Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 166 of 344
Found at i:55424633 original size:46 final size:45
Alignment explanation
Indices: 55424534--55424637 Score: 113
Period size: 46 Copynumber: 2.3 Consensus size: 45
55424524 TTATAAGAAA
*
55424534 TTCTAATTTTTATTAAATTTAATTTTTTAAATTTTTTATTAAAATT
1 TTCTAATTTTTATAAAATTTAATTTTTT-AATTTTTTATTAAAATT
** * *
55424580 TAATAATTTTTATAAAATTTTTTATTTTTT-ATTTTTTA-TAAATTTT
1 TTCTAATTTTTATAAAA--TTTAATTTTTTAATTTTTTATTAAA-ATT
55424626 TTCTAATTTTTA
1 TTCTAATTTTTA
55424638 ATAAGAGTAG
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
45 4 0.08
46 34 0.71
48 10 0.21
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (45 bp):
TTCTAATTTTTATAAAATTTAATTTTTTAATTTTTTATTAAAATT
Found at i:55427575 original size:12 final size:12
Alignment explanation
Indices: 55427558--55427585 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
55427548 TGTTTAATTA
55427558 TATTAGGATAAT
1 TATTAGGATAAT
55427570 TATTAGGATAAT
1 TATTAGGATAAT
55427582 TATT
1 TATT
55427586 TAGATTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.46
Consensus pattern (12 bp):
TATTAGGATAAT
Found at i:55427617 original size:10 final size:10
Alignment explanation
Indices: 55427602--55427661 Score: 77
Period size: 10 Copynumber: 6.0 Consensus size: 10
55427592 TAAATTTAAA
*
55427602 ATTTATTTTT
1 ATTTATCTTT
55427612 ATTTATCTTT
1 ATTTATCTTT
*
55427622 AATTATCTTT
1 ATTTATCTTT
*
55427632 AATTATCTTT
1 ATTTATCTTT
55427642 ATTTAT-TTGT
1 ATTTATCTT-T
55427652 ATTTATCTTT
1 ATTTATCTTT
55427662 GAGAATTTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
9 2 0.04
10 41 0.91
11 2 0.04
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:55428698 original size:20 final size:20
Alignment explanation
Indices: 55428642--55428696 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
55428632 TGTATTTGAT
55428642 ATTAAAT-ATATATTTATTA
1 ATTAAATAATATATTTATTA
*
55428661 TTTATAA-AATATATTTATTA
1 ATTA-AATAATATATTTATTA
55428681 ATTAAATAATTATATT
1 ATTAAATAA-TATATT
55428697 ATATGATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 5 0.17
20 19 0.63
21 6 0.20
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTAAATAATATATTTATTA
Found at i:55428903 original size:16 final size:17
Alignment explanation
Indices: 55428848--55428903 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
55428838 AGTGAAAAAA
* * *
55428848 AAGGAATGAAATAAAAG
1 AAGGAACGAAACAGAAG
* * *
55428865 AAAGAAAGAAACAGAAT
1 AAGGAACGAAACAGAAG
55428882 AAGGAACGAAACAG-AG
1 AAGGAACGAAACAGAAG
55428898 AAGGAA
1 AAGGAA
55428904 GGAAGGAAAG
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
16 7 0.23
17 24 0.77
ACGTcount: A:0.64, C:0.05, G:0.25, T:0.05
Consensus pattern (17 bp):
AAGGAACGAAACAGAAG
Found at i:55429777 original size:15 final size:16
Alignment explanation
Indices: 55429757--55429787 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
55429747 TAATGTAAAG
55429757 TGAATTG-AAATATAT
1 TGAATTGAAAATATAT
55429772 TGAATTGAAAATATAT
1 TGAATTGAAAATATAT
55429788 ATGATTAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.39
Consensus pattern (16 bp):
TGAATTGAAAATATAT
Found at i:55436436 original size:44 final size:44
Alignment explanation
Indices: 55436370--55436808 Score: 599
Period size: 44 Copynumber: 10.0 Consensus size: 44
55436360 GAAATTCGTC
* * * * *
55436370 ATCTTCGATTTGCTCTCTGTCAACACAGAGATTCCAAATCTGCT
1 ATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCT
*
55436414 ATCTTCGATCTGCTCTCCGTCAATACAGAGATGCCAAATCTGCT
1 ATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCT
** * * *
55436458 ATCTTTTATTTGCTCTCCGCCAATATAGAGATGCTAAATCTGCT
1 ATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCT
** *
55436502 ATCTTTAATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCG
1 ATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCT
*
55436546 ATCTTCGATCTGCTCTTCGCCAATACAGAGATGCCAAATCTGCT
1 ATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCT
* * * *
55436590 ATCTTTGATTTGCTCTCCGCCAATACAGAGACGCCAAATCTGCG
1 ATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCT
** *
55436634 ATCTTCGATCTGCTCTTTGCCAATACAGAGATACCAAATCTGCT
1 ATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCT
* * **
55436678 ATCTTTGATTTGCTCTCCGCCAATACAGAGACACCAAATCTGCT
1 ATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCT
* **
55436722 ATCTTCAATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGAG
1 ATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCT
**
55436766 ATCTTCGATCTGCTCTCTTCCAATACAGAGATGCCAAATCTGC
1 ATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGC
55436809 GGGATTTACC
Statistics
Matches: 348, Mismatches: 47, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 348 1.00
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.30
Consensus pattern (44 bp):
ATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCT
Found at i:55458761 original size:42 final size:42
Alignment explanation
Indices: 55458702--55458824 Score: 140
Period size: 42 Copynumber: 2.9 Consensus size: 42
55458692 ACTAGGGTTA
* * *
55458702 ATGAGACTTCGTGTAAGACCATATCTGGGATATGGCATCGAT
1 ATGAGACTTCATGTAAGACCATATCTGGGATATGGCATCAAC
* * *
55458744 ATGAGACTTCATATAAGACCATAGCTGGGCTATTGGCATCAAC
1 ATGAGACTTCATGTAAGACCATATCTGGGATA-TGGCATCAAC
* * *
55458787 ACGAGA-TTGCATGTAAAACCATATCTGGAATATGGCAT
1 ATGAGACTT-CATGTAAGACCATATCTGGGATATGGCAT
55458825 TGGTATGGTA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 36 0.54
43 31 0.46
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.27
Consensus pattern (42 bp):
ATGAGACTTCATGTAAGACCATATCTGGGATATGGCATCAAC
Found at i:55463843 original size:22 final size:23
Alignment explanation
Indices: 55463804--55463856 Score: 83
Period size: 22 Copynumber: 2.4 Consensus size: 23
55463794 ATTTTCATCC
55463804 CTTAA-TTTTCACGATATTTTCT
1 CTTAACTTTTCACGATATTTTCT
*
55463826 CTTAACTTTT-ACGTTATTTTCT
1 CTTAACTTTTCACGATATTTTCT
55463848 CTTAACTTT
1 CTTAACTTT
55463857 CACATTTTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 25 0.86
23 4 0.14
ACGTcount: A:0.21, C:0.19, G:0.04, T:0.57
Consensus pattern (23 bp):
CTTAACTTTTCACGATATTTTCT
Found at i:55468796 original size:17 final size:18
Alignment explanation
Indices: 55468774--55468807 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
55468764 CTAACGTTTA
55468774 AATAATCAAATT-AATTT
1 AATAATCAAATTCAATTT
*
55468791 AATAATTAAATTCAATT
1 AATAATCAAATTCAATT
55468808 GGAGAAACTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (18 bp):
AATAATCAAATTCAATTT
Found at i:55471099 original size:17 final size:18
Alignment explanation
Indices: 55471051--55471101 Score: 50
Period size: 21 Copynumber: 2.7 Consensus size: 18
55471041 GAATAATTAC
*
55471051 AAAATAGAATTAAATCAAT
1 AAAATAGAAATAAATC-AT
*
55471070 ACAAAGTATAAATAAATC-T
1 A-AAA-TAGAAATAAATCAT
55471089 AAAATAGAAATAA
1 AAAATAGAAATAA
55471102 TTCAAGCTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
17 8 0.30
18 3 0.11
19 3 0.11
20 3 0.11
21 10 0.37
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (18 bp):
AAAATAGAAATAAATCAT
Found at i:55472221 original size:137 final size:137
Alignment explanation
Indices: 55471975--55472259 Score: 498
Period size: 137 Copynumber: 2.1 Consensus size: 137
55471965 ATTGGGCCTT
**
55471975 AGCCCATTCAGGTAACAGTGGTACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTAGGCCTTA
1 AGCCCATTTGGGTAACAGTGGTACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTAGGCCTTA
55472040 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
66 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
55472105 ATATGCA
131 ATATGCA
* *
55472112 AGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTA
1 AGCCCATTTGGGTAACAGTGGTACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTAGGCCTTA
* * **
55472177 GCCCTTTATTCAGATAGCAGTATGGCCCATAGGCCCATTTCAAAATACATTTAACATCAGTAAAC
66 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
55472242 ATATGCA
131 ATATGCA
55472249 AGCCCATTTGG
1 AGCCCATTTGG
55472260 AGAGACTACT
Statistics
Matches: 140, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
137 140 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (137 bp):
AGCCCATTTGGGTAACAGTGGTACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTAGGCCTTA
GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
ATATGCA
Found at i:55474078 original size:26 final size:26
Alignment explanation
Indices: 55474047--55474154 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
55474037 TGAAATGCCC
55474047 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
55474073 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
55474099 ATCATGGAATATTTACCTAATA-CATT
1 ATCATGGAACATTTACCTAA-ACCATT
*
55474125 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
55474151 ATCA
1 ATCA
55474155 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:55474125 original size:52 final size:52
Alignment explanation
Indices: 55474047--55474154 Score: 191
Period size: 52 Copynumber: 2.1 Consensus size: 52
55474037 TGAAATGCCC
55474047 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
*
55474099 ATCATGGAATATTTACCTAATA-CATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAA-ACCATTATCATGGAACATTTACCTAACCCATT
55474151 ATCA
1 ATCA
55474155 ATTTGTACCA
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
52 53 0.98
53 1 0.02
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:55479178 original size:39 final size:40
Alignment explanation
Indices: 55479078--55479302 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
55479068 TTGAATGATG
* * * *
55479078 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
55479118 TCCGGATTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
55479158 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
55479197 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACAAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
55479237 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
55479278 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
55479303 AACGAGGAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 34 0.21
40 117 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:55479324 original size:119 final size:119
Alignment explanation
Indices: 55479078--55479335 Score: 292
Period size: 119 Copynumber: 2.2 Consensus size: 119
55479068 TTGAATGATG
* * *
55479078 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGATTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACAAAATCCGGATTAAGATCCGAAGGCATTT
* ** *
55479143 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * *
55479197 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACAAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACAAAATCCGGATTAAGAT-CCGAAGGCAT
* * * *
55479260 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAA
* *
55479317 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
55479336 TACGTGATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 84 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACAAAATCCGGATTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:55482383 original size:64 final size:64
Alignment explanation
Indices: 55482310--55482520 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
55482300 CTGGGCCAGA
*
55482310 GCCCTTTTCAGATTACAATAAACTAGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTAGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * ** * ** *
55482374 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT-AAAC-T-AG--GCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
55482436 ACTGGGCCAGA-
54 A-TGGCCCATAG
* *
55482447 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTAGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
55482511 GCCCATTTCA
1 GCCCATTTCA
55482521 AAATACATGC
Statistics
Matches: 104, Mismatches: 26, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 28 0.27
65 4 0.04
66 2 0.02
67 9 0.09
68 5 0.05
69 5 0.05
70 9 0.09
71 1 0.01
72 4 0.04
73 19 0.18
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTAGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:55482522 original size:137 final size:137
Alignment explanation
Indices: 55482276--55482562 Score: 547
Period size: 137 Copynumber: 2.1 Consensus size: 137
55482266 CATTGGGCCT
**
55482276 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTAGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTAGGCCTT
55482341 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
55482406 CATATGC
131 CATATGC
*
55482413 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTAGGCCTT
55482478 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
55482543 CATATGC
131 CATATGC
55482550 AAGCCCATTTGGG
1 AAGCCCATTTGGG
55482563 GAGACTACTC
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 147 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTAGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:55484380 original size:26 final size:26
Alignment explanation
Indices: 55484349--55484456 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
55484339 TGAAATGCCC
55484349 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
55484375 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
55484401 ATCATGGAATATTTACCTAATA-CATT
1 ATCATGGAACATTTACCTAA-ACCATT
*
55484427 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
55484453 ATCA
1 ATCA
55484457 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:55484427 original size:52 final size:52
Alignment explanation
Indices: 55484349--55484456 Score: 191
Period size: 52 Copynumber: 2.1 Consensus size: 52
55484339 TGAAATGCCC
55484349 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
*
55484401 ATCATGGAATATTTACCTAATA-CATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAA-ACCATTATCATGGAACATTTACCTAACCCATT
55484453 ATCA
1 ATCA
55484457 ATTTGTACCA
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
52 53 0.98
53 1 0.02
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:55487268 original size:30 final size:30
Alignment explanation
Indices: 55487200--55487275 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 30
55487190 TAACTTACCA
* *
55487200 CCTTTAAAATTTTTAAAATTGTACTTTAAT
1 CCTTTAAAATTTATAAAATTGTAATTTAAT
**
55487230 CCCCTAAAATTTATAATAATT-TAATTTAAT
1 CCTTTAAAATTTATAA-AATTGTAATTTAAT
*
55487260 CTTTTAAAA-TTATAAA
1 CCTTTAAAATTTATAAA
55487276 GATGACTACT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
28 1 0.03
29 6 0.16
30 27 0.71
31 4 0.11
ACGTcount: A:0.42, C:0.11, G:0.01, T:0.46
Consensus pattern (30 bp):
CCTTTAAAATTTATAAAATTGTAATTTAAT
Found at i:55488689 original size:18 final size:20
Alignment explanation
Indices: 55488663--55488713 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 20
55488653 ATATATAAAA
55488663 TTTGAAATTTTTATAAA-TAT
1 TTTG-AATTTTTATAAATTAT
*
55488683 TTT-AA-TTTTAAAAATTAT
1 TTTGAATTTTTATAAATTAT
55488701 TTTGAATTTTTAT
1 TTTGAATTTTTAT
55488714 TTTATTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 8 0.31
18 8 0.31
19 2 0.08
20 8 0.31
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (20 bp):
TTTGAATTTTTATAAATTAT
Found at i:55503245 original size:27 final size:27
Alignment explanation
Indices: 55503214--55503391 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
55503204 TAAATTGTAC
55503214 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
55503241 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
55503267 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
55503295 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
55503323 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
55503350 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
55503377 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
55503392 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:55503328 original size:82 final size:81
Alignment explanation
Indices: 55503215--55503370 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
55503205 AAATTGTACA
* *
55503215 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
55503279 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
55503296 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
55503361 TGCGAGTTGA
65 TGCGAATTGA
55503371 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:55503382 original size:82 final size:81
Alignment explanation
Indices: 55503211--55503391 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
55503201 GATTAAATTG
* *
55503211 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
55503276 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
55503292 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
55503356 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
55503374 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
55503392 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:55503867 original size:10 final size:10
Alignment explanation
Indices: 55503844--55503903 Score: 57
Period size: 10 Copynumber: 5.9 Consensus size: 10
55503834 ATTTTAGGAT
* *
55503844 TTATTTTCAT
1 TTATTTTTAA
55503854 TTATTTTTAA
1 TTATTTTTAA
*
55503864 TTATCTTTAA
1 TTATTTTTAA
*
55503874 TTATCTTTAA
1 TTATTTTTAA
* *
55503884 TTATTTGTAT
1 TTATTTTTAA
55503894 TTATCTTTTA
1 TTAT-TTTTA
55503904 GAATTTAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
10 38 0.90
11 4 0.10
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.67
Consensus pattern (10 bp):
TTATTTTTAA
Found at i:55503877 original size:20 final size:20
Alignment explanation
Indices: 55503844--55503901 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
55503834 ATTTTAGGAT
* *
55503844 TTATTTTCATTTATTTTTAA
1 TTATTTTTATTTATCTTTAA
* *
55503864 TTATCTTTAATTATCTTTAA
1 TTATTTTTATTTATCTTTAA
*
55503884 TTATTTGTATTTATCTTT
1 TTATTTTTATTTATCTTT
55503902 TAGAATTTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (20 bp):
TTATTTTTATTTATCTTTAA
Found at i:55504360 original size:18 final size:18
Alignment explanation
Indices: 55504337--55504376 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
55504327 GTCCAAGAGA
55504337 GTTAAATAACTCACAAAT
1 GTTAAATAACTCACAAAT
55504355 GTTAAATAACTCACAAAT
1 GTTAAATAACTCACAAAT
55504373 GTTA
1 GTTA
55504377 TAAATATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.30
Consensus pattern (18 bp):
GTTAAATAACTCACAAAT
Found at i:55505154 original size:52 final size:51
Alignment explanation
Indices: 55505097--55505228 Score: 185
Period size: 50 Copynumber: 2.6 Consensus size: 51
55505087 ATGAACAAAT
*
55505097 GAGTTACTTAATGCATGACTTAATTTAATGATGCAAACTTTAACTAACATGG
1 GAGTTACATAATGCATGACTTAATTTAATGATGCAAAC-TTAACTAACATGG
* * * *
55505149 GAGTTACATAATGCATGTCATAATTT-ATGATGCAAACTTAATTTACATGG
1 GAGTTACATAATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGG
* *
55505199 GAGTTACATAATGCATGACTTTATTAAATG
1 GAGTTACATAATGCATGACTTAATTTAATG
55505229 CAAAACACAT
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
50 33 0.47
51 14 0.20
52 23 0.33
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (51 bp):
GAGTTACATAATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGG
Found at i:55509129 original size:39 final size:40
Alignment explanation
Indices: 55508925--55509147 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
55508915 TTGAATGCTG
* * * * * *
55508925 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
55508965 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
55509005 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
55509045 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
55509085 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
55509124 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
55509148 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:55509167 original size:79 final size:80
Alignment explanation
Indices: 55509000--55509182 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
55508990 GTGCGAGATA
* * *
55509000 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
55509065 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
55509080 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
55509144 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
55509159 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
55509183 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:55527069 original size:46 final size:45
Alignment explanation
Indices: 55526861--55527174 Score: 202
Period size: 46 Copynumber: 6.6 Consensus size: 45
55526851 GGCAAGTTAT
* *
55526861 CGATGCCATGTCCCAGACATGGTTTTACACTGGCTATCATCACCGAGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCGTCA-CGAGGC
* * * * * *
55526910 TGATGTCATGTCCCAAACATGGTCTTACACTAGCTCTC-ACATATCCATGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCGTC--A-CGAGGC
* * * * ***
55526960 CGATGCCATGTCCCAGACACGGTCTTACACTGAC-ACATTTTGTA-GC
1 CGATG-CATGTCCCAGACA-TGTCTTACACTGGCTTCGTCACG-AGGC
*
55527006 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCCCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTT-CGTCACGAGGC
* * * * * * *
55527052 CAATGCATGTCCTAGACATGTCTTACACTAGCACTCGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC-TTCGTCACGAGGC
* * * *
55527098 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCGTCACGAGGC
55527146 CGATGCATGTCCCAGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
55527175 AGCCCACAAT
Statistics
Matches: 206, Mismatches: 47, Indels: 27
0.74 0.17 0.10
Matches are distributed among these distances:
44 12 0.06
45 14 0.07
46 63 0.31
47 29 0.14
48 24 0.12
49 32 0.16
50 32 0.16
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTTCGTCACGAGGC
Found at i:55527123 original size:94 final size:92
Alignment explanation
Indices: 55527004--55527177 Score: 251
Period size: 94 Copynumber: 1.9 Consensus size: 92
55526994 ACATTTTGTA
* ** *
55527004 GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-TACGTCCCGAGGCCAATGCATGTCCTAGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATAACGAGGCCAATGCATGTCCCAGA
55527068 CATGTCTTACACTAGCACTCGTCTCAAT
65 CATGTCTTACACTAGCACTCGTCTCAAT
* * *
55527096 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAACGAGGCCAATGCATGTCCCAG
55527161 ACATGTCTTACACTAGC
64 ACATGTCTTACACTAGC
55527178 CCACAATAAC
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
92 7 0.10
93 14 0.19
94 50 0.69
95 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAACGAGGCCAATGCATGTCCCAGAC
ATGTCTTACACTAGCACTCGTCTCAAT
Found at i:55527165 original size:140 final size:142
Alignment explanation
Indices: 55526861--55527174 Score: 395
Period size: 140 Copynumber: 2.2 Consensus size: 142
55526851 GGCAAGTTAT
* **
55526861 CGATGCCATGTCCCAGACATGGTTTTACACTGGCTATCATCACCGAGGCTGATGTCATGTCCCAA
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCACCGAGGCCAATGTCATGTCCCAA
* *
55526926 ACATGGTCTTACACTAGCTCTCACATATCCATGCCGATGCCATGTCCCAGACACGGTCTTACACT
64 ACATGGTCTTACACTAGCACT-ACATATCAATGCCGATGCCATGTCCCAGACACGGTCTTACACT
**
55526991 GACACATTTTGTAGC
128 GACACATAATGTAGC
* * *
55527006 CGATGCATGTCCCAGACATGTCTTACACTGGCT-TACGTC-CCGAGGCCAATG-CATGTCCTAGA
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTAT-CATCACCGAGGCCAATGTCATGTCCCAAA
* * *
55527068 CAT-GTCTTACACTAGCACT-CGTCTCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGG
65 CATGGTCTTACACTAGCACTACATATCAATGCCGATGCCATGTCCCAGACACGGTCTTACACT-G
* * *
55527131 CTCTCATAATGTGGC
129 -ACACATAATGTAGC
55527146 CGATGCATGTCCCAGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
55527175 AGCCCACAAT
Statistics
Matches: 150, Mismatches: 16, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
138 38 0.25
139 1 0.01
140 53 0.35
141 12 0.08
142 11 0.07
143 16 0.11
144 14 0.09
145 5 0.03
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (142 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCACCGAGGCCAATGTCATGTCCCAAAC
ATGGTCTTACACTAGCACTACATATCAATGCCGATGCCATGTCCCAGACACGGTCTTACACTGAC
ACATAATGTAGC
Found at i:55528121 original size:46 final size:45
Alignment explanation
Indices: 55528008--55528129 Score: 124
Period size: 46 Copynumber: 2.7 Consensus size: 45
55527998 CCTGAGGCTA
* **
55528008 ATGCATGTCCTAGACATGTCTTACACTAGCACTCATCTTAGTGCG
1 ATGCATGTCCTAGACAAGTCTTACACTAGCACTCATAATAGTGCG
* * *
55528053 ATGCCATGTCCCA-A-AATGGTCTTACACTGGCTCTCATAAT-GTGTCTG
1 ATG-CATGTCCTAGACAA--GTCTTACACTAGCACTCATAATAGTG-C-G
55528100 ATGCATGTCCTAGACAAGTCTTACACTAGC
1 ATGCATGTCCTAGACAAGTCTTACACTAGC
55528130 CCACAATAGC
Statistics
Matches: 62, Mismatches: 8, Indels: 13
0.75 0.10 0.16
Matches are distributed among these distances:
44 1 0.02
45 7 0.11
46 47 0.76
47 5 0.08
48 2 0.03
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (45 bp):
ATGCATGTCCTAGACAAGTCTTACACTAGCACTCATAATAGTGCG
Found at i:55535458 original size:50 final size:49
Alignment explanation
Indices: 55535336--55535655 Score: 165
Period size: 46 Copynumber: 6.8 Consensus size: 49
55535326 CGGGACAAGT
* *
55535336 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCACCGA
1 TGCCGATGCCATGTCCCAGACATGGTCTTAAACTAGCTATCATCACCGA
* ** * * *
55535385 AGATGATGCCATGTCCGAAACATGGTCTTAAACTAGCTCTCA-CATATCC-A
1 TGCCGATGCCATGTCCCAGACATGGTCTTAAACTAGCTATCATC--A-CCGA
* * ***
55535435 TGCCGATTCCATGTCCCAGACATGGTCTTACACT-GAC-A-CAT-TTTG-
1 TGCCGATGCCATGTCCCAGACATGGTCTTAAACTAG-CTATCATCACCGA
* * *
55535480 TAGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACGTC-CCGA
1 T-GCCGATGCCATGTCCCAGACATGGTCTTAAACTAGCTAT-CATCACCGA
* * * * * *
55535527 GGCCGATG-CATGTCCTAGACAT-GTCTTACACTAGC-ACTCGTC-TCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTAAACTAGCTA-TCATCACCGA
* * * * **
55535573 TGCCGATACCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-AATG-
1 TGCCGATGCCATGTCCCAGACATGGTCTTAAACTAGCTATCATCACCGA
* *
55535620 TGGCCGAT-ACATGTCCCAGACAT-GTCTTACACTAGC
1 T-GCCGATGCCATGTCCCAGACATGGTCTTAAACTAGC
55535656 CCACAATAAC
Statistics
Matches: 212, Mismatches: 39, Indels: 43
0.72 0.13 0.15
Matches are distributed among these distances:
44 11 0.05
45 16 0.08
46 65 0.31
47 29 0.14
48 24 0.11
49 35 0.17
50 30 0.14
51 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (49 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTAAACTAGCTATCATCACCGA
Found at i:55535547 original size:46 final size:45
Alignment explanation
Indices: 55535482--55535652 Score: 180
Period size: 46 Copynumber: 3.7 Consensus size: 45
55535472 ACATTTTGTA
*
55535482 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCCCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTT-CGTCACGAG
* * * * * *
55535528 GCCGATGCATGTCCTAGACATGTCTTACACTAGCACTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-TTCGTCACGAG
* * * * *
55535574 GCCGATACCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
1 GCCGAT-GCATGTCCCAGACAT-GTCTTACACTGGCT-TCGTCACGAG
*
55535622 GCCGATACATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
55535653 AGCCCACAAT
Statistics
Matches: 103, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
46 54 0.52
47 28 0.27
48 21 0.20
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTCGTCACGAG
Found at i:55535645 original size:140 final size:142
Alignment explanation
Indices: 55535345--55535652 Score: 374
Period size: 140 Copynumber: 2.2 Consensus size: 142
55535335 TTGCCGATGC
*
55535345 CATGTCCCAGACATGGTCTTACACTGGCTATCATCACCGAAGATGATGCCATGTCCGAAACATGG
1 CATGTCCCAGACAT-GTCTTACACTGGCTATCATCACCGAAGACGATGCCATGTCCGAAACATGG
* * *
55535410 TCTTAAACTAGCTCTCACATATCCATGCCGATTCCATGTCCCAGACATGGTCTTACACTGACACA
65 TCTTAAACTAGCACT-ACATATCAATGCCGATACCATGTCCCAGACATGGTCTTACACTGACACA
** *
55535475 TTTTGTAGCCGATG
129 TAATGTAGCCGATA
* * * * *
55535489 CATGTCCCAGACATGTCTTACACTGGCT-TACGTC-CCGAGGCCGATG-CATGTCCTAGACAT-G
1 CATGTCCCAGACATGTCTTACACTGGCTAT-CATCACCGAAGACGATGCCATGTCCGAAACATGG
* * * * *
55535550 TCTTACACTAGCACT-CGTCTCAATGCCGATACCATGTCCCAGACATGGTCTTACACTGGCTCTC
65 TCTTAAACTAGCACTACATATCAATGCCGATACCATGTCCCAGACATGGTCTTACACT-G-ACAC
*
55535614 ATAATGTGGCCGATA
128 ATAATGTAGCCGATA
55535629 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
55535653 AGCCCACAAT
Statistics
Matches: 143, Mismatches: 18, Indels: 10
0.84 0.11 0.06
Matches are distributed among these distances:
138 38 0.27
139 1 0.01
140 51 0.36
141 12 0.08
142 10 0.07
143 17 0.12
144 14 0.10
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (142 bp):
CATGTCCCAGACATGTCTTACACTGGCTATCATCACCGAAGACGATGCCATGTCCGAAACATGGT
CTTAAACTAGCACTACATATCAATGCCGATACCATGTCCCAGACATGGTCTTACACTGACACATA
ATGTAGCCGATA
Found at i:55537561 original size:46 final size:46
Alignment explanation
Indices: 55537478--55537594 Score: 121
Period size: 46 Copynumber: 2.5 Consensus size: 46
55537468 AAGTAAAAGC
*
55537478 CATGTCCCAGACATGGTCTTACATTGACTACCATCTCGTA-GCCAACG
1 CATGTCCCAGACAT-GTCTTACACTGACTACCATCTCG-AGGCCAACG
* ** * * *
55537525 CATGTCCCAGACATGTCTTACACTGGCTTA-TGTCTCGAGGTCGATG
1 CATGTCCCAGACATGTCTTACACTGAC-TACCATCTCGAGGCCAACG
*
55537571 CATGTCCCAGACACGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
55537595 AGCACTCATC
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
45 1 0.02
46 43 0.72
47 16 0.27
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGACTACCATCTCGAGGCCAACG
Found at i:55547026 original size:47 final size:47
Alignment explanation
Indices: 55546973--55547096 Score: 221
Period size: 47 Copynumber: 2.6 Consensus size: 47
55546963 CGCCCATAAG
* *
55546973 CGAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTACATCTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
55547020 CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
*
55547067 CGAACTCGAACTCAACTCAACGAGTTCGGA
1 CGAACTCGGACTCAACTCAACGAGTTCGGA
55547097 CGTTCGCATG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.21
Consensus pattern (47 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:55548929 original size:47 final size:46
Alignment explanation
Indices: 55548860--55549173 Score: 189
Period size: 47 Copynumber: 6.7 Consensus size: 46
55548850 GGGGTATGGT
* * *
55548860 GTCGATGCCATGTCCCAGACATGGTCTTACAATAGCTCCTATCTCCA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCATATCTCAA
**
55548907 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTTGTA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTG-CTCAT-ATC-TCAA
* * * *
55548955 GCCGATG-CATGTCCTAGACAT-GTCTTACACTGGATCATATATCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCATATCTCAA
* * * *
55549000 GTCGATTCCATGTCCCAAACATGGTCTTACACTGACT-ATCATTTCGTA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTG-CTCAT-ATCTC-AA
* * * * * ** *
55549048 GCCAATG-CATGTCCCAGACAT-GTTTTACACCAGCTTACGTCTCGA
1 GTCGATGCCATGTCCCAGACATGGTCTTACA-CTGCTCATATCTCAA
* * * * *
55549093 GACCGATG-CATGTCCCAAACAT-GTCTTACACTAGCAC-TCCTCTCGA
1 G-TCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCAT-ATCTCAA
*
55549139 -TGCTGATGCAATGTCCCAGACATGGTCTTACACTG
1 GT-C-GATGCCATGTCCCAGACATGGTCTTACACTG
55549174 ACTCTCGTAA
Statistics
Matches: 210, Mismatches: 38, Indels: 38
0.73 0.13 0.13
Matches are distributed among these distances:
45 11 0.05
46 79 0.38
47 97 0.46
48 23 0.11
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGCTCATATCTCAA
Found at i:55549028 original size:93 final size:93
Alignment explanation
Indices: 55548862--55549172 Score: 301
Period size: 93 Copynumber: 3.3 Consensus size: 93
55548852 GGTATGGTGT
* * * * * *
55548862 CGATGCCATGTCCCAGACATGGTCTTACAATAGCTCCTATCTCCAGTCGATGCCATGTCCCAGAC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGATCATATATCAAGTCGATGCCATGTCCCAAAC
55548927 ATGGTCTTACACTGACTATCATCTT-GTAGC
64 ATGGTCTTACACTGACTATCAT-TTCGTAGC
* * *
55548957 CGATGCATGTCCTAGACATGTCTTACACTGGATCATATATCAAGTCGATTCCATGTCCCAAACAT
1 CGATGCATGTCCCAGACATGTCTTACACTAGATCATATATCAAGTCGATGCCATGTCCCAAACAT
55549022 GGTCTTACACTGACTATCATTTCGTAGC
66 GGTCTTACACTGACTATCATTTCGTAGC
* * * * * ** * * *
55549050 CAATGCATGTCCCAGACATGTTTTACACCAGCTTACGTCTCGAGACCGATG-CATGTCCCAAACA
1 CGATGCATGTCCCAGACATGTCTTACACTAGATCATATATCAAG-TCGATGCCATGTCCCAAACA
* *
55549114 T-GTCTTACACT-AGC-ACTCCTCTCG-ATGC
65 TGGTCTTACACTGA-CTA-TCATTTCGTA-GC
*
55549142 TGATGCAATGTCCCAGACATGGTCTTACACT
1 CGATGC-ATGTCCCAGACAT-GTCTTACACT
55549173 GACTCTCGTA
Statistics
Matches: 181, Mismatches: 28, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
91 3 0.02
92 25 0.14
93 123 0.68
94 25 0.14
95 5 0.03
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (93 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGATCATATATCAAGTCGATGCCATGTCCCAAACAT
GGTCTTACACTGACTATCATTTCGTAGC
Found at i:55549104 original size:46 final size:46
Alignment explanation
Indices: 55549052--55549171 Score: 136
Period size: 46 Copynumber: 2.6 Consensus size: 46
55549042 TTCGTAGCCA
* * *
55549052 ATGCATGTCCCAGACATGTTTTACACCAGC-TTACGTCTCGA-GACCG
1 ATGCATGTCCCAGACATGTCTTACACCAGCACT-CCTCTCGATG-CCG
* * *
55549098 ATGCATGTCCCAAACATGTCTTACACTAGCACTCCTCTCGATGCTG
1 ATGCATGTCCCAGACATGTCTTACACCAGCACTCCTCTCGATGCCG
55549144 ATGCAATGTCCCAGACATGGTCTTACAC
1 ATGC-ATGTCCCAGACAT-GTCTTACAC
55549172 TGACTCTCGT
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
46 40 0.63
47 14 0.22
48 9 0.14
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (46 bp):
ATGCATGTCCCAGACATGTCTTACACCAGCACTCCTCTCGATGCCG
Found at i:55554745 original size:67 final size:67
Alignment explanation
Indices: 55554662--55554827 Score: 287
Period size: 67 Copynumber: 2.5 Consensus size: 67
55554652 ACCTAGTCAC
* * *
55554662 TTTATCTCATAGCTCTCTTGTTTACATGGTTTCCTTCACCCGGAACCACACATGCAACCTAGCTA
1 TTTATCTCGTAGCTCTCTTGTTTACATGGTGTCATTCACCCGGAACCACACATGCAACCTAGCTA
55554727 CA
66 CA
*
55554729 TTTATCTCGTAGCTCTCTTGTTTACATGGTGTCATTCACCTGGAACCACACATGCAACCTAGCTA
1 TTTATCTCGTAGCTCTCTTGTTTACATGGTGTCATTCACCCGGAACCACACATGCAACCTAGCTA
55554794 CA
66 CA
*
55554796 TTTATCTCGTAGCTCTCTTGTCTACATGGTGT
1 TTTATCTCGTAGCTCTCTTGTTTACATGGTGT
55554828 ACACATAGTA
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 94 1.00
ACGTcount: A:0.22, C:0.28, G:0.14, T:0.36
Consensus pattern (67 bp):
TTTATCTCGTAGCTCTCTTGTTTACATGGTGTCATTCACCCGGAACCACACATGCAACCTAGCTA
CA
Found at i:55554883 original size:68 final size:64
Alignment explanation
Indices: 55554610--55554898 Score: 228
Period size: 67 Copynumber: 4.4 Consensus size: 64
55554600 CATAATTTTG
* * * * ** *
55554610 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAG-T-CACTTTATCTCAT
1 GCTCTCTTGT-CTACATGGTGTACACATAGAACCACACATGCAACCTAGCTACA-TTTATCTCGT
55554672 A
64 A
* * * ***
55554673 GCTCTCTTGTTTACATGGTTTCCTTCACCCGGAACCACACATGCAACCTAGCTACATTTATCTCG
1 GCTCTCTTGTCTACATGG--T-GTACACATAGAACCACACATGCAACCTAGCTACATTTATCTCG
55554738 TA
63 TA
* * *
55554740 GCTCTCTTGTTTACATGGTGTCATTCACCTGGAACCACACATGCAACCTAGCTACATTTATCTCG
1 GCTCTCTTGTCTACATGGTGT-A--CACATAGAACCACACATGCAACCTAGCTACATTTATCTCG
55554805 TA
63 TA
* * * *
55554807 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTAC-TTCGTAATGTCT
1 GCTCTCTTGTCTACATGGTGTACACATAGAACCACACATGCAACCTAGCTACATT--T-A--TCT
55554871 CGTA
61 CGTA
*
55554875 GCTCTCTTGTAC-ACATGGTATACA
1 GCTCTCTTGT-CTACATGGTGTACA
55554899 TCCCGTATTA
Statistics
Matches: 188, Mismatches: 23, Indels: 25
0.80 0.10 0.11
Matches are distributed among these distances:
63 18 0.10
64 25 0.13
65 3 0.02
66 21 0.11
67 90 0.48
68 30 0.16
69 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.33
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACATAGAACCACACATGCAACCTAGCTACATTTATCTCGTA
Found at i:55554920 original size:68 final size:68
Alignment explanation
Indices: 55554800--55554926 Score: 159
Period size: 68 Copynumber: 1.9 Consensus size: 68
55554790 GCTACATTTA
* * *
55554800 TCTCGTAGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACTTCGTA
1 TCTCGTAGCTCTCTTGTCTACATGGTATACACACAGTATCACACATGCGACCTAGCTACTTCGTA
55554865 ATG
66 ATG
* * * *
55554868 TCTCGTAGCTCTCTTGTAC-ACATGGTATACATC-CCGTATTACACATGTGACCTATCTAC
1 TCTCGTAGCTCTCTTGT-CTACATGGTATACA-CACAGTATCACACATGCGACCTAGCTAC
55554927 ATACCATATG
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
68 48 0.96
69 2 0.04
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTATACACACAGTATCACACATGCGACCTAGCTACTTCGTA
ATG
Found at i:55557110 original size:38 final size:38
Alignment explanation
Indices: 55557059--55557134 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
55557049 TATTCCATCA
55557059 TTCTAAACTATTACACAACCTTTGAAAATCAGAATTTT
1 TTCTAAACTATTACACAACCTTTGAAAATCAGAATTTT
55557097 TTCTAAACTATTACACAACCTTTGAAAATCAGAATTTT
1 TTCTAAACTATTACACAACCTTTGAAAATCAGAATTTT
55557135 AACACTAAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.37
Consensus pattern (38 bp):
TTCTAAACTATTACACAACCTTTGAAAATCAGAATTTT
Found at i:55559997 original size:6 final size:6
Alignment explanation
Indices: 55559986--55560024 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
55559976 ATCTTGTGGC
55559986 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
55560025 GAGATGGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:55563372 original size:13 final size:13
Alignment explanation
Indices: 55563354--55563379 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55563344 GCTCGGCAAG
55563354 GACACGCCCGTGT
1 GACACGCCCGTGT
55563367 GACACGCCCGTGT
1 GACACGCCCGTGT
55563380 ACGATTACTC
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:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:55566461 original size:26 final size:26
Alignment explanation
Indices: 55566430--55566509 Score: 106
Period size: 26 Copynumber: 3.1 Consensus size: 26
55566420 ACACAGTTCT
* *
55566430 CACATTAAGATTGCATATCAAGCTCG
1 CACATTAGGCTTGCATATCAAGCTCG
* *
55566456 CTCATTAGGCTTGCATATCAAGCTTG
1 CACATTAGGCTTGCATATCAAGCTCG
**
55566482 CACATTAGGCTTGCATATTGAGCTCG
1 CACATTAGGCTTGCATATCAAGCTCG
55566508 CA
1 CA
55566510 TGACGCTAAG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (26 bp):
CACATTAGGCTTGCATATCAAGCTCG
Found at i:55566482 original size:13 final size:13
Alignment explanation
Indices: 55566440--55566499 Score: 50
Period size: 13 Copynumber: 4.6 Consensus size: 13
55566430 CACATTAAGA
55566440 TTGCATATCAAGC
1 TTGCATATCAAGC
* * *
55566453 TCGC-TCATTAGGC
1 TTGCAT-ATCAAGC
55566466 TTGCATATCAAGC
1 TTGCATATCAAGC
* * *
55566479 TTGCACATTAGGC
1 TTGCATATCAAGC
55566492 TTGCATAT
1 TTGCATAT
55566500 TGAGCTCGCA
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
12 1 0.03
13 33 0.94
14 1 0.03
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (13 bp):
TTGCATATCAAGC
Found at i:55573355 original size:14 final size:14
Alignment explanation
Indices: 55573333--55573368 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
55573323 CTATCCAAAA
* *
55573333 AAAAAAAAAGAGAG
1 AAAAGAAAAGAAAG
55573347 AAAAGAAAAGAAAG
1 AAAAGAAAAGAAAG
55573361 AAAAGAAA
1 AAAAGAAA
55573369 TCAAATTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAGAAAG
Found at i:55575598 original size:44 final size:43
Alignment explanation
Indices: 55575548--55575690 Score: 141
Period size: 44 Copynumber: 3.3 Consensus size: 43
55575538 TGTGTTATTG
*
55575548 TGTAAGACCATGTCTTAGACATTAGCATCGACT-TCTGATTTACA
1 TGTAAGACCATGTCTTAGACATTAGCATCGA-TATTTGA-TTACA
* * ** *
55575592 TATAAGACAATGTCTGGGACATCAGCATC-ATATTTGATT-CA
1 TGTAAGACCATGTCTTAGACATTAGCATCGATATTTGATTACA
* * *
55575633 TGTAAGACCATGTC-TAGGACAATGGCATCGATGTTTGATTACA
1 TGTAAGACCATGTCTTA-GACATTAGCATCGATATTTGATTACA
*
55575676 TGTAAGACCACGTCT
1 TGTAAGACCATGTCT
55575691 GGGACGTTGG
Statistics
Matches: 79, Mismatches: 15, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
41 23 0.29
42 12 0.15
43 20 0.25
44 24 0.30
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTTAGACATTAGCATCGATATTTGATTACA
Found at i:55575702 original size:43 final size:42
Alignment explanation
Indices: 55575548--55575703 Score: 145
Period size: 43 Copynumber: 3.7 Consensus size: 42
55575538 TGTGTTATTG
** * *
55575548 TGTAAGACCATGTCTTAGACATTAGCATCGACT-TCTGATTTACA
1 TGTAAGACCATGTCTGGGACATTGGCATC-A-TATTTGA-TTACA
* * **
55575592 TATAAGACAATGTCTGGGACATCAGCATCATATTTGATT-CA
1 TGTAAGACCATGTCTGGGACATTGGCATCATATTTGATTACA
* * *
55575633 TGTAAGACCATGTCTAGGACAATGGCATCGATGTTTGATTACA
1 TGTAAGACCATGTCTGGGACATTGGCATC-ATATTTGATTACA
* *
55575676 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
55575704 TGTATTTGCT
Statistics
Matches: 92, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
41 25 0.27
42 12 0.13
43 31 0.34
44 24 0.26
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCATATTTGATTACA
Found at i:55578478 original size:46 final size:46
Alignment explanation
Indices: 55578428--55578602 Score: 189
Period size: 45 Copynumber: 3.8 Consensus size: 46
55578418 TGGTTGAGCA
55578428 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAG
* * * *
55578474 TCCGAACTCGTTGAGTTGAGTCCGATTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA--A-G
* *
55578519 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAG
* * *
55578567 -CCCAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55578603 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 13, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 36 0.34
46 28 0.26
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAG
Found at i:55586067 original size:45 final size:46
Alignment explanation
Indices: 55586003--55586177 Score: 189
Period size: 45 Copynumber: 3.8 Consensus size: 46
55585993 TGTAACCCGC
* *
55586003 CCATAAGCGAACTCGGACTCAACTCAACGAGCT-GGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* *
55586048 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATACCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--A-C--GTTCGCAT
* * *
55586098 -C-TCA-CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
**
55586141 CCATAAGTAAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
55586178 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 34 0.32
46 29 0.27
47 27 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:55586168 original size:93 final size:92
Alignment explanation
Indices: 55586010--55586178 Score: 284
Period size: 93 Copynumber: 1.8 Consensus size: 92
55586000 CGCCCATAAG
* * *
55586010 CGAACTCGGACTCAACTCAACGAGCTGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCAA
55586075 CGAGTTCGGATACCTAGTTACATCTCA
66 CGAGTTCGGATACCTAGTTACATCTCA
* *
55586102 CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCT-GGACATTCGCATCCATAAGTAAACTCGGACTCAACTCA
55586167 ACGAGTTCGGAT
65 ACGAGTTCGGAT
55586179 GCTCAACCAT
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 24 0.34
93 47 0.66
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCAA
CGAGTTCGGATACCTAGTTACATCTCA
Found at i:55588245 original size:10 final size:10
Alignment explanation
Indices: 55588200--55588245 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
55588190 TATATTTCGA
55588200 CACATATCAAT
1 CACATAT-AAT
*
55588211 CACATATAAA
1 CACATATAAT
*
55588221 CACATATGAT
1 CACATATAAT
*
55588231 TACATATAAT
1 CACATATAAT
55588241 CACAT
1 CACAT
55588246 TTAGTCATAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
10 22 0.76
11 7 0.24
ACGTcount: A:0.48, C:0.22, G:0.02, T:0.28
Consensus pattern (10 bp):
CACATATAAT
Found at i:55588796 original size:8 final size:8
Alignment explanation
Indices: 55588785--55588809 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
55588775 TGTTCATGAT
55588785 TTCACAAA
1 TTCACAAA
55588793 TTCACAAA
1 TTCACAAA
55588801 TTCACAAA
1 TTCACAAA
55588809 T
1 T
55588810 AAAAATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (8 bp):
TTCACAAA
Found at i:55601516 original size:932 final size:932
Alignment explanation
Indices: 55600194--55603921 Score: 7323
Period size: 932 Copynumber: 4.0 Consensus size: 932
55600184 ACATAAACTT
55600194 CATGTACTCCTGCCACTCTTCTTCTTGTAGTTATTCGATTATTCGTCCACTAATAATTGTTGCTA
1 CATGTACTCCTGCCACTCTTCTTCTTGTAGTTATTCGATTATTCGTCCACTAATAATTGTTGCTA
55600259 GAAATTCTTTCAAGAACTTTGTAAGCTTCATTGTAACACTTAGAAAGAAAAGCTTCATTTGCAAA
66 GAAATTCTTTCAAGAACTTTGTAAGCTTCATTGTAACACTTAGAAAGAAAAGCTTCATTTGCAAA
55600324 AGCATCTACCACCATTTTTGTATGTGCATTAAAACCATTGTAGAAAGTCTCCAATTGAATGTAAT
131 AGCATCTACCACCATTTTTGTATGTGCATTAAAACCATTGTAGAAAGTCTCCAATTGAATGTAAT
*
55600389 GTAGTAAACTATGGTGAGGGCACTTCGTAATAAATCATTTAGTCGCTCTCATGCCTCATATAGAG
196 GTAGTAAACTATGGTGAGGGCACTTCGTAATAAATCATTTAATCGCTCTCATGCCTCATATAGAG
55600454 ATTCATCATCAAGTTGCTGGATTGTAATGATCTCATTCTGAAGCTTGGCATTTTTATTAGGAGGA
261 ATTCATCATCAAGTTGCTGGATTGTAATGATCTCATTCTGAAGCTTGGCATTTTTATTAGGAGGA
*
55600519 AAATATTTCATTAAGAATCGTTCAACCAATTCTTGCTATGTGGTTATGGAGTCGGGTGGTAAGGA
326 AAATATTTCATTAAGAATCGTTCAACCAATTCTTGCCATGTGGTTATGGAGTCGGGTGGTAAGGA
55600584 ATTCAACCATGCTCACGCTCTATCTCTCAATAAGTATTGGAATAACTCCAATCTCAAAGCATCAT
391 ATTCAACCATGCTCACGCTCTATCTCTCAATAAGTATTGGAATAACTCCAATCTCAAAGCATCAT
55600649 TGGTCACTCCGACCAATTTGAAGGAGTCCCTTACTTCTATAAATAAGCGAAGATGAAGGTGTAGA
456 TGGTCACTCCGACCAATTTGAAGGAGTCCCTTACTTCTATAAATAAGCGAAGATGAAGGTGTAGA
*
55600714 TCTTTACTAGGCATCCCACTAAATTGGTCCACCGTTTGAAGCATTTGGAACATCACTGGCTTTAA
521 TCTTTACTAGGCATCCCACTAAATTGGTCCACCGTTTGAAGCATTTGGAACATCGCTGGCTTTAA
55600779 TTCGAACTACGGTGCATCAATTTTGGGTCTCACAATTCTTGGATTAAGTTCATTGAAAAGAGGAA
586 TTCGAACTACGGTGCATCAATTTTGGGTCTCACAATTCTTGGATTAAGTTCATTGAAAAGAGGAA
55600844 TAGCATATTGGCATATGACACGGTCTCTGTCATTAGTAACAATGACTGGATTTTGAGCATTAACA
651 TAGCATATTGGCATATGACACGGTCTCTGTCATTAGTAACAATGACTGGATTTTGAGCATTAACA
55600909 GCTTCATCTCTTTGATCTTGTTGTGCAAGATTCATTTTTGTAGCTTGTCAATGAGCTACTTGTTC
716 GCTTCATCTCTTTGATCTTGTTGTGCAAGATTCATTTTTGTAGCTTGTCAATGAGCTACTTGTTC
55600974 CCTTTTTCTTTGTCTAAAGGTGTGCTCAATTTTAGGATTAATTGGAAGTAGATTGATAATTCAGT
781 CCTTTTTCTTTGTCTAAAGGTGTGCTCAATTTTAGGATTAATTGGAAGTAGATTGATAATTCAGT
55601039 TTATGTTCATAAACACCTAACAAAGATCACAGAAACAACTAAATTTAAAAAAAAAACAAATAAGT
846 TTATGTTCATAAACACCTAACAAAGATCACAGAAACAACTAAATTTAAAAAAAAAACAAATAAGT
55601104 AAATCAATTGAAAAATAATTAA
911 AAATCAATTGAAAAATAATTAA
55601126 CATGTACTCCTGCCACTCTTCTTCTTGTAGTTATTCGATTATTCGTCCACTAATAATTGTTGCTA
1 CATGTACTCCTGCCACTCTTCTTCTTGTAGTTATTCGATTATTCGTCCACTAATAATTGTTGCTA
55601191 GAAATTCTTTCAAGAACTTTGTAAGCTTCATTGTAACACTTAGAAAGAAAAGCTTCATTTGCAAA
66 GAAATTCTTTCAAGAACTTTGTAAGCTTCATTGTAACACTTAGAAAGAAAAGCTTCATTTGCAAA
*
55601256 AGCATCTACTACCATTTTTGTATGTGCATTAAAACCATTGTAGAAAGTCTCCAATTGAATGTAAT
131 AGCATCTACCACCATTTTTGTATGTGCATTAAAACCATTGTAGAAAGTCTCCAATTGAATGTAAT
55601321 GTAGTAAACTATGGTGAGGGCACTTCGTAATAAATCATTTAATCGCTCTCATGCCTCATATAGAG
196 GTAGTAAACTATGGTGAGGGCACTTCGTAATAAATCATTTAATCGCTCTCATGCCTCATATAGAG
55601386 ATTCATCATCAAGTTGCTGGATTGTAATGATCTCATTCTGAAGCTTGGCATTTTTATTAGGAGGA
261 ATTCATCATCAAGTTGCTGGATTGTAATGATCTCATTCTGAAGCTTGGCATTTTTATTAGGAGGA
55601451 AAATATTTCATTAAGAATCGTTCAACCAATTCTTGCCATGTGGTTATGGAGTCGGGTGGTAAGGA
326 AAATATTTCATTAAGAATCGTTCAACCAATTCTTGCCATGTGGTTATGGAGTCGGGTGGTAAGGA
55601516 ATTCAACCATGCTCACGCTCTATCTCTCAATAAGTATTGGAATAACTCCAATCTCAAAGCATCAT
391 ATTCAACCATGCTCACGCTCTATCTCTCAATAAGTATTGGAATAACTCCAATCTCAAAGCATCAT
55601581 TGGTCACTCCGACCAATTTGAAGGAGTCCCTTACTTCTATAAATAAGCGAAGATGAAGGTGTAGA
456 TGGTCACTCCGACCAATTTGAAGGAGTCCCTTACTTCTATAAATAAGCGAAGATGAAGGTGTAGA
55601646 TCTTTACTAGGCATCCCACTAAATTGGTCCACCGTTTGAAGCATTTGGAACATCGCTGGCTTTAA
521 TCTTTACTAGGCATCCCACTAAATTGGTCCACCGTTTGAAGCATTTGGAACATCGCTGGCTTTAA
55601711 TTCGAACTACGGTGCATCAATTTTGGGTCTCACAATTCTTGGATTAAGTTCATTGAAAAGAGGAA
586 TTCGAACTACGGTGCATCAATTTTGGGTCTCACAATTCTTGGATTAAGTTCATTGAAAAGAGGAA
55601776 TAGCATATTGGCATATGACACGGTCTCTGTCATTAGTAACAATGACTGGATTTTGAGCATTAACA
651 TAGCATATTGGCATATGACACGGTCTCTGTCATTAGTAACAATGACTGGATTTTGAGCATTAACA
*
55601841 GCTTCATCTCTTTGATCTTGTTGTGCAAGATTCATTTTTGTTGCTTGTCAATGAGCTACTTGTTC
716 GCTTCATCTCTTTGATCTTGTTGTGCAAGATTCATTTTTGTAGCTTGTCAATGAGCTACTTGTTC
55601906 CCTTTTTCTTTGTCTAAAGGTGTGCTCAATTTTAGGATTAATTGGAAGTAGATTGATAATTCAGT
781 CCTTTTTCTTTGTCTAAAGGTGTGCTCAATTTTAGGATTAATTGGAAGTAGATTGATAATTCAGT
55601971 TTATGTTCATAAACACCTAACAAAGATCACAGAAACAACTAAATTTAAAAAAAAAAACAAATAAG
846 TTATGTTCATAAACACCTAACAAAGATCACAGAAACAACTAAATTT-AAAAAAAAAACAAATAAG
55602036 TAAATCAATTGAAAAATAATTAA
910 TAAATCAATTGAAAAATAATTAA
*
55602059 CATGTACTCCTGCCACTCTTCTTCTTGTAGTTATTCGATTACTCGTCCACTAATAATTGTTGCTA
1 CATGTACTCCTGCCACTCTTCTTCTTGTAGTTATTCGATTATTCGTCCACTAATAATTGTTGCTA
*
55602124 GAAATTCTTTCAAGAACTTTGTAAGCTTCATTGTAACACTTAGAAAGAAAAGCTTCATTTGAAAA
66 GAAATTCTTTCAAGAACTTTGTAAGCTTCATTGTAACACTTAGAAAGAAAAGCTTCATTTGCAAA
55602189 AGCATCTACCACCATTTTTGTATGTGCATTAAAACCATTGTAGAAAGTCTCCAATTGAATGTAAT
131 AGCATCTACCACCATTTTTGTATGTGCATTAAAACCATTGTAGAAAGTCTCCAATTGAATGTAAT
55602254 GTAGTAAAC-ATGGTGAGGGCACTTCGTAATAAATCATTTAATCGCTCTCATGCCTCATATAGAG
196 GTAGTAAACTATGGTGAGGGCACTTCGTAATAAATCATTTAATCGCTCTCATGCCTCATATAGAG
55602318 ATTCATCATCAAGTTGCTGGATTGTAATGATCTCATTCTGAAGCTTGGCATTTTTATTAGGAGGA
261 ATTCATCATCAAGTTGCTGGATTGTAATGATCTCATTCTGAAGCTTGGCATTTTTATTAGGAGGA
55602383 AAATATTTCATTAAGAATCGTTCAACCAATTCTTGCCATGTGGTTATGGAGTCGGGTGGTAAGGA
326 AAATATTTCATTAAGAATCGTTCAACCAATTCTTGCCATGTGGTTATGGAGTCGGGTGGTAAGGA
55602448 ATTCAACCATGCTCACGCTCTATCTCTCAATAAGTATTGGAATAACTCCAATCTCAAAGCATCAT
391 ATTCAACCATGCTCACGCTCTATCTCTCAATAAGTATTGGAATAACTCCAATCTCAAAGCATCAT
*
55602513 TGGTCACTCCGACCAATTTGAAGGAGTCCCTTACTTCTATAAATAAGCGAAGATGAAGGGGTAGA
456 TGGTCACTCCGACCAATTTGAAGGAGTCCCTTACTTCTATAAATAAGCGAAGATGAAGGTGTAGA
55602578 TCTTTACTAGGCATCCCACTAAATTGGTCCACCGTTTGAAGCATTTGGAACATCGCTGGCTTTAA
521 TCTTTACTAGGCATCCCACTAAATTGGTCCACCGTTTGAAGCATTTGGAACATCGCTGGCTTTAA
55602643 TTCGAACTACGGTGCATCAATTTTGGGTCTCACAATTCTTGGATTAAGTTCATTGAAAAGAGGAA
586 TTCGAACTACGGTGCATCAATTTTGGGTCTCACAATTCTTGGATTAAGTTCATTGAAAAGAGGAA
55602708 TAGCATATTGGCATATGACACGGTCTCTGTCATTAGTAACAATGACTGGATTTTGAGCATTAACA
651 TAGCATATTGGCATATGACACGGTCTCTGTCATTAGTAACAATGACTGGATTTTGAGCATTAACA
55602773 GCTTCATCTCTTTGATCTTGTTGTGCAAGATTCATTTTTGTAGCTTGTCAATGAGCTACTTGTTC
716 GCTTCATCTCTTTGATCTTGTTGTGCAAGATTCATTTTTGTAGCTTGTCAATGAGCTACTTGTTC
55602838 CCTTTTTCTTTGTCTAAAGGTGTGCTCAATTTTAGGATTAATTGGAAGTAGATTGATAATTCAGT
781 CCTTTTTCTTTGTCTAAAGGTGTGCTCAATTTTAGGATTAATTGGAAGTAGATTGATAATTCAGT
55602903 TTATGTTCATAAACACCTAACAAAGATCACAGAAACAACTAAATTTAAAAAAAAAACAAATAAGT
846 TTATGTTCATAAACACCTAACAAAGATCACAGAAACAACTAAATTTAAAAAAAAAACAAATAAGT
55602968 AAATCAATTGAAAAATAATTAA
911 AAATCAATTGAAAAATAATTAA
55602990 CATGTACTCCTGCCACTCTTCTTCTTGTAGTTATTCGATTATTCGTCCACTAATAATTGTTGCTA
1 CATGTACTCCTGCCACTCTTCTTCTTGTAGTTATTCGATTATTCGTCCACTAATAATTGTTGCTA
*
55603055 GAAATTCTTTCAAGAACTTTGTAAGCTTCATTGTAACACTTAGAAAGAAAAGCGTCATTTGCAAA
66 GAAATTCTTTCAAGAACTTTGTAAGCTTCATTGTAACACTTAGAAAGAAAAGCTTCATTTGCAAA
55603120 AGCATCTACCACCATTTTTGTATGTGCATTAAAACCATTGTAGAAAGTCTCCAATTGAATGTAAT
131 AGCATCTACCACCATTTTTGTATGTGCATTAAAACCATTGTAGAAAGTCTCCAATTGAATGTAAT
55603185 GTAGTAAACTATGGTGAGGGCACTTCGTAATAAATCATTTAATCGCTCTCATGCCTCATATAGAG
196 GTAGTAAACTATGGTGAGGGCACTTCGTAATAAATCATTTAATCGCTCTCATGCCTCATATAGAG
*
55603250 ATTCATCATCAAGTTGCTGGATTGTAATGATCTCATTCTGAAGCTTGGCATTTTTATTAAGAGGA
261 ATTCATCATCAAGTTGCTGGATTGTAATGATCTCATTCTGAAGCTTGGCATTTTTATTAGGAGGA
55603315 AAATATTTCATTAAGAATCGTTCAACCAATTCTTGCCATGTGGTTATGGAGTCGGGTGGTAAGGA
326 AAATATTTCATTAAGAATCGTTCAACCAATTCTTGCCATGTGGTTATGGAGTCGGGTGGTAAGGA
55603380 ATTCAACCATGCTCACGCTCTATCTCTCAATAAGTATTGGAATAACTCCAATCTCAAAGCATCAT
391 ATTCAACCATGCTCACGCTCTATCTCTCAATAAGTATTGGAATAACTCCAATCTCAAAGCATCAT
55603445 TGGTCACTCCGACCAATTTGAAGGAGTCCCTTACTTCTATAAATAAGCGAAGATGAAGGTGTAGA
456 TGGTCACTCCGACCAATTTGAAGGAGTCCCTTACTTCTATAAATAAGCGAAGATGAAGGTGTAGA
*
55603510 TCTTTACTAGGCATCCCACTAAATTGGTCCACTGTTTGAAGCATTTGGAACATCGCTGGCTTTAA
521 TCTTTACTAGGCATCCCACTAAATTGGTCCACCGTTTGAAGCATTTGGAACATCGCTGGCTTTAA
*
55603575 TTCGAACTACGGTGCATCAATTTTGGGTCTCATAATTCTTGGATTAAGTTCATTGAAAAGAGGAA
586 TTCGAACTACGGTGCATCAATTTTGGGTCTCACAATTCTTGGATTAAGTTCATTGAAAAGAGGAA
*
55603640 TAGCATATTGGCATATGATACGGTCTCTGTCATTAGTAACAATGACTGGATTTTGAGCATTAACA
651 TAGCATATTGGCATATGACACGGTCTCTGTCATTAGTAACAATGACTGGATTTTGAGCATTAACA
55603705 GCTTCATCTCTTTGATCTTGTTGTGCAAGATTCATTTTTGTAGCTTGTCAATGAGCTACTTGTTC
716 GCTTCATCTCTTTGATCTTGTTGTGCAAGATTCATTTTTGTAGCTTGTCAATGAGCTACTTGTTC
55603770 CCTTTTTCTTTGTCTAAAGGTGTGCTCAATTTTAGGATTAATTGGAAGTAGATTGATAATTCAGT
781 CCTTTTTCTTTGTCTAAAGGTGTGCTCAATTTTAGGATTAATTGGAAGTAGATTGATAATTCAGT
55603835 TTATGTTCATAAACACCTAACAAAGATCACAGAAACAACTAAATTTAAAAAAAAAACAAATAAGT
846 TTATGTTCATAAACACCTAACAAAGATCACAGAAACAACTAAATTTAAAAAAAAAACAAATAAGT
55603900 AAATCAATTGAAAAATAATTAA
911 AAATCAATTGAAAAATAATTAA
55603922 TTTCACAATT
Statistics
Matches: 2776, Mismatches: 18, Indels: 4
0.99 0.01 0.00
Matches are distributed among these distances:
931 242 0.09
932 2292 0.83
933 242 0.09
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34
Consensus pattern (932 bp):
CATGTACTCCTGCCACTCTTCTTCTTGTAGTTATTCGATTATTCGTCCACTAATAATTGTTGCTA
GAAATTCTTTCAAGAACTTTGTAAGCTTCATTGTAACACTTAGAAAGAAAAGCTTCATTTGCAAA
AGCATCTACCACCATTTTTGTATGTGCATTAAAACCATTGTAGAAAGTCTCCAATTGAATGTAAT
GTAGTAAACTATGGTGAGGGCACTTCGTAATAAATCATTTAATCGCTCTCATGCCTCATATAGAG
ATTCATCATCAAGTTGCTGGATTGTAATGATCTCATTCTGAAGCTTGGCATTTTTATTAGGAGGA
AAATATTTCATTAAGAATCGTTCAACCAATTCTTGCCATGTGGTTATGGAGTCGGGTGGTAAGGA
ATTCAACCATGCTCACGCTCTATCTCTCAATAAGTATTGGAATAACTCCAATCTCAAAGCATCAT
TGGTCACTCCGACCAATTTGAAGGAGTCCCTTACTTCTATAAATAAGCGAAGATGAAGGTGTAGA
TCTTTACTAGGCATCCCACTAAATTGGTCCACCGTTTGAAGCATTTGGAACATCGCTGGCTTTAA
TTCGAACTACGGTGCATCAATTTTGGGTCTCACAATTCTTGGATTAAGTTCATTGAAAAGAGGAA
TAGCATATTGGCATATGACACGGTCTCTGTCATTAGTAACAATGACTGGATTTTGAGCATTAACA
GCTTCATCTCTTTGATCTTGTTGTGCAAGATTCATTTTTGTAGCTTGTCAATGAGCTACTTGTTC
CCTTTTTCTTTGTCTAAAGGTGTGCTCAATTTTAGGATTAATTGGAAGTAGATTGATAATTCAGT
TTATGTTCATAAACACCTAACAAAGATCACAGAAACAACTAAATTTAAAAAAAAAACAAATAAGT
AAATCAATTGAAAAATAATTAA
Found at i:55610033 original size:25 final size:25
Alignment explanation
Indices: 55610005--55610053 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
55609995 CGATTTTTGA
* *
55610005 TAGTATATCCTGAAACTGCTATAGG
1 TAGTATATACTGAAACTACTATAGG
*
55610030 TAGTATATACTGAGACTACTATAG
1 TAGTATATACTGAAACTACTATAG
55610054 ATAGACTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (25 bp):
TAGTATATACTGAAACTACTATAGG
Found at i:55621580 original size:13 final size:13
Alignment explanation
Indices: 55621562--55621586 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55621552 GTAAGTGATT
55621562 TTGATGATTTTTC
1 TTGATGATTTTTC
55621575 TTGATGATTTTT
1 TTGATGATTTTT
55621587 GTACTTTTAG
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:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:55622409 original size:48 final size:46
Alignment explanation
Indices: 55622289--55622409 Score: 172
Period size: 46 Copynumber: 2.6 Consensus size: 46
55622279 TGATATATGT
*
55622289 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGCATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGCATGAAA
* *
55622335 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCACGACAT-ACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACA-G-CATGA-AA
*
55622383 GCTAGTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
55622410 GTGTCAGCTT
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
46 36 0.54
47 2 0.03
48 29 0.43
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGCATGAAA
Found at i:55622492 original size:49 final size:49
Alignment explanation
Indices: 55622292--55622554 Score: 185
Period size: 49 Copynumber: 5.5 Consensus size: 49
55622282 TATATGTGCT
* * *
55622292 AGTGTAAGACATGTCTGGGACAT-GCATC-AGC-CAC-AGCATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCACTAG-ATGAAAGCC
* * * *
55622338 AGTGTAAGACATGTCTGGGACAT-GCATC-AGCCTCACGACAT-ACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGA-CCTCACTAGATGA-AAGCC
* * *** *
55622386 AGTGTAAGACCTGTCTGGGACATGG--T-G---TCAGCTTGTTGTGTGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCA-CTAGATGAAAGCC
* * *
55622430 AGTGTAAGACCTGTCTGGGGCATGGCATCGACACTGA-TAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCACTAGATGAAAGCC
* * * *
55622479 AGTGTAAGACCTGTATAGGACATGGCATCGGCCTCACTATATGAAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCACTAGATGAAAGCC
*
55622528 AGTGTAAGACCATGCCTGGGACATGGC
1 AGTGTAAGACC-TGTCTGGGACATGGC
55622555 GTCGGCATCT
Statistics
Matches: 169, Mismatches: 31, Indels: 30
0.73 0.13 0.13
Matches are distributed among these distances:
43 3 0.02
44 27 0.16
46 30 0.18
47 4 0.02
48 33 0.20
49 58 0.34
50 12 0.07
51 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCACTAGATGAAAGCC
Found at i:55636532 original size:56 final size:56
Alignment explanation
Indices: 55636446--55636621 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
55636436 ACAAGGGATG
*
55636446 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
55636502 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
55636558 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
55636614 ATGGGCAA
1 ATGGGCAA
55636622 TAAACTAATA
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:55638712 original size:28 final size:28
Alignment explanation
Indices: 55638649--55638799 Score: 223
Period size: 28 Copynumber: 5.4 Consensus size: 28
55638639 ATATTAAGTC
*
55638649 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
55638676 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
55638704 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
55638732 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
55638760 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
55638789 CGCACACTTAG
1 CGCACACTTAG
55638800 CGCCAATCTC
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 22 0.19
28 77 0.67
29 16 0.14
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:55641333 original size:40 final size:40
Alignment explanation
Indices: 55641102--55641326 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
55641092 TCGAATGATG
* * * *
55641102 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
55641142 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
55641182 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
55641221 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
55641261 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
55641302 -CCGGGCTATGTTCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
55641327 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 120 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:55641348 original size:119 final size:119
Alignment explanation
Indices: 55641102--55641359 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
55641092 TCGAATGATG
* *
55641102 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
55641167 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * **
55641221 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * *
55641284 TTGTGCGAGTTACT-ATAACCGGGCTATGTTCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
55641341 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
55641360 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 84 0.72
120 30 0.26
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:55647886 original size:56 final size:56
Alignment explanation
Indices: 55647800--55647975 Score: 334
Period size: 56 Copynumber: 3.1 Consensus size: 56
55647790 ACAAGGGATG
*
55647800 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
*
55647856 ATGGGAAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
55647912 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
55647968 ATGGGCAA
1 ATGGGCAA
55647976 TAAACTAATA
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
56 117 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:55649354 original size:40 final size:40
Alignment explanation
Indices: 55649116--55649340 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
55649106 TCGAATGATG
* * * *
55649116 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
55649156 TCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
55649196 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
55649235 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
55649275 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
55649316 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
55649341 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 119 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:55656908 original size:69 final size:69
Alignment explanation
Indices: 55656797--55656929 Score: 248
Period size: 69 Copynumber: 1.9 Consensus size: 69
55656787 CCTTGGTAGT
*
55656797 TAAAGGTCATTATTTTTCGATCGATTTGATGCTGTTACCATTCGATGAGTTTGATGTCATATTGG
1 TAAAGGTCATTATTTTTCGATCGATTTGATGCTGTTACCATTCGATGAGTTTGATGTCAAATTGG
55656862 GTGA
66 GTGA
*
55656866 TAAAGGTCATTATTTTTCGGTCGATTTGATGCTGTTACCATTCGATGAGTTTGATGTCAAATTG
1 TAAAGGTCATTATTTTTCGATCGATTTGATGCTGTTACCATTCGATGAGTTTGATGTCAAATTG
55656930 TAGACAAAAG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 62 1.00
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.42
Consensus pattern (69 bp):
TAAAGGTCATTATTTTTCGATCGATTTGATGCTGTTACCATTCGATGAGTTTGATGTCAAATTGG
GTGA
Found at i:55656940 original size:69 final size:68
Alignment explanation
Indices: 55656798--55656946 Score: 228
Period size: 69 Copynumber: 2.2 Consensus size: 68
55656788 CTTGGTAGTT
*
55656798 AAAGGTCATTATTTTTCGATCGATTTGATGCTGTTACCATTCGATGAGTTTGATGTCATATTGGG
1 AAAGGTCATTATTTTTCGATCGATTTGATGCTGTTACCATTCGATGAGTTTGATGTCAAATT-GG
*
55656863 TGAT
65 TGAA
*
55656867 AAAGGTCATTATTTTTCGGTCGATTTGATGCTGTTACCATTCGATGAGTTTGATGTCAAATT-GT
1 AAAGGTCATTATTTTTCGATCGATTTGATGCTGTTACCATTCGATGAGTTTGATGTCAAATTGGT
55656931 AGACA
66 -GA-A
*
55656936 AAAGGTTATTA
1 AAAGGTCATTA
55656947 AATTGAAATG
Statistics
Matches: 74, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
67 2 0.03
68 2 0.03
69 70 0.95
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.40
Consensus pattern (68 bp):
AAAGGTCATTATTTTTCGATCGATTTGATGCTGTTACCATTCGATGAGTTTGATGTCAAATTGGT
GAA
Found at i:55665199 original size:69 final size:68
Alignment explanation
Indices: 55665067--55665253 Score: 187
Period size: 69 Copynumber: 2.7 Consensus size: 68
55665057 ACACCTCAAA
* ** * *
55665067 GGATGTATAAAATGGAAGACCATAGCTCAGTTATGGCAACTAATAGAGTTTTTCGAGATAGTAAA
1 GGAT-TAT-AAATGTAAGACCATAGCTCAACTATGGCAACTAATAGAGTTTATCGAGACAGTAAA
**
55665132 CATGG
64 CACAG
* * *
55665137 GGATTATAAGATGTAAGACTATAGCTCAACTATGACAACTAATAGAGTTTGAT-GGGACAGTAAA
1 GGATTATAA-ATGTAAGACCATAGCTCAACTATGGCAACTAATAGAGTTT-ATCGAGACAGTAAA
*
55665201 CACAT
64 CACAG
* * * *
55665206 GGATTATAAAGTGTAAGTCCATAGCTCGACTATGGCAACCATTAGAGT
1 GGATTATAAA-TGTAAGACCATAGCTCAACTATGGCAACTAATAGAGT
55665254 CCACCGAGGC
Statistics
Matches: 97, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
68 3 0.03
69 89 0.92
70 5 0.05
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.27
Consensus pattern (68 bp):
GGATTATAAATGTAAGACCATAGCTCAACTATGGCAACTAATAGAGTTTATCGAGACAGTAAACA
CAG
Found at i:55666037 original size:15 final size:15
Alignment explanation
Indices: 55666017--55666049 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
55666007 GGGAGTTAGA
55666017 AAAATTTTAACTT-TT
1 AAAATTTT-ACTTCTT
55666032 AAAATTTTACTTCTT
1 AAAATTTTACTTCTT
55666047 AAA
1 AAA
55666050 GTTTACGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (15 bp):
AAAATTTTACTTCTT
Found at i:55669408 original size:28 final size:28
Alignment explanation
Indices: 55669371--55669430 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
55669361 ACGGGTAATA
*
55669371 TTTTTATAATTCTTGA-AAATTCTGTTTT
1 TTTTTATAATT-TTGATAAATTCTATTTT
*
55669399 TTTTTATAATTTTTATAAATTCTATTTT
1 TTTTTATAATTTTGATAAATTCTATTTT
55669427 TTTT
1 TTTT
55669431 CATTTTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 3 0.10
28 26 0.90
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.67
Consensus pattern (28 bp):
TTTTTATAATTTTGATAAATTCTATTTT
Found at i:55675234 original size:342 final size:342
Alignment explanation
Indices: 55674605--55675290 Score: 1025
Period size: 342 Copynumber: 2.0 Consensus size: 342
55674595 GCACTTTCAT
* * *
55674605 CACTATTTCTTGAGTTTAATGCATGTTGTGTTTGCCTTTTAGGCAGCATGTTTTTTGCATGAGAA
1 CACTATTTCTTGAGTTCAATACATGTTGTGTTTGCCTTTTAGGCAGCATGGTTTTTGCATGAGAA
* * ** *
55674670 GGTTCACTTATGCAGTTGAATTTTGAGACAATCATAGGAGCTGTTTTAGTTGCATCATGATTTTC
66 GGTTCACATATGCAGTTGAATTTTGAGACAATCACACCAGCTGTTTTAGTTGCATCATGACTTTC
* * * *
55674735 TGGACCATCACATACAGTCCTGTTCTTTTATCCACTAGCATTATCTCTTTTCACAACTATATTTT
131 TGGACCATCACATACAGTCCTATTCTTTCATCCACTAGCATTATCACTTTTCACAACAATATTTT
* *
55674800 CATTTTGTTGACTCACTTGGCATCGTACATTATTAAATCTGCTAAAATGATGTCCAAATGTCTGA
196 CATTTTGTTGACTCACTTGACATCGTACATTATTAAATCTGCTAAAATGATGTCCAAATGCCTGA
*
55674865 TCTGCATTATGTGAGCAGTAATGTGTGCTTCTCCAGCCACCTTTTCCTTCAAAGCATGCATCTCT
261 TCTGCATTATCTGAGCAGTAATGTGTGCTTCTCCAGCCACCTTTTCCTTCAAAGCATGCATCTCT
55674930 ATTTGAATCACCAAAAC
326 ATTTGAATCACCAAAAC
* *
55674947 CACTATTTCTTGAGTTCAATACATGTTTTGTTTGCCTTTTAGGCAGTATGGTTTTTGCACT-AGA
1 CACTATTTCTTGAGTTCAATACATGTTGTGTTTGCCTTTTAGGCAGCATGGTTTTTGCA-TGAGA
* * *
55675011 AGGTTCACATCTTCGGTTGAATTTTGAGACAATCACACCAGCT-TTTTCAGTTGCATCATGACTT
65 AGGTTCACATATGCAGTTGAATTTTGAGACAATCACACCAGCTGTTTT-AGTTGCATCATGACTT
*** * *
55675075 TCTGGACCATCACATGTGGTCCTATTGTTTCCTCCACTAGCATTATCACTTTTCACAACAATATT
129 TCTGGACCATCACATACAGTCCTATTCTTTCATCCACTAGCATTATCACTTTTCACAACAATATT
* * * *
55675140 TTCATTTTGTTGACTCACTTGACATTGTATATTATTAAATCTGCTGAAATGATGTCCAACTGCCT
194 TTCATTTTGTTGACTCACTTGACATCGTACATTATTAAATCTGCTAAAATGATGTCCAAATGCCT
* ** * *
55675205 GATCTGCATTGTCTGAGTGGTAGTGTGTGCTTCTCCAGCCACCTTTTTCTTCAAAGCATGCATCT
259 GATCTGCATTATCTGAGCAGTAATGTGTGCTTCTCCAGCCACCTTTTCCTTCAAAGCATGCATCT
*
55675270 TTATTTGAATCACCAAAAC
324 CTATTTGAATCACCAAAAC
55675289 CA
1 CA
55675291 TTAGCTTCTA
Statistics
Matches: 307, Mismatches: 35, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
341 4 0.01
342 302 0.98
343 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (342 bp):
CACTATTTCTTGAGTTCAATACATGTTGTGTTTGCCTTTTAGGCAGCATGGTTTTTGCATGAGAA
GGTTCACATATGCAGTTGAATTTTGAGACAATCACACCAGCTGTTTTAGTTGCATCATGACTTTC
TGGACCATCACATACAGTCCTATTCTTTCATCCACTAGCATTATCACTTTTCACAACAATATTTT
CATTTTGTTGACTCACTTGACATCGTACATTATTAAATCTGCTAAAATGATGTCCAAATGCCTGA
TCTGCATTATCTGAGCAGTAATGTGTGCTTCTCCAGCCACCTTTTCCTTCAAAGCATGCATCTCT
ATTTGAATCACCAAAAC
Found at i:55681793 original size:17 final size:16
Alignment explanation
Indices: 55681769--55681800 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
55681759 CCCTAAGAAA
55681769 ATATTTTATTTTGTTT
1 ATATTTTATTTTGTTT
55681785 ATATGTTTATTTTGTT
1 ATAT-TTTATTTTGTT
55681801 GGATTACCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.19, C:0.00, G:0.09, T:0.72
Consensus pattern (16 bp):
ATATTTTATTTTGTTT
Found at i:55682738 original size:23 final size:22
Alignment explanation
Indices: 55682678--55682738 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 22
55682668 AGCTCACATG
*
55682678 GATATACCACTAGTAGATATGTA
1 GATA-ACCACTAGTAGATATGCA
* * *
55682701 GATGACCTGCCAGTAGATATGCA
1 GATAACC-ACTAGTAGATATGCA
55682724 GATAAGCCACTAGTA
1 GATAA-CCACTAGTA
55682739 ACACTTCCTC
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
22 3 0.10
23 24 0.83
24 2 0.07
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (22 bp):
GATAACCACTAGTAGATATGCA
Found at i:55689240 original size:28 final size:28
Alignment explanation
Indices: 55689202--55689266 Score: 130
Period size: 28 Copynumber: 2.3 Consensus size: 28
55689192 TGTCCTTGGA
55689202 CCGTGTCCTTCACACGGCCATGACATGC
1 CCGTGTCCTTCACACGGCCATGACATGC
55689230 CCGTGTCCTTCACACGGCCATGACATGC
1 CCGTGTCCTTCACACGGCCATGACATGC
55689258 CCGTGTCCT
1 CCGTGTCCT
55689267 ATCCCATGTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.15, C:0.40, G:0.22, T:0.23
Consensus pattern (28 bp):
CCGTGTCCTTCACACGGCCATGACATGC
Found at i:55690284 original size:47 final size:45
Alignment explanation
Indices: 55690209--55690479 Score: 210
Period size: 47 Copynumber: 5.8 Consensus size: 45
55690199 GTGGGTAAGG
* *
55690209 TGCCAATGCCATGTCCCAGACACGGTCTTACACTAGCTCATATCTCA
1 TGCCGATG-CATGTCCCAGACA-TGTCTTACACTAGCTCATATCTCA
* * *
55690256 TGTCGATGCCATGTCCCAGACATAGTCTTACA-TTGACT-ATCATCTCG
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCAT-ATCTCA
* * *
55690303 TAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTATGTCTCGA
1 T-GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCATATCTC-A
* * * *
55690350 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTGTC-GA
1 TGCCGATGCATGTCCCAGACATGTCTTACACTAG--CTCATATCTCA
* * *
55690396 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT--
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTAG--CTCAT-ATCTCA
* * *
55690444 GGCTGATGCATGTCCTAGACATGTCTTACACTAGCT
1 TGCCGATGCATGTCCCAGACATGTCTTACACTAGCT
55690480 TACAATAACC
Statistics
Matches: 185, Mismatches: 26, Indels: 29
0.77 0.11 0.12
Matches are distributed among these distances:
44 2 0.01
46 68 0.37
47 81 0.44
48 33 0.18
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (45 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCATATCTCA
Found at i:55690348 original size:46 final size:46
Alignment explanation
Indices: 55690218--55690481 Score: 213
Period size: 46 Copynumber: 5.7 Consensus size: 46
55690208 GTGCCAATGC
* * * *
55690218 CATGTCCCAGACACGGTCTTACACTAGCTCATATCTCAT-GTCGATG
1 CATGTCCCAGACA-TGTCTTACACTAGCTTATATCTCGTAGCCGATG
*
55690264 CCATGTCCCAGACATAGTCTTACA-TTGAC-TATCATCTCGTAGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAG-CTTAT-ATCTCGTAGCCGATG
* *
55690312 CATGTCCCAGACATGTCTTACACTGGCTTATGTCTCG-AGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTATATCTCGTA-GCCGATG
* * *
55690358 CATGTCCCAGACATGTCTTACACTAGC--ACTCGTGTCG-ATGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTTA-T-ATCTCGTA-GCCGATG
* * * *
55690404 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT-GTGGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCT-T-ATATCTCGTAGCCGATG
*
55690452 CATGTCCTAGACATGTCTTACACTAGCTTA
1 CATGTCCCAGACATGTCTTACACTAGCTTA
55690482 CAATAACCCA
Statistics
Matches: 182, Mismatches: 19, Indels: 35
0.77 0.08 0.15
Matches are distributed among these distances:
44 2 0.01
45 3 0.02
46 76 0.42
47 74 0.41
48 24 0.13
49 1 0.01
51 1 0.01
52 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTTATATCTCGTAGCCGATG
Found at i:55690470 original size:140 final size:140
Alignment explanation
Indices: 55690218--55690481 Score: 345
Period size: 140 Copynumber: 1.9 Consensus size: 140
55690208 GTGCCAATGC
* *
55690218 CATGTCCCAGACACGGTCTTACACTAGCTCATATCTCATGTCGATGCCATGTCCCAGACATAGTC
1 CATGTCCCAGACACGGTCTTACACTAGCTCATATCTCATGCCAATGCCATGTCCCAGACATAGTC
* * *
55690283 TTACATTGACTATCATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTATGTCTC
66 TTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTATGTCTC
55690348 GAGGCCGATG
131 GAGGCCGATG
* * * * *
55690358 CATGTCCCAGACA-TGTCTTACACTAGCACTCGTGTC-GATGCCAATGCCATGTCCCAGACATGG
1 CATGTCCCAGACACGGTCTTACACTAG--CTCATATCTCATGCCAATGCCATGTCCCAGACATAG
* * * * *
55690421 TCTTACACTGGCTCTCATAAT-GTGGCTGATGCATGTCCTAGACATGTCTTACACTAGCTTA
64 TCTTACACTGACTATCAT-ATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTA
55690482 CAATAACCCA
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
139 12 0.11
140 87 0.82
141 7 0.07
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (140 bp):
CATGTCCCAGACACGGTCTTACACTAGCTCATATCTCATGCCAATGCCATGTCCCAGACATAGTC
TTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTATGTCTC
GAGGCCGATG
Found at i:55691174 original size:12 final size:12
Alignment explanation
Indices: 55691157--55691186 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
55691147 TCAAGAAGTT
55691157 ACATGGCCTAGC
1 ACATGGCCTAGC
*
55691169 ACATGGCCTGGC
1 ACATGGCCTAGC
55691181 ACATGG
1 ACATGG
55691187 GCGTGTGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.17
Consensus pattern (12 bp):
ACATGGCCTAGC
Found at i:55694618 original size:43 final size:42
Alignment explanation
Indices: 55694532--55694652 Score: 172
Period size: 43 Copynumber: 2.9 Consensus size: 42
55694522 AGGGTTACTA
* *
55694532 AGATTACGTGTAAGACCATATCTGGGATATGGCATCGATACG
1 AGATTACGTGTAAGACCATATCTAGGATATGGCATTGATACG
* *
55694574 AGACTT-CGTGTAAGACCATAGCTAGGCTATTGGCATTGATACG
1 AGA-TTACGTGTAAGACCATATCTAGGATA-TGGCATTGATACG
*
55694617 AGATTACATGTAAGACCATATCTAGGATATGGCATT
1 AGATTACGTGTAAGACCATATCTAGGATATGGCATT
55694653 AGTACTGTAC
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
42 32 0.46
43 37 0.54
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (42 bp):
AGATTACGTGTAAGACCATATCTAGGATATGGCATTGATACG
Found at i:55700985 original size:26 final size:26
Alignment explanation
Indices: 55700951--55701008 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
55700941 TATGTGGTAA
*
55700951 CTGTGTGAAATAATGGGAATTGTGGG
1 CTGTTTGAAATAATGGGAATTGTGGG
55700977 CTGTTTGAAATAATGGGAATTGTGGG
1 CTGTTTGAAATAATGGGAATTGTGGG
55701003 CTGTTT
1 CTGTTT
55701009 CTAGTATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.24, C:0.05, G:0.34, T:0.36
Consensus pattern (26 bp):
CTGTTTGAAATAATGGGAATTGTGGG
Found at i:55701503 original size:48 final size:48
Alignment explanation
Indices: 55701448--55702010 Score: 495
Period size: 48 Copynumber: 11.8 Consensus size: 48
55701438 TAATATGTAT
* * * * *
55701448 GCTAGTGTAGGACCATGTCTGGGACATGACGTCGGCCACGATATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGAGA
* * * * * * *
55701496 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGACAATGTTTTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGAGA
* * * *
55701544 GCCAGTGTAAGACCATGTCT-GGACATGGCATCGGCGTTGATATGTGC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGAGA
* * * * *
55701591 GCTAGTGTAAGACCATGTCTGGGACATGGCATTGACGTTGATATGTGC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGAGA
* * * *
55701639 GCTAGTGTAAGACCATGTCTGGGACATGACGTCGGCCACGATATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGAGA
* * * * * * * *
55701687 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGACAATGTTTTGAAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGAGA
* * * * *
55701735 GCCAGTGTAAGACCATGTCTGAGACATGGCATCGGCGTTGATATGTGC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGAGA
* * * * *
55701783 GCTAGTGTAAGACCATGTCTGGGACATGGCATTGACGTTGATATGTGC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGAGA
* * * * * **
55701831 GCTAATGTAAGACCATGTCTGGGACATGGCGTCAGCCA-CACCGTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGA-TATGAGA
* * * * *
55701879 GCTAGTGTAAGATCATGTCTGGGACATGGCATTGG-TATTGAGAAGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGA-TGATATGAGA
* * * * * *
55701927 GCTAGTGTAAGACCATGTCTGGGACATGGAATCAGC-CTCAACATGTGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGAT-GATATGAGA
* * *
55701975 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
55702011 AATTCACCCT
Statistics
Matches: 415, Mismatches: 94, Indels: 12
0.80 0.18 0.02
Matches are distributed among these distances:
47 41 0.10
48 373 0.90
49 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGAGA
Found at i:55701703 original size:96 final size:96
Alignment explanation
Indices: 55701448--55702006 Score: 557
Period size: 96 Copynumber: 5.8 Consensus size: 96
55701438 TAATATGTAT
* *
55701448 GCTAGTGTAGGACCATGTCTGGGACATGACGTCGGCCACGATATGAGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCACGATATGAGAGCCAGTGTAAGACCATG
* * * * *
55701513 TTTGGAACATGGCATCGACAATGTTTTGAGA
66 TCTGGAACATGGCATTGACATTGATATGAGA
* * *** * * *
55701544 GCCAGTGTAAGACCATGTCT-GGACATGGCATCGGCGTTGATATGTGCGCTAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCACGATATGAGAGCCAGTGTAAGACCATG
* * * *
55701608 TCTGGGACATGGCATTGACGTTGATATGTGC
66 TCTGGAACATGGCATTGACATTGATATGAGA
*
55701639 GCTAGTGTAAGACCATGTCTGGGACATGACGTCGGCCACGATATGAGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCACGATATGAGAGCCAGTGTAAGACCATG
* * * * * *
55701704 TTTGGAACATGGCATCGACAATGTTTTGAAA
66 TCTGGAACATGGCATTGACATTGATATGAGA
* * * *** * * *
55701735 GCCAGTGTAAGACCATGTCTGAGACATGGCATCGGCGTTGATATGTGCGCTAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCACGATATGAGAGCCAGTGTAAGACCATG
* * * *
55701800 TCTGGGACATGGCATTGACGTTGATATGTGC
66 TCTGGAACATGGCATTGACATTGATATGAGA
* * * * ** * *
55701831 GCTAATGTAAGACCATGTCTGGGACATGGCGTCAGCCAC-ACCGTGAGAGCTAGTGTAAGATCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCACGA-TATGAGAGCCAGTGTAAGACCAT
* ** * *
55701895 GTCTGGGACATGGCATTGGTATTGAGAAGAGA
65 GTCTGGAACATGGCATTGACATTGATATGAGA
* * * * *
55701927 GCTAGTGTAAGACCATGTCTGGGACATGGA-ATCAGCCTCAACATGTGAGCCAGTGTAAGACCAT
1 GCTAGTGTAAGACCATGTCTGGGACAT-GACATCGGCCACGATATGAGAGCCAGTGTAAGACCAT
*
55701991 GTTTGGAACATGGCAT
65 GTCTGGAACATGGCAT
55702007 CGGCAATTCA
Statistics
Matches: 371, Mismatches: 88, Indels: 8
0.79 0.19 0.02
Matches are distributed among these distances:
95 78 0.21
96 291 0.78
97 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (96 bp):
GCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCACGATATGAGAGCCAGTGTAAGACCATG
TCTGGAACATGGCATTGACATTGATATGAGA
Found at i:55701880 original size:192 final size:191
Alignment explanation
Indices: 55701448--55702006 Score: 814
Period size: 192 Copynumber: 2.9 Consensus size: 191
55701438 TAATATGTAT
*
55701448 GCTAGTGTAGGACCATGTCTGGGACATGACGTCGGCCACGATATGAGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGACGTCGGCCACGATATGAGAGCCAGTGTAAGACCATG
55701513 TTTGGAACATGGCATCGACAATGTTTTGAGAGCCAGTGTAAGACCATGTCTGGACATGGCATCGG
66 TTTGGAACATGGCATCGACAATGTTTTGAGAGCCAGTGTAAGACCATGTCTGGACATGGCATCGG
55701578 CGTTGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATTGACGTTGATATGTGC
131 CGTTGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATTGACGTTGATATGTGC
55701639 GCTAGTGTAAGACCATGTCTGGGACATGACGTCGGCCACGATATGAGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGACGTCGGCCACGATATGAGAGCCAGTGTAAGACCATG
*
55701704 TTTGGAACATGGCATCGACAATGTTTTGAAAGCCAGTGTAAGACCATGTCTGAGACATGGCATCG
66 TTTGGAACATGGCATCGACAATGTTTTGAGAGCCAGTGTAAGACCATGTCTG-GACATGGCATCG
55701769 GCGTTGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATTGACGTTGATATGTGC
130 GCGTTGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATTGACGTTGATATGTGC
* * * ** * *
55701831 GCTAATGTAAGACCATGTCTGGGACATGGCGTCAGCCAC-ACCGTGAGAGCTAGTGTAAGATCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGACGTCGGCCACGA-TATGAGAGCCAGTGTAAGACCAT
* * * ** * **** * *
55701895 GTCTGGGACATGGCATTGGTATTGAGAAGAGAGCTAGTGTAAGACCATGTCTGGGACATGGAATC
65 GTTTGGAACATGGCATCGACAATGTTTTGAGAGCCAGTGTAAGACCATGTCT-GGACATGGCATC
* * ** * * * * *
55701960 AGCCTCAACATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCAT
129 GGCGTTGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCAT
55702007 CGGCAATTCA
Statistics
Matches: 334, Mismatches: 31, Indels: 5
0.90 0.08 0.01
Matches are distributed among these distances:
191 116 0.35
192 217 0.65
193 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (191 bp):
GCTAGTGTAAGACCATGTCTGGGACATGACGTCGGCCACGATATGAGAGCCAGTGTAAGACCATG
TTTGGAACATGGCATCGACAATGTTTTGAGAGCCAGTGTAAGACCATGTCTGGACATGGCATCGG
CGTTGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATTGACGTTGATATGTGC
Found at i:55705092 original size:28 final size:28
Alignment explanation
Indices: 55705054--55705207 Score: 274
Period size: 28 Copynumber: 5.5 Consensus size: 28
55705044 TAAATTGTAC
55705054 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
55705082 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
55705110 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
*
55705138 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
*
55705166 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
*
55705193 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
55705208 GACTTAATAT
Statistics
Matches: 123, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
27 23 0.19
28 100 0.81
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATGT
Found at i:55709504 original size:36 final size:36
Alignment explanation
Indices: 55709456--55709528 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
55709446 ATGATTGATA
* * *
55709456 TGAAAGTGAATATGAGGGTGTATTGTTCATGCCATG
1 TGAAAGTAAATATGAGGGTATATTATTCATGCCATG
* *
55709492 TGAAAGTAAATATGTGGGTATGTTATTCATGCCATG
1 TGAAAGTAAATATGAGGGTATATTATTCATGCCATG
55709528 T
1 T
55709529 AACAGTATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.29, C:0.08, G:0.27, T:0.36
Consensus pattern (36 bp):
TGAAAGTAAATATGAGGGTATATTATTCATGCCATG
Found at i:55711351 original size:22 final size:22
Alignment explanation
Indices: 55711324--55711370 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
55711314 ATTATTTAGT
55711324 TTAAAGTTTTTTTAAGTGATGC
1 TTAAAGTTTTTTTAAGTGATGC
55711346 TTAAAGTTTTTTTAAGTGATGC
1 TTAAAGTTTTTTTAAGTGATGC
55711368 TTA
1 TTA
55711371 TCTCAAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.28, C:0.04, G:0.17, T:0.51
Consensus pattern (22 bp):
TTAAAGTTTTTTTAAGTGATGC
Found at i:55713096 original size:42 final size:43
Alignment explanation
Indices: 55712984--55713131 Score: 133
Period size: 42 Copynumber: 3.4 Consensus size: 43
55712974 AATTATCATG
* ** * * *
55712984 TAAGACCGTGTCTAAGACATAGGCATCGATTTGAAATTTACGTG
1 TAAGACCATGTCTGGGACACAGGCATCGATCTG-AATTTACGTA
55713028 TAAGACCATGTCTGGGACATCA-GCATCGTATCTG-ATTT-CGTA
1 TAAGACCATGTCTGGGACA-CAGGCATCG-ATCTGAATTTACGTA
* * * *
55713070 TAAGACCTTGTCTGGGACAGAGGCATCGATACTGAA-TTACATG
1 TAAGACCATGTCTGGGACACAGGCATCGAT-CTGAATTTACGTA
*
55713113 TAAGACCATGTCTAGGACA
1 TAAGACCATGTCTGGGACA
55713132 TTGGTATTAT
Statistics
Matches: 86, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
41 3 0.03
42 32 0.37
43 24 0.28
44 22 0.26
45 5 0.06
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACACAGGCATCGATCTGAATTTACGTA
Found at i:55721144 original size:16 final size:18
Alignment explanation
Indices: 55721123--55721159 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
55721113 GCTATTACAA
*
55721123 GAAAT-ATTAGCTAG-AT
1 GAAATAATTACCTAGAAT
55721139 GAAATAATTACCTAGAAT
1 GAAATAATTACCTAGAAT
55721157 GAA
1 GAA
55721160 CTATCATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 5 0.28
17 8 0.44
18 5 0.28
ACGTcount: A:0.49, C:0.08, G:0.16, T:0.27
Consensus pattern (18 bp):
GAAATAATTACCTAGAAT
Found at i:55721883 original size:152 final size:152
Alignment explanation
Indices: 55721601--55721911 Score: 473
Period size: 152 Copynumber: 2.0 Consensus size: 152
55721591 AATTGGCAAG
* * * * *
55721601 TTAGTCAAGGTACAAGTGGTGCGTACTGAAAGTCAAGTGGTTTTGAAAAATGAGGTATCAGGACC
1 TTAGTGAAGGTACAAGTGGTGCATACCGAAAGTCAAGTGGTTTTAAAAAAAGAGGTATCAGGACC
* * *
55721666 TTGTTTTTGTAAATCGAGTCTGTGAATATTTTTATTAAATATTTATGAAGCTTTTATATAGGTGA
66 TTGTTTTTGTAAATCGAGCCCGTGAATATTTTTATTAAATATTTATGAAGCTTTTATATAAGTGA
55721731 ATTGAAGTTTGGTCCAAAAATT
131 ATTGAAGTTTGGTCCAAAAATT
*
55721753 TTGGTGAAGGTACAAGTGGTGCATACCGAAAGTCAAGTGGTTTTAAAAAAAGAGGTATC-GAGAC
1 TTAGTGAAGGTACAAGTGGTGCATACCGAAAGTCAAGTGGTTTTAAAAAAAGAGGTATCAG-GAC
* *
55721817 CTTGTTTTCT-TAAATCGAGCCCGTGAATATTTTTATTAAATATTTATGGAGTTTTTATATAAGT
65 CTTGTTTT-TGTAAATCGAGCCCGTGAATATTTTTATTAAATATTTATGAAGCTTTTATATAAGT
* *
55721881 GAATTGAAGTTTGGTCTAAAAGTT
129 GAATTGAAGTTTGGTCCAAAAATT
55721905 TTAGTGA
1 TTAGTGA
55721912 TTGAATGATT
Statistics
Matches: 143, Mismatches: 14, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
151 1 0.01
152 141 0.99
153 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.37
Consensus pattern (152 bp):
TTAGTGAAGGTACAAGTGGTGCATACCGAAAGTCAAGTGGTTTTAAAAAAAGAGGTATCAGGACC
TTGTTTTTGTAAATCGAGCCCGTGAATATTTTTATTAAATATTTATGAAGCTTTTATATAAGTGA
ATTGAAGTTTGGTCCAAAAATT
Found at i:55724688 original size:44 final size:44
Alignment explanation
Indices: 55724625--55724773 Score: 157
Period size: 43 Copynumber: 3.5 Consensus size: 44
55724615 ATGTGTTATT
* *
55724625 GTGTAAGACCACGTCTGGGACGTTGGCATCGACT-TATGATTTAC
1 GTGTAAGACCACATCTGGGACGTTGGCATCGA-TATTTGATTTAC
* *
55724669 GTGTAAGACCATATCTGGGACATTGGCATC-ATATTTGATTT-C
1 GTGTAAGACCACATCTGGGACGTTGGCATCGATATTTGATTTAC
* * *
55724711 GTGTAAGACC-CTGTCTGGGACAG-TGGCATTGATGTTTGA-TTAC
1 GTGTAAGACCAC-ATCTGGGAC-GTTGGCATCGATATTTGATTTAC
*
55724754 ATGTAAGACCACATCTGGGA
1 GTGTAAGACCACATCTGGGA
55724774 TATTGGTATT
Statistics
Matches: 88, Mismatches: 11, Indels: 13
0.79 0.10 0.12
Matches are distributed among these distances:
42 28 0.32
43 32 0.36
44 28 0.32
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (44 bp):
GTGTAAGACCACATCTGGGACGTTGGCATCGATATTTGATTTAC
Found at i:55734296 original size:39 final size:39
Alignment explanation
Indices: 55734242--55734323 Score: 137
Period size: 39 Copynumber: 2.1 Consensus size: 39
55734232 AATTATGTTA
*
55734242 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATGCATTT
1 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
55734281 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
55734320 CCAG
1 CCAG
55734324 TGTCTTGCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.22, C:0.32, G:0.26, T:0.21
Consensus pattern (39 bp):
CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:55736165 original size:28 final size:28
Alignment explanation
Indices: 55736126--55736225 Score: 128
Period size: 28 Copynumber: 3.6 Consensus size: 28
55736116 ATATTTGATG
* *
55736126 TCTCACACACTAAGTGTCATACTCAACA
1 TCTCGCACACTAAGTGTCATACTCAATA
* * * * *
55736154 ACTCGCCCACTAAGTGCCATTCTCAATG
1 TCTCGCACACTAAGTGTCATACTCAATA
*
55736182 TTTCGCACACTAAGTGTCATACTCAATA
1 TCTCGCACACTAAGTGTCATACTCAATA
55736210 TCTCGCACACTAAGTG
1 TCTCGCACACTAAGTG
55736226 CCGTACATAG
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.30, C:0.31, G:0.12, T:0.27
Consensus pattern (28 bp):
TCTCGCACACTAAGTGTCATACTCAATA
Found at i:55736303 original size:41 final size:41
Alignment explanation
Indices: 55736255--55736396 Score: 191
Period size: 41 Copynumber: 3.5 Consensus size: 41
55736245 TCTCAAATCG
* *
55736255 CACACTAAATGCCACATTTAACTGAAGCTATTTTTGAACAA
1 CACACTAAGTGCCACATTTAGCTGAAGCTATTTTTGAACAA
* * **
55736296 CACACTAAGTACCACATTTAGCCGAAGCTATTTTTGAACCG
1 CACACTAAGTGCCACATTTAGCTGAAGCTATTTTTGAACAA
*
55736337 CACACTAAGTGCCACATTTAGCTGAAGCTATTTTCGAAC--
1 CACACTAAGTGCCACATTTAGCTGAAGCTATTTTTGAACAA
*
55736376 CGCA-TAAGTGCCACATTTAGC
1 CACACTAAGTGCCACATTTAGC
55736397 CGGTATGTTG
Statistics
Matches: 91, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
38 17 0.19
39 3 0.03
41 71 0.78
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.27
Consensus pattern (41 bp):
CACACTAAGTGCCACATTTAGCTGAAGCTATTTTTGAACAA
Found at i:55739222 original size:24 final size:23
Alignment explanation
Indices: 55739176--55739224 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
55739166 GACTTAATAT
*
55739176 TGATGTTTGAATATGTTTGTAAA
1 TGATGTTTGAATATGTGTGTAAA
55739199 TGATGTATATGAAT-TGTGTGTAAA
1 TGATGT-T-TGAATATGTGTGTAAA
55739223 TG
1 TG
55739225 TTCTGGTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 6 0.26
24 12 0.52
25 5 0.22
ACGTcount: A:0.31, C:0.00, G:0.24, T:0.45
Consensus pattern (23 bp):
TGATGTTTGAATATGTGTGTAAA
Found at i:55742598 original size:23 final size:23
Alignment explanation
Indices: 55742571--55742619 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
55742561 TCATTCAATA
* *
55742571 TTACTTTTACTCACTTATTTCTT
1 TTACTTTTACTCACTCAATTCTT
*
55742594 TTACTTTTACTCTCTCAATTCTT
1 TTACTTTTACTCACTCAATTCTT
55742617 TTA
1 TTA
55742620 ATTCATAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.18, C:0.22, G:0.00, T:0.59
Consensus pattern (23 bp):
TTACTTTTACTCACTCAATTCTT
Found at i:55747372 original size:20 final size:20
Alignment explanation
Indices: 55747343--55747382 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
55747333 AAGTAAACTT
*
55747343 CTCCCTTTTTAGATAGAATG
1 CTCCCCTTTTAGATAGAATG
55747363 CTCCCCTTTTAGATAGAATG
1 CTCCCCTTTTAGATAGAATG
55747383 GGTATAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.38
Consensus pattern (20 bp):
CTCCCCTTTTAGATAGAATG
Found at i:55756890 original size:42 final size:43
Alignment explanation
Indices: 55756792--55756949 Score: 185
Period size: 43 Copynumber: 3.7 Consensus size: 43
55756782 AGCTCGTACA
* * * *
55756792 ATGCCAACGTCCTAGACATGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * * *
55756835 ATGCCATTGTCCCAGACAAGGTTTTACACGAAATCATATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
*
55756877 ATGCCAATGTCCCAGACATGGTCTTACACGCAAATCACAA-GTCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAATCA-AATATCG
* *
55756921 ATGCCAATGTCCTAGACGTGGTCTTACAC
1 ATGCCAATGTCCCAGACATGGTCTTACAC
55756950 AATATCACAC
Statistics
Matches: 97, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
42 29 0.30
43 38 0.39
44 30 0.31
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:55759109 original size:79 final size:79
Alignment explanation
Indices: 55759017--55759503 Score: 297
Period size: 85 Copynumber: 6.0 Consensus size: 79
55759007 AGATTTTATT
** * *
55759017 CTTTATTTTATTTTTATTTCCAAACGAATATTAAAATTAAATAAAATTTGTTTCAGGATTTATTC
1 CTTTATTCCATTTTTATTTCCAAACGAA-ATTAAAATTAAATAAAATCTGTTTCGGGATTTATTC
* * *
55759082 CTATCGTTTAACATA
65 CCACCGTTCAACATA
* * * * *
55759097 -TTTATTCGA-TTTTGTTT-C---C-AAATTAAAAGTGAATAAAATCTATTTCGGGATTTATTCC
1 CTTTATTCCATTTTTATTTCCAAACGAAATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCC
**
55759155 CACCGTTCAACGGA
66 CACCGTTCAACATA
* *
55759169 TTTTATTCCATTTTTATTTTATTTCCAAACGAGAATTAAAGTTAAATAAAATCTGTTTCGGGATT
1 CTTTATTCCA----T-TTTTATTTCCAAACGA-AATTAAAATTAAATAAAATCTGTTTCGGGATT
* *
55759234 TATTCCCACCATTCAACAAA
60 TATTCCCACCGTTCAACATA
* ** * * * *
55759254 CTTTATTCCATTTTTATTT-GATTTCCAAATGAGAACTAAATAAAATCTGTTTCGGGATTTATTC
1 CTTTATTCCATTTTTATTTCCA-AACGAAATTAAAATTAAATAAAATCTGTTTCGGGATTTATTC
** *
55759318 TTATCGTTCAACATA
65 CCACCGTTCAACATA
* * * *
55759333 TTTTATTCTATTTTTTAGTTTGTTGCCAAAACGAGAAATTAAAATTAAATAAAATCTATTTCAGG
1 CTTTATTCCA-TTTTTA---T-TT-CC-AAAC--GAAATTAAAATTAAATAAAATCTGTTTCGGG
** * * * *
55759398 ATTTATTCCCGTCATTTAATAAGA
57 ATTTATTCCCACCGTTCAA-CATA
* ** * * **
55759422 TTTTATTTAATTTTATTTTGTTTTCAAATTAGAATTAAAATTAAATAAAATCTGTTTCGGGATTT
1 CTTTATTCCA---T-TTTTATTTCCAAACGA-AATTAAAATTAAATAAAATCTGTTTCGGGATTT
*
55759487 ATTCCCACCGTTTAACA
61 ATTCCCACCGTTCAACA
55759504 GATTCTATTT
Statistics
Matches: 312, Mismatches: 66, Indels: 54
0.72 0.15 0.12
Matches are distributed among these distances:
72 41 0.13
73 10 0.03
74 1 0.00
77 1 0.00
78 7 0.02
79 66 0.21
80 17 0.05
81 1 0.00
83 2 0.01
84 5 0.02
85 97 0.31
86 4 0.01
87 2 0.01
88 41 0.13
89 11 0.04
91 2 0.01
92 4 0.01
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (79 bp):
CTTTATTCCATTTTTATTTCCAAACGAAATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCC
CACCGTTCAACATA
Found at i:55759239 original size:85 final size:85
Alignment explanation
Indices: 55759117--55759512 Score: 401
Period size: 85 Copynumber: 4.7 Consensus size: 85
55759107 TTTGTTTCCA
* * * *
55759117 AATTAAAAGTGAATAAAATCTATTTCGGGATTTATTCCCACCGTTCAACGGATTTTATTCCATTT
1 AATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCACCGTTCAACAGATTTTATTCCATTT
55759182 TTATTTTATTTCCAAACGAG
66 TTATTTTATTTCCAAACGAG
* * * *
55759202 AATTAAAGTTAAATAAAATCTGTTTCGGGATTTATTCCCACCATTCAACAAACTTTATTCCATTT
1 AATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCACCGTTCAACAGATTTTATTCCATTT
* *
55759267 TTATTTGATTTCCAAATGAG
66 TTATTTTATTTCCAAACGAG
* ** * * *
55759287 ------AACTAAATAAAATCTGTTTCGGGATTTATTCTTATCGTTCAACATATTTTATTCTATTT
1 AATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCACCGTTCAACAGATTTTATTCCA-TT
* * *
55759346 TTTAGTTTGTTGCCAAAACGAG
65 TTTATTTTATTTCC-AAACGAG
* * ** * * * * *
55759368 AAATTAAAATTAAATAAAATCTATTTCAGGATTTATTCCCGTCATTTAATAAGATTTTATT-TAA
1 -AATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCACCGTTCAA-CAGATTTTATTCCAT
* * **
55759432 TTTTATTTTGTTTTCAAATTAG
64 TTTTATTTTATTTCCAAACGAG
* *
55759454 AATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCACCGTTTAACAGATTCTATT
1 AATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCACCGTTCAACAGATTTTATT
55759513 TTGATTTAAT
Statistics
Matches: 254, Mismatches: 47, Indels: 21
0.79 0.15 0.07
Matches are distributed among these distances:
79 47 0.19
80 12 0.05
81 6 0.02
84 9 0.04
85 118 0.46
86 5 0.02
87 12 0.05
88 36 0.14
89 9 0.04
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (85 bp):
AATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCACCGTTCAACAGATTTTATTCCATTT
TTATTTTATTTCCAAACGAG
Found at i:55764236 original size:6 final size:6
Alignment explanation
Indices: 55764225--55764290 Score: 51
Period size: 6 Copynumber: 11.0 Consensus size: 6
55764215 GTCTTAGTAG
* * *** * *
55764225 CAAATA CAAATA TAGATA CAAATA TTTATG CAAATA CAAATA CTAATA
1 CAAATA CAAATA CAAATA CAAATA CAAATA CAAATA CAAATA CAAATA
* *
55764273 CAAACA CGAATA CAAATA
1 CAAATA CAAATA CAAATA
55764291 TAGATCCTAC
Statistics
Matches: 42, Mismatches: 18, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.58, C:0.15, G:0.05, T:0.23
Consensus pattern (6 bp):
CAAATA
Found at i:55770699 original size:96 final size:96
Alignment explanation
Indices: 55770527--55770726 Score: 285
Period size: 96 Copynumber: 2.1 Consensus size: 96
55770517 GAGGGCCAAA
* * * ** * *
55770527 CAAAAAGA-GGAATACGATTGAGCTATCACCTTTTGTGCACTGTTATTGGTGTAGTTGAAAATAT
1 CAAATAGAGGGAATACGATTGAGATATAACCTTTTGTGCAAAGTTATTGGTGTAGTTCAAAAGAT
* *
55770591 CACGAGGCTTTCCAATGTCCAATTAAATATT
66 CACAAGGCTTTCCAATGTCCAATTAAATATC
55770622 CAAATAGAGGGAATACGATTGAGATATAACCTTTTGTGCAAAGTTATTGGTGTAGTTCAAAAGAT
1 CAAATAGAGGGAATACGATTGAGATATAACCTTTTGTGCAAAGTTATTGGTGTAGTTCAAAAGAT
* *
55770687 CATAAGGGTTTCCAATGTCCAATTAAATATC
66 CACAAGGCTTTCCAATGTCCAATTAAATATC
*
55770718 CAACTAGAG
1 CAAATAGAG
55770727 AAGAAAGTAA
Statistics
Matches: 92, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
95 7 0.08
96 85 0.92
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (96 bp):
CAAATAGAGGGAATACGATTGAGATATAACCTTTTGTGCAAAGTTATTGGTGTAGTTCAAAAGAT
CACAAGGCTTTCCAATGTCCAATTAAATATC
Found at i:55773457 original size:49 final size:49
Alignment explanation
Indices: 55773393--55773567 Score: 233
Period size: 49 Copynumber: 3.5 Consensus size: 49
55773383 TTGGTACGCA
55773393 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* * * * * * *
55773442 TAGTAGCTTGCACTTAGTACTACACACGTGATCAAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCGGTACACG
* * *
55773493 TAATAGGCTGCACTTAGTACTACACATGCGACCAATTATCCTGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
*
55773542 TAGTAGCCTGCACTTAATACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
55773568 CGTGACCTCA
Statistics
Matches: 104, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 61 0.59
50 6 0.06
51 37 0.36
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:55773563 original size:100 final size:100
Alignment explanation
Indices: 55773385--55773572 Score: 331
Period size: 100 Copynumber: 1.9 Consensus size: 100
55773375 AAGGCTATTT
* *
55773385 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCT
1 GGTACGCATAATAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
*
55773450 TGCACTTAGTACTACACACGTGATCAAAGTTATCG
66 TGCACTTAATACTACACACGTGATCAAAGTTATCG
* *
55773485 GGTACGCATAATAGGCTGCACTTAGTACTACACATGCGACCAATTATCCTGTACACGTAGTAGCC
1 GGTACGCATAATAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
55773550 TGCACTTAATACTACACACGTGA
66 TGCACTTAATACTACACACGTGA
55773573 CCTCACAATA
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 83 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (100 bp):
GGTACGCATAATAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
TGCACTTAATACTACACACGTGATCAAAGTTATCG
Found at i:55773745 original size:27 final size:27
Alignment explanation
Indices: 55773715--55773768 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
55773705 TCATACAACC
* *
55773715 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
55773742 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
55773769 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:55776588 original size:36 final size:35
Alignment explanation
Indices: 55776536--55776662 Score: 100
Period size: 36 Copynumber: 3.6 Consensus size: 35
55776526 AAGATCATTT
*
55776536 TTGTGCCTAGCACTAGTCGAACAAATCGACAAATTA
1 TTGTGCC-AGCGCTAGTCGAACAAATCGACAAATTA
* * *
55776572 TTGTGTCCAGCGCTAGTC-ATATAACT-GAC-GA-TA
1 TTGTG-CCAGCGCTAGTCGA-ACAAATCGACAAATTA
* *
55776605 GTTGTGCCTAGCACTAGTCGAACAAGTCGACAAATTA
1 -TTGTGCC-AGCGCTAGTCGAACAAATCGACAAATTA
* *
55776642 TTGAGCCCAGAGCTAGTCGAA
1 TTGTG-CCAGCGCTAGTCGAA
55776663 TAACCTATGA
Statistics
Matches: 71, Mismatches: 11, Indels: 18
0.71 0.11 0.18
Matches are distributed among these distances:
33 4 0.06
34 19 0.27
35 8 0.11
36 34 0.48
37 6 0.08
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (35 bp):
TTGTGCCAGCGCTAGTCGAACAAATCGACAAATTA
Found at i:55776657 original size:70 final size:69
Alignment explanation
Indices: 55776536--55776751 Score: 276
Period size: 70 Copynumber: 3.1 Consensus size: 69
55776526 AAGATCATTT
* * *
55776536 TTGTGCCTAGCACTAGTCGAACAAATCGACAAATTATTGTGTCCAGCGCTAGTCATATAACTGAC
1 TTGTGCCTAGCACTAGTCGAACAAGTCGACAAATTATTGAGCCCAGCGCTAGTCA-ATAACTGAC
55776601 GATAG
65 GATAG
*
55776606 TTGTGCCTAGCACTAGTCGAACAAGTCGACAAATTATTGAGCCCAGAGCTAGTCGAATAACCT-A
1 TTGTGCCTAGCACTAGTCGAACAAGTCGACAAATTATTGAGCCCAGCGCTAGTC-AATAA-CTGA
*
55776670 TGATAG
64 CGATAG
* * * *
55776676 TTGTGCC-CGACACTAGTTGAACAAGTCAACAAATTATT-ATGCCCAGCGCTAGTCGGATAACTG
1 TTGTGCCTAG-CACTAGTCGAACAAGTCGACAAATTATTGA-GCCCAGCGCTAGTC-AATAACTG
55776739 ACGATAG
63 ACGATAG
55776746 TTGTGC
1 TTGTGC
55776752 TCACCAAGAA
Statistics
Matches: 130, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
69 4 0.03
70 123 0.95
71 3 0.02
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (69 bp):
TTGTGCCTAGCACTAGTCGAACAAGTCGACAAATTATTGAGCCCAGCGCTAGTCAATAACTGACG
ATAG
Found at i:55782021 original size:18 final size:19
Alignment explanation
Indices: 55781998--55782037 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
55781988 AGTAATATTT
*
55781998 TATGTTATGTTATTT-TAA
1 TATGTTATGTAATTTATAA
55782016 TATGTTATGTAATTTATAA
1 TATGTTATGTAATTTATAA
55782035 TAT
1 TAT
55782038 ATAAAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (19 bp):
TATGTTATGTAATTTATAA
Found at i:55788124 original size:17 final size:17
Alignment explanation
Indices: 55788079--55788132 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
55788069 AATTACAGAA
* *
55788079 ATATGGGCCCATATACTC
1 ATAT-GGCCCATATGCCC
*
55788097 ATTAGGGCCCATATGCCC
1 A-TATGGCCCATATGCCC
*
55788115 ATATGGCCCACATGCCC
1 ATATGGCCCATATGCCC
55788132 A
1 A
55788133 ATTTAGCCTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
17 15 0.50
18 13 0.43
19 2 0.07
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.22
Consensus pattern (17 bp):
ATATGGCCCATATGCCC
Found at i:55792677 original size:79 final size:81
Alignment explanation
Indices: 55792568--55792750 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
55792558 TACTCGTTCA
* *
55792568 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
55792631 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
55792648 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
55792711 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
55792727 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
55792751 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:55792750 original size:40 final size:40
Alignment explanation
Indices: 55792547--55792750 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
55792537 CGGAATTTAA
** *
55792547 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55792587 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55792627 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55792666 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
55792706 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
55792746 CCGGA
1 CCGGA
55792751 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:55794558 original size:10 final size:10
Alignment explanation
Indices: 55794543--55794580 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
55794533 TTGGGTTAAG
55794543 ATTGAGCTGA
1 ATTGAGCTGA
55794553 ATTGAGCTCGA
1 ATTGAGCT-GA
55794564 A-TGAGCTGA
1 ATTGAGCTGA
*
55794573 CTTGAGCT
1 ATTGAGCT
55794581 TGAGTGAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 20 0.80
11 3 0.12
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (10 bp):
ATTGAGCTGA
Found at i:55794568 original size:20 final size:20
Alignment explanation
Indices: 55794545--55794591 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
55794535 GGGTTAAGAT
55794545 TGAGCTGAATTGAGCTCGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
55794565 TGAGCTGACTTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAA
55794585 TGAGCTG
1 TGAGCTG
55794592 GAAACGAGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.23, C:0.15, G:0.34, T:0.28
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:55796126 original size:18 final size:16
Alignment explanation
Indices: 55796087--55796130 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 16
55796077 TCGATTGCTT
55796087 TCTC-CTTTTTCACCC
1 TCTCTCTTTTTCACCC
55796102 T-TCTCTTTTTCAAACCC
1 TCTCTCTTTTTC--ACCC
55796119 TCTCTCTTTTTC
1 TCTCTCTTTTTC
55796131 CATGACACTC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 2 0.08
15 8 0.32
17 5 0.20
18 10 0.40
ACGTcount: A:0.09, C:0.39, G:0.00, T:0.52
Consensus pattern (16 bp):
TCTCTCTTTTTCACCC
Found at i:55797112 original size:12 final size:11
Alignment explanation
Indices: 55797097--55797139 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
55797087 TTTGTCACCT
55797097 TTTTTTTGTCGA
1 TTTTTTT-TCGA
55797109 TTTTTTTTC-A
1 TTTTTTTTCGA
*
55797119 CTTTTTTTTTGA
1 -TTTTTTTTCGA
55797131 TTTTTTTTC
1 TTTTTTTTC
55797140 AATCATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 1 0.04
11 18 0.67
12 8 0.30
ACGTcount: A:0.07, C:0.09, G:0.07, T:0.77
Consensus pattern (11 bp):
TTTTTTTTCGA
Found at i:55797149 original size:26 final size:23
Alignment explanation
Indices: 55797060--55797163 Score: 93
Period size: 26 Copynumber: 4.1 Consensus size: 23
55797050 CTCGCAAGAC
55797060 TTTTCACTTTATTTTTACTTGATTTTT
1 TTTTCACTTT-TTTTT--TTGA-TTTT
*
55797087 TTTGTCACCTTTTTTTTGTCGATTTT
1 TTT-TCA-CTTTTTTTT-TTGATTTT
55797113 TTTTCAC-TTTTTTTTTGATTTT
1 TTTTCACTTTTTTTTTTGATTTT
*
55797135 TTTTCAATCATTTTTTTTTTGAATTT
1 TTTTC-A-C-TTTTTTTTTTGATTTT
55797161 TTT
1 TTT
55797164 GAATTTTTTT
Statistics
Matches: 67, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
22 12 0.18
23 8 0.12
24 2 0.03
25 3 0.04
26 24 0.36
27 6 0.09
28 8 0.12
29 4 0.06
ACGTcount: A:0.12, C:0.11, G:0.06, T:0.71
Consensus pattern (23 bp):
TTTTCACTTTTTTTTTTGATTTT
Done.