Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01015687.1 Corchorus olitorius cultivar O-4 contig15720, 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: 93253
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Found at i:2019 original size:29 final size:29
Alignment explanation
Indices: 1962--2023 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 29
1952 AATTTGCCAA
*
1962 TTTTTAAATGTTTTTTTTAACCAAAAAAAT
1 TTTTTAAATG-TTTTTTTAACAAAAAAAAT
*
1992 TTTTTAAATG-TTTTTTCACAAAACAAAAT
1 TTTTTAAATGTTTTTTTAACAAAA-AAAAT
2021 TTT
1 TTT
2024 CATGTTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 11 0.38
29 8 0.28
30 10 0.34
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (29 bp):
TTTTTAAATGTTTTTTTAACAAAAAAAAT
Found at i:2610 original size:26 final size:26
Alignment explanation
Indices: 2574--2626 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
2564 AGTGAACACG
2574 AATGAAATATGTTAAGTTCATTTTAA
1 AATGAAATATGTTAAGTTCATTTTAA
*
2600 AATGGAATATGTTAAGTTCATTTTAA
1 AATGAAATATGTTAAGTTCATTTTAA
2626 A
1 A
2627 TCAGACCATC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.42
Consensus pattern (26 bp):
AATGAAATATGTTAAGTTCATTTTAA
Found at i:2990 original size:16 final size:16
Alignment explanation
Indices: 2969--3000 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2959 TCCATAACCC
2969 ACATCTTTGTTCTTGT
1 ACATCTTTGTTCTTGT
2985 ACATCTTTGTTCTTGT
1 ACATCTTTGTTCTTGT
3001 TGTATAAACT
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:0.12, C:0.19, G:0.12, T:0.56
Consensus pattern (16 bp):
ACATCTTTGTTCTTGT
Found at i:3948 original size:61 final size:60
Alignment explanation
Indices: 3856--3979 Score: 223
Period size: 61 Copynumber: 2.0 Consensus size: 60
3846 TCCTTCTTGT
3856 TTTTCCAGGTATGTTTGGCTTTAGAAATGTTTCCCA-TTTAGAATGATTTCATGTTTTGTTG
1 TTTTCCAGGTATGTTTGGCTTTAGAAATGTTT-CCATTTTAG-ATGATTTCATGTTTTGTTG
3917 TTTTCCAGGTATGTTTGGCTTTAGAAATGTTTCCATTTTAGATGATTTCATGTTTTGTTG
1 TTTTCCAGGTATGTTTGGCTTTAGAAATGTTTCCATTTTAGATGATTTCATGTTTTGTTG
3977 TTT
1 TTT
3980 CGCTTATGTT
Statistics
Matches: 62, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
60 25 0.40
61 37 0.60
ACGTcount: A:0.19, C:0.10, G:0.19, T:0.52
Consensus pattern (60 bp):
TTTTCCAGGTATGTTTGGCTTTAGAAATGTTTCCATTTTAGATGATTTCATGTTTTGTTG
Found at i:14996 original size:23 final size:23
Alignment explanation
Indices: 14970--15014 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
14960 ACGGAACAAC
14970 TTCCGATTTAAGTTTCCAATGTG
1 TTCCGATTTAAGTTTCCAATGTG
*
14993 TTCCGATTTATGTTTCCAATGT
1 TTCCGATTTAAGTTTCCAATGT
15015 AGCTCAGCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.47
Consensus pattern (23 bp):
TTCCGATTTAAGTTTCCAATGTG
Found at i:20187 original size:20 final size:20
Alignment explanation
Indices: 20152--20189 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
20142 TTATAAGGTA
*
20152 CAAAATAGTTGCAATTTACT
1 CAAAATAGTAGCAATTTACT
*
20172 CAAAATAGTAGTAATTTA
1 CAAAATAGTAGCAATTTA
20190 ATTGCATGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.34
Consensus pattern (20 bp):
CAAAATAGTAGCAATTTACT
Found at i:47913 original size:19 final size:19
Alignment explanation
Indices: 47873--47909 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
47863 AATTTTTAAG
47873 TAAAAATATAATATATAAA
1 TAAAAATATAATATATAAA
47892 TAAAAATATAATAT-TAAA
1 TAAAAATATAATATATAAA
47910 ATAATTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAAATATAATATATAAA
Found at i:49477 original size:33 final size:33
Alignment explanation
Indices: 49438--49502 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
49428 TATTGGGGCT
49438 ATCTCATTTTCTTTTCATTTTACAGGGCACATG
1 ATCTCATTTTCTTTTCATTTTACAGGGCACATG
* *
49471 ATCTCATTTTCTTTTCGTTTTACAGTGCACAT
1 ATCTCATTTTCTTTTCATTTTACAGGGCACAT
49503 ATATTTGAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.20, C:0.22, G:0.11, T:0.48
Consensus pattern (33 bp):
ATCTCATTTTCTTTTCATTTTACAGGGCACATG
Found at i:53752 original size:28 final size:30
Alignment explanation
Indices: 53720--53786 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
53710 TGTGGGTCCA
** *
53720 TGCCACGTGGCA-TTT-TTAACATGTGGTG
1 TGCCACGTGGCATTTTCTTAACACATGGCG
*
53748 TGCCATGTGGCATTTTCTTAACACATGGCG
1 TGCCACGTGGCATTTTCTTAACACATGGCG
53778 TGCCACGTG
1 TGCCACGTG
53787 TACGATGTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 11 0.34
29 3 0.09
30 18 0.56
ACGTcount: A:0.18, C:0.22, G:0.27, T:0.33
Consensus pattern (30 bp):
TGCCACGTGGCATTTTCTTAACACATGGCG
Found at i:55924 original size:7 final size:7
Alignment explanation
Indices: 55912--55937 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
55902 CTTTAACTTT
55912 TTTTTTG
1 TTTTTTG
55919 TTTTTTG
1 TTTTTTG
55926 TTTTTTG
1 TTTTTTG
55933 TTTTT
1 TTTTT
55938 GCAGCAACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (7 bp):
TTTTTTG
Found at i:56443 original size:133 final size:131
Alignment explanation
Indices: 56297--56558 Score: 407
Period size: 132 Copynumber: 2.0 Consensus size: 131
56287 ATTTAAGAAA
* * * *
56297 TATATTTTAAAAATTCTAATATATCTAAATTTTTTAATTAAATTAGTAAAATAATAAAAATAAAA
1 TATATTTAAAAAATTCTAATATATAT-AAGTTTTTAATTAAAATAGTAAAATAATAAAAATAAAA
*
56362 TAGATATAAGGATATTAGATTTAATTAAATAAAAAATAGAGTTTTTAGTTGAGTAAAACTATAAA
65 TAGATATAAGGATATTAGATTTAACTAAAT-AAAAATAGAGTTTTTAGTTGAGTAAAACTATAAA
56427 AAG
129 AAG
* ** *
56430 TATATTTAAAAAATTCTAATATATATAAGTTTTTAATTAAAATCGTAAAATGGTAAAAATTAAAT
1 TATATTTAAAAAATTCTAATATATATAAGTTTTTAATTAAAATAGTAAAATAATAAAAATAAAAT
* *
56495 AGTTATAAGGATATTAGATTTAACTAAATAAAAATAGATTTTTTAGTTGAGTAAAACTATAAAA
66 AGATATAAGGATATTAGATTTAACTAAATAAAAATAGAGTTTTTAGTTGAGTAAAACTATAAAA
56559 GTTTAAACAA
Statistics
Matches: 118, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
131 34 0.29
132 60 0.51
133 24 0.20
ACGTcount: A:0.51, C:0.03, G:0.09, T:0.38
Consensus pattern (131 bp):
TATATTTAAAAAATTCTAATATATATAAGTTTTTAATTAAAATAGTAAAATAATAAAAATAAAAT
AGATATAAGGATATTAGATTTAACTAAATAAAAATAGAGTTTTTAGTTGAGTAAAACTATAAAAA
G
Found at i:65449 original size:13 final size:13
Alignment explanation
Indices: 65431--65455 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65421 GTTATCAAAT
65431 TTACAGTAATTAG
1 TTACAGTAATTAG
65444 TTACAGTAATTA
1 TTACAGTAATTA
65456 TCAAATTTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (13 bp):
TTACAGTAATTAG
Found at i:65483 original size:20 final size:18
Alignment explanation
Indices: 65444--65484 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
65434 CAGTAATTAG
*
65444 TTACAGTAATTATCAAAT
1 TTACAGTAATTATAAAAT
65462 TTACAGTAATTATTAAAAAT
1 TTACAGTAATTA-T-AAAAT
65482 TTA
1 TTA
65485 TATTATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 12 0.60
19 1 0.05
20 7 0.35
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.41
Consensus pattern (18 bp):
TTACAGTAATTATAAAAT
Found at i:65750 original size:36 final size:37
Alignment explanation
Indices: 65703--65778 Score: 145
Period size: 36 Copynumber: 2.1 Consensus size: 37
65693 TTTACAATAC
65703 TTAATTACTCAAAAAGCTATAACGGTTAT-AAAAAAG
1 TTAATTACTCAAAAAGCTATAACGGTTATGAAAAAAG
65739 TTAATTACTCAAAAAGCTATAACGGTTATGAAAAAAG
1 TTAATTACTCAAAAAGCTATAACGGTTATGAAAAAAG
65776 TTA
1 TTA
65779 TATATGTATC
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
36 29 0.74
37 10 0.26
ACGTcount: A:0.49, C:0.11, G:0.12, T:0.29
Consensus pattern (37 bp):
TTAATTACTCAAAAAGCTATAACGGTTATGAAAAAAG
Found at i:65774 original size:21 final size:20
Alignment explanation
Indices: 65713--65780 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 20
65703 TTAATTACTC
65713 AAAAAGCTATAACGGTTATA
1 AAAAAGCTATAACGGTTATA
*
65733 AAAAAG-T-TAA---TTACTC
1 AAAAAGCTATAACGGTTA-TA
65749 AAAAAGCTATAACGGTTATGA
1 AAAAAGCTATAACGGTTAT-A
*
65770 AAAAAGTTATA
1 AAAAAGCTATA
65781 TATGTATCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 13
0.70 0.06 0.24
Matches are distributed among these distances:
15 3 0.08
16 7 0.18
17 1 0.03
18 6 0.16
19 1 0.03
20 7 0.18
21 13 0.34
ACGTcount: A:0.51, C:0.09, G:0.13, T:0.26
Consensus pattern (20 bp):
AAAAAGCTATAACGGTTATA
Found at i:66726 original size:39 final size:38
Alignment explanation
Indices: 66691--66792 Score: 98
Period size: 40 Copynumber: 2.6 Consensus size: 38
66681 TATTGATCAC
** * *
66691 CACACTATGAAATTC-ATAATGGTGTGAAAATTTGATAA
1 CACACTATGAAATTCGATAA-CCTATAAAAATTTGATAA
*
66729 CATCATTATGAAATTTCGATAACCTATAAAAATTTGATAAA
1 CA-CACTATGAAA-TTCGATAACCTATAAAAATTTGAT-AA
*
66770 CACACTATGAAATTTTGATAACC
1 CACACTATGAAA-TTCGATAACC
66793 ACATTATGAA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
38 2 0.04
39 9 0.17
40 34 0.64
41 8 0.15
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (38 bp):
CACACTATGAAATTCGATAACCTATAAAAATTTGATAA
Found at i:66740 original size:22 final size:21
Alignment explanation
Indices: 66715--66855 Score: 100
Period size: 22 Copynumber: 6.7 Consensus size: 21
66705 CATAATGGTG
66715 TGAAAATTTGATAACATCATTA
1 TGAAAATTTGATAACA-CATTA
66737 TG-AAATTTCGATAAC-C--TA
1 TGAAAATTT-GATAACACATTA
* *
66755 TAAAAATTTGATAAACACACTA
1 TGAAAATTTGAT-AACACATTA
*
66777 TGAAATTTTGATAACCACATTA
1 TGAAAATTTGATAA-CACATTA
*
66799 TGAAATTTTGATAAC-C-TTA
1 TGAAAATTTGATAACACATTA
* *
66818 GTGTGAAA-CTG-TAACAGCATTA
1 -TG-AAAATTTGATAACA-CATTA
66840 TGAAAATTTTGATAAC
1 TGAAAA-TTTGATAAC
66856 CTCTTCATAA
Statistics
Matches: 95, Mismatches: 9, Indels: 29
0.71 0.07 0.22
Matches are distributed among these distances:
18 6 0.06
19 16 0.17
20 10 0.11
21 14 0.15
22 45 0.47
23 4 0.04
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (21 bp):
TGAAAATTTGATAACACATTA
Found at i:66765 original size:40 final size:40
Alignment explanation
Indices: 66717--66792 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
66707 TAATGGTGTG
*
66717 AAAATTTGAT-AACATCATTATGAAATTTCGATAACCTATA
1 AAAATTTGATAAACA-CACTATGAAATTTCGATAACCTATA
*
66757 AAAATTTGATAAACACACTATGAAATTTTGATAACC
1 AAAATTTGATAAACACACTATGAAATTTCGATAACC
66793 ACATTATGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 29 0.88
41 4 0.12
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (40 bp):
AAAATTTGATAAACACACTATGAAATTTCGATAACCTATA
Found at i:66984 original size:22 final size:22
Alignment explanation
Indices: 66959--67020 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
66949 ATCTCCATAA
*
66959 AATTGTTG-TAACCTTCCTATGC
1 AATT-TTGTTAACCTCCCTATGC
66981 AATTTTGTTAACCTCCCTATG-
1 AATTTTGTTAACCTCCCTATGC
* *
67002 ATACTTTGATAACCTCCCT
1 A-ATTTTGTTAACCTCCCT
67021 CCCTATGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 4 0.11
22 31 0.89
ACGTcount: A:0.24, C:0.26, G:0.10, T:0.40
Consensus pattern (22 bp):
AATTTTGTTAACCTCCCTATGC
Found at i:67028 original size:26 final size:26
Alignment explanation
Indices: 66992--67041 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
66982 ATTTTGTTAA
*
66992 CCTCCCTATGATACTTTGATAACCTC
1 CCTCCCTATGAAACTTTGATAACCTC
*
67018 CCTCCCTATGAAATTTTGATAACC
1 CCTCCCTATGAAACTTTGATAACC
67042 ACACTATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.26, C:0.32, G:0.08, T:0.34
Consensus pattern (26 bp):
CCTCCCTATGAAACTTTGATAACCTC
Found at i:67077 original size:22 final size:22
Alignment explanation
Indices: 67028--67151 Score: 83
Period size: 22 Copynumber: 5.6 Consensus size: 22
67018 CCTCCCTATG
* **
67028 AAATTTTGATAACCACACTAT-
1 AAATTTTGATAACCTCTGTATA
*
67049 AAATTTTGATAACCTTTGTATA
1 AAATTTTGATAACCTCTGTATA
* * *
67071 AAATTTTGTTAACGACACTCTA-A
1 AAATTTTGATAAC--CTCTGTATA
*
67094 GAAATTTTGATAACCAT-TTTATA
1 -AAATTTTGATAACC-TCTGTATA
* * *
67117 AAATTTTGGTAACGTCTGTATG
1 AAATTTTGATAACCTCTGTATA
*
67139 GAATTTTGATAAC
1 AAATTTTGATAAC
67152 TACACTATGA
Statistics
Matches: 79, Mismatches: 17, Indels: 13
0.72 0.16 0.12
Matches are distributed among these distances:
21 18 0.23
22 43 0.54
23 2 0.03
24 16 0.20
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (22 bp):
AAATTTTGATAACCTCTGTATA
Found at i:67157 original size:68 final size:67
Alignment explanation
Indices: 67027--67157 Score: 163
Period size: 68 Copynumber: 1.9 Consensus size: 67
67017 CCCTCCCTAT
* *
67027 GAAATTTTGATAACCACACTATAAATTTTGATAACCTTTGTATAAAATTTTGTTAACGACACTCT
1 GAAATTTTGATAACCACACTATAAATTTTGATAACCTCTGTATAAAATTTTGATAACGACACTCT
67092 AA
66 AA
*** * * ** *
67094 GAAATTTTGATAACCATTTTATAAAATTTTGGTAACGTCTGTATGGAATTTTGATAACTACACT
1 GAAATTTTGATAACCACACTAT-AAATTTTGATAACCTCTGTATAAAATTTTGATAACGACACT
67158 ATGACGTTAC
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
67 19 0.36
68 34 0.64
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (67 bp):
GAAATTTTGATAACCACACTATAAATTTTGATAACCTCTGTATAAAATTTTGATAACGACACTCT
AA
Found at i:68313 original size:118 final size:118
Alignment explanation
Indices: 68104--68336 Score: 412
Period size: 118 Copynumber: 2.0 Consensus size: 118
68094 TGTTAACGCG
* *
68104 TTTGGAATCTAAGAATTAAGGAGTAATTTATACTATTTTTATTGGAAGAGTTGGTTTGAAGTGGA
1 TTTGGAATCTAAGAATTAAGGAGTAATTTATACTATTTTTATTGGAAAAGTTGGTTTGAAGTGAA
*
68169 AAATTCAAGGACTTGAAATTCTTCAAAACAATATTCATGGTTGTGGTGGAGCA
66 AAATTCAAGGACTTGAAATTCCTCAAAACAATATTCATGGTTGTGGTGGAGCA
*
68222 TTTGGGATCTAAGAATTAAGGAGTAATTTATACTATTTTTATTGGAAAAGTTGGTTTGAAGTGAA
1 TTTGGAATCTAAGAATTAAGGAGTAATTTATACTATTTTTATTGGAAAAGTTGGTTTGAAGTGAA
* *
68287 AAATTTAAGGACTTGAAATTCCTCAAAACAATATTTATGGTTGTGGTGGA
66 AAATTCAAGGACTTGAAATTCCTCAAAACAATATTCATGGTTGTGGTGGA
68337 TGTTCTTCCA
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
118 109 1.00
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.36
Consensus pattern (118 bp):
TTTGGAATCTAAGAATTAAGGAGTAATTTATACTATTTTTATTGGAAAAGTTGGTTTGAAGTGAA
AAATTCAAGGACTTGAAATTCCTCAAAACAATATTCATGGTTGTGGTGGAGCA
Found at i:75046 original size:163 final size:162
Alignment explanation
Indices: 74823--75278 Score: 596
Period size: 163 Copynumber: 2.8 Consensus size: 162
74813 CGTCATATTG
* * *
74823 ATATATGGAGGAAGAGAATTTTTTT-CTCTATTTTTGGAGGGAAAAATTCCCTCACCCCTAAAAC
1 ATATATGGAGG--GAGAATTTTTTTCCTTTTTTTTTGGAGGGAAAAATTCCCTCCCCCCTAAAAC
* * ** *
74887 AAAGAAAGTTTCCAACTCTGCGCCTATAATATATAGCGGCATTTTTGCATCAGACGCCGCGAAGT
64 AAAGAAAATTTCCAACTCTACGCCTATAATATATAGCGGCATTTTCCCACCAGACGCCGCGAA-T
* *
74952 -AGCGGCGTCTTTAGAAGAAAACGCCGCTATCTTA
128 CAACGGCGTCTTGAGAAGAAAACGCCGCTATCTTA
74986 ATATATGGAGGGAGATATTTTTTTCCTTTTTTTTTGGAGGGAAAAATTCCCTCCCCCCTAAAACA
1 ATATATGGAGGGAGA-ATTTTTTTCCTTTTTTTTTGGAGGGAAAAATTCCCTCCCCCCTAAAACA
* * * *
75051 AAG-AATTTTGCTAACTCTACGCCTATAATATATAGCGGCGTTTTCCCACCAGACGCCGCTAATC
65 AAGAAAATTT-CCAACTCTACGCCTATAATATATAGCGGCATTTTCCCACCAGACGCCGCGAATC
* * * *
75115 AATGGCGTCTTGGGAAGGAAACGCCGCTATTTTA
129 AACGGCGTCTTGAGAAGAAAACGCCGCTATCTTA
*
75149 ATATATGGAGGGAGAGATTTTTTTTCCCTTTTTTTTGGAGGGAAAAATTCCCT-CCCCCTAAAAC
1 ATATATGGAGGGAGA-A-TTTTTTTCCTTTTTTTTTGGAGGGAAAAATTCCCTCCCCCCTAAAAC
* * * * * *
75213 ATAGAAAATTTCCAACTCTACACCTATAATATATTGCAGCGTTTACCCACCAGACGCCGCGAATC
64 AAAGAAAATTTCCAACTCTACGCCTATAATATATAGCGGCATTTTCCCACCAGACGCCGCGAATC
75278 A
129 A
75279 GTGGCGTTTC
Statistics
Matches: 260, Mismatches: 27, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
161 4 0.02
162 14 0.05
163 203 0.78
164 39 0.15
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (162 bp):
ATATATGGAGGGAGAATTTTTTTCCTTTTTTTTTGGAGGGAAAAATTCCCTCCCCCCTAAAACAA
AGAAAATTTCCAACTCTACGCCTATAATATATAGCGGCATTTTCCCACCAGACGCCGCGAATCAA
CGGCGTCTTGAGAAGAAAACGCCGCTATCTTA
Found at i:77046 original size:6 final size:6
Alignment explanation
Indices: 77008--77047 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
76998 GCAATTGTCA
* * *
77008 ATGGCG GTGGCG ATGGAG ATGGCG ATCGCG ATGGCG ATGG
1 ATGGCG ATGGCG ATGGCG ATGGCG ATGGCG ATGGCG ATGG
77048 TGGTAACCTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.17, C:0.15, G:0.50, T:0.17
Consensus pattern (6 bp):
ATGGCG
Found at i:77464 original size:32 final size:32
Alignment explanation
Indices: 77427--77636 Score: 348
Period size: 32 Copynumber: 6.5 Consensus size: 32
77417 GTATGAAAAG
*
77427 AAAACGCCCTTATTTAGCGGCGTCTAAAGAAC
1 AAAACGCCCTTATTTAGCGGCGTCTACAGAAC
* *
77459 AAAACGCCCTTATTTAGAGGCGTCTATAGAAC
1 AAAACGCCCTTATTTAGCGGCGTCTACAGAAC
77491 AAAACGCCCTTATTTAGCGGCGTCTACAGAAC
1 AAAACGCCCTTATTTAGCGGCGTCTACAGAAC
77523 AAAACGCCCTTATTTAGCGGCGTCTACAGAAC
1 AAAACGCCCTTATTTAGCGGCGTCTACAGAAC
* *
77555 AAAATGCCCTTATTTAGCGGCGCCTACAGAAC
1 AAAACGCCCTTATTTAGCGGCGTCTACAGAAC
*
77587 AAAACGCCCTTATTTAGCGGCGTCTATAGAAC
1 AAAACGCCCTTATTTAGCGGCGTCTACAGAAC
77619 AAAACGCCGCTATATTTA
1 AAAACGCC-CT-TATTTA
77637 ACTGCTTCCA
Statistics
Matches: 167, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
32 159 0.95
33 2 0.01
34 6 0.04
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (32 bp):
AAAACGCCCTTATTTAGCGGCGTCTACAGAAC
Found at i:82440 original size:329 final size:329
Alignment explanation
Indices: 81066--85533 Score: 3515
Period size: 330 Copynumber: 13.7 Consensus size: 329
81056 CCATGATGGT
* * **
81066 AAAAA-TGACCCGAAAGATTTTTCCTCAATTTTT-GACAAAAACACTCATAAAATATATATAACA
1 AAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAG-CTAAAATACTCATAAAATATATATAATT
* * * * *
81129 CAACGTCAAAAAGATTTG-AGGACTTTTCACGCTTTTAATATTGTATTT-C-A-TTTTTTTCTGA
65 CAACGCCAAAAAGA-TTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCTATTTTTTTTC-GA
** * * *
81190 ATTAATTTCTAATTAAATCGGTACAAGATTCAGATGCACATAAAAACAAATCGTTAAATCCAATG
128 ATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATG
* * * * * * *
81255 TGGTTGAGATTTTATTAGATGAATAAAGATATTTCAAGAAGTCTCGGCTCCAAAAATCATGCAAA
193 TGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTTGCCACCAAAAATCATGCAAA
* * ** * *
81320 ACAGAGCCGTGGCCTTGGAACGCGTTTTTAGCC-AAAAACCGTGATGGTTAGTACACGATTTTGG
258 ACTGACCCG-GGCCCCGGAACGCGTTTTTAGCCAAAAAACTGTGAT-G---GTACACGATTTCGG
81384 CTAAAATTTTGC
318 CTAAAATTTTGC
* * * * * * * *
81396 ---AATTGACCCGAAAGATATTTCTTCTATTTTTGGCTAAAATACTTAGAAAAAATATATGATTC
1 AAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAGCTAAAATACTCATAAAATATATATAATTC
* *** * * * * *
81458 GATATCAAAAAGATTGAAGGGCTTTTAACACTTATAATATTGTTTTTCCTA-TTTCTTTCTGAAT
66 AACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCTATTTTTTTTC-GAAT
* * * *
81522 TAATTTCCAATTAAATCGACACAAGATTCAGATGCTCGTAAAAACAAATTCTTAAATCTAATGTG
130 TAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTG
* * * *
81587 GCTAAGATTCGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCACCAAAAATCATGCAAAAC
195 GCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTTGCCACCAAAAATCATGCAAAAC
* ** * * * * *
81652 TGAGCCGCACCCCGGAACGTGTTTTTAGCC-GAAAACCGT--TAGTACACGATTTCAGCTAAAAT
260 TGACCCGGGCCCCGGAACGCGTTTTTAGCCAAAAAACTGTGATGGTACACGATTTCGGCTAAAAT
*
81714 TTTTC
325 TTTGC
* * * *
81719 AAAAATTGACCAGAAA-ATTTTTTCCTCGATTTCTAGCGAAAATACTCATAAAA-ATATATAATT
1 AAAAATTGACCCGAAAGA-TTTTTCCTCAATTTTTAGCTAAAATACTCATAAAATATATATAATT
* * * * * *
81782 CAACACCAAAAA-AATGAAAGCCTTGTTCACGCTTCTAATACCG-TTTTCCTTATTTTCTTTCGA
65 CAACGCCAAAAAGATTGAAGGGCTT-TTCACGCTTCTAATATCGTTTTTCC-TATTTTTTTTCG-
* * * *
81845 AATTAATTTCTAATTAAATCAAAACAAGATTTAGGAAT--TCGTAAAAACAAATCCTTTAATACA
127 AATTAATTTCTAATTAAATCGAAACAAGATTCA-G-ATGCTCGTAAAAACAAATCCTTAAATCCA
* * *
81908 ATGTGGCTGAGATTTGGTTAGATGAATATAGATATATTTTAAGGAGTCTTGACACCAAAAATCAT
190 ATGTGGCTGAGATTTGATTAGATGAATATAG--ATATTTCAAGGAGTCTTGCCACCAAAAATCAT
* **
81973 GCAAAACTGACCCAGGACCCCGGAACGCGTTTTTAGCCAAAAAAACAATGATGGTACACGATTTC
253 GCAAAACTGACCC-GGGCCCCGGAACGCGTTTTTAGCC-AAAAAACTGTGATGGTACACGATTTC
*
82038 GGCTAAAATTTTAC
316 GGCTAAAATTTTGC
* * * * * *
82052 AAAAAATAACCCGAAATATTTTT-CTCAATTTTTAGCCATAATACTCATAAAAAATATATAATTC
1 AAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAGCTAAAATACTCATAAAATATATATAATTC
* * * *
82116 AACGCCAAAAAGATTAAAGGGCTTCTCACGCTTCTAATATCGTTTTCCCTATTTTTTTTCAAATT
66 AACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCTATTTTTTTTCGAATT
* * * **
82181 AATTTCTTATTAAATCGAAACATGATTCAAATGCTCACAAAAACAAATCCTTAAAT-CAAGTGTG
131 AATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAA-TGTG
* * * * ** *
82245 GATAAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTTTTGCCATGAAAAATCATACAAAAC
195 GCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTTGCCACCAAAAATCATGCAAAAC
*
82310 TGACCCGGGCCCCGGAACGCGTTTTTAGCCAAAAAACTGTGATGGTACACGATTTCGACTAAAAT
260 TGACCCGGGCCCCGGAACGCGTTTTTAGCCAAAAAACTGTGATGGTACACGATTTCGGCTAAAAT
82375 TTTGC
325 TTTGC
* * *
82380 AAAAATTGACCCGAAAGATTTTGT-CTCAATTTTTAGCCACAACACTCATAAAATATATATAATT
1 AAAAATTGACCCGAAAGATTTT-TCCTCAATTTTTAGCTAAAATACTCATAAAATATATATAATT
* * * * * *
82444 CAACACCAAAAAGACTAAAGGACTTTTCACGCTTTTAATATCGTTTTTCATATTTTTTTT-GAAT
65 CAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCTATTTTTTTTCGAAT
* * * *
82508 TAATTTCTAATTAAATCGAAACAAAATTCAGAGGCTCGTAAAAACAAATCCTTAAATTCAATATG
130 TAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTG
* * * *
82573 GCTGAGATTTGAATAGATGAATATAGATATTTCAAGAAGTC-T-CAACGGAAAAAATCATGCAAA
195 GCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTTGCCAC--CAAAAATCATGCAAA
* ** * * * *
82636 ACTAAGCCTAGG-CCTGGAAACGCGTTTTTAGCCAAAAACCATGATGGTTAGTACACGATTTCGG
258 ACTGA-CCCGGGCCCCGG-AACGCGTTTTTAGCCAAAAAAC-TG-T-GATGGTACACGATTTCGG
82700 CTAAAATTTTGC
318 CTAAAATTTTGC
* * * * * *
82712 AAAAATTTACCCGAAAAATTTTCCCGACAATTTTTTGCTAAAATACTCGTAAAATATATATAATT
1 AAAAATTGACCCGAAAGATTTTTCC-TCAATTTTTAGCTAAAATACTCATAAAATATATATAATT
* * * * ** * * *
82777 TAATGCCAAAAAAATTGGAGAACTTTTCACGCTTTTAATATC-ATTTT--TATTATTTTAT-GAA
65 CAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCTATT-TTTTTTCGAA
* * ** * *
82838 TTAATTTTTAATTAAATCGAAATAAGATTCAGATGCTTATAAAATCAAATTCTTAAATCCAATGT
129 TTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGT
* * * * * * * *
82903 TGCTGATATTTGATTAGATGAATATGGATATCTCAAAGAGTCTTGGCGCCAAAAATCATGCAAAT
194 GGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTTGCCACCAAAAATCATGCAAAA
* * * * ** ** * ** *
82968 CTGAGTCGGGGTCCCGAAACGCGACTTTAGTTAAAAACCATGATGATTATCAAACGATTTCGGCT
259 CTGA-CCCGGGCCCCGGAACGCGTTTTTAGCCAAAAAAC-TG-TGATGGT-ACACGATTTCGGCT
* *
83033 AGAA--TTAC
320 AAAATTTTGC
* * * *
83041 AAAAATTGACTCGAAAG-TTATTTCCTCAATTTTTAGCCACAACACTCATTAAAAT-TATATAAT
1 AAAAATTGACCCGAAAGATT-TTTCCTCAATTTTTAGCTAAAATACTCA-TAAAATATATATAAT
* * * *
83104 TCAACACCAATAAA-ATTGAAGGGCTTTTCATGCTTCTAATATCGTTTTTTCTATTATTTTTCGA
64 TCAACGCCAA-AAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCTATTTTTTTTCGA
* * * * *** *
83168 ATTAATTTCTGATTAAATCGAAACATGATTCAAATGCTTGT-TTTAGAAATCCTTAAATCCAATG
128 ATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATG
* * ** ** **** * *
83232 TGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGG-GACCCCGGAACGTGTATTTA-GCAA
193 TGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAG-TCTTGCCACCAAAAATCATGCAA
** * * * *
83295 AA---A----------AAAAC-CGTAATTT---C----GAC--TAAT-GTACACGATTTCCGCTA
257 AACTGACCCGGGCCCCGGAACGCGT-TTTTAGCCAAAAAACTGTGATGGTACACGATTTCGGCTA
* *
83336 ATATTTTGT
321 AAATTTTGC
* *
83345 AAAAATTGACCAG-AAGTATTTTTCCTTAATTTTT-GTCTAAAATACTCATAATATATATATATA
1 AAAAATTGACCCGAAAG-ATTTTTCCTCAATTTTTAG-CTAAAATACTCATAA-A-ATATATATA
** ** * * * * * * *
83408 TATTTCAATTCCAAAAATTTTTCAA-GACTTTTCCCTCTTTTAATATCGTTTTTCATA-TTTTTC
62 -A-TTCAACGCCAAAAA-GATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCTATTTTTTT
* * * **
83471 T-GAATTAATTTCAAATTAAATCAAAACAAGATTCAGATGCTCGTAAAAACACATCCTTAAATGT
124 TCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCC
* * * * * * * * *
83535 AATGTGGCTAAGATTTGATCAAATAAATATAGATTTTTCAAGGAGTCTCGACGCCAAAAATCATA
189 AATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTTGCCACCAAAAATCATG
* * ** * * * *** *
83600 CAATACTAAGTCGGGGCCCGAAACACGTTTTTCGTATAAAAAAAACAGTGATGGTTAGTACACGA
254 CAAAACTGACCCGGGCCCCGGAACGCG-TTTT--TAGCCAAAAAACTGTGAT-G---GTACACGA
*
83665 TTTCGGTTAAAATTTTGC
312 TTTCGGCTAAAATTTTGC
* * *
83683 AAAAAATGACCTGAAAAATTTTTCCTCAATTTTT-GACTAAAATACTCATGAAAATATATATAAT
1 AAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAG-CTAAAATACTCAT-AAAATATATATAAT
* * * * * *
83747 GT-AACGCCAAAAAGATTGGAGGACTTTTCACGCTTTTCATATCGTTTCTCATA-TTTTTTT-GA
64 -TCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCTATTTTTTTTCGA
* * * * *
83809 ATTAATTTGTAATTAAATCGAAACAAGATACAAATGCTCGT-AAAACAAATCATTAAATGCAATG
128 ATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATG
* * * * * * ** *
83873 TGGATGAGATTTGATTAGATTAATATGGATATCTCAAGGATTCGTAACGCCAAAAATCATGCAAA
193 TGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTTGCCACCAAAAATCATGCAAA
** ** * * **
83938 ACTGACTTGGGGCCCTAGAACGTGTTTTTAGCCAAAAACCGTGATGATTATTACACG--TTCGGC
258 ACTGAC-CCGGGCCCCGGAACGCGTTTTTAGCCAAAAAAC-TG-TGA-TGGTACACGATTTCGGC
*
84001 TACAATTTTGC
319 TAAAATTTTGC
* * *
84012 AAAAATTGA-CCGAAAAAATATTTT-CTCAATTTTT-GACTAAAATACTCATAAAAAAATATAAA
1 AAAAATTGACCCG-AAAGAT-TTTTCCTCAATTTTTAG-CTAAAATACTCAT-AAAATATATATA
** * * * * * *
84074 ATTCTTCGCCAAAAATATTGAAGGGTTTTTTACGCTTCTAAATATCTTTTTTCCTACTTTTTTCC
62 ATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCT-AATATCGTTTTTCCTATTTTTTTTC
* * * * * **
84139 GGATTAATTTCTAATTAAAACGAAACAAGATTTAGATGCTCGTAAAAAAAAATCCTTAATTTGAA
126 GAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAA
* * * * * *
84204 TGTGACTGAGATTTGATTAGATAAATATAGATATTTGC-ATGATTTTTG--GCCAAAAATCATGC
191 TGTGGCTGAGATTTGATTAGATGAATATAGATATTT-CAAGGAGTCTTGCCACCAAAAATCATGC
* * * ** * * * *
84266 AAAATTGACTCGAGGCCTCGGAGTGCAG-TTTTGGCAAAAAAAAAAAAACCGTGATGTTACACGA
255 AAAACTGACCCG-GGCCCCGGAACGC-GTTTTTAGC------CAAAAAACTGTGATGGTACACGA
*
84330 TTTCGGCTAATATTTTGC
312 TTTCGGCTAAAATTTTGC
* * * * * *
84348 AAAAATTGACACAAAATATTTTTCCTCAACTTTTAGCCACAATACTCATAAAA-AGTATATAATT
1 AAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAGCTAAAATACTCATAAAATA-TATATAATT
* * * * *
84412 CAACGCTAAACAGATTGAAGGGCTTTTCATGCTTCTAATA-CTGTTTTTTCT-TATTTTTTTCCA
65 CAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATC-GTTTTTCCTAT-TTTTTTTCGA
* * *
84475 AGTTAATTTCTAATTAAAACGAAACATGATTCAGATGCTTGT-------AA-----AAA--CAA-
128 A-TTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAAT
* * * * *
84525 -TGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGAAGTCTCGGCACC--AAATCATTCAA
192 GTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTTGCCACCAAAAATCATGCAA
* * * * ** **
84587 AACTGAACCGGGCCCTGAAACGCGTTTTTAGCCAAAAATCGTGATGATTACTACACGATTTCGAT
257 AACTGACCCGGGCCCCGGAACGCGTTTTTAGCCAAAAAAC-TG-TGA-TGGTACACGATTTCGGC
84652 TAAAATTTTGC
319 TAAAATTTTGC
* * *
84663 AAAAATTGACCTGAAAGATATTTT-CTCAATTTTTAGCCATAATACTCA-ATAAA-ATATATAAT
1 AAAAATTGACCCGAAAGAT-TTTTCCTCAATTTTTAGCTAAAATACTCATA-AAATATATATAAT
* * ** *
84725 TCGAGGCCAAAAAGATTGAAGGGCTTTTCGA-GCTAT-TAATATCGTTTTTAATA-TTTTTCT-G
64 TCAACGCCAAAAAGATTGAAGGGCTTTTC-ACGCT-TCTAATATCGTTTTTCCTATTTTTTTTCG
* * *
84786 AATTAATTTCTAATTAAATCAAAACAAGATTCAGATGCTCGTTAAAACAAATCCTTAAATGCAAT
127 AATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAAT
* * * *
84851 GTGGCTAAGATTTTATTAGATGAATATAGATATTTCAAGGAGTGTTTG-CGCCAAAAATCATGCA
192 GTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGT-CTTGCCACCAAAAATCATGCA
** * * * *
84915 AAACTGAGTCGGGCCCCGAAACGCGTTTTTAGCC-AAAAACCGTGATGGTCAGTACACGGTTTTG
256 AAACTGACCCGGGCCCCGGAACGCGTTTTTAGCCAAAAAACTGTGAT-G---GTACACGATTTCG
84979 GCTAAAATTTTGC
317 GCTAAAATTTTGC
* * * * * *
84992 AAAAAATGACCCAAAAAATTTTTCCTCAATTTTTCGATAAAATACTCATAAAATATATATAATTT
1 AAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAGCTAAAATACTCATAAAATATATATAATTC
* ** * ** * *
85057 AACACCAAAACA-ATTGGAA-GAATTTTCACGCTTTTAATATTATTTTTCATATTTTTCTT--AA
66 AACGCCAAAA-AGATT-GAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCTATTTTTTTTCGAA
** *
85118 TTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTTATAAAAACAAATTCTTAAATCCAATGT
129 TTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGT
* * * * * *
85183 GGCTGAGATTTGATTAGATGAATATGGATATCTCAAGTAGTCTTGGCGCCAAAAATCAGGCAAAA
194 GGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTTGCCACCAAAAATCATGCAAAA
* * *** * * *
85248 CTGAGCCGGGGTCCTAAAACGCATTTTTAGAC-AAAAGCTGTGATGGTTATTACACGATTTCGGC
259 CTGA-CCCGGGCCCCGGAACGCGTTTTTAGCCAAAAAACTGTGATGG----TACACGATTTCGGC
*
85312 TAAAATTTTGT
319 TAAAATTTTGC
* * * * * *
85323 AAAAAATGACCCGAAAGATGTTTCCTCAATTTTTGGTTAAAATACTAATAAAAAATATATAATTC
1 AAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAGCTAAAATACTCATAAAATATATATAATTC
* * * * * *
85388 AACACCAAAAAGATTGAATGGCTTTTGATG-TTCTAATATCGTTTTTCCTATTTTTTCT-AAATT
66 AACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCTATTTTTTTTCGAATT
* * * * *
85451 AATTTCTAATTAAATCGAAACAAGATTTAGATGCTTGTAAAAACAAATTCATAAATCCAATGTTG
131 AATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGG
* *
85516 C-GAGGTTTGGTTAGATGA
196 CTGAGATTTGATTAGATGA
85534 TGTAAAGTAT
Statistics
Matches: 3334, Mismatches: 618, Indels: 372
0.77 0.14 0.09
Matches are distributed among these distances:
302 14 0.00
303 8 0.00
304 39 0.01
305 4 0.00
306 43 0.01
307 65 0.02
308 40 0.01
309 4 0.00
311 37 0.01
312 8 0.00
313 7 0.00
314 54 0.02
315 74 0.02
316 4 0.00
317 1 0.00
318 17 0.01
319 53 0.02
321 8 0.00
322 4 0.00
323 29 0.01
324 16 0.00
325 39 0.01
326 132 0.04
327 51 0.02
328 366 0.11
329 429 0.13
330 466 0.14
331 461 0.14
332 203 0.06
333 216 0.06
334 128 0.04
335 177 0.05
336 52 0.02
337 17 0.01
338 64 0.02
339 4 0.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (329 bp):
AAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAGCTAAAATACTCATAAAATATATATAATTC
AACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCTATTTTTTTTCGAATT
AATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGG
CTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTTGCCACCAAAAATCATGCAAAACT
GACCCGGGCCCCGGAACGCGTTTTTAGCCAAAAAACTGTGATGGTACACGATTTCGGCTAAAATT
TTGC
Found at i:82923 original size:331 final size:330
Alignment explanation
Indices: 81066--85533 Score: 3068
Period size: 331 Copynumber: 13.6 Consensus size: 330
81056 CCATGATGGT
* * * **
81066 AAAAA-TGACCCGAAAGATTTTTCCTCAATTTTT-GACAAAAACACTCATAAAATATATATAACA
1 AAAAATTGACCCGAAAAATTTTTCCTCAATTTTTAG-CTAAAATACTCATAAAATATATATAATT
* * * *
81129 CAACGTCAAAAAGATTTG-AGGACTTTTCACGCTTTTAATATTGTATTTCATTTTTTTCTGAATT
65 CAACGCCAAAAAGA-TTGAAGGACTTTTCACGCTTTTAATATCGT-TTTTATTATTTTCTGAATT
** * * *
81193 AATTTCTAATTAAATCGGTACAAGATTCAGATGCACATAAAAACAAATCGTTAAATCCAATGTGG
128 AATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGG
* * * * * * *
81258 TTGAGATTTTATTAGATGAATAAAGATATTTCAAGAAGTCTCGGCTCCAAAAATCATGCAAAACA
193 CTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTCGACGCCAAAAATCATGCAAAACT
* * *
81323 GAGCCGTGGCCTTGG-AACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTTGGCTA
258 GAGCCGGGGCC-TGGAAACGCGTTTTTAGCCAAAAACCATGATGGTTAGTACACGATTTCGGCTA
81387 AAATTTTGC
322 AAATTTTGC
* * * * * * * * *
81396 ---AATTGACCCGAAAGATATTTCTTCTATTTTTGGCTAAAATACTTAGAAAAAATATATGATTC
1 AAAAATTGACCCGAAAAATTTTTCCTCAATTTTTAGCTAAAATACTCATAAAATATATATAATTC
* *** * * * * *
81458 GATATCAAAAAGATTGAAGGGCTTTTAACACTTATAATATTGTTTTTCCTATT-TCTTTCTGAAT
66 AACGCCAAAAAGATTGAAGGACTTTTCACGCTTTTAATATCG-TTTT--TATTAT-TTTCTGAAT
* * * *
81522 TAATTTCCAATTAAATCGACACAAGATTCAGATGCTCGTAAAAACAAATTCTTAAATCTAATGTG
127 TAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTG
* * * * * *
81587 GCTAAGATTCGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCACCAAAAATCATGCAAAAC
192 GCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTCGACGCCAAAAATCATGCAAAAC
*** * * * *
81652 TGAGCCGCACCCCGG-AACGTGTTTTTAGCCGAAAACC------GTTAGTACACGATTTCAGCTA
257 TGAGCCGGGGCCTGGAAACGCGTTTTTAGCCAAAAACCATGATGGTTAGTACACGATTTCGGCTA
*
81710 AAATTTTTC
322 AAATTTTGC
* * * * *
81719 AAAAATTGACCAGAAAATTTTTTCCTCGATTTCTAGCGAAAATACTCATAAAA-ATATATAATTC
1 AAAAATTGACCCGAAAAATTTTTCCTCAATTTTTAGCTAAAATACTCATAAAATATATATAATTC
* * * * * * **
81783 AACACCAAAAA-AATGAAAGCCTTGTTCACGCTTCTAATACCGTTTTCCTTATTTTCTTTCGAAA
66 AACGCCAAAAAGATTGAAGGACTT-TTCACGCTTTTAATATCGTTTTTATTATTTTC--T-G-AA
* * * *
81847 TTAATTTCTAATTAAATCAAAACAAGATTTAGGAAT--TCGTAAAAACAAATCCTTTAATACAAT
126 TTAATTTCTAATTAAATCGAAACAAGATTCA-G-ATGCTCGTAAAAACAAATCCTTAAATCCAAT
* * * *
81910 GTGGCTGAGATTTGGTTAGATGAATATAGATATATTTTAAGGAGTCTTGACACCAAAAATCATGC
189 GTGGCTGAGATTTGATTAGATGAATATAG--ATATTTCAAGGAGTCTCGACGCCAAAAATCATGC
* ** * *
81975 AAAACTGACCCAGGACCCCGG-AACGCGTTTTTAGCCAAAAAAACAATGAT-G---GTACACGAT
252 AAAACTGAGCC-GGGGCCTGGAAACGCGTTTTTAGCC--AAAAACCATGATGGTTAGTACACGAT
*
82035 TTCGGCTAAAATTTTAC
314 TTCGGCTAAAATTTTGC
* * * * * *
82052 AAAAAATAACCCGAAATATTTTT-CTCAATTTTTAGCCATAATACTCATAAAAAATATATAATTC
1 AAAAATTGACCCGAAAAATTTTTCCTCAATTTTTAGCTAAAATACTCATAAAATATATATAATTC
* * * * * *
82116 AACGCCAAAAAGATTAAAGGGCTTCTCACGCTTCTAATATCGTTTTCCCTATT-TTTTTTCAAAT
66 AACGCCAAAAAGATTGAAGGACTTTTCACGCTTTTAATATCGTTTT---TATTATTTTCT-GAAT
* * * **
82180 TAATTTCTTATTAAATCGAAACATGATTCAAATGCTCACAAAAACAAATCCTTAAAT-CAAGTGT
127 TAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAA-TGT
* * * * * * *** *
82244 GGATAAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTTTTGCCATGAAAAATCATACAAAA
191 GGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTCGACGCCAAAAATCATGCAAAA
* * * * * * *
82309 CTGACCCGGGCCCCGG-AACGCGTTTTTAGCCAAAAAAC-TG-T-GATGGTACACGATTTCGACT
256 CTGAGCCGGGGCCTGGAAACGCGTTTTTAGCCAAAAACCATGATGGTTAGTACACGATTTCGGCT
82370 AAAATTTTGC
321 AAAATTTTGC
* * * *
82380 AAAAATTGACCCGAAAGATTTTGT-CTCAATTTTTAGCCACAACACTCATAAAATATATATAATT
1 AAAAATTGACCCGAAAAATTTT-TCCTCAATTTTTAGCTAAAATACTCATAAAATATATATAATT
* * * * *
82444 CAACACCAAAAAGACTAAAGGACTTTTCACGCTTTTAATATCGTTTTTCATATTTTTTTTGAATT
65 CAACGCCAAAAAGATTGAAGGACTTTTCACGCTTTTAATATCGTTTTT-AT-TATTTTCTGAATT
* * * *
82509 AATTTCTAATTAAATCGAAACAAAATTCAGAGGCTCGTAAAAACAAATCCTTAAATTCAATATGG
128 AATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGG
* * * **
82574 CTGAGATTTGAATAGATGAATATAGATATTTCAAGAAGTCTCAACGGAAAAAATCATGCAAAACT
193 CTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTCGACGCCAAAAATCATGCAAAACT
* **
82639 AAGCCTAGGCCTGGAAACGCGTTTTTAGCCAAAAACCATGATGGTTAGTACACGATTTCGGCTAA
258 GAGCCGGGGCCTGGAAACGCGTTTTTAGCCAAAAACCATGATGGTTAGTACACGATTTCGGCTAA
82704 AATTTTGC
323 AATTTTGC
* * * * *
82712 AAAAATTTACCCGAAAAATTTTCCCGACAATTTTTTGCTAAAATACTCGTAAAATATATATAATT
1 AAAAATTGACCCGAAAAATTTTTCC-TCAATTTTTAGCTAAAATACTCATAAAATATATATAATT
* * * * * * *
82777 TAATGCCAAAAAAATTGGAGAACTTTTCACGCTTTTAATATCATTTTTATTATTTTATGAATTAA
65 CAACGCCAAAAAGATTGAAGGACTTTTCACGCTTTTAATATCGTTTTTATTATTTTCTGAATTAA
* * ** * * *
82842 TTTTTAATTAAATCGAAATAAGATTCAGATGCTTATAAAATCAAATTCTTAAATCCAATGTTGCT
130 TTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCT
* * * * * * *
82907 GATATTTGATTAGATGAATATGGATATCTCAAAGAGTCTTGGCGCCAAAAATCATGCAAATCTGA
195 GAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTCGACGCCAAAAATCATGCAAAACTGA
* * ** ** * * *
82972 GTCGGGGTCC-CGAAACGCGACTTTAGTTAAAAACCATGATGATTA-TCAAACGATTTCGGCTAG
260 GCCGGGG-CCTGGAAACGCGTTTTTAGCCAAAAACCATGATGGTTAGT-ACACGATTTCGGCTAA
*
83035 AA--TTAC
323 AATTTTGC
* * * * *
83041 AAAAATTGACTCG-AAAGTTATTTCCTCAATTTTTAGCCACAACACTCATTAAAAT-TATATAAT
1 AAAAATTGACCCGAAAAATT-TTTCCTCAATTTTTAGCTAAAATACTCA-TAAAATATATATAAT
* * * *
83104 TCAACACCAATAAA-ATTGAAGGGCTTTTCATGCTTCTAATATCGTTTTTTCTATTATTTT-TCG
64 TCAACGCCAA-AAAGATTGAAGGACTTTTCACGCTTTTAATATCG--TTTT-TATTATTTTCT-G
* * * * *** *
83167 AATTAATTTCTGATTAAATCGAAACATGATTCAAATGCTTGT-TTTAGAAATCCTTAAATCCAAT
124 AATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAAT
* * * *** * *
83231 GTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGG-GACCCCGGAACG--TGTATTTA-G
189 GTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAG-TCTC-G-ACGCCAAAAATCATG
*** * ***** * * * ** * * *** *** **
83292 CAAAAAAAAACCGTAATTTCGACTAATGTACACGATTTCCG-CTAATATTTTGTAAAAATTGACC
251 CAAAACTGAGCCGGGGCCT-G--GAA---ACGCGTTTTTAGCCAAAAACCATG--ATGGTT-AGT
* * *** * *
83356 AGAAGTATTTTTCCTTAATTTTTGTC
307 ACACG-ATTTCGGCTAAAATTTTG-C
* * * * * * * *
83382 TAAAA-T-ACTC-ATAATATATAT-AT-ATATATTT--C---AAT--TC-CAAAA-AT-T-T--T
1 AAAAATTGACCCGA-AAAATTTTTCCTCA-ATTTTTAGCTAAAATACTCATAAAATATATATAAT
* ****** * * * *
83429 TCAA-G------A-CTTTTCCCTCTTTTAATATCGTTTTTCATAT--TTTTCTGAATTAATTTC-
64 TCAACGCCAAAAAGATTGAAGGACTTTT--CA-CGCTTTTAATATCGTTTT-T--ATTATTTTCT
* * * **
83483 AAATTAA-ATC-------A---AAACAAGATTCAGATGCTCGTAAAAACACATCCTTAAATGTAA
123 GAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAA
* * * * * *
83537 TGTGGCTAAGATTTGATCAAATAAATATAGATTTTTCAAGGAGTCTCGACGCCAAAAATCATACA
188 TGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTCGACGCCAAAAATCATGCA
* * * * * *** *
83602 ATACTAAGTCGGGGCC-CGAAACACGTTTTTCGTATAAAAAAAACAGTGATGGTTAGTACACGAT
253 AAACTGAGCCGGGGCCTGGAAACGCG-TTTT--TAGCCAAAAACCA-TGATGGTTAGTACACGAT
*
83666 TTCGGTTAAAATTTTGC
314 TTCGGCTAAAATTTTGC
* *
83683 AAAAAATGACCTGAAAAATTTTTCCTCAATTTTT-GACTAAAATACTCATGAAAATATATATAAT
1 AAAAATTGACCCGAAAAATTTTTCCTCAATTTTTAG-CTAAAATACTCAT-AAAATATATATAAT
* *
83747 GT-AACGCCAAAAAGATTGGAGGACTTTTCACGCTTTTCATATCGTTTCTCATATT-TTTT-TGA
64 -TCAACGCCAAAAAGATTGAAGGACTTTTCACGCTTTTAATATCGTTT-T--TATTATTTTCTGA
* * * * *
83809 ATTAATTTGTAATTAAATCGAAACAAGATACAAATGCTCGT-AAAACAAATCATTAAATGCAATG
125 ATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATG
* * * *
83873 TGGATGAGATTTGATTAGATTAATATGGATATCTCAAGGA-T-TCGTAACGCCAAAAATCATGCA
190 TGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTCG--ACGCCAAAAATCATGCA
* * * * * *
83936 AAACTGA-CTTGGGGCCCTAG-AACGTGTTTTTAGCCAAAAACCGTGATGATTATTACACG--TT
253 AAACTGAGC-CGGGG-CCTGGAAACGCGTTTTTAGCCAAAAACCATGATGGTTAGTACACGATTT
*
83997 CGGCTACAATTTTGC
316 CGGCTAAAATTTTGC
* *
84012 AAAAATTGA-CCGAAAAAATATTTT-CTCAATTTTT-GACTAAAATACTCATAAAAAAATATAAA
1 AAAAATTGACCCG-AAAAAT-TTTTCCTCAATTTTTAG-CTAAAATACTCAT-AAAATATATATA
** * ** * * *
84074 ATTCTTCGCCAAAAATATTGAAGGGTTTTTTACGCTTCTAAATATCTTTTTTCCTACTT-TTTTC
62 ATTCAACGCCAAAAAGATTGAAGGACTTTTCACGCTT-TTAATATC-GTTTT--TA-TTATTTTC
* * * * * * **
84138 CGGATTAATTTCTAATTAAAACGAAACAAGATTTAGATGCTCGTAAAAAAAAATCCTTAATTTGA
122 TGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCA
* * * * * *
84203 ATGTGACTGAGATTTGATTAGATAAATATAGATATTTGC-ATGATTTTTG--GCCAAAAATCATG
187 ATGTGGCTGAGATTTGATTAGATGAATATAGATATTT-CAAGGAGTCTCGACGCCAAAAATCATG
* * ** * * ** ** ** *
84265 CAAAATTGA-CTCGAGGCCTCGG-AGTGCAG-TTTTGGCAAAAAAAAAAAAACCGTGATGTTACA
251 CAAAACTGAGC-CGGGGCCT-GGAAACGC-GTTTTTAGC-CAAAAACCATGATGGTTA-G-TACA
*
84327 CGATTTCGGCTAATATTTTGC
310 CGATTTCGGCTAAAATTTTGC
* * * *
84348 AAAAATTGACAC-AAAATATTTTTCCTCAACTTTTAGCCACAATACTCATAAAA-AGTATATAAT
1 AAAAATTGACCCGAAAA-ATTTTTCCTCAATTTTTAGCTAAAATACTCATAAAATA-TATATAAT
* * * * * * * *
84411 TCAACGCTAAACAGATTGAAGGGCTTTTCATGCTTCTAATA-CTGTTTTTTCTTATTTTTTTCCA
64 TCAACGCCAAAAAGATTGAAGGACTTTTCACGCTTTTAATATC-G-TTTTTATTA-TTTTCT-GA
* * *
84475 AGTTAATTTCTAATTAAAACGAAACATGATTCAGATGCTTGT-------AA-----AAA--CAA-
125 A-TTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAAT
* * * * *
84525 -TGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGAAGTCTCGGCACC--AAATCATTCAA
189 GTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTCGACGCCAAAAATCATGCAA
* * * * * * *
84587 AACTGAACCGGGCCCT-GAAACGCGTTTTTAGCCAAAAATCGTGATGATTACTACACGATTTCGA
254 AACTGAGCCGGGGCCTGGAAACGCGTTTTTAGCCAAAAACCATGATGGTTAGTACACGATTTCGG
*
84651 TTAAAATTTTGC
319 CTAAAATTTTGC
* * * *
84663 AAAAATTGACCTGAAAGATATTTT-CTCAATTTTTAGCCATAATACTCA-ATAAA-ATATATAAT
1 AAAAATTGACCCGAAAAAT-TTTTCCTCAATTTTTAGCTAAAATACTCATA-AAATATATATAAT
* * * * *
84725 TCGAGGCCAAAAAGATTGAAGGGCTTTTCGA-GCTATTAATATCGTTTTTAATATTTTTCTGAAT
64 TCAACGCCAAAAAGATTGAAGGACTTTTC-ACGCTTTTAATATCGTTTTTATTA-TTTTCTGAAT
* * *
84789 TAATTTCTAATTAAATCAAAACAAGATTCAGATGCTCGTTAAAACAAATCCTTAAATGCAATGTG
127 TAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTG
* * * *
84854 GCTAAGATTTTATTAGATGAATATAGATATTTCAAGGAGTGTTTG-CGCCAAAAATCATGCAAAA
192 GCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGT-CTCGACGCCAAAAATCATGCAAAA
* ** * * * *
84918 CTGAGTC-GGGCCCCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTCAGTACACGGTTTTGGCT
256 CTGAGCCGGGGCCTGGAAACGCGTTTTTAGCCAAAAACCATGATGGTTAGTACACGATTTCGGCT
84982 AAAATTTTGC
321 AAAATTTTGC
* * * * *
84992 AAAAAATGACCCAAAAAATTTTTCCTCAATTTTTCGATAAAATACTCATAAAATATATATAATTT
1 AAAAATTGACCCGAAAAATTTTTCCTCAATTTTTAGCTAAAATACTCATAAAATATATATAATTC
* * ** *
85057 AACACCAAAACA-ATTGGAA-GAATTTTCACGCTTTTAATATTATTTTTCA-TATTTTTCTTAAT
66 AACGCCAAAA-AGATT-GAAGGACTTTTCACGCTTTTAATATCGTTTTT-ATTA-TTTTCTGAAT
** *
85119 TAATTTCTAATTAAATCGAAACAAGATTCAGATGCTTATAAAAACAAATTCTTAAATCCAATGTG
127 TAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTG
* * * * * *
85184 GCTGAGATTTGATTAGATGAATATGGATATCTCAAGTAGTCTTGGCGCCAAAAATCAGGCAAAAC
192 GCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTCGACGCCAAAAATCATGCAAAAC
* * * * ** *
85249 TGAGCCGGGGTCCT-AAAACGCATTTTTAGACAAAAGCTGTGATGGTTATTACACGATTTCGGCT
257 TGAGCCGGGG-CCTGGAAACGCGTTTTTAGCCAAAAACCATGATGGTTAGTACACGATTTCGGCT
*
85313 AAAATTTTGT
321 AAAATTTTGC
* * * * * * *
85323 AAAAAATGACCCGAAAGATGTTTCCTCAATTTTTGGTTAAAATACTAATAAAAAATATATAATTC
1 AAAAATTGACCCGAAAAATTTTTCCTCAATTTTTAGCTAAAATACTCATAAAATATATATAATTC
* * * * *
85388 AACACCAAAAAGATTGAATGG-CTTTTGATG-TTCTAATATCGTTTTTCCTATT-TTTTCTAAAT
66 AACGCCAAAAAGATTGAA-GGACTTTTCACGCTTTTAATATCG-TTTT--TATTATTTTCTGAAT
* * * * *
85450 TAATTTCTAATTAAATCGAAACAAGATTTAGATGCTTGTAAAAACAAATTCATAAATCCAATGTT
127 TAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTG
* *
85515 GC-GAGGTTTGGTTAGATGA
192 GCTGAGATTTGATTAGATGA
85534 TGTAAAGTAT
Statistics
Matches: 3253, Mismatches: 663, Indels: 444
0.75 0.15 0.10
Matches are distributed among these distances:
301 10 0.00
302 16 0.00
303 12 0.00
304 12 0.00
305 7 0.00
306 22 0.01
307 54 0.02
308 9 0.00
309 4 0.00
311 38 0.01
312 2 0.00
313 17 0.01
314 45 0.01
315 63 0.02
316 16 0.00
317 24 0.01
318 22 0.01
319 60 0.02
320 9 0.00
321 4 0.00
322 6 0.00
323 44 0.01
324 24 0.01
325 50 0.02
326 129 0.04
327 56 0.02
328 362 0.11
329 424 0.13
330 452 0.14
331 496 0.15
332 220 0.07
333 218 0.07
334 112 0.03
335 122 0.04
336 55 0.02
337 7 0.00
338 13 0.00
339 6 0.00
340 6 0.00
341 5 0.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (330 bp):
AAAAATTGACCCGAAAAATTTTTCCTCAATTTTTAGCTAAAATACTCATAAAATATATATAATTC
AACGCCAAAAAGATTGAAGGACTTTTCACGCTTTTAATATCGTTTTTATTATTTTCTGAATTAAT
TTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTG
AGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTCGACGCCAAAAATCATGCAAAACTGAG
CCGGGGCCTGGAAACGCGTTTTTAGCCAAAAACCATGATGGTTAGTACACGATTTCGGCTAAAAT
TTTGC
Found at i:85908 original size:15 final size:16
Alignment explanation
Indices: 85890--85919 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
85880 ATAAATAATA
85890 ATATTATAAT-TAAAT
1 ATATTATAATCTAAAT
85905 ATATTATAATCTAAA
1 ATATTATAATCTAAA
85920 AATAATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATTATAATCTAAAT
Found at i:88054 original size:11 final size:11
Alignment explanation
Indices: 88038--88062 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
88028 TCTCCCGGAT
88038 GTTTATGCTAA
1 GTTTATGCTAA
88049 GTTTATGCTAA
1 GTTTATGCTAA
88060 GTT
1 GTT
88063 CAAACAATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.08, G:0.20, T:0.48
Consensus pattern (11 bp):
GTTTATGCTAA
Found at i:91283 original size:43 final size:43
Alignment explanation
Indices: 91231--91320 Score: 180
Period size: 43 Copynumber: 2.1 Consensus size: 43
91221 CCAGACCTAA
91231 ACAAACACCAAACTACACAACAAGAGAGAAGGGAGAAAAACAC
1 ACAAACACCAAACTACACAACAAGAGAGAAGGGAGAAAAACAC
91274 ACAAACACCAAACTACACAACAAGAGAGAAGGGAGAAAAACAC
1 ACAAACACCAAACTACACAACAAGAGAGAAGGGAGAAAAACAC
91317 ACAA
1 ACAA
91321 CGCGATCAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.59, C:0.23, G:0.16, T:0.02
Consensus pattern (43 bp):
ACAAACACCAAACTACACAACAAGAGAGAAGGGAGAAAAACAC
Done.