Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 169 of 173
Found at i:50785043 original size:18 final size:17
Alignment explanation
Indices: 50785009--50785041 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
50784999 TGATTTTTAA
*
50785009 ATAATTTAATATAAAAT
1 ATAAATTAATATAAAAT
50785026 ATAAATTAATATAAAA
1 ATAAATTAATATAAAA
50785042 ATTTAAATAT
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATAAATTAATATAAAAT
Found at i:50786828 original size:43 final size:43
Alignment explanation
Indices: 50786775--50786908 Score: 214
Period size: 43 Copynumber: 3.1 Consensus size: 43
50786765 CAAAATGCCA
50786775 CTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAACGCCG
1 CTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAACGCCG
*
50786818 CTAAAGAACATGATCTTTAGCGACGCTTTACCCACAAACGCCG
1 CTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAACGCCG
* * ***
50786861 CTAAAGATCATGTTCTTTAGCGGCGCTTTTGTCACAAACGCCG
1 CTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAACGCCG
50786904 CTAAA
1 CTAAA
50786909 AGTACAGTTC
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 84 1.00
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (43 bp):
CTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAACGCCG
Found at i:50791087 original size:11 final size:11
Alignment explanation
Indices: 50791071--50791131 Score: 59
Period size: 11 Copynumber: 5.3 Consensus size: 11
50791061 AACACCAATT
50791071 TTTTAAAAAAA
1 TTTTAAAAAAA
50791082 TTTTAAAAAAGTA
1 TTTTAAAAAA--A
**
50791095 TTTTAAAAGTA
1 TTTTAAAAAAA
*
50791106 TTTTAAAAATAT
1 TTTTAAAAA-AA
*
50791118 TTTTAAAATAA
1 TTTTAAAAAAA
50791129 TTT
1 TTT
50791132 AAATTTTAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
11 23 0.57
12 8 0.20
13 9 0.22
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (11 bp):
TTTTAAAAAAA
Found at i:50791113 original size:22 final size:22
Alignment explanation
Indices: 50791070--50791160 Score: 70
Period size: 24 Copynumber: 4.2 Consensus size: 22
50791060 AAACACCAAT
*
50791070 TTTTTAAAAAAATTTTAAAAA-A
1 TTTTTAAAATAA-TTTAAAAATA
*
50791092 GTATTTTAAAAGTATTTTAAAAATA
1 -T-TTTTAAAA-TAATTTAAAAATA
50791117 TTTTTAAAATAATTT---AA-A
1 TTTTTAAAATAATTTAAAAATA
50791135 -TTTTAAAA-AATTTAAAAATA
1 TTTTTAAAATAATTTAAAAATA
50791155 TATTTT
1 T-TTTT
50791161 TATTATATAT
Statistics
Matches: 56, Mismatches: 3, Indels: 19
0.72 0.04 0.24
Matches are distributed among these distances:
16 5 0.09
17 8 0.14
18 1 0.02
19 4 0.07
20 1 0.02
22 9 0.16
23 9 0.16
24 17 0.30
25 2 0.04
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
TTTTTAAAATAATTTAAAAATA
Found at i:50791148 original size:16 final size:17
Alignment explanation
Indices: 50791118--50791150 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
50791108 TTAAAAATAT
50791118 TTTTAAAATAATTTAAA
1 TTTTAAAATAATTTAAA
50791135 TTTTAAAA-AATTTAAA
1 TTTTAAAATAATTTAAA
50791151 AATATATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TTTTAAAATAATTTAAA
Found at i:50799898 original size:14 final size:14
Alignment explanation
Indices: 50799879--50799905 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
50799869 CTGATATTGT
50799879 TAACTACTAACTGC
1 TAACTACTAACTGC
50799893 TAACTACTAACTG
1 TAACTACTAACTG
50799906 TTACAACTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.30
Consensus pattern (14 bp):
TAACTACTAACTGC
Found at i:50808580 original size:13 final size:13
Alignment explanation
Indices: 50808562--50808586 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50808552 GAAATTTTTA
50808562 ATTAAAGAATTTG
1 ATTAAAGAATTTG
50808575 ATTAAAGAATTT
1 ATTAAAGAATTT
50808587 TCCTCAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (13 bp):
ATTAAAGAATTTG
Found at i:50810865 original size:18 final size:20
Alignment explanation
Indices: 50810839--50810878 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
50810829 ATAATAAAAT
*
50810839 AAATAG-AAATATAGAAAGA
1 AAATAGAAAATATAAAAAGA
50810858 AAAT-GAAAATATAAAAAGA
1 AAATAGAAAATATAAAAAGA
50810877 AA
1 AA
50810879 TACAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 1 0.05
19 18 0.95
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.15
Consensus pattern (20 bp):
AAATAGAAAATATAAAAAGA
Found at i:50810967 original size:21 final size:20
Alignment explanation
Indices: 50810943--50810995 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
50810933 ACTATATATT
**
50810943 TAAAAAAAAGATAGTAAAATA
1 TAAAAAAAA-ATAAAAAAATA
50810964 TAAAAATAAAATAAAAAAATA
1 TAAAAA-AAAATAAAAAAATA
50810985 TACAAAAAAAA
1 TA-AAAAAAAA
50810996 ATAATAGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 21 0.75
22 7 0.25
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.17
Consensus pattern (20 bp):
TAAAAAAAAATAAAAAAATA
Found at i:50810973 original size:13 final size:13
Alignment explanation
Indices: 50810957--50810999 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
50810947 AAAAAGATAG
*
50810957 TAAAATATAAAAA
1 TAAAATAAAAAAA
50810970 TAAAATAAAAAAA
1 TAAAATAAAAAAA
50810983 TATACAA-AAAAAAA
1 TA-A-AATAAAAAAA
50810997 TAA
1 TAA
50811000 TAGTAATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 10 0.37
15 2 0.07
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (13 bp):
TAAAATAAAAAAA
Found at i:50819748 original size:29 final size:29
Alignment explanation
Indices: 50819691--50819748 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
50819681 CTTGTCCGTT
* *
50819691 TTAGATAAATATATTAATTTATTTTTATA
1 TTAGATAAATATATTAATTTATATATATA
*
50819720 TTAGATAAATATAATT-ATTTGTATATATA
1 TTAGATAAATAT-ATTAATTTATATATATA
50819749 ATTTATGAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 22 0.88
30 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (29 bp):
TTAGATAAATATATTAATTTATATATATA
Found at i:50822072 original size:17 final size:18
Alignment explanation
Indices: 50822041--50822074 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
50822031 AAATTCATAA
50822041 ATCAAAATTATAAAAATT
1 ATCAAAATTATAAAAATT
*
50822059 ATCAAATTTA-AAAAAT
1 ATCAAAATTATAAAAAT
50822075 AACCTATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (18 bp):
ATCAAAATTATAAAAATT
Found at i:50825262 original size:24 final size:24
Alignment explanation
Indices: 50825214--50825260 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
50825204 ATAGCTAAAA
*
50825214 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
50825238 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
50825261 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:50825897 original size:27 final size:27
Alignment explanation
Indices: 50825834--50825899 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 27
50825824 GTGTAGAATG
*
50825834 ACTGAAATACCCCCGAAGGGTAAAATT
1 ACTGAAATACCCCCGAAGGGTAAAATA
50825861 A-TCGAAATACCCCC-ATAGGGTAAAATA
1 ACT-GAAATACCCCCGA-AGGGTAAAATA
*
50825888 ACTGATATACCC
1 ACTGAAATACCC
50825900 TTAGGAGTCG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
26 2 0.06
27 31 0.91
28 1 0.03
ACGTcount: A:0.41, C:0.24, G:0.15, T:0.20
Consensus pattern (27 bp):
ACTGAAATACCCCCGAAGGGTAAAATA
Found at i:50826323 original size:28 final size:28
Alignment explanation
Indices: 50826283--50826369 Score: 115
Period size: 28 Copynumber: 3.1 Consensus size: 28
50826273 ACTGTAATGT
50826283 TACTATATTGGGCTAAGGCCCACACTGA
1 TACTATATTGGGCTAAGGCCCACACTGA
*
50826311 TACTATATTGGGCTAAGGCCCACA-TTA
1 TACTATATTGGGCTAAGGCCCACACTGA
* * *
50826338 CTTCTAAATTGGGCTAAGGCCCTCACTG-
1 -TACTATATTGGGCTAAGGCCCACACTGA
50826366 TACT
1 TACT
50826370 GTCACTGAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
27 5 0.10
28 45 0.88
29 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (28 bp):
TACTATATTGGGCTAAGGCCCACACTGA
Found at i:50828719 original size:27 final size:26
Alignment explanation
Indices: 50828680--50828849 Score: 169
Period size: 27 Copynumber: 6.3 Consensus size: 26
50828670 CCCTAAAATA
*
50828680 GGTAGAATGACCGAAATACCCCGATAG
1 GGTAAAATGACCGAAATACCCCGA-AG
** *
50828707 GGTAAAACAACCGAAATACCCTCGAAA
1 GGTAAAATGACCGAAATACCC-CGAAG
* *
50828734 GGTAAAATGATCAAAATACCCTCGAAG
1 GGTAAAATGACCGAAATACCC-CGAAG
** *
50828761 GGTAAAATGATAGAAATACTCTCGAAG
1 GGTAAAATGACCGAAATAC-CCCGAAG
* *
50828788 GGTAAAATGATCGAAATGTCCCCGAAG
1 GGTAAAATGACCGAAAT-ACCCCGAAG
* *
50828815 GATAAAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCGA-AG
50828842 GGTAAAAT
1 GGTAAAAT
50828850 AACTAATATA
Statistics
Matches: 119, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
26 5 0.04
27 109 0.92
28 5 0.04
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.17
Consensus pattern (26 bp):
GGTAAAATGACCGAAATACCCCGAAG
Found at i:50828751 original size:54 final size:53
Alignment explanation
Indices: 50828679--50828835 Score: 188
Period size: 54 Copynumber: 2.9 Consensus size: 53
50828669 ACCCTAAAAT
* * **
50828679 AGGTAGAATGACCGAAATACCCCGATAGGGTAAAACAACCGAAATACCCTCGAA
1 AGGTAAAATGATCGAAATACCCCGA-AGGGTAAAATGACCGAAATACCCTCGAA
* ** *
50828733 AGGTAAAATGATCAAAATACCCTCGAAGGGTAAAATGATAGAAATACTCTCGAA
1 AGGTAAAATGATCGAAATACCC-CGAAGGGTAAAATGACCGAAATACCCTCGAA
* * *
50828787 GGGTAAAATGATCGAAATGTCCCCGAAGGATAAAATGACCGAAATACCC
1 AGGTAAAATGATCGAAAT-ACCCCGAAGGGTAAAATGACCGAAATACCC
50828836 CCATAGGGTA
Statistics
Matches: 86, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
54 80 0.93
55 6 0.07
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.17
Consensus pattern (53 bp):
AGGTAAAATGATCGAAATACCCCGAAGGGTAAAATGACCGAAATACCCTCGAA
Found at i:50829311 original size:28 final size:28
Alignment explanation
Indices: 50829252--50829328 Score: 73
Period size: 28 Copynumber: 2.8 Consensus size: 28
50829242 ATGTTACTGT
* * *
50829252 ATTGGGCTAAGGCCCATACTGATACCGT
1 ATTGGGCTAAAGCCCACACTGATACCGA
* * *
50829280 ATTGGGCTAAAGCTCACACTGATTCTGA
1 ATTGGGCTAAAGCCCACACTGATACCGA
* * *
50829308 ATTGGACTAAGGCCCTCACTG
1 ATTGGGCTAAAGCCCACACTG
50829329 TACTGTCACT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (28 bp):
ATTGGGCTAAAGCCCACACTGATACCGA
Found at i:50837539 original size:27 final size:27
Alignment explanation
Indices: 50837509--50837587 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
50837499 TTAAATTACT
*
50837509 AAAATATCCTCATAGGGTAAAATGACC
1 AAAATACCCTCATAGGGTAAAATGACC
50837536 AAAATACCCTCGA-AGGGTAAAATGACC
1 AAAATACCCTC-ATAGGGTAAAATGACC
*
50837563 AAAATACCCCCATAGGGT-AAATGAC
1 AAAATACCCTCATAGGGTAAAATGAC
50837588 TGATTTGTGC
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
26 8 0.17
27 39 0.81
28 1 0.02
ACGTcount: A:0.44, C:0.22, G:0.16, T:0.18
Consensus pattern (27 bp):
AAAATACCCTCATAGGGTAAAATGACC
Found at i:50838094 original size:34 final size:34
Alignment explanation
Indices: 50838047--50838122 Score: 125
Period size: 34 Copynumber: 2.2 Consensus size: 34
50838037 TTTGCCACAA
*
50838047 TTACTGTTTTGGGCTAAGGCCTACACTGATACTG
1 TTACTGTTTTGGGCTAAGGCCCACACTGATACTG
* *
50838081 TTATTGTTTTGGGCTAAGGCCCACACTGATATTG
1 TTACTGTTTTGGGCTAAGGCCCACACTGATACTG
50838115 TTACTGTT
1 TTACTGTT
50838123 AAAGGGGTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.39
Consensus pattern (34 bp):
TTACTGTTTTGGGCTAAGGCCCACACTGATACTG
Found at i:50838660 original size:16 final size:17
Alignment explanation
Indices: 50838628--50838660 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
50838618 TTTCAAGAAG
50838628 GGTTTTCAATGAAAACAT
1 GGTTTTCAA-GAAAACAT
50838646 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
50838661 CATTAATGTG
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:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAT
Found at i:50840106 original size:26 final size:23
Alignment explanation
Indices: 50840077--50840131 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
50840067 ACATTATTTG
50840077 TTTTAAAATATCTTGTATATAATAT
1 TTTTAAAAT-T-TTGTATATAATAT
* *
50840102 CTTTTAAAATTTTTTATATATTAT
1 -TTTTAAAATTTTGTATATAATAT
50840126 TTTTAA
1 TTTTAA
50840132 TAAAAAAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 6 0.22
24 11 0.41
25 1 0.04
26 9 0.33
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (23 bp):
TTTTAAAATTTTGTATATAATAT
Found at i:50841141 original size:22 final size:23
Alignment explanation
Indices: 50841112--50841156 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
50841102 ATGAAAGTAT
50841112 CAAAAAGGAAT-AAATAA-ATAA
1 CAAAAAGGAATAAAATAATATAA
*
50841133 CAAAGAAGGATTAAAATAATATAA
1 CAAA-AAGGAATAAAATAATATAA
50841157 TGATGATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 6 0.30
23 6 0.30
24 4 0.20
ACGTcount: A:0.67, C:0.04, G:0.11, T:0.18
Consensus pattern (23 bp):
CAAAAAGGAATAAAATAATATAA
Found at i:50841713 original size:23 final size:23
Alignment explanation
Indices: 50841687--50841731 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
50841677 AGTATATATA
50841687 AATAAAAAATATAAAC-AAACAAT
1 AATAAAAAATA-AAACTAAACAAT
*
50841710 AATAAATAATAAAACTAAACAA
1 AATAAAAAATAAAACTAAACAA
50841732 ATCAGGTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (23 bp):
AATAAAAAATAAAACTAAACAAT
Found at i:50847579 original size:15 final size:14
Alignment explanation
Indices: 50847535--50847604 Score: 52
Period size: 15 Copynumber: 4.7 Consensus size: 14
50847525 ATTTGATCTT
50847535 TTATACTTAGATTAA
1 TTATACTTA-ATTAA
* *
50847550 TAATTAATTAATTAA
1 TTA-TACTTAATTAA
50847565 TTATACTTAACTTAA
1 TTATACTTAA-TTAA
*
50847580 TTA-ACCTTTGATTAA
1 TTATA-C-TTAATTAA
*
50847595 TTAAACTTAA
1 TTATACTTAA
50847605 ACATAATTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
14 10 0.23
15 25 0.57
16 9 0.20
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.46
Consensus pattern (14 bp):
TTATACTTAATTAA
Found at i:50849713 original size:21 final size:21
Alignment explanation
Indices: 50849689--50849728 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
50849679 ATTGACATTA
50849689 TTTTTTTA-T-TATGAATAAT
1 TTTTTTTATTATATGAATAAT
*
50849708 TTTTTTTATTATATTAATAAT
1 TTTTTTTATTATATGAATAAT
50849729 AAATATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 1 0.06
21 9 0.50
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (21 bp):
TTTTTTTATTATATGAATAAT
Found at i:50858272 original size:16 final size:16
Alignment explanation
Indices: 50858251--50858282 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
50858241 AATATTAGTA
50858251 GTATATATTTATATAT
1 GTATATATTTATATAT
*
50858267 GTATATATTTTTATAT
1 GTATATATTTATATAT
50858283 ATGTTAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.59
Consensus pattern (16 bp):
GTATATATTTATATAT
Found at i:50858279 original size:18 final size:18
Alignment explanation
Indices: 50858252--50858286 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
50858242 ATATTAGTAG
50858252 TATATATTTATATATGTA
1 TATATATTTATATATGTA
*
50858270 TATATTTTTATATATGT
1 TATATATTTATATATGT
50858287 TAATGTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (18 bp):
TATATATTTATATATGTA
Found at i:50859711 original size:12 final size:12
Alignment explanation
Indices: 50859696--50859720 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50859686 AAAATAAAAC
50859696 AAATGAAATAGA
1 AAATGAAATAGA
50859708 AAATGAAATAGA
1 AAATGAAATAGA
50859720 A
1 A
50859721 TTGAAAATGA
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:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (12 bp):
AAATGAAATAGA
Found at i:50865641 original size:46 final size:45
Alignment explanation
Indices: 50865574--50865817 Score: 303
Period size: 46 Copynumber: 5.6 Consensus size: 45
50865564 TTTGAGTACT
* *
50865574 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
50865620 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
50865656 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
50865702 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
50865748 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
50865793 TCTGATC-AG-GGACAAGTGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
50865818 ATTATACGTA
Statistics
Matches: 177, Mismatches: 11, Indels: 23
0.84 0.05 0.11
Matches are distributed among these distances:
36 28 0.16
38 1 0.01
39 1 0.01
40 3 0.02
41 1 0.01
42 4 0.02
43 15 0.08
44 3 0.02
45 20 0.11
46 101 0.57
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:50865656 original size:36 final size:36
Alignment explanation
Indices: 50865610--50865682 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
50865600 GGTAGCTTTA
50865610 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
50865646 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
50865682 G
1 G
50865683 TTAGCCTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:50865677 original size:82 final size:85
Alignment explanation
Indices: 50865574--50865817 Score: 311
Period size: 82 Copynumber: 2.8 Consensus size: 85
50865564 TTTGAGTACT
* *
50865574 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGAAAAAGT
50865639 GATAAGTG-C-TA-T-ACTTA
65 GATAAGTGCCTTACTAACTTA
* *
50865656 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAAGTGAAAAAGT
50865721 GATAAGTGGTAGCCTTAGCTACACTTA
65 GATAA---GT-GCCTTA-CTA-ACTTA
* * *
50865748 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATC-AG-GGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
50865811 ATAAGTG
66 ATAAGTG
50865818 ATTATACGTA
Statistics
Matches: 142, Mismatches: 9, Indels: 19
0.84 0.05 0.11
Matches are distributed among these distances:
82 64 0.45
83 1 0.01
85 3 0.02
86 3 0.02
87 1 0.01
88 2 0.01
89 10 0.07
90 3 0.02
91 20 0.14
92 35 0.25
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.29
Consensus pattern (85 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
ATAAGTGCCTTACTAACTTA
Found at i:50866506 original size:22 final size:20
Alignment explanation
Indices: 50866469--50866531 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 20
50866459 TCACTATTGC
* *
50866469 TATTATTATGATGTTATTAT
1 TATTATAATTATGTTATTAT
*
50866489 TATTATGAATTAATGTTATTAC
1 TATTAT-AATT-ATGTTATTAT
*
50866511 TATTATAATTGTGTTATTAT
1 TATTATAATTATGTTATTAT
50866531 T
1 T
50866532 TAGCATGGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 15 0.42
21 6 0.17
22 15 0.42
ACGTcount: A:0.32, C:0.02, G:0.10, T:0.57
Consensus pattern (20 bp):
TATTATAATTATGTTATTAT
Found at i:50870778 original size:38 final size:38
Alignment explanation
Indices: 50870728--50870800 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
50870718 TTAATCTGCT
* *
50870728 TTTTTTAATAGATTTAGTAAAAATACTGTTAAAAAGGC
1 TTTTTTAATAGATTTAATAAAAATACCGTTAAAAAGGC
50870766 TTTTTTAATAGATTTAATAAAAATACCGTTAAAAA
1 TTTTTTAATAGATTTAATAAAAATACCGTTAAAAA
50870801 AGTTAACGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (38 bp):
TTTTTTAATAGATTTAATAAAAATACCGTTAAAAAGGC
Found at i:50883244 original size:89 final size:89
Alignment explanation
Indices: 50883093--50883274 Score: 328
Period size: 89 Copynumber: 2.0 Consensus size: 89
50883083 ACCACCTGGA
*
50883093 ACAAAACATGATCAAATGATAAAACATATGGCAATGGCATACATCTCGACATGTCGAAGATCGCA
1 ACAAAACATGATCAAATGATAAAACATATGGCAATGGCATACATCTAGACATGTCGAAGATCGCA
* * *
50883158 TGAGGCAGAGCCACATCGACGTAG
66 TGAGGCAGAACCACATAGACCTAG
50883182 ACAAAACATGATCAAATGATAAAACATATGGCAATGGCATACATCTAGACATGTCGAAGATCGCA
1 ACAAAACATGATCAAATGATAAAACATATGGCAATGGCATACATCTAGACATGTCGAAGATCGCA
50883247 TGAGGCAGAACCACATAGACCTAG
66 TGAGGCAGAACCACATAGACCTAG
50883271 ACAA
1 ACAA
50883275 TCAAATGATA
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.42, C:0.21, G:0.20, T:0.18
Consensus pattern (89 bp):
ACAAAACATGATCAAATGATAAAACATATGGCAATGGCATACATCTAGACATGTCGAAGATCGCA
TGAGGCAGAACCACATAGACCTAG
Found at i:50890013 original size:210 final size:213
Alignment explanation
Indices: 50889735--50890161 Score: 788
Period size: 212 Copynumber: 2.0 Consensus size: 213
50889725 AGCCATTTAG
*
50889735 ATTGACAAGTGGCCAATTACGTGAATGTTTGAAATTAAAATTTGAGATAATATAATTTTTGGACC
1 ATTGACAAGTGGCCAATTACGTGAATGTTTGAAATTAAAATTTGAGATAATATAATTTTTGAACC
* *
50889800 TTGAATTAGGTAATTATGTTCATTTTGGTA-TT-TATGTCTTTTGTTCACTTTAGCATTTGAATT
66 TTGAATTAGGTAATTATGTTCATTTCGATATTTATATGTCTTTTGTTCACTTTAGCATTTGAATT
50889863 TGACAACTAGATTCATTTTAATCATTAAACTTGGATTCTATCAAGATTTGATAATTTGATTGATG
131 TGACAACTAGATTCATTTTAATCATTAAACTTGGATTCTATCAAGATTTGATAATTTGATTGATG
50889928 TTCTTGGAACATGACTTA
196 TTCTTGGAACATGACTTA
50889946 ATTGACAAGTGGCCAATTACGTGAATG-TTGAAATTAAAATTTGAGATAATATAATTTTTGAACC
1 ATTGACAAGTGGCCAATTACGTGAATGTTTGAAATTAAAATTTGAGATAATATAATTTTTGAACC
*
50890010 TTGAATTAGGTAATTATGTTCATTTCGATATTTATATGTCTTTTGTTCACTTTAGTATTTGAATT
66 TTGAATTAGGTAATTATGTTCATTTCGATATTTATATGTCTTTTGTTCACTTTAGCATTTGAATT
*
50890075 TGACAACTAGATTCATTTTAATCATTGAACTTGGATTCTATCAAGATTTGATAATTTGATTGATG
131 TGACAACTAGATTCATTTTAATCATTAAACTTGGATTCTATCAAGATTTGATAATTTGATTGATG
50890140 TTCTTGGAACATGACTTA
196 TTCTTGGAACATGACTTA
50890158 ATTG
1 ATTG
50890162 GCATGTCAAA
Statistics
Matches: 209, Mismatches: 5, Indels: 3
0.96 0.02 0.01
Matches are distributed among these distances:
210 64 0.31
211 29 0.14
212 116 0.56
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (213 bp):
ATTGACAAGTGGCCAATTACGTGAATGTTTGAAATTAAAATTTGAGATAATATAATTTTTGAACC
TTGAATTAGGTAATTATGTTCATTTCGATATTTATATGTCTTTTGTTCACTTTAGCATTTGAATT
TGACAACTAGATTCATTTTAATCATTAAACTTGGATTCTATCAAGATTTGATAATTTGATTGATG
TTCTTGGAACATGACTTA
Found at i:50914801 original size:142 final size:138
Alignment explanation
Indices: 50914596--50914886 Score: 442
Period size: 142 Copynumber: 2.1 Consensus size: 138
50914586 TAAGAAAAAC
50914596 GAAATTTCATACATTTTATTTAATATACATGAATTTTCATGGCATTATCAGTTTTTGGTGAAACT
1 GAAATTTCATACATTTTATTTAATATACATGAATTTTCATGGCATTATCAGTTTTTGGTGAAACT
* *
50914661 AGTAAGAGTACATCTTCGAAGTGAAAAAAAGTTAAAGGATATGAGTAAGTAAGGTAAGAAAGACG
66 AGTAAGAGTACATCTTAGAAATGAAAAAAAGTTAAA-GAT-T---TAAGTAAGGTAAGAAAGACG
*
50914726 ATATTTTTCTTAA
126 AGATTTTTCTTAA
* *
50914739 GAAATTTCATACATTTCT-TTTAATATA-ATGGATTTTCATGGCATTATTAGTTTTTGGTGAAAC
1 GAAATTTCATACATTT-TATTTAATATACATGAATTTTCATGGCATTATCAGTTTTTGGTGAAAC
* * *
50914802 TAGTAAGAGTACATCTTAGAAATGTAAAAAAGTTAGAGATTTGAGTAAGGTAAGAAAGACGAGAT
65 TAGTAAGAGTACATCTTAGAAATGAAAAAAAGTTAAAGATTTAAGTAAGGTAAGAAAGACGAGAT
50914867 TTTTCTTAA
130 TTTTCTTAA
50914876 GAAATTTCATA
1 GAAATTTCATA
50914887 TATGTATATG
Statistics
Matches: 139, Mismatches: 8, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
137 42 0.30
140 1 0.01
141 3 0.02
142 67 0.48
143 25 0.18
144 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (138 bp):
GAAATTTCATACATTTTATTTAATATACATGAATTTTCATGGCATTATCAGTTTTTGGTGAAACT
AGTAAGAGTACATCTTAGAAATGAAAAAAAGTTAAAGATTTAAGTAAGGTAAGAAAGACGAGATT
TTTCTTAA
Found at i:50915285 original size:3 final size:3
Alignment explanation
Indices: 50915277--50915311 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
50915267 CTTTTTTGTT
50915277 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
50915312 TTCTTTTTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:50930416 original size:13 final size:13
Alignment explanation
Indices: 50930400--50930425 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50930390 TTGCTTTTTC
50930400 TAATAATATAATA
1 TAATAATATAATA
50930413 TAATAATATAATA
1 TAATAATATAATA
50930426 GTTTTACTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TAATAATATAATA
Found at i:50930577 original size:20 final size:20
Alignment explanation
Indices: 50930535--50930578 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
50930525 GTTTATTTAA
*
50930535 AATATAATAACAATATAATT
1 AATATAATAACAATATAAAT
*
50930555 AATATAATTTACAATA-AAAT
1 AATATAA-TAACAATATAAAT
50930575 AATA
1 AATA
50930579 GCATACTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
AATATAATAACAATATAAAT
Found at i:50935171 original size:24 final size:23
Alignment explanation
Indices: 50935165--50935208 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
50935155 ATGATATTTG
50935165 AATAATTATATATTAAATATATTA
1 AATAATTA-ATATTAAATATATTA
50935189 AATAATTAATA-TAAAT-TATT
1 AATAATTAATATTAAATATATT
50935209 TATAAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 4 0.20
22 5 0.25
23 3 0.15
24 8 0.40
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
AATAATTAATATTAAATATATTA
Found at i:50936386 original size:23 final size:24
Alignment explanation
Indices: 50936360--50936406 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
50936350 AAATTAAATC
50936360 TCTAAGATTATA-AAATCATATCT
1 TCTAAGATTATATAAATCATATCT
* *
50936383 TCTAAGATTGTATATATCATATCT
1 TCTAAGATTATATAAATCATATCT
50936407 AAGATTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (24 bp):
TCTAAGATTATATAAATCATATCT
Found at i:50938612 original size:2 final size:2
Alignment explanation
Indices: 50938605--50938658 Score: 60
Period size: 2 Copynumber: 28.5 Consensus size: 2
50938595 GCTTAAACTG
* *
50938605 TA TA TA TA TA T- TA AA TA TA TA TA AA TA TA TA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
50938645 T- TA TA TA TA AA TA T
1 TA TA TA TA TA TA TA T
50938659 GCGTATGTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
1 3 0.07
2 40 0.93
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:50946052 original size:24 final size:23
Alignment explanation
Indices: 50946021--50946065 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
50946011 GGGTTTTGCC
50946021 AATTTGGGATTTGGATTGTTTTTT
1 AATTTGGGATTTGG-TTGTTTTTT
*
50946045 AATTTGGGTTTTGGTTGTTTT
1 AATTTGGGATTTGGTTGTTTT
50946066 ATGACCAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.13, C:0.00, G:0.27, T:0.60
Consensus pattern (23 bp):
AATTTGGGATTTGGTTGTTTTTT
Found at i:50948542 original size:19 final size:19
Alignment explanation
Indices: 50948494--50948543 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
50948484 TAAATATTAT
* *
50948494 TAAAAATAT-AAAAATTGA
1 TAAAAATATAAAAAAATAA
*
50948512 TATAAACT-TAAAAAAATAA
1 TA-AAAATATAAAAAAATAA
50948531 TAAAAATATAAAA
1 TAAAAATATAAAA
50948544 TATTATAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (19 bp):
TAAAAATATAAAAAAATAA
Found at i:50948551 original size:18 final size:18
Alignment explanation
Indices: 50948465--50948565 Score: 59
Period size: 18 Copynumber: 5.5 Consensus size: 18
50948455 TTAAAATATC
50948465 ATAAAA-ATTATACAATAA-
1 ATAAAATATTATA-AA-AAT
50948483 AT-AAATATTATTAAAAAT
1 ATAAAATATTA-TAAAAAT
*
50948501 ATAAAA-ATTGATATAAACT
1 ATAAAATATT-ATA-AAAAT
* *
50948520 -TAAAAAAATAATAAAAAT
1 AT-AAAATATTATAAAAAT
* *
50948538 ATAAAATATTATAAGTATT
1 ATAAAATATTATAA-AAAT
50948557 ATAAAATAT
1 ATAAAATAT
50948566 AAAATTCTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 19
0.72 0.08 0.21
Matches are distributed among these distances:
17 5 0.08
18 30 0.45
19 29 0.44
20 2 0.03
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (18 bp):
ATAAAATATTATAAAAAT
Found at i:50948705 original size:12 final size:12
Alignment explanation
Indices: 50948688--50948713 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
50948678 ATAAACTTGT
50948688 AAAAATTATAAA
1 AAAAATTATAAA
50948700 AAAAATTATAAA
1 AAAAATTATAAA
50948712 AA
1 AA
50948714 CTTGAAATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAAATTATAAA
Found at i:50949026 original size:19 final size:19
Alignment explanation
Indices: 50948993--50949046 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 19
50948983 GAGTTCAAGT
50948993 TTTTATATATTTTTAAAT-AA
1 TTTT-TATA-TTTTAAATGAA
*
50949013 TTTTTATATGTTTATATGAA
1 TTTTTATAT-TTTAAATGAA
*
50949033 TTTTAATATTTTAA
1 TTTTTATATTTTAA
50949047 TAAATTTCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 1 0.03
19 14 0.48
20 14 0.48
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (19 bp):
TTTTTATATTTTAAATGAA
Found at i:50949140 original size:7 final size:7
Alignment explanation
Indices: 50949128--50949185 Score: 55
Period size: 7 Copynumber: 8.1 Consensus size: 7
50949118 ATATTTATTA
50949128 ATTTTAT
1 ATTTTAT
50949135 ATTTTAT
1 ATTTTAT
*
50949142 ATTATT-G
1 ATT-TTAT
50949149 ATTTTAT
1 ATTTTAT
*
50949156 TTTTTAT
1 ATTTTAT
*
50949163 TTTTTAT
1 ATTTTAT
*
50949170 TTTTTAT
1 ATTTTAT
50949177 AATTTTAT
1 -ATTTTAT
50949185 A
1 A
50949186 ACAATTTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
6 2 0.05
7 34 0.77
8 8 0.18
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (7 bp):
ATTTTAT
Found at i:50949152 original size:21 final size:21
Alignment explanation
Indices: 50949122--50949185 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
50949112 TAAATAATAT
50949122 TTATTAATTTTATATTTTATA
1 TTATTAATTTTATATTTTATA
* *
50949143 TTATTGATTTTATTTTTTAT-
1 TTATTAATTTTATATTTTATA
* *
50949163 TTTTTATTTTTTATAATTTTATA
1 TTATTA-ATTTTAT-ATTTTATA
50949186 ACAATTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
20 4 0.12
21 24 0.71
22 6 0.18
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.72
Consensus pattern (21 bp):
TTATTAATTTTATATTTTATA
Found at i:50949182 original size:9 final size:8
Alignment explanation
Indices: 50949129--50949229 Score: 54
Period size: 7 Copynumber: 12.8 Consensus size: 8
50949119 TATTTATTAA
50949129 TTTTATA-
1 TTTTATAT
50949136 TTTTATAT
1 TTTTATAT
* *
50949144 TATT-GA-
1 TTTTATAT
50949150 TTTTAT-T
1 TTTTATAT
50949157 TTTTAT-T
1 TTTTATAT
50949164 TTTTAT-T
1 TTTTATAT
50949171 TTTTATAAT
1 TTTTAT-AT
*
50949180 TTTATAACAAT
1 TTT-T-A-TAT
*
50949191 TTTAATAT
1 TTTTATAT
50949199 TTTTAT-T
1 TTTTATAT
*
50949206 TTATATAT
1 TTTTATAT
50949214 TTTTAATGAT
1 TTTT-AT-AT
50949224 TTTTAT
1 TTTTAT
50949230 GAGAAAAATA
Statistics
Matches: 73, Mismatches: 10, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
6 3 0.04
7 34 0.47
8 14 0.19
9 9 0.12
10 7 0.10
11 6 0.08
ACGTcount: A:0.28, C:0.01, G:0.02, T:0.69
Consensus pattern (8 bp):
TTTTATAT
Found at i:50949208 original size:14 final size:15
Alignment explanation
Indices: 50949189--50949218 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
50949179 TTTTATAACA
50949189 ATTTTA-ATATTTTT
1 ATTTTATATATTTTT
50949203 ATTTTATATATTTTT
1 ATTTTATATATTTTT
50949218 A
1 A
50949219 ATGATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
ATTTTATATATTTTT
Found at i:50970623 original size:20 final size:20
Alignment explanation
Indices: 50970588--50970652 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
50970578 AATTTAAAAT
50970588 AAATTAATTATTAATATTATTA
1 AAATT-ATT-TTAATATTATTA
* *
50970610 AAATTATTTTAATAATATTT
1 AAATTATTTTAATATTATTA
** *
50970630 AAGCTATTTTATTATTATTA
1 AAATTATTTTAATATTATTA
50970650 AAA
1 AAA
50970653 ATAGACTTGT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.77
21 3 0.09
22 5 0.14
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
AAATTATTTTAATATTATTA
Found at i:50980208 original size:15 final size:16
Alignment explanation
Indices: 50980183--50980213 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
50980173 TATTATATGT
50980183 AATATATAATTAATTA
1 AATATATAATTAATTA
50980199 AATA-ATAATTAATTA
1 AATATATAATTAATTA
50980214 TTAAATACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AATATATAATTAATTA
Found at i:50986441 original size:31 final size:30
Alignment explanation
Indices: 50986405--50986490 Score: 84
Period size: 31 Copynumber: 2.9 Consensus size: 30
50986395 GATTAAATCA
* *
50986405 AAATTAAAGTTTTAAGTATATATTTGAACC
1 AAATTAAAGTTTCAAGTATATAATTGAACC
* * * *
50986435 ACAATTAGAGTTTCACGTATATAATTGCACT
1 A-AATTAAAGTTTCAAGTATATAATTGAACC
* *
50986466 AAATTAAAGTTT-ATGTATACAATTG
1 AAATTAAAGTTTCAAGTATATAATTG
50986491 TATATTAAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
29 11 0.24
30 11 0.24
31 24 0.52
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (30 bp):
AAATTAAAGTTTCAAGTATATAATTGAACC
Found at i:50989136 original size:18 final size:18
Alignment explanation
Indices: 50989113--50989147 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
50989103 TTTGTAAAAA
50989113 GTTTAAACTATAAAAATG
1 GTTTAAACTATAAAAATG
*
50989131 GTTTAATCTATAAAAAT
1 GTTTAAACTATAAAAAT
50989148 TTTCATTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.37
Consensus pattern (18 bp):
GTTTAAACTATAAAAATG
Found at i:51005704 original size:12 final size:12
Alignment explanation
Indices: 51005689--51005715 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
51005679 CTCATATTAA
51005689 TTTTTATATAAT
1 TTTTTATATAAT
51005701 TTTTTATATAAT
1 TTTTTATATAAT
51005713 TTT
1 TTT
51005716 AAAATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTTTATATAAT
Found at i:51008761 original size:14 final size:14
Alignment explanation
Indices: 51008742--51008769 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
51008732 TAAATTTTAG
51008742 AAAATTTAAAAATT
1 AAAATTTAAAAATT
51008756 AAAATTTAAAAATT
1 AAAATTTAAAAATT
51008770 TTAAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AAAATTTAAAAATT
Found at i:51008763 original size:23 final size:23
Alignment explanation
Indices: 51008731--51008776 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
51008721 GACCGAAATT
*
51008731 TTAAATTTTAGAAAA-TTTAAAAA
1 TTAAAATTTA-AAAATTTTAAAAA
51008754 TTAAAATTTAAAAATTTTAAAAA
1 TTAAAATTTAAAAATTTTAAAAA
51008777 ATAGGAGGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (23 bp):
TTAAAATTTAAAAATTTTAAAAA
Found at i:51009807 original size:31 final size:30
Alignment explanation
Indices: 51009739--51009807 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
51009729 CATTGGCTCC
*
51009739 CAAA-TTTTTGAAAATTTTCATCAAGCATT
1 CAAATTTTTTGAAAATTCTCATCAAGCATT
* * * *
51009768 TAAATTTTTTGAAAATTCTCATTATGTCCTT
1 CAAATTTTTTGAAAATTCTCATCAAG-CATT
51009799 CAAATTTTT
1 CAAATTTTT
51009808 AAAAAATTTG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 3 0.09
30 18 0.56
31 11 0.34
ACGTcount: A:0.33, C:0.13, G:0.06, T:0.48
Consensus pattern (30 bp):
CAAATTTTTTGAAAATTCTCATCAAGCATT
Found at i:51009849 original size:28 final size:28
Alignment explanation
Indices: 51009802--51009858 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
51009792 TGTCCTTCAA
* * * * *
51009802 ATTTTTAAAAAATTTGATTAGATCCCTT
1 ATTTTAAAAAAAATTCATTAAACCCCTT
51009830 ATTTTAAAAAAAATTCATTAAACCCCTT
1 ATTTTAAAAAAAATTCATTAAACCCCTT
51009858 A
1 A
51009859 AAATTTTTGG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.42, C:0.14, G:0.04, T:0.40
Consensus pattern (28 bp):
ATTTTAAAAAAAATTCATTAAACCCCTT
Found at i:51010732 original size:31 final size:30
Alignment explanation
Indices: 51010697--51010813 Score: 82
Period size: 31 Copynumber: 3.9 Consensus size: 30
51010687 AGTTTTGAAG
51010697 GGTCTAATGAAAATTTTAAAAAAATTTGGGA
1 GGTCTAATGAAAATTTT-AAAAAATTTGGGA
* * *
51010728 GGTCTAATTAAATATTTTTTAAAACTTTGAGG-
1 GGTCTAATGAAA-A-TTTTAAAAAATTTG-GGA
* * *
51010760 GGTC-AAT-AAAATTTT-TAAATTTTGAGA
1 GGTCTAATGAAAATTTTAAAAAATTTGGGA
*
51010787 GGAT-TAATGAAAATTTCCAAAAAATTT
1 GG-TCTAATGAAAATTT-TAAAAAATTT
51010814 AGAGAGCTTC
Statistics
Matches: 68, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
26 1 0.01
27 9 0.13
28 8 0.12
29 8 0.12
30 3 0.04
31 20 0.29
32 13 0.19
33 6 0.09
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.38
Consensus pattern (30 bp):
GGTCTAATGAAAATTTTAAAAAATTTGGGA
Found at i:51016170 original size:24 final size:24
Alignment explanation
Indices: 51016138--51016187 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
51016128 AGGTCATTGG
51016138 TATCACAAGTCTTCCTCCTCTTTT
1 TATCACAAGTCTTCCTCCTCTTTT
51016162 TATCACAAGTCTTCCTCCTCTTTT
1 TATCACAAGTCTTCCTCCTCTTTT
51016186 TA
1 TA
51016188 GTCTCGTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.18, C:0.32, G:0.04, T:0.46
Consensus pattern (24 bp):
TATCACAAGTCTTCCTCCTCTTTT
Found at i:51021630 original size:13 final size:13
Alignment explanation
Indices: 51021612--51021637 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
51021602 ACCTGGTCAC
51021612 CTACTTTTATAAT
1 CTACTTTTATAAT
51021625 CTACTTTTATAAT
1 CTACTTTTATAAT
51021638 GTTATTAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (13 bp):
CTACTTTTATAAT
Found at i:51032260 original size:21 final size:21
Alignment explanation
Indices: 51032234--51032274 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
51032224 AGACGAGCAA
* *
51032234 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
51032255 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
51032275 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:51037306 original size:27 final size:27
Alignment explanation
Indices: 51037261--51037322 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
51037251 TTTAGTCCTA
*
51037261 TGCCGCCTCTGGCAAAGGCACCTTTGG
1 TGCCGCCTCTGCCAAAGGCACCTTTGG
*
51037288 TGCCGCCTCTGCCACAGGCACCTTTGG
1 TGCCGCCTCTGCCAAAGGCACCTTTGG
*
51037315 TGCTGCCT
1 TGCCGCCT
51037323 GTGGCATCCG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.11, C:0.37, G:0.27, T:0.24
Consensus pattern (27 bp):
TGCCGCCTCTGCCAAAGGCACCTTTGG
Found at i:51041786 original size:29 final size:30
Alignment explanation
Indices: 51041726--51041793 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
51041716 ATTCGACATG
* *
51041726 AATTTTAAAATTAAAAAAGTAAAAAAATTA
1 AATTTTAAAAATAAAAAAGTAAAAAAACTA
*
51041756 AATTCTTAAAAAT-AAAAA-TATAAAAACTA
1 AATT-TTAAAAATAAAAAAGTAAAAAAACTA
*
51041785 AATTATAAA
1 AATTTTAAA
51041794 TTTGTGAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 4 0.12
29 13 0.39
30 9 0.27
31 7 0.21
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.29
Consensus pattern (30 bp):
AATTTTAAAAATAAAAAAGTAAAAAAACTA
Found at i:51049756 original size:24 final size:24
Alignment explanation
Indices: 51049729--51049778 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
51049719 CTTACTAATC
51049729 GAACAATTCCAAACTACAACCGAG
1 GAACAATTCCAAACTACAACCGAG
*
51049753 GAACAATTCCAAACTACAATCGAG
1 GAACAATTCCAAACTACAACCGAG
51049777 GA
1 GA
51049779 TACGGGTGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.46, C:0.26, G:0.14, T:0.14
Consensus pattern (24 bp):
GAACAATTCCAAACTACAACCGAG
Found at i:51050622 original size:28 final size:28
Alignment explanation
Indices: 51050581--51050642 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
51050571 GAAAAAATAT
**
51050581 TTTTTTGTGGGTTAGAATTGAATTTTAA
1 TTTTTTGTGGGTTAGAATTGAATGGTAA
51050609 TTTTTTG-GGTGTTAGAATTGAATGGTAA
1 TTTTTTGTGG-GTTAGAATTGAATGGTAA
51050637 TTTTTT
1 TTTTTT
51050643 TAGGTCAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 2 0.06
28 29 0.94
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.55
Consensus pattern (28 bp):
TTTTTTGTGGGTTAGAATTGAATGGTAA
Found at i:51051043 original size:17 final size:17
Alignment explanation
Indices: 51051016--51051059 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
51051006 TAAAATGTAT
51051016 TAATATTGAACTTAAACA
1 TAAT-TTGAACTTAAACA
*
51051034 TAATTTGAACTTAATCA
1 TAATTTGAACTTAAACA
*
51051051 TAATATGAA
1 TAATTTGAA
51051060 TACATGGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.36
Consensus pattern (17 bp):
TAATTTGAACTTAAACA
Found at i:51055975 original size:2 final size:2
Alignment explanation
Indices: 51055968--51056027 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
51055958 GGTTTCAATT
51055968 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
51056010 TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC
51056028 CCCCTCCTCC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:51056694 original size:2 final size:2
Alignment explanation
Indices: 51056681--51056715 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
51056671 GATTGTATTT
* *
51056681 TA TA TT TA TA TA TA TA TA TA TA TA TA AA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
51056716 GATAAGACAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:51059391 original size:18 final size:17
Alignment explanation
Indices: 51059370--51059403 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
51059360 CTAAAAAATA
51059370 TATATATTTAATAAAAAG
1 TATAT-TTTAATAAAAAG
*
51059388 TATATTTTATTAAAAA
1 TATATTTTAATAAAAA
51059404 TAAAAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
TATATTTTAATAAAAAG
Found at i:51061784 original size:31 final size:31
Alignment explanation
Indices: 51061748--51061807 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
51061738 TTACGAAATG
51061748 GTCACTGAACTATTTGAAAGTTTTCATTTAA
1 GTCACTGAACTATTTGAAAGTTTTCATTTAA
*
51061779 GTCACTGAACTATTTGAAAGTTTTTATTT
1 GTCACTGAACTATTTGAAAGTTTTCATTT
51061808 GAGCCACTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (31 bp):
GTCACTGAACTATTTGAAAGTTTTCATTTAA
Found at i:51063458 original size:31 final size:32
Alignment explanation
Indices: 51063423--51063494 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 32
51063413 TTGGGTTCAA
**
51063423 AACTAAAATTTCA-AAATTTGAAAAATACAAG
1 AACTAAAATTTCACAAATTCAAAAAATACAAG
* * *
51063454 AACTAAAA-TTGACCAATTCAAAAAATACAGG
1 AACTAAAATTTCACAAATTCAAAAAATACAAG
51063485 AACTAAAATT
1 AACTAAAATT
51063495 GATCAAATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
30 3 0.09
31 30 0.88
32 1 0.03
ACGTcount: A:0.57, C:0.12, G:0.07, T:0.24
Consensus pattern (32 bp):
AACTAAAATTTCACAAATTCAAAAAATACAAG
Found at i:51067773 original size:223 final size:223
Alignment explanation
Indices: 51067373--51067813 Score: 643
Period size: 223 Copynumber: 2.0 Consensus size: 223
51067363 AACATGCTAG
* * * *
51067373 CATCACTAACTCATGAAACTCTTTCCTTAAAATATTAGTATCTCACTAAATCTTGATTTTCTCTC
1 CATCACTAACTCATGAAACTCTTACCTTAAAACATTAGTATATCACTAAATCTTAATTTTCTCTC
** *
51067438 TCCTCTAACATGAACATACAACTTTTCCACTTGAATATAACATTTCTATATTGTTCTAAACTTAA
66 TCCTCTAACATGAACATACAACTTCGCCACTTGAATATAACATTGCTATATTGTTCTAAACTTAA
*
51067503 TTCCACTAAGAATTTCAATGGAAATTTTGTGGTTTCTGACAAAGGTTTGATAGCTATCGTGAAAA
131 TTCCACTAAGAATTTCAATAGAAATTTTGTGGTTTCTGACAAAGGTTTGATAGCTATCGTGAAAA
*
51067568 GAGACTAAACTGTAAGGAAATGAGTTAA
196 GAGACCAAACTGTAAGGAAATGAGTTAA
* * *
51067596 CATCACTAACTCATGAAAGTCTTACCTTAAACCCTTAGTATATCACTAAATCTTAATTTTCTCTC
1 CATCACTAACTCATGAAACTCTTACCTTAAAACATTAGTATATCACTAAATCTTAATTTTCTCTC
* * *
51067661 TCCTTTAACATGAACATACAACTTCGCCACTTGAATATAACATTGCTATGTTGTTGTAAACTTAA
66 TCCTCTAACATGAACATACAACTTCGCCACTTGAATATAACATTGCTATATTGTTCTAAACTTAA
* * * * *
51067726 TTTCA-TAAAGAATTTCAATAG-AATTTTGGTGGTTTTTGGCTAAGGTTTGATGGCTATCGTGAA
131 TTCCACT-AAGAATTTCAATAGAAATTTT-GTGGTTTCTGACAAAGGTTTGATAGCTATCGTGAA
* * *
51067789 GAGGGACCAAATTGTAAGGAAATGA
194 AAGAGACCAAACTGTAAGGAAATGA
51067814 AATTTTCCTT
Statistics
Matches: 193, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
222 7 0.04
223 186 0.96
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (223 bp):
CATCACTAACTCATGAAACTCTTACCTTAAAACATTAGTATATCACTAAATCTTAATTTTCTCTC
TCCTCTAACATGAACATACAACTTCGCCACTTGAATATAACATTGCTATATTGTTCTAAACTTAA
TTCCACTAAGAATTTCAATAGAAATTTTGTGGTTTCTGACAAAGGTTTGATAGCTATCGTGAAAA
GAGACCAAACTGTAAGGAAATGAGTTAA
Found at i:51075967 original size:97 final size:97
Alignment explanation
Indices: 51075801--51075994 Score: 388
Period size: 97 Copynumber: 2.0 Consensus size: 97
51075791 ACACCACTGA
51075801 GACAAGTACTACAAGAAGGTATAGAAAACTCGAACTTGTAATTGCCTATTAACAAACCCCTGCAA
1 GACAAGTACTACAAGAAGGTATAGAAAACTCGAACTTGTAATTGCCTATTAACAAACCCCTGCAA
51075866 TTCAATAGTGCTCCACTATTGAATTGCAGGGG
66 TTCAATAGTGCTCCACTATTGAATTGCAGGGG
51075898 GACAAGTACTACAAGAAGGTATAGAAAACTCGAACTTGTAATTGCCTATTAACAAACCCCTGCAA
1 GACAAGTACTACAAGAAGGTATAGAAAACTCGAACTTGTAATTGCCTATTAACAAACCCCTGCAA
51075963 TTCAATAGTGCTCCACTATTGAATTGCAGGGG
66 TTCAATAGTGCTCCACTATTGAATTGCAGGGG
51075995 TTTGTTAATA
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 97 1.00
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.25
Consensus pattern (97 bp):
GACAAGTACTACAAGAAGGTATAGAAAACTCGAACTTGTAATTGCCTATTAACAAACCCCTGCAA
TTCAATAGTGCTCCACTATTGAATTGCAGGGG
Found at i:51088198 original size:199 final size:200
Alignment explanation
Indices: 51087849--51088239 Score: 721
Period size: 203 Copynumber: 1.9 Consensus size: 200
51087839 CATTATTTTA
* *
51087849 TTTATTTATTTTTTAATCGAATTTATCCTCAAAATATATATAAACACCAAAATAAACCCAATTAC
1 TTTATTTATTGTTTAATCGAATTTACCCTCAAAATATATATAAACACCAAAATAAACCCAATTAC
51087914 TAAATTGAAAGACTAAAAACTACATTAACCCATATATATATATATAATCATATAATAATTACGAT
66 TAAATTGAAAGACTAAAAACTACATTAACCC--A-ATATATATATAATCATATAATAATTACGAT
51087979 TGTGAAATTTAAGGAGACAAGACACGTTGGGACCATGCTGTCGATGCTTGTCATTAAAAATTAAT
128 TGTGAAATTTAAGGAGACAAGACACGTTGGGACCATGCTGTCGATGCTTGTCATTAAAAATTAAT
51088044 TTCATTAT
193 TTCATTAT
51088052 TTTATTTATTGTTTAATCGAATTTACCCTCAAAATATATATAAACACCAAAATAAACCCAATTAC
1 TTTATTTATTGTTTAATCGAATTTACCCTCAAAATATATATAAACACCAAAATAAACCCAATTAC
*
51088117 TAAATTGAAAGACTAAAAACTACATTAACCC-ATATATATATAATCATATAATAATTGCGATTGT
66 TAAATTGAAAGACTAAAAACTACATTAACCCAATATATATATAATCATATAATAATTACGATTGT
51088181 GAAATTTAAGGAGACAAGACACGTTGGGACCATGCTGTCGATGCTTGTCATTAAAAATT
131 GAAATTTAAGGAGACAAGACACGTTGGGACCATGCTGTCGATGCTTGTCATTAAAAATT
51088240 TACTTAATAT
Statistics
Matches: 185, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
199 91 0.49
203 94 0.51
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (200 bp):
TTTATTTATTGTTTAATCGAATTTACCCTCAAAATATATATAAACACCAAAATAAACCCAATTAC
TAAATTGAAAGACTAAAAACTACATTAACCCAATATATATATAATCATATAATAATTACGATTGT
GAAATTTAAGGAGACAAGACACGTTGGGACCATGCTGTCGATGCTTGTCATTAAAAATTAATTTC
ATTAT
Found at i:51088894 original size:12 final size:12
Alignment explanation
Indices: 51088877--51088902 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
51088867 TGTCACACTA
51088877 AAAAAATTTAAC
1 AAAAAATTTAAC
51088889 AAAAAATTTAAC
1 AAAAAATTTAAC
51088901 AA
1 AA
51088903 TATTAACAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAAAATTTAAC
Found at i:51100794 original size:12 final size:12
Alignment explanation
Indices: 51100777--51100822 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
51100767 TCACCTCCTT
51100777 CACCATCACCAC
1 CACCATCACCAC
* *
51100789 CACCATCATCAT
1 CACCATCACCAC
*
51100801 CATCATCACCAC
1 CACCATCACCAC
*
51100813 CACCTTCACC
1 CACCATCACC
51100823 TCCTCCTCCT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.30, C:0.52, G:0.00, T:0.17
Consensus pattern (12 bp):
CACCATCACCAC
Found at i:51100827 original size:3 final size:3
Alignment explanation
Indices: 51100821--51100851 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
51100811 ACCACCTTCA
*
51100821 CCT CCT CCT CCT CCT TCT CCT CCT CCT CCT C
1 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT C
51100852 AGGAACAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (3 bp):
CCT
Found at i:51100972 original size:39 final size:39
Alignment explanation
Indices: 51100918--51100997 Score: 117
Period size: 39 Copynumber: 2.1 Consensus size: 39
51100908 TCACCGTCAC
*
51100918 CATCACCGCCACCTCCTAAG-AAACAATCATTACCACCTT
1 CATCACCGCCACCTCCTAAGCAAA-AATCATCACCACCTT
* *
51100957 CATCACCTCCTCCTCCTAAGCAAAAATCATCACCACCTT
1 CATCACCGCCACCTCCTAAGCAAAAATCATCACCACCTT
51100996 CA
1 CA
51100998 GATAGCTCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 34 0.92
40 3 0.08
ACGTcount: A:0.33, C:0.42, G:0.04, T:0.21
Consensus pattern (39 bp):
CATCACCGCCACCTCCTAAGCAAAAATCATCACCACCTT
Found at i:51110758 original size:101 final size:101
Alignment explanation
Indices: 51110578--51110823 Score: 366
Period size: 101 Copynumber: 2.4 Consensus size: 101
51110568 AATTCATCCT
* * * * * *
51110578 TTACATTCATAGTGCCATAACCCATTTATGGTATTATCATCAAAATGCCATAGCCCAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAACCCAACTATGAT
* *
51110643 CTTACATATAAACACTGTCATGGTCTAACCATGGCC
66 CTTACATATAAACACTGCCATGGTCCAACCATGGCC
* * *
51110679 TTACGTTCATAGTGCCATAACCCAGTTATAGTCTTATCATCAGAATGTCATAACCCAACTATGAT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAACCCAACTATGAT
*
51110744 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATGGCC
*
51110780 TCACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCCATCAA
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTAT-CATCAA
51110824 TTCATCCTTT
Statistics
Matches: 129, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
101 124 0.96
102 5 0.04
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.30
Consensus pattern (101 bp):
TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAACCCAACTATGAT
CTTACATATAAACACTGCCATGGTCCAACCATGGCC
Found at i:51115146 original size:33 final size:33
Alignment explanation
Indices: 51115104--51115173 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
51115094 TTCAATGTTT
* *
51115104 CCATTTCCATGGA-TTCTAAATCCTCTAAGATCC
1 CCATTTCCATGCACTT-TAAATCCTCTAACATCC
*
51115137 CCATTTCCATGCACTTTAAATCCTTTAACATCC
1 CCATTTCCATGCACTTTAAATCCTCTAACATCC
51115170 CCAT
1 CCAT
51115174 GCTTTCCAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
33 31 0.94
34 2 0.06
ACGTcount: A:0.27, C:0.33, G:0.06, T:0.34
Consensus pattern (33 bp):
CCATTTCCATGCACTTTAAATCCTCTAACATCC
Found at i:51115900 original size:40 final size:42
Alignment explanation
Indices: 51115835--51115920 Score: 149
Period size: 40 Copynumber: 2.1 Consensus size: 42
51115825 TAGTTTTACA
*
51115835 ATTTCGATTTTTTTTTGTATGATCAAAGTATCATTCATATTT
1 ATTTCGATTTTTTTTTGTATAATCAAAGTATCATTCATATTT
51115877 ATTTCGA-TTTTTTTT-TATAATCAAAGTATCATTCATATTT
1 ATTTCGATTTTTTTTTGTATAATCAAAGTATCATTCATATTT
51115917 ATTT
1 ATTT
51115921 TATGGTCAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
40 28 0.65
41 8 0.19
42 7 0.16
ACGTcount: A:0.28, C:0.09, G:0.07, T:0.56
Consensus pattern (42 bp):
ATTTCGATTTTTTTTTGTATAATCAAAGTATCATTCATATTT
Found at i:51129160 original size:22 final size:22
Alignment explanation
Indices: 51129135--51129180 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
51129125 TTGTCGAGAC
51129135 CTATGCTGTTTGGATTTTTCAT
1 CTATGCTGTTTGGATTTTTCAT
51129157 CTATGCTGTTTGGATTTTTCAT
1 CTATGCTGTTTGGATTTTTCAT
51129179 CT
1 CT
51129181 GATTAGGACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.13, C:0.15, G:0.17, T:0.54
Consensus pattern (22 bp):
CTATGCTGTTTGGATTTTTCAT
Found at i:51133437 original size:52 final size:51
Alignment explanation
Indices: 51133333--51133439 Score: 162
Period size: 52 Copynumber: 2.1 Consensus size: 51
51133323 CGTCTTGTGA
* *
51133333 ATTTTGGTCGGGAATTCTTTATTTATTGAAAAAGGGTTCTTTCAGGGGTCC
1 ATTTTGGTCGGGAATTCTTTATTTATTGAAAAAGGGTTATTGCAGGGGTCC
*
51133384 ATTTTGGTCGGGATTTCTTTATTT-TGCTGAAAAAGGGTTATTGCAGGGGTCC
1 ATTTTGGTCGGGAATTCTTTATTTAT--TGAAAAAGGGTTATTGCAGGGGTCC
51133436 ATTT
1 ATTT
51133440 ACATGCCACA
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
50 1 0.02
51 23 0.45
52 27 0.53
ACGTcount: A:0.21, C:0.11, G:0.26, T:0.42
Consensus pattern (51 bp):
ATTTTGGTCGGGAATTCTTTATTTATTGAAAAAGGGTTATTGCAGGGGTCC
Found at i:51137602 original size:7 final size:7
Alignment explanation
Indices: 51137590--51137614 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
51137580 TCAAAATTAG
51137590 ATATCAA
1 ATATCAA
51137597 ATATCAA
1 ATATCAA
51137604 ATATCAA
1 ATATCAA
51137611 ATAT
1 ATAT
51137615 TATACTCAGG
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:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (7 bp):
ATATCAA
Found at i:51142373 original size:20 final size:20
Alignment explanation
Indices: 51142336--51142374 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
51142326 GTAATTTTTA
* * *
51142336 AAATTTTAGGATTTAGTCTT
1 AAATTTAAGAATTCAGTCTT
51142356 AAATTTAAGAATTCAGTCT
1 AAATTTAAGAATTCAGTCT
51142375 CTATATTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.44
Consensus pattern (20 bp):
AAATTTAAGAATTCAGTCTT
Found at i:51150204 original size:38 final size:40
Alignment explanation
Indices: 51150162--51150253 Score: 116
Period size: 38 Copynumber: 2.3 Consensus size: 40
51150152 AAAAATTATA
* * *
51150162 TTTAATAAAATAAAATATTTATTATATTTAT-TTGTG-TT
1 TTTAATAAAATAAAACATTTATTATATGTATGTAGTGTTT
*
51150200 TTTAATATAATAAAACATTTATTATATGTATGGTAGTGTTT
1 TTTAATAAAATAAAACATTTATTATATGTAT-GTAGTGTTT
51150241 TTTAATATAAATA
1 TTTAATA-AAATA
51150254 TTTTTTAATG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
38 28 0.62
40 4 0.09
41 9 0.20
42 4 0.09
ACGTcount: A:0.40, C:0.01, G:0.08, T:0.51
Consensus pattern (40 bp):
TTTAATAAAATAAAACATTTATTATATGTATGTAGTGTTT
Found at i:51157773 original size:39 final size:39
Alignment explanation
Indices: 51157662--51157776 Score: 94
Period size: 39 Copynumber: 2.9 Consensus size: 39
51157652 TTTTTTCTCA
* *
51157662 AATTTCCACCCAATCTTGATCTAAATTAATATTTCATTC
1 AATTTCCACCCAATCTTGATCTAAATTAACATTTCATGC
** * * **
51157701 AATTT--A-GTAAT-TTAAATGATAAAACAATTCATTTCATGC
1 AATTTCCACCCAATCTT-GAT-CTAAATTAA--CATTTCATGC
51157740 AATTTCCACCCAATCTTGATCTAAATTAACATTTCAT
1 AATTTCCACCCAATCTTGATCTAAATTAACATTTCAT
51157777 CCTGAAACTA
Statistics
Matches: 54, Mismatches: 14, Indels: 16
0.64 0.17 0.19
Matches are distributed among these distances:
35 2 0.04
36 5 0.09
37 7 0.13
39 26 0.48
41 7 0.13
42 5 0.09
43 2 0.04
ACGTcount: A:0.37, C:0.19, G:0.04, T:0.39
Consensus pattern (39 bp):
AATTTCCACCCAATCTTGATCTAAATTAACATTTCATGC
Found at i:51161798 original size:5 final size:5
Alignment explanation
Indices: 51161788--51161817 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
51161778 CTGCCCGTGA
*
51161788 ATATT ATATT ATATT ATATT TTATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT
51161818 TCTGTATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
ATATT
Found at i:51162934 original size:17 final size:17
Alignment explanation
Indices: 51162907--51162939 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
51162897 ACTTTATGCT
51162907 TACTCAAATAT-GATCC
1 TACTCAAATATAGATCC
51162923 TACTCGAAATATAGATC
1 TACTC-AAATATAGATC
51162940 TAAAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (17 bp):
TACTCAAATATAGATCC
Found at i:51163863 original size:86 final size:86
Alignment explanation
Indices: 51163710--51163867 Score: 219
Period size: 86 Copynumber: 1.8 Consensus size: 86
51163700 CAAGGAGGCC
* * * * ***
51163710 ATGGTTGACGTTGACCAACAACACTCAACTTACATAATGTTTTAATCACTAGATCTAGAGGTGAA
1 ATGGTTAACGTTGACCAACAACACTCAACTTACATAATGTGTCAATCACAAGATCTAGAGACAAA
51163775 TCTGAGGAGTAGGTGAGGGGT
66 TCTGAGGAGTAGGTGAGGGGT
* *
51163796 ATGGTTAACGTTGACCAACAGCACTCAACTTACATAATGTGTCAATCACAAGAT-TCAGTGACAA
1 ATGGTTAACGTTGACCAACAACACTCAACTTACATAATGTGTCAATCACAAGATCT-AGAGACAA
51163860 ATCTGAGG
65 ATCTGAGG
51163868 GGCTAGCAAG
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
85 1 0.02
86 61 0.98
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (86 bp):
ATGGTTAACGTTGACCAACAACACTCAACTTACATAATGTGTCAATCACAAGATCTAGAGACAAA
TCTGAGGAGTAGGTGAGGGGT
Found at i:51164304 original size:17 final size:18
Alignment explanation
Indices: 51164284--51164323 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
51164274 TTTAAAATAA
*
51164284 TAAATAAATCTA-AATTT
1 TAAATAAATCTACAAATT
*
51164301 TAAATAAATTTACAAATT
1 TAAATAAATCTACAAATT
51164319 TAAAT
1 TAAAT
51164324 GTTATAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAATAAATCTACAAATT
Found at i:51164317 original size:25 final size:24
Alignment explanation
Indices: 51164289--51164341 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
51164279 AATAATAAAT
*
51164289 AAATCTAAATTTTA-AATAAATTTAC
1 AAATCTAAATGTTATAA-AAA-TTAC
*
51164314 AAATTTAAATGTTATAAAAATTAC
1 AAATCTAAATGTTATAAAAATTAC
51164338 AAAT
1 AAAT
51164342 ATTCAACAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 8 0.32
25 15 0.60
26 2 0.08
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.38
Consensus pattern (24 bp):
AAATCTAAATGTTATAAAAATTAC
Found at i:51164721 original size:18 final size:17
Alignment explanation
Indices: 51164694--51164727 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
51164684 TCCCCTTTAA
51164694 CCTTTCCCTTCCCCTTC
1 CCTTTCCCTTCCCCTTC
51164711 CCTTCTCCCTTCCCCTT
1 CCTT-TCCCTTCCCCTT
51164728 GTGTTGCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (17 bp):
CCTTTCCCTTCCCCTTC
Found at i:51164849 original size:25 final size:27
Alignment explanation
Indices: 51164787--51164849 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 27
51164777 CAGGTAAGGC
51164787 TCCTTCTTCTTCTTCTTCCATTCTTCAT
1 TCCTTC-TCTTCTTCTTCCATTCTTCAT
**
51164815 TCCTT-T-TTCTTCTTCTGTTCTTCA-
1 TCCTTCTCTTCTTCTTCCATTCTTCAT
51164839 T-CTTCTCTTCT
1 TCCTTCTCTTCT
51164850 CAGCATATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
23 3 0.10
24 2 0.06
25 20 0.65
26 1 0.03
28 5 0.16
ACGTcount: A:0.05, C:0.33, G:0.02, T:0.60
Consensus pattern (27 bp):
TCCTTCTCTTCTTCTTCCATTCTTCAT
Found at i:51167659 original size:14 final size:15
Alignment explanation
Indices: 51167637--51167713 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
51167627 CAATCAAACA
51167637 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
51167651 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
51167666 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
51167686 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
51167700 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
51167714 ACTACCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:51167678 original size:20 final size:20
Alignment explanation
Indices: 51167653--51167692 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
51167643 AATATTTTCC
*
51167653 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
51167673 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
51167693 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:51167698 original size:34 final size:35
Alignment explanation
Indices: 51167641--51167707 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
51167631 CAAACACCAG
*
51167641 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
51167676 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
51167708 CATTTTACTA
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:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:51167714 original size:14 final size:14
Alignment explanation
Indices: 51167676--51167715 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
51167666 ACAGAAAAGT
*
51167676 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
51167690 AAATCATTTTACGG
1 AAAACATTTTACAG
51167704 AAAACATTTTAC
1 AAAACATTTTAC
51167716 TACCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:51169174 original size:16 final size:16
Alignment explanation
Indices: 51169153--51169185 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
51169143 TCTCTCACTT
*
51169153 CAACAATAATTTAATC
1 CAACAATAACTTAATC
51169169 CAACAATAACTTAATC
1 CAACAATAACTTAATC
51169185 C
1 C
51169186 GATCCACAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.27
Consensus pattern (16 bp):
CAACAATAACTTAATC
Found at i:51170143 original size:205 final size:205
Alignment explanation
Indices: 51169680--51170395 Score: 929
Period size: 205 Copynumber: 3.5 Consensus size: 205
51169670 GTTAGTTCCA
* * * * *
51169680 TTTCTCCTTCTAGATCTCGCTGTTCGTTTCAAAGTTCATCGATATTTCTGGTTTTTTTAGTTTGA
1 TTTCTCCTTCTAGACCTCGTTATTCATTTCAAAGTTCATCGATATTTCCGGTTTTTTTAGTTTGA
* * *
51169745 TTTGTATTAGTGCTTCTTTGCTGATTAATTTGTTCAATCTT-TCGTTCTAGATCTCGCTCTTCGT
66 TTTGTATTAGTGTTTCTTTGCTGATTAATTTGTTCAAT-TTCTCGTTCTAGATCTCGCTATTCAT
** *
51169809 TTATATTTCC-TTTTTAAAAAAAT-ATTTATAATAGTATTTCTTTGCTGATTAGTTTGAATTCAT
130 TTATATTTCCTTTTTTAAAAATTTGATTTATAATAGTTTTTCTTTGCTGATTAGTTTGAATTCAT
*
51169872 TTTTAGCTCAC
195 TTTTAGCTCAT
* * * * *
51169883 TTTCTCCTTCCAGACCTCGTTATTCATTTCGAAGTTCATCTATGTTTCTGGTTTTTTTAGTTTGA
1 TTTCTCCTTCTAGACCTCGTTATTCATTTCAAAGTTCATCGATATTTCCGGTTTTTTTAGTTTGA
* *
51169948 TTTGTATTGGTGTTTCTTTGCTGATTACTTTGTTCAATTTCTCGTTCTAGATCTCGCTATTCATT
66 TTTGTATTAGTGTTTCTTTGCTGATTAATTTGTTCAATTTCTCGTTCTAGATCTCGCTATTCATT
*
51170013 TATATTTCCTTTTTTAAAAATTTGATTTATAATTGTTTTTCTTTGCTGATTAGTTTGAATTCATT
131 TATATTTCCTTTTTTAAAAATTTGATTTATAATAGTTTTTCTTTGCTGATTAGTTTGAATTCATT
*
51170078 TTTAGCTTAT
196 TTTAGCTCAT
*
51170088 TTTCTCCTTCTAGACCTCGTTATTCATTTCAAAGTTCATCGATATTTCCGGTTTTTTTACTTTGA
1 TTTCTCCTTCTAGACCTCGTTATTCATTTCAAAGTTCATCGATATTTCCGGTTTTTTTAGTTTGA
* * * *
51170153 TTTGAATTAGTCTTTCTTTGCTGATTATTTTGTTCAATTTCTCCTTCTAGATCTCGCTATTCATT
66 TTTGTATTAGTGTTTCTTTGCTGATTAATTTGTTCAATTTCTCGTTCTAGATCTCGCTATTCA-T
***
51170218 TATATATTTCCATTCCTTTTTGTTAATTTGATTTATAATAGTTTTTCTTTGCTGATTAGTTTGAA
130 T-TATATTTCC--T--TTTTTAAAAATTTGATTTATAATAGTTTTTCTTTGCTGATTAGTTTGAA
** *
51170283 TTGGTTTTGAG-TCAT
190 TTCATTTTTAGCTCAT
** * * * ** *
51170298 TTTCTCCTTCTAGACCTCG-TATTGGTTTCGAAGTTCATCAACATTTCCTCTCTCTTTTTAGTTC
1 TTTCTCCTTCTAGACCTCGTTATTCATTTCAAAGTTCATCGATATTTCCGGT-T-TTTTTAGTTT
* * *
51170362 GATTTTTATTGGTGTTTCTTTTCTGATTAATTTG
64 GATTTGTATTAGTGTTTCTTTGCTGATTAATTTG
51170396 AATTGATTTT
Statistics
Matches: 449, Mismatches: 53, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
202 2 0.00
203 123 0.27
204 11 0.02
205 164 0.37
206 2 0.00
207 9 0.02
209 26 0.06
210 23 0.05
211 89 0.20
ACGTcount: A:0.19, C:0.16, G:0.13, T:0.53
Consensus pattern (205 bp):
TTTCTCCTTCTAGACCTCGTTATTCATTTCAAAGTTCATCGATATTTCCGGTTTTTTTAGTTTGA
TTTGTATTAGTGTTTCTTTGCTGATTAATTTGTTCAATTTCTCGTTCTAGATCTCGCTATTCATT
TATATTTCCTTTTTTAAAAATTTGATTTATAATAGTTTTTCTTTGCTGATTAGTTTGAATTCATT
TTTAGCTCAT
Found at i:51170152 original size:115 final size:112
Alignment explanation
Indices: 51170016--51170746 Score: 380
Period size: 115 Copynumber: 6.5 Consensus size: 112
51170006 ATTCATTTAT
*
51170016 ATTTCCTTTTTTAAAAATTTGATTTATAATT-GTTTTTCTTTGCTGATTAGTTTGAATTCATTTT
1 ATTTCCTTTTTT--TAATTTGATTT-TAATTAGTTTTTCTTTGCTGATTAGTTTGAATTCATTTT
* * *
51170080 TAGCTTATTTTCTCCTTCTAGACCTCGTTATTCATTTCAAAGTTCATCGAT
63 TAG-TTATTTTCTCCTTCTAGACCTCGCTATTCATTTCAAAGTTCATCAAC
* * * *
51170131 ATTTCCGGTTTTTTTACTTTGATTTGAATTAGTCTTTCTTTGCTGATTATTTTG--TTC------
1 ATTTCC--TTTTTTTAATTTGATTTTAATTAGTTTTTCTTTGCTGATTAGTTTGAATTCATTTTT
*
51170188 A---A-TTTCTCCTTCTAGATCTCGCTATTCATTT-ATATA-TT--TC--C
64 AGTTATTTTCTCCTTCTAGACCTCGCTATTCATTTCA-A-AGTTCATCAAC
** *
51170229 A-TTCCTTTTTGTTAATTTGATTTATAA-TAGTTTTTCTTTGCTGATTAGTTTGAATTGGTTTTG
1 ATTTCCTTTTT-TTAATTTGATTT-TAATTAGTTTTTCTTTGCTGATTAGTTTGAATTCATTTTT
* ** *
51170292 AGTCATTTTCTCCTTCTAGACCTCG-TATTGGTTTCGAAGTTCATCAAC
64 AGTTATTTTCTCCTTCTAGACCTCGCTATTCATTTCAAAGTTCATCAAC
* * * * * * * *
51170340 ATTTCCTCTCTCTTTTTAGTTCGATTTTTATTGGTGTTTCTTTTCTGATTAATTTGAATTGATTT
1 ATTT-C-CT-T-TTTTTAATTTGATTTTAATTAGTTTTTCTTTGCTGATTAGTTTGAATTCATTT
* * * * *
51170405 TTAGTTCAATTTCTCGC-TCTAGATCTTGCTATTCATTTCAAAGTTCGTCAAT
62 TTAGTT-ATTTTCTC-CTTCTAGACCTCGCTATTCATTTCAAAGTTCATCAAC
** * * * * *
51170457 ATTTCCTTCTTAAAAAATAAAAATTGATTTGT-GTTAGTATTTCTTTGCTGATAAATTTG-A---
1 ATTTCCTT-TT------TTTAATTTGATTT-TAATTAGTTTTTCTTTGCTGATTAGTTTGAATTC
* * * * **
51170517 ATTTTTAGTTCAATTTCTCGC-TCTAGATCTCGTTATTCATTTCAAAGTTCACCATT
58 ATTTTTAGTT-ATTTTCTC-CTTCTAGACCTCGCTATTCATTTCAAAGTTCATCAAC
* * * * * *
51170573 ATTGT-CTTTTTTAAAGTTTGATTTGT-GTTAGTATTTCTTTGGTGATTAATTTGAATTGATTTT
1 ATT-TCCTTTTTTTAA-TTTGATTT-TAATTAGTTTTTCTTTGCTGATTAGTTTGAATTCATTTT
* * * * * *
51170636 TAGTTCATTGTGTCCTTCTTGATCTCGCTTTTCATTTTAAAGTTCATC-A-
63 TAGTT-ATTTTCTCCTTCTAGACCTCGCTATTCATTTCAAAGTTCATCAAC
* * * * * *
51170685 A-TGCCATTTTTTTTATTTTGATTTGT-ATTAGTGTTTCTTTGCTGATAAATTTGAATTTATTT
1 ATTTCC--TTTTTTTAATTTGATTT-TAATTAGTTTTTCTTTGCTGATTAGTTTGAATTCATTT
51170747 CAAAGCAAAT
Statistics
Matches: 494, Mismatches: 71, Indels: 105
0.74 0.11 0.16
Matches are distributed among these distances:
95 5 0.01
96 34 0.07
97 6 0.01
98 3 0.01
100 2 0.00
101 1 0.00
102 30 0.06
103 2 0.00
104 1 0.00
106 1 0.00
107 12 0.02
108 18 0.04
109 6 0.01
110 34 0.07
111 5 0.01
112 44 0.09
113 12 0.02
114 55 0.11
115 84 0.17
116 77 0.16
117 30 0.06
119 1 0.00
120 30 0.06
121 1 0.00
ACGTcount: A:0.21, C:0.14, G:0.12, T:0.53
Consensus pattern (112 bp):
ATTTCCTTTTTTTAATTTGATTTTAATTAGTTTTTCTTTGCTGATTAGTTTGAATTCATTTTTAG
TTATTTTCTCCTTCTAGACCTCGCTATTCATTTCAAAGTTCATCAAC
Found at i:51170370 original size:117 final size:117
Alignment explanation
Indices: 51170247--51170746 Score: 319
Period size: 116 Copynumber: 4.4 Consensus size: 117
51170237 TTGTTAATTT
* * * * * *
51170247 GATTTATAATAGTTTTTCTTTGCTGATTAGTTTGAATTGGTTTTGAG-TCATTTTCTC-CTTCTA
1 GATTTTTATTAGTGTTTCTTTGCTGATTAATTTGAATTGATTTTGAGTTCAATTTCTCGC-TCTA
** *
51170310 GACCTCG-TATTGGTTTCGAAGTTCATCAACATTTCCTCTCTCTTTTTAGTTC
65 GACCTCGCTATTCATTTCAAAGTTCATCAACATTTCCTCTCTCTTTTTAGTTC
* * *
51170362 GATTTTTATTGGTGTTTCTTTTCTGATTAATTTGAATTGATTTTTAGTTCAATTTCTCGCTCTAG
1 GATTTTTATTAGTGTTTCTTTGCTGATTAATTTGAATTGATTTTGAGTTCAATTTCTCGCTCTAG
* * * * *** *
51170427 ATCTTGCTATTCATTTCAAAGTTCGTCAATATTTCCT-TCT-TAAAAAATAAAAATT-
66 ACCTCGCTATTCATTTCAAAGTTCATCAACATTTCCTCTCTCT------TTTTAGTTC
* * * *
51170482 GATTTGTGTTAGTATTTCTTTGCTGATAAATTTGAA-T--TTTT-AGTTCAATTTCTCGCTCTAG
1 GATTTTTATTAGTGTTTCTTTGCTGATTAATTTGAATTGATTTTGAGTTCAATTTCTCGCTCTAG
* * * *
51170543 ATCTCGTTATTCATTTCAAAGTTCA-C--CATTAT--TGTCT-TTTTTAAAGTTT
66 ACCTCGCTATTCATTTCAAAGTTCATCAACATT-TCCTCTCTCTTTTT--AGTTC
* * * * * *
51170592 GATTTGTGTTAGTATTTCTTTGGTGATTAATTTGAATTGATTTTTAGTTC-ATTGTGTC-CTTCT
1 GATTTTTATTAGTGTTTCTTTGCTGATTAATTTGAATTGATTTTGAGTTCAATT-TCTCGC-TCT
* * * * * * *
51170655 TGATCTCGCTTTTCATTTTAAAGTTCATC-A-A-TGCCAT-T-T-TTTTTATTTT
64 AGACCTCGCTATTCATTTCAAAGTTCATCAACATTTCC-TCTCTCTTTTTAGTTC
* * *
51170704 GATTTGTATTAGTGTTTCTTTGCTGATAAATTTGAATTTATTT
1 GATTTTTATTAGTGTTTCTTTGCTGATTAATTTGAATTGATTT
51170747 CAAAGCAAAT
Statistics
Matches: 312, Mismatches: 48, Indels: 53
0.76 0.12 0.13
Matches are distributed among these distances:
107 1 0.00
109 3 0.01
110 34 0.11
111 1 0.00
112 43 0.14
113 15 0.05
114 42 0.13
115 44 0.14
116 64 0.21
117 30 0.10
119 1 0.00
120 30 0.10
121 4 0.01
ACGTcount: A:0.22, C:0.13, G:0.13, T:0.52
Consensus pattern (117 bp):
GATTTTTATTAGTGTTTCTTTGCTGATTAATTTGAATTGATTTTGAGTTCAATTTCTCGCTCTAG
ACCTCGCTATTCATTTCAAAGTTCATCAACATTTCCTCTCTCTTTTTAGTTC
Found at i:51170681 original size:114 final size:111
Alignment explanation
Indices: 51170480--51170746 Score: 305
Period size: 112 Copynumber: 2.4 Consensus size: 111
51170470 AAAATAAAAA
51170480 TTGATTTGTGTTAGTATTTCTTTGCTGATAAATTTG-A--ATTTTTAGTTCAATTTCTCGCTCTA
1 TTGATTTGTGTTAGTATTTCTTTGCTGATAAATTTGAATTATTTTTAGTTCAATTTCTCGCTCTA
*
51170542 GATCTCGTTATTCATTTCAAAGTTCACCATTATTGTC-TTTTTTAAAGT
66 GATCTCGTTATTCATTTCAAAGTTCACCA--A-TGCCATTTTTTAAAGT
* * *
51170590 TTGATTTGTGTTAGTATTTCTTTGGTGATTAATTTGAATTGATTTTTAGTTC-ATTGTGTC-CTT
1 TTGATTTGTGTTAGTATTTCTTTGCTGATAAATTTGAATT-ATTTTTAGTTCAATT-TCTCGC-T
* * * ** *
51170653 CTTGATCTCGCTT-TTCATTTTAAAGTTCATCAATGCCATTTTTTTTATT
63 CTAGATCTCG-TTATTCATTTCAAAGTTCACCAATGCCATTTTTTAAAGT
* *
51170702 TTGATTTGTATTAGTGTTTCTTTGCTGATAAATTTGAATTTATTT
1 TTGATTTGTGTTAGTATTTCTTTGCTGATAAATTTGAA-TTATTT
51170747 CAAAGCAAAT
Statistics
Matches: 134, Mismatches: 14, Indels: 16
0.82 0.09 0.10
Matches are distributed among these distances:
110 34 0.25
111 4 0.03
112 47 0.35
113 6 0.04
114 41 0.31
115 2 0.01
ACGTcount: A:0.21, C:0.11, G:0.14, T:0.54
Consensus pattern (111 bp):
TTGATTTGTGTTAGTATTTCTTTGCTGATAAATTTGAATTATTTTTAGTTCAATTTCTCGCTCTA
GATCTCGTTATTCATTTCAAAGTTCACCAATGCCATTTTTTAAAGT
Found at i:51175130 original size:22 final size:21
Alignment explanation
Indices: 51175090--51175130 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
51175080 CAAATTTCTT
* *
51175090 AATTTTAACACTTCTAAGCAG
1 AATTTTAACACTCCCAAGCAG
51175111 AATTTTAAACACTCCCAAGC
1 AATTTT-AACACTCCCAAGC
51175131 TTTTCAAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.39, C:0.24, G:0.07, T:0.29
Consensus pattern (21 bp):
AATTTTAACACTCCCAAGCAG
Found at i:51184962 original size:122 final size:124
Alignment explanation
Indices: 51184745--51185086 Score: 546
Period size: 122 Copynumber: 2.8 Consensus size: 124
51184735 CGAGTTGATG
** * * *
51184745 TTTCTGATAAAATAGTATAAAATCGCTTTTAGCAGGATGTTTTTTGAGAAGAATTTTTGAAATCG
1 TTTCTGACCAAATAGTATAAAATCGCTTTTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
*
51184810 CGGCCTCGTGGGCGCGCTTTTGCTACAGTAGGTCATGTAAGAAAT-ATTTTTTTT-ACT
66 CGGCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTGACT
*
51184867 TTTCTGAGCAAATAGTATAAAATCGCTTTTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
1 TTTCTGACCAAATAGTATAAAATCGCTTTTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
*
51184932 CGGCCTCGTGGACGCGCTTTTGCTATAGTAGGTCATGTAAGAAATAATTTTTTTTGACT
66 CGGCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTGACT
* *
51184991 TTTCTGACCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATTG
1 TTTCTGACCAAATAGTATAAAATCGCTTTTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
* *
51185056 CTGCCTCGT-GAGCGCGTTTTTGCTACAGTAG
66 CGGCCTCGTGGA-CGCGCTTTTGCTACAGTAG
51185087 CATGTTTGGG
Statistics
Matches: 204, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
122 103 0.50
123 11 0.05
124 90 0.44
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.36
Consensus pattern (124 bp):
TTTCTGACCAAATAGTATAAAATCGCTTTTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
CGGCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTGACT
Found at i:51187913 original size:104 final size:105
Alignment explanation
Indices: 51187679--51187934 Score: 444
Period size: 104 Copynumber: 2.4 Consensus size: 105
51187669 GGGTTGATGT
*
51187679 GTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCTTTGAAATGTGAA
1 GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCTTTGAAATGTGAA
51187743 AAGGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
65 AAGGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
*
51187784 GTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTTGAAATGTG-AA
1 GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAA
51187848 AGGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
66 AGGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
** *
51187888 GTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
51187935 ATAACGGTTA
Statistics
Matches: 144, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
104 85 0.59
105 58 0.40
106 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (105 bp):
GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAA
AGGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
Found at i:51190788 original size:37 final size:37
Alignment explanation
Indices: 51190746--51191021 Score: 516
Period size: 37 Copynumber: 7.5 Consensus size: 37
51190736 TTGTATTAAC
51190746 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
1 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
*
51190783 TCAAATTATATAAAATTATTAATGGTTAGTAAAATTA
1 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
* *
51190820 TCAAATTATATAAAATTATTAATGGTTAATAAAATTA
1 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
51190857 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
1 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
*
51190894 TCAAATTATATAAAATTATTAATGGTTAGTAAAATTA
1 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
51190931 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
1 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
51190968 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
1 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
51191005 TCAAATTATATAAAATT
1 TCAAATTATATAAAATT
51191022 GGGTTAGGGT
Statistics
Matches: 233, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 233 1.00
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (37 bp):
TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
Found at i:51191057 original size:29 final size:29
Alignment explanation
Indices: 51191023--51191800 Score: 1020
Period size: 29 Copynumber: 26.4 Consensus size: 29
51191013 TATAAAATTG
51191023 GGTTAGGGTTAGGGTTTTTAATTAAGTTA
1 GGTTAGGGTTAGGGTTTTTAATTAAGTTA
*
51191052 GGTTAGGGTTATGGTTTTTAATTAAGTTTA
1 GGTTAGGGTTAGGGTTTTTAATTAAG-TTA
*
51191082 -GTTAGGGTTAGGGTTTTTAATTAAGTTT
1 GGTTAGGGTTAGGGTTTTTAATTAAGTTA
*
51191110 GGTTAGGGTTAGGGTTTTTAATTAAGTTT
1 GGTTAGGGTTAGGGTTTTTAATTAAGTTA
*
51191139 GGTTAGGGTTAGGGTTTTTAATTGAA-TTG
1 GGTTAGGGTTAGGGTTTTTAATT-AAGTTA
*
51191168 GGTTAGGGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTAGGGTTTTTAATTAAGTTA
* *
51191197 GGTTAGGGTTAGTGTTTTTAATTAAGTTT
1 GGTTAGGGTTAGGGTTTTTAATTAAGTTA
*
51191226 GGTTAGGGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTAGGGTTTTTAATTAAGTTA
*
51191255 GGTTAGGGTTAGAGTTTTAGTTTTTAATTAAGTTT
1 GGTTAGGGTTAG-G-----GTTTTTAATTAAGTTA
*
51191290 GGTTAGGGTTAGGGTTTTTAATTGAA-TTG
1 GGTTAGGGTTAGGGTTTTTAATT-AAGTTA
*
51191319 GGTTAGGGTTAGGGTTTTTAATTAAGTTT
1 GGTTAGGGTTAGGGTTTTTAATTAAGTTA
*
51191348 GGTTAGGGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTAGGGTTTTTAATTAAGTTA
* *
51191377 AGTTAGGGTTAGGATTTTTAATTAAGTTA
1 GGTTAGGGTTAGGGTTTTTAATTAAGTTA
*
51191406 GGTTAGGGTTAGGGTTTTTAATTAAGTTT
1 GGTTAGGGTTAGGGTTTTTAATTAAGTTA
*
51191435 GGTTAGGGTTAGGGTTTTTAATTGAA-TTG
1 GGTTAGGGTTAGGGTTTTTAATT-AAGTTA
*
51191464 GGTTAGGGTTAGGGTTTTTAATTGAA-TTG
1 GGTTAGGGTTAGGGTTTTTAATT-AAGTTA
* *
51191493 GGTTAAGGTTAGGGTTTTTAATTAAGTTT
1 GGTTAGGGTTAGGGTTTTTAATTAAGTTA
51191522 GGTTAGGGTTAGGGTTTTTAATTGAATTGGGTTA
1 GGTTAGGGTTAGGGTTTTTAATT-AA----GTTA
* * *
51191556 GGGTTAGAGTTAGGATTTTTAATTGAA-TTG
1 -GGTTAGGGTTAGGGTTTTTAATT-AAGTTA
51191586 GGTTAGGGTTAGGGTTTTTAATTGAA-TTA
1 GGTTAGGGTTAGGGTTTTTAATT-AAGTTA
*
51191615 GGTTAGGGTTAGGGTTTTTAATTAAGTTT
1 GGTTAGGGTTAGGGTTTTTAATTAAGTTA
*
51191644 GGTTAGGGTTAGGGTTTTTAATTGAA-TTG
1 GGTTAGGGTTAGGGTTTTTAATT-AAGTTA
* *
51191673 GGTTAGGGTTAAGGTTTTTAATTAAATTA
1 GGTTAGGGTTAGGGTTTTTAATTAAGTTA
*
51191702 GGTTAGGGTTAGGGTTTTTAATTGAA-TTG
1 GGTTAGGGTTAGGGTTTTTAATT-AAGTTA
51191731 GGTTAGGGTTAGGG-TTTTAATTGAA-TTA
1 GGTTAGGGTTAGGGTTTTTAATT-AAGTTA
* *
51191759 GGTTAGGGTTAGGGTTTTTAATTAAATTT
1 GGTTAGGGTTAGGGTTTTTAATTAAGTTA
51191788 GGTTAGGGTTAGG
1 GGTTAGGGTTAGG
51191801 AATAAACATC
Statistics
Matches: 681, Mismatches: 42, Indels: 52
0.88 0.05 0.07
Matches are distributed among these distances:
28 41 0.06
29 568 0.83
30 18 0.03
34 4 0.01
35 50 0.07
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (29 bp):
GGTTAGGGTTAGGGTTTTTAATTAAGTTA
Found at i:51192991 original size:7 final size:7
Alignment explanation
Indices: 51192979--51193004 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
51192969 TATACATAAT
51192979 AATACTA
1 AATACTA
51192986 AATACTA
1 AATACTA
51192993 AATACTA
1 AATACTA
51193000 AATAC
1 AATAC
51193005 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:51194210 original size:22 final size:22
Alignment explanation
Indices: 51194182--51194229 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
51194172 TATGGATTTG
51194182 AGAGAATTTTGGAAGGAAATTA
1 AGAGAATTTTGGAAGGAAATTA
*
51194204 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTA
51194226 AGAG
1 AGAG
51194230 GAAATTGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.25
Consensus pattern (22 bp):
AGAGAATTTTGGAAGGAAATTA
Found at i:51194225 original size:73 final size:73
Alignment explanation
Indices: 51194142--51194307 Score: 296
Period size: 73 Copynumber: 2.3 Consensus size: 73
51194132 TCGTTTTAAA
51194142 AAAGGAAATTGAGAGGAAATTGAAATCAAATATGGATTTGAGAGAATTTTGGAAGGAAATTAAGA
1 AAAGGAAATTGAGAGGAAATTGAAATCAAATATGGATTTGAGAGAATTTTGGAAGGAAATTAAGA
51194207 GAATTTTG
66 GAATTTTG
* * *
51194215 GAAGGAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAGGAAATTGAGA
1 AAAGGAAATTGAGAGGAAATTGAAATCAAATATGGATTTGAGAGAATTTTGGAAGGAAATTAAGA
51194280 GAATTTTG
66 GAATTTTG
*
51194288 AAAAGAAATTGAGAGGAAAT
1 AAAGGAAATTGAGAGGAAAT
51194308 ATGAGAGAGG
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 88 1.00
ACGTcount: A:0.46, C:0.01, G:0.27, T:0.27
Consensus pattern (73 bp):
AAAGGAAATTGAGAGGAAATTGAAATCAAATATGGATTTGAGAGAATTTTGGAAGGAAATTAAGA
GAATTTTG
Found at i:51194277 original size:22 final size:22
Alignment explanation
Indices: 51194252--51194302 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
51194242 AAATATGGAT
* *
51194252 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGAAAAGAAA
51194274 TTGAGAGAATTTTGAAAAGAAA
1 TTGAGAGAATTTTGAAAAGAAA
51194296 TTGAGAG
1 TTGAGAG
51194303 GAAATATGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.27
Consensus pattern (22 bp):
TTGAGAGAATTTTGAAAAGAAA
Found at i:51195320 original size:175 final size:175
Alignment explanation
Indices: 51195029--51195741 Score: 948
Period size: 175 Copynumber: 4.1 Consensus size: 175
51195019 CGGTTAGCTA
* * * * * * * *
51195029 CCACTTGGTGGTTGACGATGTTTTCTTTTTCAACGTTTGTTCACGAAGCAATTGGTCTGCCGACA
1 CCACTTGGTGGTTGGCGACGTTTTCTTTTTGAACATTTGTCCTCGAAGCGATTGGTATGCCGACA
* * * * *
51195094 TTTTATTGATAGAGAATGTTTTATGGAGATGTGGTGAAGTTGATTAATTATTTAGTGGTTTGTCG
66 TTTTATTGACAGAGAATGTTTTATGAAGACGTGGTGAAATTGATTAATTATTTAGTGGTTTGTCA
*
51195159 TATTATCATGTTTGCTTTTTACTATGTTAGGAATTTGTTTCTTAC
131 TATTATCATGTTTGCTTTTTACTATGTTAGGAATTTGTTTCCTAC
51195204 CCACTTGGTGGTTGGCGACGTTTTCTTTTTGAACATTTGTCCTCGAAGCGATTGGTATGCCGACA
1 CCACTTGGTGGTTGGCGACGTTTTCTTTTTGAACATTTGTCCTCGAAGCGATTGGTATGCCGACA
* * * * *
51195269 TTTTATTGACAGAGAAAGTTTTATGAAGATGTGGTGAAACTGATTAATTATTCAGTGGTCTGTC-
66 TTTTATTGACAGAGAATGTTTTATGAAGACGTGGTGAAATTGATTAATTATTTAGTGGTTTGTCA
*
51195333 -ATTATCATGTTTGCTTTTTACTATGTTAGGAATTTGTTTCCTGC
131 TATTATCATGTTTGCTTTTTACTATGTTAGGAATTTGTTTCCTAC
* * * * * * * * *
51195377 CCTCTTGGTGGTTGGCGAAGTTTTCTTTTTGAACATCTGTTCGCGAAGTGATTGGTATGTCTATA
1 CCACTTGGTGGTTGGCGACGTTTTCTTTTTGAACATTTGTCCTCGAAGCGATTGGTATGCCGACA
*
51195442 TTTTATTGACAGAGAATGTTTTATGATGACGTGGTGAAATTGATTAATTATTTAGTGGTTTGTCA
66 TTTTATTGACAGAGAATGTTTTATGAAGACGTGGTGAAATTGATTAATTATTTAGTGGTTTGTCA
51195507 TATTATCATGTTTGCTTTTTACTATGTTAGGAATTTGTTTCCTAC
131 TATTATCATGTTTGCTTTTTACTATGTTAGGAATTTGTTTCCTAC
* * * * *
51195552 CCACTTGGCGATTGGCGACGTTTTCTTTTTGAACATTTGTTCGT-GAAGTGATTGGTATGCCAAC
1 CCACTTGGTGGTTGGCGACGTTTTCTTTTTGAACATTTG-TCCTCGAAGCGATTGGTATGCCGAC
* * * * * * *
51195616 ATTTTATTAACAGAGCATGTTTTTTGAAAACGTGGTGAAATTGATTAATT-TTTCAATGGCTCGT
65 ATTTTATTGACAGAGAATGTTTTATGAAGACGTGGTGAAATTGATTAATTATTT-AGTGGTTTGT
* * * * *
51195680 TATATTATAATGTTTGCTTCTTACTATGTTAGGAATTTTTTTTCCTGC
129 CATATTATCATGTTTGCTTTTTACTATGTTAGGAA-TTTGTTTCCTAC
51195728 CCACTTGGTGGTTG
1 CCACTTGGTGGTTG
51195742 ACAATGTTCG
Statistics
Matches: 474, Mismatches: 59, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
173 156 0.33
174 3 0.01
175 292 0.62
176 23 0.05
ACGTcount: A:0.22, C:0.13, G:0.22, T:0.44
Consensus pattern (175 bp):
CCACTTGGTGGTTGGCGACGTTTTCTTTTTGAACATTTGTCCTCGAAGCGATTGGTATGCCGACA
TTTTATTGACAGAGAATGTTTTATGAAGACGTGGTGAAATTGATTAATTATTTAGTGGTTTGTCA
TATTATCATGTTTGCTTTTTACTATGTTAGGAATTTGTTTCCTAC
Found at i:51196019 original size:25 final size:24
Alignment explanation
Indices: 51195991--51196046 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
51195981 ACATAAACTC
* *
51195991 TAAATCTGAAACCTAAAGCTCTATA
1 TAAATCT-AAACCTAAAACTCAATA
* *
51196016 TAAACCCTAAATCTAAAACTCAATA
1 TAAA-TCTAAACCTAAAACTCAATA
51196041 TAAATC
1 TAAATC
51196047 CTAACTCAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
24 1 0.04
25 22 0.88
26 2 0.08
ACGTcount: A:0.48, C:0.21, G:0.04, T:0.27
Consensus pattern (24 bp):
TAAATCTAAACCTAAAACTCAATA
Found at i:51196049 original size:25 final size:25
Alignment explanation
Indices: 51196003--51196060 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
51195993 AATCTGAAAC
* *
51196003 CTAAAGCTCTATATAAACCCTAAAT
1 CTAAAACTCAATATAAACCCTAAAT
* *
51196028 CTAAAACTCAATATAAATCCTAACT
1 CTAAAACTCAATATAAACCCTAAAT
51196053 C-AAAACTC
1 CTAAAACTC
51196061 GAGAAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 7 0.24
25 22 0.76
ACGTcount: A:0.47, C:0.26, G:0.02, T:0.26
Consensus pattern (25 bp):
CTAAAACTCAATATAAACCCTAAAT
Found at i:51199051 original size:31 final size:31
Alignment explanation
Indices: 51198990--51199057 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
51198980 GCCATAAGTG
* * *
51198990 CCAAATTAAACATTAAAATAAAATTTAGGTA
1 CCAAATTAAACATTAAAACAAAACTCAGGTA
* *
51199021 CCAAATTAAATATTAAAACCAAACTCAGGTA
1 CCAAATTAAACATTAAAACAAAACTCAGGTA
*
51199052 TCAAAT
1 CCAAAT
51199058 AGTATATTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.53, C:0.15, G:0.06, T:0.26
Consensus pattern (31 bp):
CCAAATTAAACATTAAAACAAAACTCAGGTA
Done.