Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 13 of 276
Found at i:3833551 original size:32 final size:32
Alignment explanation
Indices: 3833506--3833571 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 32
3833496 AAAACATCAA
*
3833506 AATAAACACATTTCACCTATGCGTATTTTTCC
1 AATAAACACATTTCACCAATGCGTATTTTTCC
* * *
3833538 AATAAACATATTTCACGAATGGGTATTTTTCC
1 AATAAACACATTTCACCAATGCGTATTTTTCC
3833570 AA
1 AA
3833572 ATATGAACCC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.36
Consensus pattern (32 bp):
AATAAACACATTTCACCAATGCGTATTTTTCC
Found at i:3840888 original size:30 final size:31
Alignment explanation
Indices: 3840849--3840908 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
3840839 GGAGGTGGGA
*
3840849 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
3840880 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
3840909 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:3841065 original size:30 final size:31
Alignment explanation
Indices: 3841023--3841083 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
3841013 GAGAGGGGAG
* *
3841023 GGGAAGGGAGTAAAAGTTTTGGGGGGAAAGT
1 GGGAAGGGAGTAAAAGTTTTGAGGGAAAAGT
3841054 GGGAA-GGAGTAAAAGTTTTGAGGGAAAAGT
1 GGGAAGGGAGTAAAAGTTTTGAGGGAAAAGT
3841084 AAAAAGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.36, C:0.00, G:0.44, T:0.20
Consensus pattern (31 bp):
GGGAAGGGAGTAAAAGTTTTGAGGGAAAAGT
Found at i:3841146 original size:9 final size:9
Alignment explanation
Indices: 3841132--3841168 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
3841122 TATAGTTTGA
3841132 TATTCGAAT
1 TATTCGAAT
3841141 TATTCGAAT
1 TATTCGAAT
*
3841150 TATTCGAGT
1 TATTCGAAT
3841159 TATTCGAAT
1 TATTCGAAT
3841168 T
1 T
3841169 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:3843447 original size:18 final size:18
Alignment explanation
Indices: 3843424--3843461 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
3843414 TTGCCAAAAT
3843424 TTTCTCAT-TTTTTCCATC
1 TTTCTCATCTTTTTCC-TC
*
3843442 TTTCTCTTCTTTTTCCTC
1 TTTCTCATCTTTTTCCTC
3843460 TT
1 TT
3843462 CTTGATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.05, C:0.29, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTCTCATCTTTTTCCTC
Found at i:3851502 original size:30 final size:30
Alignment explanation
Indices: 3851461--3851518 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
3851451 TCCGAGCTTT
3851461 GGGGCAAAATTGTAAATATGCAAAAGTTTA
1 GGGGCAAAATTGTAAATATGCAAAAGTTTA
* * *
3851491 GGGGTAAAATTGTAATTATGCCAAAGTT
1 GGGGCAAAATTGTAAATATGCAAAAGTT
3851519 CAATCAAGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (30 bp):
GGGGCAAAATTGTAAATATGCAAAAGTTTA
Found at i:3851802 original size:51 final size:51
Alignment explanation
Indices: 3851744--3851882 Score: 165
Period size: 51 Copynumber: 2.7 Consensus size: 51
3851734 AGGGAAAGTG
* *
3851744 ATGATCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTA-CTGGATAGTT
1 ATGATCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTATC-AGATAGTA
* * * * *
3851795 TTGATCACGTGTGTAGTACTATATGCAGGCTACTACGTGTATCAGATGGTA
1 ATGATCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTATCAGATAGTA
* *
3851846 ATGGTCA-GATGTGTAGTACTATGTGTAGGCTACTATG
1 ATGATCACG-TGTGTAGTACTATGTGCAGGCTACTATG
3851883 TGAACCGAAC
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
50 1 0.01
51 72 0.97
52 1 0.01
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.34
Consensus pattern (51 bp):
ATGATCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTATCAGATAGTA
Found at i:3851958 original size:44 final size:45
Alignment explanation
Indices: 3851893--3851978 Score: 138
Period size: 44 Copynumber: 1.9 Consensus size: 45
3851883 TGAACCGAAC
* *
3851893 ATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGGAT
1 ATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGGAT
*
3851938 ATCATT-ATTAATAATGTGGTTGCTATGTGCTGAATCCACCG
1 ATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
3851979 AGGATCTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
44 32 0.84
45 6 0.16
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.36
Consensus pattern (45 bp):
ATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGGAT
Found at i:3853962 original size:95 final size:95
Alignment explanation
Indices: 3853799--3853978 Score: 317
Period size: 95 Copynumber: 1.9 Consensus size: 95
3853789 GATGAAATTT
**
3853799 TACAACTTGGTATAATACGTTACAAGTGTATGTGTTCTAGTAATGCTTCGTACCCTATTTCGGCA
1 TACAACTCAGTATAATACGTTACAAGTGTATGTGTTCTAGTAATGCTTCGTACCCTATTTCGGCA
*
3853864 TCGAATACGGGTAAGGGGTAAGGGGTATAA
66 TCGAATACGGGTAAAGGGTAAGGGGTATAA
3853894 TACAACTCAGTATAATACGTTACAAGTGTATGTGTTCTAGTAATGCTTCGTACCCTA-TTCTGGC
1 TACAACTCAGTATAATACGTTACAAGTGTATGTGTTCTAGTAATGCTTCGTACCCTATTTC-GGC
3853958 ATCGAATACGGGTAAAGGGTA
65 ATCGAATACGGGTAAAGGGTA
3853979 TTACATAAAT
Statistics
Matches: 81, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
94 3 0.04
95 78 0.96
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (95 bp):
TACAACTCAGTATAATACGTTACAAGTGTATGTGTTCTAGTAATGCTTCGTACCCTATTTCGGCA
TCGAATACGGGTAAAGGGTAAGGGGTATAA
Found at i:3854530 original size:26 final size:26
Alignment explanation
Indices: 3854501--3854556 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
3854491 TTATCATTGG
*
3854501 TGGTAAGTTAGGTTTCGGTTCATTCT
1 TGGTAAGATAGGTTTCGGTTCATTCT
**
3854527 TGGTTTGATAGGTTTCGGTTCATTCT
1 TGGTAAGATAGGTTTCGGTTCATTCT
3854553 TGGT
1 TGGT
3854557 TGTCAATTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.12, C:0.11, G:0.29, T:0.48
Consensus pattern (26 bp):
TGGTAAGATAGGTTTCGGTTCATTCT
Found at i:3856152 original size:47 final size:47
Alignment explanation
Indices: 3856083--3856178 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
3856073 TAAATGCCTA
3856083 GAATTTTTTACTCATTTGGGGTTTTTTGAAGTATCTTCTAGACTATG
1 GAATTTTTTACTCATTTGGGGTTTTTTGAAGTATCTTCTAGACTATG
3856130 GAATTTTTTACTCATTTGGGGTTTTTTGAAGTATCTTCTAGACTATG
1 GAATTTTTTACTCATTTGGGGTTTTTTGAAGTATCTTCTAGACTATG
3856177 GA
1 GA
3856179 CTGGTTGGCT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.22, C:0.10, G:0.20, T:0.48
Consensus pattern (47 bp):
GAATTTTTTACTCATTTGGGGTTTTTTGAAGTATCTTCTAGACTATG
Found at i:3862950 original size:10 final size:10
Alignment explanation
Indices: 3862934--3862984 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
3862924 TAAAAAGTTA
3862934 AAATAAATTG
1 AAATAAATTG
*
3862944 GAATAAATT-
1 AAATAAATTG
*
3862953 AACA-ATATTG
1 AA-ATAAATTG
*
3862963 AAATAAGTTG
1 AAATAAATTG
3862973 AAATAAATTG
1 AAATAAATTG
3862983 AA
1 AA
3862985 GATGTTAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
9 6 0.19
10 26 0.81
ACGTcount: A:0.57, C:0.02, G:0.12, T:0.29
Consensus pattern (10 bp):
AAATAAATTG
Found at i:3862995 original size:29 final size:29
Alignment explanation
Indices: 3862920--3862996 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 29
3862910 TGATATCTAC
* *
3862920 AAATTAA-AAAGTTAAAATAAATTGGAAT
1 AAATTAACAATGTTAAAATAAATTGAAAT
* * *
3862948 AAATTAACAATATTGAAATAAGTTGAAAT
1 AAATTAACAATGTTAAAATAAATTGAAAT
*
3862977 AAATTGAA-GATGTTAAAATA
1 AAATT-AACAATGTTAAAATA
3862997 TTTGAAAGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
28 7 0.18
29 30 0.77
30 2 0.05
ACGTcount: A:0.57, C:0.01, G:0.12, T:0.30
Consensus pattern (29 bp):
AAATTAACAATGTTAAAATAAATTGAAAT
Found at i:3863315 original size:22 final size:22
Alignment explanation
Indices: 3863287--3863331 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
3863277 CAATGTATAT
*
3863287 AAAATAAA-GTAATGTATATAAA
1 AAAATAAACG-AATATATATAAA
3863309 AAAATAAACGAATATATATAAA
1 AAAATAAACGAATATATATAAA
3863331 A
1 A
3863332 TATAATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (22 bp):
AAAATAAACGAATATATATAAA
Found at i:3863341 original size:3 final size:3
Alignment explanation
Indices: 3863333--3863390 Score: 55
Period size: 3 Copynumber: 19.3 Consensus size: 3
3863323 TATATAAAAT
** * *
3863333 ATA ATA ATA ATA ATA ATA AGG ATA AGT- ATG ATA ATA CTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
*
3863378 ATA ATA ACA ATA A
1 ATA ATA ATA ATA A
3863391 ATTTCTTAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
2 1 0.02
3 42 0.95
4 1 0.02
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:3863341 original size:19 final size:20
Alignment explanation
Indices: 3863282--3863341 Score: 52
Period size: 22 Copynumber: 3.0 Consensus size: 20
3863272 AACAACAATG
* *
3863282 TATATAAAATA-AAGTAATG
1 TATATAAAATATAACTAATA
* *
3863301 TATATAAAAAAATAAACGAATA
1 TATAT-AAAATAT-AACTAATA
3863323 TATATAAAATATAA-TAATA
1 TATATAAAATATAACTAATA
3863342 ATAATAATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
19 9 0.28
20 7 0.22
21 6 0.19
22 10 0.31
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (20 bp):
TATATAAAATATAACTAATA
Found at i:3863344 original size:22 final size:22
Alignment explanation
Indices: 3863282--3863344 Score: 53
Period size: 21 Copynumber: 3.0 Consensus size: 22
3863272 AACAACAATG
*
3863282 TATATAAAATA-AAGTAAT-GTA
1 TATATAAAATATAA-TAATAATA
* **
3863303 TATA-AAAAAATAA-ACGAATA
1 TATATAAAATATAATAATAATA
3863323 TATATAAAATATAATAATAATA
1 TATATAAAATATAATAATAATA
3863345 ATAATAAGGA
Statistics
Matches: 31, Mismatches: 7, Indels: 7
0.69 0.16 0.16
Matches are distributed among these distances:
19 1 0.03
20 11 0.35
21 14 0.45
22 5 0.16
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (22 bp):
TATATAAAATATAATAATAATA
Found at i:3866295 original size:18 final size:17
Alignment explanation
Indices: 3866263--3866296 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
3866253 AATGAACACA
*
3866263 AATAATCAAACAATACC
1 AATAAGCAAACAATACC
3866280 AATAAGCAATACAATAC
1 AATAAGCAA-ACAATAC
3866297 ACATGAGGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.59, C:0.21, G:0.03, T:0.18
Consensus pattern (17 bp):
AATAAGCAAACAATACC
Found at i:3866781 original size:21 final size:22
Alignment explanation
Indices: 3866756--3866808 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
3866746 ATAATATCAA
3866756 CAATAATAAGAGTAA-TAATAG
1 CAATAATAAGAGTAATTAATAG
* *
3866777 TAATAATAA-ATTAATTAATAG
1 CAATAATAAGAGTAATTAATAG
*
3866798 CAAAAATAAGA
1 CAATAATAAGA
3866809 AACAAGACAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 4 0.15
21 21 0.81
22 1 0.04
ACGTcount: A:0.60, C:0.04, G:0.09, T:0.26
Consensus pattern (22 bp):
CAATAATAAGAGTAATTAATAG
Found at i:3873177 original size:34 final size:35
Alignment explanation
Indices: 3873133--3873199 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
3873123 CTGTAAAATG
3873133 TTTTCCGTAAAATGATTT-CTAGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
* *
3873167 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTT
3873200 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
Found at i:3873382 original size:22 final size:24
Alignment explanation
Indices: 3873357--3873407 Score: 56
Period size: 26 Copynumber: 2.2 Consensus size: 24
3873347 TTATTTATAA
3873357 ATAAATAA-A-TCAA-ATT-AAAT
1 ATAAATAATACTCAATATTAAAAT
3873377 ATATAATAATACTCAATTATTAAAAT
1 ATA-AATAATACTCAA-TATTAAAAT
3873403 ATAAA
1 ATAAA
3873408 AGCATTGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
20 3 0.12
21 5 0.20
22 1 0.04
23 4 0.16
25 5 0.20
26 7 0.28
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (24 bp):
ATAAATAATACTCAATATTAAAAT
Found at i:3878012 original size:22 final size:24
Alignment explanation
Indices: 3877987--3878037 Score: 56
Period size: 26 Copynumber: 2.2 Consensus size: 24
3877977 TTATTTATAA
3877987 ATAAATAA-A-TCAA-ATT-AAAT
1 ATAAATAATACTCAATATTAAAAT
3878007 ATATAATAATACTCAATTATTAAAAT
1 ATA-AATAATACTCAA-TATTAAAAT
3878033 ATAAA
1 ATAAA
3878038 AGCATTGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
20 3 0.12
21 5 0.20
22 1 0.04
23 4 0.16
25 5 0.20
26 7 0.28
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (24 bp):
ATAAATAATACTCAATATTAAAAT
Found at i:3885627 original size:86 final size:84
Alignment explanation
Indices: 3885537--3885709 Score: 222
Period size: 86 Copynumber: 2.0 Consensus size: 84
3885527 GATGTTTTTG
* *
3885537 TTTGTTTCTTCTAAAAATAGACTTATTAAGGATTCTAACCATATAAATTATAA-CTCATAATAAT
1 TTTGTTTCTTCTAAAAATAGACTCATTAAGGATTCTAAACATATAAATT-TAAGC-CATAATAAT
* *
3885601 TTTTTTACGATTTTTCGATGAT
64 TTTTCTACAATTTTT-GATGAT
* * * * *
3885623 TTTGTTTCTTTTGAAAATAGACTCATTAAGGATTTTAAACATATAAATTTAAGCCCTAATTATTT
1 TTTGTTTCTTCTAAAAATAGACTCATTAAGGATTCTAAACATATAAATTTAAGCCATAATAATTT
*
3885688 TTCTCCAATTTTTGATGAT
66 TTCTACAATTTTTGATGAT
3885707 TTT
1 TTT
3885710 CGAAATTCGG
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
84 9 0.12
85 22 0.29
86 45 0.59
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.47
Consensus pattern (84 bp):
TTTGTTTCTTCTAAAAATAGACTCATTAAGGATTCTAAACATATAAATTTAAGCCATAATAATTT
TTCTACAATTTTTGATGAT
Found at i:3895970 original size:29 final size:29
Alignment explanation
Indices: 3895937--3895996 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
3895927 TATGTGTACC
*
3895937 ATCAATTGCACTTATGCAATCATGAACAA
1 ATCAATTACACTTATGCAATCATGAACAA
*
3895966 ATCAATTACACTTATGTAATCATGAACAA
1 ATCAATTACACTTATGCAATCATGAACAA
3895995 AT
1 AT
3895997 AATCATATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.30
Consensus pattern (29 bp):
ATCAATTACACTTATGCAATCATGAACAA
Found at i:3898657 original size:34 final size:34
Alignment explanation
Indices: 3898619--3898694 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 34
3898609 AGAAACATAT
3898619 ATCTATTTGGA-CAGTTATGTCTATACGAAGAGAC
1 ATCTATTTGGACCAGTTATGTCTATACGAA-AGAC
* * *
3898653 ATCTA-TTGTACCGGTTATGTCTATATGAAAGAC
1 ATCTATTTGGACCAGTTATGTCTATACGAAAGAC
*
3898686 ATTTATTTG
1 ATCTATTTG
3898695 AAAAATAATG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
33 12 0.33
34 24 0.67
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.38
Consensus pattern (34 bp):
ATCTATTTGGACCAGTTATGTCTATACGAAAGAC
Found at i:3900928 original size:15 final size:15
Alignment explanation
Indices: 3900904--3900936 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
3900894 TTTGTTGTTT
3900904 TTTCAACATAACTGG
1 TTTCAACATAACTGG
*
3900919 TTTCAGCATAACTGG
1 TTTCAACATAACTGG
3900934 TTT
1 TTT
3900937 GTGATGCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.39
Consensus pattern (15 bp):
TTTCAACATAACTGG
Found at i:3923535 original size:15 final size:15
Alignment explanation
Indices: 3923515--3923544 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3923505 AATTTAATCT
3923515 TAGAAAGGATATAAC
1 TAGAAAGGATATAAC
3923530 TAGAAAGGATATAAC
1 TAGAAAGGATATAAC
3923545 CAAATTTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (15 bp):
TAGAAAGGATATAAC
Found at i:3935232 original size:12 final size:12
Alignment explanation
Indices: 3935215--3935239 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3935205 GGTGTTCATT
3935215 CGGTTAACCGAC
1 CGGTTAACCGAC
3935227 CGGTTAACCGAC
1 CGGTTAACCGAC
3935239 C
1 C
3935240 CAAAATAACA
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:3935418 original size:9 final size:9
Alignment explanation
Indices: 3935400--3935458 Score: 91
Period size: 9 Copynumber: 6.6 Consensus size: 9
3935390 TTTGGTTAAA
*
3935400 AATTAACCG
1 AATTACCCG
3935409 AATTACCCG
1 AATTACCCG
3935418 AATTACCCG
1 AATTACCCG
3935427 AATTACCCG
1 AATTACCCG
**
3935436 AATTAATCG
1 AATTACCCG
3935445 AATTACCCG
1 AATTACCCG
3935454 AATTA
1 AATTA
3935459 ACCAAATTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 45 1.00
ACGTcount: A:0.39, C:0.25, G:0.10, T:0.25
Consensus pattern (9 bp):
AATTACCCG
Found at i:3935438 original size:27 final size:27
Alignment explanation
Indices: 3935400--3935475 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
3935390 TTTGGTTAAA
*
3935400 AATTAACCGAATTACCCGAATTACCCG
1 AATTAACCGAATTAACCGAATTACCCG
* *
3935427 AATTACCCGAATTAATCGAATTACCCG
1 AATTAACCGAATTAACCGAATTACCCG
* *
3935454 AATTAACCAAATTAACCAAATT
1 AATTAACCGAATTAACCGAATT
3935476 GAATCACTAC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.42, C:0.25, G:0.08, T:0.25
Consensus pattern (27 bp):
AATTAACCGAATTAACCGAATTACCCG
Found at i:3935466 original size:9 final size:9
Alignment explanation
Indices: 3935400--3935475 Score: 89
Period size: 9 Copynumber: 8.4 Consensus size: 9
3935390 TTTGGTTAAA
3935400 AATTAACCG
1 AATTAACCG
*
3935409 AATTACCCG
1 AATTAACCG
*
3935418 AATTACCCG
1 AATTAACCG
*
3935427 AATTACCCG
1 AATTAACCG
*
3935436 AATTAATCG
1 AATTAACCG
*
3935445 AATTACCCG
1 AATTAACCG
*
3935454 AATTAACCA
1 AATTAACCG
*
3935463 AATTAACCA
1 AATTAACCG
3935472 AATT
1 AATT
3935476 GAATCACTAC
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 60 1.00
ACGTcount: A:0.42, C:0.25, G:0.08, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:3935475 original size:18 final size:18
Alignment explanation
Indices: 3935400--3935467 Score: 109
Period size: 18 Copynumber: 3.8 Consensus size: 18
3935390 TTTGGTTAAA
3935400 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
*
3935418 AATTACCCGAATTACCCG
1 AATTAACCGAATTACCCG
*
3935436 AATTAATCGAATTACCCG
1 AATTAACCGAATTACCCG
*
3935454 AATTAACCAAATTA
1 AATTAACCGAATTA
3935468 ACCAAATTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.41, C:0.25, G:0.09, T:0.25
Consensus pattern (18 bp):
AATTAACCGAATTACCCG
Found at i:3935622 original size:18 final size:18
Alignment explanation
Indices: 3935582--3935625 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
3935572 TAATTTTATG
**
3935582 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
3935600 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
3935618 CTTGGGTT
1 ATTGGGTT
3935626 TAGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:3937332 original size:9 final size:9
Alignment explanation
Indices: 3937318--3937379 Score: 56
Period size: 9 Copynumber: 6.9 Consensus size: 9
3937308 ATTAAAATTC
3937318 TATAAAAAT
1 TATAAAAAT
3937327 TATAAAAA-
1 TATAAAAAT
*
3937335 -ATAAAAAA
1 TATAAAAAT
* *
3937343 AATTAAAAT
1 TATAAAAAT
*
3937352 TAATATAAACT
1 T-ATA-AAAAT
3937363 TATAAAAAT
1 TATAAAAAT
3937372 TATAAAAA
1 TATAAAAA
3937380 AACATAAAAC
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
7 7 0.16
9 26 0.60
10 5 0.12
11 5 0.12
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (9 bp):
TATAAAAAT
Found at i:3937366 original size:36 final size:37
Alignment explanation
Indices: 3937308--3937381 Score: 98
Period size: 36 Copynumber: 2.0 Consensus size: 37
3937298 ATAAAAACGT
*
3937308 ATTAAAATTCTATAAAAATTATAAAAAATA-AAAAAA
1 ATTAAAATTATATAAAAATTATAAAAAATATAAAAAA
* *
3937344 ATTAAAATTA-ATATAAACTTATAAAAATTATAAAAAA
1 ATTAAAATTATATA-AAAATTATAAAAAATATAAAAAA
3937381 A
1 A
3937382 CATAAAACTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
35 3 0.09
36 23 0.70
37 7 0.21
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (37 bp):
ATTAAAATTATATAAAAATTATAAAAAATATAAAAAA
Found at i:3944344 original size:18 final size:19
Alignment explanation
Indices: 3944310--3944345 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3944300 TTTCCGCTAC
*
3944310 TGGGTTATAACATAAATTT
1 TGGGTAATAACATAAATTT
3944329 TGGGTAATAA-ATAAATT
1 TGGGTAATAACATAAATT
3944346 AGAAATTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.42, C:0.03, G:0.17, T:0.39
Consensus pattern (19 bp):
TGGGTAATAACATAAATTT
Found at i:3944935 original size:9 final size:9
Alignment explanation
Indices: 3944923--3944991 Score: 50
Period size: 9 Copynumber: 7.6 Consensus size: 9
3944913 TTATGTTTTT
3944923 TTTTTATAA
1 TTTTTATAA
3944932 TTTTTATAA
1 TTTTTATAA
* *
3944941 CTTTATATCGA
1 -TTTTTAT-AA
*
3944952 TTTTAAT-A
1 TTTTTATAA
* *
3944960 TTTTAATAT
1 TTTTTATAA
*
3944969 TTTTTACAA
1 TTTTTATAA
*
3944978 TTTTTATTA
1 TTTTTATAA
3944987 TTTTT
1 TTTTT
3944992 TAAGAATTAT
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
8 8 0.17
9 27 0.57
10 11 0.23
11 1 0.02
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.65
Consensus pattern (9 bp):
TTTTTATAA
Found at i:3949853 original size:32 final size:32
Alignment explanation
Indices: 3949817--3949878 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
3949807 CATAAACTTT
* *
3949817 TAAATTAATTACTTGAATTTAATAACTCATGA
1 TAAATTAATTAATTCAATTTAATAACTCATGA
*
3949849 TAAATTAATTAATTCAATTTGATAACTCAT
1 TAAATTAATTAATTCAATTTAATAACTCAT
3949879 ACCGATTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.42
Consensus pattern (32 bp):
TAAATTAATTAATTCAATTTAATAACTCATGA
Found at i:3955168 original size:50 final size:50
Alignment explanation
Indices: 3955026--3955262 Score: 183
Period size: 50 Copynumber: 4.6 Consensus size: 50
3955016 GATAATAACA
* * * ** * * *
3955026 TGCCAAAGCCATGTCCCAGACATGGACTTACATGGGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATAT-CGG
* * * * * **
3955075 TGCCAATGTCATATCCTAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCGG
* *
3955125 TGCCCATGCCATGTCCCAGACATGGTCTTAC-GGGAGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGG-GACCTCTCATATCGG
* * * *
3955175 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCAT-A--TC---GG
*
3955231 TGCCAATGCCATGTCCTAGACATGGTCTTACA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACA
3955263 TGGAATCTTT
Statistics
Matches: 149, Mismatches: 29, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
48 1 0.01
49 38 0.26
50 76 0.51
51 2 0.01
53 2 0.01
56 30 0.20
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCGG
Found at i:3958766 original size:19 final size:19
Alignment explanation
Indices: 3958742--3958780 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
3958732 CGGAGAACAA
3958742 TTAGGCCTTACAAAACCTT
1 TTAGGCCTTACAAAACCTT
3958761 TTAGGCCTTACAAAACCTT
1 TTAGGCCTTACAAAACCTT
3958780 T
1 T
3958781 ATCAGTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (19 bp):
TTAGGCCTTACAAAACCTT
Found at i:3966538 original size:12 final size:12
Alignment explanation
Indices: 3966521--3966545 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3966511 GGTGTTCATT
3966521 CGGTTAACCGAC
1 CGGTTAACCGAC
3966533 CGGTTAACCGAC
1 CGGTTAACCGAC
3966545 C
1 C
3966546 CAAAATAACA
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:3966724 original size:9 final size:9
Alignment explanation
Indices: 3966706--3966764 Score: 91
Period size: 9 Copynumber: 6.6 Consensus size: 9
3966696 TTTGGTTAAA
*
3966706 AATTAACCG
1 AATTACCCG
3966715 AATTACCCG
1 AATTACCCG
3966724 AATTACCCG
1 AATTACCCG
3966733 AATTACCCG
1 AATTACCCG
**
3966742 AATTAATCG
1 AATTACCCG
3966751 AATTACCCG
1 AATTACCCG
3966760 AATTA
1 AATTA
3966765 ACCAAATTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 45 1.00
ACGTcount: A:0.39, C:0.25, G:0.10, T:0.25
Consensus pattern (9 bp):
AATTACCCG
Found at i:3966744 original size:27 final size:27
Alignment explanation
Indices: 3966706--3966781 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
3966696 TTTGGTTAAA
*
3966706 AATTAACCGAATTACCCGAATTACCCG
1 AATTAACCGAATTAACCGAATTACCCG
* *
3966733 AATTACCCGAATTAATCGAATTACCCG
1 AATTAACCGAATTAACCGAATTACCCG
* *
3966760 AATTAACCAAATTAACCAAATT
1 AATTAACCGAATTAACCGAATT
3966782 GAATCACTAC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.42, C:0.25, G:0.08, T:0.25
Consensus pattern (27 bp):
AATTAACCGAATTAACCGAATTACCCG
Found at i:3966772 original size:9 final size:9
Alignment explanation
Indices: 3966706--3966781 Score: 89
Period size: 9 Copynumber: 8.4 Consensus size: 9
3966696 TTTGGTTAAA
3966706 AATTAACCG
1 AATTAACCG
*
3966715 AATTACCCG
1 AATTAACCG
*
3966724 AATTACCCG
1 AATTAACCG
*
3966733 AATTACCCG
1 AATTAACCG
*
3966742 AATTAATCG
1 AATTAACCG
*
3966751 AATTACCCG
1 AATTAACCG
*
3966760 AATTAACCA
1 AATTAACCG
*
3966769 AATTAACCA
1 AATTAACCG
3966778 AATT
1 AATT
3966782 GAATCACTAC
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 60 1.00
ACGTcount: A:0.42, C:0.25, G:0.08, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:3966781 original size:18 final size:18
Alignment explanation
Indices: 3966706--3966773 Score: 109
Period size: 18 Copynumber: 3.8 Consensus size: 18
3966696 TTTGGTTAAA
3966706 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
*
3966724 AATTACCCGAATTACCCG
1 AATTAACCGAATTACCCG
*
3966742 AATTAATCGAATTACCCG
1 AATTAACCGAATTACCCG
*
3966760 AATTAACCAAATTA
1 AATTAACCGAATTA
3966774 ACCAAATTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.41, C:0.25, G:0.09, T:0.25
Consensus pattern (18 bp):
AATTAACCGAATTACCCG
Found at i:3966928 original size:18 final size:18
Alignment explanation
Indices: 3966888--3966931 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
3966878 TAATTTTATG
**
3966888 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
3966906 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
3966924 CTTGGGTT
1 ATTGGGTT
3966932 TAGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:3968638 original size:9 final size:9
Alignment explanation
Indices: 3968624--3968685 Score: 56
Period size: 9 Copynumber: 6.9 Consensus size: 9
3968614 ATTAAAATTC
3968624 TATAAAAAT
1 TATAAAAAT
3968633 TATAAAAA-
1 TATAAAAAT
*
3968641 -ATAAAAAA
1 TATAAAAAT
* *
3968649 AATTAAAAT
1 TATAAAAAT
*
3968658 TAATATAAACT
1 T-ATA-AAAAT
3968669 TATAAAAAT
1 TATAAAAAT
3968678 TATAAAAA
1 TATAAAAA
3968686 AACATAAAAC
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
7 7 0.16
9 26 0.60
10 5 0.12
11 5 0.12
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (9 bp):
TATAAAAAT
Found at i:3968672 original size:36 final size:37
Alignment explanation
Indices: 3968614--3968687 Score: 98
Period size: 36 Copynumber: 2.0 Consensus size: 37
3968604 ATAAAAACGT
*
3968614 ATTAAAATTCTATAAAAATTATAAAAAATA-AAAAAA
1 ATTAAAATTATATAAAAATTATAAAAAATATAAAAAA
* *
3968650 ATTAAAATTA-ATATAAACTTATAAAAATTATAAAAAA
1 ATTAAAATTATATA-AAAATTATAAAAAATATAAAAAA
3968687 A
1 A
3968688 CATAAAACTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
35 3 0.09
36 23 0.70
37 7 0.21
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (37 bp):
ATTAAAATTATATAAAAATTATAAAAAATATAAAAAA
Found at i:3975650 original size:18 final size:19
Alignment explanation
Indices: 3975616--3975651 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3975606 TTTCCGCTAC
*
3975616 TGGGTTATAACATAAATTT
1 TGGGTAATAACATAAATTT
3975635 TGGGTAATAA-ATAAATT
1 TGGGTAATAACATAAATT
3975652 AGAAATTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.42, C:0.03, G:0.17, T:0.39
Consensus pattern (19 bp):
TGGGTAATAACATAAATTT
Found at i:3976601 original size:46 final size:46
Alignment explanation
Indices: 3976546--3976643 Score: 189
Period size: 46 Copynumber: 2.2 Consensus size: 46
3976536 ATTTTAGTAA
3976546 ATAGGACTTATGTGAGAAAATTTTGAAATGTGATAGGTTAATTTAT
1 ATAGGACTTATGTGAGAAAATTTTGAAATGTGATAGGTTAATTTAT
3976592 ATAGGACTTATGTGAGAAAATTTTGAAATGTGATAGGTTAATTTAT
1 ATAGGACTTATGTGAGAAAATTTTGAAATGTGATAGGTTAATTTAT
3976638 A-AGGAC
1 ATAGGAC
3976644 CTATTAAAGC
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 5 0.10
46 47 0.90
ACGTcount: A:0.38, C:0.03, G:0.22, T:0.37
Consensus pattern (46 bp):
ATAGGACTTATGTGAGAAAATTTTGAAATGTGATAGGTTAATTTAT
Found at i:3978065 original size:86 final size:86
Alignment explanation
Indices: 3977920--3978083 Score: 274
Period size: 86 Copynumber: 1.9 Consensus size: 86
3977910 ATGTATGTGG
* * * *
3977920 TGATGAAAGTGTTGAATGAGAAGAAAAGAGGTGAGATGTATTGAGTTGTTGATCTCGGCACTAAG
1 TGATGAAAGTGTTGAATGAAAAGAAAAGAGGTAAGATGTACTGAGTTGTTGATCTCGGCACTAAA
*
3977985 TGTGCGGGTATAAACTTTTGA
66 CGTGCGGGTATAAACTTTTGA
*
3978006 TGATGAAATTGTTGAATGAAAAGAAAAGAGGTAAGATGTACTGAGTTGTTGATCTCGGCACTAAA
1 TGATGAAAGTGTTGAATGAAAAGAAAAGAGGTAAGATGTACTGAGTTGTTGATCTCGGCACTAAA
3978071 CGTGCGGGTATAA
66 CGTGCGGGTATAA
3978084 CCATTTATGA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 72 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.29
Consensus pattern (86 bp):
TGATGAAAGTGTTGAATGAAAAGAAAAGAGGTAAGATGTACTGAGTTGTTGATCTCGGCACTAAA
CGTGCGGGTATAAACTTTTGA
Found at i:3978217 original size:27 final size:28
Alignment explanation
Indices: 3978133--3978230 Score: 180
Period size: 28 Copynumber: 3.5 Consensus size: 28
3978123 TAAATTGTAC
3978133 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
3978161 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
3978189 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
3978216 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
3978231 GACTTATTAT
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
27 24 0.35
28 45 0.65
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:3978239 original size:27 final size:27
Alignment explanation
Indices: 3978133--3978243 Score: 152
Period size: 28 Copynumber: 4.0 Consensus size: 27
3978123 TAAATTGTAC
*
3978133 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
*
3978161 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
*
3978189 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGATTATAT
*
3978216 AGCACTGAGTGTGCGGACTT-ATTATAT
1 AGCACTAAGTGTGC-GACTTGATTATAT
3978243 A
1 A
3978244 TTTTTGAAAC
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
27 31 0.39
28 48 0.61
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGATTATAT
Found at i:3978244 original size:56 final size:56
Alignment explanation
Indices: 3978133--3978243 Score: 174
Period size: 55 Copynumber: 2.0 Consensus size: 56
3978123 TAAATTGTAC
*
3978133 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGACTTTGATTATAT
*
3978189 AGCACTAAGTGTGCGAG-TTGATTATATAGCACTGAGTGTGCGGAC-TT-ATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGC-GACTTTGATTATAT
3978243 A
1 A
3978244 TTTTTGAAAC
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
54 8 0.15
55 25 0.48
56 19 0.37
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (56 bp):
AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGACTTTGATTATAT
Found at i:3978669 original size:44 final size:44
Alignment explanation
Indices: 3978606--3978697 Score: 166
Period size: 44 Copynumber: 2.1 Consensus size: 44
3978596 AGCCTCGTTC
3978606 CATTTTGTTTCCTCTTGTGATAATGTTATTAATGGATGGTAGTG
1 CATTTTGTTTCCTCTTGTGATAATGTTATTAATGGATGGTAGTG
* *
3978650 CATTTTGTTTTCTCTTGTGATAATGTTATTGATGGATGGTAGTG
1 CATTTTGTTTCCTCTTGTGATAATGTTATTAATGGATGGTAGTG
3978694 CATT
1 CATT
3978698 GCTTATGACT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.20, C:0.09, G:0.23, T:0.49
Consensus pattern (44 bp):
CATTTTGTTTCCTCTTGTGATAATGTTATTAATGGATGGTAGTG
Found at i:3983951 original size:40 final size:40
Alignment explanation
Indices: 3983896--3984229 Score: 327
Period size: 40 Copynumber: 8.4 Consensus size: 40
3983886 ATATTTGATG
* *
3983896 TGTATCCGGGCTTAAAGACCCCCAGGCTAT-ATGCTGGAAT
1 TGTATCCGGGCTTAAAGACCCGCAGGCT-TCGTGCTGGAAT
* * *
3983936 TGTATCCGGGCTTAAAGACCCACAGGCTTTGTGCTAGAAT
1 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
* * * **
3983976 TATATCCAGACTT-AAGGTCCGCAGGCTTCGTGCTGGAAT
1 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
*
3984015 TGTATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAAT
1 TGTATCCGGGCTTAAAGACCCGCAGGCT-TCGTGCTGGAAT
* * *
3984055 TATATCCGAGCTTAAAGACCCGCAGGCTTCGTGCTGAAAT
1 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
* * * *
3984095 AGTATCTGGGCTTAAAGACCCACAGGCTTCGTGGTGGAAT
1 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
* * * *
3984135 TGTATCCGGACTT-AAGATCCGCAGGCTTCGTGCTGGTAC
1 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
* * * ** * * * *
3984174 TATATCTGGACTT-AAGGTCCGCAGGCTTCATACTGGTAC
1 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
*
3984213 TATATCCGGGCTTAAAG
1 TGTATCCGGGCTTAAAG
3984230 TCCCCTAGGC
Statistics
Matches: 246, Mismatches: 43, Indels: 10
0.82 0.14 0.03
Matches are distributed among these distances:
39 99 0.40
40 146 0.59
41 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
Found at i:3984012 original size:79 final size:78
Alignment explanation
Indices: 3983927--3984170 Score: 344
Period size: 79 Copynumber: 3.1 Consensus size: 78
3983917 CCAGGCTATA
*
3983927 TGCTGGAATTGTATCCGGGCTTAAAGACCCACAGGCTTTGTGCTAGAATTATATCCAGACTTAAG
1 TGCTGGAATTGTATCCGGGCTTAAAGACCCACAGGCTTTGTGCTGGAATTATATCC-GACTTAAG
*
3983992 GTCCGCAGGCTTCG
65 ATCCGCAGGCTTCG
* * *
3984006 TGCTGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTATATCCGAGCTTAAA
1 TGCTGGAATTGTATCCGGGCTTAAAGACCCACAGGCTTTGTGCTGGAATTATATCCGA-CTT-AA
*
3984071 GACCCGCAGGCTTCG
64 GATCCGCAGGCTTCG
* * * * * *
3984086 TGCTGAAATAGTATCTGGGCTTAAAGACCCACAGGCTTCGTGGTGGAATTGTATCCGGACTTAAG
1 TGCTGGAATTGTATCCGGGCTTAAAGACCCACAGGCTTTGTGCTGGAATTATATCC-GACTTAAG
3984151 ATCCGCAGGCTTCG
65 ATCCGCAGGCTTCG
3984165 TGCTGG
1 TGCTGG
3984171 TACTATATCT
Statistics
Matches: 145, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
78 2 0.01
79 76 0.52
80 65 0.45
81 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (78 bp):
TGCTGGAATTGTATCCGGGCTTAAAGACCCACAGGCTTTGTGCTGGAATTATATCCGACTTAAGA
TCCGCAGGCTTCG
Found at i:3984109 original size:119 final size:120
Alignment explanation
Indices: 3983896--3984161 Score: 367
Period size: 119 Copynumber: 2.2 Consensus size: 120
3983886 ATATTTGATG
* * *
3983896 TGTATCCGGGCTTAAAGACCCCCAGGCTATATGCTGGAATTGTATCCGGGCTTAAAGACCCACAG
1 TGTATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTATATCCGAGCTTAAAGACCCACAG
* * ** *
3983961 GCTTTGTGCTAGAATTATATCCAGACTT-AAGGTCCGCAGGCTTCGTGCTGGAAT
66 GCTTCGTGCTAGAAATATATCCAGACTTAAAGACCCACAGGCTTCGTGCTGGAAT
*
3984015 TGTATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTATATCCGAGCTTAAAGACCCGCAG
1 TGTATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTATATCCGAGCTTAAAGACCCACAG
** * *
3984080 GCTTCGTGCT-GAAATAGTATCTGGGCTTAAAGACCCACAGGCTTCGTGGTGGAAT
66 GCTTCGTGCTAGAAATA-TATCCAGACTTAAAGACCCACAGGCTTCGTGCTGGAAT
* *
3984135 TGTATCCGGACTT-AAGATCCGCAGGCT
1 TGTATCCGGGCTTAAAGACCCGCAGGCT
3984162 TCGTGCTGGT
Statistics
Matches: 130, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
118 5 0.04
119 91 0.70
120 34 0.26
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (120 bp):
TGTATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTATATCCGAGCTTAAAGACCCACAG
GCTTCGTGCTAGAAATATATCCAGACTTAAAGACCCACAGGCTTCGTGCTGGAAT
Found at i:3984188 original size:159 final size:158
Alignment explanation
Indices: 3983898--3984240 Score: 429
Period size: 159 Copynumber: 2.2 Consensus size: 158
3983888 ATTTGATGTG
* *
3983898 TATCCGGGCTTAAAGACCCCCAGGCTATATGCTGGAATTGTATCCGGGCTTAAAGACCCACAGGC
1 TATCCGGGCTTAAAGACCCCCAGGCTATATGCTGAAATAGTATCCGGGCTTAAAGACCCACAGGC
* * * * *
3983963 TTTGTGCTAGAATTATATCCAGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTT
66 TTCGTGCTAGAATTATATCCAGACTTAAGATCCGCAGGCTTCGTGCTGGAACTATATCCGGACTT
* *
3984028 AAAGACCCGCAGGCTAT-ATGCTGGAATTA
131 -AAGACCCGCAGGCT-TCATACTGGAACTA
* * * *
3984057 TATCCGAGCTTAAAGACCCGCAGGCT-TCGTGCTGAAATAGTATCTGGGCTTAAAGACCCACAGG
1 TATCCGGGCTTAAAGACCCCCAGGCTAT-ATGCTGAAATAGTATCCGGGCTTAAAGACCCACAGG
* * * * * *
3984121 CTTCGTGGTGGAATTGTATCCGGACTTAAGATCCGCAGGCTTCGTGCTGGTACTATATCTGGACT
65 CTTCGTGCTAGAATTATATCCAGACTTAAGATCCGCAGGCTTCGTGCTGGAACTATATCCGGACT
** *
3984186 TAAGGTCCGCAGGCTTCATACTGGTACTA
130 TAAGACCCGCAGGCTTCATACTGGAACTA
* *
3984215 TATCCGGGCTTAAAGTCCCCTAGGCT
1 TATCCGGGCTTAAAGACCCCCAGGCT
3984241 TTGTGTTGGT
Statistics
Matches: 156, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
157 1 0.01
158 44 0.28
159 111 0.71
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (158 bp):
TATCCGGGCTTAAAGACCCCCAGGCTATATGCTGAAATAGTATCCGGGCTTAAAGACCCACAGGC
TTCGTGCTAGAATTATATCCAGACTTAAGATCCGCAGGCTTCGTGCTGGAACTATATCCGGACTT
AAGACCCGCAGGCTTCATACTGGAACTA
Found at i:3990761 original size:40 final size:39
Alignment explanation
Indices: 3990706--3990861 Score: 197
Period size: 40 Copynumber: 3.9 Consensus size: 39
3990696 ATATTTGATG
* * *
3990706 TGTATCCGGGCTTAAAGACCCACAGGCTATATGTTGGAAT
1 TGTATCCGGGCTTAAAGACCCGCAGGCT-TGTGCTGGAAT
*
3990746 TGTATCCGGGCTTAAAGACCCGGAGGCTTTGTGCTGGAAT
1 TGTATCCGGGCTTAAAGACCCGCAGGC-TTGTGCTGGAAT
*
3990786 TATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
1 TGTATCCGGGCTTAAAGACCCGCAGGCTT-GTGCTGGAAT
* * *
3990826 TGTATCCGGACTT-AAGATCCGCAGACTTCGTGCTGG
1 TGTATCCGGGCTTAAAGACCCGCAGGCTT-GTGCTGG
3990862 TACTATATCT
Statistics
Matches: 104, Mismatches: 10, Indels: 5
0.87 0.08 0.04
Matches are distributed among these distances:
39 23 0.22
40 80 0.77
41 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (39 bp):
TGTATCCGGGCTTAAAGACCCGCAGGCTTGTGCTGGAAT
Found at i:3990859 original size:39 final size:40
Alignment explanation
Indices: 3990708--3990932 Score: 195
Period size: 40 Copynumber: 5.7 Consensus size: 40
3990698 ATTTGATGTG
* * * * *
3990708 TATCCGGGCTTAAAGACCCACAGGCTAT-ATGTTGGAATTG
1 TATCCGGACTTAAAGACCCGCAGGCT-TCGTGCTGGAATTA
* * *
3990748 TATCCGGGCTTAAAGACCCGGAGGCTTTGTGCTGGAATTA
1 TATCCGGACTTAAAGACCCGCAGGCTTCGTGCTGGAATTA
* *
3990788 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTG
1 TATCCGGACTTAAAGACCCGCAGGCTTCGTGCTGGAATTA
* * * *
3990828 TATCCGGACTT-AAGATCCGCAGACTTCGTGCTGGTACTA
1 TATCCGGACTTAAAGACCCGCAGGCTTCGTGCTGGAATTA
* ** * * * * *
3990867 TATCTGGACTT-AAGGTCCACAGGCTTCGTACTAGTACTA
1 TATCCGGACTTAAAGACCCGCAGGCTTCGTGCTGGAATTA
* * *
3990906 TATCCGGGCTTAAAGTCCCGTAGGCTT
1 TATCCGGACTTAAAGACCCGCAGGCTT
3990933 TGTGTTGGTG
Statistics
Matches: 157, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
39 66 0.42
40 91 0.58
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (40 bp):
TATCCGGACTTAAAGACCCGCAGGCTTCGTGCTGGAATTA
Found at i:3996280 original size:28 final size:29
Alignment explanation
Indices: 3996235--3996294 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
3996225 ATTTGTTTCA
*
3996235 CAATTTAACCCTTCAATTTACACTTTCCT
1 CAATTTAACCCTTCAATTGACACTTTCCT
* *
3996264 CAATTTAATCCC-T-AATTGACATTTTTCT
1 CAATTTAA-CCCTTCAATTGACACTTTCCT
3996292 CAA
1 CAA
3996295 AAATCACTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 15 0.56
29 9 0.33
30 3 0.11
ACGTcount: A:0.30, C:0.27, G:0.02, T:0.42
Consensus pattern (29 bp):
CAATTTAACCCTTCAATTGACACTTTCCT
Found at i:3999893 original size:51 final size:49
Alignment explanation
Indices: 3999813--3999949 Score: 157
Period size: 51 Copynumber: 2.8 Consensus size: 49
3999803 ATTGTGAGGC
* *
3999813 CACATGTGTAGTACTAAGCGCAGGTTACTATGCGTACCCGATAACTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAA-TT-GAT
* *** * *
3999864 CACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAATTGAT
* * *
3999913 CGCATGCGTAGTACTATGTGCAGGCTACTATGCGTAC
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTAC
3999950 TAGATAACCT
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
49 32 0.45
50 2 0.03
51 37 0.52
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.28
Consensus pattern (49 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAATTGAT
Found at i:3999956 original size:49 final size:51
Alignment explanation
Indices: 3999813--3999957 Score: 159
Period size: 49 Copynumber: 2.9 Consensus size: 51
3999803 ATTGTGAGGC
* * *
3999813 CACATGTGTAGTACTAAGCGCAGGTTACTATGCGTACCCGATAACTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGAT
* *** * *
3999864 CACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAA-TT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGAT
* * * *
3999913 CGCATGCGTAGTACTATGTGCAGGCTACTATGCGTACTAGATAAC
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAAC
3999958 CTTGTCTACA
Statistics
Matches: 76, Mismatches: 17, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
49 37 0.49
50 2 0.03
51 37 0.49
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGAT
Found at i:4000577 original size:62 final size:62
Alignment explanation
Indices: 4000473--4000597 Score: 205
Period size: 62 Copynumber: 2.0 Consensus size: 62
4000463 ATGAGTCTAA
* * *
4000473 TTTCAGGAGGAATGGACGGGAACATCATCCGAGTCCTGAAATATGAGATAAATAATATTTAG
1 TTTCAGGAGGAATGAACGGGAACATCATCCGAATCCTAAAATATGAGATAAATAATATTTAG
* *
4000535 TTTCAGGAGGAATGAATGGGAACATCATCCGAATCCTAAAATATGAGATAAATAATTTTTAG
1 TTTCAGGAGGAATGAACGGGAACATCATCCGAATCCTAAAATATGAGATAAATAATATTTAG
4000597 T
1 T
4000598 GAAGAGCGGT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (62 bp):
TTTCAGGAGGAATGAACGGGAACATCATCCGAATCCTAAAATATGAGATAAATAATATTTAG
Found at i:4001030 original size:61 final size:61
Alignment explanation
Indices: 4000935--4001056 Score: 217
Period size: 61 Copynumber: 2.0 Consensus size: 61
4000925 ATTGGCAGGT
*
4000935 TGGCTCAGGGTTGGAGATCGTCAGAGGCAAAATCACTCTATCAAACTATAATTTTTGGGAG
1 TGGCTCAGGGTTGGAGATCGTCAGAGGCAAAATCACACTATCAAACTATAATTTTTGGGAG
* *
4000996 TGGCTCAGGGTTGGAGATCGTCGGAGGCAAAATCACACTATCAAACTATCATTTTTGGGAG
1 TGGCTCAGGGTTGGAGATCGTCAGAGGCAAAATCACACTATCAAACTATAATTTTTGGGAG
4001057 AATTAATTCA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (61 bp):
TGGCTCAGGGTTGGAGATCGTCAGAGGCAAAATCACACTATCAAACTATAATTTTTGGGAG
Found at i:4005921 original size:50 final size:49
Alignment explanation
Indices: 4005802--4005976 Score: 192
Period size: 50 Copynumber: 3.5 Consensus size: 49
4005792 TGAGGTCGCA
* *** * * *
4005802 TGTGTAGTACTAAGTGCATGCTACTATGCGTATCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATAA-TT-GGTCATG
*
4005853 TGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATAGTTAGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATAATT-GGTCATG
* *
4005903 TGTGTAGTACTAAGTGCAGGCTACTACATGTA-CGGATAATTGGTC-TCA
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATAATTGGTCAT-G
* *
4005951 TGTGTAGTACTATGTGTAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
4005977 TGCGTACCAG
Statistics
Matches: 109, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
47 1 0.01
48 28 0.26
49 7 0.06
50 39 0.36
51 34 0.31
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.33
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATAATTGGTCATG
Found at i:4008594 original size:22 final size:25
Alignment explanation
Indices: 4008413--4009346 Score: 607
Period size: 27 Copynumber: 34.6 Consensus size: 25
4008403 TACCCCACAA
* *
4008413 GGGTATCTCGGTAATTCTACCCTACAG
1 GGGTATTTCGATAATTCT--CCTACAG
* * * *
4008440 GGGTATTTCAATATTTTTACCCTACAA
1 GGGTATTTCGATAATTCT--CCTACAG
4008467 GGGTATTTCGATAATTCTACCCTACAG
1 GGGTATTTCGATAATTCT--CCTACAG
* *
4008494 GGGTATTTC-AGTAATTCTACCCTATAA
1 GGGTATTTCGA-TAATTCT--CCTACAG
* *
4008521 GGTTATTT-TAGTAATTCTACCCTACAG
1 GGGTATTTCGA-TAATTCT--CCTACAG
*
4008548 GGGTATTTCGGTAATTCTACCCTACAG
1 GGGTATTTCGATAATTCT--CCTACAG
4008575 GGGTATTTCGATAATTCTACCCTACAG
1 GGGTATTTCGATAATTCT--CCTACAG
* * * *
4008602 GGGTATTTCAATATTTTTACCCTACAA
1 GGGTATTTCGATAATTCT--CCTACAG
4008629 GGGTATTTCGATAATTCTACCCTACAG
1 GGGTATTTCGATAATTCT--CCTACAG
* * * *
4008656 GGGTATTTCAATATTTTTACCCTACAA
1 GGGTATTTCGATAATTCT--CCTACAG
4008683 GGGTATTTCGATAATTCTACCCTACAG
1 GGGTATTTCGATAATTCT--CCTACAG
* * * *
4008710 GGGTATTTCAATATTTTTACCCTACAA
1 GGGTATTTCGATAATTCT--CCTACAG
4008737 GGGTATTTCGATAATTCTACCCTACAG
1 GGGTATTTCGATAATTCT--CCTACAG
* * * *
4008764 GGGTATTTCAATATTTTTACCCTACAA
1 GGGTATTTCGATAATTCT--CCTACAG
4008791 GGGTATTTCGATAATTCTACCCTACAG
1 GGGTATTTCGATAATTCT--CCTACAG
* * * *
4008818 GGGTATTTCAATATTTTTACCCTACAA
1 GGGTATTTCGATAATTCT--CCTACAG
4008845 GGGTATTTCGATAATTCTACCCTACAG
1 GGGTATTTCGATAATTCT--CCTACAG
* * * *
4008872 GGGTATTTCAATATTTTTACCCTACAA
1 GGGTATTTCGATAATTCT--CCTACAG
4008899 GGGTATTTCGATAATTCTACCCTACAG
1 GGGTATTTCGATAATTCT--CCTACAG
* * * *
4008926 GGGTATTTCAATATTTTTACCCTACAA
1 GGGTATTTCGATAATTCT--CCTACAG
4008953 GGGTATTTCGATAATTCTACCCTACAG
1 GGGTATTTCGATAATTCT--CCTACAG
* * * *
4008980 GGGTATTTCAATATTTTTACCCTACAA
1 GGGTATTTCGATAATTCT--CCTACAG
4009007 GGGTATTTCGATAATTCTACCCTACAG
1 GGGTATTTCGATAATTCT--CCTACAG
* * * *
4009034 GGGTATTTCAATATTTTTACCCTACAA
1 GGGTATTTCGATAATTCT--CCTACAG
4009061 GGGTATTTCGATAATTCTACCCTACAG
1 GGGTATTTCGATAATTCT--CCTACAG
* * * *
4009088 GGGTATTTCAATATTTTTACCCTACAA
1 GGGTATTTCGATAATTCT--CCTACAG
4009115 GGGTATTTCGATAATTCTACCCTACAG
1 GGGTATTTCGATAATTCT--CCTACAG
* * * *
4009142 GGGTATTTCAATATTTTTACCCTACAA
1 GGGTATTTCGATAATTCT--CCTACAG
4009169 GGGTATTTCGATAATTCTACCCTACAG
1 GGGTATTTCGATAATTCT--CCTACAG
* * * *
4009196 GGGTATTTCAATATTTTTACCCTACAA
1 GGGTATTTCGATAATTCT--CCTACAG
4009223 GGGTATTTCGATAATTCTACCCTACAG
1 GGGTATTTCGATAATTCT--CCTACAG
* *
4009250 GGGTATTTC-AGTAATTCTACCCTATAA
1 GGGTATTTCGA-TAATTCT--CCTACAG
* *
4009277 GGTTATTT-TAGTAATTCTACCCTACAG
1 GGGTATTTCGA-TAATTCT--CCTACAG
*
4009304 GGGTATTTCGGTAATTCTACCCTACAG
1 GGGTATTTCGATAATTCT--CCTACAG
*
4009331 GGGCATTTCGATAATT
1 GGGTATTTCGATAATT
4009347 TTACGAATTA
Statistics
Matches: 776, Mismatches: 125, Indels: 12
0.85 0.14 0.01
Matches are distributed among these distances:
26 2 0.00
27 774 1.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (25 bp):
GGGTATTTCGATAATTCTCCTACAG
Found at i:4009359 original size:27 final size:27
Alignment explanation
Indices: 4009342--4009482 Score: 117
Period size: 27 Copynumber: 5.3 Consensus size: 27
4009332 GGCATTTCGA
*
4009342 TAATTTTACGAA-TTAGGGGTATTTTGG
1 TAATTTTAC-AAGCTAGGGGTATTTTGG
4009369 TAATTTTACAAGCTAGGGGTATTTTGG
1 TAATTTTACAAGCTAGGGGTATTTTGG
* * *
4009396 TAATTTTA-TAGACCAGGGGTATTTTAG
1 TAATTTTACAAG-CTAGGGGTATTTTGG
* * * *
4009423 TAAATTTACAAACCA-AGGTATTTTGG
1 TAATTTTACAAGCTAGGGGTATTTTGG
** * * * *
4009449 TAATTTTGTAAACCAAGGGTATTTTAG
1 TAATTTTACAAGCTAGGGGTATTTTGG
4009476 TAATTTT
1 TAATTTT
4009483 GTAAATCGAG
Statistics
Matches: 96, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
26 25 0.26
27 70 0.73
28 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (27 bp):
TAATTTTACAAGCTAGGGGTATTTTGG
Found at i:4009365 original size:54 final size:54
Alignment explanation
Indices: 4008400--4009346 Score: 1628
Period size: 54 Copynumber: 17.5 Consensus size: 54
4008390 AAAATGGTAA
* * *
4008400 TTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAATAT
1 TTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAT
* *
4008454 TTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAA
1 TTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAT
* * * * ** *
4008508 TTCTACCCTATAAGGTTATTT-TAGTAATTCTACCCTACAGGGGTATTTCGGTAA
1 TTTTACCCTACAAGGGTATTTCGA-TAATTCTACCCTACAGGGGTATTTCAATAT
* *
4008562 TTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAT
1 TTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAT
4008616 TTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAT
1 TTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAT
4008670 TTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAT
1 TTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAT
4008724 TTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAT
1 TTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAT
4008778 TTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAT
1 TTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAT
4008832 TTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAT
1 TTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAT
4008886 TTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAT
1 TTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAT
4008940 TTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAT
1 TTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAT
4008994 TTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAT
1 TTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAT
4009048 TTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAT
1 TTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAT
4009102 TTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAT
1 TTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAT
4009156 TTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAT
1 TTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAT
* *
4009210 TTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAA
1 TTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAT
* * * * ** *
4009264 TTCTACCCTATAAGGTTATTT-TAGTAATTCTACCCTACAGGGGTATTTCGGTAA
1 TTTTACCCTACAAGGGTATTTCGA-TAATTCTACCCTACAGGGGTATTTCAATAT
* * *
4009318 TTCTACCCTACAGGGGCATTTCGATAATT
1 TTTTACCCTACAAGGGTATTTCGATAATT
4009347 TTACGAATTA
Statistics
Matches: 858, Mismatches: 31, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
53 2 0.00
54 854 1.00
55 2 0.00
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.37
Consensus pattern (54 bp):
TTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAT
Found at i:4009469 original size:53 final size:54
Alignment explanation
Indices: 4009358--4009478 Score: 163
Period size: 53 Copynumber: 2.3 Consensus size: 54
4009348 TACGAATTAG
* * * * * * *
4009358 GGGTATTTTGGTAATTTTACAAGCTAGGGGTATTTTGGTAATTTTATAGACCAG
1 GGGTATTTTAGTAAATTTACAAACCAGAGGTATTTTGGTAATTTTATAAACCAA
*
4009412 GGGTATTTTAGTAAATTTACAAACCA-AGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTAGTAAATTTACAAACCAGAGGTATTTTGGTAATTTTATAAACCAA
4009465 GGGTATTTTAGTAA
1 GGGTATTTTAGTAA
4009479 TTTTGTAAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
53 37 0.63
54 22 0.37
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.40
Consensus pattern (54 bp):
GGGTATTTTAGTAAATTTACAAACCAGAGGTATTTTGGTAATTTTATAAACCAA
Found at i:4009505 original size:27 final size:27
Alignment explanation
Indices: 4009475--4009604 Score: 215
Period size: 27 Copynumber: 4.8 Consensus size: 27
4009465 GGGTATTTTA
*
4009475 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
4009502 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
4009529 GTAATTCTATAAATCGAGGGTAAATTG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
4009556 GTAATTCTGTAAATCGAAGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
4009583 GTAATTCTGTAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
4009605 CTTTGGTAAT
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 95 1.00
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.31
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:4009560 original size:81 final size:81
Alignment explanation
Indices: 4009475--4009631 Score: 233
Period size: 81 Copynumber: 1.9 Consensus size: 81
4009465 GGGTATTTTA
* * * *
4009475 GTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
1 GTAATTCTGTAAATCGAAGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTACA
4009540 AATCGAGGGTAAATTG
66 AATCGAGGGTAAATTG
*** *
4009556 GTAATTCTGTAAATCGAAGGTAAAACGGTAATTCTGTAAATCGAGGGTACTTTGGTAATTTTACA
1 GTAATTCTGTAAATCGAAGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTACA
*
4009621 AATTGAGGGTA
66 AATCGAGGGTA
4009632 TTTCAGTAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 67 1.00
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAAGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTACA
AATCGAGGGTAAATTG
Found at i:4009612 original size:27 final size:27
Alignment explanation
Indices: 4009445--4009615 Score: 207
Period size: 27 Copynumber: 6.3 Consensus size: 27
4009435 CCAAGGTATT
* * * **
4009445 TTGGTAATTTTGTAAACCAAGGGTATT
1 TTGGTAATTCTGTAAATCGAGGGTAAA
* *
4009472 TTAGTAATTTTGTAAATCGAGGGTAAA
1 TTGGTAATTCTGTAAATCGAGGGTAAA
*
4009499 ATGGTAATTCTGTAAATCGAGGGTAAA
1 TTGGTAATTCTGTAAATCGAGGGTAAA
* *
4009526 ATGGTAATTCTATAAATCGAGGGTAAA
1 TTGGTAATTCTGTAAATCGAGGGTAAA
*
4009553 TTGGTAATTCTGTAAATCGAAGGTAAA
1 TTGGTAATTCTGTAAATCGAGGGTAAA
** **
4009580 ACGGTAATTCTGTAAATCGAGGGTACT
1 TTGGTAATTCTGTAAATCGAGGGTAAA
4009607 TTGGTAATT
1 TTGGTAATT
4009616 TTACAAATTG
Statistics
Matches: 125, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 125 1.00
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.35
Consensus pattern (27 bp):
TTGGTAATTCTGTAAATCGAGGGTAAA
Found at i:4009623 original size:27 final size:27
Alignment explanation
Indices: 4009358--4009643 Score: 173
Period size: 27 Copynumber: 10.6 Consensus size: 27
4009348 TACGAATTAG
* * *
4009358 GGGTATTTTGGTAATTTTA-CAAGCTA
1 GGGTATTTTGGTAATTTTATAAATCGA
* *
4009384 GGGGTATTTTGGTAATTTTATAGA-CCA
1 -GGGTATTTTGGTAATTTTATAAATCGA
* * * *
4009411 GGGGTATTTTAGTAAATTTACAAA-CCA
1 -GGGTATTTTGGTAATTTTATAAATCGA
* * * *
4009438 AGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAATCGA
* *
4009465 GGGTATTTTAGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
*** * *
4009492 GGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
*** *
4009519 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
** * *
4009546 GGGTAAATTGGTAATTCTGTAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
* **** * *
4009573 AGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
* * *
4009600 GGGTACTTTGGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTTATAAATCGA
**
4009627 GGGTATTTCAGTAATTT
1 GGGTATTTTGGTAATTT
4009644 GGTAAACTAA
Statistics
Matches: 217, Mismatches: 40, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
26 18 0.08
27 198 0.91
28 1 0.00
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.37
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAATCGA
Found at i:4009641 original size:54 final size:54
Alignment explanation
Indices: 4009445--4009642 Score: 191
Period size: 54 Copynumber: 3.7 Consensus size: 54
4009435 CCAAGGTATT
* * * ** * *
4009445 TTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAA
1 TTGGTAATTCTGTAAATCGAGGGTAAATCAGTAATTCTGTAAATCGAGGGTAAA
* * *
4009499 ATGGTAATTCTGTAAATCGAGGGTAAAAT-GGTAATTCTATAAATCGAGGGTAAA
1 TTGGTAATTCTGTAAATCGAGGGT-AAATCAGTAATTCTGTAAATCGAGGGTAAA
* * * **
4009553 TTGGTAATTCTGTAAATCGAAGGTAAAACGGTAATTCTGTAAATCGAGGGTACT
1 TTGGTAATTCTGTAAATCGAGGGTAAATCAGTAATTCTGTAAATCGAGGGTAAA
* ** * **
4009607 TTGGTAATTTTACAAATTGAGGGTATTTCAGTAATT
1 TTGGTAATTCTGTAAATCGAGGGTAAATCAGTAATT
4009643 TGGTAAACTA
Statistics
Matches: 118, Mismatches: 24, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
53 3 0.03
54 113 0.96
55 2 0.02
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.35
Consensus pattern (54 bp):
TTGGTAATTCTGTAAATCGAGGGTAAATCAGTAATTCTGTAAATCGAGGGTAAA
Found at i:4009641 original size:81 final size:80
Alignment explanation
Indices: 4009464--4009642 Score: 232
Period size: 81 Copynumber: 2.2 Consensus size: 80
4009454 TTGTAAACCA
* * *
4009464 AGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATG
1 AGGGTA-TTTAGTAATTCTGTAAATCGAAGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATG
*
4009529 GTAATTCTATAAATCG
65 GTAATTCTACAAATCG
* * ***
4009545 AGGGTAAATTGGTAATTCTGTAAATCGAAGGTAAAACGGTAATTCTGTAAATCGAGGGTACTTTG
1 AGGGT-ATTTAGTAATTCTGTAAATCGAAGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATG
* *
4009610 GTAATTTTACAAATTG
65 GTAATTCTACAAATCG
4009626 AGGGTATTTCAGTAATT
1 AGGGTATTT-AGTAATT
4009643 TGGTAAACTA
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
80 3 0.04
81 79 0.95
82 1 0.01
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.35
Consensus pattern (80 bp):
AGGGTATTTAGTAATTCTGTAAATCGAAGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGG
TAATTCTACAAATCG
Found at i:4011966 original size:25 final size:25
Alignment explanation
Indices: 4011938--4012019 Score: 103
Period size: 25 Copynumber: 3.3 Consensus size: 25
4011928 TGGAGGCCTA
4011938 CCCTCTTTTAAT-AACTGGGGCAAAG
1 CCCT-TTTTAATAAACTGGGGCAAAG
*
4011963 CCCTTTTTGATAAACTGGGGCAAAG
1 CCCTTTTTAATAAACTGGGGCAAAG
*** *
4011988 CCCTTTTCGGTAAACTGGGGCATAG
1 CCCTTTTTAATAAACTGGGGCAAAG
4012013 CCCTTTT
1 CCCTTTT
4012020 AGCACTTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
24 6 0.12
25 46 0.88
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.30
Consensus pattern (25 bp):
CCCTTTTTAATAAACTGGGGCAAAG
Found at i:4012241 original size:27 final size:28
Alignment explanation
Indices: 4012179--4012242 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 28
4012169 CAGTCACTTG
*
4012179 CCCACAAGGGCAAAACAGTCATTTAACA
1 CCCACAAGGGCAAAACAGTAATTTAACA
* ** *
4012207 CCC-TAAGGGCAAAATGGTAATTTTAC-
1 CCCACAAGGGCAAAACAGTAATTTAACA
4012233 CCCACAAGGG
1 CCCACAAGGG
4012243 TATCTCGGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
26 3 0.10
27 23 0.79
28 3 0.10
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.17
Consensus pattern (28 bp):
CCCACAAGGGCAAAACAGTAATTTAACA
Found at i:4012252 original size:27 final size:27
Alignment explanation
Indices: 4012222--4012408 Score: 236
Period size: 27 Copynumber: 7.0 Consensus size: 27
4012212 AGGGCAAAAT
* * *
4012222 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
4012249 GGTAATTCTACCCTACATGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
4012276 GGTATTTTTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
4012303 GGTAATTCTACCCTA-TAGGGTTATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
* *
4012330 AGTAATTCTACCCTAC-AGAGGTATTTT
1 GGTAATTCTACCCTACAAG-GGTATTTC
4012357 GGTAATTCTACCCTAC-AGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
**
4012383 AATAATTCTACCCTACAAGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
4012409 TGATATTTTA
Statistics
Matches: 140, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
26 25 0.18
27 113 0.81
28 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:4012451 original size:27 final size:27
Alignment explanation
Indices: 4012398--4012593 Score: 141
Period size: 27 Copynumber: 7.3 Consensus size: 27
4012388 TTCTACCCTA
*
4012398 CAAGGGTATTTTGAT-ATTTTAGAAAT
1 CAAGGGTATTTTGATAATTTTACAAAT
* * *
4012424 CAAGAGTATTTCGATAATTTCACAAAT
1 CAAGGGTATTTTGATAATTTTACAAAT
* * **
4012451 CAGGGGTATTTTGGTAATTTTACAAGC
1 CAAGGGTATTTTGATAATTTTACAAAT
* *
4012478 CATA-GGTATTTTGGA-AATTTAACAAAC
1 CA-AGGGTATTTT-GATAATTTTACAAAT
* *
4012505 CAGGGGTATTTT-AGTAATTTTACAAAC
1 CAAGGGTATTTTGA-TAATTTTACAAAT
* * ** *
4012532 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGATAATTTTACAAAT
* *
4012559 CAAGGGTA-TTTCAGTAATTTTATAAAT
1 CAAGGGTATTTTGA-TAATTTTACAAAT
*
4012586 CGAGGGTA
1 CAAGGGTA
4012594 AAATGGTAAT
Statistics
Matches: 136, Mismatches: 26, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
25 1 0.01
26 16 0.12
27 118 0.87
28 1 0.01
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.37
Consensus pattern (27 bp):
CAAGGGTATTTTGATAATTTTACAAAT
Found at i:4012497 original size:54 final size:54
Alignment explanation
Indices: 4012439--4012580 Score: 176
Period size: 54 Copynumber: 2.6 Consensus size: 54
4012429 GTATTTCGAT
* * * * *
4012439 AATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAGCCATAGGTATTTTGGA
1 AATTTAACAAACCAGGGGTATTTTAGTAATTTTACAAACCAGAGGTATTTTGGA
* *
4012493 AATTTAACAAACCAGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGT
1 AATTTAACAAACCAGGGGTATTTTAGTAATTTTACAAACCAGAGGTATTTTGGA
*** * *
4012547 AATTTTGTAAACCAAGGGTATTTCAGTAATTTTA
1 AATTTAACAAACCAGGGGTATTTTAGTAATTTTA
4012581 TAAATCGAGG
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 76 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (54 bp):
AATTTAACAAACCAGGGGTATTTTAGTAATTTTACAAACCAGAGGTATTTTGGA
Found at i:4012601 original size:54 final size:53
Alignment explanation
Indices: 4012501--4012699 Score: 148
Period size: 54 Copynumber: 3.7 Consensus size: 53
4012491 GAAATTTAAC
* * * *** *
4012501 AAACCAGGGGTATTTTAGTAATTTTACAAA-CCAGGGGTATTTTGGTAATTTTGT
1 AAACCAAGGGTA-TTTAGTAATTTTATAAATCGA-GGGTAAAATGGTAATTCTGT
*
4012555 AAACCAAGGGTATTTCAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTAT
1 AAACCAAGGGTATTT-AGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGT
* * ** * * * *
4012609 AAATCGAGGGTAAAATGGTAATTCTATAAATCGAAGGTAAAACGGTAATTCTGT
1 AAACCAAGGGT-ATTTAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGT
*** * * *
4012663 AAATTGAGGGTACTTTGGTAATTTTACAAATTGAGGG
1 AAACCAAGGGTA-TTTAGTAATTTTATAAATCGAGGG
4012700 CATTTCAGTA
Statistics
Matches: 117, Mismatches: 24, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
53 4 0.03
54 109 0.93
55 4 0.03
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.34
Consensus pattern (53 bp):
AAACCAAGGGTATTTAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGT
Found at i:4012685 original size:27 final size:27
Alignment explanation
Indices: 4012572--4012674 Score: 161
Period size: 27 Copynumber: 3.8 Consensus size: 27
4012562 GGGTATTTCA
*
4012572 GTAATTTTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
4012599 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
4012626 GTAATTCTATAAATCGAAGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
4012653 GTAATTCTGTAAATTGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
4012675 CTTTGGTAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 70 1.00
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Found at i:4018278 original size:54 final size:54
Alignment explanation
Indices: 4018214--4018322 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 54
4018204 TATACTCCTC
* *
4018214 ATTCCTGCTATCAATCTCATCAAAATAAGGTTTTAATTGGGTGTTGTTTACCTT
1 ATTCCTGCTATCAATCGCATCAAAATAAGGTTTTAATCGGGTGTTGTTTACCTT
4018268 ATTCCTGCTATCAATCGCATCAAAATAAGGTTTTAATCGGGTGTTGTTTACCTT
1 ATTCCTGCTATCAATCGCATCAAAATAAGGTTTTAATCGGGTGTTGTTTACCTT
4018322 A
1 A
4018323 AAAGTGCCGA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (54 bp):
ATTCCTGCTATCAATCGCATCAAAATAAGGTTTTAATCGGGTGTTGTTTACCTT
Found at i:4025476 original size:28 final size:28
Alignment explanation
Indices: 4025394--4025483 Score: 119
Period size: 29 Copynumber: 3.1 Consensus size: 28
4025384 TGAGTATGAC
4025394 TATAAATGTGAATTGGGCCT-GATGGGCCA
1 TATAAATGTG-ATTGGGCCTAG-TGGGCCA
* **
4025423 TATAAATGTGATTTGGGCCTAATGGGTGA
1 TATAAATGTGA-TTGGGCCTAGTGGGCCA
4025452 TATAAATGTGATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTAGTGGGCCA
4025480 TATA
1 TATA
4025484 CAGGTATGTG
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
28 19 0.36
29 34 0.64
ACGTcount: A:0.28, C:0.11, G:0.30, T:0.31
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAGTGGGCCA
Found at i:4029811 original size:48 final size:48
Alignment explanation
Indices: 4029733--4029855 Score: 212
Period size: 48 Copynumber: 2.6 Consensus size: 48
4029723 TTATTTGTGT
*
4029733 GCTACTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACAAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACAAGA
* *
4029781 GCTAGTGTAAGACCATGTTTGGGACTTGGCATCGGCATTGAGACAAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACAAGA
4029829 GCTAGTGTAAGA-CATGTCTGGGACATG
1 GCTAGTGTAAGACCATGTCTGGGACATG
4029856 CGTCGGCTAC
Statistics
Matches: 70, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
47 13 0.19
48 57 0.81
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACAAGA
Found at i:4043690 original size:37 final size:37
Alignment explanation
Indices: 4043640--4043718 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
4043630 TTATTACGAA
* * *
4043640 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
4043677 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
4043714 GTCTT
1 GTCTT
4043719 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:4043911 original size:49 final size:49
Alignment explanation
Indices: 4043837--4044081 Score: 381
Period size: 49 Copynumber: 5.1 Consensus size: 49
4043827 CCCTTCGGGA
* * * * *
4043837 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
4043884 CCTGTCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
4043933 CTTATCAC--ATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4043980 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4044029 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4044078 CTTA
1 CTTA
4044082 CTATCATTTC
Statistics
Matches: 181, Mismatches: 13, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
47 53 0.29
48 1 0.01
49 127 0.70
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:4044001 original size:96 final size:96
Alignment explanation
Indices: 4043837--4044081 Score: 382
Period size: 96 Copynumber: 2.5 Consensus size: 96
4043827 CCCTTCGGGA
* * * * * * * *
4043837 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
4043902 ACTTCCACATTCATCACATCGGCCATTAGGC
66 ACTTCCACATTCATCACATCGGCCATTAGGC
*
4043933 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
4043998 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTCCACATTCATCACATCGGCCATTAGGC
4044029 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
4044082 CTATCATTTC
Statistics
Matches: 136, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
96 94 0.69
98 42 0.31
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTCCACATTCATCACATCGGCCATTAGGC
Found at i:4047228 original size:39 final size:39
Alignment explanation
Indices: 4047180--4047258 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
4047170 CCTGAATGTG
* *
4047180 ATCATTGTGGAAGATAACATTTTGGAGAATGTTGGGGAA
1 ATCAATGTGGAAGACAACATTTTGGAGAATGTTGGGGAA
4047219 ATCAATGTGGAAGACAACATTTTGGAGAATGTTGGGGAA
1 ATCAATGTGGAAGACAACATTTTGGAGAATGTTGGGGAA
4047258 A
1 A
4047259 GAGTAATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.35, C:0.06, G:0.30, T:0.28
Consensus pattern (39 bp):
ATCAATGTGGAAGACAACATTTTGGAGAATGTTGGGGAA
Found at i:4052266 original size:32 final size:33
Alignment explanation
Indices: 4052207--4052275 Score: 95
Period size: 32 Copynumber: 2.1 Consensus size: 33
4052197 TCGTGTTGTA
4052207 ACACCCCGAACCCGAGACCGACACCGGAGTC-G
1 ACACCCCGAACCCGAGACCGACACCGGAGTCGG
* ***
4052239 ACACCCCGGACCCGAGACCGTTGCCGGAGTCGG
1 ACACCCCGAACCCGAGACCGACACCGGAGTCGG
4052272 ACAC
1 ACAC
4052276 GAGGGGTTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 27 0.84
33 5 0.16
ACGTcount: A:0.25, C:0.42, G:0.28, T:0.06
Consensus pattern (33 bp):
ACACCCCGAACCCGAGACCGACACCGGAGTCGG
Found at i:4053739 original size:40 final size:40
Alignment explanation
Indices: 4053641--4054703 Score: 1916
Period size: 40 Copynumber: 26.6 Consensus size: 40
4053631 TCCTCGTTCA
* * * * *
4053641 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
4053680 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
4053720 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
4053760 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
4053800 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
4053840 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
4053880 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
4053920 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
4053960 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
4054000 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
4054040 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
4054080 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
4054120 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
4054160 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
4054200 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
4054240 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
4054280 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
4054320 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
4054360 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
4054400 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
4054440 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
4054480 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
4054520 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
4054560 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
4054600 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * * *
4054640 AAGGCCTTC-GGATCATAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
4054680 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
4054704 CAGCATTCAA
Statistics
Matches: 998, Mismatches: 22, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
39 37 0.04
40 953 0.95
41 8 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:4061879 original size:29 final size:28
Alignment explanation
Indices: 4061831--4061886 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
4061821 TGCGAGTTAT
4061831 ACTGATTTGGCTTCGAGCCATGAATATCG
1 ACTGATTTGGCTTCGAGCCATG-ATATCG
* *
4061860 ACTGATTTGGCTTTGGGCCATGATATC
1 ACTGATTTGGCTTCGAGCCATGATATC
4061887 AGTATTTCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (28 bp):
ACTGATTTGGCTTCGAGCCATGATATCG
Found at i:4063463 original size:41 final size:41
Alignment explanation
Indices: 4063404--4063493 Score: 162
Period size: 41 Copynumber: 2.2 Consensus size: 41
4063394 TGACTTGGGT
*
4063404 CACACAGCCAGCCCCATGCCCATGTGCCAGCCCGTGTGCCA
1 CACACAGCCAGCCACATGCCCATGTGCCAGCCCGTGTGCCA
*
4063445 CACACAGCCAGCCACATGCCCATGTGCCAGCCTGTGTGCCA
1 CACACAGCCAGCCACATGCCCATGTGCCAGCCCGTGTGCCA
4063486 CACACAGC
1 CACACAGC
4063494 TAGTAGACAC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.22, C:0.44, G:0.21, T:0.12
Consensus pattern (41 bp):
CACACAGCCAGCCACATGCCCATGTGCCAGCCCGTGTGCCA
Found at i:4063914 original size:16 final size:17
Alignment explanation
Indices: 4063893--4063925 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
4063883 CACATTGAAG
4063893 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
4063909 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
4063926 CTTCTTGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:4067804 original size:18 final size:19
Alignment explanation
Indices: 4067783--4067822 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
4067773 AAGTCTCTTT
4067783 AAAA-CAAAAATTTTCCAA
1 AAAATCAAAAATTTTCCAA
**
4067801 AAAATCAAATTTTTTCCAA
1 AAAATCAAAAATTTTCCAA
4067820 AAA
1 AAA
4067823 TACCCTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (19 bp):
AAAATCAAAAATTTTCCAA
Found at i:4071453 original size:47 final size:48
Alignment explanation
Indices: 4071377--4071507 Score: 169
Period size: 47 Copynumber: 2.8 Consensus size: 48
4071367 CTCAATCAAT
*
4071377 AAGTACCTATACCATGGCTCA-TAGCCAAATCAAGGTAACTTATC-CCG
1 AAGTACCTATACCATGGC-CAGTAGCCAAATCAAGGTAACTCATCACCG
* * * *
4071424 GAGTACCTATACCATGGCCAGTAGACAAATCAAGGTAACTCCTCACTG
1 AAGTACCTATACCATGGCCAGTAGCCAAATCAAGGTAACTCATCACCG
* *
4071472 AAATACCTATACCATGGCCTGT-GCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCAGTAGCCAAATCAAGGTA
4071508 TCACTCGCAC
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
46 2 0.03
47 50 0.68
48 21 0.29
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (48 bp):
AAGTACCTATACCATGGCCAGTAGCCAAATCAAGGTAACTCATCACCG
Found at i:4077904 original size:19 final size:19
Alignment explanation
Indices: 4077880--4077917 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
4077870 ATGAGAAAAT
* *
4077880 AGTACCCTGACGTATTCAC
1 AGTACCCTAACCTATTCAC
4077899 AGTACCCTAACCTATTCAC
1 AGTACCCTAACCTATTCAC
4077918 TGGTAAGATT
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:0.29, C:0.34, G:0.11, T:0.26
Consensus pattern (19 bp):
AGTACCCTAACCTATTCAC
Found at i:4083842 original size:20 final size:21
Alignment explanation
Indices: 4083792--4083843 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
4083782 CTATAGCAAC
4083792 TCACA-ATTT-CAA-TTATTT
1 TCACACATTTACAACTTATTT
4083810 TCACACATTTACAACTTATTT
1 TCACACATTTACAACTTATTT
4083831 T-ACA-ACTTTACAA
1 TCACACA-TTTACAA
4083844 AATAACCCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
18 5 0.17
19 5 0.17
20 13 0.43
21 7 0.23
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (21 bp):
TCACACATTTACAACTTATTT
Found at i:4087625 original size:252 final size:249
Alignment explanation
Indices: 4087280--4087828 Score: 691
Period size: 252 Copynumber: 2.2 Consensus size: 249
4087270 TTATAATATT
* *
4087280 CTATAATATAATAGTAGTATATTATATATTACTTATTGTCATATATTATTTTTATTACTATACTG
1 CTAT-ATATAATAGTAGTACATTATATATTAATTA-T-T-ATATATTATTTTTATTACTATACTG
* *
4087345 GTTGAAATATTCTCCGAGTCCTTATACTTTTCATACAC-TTGAAAGTT-AGCTCTCCTACTATAT
62 GTTGAAATATTCTCCAAGTCCTTATACTTTTCATAC-CTTTGAAAGTTAATC-CTCCTACTATAT
* * * * * * *
4087408 TATATAATGTTATATTATATCATTTATTATATAATATGTTAATCATTTATATATATGCATCAATG
125 TACATAATGTTATATCATATCATATAGTATATAATATATTAAT-AGTT-TATATATGCAACAATG
* *
4087473 -GTTAAGCATTATGA-AATCATGTAATACTACATCTTTTACTATTAA-CTATAATATAATAATAG
188 AG-TAAACATTAT-ATAATCATGTAATACCACATCTTTTACTA-TAATCTATAATATAATAATAG
* * *
4087535 TTATATATAATAGTAGTACATTATATATTAATTATTATATATTATTCTTTATTATTATATTGGTT
1 CTATATATAATAGTAGTACATTATATATTAATTATTATATATTATT-TTTATTACTATACTGGTT
* *
4087600 GAAATATTCTCTAAGT-CTCTATACTTTTCATACCTTTGAAAGTTAATCCTGCTACTATATTACA
65 GAAATATTCTCCAAGTCCT-TATACTTTTCATACCTTTGAAAGTTAATCCTCCTACTATATTACA
*
4087664 TAATGTTATATCATATCATATGGTATATAATATATTAATAGTTTATATATGCAACAATGAGTAAA
129 TAATGTTATATCATATCATATAGTATATAATATATTAATAGTTTATATATGCAACAATGAGTAAA
* ** * *
4087729 CATTATATTATCATGTAATACCATGTCTTTTATTATAATCTATAATGTAATAATAG
194 CATTATATAATCATGTAATACCACATCTTTTACTATAATCTATAATATAATAATAG
*
4087785 CTATATATCATAGTAGTACATTATATATT-ATTATT-TATTATTAT
1 CTATATATAATAGTAGTACATTATATATTAATTATTATA-TATTAT
4087829 AATAATAGTT
Statistics
Matches: 260, Mismatches: 26, Indels: 22
0.84 0.08 0.07
Matches are distributed among these distances:
248 2 0.01
249 16 0.06
250 89 0.34
251 17 0.07
252 102 0.39
253 3 0.01
254 28 0.11
255 3 0.01
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.46
Consensus pattern (249 bp):
CTATATATAATAGTAGTACATTATATATTAATTATTATATATTATTTTTATTACTATACTGGTTG
AAATATTCTCCAAGTCCTTATACTTTTCATACCTTTGAAAGTTAATCCTCCTACTATATTACATA
ATGTTATATCATATCATATAGTATATAATATATTAATAGTTTATATATGCAACAATGAGTAAACA
TTATATAATCATGTAATACCACATCTTTTACTATAATCTATAATATAATAATAG
Found at i:4087823 original size:10 final size:10
Alignment explanation
Indices: 4087804--4087852 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
4087794 ATAGTAGTAC
4087804 ATTATATATT
1 ATTATATATT
*
4087814 ATTATTTATT
1 ATTATATATT
*
4087824 ATTATAATAAT
1 ATTAT-ATATT
*
4087835 AGTTATATAGT
1 A-TTATATATT
4087846 ATTATAT
1 ATTATAT
4087853 CGGTTGAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 20 0.61
11 9 0.27
12 4 0.12
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (10 bp):
ATTATATATT
Found at i:4087914 original size:7 final size:7
Alignment explanation
Indices: 4087902--4087926 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4087892 ATATCATATC
4087902 ATATAGT
1 ATATAGT
4087909 ATATAGT
1 ATATAGT
4087916 ATATAGT
1 ATATAGT
4087923 ATAT
1 ATAT
4087927 TAATAGTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (7 bp):
ATATAGT
Found at i:4095794 original size:43 final size:43
Alignment explanation
Indices: 4095746--4095911 Score: 185
Period size: 43 Copynumber: 3.9 Consensus size: 43
4095736 GTTACCGAGA
*
4095746 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
*
4095789 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTAA
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TAT
*** * * *
4095833 T-TGATTTTGTGTAAGACCCTGTCTGGGACAGTGGGATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * * *
4095874 ATGTGATAACATGTAAGATCATATCTGGGA-AATGGCAT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
4095912 TTTACGAGCT
Statistics
Matches: 102, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
41 1 0.01
42 7 0.07
43 91 0.89
44 3 0.03
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.33
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:4103402 original size:39 final size:39
Alignment explanation
Indices: 4103348--4103521 Score: 192
Period size: 40 Copynumber: 4.4 Consensus size: 39
4103338 AAACCAAGTA
* * *
4103348 CCTTCGGAATTTAGCCGGATATAGGT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCGGATATA-GTAACTTGCACAAATG
* * *
4103387 CCTTCGAGACTTAGCCTGGTTATAGTAACCTGCACAAATG
1 CCTTCGGGACTTAGCC-GGATATAGTAACTTGCACAAATG
* *
4103427 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAG-CCGGATATAGTAACTTGCACAAATG
* *
4103467 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAG-CCGGATA-TAGTAACTTGCACAAATG
4103506 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
4103522 CGGTTATCAT
Statistics
Matches: 118, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
38 1 0.01
39 51 0.43
40 64 0.54
41 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCGGATATAGTAACTTGCACAAATG
Found at i:4103425 original size:40 final size:40
Alignment explanation
Indices: 4103381--4103528 Score: 212
Period size: 40 Copynumber: 3.7 Consensus size: 40
4103371 GGTACTTGCT
* *
4103381 CAAATGCCTTCGAGACTTAGCCTGGTTATAGTAACCT-GCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA-CTAGCA
*
4103421 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTAGCA
* *
4103461 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTAGCA
4103500 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
4103529 CATCCGAATA
Statistics
Matches: 98, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
38 1 0.01
39 36 0.37
40 60 0.61
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTAGCA
Found at i:4103479 original size:79 final size:80
Alignment explanation
Indices: 4103381--4103528 Score: 221
Period size: 79 Copynumber: 1.9 Consensus size: 80
4103371 GGTACTTGCT
* *
4103381 CAAATGCCTTCGAGACTTAGCCTGG-TTATAGTAACCT-GCACAAATGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGAGACTTAGCCCGGAAT-TAGTAA-CTAGCACAAATGCCTTCGGGACTTAGCCC
4103444 GGTTATAGTAACTCGCA
64 GGTTATAGTAACTCGCA
* *
4103461 CAAATGCCTTCG-GGCTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGAGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
4103525 TTAT
66 TTAT
4103529 CATCCGAATA
Statistics
Matches: 62, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.76
80 13 0.21
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGAGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
TTATAGTAACTCGCA
Found at i:4109389 original size:43 final size:43
Alignment explanation
Indices: 4109341--4109498 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 43
4109331 GTTACAAAGA
4109341 TGTGATTACATGTAAGACCATGTCTGGGAAATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGAAATTGGCATTGTAT
* * * * *
4109384 TGTGATTACGTGTAAGAGCATGTCTGGGACATTAGCATCAT-TAA
1 TGTGATTACATGTAAGACCATGTCTGGGAAATTGGCAT--TGTAT
* * * * * * *
4109428 T-CGATTTCGTGTAAGGCCCTGTTTGGGAAATTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGAAATTGGCATTGTAT
* *
4109469 ATGTGATAACATGTAAGACCATATCTGGGA
1 -TGTGATTACATGTAAGACCATGTCTGGGA
4109499 TACGACATTG
Statistics
Matches: 87, Mismatches: 23, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 81 0.93
44 3 0.03
45 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGAAATTGGCATTGTAT
Found at i:4118392 original size:47 final size:46
Alignment explanation
Indices: 4118320--4118483 Score: 142
Period size: 46 Copynumber: 3.5 Consensus size: 46
4118310 GGTGCTAGTG
* *
4118320 TAAGACATGTCTTGGACATGGATCGGCCACATT-ATGA-A-ATGCCAGTA
1 TAAGACATGTCTAGGACATGCATCGG-C-CATTGA-GACAGA-GCCAGTA
* *
4118367 TAAGACATGTCTGGGACATGCATCGG-CATTGAGACGAGAGCCAGTG
1 TAAGACATGTCTAGGACATGCATCGGCCATTGAGAC-AGAGCCAGTA
* * * * *
4118413 TAAGACATGTCTAGGACATGCATCGGCTA-CGAGA-TGTGTCAGTA
1 TAAGACATGTCTAGGACATGCATCGGCCATTGAGACAGAGCCAGTA
4118457 TAAGACCATGTCTAGGACATGGCATCG
1 TAAGA-CATGTCTAGGACAT-GCATCG
4118484 ACTAGTGTAA
Statistics
Matches: 100, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
44 17 0.17
45 15 0.15
46 42 0.42
47 26 0.26
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (46 bp):
TAAGACATGTCTAGGACATGCATCGGCCATTGAGACAGAGCCAGTA
Found at i:4118482 original size:46 final size:45
Alignment explanation
Indices: 4118360--4118483 Score: 146
Period size: 46 Copynumber: 2.7 Consensus size: 45
4118350 ATTATGAAAT
*
4118360 GCCAGTATAAGACATGTCTGGGACATGCATCGGCATTGAGACGAGA
1 GCCAGTATAAGACATGTCTAGGACATGCATCGGCA-TGAGACGAGA
* *
4118406 GCCAGTGTAAGACATGTCTAGGACATGCATCGGC-T-ACGA-GATGT
1 GCCAGTATAAGACATGTCTAGGACATGCATCGGCATGA-GACGA-GA
*
4118450 GTCAGTATAAGACCATGTCTAGGACATGGCATCG
1 GCCAGTATAAGA-CATGTCTAGGACAT-GCATCG
4118484 ACTAGTGTAA
Statistics
Matches: 69, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
43 3 0.04
44 14 0.20
45 14 0.20
46 38 0.55
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (45 bp):
GCCAGTATAAGACATGTCTAGGACATGCATCGGCATGAGACGAGA
Found at i:4133003 original size:21 final size:20
Alignment explanation
Indices: 4132964--4133003 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
4132954 TGGTCCGTAA
*
4132964 GCCCATTGGGCCCAGTTTTG
1 GCCCATTGGGCCCACTTTTG
*
4132984 GCCCATTGAGGCCCTCTTTT
1 GCCCATTG-GGCCCACTTTT
4133004 TTTGAAGTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.10, C:0.33, G:0.25, T:0.33
Consensus pattern (20 bp):
GCCCATTGGGCCCACTTTTG
Found at i:4139772 original size:15 final size:15
Alignment explanation
Indices: 4139740--4139768 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4139730 ATTTTCAGTG
4139740 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
4139755 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
4139769 ATTTTTGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:4141244 original size:28 final size:28
Alignment explanation
Indices: 4141169--4141245 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
4141159 TCTTGAAATT
* * *
4141169 TCGCACACTCAA-TGCCTTCATGGATGTA
1 TCGCACACT-AAGTGCCATCCTAGATGTA
*
4141197 TCGCACACTAAGTGCCATCCTAGATGTG
1 TCGCACACTAAGTGCCATCCTAGATGTA
*
4141225 TCGCACACTTAGTGCCATCCT
1 TCGCACACTAAGTGCCATCCT
4141246 TGATAATTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 2 0.05
28 41 0.95
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.27
Consensus pattern (28 bp):
TCGCACACTAAGTGCCATCCTAGATGTA
Found at i:4143873 original size:20 final size:21
Alignment explanation
Indices: 4143838--4143876 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
4143828 TTGCAAATCA
4143838 TATATGATGTAAATGAAAAAT
1 TATATGATGTAAATGAAAAAT
*
4143859 TATATG-TGTATATGAAAA
1 TATATGATGTAAATGAAAA
4143877 GTACATTCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.36
Consensus pattern (21 bp):
TATATGATGTAAATGAAAAAT
Found at i:4150960 original size:21 final size:21
Alignment explanation
Indices: 4150922--4150961 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4150912 ACCTGCTATT
*
4150922 GAGGAGGAAGTTGCTGTTGAA
1 GAGGAGGAAGTTCCTGTTGAA
4150943 GAGGAGGAAG-TCCTTGTTG
1 GAGGAGGAAGTTCC-TGTTG
4150962 CAAATGTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.25, C:0.07, G:0.42, T:0.25
Consensus pattern (21 bp):
GAGGAGGAAGTTCCTGTTGAA
Found at i:4152178 original size:28 final size:28
Alignment explanation
Indices: 4152144--4152198 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
4152134 GATCATTTGC
4152144 CATAGTGAATTCTTGTGTAGCCTTGCTT
1 CATAGTGAATTCTTGTGTAGCCTTGCTT
4152172 CATAGTGAATTCTTGTGTAGCCTTGCT
1 CATAGTGAATTCTTGTGTAGCCTTGCT
4152199 AATTTATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (28 bp):
CATAGTGAATTCTTGTGTAGCCTTGCTT
Found at i:4158480 original size:17 final size:17
Alignment explanation
Indices: 4158458--4158490 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4158448 GAAGAAAAGG
4158458 GGTTTTCGAGAGGTATA
1 GGTTTTCGAGAGGTATA
*
4158475 GGTTTTTGAGAGGTAT
1 GGTTTTCGAGAGGTAT
4158491 TAGAGGTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.03, G:0.36, T:0.39
Consensus pattern (17 bp):
GGTTTTCGAGAGGTATA
Found at i:4169153 original size:200 final size:201
Alignment explanation
Indices: 4168810--4169219 Score: 714
Period size: 200 Copynumber: 2.0 Consensus size: 201
4168800 ACATCAAATT
4168810 CATCAAACGGCAACAACATCAAGTCGGCCGGAAAGTAATGACCCCGAATCATTAAAGGGCATTTC
1 CATCAAACGGCAACAACATCAAGTCGGCCGGAAAGTAATGACCCCGAATCATTAAAGGGCATTTC
4168875 TTGCTTACTTTATCAACCATCACGCATTTGCCTAACGGGTTCGACACTCTAATCATAAATTCTGT
66 TTGCTTACTTTATCAACCATCACGCATTTGCCTAACGGGTTCGACACTCTAATCATAAATTCTGT
4168940 GTTCTCAACAGG-TAGACACCAGTTTAATGCATACGTATGAATGAGTAGAACCAGGATCAATCAA
131 GTTCTCAACAGGTTAGACACCAGTTTAATGCATACGTATGAATGAGTAGAACCAGGATCAATCAA
4169004 AGCAAA
196 AGCAAA
4169010 CATCAAACGGCAACAACATCAAGTCGGCCGGAAAGTAATGACCCCGAATCATTAAAGGGCATTTC
1 CATCAAACGGCAACAACATCAAGTCGGCCGGAAAGTAATGACCCCGAATCATTAAAGGGCATTTC
*
4169075 TTGCTTACTTTATCAACTATCACGCATTTGCCTAACGGGTTCGACACTCTAATCATAAATTCTGT
66 TTGCTTACTTTATCAACCATCACGCATTTGCCTAACGGGTTCGACACTCTAATCATAAATTCTGT
4169140 GTTCTCAACAGGTATATTCATACTAGACACCAGTTTAATGCATACGTATGAATGAGTAGAACCAG
131 GTTCTCAACAGG--------T--TAGACACCAGTTTAATGCATACGTATGAATGAGTAGAACCAG
4169205 GATCAATCAAAGCAA
186 GATCAATCAAAGCAA
4169220 TAATATTAAT
Statistics
Matches: 198, Mismatches: 1, Indels: 11
0.94 0.00 0.05
Matches are distributed among these distances:
200 141 0.71
211 57 0.29
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (201 bp):
CATCAAACGGCAACAACATCAAGTCGGCCGGAAAGTAATGACCCCGAATCATTAAAGGGCATTTC
TTGCTTACTTTATCAACCATCACGCATTTGCCTAACGGGTTCGACACTCTAATCATAAATTCTGT
GTTCTCAACAGGTTAGACACCAGTTTAATGCATACGTATGAATGAGTAGAACCAGGATCAATCAA
AGCAAA
Found at i:4169587 original size:59 final size:59
Alignment explanation
Indices: 4169495--4169609 Score: 187
Period size: 59 Copynumber: 1.9 Consensus size: 59
4169485 TCTCTCTGGG
* * *
4169495 CAGTCTCTAATAAAATGATCTGGAGAACCACATCGAAAATATTCATTTGCTTTGCAGGA
1 CAGTCTCTAATAAAATGATCCGGAGAACCACATCGAAAACATTCATTTGCTCTGCAGGA
4169554 CAGTCTCTAATAAAACT-ATCCGGAGAACCACATCGAAAACATTCATTTGCTCTGCA
1 CAGTCTCTAATAAAA-TGATCCGGAGAACCACATCGAAAACATTCATTTGCTCTGCA
4169610 CGGGCCAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
59 51 0.98
60 1 0.02
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.27
Consensus pattern (59 bp):
CAGTCTCTAATAAAATGATCCGGAGAACCACATCGAAAACATTCATTTGCTCTGCAGGA
Found at i:4170032 original size:50 final size:50
Alignment explanation
Indices: 4169957--4170055 Score: 189
Period size: 50 Copynumber: 2.0 Consensus size: 50
4169947 TCGTTGAGCC
*
4169957 CGTCTTCAAATCGTCGGCACATCTTGGCTTCTGTAGGAACATATTCCCTA
1 CGTCTTCAAATCGTCGGCACATCTTGGCTTCTGCAGGAACATATTCCCTA
4170007 CGTCTTCAAATCGTCGGCACATCTTGGCTTCTGCAGGAACATATTCCCT
1 CGTCTTCAAATCGTCGGCACATCTTGGCTTCTGCAGGAACATATTCCCT
4170056 GGCATACTTA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.31
Consensus pattern (50 bp):
CGTCTTCAAATCGTCGGCACATCTTGGCTTCTGCAGGAACATATTCCCTA
Done.