Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001111.1 Hibiscus syriacus cultivar Beakdansim tig00002193_pilon, whole genome shotgun sequence
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: 3891333
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 17
Found at i:1959155 original size:54 final size:53
Alignment explanation
Indices: 1959039--1959159 Score: 129
Period size: 54 Copynumber: 2.2 Consensus size: 53
1959029 TATTAAATAT
* *** * *
1959039 ATAAATAATAT-TATTCATTATTAATAATTTAATAATATTATTTCTATGAAATTA
1 ATAAATAATATAAATTC--TATTAATAATTTAATAATATTATTAAAATAAAAGTA
*
1959093 ATAAATAATATAAATTCTATTAATAATTTATTATATATTATTAAAATAAAAGT-
1 ATAAATAATATAAATTCTATTAATAATTTAATA-ATATTATTAAAATAAAAGTA
1959146 ATAATATAATATAA
1 ATAA-ATAATATAA
1959160 TTGATTATTT
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
53 19 0.33
54 34 0.60
55 4 0.07
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (53 bp):
ATAAATAATATAAATTCTATTAATAATTTAATAATATTATTAAAATAAAAGTA
Found at i:1959185 original size:42 final size:41
Alignment explanation
Indices: 1959115--1959200 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 41
1959105 AATTCTATTA
* *
1959115 ATAATTTATTATATATTATTAAAATAAAAGTATAATATAAT
1 ATAATTGATTATATATTATTAAAATAAAAATATAATATAAT
*
1959156 ATAATTGATTAT-T-TTATTATAATATTAAAAATATAATATTAT
1 ATAATTGATTATATATTATTA-AA-A-TAAAAATATAATATAAT
1959198 ATA
1 ATA
1959201 TTAGAAATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
39 6 0.15
40 3 0.08
41 12 0.31
42 18 0.46
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (41 bp):
ATAATTGATTATATATTATTAAAATAAAAATATAATATAAT
Found at i:1959231 original size:23 final size:23
Alignment explanation
Indices: 1959171--1959249 Score: 81
Period size: 23 Copynumber: 3.4 Consensus size: 23
1959161 TGATTATTTT
*
1959171 ATTATAATATTAAAAATA-TAAT-
1 ATTAT-ATTTTAAAAATATTAATA
* *
1959193 ATTATATATTAGAAATATTAATA
1 ATTATATTTTAAAAATATTAATA
* *
1959216 AATATATTTTAAAAATTTTAATA
1 ATTATATTTTAAAAATATTAATA
1959239 ATTAATATTTT
1 ATT-ATATTTT
1959250 GATTAAAATG
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
21 11 0.23
22 9 0.19
23 21 0.44
24 7 0.15
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (23 bp):
ATTATATTTTAAAAATATTAATA
Found at i:1959799 original size:148 final size:147
Alignment explanation
Indices: 1959532--1959826 Score: 581
Period size: 148 Copynumber: 2.0 Consensus size: 147
1959522 AATGTTTTTG
1959532 CAGGGTTATTTTCGGAATGCTCATTGCTCTGCCCTTACAATACTCTATTATGTGCTTCTGGGACT
1 CAGGGTTATTTTCGGAATGCTCATTGCTCTGCCCTTACAATACTCTATTATGTGCTTCTGGGACT
1959597 GTAATTTCTCGGGAAACAAACAACTAGGAAAGAAAATGAAAAACACAATCCGATTGCTTGGATGG
66 GTAATTTCTCGGGAAACAAACAACTAGGAAAGAAAATGAAAAACACAATCCGATTGCTTGGATGG
1959662 ACAACTGGACTGAAAAA
131 ACAACTGGACTGAAAAA
1959679 CAGGGTTATTTTCGGAATGCTCATTGCTCTGCCCATTACAATACTCTATTATGTGCTTCTGGGAC
1 CAGGGTTATTTTCGGAATGCTCATTGCTCTGCCC-TTACAATACTCTATTATGTGCTTCTGGGAC
1959744 TGTAATTTCTCGGGAAACAAACAACTAGGAAAGAAAATGAAAAACACAATCCGATTGCTTGGATG
65 TGTAATTTCTCGGGAAACAAACAACTAGGAAAGAAAATGAAAAACACAATCCGATTGCTTGGATG
1959809 GACAACTGGACTGAAAAA
130 GACAACTGGACTGAAAAA
1959827 TATGCCCTCG
Statistics
Matches: 147, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
147 34 0.23
148 113 0.77
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (147 bp):
CAGGGTTATTTTCGGAATGCTCATTGCTCTGCCCTTACAATACTCTATTATGTGCTTCTGGGACT
GTAATTTCTCGGGAAACAAACAACTAGGAAAGAAAATGAAAAACACAATCCGATTGCTTGGATGG
ACAACTGGACTGAAAAA
Found at i:1964766 original size:33 final size:33
Alignment explanation
Indices: 1964702--1964769 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
1964692 TTTTAAAAAG
* *
1964702 TTTACAATAAGTTGTAATTAAATTATTATTTAA
1 TTTAAAATAAGTTGTAATTAAATTATAATTTAA
*
1964735 TTTAAAATAAGTTTTAAATTAAA-TATAATTTAA
1 TTTAAAATAAGTTGT-AATTAAATTATAATTTAA
1964768 TT
1 TT
1964770 GTTTAATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (33 bp):
TTTAAAATAAGTTGTAATTAAATTATAATTTAA
Found at i:1965648 original size:23 final size:24
Alignment explanation
Indices: 1965597--1965653 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
1965587 TGACATAGAT
1965597 TAAATAAATATTTTTTATTAGTTA
1 TAAATAAATATTTTTTATTAGTTA
*
1965621 TAAATAAATATTTTTTATTATTTA
1 TAAATAAATATTTTTTATTAGTTA
1965645 -AAATAAATA
1 TAAATAAATA
1965654 CAAAACTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 9 0.28
24 23 0.72
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
TAAATAAATATTTTTTATTAGTTA
Found at i:1966763 original size:4 final size:4
Alignment explanation
Indices: 1966754--1966779 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
1966744 ACCAAAAACA
1966754 CATT CATT CATT CATT CATT CATT CA
1 CATT CATT CATT CATT CATT CATT CA
1966780 CATCTTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.46
Consensus pattern (4 bp):
CATT
Found at i:1970602 original size:16 final size:16
Alignment explanation
Indices: 1970581--1970612 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1970571 TCGGCATTGT
1970581 AAGTCGGTTCATGGAG
1 AAGTCGGTTCATGGAG
1970597 AAGTCGGTTCATGGAG
1 AAGTCGGTTCATGGAG
1970613 GAGCCGGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.38, T:0.25
Consensus pattern (16 bp):
AAGTCGGTTCATGGAG
Found at i:1970620 original size:16 final size:16
Alignment explanation
Indices: 1970585--1970621 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
1970575 CATTGTAAGT
*
1970585 CGGTTCATGGAGAAGT
1 CGGTTCATGGAGAAGC
*
1970601 CGGTTCATGGAGGAGC
1 CGGTTCATGGAGAAGC
1970617 CGGTT
1 CGGTT
1970622 TATTCACATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.19, C:0.16, G:0.41, T:0.24
Consensus pattern (16 bp):
CGGTTCATGGAGAAGC
Found at i:1972934 original size:18 final size:17
Alignment explanation
Indices: 1972907--1972950 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
1972897 GTAACGACAA
1972907 AAATATATTTAACTTTATT
1 AAATA-ATTTAACTTTA-T
* *
1972926 AAATAATTTTATTTTAT
1 AAATAATTTAACTTTAT
1972943 AAATAATT
1 AAATAATT
1972951 AAATACATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 9 0.39
18 9 0.39
19 5 0.22
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
AAATAATTTAACTTTAT
Found at i:1973062 original size:22 final size:20
Alignment explanation
Indices: 1973037--1973086 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 20
1973027 TAATAAAAAT
1973037 AAATTA-AATTAAAAAATATTGA
1 AAATTATAA-TAAAAAAT-TT-A
1973059 AAATTATTAATAAAAAATTTA
1 AAATTA-TAATAAAAAATTTA
1973080 AAATTAT
1 AAATTAT
1973087 TATTTCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 1 0.04
21 7 0.27
22 8 0.31
23 8 0.31
24 2 0.08
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
AAATTATAATAAAAAATTTA
Found at i:1973082 original size:21 final size:23
Alignment explanation
Indices: 1973046--1973088 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
1973036 TAAATTAAAT
1973046 TAAAAAATATTGAAAATTATTAA
1 TAAAAAATATTGAAAATTATTAA
1973069 TAAAAAAT-TT-AAAATTATTA
1 TAAAAAATATTGAAAATTATTA
1973089 TTTCTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 10 0.50
22 2 0.10
23 8 0.40
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (23 bp):
TAAAAAATATTGAAAATTATTAA
Found at i:1973198 original size:18 final size:17
Alignment explanation
Indices: 1973166--1973228 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 17
1973156 ATATATATAT
*
1973166 AATTATTTGTAAAATTA
1 AATTATTTATAAAATTA
*
1973183 AATTATTTAATAAAATAA
1 AATTATTT-ATAAAATTA
* *
1973201 AATTAATTTATTAATTTA
1 AATT-ATTTATAAAATTA
1973219 AATATATTTA
1 AAT-TATTTA
1973229 ATTCCAAGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
17 8 0.21
18 25 0.66
19 5 0.13
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (17 bp):
AATTATTTATAAAATTA
Found at i:1973647 original size:18 final size:19
Alignment explanation
Indices: 1973624--1973661 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
1973614 TAAATTTAAT
1973624 AAAATAATATT-T-TTAAAA
1 AAAATAA-ATTGTGTTAAAA
1973642 AAAATAAATTGTGTTAAAA
1 AAAATAAATTGTGTTAAAA
1973661 A
1 A
1973662 TATATATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.17
18 8 0.44
19 7 0.39
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (19 bp):
AAAATAAATTGTGTTAAAA
Found at i:1975123 original size:18 final size:21
Alignment explanation
Indices: 1975079--1975126 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
1975069 CTCCTAACTA
*
1975079 GAGTATCGATACTTTTATACT
1 GAGTATCGATACTTATATACT
*
1975100 GGGTATCGATAC-TATAT-C-
1 GAGTATCGATACTTATATACT
1975118 GAGTATCGA
1 GAGTATCGA
1975127 GTATCAATAC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 8 0.33
19 1 0.04
20 4 0.17
21 11 0.46
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (21 bp):
GAGTATCGATACTTATATACT
Found at i:1976992 original size:20 final size:20
Alignment explanation
Indices: 1976967--1977015 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
1976957 ATTGAATCAA
*
1976967 TATCGATACCGAAGGGGAA-G
1 TATCGATACC-AAAGGGAAGG
1976987 TATCGATACCAAAGGGAAGG
1 TATCGATACCAAAGGGAAGG
*
1977007 TATTGATAC
1 TATCGATAC
1977016 TATTTTGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.37, C:0.14, G:0.29, T:0.20
Consensus pattern (20 bp):
TATCGATACCAAAGGGAAGG
Found at i:1977066 original size:19 final size:19
Alignment explanation
Indices: 1977042--1977112 Score: 81
Period size: 19 Copynumber: 3.5 Consensus size: 19
1977032 GCAAAAAGGA
1977042 TATCGATACCATAGGAGGG
1 TATCGATACCATAGGAGGG
*
1977061 TATCGATACCATAGTATGGTAG
1 TATCGATACCATAGGA-GG--G
1977083 TATCGATACCAT-GGTAAGGG
1 TATCGATACCATAGG--AGGG
1977103 TATCGATACC
1 TATCGATACC
1977113 CGGTAACATC
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
19 15 0.33
20 13 0.29
21 1 0.02
22 15 0.33
23 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (19 bp):
TATCGATACCATAGGAGGG
Found at i:1977088 original size:22 final size:19
Alignment explanation
Indices: 1977042--1977112 Score: 88
Period size: 22 Copynumber: 3.5 Consensus size: 19
1977032 GCAAAAAGGA
*
1977042 TATCGATACCATAGGAGGG
1 TATCGATACCATAGTAGGG
1977061 TATCGATACCATAGTATGGTAG
1 TATCGATACCATAGTA-GG--G
*
1977083 TATCGATACCATGGTAAGGG
1 TATCGATACCATAGT-AGGG
1977103 TATCGATACC
1 TATCGATACC
1977113 CGGTAACATC
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
19 15 0.33
20 13 0.28
22 17 0.37
23 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (19 bp):
TATCGATACCATAGTAGGG
Found at i:1977161 original size:53 final size:53
Alignment explanation
Indices: 1977100--1977218 Score: 220
Period size: 53 Copynumber: 2.2 Consensus size: 53
1977090 ACCATGGTAA
* *
1977100 GGGTATCGATACCCGGTAACATCAAATATAATATTGGTATCGATATCGGAAGG
1 GGGTATCGATACCCGGTAACATCAAATAAAATATTGGTATCGATACCGGAAGG
1977153 GGGTATCGATACCCGGTAACATCAAATAAAATATTGGTATCGATACCGGAAGG
1 GGGTATCGATACCCGGTAACATCAAATAAAATATTGGTATCGATACCGGAAGG
1977206 GGGTATCGATACC
1 GGGTATCGATACC
1977219 ATAGTATAGT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
53 64 1.00
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (53 bp):
GGGTATCGATACCCGGTAACATCAAATAAAATATTGGTATCGATACCGGAAGG
Found at i:1977933 original size:54 final size:54
Alignment explanation
Indices: 1977584--1977915 Score: 502
Period size: 54 Copynumber: 6.1 Consensus size: 54
1977574 CAAATAGGCG
*
1977584 CTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGCTTCGGCA
1 CTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGGCA
*
1977638 CTAAGTGTGCATTTTACGGAATTCATCCTATGTGGATGAATAACCGTTTCGGCA
1 CTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGGCA
* ** *
1977692 CTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAATAGTTTCGGTA
1 CTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGGCA
* *
1977746 CTAAGTGCGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTCGGCA
1 CTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGGCA
* * * * * * *
1977800 CTACGTGTGCATTTCACAGAATTAATCCTATGTCGATGAATAACCATTTTGACA
1 CTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGGCA
* * *
1977854 CTAAGTGTTCATTTCACGGAATTCATCCTATGTGGATGAATAACTGTTTTGGCA
1 CTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGGCA
1977908 CTAAGTGT
1 CTAAGTGT
1977916 CCAAAACACG
Statistics
Matches: 250, Mismatches: 28, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 250 1.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (54 bp):
CTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGGCA
Found at i:1977964 original size:162 final size:162
Alignment explanation
Indices: 1977615--1977974 Score: 429
Period size: 162 Copynumber: 2.2 Consensus size: 162
1977605 TTCATCCTAT
* * * * * *
1977615 GTGGATGAATAACCGCT-TCGGCACTAAGTGTGCATTTTACGGAATTCATCCTATGTGGATGAAT
1 GTGGATGAATAACC-ATATCGGCACTACGTGTGCATTTCACAGAATTAATCCTATGTCGATGAAT
* *
1977679 AACCGTTTCGGCACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAATAGTTTCGG
65 AACCATTTCGACACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAATAGTTTCGG
* *** * ** *
1977744 TACTAAGTGCGCATTTCACGGAATTCATCCTAT
130 CACTAAGTGCGCAAAACACGAAATTCATAATAC
*
1977777 GTGGATGAATAACCATTTCGGCACTACGTGTGCATTTCACAGAATTAATCCTATGTCGATGAATA
1 GTGGATGAATAACCATATCGGCACTACGTGTGCATTTCACAGAATTAATCCTATGTCGATGAATA
* * * *
1977842 ACCATTTTGACACTAAGTGTTCATTTCACGGAATTCATCCTATGTGGATGAATAACT-GTTTTGG
66 ACCATTTCGACACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAA-TAGTTTCGG
1977906 CACTAAGTGTC-CAAAACACGAAATTCATAATAC
130 CACTAAGTG-CGCAAAACACGAAATTCATAATAC
** * * * *
1977939 GTTTATGAATGACCGTATGGGCACTACGGGTGCATT
1 GTGGATGAATAACCATATCGGCACTACGTGTGCATT
1977975 ACAATGAAAT
Statistics
Matches: 168, Mismatches: 27, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
161 1 0.01
162 165 0.98
163 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.32
Consensus pattern (162 bp):
GTGGATGAATAACCATATCGGCACTACGTGTGCATTTCACAGAATTAATCCTATGTCGATGAATA
ACCATTTCGACACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAATAGTTTCGGC
ACTAAGTGCGCAAAACACGAAATTCATAATAC
Found at i:1983989 original size:20 final size:19
Alignment explanation
Indices: 1983960--1984011 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
1983950 TGATTCAATC
*
1983960 AGTATCGATACCGAAGGGGA
1 AGTATAGATACCGAA-GGGA
*
1983980 AGTATTGATACCGAAGGGA
1 AGTATAGATACCGAAGGGA
1983999 AGGTATAGATACC
1 A-GTATAGATACC
1984012 ATTTTGAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 5 0.17
20 24 0.83
ACGTcount: A:0.37, C:0.13, G:0.31, T:0.19
Consensus pattern (19 bp):
AGTATAGATACCGAAGGGA
Found at i:1984076 original size:19 final size:19
Alignment explanation
Indices: 1984033--1984069 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1984023 GAATGCAAAA
1984033 ATGGTATCGATACCATAGG
1 ATGGTATCGATACCATAGG
*
1984052 AGGGTATCGATACCATAG
1 ATGGTATCGATACCATAG
1984070 TGTGGTAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.24
Consensus pattern (19 bp):
ATGGTATCGATACCATAGG
Found at i:1984586 original size:54 final size:54
Alignment explanation
Indices: 1984529--1985005 Score: 704
Period size: 54 Copynumber: 8.9 Consensus size: 54
1984519 ACCAAATAGG
* *** * * * * * *
1984529 CACTAATTGTGCATTTCGTAGAATTTATCTTATGTTGACGAATAACCGTTTTGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
*
1984583 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTTGA
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
* *
1984637 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACAGTTTCAA
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
* *
1984691 CACTAAGTGTGCATTTCATGGAATTCATCC-ATGTGGATGAATAACCATTTCGA
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
* * * * *
1984744 CATTAAGTGTGTATTTCACAGAATTCATCCTATGTGGATGAATAACCATTTCGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
*
1984798 CACTAAGTGTGCATTTTACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
1984852 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
* * *
1984906 CACTAAGTGTGCATTTCACGGAATTTATCCTATGTGGATGAATAACCATTTCGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
* * *
1984960 CACTAAGTGTGTATTTAACGAAATTCATCCTATGTGGATGAATAAC
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAAC
1985006 GTATGTGGAT
Statistics
Matches: 387, Mismatches: 35, Indels: 2
0.91 0.08 0.00
Matches are distributed among these distances:
53 46 0.12
54 341 0.88
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (54 bp):
CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
Found at i:1984833 original size:161 final size:162
Alignment explanation
Indices: 1984529--1985256 Score: 913
Period size: 161 Copynumber: 4.4 Consensus size: 162
1984519 ACCAAATAGG
* *** * * * * * * *
1984529 CACTAATTGTGCATTTCGTAGAATTTATCTTATGTTGACGAATAACCGTTTTGGCACTAAGTGTG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTCGACACTAAGTGTG
* * *
1984594 CATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTTGACACTAAGTGTGCATTTCACGGA
66 CATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTCGGCACTAAGTGTGCATTTCACGGA
1984659 ATTCATCCTATGTGGATGAATAACAGTTTCAA
131 ATTCATCCTATGTGGATGAATAACAGTTTCAA
* *
1984691 CACTAAGTGTGCATTTCATGGAATTCATCC-ATGTGGATGAATAACCATTTCGACATTAAGTGTG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTCGACACTAAGTGTG
* * *
1984755 TATTTCACAGAATTCATCCTATGTGGATGAATAACCATTTCGGCACTAAGTGTGCATTTTACGGA
66 CATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTCGGCACTAAGTGTGCATTTCACGGA
* *
1984820 ATTCATCCTATGTGGATGAATAACCGTTTCGA
131 ATTCATCCTATGTGGATGAATAACAGTTTCAA
*
1984852 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGACACTAAGTGTG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTCGACACTAAGTGTG
* * * *
1984917 CATTTCACGGAATTTATCCTATGTGGATGAATAACCATTTCGGCACTAAGTGTGTATTTAACGAA
66 CATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTCGGCACTAAGTGTGCATTTCACGGA
1984982 ATTCATCCTATGTGGATGAATAACGTATGTGGATGAAT-AA
131 ATTCATCCTATGTGGATGAATAAC--A-GT---T---TCAA
* * * * * * *
1985022 CCGTTTTGGCACTACGTGTGCATTTAACAGAATTAATCCTATATGGATGAATAACCATTTTGGCA
1 ---------CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTCGACA
* *
1985087 CTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAAT-ACCGTTTCGGCACTAGGTGTGCA
57 CTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTCGGCACTAAGTGTGCA
* * *
1985151 TTTCACGGAATTCATCCTCTGTGGATGAATAACCGTTTCGA
122 TTTCACGGAATTCATCCTATGTGGATGAATAACAGTTTCAA
* *
1985192 CACTAAGTGTACATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTCGAAACTAAGTGTG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTCGACACTAAGTGTG
1985257 AAAAACATGG
Statistics
Matches: 490, Mismatches: 56, Indels: 41
0.83 0.10 0.07
Matches are distributed among these distances:
161 202 0.41
162 140 0.29
165 2 0.00
168 1 0.00
169 1 0.00
170 2 0.00
171 1 0.00
172 1 0.00
175 2 0.00
178 50 0.10
179 88 0.18
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (162 bp):
CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTCGACACTAAGTGTG
CATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTCGGCACTAAGTGTGCATTTCACGGA
ATTCATCCTATGTGGATGAATAACAGTTTCAA
Found at i:1985012 original size:17 final size:17
Alignment explanation
Indices: 1984990--1985022 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
1984980 AAATTCATCC
1984990 TATGTGGATGAATAACG
1 TATGTGGATGAATAACG
1985007 TATGTGGATGAATAAC
1 TATGTGGATGAATAAC
1985023 CGTTTTGGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.30
Consensus pattern (17 bp):
TATGTGGATGAATAACG
Found at i:1985061 original size:71 final size:71
Alignment explanation
Indices: 1984936--1985076 Score: 212
Period size: 71 Copynumber: 2.0 Consensus size: 71
1984926 GAATTTATCC
* * *
1984936 TATGTGGATGAATAACCATTTCGGCACTAAGTGTGTATTTAACGAAATTCATCCTATGTGGATGA
1 TATGTGGATGAATAACCATTTCGGCACTAAGTGTGCATTTAACGAAATTAATCCTATATGGATGA
1985001 ATAACG
66 ATAACG
* * *
1985007 TATGTGGATGAATAACCGTTTTGGCACTACGTGTGCATTTAAC-AGAATTAATCCTATATGGATG
1 TATGTGGATGAATAACCATTTCGGCACTAAGTGTGCATTTAACGA-AATTAATCCTATATGGATG
1985071 AATAAC
65 AATAAC
1985077 CATTTTGGCA
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
70 1 0.02
71 62 0.98
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.33
Consensus pattern (71 bp):
TATGTGGATGAATAACCATTTCGGCACTAAGTGTGCATTTAACGAAATTAATCCTATATGGATGA
ATAACG
Found at i:1985095 original size:54 final size:54
Alignment explanation
Indices: 1985007--1985256 Score: 358
Period size: 54 Copynumber: 4.6 Consensus size: 54
1984997 ATGAATAACG
* * * * *
1985007 TATGTGGATGAATAACCGTTTTGGCACTACGTGTGCATTTAACAGAATTAATCC
1 TATGTGGATGAATAACCGTTTCGGCACTAAGTGTGCATTTCACGGAATTCATCC
* * *
1985061 TATATGGATGAATAACCATTTTGGCACTAAGTGTGCATTTCACGGAATTCATCC
1 TATGTGGATGAATAACCGTTTCGGCACTAAGTGTGCATTTCACGGAATTCATCC
*
1985115 TATGTGGATGAAT-ACCGTTTCGGCACTAGGTGTGCATTTCACGGAATTCATCC
1 TATGTGGATGAATAACCGTTTCGGCACTAAGTGTGCATTTCACGGAATTCATCC
* * *
1985168 TCTGTGGATGAATAACCGTTTCGACACTAAGTGTACATTTCACGGAATTCATCC
1 TATGTGGATGAATAACCGTTTCGGCACTAAGTGTGCATTTCACGGAATTCATCC
* **
1985222 TATGTGGATGAATAACCATTTCGAAACTAAGTGTG
1 TATGTGGATGAATAACCGTTTCGGCACTAAGTGTG
1985257 AAAAACATGG
Statistics
Matches: 177, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
53 49 0.28
54 128 0.72
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.32
Consensus pattern (54 bp):
TATGTGGATGAATAACCGTTTCGGCACTAAGTGTGCATTTCACGGAATTCATCC
Found at i:1985110 original size:125 final size:125
Alignment explanation
Indices: 1984882--1985128 Score: 395
Period size: 125 Copynumber: 2.0 Consensus size: 125
1984872 GAATTCATCC
* * * *
1984882 TATGTGGATGAATAACCGTTTCGACACTAAGTGTGCATTTCACGGAATTTATCCTATGTGGATGA
1 TATGTGGATGAATAACCGTTTCGACACTAAGTGTGCATTTAACAGAATTAATCCTATATGGATGA
*
1984947 ATAACCATTTCGGCACTAAGTGTGTATTTAACGAAATTCATCCTATGTGGATGAATAACG
66 ATAACCATTTCGGCACTAAGTGTGCATTTAACGAAATTCATCCTATGTGGATGAATAACG
* * *
1985007 TATGTGGATGAATAACCGTTTTGGCACTACGTGTGCATTTAACAGAATTAATCCTATATGGATGA
1 TATGTGGATGAATAACCGTTTCGACACTAAGTGTGCATTTAACAGAATTAATCCTATATGGATGA
* * *
1985072 ATAACCATTTTGGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATA
66 ATAACCATTTCGGCACTAAGTGTGCATTTAACGAAATTCATCCTATGTGGATGAATA
1985129 CCGTTTCGGC
Statistics
Matches: 111, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
125 111 1.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (125 bp):
TATGTGGATGAATAACCGTTTCGACACTAAGTGTGCATTTAACAGAATTAATCCTATATGGATGA
ATAACCATTTCGGCACTAAGTGTGCATTTAACGAAATTCATCCTATGTGGATGAATAACG
Found at i:1985128 original size:179 final size:178
Alignment explanation
Indices: 1984828--1985183 Score: 550
Period size: 179 Copynumber: 2.0 Consensus size: 178
1984818 GAATTCATCC
* * * *
1984828 TATGTGGATGAATAACCGTTTCGACACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGA
1 TATGTGGATGAATAACCGTTTCGACACTAAGTGTGCATTTAACAGAATTAATCCTATATGGATGA
* *
1984893 ATAACCGTTTCGACACTAAGTGTGCATTTCACGGAATTTATCCTATGTGGATGAATAACCATTTC
66 ATAACCATTTCGACACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAAT-ACCATTTC
*
1984958 GGCACTAAGTGTGTATTTAACGAAATTCATCCTATGTGGATGAATAACG
130 GGCACTAAGTGTGCATTTAACGAAATTCATCCTATGTGGATGAATAACG
* * *
1985007 TATGTGGATGAATAACCGTTTTGGCACTACGTGTGCATTTAACAGAATTAATCCTATATGGATGA
1 TATGTGGATGAATAACCGTTTCGACACTAAGTGTGCATTTAACAGAATTAATCCTATATGGATGA
* * *
1985072 ATAACCATTTTGGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATACCGTTTCG
66 ATAACCATTTCGACACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATACCATTTCG
* * * *
1985137 GCACTAGGTGTGCATTTCACGGAATTCATCCTCTGTGGATGAATAAC
131 GCACTAAGTGTGCATTTAACGAAATTCATCCTATGTGGATGAATAAC
1985184 CGTTTCGACA
Statistics
Matches: 160, Mismatches: 17, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
178 50 0.31
179 110 0.69
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.33
Consensus pattern (178 bp):
TATGTGGATGAATAACCGTTTCGACACTAAGTGTGCATTTAACAGAATTAATCCTATATGGATGA
ATAACCATTTCGACACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATACCATTTCG
GCACTAAGTGTGCATTTAACGAAATTCATCCTATGTGGATGAATAACG
Found at i:1985196 original size:107 final size:108
Alignment explanation
Indices: 1985007--1985244 Score: 361
Period size: 107 Copynumber: 2.2 Consensus size: 108
1984997 ATGAATAACG
*
1985007 TATGTGGATGAATAACCGTTTTGGCACTACGTGTGCATTTAACAGAATTAATCCTATATGGATGA
1 TATGTGGATGAATAACCGTTTCGGCACTACGTGTGCATTTAACAGAATTAATCCTATATGGATGA
* * *
1985072 ATAACCATTTTGGCACTAAGTGTGCATTTCACGGAATTCATCC
66 ATAACCATTTCGACACTAAGTGTACATTTCACGGAATTCATCC
* * * * * *
1985115 TATGTGGATGAAT-ACCGTTTCGGCACTAGGTGTGCATTTCACGGAATTCATCCTCTGTGGATGA
1 TATGTGGATGAATAACCGTTTCGGCACTACGTGTGCATTTAACAGAATTAATCCTATATGGATGA
*
1985179 ATAACCGTTTCGACACTAAGTGTACATTTCACGGAATTCATCC
66 ATAACCATTTCGACACTAAGTGTACATTTCACGGAATTCATCC
*
1985222 TATGTGGATGAATAACCATTTCG
1 TATGTGGATGAATAACCGTTTCG
1985245 AAACTAAGTG
Statistics
Matches: 117, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
107 96 0.82
108 21 0.18
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.33
Consensus pattern (108 bp):
TATGTGGATGAATAACCGTTTCGGCACTACGTGTGCATTTAACAGAATTAATCCTATATGGATGA
ATAACCATTTCGACACTAAGTGTACATTTCACGGAATTCATCC
Found at i:1985288 original size:54 final size:54
Alignment explanation
Indices: 1985065--1985280 Score: 157
Period size: 54 Copynumber: 4.0 Consensus size: 54
1985055 TAATCCTATA
* ** * *** **
1985065 TGGATGAATAACCATTTTGGCACTAAGTGTGCATTTCACGGAATTCATCCTATG
1 TGGATGAATAACCATTTCGAAACTAAGTGTACAAAACACGGAATTCATAATATG
* ** * * *** ** *
1985119 TGGATGAAT-ACCGTTTCGGCACTAGGTGTGCATTTCACGGAATTCATCCTCTG
1 TGGATGAATAACCATTTCGAAACTAAGTGTACAAAACACGGAATTCATAATATG
* * *** **
1985172 TGGATGAATAACCGTTTCGACACTAAGTGTACATTTCACGGAATTCATCCTATG
1 TGGATGAATAACCATTTCGAAACTAAGTGTACAAAACACGGAATTCATAATATG
*
1985226 TGGATGAATAACCATTTCGAAACTAAGTGTGA-AAAACATGGAATTCATAATATG
1 TGGATGAATAACCATTTCGAAACTAAGTGT-ACAAAACACGGAATTCATAATATG
1985280 T
1 T
1985281 TTATGAATGA
Statistics
Matches: 144, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
53 49 0.34
54 94 0.65
55 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.31
Consensus pattern (54 bp):
TGGATGAATAACCATTTCGAAACTAAGTGTACAAAACACGGAATTCATAATATG
Found at i:1985304 original size:340 final size:340
Alignment explanation
Indices: 1984667--1985304 Score: 936
Period size: 340 Copynumber: 1.9 Consensus size: 340
1984657 GAATTCATCC
* ** * *
1984667 TATGTGGATGAATAACAGTTTCAACACTAAGTGTGCATTTCATGGAATTCATCCATGTGGATGAA
1 TATGTGGATGAATAACAGTTTCAACACTAAGTGTGCATTTAACAGAATTAATCCATATGGATGAA
* *
1984732 TAACCATTTCGACATTAAGTGTGTATTTCACAGAATTCATCCTATGTGGATGAATAACCATTTCG
66 TAACCATTTCGACACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACCATTTCG
*
1984797 GCACTAAGTGTGCATTTTACGGAATTCATCCTATGTGGATGAATAACCGTTTCGACACTAAGTGT
131 GCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGACACTAAGTGT
* * * * ***
1984862 GCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGACACTAAGTGTGCATTTCACGG
196 ACATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTCGAAACTAAGTGTGAAAAACACGG
* ** *
1984927 AATTTATCCTATGTGGATGAATAACCATTTCGGCACTAAGTGTGTATTTAACGAAATTCATCCTA
261 AATTCATAATATGTGGATGAATAACCATATCGGCACTAAGTGTGTATTTAACGAAATTCATCCTA
1984992 TGTGGATGAATAACG
326 TGTGGATGAATAACG
* *** *
1985007 TATGTGGATGAATAACCGTTTTGGCACTACGTGTGCATTTAACAGAATTAATCCTATATGGATGA
1 TATGTGGATGAATAACAGTTTCAACACTAAGTGTGCATTTAACAGAATTAATCC-ATATGGATGA
* * * *
1985072 ATAACCATTTTGGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAAT-ACCGTTTC
65 ATAACCATTTCGACACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACCATTTC
* *
1985136 GGCACTAGGTGTGCATTTCACGGAATTCATCCTCTGTGGATGAATAACCGTTTCGACACTAAGTG
130 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGACACTAAGTG
*
1985201 TACATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTCGAAACTAAGTGTGAAAAACATG
195 TACATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTCGAAACTAAGTGTGAAAAACACG
** * * *
1985266 GAATTCATAATATGTTTATGAATGACCGTATGGGCACTA
260 GAATTCATAATATGTGGATGAATAACCATATCGGCACTA
1985305 CGGGTGCATT
Statistics
Matches: 261, Mismatches: 36, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
340 201 0.77
341 60 0.23
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.32
Consensus pattern (340 bp):
TATGTGGATGAATAACAGTTTCAACACTAAGTGTGCATTTAACAGAATTAATCCATATGGATGAA
TAACCATTTCGACACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACCATTTCG
GCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGACACTAAGTGT
ACATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTCGAAACTAAGTGTGAAAAACACGG
AATTCATAATATGTGGATGAATAACCATATCGGCACTAAGTGTGTATTTAACGAAATTCATCCTA
TGTGGATGAATAACG
Found at i:1991079 original size:17 final size:17
Alignment explanation
Indices: 1991057--1991094 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
1991047 TTTAAAGGAG
1991057 CTAGTTTAATTAATGAA
1 CTAGTTTAATTAATGAA
*
1991074 CTAGTTTAATTAGTGAA
1 CTAGTTTAATTAATGAA
1991091 CTAG
1 CTAG
1991095 ATTCATTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (17 bp):
CTAGTTTAATTAATGAA
Found at i:1991191 original size:16 final size:18
Alignment explanation
Indices: 1991158--1991192 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1991148 ATAGCTTAAG
1991158 TTAATGAACCTACATGCT
1 TTAATGAACCTACATGCT
1991176 TTAATGAA-CT-CATGCT
1 TTAATGAACCTACATGCT
1991192 T
1 T
1991193 AAGTTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 2 0.12
18 8 0.47
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.37
Consensus pattern (18 bp):
TTAATGAACCTACATGCT
Found at i:1991215 original size:35 final size:36
Alignment explanation
Indices: 1991151--1991220 Score: 97
Period size: 35 Copynumber: 1.9 Consensus size: 36
1991141 TATGAATATA
1991151 GCTTAAGTTAATGAACCTACATGCTTTAATGAACTCAT
1 GCTTAAGTTAATGAA-C-ACATGCTTTAATGAACTCAT
* *
1991189 GCTTAAGTTAATTAA-ACATGGTTTAATGAACT
1 GCTTAAGTTAATGAACACATGCTTTAATGAACT
1991221 ACCATGCATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
35 16 0.53
38 14 0.47
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (36 bp):
GCTTAAGTTAATGAACACATGCTTTAATGAACTCAT
Found at i:1992131 original size:11 final size:11
Alignment explanation
Indices: 1992115--1992145 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
1992105 ATGAATGATA
1992115 AATAAAATAAC
1 AATAAAATAAC
*
1992126 AATAAAATAAT
1 AATAAAATAAC
1992137 AATAAAATA
1 AATAAAATA
1992146 CTACCCTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (11 bp):
AATAAAATAAC
Found at i:1999789 original size:20 final size:20
Alignment explanation
Indices: 1999741--1999795 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 20
1999731 ACTGGAAGGA
* *
1999741 GGTATCGGTACCATAGTAGG
1 GGTATCGATACCATAGTAAG
*
1999761 GTAGTATCGATACCATGGTAAG
1 G--GTATCGATACCATAGTAAG
1999783 GGTATCGATACCA
1 GGTATCGATACCA
1999796 GGCAACATCA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 13 0.43
22 17 0.57
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (20 bp):
GGTATCGATACCATAGTAAG
Found at i:1999800 original size:95 final size:95
Alignment explanation
Indices: 1999665--1999848 Score: 269
Period size: 95 Copynumber: 1.9 Consensus size: 95
1999655 ATACCGACGA
* * * * * *
1999665 GGTACTATCAATACCATAGTAAGGGTATCGATACCGGGCAATATCGAATCTAATATTGTTATCGA
1 GGTACTATCAATACCATAGTAAGGGTATCGATACCAGGCAACATCAAACCTAAAATTGGTATCGA
*
1999730 TACTGGAAGGAGGTATCGGTACCATAGTAG
66 TACCGGAAGGAGGTATCGGTACCATAGTAG
* * *
1999760 GGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGCAACATCAAACCTAAAATTGGTATCGA
1 GGTACTATCAATACCATAGTAAGGGTATCGATACCAGGCAACATCAAACCTAAAATTGGTATCGA
*
1999825 TACCGGAAGGGGGTATCGGTACCA
66 TACCGGAAGGAGGTATCGGTACCA
1999849 AAATATAGAA
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
95 78 1.00
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (95 bp):
GGTACTATCAATACCATAGTAAGGGTATCGATACCAGGCAACATCAAACCTAAAATTGGTATCGA
TACCGGAAGGAGGTATCGGTACCATAGTAG
Found at i:1999883 original size:95 final size:95
Alignment explanation
Indices: 1999683--1999888 Score: 227
Period size: 95 Copynumber: 2.2 Consensus size: 95
1999673 CAATACCATA
* * * * * * * *
1999683 GTAAGGGTATCGATACCGGGCAATATCGAATCTAATATTGTTATCGATACTGGAAGGAGGTATCG
1 GTAAGAGTATCGATACCAGGCAACATCAAACCTAAAATTGGTATCGATACCGGAAGGAGGTATCG
* * * * *
1999748 GTACCATAGTAGGGTAGTATCGATACCATG
66 GTACCAAAATAGAGAAGTATCGATACCAGG
* *
1999778 GTAAGGGTATCGATACCAGGCAACATCAAACCTAAAATTGGTATCGATACCGGAAGGGGGTATCG
1 GTAAGAGTATCGATACCAGGCAACATCAAACCTAAAATTGGTATCGATACCGGAAGGAGGTATCG
* *
1999843 GTACCAAAATATAGAAGTATC-AGTACTAGG
66 GTACCAAAATAGAGAAGTATCGA-TACCAGG
1999873 GT-AGTAGTATCGATAC
1 GTAAG-AGTATCGATAC
1999889 TATAGAGTCA
Statistics
Matches: 93, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
94 3 0.03
95 90 0.97
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (95 bp):
GTAAGAGTATCGATACCAGGCAACATCAAACCTAAAATTGGTATCGATACCGGAAGGAGGTATCG
GTACCAAAATAGAGAAGTATCGATACCAGG
Found at i:2000309 original size:27 final size:27
Alignment explanation
Indices: 2000277--2000446 Score: 121
Period size: 27 Copynumber: 7.1 Consensus size: 27
2000267 CTAAACCGAA
2000277 GCCATAACTAAAAATGCATGAAAGGAT
1 GCCATAACTAAAAATGCATGAAAGGAT
* * *
2000304 GCCATAGCTAAAAATGCATGAACGAAT
1 GCCATAACTAAAAATGCATGAAAGGAT
*
2000331 G-C--AA-T---AAGGCATGAAAGGAT
1 GCCATAACTAAAAATGCATGAAAGGAT
*
2000351 G-CAT---T---AAGGCATGAAAGGAT
1 GCCATAACTAAAAATGCATGAAAGGAT
2000371 GCCATAACTAAAAATGCATGAAAGGAT
1 GCCATAACTAAAAATGCATGAAAGGAT
* *
2000398 G-CAT---T---AAGGCATGGAAGGAT
1 GCCATAACTAAAAATGCATGAAAGGAT
*
2000418 GCTATAACTAAAAATGCATGAAAGGAT
1 GCCATAACTAAAAATGCATGAAAGGAT
2000445 GC
1 GC
2000447 ATTAAGGCAT
Statistics
Matches: 114, Mismatches: 13, Indels: 32
0.72 0.08 0.20
Matches are distributed among these distances:
20 45 0.39
21 5 0.04
23 2 0.02
24 3 0.03
26 4 0.04
27 55 0.48
ACGTcount: A:0.44, C:0.14, G:0.24, T:0.19
Consensus pattern (27 bp):
GCCATAACTAAAAATGCATGAAAGGAT
Found at i:2000371 original size:67 final size:67
Alignment explanation
Indices: 2000292--2000554 Score: 220
Period size: 67 Copynumber: 3.8 Consensus size: 67
2000282 AACTAAAAAT
* *
2000292 GCATGAAAGGATGCCATAGCTAAAAATGCATGAACGAATGCAATAAGGCATGAAAGGATGCATTA
1 GCATGAAAGGATGCCATAACTAAAAATGCATGAAAGAATGCAATAAGGCATGAAAGGATGCATTA
2000357 AG
66 AG
* * *
2000359 GCATGAAAGGATGCCATAACTAAAAATGCATGAAAGGATGCATTAAGGCATGGAAGGATGCTATA
1 GCATGAAAGGATGCCATAACTAAAAATGCATGAAAGAATGCAATAAGGCATGAAAGGATGC-AT-
*
2000424 ACTAAAAAT
64 --T---AAG
* * *
2000433 GCATGAAAGGATG-CAT---T---AAGGCATGAGAGGATTTCATAGCTAA-AAGTGCATGAAATG
1 GCATGAAAGGATGCCATAACTAAAAATGCATGA-AAGA----AT-GC-AATAAG-GCATGAAAGG
2000490 ATGCATTAAG
58 ATGCATTAAG
* *
2000500 GCATGAAAAGATGCCATAACTAAAAATGCATGAAATG-ATGCATTAAGGCATGAAA
1 GCATGAAAGGATGCCATAACTAAAAATGCATGAAA-GAATGCAATAAGGCATGAAA
2000555 TTATACCATA
Statistics
Matches: 155, Mismatches: 17, Indels: 48
0.70 0.08 0.22
Matches are distributed among these distances:
67 87 0.56
68 12 0.08
69 2 0.01
70 2 0.01
71 2 0.01
72 2 0.01
73 11 0.07
74 37 0.24
ACGTcount: A:0.43, C:0.12, G:0.24, T:0.21
Consensus pattern (67 bp):
GCATGAAAGGATGCCATAACTAAAAATGCATGAAAGAATGCAATAAGGCATGAAAGGATGCATTA
AG
Found at i:2000390 original size:47 final size:47
Alignment explanation
Indices: 2000339--2000648 Score: 449
Period size: 47 Copynumber: 6.6 Consensus size: 47
2000329 ATGCAATAAG
2000339 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAAT
* *
2000386 GCATGAAAGGATGCATTAAGGCATGGAAGGATGCTATAACTAAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAAT
* ** * *
2000433 GCATGAAAGGATGCATTAAGGCATGAGAGGATTTCATAGCTAAAAGT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAAT
* *
2000480 GCATGAAATGATGCATTAAGGCATGAAAAGATGCCATAACTAAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAAT
* ** *
2000527 GCATGAAATGATGCATTAAGGCATGAAATTATACCATAACTAAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAAT
* * *
2000574 GCATTAAAGGATGTATTAAGGCATGAAAGGATGCCATAGCTAAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAAT
* * *
2000621 ACACGAACGGATGCATTAAGGCATGAAA
1 GCATGAAAGGATGCATTAAGGCATGAAA
2000649 ATTAACGAAT
Statistics
Matches: 232, Mismatches: 31, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 232 1.00
ACGTcount: A:0.44, C:0.12, G:0.23, T:0.22
Consensus pattern (47 bp):
GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAAT
Found at i:2000415 original size:20 final size:20
Alignment explanation
Indices: 2000319--2000554 Score: 112
Period size: 20 Copynumber: 10.4 Consensus size: 20
2000309 AGCTAAAAAT
* * *
2000319 GCATGAACGAATGCAATAAG
1 GCATGAAAGGATGCATTAAG
2000339 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
2000359 GCATGAAAGGATGCCATAACTAAAAAT
1 GCATGAAAGGATG-CAT---T---AAG
2000386 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* *
2000406 GCATGGAAGGATGCTATAACTAAAAAT
1 GCATGAAAGGATGC-AT---T---AAG
2000433 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* *
2000453 GCATGAGAGGATTTCATAGCTAAAAG
1 GCATGAAAGGA-TGCAT---T--AAG
*
2000479 TGCATGAAATGATGCATTAAG
1 -GCATGAAAGGATGCATTAAG
* *
2000500 GCATGAAAAGATGCCATAACTAAAAAT
1 GCATGAAAGGATG-CAT---T---AAG
*
2000527 GCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
2000547 GCATGAAA
1 GCATGAAA
2000555 TTATACCATA
Statistics
Matches: 170, Mismatches: 18, Indels: 56
0.70 0.07 0.23
Matches are distributed among these distances:
20 79 0.46
21 15 0.09
23 4 0.02
24 4 0.02
26 15 0.09
27 53 0.31
ACGTcount: A:0.43, C:0.12, G:0.24, T:0.21
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:2001102 original size:68 final size:68
Alignment explanation
Indices: 2000993--2001194 Score: 282
Period size: 68 Copynumber: 3.0 Consensus size: 68
2000983 GGTTAATGGA
* *
2000993 CTAACTGTGT-ATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAATGACTAAGTGCCTTTG
1 CTAACTGT-TCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
2001057 AGGC
65 AGGC
*
2001061 CTAACTGTTCATTTGACAGAAAGGTGTCAATCATGCCAGTTATATGAAAGGCTAAGTGCCTTTGA
1 CTAACTGTTCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
2001126 GGC
66 GGC
* * * * * * *
2001129 CTGACTGTGCACTTGACAGGAAA-GTGTCAATGATGCCATTTAGATGAAAGGTTAAATGCCTTTG
1 CTAACTGTTCATTTGACA-GAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
2001193 AG
65 AG
2001195 TAAAAGACTA
Statistics
Matches: 121, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
67 1 0.01
68 116 0.96
69 4 0.03
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (68 bp):
CTAACTGTTCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
GGC
Found at i:2001288 original size:45 final size:45
Alignment explanation
Indices: 2001239--2001351 Score: 172
Period size: 45 Copynumber: 2.5 Consensus size: 45
2001229 TATAAAAGGC
* *
2001239 ATGAAAGGATGCCATAATTGAAATGCATATGTGTGCATTCTAGGT
1 ATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATAGGT
*
2001284 ATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATCGGT
1 ATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATAGGT
* * *
2001329 ATGAAAAGATGCTATAAATGAAA
1 ATGAAAGGATGCCATAATTGAAA
2001352 AGTCTTAATG
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28
Consensus pattern (45 bp):
ATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATAGGT
Found at i:2001379 original size:46 final size:46
Alignment explanation
Indices: 2001328--2001444 Score: 180
Period size: 46 Copynumber: 2.5 Consensus size: 46
2001318 GCATTATCGG
*
2001328 TATGAAAAGATGCTATAAATGAAAAGTCTTAATGATGCATTATAAA
1 TATGAAAAGATGCTATAAATGAAAAGGCTTAATGATGCATTATAAA
*
2001374 TATGAAAAGATACTATAAATGAAAAGGCTTAATGATGCATTATAAA
1 TATGAAAAGATGCTATAAATGAAAAGGCTTAATGATGCATTATAAA
** * *
2001420 TATGAATGGATGATATCAATGAAAA
1 TATGAAAAGATGCTATAAATGAAAA
2001445 TAAAGAGATA
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 64 1.00
ACGTcount: A:0.49, C:0.06, G:0.16, T:0.29
Consensus pattern (46 bp):
TATGAAAAGATGCTATAAATGAAAAGGCTTAATGATGCATTATAAA
Found at i:2008060 original size:163 final size:163
Alignment explanation
Indices: 2007786--2008124 Score: 563
Period size: 163 Copynumber: 2.1 Consensus size: 163
2007776 AACAGGGTTT
* *
2007786 AATATGACAAAACCGATAAAGCGCTACCGGATATGTTGAATGTATTAATTTCATTCAAATAAGTA
1 AATATGACAAAACCGATAAAGCGCTACCGGATATGTTGAATGTATCAATTCCATTCAAATAAGTA
*
2007851 TCGATACTTTTGAAATTTAAAAGAAAAGAAATAATAGCGCCTATAAAGTATCAATACTTTATAAA
66 TCGATACTTTTGAAATTTAAAAGAAAAGAAATAATAGCGACTATAAAGTATCAATACTTTATAAA
*
2007916 CATGTATCGATAAATAACAATATAACAGGTAAA
131 CATGTATCAATAAATAACAATATAACAGGTAAA
* *
2007949 ATTATGACAAAACC-AGTAAAGCGCTACCGGATATGTTGAATGTATCAATTCCATTTAAATAAGT
1 AATATGACAAAACCGA-TAAAGCGCTACCGGATATGTTGAATGTATCAATTCCATTCAAATAAGT
* * *
2008013 ATCGATACTTTTGGAATTTAAAAGAAAAGCAATAATAGCGACTATAAAGTATCGATACTTTATAA
65 ATCGATACTTTTGAAATTTAAAAGAAAAGAAATAATAGCGACTATAAAGTATCAATACTTTATAA
* *
2008078 ACATGTATCAATACATAATAATATAACAGGTAAA
130 ACATGTATCAATAAATAACAATATAACAGGTAAA
2008112 AATATGACAAAAC
1 AATATGACAAAAC
2008125 TGGTTTCATT
Statistics
Matches: 163, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
162 1 0.01
163 162 0.99
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.29
Consensus pattern (163 bp):
AATATGACAAAACCGATAAAGCGCTACCGGATATGTTGAATGTATCAATTCCATTCAAATAAGTA
TCGATACTTTTGAAATTTAAAAGAAAAGAAATAATAGCGACTATAAAGTATCAATACTTTATAAA
CATGTATCAATAAATAACAATATAACAGGTAAA
Found at i:2010750 original size:65 final size:66
Alignment explanation
Indices: 2010620--2010750 Score: 183
Period size: 65 Copynumber: 2.0 Consensus size: 66
2010610 AAGGGGGAAG
* * *
2010620 TGGGTGGAAAAATAGATGGAGTGGTGAAAGAAGTTGTGGAGTTGAGGGGTAAAGTTAAGATGGTG
1 TGGGTGGAAAAATAGATGGAGTGGTGAAAGAAGTTGTGGAATTGAGGGGTAAACTTAAGAGGGTG
2010685 A
66 A
* * * * *
2010686 TGGGTGG-AAAATTGATGGAGTGGTGAAGGAAGTTGTGGAATTGAGGGGTGAACTTACGGGGGTG
1 TGGGTGGAAAAATAGATGGAGTGGTGAAAGAAGTTGTGGAATTGAGGGGTAAACTTAAGAGGGTG
2010750 A
66 A
2010751 AGGGAGTGGT
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
65 50 0.88
66 7 0.12
ACGTcount: A:0.30, C:0.02, G:0.44, T:0.24
Consensus pattern (66 bp):
TGGGTGGAAAAATAGATGGAGTGGTGAAAGAAGTTGTGGAATTGAGGGGTAAACTTAAGAGGGTG
A
Found at i:2012744 original size:59 final size:59
Alignment explanation
Indices: 2012566--2012958 Score: 573
Period size: 59 Copynumber: 6.7 Consensus size: 59
2012556 TATCATATGG
* * * * *
2012566 AAATTCATACATTTATTATGAATCTCTTAACGA-TTT-GCACACACAGTGCCCAATACGG
1 AAATTCATACACTTAGTATGAATTTCTTAAC-ATTTTAGCACACAAAGTGCCCAATACGA
* *
2012624 AAATTCAAACACTTAGAATGAATTTCTTAAC-TTTT-GCACACAAAGTGCCCAATACGA
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATACGA
* *
2012681 AAATTCATACACTTAGTATGAATTTCTTAACATTTTATCACACAAAGTGACCAATACGA
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATACGA
* *
2012740 AAATTCATACACTTAGTATGAATTTCTTGACATTTTAGCACACAAAGTGTCCAATACGA
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATACGA
* * *
2012799 AAATTCATACATTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCGATACGG
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATACGA
*
2012858 AAATTCATAGACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTG-CCAAGTACGA
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAA-TACGA
* *
2012917 AAATTCATAAACTTAGTAGGAATTTCTTAACATTTT-GCACAC
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACAC
2012959 TTAGTGCCAT
Statistics
Matches: 306, Mismatches: 25, Indels: 8
0.90 0.07 0.02
Matches are distributed among these distances:
57 52 0.17
58 39 0.13
59 215 0.70
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (59 bp):
AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATACGA
Found at i:2013407 original size:20 final size:20
Alignment explanation
Indices: 2013382--2013437 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 20
2013372 CGATGTTTCC
*
2013382 TGGTATCGATACCCTTACCA
1 TGGTATCGATACCCATACCA
* *
2013402 TGGTATTGATACTACCATACTA
1 TGGTATCGATAC--CCATACCA
*
2013424 TGGTACCGATACCC
1 TGGTATCGATACCC
2013438 CCTTCCAGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 13 0.45
22 16 0.55
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (20 bp):
TGGTATCGATACCCATACCA
Found at i:2013481 original size:95 final size:95
Alignment explanation
Indices: 2013323--2013512 Score: 317
Period size: 95 Copynumber: 2.0 Consensus size: 95
2013313 CTATACTTCT
* * * *
2013323 ATACTATGGTACCGATACCCCCTTCCGGTATCGATACCAATTTTAGGTTCGATGTTTCCTGGTAT
1 ATACTATGGTACCGATACCCCCTTCCAGTATCGATACCAATTTTAGATTCGATATTGCCTGGTAT
**
2013388 CGATACCCTTACCATGGTATTGATACTACC
66 CGATACCCTTACCATGGTATCAATACTACC
*
2013418 ATACTATGGTACCGATACCCCCTTCCAGTATCGATACCAATTTTAGATTCGATATTGCTTGGTAT
1 ATACTATGGTACCGATACCCCCTTCCAGTATCGATACCAATTTTAGATTCGATATTGCCTGGTAT
2013483 CGATACCCTTACCATGGTATCAATACTACC
66 CGATACCCTTACCATGGTATCAATACTACC
2013513 TCATCGGTAT
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
95 88 1.00
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.33
Consensus pattern (95 bp):
ATACTATGGTACCGATACCCCCTTCCAGTATCGATACCAATTTTAGATTCGATATTGCCTGGTAT
CGATACCCTTACCATGGTATCAATACTACC
Found at i:2013549 original size:21 final size:21
Alignment explanation
Indices: 2013520--2013565 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
2013510 ACCTCATCGG
*
2013520 TATCGATATTGATTGAATCAA
1 TATCAATATTGATTGAATCAA
*
2013541 TATCAATATTGATTGAATCAG
1 TATCAATATTGATTGAATCAA
2013562 TATC
1 TATC
2013566 GATACTACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (21 bp):
TATCAATATTGATTGAATCAA
Found at i:2026863 original size:17 final size:17
Alignment explanation
Indices: 2026827--2026876 Score: 66
Period size: 18 Copynumber: 2.9 Consensus size: 17
2026817 TAAATAAGGT
2026827 TTTAATATTTATGTTATA
1 TTTAATATTTAT-TTATA
*
2026845 TTTCAT-TTTATTTATTA
1 TTTAATATTTATTTA-TA
2026862 TTTAATATTTATTTA
1 TTTAATATTTATTTA
2026877 GTAGTTTAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 3 0.11
17 12 0.43
18 13 0.46
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (17 bp):
TTTAATATTTATTTATA
Found at i:2030093 original size:19 final size:20
Alignment explanation
Indices: 2030071--2030110 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2030061 TTAGTGAATC
2030071 TATT-GTAAAAAGAATATTT
1 TATTCGTAAAAAGAATATTT
* *
2030090 TATTCGTAAAGAGATTATTT
1 TATTCGTAAAAAGAATATTT
2030110 T
1 T
2030111 TGTTTAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.45
Consensus pattern (20 bp):
TATTCGTAAAAAGAATATTT
Found at i:2048260 original size:3 final size:3
Alignment explanation
Indices: 2048210--2048240 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
2048200 CCTAAATAGC
2048210 TAA TGAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
2048241 ATCTATTCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:2053971 original size:2 final size:2
Alignment explanation
Indices: 2053964--2053990 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2053954 TCAATCTACA
2053964 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2053991 CGAAATACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2054164 original size:13 final size:13
Alignment explanation
Indices: 2054142--2054193 Score: 61
Period size: 13 Copynumber: 4.0 Consensus size: 13
2054132 AATGACGCTC
*
2054142 AATGAACGTCATA
1 AATGAGCGTCATA
2054155 AATGAGCGTCATA
1 AATGAGCGTCATA
* *
2054168 AATGTGTGTCATA
1 AATGAGCGTCATA
2054181 AATGTA-CGTCATA
1 AATG-AGCGTCATA
2054194 GATTTATGAC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.29
Consensus pattern (13 bp):
AATGAGCGTCATA
Found at i:2055622 original size:16 final size:18
Alignment explanation
Indices: 2055601--2055633 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
2055591 ATGAATTTCA
2055601 TGTTTA-TAA-TTAATTT
1 TGTTTATTAATTTAATTT
2055617 TGTTTATTAATTTAATT
1 TGTTTATTAATTTAATT
2055634 GATGTTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 3 0.20
18 6 0.40
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (18 bp):
TGTTTATTAATTTAATTT
Found at i:2057267 original size:59 final size:59
Alignment explanation
Indices: 2057152--2057268 Score: 155
Period size: 59 Copynumber: 2.0 Consensus size: 59
2057142 ATATATGTGC
* * * **
2057152 ACACATACATGTGGTATGTGACAAAAGAGAAGGAACATGTGATTATAAGATCAATGATT
1 ACACATACATGTGATATGTGACAAAAGAGAAGAAACATGTGATTAGAAGAAAAATGATT
* *
2057211 ACACGTACATGTGATATGTGACAGAAA-AGAAGAAATATGTGATTAGAAGAAAAATGAT
1 ACACATACATGTGATATGTGACA-AAAGAGAAGAAACATGTGATTAGAAGAAAAATGAT
2057269 ATGAATAAGT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
59 47 0.94
60 3 0.06
ACGTcount: A:0.45, C:0.09, G:0.22, T:0.24
Consensus pattern (59 bp):
ACACATACATGTGATATGTGACAAAAGAGAAGAAACATGTGATTAGAAGAAAAATGATT
Found at i:2057409 original size:31 final size:31
Alignment explanation
Indices: 2057371--2057493 Score: 135
Period size: 31 Copynumber: 4.0 Consensus size: 31
2057361 GTTGAGGGTT
2057371 TACCTATGTTCTACGGAACATATGGACAGTA
1 TACCTATGTTCTACGGAACATATGGACAGTA
* *
2057402 TACCTATG-TCTTTC-GAGACATATGGACAATA
1 TACCTATGTTC-TACGGA-ACATATGGACAGTA
*
2057433 TACCTATGTTCTAAGGAACATATGGACAGT-
1 TACCTATGTTCTACGGAACATATGGACAGTA
* * * *
2057463 TCACCTAGGTTCTTCGGGACCTATGGACAGT
1 T-ACCTATGTTCTACGGAACATATGGACAGT
2057494 TTCCGTAGTT
Statistics
Matches: 77, Mismatches: 10, Indels: 10
0.79 0.10 0.10
Matches are distributed among these distances:
30 5 0.06
31 68 0.88
32 4 0.05
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.30
Consensus pattern (31 bp):
TACCTATGTTCTACGGAACATATGGACAGTA
Found at i:2057469 original size:62 final size:62
Alignment explanation
Indices: 2057371--2057491 Score: 174
Period size: 62 Copynumber: 2.0 Consensus size: 62
2057361 GTTGAGGGTT
* *
2057371 TACCTATGTTCTACGGAACATATGGACAGTATACCTATG-TCTTTCGAGACATATGGACAATA
1 TACCTATGTTCTAAGGAACATATGGACAGTATACCTAGGTTC-TTCGAGACATATGGACAATA
* *
2057433 TACCTATGTTCTAAGGAACATATGGACAGT-TCACCTAGGTTCTTCGGGACCTATGGACA
1 TACCTATGTTCTAAGGAACATATGGACAGTAT-ACCTAGGTTCTTCGAGACATATGGACA
2057492 GTTTCCGTAG
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
61 1 0.02
62 50 0.94
63 2 0.04
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.30
Consensus pattern (62 bp):
TACCTATGTTCTAAGGAACATATGGACAGTATACCTAGGTTCTTCGAGACATATGGACAATA
Found at i:2060574 original size:67 final size:64
Alignment explanation
Indices: 2060469--2060597 Score: 186
Period size: 67 Copynumber: 2.0 Consensus size: 64
2060459 TGATATTGAC
*
2060469 AAATTGAGATGAAAAATAAATAAGCGTTGAGGTTTTGGTTTTCTTTCAAATTAATCAAAAGCAA
1 AAATTGAGATGAAAAATAAATAAACGTTGAGGTTTTGGTTTTCTTTCAAATTAATCAAAAGCAA
* * * *
2060533 AAATTGAGAATGAAAATAATAAGTAAACGTTGGGGTTTTGGTTTTCTTTTAGATTAATCAAAAGC
1 AAATTGAG-ATG-AAA-AATAAATAAACGTTGAGGTTTTGGTTTTCTTTCAAATTAATCAAAAGC
2060598 CATAAACCAA
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
64 8 0.14
65 3 0.05
66 3 0.05
67 43 0.75
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.34
Consensus pattern (64 bp):
AAATTGAGATGAAAAATAAATAAACGTTGAGGTTTTGGTTTTCTTTCAAATTAATCAAAAGCAA
Found at i:2071260 original size:18 final size:18
Alignment explanation
Indices: 2071239--2071281 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
2071229 TCAAGTCAGC
*
2071239 AAGTTCATTGAATAAAGT
1 AAGTTCATTGAATAAACT
*
2071257 AAGTTCATTGATTAAACT
1 AAGTTCATTGAATAAACT
2071275 AA-TTCAT
1 AAGTTCAT
2071282 ACATTTAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (18 bp):
AAGTTCATTGAATAAACT
Found at i:2077014 original size:21 final size:21
Alignment explanation
Indices: 2076990--2077029 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2076980 TATTAATTTA
*
2076990 TTTTT-ATTTTCTTTCTTTTG
1 TTTTTAATTTTATTTCTTTTG
*
2077010 TTTTTAATTTTATTTGTTTT
1 TTTTTAATTTTATTTCTTTT
2077030 TTTGTACAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.05, G:0.05, T:0.80
Consensus pattern (21 bp):
TTTTTAATTTTATTTCTTTTG
Found at i:2077726 original size:44 final size:43
Alignment explanation
Indices: 2077641--2077726 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 43
2077631 GAAATTGAAA
* * * *
2077641 TTTAGGAATAAGTTGGAAAAGCTGGTAATAGCTACATCATAGT
1 TTTAGGAATAAATTGGAAAAGCTAGTAATAACTACAACATAGT
* *
2077684 TTTAGGGAATAAATTGGAAAAGTTAGTAATAACTCCAACATAG
1 TTTA-GGAATAAATTGGAAAAGCTAGTAATAACTACAACATAG
2077727 ATCTAAACAG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 4 0.11
44 32 0.89
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (43 bp):
TTTAGGAATAAATTGGAAAAGCTAGTAATAACTACAACATAGT
Found at i:2082868 original size:2 final size:2
Alignment explanation
Indices: 2082861--2082888 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2082851 TTTACTTGTA
2082861 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2082889 TAAAAATCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2085357 original size:20 final size:20
Alignment explanation
Indices: 2085307--2085361 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
2085297 TTGGGGTGTT
*
2085307 ATAGTATCGATACCAAAAGG
1 ATAGTATCGATACCATAAGG
* *
2085327 -GAGTATTGATACCATAAGG
1 ATAGTATCGATACCATAAGG
2085346 ATAGTATCGATACCAT
1 ATAGTATCGATACCAT
2085362 TTGATAACAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (20 bp):
ATAGTATCGATACCATAAGG
Found at i:2086178 original size:67 final size:67
Alignment explanation
Indices: 2086099--2086343 Score: 273
Period size: 67 Copynumber: 3.8 Consensus size: 67
2086089 AAATAAAAGA
*
2086099 TTTGAGGCCTAACTATGCATTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTG
1 TTTGAGACCTAACTATGCATTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTG
2086164 CC
66 CC
* * *
2086166 TTTGAGACCTAACTATGCATTGGA-AAAAAT-TATCAATTATGCCAGTCAGATGAAAGGCTAAG-
1 TTTGAGACCTAACTATGCATT-GACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGT
2086228 GCC
65 GCC
* * *
2086231 --T-A-A--T---TGTGCATTGACATAAAGGTGTCAATTATG-CAGTTAGATGAAAGGCTAAGTG
1 TTTGAGACCTAACTATGCATTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTG
2086286 CC
66 CC
* * * * *
2086288 TTTGAGGCCTAACTGTGTATTTGGCAGAAATTTGTCAATTATGCCAGTTAGATGAA
1 TTTGAGACCTAACTATGCA-TTGACAGAAATGTGTCAATTATGCCAGTTAGATGAA
2086344 CGGTTAAACA
Statistics
Matches: 148, Mismatches: 15, Indels: 29
0.77 0.08 0.15
Matches are distributed among these distances:
55 2 0.01
56 30 0.20
57 13 0.09
59 2 0.01
60 1 0.01
61 1 0.01
62 1 0.01
63 2 0.01
65 3 0.02
66 35 0.24
67 44 0.30
68 14 0.09
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (67 bp):
TTTGAGACCTAACTATGCATTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTG
CC
Found at i:2086631 original size:81 final size:81
Alignment explanation
Indices: 2086301--2086618 Score: 447
Period size: 81 Copynumber: 3.9 Consensus size: 81
2086291 GAGGCCTAAC
* * * * * * *
2086301 TGTGTATTTGGCAGAAATTTGTCAATTATGCCAGTTAGATGAACGGTTAAACACTGTTGAGTAAA
1 TGTGCATTTGGAAGAAATGTGTCAATTATGCCAGTTAGATGAATGATTAAAGACCGTTGAGTAAA
*
2086366 TGATAAATGGCCTAGT
66 AGATAAATGGCCTAGT
* * *
2086382 TGTGCATTTGGAAGAAATGTGTCAATTATGCCAATTAGATGAATGGTTAAAGACCGTCGAGTAAA
1 TGTGCATTTGGAAGAAATGTGTCAATTATGCCAGTTAGATGAATGATTAAAGACCGTTGAGTAAA
2086447 AGATAAATGGCCTAGT
66 AGATAAATGGCCTAGT
* * * * *
2086463 TGTGAATTTGGAAGAAATGTGTTAATTATGCTAGTTAGATGAATGATTAAGGACCATTGAGTAAA
1 TGTGCATTTGGAAGAAATGTGTCAATTATGCCAGTTAGATGAATGATTAAAGACCGTTGAGTAAA
*
2086528 AGATAAATGGCCTAGC
66 AGATAAATGGCCTAGT
* * *
2086544 TGTGCATTTGGCAGAAAGGTGTCAATTATGCTAGTTAGATGAATGATTAAAGACCGTTGAGTAAA
1 TGTGCATTTGGAAGAAATGTGTCAATTATGCCAGTTAGATGAATGATTAAAGACCGTTGAGTAAA
*
2086609 ACATAAATGG
66 AGATAAATGG
2086619 AATTATAATG
Statistics
Matches: 212, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 212 1.00
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.31
Consensus pattern (81 bp):
TGTGCATTTGGAAGAAATGTGTCAATTATGCCAGTTAGATGAATGATTAAAGACCGTTGAGTAAA
AGATAAATGGCCTAGT
Found at i:2090342 original size:20 final size:19
Alignment explanation
Indices: 2090296--2090349 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
2090286 ACCGATTCAA
2090296 GTGGTATCGATACCAAGAG
1 GTGGTATCGATACCAAGAG
* * *
2090315 GGGAGTATCAATACCATGAG
1 GTG-GTATCGATACCAAGAG
2090335 GATGGTATCGATACC
1 G-TGGTATCGATACC
2090350 TTTTGATCAC
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 2 0.07
20 25 0.89
21 1 0.04
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.22
Consensus pattern (19 bp):
GTGGTATCGATACCAAGAG
Found at i:2091349 original size:68 final size:67
Alignment explanation
Indices: 2091142--2091328 Score: 320
Period size: 67 Copynumber: 2.8 Consensus size: 67
2091132 AAATAAAATA
*
2091142 TTTGAGGCCTAACTATGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTG
1 TTTGAGGCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTG
2091207 CC
66 CC
* *
2091209 TTTGAGGCCTAACTGTGCATTAACAGAAAGGTGTCAATTATCCCAGTTAGATGAAAGGCTAAGTG
1 TTTGAGGCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTG
2091274 CC
66 CC
* *
2091276 TTTGAGGCCTAACTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGAT
1 TTTGAGGCCTAACTGTGCA-TTGACAGAAAGGTGTCAATTATGCCAGTTAGAT
2091329 AAACGGTTAA
Statistics
Matches: 112, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
67 83 0.74
68 29 0.26
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (67 bp):
TTTGAGGCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTG
CC
Found at i:2091416 original size:81 final size:81
Alignment explanation
Indices: 2091289--2091605 Score: 492
Period size: 81 Copynumber: 3.9 Consensus size: 81
2091279 GAGGCCTAAC
* * *
2091289 TGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATAAACGGTTAAAGACCGTTGAGTAAA
1 TGTGCATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGTTGAGTAAA
*
2091354 TGATAAATGGCCTAGT
66 AGATAAATGGCCTAGT
*
2091370 TGTGCATTTGGAAGAAAGGTGTCAATTATTCCAGTTAGATGAACGGTTAAAGACCGTTGAGTAAA
1 TGTGCATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGTTGAGTAAA
* *
2091435 ATATAAATGGTCTAGT
66 AGATAAATGGCCTAGT
* * * *
2091451 T-TGCATTTGGCAGAAAGGTGTTAATTATGCCAGTTAGATGAATGGTTAAAGACCGTTAAGTAAA
1 TGTGCATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGTTGAGTAAA
*
2091515 AGATAAATGGCCTAGC
66 AGATAAATGGCCTAGT
* * *
2091531 TGTGCATTTGGAAGAAATGTGTCAATTATGCTAGTTAGATGAATGGTTAAAGACCGTTGAGTAAA
1 TGTGCATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGTTGAGTAAA
2091596 AGATAAATGG
66 AGATAAATGG
2091606 AATTATAATG
Statistics
Matches: 215, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
80 72 0.33
81 143 0.67
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (81 bp):
TGTGCATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGTTGAGTAAA
AGATAAATGGCCTAGT
Found at i:2091556 original size:161 final size:161
Alignment explanation
Indices: 2091291--2091605 Score: 522
Period size: 161 Copynumber: 2.0 Consensus size: 161
2091281 GGCCTAACTG
* * *
2091291 TGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATAAACGGTTAAAGACCGTTGAGTAAATG
1 TGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATAAACGGTTAAAGACCGTTAAGTAAAAG
* *
2091356 ATAAATGGCCTAGTTGTGCATTTGGAAGAAAGGTGTCAATTATTCCAGTTAGATGAACGGTTAAA
66 ATAAATGGCCTAGCTGTGCATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAA
*
2091421 GACCGTTGAGTAAAATATAAATGGTCTAGTT
131 GACCGTTGAGTAAAAGATAAATGGTCTAGTT
* * *
2091452 TGCATTTGGCAGAAAGGTGTTAATTATGCCAGTTAGATGAATGGTTAAAGACCGTTAAGTAAAAG
1 TGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATAAACGGTTAAAGACCGTTAAGTAAAAG
* * *
2091517 ATAAATGGCCTAGCTGTGCATTTGGAAGAAATGTGTCAATTATGCTAGTTAGATGAATGGTTAAA
66 ATAAATGGCCTAGCTGTGCATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAA
2091582 GACCGTTGAGTAAAAGATAAATGG
131 GACCGTTGAGTAAAAGATAAATGG
2091606 AATTATAATG
Statistics
Matches: 142, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
161 142 1.00
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (161 bp):
TGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATAAACGGTTAAAGACCGTTAAGTAAAAG
ATAAATGGCCTAGCTGTGCATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAA
GACCGTTGAGTAAAAGATAAATGGTCTAGTT
Found at i:2099135 original size:54 final size:54
Alignment explanation
Indices: 2099084--2099809 Score: 898
Period size: 54 Copynumber: 13.6 Consensus size: 54
2099074 TAAACATATT
** * * *
2099084 ATGAATTTCGAAAAATCCACACTTAGTGCCGAAACGGTTATTCATCCACATAGA
1 ATGAATTTCGTGAAATGCACACCTAGTGCCGAAACGGTTATTCATCCACATAGG
* * * * *
2099138 ATGAATTAT-GTGAAATGCAAACTTAGTGTCAAAACTGTTATTCATCCACATAGG
1 ATGAATT-TCGTGAAATGCACACCTAGTGCCGAAACGGTTATTCATCCACATAGG
* * * *
2099192 ATGAATTCCGTGAAATGCACACTTAGTACCGAAACGATTATTCATCCACATAGG
1 ATGAATTTCGTGAAATGCACACCTAGTGCCGAAACGGTTATTCATCCACATAGG
* * * **
2099246 ATGAATTCCGTG-AATGCACACCTAGTGCAGAAATGGTTATTCATCCACATAAT
1 ATGAATTTCGTGAAATGCACACCTAGTGCCGAAACGGTTATTCATCCACATAGG
* * * * *
2099299 ATGAATTCCGTGAAATGAACACCTATTGCCAAAATGGTTATTCATCCACATAGG
1 ATGAATTTCGTGAAATGCACACCTAGTGCCGAAACGGTTATTCATCCACATAGG
*
2099353 ATGAATTTCGTGAAATGCACA-CTAGTACCGAAACGGTTATTCATCCACATAGG
1 ATGAATTTCGTGAAATGCACACCTAGTGCCGAAACGGTTATTCATCCACATAGG
* ** *
2099406 ATGAA-TTCTGAGAAATGCACACCTAGTATCAAAACGGTTATTCATCCACATAGG
1 ATGAATTTC-GTGAAATGCACACCTAGTGCCGAAACGGTTATTCATCCACATAGG
** * * *
2099460 ATGAATTTATTGAATTGCACAGCTAGTGCCGAAATC-TTTATTCATCCACATAGG
1 ATGAATTTCGTGAAATGCACACCTAGTGCCGAAA-CGGTTATTCATCCACATAGG
* *
2099514 ATGAATTCCGTGAAATGCACACCTAGTGCCGAAACGGTTATTCATCCACATAAG
1 ATGAATTTCGTGAAATGCACACCTAGTGCCGAAACGGTTATTCATCCACATAGG
2099568 ATGAATTAT-GTGAAATGCACA-CTAGTGCCGAAACGGTTATTCATCCACATAGG
1 ATGAATT-TCGTGAAATGCACACCTAGTGCCGAAACGGTTATTCATCCACATAGG
* *
2099621 ATTAA-TTCTGTGAAATACACACCTAGTG-CGAAACGGTTATTCATCCACATAGG
1 ATGAATTTC-GTGAAATGCACACCTAGTGCCGAAACGGTTATTCATCCACATAGG
* * * * *
2099674 ATGAATTTCATGAAATGTACAACTAGTTCCGAAACGGTTATTCATCCACATATG
1 ATGAATTTCGTGAAATGCACACCTAGTGCCGAAACGGTTATTCATCCACATAGG
* * *
2099728 ATGAATTTCGTGAAATGCACACCTAGTACCGAAA-TGTTATTCATCCAAATAGG
1 ATGAATTTCGTGAAATGCACACCTAGTGCCGAAACGGTTATTCATCCACATAGG
* *
2099781 ATGAA-TTCGTGAAATGTACACTTAGTGCC
1 ATGAATTTCGTGAAATGCACACCTAGTGCC
2099810 TATTTGGTAA
Statistics
Matches: 584, Mismatches: 74, Indels: 30
0.85 0.11 0.04
Matches are distributed among these distances:
51 1 0.00
52 25 0.04
53 201 0.34
54 353 0.60
55 4 0.01
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (54 bp):
ATGAATTTCGTGAAATGCACACCTAGTGCCGAAACGGTTATTCATCCACATAGG
Found at i:2099340 original size:107 final size:108
Alignment explanation
Indices: 2099096--2099809 Score: 924
Period size: 107 Copynumber: 6.7 Consensus size: 108
2099086 GAATTTCGAA
* * * *
2099096 AAATCCACACTTAGTGCCGAAACGGTTATTCATCCACATAGAATGAATTAT-GTGAAATGCAAAC
1 AAATGCACACCTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATT-TCGTGAAATGCACAC
* * * *
2099160 TTAGTGTCAAAACTGTTATTCATCCACATAGGATGAATTCCGTG
65 CTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTG
* * * *
2099204 AAATGCACACTTAGTACCGAAACGATTATTCATCCACATAGGATGAATTCCGTG-AATGCACACC
1 AAATGCACACCTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTTCGTGAAATGCACACC
* * **
2099268 TAGTGCAGAAATGGTTATTCATCCACATAATATGAATTCCGTG
66 TAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTG
* * * *
2099311 AAATGAACACCTATTGCCAAAATGGTTATTCATCCACATAGGATGAATTTCGTGAAATGCACA-C
1 AAATGCACACCTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTTCGTGAAATGCACACC
* * *
2099375 TAGTACCGAAACGGTTATTCATCCACATAGGATGAATTCTGAG
66 TAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTG
** * ** * *
2099418 AAATGCACACCTAGTATCAAAACGGTTATTCATCCACATAGGATGAATTTATTGAATTGCACAGC
1 AAATGCACACCTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTTCGTGAAATGCACACC
*
2099483 TAGTGCCGAAATC-TTTATTCATCCACATAGGATGAATTCCGTG
66 TAGTGCCGAAA-CGGTTATTCATCCACATAGGATGAATTCCGTG
*
2099526 AAATGCACACCTAGTGCCGAAACGGTTATTCATCCACATAAGATGAATTAT-GTGAAATGCACA-
1 AAATGCACACCTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATT-TCGTGAAATGCACAC
* *
2099589 CTAGTGCCGAAACGGTTATTCATCCACATAGGATTAATTCTGTG
65 CTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTG
* * * *
2099633 AAATACACACCTAGTG-CGAAACGGTTATTCATCCACATAGGATGAATTTCATGAAATGTACAAC
1 AAATGCACACCTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTTCGTGAAATGCACACC
* * *
2099697 TAGTTCCGAAACGGTTATTCATCCACATATGATGAATTTCGTG
66 TAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTG
* * * * *
2099740 AAATGCACACCTAGTACCGAAA-TGTTATTCATCCAAATAGGATGAA-TTCGTGAAATGTACACT
1 AAATGCACACCTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTTCGTGAAATGCACACC
2099803 TAGTGCC
66 TAGTGCC
2099810 TATTTGGTAA
Statistics
Matches: 530, Mismatches: 67, Indels: 20
0.86 0.11 0.03
Matches are distributed among these distances:
105 1 0.00
106 62 0.12
107 311 0.59
108 154 0.29
109 2 0.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (108 bp):
AAATGCACACCTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTTCGTGAAATGCACACC
TAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTG
Found at i:2099608 original size:268 final size:265
Alignment explanation
Indices: 2099084--2099809 Score: 960
Period size: 268 Copynumber: 2.7 Consensus size: 265
2099074 TAAACATATT
** * * *
2099084 ATGAATTTCGAAAAATCCACACTTAGTGCCGAAACGGTTATTCATCCACATAGAATGAATTATGT
1 ATGAATTTCGTGAAATACACAC-TAGT-CCGAAACGGTTATTCATCCACATAGGATGAATT-TGA
* * * *
2099149 GAAATGCAAACTTAGTGTCAAAACTGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACAC
63 GAAATGCACACCTAGT-TCAAAACGGTTATTCATCCACATAGGATGAATTTCGTGAAATGCACAC
*
2099214 TTAGTACCGAAA-CGATTATTCATCCACATAGGATGAATTCCGTG-AATGCACACCTAGTGCAGA
127 -TAGTACCGAAATC-ATTATTCATCCACATAGGATGAATTCCGTGAAATGCACACCTAGTGCCGA
* * * * *
2099277 AATGGTTATTCATCCACATAATATGAATTCCGTGAAATGAACACCTATTGCCAAAATGGTTATTC
190 AACGGTTATTCATCCACATAAGATGAATTACGTGAAATGAACACCTAGTGCCAAAACGGTTATTC
2099342 ATCCACATAGG
255 ATCCACATAGG
*
2099353 ATGAATTTCGTGAAATGCACACTAGTACCGAAACGGTTATTCATCCACATAGGATGAATTCTGAG
1 ATGAATTTCGTGAAATACACACTAGT-CCGAAACGGTTATTCATCCACATAGGATGAATT-TGAG
** *
2099418 AAATGCACACCTAGTATCAAAACGGTTATTCATCCACATAGGATGAATTTATTGAATTGCACAGC
64 AAATGCACACCTAGT-TCAAAACGGTTATTCATCCACATAGGATGAATTTCGTGAAATGCACA-C
* *
2099483 TAGTGCCGAAATCTTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACCTAGTGCCGAAA
127 TAGTACCGAAATCATTATTCATCCACATAGGATGAATTCCGTGAAATGCACACCTAGTGCCGAAA
* * *
2099548 CGGTTATTCATCCACATAAGATGAATTATGTGAAATGCACA-CTAGTGCCGAAACGGTTATTCAT
192 CGGTTATTCATCCACATAAGATGAATTACGTGAAATGAACACCTAGTGCCAAAACGGTTATTCAT
2099612 CCACATAGG
257 CCACATAGG
* * *
2099621 ATTAA-TTCTGTGAAATACACACCTAGTGCGAAACGGTTATTCATCCACATAGGATGAATTTCAT
1 ATGAATTTC-GTGAAATACACA-CTAGTCCGAAACGGTTATTCATCCACATAGGATGAATTTGA-
* * * *
2099685 GAAATGTACAACTAGTTCCGAAACGGTTATTCATCCACATATGATGAATTTCGTGAAATGCACAC
63 GAAATGCACACCTAGTT-CAAAACGGTTATTCATCCACATAGGATGAATTTCGTGAAATGCACA-
* * * *
2099750 CTAGTACCGAAAT-GTTATTCATCCAAATAGGATGAATT-CGTGAAATGTACACTTAGTGCC
126 CTAGTACCGAAATCATTATTCATCCACATAGGATGAATTCCGTGAAATGCACACCTAGTGCC
2099810 TATTTGGTAA
Statistics
Matches: 407, Mismatches: 43, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
266 20 0.05
267 29 0.07
268 276 0.68
269 82 0.20
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (265 bp):
ATGAATTTCGTGAAATACACACTAGTCCGAAACGGTTATTCATCCACATAGGATGAATTTGAGAA
ATGCACACCTAGTTCAAAACGGTTATTCATCCACATAGGATGAATTTCGTGAAATGCACACTAGT
ACCGAAATCATTATTCATCCACATAGGATGAATTCCGTGAAATGCACACCTAGTGCCGAAACGGT
TATTCATCCACATAAGATGAATTACGTGAAATGAACACCTAGTGCCAAAACGGTTATTCATCCAC
ATAGG
Found at i:2100152 original size:22 final size:22
Alignment explanation
Indices: 2100108--2100161 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
2100098 TGGCTTCTCA
*
2100108 GTATCGATAC--CCATACCATG
1 GTATCGATACTACCATACCACG
*
2100128 GTATCGATACTACCATACTACG
1 GTATCGATACTACCATACCACG
*
2100150 GTACCGATACTA
1 GTATCGATACTA
2100162 TGGTATGGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 10 0.34
22 19 0.66
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (22 bp):
GTATCGATACTACCATACCACG
Found at i:2114249 original size:20 final size:20
Alignment explanation
Indices: 2114221--2114263 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2114211 AAACCCTTTC
*
2114221 AGGGGGAATCGGTACCCCCT
1 AGGGAGAATCGGTACCCCCT
* *
2114241 AGGGAGAATCGGTTCCCTCT
1 AGGGAGAATCGGTACCCCCT
2114261 AGG
1 AGG
2114264 CAATCTGCCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.21, C:0.26, G:0.35, T:0.19
Consensus pattern (20 bp):
AGGGAGAATCGGTACCCCCT
Found at i:2116343 original size:13 final size:14
Alignment explanation
Indices: 2116327--2116361 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
2116317 TAATGGGCAA
*
2116327 TTTGAAAAACGA-G
1 TTTGAAAAACAAGG
2116340 TTTGAAAAACAAGG
1 TTTGAAAAACAAGG
2116354 TTTGAAAA
1 TTTGAAAA
2116362 TCAATATATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.49, C:0.06, G:0.20, T:0.26
Consensus pattern (14 bp):
TTTGAAAAACAAGG
Found at i:2116881 original size:23 final size:22
Alignment explanation
Indices: 2116853--2116916 Score: 83
Period size: 23 Copynumber: 2.9 Consensus size: 22
2116843 TGATTCCCTC
2116853 CAAGGGGGAATCGGTTCCTATT
1 CAAGGGGGAATCGGTTCCTATT
**
2116875 CAAAGGGGGAATCGGTTCCCCTT
1 C-AAGGGGGAATCGGTTCCTATT
* *
2116898 CAAGGGGGTATCGATTCCT
1 CAAGGGGGAATCGGTTCCT
2116917 CCTGTCAGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
22 16 0.44
23 20 0.56
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.25
Consensus pattern (22 bp):
CAAGGGGGAATCGGTTCCTATT
Found at i:2126680 original size:17 final size:17
Alignment explanation
Indices: 2126658--2126697 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
2126648 TACATATTAT
2126658 TTTCATTAGTTGAAGAG
1 TTTCATTAGTTGAAGAG
2126675 TTTCATTAGTTGAAGAG
1 TTTCATTAGTTGAAGAG
2126692 TTTCAT
1 TTTCAT
2126698 GGTATTAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.45
Consensus pattern (17 bp):
TTTCATTAGTTGAAGAG
Found at i:2128699 original size:74 final size:74
Alignment explanation
Indices: 2128499--2128754 Score: 403
Period size: 74 Copynumber: 3.5 Consensus size: 74
2128489 CCGAAAATAT
2128499 AAAATAGGCGCTACC---TACATTAAAATACCTAACGG-TTTTTTTAAGGTTGCTAATAATGTAA
1 AAAATAGGCGCTACCTATTACATTAAAATACCT-ACGGTTTTTTTTAAGGTTGCTAATAATGTAA
2128560 ACGGTAAAAAA
65 ACGGT-AAAAA
* * * *
2128571 AAAATAGACGTTACCTATTACATTAAAATACTTACTGGTTTTTTTGAAGGTTGCTAATAATGTAA
1 AAAATAGGCGCTACCTATTACATTAAAATACCTAC-GGTTTTTTTTAAGGTTGCTAATAATGTAA
2128636 ACGGTAAAAA
65 ACGGTAAAAA
*
2128646 AAAATAGGCACTACCTATTACATTAAAATACCTACGGTTTTTTTTAAGGTTGCTAATAATGTAAA
1 AAAATAGGCGCTACCTATTACATTAAAATACCTACGGTTTTTTTTAAGGTTGCTAATAATGTAAA
2128711 CGGTAAAAA
66 CGGTAAAAA
*
2128720 AAAATAGGCGCTACCTATTACATTAAATTACCTAC
1 AAAATAGGCGCTACCTATTACATTAAAATACCTAC
2128755 CAAATATGTT
Statistics
Matches: 168, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
72 13 0.08
74 73 0.43
75 52 0.31
76 30 0.18
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (74 bp):
AAAATAGGCGCTACCTATTACATTAAAATACCTACGGTTTTTTTTAAGGTTGCTAATAATGTAAA
CGGTAAAAA
Found at i:2129044 original size:103 final size:106
Alignment explanation
Indices: 2128837--2129107 Score: 345
Period size: 103 Copynumber: 2.5 Consensus size: 106
2128827 TAGCGTCTAT
*
2128837 AAAGTATCGATACTTTATAAAAATGTATCGATACATAACAATATAACATGTAAAAATATGACAAA
1 AAAGTATCGATACTTTATAAAAATATATCGATACATAA-AA-ATAACATGT-AAAA-AT-ACAAA
* * *
2128902 ACTAGTTTCATTATGACAAAACGGTAAAGAGCTATCGGATATGTTA
61 ACCAGTTTCATTATGACAAAACGGTAAAGAGCTACCGGATATATTA
* *
2128948 AAAGTA-CGATACTTTATAAAAATATATCGATA-AT-ATAATAACATGTAAAAATACAAAGCCAG
1 AAAGTATCGATACTTTATAAAAATATATCGATACATAAAAATAACATGTAAAAATACAAAACCAG
*
2129010 -TTCATTATGACAAAACCGGTAAAGAGCTGCCGGATATATTA
66 TTTCATTATGACAAAA-CGGTAAAGAGCTACCGGATATATTA
* * *
2129051 AAAGTATCGATAC-TTATAAAAAAAGTATCGATACATAACAATATACAGGTAAAAATA
1 AAAGTATCGATACTTTATAAAAATA-TATCGATACATAAAAATA-ACATGTAAAAATA
2129108 TGACAAAATC
Statistics
Matches: 144, Mismatches: 10, Indels: 16
0.85 0.06 0.09
Matches are distributed among these distances:
102 15 0.10
103 46 0.32
104 16 0.11
105 6 0.04
106 14 0.10
107 13 0.09
108 1 0.01
109 2 0.01
110 25 0.17
111 6 0.04
ACGTcount: A:0.48, C:0.12, G:0.13, T:0.27
Consensus pattern (106 bp):
AAAGTATCGATACTTTATAAAAATATATCGATACATAAAAATAACATGTAAAAATACAAAACCAG
TTTCATTATGACAAAACGGTAAAGAGCTACCGGATATATTA
Found at i:2129088 original size:19 final size:20
Alignment explanation
Indices: 2129050--2129088 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
2129040 CGGATATATT
2129050 AAAAGTATCGATACTTATAAA
1 AAAAGTATCGATAC-TATAAA
2129071 AAAAGTATCGATAC-ATAA
1 AAAAGTATCGATACTATAA
2129089 CAATATACAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
21 14 0.78
ACGTcount: A:0.54, C:0.10, G:0.10, T:0.26
Consensus pattern (20 bp):
AAAAGTATCGATACTATAAA
Found at i:2130611 original size:34 final size:33
Alignment explanation
Indices: 2130563--2130627 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 33
2130553 TTTAGTTTCG
* *
2130563 CGTTGCGATTTTCATTTTCACGTTGCGATTTTGT
1 CGTTCCGATTTTCATGTTCACGTTGC-ATTTTGT
*
2130597 CGTTCCGATTTTCATGTTCGCGTTGCATTTT
1 CGTTCCGATTTTCATGTTCACGTTGCATTTT
2130628 CATTTTCGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 5 0.18
34 23 0.82
ACGTcount: A:0.11, C:0.20, G:0.20, T:0.49
Consensus pattern (33 bp):
CGTTCCGATTTTCATGTTCACGTTGCATTTTGT
Found at i:2132467 original size:63 final size:62
Alignment explanation
Indices: 2132319--2132478 Score: 155
Period size: 63 Copynumber: 2.5 Consensus size: 62
2132309 TTAGGGGAGT
* * ** *
2132319 TACGTGATGAGGT-CGGTGCTTTGCGTCATGAGGTCGG-TACTTTACGTGAAGACAATGGTGCAC
1 TACGTGATGAGGTAC-GT-CTTTACGTGATGAGGT-GGATGTTTTACGCGAAGACAATGGTGCAC
* * *
2132382 TACGTGATGAGGTACGGTCTTTATGTGGTGAGGTGGATGTTTTACGCGATGACAATGGTGCAC
1 TACGTGATGAGGTAC-GTCTTTACGTGATGAGGTGGATGTTTTACGCGAAGACAATGGTGCAC
* *
2132445 TGCGTGGTGAGGTATC-TACTTTACGTGATGAGGT
1 TACGTGATGAGGTA-CGT-CTTTACGTGATGAGGT
2132479 AGCCGCTCTA
Statistics
Matches: 81, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
62 3 0.04
63 73 0.90
64 5 0.06
ACGTcount: A:0.20, C:0.14, G:0.34, T:0.31
Consensus pattern (62 bp):
TACGTGATGAGGTACGTCTTTACGTGATGAGGTGGATGTTTTACGCGAAGACAATGGTGCAC
Found at i:2132599 original size:4 final size:4
Alignment explanation
Indices: 2132590--2132631 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
2132580 TTTTTTGGCA
* * *
2132590 TTAT TTAT TTAT TTAT TTAT TGAT TTAT GTAT TAAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
2132632 TTAACGGCCC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (4 bp):
TTAT
Found at i:2132796 original size:21 final size:21
Alignment explanation
Indices: 2132770--2132889 Score: 120
Period size: 21 Copynumber: 5.7 Consensus size: 21
2132760 TGCACCTGTC
*
2132770 ATCGTTCAAGAGGCGTCTCCT
1 ATCGTTCAAGAGGCCTCTCCT
*
2132791 ATCGTTCAAGAGGCCCCT-CT
1 ATCGTTCAAGAGGCCTCTCCT
*
2132811 CATCGTTCAAGAGGCCTCTCCC
1 -ATCGTTCAAGAGGCCTCTCCT
* * *
2132833 ACCGTTCAAGAGGCCCCT-GT
1 ATCGTTCAAGAGGCCTCTCCT
*
2132853 CATCGTTCAAGAGGTCCT-TCCC
1 -ATCGTTCAAGAGG-CCTCTCCT
*
2132875 ACCGTTCAAGAGGCC
1 ATCGTTCAAGAGGCC
2132890 CCTTCTCGTC
Statistics
Matches: 81, Mismatches: 13, Indels: 11
0.77 0.12 0.10
Matches are distributed among these distances:
20 4 0.05
21 74 0.91
22 3 0.04
ACGTcount: A:0.20, C:0.35, G:0.22, T:0.23
Consensus pattern (21 bp):
ATCGTTCAAGAGGCCTCTCCT
Found at i:2132815 original size:42 final size:42
Alignment explanation
Indices: 2132768--2132892 Score: 198
Period size: 42 Copynumber: 3.0 Consensus size: 42
2132758 GATGCACCTG
* * *
2132768 TCATCGTTCAAGAGGCGTCTCCTATCGTTCAAGAGGCCCCTC
1 TCATCGTTCAAGAGGCCTCTCCCACCGTTCAAGAGGCCCCTC
*
2132810 TCATCGTTCAAGAGGCCTCTCCCACCGTTCAAGAGGCCCCTG
1 TCATCGTTCAAGAGGCCTCTCCCACCGTTCAAGAGGCCCCTC
2132852 TCATCGTTCAAGAGGTCCT-TCCCACCGTTCAAGAGGCCCCT
1 TCATCGTTCAAGAGG-CCTCTCCCACCGTTCAAGAGGCCCCT
2132893 TCTCGTCCCG
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
42 75 0.96
43 3 0.04
ACGTcount: A:0.19, C:0.36, G:0.21, T:0.24
Consensus pattern (42 bp):
TCATCGTTCAAGAGGCCTCTCCCACCGTTCAAGAGGCCCCTC
Found at i:2134319 original size:64 final size:64
Alignment explanation
Indices: 2134197--2134354 Score: 282
Period size: 64 Copynumber: 2.5 Consensus size: 64
2134187 TTAATTGAAT
2134197 TTTACATTGATTTGTAAAAGTTGATTTGTTTAATTGATGGGAAATAAGAATTATTTTTTTGCTTG
1 TTTA-ATTGATTTGTAAAAGTTGATTTGTTTAATTGATGGGAAATAAGAATTATTTTTTTGCTTG
*
2134262 TTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAAGAATTA-TTTTTTGCTTG
1 TTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATG-GGAAATAAGAATTATTTTTTTGCTTG
2134326 TTTAATTGATTTGTAAAAGTTGATTTGTT
1 TTTAATTGATTTGTAAAAGTTGATTTGTT
2134355 GTTTATTCAA
Statistics
Matches: 91, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
64 74 0.81
65 17 0.19
ACGTcount: A:0.29, C:0.02, G:0.18, T:0.51
Consensus pattern (64 bp):
TTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGGGAAATAAGAATTATTTTTTTGCTTG
Found at i:2134488 original size:20 final size:20
Alignment explanation
Indices: 2134463--2134501 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2134453 GATTTCGTGT
2134463 TGCGAATTTGACTATCGCAA
1 TGCGAATTTGACTATCGCAA
*
2134483 TGCGAATTTGACTTTCGCA
1 TGCGAATTTGACTATCGCA
2134502 TCAATCGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (20 bp):
TGCGAATTTGACTATCGCAA
Found at i:2134706 original size:18 final size:18
Alignment explanation
Indices: 2134683--2134718 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2134673 AAGCCGGTTG
*
2134683 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
2134701 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
2134719 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:2136992 original size:24 final size:24
Alignment explanation
Indices: 2136958--2137011 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
2136948 CTGAAACATC
2136958 ATCAAAATCCGAGCATTGACCAAG
1 ATCAAAATCCGAGCATTGACCAAG
* * * *
2136982 ATCAAAGTCCGGGTATTTACCAAG
1 ATCAAAATCCGAGCATTGACCAAG
2137006 ATCAAA
1 ATCAAA
2137012 TTTCGCATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGCATTGACCAAG
Found at i:2137775 original size:16 final size:15
Alignment explanation
Indices: 2137753--2137791 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
2137743 GAAATCATTG
2137753 AAAAATTATATAGAAA
1 AAAAATTATATA-AAA
* *
2137769 TAAAATTATGTAAAA
1 AAAAATTATATAAAA
2137784 AAAAATTA
1 AAAAATTA
2137792 GAGATGGGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (15 bp):
AAAAATTATATAAAA
Found at i:2138002 original size:20 final size:20
Alignment explanation
Indices: 2137948--2138060 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
2137938 ACTAAAACCT
**
2137948 GTTGCGAATTCAAAAATCGA
1 GTTGCGAATTTGAAAATCGA
* *
2137968 GTTGAGAATTCGAAAATCGA
1 GTTGCGAATTTGAAAATCGA
*
2137988 GTTGCGAATTTGAAATTC-A
1 GTTGCGAATTTGAAAATCGA
* * * *
2138007 ATTGCAAATTTGAAATTCAGT
1 GTTGCGAATTTGAAAATC-GA
*
2138028 GTTGCGAATTTGGCAAA-C-A
1 GTTGCGAATTT-GAAAATCGA
2138047 CGTTGCGAATTTGA
1 -GTTGCGAATTTGA
2138061 CTTCTTTGTT
Statistics
Matches: 75, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
19 18 0.24
20 44 0.59
21 10 0.13
22 3 0.04
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (20 bp):
GTTGCGAATTTGAAAATCGA
Found at i:2138011 original size:19 final size:20
Alignment explanation
Indices: 2137989--2138039 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 20
2137979 GAAAATCGAG
2137989 TTGCGAATTTGAAATTCA-A
1 TTGCGAATTTGAAATTCAGA
* *
2138008 TTGCAAATTTGAAATTCAGTG
1 TTGCGAATTTGAAATTCAG-A
2138029 TTGCGAATTTG
1 TTGCGAATTTG
2138040 GCAAACACGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 17 0.63
21 10 0.37
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (20 bp):
TTGCGAATTTGAAATTCAGA
Found at i:2145001 original size:23 final size:23
Alignment explanation
Indices: 2144970--2145033 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
2144960 ATAGGTAAAA
*
2144970 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
2144993 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
2145016 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
2145034 TTGTAAAGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:2145458 original size:476 final size:479
Alignment explanation
Indices: 2144568--2147328 Score: 4907
Period size: 478 Copynumber: 5.8 Consensus size: 479
2144558 TTAAAAAAAA
* *
2144568 TATCTATCATTTTTATAAAAGTGTCCATACTTTTTTTTTATTGTGGAAAACATTAATTTAAGGTT
1 TATCTATCCTTTTTATAAAAGTGTCCATAC--TTTTTTCATTGTGGAAAACATTAATTTAAGGTT
*
2144633 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATAATTTA-TTTTTAC
64 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
2144697 GTTACGATATATTA-T-TTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTT
129 GTTACGATATATTATTATTAAATTAAAAACAATAAACA-ATATATTACATATTTATTATTATCTT
2144760 TGGTTAATATTGTTAAATTTAAATTCTAAATATTA-TTT-TAAAATATCAAAACAATCAAATAAT
193 TGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAAT
* *
2144823 TTTTTGTGTAAATGAAATTATT-TATTAATATTGTAGGTGGAAAACAT-AAACATTATTAAAAAA
258 TTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAA
2144886 AATTGAAACATAAATTACATAACTTTAAAAAAAGTGTCGAT-CTTTTTATAAAAAGTATGGACAC
323 AATTGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTTTTATAAAAAGTATGGACAC
2144950 TTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTT
388 TTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTT
2145015 TATATAATGTAATAGGTAGTTGTAAAG
453 TATATAATGTAATAGGTAGTTGTAAAG
*
2145042 TATCTATCCTTTTT-TAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAATGTTAT
1 TATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTAT
*
2145106 CTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACAT
66 CTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGT
2145171 TACGATGTATATTATTATTAAATTAAAAACAATAAAC-ATATATTACATATTTATTATTATCTTT
131 TACGA--TATATTATTATTAAATTAAAAACAATAAACAATATATTACATATTTATTATTATCTTT
2145235 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATC-AAACAATCAAATAATT
194 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
*
2145299 TTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAA
259 TTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
2145364 ATTGAAACATAAATTACATAACTTT-AAAAAAGTGTCGATCCTTTTTAT-AAAAGTATGGACACT
324 ATTGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTTTTATAAAAAGTATGGACACT
2145427 TTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATAT-ATGTAATAGGTATCGTTT
389 TTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTT
2145491 ATATAATGT-A-AGGTAGTTGTAAAG
454 ATATAATGTAATAGGTAGTTGTAAAG
2145515 TATCTATCC-TTTTATAAAAGTGTCC-TACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTAT
1 TATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTAT
2145578 CTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGT
66 CTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGT
2145643 TACGATATATTATTATTAAATTAAAAACAATAAAC-ATATATTACATA-TTATTATTATCTTTGG
131 TACGATATATTATTATTAAATTAAAAACAATAAACAATATATTACATATTTATTATTATCTTTGG
2145706 TTAATATT-TTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTT
196 TTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTT
*
2145770 TTGTGTAAATAAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAAT
261 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAAT
*
2145835 CGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCC-TTTT-TAAAAAGTATGGACACTTT
326 TGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTTTTATAAAAAGTATGGACACTTT
*
2145898 C-A-ATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATC-ATT-T
391 CAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTAT
2145959 ATAATGTAATAGGTAGTTGTAAAG
456 ATAATGTAATAGGTAGTTGTAAAG
2145983 TATCTATCCTTTTTATAAAAGTGTCCATACTTTTTT-ATTGTGGAAAACATTAATTTAAGGTTAT
1 TATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTAT
2146047 CTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCT-ATGATTTATTTTTTACGT
66 CTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGT
2146111 TACGATATA-TATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTG
131 TACGATATATTATTATTAAATTAAAAACAATAAACA-ATATATTACATATTTATTATTATCTTTG
2146175 GTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
195 GTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
*
2146240 TTTGTGTAAATAAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAA
260 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAA
2146304 TTGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTTTTATAAAAAGTATGGACACTT
325 TTGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTTTTATAAAAAGTATGGACACTT
*
2146369 TCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCATTTA
390 TCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTA
2146434 TATAATGTAATAGGTAGTTGTAAAG
455 TATAATGTAATAGGTAGTTGTAAAG
*
2146459 TATCTATCATTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTAT
1 TATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTAT
2146524 CTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGT
66 CTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGT
*
2146589 TACGATATATATTATTATTAAATTAAAAATAATAAA-AATATATTACATATTTATTATTATCTTT
131 TACG--ATATATTATTATTAAATTAAAAACAATAAACAATATATTACATATTTATTATTATCTTT
2146653 GGTTAATATTGTTAAATTTAAATTCTAAATATTA-TTTATAAAATATC-AAACAATCAAATAATT
194 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAA-T
2146716 TTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAA
258 TTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAA
* *
2146780 AATTGAAACATAAATTACATAACTTTAAAAAAATTATCGATCCTTTTTATAAAAAGTATGGACAC
323 AATTGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTTTTATAAAAAGTATGGACAC
* *
2146845 TTTCAATATAATAGGTAAAAATATGATCTAATAGGTAGCGCTTATATAATGTAATATGTATCGTT
388 TTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTT
2146910 TATATAATGTAATAGGTAGTTGTAAAG
453 TATATAATGTAATAGGTAGTTGTAAAG
* *
2146937 TATCTA----TTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAATATTAATTTAAGGTTAT
1 TATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTAT
2146998 CTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGT
66 CTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGT
2147063 TACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTT
131 TACG--ATATATTATTATTAAATTAAAAACAATAAACA-ATATATTACATATTTATTATTATCTT
*
2147128 TGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAATCAATCAAATAAT
193 TGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAAT
* *
2147193 TTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGAAAAACATGAAACACTATTAAAAAA
258 TTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAA
* *
2147258 AATTGAAACATAAATTACATAACTTTAAAAAAATTATCGATCCTTTTTATAAAAAGTATGGACAC
323 AATTGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTTTTATAAAAAGTATGGACAC
2147323 TTTCAA
388 TTTCAA
2147329 CATATTATAA
Statistics
Matches: 2218, Mismatches: 29, Indels: 76
0.95 0.01 0.03
Matches are distributed among these distances:
466 8 0.00
467 68 0.03
468 103 0.05
469 251 0.11
470 138 0.06
471 203 0.09
472 143 0.06
473 50 0.02
474 290 0.13
475 71 0.03
476 249 0.11
477 208 0.09
478 346 0.16
479 61 0.03
480 6 0.00
481 23 0.01
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (479 bp):
TATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTAT
CTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGT
TACGATATATTATTATTAAATTAAAAACAATAAACAATATATTACATATTTATTATTATCTTTGG
TTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTT
TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAAT
TGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTTTTATAAAAAGTATGGACACTTT
CAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTAT
ATAATGTAATAGGTAGTTGTAAAG
Found at i:2145479 original size:22 final size:23
Alignment explanation
Indices: 2145446--2145501 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 23
2145436 ATAGGTAAAA
*
2145446 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
2145469 ATAT-ATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
2145491 ATATAATGTAA
1 ATATAATGTAA
2145502 GGTAGTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 20 0.67
23 10 0.33
ACGTcount: A:0.36, C:0.05, G:0.20, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:2145963 original size:21 final size:23
Alignment explanation
Indices: 2145913--2145974 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
2145903 ATAGGTAAAA
* *
2145913 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGATT
*
2145936 ATATAATGTAATAGGTATC-ATT
1 ATATAATGTAATAGGTAGCGATT
2145958 -TATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
2145975 TTGTAAAGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 16 0.46
22 2 0.06
23 17 0.49
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGATT
Found at i:2146418 original size:23 final size:23
Alignment explanation
Indices: 2146387--2146450 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
2146377 ATAGGTAAAA
* *
2146387 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCACTT
* *
2146410 ATATAATGTAATAGGTATCATTT
1 ATATAATGTAATAGGTAGCACTT
2146433 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
2146451 TTGTAAAGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCACTT
Found at i:2146899 original size:23 final size:23
Alignment explanation
Indices: 2146873--2146928 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
2146863 AAATATGATC
2146873 TAATAGGTAGCGCTTATATAATG
1 TAATAGGTAGCGCTTATATAATG
* * *
2146896 TAATATGTATCGTTTATATAATG
1 TAATAGGTAGCGCTTATATAATG
2146919 TAATAGGTAG
1 TAATAGGTAG
2146929 TTGTAAAGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.36, C:0.05, G:0.20, T:0.39
Consensus pattern (23 bp):
TAATAGGTAGCGCTTATATAATG
Found at i:2148103 original size:13 final size:14
Alignment explanation
Indices: 2148085--2148117 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
2148075 CAAATTCCCT
*
2148085 AAAAATAT-TTTTA
1 AAAAATATGGTTTA
2148098 AAAAATATGGTTTA
1 AAAAATATGGTTTA
2148112 AAAAAT
1 AAAAAT
2148118 TGAAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (14 bp):
AAAAATATGGTTTA
Found at i:2158915 original size:221 final size:224
Alignment explanation
Indices: 2158504--2159099 Score: 775
Period size: 221 Copynumber: 2.7 Consensus size: 224
2158494 TAACATAACT
* * *
2158504 GGTTAATTACTGGAAACATTATCAACCATAATAACATAA-AAGGTAGTGATTATGTAACGTAATA
1 GGTTAATTACTGGAAACATTATCAACCATAATAACATAACAA-GTAGTGCTTAT-TTATGTAATA
* * * * *
2158568 GGTAGCGT-CTT-TTTAAAGCTGA-CGAGACCTTAGAAATTTGACAATAACAAAATAAGTCAATT
64 TGT-G-GTGCTTGTTTAAAGCTGATCG-GGCCTTAGAAATCTGACAATAACAAAATAGGTTAATT
* *
2158630 ACTTGATTTGTTATCAACATTATCAACATACTAGGTAGCGCCTAAATGTTACCAAAGTTTAAGCT
126 ACTTGATTTGTTATCAATATTATCAACATACTAGGTAGCGCCTAAATGTTACCAAAGCTTAAGCT
* *
2158695 AATGGAGCCTTAG-AATCCGACGATAAC-AAATA
191 AATGAAGCCTTAGAAATCCAACGATAACAAAATA
*
2158727 GGTTAATTACT-GAAACATTATCAACCATAATAATATAACAAGTAGTGCTTATTTATGTAATATG
1 GGTTAATTACTGGAAACATTATCAACCATAATAACATAACAAGTAGTGCTTATTTATGTAATATG
* *
2158791 TGGTGCTTGTTTAAAGTTGATCGGGCCTTAGAAATCCGA-AGATAACAAAATAGGTTAATTACTT
66 TGGTGCTTGTTTAAAGCTGATCGGGCCTTAGAAATCTGACA-ATAACAAAATAGGTTAATTACTT
** * * *
2158855 GATTTGTTATCAATATTATCAACATTTTAGGTAGCGCCTAAAATGTTATC-ACGCTTAAGCTGAT
130 GATTTGTTATCAATATTATCAACATACTAGGTAGCGCCT-AAATGTTACCAAAGCTTAAGCTAAT
* *
2158919 GAAGCCTTAGAAATTCAATGATAACAAAATA
194 GAAGCCTTAGAAATCCAACGATAACAAAATA
* * **
2158950 GATTAATTACTGGAAACATTATCAATCATAATAACATAACAAGTAGCACTTATTTAATGTAATAT
1 GGTTAATTACTGGAAACATTATCAACCATAATAACATAACAAGTAGTGCTTATTT-ATGTAATAT
* *
2159015 GTGGCG-TCTGTTTAAAGCTGAT-GGGTCTTAGAAATCTGACAATAACAAAATAGGTTAATTACT
65 GTGGTGCT-TGTTTAAAGCTGATCGGGCCTTAGAAATCTGACAATAACAAAATAGGTTAATTACT
2159078 TGA-TTGTTATCAATATTATCAA
129 TGATTTGTTATCAATATTATCAA
2159100 TATATTACCG
Statistics
Matches: 330, Mismatches: 31, Indels: 24
0.86 0.08 0.06
Matches are distributed among these distances:
219 2 0.01
220 5 0.02
221 110 0.33
222 58 0.18
223 47 0.14
224 80 0.24
225 28 0.08
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (224 bp):
GGTTAATTACTGGAAACATTATCAACCATAATAACATAACAAGTAGTGCTTATTTATGTAATATG
TGGTGCTTGTTTAAAGCTGATCGGGCCTTAGAAATCTGACAATAACAAAATAGGTTAATTACTTG
ATTTGTTATCAATATTATCAACATACTAGGTAGCGCCTAAATGTTACCAAAGCTTAAGCTAATGA
AGCCTTAGAAATCCAACGATAACAAAATA
Found at i:2159347 original size:130 final size:129
Alignment explanation
Indices: 2159110--2159445 Score: 351
Period size: 130 Copynumber: 2.6 Consensus size: 129
2159100 TATATTACCG
* * * *
2159110 TGTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAGAATCAATATTT
1 TGTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGTATCGATACTT
** * * *
2159175 ATATGACAA---TATTGATACTTTTACATTTATGCCTATTTTCATTATACCGATAGAAATGTTTA
66 -TAT-ACAAGTGTATCAATACTTTGACATTTACGCCTATTATCATTATACCGATAG-AAT-TTTA
2159237 CAA
127 CAA
* *
2159240 TGTACATTGTTAATTTACCTATTACTTTAAAGCAATAGGTTTCGAAATT-TCACGTATCGATACT
1 TGTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTAT-AAGTATCGATACT
** ** * * **
2159304 TTATACAAGTGTATCAATAC-TTGATGTTTACGCCTATTATCATTATATTGGTAGACTTTTACCG
65 TTATACAAGTGTATCAATACTTTGACATTTACGCCTATTATCATTATACCGATAGAATTTTACAA
* * * *
2159368 TTTTCATTGTAAATTAACCTATTACTTTACAA-TAATAGGTTTCGAAATTATAAGTATCGATACT
1 TGTACATTGTTAATTTACCTATTACTTTA-AAGTAATAGGTTTCGAAATTATAAGTATCGATACT
* *
2159432 TTATATATGTGTAT
65 TTATACAAGTGTAT
2159446 AAAGTATCGA
Statistics
Matches: 173, Mismatches: 27, Indels: 14
0.81 0.13 0.07
Matches are distributed among these distances:
128 74 0.43
129 9 0.05
130 83 0.48
131 7 0.04
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.43
Consensus pattern (129 bp):
TGTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGTATCGATACTT
TATACAAGTGTATCAATACTTTGACATTTACGCCTATTATCATTATACCGATAGAATTTTACAA
Found at i:2159944 original size:197 final size:199
Alignment explanation
Indices: 2159320--2160805 Score: 1320
Period size: 197 Copynumber: 7.6 Consensus size: 199
2159310 AAGTGTATCA
* * ** * * *
2159320 ATACTTGATGTTTACGCCTATTATCATTATATTGGTAGACTTTTACCGTTTTCATTGTAAATTAA
1 ATACTTGATGTTTACACCTATTATCATTAAACCGGTAGATTTTTACCGTTTACATTGTAAATTTA
** *
2159385 CCTATTACTTTACAA-TAATAGGTTTCGAAATTATAAGTATCGATACTTTATATATGTGTATAAA
66 CCTATTACTTTA-AAGTAATAGGTTTCGAAATTCCAAGTATCGATACTTTGTATA---G--T---
* * * *
2159449 GTATCGATACATTTTGCGTGCAAATTATTTGAGAAGCATACTGGAATAAAAGTATTGATACCTAT
122 GTATCGATACTTTTTGCGTGCAAATTGTTTGAGAATCATACTGGAATAAAAGTATCGATACCTAT
* *
2159514 ATAGACAA-TATCG
187 ATA-AAAAGTATTG
* * * * * * * * *
2159527 ATACTTGGTATTTACGCCTATTATCAATATATCGGTAGAATTTTACCATTTACATTGTAAAGTTA
1 ATACTTGATGTTTACACCTATTATCATTAAACCGGTAGATTTTTACCGTTTACATTGTAAATTTA
* * * * * ** *
2159592 CCTA-AACTTTAAAGTAATCGGTTTTGGAATTTCGCGTATCGATACTTTATATATGTGTATCGAT
66 CCTATTACTTTAAAGTAATAGGTTTCGAAATTCCAAGTATCGATACTTTGTATA-GTGTATCGAT
* * * * *
2159656 ACATTTTGCGTGCAAAATG-TTGAGAAACATACT-GAACTAAAAGTATCGATACCTATATATAAC
130 ACTTTTTGCGTGCAAATTGTTTGAGAATCATACTGGAA-TAAAAGTATCGATACCTATATAAAAA
2159719 GTATTG
194 GTATTG
* *** * * **
2159725 ATACTTTATGTTTGTGCCTATTATCATTAAACCAGTAAACGTTTACCGTTTACATTGTAAATTTA
1 ATACTTGATGTTTACACCTATTATCATTAAACCGGTAGATTTTTACCGTTTACATTGTAAATTTA
** * * * *
2159790 TGTATTACTTTACAGTAATGGGTTTCGAAGTTCCAAGTAT-GATACTTTGTACA-TGTATCGATA
66 CCTATTACTTTAAAGTAATAGGTTTCGAAATTCCAAGTATCGATACTTTGTATAGTGTATCGATA
* * * * *
2159853 CTTTGTGCGTGCAAAATGTTTGAGAATCAAATTGGAATAAAAGTATCGATACCTATAAAAAAAGT
131 CTTTTTGCGTGCAAATTGTTTGAGAATCATACTGGAATAAAAGTATCGATACCTATATAAAAAGT
*
2159918 TTTG
196 ATTG
* * ** *
2159922 ATACTTGATGTTTACACCTATTATTATTAAATCAATAGATTTTTACCGTTTATATTGTAAATTTA
1 ATACTTGATGTTTACACCTATTATCATTAAACCGGTAGATTTTTACCGTTTACATTGTAAATTTA
* * * * *
2159987 CCTATTACATTAAAGTAATTGGTTTCGAAAGTCCAAGTATCTATACTTTATATATGTGTATCGAT
66 CCTATTACTTTAAAGTAATAGGTTTCGAAATTCCAAGTATCGATACTTTGTATA-GTGTATCGAT
* * * * * *
2160052 ACTTTTTGCGTGCAAATTATTTGAG-ATGCATACTGGAATAACA-TTTCGATACCAATTTAATAA
130 ACTTTTTGCGTGCAAATTGTTTGAGAAT-CATACTGGAATAAAAGTATCGATACCTATATAAAAA
*
2160115 GTATCG
194 GTATTG
* * * * * *
2160121 TTACTTTATGTTTAAACTTA-TATAATTAAACCGGTAGA-TTTTACCATTTACATTGTAAATTTA
1 ATACTTGATGTTTACACCTATTATCATTAAACCGGTAGATTTTTACCGTTTACATTGTAAATTTA
** * * * * *
2160184 TGTATTACTTTATAGTAATAGGTTTTGAAATT-AAAGTACCGATACTTTGTACATGTGTATCGAT
66 CCTATTACTTTAAAGTAATAGGTTTCGAAATTCCAAGTATCGATACTTTGTATA-GTGTATCGAT
* * * * *
2160248 ACTTTTTTCATGCAAATTGTTTTG-CAAGCATACTGGAATAAAAGTATCGATACCTATACAAAAA
130 ACTTTTTGCGTGCAAATTG-TTTGAGAATCATACTGGAATAAAAGTATCGATACCTATATAAAAA
* *
2160312 CATATTA
194 -GTATTG
* *
2160319 ATACTTGATGTTTACACCTATTATCATTAAATCGGTAGATTTTTACC-ATTACATTGTAAA-TTA
1 ATACTTGATGTTTACACCTATTATCATTAAACCGGTAGATTTTTACCGTTTACATTGTAAATTTA
* * * * *
2160382 CCT-TTACTTTAAAGTAATCGGTTTTCGGAAGT-C--TTATCGATACTTTATATATGTGTATCGA
66 CCTATTACTTTAAAGTAATAGG-TTTCGAAATTCCAAGTATCGATACTTTGTATA-GTGTATCGA
* * * *
2160443 TACTTTTTTGCGTGCAAATTGTTTGAG-ATGTATACT-GAATAAAAGTATTGATACTTATATAAT
129 TAC-TTTTTGCGTGCAAATTGTTTGAGAAT-CATACTGGAATAAAAGTATCGATACCTATATAAA
*
2160506 AAGTATCG
192 AAGTATTG
** *
2160514 ATACTT-ATGTTTATGCCTATTATCATTAAACCGATAGATTTTTACCGTTT-CTATTGTAAATTT
1 ATACTTGATGTTTACACCTATTATCATTAAACCGGTAGATTTTTACCGTTTAC-ATTGTAAATTT
*
2160577 ACCTATTACTTTAAAGAAATAGGTTTC---A----AA-T-T---TA------A-A-T-TATCGAT
65 ACCTATTACTTTAAAGTAATAGGTTTCGAAATTCCAAGTATCGATACTTTGTATAGTGTATCGAT
** * *
2160621 ACTTTTTTAGTACAAATTGTTTGAG-ATGCATACTGGAATAACAA-TATCGATACCTATATAATA
130 ACTTTTTGCGTGCAAATTGTTTGAGAAT-CATACTGGAATAA-AAGTATCGATACCTATATAAAA
*
2160684 AGTATTT
193 AGTATTG
* *
2160691 ATACTTTATGTTTACACCTATTATCATTAAACCGGTAGATATTTACCGTTTACATTGT-AATTTA
1 ATACTTGATGTTTACACCTATTATCATTAAACCGGTAGATTTTTACCGTTTACATTGTAAATTTA
* ** * *
2160755 CGTATTACTTTAAAGTAATACATTTCAAAATTCCAAGTATCGAAACTTTGT
66 CCTATTACTTTAAAGTAATAGGTTTCGAAATTCCAAGTATCGATACTTTGT
2160806 TGTCGAAATT
Statistics
Matches: 1045, Mismatches: 186, Indels: 108
0.78 0.14 0.08
Matches are distributed among these distances:
176 28 0.03
177 71 0.07
178 48 0.05
179 1 0.00
180 2 0.00
181 1 0.00
184 2 0.00
185 1 0.00
186 1 0.00
187 2 0.00
189 1 0.00
190 1 0.00
191 1 0.00
193 1 0.00
194 37 0.04
195 19 0.02
196 150 0.14
197 250 0.24
198 159 0.15
199 116 0.11
200 50 0.05
202 1 0.00
204 2 0.00
205 2 0.00
206 38 0.04
207 60 0.06
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (199 bp):
ATACTTGATGTTTACACCTATTATCATTAAACCGGTAGATTTTTACCGTTTACATTGTAAATTTA
CCTATTACTTTAAAGTAATAGGTTTCGAAATTCCAAGTATCGATACTTTGTATAGTGTATCGATA
CTTTTTGCGTGCAAATTGTTTGAGAATCATACTGGAATAAAAGTATCGATACCTATATAAAAAGT
ATTG
Found at i:2160510 original size:21 final size:20
Alignment explanation
Indices: 2160481--2160521 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
2160471 TGTATACTGA
*
2160481 ATAAAAGTATTGATACTTAT
1 ATAAAAGTATCGATACTTAT
2160501 ATAATAAGTATCGATACTTAT
1 ATAA-AAGTATCGATACTTAT
2160522 GTTTATGCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (20 bp):
ATAAAAGTATCGATACTTAT
Found at i:2160559 original size:394 final size:394
Alignment explanation
Indices: 2159314--2160773 Score: 1490
Period size: 396 Copynumber: 3.7 Consensus size: 394
2159304 TTATACAAGT
* * * * ** * *
2159314 GTATCAATACTTGATGTTTACGCCTATTATCATTATATTGGTAGACTTTTACCGTTTTCATTGTA
1 GTATCGATACTTTATGTTTATGCCTATTATCATTAAACCGATAGACTTTTACCGTTTACATTGTA
* * * *
2159379 AATTAACCTATTACTTTACAATAATAGGTTTCGAAATTATAAGTATCGATACTTTATATATGTGT
66 AATTTACCTATTACTTTACAGTAATAGGTTTCGAAATTA-AAGTATCGATACTTTGTACA--TG-
* * *
2159444 ATAAAGTATCGATACATTTTGCGTGCAAATTATTTGAGAAGCATACTGGAATAAAAGTATTGATA
127 -T---GTATCGATACTTTTTGCGTGCAAATTGTTTGAGAAGCATACTGGAATAAAAGTATCGATA
* * * * * * * * *
2159509 CCTATATAGACAATATCGATACTTGGTATTTACGCCTATTATCAATATATCGGTAGAATTTTACC
188 CCTATA-AAAAAATATTGATACTTGATGTTTACACCTATTATCATTAAATCGGTAGATTTTTACC
** *
2159574 ATTTACATTGTAAAGTTACCTAAACTTTAAAGTAATCGGTTTT-GGAATTTCGCGTATCGATACT
252 A-TTACATTGTAAAGTTACCTTTACTTTAAAGTAATCGGTTTTCGGAA-GTC-CGTATCGATACT
* * **
2159638 TTATATATGTGTATCGATACATTTTGCGTGCAAAATG-TTGAGAAACATACTGAACTAAAAGTAT
314 TTATATATGTGTATCGATACTTTTTGCGTGCAAATTGTTTGAGATGCATACTGAA-TAAAAGTAT
*
2159702 CGATACCTATAT-ATAA
378 TGATACCTATATAATAA
* * * *
2159718 CGTATTGATACTTTATGTTTGTGCCTATTATCATTAAACC-AGTAAACGTTTACCGTTTACATTG
1 -GTATCGATACTTTATGTTTATGCCTATTATCATTAAACCGA-TAGACTTTTACCGTTTACATTG
** * * *
2159782 TAAATTTATGTATTACTTTACAGTAATGGGTTTCGAAGTTCCAAGTAT-GATACTTTGTACA--T
64 TAAATTTACCTATTACTTTACAGTAATAGGTTTCGAAATT-AAAGTATCGATACTTTGTACATGT
* * * * *
2159844 GTATCGATACTTTGTGCGTGCAAAATGTTTGAGAATCAAATTGGAATAAAAGTATCGATACCTAT
128 GTATCGATACTTTTTGCGTGCAAATTGTTTGAGAAGCATACTGGAATAAAAGTATCGATACCTAT
* * ** *
2159909 AAAAAAAGTTTTGATACTTGATGTTTACACCTATTATTATTAAATCAATAGATTTTTACCGTTTA
193 AAAAAAA-TATTGATACTTGATGTTTACACCTATTATCATTAAATCGGTAGATTTTTACC-ATTA
* * * * * *
2159974 TATTGTAAATTTACCTATTACATTAAAGTAATTGG-TTTCGAAAGTCCAAGTATCTATACTTTAT
256 CATTGTAAAGTTACCT-TTACTTTAAAGTAATCGGTTTTCGGAAGTCC--GTATCGATACTTTAT
* *
2160038 ATATGTGTATCGATACTTTTTGCGTGCAAATTATTTGAGATGCATACTGGAATAACA-T-TTCGA
318 ATATGTGTATCGATACTTTTTGCGTGCAAATTGTTTGAGATGCATACT-GAATAAAAGTATT-GA
* *
2160101 TACCAATTTAATAA
381 TACCTATATAATAA
* ** * * * *
2160115 GTATCGTTACTTTATGTTTAAACTTA-TATAATTAAACCGGTAGA-TTTTACCATTTACATTGTA
1 GTATCGATACTTTATGTTTATGCCTATTATCATTAAACCGATAGACTTTTACCGTTTACATTGTA
** * * *
2160178 AATTTATGTATTACTTTATAGTAATAGGTTTTGAAATTAAAGTACCGATACTTTGTACATGTGTA
66 AATTTACCTATTACTTTACAGTAATAGGTTTCGAAATTAAAGTATCGATACTTTGTACATGTGTA
* * *
2160243 TCGATACTTTTTTCATGCAAATTGTTTTG-CAAGCATACTGGAATAAAAGTATCGATACCTATAC
131 TCGATACTTTTTGCGTGCAAATTG-TTTGAGAAGCATACTGGAATAAAAGTATCGATACCTATA-
*
2160307 AAAAACATATTAATACTTGATGTTTACACCTATTATCATTAAATCGGTAGATTTTTACCATTACA
194 AAAAA-ATATTGATACTTGATGTTTACACCTATTATCATTAAATCGGTAGATTTTTACCATTACA
*
2160372 TTGTAAA-TTACCTTTACTTTAAAGTAATCGGTTTTCGGAAGT-CTTATCGATACTTTATATATG
258 TTGTAAAGTTACCTTTACTTTAAAGTAATCGGTTTTCGGAAGTCCGTATCGATACTTTATATATG
* *
2160435 TGTATCGATACTTTTTTGCGTGCAAATTGTTTGAGATGTATACTGAATAAAAGTATTGATACTTA
323 TGTATCGATAC-TTTTTGCGTGCAAATTGTTTGAGATGCATACTGAATAAAAGTATTGATACCTA
2160500 TATAATAA
387 TATAATAA
*
2160508 GTATCGATAC-TTATGTTTATGCCTATTATCATTAAACCGATAGATTTTTACCGTTT-CTATTGT
1 GTATCGATACTTTATGTTTATGCCTATTATCATTAAACCGATAGACTTTTACCGTTTAC-ATTGT
* * *
2160571 AAATTTACCTATTACTTTAAAGAAATAGGTTTC-AAATTTAAATTATCGATAC-TT-T---T-T-
65 AAATTTACCTATTACTTTACAGTAATAGGTTTCGAAA-TTAAAGTATCGATACTTTGTACATGTG
*
2160628 TA--G-TA-----------CAAATTGTTTGAGATGCATACTGGAATAACAA-TATCGATACCTAT
129 TATCGATACTTTTTGCGTGCAAATTGTTTGAGAAGCATACTGGAATAA-AAGTATCGATACCTAT
* * * * * * *
2160678 ATAATAAGTATTTATACTTTATGTTTACACCTATTATCATTAAACCGGTAGATATTTACCGTTTA
193 A-AAAAAATATTGATACTTGATGTTTACACCTATTATCATTAAATCGGTAGATTTTTACC-ATTA
* *
2160743 CATTGT-AATTTACGTATTACTTTAAAGTAAT
256 CATTGTAAAGTTACCT-TTACTTTAAAGTAAT
2160774 ACATTTCAAA
Statistics
Matches: 894, Mismatches: 129, Indels: 95
0.80 0.12 0.08
Matches are distributed among these distances:
372 54 0.06
373 54 0.06
374 17 0.02
384 2 0.00
385 1 0.00
387 2 0.00
388 1 0.00
389 1 0.00
392 49 0.05
393 80 0.09
394 144 0.16
395 151 0.17
396 156 0.17
397 76 0.09
398 5 0.01
404 11 0.01
405 90 0.10
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (394 bp):
GTATCGATACTTTATGTTTATGCCTATTATCATTAAACCGATAGACTTTTACCGTTTACATTGTA
AATTTACCTATTACTTTACAGTAATAGGTTTCGAAATTAAAGTATCGATACTTTGTACATGTGTA
TCGATACTTTTTGCGTGCAAATTGTTTGAGAAGCATACTGGAATAAAAGTATCGATACCTATAAA
AAAATATTGATACTTGATGTTTACACCTATTATCATTAAATCGGTAGATTTTTACCATTACATTG
TAAAGTTACCTTTACTTTAAAGTAATCGGTTTTCGGAAGTCCGTATCGATACTTTATATATGTGT
ATCGATACTTTTTGCGTGCAAATTGTTTGAGATGCATACTGAATAAAAGTATTGATACCTATATA
ATAA
Found at i:2160764 original size:177 final size:177
Alignment explanation
Indices: 2160437--2160783 Score: 495
Period size: 177 Copynumber: 2.0 Consensus size: 177
2160427 TATATATGTG
* * * * *
2160437 TATCGATACTTTTTTGCGTGCAAATTGTTTGAGATGTATACTGAATAAAAGTATTGATACTTATA
1 TATCGATACTTTTTTGAGTACAAATTGTTTGAGATGCATACTGAATAAAAGTATCGATACCTATA
** *
2160502 TAATAAGTATCGATACTTATGTTTATGCCTATTATCATTAAACCGATAGATTTTTACCGTTTCTA
66 TAATAAGTATCGATACTTATGTTTACACCTATTATCATTAAACCGATAGATATTTACCGTTTCTA
**
2160567 TTGTAAATTTACCTATTACTTTAAAGAAATAGGTTTCAAATTTAAAT
131 TTGTAAATTTACCTATTACTTTAAAGAAATACATTTCAAATTTAAAT
2160614 TATCGATACTTTTTT-AGTACAAATTGTTTGAGATGCATACTGGAATAACAA-TATCGATACCTA
1 TATCGATACTTTTTTGAGTACAAATTGTTTGAGATGCATACT-GAATAA-AAGTATCGATACCTA
** *
2160677 TATAATAAGTATTTATACTTTATGTTTACACCTATTATCATTAAACCGGTAGATATTTACCGTTT
64 TATAATAAGTATCGATAC-TTATGTTTACACCTATTATCATTAAACCGATAGATATTTACCGTTT
* *
2160742 AC-ATTGT-AATTTACGTATTACTTTAAAGTAATACATTTCAAA
128 -CTATTGTAAATTTACCTATTACTTTAAAGAAATACATTTCAAA
2160784 ATTCCAAGTA
Statistics
Matches: 151, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
176 23 0.15
177 78 0.52
178 49 0.32
179 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (177 bp):
TATCGATACTTTTTTGAGTACAAATTGTTTGAGATGCATACTGAATAAAAGTATCGATACCTATA
TAATAAGTATCGATACTTATGTTTACACCTATTATCATTAAACCGATAGATATTTACCGTTTCTA
TTGTAAATTTACCTATTACTTTAAAGAAATACATTTCAAATTTAAAT
Found at i:2160850 original size:177 final size:177
Alignment explanation
Indices: 2160474--2160823 Score: 415
Period size: 177 Copynumber: 2.0 Consensus size: 177
2160464 TTTGAGATGT
* * * **
2160474 ATACT-GAATAAAAGTATTGATACTTATATAATAAGTATCGATACTTATGTTTATGCCTATTATC
1 ATACTGGAATAACAGTATCGATACCTATATAATAAGTATCGATACTTATGTTTACACCTATTATC
* **
2160538 ATTAAACCGATAGATTTTTACCGTTTCTATTGTAAATTTACCTATTACTTTAAAGAAATAGGTTT
66 ATTAAACCGATAGATATTTACCGTTTCTATTGTAAATTTACCTATTACTTTAAAGAAATACATTT
* * * * * ** *
2160603 CAAATTTAAATTATCGATACTTTTTTAGTACAAATTGTTTGAGATGC
131 CAAATTCAAAGTATCGAAACTTTGTTAGTACAAATTGATAAAAATGC
* **
2160650 ATACTGGAATAACAATATCGATACCTATATAATAAGTATTTATACTTTATGTTTACACCTATTAT
1 ATACTGGAATAACAGTATCGATACCTATATAATAAGTATCGATAC-TTATGTTTACACCTATTAT
* * *
2160715 CATTAAACCGGTAGATATTTACCGTTTAC-ATTGT-AATTTACGTATTACTTTAAAGTAATACAT
65 CATTAAACCGATAGATATTTACCGTTT-CTATTGTAAATTTACCTATTACTTTAAAGAAATACAT
*
2160778 TTCAAAATTCCAAGTATCGAAACTTTGTT-GT-CGAAATT-ATAAAAAT
129 TTC-AAATTCAAAGTATCGAAACTTTGTTAGTAC-AAATTGATAAAAAT
2160824 CGATACTTTA
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
176 10 0.07
177 68 0.47
178 67 0.46
179 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.40
Consensus pattern (177 bp):
ATACTGGAATAACAGTATCGATACCTATATAATAAGTATCGATACTTATGTTTACACCTATTATC
ATTAAACCGATAGATATTTACCGTTTCTATTGTAAATTTACCTATTACTTTAAAGAAATACATTT
CAAATTCAAAGTATCGAAACTTTGTTAGTACAAATTGATAAAAATGC
Found at i:2171058 original size:23 final size:22
Alignment explanation
Indices: 2171032--2171105 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 22
2171022 AACAGTGTAC
*
2171032 CGATGCATCCCTTAAATGTGCAT
1 CGATGCAT-CCTTGAATGTGCAT
* * *
2171055 CGATACAT-CATGAA-GATGCAC
1 CGATGCATCCTTGAATG-TGCAT
2171076 CGATGCATTCCTTGAATGTGCAT
1 CGATGCA-TCCTTGAATGTGCAT
2171099 CGATGCA
1 CGATGCA
2171106 CTCTACTGTG
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
20 1 0.03
21 14 0.35
22 1 0.03
23 23 0.57
24 1 0.03
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (22 bp):
CGATGCATCCTTGAATGTGCAT
Found at i:2173509 original size:21 final size:21
Alignment explanation
Indices: 2173484--2173569 Score: 127
Period size: 21 Copynumber: 4.1 Consensus size: 21
2173474 AATCAGATTG
*
2173484 CCCAGGGGGTATAGATTCCCC
1 CCCAGGGGGTACAGATTCCCC
2173505 CCCAGGGGGTACAGATTCCCC
1 CCCAGGGGGTACAGATTCCCC
* *
2173526 CCTAGGGGGTACCGATTCCCC
1 CCCAGGGGGTACAGATTCCCC
**
2173547 CCCAGGGGGTACCTATTCCCC
1 CCCAGGGGGTACAGATTCCCC
2173568 CC
1 CC
2173570 TGTCTAACGG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 60 1.00
ACGTcount: A:0.16, C:0.40, G:0.27, T:0.17
Consensus pattern (21 bp):
CCCAGGGGGTACAGATTCCCC
Found at i:2176831 original size:20 final size:20
Alignment explanation
Indices: 2176788--2176865 Score: 86
Period size: 19 Copynumber: 3.9 Consensus size: 20
2176778 AGATTGCCCG
2176788 GGGGGTACAGATTCCCCCCA
1 GGGGGTACAGATTCCCCCCA
*
2176808 -GGGGTATAGATTCCCCCCA
1 GGGGGTACAGATTCCCCCCA
* * * *
2176827 GGGGGAATAAATTCCCCCCCG
1 GGGGGTACAGATT-CCCCCCA
*
2176848 GGGGGTACCGATTCCCCC
1 GGGGGTACAGATTCCCCC
2176866 TGTCTAACGG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
19 18 0.38
20 15 0.31
21 15 0.31
ACGTcount: A:0.19, C:0.35, G:0.29, T:0.17
Consensus pattern (20 bp):
GGGGGTACAGATTCCCCCCA
Found at i:2176843 original size:19 final size:19
Alignment explanation
Indices: 2176798--2176850 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
2176788 GGGGGTACAG
* *
2176798 ATTCCCCCCAGGGGTATAG
1 ATTCCCCCCAGGGGAATAA
2176817 ATTCCCCCCAGGGGGAATAA
1 ATTCCCCCCA-GGGGAATAA
*
2176837 ATTCCCCCCCGGGG
1 ATTCCCCCCAGGGG
2176851 GGTACCGATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.21, C:0.36, G:0.26, T:0.17
Consensus pattern (19 bp):
ATTCCCCCCAGGGGAATAA
Found at i:2182607 original size:18 final size:18
Alignment explanation
Indices: 2182578--2182625 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
2182568 ATCTGACCCA
2182578 TTGACTTTGACCCAACCTG
1 TTGAC-TTGACCCAACCTG
** *
2182597 TTGACTTGACCTGACTTG
1 TTGACTTGACCCAACCTG
2182615 TTGACTTGACC
1 TTGACTTGACC
2182626 TGACACAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 21 0.81
19 5 0.19
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (18 bp):
TTGACTTGACCCAACCTG
Found at i:2182626 original size:18 final size:18
Alignment explanation
Indices: 2182595--2182629 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
2182585 TGACCCAACC
2182595 TGTTGACTTGACCTGACT
1 TGTTGACTTGACCTGACT
2182613 TGTTGACTTGACCTGAC
1 TGTTGACTTGACCTGAC
2182630 ACAATGACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (18 bp):
TGTTGACTTGACCTGACT
Found at i:2185508 original size:21 final size:21
Alignment explanation
Indices: 2185478--2185532 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
2185468 ATATACCATG
*
2185478 AGTATCGATACTCTCTCTAGT
1 AGTATCGATACTCACTCTAGT
* *
2185499 AGTATTGATACTCACTTTAGT
1 AGTATCGATACTCACTCTAGT
*
2185520 AGTGTCGATACTC
1 AGTATCGATACTC
2185533 CATGCTAGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.38
Consensus pattern (21 bp):
AGTATCGATACTCACTCTAGT
Found at i:2189416 original size:750 final size:748
Alignment explanation
Indices: 2187390--2189643 Score: 3322
Period size: 750 Copynumber: 3.0 Consensus size: 748
2187380 AAAATGACGC
* * * *
2187390 GTTGTCAAATTGGCGCCGTTGCCGGGGACTTCGACAAAAGTTACT-ATTTTAGATTGTTTTTGAT
1 GTTGTCAAATTGGTGCCGTTGTCGGGGACTTCGACAAAAGTTACTGA-TTTAGTTTGCTTTTGAT
* * * *
2187454 TTATGACTAGGCAAAATCCCAAAGAGCTAGTAGATTTTGAACCA-CATATCGAAGTGCTATCCCA
65 TTATGACTAGGCAAAATCCCGAAGAGCTAGTAGATTTTGAA-CATCATATCAAAGCGCTAGCCCA
* * * *
2187518 GAGACTACGTGGACTAACAATTCGGGAAAAGAGGAAACAATAAGAAGTATGGCGTCAAGAACAAT
129 GAGACTACGTGGACTAACAATTCGAGAAAAGAGGAAACAACAAGAAGTATGACGCCAAGAACAAT
* * **
2187583 CAGATCCAGATCCCGAAGCATCATTTAACAAAAATACTTGCGAAGAA-ACAATACCCGATGCAAC
194 CAGATCCAAATCCCGAAGCATCATTTAATACCAATACTTGCGAAGAAGA-AATACCCGATGCAAC
* * * * * * * *
2187647 TACAAACATTGAATCACATTTCACTCCAACATCACCTAAATTGATGGAAAATTGCACTATATGAG
258 TGCAAACGTTGAATCATATTTTACGCCAAAATCACCTAAATTGATGGACAATTGCACTATCTGAG
** * ** * *
2187712 AATTAACCGCAACTCTCGTGGTTTAACAACCCTTTTGTATCACCTTTCCTCAAGGCGAAACTCCG
323 AATTAGGCGCAACTCTCGCGGTCCAACAACCC-TTTGCATCACCTTTCCTCAAGGCGAAACTCTG
* * * *
2187777 TTTCAACTTAAGACGTGGCTCATTCATCTTCTTCTACCTTCAGCAGTCTTCCAAGTGAAAGTCTG
387 TTTCAACTTAAGACGGGGCTCATTCATCTTCTTCTACCTTCAACGGTCTTCCAGGTGAAAGTCTG
*
2187842 CATAAACATTTGGCAGAATTCCACTAAGTCTGTTCAAGCATGAAACCAA-AGGGAGTTTCCAACG
452 CATAAACATTTGGCAGAATTCCACTTAGTCTGTTCAAGCATGAAA-CAACAGGGAGTTTCCAACG
*
2187906 ACCAAGTTAAATCGAGAGCTTTTCCATTTTCTTTATCTGGTTTAGCTAAAGAGTGGTTATTCTAC
516 ACCAAGTTAAATTGAGAGCTTTTCCATTTTCTTTATCTGGTTTAGCTAAAGAGTGGTTATTCTAC
* *
2187971 TTACCTCCAAATTCAATAAATACATGGGCTGATTTAAATTGAATATTTCTTGACAGGTTTTTCCC
581 TTACCT-CAAATTCAATAAAAACATGGGTTGATTTAAATTGAATATTTCTTGACAGGTTTTTCCC
* *
2188036 AACAGCGAAGCAAAATGAGTTGAGGAGAAGCATTCTGGGAATTAAACAAAAAGACGGAGAGTTAT
645 AAAAGCGAAGGAAAATGAGTTGAGGAGAAGCATTCTGGGAATTAAACAAAAAGACGGAGAGTTAT
2188101 TTTATGAATATTGGGAAAGATTTAAGAAACTTTGTGCAA
710 TTTATGAATATTGGGAAAGATTTAAGAAACTTTGTGCAA
* *
2188140 GTTGTCAAATTGGTGCCGTTGTCGGGGACTTCGATAAAAGTTACTGATTTAGTTTACTTTTGATT
1 GTTGTCAAATTGGTGCCGTTGTCGGGGACTTCGACAAAAGTTACTGATTTAGTTTGCTTTTGATT
* * * *
2188205 TATGACTAGGCAAAATCCCGAAGAGCTAGTAGATTTTAAACCTCATATCAAAGCACTAGCTCAGA
66 TATGACTAGGCAAAATCCCGAAGAGCTAGTAGATTTTGAACATCATATCAAAGCGCTAGCCCAGA
* *
2188270 GACTATGTGGACTAACAATTTGAGAAAAGAGGAAACAACAAGAAGTATGACGCCAAGAACAATCA
131 GACTACGTGGACTAACAATTCGAGAAAAGAGGAAACAACAAGAAGTATGACGCCAAGAACAATCA
* * * * *
2188335 GATCCAATTCCCGAAGCATCATTTAATGCCAATACTTGTGAAGACGCAATACCCGATGCAACTGC
196 GATCCAAATCCCGAAGCATCATTTAATACCAATACTTGCGAAGAAGAAATACCCGATGCAACTGC
* * * * **
2188400 AAACGTTGAATCGTATTTTATG-GAAACATCACCTAAATTGATGGACAATTGCATTATCCAAGAA
261 AAACGTTGAATCATATTTTACGCCAAA-ATCACCTAAATTGATGGACAATTGCACTATCTGAGAA
* * * *
2188464 TTAGGCGTAATTCTCGCGGTCCAACAACCCCTTTGCATCACCTTTCCTCAAGGTGAAACTCTATT
325 TTAGGCGCAACTCTCGCGGTCCAACAA-CCCTTTGCATCACCTTTCCTCAAGGCGAAACTCTGTT
** * *
2188529 TCAACTTAAGATAGGGCTTATTCATCTTCTTACTACCTTCAACGGCCTTCCAGGTGAAAGTCTGC
389 TCAACTTAAGACGGGGCTCATTCATCTTCTT-CTACCTTCAACGGTCTTCCAGGTGAAAGTCTGC
*
2188594 ATAAACATTTGGCAGAATTCCACTTAGTCTGTTCAAGCATGAAACCACAGGGAGTTTCCAACGAC
453 ATAAACATTTGGCAGAATTCCACTTAGTCTGTTCAAGCATGAAACAACAGGGAGTTTCCAACGAC
* *
2188659 TAAGTTAAATTGAGAGCTTTTCCCTTTTCTTTATCTGGTTTAGCTAAAGAGTGGTTATTCTACTT
518 CAAGTTAAATTGAGAGCTTTTCCATTTTCTTTATCTGGTTTAGCTAAAGAGTGGTTATTCTACTT
* *
2188724 AACTCTAAATTCAATAAAAACATGGGTTGATTTAAATTGAATATTTCTTGACAGGTTTTTCCCAG
583 ACCTC-AAATTCAATAAAAACATGGGTTGATTTAAATTGAATATTTCTTGACAGGTTTTTCCCAA
* * * *
2188789 TAGCGAAGGAAAACGAGTTGAAGAGAAGCATTTTGGGAATTAAACAAAAAGACGGAGAGTTATTT
647 AAGCGAAGGAAAATGAGTTGAGGAGAAGCATTCTGGGAATTAAACAAAAAGACGGAGAGTTATTT
*
2188854 TATAAATATTGGGAAAGATTTAAGAAACTTTGTGCAA
712 TATGAATATTGGGAAAGATTTAAGAAACTTTGTGCAA
*
2188891 GTTGTCAAATTGGTGCCGTTGTTGGGGACTTCGACAAAAGTTACTGATTTAGTTTGCTTTTGATT
1 GTTGTCAAATTGGTGCCGTTGTCGGGGACTTCGACAAAAGTTACTGATTTAGTTTGCTTTTGATT
2188956 TATGACTAGGCAAAATCCCGAAGAGCTAGTAGA-TTTGAACATCATATCAAAGCGCTAGCCCAGA
66 TATGACTAGGCAAAATCCCGAAGAGCTAGTAGATTTTGAACATCATATCAAAGCGCTAGCCCAGA
* * * *
2189020 GACTACGTGGACTAACAATTCGAGAAAAGAGGAAACAACAAAAAGTACGTCACCAAGAACAATCA
131 GACTACGTGGACTAACAATTCGAGAAAAGAGGAAACAACAAGAAGTATGACGCCAAGAACAATCA
* *
2189085 GATCCAAATCCCGAAGCATCATTTAATTCCAATACTTGCGAAGAAGAAATACCTGATGCAACTGC
196 GATCCAAATCCCGAAGCATCATTTAATACCAATACTTGCGAAGAAGAAATACCCGATGCAACTGC
** * * *
2189150 AAACGTTGAATTTTATTTTACGCCAAAATCACCTGAATTGATGGACAATCGCAGTATCTGAGAAT
261 AAACGTTGAATCATATTTTACGCCAAAATCACCTAAATTGATGGACAATTGCACTATCTGAGAAT
* *
2189215 TAGGCGCAACTCCCGCGGTCCAACAACCGCTTTGCATCACCTTTCCTCAAAGG-AAAACTCTGTT
326 TAGGCGCAACTCTCGCGGTCCAACAACC-CTTTGCATCACCTTTCCTC-AAGGCGAAACTCTGTT
* *
2189279 TCAACTTAAGACGGGGCTCATTCATCTTCTTCCTACTTTCAACGGTCTTCCAGGTGAAAGTCCGC
389 TCAACTTAAGACGGGGCTCATTCATCTTCTT-CTACCTTCAACGGTCTTCCAGGTGAAAGTCTGC
* * *
2189344 ATAAACATTTGGTAGAATTCCACTTAGTCTGTTCAAGCATGGAACAACAGGGAGTTTCCGACGAC
453 ATAAACATTTGGCAGAATTCCACTTAGTCTGTTCAAGCATGAAACAACAGGGAGTTTCCAACGAC
* *
2189409 CAAGTTAAATTGAGAGTTTTTCCATTTTCTTTATCTGGTTTAACTAAAGAGTGGTTATTCTACTT
518 CAAGTTAAATTGAGAGCTTTTCCATTTTCTTTATCTGGTTTAGCTAAAGAGTGGTTATTCTACTT
* ** * * * **
2189474 ACCTCCAATTC-AT-AAAACATGGGCTT-ATTTAAATCAAATCTTTCTGGATATATTTTTCCCAA
583 ACCTCAAATTCAATAAAAACATGGG-TTGATTTAAATTGAATATTTCTTGACAGGTTTTTCCCAA
** *
2189536 AAGCGAAGGAAAATGAGTTGAGGAGAAATATTCTGGGAATTAAACAAAAAGACGGAGAGTCATTT
647 AAGCGAAGGAAAATGAGTTGAGGAGAAGCATTCTGGGAATTAAACAAAAAGACGGAGAGTTATTT
2189601 TATGAATATTGGGAAAGATTTAAGAAACTTTGTGCAA
712 TATGAATATTGGGAAAGATTTAAGAAACTTTGTGCAA
2189638 GTTGTC
1 GTTGTC
2189644 CGCAACACAG
Statistics
Matches: 1349, Mismatches: 143, Indels: 27
0.89 0.09 0.02
Matches are distributed among these distances:
747 138 0.10
748 4 0.00
749 10 0.01
750 785 0.58
751 412 0.31
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (748 bp):
GTTGTCAAATTGGTGCCGTTGTCGGGGACTTCGACAAAAGTTACTGATTTAGTTTGCTTTTGATT
TATGACTAGGCAAAATCCCGAAGAGCTAGTAGATTTTGAACATCATATCAAAGCGCTAGCCCAGA
GACTACGTGGACTAACAATTCGAGAAAAGAGGAAACAACAAGAAGTATGACGCCAAGAACAATCA
GATCCAAATCCCGAAGCATCATTTAATACCAATACTTGCGAAGAAGAAATACCCGATGCAACTGC
AAACGTTGAATCATATTTTACGCCAAAATCACCTAAATTGATGGACAATTGCACTATCTGAGAAT
TAGGCGCAACTCTCGCGGTCCAACAACCCTTTGCATCACCTTTCCTCAAGGCGAAACTCTGTTTC
AACTTAAGACGGGGCTCATTCATCTTCTTCTACCTTCAACGGTCTTCCAGGTGAAAGTCTGCATA
AACATTTGGCAGAATTCCACTTAGTCTGTTCAAGCATGAAACAACAGGGAGTTTCCAACGACCAA
GTTAAATTGAGAGCTTTTCCATTTTCTTTATCTGGTTTAGCTAAAGAGTGGTTATTCTACTTACC
TCAAATTCAATAAAAACATGGGTTGATTTAAATTGAATATTTCTTGACAGGTTTTTCCCAAAAGC
GAAGGAAAATGAGTTGAGGAGAAGCATTCTGGGAATTAAACAAAAAGACGGAGAGTTATTTTATG
AATATTGGGAAAGATTTAAGAAACTTTGTGCAA
Found at i:2192960 original size:20 final size:20
Alignment explanation
Indices: 2192935--2193424 Score: 156
Period size: 20 Copynumber: 21.6 Consensus size: 20
2192925 AACTAAAATG
*
2192935 CATGAAATGATGCATTAAGA
1 CATGAAAGGATGCATTAAGA
*
2192955 CATGAAAGGATGCATTAAGG
1 CATGAAAGGATGCATTAAGA
*
2192975 CATG-AAGAATGTCATAATTAAAATGA
1 CATGAAAGGATG-C---ATT--AA-GA
* *
2193001 -ATGAACGGATGCATTAAGG
1 CATGAAAGGATGCATTAAGA
*
2193020 CATGAAAGGATGCCATAACTAAAA
1 CATGAAAGGATG-CAT---TAAGA
* *
2193044 TGCATGAACGGATGCATTAAGG
1 --CATGAAAGGATGCATTAAGA
*
2193066 CATGAAAGGATGCCATAACTAAAA
1 CATGAAAGGATG-CAT---TAAGA
* * *
2193090 TGCATGAACGAATGCATTAAGG
1 --CATGAAAGGATGCATTAAGA
*
2193112 CATGAAAGGATGACATAACTAAAA
1 CATGAAAGGATG-CAT---TAAGA
*
2193136 TGCATGAAAGGATGCCATAATTAAAA
1 --CATGAAAGGATG-C---ATTAAGA
* *
2193162 TGCATGAATGGATGCATTAAGG
1 --CATGAAAGGATGCATTAAGA
* *
2193184 CATGAAATGATGCCATAACTAAAA
1 CATGAAAGGATG-CAT---TAAGA
*
2193208 TGCATGAAAGGATGCATTAAGG
1 --CATGAAAGGATGCATTAAGA
*
2193230 CATGAAAGGATGCATAACTAAAA
1 CATGAAAGGATGCAT---TAAGA
** *
2193253 TGCATGAACTGATGCATTAAGG
1 --CATGAAAGGATGCATTAAGA
*
2193275 CATGAAAGGATGCCATATTAAAA
1 CATGAAAGGATG-C--ATTAAGA
*
2193298 TGCATGAAAGGATGCATTAAGG
1 --CATGAAAGGATGCATTAAGA
*
2193320 CATGAAAGGATGCCATAACTAAAA
1 CATGAAAGGATG-CAT---TAAGA
* *
2193344 TGCATGAAAGGATACATTAAGG
1 --CATGAAAGGATGCATTAAGA
* *
2193366 CATGAAATGATGCCATAATTAAAA
1 CATGAAAGGATG-C---ATTAAGA
*
2193390 TGCATGAAAGGATGCATTAAGG
1 --CATGAAAGGATGCATTAAGA
2193412 CATGAAAGGATGC
1 CATGAAAGGATGC
2193425 CATGATTAAA
Statistics
Matches: 353, Mismatches: 59, Indels: 116
0.67 0.11 0.22
Matches are distributed among these distances:
19 7 0.02
20 126 0.36
21 17 0.05
22 33 0.09
23 11 0.03
24 21 0.06
25 45 0.13
26 91 0.26
29 2 0.01
ACGTcount: A:0.43, C:0.12, G:0.23, T:0.22
Consensus pattern (20 bp):
CATGAAAGGATGCATTAAGA
Done.