCTTATGAATTATTTAAGGC
52945719 ACAAAAGGAAAAAAATCAAAAGCAAAACAAAATACTACGTTTGGGACAATCTATATTTGTGGAAG
261 ACAAAAGGAAAAAAATCAAAAGCAAAACAAAATACTACGTTTGGGACAATCTATATTTGTGGAAG
52945784 CACTGCATATAGAAGTACCTTCTTAAAGCGTTTTTTTTTGTCAATATCCTAATATATATAGATTG
326 CACTGCATATAGAAGTACCTTCTTAAAGCGTTTTTTTTTGTCAATATCCTAATATATATAGATTG
52945849 TTTTATGCAATATTATATTAGTGCCTCACCTCTTTGGCGCTCCTGCGTGCGATCTTGACACTTTT
391 TTTTATGCAATATTATATTAGTGCCTCACCTCTTTGGCGCTCCTGCGTGCGATCTTGACACTTTT
52945914 CGTCAACGTTTTACGCCATAAAATTTGAAAGTTTGGACCATGTTTGGCACCCCTACGTCGTGCTG
456 CGTCAACGTTTTACGCCATAAAATTTGAAAGTTTGGACCATGTTTGGCACCCCTACGTCGTGCTG
52945979 TATTGAACCTCGCTTGTGCCCTTGTGTCACCTCTGGTGCCCCTTTGCCATGTTGTATTGAACCTT
521 TATTGAACCTCGCTTGTGCCCTTGTGTCACCTCTGGTGCCCCTTTGCCATGTTGTATTGAACCTT
52946044 TCTGTTTAGCGGACGTCTTGACCTTAGTTCGAGAATTCTGTGCTCATATCATTGACTCTAACGAT
586 TCTGTTTAGCGGACGTCTTGACCTTAGTTCGAGAATTCTGTGCTCATATCATTGACTCTAACGAT
52946109 GAATTCT
651 GAATTCT
52946116 GTGCCATTTGGCCAATTTGGGTCTCAAAGCAGCATCAAAATGCACACTATCATTTATTAATGCAG
1 GTGCCATTTGGCCAATTTGGGTCTCAAAGCAGCATCAAAATGCACACTATCATTTATTAATGCAG
52946181 AGAACTAAAACTAACTAAAAACACGACAAAGACATCTAAATTGCTTGAAAATAAGCTCTTTAAGT
66 AGAACTAAAACTAACTAAAAACACGACAAAGACATCTAAATTGCTTGAAAATAAGCTCTTTAAGT
52946246 GTAATAGGGCACCTAATTTGACATATCAAATTATGATAGATCAATTCGTAACTAAAATGATGATT
131 GTAATAGGGCACCTAATTTGACATATCAAATTATGATAGATCAATTCGTAACTAAAATGATGATT
52946311 CCATGGTATGTCGATATTATCAATTATTTAGTTACTAAATCGCTACCTTATGAATTATTTAAGGC
196 CCATGGTATGTCGATATTATCAATTATTTAGTTACTAAATCGCTACCTTATGAATTATTTAAGGC
*
52946376 ACAAAAGG-AAAAAATCAAAAGCAAAACAAAATATTACGTTTGGGACAATCTATATTTGTGGAAG
261 ACAAAAGGAAAAAAATCAAAAGCAAAACAAAATACTACGTTTGGGACAATCTATATTTGTGGAAG
52946440 CACTGCATATAGAAGTACCTTCTTAAAGCGTTTTTTTTTGTCAATATCCTAATATATATAGATTG
326 CACTGCATATAGAAGTACCTTCTTAAAGCGTTTTTTTTTGTCAATATCCTAATATATATAGATTG
52946505 TTTTATGCAATATTATATTAGTGCCTCACCTCTTTGGCGCTCCTGCGTGCGATCTTGACACTTTT
391 TTTTATGCAATATTATATTAGTGCCTCACCTCTTTGGCGCTCCTGCGTGCGATCTTGACACTTTT
52946570 CGTCAACGTTTTACGCCATAAAATTTGAAAGTTTGGACCATGTTTGGCACCCCTACGTCGTGCTG
456 CGTCAACGTTTTACGCCATAAAATTTGAAAGTTTGGACCATGTTTGGCACCCCTACGTCGTGCTG
52946635 TATTGAACCTCGCTTGTGCCCTTGTGTCACCTCTGGTGCCCCTTTGCCATGTTGTATTGAACCTT
521 TATTGAACCTCGCTTGTGCCCTTGTGTCACCTCTGGTGCCCCTTTGCCATGTTGTATTGAACCTT
52946700 TCTGTTTAGCGGACGTCTTGACCTTAGTTCGAGAATTCTGTGCTCATATCATTGACTCTAACGAT
586 TCTGTTTAGCGGACGTCTTGACCTTAGTTCGAGAATTCTGTGCTCATATCATTGACTCTAACGAT
52946765 GAATTCT
651 GAATTCT
52946772 GTGCCATTTGGCCAATTTGGGTCTCAAAGCAGCATCAAAATGCACACTATCATTTATTAATGCAG
1 GTGCCATTTGGCCAATTTGGGTCTCAAAGCAGCATCAAAATGCACACTATCATTTATTAATGCAG
52946837 AGAACTAAAACTAACTAAAAACACGACAAAGACATCTAAATTGCTTGAAAATAAGCTCTTTAAGT
66 AGAACTAAAACTAACTAAAAACACGACAAAGACATCTAAATTGCTTGAAAATAAGCTCTTTAAGT
52946902 GTAATAGGGCACCTAATTTGACATATCAAATTATGATAGATCAATTCGTAACTAAAATGATGATT
131 GTAATAGGGCACCTAATTTGACATATCAAATTATGATAGATCAATTCGTAACTAAAATGATGATT
52946967 CCATGGTATGTCGATATTATCAATTATTTAGTTACTAAATCGCTACCTTATGAATTATTTAAGGC
196 CCATGGTATGTCGATATTATCAATTATTTAGTTACTAAATCGCTACCTTATGAATTATTTAAGGC
*
52947032 ACAAAAGGAAAAAAATCAAAAGCAAAACAAAATATTACGTTTGGGACAATCTATATTTGTGGAAG
261 ACAAAAGGAAAAAAATCAAAAGCAAAACAAAATACTACGTTTGGGACAATCTATATTTGTGGAAG
52947097 CACTGCATATAGAAGTACCTTCTTAAAGCGTTTTTTTTTGTCAATATCCTAATATATATAGATTG
326 CACTGCATATAGAAGTACCTTCTTAAAGCGTTTTTTTTTGTCAATATCCTAATATATATAGATTG
52947162 TTTTATGCAATATTATATTAGTGCCTCACCTCTTTGGCGCTCCTGCGTGCGATCTTGACACTTTT
391 TTTTATGCAATATTATATTAGTGCCTCACCTCTTTGGCGCTCCTGCGTGCGATCTTGACACTTTT
52947227 CGTCAACGTTTTACGCCATAAAATTTGAAAGTTTGGACCATGTTTGGCACCCCTACGTCGTGCTG
456 CGTCAACGTTTTACGCCATAAAATTTGAAAGTTTGGACCATGTTTGGCACCCCTACGTCGTGCTG
52947292 TATTGAACCTCGCTTGTGCCCTTGTGTCACCTCTGGTGCCCCTTTGCCATGTTGTATTGAACCTT
521 TATTGAACCTCGCTTGTGCCCTTGTGTCACCTCTGGTGCCCCTTTGCCATGTTGTATTGAACCTT
52947357 TCTGTTTAGCGGACGTCTTGACCTTAGTTCGAGAATTCTGTGCTCATATCATTGACTCTAACGAT
586 TCTGTTTAGCGGACGTCTTGACCTTAGTTCGAGAATTCTGTGCTCATATCATTGACTCTAACGAT
52947422 GAATTCT
651 GAATTCT
52947429 GTGCCATTTGGCCAATTTGGGTCTCAAAGCAGCATCAAAATGCACACTATCATTTATTAATGCAG
1 GTGCCATTTGGCCAATTTGGGTCTCAAAGCAGCATCAAAATGCACACTATCATTTATTAATGCAG
52947494 AGAACTAAAACTAACTAAAAACACGACAAAGACATCTAAATTGCTTGAAAATAAGCTCTTTAAGT
66 AGAACTAAAACTAACTAAAAACACGACAAAGACATCTAAATTGCTTGAAAATAAGCTCTTTAAGT
*
52947559 GTAATAGGGCACCTAATTTGACATATCAAATTATGATAGACCAATTCGTAACTAAAATGATGATT
131 GTAATAGGGCACCTAATTTGACATATCAAATTATGATAGATCAATTCGTAACTAAAATGATGATT
52947624 CCATGGTATGTCGATATTATCAATTATTTAGTTACTAAATCGCTACCTTATGAATTATTTAAGGC
196 CCATGGTATGTCGATATTATCAATTATTTAGTTACTAAATCGCTACCTTATGAATTATTTAAGGC
52947689 ACAAAAGGAAAAAAATCAAAAGCAAAACAAAATACTACGTTTGGGACAATCTATATTTGTGGAAG
261 ACAAAAGGAAAAAAATCAAAAGCAAAACAAAATACTACGTTTGGGACAATCTATATTTGTGGAAG
*
52947754 CACTGCATATAGAAGTACCTTTTTAAAGCGTTTTTTTTTGTCAATATCCTAATATATATAGATTG
326 CACTGCATATAGAAGTACCTTCTTAAAGCGTTTTTTTTTGTCAATATCCTAATATATATAGATTG
52947819 TTTTATGCAATATTATATTAGTGCCTCACCTCTTTGGCGCTCCTGCGTGCGATCTTGACACTTTT
391 TTTTATGCAATATTATATTAGTGCCTCACCTCTTTGGCGCTCCTGCGTGCGATCTTGACACTTTT
52947884 CGTCAACGTTTTACGCCATAAAATTTGAAAGTTTGGACCATGTTTGGCACCCCTACGTCGTGCTG
456 CGTCAACGTTTTACGCCATAAAATTTGAAAGTTTGGACCATGTTTGGCACCCCTACGTCGTGCTG
52947949 TATTGAACCTCGCTTGTGCCCTTGTGTCACCTCTGGTGCCCCTTTGCCATGTTGTATTGAACCTT
521 TATTGAACCTCGCTTGTGCCCTTGTGTCACCTCTGGTGCCCCTTTGCCATGTTGTATTGAACCTT
52948014 TCTGTTTAGCGGACGTCTTGACCTTAGTTCGAGAATTCTGTGCTCATATCATTGACTCTAACGAT
586 TCTGTTTAGCGGACGTCTTGACCTTAGTTCGAGAATTCTGTGCTCATATCATTGACTCTAACGAT
52948079 GAATTCT
651 GAATTCT
52948086 GTGCCATTTGGCCAATTTGGGTCTCAAAGCAGCATCAAAATGCACACTATCATTTATTAATGCAG
1 GTGCCATTTGGCCAATTTGGGTCTCAAAGCAGCATCAAAATGCACACTATCATTTATTAATGCAG
52948151 AGAACTAAAACTAACTAAAAACACGACAAAGACATCTAAATTGCTTGAAAATAAGCTCTTTAAGT
66 AGAACTAAAACTAACTAAAAACACGACAAAGACATCTAAATTGCTTGAAAATAAGCTCTTTAAGT
52948216 GTAATAGGGCACCTAATTTGACATATCAAATTATGATAGATCAATTCGTAACTAAAATGATGATT
131 GTAATAGGGCACCTAATTTGACATATCAAATTATGATAGATCAATTCGTAACTAAAATGATGATT
52948281 CCATGGTATGTCGATATTATCAATTATTTAGTTACTAAATCGCTACCTTATGAATTATTTAAGGC
196 CCATGGTATGTCGATATTATCAATTATTTAGTTACTAAATCGCTACCTTATGAATTATTTAAGGC
52948346 ACAAAAGGAAAAAAATCAAAAGCAAAACAAAATACTACGTTTGGGACAATCTATATTTGTGGAAG
261 ACAAAAGGAAAAAAATCAAAAGCAAAACAAAATACTACGTTTGGGACAATCTATATTTGTGGAAG
*
52948411 CACTGTATATAGAAGTACCTTCTTAAAGCG-TTTTTTTTGTCAATATCCTAATATATATAGATTG
326 CACTGCATATAGAAGTACCTTCTTAAAGCGTTTTTTTTTGTCAATATCCTAATATATATAGATTG
52948475 TTTTATGCAATATTATATTAGTGCCTCACCTCTTTGGCGCTCCTGCGTGCGATCTTGACACTTTT
391 TTTTATGCAATATTATATTAGTGCCTCACCTCTTTGGCGCTCCTGCGTGCGATCTTGACACTTTT
52948540 CGTCAACGTTTTACGCCATAAAATTTGAAAGTTTGGACCATGTTTGGCACCCCTACGTCGTGCTG
456 CGTCAACGTTTTACGCCATAAAATTTGAAAGTTTGGACCATGTTTGGCACCCCTACGTCGTGCTG
52948605 TATTGAACCTCGCTTGTGCCCTTGTGTCACCTCTGGTGCCCCTTTGCCATGTTGTATTGAACCTT
521 TATTGAACCTCGCTTGTGCCCTTGTGTCACCTCTGGTGCCCCTTTGCCATGTTGTATTGAACCTT
52948670 TCTGTTTAGCGGACGTCTTGACCTTAGTTCGAGAATTCTGTGCTCATATCATTGACTCTAACGAT
586 TCTGTTTAGCGGACGTCTTGACCTTAGTTCGAGAATTCTGTGCTCATATCATTGACTCTAACGAT
*
52948735 GACTTCT
651 GAATTCT
52948742 CTTGGGTTCG
Statistics
Matches: 2617, Mismatches: 8, Indels: 3
1.00 0.00 0.00
Matches are distributed among these distances:
656 955 0.36
657 1662 0.64
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.34
Consensus pattern (657 bp):
GTGCCATTTGGCCAATTTGGGTCTCAAAGCAGCATCAAAATGCACACTATCATTTATTAATGCAG
AGAACTAAAACTAACTAAAAACACGACAAAGACATCTAAATTGCTTGAAAATAAGCTCTTTAAGT
GTAATAGGGCACCTAATTTGACATATCAAATTATGATAGATCAATTCGTAACTAAAATGATGATT
CCATGGTATGTCGATATTATCAATTATTTAGTTACTAAATCGCTACCTTATGAATTATTTAAGGC
ACAAAAGGAAAAAAATCAAAAGCAAAACAAAATACTACGTTTGGGACAATCTATATTTGTGGAAG
CACTGCATATAGAAGTACCTTCTTAAAGCGTTTTTTTTTGTCAATATCCTAATATATATAGATTG
TTTTATGCAATATTATATTAGTGCCTCACCTCTTTGGCGCTCCTGCGTGCGATCTTGACACTTTT
CGTCAACGTTTTACGCCATAAAATTTGAAAGTTTGGACCATGTTTGGCACCCCTACGTCGTGCTG
TATTGAACCTCGCTTGTGCCCTTGTGTCACCTCTGGTGCCCCTTTGCCATGTTGTATTGAACCTT
TCTGTTTAGCGGACGTCTTGACCTTAGTTCGAGAATTCTGTGCTCATATCATTGACTCTAACGAT
GAATTCT
Found at i:52950023 original size:32 final size:32
Alignment explanation
Indices: 52949819--52950033 Score: 186
Period size: 32 Copynumber: 6.7 Consensus size: 32
52949809 TACGATAATG
* * *
52949819 TGATTGGCACAAAGCCATCAGTAGCAGTGA-TA
1 TGATCGGCACAAAGCCATCAGTAACGGT-ACTA
* **
52949851 TGATCGGCATACAA-CCATCAGTAACAATGA-TA
1 TGATCGGCACA-AAGCCATCAGTAACGGT-ACTA
* * * **
52949883 TGATTGGCACACAGCCATCAGTAACAGTAAAA
1 TGATCGGCACAAAGCCATCAGTAACGGTACTA
* * * *
52949915 TGATCGGCACAGAA-TCATCTGTAAAGGTAATA
1 TGATCGGCACA-AAGCCATCAGTAACGGTACTA
* *
52949947 TGATCAGCACAAAGCTATCAGTAACGGTACTA
1 TGATCGGCACAAAGCCATCAGTAACGGTACTA
*
52949979 TGATCGGCACAAAGCCGTCAGTAACGGTACTA
1 TGATCGGCACAAAGCCATCAGTAACGGTACTA
* *
52950011 TGATCGGTACAAAGTCATCAGTA
1 TGATCGGCACAAAGCCATCAGTA
52950034 GCATCGTAGC
Statistics
Matches: 150, Mismatches: 28, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
31 4 0.03
32 143 0.95
33 3 0.02
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22
Consensus pattern (32 bp):
TGATCGGCACAAAGCCATCAGTAACGGTACTA
Found at i:52950121 original size:27 final size:27
Alignment explanation
Indices: 52950077--52950136 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
52950067 AACAAAGCTG
* *
52950077 CCAGTAATAGTATATGTGGCCA-CGCCA
1 CCAGTAACAGTATATGTGG-CAGAGCCA
52950104 CCAGTAACAGTGAT-TGTGGCAGAGCCA
1 CCAGTAACAGT-ATATGTGGCAGAGCCA
52950131 CCAGTA
1 CCAGTA
52950137 TAATGCTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 2 0.07
27 25 0.86
28 2 0.07
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.20
Consensus pattern (27 bp):
CCAGTAACAGTATATGTGGCAGAGCCA
Found at i:52950236 original size:24 final size:23
Alignment explanation
Indices: 52950204--52950285 Score: 92
Period size: 24 Copynumber: 3.5 Consensus size: 23
52950194 GCATGCTCAG
52950204 AATCAGTCATTCAAATCACAAACA
1 AATCAGTCATTCAAA-CACAAACA
*
52950228 AATCAGTCATACCAAACACAAACA
1 AATCAGTCAT-TCAAACACAAACA
* * *
52950252 AATCAGTCATTTAACCACAGACA
1 AATCAGTCATTCAAACACAAACA
* *
52950275 AAACAATCATT
1 AATCAGTCATT
52950286 TGACCTCGAT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
23 18 0.36
24 28 0.56
25 4 0.08
ACGTcount: A:0.50, C:0.26, G:0.05, T:0.20
Consensus pattern (23 bp):
AATCAGTCATTCAAACACAAACA
Found at i:52954035 original size:83 final size:83
Alignment explanation
Indices: 52953948--52954202 Score: 483
Period size: 83 Copynumber: 3.1 Consensus size: 83
52953938 TTACAGTTTG
* *
52953948 GCCCCTTAAAAATTATAAAAATTTGATTCAATATTTTAAAATTTATAAAAAAATAAGCTATTAAA
1 GCCCCCTAAAAATTATAAAAATTTGATTTAATATTTTAAAATTTATAAAAAAATAAGCTATTAAA
52954013 AATTAAAATTTAATTTCT
66 AATTAAAATTTAATTTCT
52954031 GCCCCCTAAAAATTATAAAAATTTGATTTAATATTTTAAAATTTATAAAAAAATAAGCTATTAAA
1 GCCCCCTAAAAATTATAAAAATTTGATTTAATATTTTAAAATTTATAAAAAAATAAGCTATTAAA
*
52954096 AATTAAAATTTAATTTTT
66 AATTAAAATTTAATTTCT
52954114 GCCCCCTAAAAATTATAAAAATTTGATTTAATATTTTAAAATTTATAAAAAAATAAGCTATTAAA
1 GCCCCCTAAAAATTATAAAAATTTGATTTAATATTTTAAAATTTATAAAAAAATAAGCTATTAAA
52954179 AATTAAAATTTAATTTCT
66 AATTAAAATTTAATTTCT
52954197 GCCCCC
1 GCCCCC
52954203 CACAAAAATT
Statistics
Matches: 168, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 168 1.00
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (83 bp):
GCCCCCTAAAAATTATAAAAATTTGATTTAATATTTTAAAATTTATAAAAAAATAAGCTATTAAA
AATTAAAATTTAATTTCT
Found at i:52971225 original size:26 final size:23
Alignment explanation
Indices: 52971175--52971220 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
52971165 TTAAATTTTG
52971175 AATTATTTAGTAATAATATTTAA
1 AATTATTTAGTAATAATATTTAA
*
52971198 AATTATTTAGTGATAATATTTAA
1 AATTATTTAGTAATAATATTTAA
52971221 GAAAAATCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.48
Consensus pattern (23 bp):
AATTATTTAGTAATAATATTTAA
Found at i:52972448 original size:18 final size:20
Alignment explanation
Indices: 52972408--52972459 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
52972398 AAAATTACAA
*
52972408 AAATATTCAAAATAATTTTT
1 AAATATTCAAAATAATTTAT
52972428 AAAT-TTCAAAAT-ATTTAT
1 AAATATTCAAAATAATTTAT
*
52972446 AAAAATTCCAAAAT
1 AAATATT-CAAAAT
52972460 TTATTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 8 0.29
19 10 0.36
20 10 0.36
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATATTCAAAATAATTTAT
Found at i:52973185 original size:13 final size:14
Alignment explanation
Indices: 52973152--52973180 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
52973142 TTTATTTAAA
52973152 TTAATTT-AAATAT
1 TTAATTTAAAATAT
52973165 TTAATTTAAAATAT
1 TTAATTTAAAATAT
52973179 TT
1 TT
52973181 TTTTATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTAATTTAAAATAT
Found at i:52976253 original size:40 final size:41
Alignment explanation
Indices: 52976190--52976269 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 41
52976180 GAATAAAATG
*
52976190 TTTTATAATTTTTTAATAATTTTT-AATTTTTAA-AAATAGT
1 TTTTATAATTTTTTAAT-ATTTTTAAAATTTTAACAAATAGT
52976230 TTTTATAATTTTTTTGAAT-TTTTTAAAATTTTAACAAATA
1 TTTTATAA-TTTTTT-AATATTTTTAAAATTTTAACAAATA
52976270 ATTAAATACT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
40 13 0.37
41 14 0.40
42 8 0.23
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.59
Consensus pattern (41 bp):
TTTTATAATTTTTTAATATTTTTAAAATTTTAACAAATAGT
Found at i:52976259 original size:10 final size:10
Alignment explanation
Indices: 52976183--52976261 Score: 56
Period size: 10 Copynumber: 7.9 Consensus size: 10
52976173 TTTTAAAGAA
*
52976183 TAAAATGTTT
1 TAAAATTTTT
*
52976193 TATAATTTTT
1 TAAAATTTTT
52976203 TAATAA-TTTT
1 TAA-AATTTTT
52976213 T--AATTTTT
1 TAAAATTTTT
*
52976221 AAAAATAGTTTT
1 TAAAAT--TTTT
*
52976233 TATAATTTTT
1 TAAAATTTTT
**
52976243 TTGAATTTTT
1 TAAAATTTTT
52976253 TAAAATTTT
1 TAAAATTTT
52976262 AACAAATAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
7 2 0.04
8 4 0.08
10 37 0.70
11 2 0.04
12 8 0.15
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (10 bp):
TAAAATTTTT
Found at i:52979270 original size:33 final size:35
Alignment explanation
Indices: 52979232--52979328 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
52979222 ATGGTTATAT
52979232 TTAAATATTTAAAATATATTTTATATATT-C-TAA
1 TTAAATATTTAAAATATATTTTATATATTGCTTAA
* *
52979265 TTAAAT-TTTATAAATA-ATTAATATTTATTGCTTAA
1 TTAAATATTTA-AAATATATT-TTATATATTGCTTAA
*
52979300 --AAATATTTAAAATTTATATTTCATATATT
1 TTAAATATTTAAAA--TATATTTTATATATT
52979329 AAAAATATCA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
32 7 0.14
33 25 0.49
34 5 0.10
35 11 0.22
36 3 0.06
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (35 bp):
TTAAATATTTAAAATATATTTTATATATTGCTTAA
Found at i:52983033 original size:20 final size:20
Alignment explanation
Indices: 52983008--52983047 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
52982998 ACACAAATCC
*
52983008 TTACCA-CTTTCTATTCTCTA
1 TTACCACCTTCCT-TTCTCTA
52983028 TTACCACCTTCCTTTCTCTA
1 TTACCACCTTCCTTTCTCTA
52983048 AAAAAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.17, C:0.35, G:0.00, T:0.47
Consensus pattern (20 bp):
TTACCACCTTCCTTTCTCTA
Found at i:52985928 original size:16 final size:16
Alignment explanation
Indices: 52985907--52985938 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
52985897 TAGGCGATTT
52985907 CGAAAGATCTCAATTC
1 CGAAAGATCTCAATTC
52985923 CGAAAGATCTCAATTC
1 CGAAAGATCTCAATTC
52985939 AAATGGACAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (16 bp):
CGAAAGATCTCAATTC
Found at i:52990274 original size:29 final size:28
Alignment explanation
Indices: 52990242--52990309 Score: 64
Period size: 29 Copynumber: 2.4 Consensus size: 28
52990232 ATTAAATTTG
* *
52990242 AATTTTAAATCTAAAAGTTAAAAGGACTT
1 AATTTTAAATATAAAAG-TAAAAGGACTA
* * **
52990271 AATTCCTAAAAATAAAAGTATGAGGACTA
1 AATT-TTAAATATAAAAGTAAAAGGACTA
52990300 AATTTTAAAT
1 AATTTTAAAT
52990310 TTACAAAGAG
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
28 4 0.13
29 16 0.53
30 10 0.33
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.32
Consensus pattern (28 bp):
AATTTTAAATATAAAAGTAAAAGGACTA
Found at i:52990730 original size:38 final size:38
Alignment explanation
Indices: 52990679--52990756 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
52990669 TTTTAATTTC
52990679 AATATGTCACAGCAGATAATTTAACCAAAAAAAAAATT
1 AATATGTCACAGCAGATAATTTAACCAAAAAAAAAATT
*
52990717 AATATGTCACAGCAGATAATTTAACCAAAAAAAAATTT
1 AATATGTCACAGCAGATAATTTAACCAAAAAAAAAATT
52990755 AA
1 AA
52990757 CGGTGCTAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.55, C:0.13, G:0.08, T:0.24
Consensus pattern (38 bp):
AATATGTCACAGCAGATAATTTAACCAAAAAAAAAATT
Found at i:52991711 original size:29 final size:30
Alignment explanation
Indices: 52991650--52991713 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 30
52991640 TTATATCAAT
* *
52991650 AATTGGATCAAATCAAAATTTCATGTATAA
1 AATTGGATAAAATCAAAAGTTCATGTATAA
* *
52991680 AATTGTATAAAATC-AAAGTTCATTTATAA
1 AATTGGATAAAATCAAAAGTTCATGTATAA
52991709 AATTG
1 AATTG
52991714 CACATTAAGC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 18 0.60
30 12 0.40
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.36
Consensus pattern (30 bp):
AATTGGATAAAATCAAAAGTTCATGTATAA
Found at i:52994654 original size:316 final size:315
Alignment explanation
Indices: 52994045--52994660 Score: 1040
Period size: 315 Copynumber: 2.0 Consensus size: 315
52994035 ATCTCAATAA
* * * * *
52994045 ATTTTTGAATTGTCCGACTCCTTCAACAATGAAAGGAAAAGTAAATTACATCGGATTAAATTGTA
1 ATTTCTGAATTGTCCGACTCCTTCAACAATCAAAGAAAAAGCAAATTACATCGGATCAAATTGTA
*
52994110 TACCTCGTGCCAACATACAAAATTTAATTTATAGTAACTAGGGTTAAATCTAGTATCTATGGGTA
66 TACCTCGTGCCAACATACAAAATTTAATTTATAATAACTAGGGTTAAATCTAGTATCTATGGGTA
52994175 TCAAAATCATTGATCATATTTCTATCAACATTACCAAGACTAGATTAAGTGCAAATTAAATCCAC
131 TCAAAATCATTGATCATATTTCTATCAACATTACCAAGACTAGATTAAGTGCAAATTAAATCCAC
* * * * *
52994240 TTGATCATGACATAGAATATACTTAAATCTATCTTTAAAAGTATAAAATTTTAAGTTTATTTCAA
196 ATGATCATAACATAGAAGATACTTAAATCTATCCTTAAAAGTATAAAATTTTAAATTTATTTCAA
*
52994305 GTTTTATGTTTAAGATTTGATTCTATCCTAAATGGATTGAGATATGAGTGTTAAT
261 GTTTTATGTTTAAGATTCGATTCTATCCTAAATGGATTGAGATATGAGTGTTAAT
52994360 ATTTCTGAATTGTCCGACTCCTTCAACAATCAAAGAAAAAGCAAATTACATCGGATCAAATCT-T
1 ATTTCTGAATTGTCCGACTCCTTCAACAATCAAAGAAAAAGCAAATTACATCGGATCAAAT-TGT
* *
52994424 ATACCTCGTGCCAACATACAAAATTTAATTTGTAATAACTAGGGTTAGATCTTA-TATCTATGGG
65 ATACCTCGTGCCAACATACAAAATTTAATTTATAATAACTAGGGTTAAATC-TAGTATCTATGGG
*
52994488 TATCAAAATCATTGATCATATTTCTATCAAACATTACTAAGACTAGATTAAGTGCAAATTAAATC
129 TATCAAAATCATTGATCATATTTCTATC-AACATTACCAAGACTAGATTAAGTGCAAATTAAATC
52994553 CACATGATCATAACATTA-AAGATACTTAAATCTATCCTTAAAAGTATAAAATTTTAAATTTATT
193 CACATGATCATAACA-TAGAAGATACTTAAATCTATCCTTAAAAGTATAAAATTTTAAATTTATT
52994617 TCAAGTTTTATGTTTAAGATTCGATTCTATCCTAAATGGATTGA
257 TCAAGTTTTATGTTTAAGATTCGATTCTATCCTAAATGGATTGA
52994661 AAGTATAAAA
Statistics
Matches: 282, Mismatches: 15, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
315 143 0.51
316 137 0.49
317 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (315 bp):
ATTTCTGAATTGTCCGACTCCTTCAACAATCAAAGAAAAAGCAAATTACATCGGATCAAATTGTA
TACCTCGTGCCAACATACAAAATTTAATTTATAATAACTAGGGTTAAATCTAGTATCTATGGGTA
TCAAAATCATTGATCATATTTCTATCAACATTACCAAGACTAGATTAAGTGCAAATTAAATCCAC
ATGATCATAACATAGAAGATACTTAAATCTATCCTTAAAAGTATAAAATTTTAAATTTATTTCAA
GTTTTATGTTTAAGATTCGATTCTATCCTAAATGGATTGAGATATGAGTGTTAAT
Found at i:52994672 original size:67 final size:67
Alignment explanation
Indices: 52994593--52994727 Score: 270
Period size: 67 Copynumber: 2.0 Consensus size: 67
52994583 TCTATCCTTA
52994593 AAAGTATAAAATTTTAAATTTATTTCAAGTTTTATGTTTAAGATTCGATTCTATCCTAAATGGAT
1 AAAGTATAAAATTTTAAATTTATTTCAAGTTTTATGTTTAAGATTCGATTCTATCCTAAATGGAT
52994658 TG
66 TG
52994660 AAAGTATAAAATTTTAAATTTATTTCAAGTTTTATGTTTAAGATTCGATTCTATCCTAAATGGAT
1 AAAGTATAAAATTTTAAATTTATTTCAAGTTTTATGTTTAAGATTCGATTCTATCCTAAATGGAT
52994725 TG
66 TG
52994727 A
1 A
52994728 GATATATATG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.44
Consensus pattern (67 bp):
AAAGTATAAAATTTTAAATTTATTTCAAGTTTTATGTTTAAGATTCGATTCTATCCTAAATGGAT
TG
Found at i:53000745 original size:27 final size:27
Alignment explanation
Indices: 53000704--53001001 Score: 472
Period size: 27 Copynumber: 11.0 Consensus size: 27
53000694 AAATCACAAG
** *
53000704 AGAAATCTAAAGCTACTGAGTTGAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
53000731 AGAAATCTACTGCTACTGAGTTC-AGCA
1 AGAAATCTACTGCTACTGAG-TCGAGCA
53000758 AGAAATCTACTGCTACTGAGTCGAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
* *
53000785 AGAAATCTACTGTTACTGATTCGAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
53000812 AGAAATCTACTGCTACTGAGTCGAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
*
53000839 AGAAACCTACTGCTACTGAGTCGAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
*
53000866 AGAAATCTACTGCTACCGAGTCGAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
* * *
53000893 AGAAACCTACTGCTACCGAGTCAAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
*
53000920 AGAAATCTACTGCTACTGAGTCAAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
*
53000947 AGAAATCTACTGCTACTGAGTCAAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
53000974 AGAAATCTACTGCTACTGAGTCGAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
53001001 A
1 A
53001002 TAATTTGACC
Statistics
Matches: 254, Mismatches: 15, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
26 2 0.01
27 251 0.99
28 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.22
Consensus pattern (27 bp):
AGAAATCTACTGCTACTGAGTCGAGCA
Found at i:53007171 original size:24 final size:24
Alignment explanation
Indices: 53007133--53007179 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
53007123 CTCTTGCATC
* * *
53007133 GCCGCTGGTGTAAGCGCCGCCGTT
1 GCCGCTAGTGCAAGCGCCACCGTT
53007157 GCCGCTAGTGCAAGCGCCACCGT
1 GCCGCTAGTGCAAGCGCCACCGT
53007180 CGTCATATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.13, C:0.36, G:0.34, T:0.17
Consensus pattern (24 bp):
GCCGCTAGTGCAAGCGCCACCGTT
Found at i:53012322 original size:43 final size:43
Alignment explanation
Indices: 53012248--53012330 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
53012238 AATATATTAT
** *
53012248 TAAAACTAGATCAATGGATTAATTGTCTAAATATTTTTTTTAG
1 TAAAACTAGATCAATGGATTAACCGTCTAAATATATTTTTTAG
* * *
53012291 TAAAACTAGATTAATGGATTAGCCGTGTAAATATATTTTT
1 TAAAACTAGATCAATGGATTAACCGTCTAAATATATTTTT
53012331 GGTATGTCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.42
Consensus pattern (43 bp):
TAAAACTAGATCAATGGATTAACCGTCTAAATATATTTTTTAG
Found at i:53019932 original size:29 final size:29
Alignment explanation
Indices: 53019889--53019944 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
53019879 TTTGTTTCTT
* * *
53019889 TTTAATAGTATAGGGGCTAAATTGATCCA
1 TTTAATAATAGAGGGACTAAATTGATCCA
*
53019918 TTTAATAATAGAGGGACTAATTTGATC
1 TTTAATAATAGAGGGACTAAATTGATC
53019945 TGGTCACTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.36
Consensus pattern (29 bp):
TTTAATAATAGAGGGACTAAATTGATCCA
Found at i:53023808 original size:13 final size:13
Alignment explanation
Indices: 53023790--53023826 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
53023780 AAGGTCACTC
53023790 TTTTTTATTTCGT
1 TTTTTTATTTCGT
*
53023803 TTTTTTATTT-AT
1 TTTTTTATTTCGT
53023815 TTTTTTATTTCG
1 TTTTTTATTTCG
53023827 AAATACAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.11, C:0.05, G:0.05, T:0.78
Consensus pattern (13 bp):
TTTTTTATTTCGT
Found at i:53024510 original size:3 final size:3
Alignment explanation
Indices: 53024504--53024540 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
53024494 TTATTTAACC
*
53024504 TTA TTA TTA TTA TTA TTA CTA TTA TTAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
53024541 GTTTTATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:53028155 original size:6 final size:6
Alignment explanation
Indices: 53028144--53028170 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
53028134 ATTATTTTTA
53028144 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
53028171 CCTGTGTTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:53029551 original size:5 final size:5
Alignment explanation
Indices: 53029541--53029571 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
53029531 TTTCCCTTTC
53029541 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A
53029572 CTCGGAGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:53029844 original size:16 final size:17
Alignment explanation
Indices: 53029812--53029851 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
53029802 AAGTTTTATC
53029812 ATAAATATTTAAAATAA
1 ATAAATATTTAAAATAA
*
53029829 ATAAAT-TTTCAAATAA
1 ATAAATATTTAAAATAA
53029845 ATAAATA
1 ATAAATA
53029852 AAACAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAAATATTTAAAATAA
Found at i:53061999 original size:52 final size:51
Alignment explanation
Indices: 53061928--53062332 Score: 489
Period size: 52 Copynumber: 8.1 Consensus size: 51
53061918 ATCAAGTGAC
* *
53061928 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
53061980 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
53062026 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
53062077 AAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
53062124 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
53062176 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
53062222 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
53062273 AAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAGAGTG
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACA-AGTG
53062326 ATAAGTG
1 A-AAGTG
53062333 GCTACACTTA
Statistics
Matches: 303, Mismatches: 30, Indels: 39
0.81 0.08 0.10
Matches are distributed among these distances:
46 126 0.42
52 168 0.55
53 9 0.03
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:53062083 original size:98 final size:98
Alignment explanation
Indices: 53061914--53062333 Score: 741
Period size: 98 Copynumber: 4.3 Consensus size: 98
53061904 TTTGAGTACT
53061914 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
53061979 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
53062012 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
53062077 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
53062110 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
53062175 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* **
53062208 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* ** *
53062273 AAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
53062306 TCTGATCAAGAGACAGAGTGATAAGTGG
1 TCTGATCAAGTGACAAAGTGATAAGTGG
53062334 CTACACTTAT
Statistics
Matches: 309, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 309 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:53062339 original size:37 final size:37
Alignment explanation
Indices: 53062296--53062515 Score: 372
Period size: 37 Copynumber: 6.0 Consensus size: 37
53062286 GATAGCTTTA
* *
53062296 GCTACACTTATCTGATCAAGAGACAGAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
53062333 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
53062370 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
53062407 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
53062444 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
53062481 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
53062516 ATCATACGTA
Statistics
Matches: 175, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 11 0.06
36 4 0.02
37 160 0.91
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:53067172 original size:15 final size:16
Alignment explanation
Indices: 53067154--53067183 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
53067144 TTTTTTTTTC
53067154 TTCTTTTT-TTCTCCT
1 TTCTTTTTCTTCTCCT
53067169 TTCTTTTTCTTCTCC
1 TTCTTTTTCTTCTCC
53067184 ACAAAAACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (16 bp):
TTCTTTTTCTTCTCCT
Found at i:53070805 original size:12 final size:12
Alignment explanation
Indices: 53070788--53070812 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
53070778 GGTGTGCATT
53070788 CGGTTAACCGAC
1 CGGTTAACCGAC
53070800 CGGTTAACCGAC
1 CGGTTAACCGAC
53070812 C
1 C
53070813 CGAATTAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:53070985 original size:9 final size:9
Alignment explanation
Indices: 53070971--53071046 Score: 98
Period size: 9 Copynumber: 8.4 Consensus size: 9
53070961 TGGTTAAAAA
53070971 TTAACCGAT
1 TTAACCGAT
*
53070980 TTAACCTAT
1 TTAACCGAT
53070989 TTAACCGAT
1 TTAACCGAT
*
53070998 TTAATCGAT
1 TTAACCGAT
* *
53071007 TTAACTGAC
1 TTAACCGAT
53071016 TTAACCGAT
1 TTAACCGAT
* *
53071025 TTAATCGAC
1 TTAACCGAT
53071034 TTAACCGAT
1 TTAACCGAT
53071043 TTAA
1 TTAA
53071047 ATCACTATAT
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 55 1.00
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.37
Consensus pattern (9 bp):
TTAACCGAT
Found at i:53071101 original size:37 final size:37
Alignment explanation
Indices: 53071046--53071155 Score: 175
Period size: 37 Copynumber: 3.0 Consensus size: 37
53071036 AACCGATTTA
* * *
53071046 AATCACTATATAATTAAAAAAATTACACAAGTCTTTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
*
53071083 AATCACTACATAACTAAAAATATTACATAAGTCTTTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
*
53071120 AATCACTACATAATTAAAAATATTACATAGGTCTTT
1 AATCACTACATAATTAAAAATATTACATAAGTCTTT
53071156 AACACATAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.34
Consensus pattern (37 bp):
AATCACTACATAATTAAAAATATTACATAAGTCTTTG
Found at i:53071131 original size:20 final size:20
Alignment explanation
Indices: 53071069--53071132 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
53071059 TTAAAAAAAT
*
53071069 TACACAAGTCTTTGAATCAC
1 TACATAAGTCTTTGAATCAC
*** *
53071089 TACATAA--CTAAAAAT-AT
1 TACATAAGTCTTTGAATCAC
53071106 TACATAAGTCTTTGAATCAC
1 TACATAAGTCTTTGAATCAC
53071126 TACATAA
1 TACATAA
53071133 TTAAAAATAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 8 0.25
18 5 0.16
19 5 0.16
20 14 0.44
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (20 bp):
TACATAAGTCTTTGAATCAC
Found at i:53071411 original size:7 final size:7
Alignment explanation
Indices: 53071399--53071443 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
53071389 GTACAGAAGA
53071399 AAACATG
1 AAACATG
53071406 AAACATG
1 AAACATG
* **
53071413 CAGTATG
1 AAACATG
53071420 AAACATG
1 AAACATG
53071427 AAAACATG
1 -AAACATG
53071435 AAACATG
1 AAACATG
53071442 AA
1 AA
53071444 TTATTCTTGG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
7 24 0.77
8 7 0.23
ACGTcount: A:0.56, C:0.13, G:0.16, T:0.16
Consensus pattern (7 bp):
AAACATG
Found at i:53071625 original size:16 final size:16
Alignment explanation
Indices: 53071600--53071630 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53071590 ATCTCCCAAT
*
53071600 GTATTGATACTTTAAG
1 GTATTAATACTTTAAG
53071616 GTATTAATACTTTAA
1 GTATTAATACTTTAA
53071631 TGGTGATATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.45
Consensus pattern (16 bp):
GTATTAATACTTTAAG
Found at i:53085369 original size:48 final size:51
Alignment explanation
Indices: 53085310--53085405 Score: 126
Period size: 49 Copynumber: 1.9 Consensus size: 51
53085300 AAATAACTTC
** *
53085310 AAAAATGGTGTT-AAAATATTTTTAAAA-TGATCAAAAT-TAAAAAAATAT
1 AAAAATGGTGTTAAAAATAACTTTAAAATTGATAAAAATATAAAAAAATAT
* *
53085358 AAAAATTGTGTTAAAAATAACTTTAAAATTTATAAAAATATAAAAAAA
1 AAAAATGGTGTTAAAAATAACTTTAAAATTGATAAAAATATAAAAAAA
53085406 CAAAATAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
48 11 0.28
49 13 0.32
50 8 0.20
51 8 0.20
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.32
Consensus pattern (51 bp):
AAAAATGGTGTTAAAAATAACTTTAAAATTGATAAAAATATAAAAAAATAT
Found at i:53094606 original size:4 final size:4
Alignment explanation
Indices: 53094597--53094632 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
53094587 TTATTATTCT
53094597 CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA
53094633 ACTAGATGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:53096988 original size:31 final size:31
Alignment explanation
Indices: 53096953--53097020 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
53096943 AATCAGATTA
* *
53096953 ATTTATATTTTATATATCATTATATTAAATT
1 ATTTAAATCTTATATATCATTATATTAAATT
* * *
53096984 ATTTAAATCTTATTTATTATTATATTTAATT
1 ATTTAAATCTTATATATCATTATATTAAATT
53097015 -TTTAAA
1 ATTTAAA
53097021 ATTATTTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 6 0.19
31 26 0.81
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (31 bp):
ATTTAAATCTTATATATCATTATATTAAATT
Found at i:53096998 original size:36 final size:33
Alignment explanation
Indices: 53096958--53097033 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 33
53096948 GATTAATTTA
53096958 TATTTTATATATCATTATATTAAATTATTT-AAAT
1 TATTTTATATAT-ATTATATTAAATT-TTTAAAAT
* *
53096992 CT-TATT-TAT-TATTATATTTAATTTTTAAAAT
1 -TATTTTATATATATTATATTAAATTTTTAAAAT
53097023 TATTTTATATA
1 TATTTTATATA
53097034 CTATCAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
30 4 0.12
31 19 0.56
32 4 0.12
33 3 0.09
34 3 0.09
35 1 0.03
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (33 bp):
TATTTTATATATATTATATTAAATTTTTAAAAT
Found at i:53108539 original size:16 final size:16
Alignment explanation
Indices: 53108510--53108548 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
53108500 CCACCATTGA
*
53108510 ATTTTCTTTCTTTATT
1 ATTTTTTTTCTTTATT
53108526 -TTTTTTTTCATTTATT
1 ATTTTTTTTC-TTTATT
53108542 ATTTTTT
1 ATTTTTT
53108549 AACCCAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 8 0.40
16 6 0.30
17 6 0.30
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (16 bp):
ATTTTTTTTCTTTATT
Found at i:53108561 original size:20 final size:20
Alignment explanation
Indices: 53108538--53108601 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 20
53108528 TTTTTTCATT
53108538 TATTATTTTTTAACCCAAAA
1 TATTATTTTTTAACCCAAAA
**** **
53108558 TATTTATTTTTTTTTTC-ATT
1 TA-TTATTTTTTAACCCAAAA
53108578 TATTATTTTTTAACCCAAAA
1 TATTATTTTTTAACCCAAAA
53108598 TATT
1 TATT
53108602 GTAGCCACTT
Statistics
Matches: 30, Mismatches: 12, Indels: 4
0.65 0.26 0.09
Matches are distributed among these distances:
19 10 0.33
20 10 0.33
21 10 0.33
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTATTTTTTAACCCAAAA
Found at i:53108587 original size:39 final size:40
Alignment explanation
Indices: 53108520--53108601 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
53108510 ATTTTCTTTC
53108520 TTTATTTTTTTTTTCATTTATTATTTTTTAACCCAAAATA
1 TTTATTTTTTTTTTCATTTATTATTTTTTAACCCAAAATA
53108560 TTTATTTTTTTTTTCATTTATTATTTTTTAACCCAAAATA
1 TTTATTTTTTTTTTCATTTATTATTTTTTAACCCAAAATA
53108600 TT
1 TT
53108602 GTAGCCACTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (40 bp):
TTTATTTTTTTTTTCATTTATTATTTTTTAACCCAAAATA
Found at i:53109006 original size:44 final size:45
Alignment explanation
Indices: 53108911--53109007 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 45
53108901 GAATAGAAGC
* *
53108911 GTAATAGAATAGAGGTGTAATAGCAATTCAATTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGCAATTCAATTGTTTGGTTGAAT
* *
53108956 GTAATGGAATAGAGGCGTAATAG-TATTC-TTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAAT
53109000 -TGAATGGA
1 GT-AATGGA
53109008 GGTGTAATAG
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
43 2 0.04
44 23 0.50
45 21 0.46
ACGTcount: A:0.32, C:0.04, G:0.28, T:0.36
Consensus pattern (45 bp):
GTAATGGAATAGAGGCGTAATAGCAATTCAATTGTTTGGTTGAAT
Found at i:53109304 original size:18 final size:17
Alignment explanation
Indices: 53109283--53109317 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
53109273 TTATTATTAA
*
53109283 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
53109301 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
53109318 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:53109424 original size:18 final size:17
Alignment explanation
Indices: 53109403--53109437 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
53109393 TTATTATTAA
*
53109403 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
53109421 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
53109438 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:53109471 original size:120 final size:120
Alignment explanation
Indices: 53109144--53109702 Score: 1086
Period size: 120 Copynumber: 4.7 Consensus size: 120
53109134 TTAATCATAT
*
53109144 TTTAACATAATTATTATTAAAAATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
53109209 CAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAA-ATAA
66 CAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAATATAA
53109263 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
53109328 CAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAATATAA
53109383 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
*
53109448 CAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATATAATATAA
66 CAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAATATAA
53109503 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
53109568 CAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAATATAA
53109623 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
53109688 CAATATTCTTA-ATAA
66 CAATATTCTTATATAA
53109703 CCAATATTCT
Statistics
Matches: 436, Mismatches: 3, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
119 118 0.27
120 318 0.73
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.44
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
CAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAATATAA
Found at i:53109544 original size:18 final size:17
Alignment explanation
Indices: 53109523--53109557 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
53109513 TTATTATTAA
*
53109523 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
53109541 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
53109558 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:53109664 original size:18 final size:17
Alignment explanation
Indices: 53109643--53109677 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
53109633 TTATTATTAA
*
53109643 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
53109661 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
53109678 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:53109697 original size:16 final size:16
Alignment explanation
Indices: 53109676--53109718 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
53109666 ATTTAATAAA
*
53109676 ATTCTTAATAATCAAT
1 ATTCTTAATAACCAAT
53109692 ATTCTTAATAACCAAT
1 ATTCTTAATAACCAAT
53109708 ATTCTT-ATAAC
1 ATTCTTAATAAC
53109719 AAAAATTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 5 0.19
16 21 0.81
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTCTTAATAACCAAT
Found at i:53113785 original size:19 final size:19
Alignment explanation
Indices: 53113761--53113798 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
53113751 CCCAAATCAG
* *
53113761 AAAACAATAACAGAAAAAA
1 AAAACAACAAAAGAAAAAA
53113780 AAAACAACAAAAGAAAAAA
1 AAAACAACAAAAGAAAAAA
53113799 CCCTAGCCCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.82, C:0.11, G:0.05, T:0.03
Consensus pattern (19 bp):
AAAACAACAAAAGAAAAAA
Found at i:53114983 original size:27 final size:27
Alignment explanation
Indices: 53114947--53115004 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
53114937 ATTATCCTTA
*
53114947 TTTTATTTATGT-TTTCTTTCATTTTTAT
1 TTTTATTTATGTGTTTATTT-A-TTTTAT
*
53114975 TTTTA-TTATTTGTTTATTTATTTTAT
1 TTTTATTTATGTGTTTATTTATTTTAT
53115001 TTTT
1 TTTT
53115005 TTCTTTCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 10 0.37
27 6 0.22
28 11 0.41
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.78
Consensus pattern (27 bp):
TTTTATTTATGTGTTTATTTATTTTAT
Found at i:53114990 original size:17 final size:17
Alignment explanation
Indices: 53114970--53115002 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
53114960 TTCTTTCATT
53114970 TTTATTT-TTATTATTTG
1 TTTATTTATT-TTATTTG
53114987 TTTATTTATTTTATTT
1 TTTATTTATTTTATTT
53115003 TTTTCTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTATTTATTTTATTTG
Found at i:53115006 original size:8 final size:8
Alignment explanation
Indices: 53114968--53115006 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 8
53114958 TTTTCTTTCA
53114968 TTTTTATT
1 TTTTTATT
53114976 TTTATTATT
1 TTT-TTATT
*
53114985 TGTTTATT
1 TTTTTATT
53114993 TATTTTATT
1 T-TTTTATT
53115002 TTTTT
1 TTTTT
53115007 CTTTCTTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 13 0.48
9 14 0.52
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (8 bp):
TTTTTATT
Found at i:53115015 original size:17 final size:16
Alignment explanation
Indices: 53114947--53115015 Score: 50
Period size: 16 Copynumber: 4.2 Consensus size: 16
53114937 ATTATCCTTA
* *
53114947 TTTTATTTATGTTTTC
1 TTTTATTTTTTTTTTC
* *
53114963 TTTCATTTTTATTTT-
1 TTTTATTTTTTTTTTC
* * *
53114978 TATTATTTGTTTATTTA
1 TTTTATTT-TTTTTTTC
53114995 TTTTATTTTTTTCTTTC
1 TTTTATTTTTTT-TTTC
53115012 TTTT
1 TTTT
53115016 CTAAAAGTTT
Statistics
Matches: 40, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
15 6 0.15
16 20 0.50
17 14 0.35
ACGTcount: A:0.13, C:0.06, G:0.03, T:0.78
Consensus pattern (16 bp):
TTTTATTTTTTTTTTC
Found at i:53124657 original size:26 final size:26
Alignment explanation
Indices: 53124628--53124679 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
53124618 TTTTGGAAAA
*
53124628 ATTATTTTATGGAC-CATTTTTATTAT
1 ATTA-TTTATGGACTCATTTTAATTAT
*
53124654 ATTATTTATGGTCTCATTTTAATTAT
1 ATTATTTATGGACTCATTTTAATTAT
53124680 TTAATGACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.58
Consensus pattern (26 bp):
ATTATTTATGGACTCATTTTAATTAT
Found at i:53124673 original size:25 final size:27
Alignment explanation
Indices: 53124628--53124679 Score: 65
Period size: 25 Copynumber: 2.0 Consensus size: 27
53124618 TTTTGGAAAA
53124628 ATTATTTTATGGACCATTTTT-ATTAT
1 ATTATTTTATGGACCATTTTTAATTAT
*
53124654 ATTA-TTTATGGTCTCA-TTTTAATTAT
1 ATTATTTTATGGAC-CATTTTTAATTAT
53124680 TTAATGACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.58
Consensus pattern (27 bp):
ATTATTTTATGGACCATTTTTAATTAT
Found at i:53126557 original size:4 final size:4
Alignment explanation
Indices: 53126548--53126582 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
53126538 ATCAAAGATT
53126548 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
53126583 TATCTCTATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:53130400 original size:31 final size:31
Alignment explanation
Indices: 53130365--53130426 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
53130355 ACCCAATACT
53130365 TTAAATAAAAACTTTCAAATAGTTCAGTGAC
1 TTAAATAAAAACTTTCAAATAGTTCAGTGAC
* *
53130396 TTAAATGAAAACTTTCAAATAGTTTAGTGAC
1 TTAAATAAAAACTTTCAAATAGTTCAGTGAC
53130427 GATTGTGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (31 bp):
TTAAATAAAAACTTTCAAATAGTTCAGTGAC
Found at i:53138899 original size:22 final size:21
Alignment explanation
Indices: 53138874--53138956 Score: 62
Period size: 22 Copynumber: 3.8 Consensus size: 21
53138864 CATACATATG
*
53138874 TATACTAAAATAAAT-ATATACA
1 TATAATAAAA-AAATAAT-TACA
53138896 TATAAATAAAAAAATAATTACA
1 TAT-AATAAAAAAATAATTACA
* *
53138918 TATAA-ATAAATAATAATTATA
1 TATAATA-AAAAAATAATTACA
*
53138939 TTATACTACAAAAAATAA
1 -TATAATA-AAAAAATAA
53138957 ATATGCATAT
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
20 1 0.02
21 14 0.28
22 18 0.36
23 17 0.34
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (21 bp):
TATAATAAAAAAATAATTACA
Found at i:53138941 original size:26 final size:24
Alignment explanation
Indices: 53138880--53138941 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 24
53138870 TATGTATACT
53138880 AAAATAA-ATATATACATATAAATA
1 AAAATAATATAT-TACATATAAATA
53138904 AAAA-AATA-ATTACATATAAATA
1 AAAATAATATATTACATATAAATA
53138926 AATAATAATTATATTA
1 AA-AATAA-TATATTA
53138942 TACTACAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
22 14 0.42
23 6 0.18
24 7 0.21
25 2 0.06
26 4 0.12
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (24 bp):
AAAATAATATATTACATATAAATA
Found at i:53139042 original size:16 final size:16
Alignment explanation
Indices: 53139021--53139075 Score: 78
Period size: 16 Copynumber: 3.6 Consensus size: 16
53139011 ATAAAGAAAG
53139021 AATAAAAAAACTAATT
1 AATAAAAAAACTAATT
**
53139037 AAT-AAAAAA-TAAAG
1 AATAAAAAAACTAATT
53139051 AATAAAAAAACTAATT
1 AATAAAAAAACTAATT
53139067 AATAAAAAA
1 AATAAAAAA
53139076 TAAAGAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
14 6 0.18
15 12 0.36
16 15 0.45
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.20
Consensus pattern (16 bp):
AATAAAAAAACTAATT
Found at i:53139098 original size:34 final size:32
Alignment explanation
Indices: 53139002--53139100 Score: 130
Period size: 30 Copynumber: 3.0 Consensus size: 32
53138992 TTTTTAAAAA
* *
53139002 TAATTAAATATAAAGAAAGAATAAAAAAACTAAT
1 TAATAAAAAATAAAG-AA-AATAAAAAAACTAAT
53139036 TAATAAAAAATAAAG--AATAAAAAAACTAAT
1 TAATAAAAAATAAAGAAAATAAAAAAACTAAT
53139066 TAATAAAAAATAAAGAAAATGAAAAAAGACTAAT
1 TAATAAAAAATAAAGAAAAT-AAAAAA-ACTAAT
53139100 T
1 T
53139101 TGAACTGTAA
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
30 30 0.51
32 3 0.05
33 6 0.10
34 20 0.34
ACGTcount: A:0.70, C:0.03, G:0.06, T:0.21
Consensus pattern (32 bp):
TAATAAAAAATAAAGAAAATAAAAAAACTAAT
Found at i:53139647 original size:19 final size:19
Alignment explanation
Indices: 53139623--53139714 Score: 130
Period size: 19 Copynumber: 4.8 Consensus size: 19
53139613 AATCATATCG
53139623 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
53139642 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
** *
53139661 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
*
53139680 TCCAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
53139699 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
53139715 CCTGAAGGTT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 65 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:53142806 original size:22 final size:22
Alignment explanation
Indices: 53142790--53142842 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
53142780 TAATTTTGTC
*
53142790 ATTACTAATTTAAAATTTTATAA
1 ATTA-TAAATTAAAATTTTATAA
53142813 ATTATAAATTAAAATTTTATAA
1 ATTATAAATTAAAATTTTATAA
53142835 ATTATAAA
1 ATTATAAA
53142843 GGGCCTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 25 0.86
23 4 0.14
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
ATTATAAATTAAAATTTTATAA
Found at i:53145572 original size:23 final size:23
Alignment explanation
Indices: 53145542--53145586 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
53145532 ATTGATTCGA
*
53145542 ACTTATTCGAGTTGACTCGAATC
1 ACTTATTCGAATTGACTCGAATC
53145565 ACTTATTCGAATTGACTCGAAT
1 ACTTATTCGAATTGACTCGAAT
53145587 AGCTCGAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.36
Consensus pattern (23 bp):
ACTTATTCGAATTGACTCGAATC
Found at i:53153181 original size:25 final size:27
Alignment explanation
Indices: 53153132--53153191 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 27
53153122 AAAATTATTA
53153132 TAATTTTTAAAAAAATATAA-ATTTTG
1 TAATTTTTAAAAAAATATAATATTTTG
* * * *
53153158 -AATTTTTAAAAATATTTTATTTTTTG
1 TAATTTTTAAAAAAATATAATATTTTG
53153184 TAATTTTT
1 TAATTTTT
53153192 TTGAGAGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 16 0.57
26 5 0.18
27 7 0.25
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (27 bp):
TAATTTTTAAAAAAATATAATATTTTG
Found at i:53153596 original size:16 final size:16
Alignment explanation
Indices: 53153552--53153601 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
53153542 CTTAAAATGG
53153552 TAAAATTTT-AATTTA
1 TAAAATTTTAAATTTA
* *
53153567 -GACATTTTATAATTTA
1 TAAAATTTTA-AATTTA
*
53153583 TAAAATTTTAAATTAA
1 TAAAATTTTAAATTTA
53153599 TAA
1 TAA
53153602 TAATAAAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
14 6 0.22
16 14 0.52
17 7 0.26
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (16 bp):
TAAAATTTTAAATTTA
Found at i:53157097 original size:23 final size:23
Alignment explanation
Indices: 53157062--53157123 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
53157052 TATTTAATAT
* *
53157062 ATAAAATATATATTTGATTGAAA
1 ATAAAAAATATATTTGATTAAAA
* *
53157085 ATAAAAAAAATATATGATTAAAA
1 ATAAAAAATATATTTGATTAAAA
53157108 ATAAAAATATATATTT
1 ATAAAAA-ATATATTT
53157124 AATATATAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 26 0.81
24 6 0.19
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (23 bp):
ATAAAAAATATATTTGATTAAAA
Found at i:53157125 original size:20 final size:20
Alignment explanation
Indices: 53157045--53157125 Score: 65
Period size: 20 Copynumber: 3.7 Consensus size: 20
53157035 GGCCCATATT
*
53157045 AAATATATATTT-AATATATA
1 AAATATATATTTAAAAATA-A
53157065 AAATATATATTTGATTGAAAATAAA
1 AAATATATATTT-A---AAAAT-AA
*
53157090 AAAAATATATGATTAAAAATAA
1 AAATATATAT--TTAAAAATAA
53157112 AAATATATATTTAA
1 AAATATATATTTAA
53157126 TATATAATTC
Statistics
Matches: 50, Mismatches: 3, Indels: 16
0.72 0.04 0.23
Matches are distributed among these distances:
20 16 0.32
22 11 0.22
23 5 0.10
25 14 0.28
26 2 0.04
27 2 0.04
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (20 bp):
AAATATATATTTAAAAATAA
Found at i:53165286 original size:23 final size:23
Alignment explanation
Indices: 53165259--53165380 Score: 181
Period size: 23 Copynumber: 5.3 Consensus size: 23
53165249 AGTGTTATTG
*
53165259 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
53165282 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
53165305 AACAGTGGTAGTTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
53165328 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
53165351 AACAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
53165374 ATCAGTG
1 ATCAGTG
53165381 TATCACTTAT
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 87 1.00
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:53165314 original size:46 final size:46
Alignment explanation
Indices: 53165261--53165380 Score: 204
Period size: 46 Copynumber: 2.6 Consensus size: 46
53165251 TGTTATTGAT
*
53165261 CAGTGGTAGCTTCGGCTACGTTTCAGTGGTAGCTTCGGCTACATAA
1 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
*
53165307 CAGTGGTAGTTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
1 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
* *
53165353 CAGTGGTAGCTTCAGCTACATATCAGTG
1 CAGTGGTAGCTTCGGCTACATTTCAGTG
53165381 TATCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.31
Consensus pattern (46 bp):
CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
Found at i:53167172 original size:18 final size:18
Alignment explanation
Indices: 53167129--53167170 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
53167119 TATAATCGTG
53167129 TTTTAAATATAAGTAAAT
1 TTTTAAATATAAGTAAAT
*
53167147 TTTTAAATATAA-TTAAT
1 TTTTAAATATAAGTAAAT
53167164 TTTTAAA
1 TTTTAAA
53167171 ATTTATCCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
TTTTAAATATAAGTAAAT
Found at i:53168954 original size:15 final size:16
Alignment explanation
Indices: 53168924--53168954 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
53168914 ACGTTTCAAT
53168924 AATAAAAGGTTTGAAA
1 AATAAAAGGTTTGAAA
53168940 AATAAAAGG-TTGAAA
1 AATAAAAGGTTTGAAA
53168955 TTTCAGTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.58, C:0.00, G:0.19, T:0.23
Consensus pattern (16 bp):
AATAAAAGGTTTGAAA
Found at i:53170595 original size:21 final size:21
Alignment explanation
Indices: 53170571--53170664 Score: 62
Period size: 21 Copynumber: 4.5 Consensus size: 21
53170561 TGACTTAACC
*
53170571 GGTGGTGGTGGAGAATGGACA
1 GGTGGTGGTGGAGAATGAACA
* * * * *
53170592 GGTGGTGGAGGGGAGTAAACT
1 GGTGGTGGTGGAGAATGAACA
* * ** * *
53170613 GGTGCTGGTGGTGGCTTAACC
1 GGTGGTGGTGGAGAATGAACA
* *
53170634 GGTGGAGGTGGAGAATGGACA
1 GGTGGTGGTGGAGAATGAACA
53170655 GGTGGTGGTG
1 GGTGGTGGTG
53170665 AGGAGACAGG
Statistics
Matches: 51, Mismatches: 22, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.19, C:0.07, G:0.52, T:0.21
Consensus pattern (21 bp):
GGTGGTGGTGGAGAATGAACA
Found at i:53175388 original size:18 final size:18
Alignment explanation
Indices: 53175365--53175412 Score: 78
Period size: 18 Copynumber: 2.6 Consensus size: 18
53175355 GTTAGAATTT
*
53175365 TTAAAAATTGTAAAAAAA
1 TTAAAAATTATAAAAAAA
53175383 TTAAAAATTATAAAAAAA
1 TTAAAAATTATAAAAAAA
53175401 TTATAAAATTAT
1 TTA-AAAATTAT
53175413 GTAACAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 20 0.71
19 8 0.29
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (18 bp):
TTAAAAATTATAAAAAAA
Found at i:53177327 original size:321 final size:312
Alignment explanation
Indices: 53176800--53177449 Score: 1002
Period size: 321 Copynumber: 2.1 Consensus size: 312
53176790 TACGAAAAGA
*
53176800 AATAAAAAACG-AAA-ATAGTATATTTACTGAAAGTAATAAAATCCAAAAAAGAAAAAGAAAAAT
1 AATAAAATACGAAAATATAGTATATTTACTGAAAGTAATAAAATCC--AAAAGAAAAAGAAAAAT
* * *
53176863 ACAAACAAATGGCCAAAATAAGGGTTTTTCACTAAATTTATATTAAAAAACACTAAAATAATACA
64 ACAAACAAAGGGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAAACACAAAAATAATACA
53176928 TTTCAAACATTATGTACTAAAATAATATAAAATAAGAAAATAATATATTTTTTGAAAGTAATAAA
129 TTTCAAACATTATGTACTAAAATAATATAAAATAAGAAAATAATATATTTTTTGAAAGTAATAAA
*
53176993 ATCCGAAAATAAGAAAAATACGAACAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAA
194 ATCCGAAAATAAGAAAAATACGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATAT--A
* * *
53177058 AAAAAACACACTAAATTAATACATTTCAAACTTTATGTACTAAAATAATGTAAAAT
257 AAAAAACACACAAAAATAATACATTTCAAACTTTATGTACTAAAATAATATAAAAT
** * *
53177114 AATAAAATACGAAAATATAGTATATTTTTTGAAAGTAATAAAATCC-GAA-AATAAGAAAAATAC
1 AATAAAATACGAAAATATAGTATATTTACTGAAAGTAATAAAATCCAAAAGAAAAAGAAAAATAC
* *
53177177 GAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAATACACAAAAATAATACAT
66 AAACAAAGGGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAA-ACACAAAAATAATACAT
*
53177242 TTCAAACTTTATGTACTAAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTTGAAAG
130 TTCAAACATTATGTACTAAAATAATAT--AA-AAT---A-A-GAAAATAATATATTTTTTGAAAG
*
53177307 TAATAAAATCCGAAAATAAGAAAAATACGAATAAAGGGCCAAAATAAGGGTTTTTTACTAAATTT
187 TAATAAAATCCGAAAATAAGAAAAATACGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTT
*
53177372 ATATTAAAAAACACACAAAAATAATACATTTCAAACTTTATGTACTAAAATAATATAAAAT
252 ATATAAAAAAACACACAAAAATAATACATTTCAAACTTTATGTACTAAAATAATATAAAAT
53177433 AATAAAATACGAAAATA
1 AATAAAATACGAAAATA
53177450 GTATTTGTCG
Statistics
Matches: 308, Mismatches: 17, Indels: 17
0.90 0.05 0.05
Matches are distributed among these distances:
312 56 0.18
313 44 0.14
314 10 0.03
315 5 0.02
316 31 0.10
319 71 0.23
320 1 0.00
321 90 0.29
ACGTcount: A:0.55, C:0.09, G:0.08, T:0.28
Consensus pattern (312 bp):
AATAAAATACGAAAATATAGTATATTTACTGAAAGTAATAAAATCCAAAAGAAAAAGAAAAATAC
AAACAAAGGGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAAACACAAAAATAATACATT
TCAAACATTATGTACTAAAATAATATAAAATAAGAAAATAATATATTTTTTGAAAGTAATAAAAT
CCGAAAATAAGAAAAATACGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAA
AACACACAAAAATAATACATTTCAAACTTTATGTACTAAAATAATATAAAAT
Found at i:53177348 original size:158 final size:157
Alignment explanation
Indices: 53176800--53177449 Score: 983
Period size: 158 Copynumber: 4.1 Consensus size: 157
53176790 TACGAAAAGA
* * ** * *
53176800 AATAAAAAACGAAAATAGTATATTTACTGAAAGTAATAAAATCCAAAAAAGAAAAAGAAAAATAC
1 AATAAAATACGAAAATAATATATTTTTTGAAAGTAATAAAATCC---GAA-AATAAGAAAAATAC
* * * * *
53176865 AAACAAATGGCCAAAATAAGGGTTTTTCACTAAATTTATATTAAAAAACACTAAAATAATACATT
62 GAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACAAAAATAATACATT
*
53176930 TCAAACATTATGTACTAAAATAATAT--AA-
127 TCAAACTTTATGTACTAAAATAATATAAAAT
53176958 AAT---A-A-GAAAATAATATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAAC
1 AATAAAATACGAAAATAATATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAAC
* *
53177018 AAATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAAAACACACTAAATTAATACATT
66 AAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATAT--AAAAAAACACA--AAAATAATACATT
*
53177083 TCAAACTTTATGTACTAAAATAATGTAAAAT
127 TCAAACTTTATGTACTAAAATAATATAAAAT
53177114 AATAAAATACGAAAATATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGA
1 AATAAAATACGAAAATA-A-TATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGA
53177179 ACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAATACACAAAAATAATACATTT
64 ACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAA-ACACAAAAATAATACATTT
53177244 CAAACTTTATGTACTAAAATAATATAAAAT
128 CAAACTTTATGTACTAAAATAATATAAAAT
*
53177274 AATAAAATACGAAAATAATATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAAT
1 AATAAAATACGAAAATAATATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAAC
53177339 AAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATTAAAAAACACACAAAAATAATACATTTC
66 AAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATA-TAAAAAA-ACACAAAAATAATACATTTC
53177404 AAACTTTATGTACTAAAATAATATAAAAT
129 AAACTTTATGTACTAAAATAATATAAAAT
53177433 AATAAAATACGAAAATA
1 AATAAAATACGAAAATA
53177450 GTATTTGTCG
Statistics
Matches: 459, Mismatches: 17, Indels: 31
0.91 0.03 0.06
Matches are distributed among these distances:
149 52 0.11
150 2 0.00
151 9 0.02
153 67 0.15
154 1 0.00
155 3 0.01
156 3 0.01
158 85 0.19
159 75 0.16
160 60 0.13
161 13 0.03
162 6 0.01
163 83 0.18
ACGTcount: A:0.55, C:0.09, G:0.08, T:0.28
Consensus pattern (157 bp):
AATAAAATACGAAAATAATATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAAC
AAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACAAAAATAATACATTTCAA
ACTTTATGTACTAAAATAATATAAAAT
Found at i:53178352 original size:10 final size:9
Alignment explanation
Indices: 53178321--53178426 Score: 55
Period size: 9 Copynumber: 12.0 Consensus size: 9
53178311 TATGGGATTA
*
53178321 AAAATATGT
1 AAAATATAT
53178330 AAAATATAT
1 AAAATATAT
53178339 -AAATATTAT
1 AAAATA-TAT
53178348 AAAATA-AT
1 AAAATATAT
*
53178356 AATATATAT
1 AAAATATAT
**
53178365 ACATGTATAT
1 A-AAATATAT
**
53178375 ATATGTATAT
1 A-AAATATAT
53178385 AAAA-ACTAT
1 AAAATA-TAT
*
53178394 GAAATA-A-
1 AAAATATAT
53178401 AATAATA-AT
1 AA-AATATAT
53178410 AAAATATAT
1 AAAATATAT
53178419 AAAA-ATAT
1 AAAATATAT
53178427 GCATATGTAT
Statistics
Matches: 80, Mismatches: 8, Indels: 19
0.75 0.07 0.18
Matches are distributed among these distances:
7 1 0.01
8 27 0.34
9 29 0.36
10 23 0.29
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (9 bp):
AAAATATAT
Found at i:53178365 original size:17 final size:17
Alignment explanation
Indices: 53178322--53178365 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
53178312 ATGGGATTAA
*
53178322 AAATATGTAAAATATAT
1 AAATATATAAAATATAT
53178339 AAATATTATAAAATA-AT
1 AAATA-TATAAAATATAT
53178356 AATATATATA
1 AA-ATATATA
53178366 CATGTATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (17 bp):
AAATATATAAAATATAT
Found at i:53178509 original size:3 final size:3
Alignment explanation
Indices: 53178501--53178551 Score: 68
Period size: 3 Copynumber: 16.7 Consensus size: 3
53178491 CCTATAGGTG
*
53178501 TAA TAA TAA TATA TAA T-A TAA TTA TAA TAA TAA TAA TAA TAA TTAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
53178547 TAA TA
1 TAA TA
53178552 CAACAATAGT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 2 0.05
3 35 0.81
4 6 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:53179790 original size:13 final size:13
Alignment explanation
Indices: 53179765--53179808 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
53179755 TTCAAACTTT
*
53179765 ATATACTAAAATA
1 ATATACAAAAATA
53179778 ATATA-AAACAATA
1 ATATACAAA-AATA
*
53179791 AAATACAAAAATA
1 ATATACAAAAATA
53179804 ATATA
1 ATATA
53179809 TTTTTTGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 2 0.08
13 21 0.81
14 3 0.12
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (13 bp):
ATATACAAAAATA
Found at i:53180131 original size:160 final size:159
Alignment explanation
Indices: 53179648--53180176 Score: 871
Period size: 159 Copynumber: 3.3 Consensus size: 159
53179638 GGTCTTACAG
* *
53179648 TATTTTCTGAAAGTAATAAAATCTAAAAATAAGAAAAATACGAACAAATGGCCAAAATAAGGGTT
1 TATTTTTTGAAAGTAATAAAATCTAAAAATAAGAAAAATACGAACAAAGGGCCAAAATAAGGGTT
* *
53179713 TTTTACTAAAATTATATAAAAAAACACACTAAAATAATACATTTCAAACTTTATATACTAAAATA
66 TTTTACTAAATTTATATAAAAAAACACACTAAAATAATACATTTCAAACTTTATGTACTAAAATA
* * *
53179778 ATATAAAACAATAAAATACAAAAATAATA
131 ATATAAAATAATAAAATACGAAAATAGTA
53179807 TATTTTTTGAAAGTAATAAAATCTAAAAATAAGAAAAATACGAACAAAGGGCCAAAATAAGGGTT
1 TATTTTTTGAAAGTAATAAAATCTAAAAATAAGAAAAATACGAACAAAGGGCCAAAATAAGGG-T
* *
53179872 TTTTTACTAAATTTATAT-AAAAAATACACTAAAATAATACATTTCAAACATTATGTACTAAAAT
65 TTTTTACTAAATTTATATAAAAAAACACACTAAAATAATACATTTCAAACTTTATGTACTAAAAT
53179936 AATATAAAATAATAAAATACGAAAATAGTA
130 AATATAAAATAATAAAATACGAAAATAGTA
* * * *
53179966 TATTTTTTGAAAGTAATAAAATCTGAAAATAAGAAAAATACGAACAAAGGGCCAAAGTGATGGTT
1 TATTTTTTGAAAGTAATAAAATCTAAAAATAAGAAAAATACGAACAAAGGGCCAAAATAAGGGTT
* *
53180031 TTTTACTAAATTTATATAAAAAAAACACACTAAATTAATACATTTCAAACTTTATGTAATAAAAT
66 TTTTACTAAATTTATAT-AAAAAAACACACTAAAATAATACATTTCAAACTTTATGTACTAAAAT
*
53180096 AATATAAAATAATAAAATGCGAAAATAGTA
130 AATATAAAATAATAAAATACGAAAATAGTA
**
53180126 TATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAACAAAGGG
1 TATTTTTTGAAAGTAATAAAATCTAAAAATAAGAAAAATACGAACAAAGGG
53180177 GGTGCCGCCT
Statistics
Matches: 348, Mismatches: 19, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
158 19 0.05
159 190 0.55
160 139 0.40
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.29
Consensus pattern (159 bp):
TATTTTTTGAAAGTAATAAAATCTAAAAATAAGAAAAATACGAACAAAGGGCCAAAATAAGGGTT
TTTTACTAAATTTATATAAAAAAACACACTAAAATAATACATTTCAAACTTTATGTACTAAAATA
ATATAAAATAATAAAATACGAAAATAGTA
Found at i:53180433 original size:51 final size:48
Alignment explanation
Indices: 53180378--53180484 Score: 117
Period size: 51 Copynumber: 2.2 Consensus size: 48
53180368 CCCTTTGTTC
* * *
53180378 TTATTTTTTTTCGAATTTTATTACTTTCAGTAAATATAATATTTTCA-TTTT
1 TTATTTTTTTTAGAATTTTATT-CTTTCA-TAAACAT-AT-TTTTCAGTATT
* * *
53180429 TTATTTCTTTTAGTATTTTATTTTTTCATAAACATATTTTTCAGTATT
1 TTATTTTTTTTAGAATTTTATTCTTTCATAAACATATTTTTCAGTATT
53180477 TTATTTTT
1 TTATTTTT
53180485 AATACTATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
47 6 0.12
48 12 0.25
49 6 0.12
50 5 0.10
51 19 0.40
ACGTcount: A:0.25, C:0.07, G:0.04, T:0.64
Consensus pattern (48 bp):
TTATTTTTTTTAGAATTTTATTCTTTCATAAACATATTTTTCAGTATT
Done.