Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009633.1 Hibiscus syriacus cultivar Beakdansim tig00117032_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: 2608659
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 13
Found at i:1524845 original size:21 final size:21
Alignment explanation
Indices: 1524819--1524859 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
1524809 TATTACAAAT
*
1524819 AGGGTACCGATACCCTGCTAC
1 AGGGTACAGATACCCTGCTAC
1524840 AGGGTACAGATACCCTGCTA
1 AGGGTACAGATACCCTGCTA
1524860 TAGTACTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (21 bp):
AGGGTACAGATACCCTGCTAC
Found at i:1525618 original size:22 final size:22
Alignment explanation
Indices: 1525593--1525653 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
1525583 GGCATATGAA
1525593 ATTTGTCCCGAAGGACCTA-TGT
1 ATTTGTCCCGAAGGACC-ACTGT
*
1525615 ATTTGTCCCGAATGACCACTGT
1 ATTTGTCCCGAAGGACCACTGT
*
1525637 ATATGTCCCGAAGGACC
1 ATTTGTCCCGAAGGACC
1525654 GCGTAGACTC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
21 1 0.03
22 34 0.97
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (22 bp):
ATTTGTCCCGAAGGACCACTGT
Found at i:1526542 original size:20 final size:21
Alignment explanation
Indices: 1526512--1526551 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1526502 TTTTTCATTT
1526512 AGGGGGCTATC-GATACCCCCC
1 AGGGGGCTATCTG-TACCCCCC
1526533 AGGGGG-TATCTGTACCCCC
1 AGGGGGCTATCTGTACCCCC
1526552 TGCATAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.17, C:0.35, G:0.30, T:0.17
Consensus pattern (21 bp):
AGGGGGCTATCTGTACCCCCC
Found at i:1526833 original size:12 final size:12
Alignment explanation
Indices: 1526816--1526840 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1526806 AGATGACAAG
1526816 TCAAATTCAACT
1 TCAAATTCAACT
1526828 TCAAATTCAACT
1 TCAAATTCAACT
1526840 T
1 T
1526841 ATCAACTCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (12 bp):
TCAAATTCAACT
Found at i:1528223 original size:92 final size:93
Alignment explanation
Indices: 1528114--1528310 Score: 326
Period size: 92 Copynumber: 2.1 Consensus size: 93
1528104 TTAAAATAAA
* *
1528114 AAAATAAAATAAAATTTAAACTAAACTTACCAAACCACTCAAATATTATTTAATCTATAAAATCA
1 AAAATAAAATAAAATTTAAACTAAACTTACAAAACCACTCAAATATTACTTAATCTATAAAATCA
*
1528179 AAATAAATAGTCCAA-TAATTTATATTT
66 AAATAAATAATCCAATTAATTTATATTT
*
1528206 AAAATAAAATAAAATTTAAACTAAACTTACAAAACCACTCAAATATTACTTAATCTGTAAAATCA
1 AAAATAAAATAAAATTTAAACTAAACTTACAAAACCACTCAAATATTACTTAATCTATAAAATCA
* *
1528271 AAATAACTAATCTAATTAATTTATATTT
66 AAATAAATAATCCAATTAATTTATATTT
1528299 AAAAT-AAATAAA
1 AAAATAAAATAAA
1528311 TAATATATAA
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
92 81 0.83
93 17 0.17
ACGTcount: A:0.55, C:0.12, G:0.01, T:0.32
Consensus pattern (93 bp):
AAAATAAAATAAAATTTAAACTAAACTTACAAAACCACTCAAATATTACTTAATCTATAAAATCA
AAATAAATAATCCAATTAATTTATATTT
Found at i:1528346 original size:18 final size:18
Alignment explanation
Indices: 1528325--1528386 Score: 78
Period size: 18 Copynumber: 3.6 Consensus size: 18
1528315 ATATAAAATT
1528325 AAAATTAAAATTACACTA
1 AAAATTAAAATTACACTA
1528343 AAAA-T-AAA-TA-ATCTA
1 AAAATTAAAATTACA-CTA
1528358 TAAAATTAAAATTACACTA
1 -AAAATTAAAATTACACTA
1528377 AAAATTAAAA
1 AAAATTAAAA
1528387 AATAACTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
14 1 0.03
15 5 0.13
16 7 0.18
17 2 0.05
18 17 0.45
19 5 0.13
20 1 0.03
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAATTAAAATTACACTA
Found at i:1528394 original size:18 final size:17
Alignment explanation
Indices: 1528325--1528395 Score: 58
Period size: 18 Copynumber: 4.1 Consensus size: 17
1528315 ATATAAAATT
*
1528325 AAAATTAAAATTACACTA
1 AAAATTAAAAATA-ACTA
1528343 AAAA-T--AAATAATCTA
1 AAAATTAAAAATAA-CTA
*
1528358 TAAAATTAAAATTACACTA
1 -AAAATTAAAAATA-ACTA
1528377 AAAATTAAAAAATAACTA
1 AAAATT-AAAAATAACTA
1528395 A
1 A
1528396 TCCAATAGTC
Statistics
Matches: 43, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
14 1 0.02
15 7 0.16
16 4 0.09
17 2 0.05
18 15 0.35
19 13 0.30
20 1 0.02
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAATTAAAAATAACTA
Found at i:1528998 original size:39 final size:39
Alignment explanation
Indices: 1528905--1528998 Score: 102
Period size: 39 Copynumber: 2.4 Consensus size: 39
1528895 TCTGCATGGA
* *
1528905 CTGAAGACGTCAGGTAAGCTTGGAGTCTTTCTCTGTGGC
1 CTGAAGACGCCAGGTAAACTTGGAGTCTTTCTCTGTGGC
* * *
1528944 CCGAAGACACTAGGTAAACTTGGAGTC-TTC-CTGGTTGGC
1 CTGAAGACGCCAGGTAAACTTGGAGTCTTTCTCT-G-TGGC
*
1528983 TTGAAGACGCCAGGTA
1 CTGAAGACGCCAGGTA
1528999 TGAAACACCT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
37 2 0.05
38 4 0.09
39 38 0.86
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (39 bp):
CTGAAGACGCCAGGTAAACTTGGAGTCTTTCTCTGTGGC
Found at i:1529948 original size:23 final size:23
Alignment explanation
Indices: 1529906--1529983 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
1529896 CACCACAGCT
* *
1529906 CATATAATTGTACCTAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* *
1529929 CATATAATTGCACCGGAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* * * *
1529952 CGTAGAATTGCACTGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
1529975 TATAATAAT
1 CAT-ATAAT
1529984 GTCCATAAGG
Statistics
Matches: 42, Mismatches: 12, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
23 38 0.90
24 4 0.10
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:1530161 original size:103 final size:103
Alignment explanation
Indices: 1529990--1530207 Score: 393
Period size: 103 Copynumber: 2.1 Consensus size: 103
1529980 TAATGTCCAT
* *
1529990 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
1530055 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
1530093 AAGGACCACATATCATTCCTTAAGAATCATATACATA-AGCCAAGGATCAAGTATGTGTCTCACC
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATA-CCAAGGATCAAGTATGTGTCTCACC
1530157 AGACTTCACACATGTTCCAAAGAATACATATATATCCCG
65 AGACTTCACACATGTTCCAAAGAATACATATATATCCCG
1530196 AAGGACCACATA
1 AAGGACCACATA
1530208 AACCCTCGAC
Statistics
Matches: 111, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
102 1 0.01
103 110 0.99
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.25
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATATCCCG
Found at i:1535596 original size:23 final size:23
Alignment explanation
Indices: 1535536--1535599 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 23
1535526 CAGCTCATAT
* *
1535536 AATTGCACCGAAGTACCACGTAT
1 AATTGCACCGAAGTGCCACGTAG
* *
1535559 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCACGTAG
* *
1535582 AATTGAACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
1535600 TATAATAATG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.20
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:1535786 original size:103 final size:103
Alignment explanation
Indices: 1535619--1535832 Score: 401
Period size: 103 Copynumber: 2.1 Consensus size: 103
1535609 GTCCATAAGA
* *
1535619 ACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACT
1 ACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACT
1535684 TCACACATGTTCCAAAGAATACATATATGTCCCGAAGG
66 TCACACATGTTCCAAAGAATACATATATGTCCCGAAGG
*
1535722 ACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGACT
1 ACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACT
1535787 TCACACATGTTCCAAAGAATACATATATGTCCCGAAGG
66 TCACACATGTTCCAAAGAATACATATATGTCCCGAAGG
1535825 ACCACATA
1 ACCACATA
1535833 AATACAAGTT
Statistics
Matches: 108, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 108 1.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.26
Consensus pattern (103 bp):
ACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACT
TCACACATGTTCCAAAGAATACATATATGTCCCGAAGG
Found at i:1536376 original size:15 final size:15
Alignment explanation
Indices: 1536356--1536390 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
1536346 CCGTAGGACC
1536356 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
1536371 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
1536386 ACTAC
1 ACTAC
1536391 AGAACCCTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.29, C:0.34, G:0.23, T:0.14
Consensus pattern (15 bp):
ACTACGTCCCGAAGG
Found at i:1543225 original size:15 final size:15
Alignment explanation
Indices: 1543205--1543239 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
1543195 CCGTAGGACC
1543205 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
1543220 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
1543235 ACTAC
1 ACTAC
1543240 AGAACCCTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.29, C:0.34, G:0.23, T:0.14
Consensus pattern (15 bp):
ACTACGTCCCGAAGG
Found at i:1547232 original size:65 final size:65
Alignment explanation
Indices: 1547128--1547262 Score: 252
Period size: 65 Copynumber: 2.1 Consensus size: 65
1547118 TTTTGATGTA
*
1547128 CTGACTAACACCAATCACGAGCGTCTGCGCTGTAATGTCACTATTTCAGCAACTAGGATATATAG
1 CTGACTAACACCAATCACGAGCGTCTGCGCTATAATGTCACTATTTCAGCAACTAGGATATATAG
*
1547193 CTGACTAACACCAATCACGAGCGTCTGCGCTATAATGTCACTATTTCAGCTACTAGGATATATAG
1 CTGACTAACACCAATCACGAGCGTCTGCGCTATAATGTCACTATTTCAGCAACTAGGATATATAG
1547258 CTGAC
1 CTGAC
1547263 AGAATTACCT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 68 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (65 bp):
CTGACTAACACCAATCACGAGCGTCTGCGCTATAATGTCACTATTTCAGCAACTAGGATATATAG
Found at i:1550083 original size:47 final size:50
Alignment explanation
Indices: 1549987--1550088 Score: 120
Period size: 47 Copynumber: 2.1 Consensus size: 50
1549977 CATATAAAAA
* **
1549987 ATAAAATATTTTTTACAGTAGGAAGATTAAAATAAAATTGTAATTATAAT
1 ATAAAATATTTTTTACAATAGGAAGATTAAAATAAAATTGTAAACATAAT
* * **
1550037 ATAAAATATTTTTTATAATA-G-A-ATTTAAATAATTTTGTAAACATAAT
1 ATAAAATATTTTTTACAATAGGAAGATTAAAATAAAATTGTAAACATAAT
1550084 ATAAA
1 ATAAA
1550089 TACTTATATA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
47 25 0.56
48 1 0.02
49 1 0.02
50 18 0.40
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (50 bp):
ATAAAATATTTTTTACAATAGGAAGATTAAAATAAAATTGTAAACATAAT
Found at i:1550890 original size:21 final size:21
Alignment explanation
Indices: 1550866--1550906 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1550856 AAGCCAAATC
1550866 CAGAAAGGTAGGA-AAGGGAGG
1 CAGAAA-GTAGGAGAAGGGAGG
*
1550887 CAGAAAGTCGGAGAAGGGAG
1 CAGAAAGTAGGAGAAGGGAG
1550907 AGGGGTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.41, C:0.07, G:0.46, T:0.05
Consensus pattern (21 bp):
CAGAAAGTAGGAGAAGGGAGG
Found at i:1551069 original size:15 final size:14
Alignment explanation
Indices: 1551051--1551094 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
1551041 ATTTAGTTTT
1551051 AATTTTAGTAATTTA
1 AATTTTA-TAATTTA
*
1551066 AATTCATATAATTTA
1 AATT-TTATAATTTA
*
1551081 AATTTTACAATTTA
1 AATTTTATAATTTA
1551095 TTTTAATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 8 0.32
15 15 0.60
16 2 0.08
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (14 bp):
AATTTTATAATTTA
Found at i:1551591 original size:18 final size:18
Alignment explanation
Indices: 1551565--1551601 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1551555 CCTCCTCCAT
*
1551565 CTTCGCCGCCACCCCCGC
1 CTTCGCCGCCACCACCGC
*
1551583 CTTCTCCGCCACCACCGC
1 CTTCGCCGCCACCACCGC
1551601 C
1 C
1551602 GGCGGCAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.08, C:0.65, G:0.14, T:0.14
Consensus pattern (18 bp):
CTTCGCCGCCACCACCGC
Found at i:1552088 original size:20 final size:20
Alignment explanation
Indices: 1552063--1552102 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
1552053 CTGTCTACTC
1552063 GGATTGTTATTCTGCATAGA
1 GGATTGTTATTCTGCATAGA
1552083 GGATTGTTATTCTGCATAGA
1 GGATTGTTATTCTGCATAGA
1552103 AGAAAAAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.40
Consensus pattern (20 bp):
GGATTGTTATTCTGCATAGA
Found at i:1561050 original size:17 final size:18
Alignment explanation
Indices: 1561014--1561052 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
1561004 TTATTAATTT
1561014 AAAAAAATTACTTTTAAG
1 AAAAAAATTACTTTTAAG
1561032 AAAAATAATTA-TTTT-AG
1 AAAAA-AATTACTTTTAAG
1561049 AAAA
1 AAAA
1561053 TAAGTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 6 0.30
18 9 0.45
19 5 0.25
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (18 bp):
AAAAAAATTACTTTTAAG
Found at i:1561052 original size:16 final size:16
Alignment explanation
Indices: 1561006--1561055 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
1560996 TCAATATTTT
*
1561006 ATTAATTTA-AAAA-A
1 ATTATTTTAGAAAATA
1561020 ATTACTTTTAAGAAAAATA
1 ATTA-TTTT-AG-AAAATA
1561039 ATTATTTTAGAAAATA
1 ATTATTTTAGAAAATA
1561055 A
1 A
1561056 GTTTAAATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
14 4 0.13
15 3 0.10
16 8 0.27
17 2 0.07
18 8 0.27
19 5 0.17
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (16 bp):
ATTATTTTAGAAAATA
Found at i:1563004 original size:16 final size:16
Alignment explanation
Indices: 1562980--1563013 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1562970 CTATATTAAA
*
1562980 TTGAATTTATTATTTT
1 TTGAATTTATGATTTT
*
1562996 TTGATTTTATGATTTT
1 TTGAATTTATGATTTT
1563012 TT
1 TT
1563014 TTATCAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.71
Consensus pattern (16 bp):
TTGAATTTATGATTTT
Found at i:1563111 original size:28 final size:28
Alignment explanation
Indices: 1563079--1563142 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
1563069 AATTTAAAAT
* *
1563079 CCCTAAATCTTATACTCTAAATTATAAC
1 CCCTAAACCTTATACTCTAAATCATAAC
1563107 CCCTAAACCTTATACTCTAAATCATAAC
1 CCCTAAACCTTATACTCTAAATCATAAC
1563135 CCCTAAAC
1 CCCTAAAC
1563143 ATCAAACACT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.39, C:0.31, G:0.00, T:0.30
Consensus pattern (28 bp):
CCCTAAACCTTATACTCTAAATCATAAC
Found at i:1563154 original size:28 final size:28
Alignment explanation
Indices: 1563095--1563156 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
1563085 ATCTTATACT
* * * * *
1563095 CTAAATTATAACCCCTAAACCTTATACT
1 CTAAATCATAACCCCTAAACATCAAACA
1563123 CTAAATCATAACCCCTAAACATCAAACA
1 CTAAATCATAACCCCTAAACATCAAACA
1563151 CTAAAT
1 CTAAAT
1563157 ATTAAACCCT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (28 bp):
CTAAATCATAACCCCTAAACATCAAACA
Found at i:1567668 original size:17 final size:17
Alignment explanation
Indices: 1567643--1567690 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
1567633 TGATCATAGA
* **
1567643 TATTTAATGTTATAAGT
1 TATTAAATGTTATAAAC
1567660 TATTAAATGTTATAAAC
1 TATTAAATGTTATAAAC
*
1567677 TATTAAATATTATA
1 TATTAAATGTTATA
1567691 GAGGTTTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (17 bp):
TATTAAATGTTATAAAC
Found at i:1567837 original size:27 final size:27
Alignment explanation
Indices: 1567785--1567858 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
1567775 TATTGCGGTA
*
1567785 TGATGCATAGT-TT-CACCTTTCAAGG
1 TGATGCATAGTATTCCATCTTTCAAGG
*
1567810 TGATTCATAGTATTCCATCTTTCAAGG
1 TGATGCATAGTATTCCATCTTTCAAGG
*
1567837 TGATGCATAATATTCCATCTTT
1 TGATGCATAGTATTCCATCTTT
1567859 TGAGATGATG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.23
26 2 0.05
27 31 0.72
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.41
Consensus pattern (27 bp):
TGATGCATAGTATTCCATCTTTCAAGG
Found at i:1567867 original size:27 final size:27
Alignment explanation
Indices: 1567784--1567870 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 27
1567774 ATATTGCGGT
* *
1567784 ATGATGCATAGT-TT-CACCTTTCAAG
1 ATGATGCATAATATTCCATCTTTCAAG
* * *
1567809 GTGATTCATAGTATTCCATCTTTCAAG
1 ATGATGCATAATATTCCATCTTTCAAG
* **
1567836 GTGATGCATAATATTCCATCTTTTGAG
1 ATGATGCATAATATTCCATCTTTCAAG
1567863 ATGATGCA
1 ATGATGCA
1567871 CAGTTTCTTA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
25 10 0.19
26 2 0.04
27 40 0.77
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (27 bp):
ATGATGCATAATATTCCATCTTTCAAG
Found at i:1578615 original size:22 final size:22
Alignment explanation
Indices: 1578564--1578615 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
1578554 TGTTTTAGAT
*
1578564 AAATTTTGAGTTTTTTAAAATA
1 AAATTTTAAGTTTTTTAAAATA
*
1578586 ATACTTTTAAG-TTTTTATAAATA
1 A-AATTTTAAGTTTTTTA-AAATA
1578609 AAATTTT
1 AAATTTT
1578616 CAAAAAAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (22 bp):
AAATTTTAAGTTTTTTAAAATA
Found at i:1581306 original size:3 final size:3
Alignment explanation
Indices: 1581298--1581324 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1581288 GGAGAGGAAG
1581298 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1581325 AGAAAGAGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:1582482 original size:36 final size:36
Alignment explanation
Indices: 1582442--1582534 Score: 186
Period size: 36 Copynumber: 2.6 Consensus size: 36
1582432 ACTTTATTAT
1582442 TAAATACCGGGAAGAGCTCATCTTCTCAACAAAGGA
1 TAAATACCGGGAAGAGCTCATCTTCTCAACAAAGGA
1582478 TAAATACCGGGAAGAGCTCATCTTCTCAACAAAGGA
1 TAAATACCGGGAAGAGCTCATCTTCTCAACAAAGGA
1582514 TAAATACCGGGAAGAGCTCAT
1 TAAATACCGGGAAGAGCTCAT
1582535 TTTATAAAGC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 57 1.00
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (36 bp):
TAAATACCGGGAAGAGCTCATCTTCTCAACAAAGGA
Found at i:1588611 original size:41 final size:41
Alignment explanation
Indices: 1588556--1588671 Score: 139
Period size: 40 Copynumber: 2.9 Consensus size: 41
1588546 TGCAACCCAG
* *
1588556 TTTCCAATTTCGCAACGCGAATATGT-AAA-TCGCATTGCGAT
1 TTTCCAAATTCGCAACGCG-ATA-GTCAAATTCGCAATGCGAT
1588597 TTTCCAAATTCGCAACGCGATAGTCAAATTCGCAATGCGAT
1 TTTCCAAATTCGCAACGCGATAGTCAAATTCGCAATGCGAT
** * *
1588638 AGT-CAAATTCGCAACGTGAAAGTCAAATTCGCAA
1 TTTCCAAATTCGCAACGCGATAGTCAAATTCGCAA
1588672 CTGAATTTCA
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
39 2 0.03
40 35 0.52
41 30 0.45
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (41 bp):
TTTCCAAATTCGCAACGCGATAGTCAAATTCGCAATGCGAT
Found at i:1588624 original size:20 final size:20
Alignment explanation
Indices: 1588601--1588672 Score: 117
Period size: 20 Copynumber: 3.6 Consensus size: 20
1588591 TGCGATTTTC
1588601 CAAATTCGCAACGCGATAGT
1 CAAATTCGCAACGCGATAGT
*
1588621 CAAATTCGCAATGCGATAGT
1 CAAATTCGCAACGCGATAGT
* *
1588641 CAAATTCGCAACGTGAAAGT
1 CAAATTCGCAACGCGATAGT
1588661 CAAATTCGCAAC
1 CAAATTCGCAAC
1588673 TGAATTTCAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.21
Consensus pattern (20 bp):
CAAATTCGCAACGCGATAGT
Found at i:1588682 original size:19 final size:19
Alignment explanation
Indices: 1588640--1588701 Score: 88
Period size: 19 Copynumber: 3.2 Consensus size: 19
1588630 AATGCGATAG
**
1588640 TCAAATTCGCAACGTGAAAG
1 TCAAATTCGCAAC-TGAATT
1588660 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
*
1588679 TCAAATTCGTAACTGAATT
1 TCAAATTCGCAACTGAATT
1588698 TCAA
1 TCAA
1588702 CGAATTTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 26 0.67
20 13 0.33
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.29
Consensus pattern (19 bp):
TCAAATTCGCAACTGAATT
Found at i:1588899 original size:16 final size:16
Alignment explanation
Indices: 1588878--1588911 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1588868 CCCATCTCTA
*
1588878 TTATTTTTACATAATT
1 TTATTTCTACATAATT
*
1588894 TTATTTCTATATAATT
1 TTATTTCTACATAATT
1588910 TT
1 TT
1588912 CAATGATTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATTTCTACATAATT
Found at i:1589650 original size:24 final size:24
Alignment explanation
Indices: 1589623--1589676 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
1589613 GTATTCGAAA
1589623 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
1589647 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
1589671 TTTGAT
1 TTTGAT
1589677 GATGTGATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:1592178 original size:23 final size:23
Alignment explanation
Indices: 1592152--1592219 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
1592142 CAGCTCGTAT
*
1592152 AATTGCACCAAAGTGCCATATAG
1 AATTGCACCGAAGTGCCATATAG
* * *
1592175 AATTGCACCGGAGTGCCGTGTAG
1 AATTGCACCGAAGTGCCATATAG
*
1592198 AATTGCACCGTAGTGCCATATA
1 AATTGCACCGAAGTGCCATATA
1592220 ATAATGTCCA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCATATAG
Found at i:1592402 original size:103 final size:103
Alignment explanation
Indices: 1592231--1592551 Score: 572
Period size: 103 Copynumber: 3.1 Consensus size: 103
1592221 TAATGTCCAT
* * *
1592231 AAGGACTACATATCATTCCTTAAGAATCATATACATAT-ACTAGGGATCAAGTATGTGTCTCACC
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGTC-AAGGATCAAGTATGTGTCTCACC
*
1592295 AGACTTCACACATGTTCCAAAGAATACAAATATGTCCCG
65 AGACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
1592334 AAGGACCATATATCATTCCTTAAGAATCATATACATATGTCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGTCAAGGATCAAGTATGTGTCTCACCA
*
1592399 GACTTCACAAATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
1592437 AAGGACCACATATCATTCCTTAAGAATCATATACATATGTCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGTCAAGGATCAAGTATGTGTCTCACCA
1592502 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
1592540 AAGGACCACATA
1 AAGGACCACATA
1592552 GACCCTCAAC
Statistics
Matches: 209, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
103 208 1.00
104 1 0.00
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGTCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:1597414 original size:23 final size:23
Alignment explanation
Indices: 1597383--1597451 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
1597373 CACCACAGCT
* *
1597383 CGTATAATTTCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
*
1597406 CGTAGAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
1597429 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
1597452 TATAATAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:1597638 original size:103 final size:103
Alignment explanation
Indices: 1597474--1597787 Score: 565
Period size: 103 Copynumber: 3.0 Consensus size: 103
1597464 CATAAGAACT
* * *
1597474 ACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCA
1 ACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGACTTCA
1597539 CACATGTTCCAAAGAATACATATATGTCCCGAAGGACC
66 CACATGTTCCAAAGAATACATATATGTCCCGAAGGACC
1597577 ACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGACTTCA
1 ACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGACTTCA
*
1597642 CAAATGTTCCAAAGAATACATATATGTCCCGAAGGACC
66 CACATGTTCCAAAGAATACATATATGTCCCGAAGGACC
*
1597680 ACATATCATTCCTTAAGAATCATATACATATGTCAAGGATCAAGTATGTGTCTCACCAGACTTCA
1 ACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGACTTCA
* *
1597745 CACATGTTTCAAAGAATACATATATGTCCCCAAGGACC
66 CACATGTTCCAAAGAATACATATATGTCCCGAAGGACC
1597783 ACATA
1 ACATA
1597788 GACCCTCAAC
Statistics
Matches: 203, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 203 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (103 bp):
ACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGACTTCA
CACATGTTCCAAAGAATACATATATGTCCCGAAGGACC
Found at i:1599298 original size:23 final size:22
Alignment explanation
Indices: 1599272--1599320 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
1599262 TTCACAATTT
1599272 TCCTTTAAGGGGAATCGGTTCCC
1 TCCTTT-AGGGGAATCGGTTCCC
* * *
1599295 TCCTGTGGGGGTATCGGTTCCC
1 TCCTTTAGGGGAATCGGTTCCC
1599317 -CCTT
1 TCCTT
1599321 GACATTCTGG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 3 0.14
22 14 0.64
23 5 0.23
ACGTcount: A:0.10, C:0.29, G:0.29, T:0.33
Consensus pattern (22 bp):
TCCTTTAGGGGAATCGGTTCCC
Found at i:1600619 original size:18 final size:18
Alignment explanation
Indices: 1600596--1600631 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1600586 AAGCAAAAGG
*
1600596 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
1600614 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
1600632 CAACCGGCTT
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:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:1600988 original size:20 final size:20
Alignment explanation
Indices: 1600937--1600982 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
1600927 TAAACGTTGT
*
1600937 GAATTTGACTATCGCGTAGC
1 GAATTTGACTTTCGCGTAGC
*
1600957 GAATTTGACTTTCGCGTTGC
1 GAATTTGACTTTCGCGTAGC
1600977 GAATTT
1 GAATTT
1600983 ACCTTTAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (20 bp):
GAATTTGACTTTCGCGTAGC
Found at i:1601076 original size:25 final size:25
Alignment explanation
Indices: 1601048--1601097 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
1601038 AAATTAATTA
*
1601048 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
1601073 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
1601098 GAAAAATAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:1601504 original size:18 final size:18
Alignment explanation
Indices: 1601483--1601519 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1601473 GTAATTGGAG
1601483 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
1601501 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
1601519 T
1 T
1601520 ATAAATTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:1601526 original size:24 final size:24
Alignment explanation
Indices: 1601475--1601527 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
1601465 TTTCATATGT
* * *
1601475 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
1601499 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
1601523 AATTT
1 AATTT
1601528 TGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:1601874 original size:39 final size:39
Alignment explanation
Indices: 1601831--1601917 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
1601821 TCCGATGCTC
1601831 ATCAAAATCCAAAGCTCATATGGTGCCAAACAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAACAAAAGGAA
* *
1601870 ATCAAAATCCAAATCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAACAAAAGGAA
1601909 ATCAAAATC
1 ATCAAAATC
1601918 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGGTGCCAAACAAAAGGAA
Found at i:1602185 original size:20 final size:20
Alignment explanation
Indices: 1602160--1602213 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
1602150 AGCTTATTTC
**
1602160 GCGTTGCGAATTTGGTTTTT
1 GCGTTGCGAATTTGACTTTT
* *
1602180 GCGTTGTGAATTTAACTTTT
1 GCGTTGCGAATTTGACTTTT
*
1602200 GTGTTGCGAATTTG
1 GCGTTGCGAATTTG
1602214 TACCTTCAAC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.15, C:0.09, G:0.28, T:0.48
Consensus pattern (20 bp):
GCGTTGCGAATTTGACTTTT
Found at i:1605268 original size:64 final size:63
Alignment explanation
Indices: 1605200--1605356 Score: 158
Period size: 64 Copynumber: 2.4 Consensus size: 63
1605190 TTGAAGGTGT
* ***
1605200 ATCGATGCACAGGAAGTGCATCGATGCA-CTCTTTTAA-AATAAAAACATCGAATGCAATTCATG
1 ATCGATGCACA-GTAGTGCATCGATGCATC-CCAGTAATAAT-AAAACATCGAATGCAATTCATG
1605263 C
63 C
* * * *
1605264 ATCGATGCGTA-AGTAGTACATCGATGCATCCCAGTAATAATACAACATCGAATGCATTTTATGC
1 ATCGATGC--ACAGTAGTGCATCGATGCATCCCAGTAATAATAAAACATCGAATGCAATTCATGC
*
1605328 ACCGATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCA-CAGTAGTGCATCGATGCAT
1605357 ACATTCATTG
Statistics
Matches: 77, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
62 1 0.01
64 70 0.91
65 5 0.06
66 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.26
Consensus pattern (63 bp):
ATCGATGCACAGTAGTGCATCGATGCATCCCAGTAATAATAAAACATCGAATGCAATTCATGC
Found at i:1606049 original size:31 final size:31
Alignment explanation
Indices: 1606014--1606138 Score: 180
Period size: 31 Copynumber: 4.0 Consensus size: 31
1606004 AGGGTCGATG
1606014 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
1606045 GTTTACCTATGTTCTTCGGGTCATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
1606076 GTTTACCTATGTTATTCTGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
1606107 GTTTACCTAGGTTTTTCAGGATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
1606138 G
1 G
1606139 GTTCTTCGGG
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
31 85 0.99
32 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.41
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:1610160 original size:64 final size:63
Alignment explanation
Indices: 1610092--1610248 Score: 165
Period size: 64 Copynumber: 2.4 Consensus size: 63
1610082 TTGAAGGTGT
* ***
1610092 ATCGATGCACAGGAAGTGCATCGATGCA-CTCTTTTAA-AATAAAAACATCGAATGCAATTCATG
1 ATCGATGCACA-GTAGTGCATCGATGCATC-CCAGTAATAAT-AAAACATCGAATGCAATTCATG
1610155 C
63 C
* * * * *
1610156 ATCGATGCATAAGTAGTACATCGATGCATCCCAGTAATAATACAACATCGAATGCATTTTATGC
1 ATCGATGCA-CAGTAGTGCATCGATGCATCCCAGTAATAATAAAACATCGAATGCAATTCATGC
*
1610220 ACCGATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCA-CAGTAGTGCATCGATGCAT
1610249 ACATTCATTG
Statistics
Matches: 78, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
64 73 0.94
65 5 0.06
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (63 bp):
ATCGATGCACAGTAGTGCATCGATGCATCCCAGTAATAATAAAACATCGAATGCAATTCATGC
Found at i:1610943 original size:31 final size:31
Alignment explanation
Indices: 1610905--1611029 Score: 198
Period size: 31 Copynumber: 4.0 Consensus size: 31
1610895 AGGGTCGAGG
1610905 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
1610936 GTTTACCTATGTTCTTCGGGTCATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
1610967 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
1610998 GTTTACCTAGGTTTTTCAGGATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
1611029 G
1 G
1611030 GTCCTTCGGG
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
31 87 0.99
32 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.23, T:0.40
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:1611901 original size:77 final size:75
Alignment explanation
Indices: 1611809--1612040 Score: 270
Period size: 77 Copynumber: 3.0 Consensus size: 75
1611799 ATTTTACCAT
* * * *
1611809 TTACATTAATATTATATCTTTAAATAAATCGGTGGGTAGTTTAACGTAATAGGTAGCGCCTGTTT
1 TTACATTATTATTATA-CTTTAAACAAATCGGTAGGTAATTTAACGTAATAGGTAGCGCCT-TTT
1611874 TATTTTAACCGG
64 TATTTTAACCGG
* * * * * *
1611886 TTACATTATTATTATACTTTTAAACAAACCGGTAGGTATTTTAACATAATAGGTAGCACATATTT
1 TTACATTATTATTATAC-TTTAAACAAATCGGTAGGTAATTTAACGTAATAGGTAGCGCCTTTTT
1611951 ATTTT-ACC-G
65 ATTTTAACCGG
* * *
1611960 TTGACATTATCATTATACCTTTAAACAAATCGGTAGATAATTTAACGTAATAAGTAGCGCCTATT
1 TT-ACATTATTATTATA-CTTTAAACAAATCGGTAGGTAATTTAACGTAATAGGTAGCGCCT-TT
*
1612025 TTATTTTAATCGG
63 TTATTTTAACCGG
1612038 TTA
1 TTA
1612041 AGTTGTAAAT
Statistics
Matches: 130, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
74 3 0.02
75 52 0.40
76 18 0.14
77 54 0.42
78 3 0.02
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (75 bp):
TTACATTATTATTATACTTTAAACAAATCGGTAGGTAATTTAACGTAATAGGTAGCGCCTTTTTA
TTTTAACCGG
Found at i:1611986 original size:75 final size:73
Alignment explanation
Indices: 1611798--1612032 Score: 263
Period size: 75 Copynumber: 3.1 Consensus size: 73
1611788 AATTTGTAAA
* * * * *
1611798 TATTTTACCATTTACATTAATATTATATCTTTAAATAAATCGGTGGGTAGTTTAACGTAATAGGT
1 TATTTTACC-GTTACATT-ATATTATACCTTTAAACAAATCGGTAGGTAATTTAACGTAATAGGT
*
1611863 AGCGCCTGTTT
64 AGCGCCT-ATT
* * * *
1611874 TATTTTAACCGGTTACATTATTATTATACTTTTAAACAAACCGGTAGGTATTTTAACATAATAGG
1 TATTTT-ACC-GTTACATTA-TATTATACCTTTAAACAAATCGGTAGGTAATTTAACGTAATAGG
* *
1611939 TAGCACATATT
63 TAGCGCCTATT
* *
1611950 TATTTTACCGTTGACATTATCATTATACCTTTAAACAAATCGGTAGATAATTTAACGTAATAAGT
1 TATTTTACCGTT-ACATTAT-ATTATACCTTTAAACAAATCGGTAGGTAATTTAACGTAATAGGT
1612015 AGCGCCTATTT
64 AGCGCCTA-TT
1612026 TATTTTA
1 TATTTTA
1612033 ATCGGTTAAG
Statistics
Matches: 134, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
74 4 0.03
75 53 0.40
76 24 0.18
77 53 0.40
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (73 bp):
TATTTTACCGTTACATTATATTATACCTTTAAACAAATCGGTAGGTAATTTAACGTAATAGGTAG
CGCCTATT
Found at i:1612067 original size:100 final size:100
Alignment explanation
Indices: 1611950--1612158 Score: 303
Period size: 100 Copynumber: 2.1 Consensus size: 100
1611940 AGCACATATT
*
1611950 TATTTTACCGTTGACATTATCATTATACCTTTAAACAAATCGGTAGATAATTTAACGTAATAAG-
1 TATTTTACCGTTGACATTATCATTATACATTTAAACAAATCGGTAGATAATTTAACGTAATAAGA
*
1612014 TAGCGCCTATTTTATTTTAATCGGTTAAGTTGTAAA
66 T-GCACCTATTTTATTTTAATCGGTTAAGTTGTAAA
* * * * * *
1612050 TATTTTACCGTTTACATTATTATTATACATTTAAATAAATCGGTAGCTAGTTTAACGTAATATGA
1 TATTTTACCGTTGACATTATCATTATACATTTAAACAAATCGGTAGATAATTTAACGTAATAAGA
* *
1612115 TGCACCTATTTTATTTTAATTGGTTAAGTTGTAAT
66 TGCACCTATTTTATTTTAATCGGTTAAGTTGTAAA
1612150 TATTATTAC
1 TATT-TTAC
1612159 ACTATCGATA
Statistics
Matches: 97, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
100 92 0.95
101 5 0.05
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (100 bp):
TATTTTACCGTTGACATTATCATTATACATTTAAACAAATCGGTAGATAATTTAACGTAATAAGA
TGCACCTATTTTATTTTAATCGGTTAAGTTGTAAA
Found at i:1613707 original size:18 final size:18
Alignment explanation
Indices: 1613684--1613733 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
1613674 CGCTGGAATG
1613684 TTTATGAAGGAATTAGAA
1 TTTATGAAGGAATTAGAA
*
1613702 TTTATGAAGAAATTAGAA
1 TTTATGAAGGAATTAGAA
*
1613720 TTTGTGAAGGAATT
1 TTTATGAAGGAATT
1613734 GGGATCCAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.42, C:0.00, G:0.22, T:0.36
Consensus pattern (18 bp):
TTTATGAAGGAATTAGAA
Found at i:1614396 original size:37 final size:39
Alignment explanation
Indices: 1614310--1614399 Score: 123
Period size: 38 Copynumber: 2.4 Consensus size: 39
1614300 TTTTCACCCT
1614310 AAACCCGAACCCG-ATCCGACCCGAATATCACACTTAAAA
1 AAACCCG-ACCCGAATCCGACCCGAATATCACACTTAAAA
* *
1614349 AAACCTGACCCGAAT-CGACCCGAATATTACACTT-AAA
1 AAACCCGACCCGAATCCGACCCGAATATCACACTTAAAA
*
1614386 AATCCCGACCCGAA
1 AAACCCGACCCGAA
1614400 CAAAATAAAG
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
37 15 0.33
38 23 0.50
39 8 0.17
ACGTcount: A:0.40, C:0.34, G:0.11, T:0.14
Consensus pattern (39 bp):
AAACCCGACCCGAATCCGACCCGAATATCACACTTAAAA
Found at i:1619503 original size:4 final size:4
Alignment explanation
Indices: 1619494--1619536 Score: 61
Period size: 4 Copynumber: 11.0 Consensus size: 4
1619484 TTTTCGTCCA
* *
1619494 TATT TATT TATT TATT TATT TATT TGTT T-TT TATT TATA TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
1619537 ACATAATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
3 3 0.09
4 32 0.91
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:1619669 original size:37 final size:36
Alignment explanation
Indices: 1619529--1619784 Score: 221
Period size: 37 Copynumber: 6.9 Consensus size: 36
1619519 GTTTTTTATT
* * * *
1619529 TATATATTACATAATTTTGAAAACATTTTG-AAA-A
1 TATATAATATATAGTTTTTAAAACATTTTGAAAACA
* * *
1619563 TATATGATATATAATTTTTAAAACATTTTAAAAACA
1 TATATAATATATAGTTTTTAAAACATTTTGAAAACA
* * *
1619599 TTTATATATTATATAG-TTTTAAAACGTTTTTGAAAAGA
1 --TATATAATATATAGTTTTTAAAAC-ATTTTGAAAACA
* * *
1619637 AATATAATATATAGTTTTCAAAACATTTTTGAAAATA
1 TATATAATATATAGTTTTTAAAACA-TTTTGAAAACA
* * * *
1619674 TACATATTATATAGTTTTTAAAACGTTTTGAAAATAAA
1 TATATAATATATAGTTTTTAAAACATTTTG-AAA-ACA
* *
1619712 TATATAATATATAATTTTTTGAAAAACATTTTGAAATCA
1 TATATAATATAT-AGTTTTT--AAAACATTTTGAAAACA
* *
1619751 TATATAATATGTAGTTTTTAAAACATTTTTAAAA
1 TATATAATATATAGTTTTTAAAACATTTTGAAAA
1619785 ATTATATGGT
Statistics
Matches: 178, Mismatches: 32, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
34 25 0.14
35 3 0.02
36 31 0.17
37 50 0.28
38 38 0.21
39 18 0.10
40 3 0.02
41 10 0.06
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.43
Consensus pattern (36 bp):
TATATAATATATAGTTTTTAAAACATTTTGAAAACA
Found at i:1619922 original size:3 final size:3
Alignment explanation
Indices: 1619914--1619971 Score: 73
Period size: 3 Copynumber: 18.7 Consensus size: 3
1619904 GTTTTTATAT
*
1619914 TTA TTA TTA TTA TTA TTA TTA TCA TTA TTTA TTA TTA TTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA -TTA TTA TTA
1619961 TTTA TT- TTA TT
1 -TTA TTA TTA TT
1619972 TTAATTTTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
2 2 0.04
3 38 0.78
4 9 0.18
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1619950 original size:10 final size:10
Alignment explanation
Indices: 1619911--1619972 Score: 94
Period size: 10 Copynumber: 6.5 Consensus size: 10
1619901 ATAGTTTTTA
1619911 TATTTATTAT
1 TATTTATTAT
1619921 TA-TTATTAT
1 TATTTATTAT
*
1619930 TA-TTATCAT
1 TATTTATTAT
1619939 TATTTATTAT
1 TATTTATTAT
1619949 TATTTATTAT
1 TATTTATTAT
1619959 TATTTATT-T
1 TATTTATTAT
1619968 TATTT
1 TATTT
1619973 TAATTTTTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
9 23 0.47
10 26 0.53
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (10 bp):
TATTTATTAT
Found at i:1622394 original size:11 final size:11
Alignment explanation
Indices: 1622378--1622402 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1622368 TCACTAACTC
1622378 TTTTTATTTTT
1 TTTTTATTTTT
1622389 TTTTTATTTTT
1 TTTTTATTTTT
1622400 TTT
1 TTT
1622403 CATTTTGTTC
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:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTATTTTT
Found at i:1623055 original size:18 final size:19
Alignment explanation
Indices: 1623032--1623076 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
1623022 ATTTAGACAT
1623032 TTTGCATTTC-TTATTTTC
1 TTTGCATTTCGTTATTTTC
1623050 TTTGCATTTCGTTATTTTC
1 TTTGCATTTCGTTATTTTC
1623069 TTTGCATT
1 TTTGCATT
1623077 CACATTAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.11, C:0.16, G:0.09, T:0.64
Consensus pattern (19 bp):
TTTGCATTTCGTTATTTTC
Found at i:1626592 original size:84 final size:83
Alignment explanation
Indices: 1626401--1627514 Score: 1289
Period size: 84 Copynumber: 13.4 Consensus size: 83
1626391 TAAACAAACT
* * * ** * *
1626401 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGTCCCCCGAGTTTGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
*
1626462 CTCAGCTTCGAGGGCACATC
66 CTCAGC-TC-AAGGCACATC
* * * * ** *
1626482 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TGACCAAAAGACCTTTGAGTTCGACTAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTAC
* *
1626546 GCTCAGCTCAACGGCATATC
65 ACTCAGCTCAA-GGCACATC
* ** * ** * *
1626566 ATTTGCAGTATAGTTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTTGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
* *
1626627 CTCAGCTTCGAGGGCATATC
66 CTCAGC-TC-AAGGCACATC
* * *
1626647 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAGGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
1626712 CTCAGCTCTAAGGCACATC
66 CTCAGCTC-AAGGCACATC
* * ** *
1626731 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
*
1626792 CTCAGCTTCGAGGGCACATC
66 CTCAGC-TC-AAGGCACATC
* * * *
1626812 ATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAATTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
1626877 CTCAGCTCAACGGCACATC
66 CTCAGCTCAA-GGCACATC
* * * ** *
1626896 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
*
1626957 CTCAGCTTCGAGGGCACATC
66 CTCAGC-TC-AAGGCACATC
* *
1626977 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCTAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
*
1627042 CTCAGCTCCAAGGCATATC
66 CTCAGCT-CAAGGCACATC
* * *
1627061 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
1627126 CTCAGCTCAACGGCACATC
66 CTCAGCTCAA-GGCACATC
* * * ** *
1627145 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
*
1627206 CTCAGCTTCGAGGGCACATC
66 CTCAGC-TC-AAGGCACATC
1627226 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
*
1627291 CTCAGCTCCAAGGCATATC
66 CTCAGCT-CAAGGCACATC
*
1627310 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
*
1627375 CTCAGCTCCAAGGCATATC
66 CTCAGCT-CAAGGCACATC
* * * * *
1627394 ATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
1627459 CTCAGCTCAATGGCACATC
66 CTCAGCTCAA-GGCACATC
*
1627478 ATTTGCATCATAACTTAAGTCGAGAAGGGTTATCTGC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGC
1627515 TAAAGACCTT
Statistics
Matches: 883, Mismatches: 117, Indels: 63
0.83 0.11 0.06
Matches are distributed among these distances:
80 99 0.11
81 204 0.23
82 3 0.00
83 8 0.01
84 442 0.50
85 127 0.14
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (83 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
CTCAGCTCAAGGCACATC
Found at i:1626675 original size:165 final size:164
Alignment explanation
Indices: 1626401--1627514 Score: 1445
Period size: 165 Copynumber: 6.7 Consensus size: 164
1626391 TAAACAAACT
* *
1626401 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGTCCCCCGAGTTTGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* * * * **
1626466 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TGACCAAAAGAC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACC-AAAGAC
*
1626530 CTTTGAGTTCGACTACGCTCAGCTCAACGGCATATC
130 CTTTGAGTTCGACTACGCTCAGCTCAA-GGCACATC
* * *
1626566 ATTTGCAGTATAGTTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTTGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* *
1626631 GCTTCGAGGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAGGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
1626696 TTTGAGTTCGACTACGCTCAGCTCTAAGGCACATC
131 TTTGAGTTCGACTACGCTCAGCTC-AAGGCACATC
1626731 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
*
1626796 GCTTCGAGGGCACATCATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
*
1626861 TTTGAATTCGACTACGCTCAGCTCAACGGCACATC
131 TTTGAGTTCGACTACGCTCAGCTCAA-GGCACATC
*
1626896 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1626961 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
*
1627026 TTCT-AGTTCGACTACGCTCAGCTCCAAGGCATATC
131 TT-TGAGTTCGACTACGCTCAGCT-CAAGGCACATC
* * * *** * *
1627061 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGATTACA
* * * * *
1627126 CTCAGC-TCAACGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAA
62 CTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAA
*** * * *
1627186 GACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
127 GACCTTTGAGTTCGACTACGCTCAGC-TC-AAGGCACATC
* * ** *
1627226 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGATTACA
* * *
1627291 CTCAGC-TCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAA
62 CTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAA
* *
1627355 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATC
127 GACCTTTGAGTTCGACTACGCTCAGCT-CAAGGCACATC
* * * * * *** *
1627394 ATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCCCCGAGTTCGATTACA
* * *
1627459 CTCAGC-TCAATGGCACATCATTTGCATCATAACTTAAGTCGAGAAGGGTTATCTGC
62 CTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGC
1627515 TAAAGACCTT
Statistics
Matches: 861, Mismatches: 68, Indels: 37
0.89 0.07 0.04
Matches are distributed among these distances:
164 28 0.03
165 609 0.71
166 9 0.01
167 1 0.00
168 160 0.19
169 54 0.06
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (164 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
TTTGAGTTCGACTACGCTCAGCTCAAGGCACATC
Found at i:1626921 original size:249 final size:246
Alignment explanation
Indices: 1626401--1627531 Score: 1463
Period size: 249 Copynumber: 4.6 Consensus size: 246
1626391 TAAACAAACT
* *
1626401 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGTCCCCCGAGTTTGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* * * *
1626466 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATC--TGACC-AAAGACC
* * * **
1626531 TTTGAGTTCGACTACGCTCAGCT-CAACGGCATATCATTTGCAGTATAGTTTAAGTCGAGAAGGG
128 TTCGAGTTCGACTACACTCAGCTCCAA-GGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGG
* ** * * * * * *
1626595 CTATCTG----CCAAAGACCCCCGAGTTTGATTACACTCAGCTTCGAGGGCATATC
192 TTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCAACGGCACATC
* * *** * *
1626647 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAGGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC-A--AA-GACCCCCGAGTTCGATTACA
* * * *
1626712 CTCAGC-TCTAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-CCAAAGAC
62 CTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGACCAAAGAC
** * * * * *
1626775 CCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGTATAACTTAAGTCGAGAAGG
127 CTTCGAGTTCGACTACACTCAGC-TCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGG
* *
1626840 GTTATCTGCCAACCAAAGACCTTTGAATTCGACTACGCTCAGCTCAACGGCACATC
191 GTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAACGGCACATC
*
1626896 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1626961 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG---ACCAAAGACC
* * *
1627026 TTCTAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCTAGAAGGGT
128 TTCGAGTTCGACTACACTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGT
*
1627091 TATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATC
193 TATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAACGGCACATC
*
1627145 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1627210 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG---ACCAAAGACC
1627275 TTCGAGTTCGACTACACTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGT
128 TTCGAGTTCGACTACACTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGT
*
1627340 TATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCATATC
193 TATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCT-CAACGGCACATC
* * * * * *** *
1627394 ATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCCCCGAGTTCGATTACA
* * * *
1627459 CTCAGC-TCAATGGCACATCATTTGCATCATAACTTAAGTCGAGAAGGGTTATCTG-CTAAAGAC
62 CTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGACCAAAGAC
1627522 CTTCGAGTTC
127 CTTCGAGTTC
1627532 AATTATATTC
Statistics
Matches: 785, Mismatches: 80, Indels: 38
0.87 0.09 0.04
Matches are distributed among these distances:
245 45 0.06
246 126 0.16
247 4 0.01
248 18 0.02
249 447 0.57
250 73 0.09
252 47 0.06
253 25 0.03
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (246 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGACCAAAGACCTTC
GAGTTCGACTACACTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTAT
CTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAACGGCACATC
Found at i:1628152 original size:4 final size:4
Alignment explanation
Indices: 1628143--1628181 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
1628133 TTTTCGTCCA
* *
1628143 TATT TATT TATT TATT TATT TGTT T-TT TATT TATA TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
1628182 ACATAATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
3 3 0.10
4 28 0.90
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:1628314 original size:37 final size:36
Alignment explanation
Indices: 1628174--1628429 Score: 214
Period size: 37 Copynumber: 6.9 Consensus size: 36
1628164 GTTTTTTATT
* * * *
1628174 TATATATTACATAATTTTGAAAACATTTTG-AAA-A
1 TATATAATATATAGTTTTTAAAACATTTTGAAAAGA
* * * *
1628208 TATATGATATATAATTTTTAAAACATTTTAAAAACA
1 TATATAATATATAGTTTTTAAAACATTTTGAAAAGA
* *
1628244 TTTATATATTATATAG-TTTTAAAACGTTTTTGAAAAGA
1 --TATATAATATATAGTTTTTAAAAC-ATTTTGAAAAGA
* * *
1628282 AATATAATATATAGTTTTCAAAACATTTTTGAAAATA
1 TATATAATATATAGTTTTTAAAACA-TTTTGAAAAGA
* * * *
1628319 TACATATTATATAGTTTTTAAAACGTTTTGAAAATAAA
1 TATATAATATATAGTTTTTAAAACATTTTG-AAA-AGA
*
1628357 TATATAATATATAATTTTTTGAAAAACATTTTG-AAAGCA
1 TATATAATATAT-AGTTTTT--AAAACATTTTGAAAAG-A
* *
1628396 TATATAATATGTAGTTTTTAAAACATTTTTAAAA
1 TATATAATATATAGTTTTTAAAACATTTTGAAAA
1628430 ATTATATGGT
Statistics
Matches: 178, Mismatches: 30, Indels: 25
0.76 0.13 0.11
Matches are distributed among these distances:
34 25 0.14
35 3 0.02
36 28 0.16
37 53 0.30
38 39 0.22
39 20 0.11
41 10 0.06
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.43
Consensus pattern (36 bp):
TATATAATATATAGTTTTTAAAACATTTTGAAAAGA
Found at i:1628567 original size:3 final size:3
Alignment explanation
Indices: 1628559--1628633 Score: 95
Period size: 3 Copynumber: 25.7 Consensus size: 3
1628549 GTTTTTATAT
*
1628559 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
1628605 TTA TT- TT- TTA TTA CTTA TT- TTA TT- TTA TT
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT
1628634 TTTTTCCCGT
Statistics
Matches: 65, Mismatches: 2, Indels: 10
0.84 0.03 0.13
Matches are distributed among these distances:
2 8 0.12
3 51 0.78
4 6 0.09
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1632447 original size:27 final size:27
Alignment explanation
Indices: 1632373--1632447 Score: 114
Period size: 27 Copynumber: 2.8 Consensus size: 27
1632363 AGAGGAGGAT
* *
1632373 TTGGGAATGGATGAGCGAGGAGAGAAA
1 TTGGGAATGGATGAGCAAGGGGAGAAA
*
1632400 TTGGGAATGGACGAGCAAGGGGAGAAA
1 TTGGGAATGGATGAGCAAGGGGAGAAA
*
1632427 TTGGGAATGGATGCGCAAGGG
1 TTGGGAATGGATGAGCAAGGG
1632448 TTAGGGATTG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.33, C:0.07, G:0.45, T:0.15
Consensus pattern (27 bp):
TTGGGAATGGATGAGCAAGGGGAGAAA
Found at i:1639274 original size:3 final size:3
Alignment explanation
Indices: 1639266--1639314 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
1639256 TTTCATCCCG
* * *
1639266 TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTTA TTA ATA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
1639312 TTA
1 TTA
1639315 CTTTTGTAGG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:1640349 original size:93 final size:93
Alignment explanation
Indices: 1640224--1640413 Score: 249
Period size: 93 Copynumber: 2.0 Consensus size: 93
1640214 GGTTTTAATT
* * * * *
1640224 GGGTTAGTGATATAATAATAATTGTTTGGTATTTTAGTACAAAAATAT-GTAGGTTAATTAAACC
1 GGGTTAGTAATATAATAATAATTATTTAGTATTTTAGTACAAAAAT-TGGTAGGTAAATCAAACC
*
1640288 CACGTGGG-AGCCATTTCATCTAGGTATG
65 CACGTGGGTAGCCATTCCATCTAGGTATG
* * * *
1640316 GGGTGTAGTAATATGATAATAATTATTTAGTATTTTAGTGCTAAAATTGGTGGGTAAATCAAACC
1 GGGT-TAGTAATATAATAATAATTATTTAGTATTTTAGTACAAAAATTGGTAGGTAAATCAAACC
*
1640381 CACGTGGGTGGCCATTCCATCTAGGTATG
65 CACGTGGGTAGCCATTCCATCTAGGTATG
1640410 GGGT
1 GGGT
1640414 ATTGTGTTTC
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
92 5 0.06
93 57 0.68
94 22 0.26
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.35
Consensus pattern (93 bp):
GGGTTAGTAATATAATAATAATTATTTAGTATTTTAGTACAAAAATTGGTAGGTAAATCAAACCC
ACGTGGGTAGCCATTCCATCTAGGTATG
Found at i:1648862 original size:4 final size:4
Alignment explanation
Indices: 1648853--1648906 Score: 51
Period size: 4 Copynumber: 13.8 Consensus size: 4
1648843 TTTCCATTCT
* *
1648853 TTTA TTTA TTTA TTTA TTTA TTTC TTT- TTTA TATA -TTA -TTA TTTCA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT-A
1648899 TTCTA TTT
1 TT-TA TTT
1648907 TGATATGGGA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
3 8 0.19
4 28 0.65
5 6 0.14
6 1 0.02
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:1648902 original size:25 final size:25
Alignment explanation
Indices: 1648842--1648912 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 25
1648832 AAATATCATC
1648842 ATTTCCATTCTTTTATT-TATTTATTT
1 ATTT-CATTCTTTT-TTATATTTATTT
1648868 ATTT-ATTTCTTTTTTATATATTA-TT
1 ATTTCA-TTCTTTTTTATAT-TTATTT
*
1648893 ATTTCATTCTATTTTGATAT
1 ATTTCATTCT-TTTTTATAT
1648913 GGGATAGATT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
24 3 0.08
25 20 0.51
26 16 0.41
ACGTcount: A:0.23, C:0.08, G:0.01, T:0.68
Consensus pattern (25 bp):
ATTTCATTCTTTTTTATATTTATTT
Found at i:1653774 original size:66 final size:66
Alignment explanation
Indices: 1653668--1654446 Score: 1375
Period size: 66 Copynumber: 11.8 Consensus size: 66
1653658 TTCGATCCCA
* *
1653668 ATTCAATGGATCAACTTCTCCAGGATTTGATATTCCCTTCAGAGTAAGTGGAATAAGTCTGCTTC
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
1653733 G
66 G
1653734 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
1653799 G
66 G
* *
1653800 ATCCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTACTTC
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
1653865 G
66 G
*
1653866 ATTCAATGGATCAACTTCTCCAAGATTTTATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
1653931 G
66 G
1653932 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
1653997 G
66 G
1653998 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
1654063 G
66 G
*
1654064 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTTCTTC
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
1654129 G
66 G
1654130 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
1654195 G
66 G
1654196 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
1654261 G
66 G
* **
1654262 ATTCAATGGACCAACTTCTCCAAGATTTGATATAACCTTCAGAGTAAGTGGAACAAGTCTGCTTC
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
1654327 G
66 G
* * * *
1654328 ATTCAATGGATCAATTTCTCCAAGATTTGATATTCCATTCAGAGTAAGTGTAACAAGTCTGCTTT
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
1654393 G
66 G
* * * *
1654394 ATTCAATGAATCAACTT-TCCCATATCTGATATTCCC-TCAGAAG-AAGTGGAACA
1 ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAG-AGTAAGTGGAACA
1654447 GATCAAATCT
Statistics
Matches: 685, Mismatches: 27, Indels: 4
0.96 0.04 0.01
Matches are distributed among these distances:
64 13 0.02
65 17 0.02
66 655 0.96
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (66 bp):
ATTCAATGGATCAACTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCTTC
G
Found at i:1654721 original size:3 final size:3
Alignment explanation
Indices: 1654713--1654763 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
1654703 TTTCATCCCG
* *
1654713 TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
*
1654759 ATA TT
1 TTA TT
1654764 GCTTTTTTAG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:1658430 original size:2 final size:2
Alignment explanation
Indices: 1658425--1658472 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
1658415 CCTTATAACT
1658425 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1658466 -A TA TA TA
1 TA TA TA TA
1658473 ATGTACGAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.05
2 42 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1659379 original size:145 final size:145
Alignment explanation
Indices: 1659032--1659560 Score: 431
Period size: 145 Copynumber: 3.6 Consensus size: 145
1659022 CGCTGCCGTG
* * * * * *
1659032 CCACCGTCCGATCGTCCTGAAATTTCAGTATGTTGTTCGTG-TTGACATCGCGCAACTGTTGACC
1 CCACCGTCTGATCGTCCTGAATTTTCAGTATGTTGTTCATGATGGTC-TCGCGCAACTTTTGACC
* * * * * * * * * * * * * *
1659096 GTTTGGAATATTGATCGGAGGTTCCGATCACCA-GCGAGAGGCCAAATATCGTCTGGATTTGTTT
65 GTTCGGAATATTAATCGAAGATCCCGATC-GCAGGCAAAAGACCAAAAACCGT-TCGACTTATTT
* * *
1659160 TCTCTGATTCACCA-CCGT
128 TCTCCGATCCA-CAGCCAT
* * * * * * * ** * *
1659178 CTACCGTCCGATCGTCATGAAATTTCAGTATGCTGTTCGTG-T-TTACATTACACAACTTTTTAC
1 CCACCGTCTGATCGTCCTGAATTTTCAGTATGTTGTTCATGATGGT-C-TCGCGCAACTTTTGAC
* * * * * * *
1659241 TGTT-TGAAGTATTGATCGGAGATCCCGATCGCCGGCAAAAGGCTAAAAACCGTTCGACTTATTT
64 CGTTCGGAA-TATTAATCGAAGATCCCGATCGCAGGCAAAAGACCAAAAACCGTTCGACTTATTT
** *
1659305 TCTCCGATCTGCAGTCAT
128 TCTCCGATCCACAGCCAT
1659323 CCACCGTCTGATCGTCCTGAATTTTCAGTATGTTGTTCATGATGGTCTCGCGCAACTTTTGACCG
1 CCACCGTCTGATCGTCCTGAATTTTCAGTATGTTGTTCATGATGGTCTCGCGCAACTTTTGACCG
* * *
1659388 TTCGGAATGTTAATCGAAGATCCCGATCGCAGGCAAGAGACCAAAAACCGTTCGGCTTATTTTCT
66 TTCGGAATATTAATCGAAGATCCCGATCGCAGGCAAAAGACCAAAAACCGTTCGACTTATTTTCT
* * *
1659453 TCGATCCACCGCCGT
131 CCGATCCACAGCCAT
* ** *
1659468 CCACCGTTTGATCGTCCTGAATTTTCAGTATGTTGTTCATGATGGTCTTTCACAACTTTTGACCG
1 CCACCGTCTGATCGTCCTGAATTTTCAGTATGTTGTTCATGATGGTCTCGCGCAACTTTTGACCG
** * *
1659533 TTCGGAATGGTAATCGGAGATTCCGATC
66 TTCGGAATATTAATCGAAGATCCCGATC
1659561 AATGATGAGA
Statistics
Matches: 312, Mismatches: 64, Indels: 15
0.80 0.16 0.04
Matches are distributed among these distances:
144 2 0.01
145 216 0.69
146 93 0.30
147 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.32
Consensus pattern (145 bp):
CCACCGTCTGATCGTCCTGAATTTTCAGTATGTTGTTCATGATGGTCTCGCGCAACTTTTGACCG
TTCGGAATATTAATCGAAGATCCCGATCGCAGGCAAAAGACCAAAAACCGTTCGACTTATTTTCT
CCGATCCACAGCCAT
Found at i:1660175 original size:48 final size:47
Alignment explanation
Indices: 1660116--1660318 Score: 221
Period size: 48 Copynumber: 4.2 Consensus size: 47
1660106 GCTGTCACTC
* *
1660116 AGGGAATATCAAATCTTGCATG-AGAGGGATTTGTTCCACTT-TTGCTGA
1 AGGGAATATCAAATCTTG-A-GAAGAGAGATTTGTTCCACTTACT-CTGA
* * * * *
1660164 AGGGTATATCAAATCTTGAAGAATAAAGACTTGTTCCACTTACTCCGA
1 AGGGAATATCAAATCTTG-AGAAGAGAGATTTGTTCCACTTACTCTGA
* *
1660212 AGGGAATATCAAATCTTGGAGAAGAGAGATCTGTTCCGCTTACTCTGA
1 AGGGAATATCAAATCTT-GAGAAGAGAGATTTGTTCCACTTACTCTGA
* ** *
1660260 AGGGAATATCAAATCTTGAAGAAAAGAGACCTGTTCCACTTACTCCGA
1 AGGGAATATCAAATCTTG-AGAAGAGAGATTTGTTCCACTTACTCTGA
1660308 AGGGAATATCA
1 AGGGAATATCA
1660319 GATATGGGGG
Statistics
Matches: 132, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
47 2 0.02
48 128 0.97
49 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (47 bp):
AGGGAATATCAAATCTTGAGAAGAGAGATTTGTTCCACTTACTCTGA
Found at i:1660247 original size:96 final size:96
Alignment explanation
Indices: 1660116--1660318 Score: 295
Period size: 96 Copynumber: 2.1 Consensus size: 96
1660106 GCTGTCACTC
* * * *
1660116 AGGGAATATCAAATCTTGCATGAGAGGGATTTGTTCCACTT-TTGCTGAAGGGTATATCAAATCT
1 AGGGAATATCAAATCTTGCATGAGAGAGATCTGTTCCACTTACT-CTGAAGGGAATATCAAATCT
*
1660180 TGAAGAATAA-AGACTTGTTCCACTTACTCCGA
65 TGAAGAA-AAGAGACCTGTTCCACTTACTCCGA
* *
1660212 AGGGAATATCAAATCTTGGA-GAAGAGAGATCTGTTCCGCTTACTCTGAAGGGAATATCAAATCT
1 AGGGAATATCAAATCTTGCATG-AGAGAGATCTGTTCCACTTACTCTGAAGGGAATATCAAATCT
1660276 TGAAGAAAAGAGACCTGTTCCACTTACTCCGA
65 TGAAGAAAAGAGACCTGTTCCACTTACTCCGA
1660308 AGGGAATATCA
1 AGGGAATATCA
1660319 GATATGGGGG
Statistics
Matches: 97, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
95 3 0.03
96 93 0.96
97 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (96 bp):
AGGGAATATCAAATCTTGCATGAGAGAGATCTGTTCCACTTACTCTGAAGGGAATATCAAATCTT
GAAGAAAAGAGACCTGTTCCACTTACTCCGA
Found at i:1660418 original size:46 final size:47
Alignment explanation
Indices: 1660346--1660482 Score: 206
Period size: 46 Copynumber: 2.9 Consensus size: 47
1660336 CCATTGAATC
* *
1660346 GAAGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGA
1 GAAGAAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAA
*
1660393 GAAG-AGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGAA
1 GAAGAAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAA
*
1660439 GAAGAAAGA-TATGTTCCACTTACTCTGAAGGGAATATCAGATCT
1 GAAG-AAGACT-TGTTCCACTTACTCTGAAGGGAATATCAAATCT
1660483 GGGGGAGTTG
Statistics
Matches: 83, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
46 44 0.53
47 5 0.06
48 34 0.41
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.28
Consensus pattern (47 bp):
GAAGAAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAA
Found at i:1660486 original size:159 final size:159
Alignment explanation
Indices: 1660190--1660595 Score: 652
Period size: 159 Copynumber: 2.5 Consensus size: 159
1660180 TGAAGAATAA
* *
1660190 AGACTTGTTCCACTTACTCCGAAGGGAATATCAAATCTTGGAGAAGAGAGATCTGTTCCGCTTAC
1 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAGA-CT-TGTTCCGCTTAC
*
1660255 TCTGAAGGGAATATCAAATCTTGAAGAAAAGAGACCTGTTCCACTTACTCCGAAGGGAATATCAG
64 TCTGAAGGGAATATCAAATCTTGAAGAAAAGAGACATGTTCCACTTACTCCGAAGGGAATATCAG
1660320 ATATGGGGGAGTTAATCCATTGAATCGAAGC
129 ATATGGGGGAGTTAATCCATTGAATCGAAGC
1660351 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAGACTTGTTCCGCTTACTC
1 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAGACTTGTTCCGCTTACTC
* *
1660416 TGAAGGGAATATCAAATCTTGAAGAAGAA-AGATATGTTCCACTTACTCTGAAGGGAATATCAGA
66 TGAAGGGAATATCAAATCTTGAAGAA-AAGAGACATGTTCCACTTACTCCGAAGGGAATATCAGA
* *
1660480 TCTGGGGGAGTTGATCCATTGAATCGAAGC
130 TATGGGGGAGTTAATCCATTGAATCGAAGC
* *
1660510 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAGAAAAGAGACCTGTTCCGCTTAC
1 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTG--GAGAAGAGACTTGTTCCGCTTAC
* * *
1660575 TCCGAGGGGAATATCAGATCT
64 TCTGAAGGGAATATCAAATCT
1660596 GGGGGAGTTG
Statistics
Matches: 230, Mismatches: 12, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
159 140 0.61
160 3 0.01
161 87 0.38
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (159 bp):
AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAGACTTGTTCCGCTTACTC
TGAAGGGAATATCAAATCTTGAAGAAAAGAGACATGTTCCACTTACTCCGAAGGGAATATCAGAT
ATGGGGGAGTTAATCCATTGAATCGAAGC
Found at i:1660595 original size:113 final size:111
Alignment explanation
Indices: 1660393--1660708 Score: 451
Period size: 113 Copynumber: 2.8 Consensus size: 111
1660383 AAATCTTGGA
* *
1660393 GAAG-AGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGAAGAAGAAAGATATGTTCCA
1 GAAGCAGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGAAGAA-AAAGATCTGTTCCG
1660457 CTTACTCTGAAGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATC
65 CTTACTCTG-AGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATC
* *
1660505 GAAGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAGAAAAGAGACCTGTTCCG
1 GAAGCAGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGAAGAAAA-AGATCTGTTCCG
*
1660570 CTTACTCCGAGGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATC
65 CTTACTCTGA-GGGAATATCAGATCTGGGGGAGTTGATCCATTGAATC
* * * *
1660618 GAAGCAGATTTGTTCCGCTGTCACTC---AGGGAATATCAAATCTTGAAAGAGAATGATCTCTTC
1 GAAGCAGACTTGTTCCGCT-T-ACTCTGAAGGGAATATCAAATCTTG-AAGAAAAAGATCTGTTC
*
1660680 CGCTTCCTCTGAGGGAATATCAGATCTGG
63 CGCTTACTCTGAGGGAATATCAGATCTGG
1660709 ATTTGCTTCA
Statistics
Matches: 185, Mismatches: 13, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
111 17 0.09
112 42 0.23
113 121 0.65
114 1 0.01
115 4 0.02
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (111 bp):
GAAGCAGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGAAGAAAAAGATCTGTTCCGC
TTACTCTGAGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATC
Found at i:1661100 original size:43 final size:43
Alignment explanation
Indices: 1661053--1661155 Score: 143
Period size: 43 Copynumber: 2.4 Consensus size: 43
1661043 TTCATCGTGA
** *
1661053 AGTTGAAATCGTGGATGTGTGGGCACGATATCCTCCGTCATGG
1 AGTTGAAATCGTGGATGCATGGGCACGATATCCTCCATCATGG
* * * *
1661096 AGTTGAAATCGTGGATCCATTGGTACGATATCCTCCATCGTGG
1 AGTTGAAATCGTGGATGCATGGGCACGATATCCTCCATCATGG
1661139 AGTTGAAATCGTGGATG
1 AGTTGAAATCGTGGATG
1661156 GCACCTTCGT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.29
Consensus pattern (43 bp):
AGTTGAAATCGTGGATGCATGGGCACGATATCCTCCATCATGG
Found at i:1661427 original size:43 final size:43
Alignment explanation
Indices: 1661369--1661490 Score: 163
Period size: 43 Copynumber: 2.8 Consensus size: 43
1661359 GCTTGTGTGT
* * * * **
1661369 ACGATTTCCTTCGTCGTGAAGTTGAAACCGTGGATGTGTGGGC
1 ACGATATCCTCCGTCGTGGAGTTGAAATCGTGGATGCATGGGC
* * *
1661412 ACGATATCCTCCGTCGTGGAGTTGAAATCGTGGATCCATTGGT
1 ACGATATCCTCCGTCGTGGAGTTGAAATCGTGGATGCATGGGC
1661455 ACGATATCCTCCGTCGTGGAGTTGAAATCGTGGATG
1 ACGATATCCTCCGTCGTGGAGTTGAAATCGTGGATG
1661491 GCGCCTTCGT
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 69 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (43 bp):
ACGATATCCTCCGTCGTGGAGTTGAAATCGTGGATGCATGGGC
Found at i:1661458 original size:335 final size:335
Alignment explanation
Indices: 1660848--1661609 Score: 1326
Period size: 335 Copynumber: 2.3 Consensus size: 335
1660838 TGAAGGCTTA
* * * *
1660848 ACTTGAATATTCTTCGTCGCGAAGTTGAAATCCAAGCTTGTGTTGTTTCGAGTCCAATATCCTTC
1 ACTTGAATATCCTTCGTCGTGAAGTTGAAATCCAAGCTTGTGCTATTTCGAGTCCAATATCCTTC
* *
1660913 ATCGTGAAGTTGAAATTGGCTCTAAAACTAGAAATTTTATTGACAGACACTCATTCTTTGAGTTG
66 GTCGTGAAGTTGAAATTGGCTCTAAAACTAGAAAGTTTATTGACAGACACTCATTCTTTGAGTTG
* * *
1660978 GATATCCTTCGTCGTGAAATTGAAATCCAATCTAGAGATGGATGTTGCTTTTGTGTACGATTCCC
131 GATATCCTTCGTCGTGAAATTGAAATCCAATCTAGAGATGAATGCTGCTTGTGTGTACGATTCCC
*
1661043 TTCATCGTGAAGTTGAAATCGTGGATGTGTGGGCACGATATCCTCCGTCATGGAGTTGAAATCGT
196 TTCATCGTGAAGTTGAAACCGTGGATGTGTGGGCACGATATCCTCCGTCATGGAGTTGAAATCGT
1661108 GGATCCATTGGTACGATATCCTCCATCGTGGAGTTGAAATCGTGGATGGCACCTTCGTCGTGAAG
261 GGATCCATTGGTACGATATCCTCCATCGTGGAGTTGAAATCGTGGATGGCACCTTCGTCGTGAAG
1661173 TTGAGCCTTG
326 TTGAGCCTTG
1661183 ACTTGAATATCCTTCGTCGTGAAGTTGAAATCCAAGCTTGTGCTATTTCGAGTCCAATATCCTTC
1 ACTTGAATATCCTTCGTCGTGAAGTTGAAATCCAAGCTTGTGCTATTTCGAGTCCAATATCCTTC
* * * * *
1661248 GCCGTGAAGTTAAAATTGGCTCTGAAACTGGAAAGTTTATTGACAGACACTCCTTCTTTGAGTTG
66 GTCGTGAAGTTGAAATTGGCTCTAAAACTAGAAAGTTTATTGACAGACACTCATTCTTTGAGTTG
* *
1661313 GATATCCTTCGTCGTGAAGTTGAAATCCAATCTAGAGATGAATGCTGCTTGTGTGTACGATTTCC
131 GATATCCTTCGTCGTGAAATTGAAATCCAATCTAGAGATGAATGCTGCTTGTGTGTACGATTCCC
* *
1661378 TTCGTCGTGAAGTTGAAACCGTGGATGTGTGGGCACGATATCCTCCGTCGTGGAGTTGAAATCGT
196 TTCATCGTGAAGTTGAAACCGTGGATGTGTGGGCACGATATCCTCCGTCATGGAGTTGAAATCGT
* *
1661443 GGATCCATTGGTACGATATCCTCCGTCGTGGAGTTGAAATCGTGGATGGCGCCTTCGTCGTGAAG
261 GGATCCATTGGTACGATATCCTCCATCGTGGAGTTGAAATCGTGGATGGCACCTTCGTCGTGAAG
1661508 TTGAGCCTTG
326 TTGAGCCTTG
*
1661518 ACTTGAATATCCTTCGTCGTGAAGTTGAAATCCAAGCTTGTGCTATTTTGAGTCCAATATCCTTC
1 ACTTGAATATCCTTCGTCGTGAAGTTGAAATCCAAGCTTGTGCTATTTCGAGTCCAATATCCTTC
1661583 GTCGTGAAGTTGAAATTGGCTCTAAAA
66 GTCGTGAAGTTGAAATTGGCTCTAAAA
1661610 GCTGCAAAAA
Statistics
Matches: 402, Mismatches: 25, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
335 402 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (335 bp):
ACTTGAATATCCTTCGTCGTGAAGTTGAAATCCAAGCTTGTGCTATTTCGAGTCCAATATCCTTC
GTCGTGAAGTTGAAATTGGCTCTAAAACTAGAAAGTTTATTGACAGACACTCATTCTTTGAGTTG
GATATCCTTCGTCGTGAAATTGAAATCCAATCTAGAGATGAATGCTGCTTGTGTGTACGATTCCC
TTCATCGTGAAGTTGAAACCGTGGATGTGTGGGCACGATATCCTCCGTCATGGAGTTGAAATCGT
GGATCCATTGGTACGATATCCTCCATCGTGGAGTTGAAATCGTGGATGGCACCTTCGTCGTGAAG
TTGAGCCTTG
Found at i:1661839 original size:32 final size:32
Alignment explanation
Indices: 1661765--1661826 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
1661755 TTGCATCAGG
* *
1661765 ATGTTGAATCCCCAAATATGCCCCAATATTCA
1 ATGTTGAATCTCCAAATATGCCCCAACATTCA
1661797 ATGTTGAATCTCCAAATATGCCCCAACATT
1 ATGTTGAATCTCCAAATATGCCCCAACATT
1661827 TGTTGTTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.34, C:0.27, G:0.10, T:0.29
Consensus pattern (32 bp):
ATGTTGAATCTCCAAATATGCCCCAACATTCA
Found at i:1662896 original size:14 final size:13
Alignment explanation
Indices: 1662873--1662902 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
1662863 TTATCGTCCC
1662873 TTTTTTTTTCTTT
1 TTTTTTTTTCTTT
1662886 TTTTTTGTTTCTTT
1 TTTTTT-TTTCTTT
1662900 TTT
1 TTT
1662903 GTTCTGATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.00, C:0.07, G:0.03, T:0.90
Consensus pattern (13 bp):
TTTTTTTTTCTTT
Found at i:1663575 original size:27 final size:27
Alignment explanation
Indices: 1663545--1663600 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
1663535 ATATGTCAAA
*
1663545 AATCTATAATTC-TTGAATAATTAAAAG
1 AATCTATAATTCATTCAAT-ATTAAAAG
* *
1663572 AATCTTTAATTCATTCAATATTCAAAG
1 AATCTATAATTCATTCAATATTAAAAG
1663599 AA
1 AA
1663601 CTAAAGATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.38
Consensus pattern (27 bp):
AATCTATAATTCATTCAATATTAAAAG
Found at i:1666311 original size:55 final size:55
Alignment explanation
Indices: 1666248--1666389 Score: 207
Period size: 55 Copynumber: 2.6 Consensus size: 55
1666238 CAACTTCAAA
* * *
1666248 CTTCATTCATCGGATGTCTTTCTTCATGGATCGATCTTCAATCA-GTTTCAGATTT
1 CTTCATTCATCGGATGTCATTCTTCATGAATCGATCTTCAATCAGGTTT-AAATTT
*
1666303 CTTCATTCATCGGATGTCCA-TCTTCATGAATCGTTCTTCAATCAGGTTTAAATTT
1 CTTCATTCATCGGATGT-CATTCTTCATGAATCGATCTTCAATCAGGTTTAAATTT
*
1666358 CTTCATTCATCGGACGTCATTCTTCATGAATC
1 CTTCATTCATCGGATGTCATTCTTCATGAATC
1666390 ACTTGAATGT
Statistics
Matches: 79, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
54 2 0.03
55 72 0.91
56 5 0.06
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (55 bp):
CTTCATTCATCGGATGTCATTCTTCATGAATCGATCTTCAATCAGGTTTAAATTT
Found at i:1670181 original size:3 final size:3
Alignment explanation
Indices: 1670157--1670214 Score: 80
Period size: 3 Copynumber: 19.0 Consensus size: 3
1670147 CTACAAAAGC
* * *
1670157 AAT ATT AAT ATT AAT AAAT AAT AAT AAT AAT GAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1670203 AAT AAT AAT AAT
1 AAT AAT AAT AAT
1670215 GGGATGAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
3 45 0.94
4 3 0.06
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:1671837 original size:3 final size:3
Alignment explanation
Indices: 1671829--1671859 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
1671819 TCATGGTTCA
1671829 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1671860 AAATTCAAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:1677613 original size:14 final size:14
Alignment explanation
Indices: 1677594--1677621 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1677584 ATGTCCTGAT
1677594 ATGTAAAATTAAAG
1 ATGTAAAATTAAAG
1677608 ATGTAAAATTAAAG
1 ATGTAAAATTAAAG
1677622 TATAAGAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (14 bp):
ATGTAAAATTAAAG
Found at i:1679971 original size:618 final size:617
Alignment explanation
Indices: 1678790--1680745 Score: 3626
Period size: 617 Copynumber: 3.2 Consensus size: 617
1678780 ATTTTACCAA
* * *
1678790 TTTGATGGAAGGTAACATTGAAAAATAGTGGATTCGTTTTCACCTAAATTTAATTTTTCATTGCT
1 TTTGGTGGAAGGTAACACTGAAAAATAGTGGATACGTTTTCACCTAAATTTAATTTTTCATTGCT
1678855 GGTAAGTCTCATTTTGTTTATATAAAGATCTTTTAAAATTCTGGCATACCATGACACTTTTCAGA
66 GGTAAGTCTCATTTTGTTTATATAAAGATCTTTTAAAATTCTGGCATACCATGACACTTTTCAGA
1678920 TTACTTCAAGAAGCAGTATATTTATCTCCACCTTTTGGAAAATGTTTAAATTTTTTTCCTCTACT
131 TTACTTCAAGAAGCAGTATATTTATCTCCACCTTTTGGAAAATGTTTAAATTTTTTTCCTCTACT
* *
1678985 TGCTTATCACATTTTACTAACCTAGACGGTACGAAATGTGACGTGGCATAGGGGGATATTGTAGG
196 TGCTTATCACATTTTACTAACCTAGACGGGACGAAAGGTGACGTGGCATAGGGGGATATTGTAGG
1679050 AGGATTTAGCGTTGATTCTTTCATTTTCCTATAGGGTTGTACATTAACTTCCTCTTTCTCATCCT
261 AGGATTTAGCGTTGATTCTTTCATTTTCCTATAGGGTTGTACATTAACTTCCTCTTTCTCATCCT
1679115 GGGATTTTTCTTTTCATTCTTTTTCTTCCTCCCCTACATCAACCTCTTCTTGATTCCTCTAGGAT
326 GGGATTTTTCTTTTCATTCTTTTTCTTCCTCCCCTACATCAACCTCTTCTTGATTCCTCTAGGAT
*
1679180 CTTGGTTTTTCTTTTTATTTATTGGGCTTTGCGACATGTTCTTTAGGTATTGGCATGATTATGAT
391 CTTGGTTTTTCTTTTTCTTTATTGGGCTTTGCGACATGTTCTTTAGGTATTGGCATGATTATGAT
1679245 GCCACTCTGAAGGTGATGGCACTAACGTTTTCTCGTGGGTTCATGTTGGGTTGAGATGGTAGTTT
456 GCCACTCTGAAGGTGATGGCACTAACGTTTTCTCGTGGGTTCATGTTGGGTTGAGATGGTAGTTT
1679310 TCCCTGTGATTCCATTCATCCTATGGTCTGAGCCAATTGGCTCATTTGGTTTTTGAGCTCTTAAA
521 TCCCTGTGATTCCATTCATCCTATGGTCTGAGCCAATTGGCTCATTTGGTTTTTGAGCTCTTAAA
1679375 AACAAATAGCAAACATACCTTAATCCTTTAATT
586 AACAAATAGCAAACATACCTTAATCCTTTAA-T
1679408 TTTGGTGGAAGGTAACACTGAAAAATAGTGGATACGTTTTCACCTAAATTTAATTTTTCATTGCT
1 TTTGGTGGAAGGTAACACTGAAAAATAGTGGATACGTTTTCACCTAAATTTAATTTTTCATTGCT
*
1679473 GGTAAGTCTCATTTTGTTTATATAAAGATCTTTTAAAATTCTGGCATACCATGGCACTTTTCAGA
66 GGTAAGTCTCATTTTGTTTATATAAAGATCTTTTAAAATTCTGGCATACCATGACACTTTTCAGA
* *
1679538 TTACTTCAAGAAACAATATATTTATCTCCACCTTTTGGAAAATGTTTAAATTTTTTTCCTCTACT
131 TTACTTCAAGAAGCAGTATATTTATCTCCACCTTTTGGAAAATGTTTAAATTTTTTTCCTCTACT
* *
1679603 TGTTTATCACATTTTACTAACCTAGACGGGACGAAAGGTGACGTGGCATAAGGGGATATTGTAGG
196 TGCTTATCACATTTTACTAACCTAGACGGGACGAAAGGTGACGTGGCATAGGGGGATATTGTAGG
* *
1679668 AGGATTTAGCGTTGATTATTTCATTTACCTATAGGGTTGTACATTAACTTCCTCTTTCTCATCCT
261 AGGATTTAGCGTTGATTCTTTCATTTTCCTATAGGGTTGTACATTAACTTCCTCTTTCTCATCCT
1679733 GGGATTTTTCTTTTCATTCTTTTTCTTCCTCCCCTACATCAACCTCTTCTTGATTCCTCTAGGAT
326 GGGATTTTTCTTTTCATTCTTTTTCTTCCTCCCCTACATCAACCTCTTCTTGATTCCTCTAGGAT
1679798 CTTGGTTTTTCTTTTTCTTTATTGGGCTTTGCGACATGTTCTTTAGGTATTGGCATGATTATGAT
391 CTTGGTTTTTCTTTTTCTTTATTGGGCTTTGCGACATGTTCTTTAGGTATTGGCATGATTATGAT
1679863 GCCACTCTGAAGGTGATGGCACTAACGTTTTCTCGTGGGTTCATGTTGGGTTGAGATGGTAGTTT
456 GCCACTCTGAAGGTGATGGCACTAACGTTTTCTCGTGGGTTCATGTTGGGTTGAGATGGTAGTTT
1679928 TCCCTGTGATTCCATTCATCCTATGGTCTGAGCCAATTGGCTCATTTGGTTTTTGAGCTCTTAAA
521 TCCCTGTGATTCCATTCATCCTATGGTCTGAGCCAATTGGCTCATTTGGTTTTTGAGCTCTTAAA
*
1679993 AGA-AAATAGCAAATATACCTTAATCCTTTAAT
586 A-ACAAATAGCAAACATACCTTAATCCTTTAAT
1680025 TTTGGTGGAAGGTAACACTGAAAAATAGTGGATACGTTTTCACCTAAATTTAATTTTTCATTGCT
1 TTTGGTGGAAGGTAACACTGAAAAATAGTGGATACGTTTTCACCTAAATTTAATTTTTCATTGCT
1680090 GGTAAGTCTCATTTTGTTTATATAAAGATCTTTTAAAATTCTGGCATACCATGACACTTTTCAGA
66 GGTAAGTCTCATTTTGTTTATATAAAGATCTTTTAAAATTCTGGCATACCATGACACTTTTCAGA
*
1680155 GTACTTCAAGAAGCAGTATATTTATCTCCACCTTTTGGAAAATGTTTAAATTTTTTTCCTCTACT
131 TTACTTCAAGAAGCAGTATATTTATCTCCACCTTTTGGAAAATGTTTAAATTTTTTTCCTCTACT
* * * *
1680220 TGCTTATCACATTTTACTAACCTACACGGGATGAAAGATGATGTGGCATAGGGGGATATTGTAGG
196 TGCTTATCACATTTTACTAACCTAGACGGGACGAAAGGTGACGTGGCATAGGGGGATATTGTAGG
*
1680285 AGGATTTAGCGTTGATTCTTTCATTTTCCTATAGGGTTGTACATTAACTTCCTCTTTCTCATCTT
261 AGGATTTAGCGTTGATTCTTTCATTTTCCTATAGGGTTGTACATTAACTTCCTCTTTCTCATCCT
*
1680350 GGGATTTTTATTTTCATTCTTTTTCTTCCTCCCCTACATCAACCTCTTCTTGATTCCTCTAGGAT
326 GGGATTTTTCTTTTCATTCTTTTTCTTCCTCCCCTACATCAACCTCTTCTTGATTCCTCTAGGAT
*
1680415 CTTGGTTTTTCTTTTTCTTTATTGGGCTTTGCGACATGTTCTTTAGGTATTGGCGTGATTATGAT
391 CTTGGTTTTTCTTTTTCTTTATTGGGCTTTGCGACATGTTCTTTAGGTATTGGCATGATTATGAT
*
1680480 GCCACGCTGAAGGTGATGGCACTAACGTTTTCTCGTGGGTTCATGTTGGGTTGAGATGGTAGTTT
456 GCCACTCTGAAGGTGATGGCACTAACGTTTTCTCGTGGGTTCATGTTGGGTTGAGATGGTAGTTT
* *
1680545 TCCCTGTGATTCCATTCATCCTATGTTCTGAGCCAATTGGCTCATTTGTTTTTTGAGCTCTTAAA
521 TCCCTGTGATTCCATTCATCCTATGGTCTGAGCCAATTGGCTCATTTGGTTTTTGAGCTCTTAAA
* * *
1680610 AGCGAACAGCAAACATACCTTAATCCTTTAAT
586 AACAAATAGCAAACATACCTTAATCCTTTAAT
*
1680642 TTTGGTGGAAGGTAACATTGAAAAATAGTGGATACGTTTTCACCTAAATTTAATTTTTCATTGCT
1 TTTGGTGGAAGGTAACACTGAAAAATAGTGGATACGTTTTCACCTAAATTTAATTTTTCATTGCT
1680707 GGTAAGTCTCATTTTGTTTATATAAAGATCTTTTAAAAT
66 GGTAAGTCTCATTTTGTTTATATAAAGATCTTTTAAAAT
1680746 GAAGATTAAG
Statistics
Matches: 1299, Mismatches: 37, Indels: 5
0.97 0.03 0.00
Matches are distributed among these distances:
617 698 0.54
618 600 0.46
619 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (617 bp):
TTTGGTGGAAGGTAACACTGAAAAATAGTGGATACGTTTTCACCTAAATTTAATTTTTCATTGCT
GGTAAGTCTCATTTTGTTTATATAAAGATCTTTTAAAATTCTGGCATACCATGACACTTTTCAGA
TTACTTCAAGAAGCAGTATATTTATCTCCACCTTTTGGAAAATGTTTAAATTTTTTTCCTCTACT
TGCTTATCACATTTTACTAACCTAGACGGGACGAAAGGTGACGTGGCATAGGGGGATATTGTAGG
AGGATTTAGCGTTGATTCTTTCATTTTCCTATAGGGTTGTACATTAACTTCCTCTTTCTCATCCT
GGGATTTTTCTTTTCATTCTTTTTCTTCCTCCCCTACATCAACCTCTTCTTGATTCCTCTAGGAT
CTTGGTTTTTCTTTTTCTTTATTGGGCTTTGCGACATGTTCTTTAGGTATTGGCATGATTATGAT
GCCACTCTGAAGGTGATGGCACTAACGTTTTCTCGTGGGTTCATGTTGGGTTGAGATGGTAGTTT
TCCCTGTGATTCCATTCATCCTATGGTCTGAGCCAATTGGCTCATTTGGTTTTTGAGCTCTTAAA
AACAAATAGCAAACATACCTTAATCCTTTAAT
Found at i:1685232 original size:28 final size:28
Alignment explanation
Indices: 1685141--1685331 Score: 109
Period size: 28 Copynumber: 6.8 Consensus size: 28
1685131 ATAAAAGTAT
* *
1685141 AAATATTTATATAAATTACAATAAA-AGTC
1 AAAT-TTTTTATAAATTACAATAAATA-CC
* * * * *
1685170 -TATTTTTTA-AATATCACAATCAAGACT
1 AAATTTTTTATAA-ATTACAATAAATACC
* *
1685197 AAACTTTTTATAAATTATAATAAATACC
1 AAATTTTTTATAAATTACAATAAATACC
* * * *
1685225 AATTTTTTTGTAAATTATAATAAATATC
1 AAATTTTTTATAAATTACAATAAATACC
* ** *
1685253 AAACTTAATGTAAATTACAATAAATACC
1 AAATTTTTTATAAATTACAATAAATACC
* * *
1685281 AAAATTTTCTAAAAATTACAATAAACACC
1 -AAATTTTTTATAAATTACAATAAATACC
* **
1685310 AAAACTTTTTATTTATTACAAT
1 -AAATTTTTTATAAATTACAAT
1685332 CAAAGGAAAA
Statistics
Matches: 123, Mismatches: 34, Indels: 10
0.74 0.20 0.06
Matches are distributed among these distances:
26 2 0.02
27 14 0.11
28 66 0.54
29 41 0.33
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.38
Consensus pattern (28 bp):
AAATTTTTTATAAATTACAATAAATACC
Found at i:1687399 original size:3 final size:3
Alignment explanation
Indices: 1687391--1687440 Score: 75
Period size: 3 Copynumber: 16.7 Consensus size: 3
1687381 TTTTGATGGA
*
1687391 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT AGTT ATT AGT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT
1687436 ATT AT
1 ATT AT
1687441 CATCATCTCA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 2 0.05
3 38 0.88
4 3 0.07
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:1687518 original size:19 final size:19
Alignment explanation
Indices: 1687490--1687543 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
1687480 AAGGTTTCTA
*
1687490 AAAATTTTAAAATTAAT-TT
1 AAAATATTAAAA-TAATATT
1687509 AAAATATT-AAATAATATT
1 AAAATATTAAAATAATATT
1687527 AAAATTATTAAATATAA
1 AAAA-TATTAAA-ATAA
1687544 AAATATGACA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
17 4 0.13
18 9 0.30
19 11 0.37
20 2 0.07
21 4 0.13
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAATATTAAAATAATATT
Found at i:1687859 original size:16 final size:17
Alignment explanation
Indices: 1687830--1687864 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
1687820 TTTAATAAAG
*
1687830 TTTTAATATTTTTATAT
1 TTTTAATATATTTATAT
1687847 TTTTAATA-ATTTATAT
1 TTTTAATATATTTATAT
1687863 TT
1 TT
1687865 AAAAAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTAATATATTTATAT
Found at i:1688046 original size:26 final size:25
Alignment explanation
Indices: 1688000--1688055 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
1687990 TTTAGAGTTT
*
1688000 TTTTAGATTTTTTAATAATTTTTAAA
1 TTTTAGATTTTCTAATAA-TTTTAAA
* *
1688026 TTTTATATTTTCTACAT-ATTTTAAT
1 TTTTAGATTTTCTA-ATAATTTTAAA
1688051 TTTTA
1 TTTTA
1688056 AATAATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 11 0.42
26 13 0.50
27 2 0.08
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (25 bp):
TTTTAGATTTTCTAATAATTTTAAA
Found at i:1688078 original size:20 final size:21
Alignment explanation
Indices: 1688041--1688095 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
1688031 TATTTTCTAC
1688041 ATATTTTAAT-TTTT-AAATA
1 ATATTTTAATATTTTAAAATA
1688060 ATA-TTTAATATTTTAAAATA
1 ATATTTTAATATTTTAAAATA
*
1688080 ATATTTTAAGATTTTA
1 ATATTTTAATATTTTA
1688096 TAATTTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 6 0.19
19 7 0.22
20 8 0.25
21 11 0.34
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
ATATTTTAATATTTTAAAATA
Found at i:1688093 original size:21 final size:20
Alignment explanation
Indices: 1688041--1688095 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
1688031 TATTTTCTAC
*
1688041 ATATTTT-AATTTTTAAATA
1 ATATTTTAAATTTTAAAATA
1688060 ATA-TTTAATATTTTAAAATA
1 ATATTTTAA-ATTTTAAAATA
1688080 ATATTTTAAGATTTTA
1 ATATTTTAA-ATTTTA
1688096 TAATTTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 3 0.10
19 4 0.13
20 13 0.42
21 11 0.35
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
ATATTTTAAATTTTAAAATA
Found at i:1688303 original size:21 final size:21
Alignment explanation
Indices: 1688258--1688303 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
1688248 TTAGTTTTTT
* *
1688258 AATATTTATTATAATTTTAAT
1 AATATTTAGTATAATTTTAAA
**
1688279 AATATTTAGTATTTTTTTAAA
1 AATATTTAGTATAATTTTAAA
1688300 AATA
1 AATA
1688304 AATTTTAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
AATATTTAGTATAATTTTAAA
Found at i:1688658 original size:19 final size:19
Alignment explanation
Indices: 1688612--1688659 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
1688602 TGACCCTTCA
*
1688612 AATATATATATAAATAAAT
1 AATATTTATATAAATAAAT
* *
1688631 AAT-TCTTATATATATATAT
1 AATAT-TTATATAAATAAAT
1688650 AATATTTATA
1 AATATTTATA
1688660 GAGAACATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 1 0.04
19 22 0.92
20 1 0.04
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
AATATTTATATAAATAAAT
Found at i:1690178 original size:21 final size:21
Alignment explanation
Indices: 1690145--1690184 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1690135 GTAGTATCAG
** *
1690145 TACTGCTTGAGGTAGTACCGA
1 TACTGCTCAAGGTACTACCGA
1690166 TACTGCTCAAGGTACTACC
1 TACTGCTCAAGGTACTACC
1690185 AATGCTCCTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.28
Consensus pattern (21 bp):
TACTGCTCAAGGTACTACCGA
Found at i:1691203 original size:25 final size:25
Alignment explanation
Indices: 1691173--1691221 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
1691163 TTCAGTTGTA
1691173 AATTTTATAATTAAATTAAAATTTC
1 AATTTTATAATTAAATTAAAATTTC
*
1691198 AATTTTATATTTAAATTAAAATTT
1 AATTTTATAATTAAATTAAAATTT
1691222 TAGAATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (25 bp):
AATTTTATAATTAAATTAAAATTTC
Found at i:1691452 original size:26 final size:26
Alignment explanation
Indices: 1691423--1691474 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
1691413 CTCGATAATA
*
1691423 CTCGACTCAAATGGACTCGACTCGAG
1 CTCGACTCAAATGGACTCAACTCGAG
*
1691449 CTCGACTCGAATGGACTCAACTCGAG
1 CTCGACTCAAATGGACTCAACTCGAG
1691475 TTCTTAATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.19
Consensus pattern (26 bp):
CTCGACTCAAATGGACTCAACTCGAG
Found at i:1698033 original size:21 final size:20
Alignment explanation
Indices: 1697981--1698050 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
1697971 TCATTTCATG
* *
1697981 AAAAGATTAAGTGTTTTATC
1 AAAAGGTTAAGTCTTTTATC
* **
1698001 AAAATGAGAAGTCTTTTAATC
1 AAAAGGTTAAGTCTTTT-ATC
*
1698022 AAAAGGTTAAGTCATTTCATC
1 AAAAGGTTAAGTC-TTTTATC
1698043 GAAAAGGT
1 -AAAAGGT
1698051 CTTAACCTTT
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
20 12 0.32
21 16 0.42
22 10 0.26
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (20 bp):
AAAAGGTTAAGTCTTTTATC
Found at i:1698463 original size:3 final size:3
Alignment explanation
Indices: 1698457--1698490 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
1698447 TAATAATTTT
1698457 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1698491 CTCGGATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1699245 original size:23 final size:23
Alignment explanation
Indices: 1699198--1699245 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
1699188 AATAACATAT
**
1699198 TAGGTAGTGCTTATATAATGTAA
1 TAGGTAGTGCTTATATAATAAAA
1699221 TAGGTAGAT-CTTATATAATAAAA
1 TAGGTAG-TGCTTATATAATAAAA
1699244 TA
1 TA
1699246 TGCATTTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 21 0.95
24 1 0.05
ACGTcount: A:0.42, C:0.04, G:0.17, T:0.38
Consensus pattern (23 bp):
TAGGTAGTGCTTATATAATAAAA
Found at i:1699644 original size:198 final size:196
Alignment explanation
Indices: 1699325--1699966 Score: 787
Period size: 198 Copynumber: 3.2 Consensus size: 196
1699315 AGTAAACCAT
* * *
1699325 TATATTTATACCGGTAACATT-AAAATTTACCTATTACATTATAATTATCGATTTCGATGTTTTC
1 TATATTTATA-CGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT-
* * * * *
1699389 T-GGATTGATACAATTT--GAAATGTATCGACACTTTATACGTGCACCTCGTTGGGCATTCATTC
64 TGGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGCGTGCACC-CGTTTGGCATTCATTC
1699451 TGGAAAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTAT-TTAGACCTATTTTCTCATA
127 TGGAAAAAAGTATCGACACAAA-TTAAAAAGTGTCGATACATTATGTT-GACCTATTTTCTCATA
*
1699515 AAACCGA
190 AAACCGG
* * * * *
1699522 TATATTTTTATCGGGTACATTGTAAATTTACCTATCATATTGTAATTATCGGTTTCGATGTTTTT
1 TATATTTATA-CGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
* *
1699587 GGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCCATTTGGCATTCATTATGG
65 GGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCCGTTTGGCATTCATTCTGG
* ** * * *
1699652 AAAAATGTATCGACACAAATTTAACGAGTGTCGATACTTTATGCTGAACTATTTTCTCATAAAAC
130 AAAAAAGTATCGACACAAA-TTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTCATAAAAC
*
1699717 TGG
194 CGG
*
1699720 TATATTTATACTGGTTACATTGTAAATTTACATATTACATTATAATTATCGGTTTCGAT-TTTAT
1 TATATTTATAC-GGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT-T
**
1699784 TGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACATTGTTTGGGCATTCATTC
64 TGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCAC-CCGTTT-GGCATTCATTC
* * * *
1699849 TGGATAATAAGTATCGACACAAATTGCATAAA-TGTCGATACATTATGTTGACCTGTTTTCTAAT
127 TGGA-AAAAAGTATCGACACAAATT--AAAAAGTGTCGATACATTATGTTGACCTATTTTCTCAT
*
1699913 -TAACCGG
189 AAAACCGG
* *
1699920 TATATTTATACCGGTTACATTGTTAATTTACTTATTACATTATAATT
1 TATATTTATA-CGGTTACATTGTAAATTTACCTATTACATTATAATT
1699967 CGATGTTTTT
Statistics
Matches: 383, Mismatches: 49, Indels: 23
0.84 0.11 0.05
Matches are distributed among these distances:
197 25 0.07
198 217 0.57
199 31 0.08
200 64 0.17
201 44 0.11
202 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (196 bp):
TATATTTATACGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
GGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCCGTTTGGCATTCATTCTGGA
AAAAAGTATCGACACAAATTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTCATAAAACCG
G
Found at i:1702676 original size:199 final size:199
Alignment explanation
Indices: 1702350--1703485 Score: 1406
Period size: 200 Copynumber: 5.7 Consensus size: 199
1702340 TTAATAATTA
* * * ** * **
1702350 TCGATACTTTATG-ATGACCTATTTTCTCATAAAATTGATATATTTATATCGGTTACATTGGAAA
1 TCGATACATTATGTA-GACCTATTCTCACATAAAACCGATATATTTATACCGGTTACATTACAAA
* * * * *
1702414 TTTGCCTATTACATTATAATTATCGGTTTCAATGTTTTTGGGATCGACACTTTTTAAAAATGTAT
65 ATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATCGACACTTTTTAAAAATGTAT
* * * *
1702479 CGACACTTAATGGGTGCACTCTTTT-GGCATTCCTTCTGGATAAAAAGTATCGACACAAATTCCA
130 CGACACTTTATGCGTGCAC-CTTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAATTCCA
*
1702543 GAAGTG
194 AAAGTG
* * * * * *
1702549 TCGATACATTTTCTAAACATATTCTCGCATAAAACTGATATATTTATACCGGTTACATTGA-AAA
1 TCGATACATTATGTAGACCTATTCTCACATAAAACCGATATATTTATACCGGTTACATT-ACAAA
* * * * *
1702613 ATTACCTATTACATTATAATCATGGGTTTCGATGTTTCTGGGATTGATACGTTTTATAAATGTAT
65 ATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATCGACACTTTTTAAAAATGTAT
*
1702678 CGACACTTTATGCGTGCACCATTTTTTTTGGGCATTCATTCTGGACAAAATGTATCGACACATAA
130 CGACACTTTATGCGTGCACC-----TTTTGGGCATTCATTCTGGACAAAAAGTATCGACACA-AA
*
1702743 TT-AAAAAGTG
189 TTCCAAAAGTG
*
1702753 TCGATACATTATGTAGACCTATTCTCATATAAAACCGATATATTTATACCGGTTACATTACAAAA
1 TCGATACATTATGTAGACCTATTCTCACATAAAACCGATATATTTATACCGGTTACATTACAAAA
* * *
1702818 TTACCTATTACATTATAATTATAGG-TTCGATGTCTCTGGGATCGACACGTTTTAAAAATGTATC
66 TTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATCGACACTTTTTAAAAATGTATC
* * * *
1702882 GACACTTTATGCGTTCACCATTTTGGGCATTCATTCTGGACAAAAAGTATCAACACCAATTTCAA
131 GACACTTTATGCGTGCACC-TTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAATTCCAA
*
1702947 ATGTG
195 AAGTG
* * *
1702952 T-GATACATTATGTAGACATATTCTCACATAAAACCGGTATATTTATACCGATTACATTACAAAA
1 TCGATACATTATGTAGACCTATTCTCACATAAAACCGATATATTTATACCGGTTACATTACAAAA
* *
1703016 TTACCTATTACATTATAATTATGGGTTTCGATGTCTCTGGGATCGACACTTTTAAAAAATGTATC
66 TTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATCGACACTTTTTAAAAATGTATC
* ** * *
1703081 GACACTTTATGTGTATACCCTTTTGGGAATTCCTTCTGGACAAACAA-TATCGACACAAATTCCA
131 GACACTTTATGCGTGCA-CCTTTTGGGCATTCATTCTGGACAAA-AAGTATCGACACAAATTCCA
*
1703145 TAAGTG
194 AAAGTG
* * * ** * ** *
1703151 TCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTATAGTTATTTCGATTACATTTTAAAT
1 TCGATACATTATGTAGACCTATTCTCACATAAAACCGATATATTTATACCGGTTACATTACAAAA
* * *
1703216 TTACCTATTACATTATAATTATGGGTTTCGATGTTTCCGGGATCGATACTTTTTATAAATGTATC
66 TTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATCGACACTTTTTAAAAATGTATC
* * * **
1703281 GACACTTTATGCGTTCACCATTTTGGACATTCATTCTGGACAAAAAGTATCGACACCAATTTGAA
131 GACACTTTATGCGTGCACC-TTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAATTCCAA
1703346 AAGTG
195 AAGTG
* * * *
1703351 TCGATACATTATGTAGACCTATTCTCACATAAAGCCGGTATATTTATACCTGTTATATTACAAAA
1 TCGATACATTATGTAGACCTATTCTCACATAAAACCGATATATTTATACCGGTTACATTACAAAA
* * * *
1703416 TTACCTATTACATTATAATTATGGGTTTCGATAATTT-TAGGATCGATACTTTTTATAAATGTAT
66 TTACCTATTACATTATAATTATGGGTTTCGAT-GTTTCTGGGATCGACACTTTTTAAAAATGTAT
1703480 CGACAC
130 CGACAC
1703486 ATCTGCTTAC
Statistics
Matches: 818, Mismatches: 101, Indels: 35
0.86 0.11 0.04
Matches are distributed among these distances:
198 88 0.11
199 260 0.32
200 291 0.36
201 3 0.00
203 58 0.07
204 114 0.14
205 4 0.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (199 bp):
TCGATACATTATGTAGACCTATTCTCACATAAAACCGATATATTTATACCGGTTACATTACAAAA
TTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATCGACACTTTTTAAAAATGTATC
GACACTTTATGCGTGCACCTTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAATTCCAAA
AGTG
Found at i:1703018 original size:402 final size:397
Alignment explanation
Indices: 1702330--1703485 Score: 1495
Period size: 402 Copynumber: 2.9 Consensus size: 397
1702320 TAAAATGGTA
* * * * * * **
1702330 CGACACAAATTTAATAATTATCGATACTTTATG-ATGACCTATTTTCTCATAAAATTGATATATT
1 CGACACAAATTCAAAAAGTGTCGATACATTATGTA-GACCTATTCTCTCATAAAACCGATATATT
** * * * *
1702394 TATATCGGTTACATTGGAAATTTGCCTATTACATTATAATTATCGGTTTCAATGTTTTTGGGATC
65 TATATCGGTTACATTACAAATTTACCTATTACATTATAATTATAGGTTTCGATGTTTCTGGGATC
* * * * *
1702459 GACACTTTTTAAAAATGTATCGACACTTAATGGGTGCACTC-TTTT-GGCATTCCTTCTGGATAA
130 GACACTTTTTAAAAATGTATCGACACTTTATGCGTTCAC-CATTTTGGGCATTCATTCTGGACAA
* * * * * * * *
1702522 AAAGTATCGACACAAATTCCAGAAGTGTCGATACATTTTCTAAACATATTCTCGCATAAAACTGA
194 AAAGTATCGACACCAATTTCA-AAGTGTCGATACATTATGTAGACATATTCTCACATAAAACCGG
*
1702587 TATATTTATACCGGTTACATTGA-AAAATTACCTATTACATTATAATCATGGGTTTCGATGTTTC
258 TATATTTATACC-GTTACATT-ACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTC
* * * *
1702651 TGGGATTGATACGTTTTATAAATGTATCGACACTTTATGCGTGCACCATTTTTTTTGGGCATTCA
321 TGGGATCGATAC-TTTTATAAATGTATCGACACTTTATGCGTACACC----CTTTTGGGAATTCA
*
1702716 TTCTGGACAAA-ATGTAT
381 TTCTGGACAAACA-ATAT
1702733 CGACACATAATT-AAAAAGTGTCGATACATTATGTAGACCTATTCTCAT-ATAAAACCGATATAT
1 CGACACA-AATTCAAAAAGTGTCGATACATTATGTAGACCTATTCTC-TCATAAAACCGATATAT
* * *
1702796 TTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATAGG-TTCGATGTCTCTGGGAT
64 TTATATCGGTTACATTACAAATTTACCTATTACATTATAATTATAGGTTTCGATGTTTCTGGGAT
*
1702860 CGACACGTTTTAAAAATGTATCGACACTTTATGCGTTCACCATTTTGGGCATTCATTCTGGACAA
129 CGACACTTTTTAAAAATGTATCGACACTTTATGCGTTCACCATTTTGGGCATTCATTCTGGACAA
*
1702925 AAAGTATCAACACCAATTTCAAATGTGT-GATACATTATGTAGACATATTCTCACATAAAACCGG
194 AAAGTATCGACACCAATTTCAAA-GTGTCGATACATTATGTAGACATATTCTCACATAAAACCGG
*
1702989 TATATTTATACCGATTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTCTCT
258 TATATTTATACCG-TTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCT
* * * * *
1703054 GGGATCGACACTTTTAAAAAATGTATCGACACTTTATGTGTATACCCTTTTGGGAATTCCTTCTG
322 GGGATCGATACTTTT-ATAAATGTATCGACACTTTATGCGTACACCCTTTTGGGAATTCATTCTG
1703119 GACAAACAATAT
386 GACAAACAATAT
* * * *
1703131 CGACACAAATTCCATAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTATAGTT
1 CGACACAAATTCAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGATATATTT
* * ** * *
1703196 ATTTCGATTACATTTTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTCCGGGATCG
66 ATATCGGTTACATTACAAATTTACCTATTACATTATAATTATAGGTTTCGATGTTTCTGGGATCG
* * *
1703261 ATACTTTTTATAAATGTATCGACACTTTATGCGTTCACCATTTTGGACATTCATTCTGGACAAAA
131 ACACTTTTTAAAAATGTATCGACACTTTATGCGTTCACCATTTTGGGCATTCATTCTGGACAAAA
* * *
1703326 AGTATCGACACCAATTTGAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAGCCGGTA
196 AGTATCGACACCAATTT-CAAAGTGTCGATACATTATGTAGACATATTCTCACATAAAACCGGTA
* * *
1703391 TATTTATACCTGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATAATTT-TA
260 TATTTATACC-GTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCGAT-GTTTCTG
1703455 GGATCGATACTTTTTATAAATGTATCGACAC
323 GGATCGATAC-TTTTATAAATGTATCGACAC
1703486 ATCTGCTTAC
Statistics
Matches: 665, Mismatches: 70, Indels: 39
0.86 0.09 0.05
Matches are distributed among these distances:
397 5 0.01
398 117 0.18
399 99 0.15
400 118 0.18
401 14 0.02
402 180 0.27
403 126 0.19
404 6 0.01
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (397 bp):
CGACACAAATTCAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGATATATTT
ATATCGGTTACATTACAAATTTACCTATTACATTATAATTATAGGTTTCGATGTTTCTGGGATCG
ACACTTTTTAAAAATGTATCGACACTTTATGCGTTCACCATTTTGGGCATTCATTCTGGACAAAA
AGTATCGACACCAATTTCAAAGTGTCGATACATTATGTAGACATATTCTCACATAAAACCGGTAT
ATTTATACCGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGA
TCGATACTTTTATAAATGTATCGACACTTTATGCGTACACCCTTTTGGGAATTCATTCTGGACAA
ACAATAT
Found at i:1703863 original size:19 final size:19
Alignment explanation
Indices: 1703839--1703887 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
1703829 TTACATTCAC
1703839 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
1703858 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
1703877 ATACAAAATTA
1 ATACAAAATTA
1703888 GCCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:1705462 original size:18 final size:18
Alignment explanation
Indices: 1705439--1705477 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
1705429 TCCTCCTCAT
1705439 TTCCTCCATATTTTCTTC
1 TTCCTCCATATTTTCTTC
*
1705457 TTCCTCCATCTTTTCTTC
1 TTCCTCCATATTTTCTTC
1705475 TTC
1 TTC
1705478 ATGTTTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.08, C:0.36, G:0.00, T:0.56
Consensus pattern (18 bp):
TTCCTCCATATTTTCTTC
Found at i:1705758 original size:21 final size:21
Alignment explanation
Indices: 1705733--1705776 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1705723 CCCCTTATAC
*
1705733 CTCTCAAGTGTCACTTCGACT
1 CTCTCAAGTGTCACTTAGACT
* *
1705754 CTCTCAAGTTTCGCTTAGACT
1 CTCTCAAGTGTCACTTAGACT
1705775 CT
1 CT
1705777 TGATTGTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.18, C:0.32, G:0.14, T:0.36
Consensus pattern (21 bp):
CTCTCAAGTGTCACTTAGACT
Found at i:1708689 original size:181 final size:182
Alignment explanation
Indices: 1708202--1708994 Score: 1191
Period size: 182 Copynumber: 4.4 Consensus size: 182
1708192 GTAGCGCTTT
* * *
1708202 ACCGGTTTTGTCATATTTTTACTTGTTATATCGTTATTGATCGATACATTTTTATAAAGTATCGA
1 ACCGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGA
* * * * *
1708267 CACTTTATTGGGGCTAAAACTGCTTCTGTTTTAAATTTACAAAGTGTTGATACTTATATTAAAGT
66 CACTTTATAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTATATTAAAGT
* *
1708332 ATCAACACTTTCAATATATCTGGTCGCTCTATACCGGTTTTGTCCTTTAGAG
131 ATCGACACTTTCAATATATCTGGTCGCTCTATACCGATTTTGTCCTTTAGAG
* * *
1708384 ACCGGTTTTGTCATATTTTTACCTGTTATATCATTGTGGATCAATACATTGTTATAAAGTATCGA
1 ACCGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGA
* * * *
1708449 CACTTTATAGGCGCTAAAATTTCTTCTCTTTTAAATTCACAAAGTGTCGATAATTATATTAAAGT
66 CACTTTATAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTATATTAAAGT
*
1708514 ATCGACACTTTCAATATATCTGGTTGCTCTATACCGATTTTGTCCTTTAGAG
131 ATCGACACTTTCAATATATCTGGTCGCTCTATACCGATTTTGTCCTTTAGAG
* *
1708566 ACCAGTTTTGTCATA-TTTTACCTCTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGA
1 ACCGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGA
* * * *
1708630 CATTTTATAGGTGCTAAAACTACTTCTCTTTTAAATTCACAAAGTGTTGATACTTATATTAAAGT
66 CACTTTATAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTATATTAAAGT
* * *
1708695 ATCGACATTTTCAATATATGC-GGTCGCTCTATATCGGTTTTGTCCTTTAGAG
131 ATCGACACTTTCAATATAT-CTGGTCGCTCTATACCGATTTTGTCCTTTAGAG
*
1708747 ACCGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTGTTATAAAGTATCGA
1 ACCGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGA
*
1708812 CACTTTATAGGAACTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTATATTAAAGT
66 CACTTTATAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTATATTAAAGT
* * * *
1708877 ATCGAAACTTTCAATATATTTGGTACCGCT-T-TACCGATTTTGTCTTTTCGAG
131 ATCGACACTTTCAATATATCTGGT--CGCTCTATACCGATTTTGTCCTTTAGAG
* * * *
1708929 ACCGGTTTTGTCATATTTTTACCTATTATAT-GATGTGGATTGATACAGTTTTATAAAGTATCGA
1 ACCGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGA
1708993 CA
66 CA
1708995 TAAACCGACA
Statistics
Matches: 554, Mismatches: 52, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
181 195 0.35
182 354 0.64
183 1 0.00
184 4 0.01
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.42
Consensus pattern (182 bp):
ACCGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGA
CACTTTATAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTATATTAAAGT
ATCGACACTTTCAATATATCTGGTCGCTCTATACCGATTTTGTCCTTTAGAG
Found at i:1708892 original size:363 final size:364
Alignment explanation
Indices: 1708206--1708995 Score: 1253
Period size: 363 Copynumber: 2.2 Consensus size: 364
1708196 CGCTTTACCG
* * * * *
1708206 GTTTTGTCATATTTTTACTTGTTATATCGTTATTGATCGATACATTTTTATAAAGTATCGACACT
1 GTTTTGTCATATTTTTACCTATTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACATT
* * * *
1708271 TTATTGGGGCTAAAACTGCTTCTGTTTTAAATTTACAAAGTGTTGATACTTATATTAAAGTATCA
66 TTATAGGGGCTAAAACTACTTCTCTTTTAAATTCACAAAGTGTTGATACTTATATTAAAGTATCA
1708336 ACACTTTCAATATATCTGGTCGCTCTATACCGGTTTTGTCCTTTAGAGACCGGTTTTGTCATATT
131 ACACTTTCAATATATCTGGTCGCTCTATACCGGTTTTGTCCTTTAGAGACCGGTTTTGTCATATT
**
1708401 TTTACCTGTTATATCATTGTGGATCAATACATTGTTATAAAGTATCGACACTTTATAGGCGCTAA
196 TTTACCTGTTATATCATTGTGGATCAATACATTGTTATAAAGTATCGACACTTTATAGGAACTAA
* * *
1708466 AATTTCTTCTCTTTTAAATTCACAAAGTGTCGATAATTATATTAAAGTATCGACACTTTCAATAT
261 AACTGCTTCTCTTTTAAATTCACAAAGTGTCGATAATTATATTAAAGTATCGAAACTTTCAATAT
** *
1708531 ATCTGGTTGCTCTATACCGATTTTGTCCTTTAGAGACCA
326 ATCTGGTACCGCTATACCGATTTTGTCCTTTAGAGACCA
*
1708570 GTTTTGTCATA-TTTTACCTCTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACATT
1 GTTTTGTCATATTTTTACCTATTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACATT
* *
1708634 TTATAGGTGCTAAAACTACTTCTCTTTTAAATTCACAAAGTGTTGATACTTATATTAAAGTATCG
66 TTATAGGGGCTAAAACTACTTCTCTTTTAAATTCACAAAGTGTTGATACTTATATTAAAGTATCA
* *
1708699 ACATTTTCAATATATGC-GGTCGCTCTATATCGGTTTTGTCCTTTAGAGACCGGTTTTGTCATAT
131 ACACTTTCAATATAT-CTGGTCGCTCTATACCGGTTTTGTCCTTTAGAGACCGGTTTTGTCATAT
* *
1708763 TTTTACCTGTTATATCGTTGTGGATCGATACATTGTTATAAAGTATCGACACTTTATAGGAACTA
195 TTTTACCTGTTATATCATTGTGGATCAATACATTGTTATAAAGTATCGACACTTTATAGGAACTA
*
1708828 AAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTATATTAAAGTATCGAAACTTTCAATA
260 AAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATAATTATATTAAAGTATCGAAACTTTCAATA
* * * * *
1708893 TATTTGGTACCGCTTTACCGATTTTGTCTTTTCGAGACCG
325 TATCTGGTACCGCTATACCGATTTTGTCCTTTAGAGACCA
* * *
1708933 GTTTTGTCATATTTTTACCTATTATAT-GATGTGGATTGATACAGTTTTATAAAGTATCGACAT
1 GTTTTGTCATATTTTTACCTATTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACAT
1708996 AAACCGACAA
Statistics
Matches: 391, Mismatches: 33, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
363 365 0.93
364 26 0.07
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.42
Consensus pattern (364 bp):
GTTTTGTCATATTTTTACCTATTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACATT
TTATAGGGGCTAAAACTACTTCTCTTTTAAATTCACAAAGTGTTGATACTTATATTAAAGTATCA
ACACTTTCAATATATCTGGTCGCTCTATACCGGTTTTGTCCTTTAGAGACCGGTTTTGTCATATT
TTTACCTGTTATATCATTGTGGATCAATACATTGTTATAAAGTATCGACACTTTATAGGAACTAA
AACTGCTTCTCTTTTAAATTCACAAAGTGTCGATAATTATATTAAAGTATCGAAACTTTCAATAT
ATCTGGTACCGCTATACCGATTTTGTCCTTTAGAGACCA
Found at i:1709434 original size:17 final size:17
Alignment explanation
Indices: 1709412--1709449 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
1709402 ATCGGATCGT
*
1709412 GTCGAGTCAATTTTCGG
1 GTCGAGTCAATTTCCGG
1709429 GTCGAGTCAATTTCCGG
1 GTCGAGTCAATTTCCGG
1709446 GTCG
1 GTCG
1709450 GTGATTATTG
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:0.16, C:0.21, G:0.32, T:0.32
Consensus pattern (17 bp):
GTCGAGTCAATTTCCGG
Found at i:1710268 original size:19 final size:17
Alignment explanation
Indices: 1710244--1710284 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 17
1710234 TTTAAATTAA
1710244 TTTATTATTAAAAATAACT
1 TTTATTATT--AAATAACT
*
1710263 TTTATTATTTAATAACT
1 TTTATTATTAAATAACT
1710280 TTTAT
1 TTTAT
1710285 CAATTTGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.57
19 9 0.43
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTATTATTAAATAACT
Found at i:1716917 original size:49 final size:49
Alignment explanation
Indices: 1716845--1717138 Score: 448
Period size: 49 Copynumber: 6.0 Consensus size: 49
1716835 CTATAAAATG
* *
1716845 AATGAAAATTAAATGCATAACGGTGCATTTCGTCATAAAAGGTGCCACT
1 AATGAAAGTTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACT
1716894 AATGAAAAG-TAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACT
1 AATG-AAAGTTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACT
* * *
1716943 AATGAAAGTTAAATGCATAACAGTGCATTTCAGCATAAAAGGTGTCACT
1 AATGAAAGTTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACT
* * *
1716992 AATGAAAGTAAAATGCATAATGGTGTATATT-GGCATAAAAGGTGCCACT
1 AATGAAAGTTAAATGCATAACGGTGCAT-TTCGGCATAAAAGGTGCCACT
*
1717041 AATGAAAGTTAAATGCATAACGGTGTATTTCGGCATAAAAGGTGCCACT
1 AATGAAAGTTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACT
* * *
1717090 AATGAAAGTTAAATGCATAACGGTGCATTTCGACATAAAATGTGTCACT
1 AATGAAAGTTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACT
1717139 CATAGTTTTC
Statistics
Matches: 224, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
48 6 0.03
49 213 0.95
50 5 0.02
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.26
Consensus pattern (49 bp):
AATGAAAGTTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACT
Done.