Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 63 of 205
Found at i:18870148 original size:12 final size:12
Alignment explanation
Indices: 18870131--18870158 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
18870121 TAAAAAAATA
18870131 TTAAATTTCCAT
1 TTAAATTTCCAT
18870143 TTAAATTTCCAT
1 TTAAATTTCCAT
18870155 TTAA
1 TTAA
18870159 GGTAATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (12 bp):
TTAAATTTCCAT
Found at i:18883303 original size:26 final size:26
Alignment explanation
Indices: 18883245--18883303 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
18883235 GAGGTTTGAA
*
18883245 AGAAAAAAAAATGGCAATGAAGGCTT
1 AGAAAAAAAAATAGCAATGAAGGCTT
*
18883271 AGTGAAAAAATAATCAGCAATGAAGGC-T
1 A--GAAAAAAAAAT-AGCAATGAAGGCTT
18883299 AGAAA
1 AGAAA
18883304 TCGTACTTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
26 5 0.18
28 12 0.43
29 11 0.39
ACGTcount: A:0.54, C:0.08, G:0.22, T:0.15
Consensus pattern (26 bp):
AGAAAAAAAAATAGCAATGAAGGCTT
Found at i:18890987 original size:21 final size:20
Alignment explanation
Indices: 18890957--18890996 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
18890947 TCTTTTTGTG
18890957 GGTTTATATTTAGGATTTATT
1 GGTTTATATTT-GGATTTATT
* *
18890978 GGTTTCTATTTGGTTTTAT
1 GGTTTATATTTGGATTTAT
18890997 ATTAAAAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.17, C:0.03, G:0.20, T:0.60
Consensus pattern (20 bp):
GGTTTATATTTGGATTTATT
Found at i:18903197 original size:37 final size:37
Alignment explanation
Indices: 18903156--18903226 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
18903146 TTGAATATGC
*
18903156 ATGAATAGTAAATGATACAATTTAATTATATTTGGAT
1 ATGAATAGTAAATGATACAATTGAATTATATTTGGAT
*
18903193 ATGAATAGTAAATGATACGATTGAATTATATTTG
1 ATGAATAGTAAATGATACAATTGAATTATATTTG
18903227 ATCTGTAAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.39
Consensus pattern (37 bp):
ATGAATAGTAAATGATACAATTGAATTATATTTGGAT
Found at i:18906406 original size:42 final size:42
Alignment explanation
Indices: 18906259--18906397 Score: 104
Period size: 42 Copynumber: 3.3 Consensus size: 42
18906249 GCCCGAAGGC
* * * *
18906259 TAAACAGAAGCTC-ATGAGAGCTAAACAGAAATCCATAA-AGGT
1 TAAACAAAAGCTCAAT-AGAGCTGAATAGAAACCCATAAGA-GT
* * * * * *
18906301 TGAACAGAAGCT-TATAATAGCTGAATGGAAACCCATAAGGGT
1 TAAACAAAAGCTCAAT-AGAGCTGAATAGAAACCCATAAGAGT
* *
18906343 TAAACAAAAGCTCAATAGAGCTGAATAGAAACTCATATGAGT
1 TAAACAAAAGCTCAATAGAGCTGAATAGAAACCCATAAGAGT
* *
18906385 TAAATATAAGCTC
1 TAAACAAAAGCTC
18906398 GTGAGAGCTA
Statistics
Matches: 76, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
42 74 0.97
43 2 0.03
ACGTcount: A:0.45, C:0.15, G:0.19, T:0.21
Consensus pattern (42 bp):
TAAACAAAAGCTCAATAGAGCTGAATAGAAACCCATAAGAGT
Found at i:18916735 original size:21 final size:21
Alignment explanation
Indices: 18916672--18916814 Score: 85
Period size: 21 Copynumber: 6.9 Consensus size: 21
18916662 TCGAAGGCTA
* * *
18916672 AACAGAAGCTCAT-TGAGCTA
1 AACAGAAGCTCATAAGAGTTG
* *
18916692 AACAGAAACCCATAAG-GTTTG
1 AACAGAAGCTCATAAGAG-TTG
* *
18916713 AACGGAAGCTCATAAGAGCTG
1 AACAGAAGCTCATAAGAGTTG
* * * *
18916734 AATAGAAACCCATAAGAGTTA
1 AACAGAAGCTCATAAGAGTTG
*
18916755 AATAGAAGCTCA-ATAGAGTTG
1 AACAGAAGCTCATA-AGAGTTG
* * * *
18916776 AACGGAAACTCATATGAGTTA
1 AACAGAAGCTCATAAGAGTTG
* *
18916797 AACAGAAGCCCGTAAGAG
1 AACAGAAGCTCATAAGAG
18916815 CTAAATGAAA
Statistics
Matches: 90, Mismatches: 28, Indels: 9
0.71 0.22 0.07
Matches are distributed among these distances:
20 13 0.14
21 75 0.83
22 2 0.02
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.18
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGTTG
Found at i:18916763 original size:42 final size:42
Alignment explanation
Indices: 18916670--18916819 Score: 144
Period size: 42 Copynumber: 3.6 Consensus size: 42
18916660 GCTCGAAGGC
*
18916670 TAAACAGAAGCTCAT-TGAGCTAAACAGAAACCCATAAG-GTT
1 TAAACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGAG-T
* * * *
18916711 TGAACGGAAGCTCATAAGAGCTGAATAGAAACCCATAAGAGT
1 TAAACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGAGT
* * * * * *
18916753 TAAATAGAAGCTCA-ATAGAGTTGAACGGAAACTCATATGAGT
1 TAAACAGAAGCTCATA-AGAGCTAAACAGAAACCCATAAGAGT
* *
18916795 TAAACAGAAGCCCGTAAGAGCTAAA
1 TAAACAGAAGCTCATAAGAGCTAAA
18916820 TGAAAAGTAA
Statistics
Matches: 87, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
41 14 0.16
42 71 0.82
43 2 0.02
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.19
Consensus pattern (42 bp):
TAAACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGAGT
Found at i:18924422 original size:37 final size:37
Alignment explanation
Indices: 18924378--18924451 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
18924368 CTTAAAGTAA
* * *
18924378 TTTTTGTTATAGTTTTTTATTCAATTTTTTTAACATT
1 TTTTTGTTACAGTTTTTGATTCAAGTTTTTTAACATT
18924415 TTTTTGTTACAGTTTTTGATTCAAGTTTTTTAACATT
1 TTTTTGTTACAGTTTTTGATTCAAGTTTTTTAACATT
18924452 GTTTAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.22, C:0.07, G:0.08, T:0.64
Consensus pattern (37 bp):
TTTTTGTTACAGTTTTTGATTCAAGTTTTTTAACATT
Found at i:18924607 original size:19 final size:19
Alignment explanation
Indices: 18924559--18924599 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
18924549 AAAGAATTAC
*
18924559 AAAAATAGAAAAAATATAT
1 AAAAATATAAAAAATATAT
*
18924578 AAAAATCTAAAAAATATAT
1 AAAAATATAAAAAATATAT
18924597 AAA
1 AAA
18924600 TGTATAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (19 bp):
AAAAATATAAAAAATATAT
Found at i:18925446 original size:22 final size:22
Alignment explanation
Indices: 18925404--18925445 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
18925394 AAACCACTTT
18925404 GAAAAATTATTATTTTATTTTC
1 GAAAAATTATTATTTTATTTTC
*
18925426 GAAAAA-TATTTTTTTATTTT
1 GAAAAATTATTATTTTATTTT
18925446 TATTTAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (22 bp):
GAAAAATTATTATTTTATTTTC
Found at i:18932364 original size:13 final size:14
Alignment explanation
Indices: 18932346--18932374 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
18932336 GTACTACAAG
18932346 ATTATTTT-TTTAA
1 ATTATTTTATTTAA
18932359 ATTATTTTATTTAA
1 ATTATTTTATTTAA
18932373 AT
1 AT
18932375 GCCTATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTATTTTATTTAA
Found at i:18933335 original size:25 final size:25
Alignment explanation
Indices: 18933301--18933383 Score: 123
Period size: 25 Copynumber: 3.3 Consensus size: 25
18933291 AATTTAGCGC
18933301 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTGATTATTAGCACGTTGGT
18933326 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTGATTATTAGCACGTTGGT
* **
18933351 GCTCTCTGA-TATTTAGCATGTCAGT
1 GCTCTCTGATTA-TTAGCACGTTGGT
18933376 GCTCTCTG
1 GCTCTCTG
18933384 TTTAGCACAT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
24 2 0.04
25 52 0.96
ACGTcount: A:0.16, C:0.22, G:0.23, T:0.40
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACGTTGGT
Found at i:18935747 original size:109 final size:109
Alignment explanation
Indices: 18935616--18935812 Score: 376
Period size: 109 Copynumber: 1.8 Consensus size: 109
18935606 TTAACAATAA
*
18935616 TTCATCAAGCCAAAACAACGTATTCATGCTTTAATGACCCACAAGTCTAGCTTATATATTCATAT
1 TTCATCAAGACAAAACAACGTATTCATGCTTTAATGACCCACAAGTCTAGCTTATATATTCATAT
18935681 GCATTTACACACAACATTTTCATGTATTAATCTATTAATGATAT
66 GCATTTACACACAACATTTTCATGTATTAATCTATTAATGATAT
*
18935725 TTCATCAAGACAAAACAACGTATTCATGCTTTAATGACCCACAAGTCTAGCTTATATATTCATTT
1 TTCATCAAGACAAAACAACGTATTCATGCTTTAATGACCCACAAGTCTAGCTTATATATTCATAT
18935790 GCATTTACACACAACATTTTCAT
66 GCATTTACACACAACATTTTCAT
18935813 ATTTATGACT
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
109 86 1.00
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.35
Consensus pattern (109 bp):
TTCATCAAGACAAAACAACGTATTCATGCTTTAATGACCCACAAGTCTAGCTTATATATTCATAT
GCATTTACACACAACATTTTCATGTATTAATCTATTAATGATAT
Found at i:18938260 original size:35 final size:35
Alignment explanation
Indices: 18938165--18938281 Score: 144
Period size: 35 Copynumber: 3.3 Consensus size: 35
18938155 CAAACCACCC
* * *
18938165 AAACACACCAGATGCTCATAAGAGCCAATTCATCCG
1 AAACACACCA-ATGCTCATAAGAGCTAATCCATCCA
*
18938201 AAACACACCAATGCTCATAAGAGCTAATCCCTCCA
1 AAACACACCAATGCTCATAAGAGCTAATCCATCCA
* * * *
18938236 AAACACACTAATGCTCATAAGAGCTAGTCCAACCG
1 AAACACACCAATGCTCATAAGAGCTAATCCATCCA
*
18938271 AAATACACCAA
1 AAACACACCAA
18938282 AACAGAGAGT
Statistics
Matches: 70, Mismatches: 11, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
35 60 0.86
36 10 0.14
ACGTcount: A:0.42, C:0.31, G:0.11, T:0.16
Consensus pattern (35 bp):
AAACACACCAATGCTCATAAGAGCTAATCCATCCA
Found at i:18952494 original size:31 final size:32
Alignment explanation
Indices: 18952450--18952509 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 32
18952440 AAAAGAGAAA
* **
18952450 AAAATAATGAAAGAACAAAGGTAAGTTTGTTC
1 AAAAGAATGAAAGAACAAAGAAAAGTTTGTTC
*
18952482 AAAAGAAT-AAAGAGCAAAGAAAAGTTTG
1 AAAAGAATGAAAGAACAAAGAAAAGTTTG
18952510 CACAAAGTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 17 0.71
32 7 0.29
ACGTcount: A:0.55, C:0.05, G:0.20, T:0.20
Consensus pattern (32 bp):
AAAAGAATGAAAGAACAAAGAAAAGTTTGTTC
Found at i:18954864 original size:28 final size:28
Alignment explanation
Indices: 18954828--18954917 Score: 99
Period size: 28 Copynumber: 3.2 Consensus size: 28
18954818 CAGTAAAAGT
* *
18954828 ACAGTGTGGGTCTTAGCCCATTACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
*
18954856 ACAGTGTGGGCCTTAGTCCAATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
* * ** *
18954884 ACAATATGACCCTTAGCCCAATTCAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
18954912 ATCAGT
1 A-CAGT
18954918 ACAATGCAAT
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 48 0.94
29 3 0.06
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCCAATACAGTA
Found at i:18955307 original size:27 final size:27
Alignment explanation
Indices: 18955278--18955598 Score: 349
Period size: 27 Copynumber: 11.9 Consensus size: 27
18955268 GGGGTATAAT
* * *
18955278 GGTCATTTTACCCTTCGAAGCTATTTT
1 GGTCATTTTACCCTTCGAGGGTATTTC
* *
18955305 GGTCATTGTA-CCTTCGGGGGTATTTC
1 GGTCATTTTACCCTTCGAGGGTATTTC
*
18955331 GGTCATTTTACCCTTTGAGGGTATTTC
1 GGTCATTTTACCCTTCGAGGGTATTTC
* * * * *
18955358 AGTTATTTAACCTTTCTAGGGTATTTC
1 GGTCATTTTACCCTTCGAGGGTATTTC
** * *
18955385 AATTATTTTACCCTTCGAGGGTATTTT
1 GGTCATTTTACCCTTCGAGGGTATTTC
18955412 GGTCATTTTACCCTTCGAGGGTATTTC
1 GGTCATTTTACCCTTCGAGGGTATTTC
*
18955439 GGTCATTTTACCCTTCGAGGGTATTTT
1 GGTCATTTTACCCTTCGAGGGTATTTC
* * * * *
18955466 AGTTATCTTACCCTTCGGGGGTATTTT
1 GGTCATTTTACCCTTCGAGGGTATTTC
* * * *
18955493 AGTCATTTTACCTTTCGAGAGTATTTT
1 GGTCATTTTACCCTTCGAGGGTATTTC
*
18955520 GGTCATTTTACCCTTCGGGGGTATTTC
1 GGTCATTTTACCCTTCGAGGGTATTTC
* * *
18955547 AGTTATTTTACCATTC-AGGGGTATTTC
1 GGTCATTTTACCCTTCGA-GGGTATTTC
*
18955574 GGTCATTTTACCCTTCGAGAGTATT
1 GGTCATTTTACCCTTCGAGGGTATT
18955599 CAGACATTTT
Statistics
Matches: 245, Mismatches: 46, Indels: 6
0.82 0.15 0.02
Matches are distributed among these distances:
26 21 0.09
27 223 0.91
28 1 0.00
ACGTcount: A:0.17, C:0.18, G:0.20, T:0.44
Consensus pattern (27 bp):
GGTCATTTTACCCTTCGAGGGTATTTC
Found at i:18955416 original size:81 final size:81
Alignment explanation
Indices: 18955278--18955598 Score: 385
Period size: 81 Copynumber: 4.0 Consensus size: 81
18955268 GGGGTATAAT
* * ** * * *
18955278 GGTCATTTTACCCTTCGAAGCTATTTTGGTCATTGTA-CCTTCGGGGGTATTTCGGTCATTTTAC
1 GGTCATTTTACCCTTCGAGGGTATTTCAGTTATTTTACCCTTCGAGGGTATTTCGGTCATTTTAC
* *
18955342 CCTTTGAGGGTATTTC
66 CCTTCGAGAGTATTTC
* * * * * * *
18955358 AGTTATTTAACCTTTCTAGGGTATTTCAATTATTTTACCCTTCGAGGGTATTTTGGTCATTTTAC
1 GGTCATTTTACCCTTCGAGGGTATTTCAGTTATTTTACCCTTCGAGGGTATTTCGGTCATTTTAC
*
18955423 CCTTCGAGGGTATTTC
66 CCTTCGAGAGTATTTC
* * * **
18955439 GGTCATTTTACCCTTCGAGGGTATTTTAGTTATCTTACCCTTCGGGGGTATTTTAGTCATTTTAC
1 GGTCATTTTACCCTTCGAGGGTATTTCAGTTATTTTACCCTTCGAGGGTATTTCGGTCATTTTAC
* *
18955504 CTTTCGAGAGTATTTT
66 CCTTCGAGAGTATTTC
* *
18955520 GGTCATTTTACCCTTCGGGGGTATTTCAGTTATTTTACCATTC-AGGGGTATTTCGGTCATTTTA
1 GGTCATTTTACCCTTCGAGGGTATTTCAGTTATTTTACCCTTCGA-GGGTATTTCGGTCATTTTA
18955584 CCCTTCGAGAGTATT
65 CCCTTCGAGAGTATT
18955599 CAGACATTTT
Statistics
Matches: 203, Mismatches: 36, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
80 25 0.12
81 178 0.88
ACGTcount: A:0.17, C:0.18, G:0.20, T:0.44
Consensus pattern (81 bp):
GGTCATTTTACCCTTCGAGGGTATTTCAGTTATTTTACCCTTCGAGGGTATTTCGGTCATTTTAC
CCTTCGAGAGTATTTC
Found at i:18957556 original size:22 final size:22
Alignment explanation
Indices: 18957528--18957573 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
18957518 GTCGAAGGTA
18957528 CATTACTCTCAATTTCCTCACC
1 CATTACTCTCAATTTCCTCACC
*
18957550 CATTACTCTCAATTTCCTCGCC
1 CATTACTCTCAATTTCCTCACC
18957572 CA
1 CA
18957574 CTAATGTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.41, G:0.02, T:0.35
Consensus pattern (22 bp):
CATTACTCTCAATTTCCTCACC
Found at i:18969106 original size:20 final size:19
Alignment explanation
Indices: 18969062--18969107 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
18969052 TAAACCACTC
18969062 CATTTACTTACTTATCATT
1 CATTTACTTACTTATCATT
18969081 CTATTTACTTACTT-TCCATTT
1 C-ATTTACTTACTTAT-CA-TT
18969102 CATTTA
1 CATTTA
18969108 TTTAGCATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.24, C:0.22, G:0.00, T:0.54
Consensus pattern (19 bp):
CATTTACTTACTTATCATT
Found at i:18970806 original size:5 final size:5
Alignment explanation
Indices: 18970798--18970822 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
18970788 CTTTTGTTTT
18970798 ATTTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA
18970823 TCAAATTACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTTA
Found at i:18973224 original size:31 final size:31
Alignment explanation
Indices: 18973117--18973251 Score: 98
Period size: 31 Copynumber: 4.4 Consensus size: 31
18973107 CTAATGCTCC
* * *
18973117 AATC-AATTCAGCAATATATATATCCATACACG
1 AATCAAATTCGGCAATATATA-A-CCATATACA
* * * * *
18973149 AATCAAATTCGACAATGA-ATATCGATATGCC
1 AATCAAATTCGGCAAT-ATATAACCATATACA
*
18973180 AAGC-AATTCGGCAATATATAACCATATA-A
1 AATCAAATTCGGCAATATATAACCATATACA
* * *
18973209 GAATCAAATTTGGCAATGTATAATCATATACA
1 -AATCAAATTCGGCAATATATAACCATATACA
18973241 AATCAAATTCG
1 AATCAAATTCG
18973252 ACATCCTATA
Statistics
Matches: 79, Mismatches: 18, Indels: 13
0.72 0.16 0.12
Matches are distributed among these distances:
29 1 0.01
30 21 0.27
31 39 0.49
32 5 0.06
33 12 0.15
34 1 0.01
ACGTcount: A:0.44, C:0.18, G:0.10, T:0.27
Consensus pattern (31 bp):
AATCAAATTCGGCAATATATAACCATATACA
Found at i:18973313 original size:31 final size:31
Alignment explanation
Indices: 18973278--18973423 Score: 142
Period size: 31 Copynumber: 4.7 Consensus size: 31
18973268 AACAATTAAA
*
18973278 TTTCAACAATGTATAACCATATAAAAATTAT
1 TTTCAGCAATGTATAACCATATAAAAATTAT
** *
18973309 TTTCAGCAATGT-TCAACCATATACGAATCA-
1 TTTCAGCAATGTAT-AACCATATAAAAATTAT
* *
18973339 TTTCAGCAACT-TATATA-CATAT-ACAATTCAA
1 TTTCAGCAA-TGTATA-ACCATATAAAAATT-AT
*
18973370 TTTCAGCAATGAATAACCATATAAAAATTAT
1 TTTCAGCAATGTATAACCATATAAAAATTAT
18973401 TTTCAGCAATGT-TCAACCATATA
1 TTTCAGCAATGTAT-AACCATATA
18973424 CGAATCATTT
Statistics
Matches: 94, Mismatches: 11, Indels: 20
0.75 0.09 0.16
Matches are distributed among these distances:
29 3 0.03
30 21 0.22
31 65 0.69
32 5 0.05
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.34
Consensus pattern (31 bp):
TTTCAGCAATGTATAACCATATAAAAATTAT
Found at i:18973390 original size:92 final size:92
Alignment explanation
Indices: 18973258--18973479 Score: 356
Period size: 92 Copynumber: 2.4 Consensus size: 92
18973248 TTCGACATCC
* * * *
18973258 TATATTCATAAACAATTAAATTTCAACAATGTATAACCATATAAAAATTATTTTCAGCAATGTTC
1 TATATACATATACAATTCAATTTCAGCAATGTATAACCATATAAAAATTATTTTCAGCAATGTTC
18973323 AACCATATACGAATCATTTCAGCAACT
66 AACCATATACGAATCATTTCAGCAACT
*
18973350 TATATACATATACAATTCAATTTCAGCAATGAATAACCATATAAAAATTATTTTCAGCAATGTTC
1 TATATACATATACAATTCAATTTCAGCAATGTATAACCATATAAAAATTATTTTCAGCAATGTTC
*
18973415 AACCATATACGAATCATTTCGGCAACT
66 AACCATATACGAATCATTTCAGCAACT
* * *
18973442 TATGTA-ATATACAATCCAATATCAGCAATGTATAACCA
1 TATATACATATACAATTCAATTTCAGCAATGTATAACCA
18973480 AAAACAATTT
Statistics
Matches: 120, Mismatches: 10, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
91 29 0.24
92 91 0.76
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (92 bp):
TATATACATATACAATTCAATTTCAGCAATGTATAACCATATAAAAATTATTTTCAGCAATGTTC
AACCATATACGAATCATTTCAGCAACT
Found at i:18976435 original size:29 final size:29
Alignment explanation
Indices: 18976390--18976524 Score: 144
Period size: 29 Copynumber: 4.7 Consensus size: 29
18976380 CCAAATTTCA
* *
18976390 TAAAAGGATGCCTTTGTGGCTATCTTTAT
1 TAAAAGGAAGCCTTTGTGGCTATCTCTAT
* * *
18976419 TACAAGGAAGCCTTTGTAGCTTTCTCTAT
1 TAAAAGGAAGCCTTTGTGGCTATCTCTAT
* ** * *
18976448 TAAAAGGAAGCATTTGTGGCGGTCTATGT
1 TAAAAGGAAGCCTTTGTGGCTATCTCTAT
* *
18976477 TAAAAGGAAACCTTTGTGGCTATCTCTGT
1 TAAAAGGAAGCCTTTGTGGCTATCTCTAT
* *
18976506 TAAAAAGATGCCTTTGTGG
1 TAAAAGGAAGCCTTTGTGG
18976525 TGAGACTCTG
Statistics
Matches: 86, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 86 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.36
Consensus pattern (29 bp):
TAAAAGGAAGCCTTTGTGGCTATCTCTAT
Found at i:18976484 original size:58 final size:58
Alignment explanation
Indices: 18976390--18976524 Score: 162
Period size: 58 Copynumber: 2.3 Consensus size: 58
18976380 CCAAATTTCA
* * * * *
18976390 TAAAAGGATGCCTTTGTGGCTATCTTTATTACAAGGAAGCCTTTGTAGCTTTCTCTAT
1 TAAAAGGATGCCTTTGTGGCGATCTATATTAAAAGGAAACCTTTGTAGCTATCTCTAT
* * * * * *
18976448 TAAAAGGAAGCATTTGTGGCGGTCTATGTTAAAAGGAAACCTTTGTGGCTATCTCTGT
1 TAAAAGGATGCCTTTGTGGCGATCTATATTAAAAGGAAACCTTTGTAGCTATCTCTAT
*
18976506 TAAAAAGATGCCTTTGTGG
1 TAAAAGGATGCCTTTGTGG
18976525 TGAGACTCTG
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
58 63 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.36
Consensus pattern (58 bp):
TAAAAGGATGCCTTTGTGGCGATCTATATTAAAAGGAAACCTTTGTAGCTATCTCTAT
Found at i:18978901 original size:16 final size:16
Alignment explanation
Indices: 18978880--18978913 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18978870 ATATCTTAGC
* *
18978880 TTGAGAAGTGAAAGAA
1 TTGAGAAATAAAAGAA
18978896 TTGAGAAATAAAAGAA
1 TTGAGAAATAAAAGAA
18978912 TT
1 TT
18978914 TCATTGGTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.24, T:0.24
Consensus pattern (16 bp):
TTGAGAAATAAAAGAA
Found at i:18980752 original size:13 final size:13
Alignment explanation
Indices: 18980734--18980763 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
18980724 TTGTTACCTT
*
18980734 TTAATTTTCTTAG
1 TTAATTTACTTAG
18980747 TTAATTTACTTAG
1 TTAATTTACTTAG
18980760 TTAA
1 TTAA
18980764 AATCTAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (13 bp):
TTAATTTACTTAG
Found at i:18988275 original size:19 final size:19
Alignment explanation
Indices: 18988251--18988288 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
18988241 GAAATATATG
18988251 TTAAACAACTTATTACCAC
1 TTAAACAACTTATTACCAC
18988270 TTAAACAACTTATTACCAC
1 TTAAACAACTTATTACCAC
18988289 ACATCTGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.26, G:0.00, T:0.32
Consensus pattern (19 bp):
TTAAACAACTTATTACCAC
Found at i:18989310 original size:27 final size:27
Alignment explanation
Indices: 18989280--18989348 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
18989270 TATTTGACAC
* * *
18989280 AAAGGCATTCCTTTCATATTTCACCAA
1 AAAGGCTTTTCTTTCACATTTCACCAA
* *
18989307 AAAGGCTTTTCTTTCACATTTCGCCAC
1 AAAGGCTTTTCTTTCACATTTCACCAA
18989334 AAAGGCTTTTCTTTC
1 AAAGGCTTTTCTTTC
18989349 TCGACTTGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.26, C:0.26, G:0.10, T:0.38
Consensus pattern (27 bp):
AAAGGCTTTTCTTTCACATTTCACCAA
Found at i:18992362 original size:18 final size:17
Alignment explanation
Indices: 18992339--18992372 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
18992329 CATTTCGATA
18992339 TTTTAATAAAATGTAATC
1 TTTTAA-AAAATGTAATC
*
18992357 TTTTAAACAATGTAAT
1 TTTTAAAAAATGTAAT
18992373 GTGATTGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (17 bp):
TTTTAAAAAATGTAATC
Found at i:18992945 original size:23 final size:24
Alignment explanation
Indices: 18992919--18992971 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
18992909 CAATAAAATA
18992919 AATATA-AGATAACTTT-AAATAAT
1 AATATATAG-TAACTTTGAAATAAT
* *
18992942 AATACATAGTAACTTTGAAATAGT
1 AATATATAGTAACTTTGAAATAAT
18992966 AATATA
1 AATATA
18992972 CCATGATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 12 0.48
24 13 0.52
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
AATATATAGTAACTTTGAAATAAT
Found at i:19012640 original size:10 final size:10
Alignment explanation
Indices: 19012625--19012651 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
19012615 TCAAAGCCGT
19012625 ACGCAAATGC
1 ACGCAAATGC
19012635 ACGCAAATGC
1 ACGCAAATGC
19012645 ACGCAAA
1 ACGCAAA
19012652 CGCGCGTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.44, C:0.30, G:0.19, T:0.07
Consensus pattern (10 bp):
ACGCAAATGC
Found at i:19013493 original size:3 final size:3
Alignment explanation
Indices: 19013485--19013525 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
19013475 TTGTGATGCT
19013485 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
19013526 GTTTGTTCAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:19023048 original size:15 final size:15
Alignment explanation
Indices: 19023024--19023058 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
19023014 TAAACCACGA
*
19023024 AACCCGAAAATAAAT
1 AACCCAAAAATAAAT
19023039 AACCCAAAAATAAAT
1 AACCCAAAAATAAAT
19023054 AACCC
1 AACCC
19023059 TTAAAACGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.60, C:0.26, G:0.03, T:0.11
Consensus pattern (15 bp):
AACCCAAAAATAAAT
Found at i:19024570 original size:12 final size:12
Alignment explanation
Indices: 19024555--19024579 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19024545 TTTCAACATT
19024555 ACTATGATTATG
1 ACTATGATTATG
19024567 ACTATGATTATG
1 ACTATGATTATG
19024579 A
1 A
19024580 GAAAATCAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (12 bp):
ACTATGATTATG
Found at i:19029109 original size:22 final size:22
Alignment explanation
Indices: 19029084--19029129 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
19029074 GTTACAAAAA
*
19029084 AGAAAA-ATAAGGAGAACAAGAG
1 AGAAAAGAAAAGGAG-ACAAGAG
*
19029106 AGAAAAGAAAAGGAGAGAAGAG
1 AGAAAAGAAAAGGAGACAAGAG
19029128 AG
1 AG
19029130 TTTTGGTTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.63, C:0.02, G:0.33, T:0.02
Consensus pattern (22 bp):
AGAAAAGAAAAGGAGACAAGAG
Found at i:19035114 original size:24 final size:24
Alignment explanation
Indices: 19035082--19035143 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
19035072 AGTAATTGGT
*
19035082 TTTAAGCTTTAATAAAACGGTGAG
1 TTTAAGCTTTAATAAAACGATGAG
* * *
19035106 TTTATGCTTAAATGAAACGATGAG
1 TTTAAGCTTTAATAAAACGATGAG
*
19035130 TTTAGGCTTGTAAT
1 TTTAAGCTT-TAAT
19035144 TAAATGTTGC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
24 28 0.90
25 3 0.10
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.37
Consensus pattern (24 bp):
TTTAAGCTTTAATAAAACGATGAG
Found at i:19035633 original size:14 final size:14
Alignment explanation
Indices: 19035614--19035640 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19035604 GAATTTGATT
19035614 TTTATTTTTGGGTA
1 TTTATTTTTGGGTA
19035628 TTTATTTTTGGGT
1 TTTATTTTTGGGT
19035641 TGGGTACTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.11, C:0.00, G:0.22, T:0.67
Consensus pattern (14 bp):
TTTATTTTTGGGTA
Found at i:19037358 original size:16 final size:16
Alignment explanation
Indices: 19037337--19037367 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19037327 CTTAGCTGCA
19037337 GCTAACAACCCTAACT
1 GCTAACAACCCTAACT
*
19037353 GCTAACAACCTTAAC
1 GCTAACAACCCTAAC
19037368 AACTTCTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.35, G:0.06, T:0.19
Consensus pattern (16 bp):
GCTAACAACCCTAACT
Found at i:19040992 original size:18 final size:18
Alignment explanation
Indices: 19040969--19041003 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19040959 ACAGAATACT
19040969 TCATCCAATAAACAAATC
1 TCATCCAATAAACAAATC
* *
19040987 TCATCCCATATACAAAT
1 TCATCCAATAAACAAAT
19041004 ACAAAATACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.26
Consensus pattern (18 bp):
TCATCCAATAAACAAATC
Found at i:19041026 original size:8 final size:8
Alignment explanation
Indices: 19041009--19041049 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
19040999 CAAATACAAA
*
19041009 ATACAAAT
1 ATACATAT
*
19041017 ATACAGAT
1 ATACATAT
19041025 ATACATAT
1 ATACATAT
19041033 ATACATAT
1 ATACATAT
19041041 ATA-ATAT
1 ATACATAT
19041048 AT
1 AT
19041050 GCTTATACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
7 6 0.19
8 25 0.81
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.34
Consensus pattern (8 bp):
ATACATAT
Found at i:19045368 original size:23 final size:24
Alignment explanation
Indices: 19045320--19045379 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
19045310 ATCAAGAATT
19045320 TATGACATATTTTAACCTATAAAAA
1 TATGA-ATATTTTAACCTATAAAAA
* *
19045345 TATGAATATTTTAA-TTATATAAA
1 TATGAATATTTTAACCTATAAAAA
*
19045368 TATGAGTATTTT
1 TATGAATATTTT
19045380 TTTAAATAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
23 18 0.56
24 9 0.28
25 5 0.16
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (24 bp):
TATGAATATTTTAACCTATAAAAA
Found at i:19049113 original size:16 final size:18
Alignment explanation
Indices: 19049082--19049114 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
19049072 GTTAATAGAA
19049082 TAAATTTAGATTTAATTG
1 TAAATTTAGATTTAATTG
19049100 TAAATTT-G-TTTAATT
1 TAAATTTAGATTTAATT
19049115 TTTTTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (18 bp):
TAAATTTAGATTTAATTG
Found at i:19052901 original size:12 final size:12
Alignment explanation
Indices: 19052884--19052911 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
19052874 GATATAATTT
19052884 TATTAAATATTA
1 TATTAAATATTA
19052896 TATTAAATATTA
1 TATTAAATATTA
19052908 TATT
1 TATT
19052912 CTACTGAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
TATTAAATATTA
Found at i:19052975 original size:39 final size:39
Alignment explanation
Indices: 19052909--19053014 Score: 169
Period size: 39 Copynumber: 2.7 Consensus size: 39
19052899 TAAATATTAT
19052909 ATTCTACTGAAAGTATGCTCAATCGAGCCATACCCACTG
1 ATTCTACTGAAAGTATGCTCAATCGAGCCATACCCACTG
* *
19052948 ATTGTACT-AAAGGTATGTTCAATCGAGCCATACCCACTG
1 ATTCTACTGAAA-GTATGCTCAATCGAGCCATACCCACTG
*
19052987 ATTCTACTGAAAGTATGCTCAAACGAGC
1 ATTCTACTGAAAGTATGCTCAATCGAGC
19053015 AATATCTACT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 3 0.05
39 54 0.90
40 3 0.05
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (39 bp):
ATTCTACTGAAAGTATGCTCAATCGAGCCATACCCACTG
Found at i:19053044 original size:37 final size:37
Alignment explanation
Indices: 19052994--19053113 Score: 107
Period size: 39 Copynumber: 3.1 Consensus size: 37
19052984 CTGATTCTAC
*
19052994 TGAAAGTATGCTCAAACGAGCAATATCTACTGGATATAT
1 TGAATGTA-GCTCAAACGAGCAATATCTACT-GATATAT
* * * *
19053033 TGAATG-AGCTCAAAAGAGCAATGTCTATTGATTATAC
1 TGAATGTAGCTCAAACGAGCAATATCTACTGA-TATAT
* * * *
19053070 TAAATGTTTGCTCAAACGAGCATTATCCACTGATCATAT
1 TGAATG-TAGCTCAAACGAGCAATATCTACTGAT-ATAT
19053109 TGAAT
1 TGAAT
19053114 AAGATCTTTT
Statistics
Matches: 63, Mismatches: 14, Indels: 8
0.74 0.16 0.09
Matches are distributed among these distances:
36 2 0.03
37 28 0.44
38 2 0.03
39 31 0.49
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.31
Consensus pattern (37 bp):
TGAATGTAGCTCAAACGAGCAATATCTACTGATATAT
Found at i:19063297 original size:44 final size:45
Alignment explanation
Indices: 19063241--19063383 Score: 109
Period size: 44 Copynumber: 3.2 Consensus size: 45
19063231 TACTGTAACC
* *
19063241 TCAGAG-GTATAGGATTC-ATCAT-TTTAATCCGCTCAACTACAACT
1 TCAGAGAG-ATAGGATTCAAT-ATCTTCAATCCACTCAACTACAACT
* * *
19063285 TCAGGGAGATAGGA-TCAATATCTTCAATCTACTCCACTACAACT
1 TCAGAGAGATAGGATTCAATATCTTCAATCCACTCAACTACAACT
* ** * * *
19063329 TCAGAGAGATAAGATTGGA-ATCTTCAA-CCTGCTCCACTGCAACT
1 TCAGAGAGATAGGATTCAATATCTTCAATCC-ACTCAACTACAACT
*
19063373 TCAGGGAGATA
1 TCAGAGAGATA
19063384 AGGTTTGTCG
Statistics
Matches: 81, Mismatches: 13, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
43 5 0.06
44 73 0.90
45 3 0.04
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (45 bp):
TCAGAGAGATAGGATTCAATATCTTCAATCCACTCAACTACAACT
Found at i:19063384 original size:44 final size:44
Alignment explanation
Indices: 19063266--19063571 Score: 206
Period size: 44 Copynumber: 6.8 Consensus size: 44
19063256 TCATCATTTT
* * * * **
19063266 AATCCGCTCAACTACAACTTCAGGGAGATAGGA-TCAATATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGA-ATCTTC
* * *
19063310 AATCTACTCCACTACAACTTCAGAGAGATAAGATTGGAATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGAATCTTC
* * * ***
19063354 AACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTCGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGAATCTTC
* **
19063398 AATCTGCTCCACAT-CAACTTTAAGGG-GATAAGATTTGTAGTCTGTCTTC
1 AATCTGCTCCAC-TGCAAC-TTCAGGGAGATAAGA-TTG--G--AATCTTC
* * *
19063447 AATCTGCTCCACTGCAACTTCAGGGAGGTAAGATTGGTTTATTTTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGG---AATCTTC
* * * * *** *
19063494 -ACCTGTTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGAATCTTC
* *
19063537 AATATGCTCCACTGTAACTTCAGGGAGATAAGATT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
19063572 TGTAGCTTGT
Statistics
Matches: 207, Mismatches: 43, Indels: 24
0.76 0.16 0.09
Matches are distributed among these distances:
43 2 0.01
44 119 0.57
45 11 0.05
46 32 0.15
47 6 0.03
48 10 0.05
49 27 0.13
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGAATCTTC
Found at i:19063399 original size:88 final size:91
Alignment explanation
Indices: 19063306--19063478 Score: 212
Period size: 93 Copynumber: 1.9 Consensus size: 91
19063296 GGATCAATAT
19063306 CTTCAATCTACTCCAC-TACAACTTC-AGAGAGATAAGA-TTG-G-AATCTTCAACCTGCTCCAC
1 CTTCAATCTACTCCACAT-CAACTTCAAG-GAGATAAGATTTGAGCAATCTTCAACCTGCTCCAC
19063366 TGCAACTTCAGGGAGATAAGGTTTGTCG
64 TGCAACTTCAGGGAGATAAGGTTTGTCG
* * * ** *
19063394 CTTCAATCTGCTCCACATCAACTTTAAGGGGATAAGATTTGTAGTCTGTCTTCAATCTGCTCCAC
1 CTTCAATCTACTCCACATCAACTTCAAGGAGATAAGATTTG-AG-CAATCTTCAACCTGCTCCAC
*
19063459 TGCAACTTCAGGGAGGTAAG
64 TGCAACTTCAGGGAGATAAG
19063479 ATTGGTTTAT
Statistics
Matches: 71, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
88 29 0.41
89 6 0.08
91 1 0.01
93 35 0.49
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (91 bp):
CTTCAATCTACTCCACATCAACTTCAAGGAGATAAGATTTGAGCAATCTTCAACCTGCTCCACTG
CAACTTCAGGGAGATAAGGTTTGTCG
Found at i:19063556 original size:139 final size:139
Alignment explanation
Indices: 19063305--19063676 Score: 423
Period size: 139 Copynumber: 2.6 Consensus size: 139
19063295 AGGATCAATA
* * * * * *
19063305 TCTTCAATCTACTCCACTACAACTTCAGAGAGATAAGATTGG---AATCTTCAACCTGCTCCACT
1 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTATTTTTC-ACCTGTTCCACT
*
19063367 GCAACTTCAGGGAGATAAGGTTTGTCGCTTCAATCTGCTCCACATCAACTTTAAGGG-GATAAGA
65 GCAACTTCAGGGAGATAAGGTTTGTCGCTTCAATATGCTCCACATCAAC-TTAAGGGAGATAAGA
19063431 TTTGTAG-TCTG
129 TTTGTAGCT-TG
*
19063442 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGGTAAGATTGGTTTATTTTTCACCTGTTCCACTG
1 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTATTTTTCACCTGTTCCACTG
* * * *
19063507 CAACTTCAGGGAGATAAGGTTTGTGGCTTTAATATGCTCCAC-TGTAACTTCAGGGAGATAAGAT
66 CAACTTCAGGGAGATAAGGTTTGTCGCTTCAATATGCTCCACAT-CAACTTAAGGGAGATAAGAT
19063571 TTGTAGCTTG
130 TTGTAGCTTG
*
19063581 TCTTCAATCTGCTCCACTGTAACGCTCCACTGTAACTTCAGGGAGATAAGATTGGTTTATTTTTA
1 TCTTCAATCTGCTCCAC--T---G-----C---AACTTCAGGGAGATAAGATTGGTTTATTTTTC
*
19063646 ACCTGTTCCACTGTAACTTCAGGGAGATAAG
53 ACCTGTTCCACTGCAACTTCAGGGAGATAAG
19063677 ATTGGTTTAT
Statistics
Matches: 201, Mismatches: 15, Indels: 23
0.84 0.06 0.10
Matches are distributed among these distances:
137 38 0.19
138 7 0.03
139 87 0.43
140 6 0.03
141 1 0.00
144 1 0.00
149 1 0.00
152 60 0.30
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.33
Consensus pattern (139 bp):
TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTATTTTTCACCTGTTCCACTG
CAACTTCAGGGAGATAAGGTTTGTCGCTTCAATATGCTCCACATCAACTTAAGGGAGATAAGATT
TGTAGCTTG
Found at i:19063609 original size:13 final size:13
Alignment explanation
Indices: 19063591--19063616 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19063581 TCTTCAATCT
19063591 GCTCCACTGTAAC
1 GCTCCACTGTAAC
19063604 GCTCCACTGTAAC
1 GCTCCACTGTAAC
19063617 TTCAGGGAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.38, G:0.15, T:0.23
Consensus pattern (13 bp):
GCTCCACTGTAAC
Found at i:19063673 original size:46 final size:46
Alignment explanation
Indices: 19063606--19063722 Score: 216
Period size: 46 Copynumber: 2.5 Consensus size: 46
19063596 ACTGTAACGC
19063606 TCCACTGTAACTTCAGGGAGATAAGATTGGTTTATTTTTAACCTGT
1 TCCACTGTAACTTCAGGGAGATAAGATTGGTTTATTTTTAACCTGT
19063652 TCCACTGTAACTTCAGGGAGATAAGATTGGTTTATTTTTAACCTGT
1 TCCACTGTAACTTCAGGGAGATAAGATTGGTTTATTTTTAACCTGT
* *
19063698 TCCACTGCAACTTCAAGGAGATAAG
1 TCCACTGTAACTTCAGGGAGATAAG
19063723 GTTTGATATG
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (46 bp):
TCCACTGTAACTTCAGGGAGATAAGATTGGTTTATTTTTAACCTGT
Found at i:19066927 original size:20 final size:21
Alignment explanation
Indices: 19066883--19066929 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
19066873 GAACATGTTA
19066883 ATTTTTAGTCAATTTTACAATT
1 ATTTTTAGTCAATTTTA-AATT
* *
19066905 ATTTTTAGTGAATTTT-GATT
1 ATTTTTAGTCAATTTTAAATT
19066925 ATTTT
1 ATTTT
19066930 ACAAAGGGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 8 0.35
22 15 0.65
ACGTcount: A:0.28, C:0.04, G:0.09, T:0.60
Consensus pattern (21 bp):
ATTTTTAGTCAATTTTAAATT
Found at i:19069761 original size:6 final size:6
Alignment explanation
Indices: 19069750--19069777 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
19069740 TTACATGGGT
19069750 AACCAA AACCAA AACCAA AACCAA AACC
1 AACCAA AACCAA AACCAA AACCAA AACC
19069778 GAGGGAGGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.64, C:0.36, G:0.00, T:0.00
Consensus pattern (6 bp):
AACCAA
Found at i:19074582 original size:22 final size:21
Alignment explanation
Indices: 19074557--19074599 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
19074547 TGATAAACTT
19074557 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
19074579 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
19074600 GCTTAGAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 11 0.58
23 4 0.21
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:19076094 original size:20 final size:21
Alignment explanation
Indices: 19076050--19076097 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
19076040 GAACATGTTA
19076050 ATTTTTAGTCAATTTTACAATT
1 ATTTTTAGTCAATTTTA-AATT
* *
19076072 ATTTTTAGTGAATTTT-GATT
1 ATTTTTAGTCAATTTTAAATT
19076092 ATTTTT
1 ATTTTT
19076098 GACAGATTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.38
22 15 0.62
ACGTcount: A:0.27, C:0.04, G:0.08, T:0.60
Consensus pattern (21 bp):
ATTTTTAGTCAATTTTAAATT
Found at i:19080855 original size:9 final size:9
Alignment explanation
Indices: 19080841--19080882 Score: 68
Period size: 9 Copynumber: 4.8 Consensus size: 9
19080831 TGATATTAAT
*
19080841 AATAAAATA
1 AATAAAAGA
19080850 AAT-AAAGA
1 AATAAAAGA
19080858 AATAAAAGA
1 AATAAAAGA
19080867 AATAAAAGA
1 AATAAAAGA
19080876 AATAAAA
1 AATAAAA
19080883 TGTGAGATGC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 7 0.23
9 24 0.77
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (9 bp):
AATAAAAGA
Found at i:19089418 original size:15 final size:15
Alignment explanation
Indices: 19089398--19089427 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19089388 TTGAATAACA
*
19089398 CAACAAACTCACCAT
1 CAACAAAATCACCAT
19089413 CAACAAAATCACCAT
1 CAACAAAATCACCAT
19089428 TGACACAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.37, G:0.00, T:0.13
Consensus pattern (15 bp):
CAACAAAATCACCAT
Found at i:19089944 original size:19 final size:19
Alignment explanation
Indices: 19089920--19089960 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
19089910 GATTAGTTTG
*
19089920 TTTTTTTCCTTTTCTTTT-T
1 TTTTTTTACTTTT-TTTTAT
19089939 TTTTTTTACTTTTTTTTAT
1 TTTTTTTACTTTTTTTTAT
19089958 TTT
1 TTT
19089961 CTGTTACGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (19 bp):
TTTTTTTACTTTTTTTTAT
Found at i:19089955 original size:14 final size:14
Alignment explanation
Indices: 19089929--19089962 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
19089919 GTTTTTTTCC
19089929 TTTTCTTTTTTTT-
1 TTTTCTTTTTTTTA
19089942 TTTTACTTTTTTTTA
1 TTTT-CTTTTTTTTA
19089957 TTTTCT
1 TTTTCT
19089963 GTTACGAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.21
14 11 0.58
15 4 0.21
ACGTcount: A:0.06, C:0.09, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTCTTTTTTTTA
Found at i:19093017 original size:2 final size:2
Alignment explanation
Indices: 19093010--19093101 Score: 62
Period size: 2 Copynumber: 46.5 Consensus size: 2
19093000 TCCTATATTT
* * *
19093010 TA TA TA TA CA TA TA T- TT TA TA TA TA TA TA TA TA TA TT TCA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA
* * * * * * *
19093051 TT TA TA TA TA TA TT TA TA TA CA TA CA TA TT TT TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
19093093 TA TA CA TA T
1 TA TA TA TA T
19093102 CTTCATAGTC
Statistics
Matches: 69, Mismatches: 18, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
1 2 0.03
2 66 0.96
3 1 0.01
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19093032 original size:26 final size:25
Alignment explanation
Indices: 19093010--19093101 Score: 105
Period size: 26 Copynumber: 3.5 Consensus size: 25
19093000 TCCTATATTT
19093010 TATATATACATATATTTTATATATA
1 TATATATACATATATTTTATATATA
* *
19093035 TATATATATATTTCATTTTATATATA
1 TATATATACATAT-ATTTTATATATA
*
19093061 TATTTATATACATACATATTTT-TACATA
1 TA--TATATACAT--ATATTTTATATATA
19093089 TATATATACATAT
1 TATATATACATAT
19093102 CTTCATAGTC
Statistics
Matches: 57, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
24 2 0.04
25 11 0.19
26 23 0.40
28 15 0.26
29 5 0.09
30 1 0.02
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (25 bp):
TATATATACATATATTTTATATATA
Found at i:19095666 original size:50 final size:50
Alignment explanation
Indices: 19095581--19095697 Score: 137
Period size: 50 Copynumber: 2.3 Consensus size: 50
19095571 AGATAGGATC
* * * **
19095581 TGTAACTTTAATCTGTTTAGCTACAATGTCAGGGAAGTAAGATTCGCTGT
1 TGTAGCTTTAATCTGTTTAACTACAATGTCAGGGAAGCAAGATTCGCCAT
* * *
19095631 TGTAGCTTTAATCTTTTTAAC-AGCAATGTCGGGGAAGCGAGATTCGCCAT
1 TGTAGCTTTAATCTGTTTAACTA-CAATGTCAGGGAAGCAAGATTCGCCAT
*
19095681 TGTGGCTTTAATCTGTT
1 TGTAGCTTTAATCTGTT
19095698 CCACTGCACC
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
49 1 0.02
50 55 0.98
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (50 bp):
TGTAGCTTTAATCTGTTTAACTACAATGTCAGGGAAGCAAGATTCGCCAT
Found at i:19095794 original size:44 final size:45
Alignment explanation
Indices: 19095717--19095988 Score: 137
Period size: 44 Copynumber: 6.2 Consensus size: 45
19095707 CGCCTGGGAA
* * * *
19095717 ATAAGATTTGCTATCTTCGATCTGCCCCACTGCAACTTCAGGGGG
1 ATAAGATCTGCTATCTTCGATCTGCCCCACTGCAACCTCAAGGAG
* * *
19095762 ATAAGATCTGCT-TCTTCGGTCTGCTCCGCTGCAACCTCAAGGAG
1 ATAAGATCTGCTATCTTCGATCTGCCCCACTGCAACCTCAAGGAG
* * ** * * *
19095806 ATAAGACCTG--A--TGCGATCCACTCTACTGCAACTTC-AGAGAG
1 ATAAGATCTGCTATCTTCGATCTGCCCCACTGCAACCTCAAG-GAG
** ** * * * ** *
19095847 ATAAGATCTATTA-CTTTAATCCGCTCCACTACAATTTCAGGGAG
1 ATAAGATCTGCTATCTTCGATCTGCCCCACTGCAACCTCAAGGAG
* ** ** * * *
19095891 ATAGGAT-TATTGGCTTCAATCTGCTCCACTGCAACCTCAGGGAG
1 ATAAGATCTGCTATCTTCGATCTGCCCCACTGCAACCTCAAGGAG
* * * * * *
19095935 ATAAGATTTGCCATATTCGATCTGCCCCACTGCAACTTCAGGGGG
1 ATAAGATCTGCTATCTTCGATCTGCCCCACTGCAACCTCAAGGAG
19095980 ATAAGATCT
1 ATAAGATCT
19095989 ATAATTTCCA
Statistics
Matches: 175, Mismatches: 44, Indels: 16
0.74 0.19 0.07
Matches are distributed among these distances:
40 2 0.01
41 28 0.16
43 5 0.03
44 93 0.53
45 47 0.27
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (45 bp):
ATAAGATCTGCTATCTTCGATCTGCCCCACTGCAACCTCAAGGAG
Found at i:19096175 original size:44 final size:44
Alignment explanation
Indices: 19096126--19096260 Score: 164
Period size: 44 Copynumber: 3.1 Consensus size: 44
19096116 TGTAATTTCC
* * **
19096126 CAACCTATTTCACTGCTGGTCAGGGAGCTAGGTTTTGCAATCTT
1 CAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTGCAATCTT
* *
19096170 CAACCTATTCCACTGCTGTTCAGGGAGAT-GAGACTTACAATCTT
1 CAACCTATTCCACTGCTGGTCAGGGAGATAG-GACTTGCAATCTT
* * * *
19096214 CCACCTATTCCACTGCTAGCCAGGGAGATAGGACTTGTAATCTT
1 CAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTGCAATCTT
19096258 CAA
1 CAA
19096261 TCTGCTTCAC
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
43 1 0.01
44 74 0.97
45 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (44 bp):
CAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTGCAATCTT
Found at i:19096403 original size:88 final size:88
Alignment explanation
Indices: 19096253--19096791 Score: 702
Period size: 88 Copynumber: 6.1 Consensus size: 88
19096243 AGGACTTGTA
* * ** * * *
19096253 ATCTTCAATCTGCTTCACTGTCAGTACAAGAAGGCAAGAT-TCGTTATATTCAACCTGCTCCACT
1 ATCTTCGATCTGCTTCGCTGTCAGCGCAGGAAGGCAAGATCT-GCTATCTTCAACCTGCTCCACT
* * * * *
19096317 GCAACCCAAGGAGGAAAGACTAGT
65 GCAACCGAGGGAGGCAAGGCTGGT
* * * * *
19096341 GTCTTCGATCTGCTTCACTGTCAGCACAGGAAGGCAAGATCTGCAATTTTCAACCTGCTCCACTG
1 ATCTTCGATCTGCTTCGCTGTCAGCGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTG
* * * *
19096406 TAACCCAAGGAAGCAAGGCTGGT
66 CAACCGAGGGAGGCAAGGCTGGT
* * * *
19096429 ATCTTCGATCTGCTTCGCTGTCAGTGCAGGGAGGCAAGATCTGCTATCTTCAATCTGCTCCATTG
1 ATCTTCGATCTGCTTCGCTGTCAGCGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTG
19096494 CAACCGAGGGAGGCAAGGCTGGT
66 CAACCGAGGGAGGCAAGGCTGGT
* * * *
19096517 ATCTTCAATCTGCTTCGCTGTCAGCGCAGGAAGGCAAAATCTGCTATCATCAACCTGCTCTACTG
1 ATCTTCGATCTGCTTCGCTGTCAGCGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTG
* *
19096582 TAACCGAGGGAGGCAAGGCTAGT
66 CAACCGAGGGAGGCAAGGCTGGT
* * *
19096605 ATCTTTGATCTACTTCGCTGTCAGCGTAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTG
1 ATCTTCGATCTGCTTCGCTGTCAGCGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTG
*
19096670 CAACCGAGGGAGGCGAGGCTGGT
66 CAACCGAGGGAGGCAAGGCTGGT
* * *
19096693 ATCTTTGATATGCTTCGCTGTCAGCGCAAGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTG
1 ATCTTCGATCTGCTTCGCTGTCAGCGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTG
**
19096758 CAACCGATTGAGGCAAGGCTGGT
66 CAACCGAGGGAGGCAAGGCTGGT
19096781 ATCTTCGATCT
1 ATCTTCGATCT
19096792 TCACTAATCT
Statistics
Matches: 396, Mismatches: 54, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
88 395 1.00
89 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (88 bp):
ATCTTCGATCTGCTTCGCTGTCAGCGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTG
CAACCGAGGGAGGCAAGGCTGGT
Found at i:19096417 original size:45 final size:44
Alignment explanation
Indices: 19096301--19096422 Score: 101
Period size: 45 Copynumber: 2.8 Consensus size: 44
19096291 ATTCGTTATA
* * *
19096301 TTCAACCTGCTCCACTGCAACCCAAGG-AGGAAAGACTAGTGTC
1 TTCAACCTGCTCCACTGTAACCCAAGGAAGGCAAGACTAATGTC
* * * * *
19096344 TTCGATCTGCTTCACTGTCA-GCACAGGAAGGCAAGATCTGCAAT-T-
1 TTCAACCTGCTCCACTGTAACCCA-AGGAAGGCAAGA-CT--AATGTC
19096389 TTCAACCTGCTCCACTGTAACCCAAGGAA-GCAAG
1 TTCAACCTGCTCCACTGTAACCCAAGGAAGGCAAG
19096423 GCTGGTATCT
Statistics
Matches: 60, Mismatches: 13, Indels: 11
0.71 0.15 0.13
Matches are distributed among these distances:
42 2 0.03
43 18 0.30
44 12 0.20
45 23 0.38
46 3 0.05
47 2 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (44 bp):
TTCAACCTGCTCCACTGTAACCCAAGGAAGGCAAGACTAATGTC
Found at i:19098061 original size:13 final size:13
Alignment explanation
Indices: 19098045--19098082 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
19098035 CATTTTTACT
*
19098045 TTTTCCTTTTTCA
1 TTTTCCATTTTCA
19098058 TTTTCCATTTTCA
1 TTTTCCATTTTCA
19098071 TTTTTCCATTTT
1 -TTTTCCATTTT
19098083 TGCACATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.11, C:0.21, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTCCATTTTCA
Found at i:19098092 original size:10 final size:8
Alignment explanation
Indices: 19098033--19098093 Score: 53
Period size: 7 Copynumber: 8.1 Consensus size: 8
19098023 CCTTAGCCTC
19098033 TCCATTTT
1 TCCATTTT
*
19098041 TAC-TTTT
1 TCCATTTT
19098048 TCC-TTTT
1 TCCATTTT
19098055 T-CA-TTT
1 TCCATTTT
19098061 TCCA-TTT
1 TCCATTTT
19098068 T-CATTTT
1 TCCATTTT
19098075 TCCATTTT
1 TCCATTTT
19098083 TGCACATTTT
1 T-C-CATTTT
19098093 T
1 T
19098094 TTTGAATTGG
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
6 7 0.16
7 21 0.47
8 9 0.20
9 1 0.02
10 7 0.16
ACGTcount: A:0.13, C:0.21, G:0.02, T:0.64
Consensus pattern (8 bp):
TCCATTTT
Found at i:19102074 original size:15 final size:15
Alignment explanation
Indices: 19102036--19102075 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
19102026 TAGTTGACTC
19102036 GTTTTTTTATTTTAT
1 GTTTTTTTATTTTAT
*
19102051 GTTTCTTTATTTTAT
1 GTTTTTTTATTTTAT
19102066 -TTTATTTTAT
1 GTTT-TTTTAT
19102076 CATTTATTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 3 0.14
15 19 0.86
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.78
Consensus pattern (15 bp):
GTTTTTTTATTTTAT
Found at i:19103687 original size:16 final size:16
Alignment explanation
Indices: 19103668--19103698 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19103658 TCATATCAAA
*
19103668 ATGTTATTTATTCATT
1 ATGTTATTTAGTCATT
19103684 ATGTTATTTAGTCAT
1 ATGTTATTTAGTCAT
19103699 ATTACGTGAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.06, G:0.10, T:0.58
Consensus pattern (16 bp):
ATGTTATTTAGTCATT
Found at i:19113289 original size:38 final size:38
Alignment explanation
Indices: 19113247--19113376 Score: 118
Period size: 38 Copynumber: 3.1 Consensus size: 38
19113237 ATTTACTAAC
19113247 TTTATGTACAAAATAAATTATATTATTATAATAATATT
1 TTTATGTACAAAATAAATTATATTATTATAATAATATT
* * *
19113285 TTTATTGTATATTTTAATAAAATTA-ATTAAAAATAATAATTAAAATATT
1 TTTA-TGTACA---AAAT-AAATTATATT----ATTATAA-T--AATATT
19113334 TTTATGTACAAAATAAATTATATTATTATAATAATATT
1 TTTATGTACAAAATAAATTATATTATTATAATAATATT
19113372 TTTAT
1 TTTAT
19113377 TGTATATTTT
Statistics
Matches: 73, Mismatches: 6, Indels: 26
0.70 0.06 0.25
Matches are distributed among these distances:
38 15 0.21
39 5 0.07
40 1 0.01
41 6 0.08
42 6 0.08
43 6 0.08
44 6 0.08
45 6 0.08
46 6 0.08
47 1 0.01
48 5 0.07
49 10 0.14
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (38 bp):
TTTATGTACAAAATAAATTATATTATTATAATAATATT
Found at i:19115443 original size:53 final size:53
Alignment explanation
Indices: 19115363--19115469 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
19115353 AGCCCAGATC
19115363 AACAAAGCTGTTGACCGTTAGTTGACTGACAATCACATCAGCTTTTCTGTTAA
1 AACAAAGCTGTTGACCGTTAGTTGACTGACAATCACATCAGCTTTTCTGTTAA
19115416 AACAAAGCTGTTGACCGTTAGTTGACTGACAATCACATCAGCTTTTCTGTTAA
1 AACAAAGCTGTTGACCGTTAGTTGACTGACAATCACATCAGCTTTTCTGTTAA
19115469 A
1 A
19115470 TTTGGGTTAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.32
Consensus pattern (53 bp):
AACAAAGCTGTTGACCGTTAGTTGACTGACAATCACATCAGCTTTTCTGTTAA
Found at i:19118870 original size:24 final size:24
Alignment explanation
Indices: 19118838--19118886 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
19118828 TTTGAGTAGT
19118838 GGATGTGTAGTGGGAATTAGGGGA
1 GGATGTGTAGTGGGAATTAGGGGA
19118862 GGATGTGTAGTGGGAATTAGGGGA
1 GGATGTGTAGTGGGAATTAGGGGA
19118886 G
1 G
19118887 AAAATTAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.51, T:0.24
Consensus pattern (24 bp):
GGATGTGTAGTGGGAATTAGGGGA
Found at i:19124326 original size:123 final size:123
Alignment explanation
Indices: 19124199--19124668 Score: 444
Period size: 123 Copynumber: 3.8 Consensus size: 123
19124189 CACTGCTGGT
* * *
19124199 CAGGGACATAGGACTTGTGGCTTAAATTTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGCT
1 CAGGGACATAGGACTTGTAGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCACCGCT
19124264 TAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATCTTCAACCTATCCCATTGTTGAC
66 TAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATCTTCAACCTATCCCATTGTTGAC
* *
19124322 CAGGGTCATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCACCGCT
1 CAGGGACATAGGACTTGTAGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCACCGCT
* ** *
19124387 TAGATCTGTTTCCCTACTCCTGGGGAAGATAAGA--TTCACCGCT-T-AGATCTGTTTCCCTAC
66 TAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATCTTCAAC-CTATCCCAT-TG-TT---GAC
* * * * * * ** * * * * *
19124447 TTCTGGGGAAGATAAGATCTT-CAACCT--ATCTCATTGCTTAC-CAAT---G-ACATAGGACTT
1 --C-AGGG-ACATAGGA-CTTGTAGCTTAAATCTGTTTCCCTACTC-CTGGGGAAGATAAGA-TT
*** * * *
19124504 -GTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATCTTTAACCTATCCCATTGTTGAT
59 CACCGCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATCTTCAACCTATCCCATTGTTGAC
* * *
19124568 CAAGGACATAGGACTTGTAGCTTAAATCTGTTTCCCTACTCCTGGAGAAAATAAGATTCACCGCT
1 CAGGGACATAGGACTTGTAGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCACCGCT
*
19124633 TAGATCTGTTTCCCTACTCCTGGAGAAGATAAGATC
66 TAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATC
19124669 CGCAACATGA
Statistics
Matches: 270, Mismatches: 51, Indels: 52
0.72 0.14 0.14
Matches are distributed among these distances:
116 3 0.01
117 9 0.03
118 2 0.01
119 12 0.04
120 3 0.01
121 9 0.03
122 7 0.03
123 181 0.67
124 7 0.03
125 9 0.03
126 3 0.01
127 12 0.04
128 3 0.01
129 7 0.03
130 3 0.01
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (123 bp):
CAGGGACATAGGACTTGTAGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCACCGCT
TAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATCTTCAACCTATCCCATTGTTGAC
Found at i:19124402 original size:43 final size:43
Alignment explanation
Indices: 19124341--19124464 Score: 230
Period size: 43 Copynumber: 2.9 Consensus size: 43
19124331 AGGACTTGTG
*
19124341 GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCACC
1 GCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCACC
19124384 GCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCACC
1 GCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCACC
*
19124427 GCTTAGATCTGTTTCCCTACTTCTGGGGAAGATAAGAT
1 GCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGAT
19124465 CTTCAACCTA
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 79 1.00
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.31
Consensus pattern (43 bp):
GCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCACC
Found at i:19124501 original size:166 final size:166
Alignment explanation
Indices: 19124218--19124544 Score: 566
Period size: 166 Copynumber: 2.0 Consensus size: 166
19124208 AGGACTTGTG
* *
19124218 GCTTAAATTTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGCTTAGATCTGTTTCCCTACTC
1 GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCACCGCTTAGATCTGTTTCCCTACTC
* *
19124283 CTGGGGAAGATAAGATCTTCAACCTATCCCATTGTTGACCAGGGTCATAGGACTTGTGGCTTAAA
66 CTGGGGAAGATAAGATCTTCAACCTATCCCATTGTTGACCAAGGACATAGGACTTGTGGCTTAAA
19124348 TCTGTTTCCCTACTCCTGGGGAAGATAAGATTCACC
131 TCTGTTTCCCTACTCCTGGGGAAGATAAGATTCACC
* *
19124384 GCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCACCGCTTAGATCTGTTTCCCTACTT
1 GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCACCGCTTAGATCTGTTTCCCTACTC
* *
19124449 CTGGGGAAGATAAGATCTTCAACCTATCTCATTGCTT-ACCAATGACATAGGACTTGTGGCTTAA
66 CTGGGGAAGATAAGATCTTCAACCTATCCCATTG-TTGACCAAGGACATAGGACTTGTGGCTTAA
19124513 ATCTGTTTCCCTACTCCTGGGGAAGATAAGAT
130 ATCTGTTTCCCTACTCCTGGGGAAGATAAGAT
19124545 CTTTAACCTA
Statistics
Matches: 152, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
166 150 0.99
167 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (166 bp):
GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCACCGCTTAGATCTGTTTCCCTACTC
CTGGGGAAGATAAGATCTTCAACCTATCCCATTGTTGACCAAGGACATAGGACTTGTGGCTTAAA
TCTGTTTCCCTACTCCTGGGGAAGATAAGATTCACC
Found at i:19124533 original size:80 final size:80
Alignment explanation
Indices: 19124261--19124624 Score: 371
Period size: 80 Copynumber: 4.5 Consensus size: 80
19124251 AAGATTCGCC
* *
19124261 GCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATCTTCAACCTATCCCATTGTTGACCAGG
1 GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATCTTCAACCTATCCCATTGTTGACCAAG
*
19124326 GTCATAGGACTTGTG
66 GACATAGGACTTGTG
* ** *
19124341 GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGA--TTCACCGCT-T-AGATCTGTTTCCCT
1 GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATCTTCAAC-CTATCCCAT-TG-TT---G
** * * ***
19124402 ACTCCTGGGGAAGATAAGA-TTCACC
60 A--CC-AAGG-ACATAGGACTT-GTG
* * *
19124427 GCTTAGATCTGTTTCCCTACTTCTGGGGAAGATAAGATCTTCAACCTATCTCATTGCTT-ACCAA
1 GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATCTTCAACCTATCCCATTG-TTGACCAA
*
19124491 TGACATAGGACTTGTG
65 GGACATAGGACTTGTG
* *
19124507 GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATCTTTAACCTATCCCATTGTTGATCAAG
1 GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATCTTCAACCTATCCCATTGTTGACCAAG
*
19124572 GACATAGGACTTGTA
66 GACATAGGACTTGTG
* *
19124587 GCTTAAATCTGTTTCCCTACTCCTGGAGAAAATAAGAT
1 GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGAT
19124625 TCACCGCTTA
Statistics
Matches: 232, Mismatches: 35, Indels: 34
0.77 0.12 0.11
Matches are distributed among these distances:
77 2 0.01
78 8 0.03
79 6 0.03
80 148 0.64
81 3 0.01
82 3 0.01
84 3 0.01
85 5 0.02
86 40 0.17
87 2 0.01
88 10 0.04
89 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.32
Consensus pattern (80 bp):
GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATCTTCAACCTATCCCATTGTTGACCAAG
GACATAGGACTTGTG
Found at i:19125898 original size:7 final size:7
Alignment explanation
Indices: 19125879--19125942 Score: 82
Period size: 7 Copynumber: 9.4 Consensus size: 7
19125869 TTAGCCTCTC
19125879 CATTTTT
1 CATTTTT
19125886 -ACTTTTT
1 CA-TTTTT
19125893 CA-TTTT
1 CATTTTT
19125899 CATTTTT
1 CATTTTT
19125906 CA-TTTT
1 CATTTTT
19125912 CATTTTT
1 CATTTTT
19125919 CA-TTTT
1 CATTTTT
19125925 CATTTTTT
1 CA-TTTTT
19125933 CATTTTT
1 CATTTTT
19125940 CAT
1 CAT
19125943 CCCTTTTTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
6 19 0.37
7 25 0.49
8 7 0.14
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:19125904 original size:13 final size:13
Alignment explanation
Indices: 19125888--19125938 Score: 93
Period size: 13 Copynumber: 3.8 Consensus size: 13
19125878 CCATTTTTAC
19125888 TTTTTCATTTTCA
1 TTTTTCATTTTCA
19125901 TTTTTCATTTTCA
1 TTTTTCATTTTCA
19125914 TTTTTCATTTTCA
1 TTTTTCATTTTCA
19125927 TTTTTTCATTTT
1 -TTTTTCATTTT
19125939 TCATCCCTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
13 26 0.70
14 11 0.30
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTTCATTTTCA
Found at i:19125938 original size:6 final size:6
Alignment explanation
Indices: 19125889--19125930 Score: 66
Period size: 6 Copynumber: 6.7 Consensus size: 6
19125879 CATTTTTACT
19125889 TTTTCA TTTTCA TTTTTCA TTTTCA TTTTTCA TTTTCA TTTT
1 TTTTCA TTTTCA -TTTTCA TTTTCA -TTTTCA TTTTCA TTTT
19125931 TTCATTTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 22 0.65
7 12 0.35
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTCA
Found at i:19126932 original size:21 final size:21
Alignment explanation
Indices: 19126908--19126947 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
19126898 TTTTCTCTTC
* *
19126908 TTTTTGTTTTTTTTATTTTGA
1 TTTTTGATTTTTTCATTTTGA
19126929 TTTTTGATTTTTTCATTTT
1 TTTTTGATTTTTTCATTTT
19126948 CATTCCTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.03, G:0.07, T:0.80
Consensus pattern (21 bp):
TTTTTGATTTTTTCATTTTGA
Found at i:19132823 original size:41 final size:41
Alignment explanation
Indices: 19132726--19132812 Score: 174
Period size: 41 Copynumber: 2.1 Consensus size: 41
19132716 CTTAGATGGT
19132726 AATTAGACCATTTATAATGTTAGTGGACAAATATGGACATA
1 AATTAGACCATTTATAATGTTAGTGGACAAATATGGACATA
19132767 AATTAGACCATTTATAATGTTAGTGGACAAATATGGACATA
1 AATTAGACCATTTATAATGTTAGTGGACAAATATGGACATA
19132808 AATTA
1 AATTA
19132813 AGTGTTTTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.32
Consensus pattern (41 bp):
AATTAGACCATTTATAATGTTAGTGGACAAATATGGACATA
Found at i:19133877 original size:25 final size:25
Alignment explanation
Indices: 19133813--19133879 Score: 107
Period size: 25 Copynumber: 2.7 Consensus size: 25
19133803 CATTCCGACC
* *
19133813 CACAACTCGTGTGAACAGGCTATTT
1 CACAGCTCGTGTGAGCAGGCTATTT
*
19133838 CACAGCTCGTGTGAGTAGGCTATTT
1 CACAGCTCGTGTGAGCAGGCTATTT
19133863 CACAGCTCGTGTGAGCA
1 CACAGCTCGTGTGAGCA
19133880 ATGCTGTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (25 bp):
CACAGCTCGTGTGAGCAGGCTATTT
Found at i:19135698 original size:19 final size:19
Alignment explanation
Indices: 19135674--19135713 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
19135664 TTAATAGGAG
19135674 TAATGAATGAGATTTTTTT
1 TAATGAATGAGATTTTTTT
19135693 TAATGAATGAGATTTTTTT
1 TAATGAATGAGATTTTTTT
19135712 TA
1 TA
19135714 GTTACAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.53
Consensus pattern (19 bp):
TAATGAATGAGATTTTTTT
Found at i:19137597 original size:12 final size:12
Alignment explanation
Indices: 19137580--19137604 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19137570 AAAATAACAT
19137580 AAATATACATAC
1 AAATATACATAC
19137592 AAATATACATAC
1 AAATATACATAC
19137604 A
1 A
19137605 TGGAAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (12 bp):
AAATATACATAC
Found at i:19139464 original size:12 final size:12
Alignment explanation
Indices: 19139447--19139471 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19139437 AAAATAACAT
19139447 AAATATACATAC
1 AAATATACATAC
19139459 AAATATACATAC
1 AAATATACATAC
19139471 A
1 A
19139472 TGGAAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (12 bp):
AAATATACATAC
Found at i:19140732 original size:25 final size:24
Alignment explanation
Indices: 19140700--19140763 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 24
19140690 AAATTAACAA
19140700 TTCAAACAAATTAAACATAAAAAT
1 TTCAAACAAATTAAACATAAAAAT
* **
19140724 TTCAGAACAATTTAAACATACGAAT
1 TTCA-AACAAATTAAACATAAAAAT
*
19140749 TTCAAATAAATTAAA
1 TTCAAACAAATTAAA
19140764 AGTTCCATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 13 0.38
25 21 0.62
ACGTcount: A:0.56, C:0.12, G:0.03, T:0.28
Consensus pattern (24 bp):
TTCAAACAAATTAAACATAAAAAT
Found at i:19141095 original size:146 final size:146
Alignment explanation
Indices: 19140803--19141149 Score: 405
Period size: 145 Copynumber: 2.4 Consensus size: 146
19140793 TACTTAACCA
* *
19140803 TAATTATATAATGTCAATTATATATATTATGATCTACCATAAAATTAGTTACACGTTTAAGGTAT
1 TAATTATATAATGT-AATTATATATATTATAATCTACCATAAAATTAGTTACACGCTTAAGGTAT
* ** * ** **
19140868 AAAGTTACATATCATTAATATAAAAATATACATTATAGTATCATAATTGTATATAGGGTTAGATA
65 AAAGTTACAAATCAAAAACATAAAAATATACATTATAAAAAAATAATTGTATATAGGGTTAGATA
*
19140933 TCATTAATAATCTACC-
130 TCATTAATAATATACCT
* * *
19140949 TAATTATATAACGCTAATTATAT-TATTATAATCTACCATAAAATTAGTTATATGCTT-AGAGT-
1 TAATTATATAATG-TAATTATATATATTATAATCTACCATAAAATTAGTTACACGCTTAAG-GTA
* * * * *
19141011 TTAAGTTTACAAATCAAAAACATAAAAATGTACATTATAAAAAAAATAGTTGTATATGGGGTTAT
64 TAAAG-TTACAAATCAAAAACATAAAAATATACATTAT-AAAAAAATAATTGTATATAGGGTTAG
19141076 ATATCATTAATAATATACCT
127 ATATCATTAATAATATACCT
* * * *
19141096 TAATTATATAATGTTGATTGTATATATTATAATATACCATAAAATTAGGTACAC
1 TAATTATATAATG-TAATTATATATATTATAATCTACCATAAAATTAGTTACAC
19141150 ATGTTGAAAT
Statistics
Matches: 168, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
144 6 0.04
145 59 0.35
146 57 0.34
147 20 0.12
148 26 0.15
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.39
Consensus pattern (146 bp):
TAATTATATAATGTAATTATATATATTATAATCTACCATAAAATTAGTTACACGCTTAAGGTATA
AAGTTACAAATCAAAAACATAAAAATATACATTATAAAAAAATAATTGTATATAGGGTTAGATAT
CATTAATAATATACCT
Found at i:19143647 original size:236 final size:231
Alignment explanation
Indices: 19143124--19143753 Score: 665
Period size: 236 Copynumber: 2.7 Consensus size: 231
19143114 TTGTTGGCTA
* * * *
19143124 GAAGATACATGTGACATAGGTTTAGCTCGGACAAGTAACTTGATCTCGTTTTAAAGGTTTAGCCC
1 GAAGATACATGTGACACAGGTTTAGCTC-GACAAGTAACATGATATCGTTTTAAAGGTTTAGCCA
* * * *
19143189 GA-ATGGGTAACCTTACATGTATA--TATAGCCGTAGACAAACTATTTGATGTGTCGATATAAAG
65 GACA--GGTAA-CTTACATGTATATTTATAG-CTTTGCCAAGCTATTTGATGTGTCGATA-AAAG
* * * ** * * * *
19143251 GTTCAGCCTGTACAGGTAACCTGACATGAATATATGTTCGGCTTGGATGAGCAACAAATGTGGTT
125 GTTTAGCCCGGACAGGTAACCTGACACAAATATATGTTCAGCTCGGACGAGCAACAAATATGGTT
* * * * *
19143316 AATTACTGATGATTACCGAGATTCAACATTTTTTGCAGACTC
190 AATTACCGATGATTACCAAGATCCAACATTTGTTGCAAACTC
* * *
19143358 GAAGATACACGTGACACAGGTTTAGCTCGAACAAGTAACCTGATATTGTTTTAAAGGTTTAGCTC
1 GAAGATACATGTGACACAGGTTTAGCTCG-ACAAGTAACATGATATCGTTTTAAAGGTTTAGC-C
19143423 AGACAGGTAACTTGACATGTATATTTATAGCTTTGGCCAAGCTATTT-ATGTGTCGATAAAAGGT
64 AGACAGGTAACTT-ACATGTATATTTATAGCTTT-GCCAAGCTATTTGATGTGTCGATAAAAGGT
** * * * *
19143487 TTAGCCCGGATGGGTAACTTGACACAAATGGATCTGTTCAGCTCGGACGAGCATCAGATATGGTT
127 TTAGCCCGGACAGGTAACCTGACACAAAT--ATATGTTCAGCTCGGACGAGCAACAAATATGGTT
* *
19143552 AATTACCGATGATTACTAAGATCCAACATTTGTTGCAAACTT
190 AATTACCGATGATTACCAAGATCCAACATTTGTTGCAAACTC
* ** *
19143594 GAAGATACATGTGACACAGGTTTTGCTCAGATGAGTAACATGATGTCGTTTTAAAGGTTTAGCCT
1 GAAGATACATGTGACACAGGTTTAGCTC-GACAAGTAACATGATATCGTTTTAAAGGTTTAGCC-
* * * * *
19143659 GGACAGGTAACCTAAGATATATATTTACAGCTTTGCCTAAGCTATTTGATGTGTCGATAAAAGGT
64 AGACAGGTAA-CTTACATGTATATTTATAGCTTTGCC-AAGCTATTTGATGTGTCGATAAAAGGT
** * * *
19143724 TTAATCCAGACAGGTAACTTGTCACAAATA
127 TTAGCCCGGACAGGTAACCTGACACAAATA
19143754 GATATATTCA
Statistics
Matches: 332, Mismatches: 50, Indels: 27
0.81 0.12 0.07
Matches are distributed among these distances:
233 4 0.01
234 97 0.29
235 21 0.06
236 167 0.50
237 43 0.13
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (231 bp):
GAAGATACATGTGACACAGGTTTAGCTCGACAAGTAACATGATATCGTTTTAAAGGTTTAGCCAG
ACAGGTAACTTACATGTATATTTATAGCTTTGCCAAGCTATTTGATGTGTCGATAAAAGGTTTAG
CCCGGACAGGTAACCTGACACAAATATATGTTCAGCTCGGACGAGCAACAAATATGGTTAATTAC
CGATGATTACCAAGATCCAACATTTGTTGCAAACTC
Found at i:19148831 original size:20 final size:19
Alignment explanation
Indices: 19148794--19148831 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
19148784 TTTTTAAATA
*
19148794 ATATTGATACATTTAAAAC
1 ATATTGATACAATTAAAAC
19148813 ATATTGATAACAATTAAAA
1 ATATTGAT-ACAATTAAAA
19148832 TATTATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (19 bp):
ATATTGATACAATTAAAAC
Found at i:19150269 original size:27 final size:27
Alignment explanation
Indices: 19150226--19150278 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
19150216 TAGGCTATTC
* *
19150226 GGGTCTTAATATTTGGGCTTGAATTTT
1 GGGTCTTAATATCTGGGCTTAAATTTT
*
19150253 GGGT-TTAATAATCTGGGTTTAAATTT
1 GGGTCTTAAT-ATCTGGGCTTAAATTT
19150279 CTATAAATGG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.23, C:0.06, G:0.25, T:0.47
Consensus pattern (27 bp):
GGGTCTTAATATCTGGGCTTAAATTTT
Found at i:19150610 original size:20 final size:20
Alignment explanation
Indices: 19150585--19150625 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
19150575 AAAGTAAGAT
19150585 TCGCCATTGTGGCTTTAACC
1 TCGCCATTGTGGCTTTAACC
19150605 TCGCCATTGTGGCTTTAACC
1 TCGCCATTGTGGCTTTAACC
19150625 T
1 T
19150626 TTTTAACTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.29, G:0.20, T:0.37
Consensus pattern (20 bp):
TCGCCATTGTGGCTTTAACC
Found at i:19150834 original size:22 final size:22
Alignment explanation
Indices: 19150806--19150848 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
19150796 CTTTGTTTTA
*
19150806 ATCCACTCCACTGTAATCTCAG
1 ATCCACTCCACTATAATCTCAG
19150828 ATCCACTCCACTATAATCTCA
1 ATCCACTCCACTATAATCTCA
19150849 AGAAGATAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.37, G:0.05, T:0.28
Consensus pattern (22 bp):
ATCCACTCCACTATAATCTCAG
Found at i:19151085 original size:142 final size:141
Alignment explanation
Indices: 19150828--19151204 Score: 619
Period size: 142 Copynumber: 2.7 Consensus size: 141
19150818 GTAATCTCAG
*
19150828 ATCCACTCCACTATAATCTCAAGAAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCA
1 ATCCACTCCACTATAATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCA
*
19150893 GGGAGATAAGATTTCTAGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGA
66 GGGAGATAAGA-TTCTAGCTTCAATCTGATGCGATCTACTCTACTATAACTTCAGAGAGATAAGA
*
19150958 TCCTTTATTTTA
130 TCCTCTATTTTA
19150970 ATCCACTCCACTATAATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCA
1 ATCCACTCCACTATAATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCA
* *
19151035 AGGAGATAAGATATCTGGCTTCAATCTGATGCGATCTACTCTACTATAACTTCAGAGAGATAAGA
66 GGGAGATAAGAT-TCTAGCTTCAATCTGATGCGATCTACTCTACTATAACTTCAGAGAGATAAGA
*
19151100 TCCTCTGTTTTA
130 TCCTCTATTTTA
** * * *
19151112 ATCTGCTACACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCA
1 ATCCACTCCACTATAATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCA
*
19151177 GGGAGATAGGATTACTAGCTTCAATCTG
66 GGGAGATAAGATT-CTAGCTTCAATCTG
19151205 CTCCGCTGTA
Statistics
Matches: 219, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
141 2 0.01
142 217 0.99
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.31
Consensus pattern (141 bp):
ATCCACTCCACTATAATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCA
GGGAGATAAGATTCTAGCTTCAATCTGATGCGATCTACTCTACTATAACTTCAGAGAGATAAGAT
CCTCTATTTTA
Found at i:19151193 original size:186 final size:186
Alignment explanation
Indices: 19150983--19151390 Score: 708
Period size: 186 Copynumber: 2.2 Consensus size: 186
19150973 CACTCCACTA
*
19150983 TAATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATA
1 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATA
*
19151048 TCTGGCTTCAATCTGATGCGATCTACTCTACTATAACTTCAGAGAGATAAGATCCTCTGTTTTAA
66 TCTGGCTTCAATCTGATGCGATCTACTCTACTATAACTTCAGAGAGATAAGATCCTCTATTTTAA
*
19151113 TCTGCTACACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTG
131 TCCGCTACACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTG
* *
19151169 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
1 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATA
* *
19151234 TCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAA
66 TCTGGCTTCAATCTGATGCGATCTACTCTACTATAACTTCAGAGAGATAAGATCCTCTATTTTAA
*
19151299 TCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTG
131 TCCGCTACACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTG
* * * *
19151355 TAATCTCAGGGAGCTAAGATTTCTGGCTTCAATCTG
1 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTG
19151391 ATGTGATCTA
Statistics
Matches: 210, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
186 210 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (186 bp):
TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATA
TCTGGCTTCAATCTGATGCGATCTACTCTACTATAACTTCAGAGAGATAAGATCCTCTATTTTAA
TCCGCTACACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTG
Found at i:19151267 original size:142 final size:141
Alignment explanation
Indices: 19151121--19151532 Score: 603
Period size: 142 Copynumber: 2.9 Consensus size: 141
19151111 AATCTGCTAC
* * * * * *
19151121 ACTGTAA-TCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATA
1 ACTGTAACT-TCAGAGAGATAAGATT-CTAGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATA
19151185 GGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGA
64 GGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGA
19151250 TGCGATCTACTCT
129 TGCGATCTACTCT
*
19151263 ACTGTAACTTCAGAGAGATAAGATCCTTTA-TTTTAATCCGCTCCACTGTAATCTCAGGGAGATA
1 ACTGTAACTTCAGAGAGATAAGAT--TCTAGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATA
*
19151327 GGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGCTAAGATTTCTGGCTTCAATCTGA
64 GGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGA
*
19151392 TGTGATCTACTCT
129 TGCGATCTACTCT
* * * *
19151405 ATTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTGTAATCTTAGGGAGATAG
1 ACTGTAACTTCAGAGAGATAAGATTC-TAGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAG
* * * * *
19151470 GATTACTAGCTTTAGTCTGCTCCGCTATAATCTCAGGGAGATAAGATTTCTGACTTTAATCTG
65 GATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTG
19151533 CTTTCTTACA
Statistics
Matches: 245, Mismatches: 20, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
141 1 0.00
142 240 0.98
143 3 0.01
144 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (141 bp):
ACTGTAACTTCAGAGAGATAAGATTCTAGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGG
ATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATG
CGATCTACTCT
Found at i:19151439 original size:328 final size:328
Alignment explanation
Indices: 19150833--19151534 Score: 1181
Period size: 328 Copynumber: 2.1 Consensus size: 328
19150823 CTCAGATCCA
* * *
19150833 CTCCACTATAATCTCAAGAAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
1 CTCCGCTATAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
19150898 ATAAGATTTCTAGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTT
66 ATAAGATTTCTAGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTT
19150963 TATTTTAATCCACTCCACTATAATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGT
131 TATTTTAATCCACTCCACTATAATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGT
19151028 AATCTCAAGGAGATAAGATATCTGGCTTCAATCTGATGCGATCTACTCTACTATAACTTCAGAGA
196 AATCTCAAGGAGATAAGATATCTGGCTTCAATCTGATGCGATCTACTCTACTATAACTTCAGAGA
*
19151093 GATAAGATCCTCTGTTTTAATCTGCTACACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAAT
261 GATAAGATCCTCTGTTTTAATCCGCTACACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAAT
19151158 CTG
326 CTG
*
19151161 CTCCGCTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
1 CTCCGCTATAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
*
19151226 ATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTT
66 ATAAGATTTCTAGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTT
* * *
19151291 TATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGT
131 TATTTTAATCCACTCCACTATAATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGT
* * * * * *
19151356 AATCTCAGGGAGCTAAGATTTCTGGCTTCAATCTGATGTGATCTACTCTATTGTAACTTCAGAGA
196 AATCTCAAGGAGATAAGATATCTGGCTTCAATCTGATGCGATCTACTCTACTATAACTTCAGAGA
* * * * *
19151421 GATAAGATCCTTTGTTTTAATCCGCTCCACTGTAATCTTAGGGAGATAGGATTACTAGCTTTAGT
261 GATAAGATCCTCTGTTTTAATCCGCTACACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAAT
19151486 CTG
326 CTG
* * *
19151489 CTCCGCTATAATCTCAGGGAGATAAGATTTCT-GACTTTAATCTGCT
1 CTCCGCTATAATCTCAGGGAGATAGGATTACTAG-CTTCAATCTGCT
19151535 TTCTTACACT
Statistics
Matches: 349, Mismatches: 24, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
327 1 0.00
328 348 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (328 bp):
CTCCGCTATAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
ATAAGATTTCTAGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTT
TATTTTAATCCACTCCACTATAATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGT
AATCTCAAGGAGATAAGATATCTGGCTTCAATCTGATGCGATCTACTCTACTATAACTTCAGAGA
GATAAGATCCTCTGTTTTAATCCGCTACACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAAT
CTG
Found at i:19163944 original size:19 final size:19
Alignment explanation
Indices: 19163920--19163959 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
19163910 TTAATAGGAG
19163920 TAATGAATGAGATTTTTTT
1 TAATGAATGAGATTTTTTT
19163939 TAATGAATGAGATTTTTTT
1 TAATGAATGAGATTTTTTT
19163958 TA
1 TA
19163960 GTTACAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.53
Consensus pattern (19 bp):
TAATGAATGAGATTTTTTT
Found at i:19165843 original size:12 final size:12
Alignment explanation
Indices: 19165826--19165850 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19165816 AAAATAACAT
19165826 AAATATACATAC
1 AAATATACATAC
19165838 AAATATACATAC
1 AAATATACATAC
19165850 A
1 A
19165851 TGGAAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (12 bp):
AAATATACATAC
Found at i:19167111 original size:25 final size:24
Alignment explanation
Indices: 19167079--19167142 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 24
19167069 AAATTAACAA
19167079 TTCAAACAAATTAAACATAAAAAT
1 TTCAAACAAATTAAACATAAAAAT
* **
19167103 TTCAGAACAATTTAAACATACGAAT
1 TTCA-AACAAATTAAACATAAAAAT
*
19167128 TTCAAATAAATTAAA
1 TTCAAACAAATTAAA
19167143 AGTTCCATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 13 0.38
25 21 0.62
ACGTcount: A:0.56, C:0.12, G:0.03, T:0.28
Consensus pattern (24 bp):
TTCAAACAAATTAAACATAAAAAT
Found at i:19167474 original size:146 final size:146
Alignment explanation
Indices: 19167182--19167528 Score: 405
Period size: 145 Copynumber: 2.4 Consensus size: 146
19167172 TACTTAACCA
* *
19167182 TAATTATATAATGTCAATTATATATATTATGATCTACCATAAAATTAGTTACACGTTTAAGGTAT
1 TAATTATATAATGT-AATTATATATATTATAATCTACCATAAAATTAGTTACACGCTTAAGGTAT
* ** * ** **
19167247 AAAGTTACATATCATTAATATAAAAATATACATTATAGTATCATAATTGTATATAGGGTTAGATA
65 AAAGTTACAAATCAAAAACATAAAAATATACATTATAAAAAAATAATTGTATATAGGGTTAGATA
*
19167312 TCATTAATAATCTACC-
130 TCATTAATAATATACCT
* * *
19167328 TAATTATATAACGCTAATTATAT-TATTATAATCTACCATAAAATTAGTTATATGCTT-AGAGT-
1 TAATTATATAATG-TAATTATATATATTATAATCTACCATAAAATTAGTTACACGCTTAAG-GTA
* * * * *
19167390 TTAAGTTTACAAATCAAAAACATAAAAATGTACATTATAAAAAAAATAGTTGTATATGGGGTTAT
64 TAAAG-TTACAAATCAAAAACATAAAAATATACATTAT-AAAAAAATAATTGTATATAGGGTTAG
19167455 ATATCATTAATAATATACCT
127 ATATCATTAATAATATACCT
* * * *
19167475 TAATTATATAATGTTGATTGTATATATTATAATATACCATAAAATTAGGTACAC
1 TAATTATATAATG-TAATTATATATATTATAATCTACCATAAAATTAGTTACAC
19167529 ATGTTGAAAT
Statistics
Matches: 168, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
144 6 0.04
145 59 0.35
146 57 0.34
147 20 0.12
148 26 0.15
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.39
Consensus pattern (146 bp):
TAATTATATAATGTAATTATATATATTATAATCTACCATAAAATTAGTTACACGCTTAAGGTATA
AAGTTACAAATCAAAAACATAAAAATATACATTATAAAAAAATAATTGTATATAGGGTTAGATAT
CATTAATAATATACCT
Found at i:19170026 original size:236 final size:231
Alignment explanation
Indices: 19169503--19170132 Score: 665
Period size: 236 Copynumber: 2.7 Consensus size: 231
19169493 TTGTTGGCTA
* * * *
19169503 GAAGATACATGTGACATAGGTTTAGCTCGGACAAGTAACTTGATCTCGTTTTAAAGGTTTAGCCC
1 GAAGATACATGTGACACAGGTTTAGCTC-GACAAGTAACATGATATCGTTTTAAAGGTTTAGCCA
* * * *
19169568 GA-ATGGGTAACCTTACATGTATA--TATAGCCGTAGACAAACTATTTGATGTGTCGATATAAAG
65 GACA--GGTAA-CTTACATGTATATTTATAG-CTTTGCCAAGCTATTTGATGTGTCGATA-AAAG
* * * ** * * * *
19169630 GTTCAGCCTGTACAGGTAACCTGACATGAATATATGTTCGGCTTGGATGAGCAACAAATGTGGTT
125 GTTTAGCCCGGACAGGTAACCTGACACAAATATATGTTCAGCTCGGACGAGCAACAAATATGGTT
* * * * *
19169695 AATTACTGATGATTACCGAGATTCAACATTTTTTGCAGACTC
190 AATTACCGATGATTACCAAGATCCAACATTTGTTGCAAACTC
* * *
19169737 GAAGATACACGTGACACAGGTTTAGCTCGAACAAGTAACCTGATATTGTTTTAAAGGTTTAGCTC
1 GAAGATACATGTGACACAGGTTTAGCTCG-ACAAGTAACATGATATCGTTTTAAAGGTTTAGC-C
19169802 AGACAGGTAACTTGACATGTATATTTATAGCTTTGGCCAAGCTATTT-ATGTGTCGATAAAAGGT
64 AGACAGGTAACTT-ACATGTATATTTATAGCTTT-GCCAAGCTATTTGATGTGTCGATAAAAGGT
** * * * *
19169866 TTAGCCCGGATGGGTAACTTGACACAAATGGATCTGTTCAGCTCGGACGAGCATCAGATATGGTT
127 TTAGCCCGGACAGGTAACCTGACACAAAT--ATATGTTCAGCTCGGACGAGCAACAAATATGGTT
* *
19169931 AATTACCGATGATTACTAAGATCCAACATTTGTTGCAAACTT
190 AATTACCGATGATTACCAAGATCCAACATTTGTTGCAAACTC
* ** *
19169973 GAAGATACATGTGACACAGGTTTTGCTCAGATGAGTAACATGATGTCGTTTTAAAGGTTTAGCCT
1 GAAGATACATGTGACACAGGTTTAGCTC-GACAAGTAACATGATATCGTTTTAAAGGTTTAGCC-
* * * * *
19170038 GGACAGGTAACCTAAGATATATATTTACAGCTTTGCCTAAGCTATTTGATGTGTCGATAAAAGGT
64 AGACAGGTAA-CTTACATGTATATTTATAGCTTTGCC-AAGCTATTTGATGTGTCGATAAAAGGT
** * * *
19170103 TTAATCCAGACAGGTAACTTGTCACAAATA
127 TTAGCCCGGACAGGTAACCTGACACAAATA
19170133 GATATATTCA
Statistics
Matches: 332, Mismatches: 50, Indels: 27
0.81 0.12 0.07
Matches are distributed among these distances:
233 4 0.01
234 97 0.29
235 21 0.06
236 167 0.50
237 43 0.13
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (231 bp):
GAAGATACATGTGACACAGGTTTAGCTCGACAAGTAACATGATATCGTTTTAAAGGTTTAGCCAG
ACAGGTAACTTACATGTATATTTATAGCTTTGCCAAGCTATTTGATGTGTCGATAAAAGGTTTAG
CCCGGACAGGTAACCTGACACAAATATATGTTCAGCTCGGACGAGCAACAAATATGGTTAATTAC
CGATGATTACCAAGATCCAACATTTGTTGCAAACTC
Found at i:19175008 original size:26 final size:26
Alignment explanation
Indices: 19174979--19175067 Score: 63
Period size: 26 Copynumber: 3.2 Consensus size: 26
19174969 AACATTGACC
19174979 TTAATCATATCATACAAACATCCATA
1 TTAATCATATCATACAAACATCCATA
* * **
19175005 TTAATAATTTAATGCAAATACTAACATTGACT-
1 TTAATCA--T-AT-C--ATACAAACATCCA-TA
19175037 TTAATCATATCATACAAACATCCATA
1 TTAATCATATCATACAAACATCCATA
*
19175063 CTAAT
1 TTAAT
19175068 AATTTAACAA
Statistics
Matches: 46, Mismatches: 9, Indels: 16
0.65 0.13 0.23
Matches are distributed among these distances:
25 1 0.02
26 20 0.43
28 2 0.04
29 4 0.09
30 2 0.04
32 16 0.35
33 1 0.02
ACGTcount: A:0.45, C:0.19, G:0.02, T:0.34
Consensus pattern (26 bp):
TTAATCATATCATACAAACATCCATA
Found at i:19175028 original size:58 final size:58
Alignment explanation
Indices: 19174960--19175074 Score: 212
Period size: 58 Copynumber: 2.0 Consensus size: 58
19174950 CAAATAATAG
*
19174960 GCAAATACTAACATTGACCTTAATCATATCATACAAACATCCATATTAATAATTTAAT
1 GCAAATACTAACATTGACCTTAATCATATCATACAAACATCCATACTAATAATTTAAT
*
19175018 GCAAATACTAACATTGACTTTAATCATATCATACAAACATCCATACTAATAATTTAA
1 GCAAATACTAACATTGACCTTAATCATATCATACAAACATCCATACTAATAATTTAA
19175075 CAACCCACCA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.32
Consensus pattern (58 bp):
GCAAATACTAACATTGACCTTAATCATATCATACAAACATCCATACTAATAATTTAAT
Found at i:19175268 original size:20 final size:19
Alignment explanation
Indices: 19175231--19175268 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
19175221 TTTTTAAATA
*
19175231 ATATTGATACATTTAAAAC
1 ATATTGATACAATTAAAAC
19175250 ATATTGATAACAATTAAAA
1 ATATTGAT-ACAATTAAAA
19175269 TATTATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (19 bp):
ATATTGATACAATTAAAAC
Found at i:19176713 original size:27 final size:27
Alignment explanation
Indices: 19176670--19176722 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
19176660 TGGGCTATTC
* *
19176670 GGGTCTTAATATTTGGGCTTGAATTTT
1 GGGTCTTAATATCTGGGCTTAAATTTT
*
19176697 GGGT-TTAATAATCTGGGTTTAAATTT
1 GGGTCTTAAT-ATCTGGGCTTAAATTT
19176723 CTGTAAATGG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.23, C:0.06, G:0.25, T:0.47
Consensus pattern (27 bp):
GGGTCTTAATATCTGGGCTTAAATTTT
Found at i:19178204 original size:17 final size:17
Alignment explanation
Indices: 19178181--19178225 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
19178171 TAATAGAATT
19178181 ATAATTTAGTTGAGAAA
1 ATAATTTAGTTGAGAAA
* *
19178198 ATCATTTAGCTGAGAAA
1 ATAATTTAGTTGAGAAA
*
19178215 TTAATTTAGTT
1 ATAATTTAGTT
19178226 AATTAAATTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (17 bp):
ATAATTTAGTTGAGAAA
Found at i:19179540 original size:17 final size:17
Alignment explanation
Indices: 19179518--19179554 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
19179508 AATTGATATA
19179518 GAGATTATGAATAACAT
1 GAGATTATGAATAACAT
19179535 GAGATTATGAATAACAT
1 GAGATTATGAATAACAT
19179552 GAG
1 GAG
19179555 TGACTAAATC
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:0.46, C:0.05, G:0.22, T:0.27
Consensus pattern (17 bp):
GAGATTATGAATAACAT
Found at i:19181585 original size:16 final size:16
Alignment explanation
Indices: 19181566--19181600 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
19181556 AAGGGGGTTT
*
19181566 AAATTAAAAAAAATTA
1 AAATTAAAAAAAAGTA
*
19181582 AAATTAAAACAAAGTA
1 AAATTAAAAAAAAGTA
19181598 AAA
1 AAA
19181601 AGAGATTGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.20
Consensus pattern (16 bp):
AAATTAAAAAAAAGTA
Found at i:19189041 original size:5 final size:5
Alignment explanation
Indices: 19189018--19189293 Score: 72
Period size: 5 Copynumber: 52.4 Consensus size: 5
19189008 AACCTTTTTT
* *
19189018 TTTCA TTTTA TTTCA TTTCA TTTCCA TTTCCA TTTCA TTTAA TTTACA
1 TTTCA TTTCA TTTCA TTTCA TTT-CA TTT-CA TTTCA TTTCA TTT-CA
* * * * *
19189066 TTTTCA TTTCA TTTAAA TTATTA TTT-- TTCCA TTTAAA TTTAA GTTT--
1 -TTTCA TTTCA TTT-CA TT-TCA TTTCA TTTCA TTT-CA TTTCA -TTTCA
* **
19189112 TTCTCA TTTCAA TTT-- TTTC- TTTCA TTTCA GTT-- TTTGT TTTCA TTTCAA
1 TT-TCA TTTC-A TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTC-A
* * * *
19189160 TTT-A TAATTTA TGTTCA TTTAAA CTTTCA TTCCA TTTCA TAATCA --TCA
1 TTTCA T--TTCA T-TTCA TTT-CA -TTTCA TTTCA TTTCA T-TTCA TTTCA
* * * *
19189208 TTTCA TATTCA TTACAAA TTACA TTTCA TTTCA TATTCA TTACAAA TTACA
1 TTTCA T-TTCA TTTC--A TTTCA TTTCA TTTCA T-TTCA TTTC--A TTTCA
19189259 TTTCA TTTCA TATTCA TTTAACA TTTCA TTTCA TT
1 TTTCA TTTCA T-TTCA TTT--CA TTTCA TTTCA TT
19189294 AATTTTTTTT
Statistics
Matches: 212, Mismatches: 24, Indels: 70
0.69 0.08 0.23
Matches are distributed among these distances:
3 12 0.06
4 7 0.03
5 106 0.50
6 63 0.30
7 24 0.11
ACGTcount: A:0.27, C:0.16, G:0.01, T:0.55
Consensus pattern (5 bp):
TTTCA
Found at i:19189053 original size:22 final size:22
Alignment explanation
Indices: 19189027--19189081 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
19189017 TTTTCATTTT
* *
19189027 ATTTCATTTCATTTCCATTTCC
1 ATTTCATTTAATTTACATTTCC
*
19189049 ATTTCATTTAATTTACATTTTC
1 ATTTCATTTAATTTACATTTCC
19189071 ATTTCATTTAA
1 ATTTCATTTAA
19189082 ATTATTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.25, C:0.18, G:0.00, T:0.56
Consensus pattern (22 bp):
ATTTCATTTAATTTACATTTCC
Found at i:19189138 original size:18 final size:18
Alignment explanation
Indices: 19189115--19189162 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
19189105 TAAGTTTTTC
19189115 TCATTTCAATTTTT-TCTT
1 TCATTTCAATTTTTGT-TT
*
19189133 TCATTTCAGTTTTTGTTT
1 TCATTTCAATTTTTGTTT
19189151 TCATTTCAATTT
1 TCATTTCAATTT
19189163 ATAATTTATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 26 0.96
19 1 0.04
ACGTcount: A:0.17, C:0.15, G:0.04, T:0.65
Consensus pattern (18 bp):
TCATTTCAATTTTTGTTT
Found at i:19189234 original size:23 final size:23
Alignment explanation
Indices: 19189206--19189294 Score: 83
Period size: 23 Copynumber: 3.7 Consensus size: 23
19189196 TCATAATCAT
19189206 CATTTCATATTCATTACAAATTACA
1 CATTTCAT-TTCATTACAAATTA-A
19189231 TTTCATTTCATATTCATTACAAATT-A
1 ---CATTTCAT-TTCATTACAAATTAA
* *
19189257 CATTTCATTTCATATTC-ATTTAA
1 CATTTCATTTCAT-TACAAATTAA
19189280 CATTTCATTTCATTA
1 CATTTCATTTCATTA
19189295 ATTTTTTTTC
Statistics
Matches: 56, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
22 9 0.16
23 24 0.43
26 1 0.02
28 22 0.39
ACGTcount: A:0.34, C:0.18, G:0.00, T:0.48
Consensus pattern (23 bp):
CATTTCATTTCATTACAAATTAA
Found at i:19189237 original size:17 final size:17
Alignment explanation
Indices: 19189215--19189265 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
19189205 TCATTTCATA
19189215 TTCATTACAAATTACAT
1 TTCATTACAAATTACAT
*
19189232 TTCATTTC--A-T--A-
1 TTCATTACAAATTACAT
19189243 TTCATTACAAATTACAT
1 TTCATTACAAATTACAT
19189260 TTCATT
1 TTCATT
19189266 TCATATTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 12
0.65 0.05 0.30
Matches are distributed among these distances:
11 7 0.27
12 1 0.04
13 1 0.04
14 2 0.08
15 1 0.04
16 1 0.04
17 13 0.50
ACGTcount: A:0.35, C:0.18, G:0.00, T:0.47
Consensus pattern (17 bp):
TTCATTACAAATTACAT
Found at i:19189238 original size:28 final size:28
Alignment explanation
Indices: 19189205--19189293 Score: 144
Period size: 28 Copynumber: 3.2 Consensus size: 28
19189195 TTCATAATCA
19189205 TCATTTCATATTCATTACAAATTACATT
1 TCATTTCATATTCATTACAAATTACATT
19189233 TCATTTCATATTCATTACAAATTACATT
1 TCATTTCATATTCATTACAAATTACATT
* *
19189261 TCATTTCATATTCATTTA-ACATTTCATT
1 TCATTTCATATTCA-TTACAAATTACATT
19189289 TCATT
1 TCATT
19189294 AATTTTTTTT
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
28 55 0.95
29 3 0.05
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.49
Consensus pattern (28 bp):
TCATTTCATATTCATTACAAATTACATT
Found at i:19189411 original size:15 final size:15
Alignment explanation
Indices: 19189368--19189411 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 15
19189358 AGTAGTCTCA
* *
19189368 TTTCAATTTATCTTT
1 TTTCAATTCATTTTT
19189383 TTTCAATTCAATTTTT
1 TTTCAATTC-ATTTTT
19189399 TTTCAATTCATTT
1 TTTCAATTCATTT
19189412 CATATTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 12 0.46
16 14 0.54
ACGTcount: A:0.23, C:0.14, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTCAATTCATTTTT
Found at i:19189497 original size:21 final size:21
Alignment explanation
Indices: 19189455--19189497 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
19189445 TACCAGGGTC
*
19189455 ATTTAAAATTTTTCATATTTT
1 ATTTAAAATTTTTCATAATTT
*
19189476 ATTTAAATTTTTTC-TCAATTT
1 ATTTAAAATTTTTCAT-AATTT
19189497 A
1 A
19189498 AATATCGTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTAAAATTTTTCATAATTT
Found at i:19190318 original size:3 final size:3
Alignment explanation
Indices: 19190312--19190358 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
19190302 AAATGAAATA
* *
19190312 AAT AAT AA- AAT AAAT AA- AAA AAT GAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
19190356 AAT
1 AAT
19190359 GACAAACAGT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
2 4 0.11
3 31 0.82
4 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (3 bp):
AAT
Done.