Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 57 of 325
Found at i:14948086 original size:16 final size:16
Alignment explanation
Indices: 14948065--14948095 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14948055 ATAATCCTAA
*
14948065 TAATTATCTTAATATT
1 TAATTATCCTAATATT
14948081 TAATTATCCTAATAT
1 TAATTATCCTAATAT
14948096 AAATAAAATG
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:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATTATCCTAATATT
Found at i:14952383 original size:6 final size:6
Alignment explanation
Indices: 14952372--14952396 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
14952362 TACATTAAAC
14952372 ATTTTA ATTTTA ATTTTA ATTTTA A
1 ATTTTA ATTTTA ATTTTA ATTTTA A
14952397 AATTAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
ATTTTA
Found at i:14952466 original size:2 final size:2
Alignment explanation
Indices: 14952459--14952491 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
14952449 AAGCTTAATG
14952459 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14952492 CCTTGTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14958066 original size:25 final size:25
Alignment explanation
Indices: 14958036--14958091 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
14958026 AACCCTCTTG
14958036 AGCATCCTATTAAATAGATCTTCCA
1 AGCATCCTATTAAATAGATCTTCCA
* * *
14958061 AGCATCCTATTAAATAGTTCTTGCG
1 AGCATCCTATTAAATAGATCTTCCA
14958086 AGCATC
1 AGCATC
14958092 TTGATCGGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.32
Consensus pattern (25 bp):
AGCATCCTATTAAATAGATCTTCCA
Found at i:14961968 original size:24 final size:23
Alignment explanation
Indices: 14961939--14962001 Score: 81
Period size: 24 Copynumber: 2.7 Consensus size: 23
14961929 AACCGAATTT
* * *
14961939 GCACACATAGTGCTTATTACACTC
1 GCACACATAGTGCATAGTAAAC-C
14961963 GCACACATAGTGCCATAGTAAACC
1 GCACACATAGTG-CATAGTAAACC
14961987 GCACACATAGTGCAT
1 GCACACATAGTGCAT
14962002 TGGATTTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
23 3 0.09
24 25 0.71
25 7 0.20
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (23 bp):
GCACACATAGTGCATAGTAAACC
Found at i:14963347 original size:17 final size:16
Alignment explanation
Indices: 14963303--14963362 Score: 59
Period size: 17 Copynumber: 3.7 Consensus size: 16
14963293 TTAATCACTT
*
14963303 TAATATTAAATTAATA
1 TAATATTAAATTAAAA
*
14963319 TAATATT-TATTAAAA
1 TAATATTAAATTAAAA
* *
14963334 TAAATATTAGATTAAATT
1 T-AATATTAAATTAAA-A
14963352 TAATATTAAAT
1 TAATATTAAAT
14963363 CTTATTAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
15 7 0.19
16 13 0.36
17 15 0.42
18 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (16 bp):
TAATATTAAATTAAAA
Found at i:14963406 original size:58 final size:59
Alignment explanation
Indices: 14963306--14963501 Score: 157
Period size: 68 Copynumber: 3.2 Consensus size: 59
14963296 ATCACTTTAA
* * * *
14963306 TATTAAATTAATATAATATTTATTAAAATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTATTAAAATAAACATTAAATTAAATTTAATATTAAATCT
* * *
14963365 TATTAAAATAATAGAATGTTTA-TCACATAAACATTAAATTAAATTTAATATTAAGGTAATCTAT
1 TATTAAAATAATAGAATATTTATTAAAATAAACATTAAATTAAATTTAATATT-A---AATC---
14963429 T
59 T
* * * ** *
14963430 TAACATTAAATTAATAAAATA-TTATTAAGATAAGTATTAAATTTAATTTAATATTAAA-C-
1 T---ATTAAAATAATAGAATATTTATTAAAATAAACATTAAATTAAATTTAATATTAAATCT
14963489 TATTAAAATAATA
1 TATTAAAATAATA
14963502 TTATTTTTGG
Statistics
Matches: 110, Mismatches: 16, Indels: 25
0.73 0.11 0.17
Matches are distributed among these distances:
56 11 0.10
58 26 0.24
59 21 0.19
62 4 0.04
63 1 0.01
64 2 0.02
65 2 0.02
67 4 0.04
68 39 0.35
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.42
Consensus pattern (59 bp):
TATTAAAATAATAGAATATTTATTAAAATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:14963444 original size:20 final size:18
Alignment explanation
Indices: 14963394--14963445 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 18
14963384 TTATCACATA
14963394 AACATTAAATTAA-ATTT
1 AACATTAAATTAATATTT
* **
14963411 AATATTAAGGTAATCTATTT
1 AACATTAAATTAA--TATTT
14963431 AACATTAAATTAATA
1 AACATTAAATTAATA
14963446 AAATATTATT
Statistics
Matches: 26, Mismatches: 6, Indels: 5
0.70 0.16 0.14
Matches are distributed among these distances:
17 10 0.38
18 2 0.08
20 14 0.54
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (18 bp):
AACATTAAATTAATATTT
Found at i:14967101 original size:15 final size:15
Alignment explanation
Indices: 14967070--14967098 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14967060 GAAATAATTT
14967070 TAAAAAGTATAAAAA
1 TAAAAAGTATAAAAA
14967085 TAAAAA-TATAAAAA
1 TAAAAAGTATAAAAA
14967099 ATATAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (15 bp):
TAAAAAGTATAAAAA
Found at i:14970888 original size:41 final size:41
Alignment explanation
Indices: 14970830--14970951 Score: 208
Period size: 41 Copynumber: 3.0 Consensus size: 41
14970820 GTTGGAATTA
* *
14970830 AAAAGGTCATGTTCGACTTAGGTGCATCTATTAATGTTATAC
1 AAAA-GTCATGTGCGACTTAGGTGCATCTATTAACGTTATAC
*
14970872 AAAAGTCATGTGCGACTTAGGTGCATCTATTAACATTATAC
1 AAAAGTCATGTGCGACTTAGGTGCATCTATTAACGTTATAC
14970913 AAAAGTCATGTGCGACTTAGGTGCATCTATTAACGTTAT
1 AAAAGTCATGTGCGACTTAGGTGCATCTATTAACGTTAT
14970952 GCCTTTGTCT
Statistics
Matches: 76, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
41 72 0.95
42 4 0.05
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.34
Consensus pattern (41 bp):
AAAAGTCATGTGCGACTTAGGTGCATCTATTAACGTTATAC
Found at i:14973957 original size:18 final size:16
Alignment explanation
Indices: 14973926--14973968 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 16
14973916 TCTTATTTAA
14973926 ATTAAATTAGAGTTCT
1 ATTAAATTAGAGTTCT
*
14973942 ATTATAATTAAGAGTTTT
1 ATTA-AATT-AGAGTTCT
14973960 ATTTAAATT
1 A-TTAAATT
14973969 TATTTAACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 4 0.17
17 4 0.17
18 12 0.52
19 3 0.13
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (16 bp):
ATTAAATTAGAGTTCT
Found at i:14976217 original size:14 final size:16
Alignment explanation
Indices: 14976198--14976230 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
14976188 GGCAACCCAT
14976198 ATTTATTT-ATTTT-A
1 ATTTATTTAATTTTGA
14976212 ATTTATTTAATTTTGA
1 ATTTATTTAATTTTGA
14976228 ATT
1 ATT
14976231 CAGTTTAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 5 0.29
16 4 0.24
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
ATTTATTTAATTTTGA
Found at i:14976613 original size:181 final size:182
Alignment explanation
Indices: 14976309--14976675 Score: 567
Period size: 181 Copynumber: 2.0 Consensus size: 182
14976299 GAGGCTATCT
* * * * * *
14976309 CTTTTCATGCAAAAATAAATCAGAATTGGATTTTTTTTGTGGCACGGGCACGCCTTGTGAAATTT
1 CTTTTCATGCAAAAATAAATCAAAATGGGATTTCTTTTGTGGCACGAGCACACCTTGTAAAATTT
*
14976374 CAGTGATGCCATTTGTTGAAACATACACCTAGGACCGAACCAACCAAAACTAACCCGAACTACCC
66 CAGTGATGCCATTTGTTGAAACATACACCTAGGACCGAACCAACCAAAACCAACCCGAACTACCC
* * *
14976439 AAACCACCCTCTGCTGAATTAAACATACA-TGGGAGTACACTTGACCCTTCC
131 AAACCACCCTCTACCGAATTAAACATACACGGGGAGTACACTTGACCCTTCC
*
14976490 CTTTTCATGTAAAAATAAATCAAAATGGGATTTCTTTTGTAGG-ACGAGCACACCTTGTAAAATT
1 CTTTTCATGCAAAAATAAATCAAAATGGGATTTCTTTTGT-GGCACGAGCACACCTTGTAAAATT
* ***
14976554 TCAGTGCTGCCATTTGTTGAAACATACACCTAGGACCGAACCAACCAGGTCCAACCCGAACTACC
65 TCAGTGATGCCATTTGTTGAAACATACACCTAGGACCGAACCAACCAAAACCAACCCGAACTACC
*
14976619 CAAACCACCCTCTACCGAATTAAACATACACGGGGAGTACACTTGACCCTTCT
130 CAAACCACCCTCTACCGAATTAAACATACACGGGGAGTACACTTGACCCTTCC
14976672 CTTT
1 CTTT
14976676 CTTATTGATT
Statistics
Matches: 168, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
181 142 0.85
182 26 0.15
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (182 bp):
CTTTTCATGCAAAAATAAATCAAAATGGGATTTCTTTTGTGGCACGAGCACACCTTGTAAAATTT
CAGTGATGCCATTTGTTGAAACATACACCTAGGACCGAACCAACCAAAACCAACCCGAACTACCC
AAACCACCCTCTACCGAATTAAACATACACGGGGAGTACACTTGACCCTTCC
Found at i:14980730 original size:3 final size:3
Alignment explanation
Indices: 14980722--14980750 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
14980712 TATACTTTCT
14980722 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
14980751 TTTTGTGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:14981005 original size:30 final size:31
Alignment explanation
Indices: 14980971--14981043 Score: 87
Period size: 32 Copynumber: 2.4 Consensus size: 31
14980961 TTTACTTAAA
* *
14980971 AAAAGTGATTTTGTA-AAT-TATTTTTGTCTC
1 AAAAGT-ATTTTATATAATATATTTTTATCTC
14981001 AAAAGTATTTTATATAATAATATTTTTATCTC
1 AAAAGTATTTTATATAAT-ATATTTTTATCTC
*
14981033 AAAAATATTTT
1 AAAAGTATTTT
14981044 TACCCTAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 7 0.19
30 9 0.24
32 21 0.57
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.49
Consensus pattern (31 bp):
AAAAGTATTTTATATAATATATTTTTATCTC
Found at i:14981041 original size:17 final size:17
Alignment explanation
Indices: 14980989--14981045 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 17
14980979 TTTTGTAAAT
* *
14980989 TATTTTTGTCTCAAAAG
1 TATTTTTATCTCAAAAA
* *
14981006 TA-TTTTATAT-AATAA
1 TATTTTTATCTCAAAAA
14981021 TATTTTTATCTCAAAAA
1 TATTTTTATCTCAAAAA
14981038 TATTTTTA
1 TATTTTTA
14981046 CCCTAAAAGT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
15 5 0.16
16 13 0.41
17 14 0.44
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.53
Consensus pattern (17 bp):
TATTTTTATCTCAAAAA
Found at i:14983070 original size:2 final size:2
Alignment explanation
Indices: 14983063--14983090 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14983053 TTATTTTTAA
14983063 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14983091 TTTTATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14994657 original size:2 final size:2
Alignment explanation
Indices: 14994650--14994678 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
14994640 TTGGTTTAAA
14994650 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14994679 ATAACACGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14995313 original size:6 final size:6
Alignment explanation
Indices: 14995302--14995361 Score: 61
Period size: 6 Copynumber: 10.3 Consensus size: 6
14995292 CTACTCAGCC
* * * *
14995302 TCTCCT TCTCCT TCTCCT TCTTCT TCTTC- TCTTCT T-TTCT TCTCCT
1 TCTCCT TCTCCT TCTCCT TCTCCT TCTCCT TCTCCT TCTCCT TCTCCT
*
14995348 TCTCTT TCTCCT TC
1 TCTCCT TCTCCT TC
14995362 ACTCACGGCC
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
5 10 0.21
6 38 0.79
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (6 bp):
TCTCCT
Found at i:14996257 original size:15 final size:15
Alignment explanation
Indices: 14996237--14996270 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
14996227 AGTTTTAAGT
14996237 TATAATTTTTATTAA
1 TATAATTTTTATTAA
14996252 TATAATTTTTATTAA
1 TATAATTTTTATTAA
14996267 TATA
1 TATA
14996271 GTGATGTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TATAATTTTTATTAA
Found at i:15000562 original size:13 final size:13
Alignment explanation
Indices: 15000528--15000562 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
15000518 AATACTTTTA
15000528 AAAAGTGTTGTGG
1 AAAAGTGTTGTGG
15000541 AAATA-TGTTGTGG
1 AAA-AGTGTTGTGG
15000554 AAAAGTGTT
1 AAAAGTGTT
15000563 TTTGAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 1 0.05
13 18 0.90
14 1 0.05
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (13 bp):
AAAAGTGTTGTGG
Found at i:15001457 original size:14 final size:14
Alignment explanation
Indices: 15001438--15001466 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
15001428 CATTGTTTTC
15001438 TACCTATTCCGTTT
1 TACCTATTCCGTTT
15001452 TACCTATTCCGTTT
1 TACCTATTCCGTTT
15001466 T
1 T
15001467 CTGTGTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.28, G:0.07, T:0.52
Consensus pattern (14 bp):
TACCTATTCCGTTT
Found at i:15005688 original size:16 final size:17
Alignment explanation
Indices: 15005654--15005696 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
15005644 TAATTTTTTA
*
15005654 AATATATTATTTTTGTAT
1 AATATTTTA-TTTTGTAT
*
15005672 ATTATTTTATTTT-TAT
1 AATATTTTATTTTGTAT
15005688 AATATTTTA
1 AATATTTTA
15005697 GTAAAAACCC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 11 0.50
17 4 0.18
18 7 0.32
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
AATATTTTATTTTGTAT
Found at i:15008373 original size:3 final size:3
Alignment explanation
Indices: 15008365--15008405 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
15008355 ACTCAACTGA
15008365 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
15008406 AGAGAAGAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:15009778 original size:14 final size:16
Alignment explanation
Indices: 15009752--15009785 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
15009742 ATTGTTTGGA
15009752 TATTGTATAATTTT-T
1 TATTGTATAATTTTGT
15009767 TATTGT-TAATTTTGT
1 TATTGTATAATTTTGT
15009782 TATT
1 TATT
15009786 ATTTTAGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.68
Consensus pattern (16 bp):
TATTGTATAATTTTGT
Found at i:15015382 original size:20 final size:19
Alignment explanation
Indices: 15015355--15015452 Score: 81
Period size: 20 Copynumber: 5.0 Consensus size: 19
15015345 TTGATGAACT
15015355 TGATTGCACTCTGGTGTCCC
1 TGATTGCACTCTGGTG-CCC
* * *
15015375 TAATTGCACTTTCGTGCCC
1 TGATTGCACTCTGGTGCCC
* *
15015394 TTGATTGCATTCAGGTGCCC
1 -TGATTGCACTCTGGTGCCC
* *
15015414 TGATTGCACTTTCGTGCCCC
1 TGATTGCACTCTGGTG-CCC
*
15015434 TGTTTGCACT-TAGGTGCCC
1 TGATTGCACTCT-GGTGCCC
15015453 ATATATGAAC
Statistics
Matches: 61, Mismatches: 14, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
19 19 0.31
20 42 0.69
ACGTcount: A:0.12, C:0.30, G:0.22, T:0.36
Consensus pattern (19 bp):
TGATTGCACTCTGGTGCCC
Found at i:15015425 original size:39 final size:39
Alignment explanation
Indices: 15015353--15015452 Score: 130
Period size: 39 Copynumber: 2.5 Consensus size: 39
15015343 TATTGATGAA
* *
15015353 CTTGATTGCACTCTGGTGTCCCTAATTGCACTTTCGTGCC
1 CTTGATTGCATTCAGGTG-CCCTAATTGCACTTTCGTGCC
*
15015393 CTTGATTGCATTCAGGTGCCCTGATTGCACTTTCGTGCC
1 CTTGATTGCATTCAGGTGCCCTAATTGCACTTTCGTGCC
* *
15015432 CCTGTTTGCACTT-AGGTGCCC
1 CTTGATTGCA-TTCAGGTGCCC
15015453 ATATATGAAC
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
39 36 0.67
40 18 0.33
ACGTcount: A:0.12, C:0.30, G:0.22, T:0.36
Consensus pattern (39 bp):
CTTGATTGCATTCAGGTGCCCTAATTGCACTTTCGTGCC
Found at i:15028982 original size:17 final size:17
Alignment explanation
Indices: 15028957--15028997 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
15028947 TATTTTTTTC
15028957 CACACGGGCGTGTGTGA
1 CACACGGGCGTGTGTGA
*
15028974 CACATGGGCGTGTGTGA
1 CACACGGGCGTGTGTGA
15028991 CACACGG
1 CACACGG
15028998 CTAAATACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.20, C:0.24, G:0.39, T:0.17
Consensus pattern (17 bp):
CACACGGGCGTGTGTGA
Found at i:15031779 original size:20 final size:20
Alignment explanation
Indices: 15031754--15031792 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15031744 AGGGACTAAA
*
15031754 ATGAAAAGTTATAAAATTTG
1 ATGAAAAATTATAAAATTTG
*
15031774 ATGAAAAATTCTAAAATTT
1 ATGAAAAATTATAAAATTT
15031793 TACGAATACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTATAAAATTTG
Found at i:15044695 original size:46 final size:45
Alignment explanation
Indices: 15044637--15044852 Score: 134
Period size: 46 Copynumber: 4.6 Consensus size: 45
15044627 ATTCGTGTGT
*
15044637 GAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCGACATTATAA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATTGGCGACA-TATAA
* * * *
15044683 GAGCCAGTGTAAGACCATGTCTGGGACGTCGCATCGGC-A-TTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCGACAT-ATA--A
* * * * * * * *
15044731 GGGCTAGTGTAAGACATGTTTGGGATATGCATCAGCCTCGAGACAT-A
1 GAGCCAGTGTAAGACATGTCTGGGACATGCAT-TG--GCGACATATAA
* * * *
15044778 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATTGGCGAC-ATATAA
* *
15044823 TAGTCAGTGTAAGACCATGTCTGGGACATG
1 GAGCCAGTGTAAGA-CATGTCTGGGACATG
15044853 GCATAAACAA
Statistics
Matches: 131, Mismatches: 25, Indels: 27
0.72 0.14 0.15
Matches are distributed among these distances:
43 2 0.02
44 3 0.02
45 3 0.02
46 58 0.44
47 42 0.32
48 20 0.15
49 1 0.01
50 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.23
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATTGGCGACATATAA
Found at i:15044888 original size:8 final size:8
Alignment explanation
Indices: 15044875--15044899 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
15044865 TACCCTATGC
15044875 TTCAATGG
1 TTCAATGG
15044883 TTCAATGG
1 TTCAATGG
15044891 TTCAATGG
1 TTCAATGG
15044899 T
1 T
15044900 GAAAGTTATA
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:0.12, G:0.24, T:0.40
Consensus pattern (8 bp):
TTCAATGG
Found at i:15048600 original size:46 final size:45
Alignment explanation
Indices: 15048533--15048790 Score: 174
Period size: 46 Copynumber: 5.6 Consensus size: 45
15048523 GACCATAAGC
*
15048533 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCACAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTT-GCATCCACAAGT
* *
15048579 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT-CTC---T
1 GAACTCGGACTCAACTCAACGAGCTCGGA---C--GTTGCATCCACAAGT
* ** *
15048625 CGAACTCGGA-TCAACTCAACGAGTTCGGAAATTTGCATCCATAAGT
1 -GAACTCGGACTCAACTCAACGAGCTCGG-ACGTTGCATCCACAAGT
* * * *
15048671 GAAGTCAGACTCAACTCAACGAGCTCGGACCTAGTTACAT-CTC---T
1 GAACTCGGACTCAACTCAACGAGCTCGGA-C--GTTGCATCCACAAGT
* * * ** *
15048715 CGAACTCGGACTCAATTCAACGAGTTCAGAAATTCGCATCCATAAGT
1 -GAACTCGGACTCAACTCAACGAGCTCGGACGTT-GCATCCACAAGT
*
15048762 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
15048791 TGCCCAAATA
Statistics
Matches: 162, Mismatches: 29, Indels: 42
0.70 0.12 0.18
Matches are distributed among these distances:
42 7 0.04
43 4 0.02
44 2 0.01
45 32 0.20
46 91 0.56
47 12 0.07
48 5 0.03
49 3 0.02
50 3 0.02
51 3 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTTGCATCCACAAGT
Found at i:15056329 original size:21 final size:21
Alignment explanation
Indices: 15056303--15056353 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
15056293 GACACGGGCG
15056303 TGTGCCCCTGTCACATGGGTA
1 TGTGCCCCTGTCACATGGGTA
* *
15056324 TGTGCCCTTGTCACATGGGTG
1 TGTGCCCCTGTCACATGGGTA
15056345 TGTGCCCCT
1 TGTGCCCCT
15056354 ATGTCAAGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.10, C:0.29, G:0.29, T:0.31
Consensus pattern (21 bp):
TGTGCCCCTGTCACATGGGTA
Found at i:15069604 original size:13 final size:13
Alignment explanation
Indices: 15069586--15069611 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15069576 TATTTATCAT
15069586 TGTAAATTTTATA
1 TGTAAATTTTATA
15069599 TGTAAATTTTATA
1 TGTAAATTTTATA
15069612 AAAGATTAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
TGTAAATTTTATA
Found at i:15069869 original size:3 final size:3
Alignment explanation
Indices: 15069861--15069894 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
15069851 ACTCTATAAA
15069861 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
15069895 TAATATTTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:15077916 original size:22 final size:23
Alignment explanation
Indices: 15077891--15077949 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
15077881 CAACCAAATC
15077891 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
15077913 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
15077936 ACA-TCATCACATAT
1 A-ATTCAT-ACATAT
15077950 CTAAAACCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 6 0.19
23 18 0.58
24 7 0.23
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.36
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:15085674 original size:22 final size:23
Alignment explanation
Indices: 15085649--15085694 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
15085639 CAACCAAATC
15085649 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
15085671 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
15085694 A
1 A
15085695 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:15085700 original size:23 final size:23
Alignment explanation
Indices: 15085656--15085700 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
15085646 ATCAATTCAA
*
15085656 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
15085679 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
15085701 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:15089821 original size:67 final size:67
Alignment explanation
Indices: 15089692--15089976 Score: 277
Period size: 67 Copynumber: 4.3 Consensus size: 67
15089682 AATAGCCCAA
* * * *
15089692 TACACATCATACCCCATGTTTAATGTCCTAGTGGACTCTCTATGTTGCCCTAGCCGAGCTATGGA
1 TACACATCATACCCCATGTTTAATGTCCTAGTGGACTCTCTATGTTGCCATAACCAAGCTATGGT
*
15089757 GT
66 CT
* * * *
15089759 TACACATCATACCCCATGTTTGATATCCTAGTGGACTCTCTATGCTGCCATAACCAAACTATGGT
1 TACACATCATACCCCATGTTTAATGTCCTAGTGGACTCTCTATGTTGCCATAACCAAGCTATGGT
15089824 CT
66 CT
* * * * * * * * *
15089826 TAAAAATCATATCCCATGTTTAATGTCCTCGCGGACTATCTATATTGCTATAATCAAGCTATGGT
1 TACACATCATACCCCATGTTTAATGTCCTAGTGGACTCTCTATGTTGCCATAACCAAGCTATGGT
15089891 CT
66 CT
* * * * * * *
15089893 TACATATCATACCCTATATTTAATGTCCTCA-TGGACTCTAT-TAGTTGCTATAGCCGAGCTATG
1 TACACATCATACCCCATGTTTAATGTCCT-AGTGGACTCTCTAT-GTTGCCATAACCAAGCTATG
*
15089956 GTTT
64 GTCT
* * *
15089960 TTCACATTAAACCCCAT
1 TACACATCATACCCCAT
15089977 TACAACCCAT
Statistics
Matches: 175, Mismatches: 41, Indels: 4
0.80 0.19 0.02
Matches are distributed among these distances:
66 1 0.01
67 174 0.99
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (67 bp):
TACACATCATACCCCATGTTTAATGTCCTAGTGGACTCTCTATGTTGCCATAACCAAGCTATGGT
CT
Found at i:15096282 original size:44 final size:44
Alignment explanation
Indices: 15096233--15096332 Score: 155
Period size: 44 Copynumber: 2.3 Consensus size: 44
15096223 TGTCGGAGGT
*
15096233 AGGTCTTATACTGACACGCTACAAGCTAACGCCATGTCCCAGAC
1 AGGTCTTACACTGACACGCTACAAGCTAACGCCATGTCCCAGAC
* * *
15096277 AGGTCTTACATTGACACGCTACAAGCTGACGCCATGTCCCAGAT
1 AGGTCTTACACTGACACGCTACAAGCTAACGCCATGTCCCAGAC
*
15096321 AGGTTTTACACT
1 AGGTCTTACACT
15096333 AGCTTGTATA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (44 bp):
AGGTCTTACACTGACACGCTACAAGCTAACGCCATGTCCCAGAC
Found at i:15096438 original size:94 final size:94
Alignment explanation
Indices: 15096309--15096523 Score: 281
Period size: 94 Copynumber: 2.3 Consensus size: 94
15096299 AAGCTGACGC
* * * * *
15096309 CATGTCCCAGATAGGTTTTACACTAGCTTGTATATCGCGAGGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTAGTATATCGCGAGACCGATGCATGTCCCAGACATGTC
* *
15096374 TTACACTAGCTCTCGTCTCAAT-GCTGATG
66 TTACACTAGCTCTCATAT-AATGGCTGATG
* *
15096403 CATGTCCCAGACATGTCTTACACTGGCCTAG-ATATCTCGAGACCGATGCATGTCCCAGACATGT
1 CATGTCCCAGACATGTCTTACACTAG-CTAGTATATCGCGAGACCGATGCATGTCCCAGACATGT
* **
15096467 CTTATACTAGCTCTCATATTGTGGCTGATG
65 CTTACACTAGCTCTCATATAATGGCTGATG
*
15096497 CATGTCCCATACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
15096524 ACACATATCA
Statistics
Matches: 105, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
93 2 0.02
94 100 0.95
95 3 0.03
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (94 bp):
CATGTCCCAGACATGTCTTACACTAGCTAGTATATCGCGAGACCGATGCATGTCCCAGACATGTC
TTACACTAGCTCTCATATAATGGCTGATG
Found at i:15096470 original size:48 final size:48
Alignment explanation
Indices: 15096309--15096523 Score: 228
Period size: 46 Copynumber: 4.6 Consensus size: 48
15096299 AAGCTGACGC
* * * *
15096309 CATGTCCCAGATAGGTTTTACACTAGCT-TGTATATCGCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTG-ATATCTCGAGGCCGATG
* * *
15096357 CATGTCCCAGACATGTCTTACACTAGCTCTCG---TCTCAATGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT-GATATCTCGAGGCCGATG
* *
15096403 CATGTCCCAGACATGTCTTACACTGGC-CTAGATATCTCGAGACCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT-GATATCTCGAGGCCGATG
* * * *
15096451 CATGTCCCAGACATGTCTTATACTAGCTCTCATAT-T-GTGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTGATATCTCGAGGCCGATG
*
15096497 CATGTCCCATACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
15096524 ACACATATCA
Statistics
Matches: 140, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
45 3 0.02
46 68 0.49
47 1 0.01
48 64 0.46
49 3 0.02
50 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTGATATCTCGAGGCCGATG
Found at i:15097380 original size:67 final size:67
Alignment explanation
Indices: 15097301--15097436 Score: 272
Period size: 67 Copynumber: 2.0 Consensus size: 67
15097291 ACATGAGAGA
15097301 AAAACAAAATATCATTCTCTCCTTATTCAATTTTATTTTTAACCAATTTAGTCATCAAAACCCTG
1 AAAACAAAATATCATTCTCTCCTTATTCAATTTTATTTTTAACCAATTTAGTCATCAAAACCCTG
15097366 CT
66 CT
15097368 AAAACAAAATATCATTCTCTCCTTATTCAATTTTATTTTTAACCAATTTAGTCATCAAAACCCTG
1 AAAACAAAATATCATTCTCTCCTTATTCAATTTTATTTTTAACCAATTTAGTCATCAAAACCCTG
15097433 CT
66 CT
15097435 AA
1 AA
15097437 CCTAGTCAAC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 69 1.00
ACGTcount: A:0.37, C:0.22, G:0.03, T:0.38
Consensus pattern (67 bp):
AAAACAAAATATCATTCTCTCCTTATTCAATTTTATTTTTAACCAATTTAGTCATCAAAACCCTG
CT
Found at i:15102895 original size:9 final size:9
Alignment explanation
Indices: 15102881--15102911 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
15102871 TACGCATAGT
15102881 AAAAACAAA
1 AAAAACAAA
15102890 AAAAACAAA
1 AAAAACAAA
15102899 AAAAA-AAA
1 AAAAACAAA
15102907 AAAAA
1 AAAAA
15102912 GGCAGGGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.94, C:0.06, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAACAAA
Found at i:15105208 original size:16 final size:15
Alignment explanation
Indices: 15105176--15105216 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
15105166 TGGTTTTGAG
15105176 TTAGGG-TTT-AGGT
1 TTAGGGTTTTAAGGT
15105189 TTAGGGTTTTAAGAGT
1 TTAGGGTTTTAAG-GT
15105205 TTAGGGTTTTAA
1 TTAGGGTTTTAA
15105217 TATTTTTAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.24
14 3 0.12
15 2 0.08
16 14 0.56
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (15 bp):
TTAGGGTTTTAAGGT
Found at i:15105266 original size:26 final size:28
Alignment explanation
Indices: 15105229--15105301 Score: 96
Period size: 30 Copynumber: 2.6 Consensus size: 28
15105219 TTTTTAAGGG
15105229 AAAAATTAATTAAATTAGGGTTGAGGGTT
1 AAAAA-TAATTAAATTAGGGTTGAGGGTT
15105258 AAAAAATTAATTAAATTAGGGTTGAGGGTT
1 -AAAAA-TAATTAAATTAGGGTTGAGGGTT
*
15105288 --AATTAATTAAATTA
1 AAAAATAATTAAATTA
15105302 ACTATTAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
26 11 0.26
27 2 0.05
30 29 0.69
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.36
Consensus pattern (28 bp):
AAAAATAATTAAATTAGGGTTGAGGGTT
Found at i:15105297 original size:30 final size:30
Alignment explanation
Indices: 15105229--15105289 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
15105219 TTTTTAAGGG
15105229 AAAAATTAATTAAATTAGGGTTGAGGGTTA
1 AAAAATTAATTAAATTAGGGTTGAGGGTTA
15105259 AAAAATTAATTAAATTAGGGTTGAGGGTTA
1 AAAAATTAATTAAATTAGGGTTGAGGGTTA
15105289 A
1 A
15105290 TTAATTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.44, C:0.00, G:0.23, T:0.33
Consensus pattern (30 bp):
AAAAATTAATTAAATTAGGGTTGAGGGTTA
Found at i:15105412 original size:56 final size:54
Alignment explanation
Indices: 15105256--15105429 Score: 251
Period size: 55 Copynumber: 3.1 Consensus size: 54
15105246 GGGTTGAGGG
* *
15105256 TTAAAAAATTAATTAAATTAGGGTTGAGGGTTAATTAATTAAATTAACTATTAAT
1 TTAAAAAATCAATTAAATTAGGGTTTAGGGTT-ATTAATTAAATTAACTATTAAT
*
15105311 TTAAAAAATCTATTAAATTAGGGTTTAGGGTTTATTAATTAAATTAACTATTAAT
1 TTAAAAAATCAATTAAATTAGGGTTTAGGG-TTATTAATTAAATTAACTATTAAT
* *
15105366 TTAAAAGAATCAATTAAATTAGGGTTTAGGGTTATTAGGGTT-AATTAATTATTAAT
1 TTAAAA-AATCAATTAAATTAGGGTTTAGGGTTATTA--ATTAAATTAACTATTAAT
15105422 TTAAAAAA
1 TTAAAAAA
15105430 ATTAATATAT
Statistics
Matches: 109, Mismatches: 6, Indels: 8
0.89 0.05 0.07
Matches are distributed among these distances:
55 63 0.58
56 44 0.40
57 2 0.02
ACGTcount: A:0.44, C:0.02, G:0.13, T:0.41
Consensus pattern (54 bp):
TTAAAAAATCAATTAAATTAGGGTTTAGGGTTATTAATTAAATTAACTATTAAT
Found at i:15105685 original size:125 final size:126
Alignment explanation
Indices: 15105463--15105719 Score: 349
Period size: 125 Copynumber: 2.0 Consensus size: 126
15105453 TTTTTATTGT
* * *
15105463 AGTAGTATTAGAGAAAATAATTTTGAGAAGACATTTCTGAATAAATAGTGTCAAAAACGCTTCAA
1 AGTAGTATTAGAAAAAATAATTTTGAAAAGACATTTCTGAACAAATAGTGTCAAAAACGCTTCAA
* * * *
15105528 GCAGGATGCACTATCAGTAAAATTATGG-AAAAAGCTCTC-ACGTAGACGCTCTTTTGCTAC
66 GCAGGATGCACTACCAGCAAAATTACGGAAAAAAGCTC-CAACGTAGACACTCTTTTGCTAC
* * *
15105588 AGTAGTATCT-GAAAAAATAATTTTGAAAAGACGTTTCTGAACAAATAGTGTCCAAAACGCTTTA
1 AGTAGTAT-TAGAAAAAATAATTTTGAAAAGACATTTCTGAACAAATAGTGTCAAAAACGCTTCA
* * * *
15105652 AGCAGTATGCACTGCCAGCAAAATTACGGAAAAAAGCTCCAACGTGGGCACTCTTTTGCTAC
65 AGCAGGATGCACTACCAGCAAAATTACGGAAAAAAGCTCCAACGTAGACACTCTTTTGCTAC
15105714 AGTAGT
1 AGTAGT
15105720 TACTATTTGA
Statistics
Matches: 115, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
125 81 0.70
126 34 0.30
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.27
Consensus pattern (126 bp):
AGTAGTATTAGAAAAAATAATTTTGAAAAGACATTTCTGAACAAATAGTGTCAAAAACGCTTCAA
GCAGGATGCACTACCAGCAAAATTACGGAAAAAAGCTCCAACGTAGACACTCTTTTGCTAC
Found at i:15109068 original size:21 final size:20
Alignment explanation
Indices: 15109040--15109084 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
15109030 GCTTCCGGTA
*
15109040 AGGGTTGTGGTTGCTCTGGT
1 AGGGTTGTGGTTGCTCTGGC
*
15109060 AGGGATTGTGGTTTCTCTGGC
1 AGGG-TTGTGGTTGCTCTGGC
15109081 AGGG
1 AGGG
15109085 GATCTGGCTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.09, C:0.11, G:0.44, T:0.36
Consensus pattern (20 bp):
AGGGTTGTGGTTGCTCTGGC
Found at i:15111169 original size:9 final size:10
Alignment explanation
Indices: 15111142--15111192 Score: 66
Period size: 11 Copynumber: 4.7 Consensus size: 10
15111132 TTGACAAAAA
15111142 TTGAGAGAAAT
1 TTGAGAG-AAT
15111153 TTGAGAGAAT
1 TTGAGAGAAT
15111163 TTGGAGAGAAT
1 TT-GAGAGAAT
15111174 TTAGAGAGAAT
1 TT-GAGAGAAT
15111185 TATGAGAG
1 T-TGAGAG
15111193 GACTATTGTG
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
10 5 0.14
11 31 0.84
12 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.31, T:0.27
Consensus pattern (10 bp):
TTGAGAGAAT
Found at i:15114876 original size:41 final size:41
Alignment explanation
Indices: 15114831--15114948 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
15114821 TGAAAGATAA
15114831 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
15114872 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
15114902 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
15114943 ATGTAG
1 ATGTAG
15114949 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:15114894 original size:71 final size:71
Alignment explanation
Indices: 15114800--15114962 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
15114790 GAGATGTATC
15114800 CCATGTAG-CAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
15114864 AGGACA
66 AGGACA
15114870 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
15114935 AGGACA
66 AGGACA
15114941 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
15114963 AGACAAATCG
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 8 0.09
71 84 0.91
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:15123492 original size:20 final size:21
Alignment explanation
Indices: 15123447--15123493 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
15123437 ATAATTAAAG
* * *
15123447 TGTTAAAAAATGTAATTTTTT
1 TGTTATAAAATATAATTTTGT
15123468 TGTTATAAAATATAA-TTTGT
1 TGTTATAAAATATAATTTTGT
15123488 TGTTAT
1 TGTTAT
15123494 TATTGTTGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (21 bp):
TGTTATAAAATATAATTTTGT
Found at i:15123526 original size:18 final size:18
Alignment explanation
Indices: 15123503--15123542 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15123493 TTATTGTTGA
15123503 TTTAATTGGAATTTAATT
1 TTTAATTGGAATTTAATT
** *
15123521 TTTAATTTTAATTTTATT
1 TTTAATTGGAATTTAATT
15123539 TTTA
1 TTTA
15123543 TAAGGTATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (18 bp):
TTTAATTGGAATTTAATT
Found at i:15123889 original size:31 final size:30
Alignment explanation
Indices: 15123847--15123907 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 30
15123837 AATTATGAGT
*
15123847 TAAAAAATTATATCAACTTTTAAAATAACA
1 TAAAAAATTATACCAACTTTTAAAATAACA
*
15123877 TAAAAATATTATACCGACTTTTAAAATAACA
1 TAAAAA-ATTATACCAACTTTTAAAATAACA
15123908 ATACATACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 6 0.21
31 22 0.79
ACGTcount: A:0.54, C:0.11, G:0.02, T:0.33
Consensus pattern (30 bp):
TAAAAAATTATACCAACTTTTAAAATAACA
Found at i:15124343 original size:12 final size:12
Alignment explanation
Indices: 15124312--15124344 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
15124302 CTAAATTTTC
*
15124312 TTTTCTATTTAT
1 TTTTCTCTTTAT
15124324 TTTT-TCTTTAT
1 TTTTCTCTTTAT
15124335 TTTTCTCTTT
1 TTTTCTCTTT
15124345 CCTTCCTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTCTCTTTAT
Found at i:15124377 original size:12 final size:13
Alignment explanation
Indices: 15124340--15124389 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
15124330 TTTATTTTTC
*
15124340 TCTTTCCTTCCTT
1 TCTTTCCTTTCTT
*
15124353 CTCTCTCCTTTCTT
1 -TCTTTCCTTTCTT
*
15124367 T-TTTTCTTTCTT
1 TCTTTCCTTTCTT
15124379 TCTTTCCTTTC
1 TCTTTCCTTTC
15124390 CCGCCGCCCT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
12 10 0.33
13 9 0.30
14 11 0.37
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (13 bp):
TCTTTCCTTTCTT
Found at i:15126810 original size:12 final size:12
Alignment explanation
Indices: 15126795--15126819 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15126785 GCCCTATAGC
15126795 AAGATGAAGATA
1 AAGATGAAGATA
15126807 AAGATGAAGATA
1 AAGATGAAGATA
15126819 A
1 A
15126820 TGAGGTGTGC
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:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (12 bp):
AAGATGAAGATA
Found at i:15127093 original size:22 final size:21
Alignment explanation
Indices: 15127049--15127094 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
15127039 TACTCCCAAA
* *
15127049 TTTTCACTTTTTCTTCAATAT
1 TTTTCACTTTTTATTCAAAAT
*
15127070 TTTTCACATTTTTATTTAAAAT
1 TTTTCAC-TTTTTATTCAAAAT
15127092 TTT
1 TTT
15127095 AATTTCCTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.24, C:0.13, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTCACTTTTTATTCAAAAT
Found at i:15127094 original size:21 final size:20
Alignment explanation
Indices: 15127046--15127094 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
15127036 CTCTACTCCC
*
15127046 AAATTTTCACTTTTTCTTCA
1 AAATTTTCACTTTTTATTCA
* *
15127066 ATATTTTTCACATTTTTATTTA
1 A-AATTTTCAC-TTTTTATTCA
15127088 AAATTTT
1 AAATTTT
15127095 AATTTCCTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.04
21 13 0.57
22 9 0.39
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (20 bp):
AAATTTTCACTTTTTATTCA
Found at i:15129748 original size:35 final size:35
Alignment explanation
Indices: 15129702--15129770 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
15129692 GAGTTGCTGG
15129702 AAAAAGGGACTATTGGTTTAAATACCCTATATGCC
1 AAAAAGGGACTATTGGTTTAAATACCCTATATGCC
15129737 AAAAAGGGACTATTGGTTTAAATACCCTATATGC
1 AAAAAGGGACTATTGGTTTAAATACCCTATATGC
15129771 AACACCCTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (35 bp):
AAAAAGGGACTATTGGTTTAAATACCCTATATGCC
Found at i:15138888 original size:10 final size:10
Alignment explanation
Indices: 15138873--15138932 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
15138863 TAATTCTAGG
15138873 ATTTAT-TTT
1 ATTTATCTTT
15138882 CATTTATCTTT
1 -ATTTATCTTT
15138893 ATTTATCTTT
1 ATTTATCTTT
*
15138903 AATTATCTTT
1 ATTTATCTTT
15138913 ATTTAT-TTGT
1 ATTTATCTT-T
15138923 ATTTATCTTT
1 ATTTATCTTT
15138933 TAGAATTTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:15140132 original size:55 final size:55
Alignment explanation
Indices: 15140054--15140165 Score: 215
Period size: 55 Copynumber: 2.0 Consensus size: 55
15140044 TGAATTTAAA
*
15140054 GTTAAATTAGGCCAGCATGCGAAGTATGAGAGAAGTGGTGCCGAAAATGTAAAGT
1 GTTAAATTAGGCCAGCATGCGAAGTAGGAGAGAAGTGGTGCCGAAAATGTAAAGT
15140109 GTTAAATTAGGCCAGCATGCGAAGTAGGAGAGAAGTGGTGCCGAAAATGTAAAGT
1 GTTAAATTAGGCCAGCATGCGAAGTAGGAGAGAAGTGGTGCCGAAAATGTAAAGT
15140164 GT
1 GT
15140166 GGAAGATTTT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.36, C:0.11, G:0.32, T:0.21
Consensus pattern (55 bp):
GTTAAATTAGGCCAGCATGCGAAGTAGGAGAGAAGTGGTGCCGAAAATGTAAAGT
Found at i:15140295 original size:10 final size:10
Alignment explanation
Indices: 15140278--15140317 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
15140268 TAATTTTAGG
15140278 ATTTATCTTT
1 ATTTATCTTT
*
15140288 AATTATCTTT
1 ATTTATCTTT
15140298 ATTTAT-TTT
1 ATTTATCTTT
15140307 GATTTATCTTT
1 -ATTTATCTTT
15140318 TGGAATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 3 0.12
10 20 0.77
11 3 0.12
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:15144128 original size:3 final size:3
Alignment explanation
Indices: 15144120--15144301 Score: 119
Period size: 3 Copynumber: 60.7 Consensus size: 3
15144110 TAAAACATGT
* * *
15144120 ATA ATA AT- ATG ACA ATA ATA ATA ACA ATA ATA ATAA ATAA ATAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A AT-A AT-A ATA
* * * *
15144167 ATA AAA ATA AGA GTA ACGA A-A ATA A-A GATA A-A ATTA ATA ATA ATA
1 ATA ATA ATA ATA ATA A-TA ATA ATA ATA -ATA ATA A-TA ATA ATA ATA
* * *
15144212 CTA ACGA AT- ATA AGTA ATA ATA GTA A-A ATA ATA ATA ATA ATA ATA
1 ATA A-TA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
15144257 ATA ATA ATA ATA ATA ATA ATA ATG GTA AT- ATA A-A TTA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
15144302 GGTGATGTAA
Statistics
Matches: 141, Mismatches: 24, Indels: 28
0.73 0.12 0.15
Matches are distributed among these distances:
2 14 0.10
3 106 0.75
4 21 0.15
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:15144561 original size:3 final size:3
Alignment explanation
Indices: 15144547--15144629 Score: 66
Period size: 3 Copynumber: 28.3 Consensus size: 3
15144537 TTAATAAGAG
* * * *
15144547 TAA TAG TAA TAA TAA TAA AAA TAA TAA TAG TAGA T-A TAA TAA TAC
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
* *
15144592 TAC TAC TAA TAA TAA TAA -ATA TAA TAA TAA -AA -AA TAA T
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA T
15144630 TAATTTGAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
2 7 0.10
3 58 0.87
4 2 0.03
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:15145272 original size:15 final size:14
Alignment explanation
Indices: 15145236--15145285 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
15145226 GTTTTATTTA
*
15145236 AAAGAAAAATGAAG
1 AAAGAAAAAAGAAG
15145250 AAAGAAAAAAGAAG
1 AAAGAAAAAAGAAG
*
15145264 TAAATAAAATAA-AAG
1 -AAAGAAAA-AAGAAG
15145279 AAA-AAAA
1 AAAGAAAA
15145286 CTTTTTCCCG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 4 0.12
14 16 0.50
15 10 0.31
16 2 0.06
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (14 bp):
AAAGAAAAAAGAAG
Found at i:15146012 original size:5 final size:5
Alignment explanation
Indices: 15145998--15146066 Score: 56
Period size: 5 Copynumber: 13.8 Consensus size: 5
15145988 GCAACCCAAT
*
15145998 TTTTA TTTTTA TTTTA TTTTA TTTTA --TTA TTTTA TTAATTA -ATTA
1 TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT--TTA TTTTA
*
15146043 CTTTA TTTTA TTTT- TTATTA TTTT
1 TTTTA TTTTA TTTTA TT-TTA TTTT
15146067 TTTAAGTAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
3 3 0.06
4 5 0.09
5 35 0.66
6 7 0.13
7 3 0.06
ACGTcount: A:0.23, C:0.01, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:15146060 original size:7 final size:8
Alignment explanation
Indices: 15146006--15146066 Score: 52
Period size: 8 Copynumber: 6.9 Consensus size: 8
15145996 ATTTTTATTT
15146006 TTATTTTA
1 TTATTTTA
15146014 TTTTATTTTA
1 --TTATTTTA
15146024 TTATTTTA
1 TTATTTTA
15146032 TTAATTAATTA
1 TT-ATT--TTA
15146043 CTTTATTTTA
1 --TTATTTTA
15146053 TT-TTTTA
1 TTATTTTA
15146060 TTATTTT
1 TTATTTT
15146067 TTTAAGTAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
7 7 0.16
8 16 0.36
9 3 0.07
10 11 0.24
11 3 0.07
12 3 0.07
13 2 0.04
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (8 bp):
TTATTTTA
Found at i:15146066 original size:36 final size:34
Alignment explanation
Indices: 15146010--15146076 Score: 98
Period size: 36 Copynumber: 1.9 Consensus size: 34
15146000 TTATTTTTAT
*
15146010 TTTATTTTATTTTATTATTTTATTAATTAATTAC
1 TTTATTTTATTTTATTATTTTATTAAGTAATTAC
*
15146044 TTTATTTTATTTTTTATTATTTTTTTAAGTAAT
1 TTTATTTTA--TTTTATTATTTTATTAAGTAAT
15146077 AATTCATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 9 0.31
36 20 0.69
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.70
Consensus pattern (34 bp):
TTTATTTTATTTTATTATTTTATTAAGTAATTAC
Found at i:15146080 original size:39 final size:39
Alignment explanation
Indices: 15146005--15146080 Score: 102
Period size: 39 Copynumber: 1.9 Consensus size: 39
15145995 AATTTTTATT
*
15146005 TTTATTTTATTTTATTTTATTATTTTATTAATTAATTAC
1 TTTATTTTATTTTATTTTATTATTTTAGTAATTAATTAC
*
15146044 TTTATTTTATTTT-TTATTATTTTTTTAAGTAA-TAATT
1 TTTATTTTATTTTATT-TTATTATTTT-AGTAATTAATT
15146081 CATTTCTCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
38 2 0.06
39 27 0.82
40 4 0.12
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.70
Consensus pattern (39 bp):
TTTATTTTATTTTATTTTATTATTTTAGTAATTAATTAC
Found at i:15148046 original size:10 final size:10
Alignment explanation
Indices: 15148031--15148080 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
15148021 TAATTTTAAG
15148031 ATTTATCTTT
1 ATTTATCTTT
15148041 ATTTATCTTT
1 ATTTATCTTT
*
15148051 AATTATCTTT
1 ATTTATCTTT
*
15148061 ATTCAT-TTGT
1 ATTTATCTT-T
15148071 ATTTATCTTT
1 ATTTATCTTT
15148081 TGGAATAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
9 2 0.06
10 30 0.88
11 2 0.06
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.66
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:15151497 original size:15 final size:15
Alignment explanation
Indices: 15151473--15151502 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15151463 TGAGGAGATC
*
15151473 TATATGGAGCAACTT
1 TATATAGAGCAACTT
15151488 TATATAGAGCAACTT
1 TATATAGAGCAACTT
15151503 CCAAGATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (15 bp):
TATATAGAGCAACTT
Found at i:15152627 original size:29 final size:29
Alignment explanation
Indices: 15152595--15152651 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
15152585 CCATAGGGCA
* * *
15152595 TTCCTTTTAATAATGATAGCTACAAAGGC
1 TTCCTTTTAACAAAGATAGCCACAAAGGC
15152624 TTCCTTTTAACAAAGATAGCCACAAAGG
1 TTCCTTTTAACAAAGATAGCCACAAAGG
15152652 TATTATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (29 bp):
TTCCTTTTAACAAAGATAGCCACAAAGGC
Found at i:15152692 original size:29 final size:28
Alignment explanation
Indices: 15152616--15152838 Score: 117
Period size: 29 Copynumber: 7.5 Consensus size: 28
15152606 AATGATAGCT
* *
15152616 ACAAAGGCTTCCTTTTAACAAAGAT-AGCC
1 ACAAAGGCTT-CTTTTAATAGAGATCA-CC
* *
15152645 ACAAAGGTATTATTTTAATAGAGATCACC
1 ACAAAGG-CTTCTTTTAATAGAGATCACC
* * **
15152674 ACAAAGGCTTTTTTATAATAATAGAGATAATAA
1 ACAAAGGC-TTCTT-T--TAATAGAGATCA-CC
* *
15152707 AAAAAGGCATTCTTTTAATAGAGATCATC
1 ACAAAGGC-TTCTTTTAATAGAGATCACC
* * * * * *
15152736 ACAAAAGATTCCTTATAACAAAGATAACC
1 ACAAAGGCTT-CTTTTAATAGAGATCACC
* *
15152765 AAAAAAGGCATTGTTTTAATAGAGATCACC
1 -ACAAAGGC-TTCTTTTAATAGAGATCACC
* * *
15152795 ACAAAGGCTTC-CTTAAAACAGAAGTCACC
1 ACAAAGGCTTCTTTTAATAGAG-A-TCACC
15152824 ACAAAGGCTTCTTTT
1 ACAAAGGCTTCTTTT
15152839 CAGAGGTAGC
Statistics
Matches: 144, Mismatches: 37, Indels: 25
0.70 0.18 0.12
Matches are distributed among these distances:
27 7 0.05
28 5 0.03
29 72 0.50
30 35 0.24
31 2 0.01
32 12 0.08
33 11 0.08
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (28 bp):
ACAAAGGCTTCTTTTAATAGAGATCACC
Found at i:15152728 original size:30 final size:30
Alignment explanation
Indices: 15152692--15152790 Score: 103
Period size: 30 Copynumber: 3.3 Consensus size: 30
15152682 TTTTTTATAA
*
15152692 TAATAGAGATAATAAAAAAAGGCATTCTTT
1 TAATAGAGATAATCAAAAAAGGCATTCTTT
* * *
15152722 TAATAGAGATCATCACAAAA-G-ATTCCTTA
1 TAATAGAGATAATCAAAAAAGGCATT-CTTT
* * * *
15152751 TAACAAAGATAACCAAAAAAGGCATTGTTT
1 TAATAGAGATAATCAAAAAAGGCATTCTTT
15152781 TAATAGAGAT
1 TAATAGAGAT
15152791 CACCACAAAG
Statistics
Matches: 53, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
28 3 0.06
29 19 0.36
30 28 0.53
31 3 0.06
ACGTcount: A:0.48, C:0.11, G:0.13, T:0.27
Consensus pattern (30 bp):
TAATAGAGATAATCAAAAAAGGCATTCTTT
Found at i:15152786 original size:59 final size:59
Alignment explanation
Indices: 15152616--15152814 Score: 229
Period size: 59 Copynumber: 3.3 Consensus size: 59
15152606 AATGATAGCT
* * * *
15152616 ACAAAGGCTTCCTTTTAACAAAGATAGCC-ACAAAGGTATTATTTTAATAGAGATCACC
1 ACAAAGGCTTCCTTATAACAAAGATAACCAAAAAAGGCATTATTTTAATAGAGATCACC
** * ** * *
15152674 ACAAAGGCTTTTTTATAATAATAGAGATAATAAAAAAAGGCATTCTTTTAATAGAGATCATC
1 ACAAAGGCTTCCTTATAA-CA-A-AGATAACCAAAAAAGGCATTATTTTAATAGAGATCACC
* * *
15152736 ACAAAAGATTCCTTATAACAAAGATAACCAAAAAAGGCATTGTTTTAATAGAGATCACC
1 ACAAAGGCTTCCTTATAACAAAGATAACCAAAAAAGGCATTATTTTAATAGAGATCACC
*
15152795 ACAAAGGCTTCCTTAAAACA
1 ACAAAGGCTTCCTTATAACA
15152815 GAAGTCACCA
Statistics
Matches: 114, Mismatches: 23, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
58 15 0.13
59 52 0.46
60 2 0.02
61 6 0.05
62 39 0.34
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.27
Consensus pattern (59 bp):
ACAAAGGCTTCCTTATAACAAAGATAACCAAAAAAGGCATTATTTTAATAGAGATCACC
Found at i:15155267 original size:43 final size:43
Alignment explanation
Indices: 15155219--15155362 Score: 114
Period size: 43 Copynumber: 3.3 Consensus size: 43
15155209 ATTACCGAGA
* * *
15155219 TGTGATTACATGTAAGATAATGTCTAGGACATTGGCATTGTAT
1 TGTGATTACATGTAAAACAATGTCTAGGACATTGACATTGTAT
* * *
15155262 TGTGATTACGTGTAAAACCATGTCTGGGACATTGACATTGTTAT
1 TGTGATTACATGTAAAACAATGTCTAGGACATTGACATTG-TAT
* * ** * * *
15155306 AT-T-ATTTCTTGTAAAACCCTGTCTAGGACAGTGGCATCG-AT
1 -TGTGATTACATGTAAAACAATGTCTAGGACATTGACATTGTAT
*
15155347 ATGTGATAACATGTAA
1 -TGTGATTACATGTAA
15155363 GACCATATCT
Statistics
Matches: 81, Mismatches: 16, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
41 4 0.05
42 1 0.01
43 71 0.88
44 4 0.05
45 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (43 bp):
TGTGATTACATGTAAAACAATGTCTAGGACATTGACATTGTAT
Found at i:15158962 original size:27 final size:26
Alignment explanation
Indices: 15158914--15158973 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
15158904 GCGAGGCTAC
*
15158914 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
15158941 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
15158967 CAGATAT
1 CAGATAT
15158974 ACATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:15159793 original size:27 final size:27
Alignment explanation
Indices: 15159707--15159795 Score: 117
Period size: 27 Copynumber: 3.3 Consensus size: 27
15159697 GGCAAAATGG
* *
15159707 TAATTTTACCC-ACAAGGGTATCTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
15159733 TAATTCTACCCTACAGGGGTATTTCAA
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
15159760 TATTTCTACCCTACAAGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGA
15159787 TAATTCTAC
1 TAATTCTAC
15159796 AAATTATCCA
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
26 10 0.19
27 43 0.81
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCGA
Found at i:15166175 original size:47 final size:47
Alignment explanation
Indices: 15166112--15166206 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
15166102 AACTCAGTGT
* *
15166112 GTAACATAATCTAACCATAGCCCAAAACAGATCAAACCTCAGAGTCA
1 GTAACATAACCCAACCATAGCCCAAAACAGATCAAACCTCAGAGTCA
15166159 GTAACATAACCCAACCATAGCCCAAAACAGATCAAACCTCAGAGTCA
1 GTAACATAACCCAACCATAGCCCAAAACAGATCAAACCTCAGAGTCA
15166206 G
1 G
15166207 ACTTATCTGG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.44, C:0.29, G:0.12, T:0.15
Consensus pattern (47 bp):
GTAACATAACCCAACCATAGCCCAAAACAGATCAAACCTCAGAGTCA
Found at i:15166539 original size:26 final size:26
Alignment explanation
Indices: 15166498--15166548 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
15166488 GCGAGGCTGC
*
15166498 CAGATATTGTGACGA-GTCACCAGAA
1 CAGATATTGTGACGAGGCCACCAGAA
*
15166523 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAGGCCACCAGA
15166549 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 7 0.32
26 7 0.32
27 8 0.36
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.18
Consensus pattern (26 bp):
CAGATATTGTGACGAGGCCACCAGAA
Found at i:15167254 original size:27 final size:27
Alignment explanation
Indices: 15167196--15167263 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
15167186 CAAAATGGTA
* *
15167196 ATTT-TACCCCACAAGGGTATCTCGGT
1 ATTTCTACCCTACAAGGGTATCTCGAT
* * *
15167222 AATTCTACCCTACAGGGGTATTTCGAT
1 ATTTCTACCCTACAAGGGTATCTCGAT
15167249 ATTTCTACCCTACAA
1 ATTTCTACCCTACAA
15167264 TTTTGGTAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
26 3 0.09
27 31 0.91
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.32
Consensus pattern (27 bp):
ATTTCTACCCTACAAGGGTATCTCGAT
Found at i:15168153 original size:41 final size:41
Alignment explanation
Indices: 15168108--15168185 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
15168098 CGTTACAAAA
*
15168108 GGGATTTGCTTTAAACCAATCTAACTATATAGAGAAAATGT
1 GGGATTTGCTTTAAACCAATCTAACTATATAAAGAAAATGT
* *
15168149 GGGATTTGCTTTAAACCAATTTCACTATATAAAGAAA
1 GGGATTTGCTTTAAACCAATCTAACTATATAAAGAAA
15168186 GTGCTAAAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (41 bp):
GGGATTTGCTTTAAACCAATCTAACTATATAAAGAAAATGT
Found at i:15174909 original size:113 final size:113
Alignment explanation
Indices: 15174708--15174918 Score: 377
Period size: 113 Copynumber: 1.9 Consensus size: 113
15174698 ATTTTATTAA
* *
15174708 TCAAATGAGTCCTTCAATTTGAAGTACCGTTTTCATCAATAACCTGTCCAATGAAACTGAATTCA
1 TCAAATGAGTCCATCAATTTGAAGTACCATTTTCATCAATAACCTGTCCAATGAAACTGAATTCA
* *
15174773 ATGCTTAAGTTGTTCAACTACCTTTATTAATACTTTTTATTAAGTTGT
66 ATGCTTAAGTAGTTCAACAACCTTTATTAATACTTTTTATTAAGTTGT
*
15174821 TCAAATGAGTCCATCAATTTGAAGTGCCATTTTCATCAATAACCTGTCCAATGAAACTGAATTCA
1 TCAAATGAGTCCATCAATTTGAAGTACCATTTTCATCAATAACCTGTCCAATGAAACTGAATTCA
15174886 ATGCTTAAGTAGTTCAACAACCTTTATTAATAC
66 ATGCTTAAGTAGTTCAACAACCTTTATTAATAC
15174919 AATGAGTCTT
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
113 93 1.00
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.36
Consensus pattern (113 bp):
TCAAATGAGTCCATCAATTTGAAGTACCATTTTCATCAATAACCTGTCCAATGAAACTGAATTCA
ATGCTTAAGTAGTTCAACAACCTTTATTAATACTTTTTATTAAGTTGT
Found at i:15175146 original size:6 final size:6
Alignment explanation
Indices: 15175135--15175194 Score: 75
Period size: 6 Copynumber: 10.0 Consensus size: 6
15175125 CTGTGAAATG
* * * *
15175135 GTTATT GTTATT GTTATT ATTATT GTTGTT GTTGTT GTTGTT GTTATT
1 GTTATT GTTATT GTTATT GTTATT GTTATT GTTATT GTTATT GTTATT
*
15175183 GTTGTT GTTATT
1 GTTATT GTTATT
15175195 TTGCATTGTA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.12, C:0.00, G:0.22, T:0.67
Consensus pattern (6 bp):
GTTATT
Found at i:15175152 original size:12 final size:12
Alignment explanation
Indices: 15175139--15175194 Score: 85
Period size: 12 Copynumber: 4.7 Consensus size: 12
15175129 GAAATGGTTA
*
15175139 TTGTTATTGTTA
1 TTGTTATTGTTG
*
15175151 TTATTATTGTTG
1 TTGTTATTGTTG
*
15175163 TTGTTGTTGTTG
1 TTGTTATTGTTG
15175175 TTGTTATTGTTG
1 TTGTTATTGTTG
15175187 TTGTTATT
1 TTGTTATT
15175195 TTGCATTGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 39 1.00
ACGTcount: A:0.11, C:0.00, G:0.21, T:0.68
Consensus pattern (12 bp):
TTGTTATTGTTG
Found at i:15175163 original size:3 final size:3
Alignment explanation
Indices: 15175157--15175191 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
15175147 GTTATTATTA
*
15175157 TTG TTG TTG TTG TTG TTG TTG TTA TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
15175192 ATTTTGCATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.03, C:0.00, G:0.29, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:15184805 original size:147 final size:147
Alignment explanation
Indices: 15184538--15184832 Score: 563
Period size: 147 Copynumber: 2.0 Consensus size: 147
15184528 GACAGGGACA
*
15184538 TGCCCGTGTGCAATTACTTCAGGCCGTGCTCGAGCCTGCTAAATTGACATGGCCGTGTAGTCTGC
1 TGCCCGTGTGCAATTACTTCAGGCCGTGCTCGAGCCTGCCAAATTGACATGGCCGTGTAGTCTGC
*
15184603 CTGTGTGAGGAGGTCCAGGCCGTGTTGATTTCATACTTTGGCACATTTTTTCTGTTTTTGGCCCG
66 CTGTGTGAGGAGGTCCAGGCCGTGTTGATTTCATACTTTGGCACATTTTCTCTGTTTTTGGCCCG
15184668 TTTCTCGTTCCTTTCGC
131 TTTCTCGTTCCTTTCGC
15184685 TGCCCGTGTGCAATTACTTCAGGCCGTGCTCGAGCCTGCCAAATTGACATGGCCGTGTAGTCTGC
1 TGCCCGTGTGCAATTACTTCAGGCCGTGCTCGAGCCTGCCAAATTGACATGGCCGTGTAGTCTGC
*
15184750 CTGTGTGAGGAGGTCCAGGCCGTGTTGATTTCGTACTTTGGCACATTTTCTCTGTTTTTGGCCCG
66 CTGTGTGAGGAGGTCCAGGCCGTGTTGATTTCATACTTTGGCACATTTTCTCTGTTTTTGGCCCG
15184815 TTTCTCGTTCCTTTCGC
131 TTTCTCGTTCCTTTCGC
15184832 T
1 T
15184833 CTCCTATGCT
Statistics
Matches: 145, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
147 145 1.00
ACGTcount: A:0.13, C:0.26, G:0.26, T:0.36
Consensus pattern (147 bp):
TGCCCGTGTGCAATTACTTCAGGCCGTGCTCGAGCCTGCCAAATTGACATGGCCGTGTAGTCTGC
CTGTGTGAGGAGGTCCAGGCCGTGTTGATTTCATACTTTGGCACATTTTCTCTGTTTTTGGCCCG
TTTCTCGTTCCTTTCGC
Found at i:15201182 original size:25 final size:24
Alignment explanation
Indices: 15201136--15201182 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
15201126 TTTTCAAAAA
**
15201136 TTTAGAATTTAAATTTTTTTAATT
1 TTTAGAATTTAAATTTCATTAATT
*
15201160 TTTAGATTTTAAAATTTCATTAA
1 TTTAGAATTT-AAATTTCATTAA
15201183 CACGGTTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 9 0.47
25 10 0.53
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.57
Consensus pattern (24 bp):
TTTAGAATTTAAATTTCATTAATT
Found at i:15203571 original size:50 final size:50
Alignment explanation
Indices: 15203510--15203613 Score: 208
Period size: 50 Copynumber: 2.1 Consensus size: 50
15203500 AGTTATATCA
15203510 TTTGTATTGTGAGGTTTTGGGGAGAGTGATTGTGACAACTTGGATTTGAC
1 TTTGTATTGTGAGGTTTTGGGGAGAGTGATTGTGACAACTTGGATTTGAC
15203560 TTTGTATTGTGAGGTTTTGGGGAGAGTGATTGTGACAACTTGGATTTGAC
1 TTTGTATTGTGAGGTTTTGGGGAGAGTGATTGTGACAACTTGGATTTGAC
15203610 TTTG
1 TTTG
15203614 GGGATGCAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.19, C:0.06, G:0.34, T:0.41
Consensus pattern (50 bp):
TTTGTATTGTGAGGTTTTGGGGAGAGTGATTGTGACAACTTGGATTTGAC
Found at i:15204031 original size:2 final size:2
Alignment explanation
Indices: 15204024--15204055 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
15204014 GAATAATAGA
15204024 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15204056 TAGAAATAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15208475 original size:14 final size:14
Alignment explanation
Indices: 15208453--15208505 Score: 56
Period size: 13 Copynumber: 3.8 Consensus size: 14
15208443 TTCAAACTAC
15208453 TATTATTTAAAAAA
1 TATTATTTAAAAAA
*
15208467 TATT-TTTTAAAAA
1 TATTATTTAAAAAA
*
15208480 TAATTAATTTAAAATA
1 T-ATT-ATTTAAAAAA
15208496 TA-TATTTAAA
1 TATTATTTAAA
15208506 TATTATTTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 16 0.48
14 8 0.24
15 1 0.03
16 8 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TATTATTTAAAAAA
Found at i:15208508 original size:12 final size:12
Alignment explanation
Indices: 15208453--15208513 Score: 52
Period size: 14 Copynumber: 4.7 Consensus size: 12
15208443 TTCAAACTAC
15208453 TATTATTTAAAAAA
1 TATTATTT--AAAA
*
15208467 TATTTTTTAAAAA
1 TATTATTT-AAAA
15208480 TAATTAATTTAAAA
1 T-ATT-ATTTAAAA
15208494 TATATATTT-AAA
1 TAT-TATTTAAAA
15208506 TATTATTT
1 TATTATTT
15208514 CTTCCATCCA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
11 5 0.12
12 6 0.14
13 12 0.29
14 16 0.38
15 3 0.07
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
TATTATTTAAAA
Found at i:15209289 original size:2 final size:2
Alignment explanation
Indices: 15209282--15209308 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15209272 TTTTAATCCA
15209282 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
15209309 ATTACTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15223158 original size:18 final size:20
Alignment explanation
Indices: 15223116--15223152 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15223106 ATATTTTATG
*
15223116 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
15223135 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
15223153 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:15225362 original size:46 final size:46
Alignment explanation
Indices: 15225310--15225628 Score: 417
Period size: 46 Copynumber: 7.0 Consensus size: 46
15225300 AGTGTGCTCT
15225310 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
15225356 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
15225402 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGC-AC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
15225447 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *** *
15225493 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** *
15225539 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCGTGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
15225585 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
15225629 TCATGTCAAA
Statistics
Matches: 247, Mismatches: 24, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
45 45 0.18
46 202 0.82
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:15225558 original size:137 final size:138
Alignment explanation
Indices: 15225310--15225651 Score: 440
Period size: 137 Copynumber: 2.5 Consensus size: 138
15225300 AGTGTGCTCT
* * * ***
15225310 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATAAATAAG
* **
15225375 ACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAGACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAGCCTGACATGAAACGAATAAGACCATGGTTGAAAGATACC
15225440 ATGGC-AC
131 ATGGCAAC
* *
15225447 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATAAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATAAATAAG
* *
15225512 ACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAGCCTGACATGAAACGAATAAGACCATGGTTGAAAGATACC
*
15225577 GTGGCAAC
131 ATGGCAAC
* * * * * * * *
15225585 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATGTCA--AAGATAAATA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAA-ATAAATA
15225647 AGACC
64 AGACC
15225652 GTAGATGGGA
Statistics
Matches: 178, Mismatches: 24, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
136 2 0.01
137 134 0.75
138 42 0.24
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (138 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATAAATAAG
ACCATGGTTGAAAGATACCATGGCAGCCTGACATGAAACGAATAAGACCATGGTTGAAAGATACC
ATGGCAAC
Found at i:15227547 original size:43 final size:44
Alignment explanation
Indices: 15227459--15227553 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 44
15227449 AGGATATGCG
* * *
15227459 AATATCGATACCATTGTCCCAAACGGTGGTCTTACATGTAATCA
1 AATATCGATACCATTGTCCCAAACAGTGGTCTTACACGAAATCA
* * *
15227503 AATATCGATACCATTGTCCTAGACAG-GGTCTTAGACGAAATCA
1 AATATCGATACCATTGTCCCAAACAGTGGTCTTACACGAAATCA
15227546 AATA-CGAT
1 AATATCGAT
15227554 GCCAACGTCT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 4 0.09
43 18 0.40
44 23 0.51
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (44 bp):
AATATCGATACCATTGTCCCAAACAGTGGTCTTACACGAAATCA
Found at i:15227618 original size:44 final size:41
Alignment explanation
Indices: 15227506--15227621 Score: 115
Period size: 44 Copynumber: 2.7 Consensus size: 41
15227496 GTAATCAAAT
* * * *
15227506 ATCGATACCATTGTCCTAGACAGGGTCTTAGACGAAATCAA
1 ATCGATGCCAATGTCCTAGACATGGTCTTAAACGAAATCAA
* * * *
15227547 ATACGATGCCAACGTCTTAGACTTGGTCTTAAACATAAATCATA
1 AT-CGATGCCAATGTCCTAGACATGGTCTTAAAC-GAAATCA-A
*
15227591 AGTCGATGCCAATGTCCCAGACATGGTCTTA
1 A-TCGATGCCAATGTCCTAGACATGGTCTTA
15227622 TATGAAAACA
Statistics
Matches: 59, Mismatches: 12, Indels: 5
0.78 0.16 0.07
Matches are distributed among these distances:
41 2 0.03
42 24 0.41
43 6 0.10
44 26 0.44
45 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (41 bp):
ATCGATGCCAATGTCCTAGACATGGTCTTAAACGAAATCAA
Found at i:15237533 original size:28 final size:28
Alignment explanation
Indices: 15237493--15237701 Score: 111
Period size: 28 Copynumber: 7.5 Consensus size: 28
15237483 TCTACAGAAT
* *
15237493 AGATAGACCTTGGAGGTCATTCCACATA
1 AGATAGTCCTTGGAGGACATTCCACATA
* * * **
15237521 AGATAGTCTTTGGCGGACTTTCCATGTA
1 AGATAGTCCTTGGAGGACATTCCACATA
* *
15237549 AGATATTCCTTGGCA-GACTTTCCACATA
1 AGATAGTCCTTGG-AGGACATTCCACATA
* * * **
15237577 AGATAGTCATTGGCGGGCATTCCATGTA
1 AGATAGTCCTTGGAGGACATTCCACATA
** * *
15237605 AGATAGT-CTTTAACGGACTTTCCACGTA
1 AGATAGTCCTTGGA-GGACATTCCACATA
* * * *
15237633 AGATAGTCATTAGCA-GACTTTCCAAATA
1 AGATAGTCCTT-GGAGGACATTCCACATA
* * * * *
15237661 AGATAGTCTTTCGTA-AACTTTCCAAATA
1 AGATAGTCCTT-GGAGGACATTCCACATA
15237689 AGATAGTCCTTGG
1 AGATAGTCCTTGG
15237702 TAGGCTTCCC
Statistics
Matches: 139, Mismatches: 37, Indels: 11
0.74 0.20 0.06
Matches are distributed among these distances:
27 3 0.02
28 133 0.96
29 2 0.01
30 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.31
Consensus pattern (28 bp):
AGATAGTCCTTGGAGGACATTCCACATA
Found at i:15237656 original size:56 final size:56
Alignment explanation
Indices: 15237512--15237701 Score: 209
Period size: 56 Copynumber: 3.4 Consensus size: 56
15237502 TTGGAGGTCA
* * * **
15237512 TTCCACATAAGATAGTCTTTGGCGGACTTTCCATGTAAGATATTCCTTGGCAGACT
1 TTCCACATAAGATAGTCATTGGCGGACTTTCCATGTAAGATAGTCTTTAACAGACT
* * *
15237568 TTCCACATAAGATAGTCATTGGCGGGCATTCCATGTAAGATAGTCTTTAACGGACT
1 TTCCACATAAGATAGTCATTGGCGGACTTTCCATGTAAGATAGTCTTTAACAGACT
* * * ** *** *
15237624 TTCCACGTAAGATAGTCATTAGCAGACTTTCCAAATAAGATAGTCTTTCGTAAACT
1 TTCCACATAAGATAGTCATTGGCGGACTTTCCATGTAAGATAGTCTTTAACAGACT
* *
15237680 TTCCAAATAAGATAGTCCTTGG
1 TTCCACATAAGATAGTCATTGG
15237702 TAGGCTTCCC
Statistics
Matches: 110, Mismatches: 24, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
56 110 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (56 bp):
TTCCACATAAGATAGTCATTGGCGGACTTTCCATGTAAGATAGTCTTTAACAGACT
Found at i:15237667 original size:84 final size:84
Alignment explanation
Indices: 15237510--15237668 Score: 237
Period size: 84 Copynumber: 1.9 Consensus size: 84
15237500 CCTTGGAGGT
** * * * * *
15237510 CATTCCACATAAGATAGTCTTTGGCGGACTTTCCATGTAAGATATTCCTTGGCAGACTTTCCACA
1 CATTCCACATAAGATAGTCTTTAACGGACTTTCCACGTAAGATAGTCATTAGCAGACTTTCCAAA
15237575 TAAGATAGTCATTGGCGGG
66 TAAGATAGTCATTGGCGGG
**
15237594 CATTCCATGTAAGATAGTCTTTAACGGACTTTCCACGTAAGATAGTCATTAGCAGACTTTCCAAA
1 CATTCCACATAAGATAGTCTTTAACGGACTTTCCACGTAAGATAGTCATTAGCAGACTTTCCAAA
15237659 TAAGATAGTC
66 TAAGATAGTC
15237669 TTTCGTAAAC
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 66 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.31
Consensus pattern (84 bp):
CATTCCACATAAGATAGTCTTTAACGGACTTTCCACGTAAGATAGTCATTAGCAGACTTTCCAAA
TAAGATAGTCATTGGCGGG
Found at i:15237684 original size:84 final size:84
Alignment explanation
Indices: 15237510--15237696 Score: 221
Period size: 84 Copynumber: 2.2 Consensus size: 84
15237500 CCTTGGAGGT
* ** * * * * *
15237510 CATTCCACATAAGATAGTCTTTGGCGGACTTTCCATGTAAGATATTCCTTGGCAGACTTTCCACA
1 CATTCCAAATAAGATAGTCTTTAACGGACTTTCCACGTAAGATAGTCATTAGCAGACTTTCCAAA
* ***
15237575 TAAGATAGTCATTGGCGGG
66 TAAGATAGTCATTCGCAAA
**
15237594 CATTCCATGTAAGATAGTCTTTAACGGACTTTCCACGTAAGATAGTCATTAGCAGACTTTCCAAA
1 CATTCCAAATAAGATAGTCTTTAACGGACTTTCCACGTAAGATAGTCATTAGCAGACTTTCCAAA
* *
15237659 TAAGATAGTCTTTCGTAAA
66 TAAGATAGTCATTCGCAAA
*
15237678 CTTTCCAAATAAGATAGTC
1 CATTCCAAATAAGATAGTC
15237697 CTTGGTAGGC
Statistics
Matches: 85, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
84 85 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (84 bp):
CATTCCAAATAAGATAGTCTTTAACGGACTTTCCACGTAAGATAGTCATTAGCAGACTTTCCAAA
TAAGATAGTCATTCGCAAA
Found at i:15241136 original size:68 final size:70
Alignment explanation
Indices: 15241064--15241261 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
15241054 ACACCCTGTA
* * * *
15241064 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
15241126 ATAAAT
65 ATAAAT
*
15241132 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
15241197 ATAAAT
65 ATAAAT
*
15241203 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
15241262 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:15241175 original size:41 final size:41
Alignment explanation
Indices: 15241130--15241247 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
15241120 TGAAAGATAA
15241130 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
15241171 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
15241201 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
15241242 ATGTAG
1 ATGTAG
15241248 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:15241187 original size:71 final size:71
Alignment explanation
Indices: 15241098--15241261 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
15241088 GAGATGTATC
15241098 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
15241163 AGGACA
66 AGGACA
15241169 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
15241234 AGGACA
66 AGGACA
15241240 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
15241262 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:15248704 original size:68 final size:70
Alignment explanation
Indices: 15248632--15248829 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
15248622 ACACCCTGTA
* * * *
15248632 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
15248694 ATAAAT
65 ATAAAT
*
15248700 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
15248765 ATAAAT
65 ATAAAT
*
15248771 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
15248830 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:15248743 original size:41 final size:41
Alignment explanation
Indices: 15248698--15248815 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
15248688 TGAAAGATAA
15248698 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
15248739 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
15248769 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
15248810 ATGTAG
1 ATGTAG
15248816 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:15248755 original size:71 final size:71
Alignment explanation
Indices: 15248666--15248829 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
15248656 GAGATGTATC
15248666 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
15248731 AGGACA
66 AGGACA
15248737 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
15248802 AGGACA
66 AGGACA
15248808 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
15248830 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:15250680 original size:39 final size:39
Alignment explanation
Indices: 15250626--15250701 Score: 152
Period size: 39 Copynumber: 1.9 Consensus size: 39
15250616 CAAACGACTA
15250626 ATCTTCTAAGGAAACCCTACACAACACTTAATTAATCGT
1 ATCTTCTAAGGAAACCCTACACAACACTTAATTAATCGT
15250665 ATCTTCTAAGGAAACCCTACACAACACTTAATTAATC
1 ATCTTCTAAGGAAACCCTACACAACACTTAATTAATC
15250702 ATACCTTCAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.39, C:0.26, G:0.07, T:0.28
Consensus pattern (39 bp):
ATCTTCTAAGGAAACCCTACACAACACTTAATTAATCGT
Found at i:15251975 original size:18 final size:18
Alignment explanation
Indices: 15251952--15251986 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15251942 CAAGAACTAT
15251952 AAGCATCAAAATAGTTTC
1 AAGCATCAAAATAGTTTC
*
15251970 AAGCATGAAAATAGTTT
1 AAGCATCAAAATAGTTT
15251987 GACACATCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (18 bp):
AAGCATCAAAATAGTTTC
Found at i:15260370 original size:36 final size:36
Alignment explanation
Indices: 15260330--15260398 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
15260320 CAAGAACTTA
* *
15260330 AGAAGACCCGATATCTCATTTAGGATCTTGGGATTG
1 AGAAGACCCGATATCTCATTCAGGAGCTTGGGATTG
** *
15260366 AGAAGACTTGATATCTCGTTCAGGAGCTTGGGA
1 AGAAGACCCGATATCTCATTCAGGAGCTTGGGA
15260399 AGACTCTATA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (36 bp):
AGAAGACCCGATATCTCATTCAGGAGCTTGGGATTG
Found at i:15261772 original size:67 final size:67
Alignment explanation
Indices: 15261700--15261833 Score: 268
Period size: 67 Copynumber: 2.0 Consensus size: 67
15261690 CAAAAATATT
15261700 AGGCCTGAATTTGTAAGCTCAAAACAACCCAATATAAAATAAAAAATAAACCTTAATGGCCAAAT
1 AGGCCTGAATTTGTAAGCTCAAAACAACCCAATATAAAATAAAAAATAAACCTTAATGGCCAAAT
15261765 AG
66 AG
15261767 AGGCCTGAATTTGTAAGCTCAAAACAACCCAATATAAAATAAAAAATAAACCTTAATGGCCAAAT
1 AGGCCTGAATTTGTAAGCTCAAAACAACCCAATATAAAATAAAAAATAAACCTTAATGGCCAAAT
15261832 AG
66 AG
15261834 CCCAATAACC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.49, C:0.18, G:0.12, T:0.21
Consensus pattern (67 bp):
AGGCCTGAATTTGTAAGCTCAAAACAACCCAATATAAAATAAAAAATAAACCTTAATGGCCAAAT
AG
Found at i:15268554 original size:45 final size:45
Alignment explanation
Indices: 15268455--15268862 Score: 252
Period size: 45 Copynumber: 8.8 Consensus size: 45
15268445 CATTGTGGTG
* * ** ** *
15268455 AATCTTATCTCCTTGAAGTTGTAGTGGAATAGATT-ATAGCCA-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGATAGTA
* *
15268499 AATCTTATCTCCCTGAAGTTACAGTAGAGCAGATTGAAGATAGTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGTA
*
15268544 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGTA
* ** ** * *
15268589 AATCTTATTTCTTTGAAGTTGCAGTGGAATAGATTAAAGCTACAAGTTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--A-TAG---TA
* * *
15268640 AACCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGTA
* ** * * *
15268685 AATCTT-T-TTCCTGAAGTTAAAGTGGAACAGATTAAAGCTTCAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-AT--AG-T--A
* * * * * * *
15268734 AATCTTATCTACCTAAAGTTGCAGTAGG-TCGGATTAAATCTACAGTGGA
1 AATCTTATCTCCCTGAAGTTGCAGT-GGAGCAGATTGAA--GATAGT--A
* * *
15268783 GAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGTTA-CA
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGTA
* * *
15268828 AATCTTATCTCCCTGAAGTTGTAGCGGAGTAGATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
15268863 AAAGCAACAA
Statistics
Matches: 280, Mismatches: 63, Indels: 42
0.73 0.16 0.11
Matches are distributed among these distances:
43 25 0.09
44 65 0.23
45 84 0.30
46 2 0.01
47 1 0.00
48 5 0.02
49 12 0.04
50 32 0.11
51 52 0.19
52 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGTA
Found at i:15268681 original size:141 final size:132
Alignment explanation
Indices: 15268452--15268717 Score: 334
Period size: 141 Copynumber: 1.9 Consensus size: 132
15268442 AGTCATTGTG
* *
15268452 GTGAATCTTATCTCCTTGAAGTTGTAGTGGAATAGATTATAGCCACAAATCTTATCTCCCTGAAG
1 GTGAATCTTATCTCCTTGAAGTTGCAGTGGAATAGATTAAAGCCACAAATCTTATCTCCCTGAAG
* ** *
15268517 TTACAGTAGAGCAGATTGAAGATAGTAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA
66 TTACAGTAGAGCAGATTGAAGATAGCAAATCTT-T-TCCCTGAAGTTAAAGTGGAACAGATTGAA
15268582 GATA
129 GATA
* * * *
15268586 GTGAATCTTATTTCTTTGAAGTTGCAGTGGAATAGATTAAAGCTACAAGTTATAAACCTTGTCTC
1 GTGAATCTTATCTCCTTGAAGTTGCAGTGGAATAGATTAAAGCCACAA---AT----CTTATCTC
* * *
15268651 CCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTTTTCCTGAAGTTAAAGTGGAACAGA
59 CCTGAAGTTACAGTAGAGCAGATTGAAGATAGCAAATCTTTTCCCTGAAGTTAAAGTGGAACAGA
15268716 TT
124 TT
15268718 AAAGCTTCAA
Statistics
Matches: 112, Mismatches: 13, Indels: 9
0.84 0.10 0.07
Matches are distributed among these distances:
134 43 0.38
137 2 0.02
139 22 0.20
140 1 0.01
141 44 0.39
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.32
Consensus pattern (132 bp):
GTGAATCTTATCTCCTTGAAGTTGCAGTGGAATAGATTAAAGCCACAAATCTTATCTCCCTGAAG
TTACAGTAGAGCAGATTGAAGATAGCAAATCTTTTCCCTGAAGTTAAAGTGGAACAGATTGAAGA
TA
Found at i:15268758 original size:94 final size:96
Alignment explanation
Indices: 15268543--15268758 Score: 310
Period size: 94 Copynumber: 2.3 Consensus size: 96
15268533 TGAAGATAGT
** *
15268543 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGTGAATCTTATTTCTTTGAAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATTTCTCTGAAGT
** * *
15268608 TGCAGTGGAATAGATTAAAGCTACAAGTTAT
66 TAAAGTGGAACAGATTAAAGCTACAAGTTAC
* *
15268639 AAACCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTT-TTTC-CTGAAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATTTCTCTGAAGT
*
15268702 TAAAGTGGAACAGATTAAAGCTTCAAGTTAC
66 TAAAGTGGAACAGATTAAAGCTACAAGTTAC
* *
15268733 AAATCTTATCTACCTAAAGTTGCAGT
1 AAATCTTATCTCCCTGAAGTTGCAGT
15268759 AGGTCGGATT
Statistics
Matches: 106, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
94 54 0.51
95 4 0.04
96 48 0.45
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.31
Consensus pattern (96 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATTTCTCTGAAGT
TAAAGTGGAACAGATTAAAGCTACAAGTTAC
Found at i:15268873 original size:44 final size:44
Alignment explanation
Indices: 15268784--15268875 Score: 121
Period size: 44 Copynumber: 2.1 Consensus size: 44
15268774 TACAGTGGAG
* * **
15268784 AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAACGGAGCAGATTAAAGCAACA
* * *
15268828 AATCTTATCTCCCTGAAGTTGTAGCGGAGTAGATTAAAGCAACA
1 AATCTTATCTCCCTGAAGTTGCAACGGAGCAGATTAAAGCAACA
15268872 AATC
1 AATC
15268876 CTATACCTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAACGGAGCAGATTAAAGCAACA
Found at i:15270643 original size:16 final size:15
Alignment explanation
Indices: 15270622--15270652 Score: 53
Period size: 15 Copynumber: 2.0 Consensus size: 15
15270612 CATCGAACAT
15270622 CTATTTATTTATTTTA
1 CTATTTA-TTATTTTA
15270638 CTATTTATTATTTTA
1 CTATTTATTATTTTA
15270653 ATTTTTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (15 bp):
CTATTTATTATTTTA
Done.