Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 100 of 135
Found at i:31074222 original size:23 final size:23
Alignment explanation
Indices: 31074177--31074221 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
31074167 ATTTAGAAGC
* *
31074177 AATGGGTTTTGTTTTGAGTTTTA
1 AATGGGTTTTATATTGAGTTTTA
31074200 AATGGGTTTATATATTGAGTTT
1 AATGGGTTT-TATATTGAGTTT
31074222 AGGGTTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.22, C:0.00, G:0.24, T:0.53
Consensus pattern (23 bp):
AATGGGTTTTATATTGAGTTTTA
Found at i:31083084 original size:9 final size:9
Alignment explanation
Indices: 31083072--31083131 Score: 52
Period size: 9 Copynumber: 6.7 Consensus size: 9
31083062 ATGAAAATCA
31083072 ATAAAATTT
1 ATAAAATTT
*
31083081 ATAAAAATT
1 ATAAAATTT
*
31083090 ATTAAATTTT
1 A-TAAAATTT
31083100 AATAAAA-TT
1 -ATAAAATTT
*
31083109 ATAAAATAT
1 ATAAAATTT
31083118 -TAAAATTT
1 ATAAAATTT
*
31083126 AGAAAA
1 ATAAAA
31083132 AAATTATAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
8 13 0.32
9 16 0.40
10 10 0.25
11 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (9 bp):
ATAAAATTT
Found at i:31083095 original size:19 final size:18
Alignment explanation
Indices: 31083072--31083120 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
31083062 ATGAAAATCA
31083072 ATAAAATTT-ATAAAAATT
1 ATAAAATTTAAT-AAAATT
*
31083090 ATTAAATTTTAATAAAATT
1 A-TAAAATTTAATAAAATT
31083109 ATAAAATATTAA
1 ATAAAAT-TTAA
31083121 AATTTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 6 0.23
19 18 0.69
20 2 0.08
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATAAAATTTAATAAAATT
Found at i:31083126 original size:26 final size:26
Alignment explanation
Indices: 31083049--31083143 Score: 84
Period size: 28 Copynumber: 3.5 Consensus size: 26
31083039 ATGTGACAGA
* * * *
31083049 AAAAGTATAAAAAATGAAAA-TCAAT
1 AAAATTATAAAATATTAAAATTTAAT
*
31083074 AAAATTTATAAAAATTATTAAATTTTAAT
1 AAAA-TTAT-AAAA-TATTAAAATTTAAT
*
31083103 AAAATTATAAAATATTAAAATTTAGAAA
1 AAAATTATAAAATATTAAAATTT--AAT
31083131 AAAATTATAAAAT
1 AAAATTATAAAAT
31083144 GCATCAAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
25 4 0.07
26 13 0.23
27 8 0.14
28 24 0.42
29 8 0.14
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (26 bp):
AAAATTATAAAATATTAAAATTTAAT
Found at i:31090994 original size:23 final size:23
Alignment explanation
Indices: 31090921--31091069 Score: 135
Period size: 23 Copynumber: 6.5 Consensus size: 23
31090911 TATACGGAAC
* * *
31090921 AAACAAAGAGTAC-CAAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
*
31090943 -AACAGAGAGCACA-TAAGTGCTT
1 AAACAGAGAGCACACAAAGTGC-T
* *
31090965 GGCAACAGAGAGCACACACAGTGCT
1 --AAACAGAGAGCACACAAAGTGCT
* *
31090990 AAACAGAGAGTACACAAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
*
31091013 AATCAGAGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
31091036 AATCAGAGAGCACGA-AACGTGCT
1 AAACAGAGAGCAC-ACAAAGTGCT
31091059 AAACAGAGAGC
1 AAACAGAGAGC
31091070 GTGCTAGTGT
Statistics
Matches: 105, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
21 15 0.14
22 1 0.01
23 69 0.66
24 1 0.01
25 14 0.13
26 5 0.05
ACGTcount: A:0.45, C:0.21, G:0.22, T:0.12
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:31091043 original size:69 final size:67
Alignment explanation
Indices: 31090921--31091068 Score: 185
Period size: 69 Copynumber: 2.1 Consensus size: 67
31090911 TATACGGAAC
* * *
31090921 AAACAAAGAGTACCAAAGTACTAACAGAGAGCACATAAGTGCTTGGCAACAGAGAGCAC-ACACA
1 AAACAGAGAGTACCAAAGTACTAACAGAGAGCACAAAAGTGCTT-G-AACAGAGAGCACGAAAC-
31090985 GTGCT
63 GTGCT
31090990 AAACAGAGAGTACACAAAGTACTAATCAGAGAGCACACAAAGTGC-T-AATCAGAGAGCACGAAA
1 AAACAGAGAGTAC-CAAAGTACTAA-CAGAGAGCACA-AAAGTGCTTGAA-CAGAGAGCACGAAA
31091053 CGTGCT
62 CGTGCT
31091059 AAACAGAGAG
1 AAACAGAGAG
31091069 CGTGCTAGTG
Statistics
Matches: 71, Mismatches: 3, Indels: 10
0.85 0.04 0.12
Matches are distributed among these distances:
68 2 0.03
69 37 0.52
70 14 0.20
71 12 0.17
72 6 0.08
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.12
Consensus pattern (67 bp):
AAACAGAGAGTACCAAAGTACTAACAGAGAGCACAAAAGTGCTTGAACAGAGAGCACGAAACGTG
CT
Found at i:31098179 original size:23 final size:23
Alignment explanation
Indices: 31098106--31098254 Score: 108
Period size: 23 Copynumber: 6.5 Consensus size: 23
31098096 TATACGGAAC
* *
31098106 AAACAGAGAGTAC-CAAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
* *
31098128 -AATAGAGAGCACA-TAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
31098149 GGGCAACAGAGAGCACACACAGTGCT
1 ---AAACAGAGAGCACACAAAGTGCT
* *
31098175 AAACAGAGAGTACACAAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
* * *
31098198 AATCAAAAAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* * *
31098221 AATCAGAGAGCACGA-GACGTGCT
1 AAACAGAGAGCAC-ACAAAGTGCT
31098244 AAACAGAGAGC
1 AAACAGAGAGC
31098255 GCGCTAGTGT
Statistics
Matches: 99, Mismatches: 21, Indels: 13
0.74 0.16 0.10
Matches are distributed among these distances:
21 16 0.16
23 64 0.65
24 1 0.01
25 12 0.12
26 6 0.06
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.12
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:31098228 original size:69 final size:66
Alignment explanation
Indices: 31098106--31098253 Score: 174
Period size: 69 Copynumber: 2.2 Consensus size: 66
31098096 TATACGGAAC
* * *
31098106 AAACAGAGAGTACCAAAGTACTAATAGAGAGCACATAAGTGCTGGGCAACAGAGAGCAC-ACACA
1 AAACAGAGAGTACCAAAGTACTAATAAAAAGCACAAAAGTGCT--G-AACAGAGAGCACGACAC-
31098170 GTGCT
62 GTGCT
*
31098175 AAACAGAGAGTACACAAAGTACTAATCAAAAAGCACACAAAGTGCT-AATCAGAGAGCACGAGAC
1 AAACAGAGAGTAC-CAAAGTACTAAT-AAAAAGCACA-AAAGTGCTGAA-CAGAGAGCACGACAC
31098239 GTGCT
62 GTGCT
31098244 AAACAGAGAG
1 AAACAGAGAG
31098254 CGCGCTAGTG
Statistics
Matches: 70, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
68 2 0.03
69 38 0.54
70 15 0.21
71 8 0.11
72 7 0.10
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.12
Consensus pattern (66 bp):
AAACAGAGAGTACCAAAGTACTAATAAAAAGCACAAAAGTGCTGAACAGAGAGCACGACACGTGC
T
Found at i:31105082 original size:5 final size:5
Alignment explanation
Indices: 31105072--31105104 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
31105062 TAATTTACCC
31105072 TATAA TATAA TATAA TATAA TATAA TATAA TAT
1 TATAA TATAA TATAA TATAA TATAA TATAA TAT
31105105 TAAATAAGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:31106599 original size:3 final size:3
Alignment explanation
Indices: 31106584--31106623 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
31106574 CATTAATCAA
31106584 AAT AAT AACT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
31106624 TAATCTATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:31110009 original size:159 final size:159
Alignment explanation
Indices: 31109803--31110439 Score: 1162
Period size: 159 Copynumber: 4.1 Consensus size: 159
31109793 CAGAGAGAGC
* *
31109803 ACTTAAATTTGAGTAAGTAGTCACCCAATACACATTAATTTCATTCTTAAAGATTATTAAATAAA
1 ACTTAAATTTGAGTAAGTACTCACCCAATACACATTAATTTCATTCTTAAATATTATTAAATAAA
*
31109868 AAATGTTTGAATTCAATTTGGTTGGTTTAGTTTAATATTAAAATGTTTTAAAAAAATCAACAGAC
66 AAATGTTTGAATTCAATTTGATTGGTTTAGTTTAATATTAAAATGTTTTAAAAAAATCAACAGAC
31109933 TAACCATATATGACCCAACATAGGATCTA
131 TAACCATATATGACCCAACATAGGATCTA
31109962 ACTTAAATTTGAGTAAGTACTCACCCAATACACATTAATTTCATTCTTAAATATTATTAAATAAA
1 ACTTAAATTTGAGTAAGTACTCACCCAATACACATTAATTTCATTCTTAAATATTATTAAATAAA
31110027 AAATGTTTGAATTCAATTTGATTGGTTTAGTTTAATATTAAAATGTTTTAAAAAAATCAACAGAC
66 AAATGTTTGAATTCAATTTGATTGGTTTAGTTTAATATTAAAATGTTTTAAAAAAATCAACAGAC
31110092 TAACCATATATGACCCAACATAGGATCTA
131 TAACCATATATGACCCAACATAGGATCTA
31110121 ACTTAAATTTGAGTAAGTACTCACCCAATACACATTAATTTCATTCTTAAATATTATTAAATAAA
1 ACTTAAATTTGAGTAAGTACTCACCCAATACACATTAATTTCATTCTTAAATATTATTAAATAAA
31110186 AAATGTTTGAATTCAATTTGATTGGTTTAGTTTAATATTAAAATGTTTTAAAAAAATCAACAGAC
66 AAATGTTTGAATTCAATTTGATTGGTTTAGTTTAATATTAAAATGTTTTAAAAAAATCAACAGAC
31110251 TAACCATATATGACCCAACATAGGATCTA
131 TAACCATATATGACCCAACATAGGATCTA
31110280 ACTTAAATTTGAGTAAGTACTCACCCAATACACATTAATTTCATTCTTAAATATTATTAAATAAA
1 ACTTAAATTTGAGTAAGTACTCACCCAATACACATTAATTTCATTCTTAAATATTATTAAATAAA
*
31110345 AAATGTTTGAATTCAATTTGATTGGTTTAGTTTAATATTCAAATGTTTT---AAAA--AA-A-AC
66 AAATGTTTGAATTCAATTTGATTGGTTTAGTTTAATATTAAAATGTTTTAAAAAAATCAACAGAC
* * *
31110403 TAACCATTTATGACCCAACTTAGAATCTA
131 TAACCATATATGACCCAACATAGGATCTA
31110432 ACTTAAAT
1 ACTTAAAT
31110440 GCGTGAAAGT
Statistics
Matches: 471, Mismatches: 7, Indels: 7
0.97 0.01 0.01
Matches are distributed among these distances:
152 36 0.08
153 1 0.00
154 2 0.00
156 4 0.01
159 428 0.91
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (159 bp):
ACTTAAATTTGAGTAAGTACTCACCCAATACACATTAATTTCATTCTTAAATATTATTAAATAAA
AAATGTTTGAATTCAATTTGATTGGTTTAGTTTAATATTAAAATGTTTTAAAAAAATCAACAGAC
TAACCATATATGACCCAACATAGGATCTA
Found at i:31111790 original size:15 final size:16
Alignment explanation
Indices: 31111746--31111796 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
31111736 GAAATTGACC
*
31111746 AAAATAGAAACGATCT
1 AAAATAGAAATGATCT
* *
31111762 AAAAT-GTGAGTGATC-
1 AAAATAG-AAATGATCT
31111777 AAAATAGAAATGATCT
1 AAAATAGAAATGATCT
31111793 AAAA
1 AAAA
31111797 CGTTAGTTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
15 12 0.44
16 15 0.56
ACGTcount: A:0.55, C:0.08, G:0.16, T:0.22
Consensus pattern (16 bp):
AAAATAGAAATGATCT
Found at i:31116388 original size:23 final size:23
Alignment explanation
Indices: 31116362--31116416 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
31116352 CTGCCCAACT
* *
31116362 TCGGTCACCACTCCGGTGCCACG
1 TCGGCCACCACTCCAGTGCCACG
* *
31116385 TCGGCCACCATTCCAGTGCCACA
1 TCGGCCACCACTCCAGTGCCACG
*
31116408 TTGGCCACC
1 TCGGCCACC
31116417 TTCGCCCCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.16, C:0.44, G:0.22, T:0.18
Consensus pattern (23 bp):
TCGGCCACCACTCCAGTGCCACG
Found at i:31120854 original size:32 final size:32
Alignment explanation
Indices: 31120818--31120885 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 32
31120808 ATAAAATGAG
*
31120818 ATTTTAAGTTCCTTAAAAGTTAGAAAAAAATT
1 ATTTTAAGTTACTTAAAAGTTAGAAAAAAATT
* * *
31120850 ATTTTAAGTTATTTAAAAGTTGGTAAAAAATT
1 ATTTTAAGTTACTTAAAAGTTAGAAAAAAATT
31120882 -TTTT
1 ATTTT
31120886 GAGACTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 4 0.12
32 28 0.88
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.44
Consensus pattern (32 bp):
ATTTTAAGTTACTTAAAAGTTAGAAAAAAATT
Found at i:31121643 original size:16 final size:17
Alignment explanation
Indices: 31121622--31121659 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
31121612 AAAAATTATA
* *
31121622 TTTTCTATCT-TTCTAT
1 TTTTCTACCTCTTCAAT
31121638 TTTTCTACCTCTTCAAT
1 TTTTCTACCTCTTCAAT
31121655 TTTTC
1 TTTTC
31121660 AATTTTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.13, C:0.24, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTCTACCTCTTCAAT
Found at i:31122216 original size:31 final size:29
Alignment explanation
Indices: 31122156--31122220 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 29
31122146 TTTAATAAAC
*
31122156 AATAAATTATTAATATAATTTATTATTTT
1 AATAAATTATTAATATAAATTATTATTTT
31122185 AATAAATTATGTAATATTAAAATT-TTATTTT
1 AATAAATTAT-TAATA-T-AAATTATTATTTT
31122216 AATAA
1 AATAA
31122221 TAAGTTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 10 0.31
30 5 0.16
31 13 0.41
32 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (29 bp):
AATAAATTATTAATATAAATTATTATTTT
Found at i:31122363 original size:22 final size:23
Alignment explanation
Indices: 31122335--31122380 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
31122325 TTTAATAATA
31122335 AATA-TTTATAGTATA-AAATATG
1 AATATTTTA-AGTATATAAATATG
*
31122357 AATATTTTAATTATATAAATATG
1 AATATTTTAAGTATATAAATATG
31122380 A
1 A
31122381 GTTTTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (23 bp):
AATATTTTAAGTATATAAATATG
Found at i:31127893 original size:52 final size:52
Alignment explanation
Indices: 31127805--31128046 Score: 367
Period size: 52 Copynumber: 4.7 Consensus size: 52
31127795 ATTCAATTTA
* * ** * *
31127805 ATACTCACGATGACACATAGTCATCGGAACTCTTAATTTATGAAGGAATCAT
1 ATACTCACGATGACACATAGTCATCGGACCTTTTAATCCATAAAGGATTCAT
**
31127857 ATACTCACGATGACACATAGTCATCAAACCTTTTAATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTTTTAATCCATAAAGGATTCAT
* *
31127909 ATACTCACGATGACACTTAGTCTTCGGACCTTTTAATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTTTTAATCCATAAAGGATTCAT
*
31127961 ATACTCATGATGACACATAGTCATCGGACCTTTTAATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTTTTAATCCATAAAGGATTCAT
* *
31128013 ATACTCACGATGATACATAGTCATCAGACCTTTT
1 ATACTCACGATGACACATAGTCATCGGACCTTTT
31128047 CTTTATTTAC
Statistics
Matches: 172, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 172 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.31
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTTTTAATCCATAAAGGATTCAT
Found at i:31131595 original size:27 final size:27
Alignment explanation
Indices: 31131555--31131606 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
31131545 ATAATATATA
* *
31131555 AAATTAAGTTTTAATATTAAAATTATT
1 AAATTAACTATTAATATTAAAATTATT
* *
31131582 AAATTAACTATTAATTTTGAAATTA
1 AAATTAACTATTAATATTAAAATTA
31131607 ATTTTAAAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (27 bp):
AAATTAACTATTAATATTAAAATTATT
Found at i:31154280 original size:49 final size:49
Alignment explanation
Indices: 31154227--31154612 Score: 162
Period size: 49 Copynumber: 7.8 Consensus size: 49
31154217 GGTGAATCCA
* * *
31154227 GTACCACGAAGATATGAAGGGAAAAATTTAAGTCGTAATGACGAACTTC
1 GTACCACGAAGACATGAAGGGAAAGATTTAAGTCGCAATGACGAACTTC
* * * ** *
31154276 GTACCTC-AAAAGCATGAAGGGAAAGATTTAAGCCGCAACAACGAA-TCC
1 GTACCACGAAGA-CATGAAGGGAAAGATTTAAGTCGCAATGACGAACTTC
** * * * **
31154324 AGTACCACGAAGATGTCAAAGGAAAGGTTTAAGTCGCAATGGTGAACCTT-
1 -GTACCACGAAGACATGAAGGGAAAGATTTAAGTCGCAATGACGAA-CTTC
* * * * *
31154374 GTACCTCAGAAG-CATGAAGGGAAAGATTTAAGCCGCGACGACGAA-TCC
1 GTACCAC-GAAGACATGAAGGGAAAGATTTAAGTCGCAATGACGAACTTC
* * * * * * * *
31154422 AGTACCATGAAGATAATGGAGGGAAAGGTTTAAGTCACAACGACAAACCTC
1 -GTACCACGAAGA-CATGAAGGGAAAGATTTAAGTCGCAATGACGAACTTC
** * * * *
31154473 ACACCTCAGAAG-CATGAAGGGAAAGATTTATGCTACG--ATGGCGAA-TCC
1 GTACCAC-GAAGACATGAAGGGAAAGATTTAAG-T-CGCAATGACGAACTTC
* ** * * *
31154521 AGTACCACGAAGATACAAAGGGAAGGGTTTAAGTCACAATGACGAACCTT-
1 -GTACCACGAAGACATGAAGGGAAAGATTTAAGTCGCAATGACGAA-CTTC
** * * * *
31154571 GTACCTCAAAAAAACACGAAGGGAAAGATTCAAGCCGCAATG
1 GTA-C-CACGAAGACATGAAGGGAAAGATTTAAGTCGCAATG
31154613 GTGAATCTAG
Statistics
Matches: 234, Mismatches: 81, Indels: 42
0.66 0.23 0.12
Matches are distributed among these distances:
47 2 0.01
48 15 0.06
49 145 0.62
50 38 0.16
51 34 0.15
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.18
Consensus pattern (49 bp):
GTACCACGAAGACATGAAGGGAAAGATTTAAGTCGCAATGACGAACTTC
Found at i:31154348 original size:98 final size:98
Alignment explanation
Indices: 31154195--31154631 Score: 455
Period size: 98 Copynumber: 4.4 Consensus size: 98
31154185 AGAAGCACGG
* ** * * **
31154195 AGGGAAAGATTTAAACCGCAACGGTGAATCCAGTACCACGAAGATATGAAGGGAAAAATTTAAGT
1 AGGGAAAGATTTAAGCCGCAACGACGAATCCAGTACCACGAAGATATCAAAGGAAAGGTTTAAGT
**
31154260 CGTAATGACGAA-CTTCGTACCTCAAAAGCATGA
66 CACAATGACGAACCTT-GTACCTCAAAAGCATGA
* *
31154293 AGGGAAAGATTTAAGCCGCAACAACGAATCCAGTACCACGAAGATGTCAAAGGAAAGGTTTAAGT
1 AGGGAAAGATTTAAGCCGCAACGACGAATCCAGTACCACGAAGATATCAAAGGAAAGGTTTAAGT
* ** *
31154358 CGCAATGGTGAACCTTGTACCTCAGAAGCATGA
66 CACAATGACGAACCTTGTACCTCAAAAGCATGA
* * ** *
31154391 AGGGAAAGATTTAAGCCGCGACGACGAATCCAGTACCATGAAGATAATGGAGGGAAAGGTTTAAG
1 AGGGAAAGATTTAAGCCGCAACGACGAATCCAGTACCACGAAGAT-ATCAAAGGAAAGGTTTAAG
* * *** *
31154456 TCACAACGACAAACCTCACACCTCAGAAGCATGA
65 TCACAATGACGAACCTTGTACCTCAAAAGCATGA
* ** * * * *
31154490 AGGGAAAGATTTATGCTACGATGGCGAATCCAGTACCACGAAGATA-CAAAGGGAAGGGTTTAAG
1 AGGGAAAGATTTAAGCCGCAACGACGAATCCAGTACCACGAAGATATCAAA-GGAAAGGTTTAAG
* *
31154554 TCACAATGACGAACCTTGTACCTCAAAAAAACACGA
65 TCACAATGACGAACCTTGTACCTC--AAAAGCATGA
* * ** *
31154590 AGGGAAAGATTCAAGCCGCAATGGTGAATCTAGTACCACGAA
1 AGGGAAAGATTTAAGCCGCAACGACGAATCCAGTACCACGAA
31154632 AACATAAAAA
Statistics
Matches: 281, Mismatches: 53, Indels: 8
0.82 0.15 0.02
Matches are distributed among these distances:
97 1 0.00
98 155 0.55
99 83 0.30
100 42 0.15
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.18
Consensus pattern (98 bp):
AGGGAAAGATTTAAGCCGCAACGACGAATCCAGTACCACGAAGATATCAAAGGAAAGGTTTAAGT
CACAATGACGAACCTTGTACCTCAAAAGCATGA
Found at i:31154520 original size:197 final size:196
Alignment explanation
Indices: 31154179--31154631 Score: 521
Period size: 197 Copynumber: 2.3 Consensus size: 196
31154169 TATAGGTTTT
* * * **
31154179 TACCTTAGAAGCACGGAGGGAAAGATTTAAACCGCAACGGTGAATCCAGTACCACGAAGATATGA
1 TACCTCAGAAGCACGAAGGGAAAGATTTAAGCCGCAACGACGAATCCAGTACCACGAAGATATGA
** * * * **
31154244 AGGGAAAAATTTAAGTCGTAATGACGAACTTCGTACCTCAAAAGCATGAAGGGAAAGATTTAAGC
66 AGGGAAAAATTTAAGTCACAACGACAAACCTCACACCTCAAAAGCATGAAGGGAAAGATTTAAGC
* * * **
31154309 CGCAACAACGAATCCAGTACCACGAAGATGTCAAA-GGAAAGGTTTAAGTCGCAATGGTGAACCT
131 CACAACAACGAATCCAGTACCACGAAGAT-ACAAAGGGAAAGGTTTAAGTCACAATGACGAACCT
31154373 TG
195 TG
* * *
31154375 TACCTCAGAAGCATGAAGGGAAAGATTTAAGCCGCGACGACGAATCCAGTACCATGAAGATAATG
1 TACCTCAGAAGCACGAAGGGAAAGATTTAAGCCGCAACGACGAATCCAGTACCACGAAGAT-ATG
* ** * *
31154440 GAGGGAAAGGTTTAAGTCACAACGACAAACCTCACACCTCAGAAGCATGAAGGGAAAGATTTATG
65 AAGGGAAAAATTTAAGTCACAACGACAAACCTCACACCTCAAAAGCATGAAGGGAAAGATTTAAG
* * *** *
31154505 CTACGATGGCGAATCCAGTACCACGAAGATACAAAGGGAAGGGTTTAAGTCACAATGACGAACCT
130 CCACAACAACGAATCCAGTACCACGAAGATACAAAGGGAAAGGTTTAAGTCACAATGACGAACCT
31154570 TG
195 TG
* * * * ** *
31154572 TACCTCAAAAAAACACGAAGGGAAAGATTCAAGCCGCAATGGTGAATCTAGTACCACGAA
1 TACCTC--AGAAGCACGAAGGGAAAGATTTAAGCCGCAACGACGAATCCAGTACCACGAA
31154632 AACATAAAAA
Statistics
Matches: 212, Mismatches: 41, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
196 57 0.27
197 113 0.53
199 42 0.20
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.18
Consensus pattern (196 bp):
TACCTCAGAAGCACGAAGGGAAAGATTTAAGCCGCAACGACGAATCCAGTACCACGAAGATATGA
AGGGAAAAATTTAAGTCACAACGACAAACCTCACACCTCAAAAGCATGAAGGGAAAGATTTAAGC
CACAACAACGAATCCAGTACCACGAAGATACAAAGGGAAAGGTTTAAGTCACAATGACGAACCTT
G
Found at i:31159324 original size:27 final size:29
Alignment explanation
Indices: 31159274--31159343 Score: 74
Period size: 27 Copynumber: 2.5 Consensus size: 29
31159264 TTCAGATGAT
*
31159274 TATATAAAAAT-TTTAATAAATAAAA-AA
1 TATATAAAAATATTAAATAAATAAAATAA
*
31159301 TATATAAAAATATTAAAT-ATTAAAATAA
1 TATATAAAAATATTAAATAAATAAAATAA
* *
31159329 AATAAAATAAATATT
1 TATATAA-AAATATT
31159344 TTTTATAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 17 0.47
28 12 0.33
29 7 0.19
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (29 bp):
TATATAAAAATATTAAATAAATAAAATAA
Found at i:31159424 original size:12 final size:13
Alignment explanation
Indices: 31159379--31159442 Score: 60
Period size: 13 Copynumber: 4.7 Consensus size: 13
31159369 ATAAACGAAC
31159379 TTAAA-ATAAATT
1 TTAAACATAAATT
*
31159391 TATAAATATAAATAAAT
1 T-TAAACATAAAT---T
31159408 TTAAACA-AAATT
1 TTAAACATAAATT
31159420 TTAAACATAAATT
1 TTAAACATAAATT
31159433 TTAAATCATA
1 TTAAA-CATA
31159443 CTAAACTTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
12 9 0.20
13 14 0.32
14 10 0.23
15 4 0.09
16 5 0.11
17 2 0.05
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.38
Consensus pattern (13 bp):
TTAAACATAAATT
Found at i:31163156 original size:17 final size:17
Alignment explanation
Indices: 31163134--31163170 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
31163124 ACCCCAGTGT
31163134 GCATGTATCGAGGCTTA
1 GCATGTATCGAGGCTTA
31163151 GCATGTATCGAGGCTTA
1 GCATGTATCGAGGCTTA
31163168 GCA
1 GCA
31163171 AAATGCAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (17 bp):
GCATGTATCGAGGCTTA
Found at i:31163596 original size:79 final size:79
Alignment explanation
Indices: 31163465--31163623 Score: 309
Period size: 79 Copynumber: 2.0 Consensus size: 79
31163455 CGAGCTACTT
31163465 AGCTAAAGTTGGTTGAATTACTAATTATCAATTAAGTCAATATTTACTTTAATTGAGTTATTTAC
1 AGCTAAAGTTGGTTGAATTACTAATTATCAATTAAGTCAATATTTACTTTAATTGAGTTATTTAC
31163530 CACTCTTAACTAAG
66 CACTCTTAACTAAG
*
31163544 AGCTAAAGTTGGTTGAGTTACTAATTATCAATTAAGTCAATATTTACTTTAATTGAGTTATTTAC
1 AGCTAAAGTTGGTTGAATTACTAATTATCAATTAAGTCAATATTTACTTTAATTGAGTTATTTAC
31163609 CACTCTTAACTAAG
66 CACTCTTAACTAAG
31163623 A
1 A
31163624 ATATCCTCTC
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (79 bp):
AGCTAAAGTTGGTTGAATTACTAATTATCAATTAAGTCAATATTTACTTTAATTGAGTTATTTAC
CACTCTTAACTAAG
Found at i:31164191 original size:12 final size:12
Alignment explanation
Indices: 31164139--31164194 Score: 51
Period size: 12 Copynumber: 4.4 Consensus size: 12
31164129 ATCTACAAGA
31164139 TAAATATTAAAT
1 TAAATATTAAAT
* *
31164151 TTAATATCTACAAGA
1 TAAATAT-TA-AA-T
31164166 TAAATATTAAAT
1 TAAATATTAAAT
31164178 TAAAT-TTAATAT
1 TAAATATTAA-AT
31164190 TAAAT
1 TAAAT
31164195 CTATTAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
11 4 0.11
12 18 0.50
13 4 0.11
14 4 0.11
15 6 0.17
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (12 bp):
TAAATATTAAAT
Found at i:31165392 original size:15 final size:15
Alignment explanation
Indices: 31165374--31165417 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
31165364 TTTGTCCGGC
*
31165374 CCAAACAAAATAAAA
1 CCAAACAAAACAAAA
* *
31165389 CCAAACCAAACCAAA
1 CCAAACAAAACAAAA
*
31165404 CCAAATAAAACAAA
1 CCAAACAAAACAAA
31165418 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.68, C:0.27, G:0.00, T:0.05
Consensus pattern (15 bp):
CCAAACAAAACAAAA
Found at i:31165419 original size:9 final size:9
Alignment explanation
Indices: 31165405--31165435 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
31165395 CAAACCAAAC
31165405 CAAATAAAA
1 CAAATAAAA
31165414 CAAATAAAA
1 CAAATAAAA
*
31165423 CAAATAAAG
1 CAAATAAAA
31165432 CAAA
1 CAAA
31165436 AAATAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.74, C:0.13, G:0.03, T:0.10
Consensus pattern (9 bp):
CAAATAAAA
Found at i:31166977 original size:13 final size:14
Alignment explanation
Indices: 31166959--31166987 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
31166949 TCCTTTCATA
31166959 TTTTTTAAA-TTAT
1 TTTTTTAAACTTAT
31166972 TTTTTTAAACTTAT
1 TTTTTTAAACTTAT
31166986 TT
1 TT
31166988 CCATTATTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTTTAAACTTAT
Found at i:31167443 original size:101 final size:101
Alignment explanation
Indices: 31167206--31167421 Score: 263
Period size: 101 Copynumber: 2.1 Consensus size: 101
31167196 TTATTTTAAA
* * * *
31167206 AAAATCAATACAATATTCTTTTATTTTA-GAGAATTCGAGAAATTGTGCCCTAACTTGTTGGGTA
1 AAAATCGATA-AATGTTCTTTTACTTTAGGA-AATTGGAGAAATTGTGCCCTAACTTGTTGGGTA
* ** * *
31167270 TGATTTTTCTTTGAACCTAAAAATTGAGTATCCTATTT
64 CGATTTTTCTTAAAACCTAAAAATCGAATATCCTATTT
* * * *
31167308 AAAATCGATAAATGTTCTTTTACTTTAGGGAATTGGAGAAGTTGTGTCTTAACTTGTTGGGTACG
1 AAAATCGATAAATGTTCTTTTACTTTAGGAAATTGGAGAAATTGTGCCCTAACTTGTTGGGTACG
*
31167373 ATTTTTCTTAAAACCTAAATAATCGAATATTCTATTT
66 ATTTTTCTTAAAACCTAAA-AATCGAATATCCTATTT
31167410 AAAAATCGATAA
1 -AAAATCGATAA
31167422 TCATTTTTTT
Statistics
Matches: 97, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
101 62 0.64
102 24 0.25
103 11 0.11
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.40
Consensus pattern (101 bp):
AAAATCGATAAATGTTCTTTTACTTTAGGAAATTGGAGAAATTGTGCCCTAACTTGTTGGGTACG
ATTTTTCTTAAAACCTAAAAATCGAATATCCTATTT
Found at i:31170292 original size:12 final size:12
Alignment explanation
Indices: 31170275--31170330 Score: 53
Period size: 12 Copynumber: 4.5 Consensus size: 12
31170265 GGCAACCCAA
31170275 TTATTTTTATTT
1 TTATTTTTATTT
31170287 TTATTTTTATTT
1 TTATTTTTATTT
*
31170299 TT-TTCTCTA-TT
1 TTATT-TTTATTT
31170310 TTATTTATTTATTT
1 TTA-TT-TTTATTT
31170324 ATTATTT
1 -TTATTT
31170331 GTCCAAGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
11 6 0.17
12 17 0.47
13 6 0.17
14 4 0.11
15 3 0.08
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.79
Consensus pattern (12 bp):
TTATTTTTATTT
Found at i:31176795 original size:15 final size:15
Alignment explanation
Indices: 31176771--31176811 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
31176761 TGAGGAAAAA
31176771 TAAAAGAAACAGAAT
1 TAAAAGAAACAGAAT
*
31176786 TAAAAAAAACAGAAT
1 TAAAAGAAACAGAAT
*
31176801 TGAAAGAAACA
1 TAAAAGAAACA
31176812 TAAAATAGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.68, C:0.07, G:0.12, T:0.12
Consensus pattern (15 bp):
TAAAAGAAACAGAAT
Found at i:31177634 original size:19 final size:19
Alignment explanation
Indices: 31177610--31177652 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
31177600 AAACATAAAT
31177610 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
31177629 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
31177648 TAAAT
1 TAAAT
31177653 CCTAAGATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:31184232 original size:39 final size:41
Alignment explanation
Indices: 31184159--31184248 Score: 123
Period size: 39 Copynumber: 2.2 Consensus size: 41
31184149 TTAAAAGTAT
*
31184159 TTATATTAAAAAACACTACCATAAATATAATAAATGA-TTTA
1 TTATATTAAAAAACACTACAATAAATATAATAAAT-ATTTTA
*
31184200 TTATATTAGAAAACAC-A-AATAAATATAATAAATATTTTA
1 TTATATTAAAAAACACTACAATAAATATAATAAATATTTTA
*
31184239 TTGTATTAAA
1 TTATATTAAA
31184249 TATAAATTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
38 1 0.02
39 27 0.61
40 1 0.02
41 15 0.34
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (41 bp):
TTATATTAAAAAACACTACAATAAATATAATAAATATTTTA
Found at i:31189278 original size:6 final size:6
Alignment explanation
Indices: 31189267--31189299 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
31189257 CTTCTTCATT
31189267 ATTTAA ATTTAA ATTTAA ATTTTAA ATTTAA AT
1 ATTTAA ATTTAA ATTTAA A-TTTAA ATTTAA AT
31189300 CGTGCTATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTTAA
Found at i:31189292 original size:13 final size:13
Alignment explanation
Indices: 31189267--31189299 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
31189257 CTTCTTCATT
31189267 ATTTAAA-TTTAA
1 ATTTAAATTTTAA
31189279 ATTTAAATTTTAA
1 ATTTAAATTTTAA
31189292 ATTTAAAT
1 ATTTAAAT
31189300 CGTGCTATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.35
13 13 0.65
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTAAATTTTAA
Found at i:31191209 original size:15 final size:15
Alignment explanation
Indices: 31191189--31191217 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
31191179 CAACTGTAAA
31191189 TTCTAGAAATAGTAT
1 TTCTAGAAATAGTAT
31191204 TTCTAGAAATAGTA
1 TTCTAGAAATAGTA
31191218 GTAGAATGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.38
Consensus pattern (15 bp):
TTCTAGAAATAGTAT
Found at i:31194955 original size:51 final size:51
Alignment explanation
Indices: 31194881--31195291 Score: 333
Period size: 51 Copynumber: 8.2 Consensus size: 51
31194871 CAGGTTTGAC
*
31194881 AGGGAAGGATCTAAGACCGCAACGGTAGATCCAGTACCACAAAGATACAGA
1 AGGGAAAGATCTAAGACCGCAACGGTAGATCCAGTACCACAAAGATACAGA
* *
31194932 AGGGAAAGATCTAAGACCGCAACGGTTGATCCAATACCACAAAGATACAGA
1 AGGGAAAGATCTAAGACCGCAACGGTAGATCCAGTACCACAAAGATACAGA
* * * *
31194983 AGGGAAAGATCTAAGACCGCAACGATAGATCTAGTACCACAAAGATGCAAA
1 AGGGAAAGATCTAAGACCGCAACGGTAGATCCAGTACCACAAAGATACAGA
* * * * * ** * * *
31195034 AGGGAAAGGTCAAAG-TCACAACAGCGGA-CCGTGTACCTCAGAAGACA-AGA
1 AGGGAAAGATCTAAGACCGCAACGGTAGATCC-AGTACCACA-AAGATACAGA
* * ** *
31195084 AGGGAAAGATTTAAG-CCGCAACGG-CGAATCCAGTACCATGAAGACAC-GA
1 AGGGAAAGATCTAAGACCGCAACGGTAG-ATCCAGTACCACAAAGATACAGA
* ** *
31195133 AGGAAAAGATCTAAGACCGCAACACT-GAATCCAGTACCACAAAGATACAAA
1 AGGGAAAGATCTAAGACCGCAACGGTAG-ATCCAGTACCACAAAGATACAGA
* * * **
31195184 AGGGAAAGGTCTAAG-TCGCAACACCG-A-ATCCAGTACCATGAAG--ACATGA
1 AGGGAAAGATCTAAGACCGC-A-ACGGTAGATCCAGTACCACAAAGATACA-GA
* ** * * *
31195233 AGGGAAAGATCTAAGACCGTAACGGCGGATCCAATACCAAAAAGATACAAA
1 AGGGAAAGATCTAAGACCGCAACGGTAGATCCAGTACCACAAAGATACAGA
*
31195284 AAGGAAAG
1 AGGGAAAG
31195292 GTTTAAGTTG
Statistics
Matches: 283, Mismatches: 60, Indels: 34
0.75 0.16 0.09
Matches are distributed among these distances:
48 6 0.02
49 39 0.14
50 98 0.35
51 135 0.48
52 5 0.02
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.12
Consensus pattern (51 bp):
AGGGAAAGATCTAAGACCGCAACGGTAGATCCAGTACCACAAAGATACAGA
Found at i:31195156 original size:100 final size:99
Alignment explanation
Indices: 31194909--31195291 Score: 301
Period size: 100 Copynumber: 3.8 Consensus size: 99
31194899 GCAACGGTAG
** * * * ** *
31194909 ATCCAGTACCACAAAGATACAGAAGGGAAAGATCTAAGACCGCAACGGTTGATCCAATACCACAA
1 ATCCAGTACCATGAAGACAC-GAAGGAAAAGATCTAAGACCGCAACAGCGGATCCAGTACCACAA
* **
31194974 AGATACAGAAGGGAAAGATCTAAGACCGCAACGATAG-
65 AGA-ACAAAAGGGAAAGATCTAAG-CCGCAAC-ACCGA
* ** * * * * * * * *
31195011 ATCTAGTACCACAAAGATGCA-AAAGGGAAAGGTCAAAG-TCACAACAGCGGA-CCGTGTACCTC
1 ATCCAGTACCATGAAGA--CACGAAGGAAAAGATCTAAGACCGCAACAGCGGATCC-AGTACCAC
* **
31195073 AGAAG-ACAAGAAGGGAAAGATTTAAGCCGCAACGGCGA
63 A-AAGAACAA-AAGGGAAAGATCTAAGCCGCAACACCGA
*
31195111 ATCCAGTACCATGAAGACACGAAGGAAAAGATCTAAGACCGCAACA-CTGAATCCAGTACCACAA
1 ATCCAGTACCATGAAGACACGAAGGAAAAGATCTAAGACCGCAACAGC-GGATCCAGTACCACAA
* *
31195175 AGATACAAAAGGGAAAGGTCTAAGTCGCAACACCGA
65 AGA-ACAAAAGGGAAAGATCTAAGCCGCAACACCGA
* * * * * *
31195211 ATCCAGTACCATGAAGACATGAAGGGAAAGATCTAAGACCGTAACGGCGGATCCAATACCAAAAA
1 ATCCAGTACCATGAAGACACGAAGGAAAAGATCTAAGACCGCAACAGCGGATCCAGTACCACAAA
*
31195276 GATACAAAAAGGAAAG
66 GA-ACAAAAGGGAAAG
31195292 GTTTAAGTTG
Statistics
Matches: 225, Mismatches: 43, Indels: 28
0.76 0.15 0.09
Matches are distributed among these distances:
98 2 0.01
99 18 0.08
100 135 0.60
101 36 0.16
102 33 0.15
104 1 0.00
ACGTcount: A:0.44, C:0.21, G:0.22, T:0.12
Consensus pattern (99 bp):
ATCCAGTACCATGAAGACACGAAGGAAAAGATCTAAGACCGCAACAGCGGATCCAGTACCACAAA
GAACAAAAGGGAAAGATCTAAGCCGCAACACCGA
Found at i:31195163 original size:50 final size:48
Alignment explanation
Indices: 31195074--31195247 Score: 204
Period size: 50 Copynumber: 3.5 Consensus size: 48
31195064 GTGTACCTCA
* * *
31195074 GAAGACAAGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCAT
1 GAAGACACGAAGGGAAAGATCTAAGCCGCAAC-ACGAATCCAGTACCAT
* *
31195123 GAAGACACGAAGGAAAAGATCTAAGACCGCAACACTGAATCCAGTACCAC
1 GAAGACACGAAGGGAAAGATCTAAG-CCGCAACAC-GAATCCAGTACCAT
* * * * *
31195173 AAAGATACAAAAGGGAAAGGTCTAAGTCGCAACACCGAATCCAGTACCAT
1 GAAGACAC-GAAGGGAAAGATCTAAGCCGCAACA-CGAATCCAGTACCAT
*
31195223 GAAGACATGAAGGGAAAGATCTAAG
1 GAAGACACGAAGGGAAAGATCTAAG
31195248 ACCGTAACGG
Statistics
Matches: 104, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
49 38 0.37
50 51 0.49
51 15 0.14
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.12
Consensus pattern (48 bp):
GAAGACACGAAGGGAAAGATCTAAGCCGCAACACGAATCCAGTACCAT
Found at i:31195187 original size:150 final size:150
Alignment explanation
Indices: 31194909--31195277 Score: 435
Period size: 150 Copynumber: 2.4 Consensus size: 150
31194899 GCAACGGTAG
** * *
31194909 ATCCAGTACCACAAAGATACAGAAGGGAAAGATCTAAGACCGCAACGGTTGATCCAATACCACAA
1 ATCCAGTACCATGAAGACA-AGAAGGGAAAGATCTAAGACCGCAACGG-CGATCCAATACCACAA
* * * *
31194974 AGATACAGAAGGGAAAGATCTAAGACCGCAACGATAGATCTAGTACCACAAAGATGCAAAAGGGA
64 AGACACAGAAGGAAAAGATCTAAGACCGCAACGATAGATCCAGTACCACAAAGATACAAAAGGGA
* *
31195039 AAGGTCAAAGTCACAACAGCGG
129 AAGGTCAAAGTCACAACACCGA
* * * *
31195061 A-CCGTGTACC-TCAGAAGACAAGAAGGGAAAGATTTAAG-CCGCAACGGCGAATCCAGTACCAT
1 ATCC-AGTACCAT--GAAGACAAGAAGGGAAAGATCTAAGACCGCAACGGCG-ATCCAATACCAC
*
31195123 GAAGACAC-GAAGGAAAAGATCTAAGACCGCAAC-ACT-GAATCCAGTACCACAAAGATACAAAA
62 AAAGACACAGAAGGAAAAGATCTAAGACCGCAACGA-TAG-ATCCAGTACCACAAAGATACAAAA
* *
31195185 GGGAAAGGTCTAAGTCGCAACACCGA
125 GGGAAAGGTCAAAGTCACAACACCGA
* * *
31195211 ATCCAGTACCATGAAGACATGAAGGGAAAGATCTAAGACCGTAACGGCGGATCCAATACCAAAAA
1 ATCCAGTACCATGAAGACAAGAAGGGAAAGATCTAAGACCGCAACGGC-GATCCAATACCACAAA
31195276 GA
65 GA
31195278 TACAAAAAGG
Statistics
Matches: 183, Mismatches: 24, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
149 25 0.14
150 99 0.54
151 31 0.17
152 23 0.13
153 5 0.03
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.12
Consensus pattern (150 bp):
ATCCAGTACCATGAAGACAAGAAGGGAAAGATCTAAGACCGCAACGGCGATCCAATACCACAAAG
ACACAGAAGGAAAAGATCTAAGACCGCAACGATAGATCCAGTACCACAAAGATACAAAAGGGAAA
GGTCAAAGTCACAACACCGA
Found at i:31196099 original size:206 final size:206
Alignment explanation
Indices: 31195737--31196540 Score: 969
Period size: 206 Copynumber: 3.9 Consensus size: 206
31195727 CGCTCAATGC
* * * * *
31195737 GAGCAAATCTTTGAACCTCAGCTTCCTGATGAGACACTGAGCAGCAAGTCGAAGCAATAAAATGG
1 GAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGG
* * * * *
31195802 TTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCGTCCTAATGAGATATAGAGAAGC
66 TTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATCCGTCTTCCTGATGAGATACAGAGAAGC
* *
31195867 GAATTGAAACAAACGATACAGTCATCTTTCTGATGAGATACTGAGAAGAAGACCAAATCAAACTA
131 GAATTGAAACAAACGATGCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACTA
31195932 ACGCTCGATAT
196 ACGCTCGATAT
* * *
31195943 GAGCAAACCTTCGAACCTCAGCTTCCTGATGAGATACTGAGAAGCAGTTCGAAGCAATAAAATGG
1 GAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGG
* * *
31196008 TTAGCTTCCTGATAAGCTACTGAGAAGTGGACCAAATCCGTCTTCCTGATGAGATATAGAGAAGC
66 TTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATCCGTCTTCCTGATGAGATACAGAGAAGC
* * * * * *
31196073 GAATTGAAACAAATGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATG-CC-AA-C--TC-
131 GAATTGAAACAAACGATGCAGTCATCTTCCTGATGAGATACTGAGAAG-AAGACCAAATCAAACT
*
31196132 AAGGCTC-A-AT
195 AACGCTCGATAT
* *
31196142 GCAAGCAAATCTTCGAACCCCAACTTCCTGATGAGATATTGAGAAGCAGGTCGAAGCAATAAAAT
1 G--AGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAAT
* ** * *
31196207 GGTTAGCTTCCTAATGAGATACTGAGAAACGGACCAAATTCGTCTTCCTGATGAGATACAAAGAA
64 GGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATCCGTCTTCCTGATGAGATACAGAGAA
* * * * *
31196272 GCGAATTGAAGCAAATGATGCGGTCATCTTCTTGATGAGATATTGAGAAGAAGACCAAATCAAAC
129 GCGAATTGAAACAAACGATGCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAA-
* **
31196337 CT-ACACTCGATGC
193 CTAACGCTCGATAT
* * *
31196350 GAGCAAATCTTCGAACCCCAGTTTCCTGATAAGATACTGAGAAGCAGGTCGAAGCAATAAAGTGG
1 GAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGG
* * * * * * * *
31196415 TTAACTTCCTGATGAGACACAGAGAAGTGAACCAAATCCGTCTTCCTGTTGAAACACAGAGAAGT
66 TTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATCCGTCTTCCTGATGAGATACAGAGAAGC
* ** * * * * * *
31196480 GGATCAAAACAAACGACGCAGTCACCTTCCTGATGAGACATTGAGAAGAAGGCCAAGTCAA
131 GAATTGAAACAAACGATGCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAA
31196541 CAAAACCAAA
Statistics
Matches: 511, Mismatches: 75, Indels: 24
0.84 0.12 0.04
Matches are distributed among these distances:
199 3 0.01
200 3 0.01
201 167 0.33
202 3 0.01
203 1 0.00
204 1 0.00
205 2 0.00
206 327 0.64
207 3 0.01
208 1 0.00
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (206 bp):
GAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGG
TTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATCCGTCTTCCTGATGAGATACAGAGAAGC
GAATTGAAACAAACGATGCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACTA
ACGCTCGATAT
Found at i:31196492 original size:407 final size:407
Alignment explanation
Indices: 31195728--31196517 Score: 1118
Period size: 407 Copynumber: 1.9 Consensus size: 407
31195718 ACCGACCCAC
* * * * *
31195728 GCTCAATGCGAGCAAATCTTTGAACCTCAGCTTCCTGATGAGACACTGAGCAGCAAGTCGAAGCA
1 GCTCAATGCAAGCAAATCTTCGAACCCCAACTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCA
* **
31195793 ATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCGTCCTAATGAGATA
66 ATAAAATGGTTAGCTTCCTAATGAGATACTGAGAAACGGACCAAATTCATCGTCCTAATGAGATA
* *
31195858 TAGAGAAGCGAATTGAAACAAACGATACAGTCATCTTTCTGATGAGATACTGAGAAGAAGACCAA
131 CAAAGAAGCGAATTGAAACAAACGATACAGTCATCTTTCTGATGAGATACTGAGAAGAAGACCAA
* * * *
31195923 ATCAAACTAACGCTCGATATGAGCAAACCTTCGAACCTCAGCTTCCTGATGAGATACTGAGAAGC
196 ATCAAACTAACACTCGATACGAGCAAACCTTCGAACCCCAGCTTCCTGATAAGATACTGAGAAGC
* * * *
31195988 AGTTCGAAGCAATAAAATGGTTAGCTTCCTGATAAGCTACTGAGAAGTGGACCAAATCCGTCTTC
261 AGGTCGAAGCAATAAAATGGTTAACTTCCTGATAAGCTACAGAGAAGTGAACCAAATCCGTCTTC
* * * ** * * * *
31196053 CTGATGAGATATAGAGAAGCGAATTGAAACAAATGAGGCGGTCATCTTCCTGATGAGATACAGAG
326 CTGATGAAACACAGAGAAGCGAATCAAAACAAACGACGCAGTCACCTTCCTGATGAGATACAGAG
31196118 AAGTATGCCAACTCAAG
391 AAGTATGCCAACTCAAG
* * *
31196135 GCTCAATGCAAGCAAATCTTCGAACCCCAACTTCCTGATGAGATATTGAGAAGCAGGTCGAAGCA
1 GCTCAATGCAAGCAAATCTTCGAACCCCAACTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCA
* * *
31196200 ATAAAATGGTTAGCTTCCTAATGAGATACTGAGAAACGGACCAAATTCGTCTTCCTGATGAGATA
66 ATAAAATGGTTAGCTTCCTAATGAGATACTGAGAAACGGACCAAATTCATCGTCCTAATGAGATA
* * * * *
31196265 CAAAGAAGCGAATTGAAGCAAATGATGCGGTCATC-TTCTTGATGAGATATTGAGAAGAAGACCA
131 CAAAGAAGCGAATTGAAACAAACGATACAGTCATCTTTC-TGATGAGATACTGAGAAGAAGACCA
* * *
31196329 AATCAAACCT-ACACTCGATGCGAGCAAATCTTCGAACCCCAGTTTCCTGATAAGATACTGAGAA
195 AATCAAA-CTAACACTCGATACGAGCAAACCTTCGAACCCCAGCTTCCTGATAAGATACTGAGAA
* *
31196393 GCAGGTCGAAGCAATAAAGTGGTTAACTTCCTGATGAGAC-ACAGAGAAGTGAACCAAATCCGTC
259 GCAGGTCGAAGCAATAAAATGGTTAACTTCCTGATAAG-CTACAGAGAAGTGAACCAAATCCGTC
* * *
31196457 TTCCTGTTGAAACACAGAGAAGTGGATCAAAACAAACGACGCAGTCACCTTCCTGATGAGA
323 TTCCTGATGAAACACAGAGAAGCGAATCAAAACAAACGACGCAGTCACCTTCCTGATGAGA
31196518 CATTGAGAAG
Statistics
Matches: 334, Mismatches: 46, Indels: 6
0.87 0.12 0.02
Matches are distributed among these distances:
406 3 0.01
407 328 0.98
408 3 0.01
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (407 bp):
GCTCAATGCAAGCAAATCTTCGAACCCCAACTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCA
ATAAAATGGTTAGCTTCCTAATGAGATACTGAGAAACGGACCAAATTCATCGTCCTAATGAGATA
CAAAGAAGCGAATTGAAACAAACGATACAGTCATCTTTCTGATGAGATACTGAGAAGAAGACCAA
ATCAAACTAACACTCGATACGAGCAAACCTTCGAACCCCAGCTTCCTGATAAGATACTGAGAAGC
AGGTCGAAGCAATAAAATGGTTAACTTCCTGATAAGCTACAGAGAAGTGAACCAAATCCGTCTTC
CTGATGAAACACAGAGAAGCGAATCAAAACAAACGACGCAGTCACCTTCCTGATGAGATACAGAG
AAGTATGCCAACTCAAG
Found at i:31198945 original size:30 final size:29
Alignment explanation
Indices: 31198875--31199105 Score: 205
Period size: 30 Copynumber: 7.8 Consensus size: 29
31198865 AGAGGTCCCT
* *
31198875 AAACTGTCCAGAAATTATATTTTAACCCCCC
1 AAACT-TCCAAAAATTACATTTTAA-CCCCC
* * * **
31198906 GAACGTCTAAAAATTACATCTTTAACCCAA
1 AAACTTCCAAAAATTACAT-TTTAACCCCC
* * *
31198936 AAACTTCTAAAAATTATATTTTAACCCTC
1 AAACTTCCAAAAATTACATTTTAACCCCC
* * *
31198965 GAACTTCCAAAAATTCCATTTTTACCCCC
1 AAACTTCCAAAAATTACATTTTAACCCCC
*
31198994 AAACTTCTAAAAATTACATATTT-ACCCCC
1 AAACTTCCAAAAATTACAT-TTTAACCCCC
*
31199023 TAAACTTCCAAAAATTACATATTT-ACCCTC
1 -AAACTTCCAAAAATTACAT-TTTAACCCCC
* * * *
31199053 GAACTTCCAAAAATTCCATTTTTGACCCCA
1 AAACTTCCAAAAATTACA-TTTTAACCCCC
*
31199083 AAACTTCCAAAAATTTCATTTTA
1 AAACTTCCAAAAATTACATTTTA
31199106 CCCTCGGATG
Statistics
Matches: 165, Mismatches: 30, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
29 76 0.46
30 81 0.49
31 8 0.05
ACGTcount: A:0.39, C:0.26, G:0.03, T:0.32
Consensus pattern (29 bp):
AAACTTCCAAAAATTACATTTTAACCCCC
Found at i:31199033 original size:59 final size:57
Alignment explanation
Indices: 31198914--31199108 Score: 203
Period size: 59 Copynumber: 3.3 Consensus size: 57
31198904 CCGAACGTCT
* ** * * *
31198914 AAAAATTACATCTTTAACCCAAAAACTTCTAAAAATTATATTTTAACCCTCGAACTTCC
1 AAAAATTACAT-TTTTACCCCCAAACTTCTAAAAATTACATTTTACCCCT-AAACTTCC
*
31198973 AAAAATTCCATTTTTACCCCCAAACTTCTAAAAATTACATATTTACCCCCTAAACTTCC
1 AAAAATTACATTTTTACCCCCAAACTTCTAAAAATTACAT-TTTA-CCCCTAAACTTCC
* * * * * *
31199032 AAAAATTACATATTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTCC
1 AAAAATTACATTTTTACCCCCAAACTTCTAAAAATTACA-TTTT-ACCCCTAAACTTCC
*
31199091 AAAAATTTCA-TTTTACCC
1 AAAAATTACATTTTTACCC
31199109 TCGGATGTCC
Statistics
Matches: 116, Mismatches: 16, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
58 32 0.28
59 78 0.67
60 6 0.05
ACGTcount: A:0.39, C:0.27, G:0.02, T:0.32
Consensus pattern (57 bp):
AAAAATTACATTTTTACCCCCAAACTTCTAAAAATTACATTTTACCCCTAAACTTCC
Found at i:31199036 original size:88 final size:88
Alignment explanation
Indices: 31198901--31199108 Score: 285
Period size: 88 Copynumber: 2.4 Consensus size: 88
31198891 ATATTTTAAC
* * * * *
31198901 CCCCCGAACGTCTAAAAATTACATCTTTAACCCAAAAACTTCTAAAAATTATAT-TTTAACCCTC
1 CCCCCAAACTTCTAAAAATTACAT-TTTACCCCAAAAACTTCCAAAAATTACATATTT-ACCCTC
31198965 GAACTTCCAAAAATTCCATTTTT-A
64 GAACTTCCAAAAATTCCATTTTTGA
**
31198989 CCCCCAAACTTCTAAAAATTACATATTTACCCCCTAAACTTCCAAAAATTACATATTTACCCTCG
1 CCCCCAAACTTCTAAAAATTACAT-TTTACCCCAAAAACTTCCAAAAATTACATATTTACCCTCG
31199054 AACTTCCAAAAATTCCATTTTTGA
65 AACTTCCAAAAATTCCATTTTTGA
* * *
31199078 CCCCAAAACTTCCAAAAATTTCATTTTACCC
1 CCCCCAAACTTCTAAAAATTACATTTTACCC
31199109 TCGGATGTCC
Statistics
Matches: 107, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
88 82 0.77
89 25 0.23
ACGTcount: A:0.38, C:0.29, G:0.02, T:0.31
Consensus pattern (88 bp):
CCCCCAAACTTCTAAAAATTACATTTTACCCCAAAAACTTCCAAAAATTACATATTTACCCTCGA
ACTTCCAAAAATTCCATTTTTGA
Found at i:31199129 original size:58 final size:59
Alignment explanation
Indices: 31198966--31199181 Score: 195
Period size: 59 Copynumber: 3.6 Consensus size: 59
31198956 TTAACCCTCG
* * ** * * * * * *
31198966 AACTTCCAAAAATTCCATTTTTACCCCCAAACTTCTAAAAATTACATATTT-ACCCCCTA
1 AACTTCCAAAAATTTCA-TTTTACCCTCGGACTTCCAAAAACTCCATTTTTGATCCCCAA
* * *
31199025 AACTTCCAAAAATTACATATTTACCCTCGAACTTCCAAAAATTCCATTTTTGA-CCCCAA
1 AACTTCCAAAAATTTCAT-TTTACCCTCGGACTTCCAAAAACTCCATTTTTGATCCCCAA
* *
31199084 AACTTCCAAAAATTTCATTTTACCCTCGGA-TGTCCAAAAACTCCATTTTTGATCCCGAT
1 AACTTCCAAAAATTTCATTTTACCCTCGGACT-TCCAAAAACTCCATTTTTGATCCCCAA
*** * *
31199143 TTTTTCTAAAAATTATCATTTTACCCTCGGACATCCAAA
1 AACTTCCAAAAATT-TCATTTTACCCTCGGACTTCCAAA
31199182 CTTTCATTTT
Statistics
Matches: 134, Mismatches: 17, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
57 1 0.01
58 31 0.23
59 79 0.59
60 23 0.17
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.33
Consensus pattern (59 bp):
AACTTCCAAAAATTTCATTTTACCCTCGGACTTCCAAAAACTCCATTTTTGATCCCCAA
Found at i:31199221 original size:58 final size:59
Alignment explanation
Indices: 31199028--31199226 Score: 190
Period size: 58 Copynumber: 3.4 Consensus size: 59
31199018 CCCCCTAAAC
* * * * * **
31199028 TTCCAAAAATTA-CATATTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCCAAAAC
1 TTCCAAAAAATATCAT-TTTACCCTCGGACATCCAAAACTTCCATTTTTGATCCCAAATT
* ** **
31199087 TTCC-AAAAATTTCATTTTACCCTCGGATGTCCAAAAAC-TCCATTTTTGATCCCGATTTT
1 TTCCAAAAAATATCATTTTACCCTCGGACATCC-AAAACTTCCATTTTTGATCCC-AAATT
* * * *
31199146 TTCTAAAAATTATCATTTTACCCTCGGACATCC-AAACTTTCATTTTTAATCCCAAATT
1 TTCCAAAAAATATCATTTTACCCTCGGACATCCAAAACTTCCATTTTTGATCCCAAATT
*
31199204 TTCCAAAAAATACCATTTTACCC
1 TTCCAAAAAATATCATTTTACCC
31199227 CAAAAGTCTA
Statistics
Matches: 112, Mismatches: 23, Indels: 11
0.77 0.16 0.08
Matches are distributed among these distances:
58 60 0.54
59 28 0.25
60 24 0.21
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.36
Consensus pattern (59 bp):
TTCCAAAAAATATCATTTTACCCTCGGACATCCAAAACTTCCATTTTTGATCCCAAATT
Found at i:31202410 original size:40 final size:40
Alignment explanation
Indices: 31202361--31202557 Score: 288
Period size: 40 Copynumber: 4.9 Consensus size: 40
31202351 TAGTATAAAT
* * *
31202361 CGGCACGAAGCCTAG-TAGGCACAAAACCCGATAAATACAA
1 CGGCACGAAGCCT-GCTAGGCACTAAGCCCGATAAATACAC
*
31202401 CGGCACGAAGCCTGCTAGGCACTAAGTCCGATAAATACAC
1 CGGCACGAAGCCTGCTAGGCACTAAGCCCGATAAATACAC
* * *
31202441 CAGCACGAAGCCTGTTAGGCACTAAGCCCAATAAATACAC
1 CGGCACGAAGCCTGCTAGGCACTAAGCCCGATAAATACAC
*
31202481 CGACACGAAGCCTGCTAGGCACTAAGCCCGATAAATACAC
1 CGGCACGAAGCCTGCTAGGCACTAAGCCCGATAAATACAC
* *
31202521 CGGCACGAAGCCTGCTAAGCATTAAGCCCGATAAATA
1 CGGCACGAAGCCTGCTAGGCACTAAGCCCGATAAATA
31202558 TCGTGGAATT
Statistics
Matches: 141, Mismatches: 15, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
39 1 0.01
40 140 0.99
ACGTcount: A:0.37, C:0.29, G:0.20, T:0.14
Consensus pattern (40 bp):
CGGCACGAAGCCTGCTAGGCACTAAGCCCGATAAATACAC
Found at i:31205056 original size:47 final size:47
Alignment explanation
Indices: 31204994--31205089 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 47
31204984 TGATCTCTAA
* *
31204994 TAGAAACCTATATAAATGGTTCCTATGACCCTATCATTCCCTAATAT
1 TAGAAACATATATAAATGGTTCATATGACCCTATCATTCCCTAATAT
31205041 TAGAAACATATATAAATGGTTCATATGACCCTATCATTCCCTAATAT
1 TAGAAACATATATAAATGGTTCATATGACCCTATCATTCCCTAATAT
31205088 TA
1 TA
31205090 AACTAAAGTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.34
Consensus pattern (47 bp):
TAGAAACATATATAAATGGTTCATATGACCCTATCATTCCCTAATAT
Found at i:31205355 original size:19 final size:19
Alignment explanation
Indices: 31205328--31205369 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
31205318 TTACATGCAC
* *
31205328 ACACGATTCCACTAATCAG
1 ACACAATTCCACTAATCAA
*
31205347 ACACAATTCCATTAATCAA
1 ACACAATTCCACTAATCAA
31205366 ACAC
1 ACAC
31205370 CATTGACGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.43, C:0.31, G:0.05, T:0.21
Consensus pattern (19 bp):
ACACAATTCCACTAATCAA
Found at i:31207946 original size:21 final size:20
Alignment explanation
Indices: 31207917--31207978 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 20
31207907 AAATCTTCTC
*
31207917 TATTCATAAGTTATTAATATT
1 TATTTATAA-TTATTAATATT
*
31207938 TATTTATAAATTTTTCATATATT
1 TATTTAT-AATTATT-A-ATATT
*
31207961 TATTTA-AATTAATAATAT
1 TATTTATAATTATTAATAT
31207979 ATTAAATTAC
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
19 4 0.12
20 1 0.03
21 15 0.44
22 3 0.09
23 11 0.32
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (20 bp):
TATTTATAATTATTAATATT
Found at i:31208623 original size:46 final size:44
Alignment explanation
Indices: 31208569--31208662 Score: 120
Period size: 46 Copynumber: 2.1 Consensus size: 44
31208559 AAAGTCAAAA
*
31208569 TTAAATTTTATATTTTTATAATAATA-AAATTATAA-TTTAATTATT
1 TTAAATTTTATATTTTT-TAA-AATATAAATTAAAACTTT-ATTATT
31208614 TTAATATTTTATATTTTTTAAAATATTAAATTAAAACTTTATTATT
1 TTAA-ATTTTATATTTTTTAAAATA-TAAATTAAAACTTTATTATT
31208660 TTA
1 TTA
31208663 GGTTAAATTA
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
44 4 0.09
45 7 0.16
46 30 0.68
47 3 0.07
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (44 bp):
TTAAATTTTATATTTTTTAAAATATAAATTAAAACTTTATTATT
Found at i:31213166 original size:15 final size:15
Alignment explanation
Indices: 31213146--31213195 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
31213136 ATAATACGAG
31213146 AATTTAAATTTTGTT
1 AATTTAAATTTTGTT
**
31213161 AATTTAAATACTGTT
1 AATTTAAATTTTGTT
*
31213176 AAATTT-AATTTTATT
1 -AATTTAAATTTTGTT
31213191 AATTT
1 AATTT
31213196 CAATATATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
14 5 0.17
15 19 0.66
16 5 0.17
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (15 bp):
AATTTAAATTTTGTT
Found at i:31215060 original size:4 final size:4
Alignment explanation
Indices: 31215051--31215100 Score: 59
Period size: 4 Copynumber: 13.0 Consensus size: 4
31215041 TTTTACGATG
* * *
31215051 TAAA TAAA TAAA TAAG TAAG TAAG TAAA TAAA TAAA T-AA -AAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
31215097 TAAA
1 TAAA
31215101 ATATTTTTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 4 0.10
4 38 0.90
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:31216807 original size:3 final size:3
Alignment explanation
Indices: 31216799--31216840 Score: 75
Period size: 3 Copynumber: 13.7 Consensus size: 3
31216789 CATTAAGCCA
31216799 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ATAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA
31216841 GGTATTGCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:31219062 original size:28 final size:27
Alignment explanation
Indices: 31218976--31219105 Score: 97
Period size: 28 Copynumber: 4.7 Consensus size: 27
31218966 TATTATGATG
* * *
31218976 CGCCAC-AAGGACATTTATTTTAAAATT
1 CGCCACAAAGG-CATTTCTTTTAGATTT
* * * *
31219003 CGACACAAAGGCAGTTCTTTCA-ATAGTG
1 CGCCACAAAGGCATTTCTTTTAGAT--TT
31219031 CGCCACAAAGGCATTTCTTTTAGATTAT
1 CGCCACAAAGGCATTTCTTTTAGATT-T
*
31219059 CGCCAAAAAGGCA-TTCTTTTCAGAATTT
1 CGCCACAAAGGCATTTCTTTT-AG-ATTT
*
31219087 -GCCACAAAGGCAATTCTTT
1 CGCCACAAAGGCATTTCTTT
31219106 CCTATCGTGT
Statistics
Matches: 83, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
26 1 0.01
27 32 0.39
28 45 0.54
29 5 0.06
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (27 bp):
CGCCACAAAGGCATTTCTTTTAGATTT
Found at i:31219076 original size:55 final size:55
Alignment explanation
Indices: 31218974--31219077 Score: 131
Period size: 55 Copynumber: 1.9 Consensus size: 55
31218964 CTTATTATGA
*
31218974 TGCGCCACAAGGACATTTATTTTAAAATTCGACACAAAGGCAGTTCTTTCAATAG
1 TGCGCCACAAGGACATTTATTTTAAAATTCGACAAAAAGGCAGTTCTTTCAATAG
* * * *
31219029 TGCGCCACAAAGG-CATTTCTTTTAGATTATCGCCAAAAAGGCA-TTCTTT
1 TGCGCCAC-AAGGACATTTATTTTAAAAT-TCGACAAAAAGGCAGTTCTTT
31219078 TCAGAATTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
55 26 0.62
56 16 0.38
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (55 bp):
TGCGCCACAAGGACATTTATTTTAAAATTCGACAAAAAGGCAGTTCTTTCAATAG
Found at i:31227406 original size:27 final size:27
Alignment explanation
Indices: 31227353--31227406 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
31227343 AATCATTAGG
* * *
31227353 GGGTAATTCACCAGAAGAGGGAGATTC
1 GGGTAACTCACCAGAAGAGGAAAATTC
31227380 GGGTAACTCACCAGAAGAGGAAAATTC
1 GGGTAACTCACCAGAAGAGGAAAATTC
31227407 TTGGCACATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.37, C:0.17, G:0.30, T:0.17
Consensus pattern (27 bp):
GGGTAACTCACCAGAAGAGGAAAATTC
Found at i:31227584 original size:54 final size:54
Alignment explanation
Indices: 31227512--31227617 Score: 140
Period size: 54 Copynumber: 2.0 Consensus size: 54
31227502 TTTGAACAGA
* * * * *
31227512 AGTCTCCCCCTAAGCAGTAACTTCTCCTTGAACAATGGTTTTTTTTGGAATAGT
1 AGTCTCCCCCTAAACAGTAACATCCCCTTGAACAATGGTGTTTTTTAGAATAGT
* * *
31227566 AGTCTCCCTCTAAACAGTAGCATCCCCTTGAGCAATGGTGTTTTTTAGAATA
1 AGTCTCCCCCTAAACAGTAACATCCCCTTGAACAATGGTGTTTTTTAGAATA
31227618 AGGTTTTCAA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (54 bp):
AGTCTCCCCCTAAACAGTAACATCCCCTTGAACAATGGTGTTTTTTAGAATAGT
Found at i:31230038 original size:13 final size:13
Alignment explanation
Indices: 31230020--31230055 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
31230010 TTAAAAAAGT
31230020 AACAAATATAGTA
1 AACAAATATAGTA
* *
31230033 AACAAATATATTT
1 AACAAATATAGTA
31230046 AACAAATATA
1 AACAAATATA
31230056 AGGGTTATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.61, C:0.08, G:0.03, T:0.28
Consensus pattern (13 bp):
AACAAATATAGTA
Found at i:31242651 original size:25 final size:27
Alignment explanation
Indices: 31242606--31242661 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 27
31242596 GGGATCACTG
*
31242606 TTTTCCTATGCCATCCGAGTAGTG-AT
1 TTTTCCTATGCCATCCGAGTACTGAAT
*
31242632 TTTTCCTTTGCCGAT-C-AGTACTGAAT
1 TTTTCCTATGCC-ATCCGAGTACTGAAT
31242658 TTTT
1 TTTT
31242662 TAGTCATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 6 0.23
26 18 0.69
27 2 0.08
ACGTcount: A:0.18, C:0.21, G:0.16, T:0.45
Consensus pattern (27 bp):
TTTTCCTATGCCATCCGAGTACTGAAT
Found at i:31253028 original size:30 final size:29
Alignment explanation
Indices: 31252859--31253041 Score: 147
Period size: 30 Copynumber: 6.1 Consensus size: 29
31252849 CATTTTTTGC
* *
31252859 CCCCAAAGTTTT-TAAAAATTCAAATTTGA
1 CCCCAAA-TTTTCCAAAAATTCAAATTTAA
* * * *
31252888 CCTCGAATTTTCTAAAAATTCAAATTTCA
1 CCCCAAATTTTCCAAAAATTCAAATTTAA
*
31252917 CTACCAAATTTTCCAAAAATTCAAATTTAA
1 C-CCCAAATTTTCCAAAAATTCAAATTTAA
* * * *
31252947 TCCCTAAGGTTTT-CAAACATTCAAATTTGACC
1 -CCCCAA-ATTTTCCAAAAATTCAAATTT-A-A
31252979 CCCCAAATTTTCCAAAAATTCAAATTTAA
1 CCCCAAATTTTCCAAAAATTCAAATTTAA
* * *
31253008 CCCCTAAAGTTTT-AAAAAATTAAAATCTAA
1 CCCC-AAA-TTTTCCAAAAATTCAAATTTAA
31253038 CCCC
1 CCCC
31253042 GTTTTAATAT
Statistics
Matches: 125, Mismatches: 20, Indels: 17
0.77 0.12 0.10
Matches are distributed among these distances:
28 4 0.03
29 26 0.21
30 66 0.53
31 29 0.23
ACGTcount: A:0.41, C:0.22, G:0.04, T:0.33
Consensus pattern (29 bp):
CCCCAAATTTTCCAAAAATTCAAATTTAA
Found at i:31253041 original size:61 final size:61
Alignment explanation
Indices: 31252920--31253041 Score: 181
Period size: 61 Copynumber: 2.0 Consensus size: 61
31252910 AATTTCACTA
* * * * * * *
31252920 CCAAATTTTCCAAAAATTCAAATTTAATCCCTAAGGTTTTCAAACATTCAAATTTGACCCC
1 CCAAATTTTCCAAAAATTCAAATTTAACCCCTAAAGTTTTAAAAAATTAAAATCTAACCCC
31252981 CCAAATTTTCCAAAAATTCAAATTTAACCCCTAAAGTTTTAAAAAATTAAAATCTAACCCC
1 CCAAATTTTCCAAAAATTCAAATTTAACCCCTAAAGTTTTAAAAAATTAAAATCTAACCCC
31253042 GTTTTAATAT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 54 1.00
ACGTcount: A:0.42, C:0.24, G:0.03, T:0.31
Consensus pattern (61 bp):
CCAAATTTTCCAAAAATTCAAATTTAACCCCTAAAGTTTTAAAAAATTAAAATCTAACCCC
Found at i:31264775 original size:50 final size:50
Alignment explanation
Indices: 31264716--31264820 Score: 165
Period size: 50 Copynumber: 2.1 Consensus size: 50
31264706 AGGTGCAGAT
* *
31264716 TGAAACCGCAATGGTAAATCTCATACATCTAAAGCTGTAGAGGGGAAGAA
1 TGAAGCCGCAATGGTAAATCTCATACACCTAAAGCTGTAGAGGGGAAGAA
* * *
31264766 TGAAGCCGCAATGGTAAATCTCATTCACCTAAAGCTGTAGAGGGGCAGAT
1 TGAAGCCGCAATGGTAAATCTCATACACCTAAAGCTGTAGAGGGGAAGAA
31264816 TGAAG
1 TGAAG
31264821 TCACAAGGAC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (50 bp):
TGAAGCCGCAATGGTAAATCTCATACACCTAAAGCTGTAGAGGGGAAGAA
Found at i:31264847 original size:50 final size:50
Alignment explanation
Indices: 31264724--31264852 Score: 145
Period size: 50 Copynumber: 2.6 Consensus size: 50
31264714 ATTGAAACCG
* * *
31264724 CAATGGTAAATCTCATACATCTAAAGCTGTAGAGGGGAAGAATGAAGCCG
1 CAATGGTAAATCTCATGCACCTAAAGCTGTAGAGGGGAAGAATGAAGCCA
* * * *
31264774 CAATGGTAAATCTCATTCACCTAAAGCTGTAGAGGGGCAGATTGAAGTCA
1 CAATGGTAAATCTCATGCACCTAAAGCTGTAGAGGGGAAGAATGAAGCCA
* *
31264824 CAA-GG-ACGAATCTTATGCTCCTAAAGCTG
1 CAATGGTA--AATCTCATGCACCTAAAGCTG
31264853 AAATGAAGTG
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
48 1 0.01
49 2 0.03
50 65 0.96
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (50 bp):
CAATGGTAAATCTCATGCACCTAAAGCTGTAGAGGGGAAGAATGAAGCCA
Found at i:31264927 original size:40 final size:40
Alignment explanation
Indices: 31264874--31265128 Score: 293
Period size: 40 Copynumber: 6.4 Consensus size: 40
31264864 AGTTGCAATC
* *
31264874 TCCAATCTCTTACCCTAA-CTAGAGGGCATATTGAAGACAA
1 TCCAATCTTTTACCCTAATC-AGAGGGCAGATTGAAGACAA
*
31264914 TCCAATCTTTTACCCTAATCATG-GGGTAGATTGAA-AGCAA
1 TCCAATCTTTTACCCTAATCA-GAGGGCAGATTGAAGA-CAA
* * * *
31264954 TCCAATCTTTTACCCGAACCAGAGGGCATATTGAAGACCA
1 TCCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACAA
* * ** * *
31264994 TCCGATCTCTTACCCCGATCACG-GGGCAGATTGAAAACTA
1 TCCAATCTTTTACCCTAATCA-GAGGGCAGATTGAAGACAA
* *
31265034 TCCAATCTATTACCCTAATCAGAGGGCAGATTGAAGACCA
1 TCCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACAA
* *
31265074 TCCAATCTTTTACCTTAATTAGAGGGCAGATTGAAGACAA
1 TCCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACAA
31265114 TCCAATCTTTTACCC
1 TCCAATCTTTTACCC
31265129 CTAAAGTTAT
Statistics
Matches: 181, Mismatches: 27, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.02
40 174 0.96
41 4 0.02
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.26
Consensus pattern (40 bp):
TCCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACAA
Found at i:31264978 original size:80 final size:79
Alignment explanation
Indices: 31264874--31265128 Score: 323
Period size: 80 Copynumber: 3.2 Consensus size: 79
31264864 AGTTGCAATC
* * *
31264874 TCCAATCTCTTACCCTAACTAGAGGGCATATTGAAGACAATCCAATCTTTTACCCTAATCATGGG
1 TCCAATCTTTTACCCTAACCAGAGGGCATATTGAAGACCATCCAATCTTTTACCCTAATCA-GGG
*
31264939 GTAGATTGAAAGCAA
65 GCAGATTGAAAGCAA
* * * **
31264954 TCCAATCTTTTACCCGAACCAGAGGGCATATTGAAGACCATCCGATCTCTTACCCCGATCACGGG
1 TCCAATCTTTTACCCTAACCAGAGGGCATATTGAAGACCATCCAATCTTTTACCCTAATCA-GGG
* *
31265019 GCAGATTGAAAACTA
65 GCAGATTGAAAGCAA
* * * * *
31265034 TCCAATCTATTACCCTAATCAGAGGGCAGATTGAAGACCATCCAATCTTTTACCTTAATTAGAGG
1 TCCAATCTTTTACCCTAACCAGAGGGCATATTGAAGACCATCCAATCTTTTACCCTAATCAG-GG
31265099 GCAGATTG-AAGACAA
65 GCAGATTGAAAG-CAA
31265114 TCCAATCTTTTACCC
1 TCCAATCTTTTACCC
31265129 CTAAAGTTAT
Statistics
Matches: 148, Mismatches: 25, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
79 3 0.02
80 145 0.98
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.26
Consensus pattern (79 bp):
TCCAATCTTTTACCCTAACCAGAGGGCATATTGAAGACCATCCAATCTTTTACCCTAATCAGGGG
CAGATTGAAAGCAA
Found at i:31265546 original size:16 final size:15
Alignment explanation
Indices: 31265527--31265574 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
31265517 TATTATTTAT
31265527 TAAATAAATAAACAAA
1 TAAA-AAATAAACAAA
*
31265543 TAAAGAAATAATAGAAA
1 TAAA-AAATAA-ACAAA
*
31265560 TAAAAAATATACAAA
1 TAAAAAATAAACAAA
31265575 CCCAATTTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 4 0.15
16 15 0.56
17 8 0.30
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.19
Consensus pattern (15 bp):
TAAAAAATAAACAAA
Found at i:31265560 original size:9 final size:8
Alignment explanation
Indices: 31265527--31265568 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
31265517 TATTATTTAT
*
31265527 TAAATAAA
1 TAAAGAAA
*
31265535 TAAACAAA
1 TAAAGAAA
31265543 TAAAGAAA
1 TAAAGAAA
31265551 TAATAGAAA
1 TAA-AGAAA
31265560 TAAA-AAA
1 TAAAGAAA
31265567 TA
1 TA
31265569 TACAAACCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
7 5 0.16
8 18 0.58
9 8 0.26
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (8 bp):
TAAAGAAA
Found at i:31266784 original size:30 final size:30
Alignment explanation
Indices: 31266735--31266859 Score: 146
Period size: 30 Copynumber: 4.2 Consensus size: 30
31266725 ATCATTTTTT
*
31266735 ACCCCCAAAGTTTTC-AAAAATTCAAATTTG
1 ACCCCCAAA-TTTTCTAAAAATTCAAATTTA
* *
31266765 ACCCCCGAATTTTCTAAAAATTCAAATTTC
1 ACCCCCAAATTTTCTAAAAATTCAAATTTA
*
31266795 ACCACCAAATTTTCTAAAAATTCAAATTTA
1 ACCCCCAAATTTTCTAAAAATTCAAATTTA
* * * *
31266825 ACCCCTAAAGTTTT-AAAAAATTAAAATCTA
1 ACCCCCAAA-TTTTCTAAAAATTCAAATTTA
31266855 ACCCC
1 ACCCC
31266860 ATTTTAATAT
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 5 0.06
30 74 0.89
31 4 0.05
ACGTcount: A:0.42, C:0.24, G:0.03, T:0.30
Consensus pattern (30 bp):
ACCCCCAAATTTTCTAAAAATTCAAATTTA
Found at i:31267297 original size:39 final size:39
Alignment explanation
Indices: 31267253--31267686 Score: 381
Period size: 39 Copynumber: 10.9 Consensus size: 39
31267243 GATCGTCTTC
*
31267253 AATCTGCCCCATGATCGGGGTAAGAGATTGGATGACAT-A
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGATGGC-TGA
* * * **
31267292 AATCTGCCTCATGATCAGGGTAAGAGATTGGACGGCTTC
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGATGGCTGA
* * **
31267331 AA-CTTGCCCCATGATCGAGGTGAGAGATTGGATGGCTTC
1 AATC-TGCCCCATGATCGGGGTAAGAGATTGGATGGCTGA
* * *
31267370 AATCTGCCCTATGATTGGGGTAAGAGATTGGATGATGGCTGC
1 AATCTGCCCCATGATCGGGGTAAGAGATT-G--GATGGCTGA
* ** *
31267412 AATCTGCCCTATGATTAGGGTAAGAGATTGGACGGCT-A
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGATGGCTGA
* * *
31267450 CAATCTACCCCATGATCGGGGTAAGAGATTGAAAGGCT-A
1 -AATCTGCCCCATGATCGGGGTAAGAGATTGGATGGCTGA
* * *
31267489 CAATCTGCCCCATGATTGGGGTAAGAGATTGGATGATGGTTGC
1 -AATCTGCCCCATGATCGGGGTAAGAGATT-G--GATGGCTGA
* * *
31267532 AATTTGCCCCATGATCAGGGTAAGAGATTGGATGGCTGT
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGATGGCTGA
* * * * * *
31267571 AATCTGCCTCATGATTGGGGTAAGAGATTGAAAGACTGT
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGATGGCTGA
* *
31267610 AATCTGCCCCATGATCGAGGTAAGAGATTAGATGATGGCTAA
1 AATCTGCCCCATGATCGGGGTAAGAGATT-G--GATGGCTGA
* * * *
31267652 AATCTGTCCCATGATCGGGATAAAAGATTAGATGG
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGATGG
31267687 TGATGTAACT
Statistics
Matches: 326, Mismatches: 55, Indels: 28
0.80 0.13 0.07
Matches are distributed among these distances:
38 2 0.01
39 223 0.68
40 4 0.01
41 2 0.01
42 95 0.29
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (39 bp):
AATCTGCCCCATGATCGGGGTAAGAGATTGGATGGCTGA
Found at i:31267461 original size:120 final size:120
Alignment explanation
Indices: 31267249--31267680 Score: 513
Period size: 120 Copynumber: 3.6 Consensus size: 120
31267239 CTTGGATCGT
31267249 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGA---CAT-AAATCTG-CCTCATGATCA
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGGC-TGAAATCTGCCCT-ATGATCA
* * * * *
31267309 GGGTAAGAGATTGGACGGCTTCAA-CTTGCCCCATGATCGAGGTGAGAGATTGGATGG
64 GGGTAAGAGATTGGACGGCTACAATC-TGCCCCATGATCGGGGTAAGAGATTGAAAGG
* * * *
31267366 CTTCAATCTGCCCTATGATTGGGGTAAGAGATTGGATGATGGCTGCAATCTGCCCTATGATTAGG
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGGCTGAAATCTGCCCTATGATCAGG
*
31267431 GTAAGAGATTGGACGGCTACAATCTACCCCATGATCGGGGTAAGAGATTGAAAGG
66 GTAAGAGATTGGACGGCTACAATCTGCCCCATGATCGGGGTAAGAGATTGAAAGG
* * * * * *
31267486 CTACAATCTGCCCCATGATTGGGGTAAGAGATTGGATGATGGTTGCAATTTGCCCCATGATCAGG
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGGCTGAAATCTGCCCTATGATCAGG
* ** * * *
31267551 GTAAGAGATTGGATGGCTGTAATCTGCCTCATGATTGGGGTAAGAGATTGAAAGA
66 GTAAGAGATTGGACGGCTACAATCTGCCCCATGATCGGGGTAAGAGATTGAAAGG
* * *
31267606 CTGT-AATCTGCCCCATGATCGAGGTAAGAGATTAGATGATGGCTAAAATCTGTCCC-ATGATC-
1 CT-TCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGGCTGAAATCTG-CCCTATGATCA
*
31267668 GGGATAAAAGATT
64 GGG-TAAGAGATT
31267681 AGATGGTGAT
Statistics
Matches: 274, Mismatches: 32, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
117 37 0.14
119 4 0.01
120 226 0.82
121 7 0.03
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.26
Consensus pattern (120 bp):
CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGGCTGAAATCTGCCCTATGATCAGG
GTAAGAGATTGGACGGCTACAATCTGCCCCATGATCGGGGTAAGAGATTGAAAGG
Found at i:31267566 original size:159 final size:157
Alignment explanation
Indices: 31267252--31267686 Score: 464
Period size: 159 Copynumber: 2.7 Consensus size: 157
31267242 GGATCGTCTT
* * * * *
31267252 CAATCTGCCCCATGATCGGGGTAAGAGATTGGATGACATAAATCTGCCTCATGATCAGGGTAAGA
1 CAATCTGCCCTATGATTGGGGTAAGAGATTGGAAGAC-TAAATCTGCCCCATGATCGGGGTAAGA
* * * * * *
31267317 GATTGGACGGCTTCAA-CTTGCCCCATGATCGAGGTGAGAGATTGGATGGCTTCAATCTGCCCTA
65 GATTGAAAGGCTACAATC-TGCCCCATGATCGGGGTAAGAGATTGGATGGCTTCAATCTGCCCCA
**
31267381 TGATTGGGGTAAGAGATTGGATGATGGCTG
129 TGATCAGGGTAAGAGATTGGA-GATGGCTG
* * * *
31267411 CAATCTGCCCTATGATTAGGGTAAGAGATTGGACGGCTACAATCTACCCCATGATCGGGGTAAGA
1 CAATCTGCCCTATGATTGGGGTAAGAGATTGGAAGACTA-AATCTGCCCCATGATCGGGGTAAGA
* * *
31267476 GATTGAAAGGCTACAATCTGCCCCATGATTGGGGTAAGAGATTGGATGATGGTTGCAATTTGCCC
65 GATTGAAAGGCTACAATCTGCCCCATGATCGGGGTAAGAGATTGGATG--GCTT-CAATCTGCCC
31267541 CATGATCAGGGTAAGAGATT-G-GATGGCTG
127 CATGATCAGGGTAAGAGATTGGAGATGGCTG
* * * *
31267570 TAATCTG-CCTCATGATTGGGGTAAGAGATTGAAAGACTGTAATCTGCCCCATGATCGAGGTAAG
1 CAATCTGCCCT-ATGATTGGGGTAAGAGATTGGAAGACT-AAATCTGCCCCATGATCGGGGTAAG
* * * * * *
31267634 AGATTAGATGATGGCTAAAATCTGTCCCATGATCGGGATAAAAGATTAGATGG
64 AGATT-GA--AAGGCTACAATCTGCCCCATGATCGGGGTAAGAGATTGGATGG
31267687 TGATGTAACT
Statistics
Matches: 232, Mismatches: 34, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
158 5 0.02
159 158 0.68
160 4 0.02
161 4 0.02
162 61 0.26
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (157 bp):
CAATCTGCCCTATGATTGGGGTAAGAGATTGGAAGACTAAATCTGCCCCATGATCGGGGTAAGAG
ATTGAAAGGCTACAATCTGCCCCATGATCGGGGTAAGAGATTGGATGGCTTCAATCTGCCCCATG
ATCAGGGTAAGAGATTGGAGATGGCTG
Found at i:31267680 original size:81 final size:78
Alignment explanation
Indices: 31267252--31267680 Score: 336
Period size: 81 Copynumber: 5.4 Consensus size: 78
31267242 GGATCGTCTT
* * * *
31267252 CAATCTGCCCCATGATCGGGGTAAGAGATTGGATGACAT-AAATCTGCCTCATGATC-AGGGTAA
1 CAATCTG-CCCATGATTGGGGTAAGAGATTGGAAGAC-TGTAATCTGCCCCATGATCGA-GGTAA
* *
31267315 GAGATTG-GACGGCTT
63 GAGATTGAGATGGCTA
* * * * * * * *
31267330 CAA-CTTGCCCCATGATCGAGGTGAGAGATTGGATGGCT-TCAATCTGCCCTATGATTGGGGTAA
1 CAATC-TG-CCCATGATTGGGGTAAGAGATTGGAAGACTGT-AATCTGCCCCATGATCGAGGTAA
*
31267393 GAGATTGGATGATGGCTG
63 GAGATT-GA-GATGGCTA
* * * ** * *
31267411 CAATCTGCCCTATGATTAGGGTAAGAGATTGGACGGCTACAATCTACCCCATGATCGGGGTAAGA
1 CAATCTGCCC-ATGATTGGGGTAAGAGATTGGAAGACTGTAATCTGCCCCATGATCGAGGTAAGA
*
31267476 GATTGA-AAGGCTA
65 GATTGAGATGGCTA
* *
31267489 CAATCTGCCCCATGATTGGGGTAAGAGATTGGATGA-TGGTTGCAATTTGCCCCATGATC-AGGG
1 CAATCTG-CCCATGATTGGGGTAAGAGATTGGAAGACT-G-T--AATCTGCCCCATGATCGA-GG
*
31267552 TAAGAGATTG-GATGGCTG
60 TAAGAGATTGAGATGGCTA
* *
31267570 TAATCTGCCTCATGATTGGGGTAAGAGATTGAAAGACTGTAATCTGCCCCATGATCGAGGTAAGA
1 CAATCTGCC-CATGATTGGGGTAAGAGATTGGAAGACTGTAATCTGCCCCATGATCGAGGTAAGA
31267635 GATTAGATGATGGCTA
65 GATT-GA-GATGGCTA
* * * *
31267651 AAATCTGTCCCATGATCGGGATAAAAGATT
1 CAATCTG-CCCATGATTGGGGTAAGAGATT
31267681 AGATGGTGAT
Statistics
Matches: 288, Mismatches: 40, Indels: 43
0.78 0.11 0.12
Matches are distributed among these distances:
77 3 0.01
78 116 0.40
79 6 0.02
80 8 0.03
81 151 0.52
82 4 0.01
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (78 bp):
CAATCTGCCCATGATTGGGGTAAGAGATTGGAAGACTGTAATCTGCCCCATGATCGAGGTAAGAG
ATTGAGATGGCTA
Found at i:31268272 original size:49 final size:48
Alignment explanation
Indices: 31268215--31268487 Score: 178
Period size: 49 Copynumber: 5.6 Consensus size: 48
31268205 CCATTGTGGT
*
31268215 CTCAACCTTTCCCTTCATATCTTTATGGTACCAGGTTTGCTGTTACGGC
1 CTCAACCTTTCCCTTCATATCTTTATGGTACC-GGTTTGCTGTTGCGGC
* * * * *
31268264 CTCAACCTTTCTCGTCATGTCTTCATGGTACCGAATTTG-TCGTTGCGGC
1 CTCAACCTTTCCCTTCATATCTTTATGGTACCG-GTTTGCT-GTTGCGGC
* * * * * * ** *
31268313 CTCAATCC-TTCTCATCACATATTCTAAGGTATCGGGTTCACCGTTGCGGC
1 CTCAA-CCTTTCCCTTCATATCTT-TATGGTA-CCGGTTTGCTGTTGCGGC
* **
31268363 CTCAACCTTTCCCTTCAAAT-TTTCATGGTACCGAATT-CGTCGTTGCGGC
1 CTCAACCTTTCCCTTCATATCTTT-ATGGTACCGGTTTGC-T-GTTGCGGC
* * * ** **
31268412 CTCAACCTTTCCCATCATGTCTTTTAAGGTACCGGATTTGCCATTGTAGC
1 CTCAACCTTTCCCTTCATATC-TTTATGGTACCGG-TTTGCTGTTGCGGC
*
31268462 CTCAACCTTTCCCTTCA-ATCTCTATG
1 CTCAACCTTTCCCTTCATATCTTTATG
31268488 TTTTTTCGGT
Statistics
Matches: 170, Mismatches: 40, Indels: 29
0.71 0.17 0.12
Matches are distributed among these distances:
47 1 0.01
48 10 0.06
49 91 0.54
50 60 0.35
51 7 0.04
52 1 0.01
ACGTcount: A:0.18, C:0.30, G:0.16, T:0.36
Consensus pattern (48 bp):
CTCAACCTTTCCCTTCATATCTTTATGGTACCGGTTTGCTGTTGCGGC
Found at i:31268440 original size:99 final size:99
Alignment explanation
Indices: 31268215--31268479 Score: 300
Period size: 99 Copynumber: 2.7 Consensus size: 99
31268205 CCATTGTGGT
* * * * * * *
31268215 CTCAACCTTTCCCTTCATATC-TTTATGGTACCAGGTTTGCTGTTACGGCCTCAACCTTTCTCGT
1 CTCAACCTTTCCCATCATATCTTTTAAGGTACCGGGTTTGCCGTTGCGGCCTCAACCTTTCCCTT
** *
31268279 CATGTCTTCATGGTACCGAATTTGTCGTTGCGGC
66 CAAATCTTCATGGTACCGAATTCGTCGTTGCGGC
* * * * * **
31268313 CTCAATCC-TTCTCATCACATATTCTAAGGTATCGGGTTCACCGTTGCGGCCTCAACCTTTCCCT
1 CTCAA-CCTTTCCCATCATATCTTTTAAGGTACCGGGTTTGCCGTTGCGGCCTCAACCTTTCCCT
*
31268377 TCAAATTTTCATGGTACCGAATTCGTCGTTGCGGC
65 TCAAATCTTCATGGTACCGAATTCGTCGTTGCGGC
* * * **
31268412 CTCAACCTTTCCCATCATGTCTTTTAAGGTACCGGATTTGCCATTGTAGCCTCAACCTTTCCCTT
1 CTCAACCTTTCCCATCATATCTTTTAAGGTACCGGGTTTGCCGTTGCGGCCTCAACCTTTCCCTT
31268477 CAA
66 CAA
31268480 TCTCTATGTT
Statistics
Matches: 134, Mismatches: 30, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
98 16 0.12
99 118 0.88
ACGTcount: A:0.18, C:0.30, G:0.16, T:0.35
Consensus pattern (99 bp):
CTCAACCTTTCCCATCATATCTTTTAAGGTACCGGGTTTGCCGTTGCGGCCTCAACCTTTCCCTT
CAAATCTTCATGGTACCGAATTCGTCGTTGCGGC
Found at i:31269514 original size:10 final size:10
Alignment explanation
Indices: 31269499--31269534 Score: 54
Period size: 11 Copynumber: 3.4 Consensus size: 10
31269489 CGACCTCTCC
31269499 TTTTCTTTTT
1 TTTTCTTTTT
31269509 TTTTCTTTTT
1 TTTTCTTTTT
31269519 TCTTTCTTTTT
1 T-TTTCTTTTT
31269530 CTTTT
1 -TTTT
31269535 TCTCTTCCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 11 0.46
11 12 0.50
12 1 0.04
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:31269521 original size:17 final size:17
Alignment explanation
Indices: 31269499--31269540 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
31269489 CGACCTCTCC
*
31269499 TTTTCTTTTTTTTTCTT
1 TTTTCTTTCTTTTTCTT
31269516 TTTTCTTTCTTTTTCTT
1 TTTTCTTTCTTTTTCTT
31269533 TTTCTCTT
1 TTT-TCTT
31269541 CCCCTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTCTTTCTTTTTCTT
Found at i:31277576 original size:16 final size:17
Alignment explanation
Indices: 31277542--31277585 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
31277532 CGGAATTGGG
* *
31277542 GTTTAATTTTTCTTATT
1 GTTTGATTTTTATTATT
31277559 GTTTGATTTTTATT-TT
1 GTTTGATTTTTATTATT
*
31277575 GTTTGGTTTTT
1 GTTTGATTTTT
31277586 TATCTTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 12 0.50
17 12 0.50
ACGTcount: A:0.11, C:0.02, G:0.14, T:0.73
Consensus pattern (17 bp):
GTTTGATTTTTATTATT
Found at i:31278120 original size:17 final size:15
Alignment explanation
Indices: 31278093--31278131 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
31278083 AATTTTTTAA
*
31278093 TTTTTAAACTTATTAT
1 TTTTTATACTTATT-T
31278109 TTGTTTATACTTATTT
1 TT-TTTATACTTATTT
31278125 TTTTTAT
1 TTTTTAT
31278132 TGAACTCAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 5 0.24
17 11 0.52
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (15 bp):
TTTTTATACTTATTT
Found at i:31278424 original size:13 final size:13
Alignment explanation
Indices: 31278402--31278440 Score: 62
Period size: 12 Copynumber: 3.1 Consensus size: 13
31278392 TTTTAAAAAG
*
31278402 ATAAATATTAAAT
1 ATAAAAATTAAAT
31278415 ATAAAAATTAAAT
1 ATAAAAATTAAAT
31278428 -TAAAAATTAAAT
1 ATAAAAATTAAAT
31278440 A
1 A
31278441 AAATTAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 12 0.50
13 12 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
ATAAAAATTAAAT
Found at i:31278433 original size:12 final size:12
Alignment explanation
Indices: 31278403--31278453 Score: 61
Period size: 12 Copynumber: 4.3 Consensus size: 12
31278393 TTTAAAAAGA
*
31278403 TAAATATTAAAT
1 TAAAAATTAAAT
31278415 ATAAAAATTAAAT
1 -TAAAAATTAAAT
31278428 TAAAAATTAAA-
1 TAAAAATTAAAT
*
31278439 T-AAAATTAATT
1 TAAAAATTAAAT
31278450 TAAA
1 TAAA
31278454 TAAAATATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
10 8 0.24
11 2 0.06
12 13 0.38
13 11 0.32
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
TAAAAATTAAAT
Found at i:31280116 original size:17 final size:16
Alignment explanation
Indices: 31280081--31280112 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
31280071 ACCCCCTAAA
*
31280081 AATAAAAAATTTGATT
1 AATAAAAAAATTGATT
31280097 AATAAAAAAATTGATT
1 AATAAAAAAATTGATT
31280113 TAATCCTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.34
Consensus pattern (16 bp):
AATAAAAAAATTGATT
Found at i:31280209 original size:22 final size:21
Alignment explanation
Indices: 31280156--31280205 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
31280146 TAAAATAGTG
*
31280156 AAATTATATTTTTCTATCGTA
1 AAATTACATTTTTCTATCGTA
31280177 AAATTACATTTTTCTATCGTA
1 AAATTACATTTTTCTATCGTA
31280198 AAATTACA
1 AAATTACA
31280206 ATTTAACTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.38, C:0.12, G:0.04, T:0.46
Consensus pattern (21 bp):
AAATTACATTTTTCTATCGTA
Found at i:31281067 original size:17 final size:18
Alignment explanation
Indices: 31281026--31281067 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
31281016 TAAAAAAATC
* *
31281026 AATTTTTACTATTTTAAT
1 AATTTTTACTAATATAAT
*
31281044 AACTTTTAC-AATATAAT
1 AATTTTTACTAATATAAT
31281061 AATTTTT
1 AATTTTT
31281068 TCAGTTCTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (18 bp):
AATTTTTACTAATATAAT
Found at i:31281975 original size:18 final size:18
Alignment explanation
Indices: 31281952--31281989 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
31281942 TAATAAAATG
*
31281952 TATATAATAAA-ATTAAAA
1 TATATAA-AAATATCAAAA
31281970 TATATAAAAATATCAAAA
1 TATATAAAAATATCAAAA
31281988 TA
1 TA
31281990 AAAATTTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (18 bp):
TATATAAAAATATCAAAA
Found at i:31282208 original size:19 final size:19
Alignment explanation
Indices: 31282166--31282210 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
31282156 CACCAACTCA
*
31282166 TAAAATGTGCATAATAAAAT
1 TAAAATGT-CATAAAAAAAT
31282186 TAAAATGT-ATAAAAAATAT
1 TAAAATGTCATAAAAAA-AT
31282205 TAAAAT
1 TAAAAT
31282211 AAAGTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 7 0.30
19 8 0.35
20 8 0.35
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (19 bp):
TAAAATGTCATAAAAAAAT
Found at i:31285958 original size:2 final size:2
Alignment explanation
Indices: 31285951--31285979 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
31285941 GATTAATGAA
31285951 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
31285980 AGACATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:31286475 original size:17 final size:18
Alignment explanation
Indices: 31286453--31286488 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
31286443 TAAATGAGTT
31286453 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
31286470 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
31286488 A
1 A
31286489 TAGAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:31286800 original size:6 final size:6
Alignment explanation
Indices: 31286789--31286827 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
31286779 TGATCAAAAT
* *
31286789 TGAAAG TGAAAG TGAAAG TGAAAT TGAAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
31286828 TATGAATTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.28, T:0.23
Consensus pattern (6 bp):
TGAAAG
Found at i:31286977 original size:41 final size:40
Alignment explanation
Indices: 31286930--31287029 Score: 107
Period size: 38 Copynumber: 2.5 Consensus size: 40
31286920 CGACCTTGAG
** *
31286930 TCGATGAGACACTGGGTGTCATTATTTTACTTCGGATAGA
1 TCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAGA
** *
31286970 TTCGATGAGGTACT-GG-GT-ACCACTTTACTTCGGCTAGA
1 -TCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAGA
*
31287008 CCGATGAGACACTGGGTGTCAC
1 TCGATGAGACACTGGGTGTCAC
31287030 TTTATTGCTT
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
37 10 0.21
38 18 0.38
39 4 0.09
40 4 0.09
41 11 0.23
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (40 bp):
TCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAGA
Found at i:31287022 original size:37 final size:38
Alignment explanation
Indices: 31286955--31287033 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 38
31286945 GTGTCATTAT
* **
31286955 TTTACTTCGGATAGATTCGATGAGGTACTGGGTACCAC
1 TTTACTTCGGATAGATCCGATGAGACACTGGGTACCAC
* **
31286993 TTTACTTCGGCTAGA-CCGATGAGACACTGGGTGTCAC
1 TTTACTTCGGATAGATCCGATGAGACACTGGGTACCAC
31287030 TTTA
1 TTTA
31287034 TTGCTTCGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
37 21 0.60
38 14 0.40
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (38 bp):
TTTACTTCGGATAGATCCGATGAGACACTGGGTACCAC
Found at i:31288245 original size:87 final size:86
Alignment explanation
Indices: 31288093--31288259 Score: 212
Period size: 87 Copynumber: 1.9 Consensus size: 86
31288083 TACATGCATA
* * *
31288093 AGGTTGAGTTCTCACTCTTAATGAGTTCATATCTCAATATTTGAGTGGTCATATTAAGACAGACT
1 AGGTTGAGTTATCACTCTTAATGAATTCATATCTCAATATTTGAGTGATCATATTAAGACAGACT
*
31288158 TGATGAATTCACCGACATGAG
66 TGATGAATGCACCGACATGAG
* * * * *
31288179 AGGTTGAGTTTATTACTCTTAATGAATTCATATCTCAGA-GTTTGGGTGATCTTATTGAA-ACGG
1 AGGTTGAG-TTATCACTCTTAATGAATTCATATCTCA-ATATTTGAGTGATCATATT-AAGACAG
31288242 ACTTGATGAATGCACCGA
63 ACTTGATGAATGCACCGA
31288260 ACTTAAATTT
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
86 8 0.12
87 58 0.84
88 3 0.04
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (86 bp):
AGGTTGAGTTATCACTCTTAATGAATTCATATCTCAATATTTGAGTGATCATATTAAGACAGACT
TGATGAATGCACCGACATGAG
Found at i:31292424 original size:20 final size:20
Alignment explanation
Indices: 31292401--31292454 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
31292391 AGAAGCATAC
31292401 TTGTATCGGTAGAACTGAAG
1 TTGTATCGGTAGAACTGAAG
* *
31292421 TTGTATCAGTAGAAGTGAAG
1 TTGTATCGGTAGAACTGAAG
* *
31292441 TTCTACCGGTAGAA
1 TTGTATCGGTAGAA
31292455 GTCTCAAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.30
Consensus pattern (20 bp):
TTGTATCGGTAGAACTGAAG
Found at i:31293981 original size:18 final size:18
Alignment explanation
Indices: 31293958--31293999 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
31293948 CCTTTCCATC
31293958 TCTTCATCTTCATCCACTT
1 TCTTCA-CTTCATCCACTT
* *
31293977 T-TTCACTTGATTCACTT
1 TCTTCACTTCATCCACTT
31293994 TCTTCA
1 TCTTCA
31294000 ATAGTGGTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 11 0.55
18 8 0.40
19 1 0.05
ACGTcount: A:0.17, C:0.31, G:0.02, T:0.50
Consensus pattern (18 bp):
TCTTCACTTCATCCACTT
Found at i:31307643 original size:8 final size:8
Alignment explanation
Indices: 31307630--31307663 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
31307620 GCATGTTTTC
31307630 TTTGTAAT
1 TTTGTAAT
31307638 TTTGTAAT
1 TTTGTAAT
31307646 TTTGTAAT
1 TTTGTAAT
31307654 TTTGTAAT
1 TTTGTAAT
31307662 TT
1 TT
31307664 ACTCTTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.65
Consensus pattern (8 bp):
TTTGTAAT
Found at i:31308155 original size:28 final size:26
Alignment explanation
Indices: 31308124--31308194 Score: 72
Period size: 28 Copynumber: 2.6 Consensus size: 26
31308114 TCGAATTAAT
31308124 TTTTTATTTCTTTTTTAATTT-TCGTATC
1 TTTTT-TTTCTTTTTT-ATTTCTC-TATC
*
31308152 TTTTCCTTTTCTTTTTTCTTTCTCTATC
1 TTTT--TTTTCTTTTTTATTTCTCTATC
*
31308180 TTTTTTTTTTTTTTT
1 TTTTTTTTCTTTTTT
31308195 TTTTATAATC
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
26 10 0.26
28 15 0.39
29 12 0.32
30 1 0.03
ACGTcount: A:0.07, C:0.14, G:0.01, T:0.77
Consensus pattern (26 bp):
TTTTTTTTCTTTTTTATTTCTCTATC
Found at i:31308155 original size:29 final size:27
Alignment explanation
Indices: 31308123--31308195 Score: 76
Period size: 29 Copynumber: 2.6 Consensus size: 27
31308113 ATCGAATTAA
31308123 TTTTTTATTTCTTTTTTAATTT-TCGTATC
1 TTTTTT-TTTCTTTTTT-ATTTCTC-TATC
* *
31308152 TTTTCCTTTTCTTTTTTCTTTCTCTATC
1 TTTT-TTTTTCTTTTTTATTTCTCTATC
*
31308180 TTTTTTTTTTTTTTTT
1 TTTTTTTTTCTTTTTT
31308196 TTTATAATCC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
27 10 0.26
28 11 0.29
29 16 0.42
30 1 0.03
ACGTcount: A:0.07, C:0.14, G:0.01, T:0.78
Consensus pattern (27 bp):
TTTTTTTTTCTTTTTTATTTCTCTATC
Found at i:31308513 original size:19 final size:19
Alignment explanation
Indices: 31308487--31308525 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
31308477 AATAAATAAT
31308487 TTTAAAAAATT-CAAAATG
1 TTTAAAAAATTCCAAAATG
31308505 TTTATAAAAATTCCAAAATG
1 TTTA-AAAAATTCCAAAATG
31308525 T
1 T
31308526 ATATTTTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 7 0.37
20 8 0.42
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.36
Consensus pattern (19 bp):
TTTAAAAAATTCCAAAATG
Found at i:31313831 original size:37 final size:37
Alignment explanation
Indices: 31313781--31313896 Score: 171
Period size: 37 Copynumber: 3.2 Consensus size: 37
31313771 GAGTACGACA
*
31313781 TTAAAGTAACTCGTGGGGTTCTCGTTTTGATGAAAGG
1 TTAAAGTATCTCGTGGGGTTCTCGTTTTGATGAAAGG
*
31313818 TTAAAGTATCTCGTGGGGTTCTCGTTTAGATGAAAGG
1 TTAAAGTATCTCGTGGGGTTCTCGTTTTGATGAAAGG
* * *
31313855 TTAATGTATCTTGTGGGGTTCTC-ATTTGATGAAAGG
1 TTAAAGTATCTCGTGGGGTTCTCGTTTTGATGAAAGG
*
31313891 TAAAAG
1 TTAAAG
31313897 GATCGATAGT
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
36 15 0.21
37 56 0.79
ACGTcount: A:0.26, C:0.09, G:0.28, T:0.36
Consensus pattern (37 bp):
TTAAAGTATCTCGTGGGGTTCTCGTTTTGATGAAAGG
Found at i:31314588 original size:24 final size:25
Alignment explanation
Indices: 31314553--31314602 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 25
31314543 GATATATTTA
*
31314553 TTAGTATTTATTAGTATAATTTATT
1 TTAGTATTTATTAGCATAATTTATT
31314578 TTAG-ATTTATTAGCATAATTTATT
1 TTAGTATTTATTAGCATAATTTATT
31314602 T
1 T
31314603 GACTTACGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (25 bp):
TTAGTATTTATTAGCATAATTTATT
Found at i:31328505 original size:18 final size:18
Alignment explanation
Indices: 31328482--31328527 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
31328472 TTTTATTTTT
*
31328482 AATATATATGCATGTATA
1 AATATATATGCATATATA
*
31328500 AATATATATACATATATA
1 AATATATATGCATATATA
*
31328518 TATATATATG
1 AATATATATG
31328528 ATCTTTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (18 bp):
AATATATATGCATATATA
Found at i:31333864 original size:14 final size:14
Alignment explanation
Indices: 31333845--31333876 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
31333835 ACACACTATT
*
31333845 AAAAGAGGAGAAAG
1 AAAAGAGAAGAAAG
31333859 AAAAGAGAAGAAAG
1 AAAAGAGAAGAAAG
31333873 AAAA
1 AAAA
31333877 CGTCAAGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (14 bp):
AAAAGAGAAGAAAG
Found at i:31333932 original size:17 final size:18
Alignment explanation
Indices: 31333910--31333950 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
31333900 GGCATTTTTT
* *
31333910 AAAAAAAAAGAGAAGTAA
1 AAAAAAAAAGAAAAGGAA
31333928 AAAAAGAAAAGAAAAGGAA
1 AAAAA-AAAAGAAAAGGAA
31333947 AAAA
1 AAAA
31333951 GAAAGTCAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.02
Consensus pattern (18 bp):
AAAAAAAAAGAAAAGGAA
Found at i:31333937 original size:19 final size:18
Alignment explanation
Indices: 31333910--31333954 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
31333900 GGCATTTTTT
*
31333910 AAAAA-AAAAGAGAAGTAA
1 AAAAAGAAAAGAAAAG-AA
*
31333928 AAAAAGAAAAGAAAAGGA
1 AAAAAGAAAAGAAAAGAA
31333946 AAAAAGAAA
1 AAAAAGAAA
31333955 GTCAACATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (18 bp):
AAAAAGAAAAGAAAAGAA
Found at i:31335256 original size:112 final size:112
Alignment explanation
Indices: 31335054--31335260 Score: 306
Period size: 112 Copynumber: 1.8 Consensus size: 112
31335044 ATTTTAATCA
* *
31335054 TTTTCATTTGTACGAGCTTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAACATTGTTCGA
1 TTTTCATTTGTACGAGCTTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAACACTGTTCAA
*
31335119 GCATTTTTGCATCGAAATAATGGTTAGTGGACCAATGATTCGTAACC
66 GCATTTTTGCATCGAAATAACGGTTAGTGGACCAATGATTCGTAACC
* * * * * *
31335166 TTTTCATTTGTACGAGCTTTGCCTCTAATGAATTTCTATTTTATCCACCTTAGAACCCTGTTCAA
1 TTTTCATTTGTACGAGCTTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAACACTGTTCAA
* * *
31335231 GCATTTTTGTATTGAAATGACGGTTAGTGG
66 GCATTTTTGCATCGAAATAACGGTTAGTGG
31335261 TTTAACGATA
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
112 83 1.00
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.39
Consensus pattern (112 bp):
TTTTCATTTGTACGAGCTTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAACACTGTTCAA
GCATTTTTGCATCGAAATAACGGTTAGTGGACCAATGATTCGTAACC
Found at i:31335859 original size:49 final size:49
Alignment explanation
Indices: 31335691--31336274 Score: 303
Period size: 49 Copynumber: 11.9 Consensus size: 49
31335681 ACCAAGGAAA
** *
31335691 CATGGAGATTTGAAGGGAAAGGTTGAGGCCATAACGGCGAACCCGGTAC
1 CATGGAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTAC
* * ** * * * * *
31335740 CTTAGAAGACGTGATGGG-AAGGATTGATGCCACAACGGCGAATCCAGCAC
1 CAT-GGAGATTTGAAGGGAAAGG-TTGAGGCCGCAACGGCGAACCCAGTAC
* * * *
31335790 CAT-GA-A-ATGCAATGGGAAAGGTTAAGGCCGCAACAGTGAACCCAGTAC
1 CATGGAGATTTG-AA-GGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTAC
* * * *
31335838 CATGGAGATTTGAAGGGAAAGGTTGAGGTCGCAACGGTGAACCCGGTAT
1 CATGGAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTAC
* ** * * * * * * * ** *
31335887 CTTAAAAGACGTT-ATGAGAAAGATTAAGGTCTCAATAGCGAATCC-GATAC
1 CAT-GGAGA-TTTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAG-TAC
* ** * * * *
31335937 CAT-GAAATACGATA-GGAAAGATTGAGGTCGCAACGGTGAACCCGGTAC
1 CATGGAGATTTGA-AGGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTAC
* *
31335985 CATGGAGATTTGAAGGGAAAGGTTGAGGCCGTAATGGCGAACCC-GATAC
1 CATGGAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAG-TAC
* * ** * * * ** *
31336034 CTTAGAAGACGTGATGGG-AAGGATTGAGGTCGCAACGGTGAATTCAATAC
1 CAT-GGAGATTTGAAGGGAAAGG-TTGAGGCCGCAACGGCGAACCCAGTAC
* ** * * * *
31336084 CAT-GAAATGCGATGGGAAAGATTGAGGCCACAACGGCGAACCCAATAC
1 CATGGAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTAC
*
31336132 CATGGAGATTTGAAGGGAAAGGTTGAGGCCGTAACGGCGAACCCAGTAC
1 CATGGAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTAC
* * * * * ***
31336181 CTTAGAAGATGT-AATGGG-AAGGATTGAGGCTGCAACAGCGAATATAGTAC
1 CAT-GGAGATTTGAA-GGGAAAGG-TTGAGGCCGCAACGGCGAACCCAGTAC
* ** *
31336231 CATGAAGACATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCC
1 CATGGAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCC
31336275 GATACCTTAG
Statistics
Matches: 396, Mismatches: 112, Indels: 54
0.70 0.20 0.10
Matches are distributed among these distances:
46 2 0.01
47 2 0.01
48 94 0.24
49 158 0.40
50 136 0.34
51 4 0.01
ACGTcount: A:0.34, C:0.18, G:0.31, T:0.18
Consensus pattern (49 bp):
CATGGAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTAC
Found at i:31335969 original size:147 final size:146
Alignment explanation
Indices: 31335691--31336274 Score: 711
Period size: 147 Copynumber: 4.0 Consensus size: 146
31335681 ACCAAGGAAA
*
31335691 CATGGAGATTTGAAGGGAAAGGTTGAGGCCATAACGGCGAACCCGGTACCTTAGAAGACGTGATG
1 CATGGAGATTTGAAGGGAAAGGTTGAGGCCGTAACGGCGAACCCGGTACCTTAGAAGACGTGATG
* * * * * *
31335756 GGAAGGATTGATGCCACAACGGCGAATCCAGCACCATGAAATGCAATGGGAAAGGTTAAGGCCGC
66 GGAAGGATTGAGGTCACAACGGCGAATCCA-TACCATGAAATGCGATGGGAAAGATTGAGGCCGC
*
31335821 AACAGTGAACCCAGTAC
130 AACGGTGAACCCAGTAC
* * * * * *
31335838 CATGGAGATTTGAAGGGAAAGGTTGAGGTCGCAACGGTGAACCCGGTATCTTAAAAGACGTTATG
1 CATGGAGATTTGAAGGGAAAGGTTGAGGCCGTAACGGCGAACCCGGTACCTTAGAAGACGTGATG
* * * * ** * * *
31335903 AGAAAGATTAAGGTCTCAATAGCGAATCCGATACCATGAAATACGATAGGAAAGATTGAGGTCGC
66 GGAAGGATTGAGGTCACAACGGCGAATCC-ATACCATGAAATGCGATGGGAAAGATTGAGGCCGC
*
31335968 AACGGTGAACCCGGTAC
130 AACGGTGAACCCAGTAC
* *
31335985 CATGGAGATTTGAAGGGAAAGGTTGAGGCCGTAATGGCGAACCCGATACCTTAGAAGACGTGATG
1 CATGGAGATTTGAAGGGAAAGGTTGAGGCCGTAACGGCGAACCCGGTACCTTAGAAGACGTGATG
* * * *
31336050 GGAAGGATTGAGGTCGCAACGGTGAATTCAATACCATGAAATGCGATGGGAAAGATTGAGGCCAC
66 GGAAGGATTGAGGTCACAACGGCGAA-TCCATACCATGAAATGCGATGGGAAAGATTGAGGCCGC
* *
31336115 AACGGCGAACCCAATAC
130 AACGGTGAACCCAGTAC
* * *
31336132 CATGGAGATTTGAAGGGAAAGGTTGAGGCCGTAACGGCGAACCCAGTACCTTAGAAGATGTAATG
1 CATGGAGATTTGAAGGGAAAGGTTGAGGCCGTAACGGCGAACCCGGTACCTTAGAAGACGTGATG
* * ** *** * *
31336197 GGAAGGATTGAGG-CTGCAACAGCGAATATAGTACCATGAAGACATGAAGGGAAAGGTTGAGGCC
66 GGAAGGATTGAGGTC-ACAACGGCGAATCCA-TACCATGAA-ATGCGATGGGAAAGATTGAGGCC
31336261 GCAACGGTGAACCC
128 GCAACGGTGAACCC
31336275 GATACCTTAG
Statistics
Matches: 369, Mismatches: 63, Indels: 9
0.84 0.14 0.02
Matches are distributed among these distances:
146 3 0.01
147 333 0.90
148 33 0.09
ACGTcount: A:0.34, C:0.18, G:0.31, T:0.18
Consensus pattern (146 bp):
CATGGAGATTTGAAGGGAAAGGTTGAGGCCGTAACGGCGAACCCGGTACCTTAGAAGACGTGATG
GGAAGGATTGAGGTCACAACGGCGAATCCATACCATGAAATGCGATGGGAAAGATTGAGGCCGCA
ACGGTGAACCCAGTAC
Found at i:31335986 original size:48 final size:48
Alignment explanation
Indices: 31335853--31336135 Score: 174
Period size: 48 Copynumber: 5.8 Consensus size: 48
31335843 AGATTTGAAG
* * * * * * *
31335853 GGAAAGGTTGAGGTCGCAACGGTGAACCCGGTATCTTAAAAGACGTTA
1 GGAAAGATTGAGGTCGCAACGGTGAACCCGATACCATGAAATACGATA
* * ** * *
31335901 TGAGAAAGATTAAGGTCTCAATAGCGAATCCGATACCATGAAATACGATA
1 -G-GAAAGATTGAGGTCGCAACGGTGAACCCGATACCATGAAATACGATA
* * **
31335951 GGAAAGATTGAGGTCGCAACGGTGAACCCGGTACCATGGAGATTTGA-A
1 GGAAAGATTGAGGTCGCAACGGTGAACCCGATACCAT-GAAATACGATA
* * * * * * * *
31335999 GGGAAAGGTTGAGGCCGTAATGGCGAACCCGATACC-TTAGAAGACGTGATG
1 -GGAAAGATTGAGGTCGCAACGGTGAACCCGATACCATGA-AATAC--GATA
* ** * * *
31336050 GGAAGGATTGAGGTCGCAACGGTGAATTCAATACCATGAAATGCGATG
1 GGAAAGATTGAGGTCGCAACGGTGAACCCGATACCATGAAATACGATA
* * * *
31336098 GGAAAGATTGAGGCCACAACGGCGAACCCAATACCATG
1 GGAAAGATTGAGGTCGCAACGGTGAACCCGATACCATG
31336136 GAGATTTGAA
Statistics
Matches: 173, Mismatches: 53, Indels: 17
0.71 0.22 0.07
Matches are distributed among these distances:
47 1 0.01
48 68 0.39
49 37 0.21
50 65 0.38
51 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.30, T:0.19
Consensus pattern (48 bp):
GGAAAGATTGAGGTCGCAACGGTGAACCCGATACCATGAAATACGATA
Found at i:31336132 original size:98 final size:97
Alignment explanation
Indices: 31335705--31336274 Score: 348
Period size: 99 Copynumber: 5.8 Consensus size: 97
31335695 GAGATTTGAA
* * * * *
31335705 GGGAAAGGTTGAGGCCATAACGGCGAACCCGGTACCTTAGAAGACGTGATGGGAAGGATTGATGC
1 GGGAAAGGTTGAGGCCACAACGGCGAACCCGATACCAT-GAAGACGTGATGGGAAGGATTGAGGT
* * * * *
31335770 CACAACGGCGAATCCAGCACCATGAAATGCAAT
65 CGCAACGGTGAACCCAGTACCATGAAATGCGAT
* * * * * ** *
31335803 GGGAAAGGTTAAGGCCGCAACAGTGAACCC-AGTACCATGGAGATTTGAAGGGAAAGG-TTGAGG
1 GGGAAAGGTTGAGGCCACAACGGCGAACCCGA-TACCATGAAGACGTGATGGG-AAGGATTGAGG
* * * *
31335866 TCGCAACGGTGAACCCGGTATC-TTAAAAGACGTTAT
64 TCGCAACGGTGAACCCAGTACCATGAAATG-CG--AT
* * * * * ** * * * *
31335902 GAGAAAGATTAAGGTCTCAATAGCGAATCCGATACCATGAAATAC--GATAGGAAAGATTGAGGT
1 GGGAAAGGTTGAGGCCACAACGGCGAACCCGATACCATG-AAGACGTGATGGGAAGGATTGAGGT
* * ** *
31335965 CGCAACGGTGAACCCGGTACCATGGAGATTTGAA
65 CGCAACGGTGAACCCAGTACCAT-GAAATGCGAT
** * *
31335999 GGGAAAGGTTGAGGCCGTAATGGCGAACCCGATACCTTAGAAGACGTGATGGGAAGGATTGAGGT
1 GGGAAAGGTTGAGGCCACAACGGCGAACCCGATACCAT-GAAGACGTGATGGGAAGGATTGAGGT
** *
31336064 CGCAACGGTGAATTCAATACCATGAAATGCGAT
65 CGCAACGGTGAACCCAGTACCATGAAATGCGAT
* * * ** * *
31336097 GGGAAAGATTGAGGCCACAACGGCGAACCCAATACCATGGAGATTTGAAGGGAAAGG-TTGAGGC
1 GGGAAAGGTTGAGGCCACAACGGCGAACCCGATACCATGAAGACGTGATGGG-AAGGATTGAGGT
* * * **
31336161 CGTAACGGCGAACCCAGTACCTTAGAAGATGTAAT
65 CGCAACGGTGAACCCAGTACCAT-GAA-ATGCGAT
** * *** * *
31336196 GGG-AAGGATTGAGGCTGCAACAGCGAA-TATAGTACCATGAAGACATGAAGGGAAAGG-TTGAG
1 GGGAAAGG-TTGAGGCCACAACGGCGAACCCGA-TACCATGAAGACGTGATGGG-AAGGATTGAG
*
31336258 GCCGCAACGGTGAACCC
63 GTCGCAACGGTGAACCC
31336275 GATACCTTAG
Statistics
Matches: 361, Mismatches: 93, Indels: 35
0.74 0.19 0.07
Matches are distributed among these distances:
96 5 0.01
97 101 0.28
98 115 0.32
99 135 0.37
100 5 0.01
ACGTcount: A:0.34, C:0.18, G:0.31, T:0.17
Consensus pattern (97 bp):
GGGAAAGGTTGAGGCCACAACGGCGAACCCGATACCATGAAGACGTGATGGGAAGGATTGAGGTC
GCAACGGTGAACCCAGTACCATGAAATGCGAT
Found at i:31336223 original size:294 final size:295
Alignment explanation
Indices: 31335691--31336280 Score: 801
Period size: 294 Copynumber: 2.0 Consensus size: 295
31335681 ACCAAGGAAA
*
31335691 CATGGAGATTTGAAGGGAAAGGTTGAGGCCATAACGGCGAACCCGGTACCTTAGAAGACGTGATG
1 CATGGAGATTTGAAGGGAAAGGTTGAGGCCATAACGGCGAACCCGATACCTTAGAAGACGTGATG
* * * *
31335756 GGAAGGATTGATGCCACAACGGCGAATCCAGCACCATGAAATGCAATGGGAAAGGTTAAGGCCGC
66 GGAAGGATTGAGGCCACAACGGCGAATCCAACACCATGAAATGCAATGGGAAAGATTAAGGCCAC
* * * * *
31335821 AACAGTGAACCCAGTACCATGGAGATTTGAAGGGAAAGGTTGAGGTCGCAACGGTGAACCCGGTA
131 AACAGCGAACCCAATACCATGGAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTA
* * * * *
31335886 TCTTAAAAGACGTTATGAGAAAGATTAAGGTCTCAATAGCGAATCCGA-TACCATGAA-ATACGA
196 CCTTAAAAGACGTAATGAGAAAGATTAAGGTCTCAACAGCGAAT-AGAGTACCATGAAGACACGA
* *
31335949 TA-GGAAAGATTGAGGTCGCAACGGTGAACCCGGTAC
260 -AGGGAAAGATTGAGGCCGCAACGGTGAACCCGATAC
* *
31335985 CATGGAGATTTGAAGGGAAAGGTTGAGGCCGTAATGGCGAACCCGATACCTTAGAAGACGTGATG
1 CATGGAGATTTGAAGGGAAAGGTTGAGGCCATAACGGCGAACCCGATACCTTAGAAGACGTGATG
* * * * * * *
31336050 GGAAGGATTGAGGTCGCAACGGTGAATTCAATACCATGAAATGCGATGGGAAAGATTGAGGCCAC
66 GGAAGGATTGAGGCCACAACGGCGAATCCAACACCATGAAATGCAATGGGAAAGATTAAGGCCAC
* *
31336115 AACGGCGAACCCAATACCATGGAGATTTGAAGGGAAAGGTTGAGGCCGTAACGGCGAACCCAGTA
131 AACAGCGAACCCAATACCATGGAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTA
* * * * * * *
31336180 CCTTAGAAGATGTAATGGGAAGGATTGAGG-CTGCAACAGCGAATATAGTACCATGAAGACATGA
196 CCTTAAAAGACGTAATGAGAAAGATTAAGGTCT-CAACAGCGAATAGAGTACCATGAAGACACGA
*
31336244 AGGGAAAGGTTGAGGCCGCAACGGTGAACCCGATAC
260 AGGGAAAGATTGAGGCCGCAACGGTGAACCCGATAC
31336280 C
1 C
31336281 TTAGAAGTAT
Statistics
Matches: 256, Mismatches: 36, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
293 3 0.01
294 217 0.85
295 36 0.14
ACGTcount: A:0.34, C:0.18, G:0.31, T:0.18
Consensus pattern (295 bp):
CATGGAGATTTGAAGGGAAAGGTTGAGGCCATAACGGCGAACCCGATACCTTAGAAGACGTGATG
GGAAGGATTGAGGCCACAACGGCGAATCCAACACCATGAAATGCAATGGGAAAGATTAAGGCCAC
AACAGCGAACCCAATACCATGGAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTA
CCTTAAAAGACGTAATGAGAAAGATTAAGGTCTCAACAGCGAATAGAGTACCATGAAGACACGAA
GGGAAAGATTGAGGCCGCAACGGTGAACCCGATAC
Found at i:31336281 original size:99 final size:99
Alignment explanation
Indices: 31335800--31336287 Score: 375
Period size: 99 Copynumber: 5.0 Consensus size: 99
31335790 CATGAAATGC
* * * * * *
31335800 AATGGGAAAGGTTAAGGCCGCAACAGTGAACCCAGTACCATGGAGATTTGAAGGGAAAGGTTGAG
1 AATGGGAAAGATTGAGGCCGCAACAGCGAATCCAGTACCATGAAGATATGAAGGGAAAGGTTGAG
* * * *
31335865 GTCGCAACGGTGAACCCGGTATCTTAAAAGACGT
66 GTCGCAACGGTGAACCCGATACCTTAGAAGATGT
* * * * * * * *
31335899 TATGAGAAAGATTAAGGTCTCAATAGCGAATCC-GATACCATGAA-ATACGATA-GGAAAGATTG
1 AATGGGAAAGATTGAGGCCGCAACAGCGAATCCAG-TACCATGAAGATATGA-AGGGAAAGGTTG
* * * *
31335961 AGGTCGCAACGGTGAACCCGGTACCAT-GGAGATTT
64 AGGTCGCAACGGTGAACCCGATACCTTAGAAGATGT
* * ** * * ** *
31335996 GAA-GGGAAAGGTTGAGGCCGTAATGGCGAA-CCCGATACCTTAGAAGACGTGATGGG-AAGGAT
1 -AATGGGAAAGATTGAGGCCGCAACAGCGAATCCAG-TACCAT-GAAGATATGAAGGGAAAGG-T
** * * *
31336058 TGAGGTCGCAACGGTGAATTCAATACCAT-GAA-ATGC
62 TGAGGTCGCAACGGTGAACCCGATACCTTAGAAGATGT
* * * * * * *
31336094 GATGGGAAAGATTGAGGCCACAACGGCGAACCCAATACCATGGAGATTTGAAGGGAAAGGTTGAG
1 AATGGGAAAGATTGAGGCCGCAACAGCGAATCCAGTACCATGAAGATATGAAGGGAAAGGTTGAG
* * *
31336159 GCCGTAACGGCGAACCC-AGTACCTTAGAAGATGT
66 GTCGCAACGGTGAACCCGA-TACCTTAGAAGATGT
* * ** *
31336193 AATGGGAAGGATTGAGGCTGCAACAGCGAATATAGTACCATGAAGACATGAAGGGAAAGGTTGAG
1 AATGGGAAAGATTGAGGCCGCAACAGCGAATCCAGTACCATGAAGATATGAAGGGAAAGGTTGAG
*
31336258 GCCGCAACGGTGAACCCGATACCTTAGAAG
66 GTCGCAACGGTGAACCCGATACCTTAGAAG
31336288 TATTACGAGA
Statistics
Matches: 302, Mismatches: 72, Indels: 30
0.75 0.18 0.07
Matches are distributed among these distances:
96 3 0.01
97 64 0.21
98 83 0.27
99 151 0.50
100 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.31, T:0.18
Consensus pattern (99 bp):
AATGGGAAAGATTGAGGCCGCAACAGCGAATCCAGTACCATGAAGATATGAAGGGAAAGGTTGAG
GTCGCAACGGTGAACCCGATACCTTAGAAGATGT
Found at i:31336660 original size:38 final size:37
Alignment explanation
Indices: 31336572--31337084 Score: 382
Period size: 38 Copynumber: 13.5 Consensus size: 37
31336562 ACGTTATCAT
* * *
31336572 CCAATCTCTAACCCTAATCA-GAAGGCAGATTTAAAACACA
1 CCAATCTCTTACCCTAATCATG-AGGCAGA-TT-GAAGA-A
* ** *
31336612 CCAATCTCTTACCCTGATCATGAGGTGGATTGAAGTAT
1 CCAATCTCTTACCCTAATCATGAGGCAGATTGAAG-AA
** * * * *
31336650 CCAATCTCTTACCCCGATTATGGGGCAAATTGAATAA
1 CCAATCTCTTACCCTAATCATGAGGCAGATTGAAGAA
*
31336687 TCCAATCTCTTACCTTAATCA-GAAGGCAGATTGAAGACA
1 -CCAATCTCTTACCCTAATCATG-AGGCAGATTGAAGA-A
* ** * *
31336726 CACTAATCTCTTTCCCCGATTATGAGGCAGATTAAAGAA
1 C-C-AATCTCTTACCCTAATCATGAGGCAGATTGAAGAA
** * *
31336765 TCCAATCTCTTACCCCGATTATGGGGCAGATTGAA-ACA
1 -CCAATCTCTTACCCTAATCATGAGGCAGATTGAAGA-A
*
31336803 CCCAATCTCTTACCCTAATTA-GAAGGCAGATTGAAGACA
1 -CCAATCTCTTACCCTAATCATG-AGGCAGATTGAAGA-A
* *
31336842 CCAATCTCTTACCTTAATTA-GAAGGCAGATTGAAGACA
1 CCAATCTCTTACCCTAATCATG-AGGCAGATTGAAGA-A
* *
31336880 CCGATCTCTTACCCCAATCATG-GGACAGATTGAA-ACA
1 CCAATCTCTTACCCTAATCATGAGG-CAGATTGAAGA-A
* **
31336917 CCCAATCTCTTACCTTAATCAAAAGGCAGATTGAAG-A
1 -CCAATCTCTTACCCTAATCATGAGGCAGATTGAAGAA
* * *
31336954 -CAATCTCTTACCCTGATCATGGGGTAGATTGAAGACA
1 CCAATCTCTTACCCTAATCATGAGGCAGATTGAAGA-A
*
31336991 CCAATCTCTTACCCTAATCA-GAGAGTAGATTGAAGACA
1 CCAATCTCTTACCCTAATCATGAG-GCAGATTGAAGA-A
* *
31337029 CCAATCTCTTACCTTAATCA-GAAGGCAGATTGAAGCA
1 CCAATCTCTTACCCTAATCATG-AGGCAGATTGAAGAA
*
31337066 CTCAATCTTTTACCCTAAT
1 C-CAATCTCTTACCCTAAT
31337085 GAGAGAGCAA
Statistics
Matches: 392, Mismatches: 58, Indels: 48
0.79 0.12 0.10
Matches are distributed among these distances:
35 28 0.07
37 15 0.04
38 282 0.72
39 15 0.04
40 50 0.13
41 2 0.01
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.26
Consensus pattern (37 bp):
CCAATCTCTTACCCTAATCATGAGGCAGATTGAAGAA
Found at i:31336719 original size:76 final size:75
Alignment explanation
Indices: 31336609--31337158 Score: 422
Period size: 76 Copynumber: 7.2 Consensus size: 75
31336599 GATTTAAAAC
* ** *
31336609 ACACCAATCTCTTACCCTGATCATGAGGTGGATTGAAGTA-TCCAATCTCTTACCCCGATTATGG
1 ACACCAATCTCTTACCCTAATCA-GAGGCAGATTGAAG-ACACCAATCTCTTACCCCGATTATGG
* *
31336673 GGCAAATTGAAT
64 GGCAGATTGAAG
* *
31336685 A-ATCCAATCTCTTACCTTAATCAGAAGGCAGATTGAAGACACACTAATCTCTTTCCCCGATTAT
1 ACA-CCAATCTCTTACCCTAATCAG-AGGCAGATTGAAGACAC-C-AATCTCTTACCCCGATTAT
* *
31336749 GAGGCAGATTAAAG
62 GGGGCAGATTGAAG
** * * **
31336763 A-ATCCAATCTCTTACCCCGATTATGGGGCAGATTGAA-ACACCCAATCTCTTACCCTAATTA-G
1 ACA-CCAATCTCTTACCCTAATCA-GAGGCAGATTGAAGACA-CCAATCTCTTACCCCGATTATG
*
31336825 AAGGCAGATTGAAG
63 -GGGCAGATTGAAG
* * * * *
31336839 ACACCAATCTCTTACCTTAATTAGAAGGCAGATTGAAGACACCGATCTCTTACCCCAATCATGGG
1 ACACCAATCTCTTACCCTAATCAG-AGGCAGATTGAAGACACCAATCTCTTACCCCGATTATGGG
*
31336904 ACAGATTGAA-
65 GCAGATTGAAG
* * * *
31336914 ACACCCAATCTCTTACCTTAATCAAAAGGCAGATTGAAG--A-CAATCTCTTACCCTGATCATGG
1 ACA-CCAATCTCTTACCCTAATC-AGAGGCAGATTGAAGACACCAATCTCTTACCCCGATTATGG
*
31336976 GGTAGATTGAAG
64 GGCAGATTGAAG
* *** * *
31336988 ACACCAATCTCTTACCCTAATCAGAGAGTAGATTGAAGACACCAATCTCTTACCTTAATCA-GAA
1 ACACCAATCTCTTACCCTAATCAGAG-GCAGATTGAAGACACCAATCTCTTACCCCGATTATG-G
31337052 GGCAGATTGAAG
64 GGCAGATTGAAG
* * * * * * * * * *
31337064 -CACTCAATCTTTTACCCTAATGAGAGAGCAAACTGAAGAAATACAATTTCCTACCCCGATCATA
1 ACAC-CAATCTCTTACCCTAATCAGAG-GCAGATTGAAGACA-CCAATCTCTTACCCCGATTATG
* *
31337128 GGGCAAAGTGAA-
63 GGGCAGATTGAAG
*
31337140 ACACCCAAGCTCTTACCCT
1 ACA-CCAATCTCTTACCCT
31337159 CATTGTGGGG
Statistics
Matches: 389, Mismatches: 60, Indels: 49
0.78 0.12 0.10
Matches are distributed among these distances:
72 3 0.01
73 56 0.14
74 4 0.01
75 13 0.03
76 204 0.52
77 48 0.12
78 60 0.15
79 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (75 bp):
ACACCAATCTCTTACCCTAATCAGAGGCAGATTGAAGACACCAATCTCTTACCCCGATTATGGGG
CAGATTGAAG
Found at i:31336774 original size:116 final size:115
Alignment explanation
Indices: 31336572--31337156 Score: 584
Period size: 116 Copynumber: 5.1 Consensus size: 115
31336562 ACGTTATCAT
* * * *
31336572 CCAATCTCTAACCCTAATCAGAAGGCAGATTTAAAACACACCAATCTCTTACCCTGATCATGAGG
1 CCAATCTCTTACCTTAATCAGAAGGCAGATTGAAGACACA-CAATCTCTTACCCTGATCATGAGG
** * * * * *
31336637 TGGATTGAAGTA-TCCAATCTCTTACCCCGATTATGGGGCAAATTGAATA-AT
65 CAGATTGAAG-ACACCAATCTCTTACCCCAATCATGGGGCAGATTGAA-ACAC
* * *
31336688 CCAATCTCTTACCTTAATCAGAAGGCAGATTGAAGACACACTAATCTCTTTCCCCGATTATGAGG
1 CCAATCTCTTACCTTAATCAGAAGGCAGATTGAAGACACAC-AATCTCTTACCCTGATCATGAGG
* * *
31336753 CAGATTAAAGA-ATCCAATCTCTTACCCCGATTATGGGGCAGATTGAAACAC
65 CAGATTGAAGACA-CCAATCTCTTACCCCAATCATGGGGCAGATTGAAACAC
* * * * *
31336804 CCAATCTCTTACCCTAATTAGAAGGCAGATTGAAGACAC-CAATCTCTTACCTTAATTA-GAAGG
1 CCAATCTCTTACCTTAATCAGAAGGCAGATTGAAGACACACAATCTCTTACCCTGATCATG-AGG
* *
31336867 CAGATTGAAGACACCGATCTCTTACCCCAATCATGGGACAGATTGAAACAC
65 CAGATTGAAGACACCAATCTCTTACCCCAATCATGGGGCAGATTGAAACAC
* * *
31336918 CCAATCTCTTACCTTAATCAAAAGGCAGATTGAAG----ACAATCTCTTACCCTGATCATGGGGT
1 CCAATCTCTTACCTTAATCAGAAGGCAGATTGAAGACACACAATCTCTTACCCTGATCATGAGGC
* * *
31336979 AGATTGAAGACACCAATCTCTTACCCTAATCA-GAGAGTAGATTGAAGACA-
66 AGATTGAAGACACCAATCTCTTACCCCAATCATG-GGGCAGATTGAA-ACAC
* * * *
31337029 CCAATCTCTTACCTTAATCAGAAGGCAGATTGAAG-CACTCAATCTTTTACCCTAATGA-GAGAG
1 CCAATCTCTTACCTTAATCAGAAGGCAGATTGAAGACACACAATCTCTTACCCTGATCATGAG-G
* * * * * * * * * *
31337092 CAAACTGAAGAAATACAATTTCCTACCCCGATCATAGGGCAAAGTGAAACAC
65 CAGATTGAAGACA-CCAATCTCTTACCCCAATCATGGGGCAGATTGAAACAC
*
31337144 CCAAGCTCTTACC
1 CCAATCTCTTACC
31337157 CTCATTGTGG
Statistics
Matches: 395, Mismatches: 58, Indels: 33
0.81 0.12 0.07
Matches are distributed among these distances:
110 1 0.00
111 91 0.23
112 4 0.01
113 3 0.01
114 122 0.31
115 40 0.10
116 134 0.34
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.25
Consensus pattern (115 bp):
CCAATCTCTTACCTTAATCAGAAGGCAGATTGAAGACACACAATCTCTTACCCTGATCATGAGGC
AGATTGAAGACACCAATCTCTTACCCCAATCATGGGGCAGATTGAAACAC
Found at i:31337101 original size:149 final size:149
Alignment explanation
Indices: 31336651--31337102 Score: 389
Period size: 149 Copynumber: 3.0 Consensus size: 149
31336641 TTGAAGTATC
* * * * * *
31336651 CAATCTCTTACCCCGATTATGGGGCAAATTGAATA-ATCCAATCTCTTACCTTAATCAGAAGGCA
1 CAATCTCTTACCCTGATCATGGGGTAGATTGAAGACA-CCAATCTCTTACCCTAATCAGAAGGCA
* * * * *
31336715 GATTGAAGACACACTAATCTCTTTCCCCGATTATGAGG-CAGATT-AAAGAATCCAATCTCTTAC
65 GATTGAAGACAC-C-AATCTCTTACCCCAATCATG-GGACAGATTGAAA-CACCCAATCTCTTAC
** * *** * * *
31336778 CCCGATTATGGGGCAGATTGAAACA
126 CCTAATCAAAAGGCAAACTG-AAGA
* * * * * *
31336803 CCCAATCTCTTACCCTAATTA-GAAGGCAGATTGAAGACACCAATCTCTTACCTTAATTAGAAGG
1 --CAATCTCTTACCCTGATCATG-GGGTAGATTGAAGACACCAATCTCTTACCCTAATCAGAAGG
* *
31336867 CAGATTGAAGACACCGATCTCTTACCCCAATCATGGGACAGATTGAAACACCCAATCTCTTACCT
63 CAGATTGAAGACACCAATCTCTTACCCCAATCATGGGACAGATTGAAACACCCAATCTCTTACCC
* *
31336932 TAATCAAAAGGCAGATTGAAGA
128 TAATCAAAAGGCAAACTGAAGA
*
31336954 CAATCTCTTACCCTGATCATGGGGTAGATTGAAGACACCAATCTCTTACCCTAATCAG-AGAGTA
1 CAATCTCTTACCCTGATCATGGGGTAGATTGAAGACACCAATCTCTTACCCTAATCAGAAG-GCA
** * * *
31337018 GATTGAAGACACCAATCTCTTACCTTAATCA-GAAGG-CAGATTGAAGCACTCAATCTTTTACCC
65 GATTGAAGACACCAATCTCTTACCCCAATCATG--GGACAGATTGAAACACCCAATCTCTTACCC
* *
31337081 TAAT-GAGAGAGCAAACTGAAGA
128 TAATCAAAAG-GCAAACTGAAGA
31337103 AATACAATTT
Statistics
Matches: 251, Mismatches: 38, Indels: 23
0.80 0.12 0.07
Matches are distributed among these distances:
148 6 0.02
149 117 0.47
150 3 0.01
151 5 0.02
152 48 0.19
153 5 0.02
154 66 0.26
155 1 0.00
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (149 bp):
CAATCTCTTACCCTGATCATGGGGTAGATTGAAGACACCAATCTCTTACCCTAATCAGAAGGCAG
ATTGAAGACACCAATCTCTTACCCCAATCATGGGACAGATTGAAACACCCAATCTCTTACCCTAA
TCAAAAGGCAAACTGAAGA
Found at i:31342577 original size:13 final size:13
Alignment explanation
Indices: 31342559--31342583 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31342549 TTTTTTTTAT
31342559 AAAATTAATTAAA
1 AAAATTAATTAAA
31342572 AAAATTAATTAA
1 AAAATTAATTAA
31342584 TTACGTAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAATTAATTAAA
Found at i:31356426 original size:13 final size:13
Alignment explanation
Indices: 31356402--31356426 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31356392 GAAAAAGTGA
31356402 TTTTGAAAAGTTC
1 TTTTGAAAAGTTC
31356415 TTTTGAAAAGTT
1 TTTTGAAAAGTT
31356427 TAGTTTAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.16, T:0.48
Consensus pattern (13 bp):
TTTTGAAAAGTTC
Done.