Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 124 of 153
Found at i:39042179 original size:29 final size:29
Alignment explanation
Indices: 39042146--39042298 Score: 129
Period size: 29 Copynumber: 5.3 Consensus size: 29
39042136 AAAGAAGTGT
* * *
39042146 CTTTGTGGCTATCTTTGATTAAAGAAAGT
1 CTTTGTGGCGATCTCTGATTAAAGAAAGC
*
39042175 CTTTGTGGCGATCTCTGTTATAAAG-AAGC
1 CTTTGTGGCGATCTCTGAT-TAAAGAAAGC
39042204 CTTTGTGGCGATCTCT-ATTATAA-AGAAGC
1 CTTTGTGGCGATCTCTGATTA-AAGA-AAGC
* * * *
39042233 CTCTATGGCGATCT-TTATTAAAAGGAAGC
1 CTTTGTGGCGATCTCTGATT-AAAGAAAGC
* *
39042262 CTTTGTGGCTATCTCTG-TTAAA-AGAAGT
1 CTTTGTGGCGATCTCTGATTAAAGA-AAGC
39042290 CTTTGTGGC
1 CTTTGTGGC
39042299 TATTGTAACG
Statistics
Matches: 101, Mismatches: 14, Indels: 19
0.75 0.10 0.14
Matches are distributed among these distances:
27 2 0.02
28 19 0.19
29 73 0.72
30 7 0.07
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (29 bp):
CTTTGTGGCGATCTCTGATTAAAGAAAGC
Found at i:39042211 original size:58 final size:58
Alignment explanation
Indices: 39042146--39042298 Score: 188
Period size: 58 Copynumber: 2.7 Consensus size: 58
39042136 AAAGAAGTGT
* *
39042146 CTTTGTGGCTATCTTTGATT-AAAGAAAGTCTTTGTGGCGATCTCTGTTATAAA-GAAGC
1 CTTTGTGGCTATCTCTGATTAAAAG-AAGTCTTTGTGGCGATCTCTATTA-AAAGGAAGC
* * * * *
39042204 CTTTGTGGCGATCTCT-ATTATAAAGAAGCCTCTATGGCGATCTTTATTAAAAGGAAGC
1 CTTTGTGGCTATCTCTGATTA-AAAGAAGTCTTTGTGGCGATCTCTATTAAAAGGAAGC
39042262 CTTTGTGGCTATCTCTG-TTAAAAGAAGTCTTTGTGGC
1 CTTTGTGGCTATCTCTGATTAAAAGAAGTCTTTGTGGC
39042299 TATTGTAACG
Statistics
Matches: 80, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
57 20 0.25
58 56 0.70
59 4 0.05
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (58 bp):
CTTTGTGGCTATCTCTGATTAAAAGAAGTCTTTGTGGCGATCTCTATTAAAAGGAAGC
Found at i:39043267 original size:13 final size:15
Alignment explanation
Indices: 39043251--39043291 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 15
39043241 TTTAAATTTT
*
39043251 ATTTTAATAA-AA-A
1 ATTTTAAAAATAATA
39043264 ATTTTAAAAATAATA
1 ATTTTAAAAATAATA
39043279 ATTTTAAATAATA
1 ATTTTAAA-AATA
39043292 TTATTCACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 9 0.38
14 2 0.08
15 9 0.38
16 4 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTTTAAAAATAATA
Found at i:39043291 original size:16 final size:15
Alignment explanation
Indices: 39043251--39043291 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
39043241 TTTAAATTTT
39043251 ATTTT-AATAA-AAA
1 ATTTTAAATAATAAA
39043264 ATTTTAAA-AATAATA
1 ATTTTAAATAATAA-A
39043279 ATTTTAAATAATA
1 ATTTTAAATAATA
39043292 TTATTCACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 7 0.29
14 4 0.17
15 9 0.38
16 4 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTTTAAATAATAAA
Found at i:39043850 original size:14 final size:14
Alignment explanation
Indices: 39043831--39043868 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
39043821 CTAGAAAACT
39043831 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
39043845 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
39043859 AAGTCATTTT
1 AAATCATTTT
39043869 TAGTAAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:39049469 original size:24 final size:23
Alignment explanation
Indices: 39049417--39049528 Score: 89
Period size: 25 Copynumber: 4.6 Consensus size: 23
39049407 ATACATGTAT
* * *
39049417 GCTCATATGAGCTCAGAATCGGTAT
1 GCTCATACGAGCTGA-AAT-GGTAA
*
39049442 GCTCTTACGAGCTGTAAATGGTAA
1 GCTCATACGAGCTG-AAATGGTAA
* *
39049466 GCTCTTTCGAGCTGAGTAATGGTAA
1 GCTCATACGAGCTGA--AATGGTAA
* *
39049491 GCTCATGCGAGTTGAATATCGGTAA
1 GCTCATACGAGCTGAA-AT-GGTAA
39049516 GCTCATACGAGCT
1 GCTCATACGAGCT
39049529 AAAACCGGTA
Statistics
Matches: 72, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
23 2 0.03
24 19 0.26
25 50 0.69
26 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (23 bp):
GCTCATACGAGCTGAAATGGTAA
Found at i:39051718 original size:73 final size:73
Alignment explanation
Indices: 39051539--39051721 Score: 188
Period size: 73 Copynumber: 2.5 Consensus size: 73
39051529 TGAAAATAGA
* * * ** * * **
39051539 CCAAATGCTCATAAGAGCTCATTCACTCGACAACATGCCAATTGCTTTGAAGAGCTAGTCCAACC
1 CCAAATGATCATAAAAGCTAAACCACTCGATAACACGCCAATTGCTCCGAAGAGCTAGTCCAACC
*
39051604 TAAACACG
66 GAAACACG
* * * * * * *
39051612 CCAAATGGTCATAAGAGCTCAACTAC-CTAATAACACGCCAATTGCTCCGAAGAGTTAGTCTAAC
1 CCAAATGATCATAAAAGCTAAACCACTC-GATAACACGCCAATTGCTCCGAAGAGCTAGTCCAAC
39051676 CGAAACACG
65 CGAAACACG
*
39051685 CCAATTGATCATAAAAGCTAAACCACTCGATAACACG
1 CCAAATGATCATAAAAGCTAAACCACTCGATAACACG
39051722 TCAAAATAGG
Statistics
Matches: 90, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
72 1 0.01
73 88 0.98
74 1 0.01
ACGTcount: A:0.37, C:0.28, G:0.15, T:0.20
Consensus pattern (73 bp):
CCAAATGATCATAAAAGCTAAACCACTCGATAACACGCCAATTGCTCCGAAGAGCTAGTCCAACC
GAAACACG
Found at i:39051953 original size:10 final size:10
Alignment explanation
Indices: 39051930--39051958 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
39051920 AAATAAAACA
39051930 ATTATATC-T
1 ATTATATCAT
39051939 ATTATATCAT
1 ATTATATCAT
39051949 ATTATATCAT
1 ATTATATCAT
39051959 CAATCATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (10 bp):
ATTATATCAT
Found at i:39064940 original size:29 final size:29
Alignment explanation
Indices: 39064866--39064932 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
39064856 AGAGTTTATA
* *
39064866 GCTATCTCTATAAAAAGGACGCCTTTTTG
1 GCTATCTCTATAAAAAGGACACCTTTGTG
* *
39064895 ACTATATCTATAAAAAGGACACCTTTGTG
1 GCTATCTCTATAAAAAGGACACCTTTGTG
39064924 GCTATCTCT
1 GCTATCTCT
39064933 GTTAAAAGAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (29 bp):
GCTATCTCTATAAAAAGGACACCTTTGTG
Found at i:39068361 original size:31 final size:32
Alignment explanation
Indices: 39068326--39068388 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
39068316 TTTAAATTAG
39068326 GGTTTAGGGTTTT-TTAATTTGTAAGTGTTTA
1 GGTTTAGGGTTTTATTAATTTGTAAGTGTTTA
* *
39068357 GGTTTAGGGTTTTATTTATTTTTAAGTGTTTA
1 GGTTTAGGGTTTTATTAATTTGTAAGTGTTTA
39068389 TTAATTATGG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 13 0.45
32 16 0.55
ACGTcount: A:0.19, C:0.00, G:0.24, T:0.57
Consensus pattern (32 bp):
GGTTTAGGGTTTTATTAATTTGTAAGTGTTTA
Found at i:39069011 original size:40 final size:40
Alignment explanation
Indices: 39068956--39069036 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
39068946 AGTTCAGAGG
39068956 GAAGGTATAACTTGATTTTTCTGGTTAATATTCATATGAA
1 GAAGGTATAACTTGATTTTTCTGGTTAATATTCATATGAA
39068996 GAAGGTATAACTTGATTTTTCTGGTTAATATTCATATGAA
1 GAAGGTATAACTTGATTTTTCTGGTTAATATTCATATGAA
39069036 G
1 G
39069037 CATTACATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (40 bp):
GAAGGTATAACTTGATTTTTCTGGTTAATATTCATATGAA
Found at i:39086098 original size:41 final size:42
Alignment explanation
Indices: 39085988--39086099 Score: 138
Period size: 41 Copynumber: 2.7 Consensus size: 42
39085978 CTTTGAGTTT
* * *
39085988 TCGGGGCTTTAGTGGCGTTTTTGAAAAAGCGTCGCTAACGCA
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAACGCCGCTAACGCA
* * * *
39086030 T-GAGGCTTTAGCGGCGTTTCTGGAAAAACGCCGCTAATGC-
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAACGCCGCTAACGCA
*
39086070 TCGGGGCTTTAGCGGCGTTTTTCAAAAAAC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAAC
39086100 ACCGTAAAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
40 1 0.02
41 56 0.97
42 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (42 bp):
TCGGGGCTTTAGCGGCGTTTTTGAAAAAACGCCGCTAACGCA
Found at i:39088406 original size:16 final size:16
Alignment explanation
Indices: 39088385--39088424 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
39088375 TGTTTGGTTC
39088385 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
39088401 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
39088417 ACTGTAAT
1 GCTGTAAT
39088425 AATAATTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.38, C:0.07, G:0.28, T:0.28
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:39088470 original size:45 final size:44
Alignment explanation
Indices: 39088406--39088498 Score: 143
Period size: 44 Copynumber: 2.1 Consensus size: 44
39088396 ATAGAGCTGT
39088406 AATGGAATAGAACTGTAATAATAATTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAAT-ATTC-ATGTGTTTGGTTGAATGG
* *
39088451 AATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAATATTCATGTGTTTGGTTGAATGG
39088495 AATG
1 AATG
39088499 ATGTTGTAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.51
45 21 0.47
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.37
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAATATTCATGTGTTTGGTTGAATGG
Found at i:39088784 original size:13 final size:13
Alignment explanation
Indices: 39088749--39088788 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 13
39088739 ATCATAATAT
39088749 ATAATACTATAAAA
1 ATAATA-TATAAAA
39088763 ATAATATATATAAAA
1 AT-A-ATATATAAAA
39088778 ATAATATATAA
1 ATAATATATAA
39088789 TTTAATGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 8 0.33
14 3 0.12
15 10 0.42
16 3 0.12
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (13 bp):
ATAATATATAAAA
Found at i:39091024 original size:2 final size:2
Alignment explanation
Indices: 39091017--39091044 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
39091007 CATATTCGGC
39091017 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
39091045 AGCCCATTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:39091829 original size:27 final size:27
Alignment explanation
Indices: 39091798--39091975 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
39091788 TAAATTGTAC
39091798 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
39091825 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
39091851 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
39091879 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
39091907 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
39091934 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
39091961 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
39091976 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:39091912 original size:82 final size:81
Alignment explanation
Indices: 39091799--39091954 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
39091789 AAATTGTACA
* *
39091799 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
39091863 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
39091880 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
39091945 TGCGAGTTGA
65 TGCGAATTGA
39091955 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:39091966 original size:82 final size:81
Alignment explanation
Indices: 39091795--39091975 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
39091785 GATTAAATTG
* *
39091795 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
39091860 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
39091876 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
39091940 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
39091958 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
39091976 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:39094469 original size:28 final size:28
Alignment explanation
Indices: 39094427--39094497 Score: 133
Period size: 28 Copynumber: 2.5 Consensus size: 28
39094417 CGTCAATTAA
39094427 GAAGAAATCTGGTGAGGGTAATGTCGAG
1 GAAGAAATCTGGTGAGGGTAATGTCGAG
*
39094455 GAAGAAATCTAGTGAGGGTAATGTCGAG
1 GAAGAAATCTGGTGAGGGTAATGTCGAG
39094483 GAAGAAATCTGGTGA
1 GAAGAAATCTGGTGA
39094498 AAGAGAAGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.35, C:0.07, G:0.37, T:0.21
Consensus pattern (28 bp):
GAAGAAATCTGGTGAGGGTAATGTCGAG
Found at i:39098276 original size:6 final size:6
Alignment explanation
Indices: 39098267--39098298 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
39098257 TCATTTAGCT
39098267 AAAATA AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AA
39098299 TCTTATCTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:39098927 original size:41 final size:40
Alignment explanation
Indices: 39098844--39098930 Score: 113
Period size: 41 Copynumber: 2.1 Consensus size: 40
39098834 AATGTACAAG
*
39098844 TATTTTATTTTAAAATTTATTTAATTTCATAATTGATGAA
1 TATTTTATTTTAAAATTTATTTAATTTCATAATTGATAAA
* * *
39098884 TATTTTATATTTAAGATTTATTTAATTTTATTATTTG-TAAA
1 TATTTTAT-TTTAAAATTTATTTAATTTCA-TAATTGATAAA
39098925 TATTTT
1 TATTTT
39098931 TTATATACAT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
40 8 0.20
41 28 0.68
42 5 0.12
ACGTcount: A:0.34, C:0.01, G:0.05, T:0.60
Consensus pattern (40 bp):
TATTTTATTTTAAAATTTATTTAATTTCATAATTGATAAA
Found at i:39101366 original size:27 final size:27
Alignment explanation
Indices: 39101336--39101387 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
39101326 CCGACACTAG
* *
39101336 TCAAGCCTTTCCCATAGGCGGCACCAA
1 TCAAGCCATCCCCATAGGCGGCACCAA
*
39101363 TCAAGCCATCCCCATAGGTGGCACC
1 TCAAGCCATCCCCATAGGCGGCACC
39101388 CGCTCCCCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.25, C:0.38, G:0.19, T:0.17
Consensus pattern (27 bp):
TCAAGCCATCCCCATAGGCGGCACCAA
Found at i:39107808 original size:26 final size:26
Alignment explanation
Indices: 39107765--39107817 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
39107755 ATTTTATATT
*
39107765 AAAATACTAAAAATAACATGCCAATAA
1 AAAATACTAAAAATAACATACC-ATAA
39107792 AAAATA-TAACAAA-AACATACCATAA
1 AAAATACTAA-AAATAACATACCATAA
39107817 A
1 A
39107818 CGATACATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 5 0.21
26 10 0.42
27 9 0.38
ACGTcount: A:0.66, C:0.15, G:0.02, T:0.17
Consensus pattern (26 bp):
AAAATACTAAAAATAACATACCATAA
Found at i:39110204 original size:19 final size:20
Alignment explanation
Indices: 39110167--39110204 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
39110157 AATAGAACAA
* *
39110167 AATTATTTCTTTTTTTTTTG
1 AATTATTTCTTATTGTTTTG
39110187 AATT-TTTCTTATTGTTTT
1 AATTATTTCTTATTGTTTT
39110205 CTTTATGGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (20 bp):
AATTATTTCTTATTGTTTTG
Found at i:39110204 original size:20 final size:20
Alignment explanation
Indices: 39110167--39110204 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
39110157 AATAGAACAA
*
39110167 AATTATTTCTTTTTTTTTTG
1 AATTATTTCTTTTGTTTTTG
39110187 AATT-TTTCTTATTGTTTT
1 AATTATTTCTT-TTGTTTT
39110205 CTTTATGGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (20 bp):
AATTATTTCTTTTGTTTTTG
Found at i:39110660 original size:21 final size:21
Alignment explanation
Indices: 39110634--39110674 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
39110624 CAATAATGTT
*
39110634 AGAAAAATTCTGGTGTAAGAA
1 AGAAAAATTCTGGTGCAAGAA
* *
39110655 AGAAAATTTGTGGTGCAAGA
1 AGAAAAATTCTGGTGCAAGA
39110675 TAACGAAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.05, G:0.27, T:0.24
Consensus pattern (21 bp):
AGAAAAATTCTGGTGCAAGAA
Found at i:39111444 original size:20 final size:20
Alignment explanation
Indices: 39111401--39111449 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
39111391 AGGAGCCAAT
* *
39111401 AAATCAATTTGATTAAAATT
1 AAATCAAATTGATTAAAATA
*
39111421 AAATCAAATTGATTAGAATA
1 AAATCAAATTGATTAAAATA
*
39111441 AAATAAAAT
1 AAATCAAAT
39111450 AAGATAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (20 bp):
AAATCAAATTGATTAAAATA
Found at i:39112053 original size:25 final size:25
Alignment explanation
Indices: 39112001--39112055 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
39111991 CTTTAGATAC
* * *
39112001 AAAATAAAAATTATTATTATTTCAA
1 AAAATAAAAATAATAATTATATCAA
39112026 AAAATAAAAATAATAATTATAT-ATA
1 AAAATAAAAATAATAATTATATCA-A
39112051 AAAAT
1 AAAAT
39112056 GATTTGCACC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 1 0.04
25 25 0.96
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
AAAATAAAAATAATAATTATATCAA
Found at i:39114834 original size:27 final size:27
Alignment explanation
Indices: 39114796--39114862 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
39114786 CATGTCGCAT
* * *
39114796 AAATTGAAGCCTTCGTGGT-AATCTAAG
1 AAATAGAAGCCTTCGT-GTCAACCCAAG
* *
39114823 AAATGGAAGCCTTTGTGTCAACCCAAG
1 AAATAGAAGCCTTCGTGTCAACCCAAG
39114850 AAATAGAAGCCTT
1 AAATAGAAGCCTT
39114863 TGTAGTGATC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (27 bp):
AAATAGAAGCCTTCGTGTCAACCCAAG
Found at i:39115122 original size:27 final size:27
Alignment explanation
Indices: 39115064--39115152 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 27
39115054 TATGTGCGAT
* * * * *
39115064 GAACTCTAAAGGAATAATATGTACGAA
1 GAACTCTAAAGGAACAGTACGTATGGA
* *
39115091 AAACTCTAAAGGAACAGTACGTATGGT
1 GAACTCTAAAGGAACAGTACGTATGGA
* **
39115118 GAACTCTGAAGGATTAGTACGTATGGA
1 GAACTCTAAAGGAACAGTACGTATGGA
39115145 GAACTCTA
1 GAACTCTA
39115153 CAAGAACGAT
Statistics
Matches: 49, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.24
Consensus pattern (27 bp):
GAACTCTAAAGGAACAGTACGTATGGA
Found at i:39116836 original size:31 final size:32
Alignment explanation
Indices: 39116783--39116871 Score: 85
Period size: 31 Copynumber: 2.8 Consensus size: 32
39116773 ACTCTTTTTT
* ** * *
39116783 TGTTTATTGTCCCAGTGGACTATCTCTTCGGTA
1 TGTTTACTGTCCCAACGAACTATCTCTTC-CTA
*
39116816 T-TTT-CTGTCCCAACGAACTATCT-ATCCTA
1 TGTTTACTGTCCCAACGAACTATCTCTTCCTA
*
39116845 TGTTTACTGTCCCAACGAATTATCTCT
1 TGTTTACTGTCCCAACGAACTATCTCT
39116872 ATTATGTGTT
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
29 3 0.07
30 5 0.11
31 33 0.73
32 3 0.07
33 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.13, T:0.40
Consensus pattern (32 bp):
TGTTTACTGTCCCAACGAACTATCTCTTCCTA
Found at i:39116878 original size:31 final size:31
Alignment explanation
Indices: 39116820--39116878 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
39116810 TCGGTATTTT
*
39116820 CTGTCCCAACGAACTATCTATCCTATGTTTA
1 CTGTCCCAACGAACTATCTATACTATGTTTA
* * *
39116851 CTGTCCCAACGAATTATCTCTATTATGT
1 CTGTCCCAACGAACTATCTATACTATGT
39116879 GTTTATTATC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.25, C:0.27, G:0.10, T:0.37
Consensus pattern (31 bp):
CTGTCCCAACGAACTATCTATACTATGTTTA
Found at i:39118346 original size:79 final size:78
Alignment explanation
Indices: 39118244--39118466 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
39118234 GCTCCTCGTT
* *
39118244 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
39118309 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
39118324 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
39118387 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
39118402 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
39118465 GA
63 GA
39118467 CATCATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.38
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:39118361 original size:39 final size:40
Alignment explanation
Indices: 39118244--39118466 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
39118234 GCTCCTCGTT
* *
39118244 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
39118284 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
39118324 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
39118363 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
39118402 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
39118443 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39118467 CATCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:39123377 original size:50 final size:50
Alignment explanation
Indices: 39123274--39123509 Score: 310
Period size: 50 Copynumber: 4.6 Consensus size: 50
39123264 GGTAATGAGA
* **
39123274 TCCCATGTAAGACCATGTCTGGGACATGGAATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCATC---GAG---ATGAGAGG
*
39123330 TCCCATGTAAGACCATGTTTAGGACATGGCGTTGGCATCGAGATGAGAGG
1 TCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCATCGAGATGAGAGG
* *
39123380 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCATCGAGATGAGAGG
* * *
39123430 CCCCATGTAAGACCATGTTTGGGACATGGTGTTGGCATAGAGATGAGAGG
1 TCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCATCGAGATGAGAGG
* * *
39123480 TCCCCTGTAAGACCATATTTGGAACATGGC
1 TCCCATGTAAGACCATGTTTGGGACATGGC
39123510 ATGGGCACCT
Statistics
Matches: 163, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
50 125 0.77
53 3 0.02
56 35 0.21
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCATCGAGATGAGAGG
Found at i:39123537 original size:150 final size:153
Alignment explanation
Indices: 39123275--39123566 Score: 358
Period size: 150 Copynumber: 1.9 Consensus size: 153
39123265 GTAATGAGAT
39123275 CCCATGTAAGACCATGTCTGGGACATGGAATTGGCATCATTGAGATTATGAGAGGTCCCATGTAA
1 CCCATGTAAGACCATGTCTGGGACATGGAATTGGCATCA-TGAG--TATGAGAGGTCCCATGTAA
* * * * * ** *
39123340 GACCATGTTTAGGACATGGCGTTGGCATCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGAC
63 GACCATATTTAGGACATGGCATGGGCACCGAGACGAGAACTCCCATGTAAGACCATATCTGGGAC
*
39123405 ATGGCGTTGGCACCGAGATGAGAGGC
128 ATGGCATTGGCACCGAGATGAGAGGC
* ** *
39123431 CCCATGTAAGACCATGTTTGGGACATGGTGTTGGCAT-A-GAG-ATGAGAGGTCCCCTGTAAGAC
1 CCCATGTAAGACCATGTCTGGGACATGGAATTGGCATCATGAGTATGAGAGGTCCCATGTAAGAC
* * * * *
39123493 CATATTT-GGAACATGGCATGGGCACCTATACGAGAACTCTCATGTAAGGCCATATCTGGGATAT
66 CATATTTAGG-ACATGGCATGGGCACCGAGACGAGAACTCCCATGTAAGACCATATCTGGGACAT
39123557 GGCATTGGCA
130 GGCATTGGCA
39123567 GTACAAGAAA
Statistics
Matches: 117, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
149 2 0.02
150 77 0.66
153 3 0.03
155 1 0.01
156 34 0.29
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (153 bp):
CCCATGTAAGACCATGTCTGGGACATGGAATTGGCATCATGAGTATGAGAGGTCCCATGTAAGAC
CATATTTAGGACATGGCATGGGCACCGAGACGAGAACTCCCATGTAAGACCATATCTGGGACATG
GCATTGGCACCGAGATGAGAGGC
Found at i:39123553 original size:100 final size:100
Alignment explanation
Indices: 39123331--39123566 Score: 285
Period size: 100 Copynumber: 2.4 Consensus size: 100
39123321 TATGAGAGGT
* *
39123331 CCCATGTAAGACCATGTTTAGGACATGGCGTTGGCATCGAGATGAGAGGTCCCATGTAAGACCAT
1 CCCATGTAAGACCATGTTTGGGACATGGCGTTGGCATAGAGATGAGAGGTCCCATGTAAGACCAT
* * * * * *
39123396 GTCTGGGACATGGCGTTGGCACCGAGATGAGAGGC
66 ATCTGGAACATGGCATGGGCACCGAGACGAGAGAC
* *
39123431 CCCATGTAAGACCATGTTTGGGACATGGTGTTGGCATAGAGATGAGAGGTCCCCTGTAAGACCAT
1 CCCATGTAAGACCATGTTTGGGACATGGCGTTGGCATAGAGATGAGAGGTCCCATGTAAGACCAT
* * *
39123496 ATTTGGAACATGGCATGGGCACCTATACGAGA-AC
66 ATCTGGAACATGGCATGGGCACCGAGACGAGAGAC
* * * * * *
39123530 TCTCATGTAAGGCCATATCTGGGATATGGCATTGGCA
1 -CCCATGTAAGACCATGTTTGGGACATGGCGTTGGCA
39123567 GTACAAGAAA
Statistics
Matches: 115, Mismatches: 20, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
99 1 0.01
100 114 0.99
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.23
Consensus pattern (100 bp):
CCCATGTAAGACCATGTTTGGGACATGGCGTTGGCATAGAGATGAGAGGTCCCATGTAAGACCAT
ATCTGGAACATGGCATGGGCACCGAGACGAGAGAC
Found at i:39129665 original size:150 final size:150
Alignment explanation
Indices: 39129360--39129754 Score: 517
Period size: 150 Copynumber: 2.6 Consensus size: 150
39129350 TCATTGAGAT
*
39129360 TATGAGAGGTCCCATGTAAAACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCAT
1 TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCAT
* * *
39129425 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTG
66 GTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCACGTAAGACCATGTCCG
* *
39129490 GGACATGGCGTTGGCACCGA
131 GGACATGGCATGGGCACCGA
*
39129510 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCAT
1 TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCAT
*
39129575 GTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCCCGTAAGACCATGTCCG
66 GTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCACGTAAGACCATGTCCG
* * *
39129640 GGACATGGCATGGGTAGCTA
131 GGACATGGCATGGGCACCGA
** ** * * * * * * * *
39129660 TATGAGAACTTTCATGTAAGACCCTATCTGGGATATGGCATGGGCA--GTACAAGA-AGCATCCC
1 TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AGATGAGAG-GTCCC
* * *
39129722 ATGTAAGACTATGTCTGGGACATAGCTTTGGCA
64 ATGTAAGACCATGTCTGGGACATGGCGTTGGCA
39129755 TGTTATATTC
Statistics
Matches: 216, Mismatches: 27, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
148 3 0.01
149 38 0.18
150 175 0.81
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.22
Consensus pattern (150 bp):
TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCAT
GTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCACGTAAGACCATGTCCG
GGACATGGCATGGGCACCGA
Found at i:39129666 original size:50 final size:50
Alignment explanation
Indices: 39129308--39129648 Score: 547
Period size: 50 Copynumber: 6.7 Consensus size: 50
39129298 ATTTGGGTAA
* * * *
39129308 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGTCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C--CGAG---ATG
*
39129364 AGAGGTCCCATGTAAAACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
39129414 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
39129464 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
39129514 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*
39129564 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** *
39129614 AGAGGTCCCCCGTAAGACCATGTCCGGGACATGGC
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
39129649 ATGGGTAGCT
Statistics
Matches: 275, Mismatches: 10, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
50 233 0.85
53 3 0.01
55 1 0.00
56 38 0.14
ACGTcount: A:0.25, C:0.22, G:0.32, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:39131810 original size:50 final size:50
Alignment explanation
Indices: 39131554--39131792 Score: 442
Period size: 50 Copynumber: 4.8 Consensus size: 50
39131544 AGGAGTTGAG
39131554 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
39131604 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
39131654 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
*
39131704 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
** *
39131754 GATGAGAGGTCCCCCGTAAGACCATGTCCGGGACATGGC
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
39131793 ATGGGTAGCT
Statistics
Matches: 185, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 185 1.00
ACGTcount: A:0.24, C:0.23, G:0.33, T:0.19
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
Found at i:39131825 original size:150 final size:149
Alignment explanation
Indices: 39131554--39131898 Score: 424
Period size: 150 Copynumber: 2.3 Consensus size: 149
39131544 AGGAGTTGAG
* *
39131554 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCAT
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCAC
* * * ** *
39131619 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTG
66 GTAAGACCATGTCCGGGACATGGCATGGGCACCGAGATGAGAACTCCCATGTAAGACCATATCTG
* *
39131684 GGACATGGCGTTGGCACCG-A
131 GGACATGGCATGGGCA--GTA
*
39131704 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCCC
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCAC
* * * * ** *
39131769 GTAAGACCATGTCCGGGACATGGCATGGGTAGCTATATGAGAACTTTCATGTAAGACCCTATCTG
66 GTAAGACCATGTCCGGGACATGGCATGGGCACCGAGATGAGAACTCCCATGTAAGACCATATCTG
*
39131834 GGATATGGCATGGGCAGTA
131 GGACATGGCATGGGCAGTA
* * * * * *
39131853 CAAGA-AGCATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 GATGAGAG-GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
39131899 TGTTATATTC
Statistics
Matches: 168, Mismatches: 25, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
148 3 0.02
149 38 0.23
150 127 0.76
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.21
Consensus pattern (149 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCAC
GTAAGACCATGTCCGGGACATGGCATGGGCACCGAGATGAGAACTCCCATGTAAGACCATATCTG
GGACATGGCATGGGCAGTA
Found at i:39134538 original size:22 final size:22
Alignment explanation
Indices: 39134513--39134556 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
39134503 CACTAATCAC
39134513 AATAAGCTTATATTTGACTAGA
1 AATAAGCTTATATTTGACTAGA
* *
39134535 AATAAGTTTATATTTTACTAGA
1 AATAAGCTTATATTTGACTAGA
39134557 TTATGACATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (22 bp):
AATAAGCTTATATTTGACTAGA
Found at i:39138582 original size:19 final size:19
Alignment explanation
Indices: 39138558--39138594 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
39138548 TAAGTTTTGA
*
39138558 AGTTTTTTCGATTTAGTCT
1 AGTTTTTACGATTTAGTCT
*
39138577 AGTTTTTACGCTTTAGTC
1 AGTTTTTACGATTTAGTC
39138595 CCTGTATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.14, G:0.16, T:0.54
Consensus pattern (19 bp):
AGTTTTTACGATTTAGTCT
Found at i:39146372 original size:20 final size:20
Alignment explanation
Indices: 39146347--39146384 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
39146337 AGGCCATTTG
39146347 GATATGTACATTTTGAGTTC
1 GATATGTACATTTTGAGTTC
39146367 GATATGTACATTTTGAGT
1 GATATGTACATTTTGAGT
39146385 CATTTCTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.08, G:0.21, T:0.45
Consensus pattern (20 bp):
GATATGTACATTTTGAGTTC
Found at i:39147220 original size:46 final size:44
Alignment explanation
Indices: 39147155--39147240 Score: 118
Period size: 46 Copynumber: 1.9 Consensus size: 44
39147145 ATAGTGTGGT
* * *
39147155 GTTCATCATACCAAGGTTCCTATCATCCTTGATAGTGGGTTGAG
1 GTTCATCATACCAAGGTTCCTACCATACTTGATAGAGGGTTGAG
*
39147199 GTTCATCTTATACCAAGGTTCCTACCATAGTTGATAGAGGGT
1 GTTCATC--ATACCAAGGTTCCTACCATACTTGATAGAGGGT
39147241 CAAGGTTTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 7 0.19
46 29 0.81
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (44 bp):
GTTCATCATACCAAGGTTCCTACCATACTTGATAGAGGGTTGAG
Found at i:39152026 original size:2 final size:2
Alignment explanation
Indices: 39152019--39152108 Score: 171
Period size: 2 Copynumber: 45.0 Consensus size: 2
39152009 CAAGCGCATT
39152019 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
39152061 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
*
39152103 TA CA CA
1 CA CA CA
39152109 TTATTTCTTT
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 86 1.00
ACGTcount: A:0.50, C:0.49, G:0.00, T:0.01
Consensus pattern (2 bp):
CA
Found at i:39153190 original size:9 final size:9
Alignment explanation
Indices: 39153168--39153209 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
39153158 GGAGAATAAG
39153168 TAATTAAAT
1 TAATTAAAT
* *
39153177 AAATTTAAT
1 TAATTAAAT
39153186 TAATTGAAAT
1 TAATT-AAAT
39153196 T-ATTAAAT
1 TAATTAAAT
39153204 TAATTA
1 TAATTA
39153210 CATCTTGAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
8 5 0.19
9 18 0.67
10 4 0.15
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (9 bp):
TAATTAAAT
Found at i:39153848 original size:180 final size:179
Alignment explanation
Indices: 39153546--39153905 Score: 684
Period size: 180 Copynumber: 2.0 Consensus size: 179
39153536 ACTATTAAGG
39153546 ATAAATTTTATCAAGCAGTCATGAATGATGCTATTTCATCTGGGAAAGTTGAACTTATAAGATTT
1 ATAAATTTTATCAAGCAGTCATGAATGATGCTATTTCATCTGGGAAAGTTGAACTTATAAGATTT
*
39153611 CCAGTGGAGGTTGGAACTGCTCCTTCAATGGAACAAGTTGAGAAGTTTGCATCTTTAGTTTCAGA
66 CCAGTGGAGGTTGGAACTGCACCTTCAATGGAACAAGTTGAGAAGTTTGCATCTTTAGTTTCAGA
*
39153676 TTGTAACAAAAAGGCCCGTCTATCTCCATAGTAAGGAAGGAGTATGGGGA
131 TTGTAAC-AAAAGGCCCATCTATCTCCATAGTAAGGAAGGAGTATGGGGA
39153726 ATAAATTTTATCAAGCAGTCATGAATGATGCTATTTCATCTGGGAAAGTTGAACTTATAAGATTT
1 ATAAATTTTATCAAGCAGTCATGAATGATGCTATTTCATCTGGGAAAGTTGAACTTATAAGATTT
*
39153791 CCAGTGGAGGTTGGAACTGCACCTTCAATGGAACAGGTTGAGAAGTTTGCATCTTTAGTTTCAGA
66 CCAGTGGAGGTTGGAACTGCACCTTCAATGGAACAAGTTGAGAAGTTTGCATCTTTAGTTTCAGA
39153856 TTGTAACAAAAGGCCCATCTATCTCCATAGTAAGGAAGGAGTATGGGGA
131 TTGTAACAAAAGGCCCATCTATCTCCATAGTAAGGAAGGAGTATGGGGA
39153905 A
1 A
39153906 CTTCTACAGT
Statistics
Matches: 177, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
179 42 0.24
180 135 0.76
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.30
Consensus pattern (179 bp):
ATAAATTTTATCAAGCAGTCATGAATGATGCTATTTCATCTGGGAAAGTTGAACTTATAAGATTT
CCAGTGGAGGTTGGAACTGCACCTTCAATGGAACAAGTTGAGAAGTTTGCATCTTTAGTTTCAGA
TTGTAACAAAAGGCCCATCTATCTCCATAGTAAGGAAGGAGTATGGGGA
Found at i:39162233 original size:23 final size:23
Alignment explanation
Indices: 39162207--39162257 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
39162197 TATTTTTTAT
39162207 TTTTATA-AGAATATGTTTTTGAA
1 TTTTATATA-AATATGTTTTTGAA
* *
39162230 TTTTTTATAATTATGTTTTTGAA
1 TTTTATATAAATATGTTTTTGAA
39162253 TTTTA
1 TTTTA
39162258 GAATTGAGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 23 0.96
24 1 0.04
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (23 bp):
TTTTATATAAATATGTTTTTGAA
Found at i:39162262 original size:21 final size:22
Alignment explanation
Indices: 39162214--39162262 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
39162204 TATTTTTATA
39162214 AGAA-TATGTTTTTGAATTTTTT
1 AGAATTATGTTTTTGAA-TTTTT
*
39162236 ATAATTATGTTTTTGAA-TTTT
1 AGAATTATGTTTTTGAATTTTT
39162257 AGAATT
1 AGAATT
39162263 GAGACTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 9 0.38
22 3 0.12
23 12 0.50
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.57
Consensus pattern (22 bp):
AGAATTATGTTTTTGAATTTTT
Found at i:39165788 original size:16 final size:16
Alignment explanation
Indices: 39165767--39165797 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39165757 AGAAGATATT
39165767 TAAAAAATAAAAAAAA
1 TAAAAAATAAAAAAAA
*
39165783 TAAAAATTAAAAAAA
1 TAAAAAATAAAAAAA
39165798 TAATTAAAAT
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (16 bp):
TAAAAAATAAAAAAAA
Found at i:39165789 original size:15 final size:15
Alignment explanation
Indices: 39165769--39165800 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
39165759 AAGATATTTA
39165769 AAAAATAAAAAAAAT
1 AAAAATAAAAAAAAT
*
39165784 AAAAATTAAAAAAAT
1 AAAAATAAAAAAAAT
39165799 AA
1 AA
39165801 TTAAAATTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (15 bp):
AAAAATAAAAAAAAT
Found at i:39165806 original size:18 final size:17
Alignment explanation
Indices: 39165775--39165808 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
39165765 TTTAAAAAAT
39165775 AAAAAAAATAAAAATTA
1 AAAAAAAATAAAAATTA
*
39165792 AAAAAATAATTAAAATT
1 AAAAAA-AATAAAAATT
39165809 CCAAAGTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAAAAAATAAAAATTA
Found at i:39167044 original size:16 final size:16
Alignment explanation
Indices: 39167023--39167063 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
39167013 CAACTGAAGA
*
39167023 AAGAGTATGAAAAACG
1 AAGAGTACGAAAAACG
39167039 AAGAGTACGAAAAACG
1 AAGAGTACGAAAAACG
39167055 AAGAGTACG
1 AAGAGTACG
39167064 CCTTATGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.27, T:0.10
Consensus pattern (16 bp):
AAGAGTACGAAAAACG
Found at i:39168827 original size:11 final size:11
Alignment explanation
Indices: 39168811--39168840 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
39168801 AAAATTAAAG
39168811 AAACAAAAAAA
1 AAACAAAAAAA
39168822 AAACAAAAAAA
1 AAACAAAAAAA
39168833 AAACAAAA
1 AAACAAAA
39168841 GTAATGAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (11 bp):
AAACAAAAAAA
Found at i:39168886 original size:32 final size:31
Alignment explanation
Indices: 39168827--39168886 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 31
39168817 AAAAAAAACA
* * *
39168827 AAAAAAAAACAAAAGTAATGAAGAAAGAATG
1 AAAAAAAAACAAAAGAAAAGAAAAAAGAATG
*
39168858 AAAATAAAACTAAAAGAAAAGAAAAAAGA
1 AAAAAAAAAC-AAAAGAAAAGAAAAAAGA
39168887 CTAATGTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 9 0.38
32 15 0.62
ACGTcount: A:0.75, C:0.03, G:0.13, T:0.08
Consensus pattern (31 bp):
AAAAAAAAACAAAAGAAAAGAAAAAAGAATG
Found at i:39179290 original size:45 final size:45
Alignment explanation
Indices: 39179239--39179331 Score: 159
Period size: 45 Copynumber: 2.1 Consensus size: 45
39179229 GAATTTAAAG
* * *
39179239 ATAAAATGGGCTAGTATGCGAGATAGGAAATAAGTGGTGCCAAAA
1 ATAAAATGGGCTAGCATGCGAAATAGGAAAGAAGTGGTGCCAAAA
39179284 ATAAAATGGGCTAGCATGCGAAATAGGAAAGAAGTGGTGCCAAAA
1 ATAAAATGGGCTAGCATGCGAAATAGGAAAGAAGTGGTGCCAAAA
39179329 ATA
1 ATA
39179332 CAAAGTGTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.44, C:0.10, G:0.28, T:0.18
Consensus pattern (45 bp):
ATAAAATGGGCTAGCATGCGAAATAGGAAAGAAGTGGTGCCAAAA
Found at i:39181015 original size:16 final size:16
Alignment explanation
Indices: 39180996--39181030 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
39180986 CATATAATAA
*
39180996 ATTATATTAATAATTT
1 ATTATATTAATAAGTT
*
39181012 ATTATTTTAATAAGTT
1 ATTATATTAATAAGTT
39181028 ATT
1 ATT
39181031 TAATATTTCA
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:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
ATTATATTAATAAGTT
Found at i:39181136 original size:15 final size:15
Alignment explanation
Indices: 39181118--39181174 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
39181108 ATTCAATATT
39181118 AATATTTTAATAATA
1 AATATTTTAATAATA
*
39181133 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
39181152 AATATATTAATAATA
1 AATATTTTAATAATA
*
39181167 AATGTTTT
1 AATATTTT
39181175 GTAGTAGAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:39183558 original size:26 final size:26
Alignment explanation
Indices: 39183522--39183583 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
39183512 CCTGTAAGTG
39183522 TTCTGAAACTGATACATGCTATGATA
1 TTCTGAAACTGATACATGCTATGATA
* *
39183548 TTCTGAAACTGATATATGTTATGATA
1 TTCTGAAACTGATACATGCTATGATA
39183574 TTCTGAAACT
1 TTCTGAAACT
39183584 ACTGTAGGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.39
Consensus pattern (26 bp):
TTCTGAAACTGATACATGCTATGATA
Found at i:39193226 original size:12 final size:12
Alignment explanation
Indices: 39193199--39193238 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
39193189 TCGCCCCTTG
39193199 CACCACCAT-A-
1 CACCACCATAAC
39193209 CACCACCATAAC
1 CACCACCATAAC
39193221 CACCACCATAAC
1 CACCACCATAAC
39193233 CACCAC
1 CACCAC
39193239 TTTGTGCCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 9 0.32
11 1 0.04
12 18 0.64
ACGTcount: A:0.40, C:0.53, G:0.00, T:0.07
Consensus pattern (12 bp):
CACCACCATAAC
Found at i:39195354 original size:7 final size:7
Alignment explanation
Indices: 39195342--39195382 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
39195332 ACATTACTAA
39195342 TTTATTC
1 TTTATTC
39195349 TTTATTC
1 TTTATTC
*
39195356 TTTATTT
1 TTTATTC
39195363 TTTATTC
1 TTTATTC
39195370 TTTATTC
1 TTTATTC
39195377 TTTATT
1 TTTATT
39195383 TGTGATTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTATTC
Found at i:39195366 original size:21 final size:21
Alignment explanation
Indices: 39195342--39195383 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
39195332 ACATTACTAA
39195342 TTTATTCTTTATTCTTTATTT
1 TTTATTCTTTATTCTTTATTT
39195363 TTTATTCTTTATTCTTTATTT
1 TTTATTCTTTATTCTTTATTT
39195384 GTGATTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTATTCTTTATTCTTTATTT
Found at i:39197044 original size:25 final size:25
Alignment explanation
Indices: 39196993--39197044 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
39196983 ACTAGTAAAA
*
39196993 TTATCTCCTCAAAAAAGTAGTAGAT
1 TTATCTCCTCAAAAAAGTAGTACAT
* *
39197018 TTATCTCCTCAAAAAAGTTGTCCAT
1 TTATCTCCTCAAAAAAGTAGTACAT
39197043 TT
1 TT
39197045 CAACCTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.37
Consensus pattern (25 bp):
TTATCTCCTCAAAAAAGTAGTACAT
Found at i:39197904 original size:46 final size:46
Alignment explanation
Indices: 39197834--39197929 Score: 176
Period size: 46 Copynumber: 2.1 Consensus size: 46
39197824 TATTAAATTT
*
39197834 TTGA-AAAATAGCCATAAAACATGTCGAAAAACATGATACTATGAA
1 TTGAGAAAATAGCCATAAAACATGTCGAAAAACACGATACTATGAA
39197879 TTGAGAAAATAGCCATAAAACATGTCGAAAAACACGATACTATGAA
1 TTGAGAAAATAGCCATAAAACATGTCGAAAAACACGATACTATGAA
39197925 TTGAG
1 TTGAG
39197930 TATTTTATTG
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 4 0.08
46 45 0.92
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.22
Consensus pattern (46 bp):
TTGAGAAAATAGCCATAAAACATGTCGAAAAACACGATACTATGAA
Found at i:39205097 original size:101 final size:102
Alignment explanation
Indices: 39204982--39205166 Score: 311
Period size: 101 Copynumber: 1.8 Consensus size: 102
39204972 AAAGTGATGG
*
39204982 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGAT-GGTCACATGTGTAGT
*
39205045 ACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
65 ACTATGTGCAGGCTAATATGCGTACCGGATAGCTTCGA
* *
39205083 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
39205148 CTATGTGCAGGCTAATATG
66 CTATGTGCAGGCTAATATG
39205167 TGAACCGGTA
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
101 40 0.51
102 34 0.44
103 4 0.05
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
CTATGTGCAGGCTAATATGCGTACCGGATAGCTTCGA
Found at i:39205112 original size:51 final size:49
Alignment explanation
Indices: 39204979--39205161 Score: 224
Period size: 51 Copynumber: 3.6 Consensus size: 49
39204969 GTGAAAGTGA
* *
39204979 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-ATGAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATA-G-T
* * * *
39205029 AGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG-T
* * *
39205079 TCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGT
1 T-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT
39205129 GATGGTCACATGTGTAGTACTATGTGCAGGCTA
1 --TGGTCACATGTGTAGTACTATGTGCAGGCTA
39205162 ATATGTGAAC
Statistics
Matches: 113, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
50 42 0.37
51 70 0.62
52 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (49 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT
Found at i:39205168 original size:26 final size:26
Alignment explanation
Indices: 39205088--39205168 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
39205078 TTCGATCACG
*
39205088 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTAATA
* * * *
39205114 CGTGTA-T-CGGATAGTG-ATGG-TCACA
1 TGTGTAGTAC-TAT-GTGCA-GGCTAATA
39205139 TGTGTAGTACTATGTGCAGGCTAATA
1 TGTGTAGTACTATGTGCAGGCTAATA
39205165 TGTG
1 TGTG
39205169 AACCGGTATC
Statistics
Matches: 39, Mismatches: 9, Indels: 14
0.63 0.15 0.23
Matches are distributed among these distances:
24 1 0.03
25 16 0.41
26 21 0.54
27 1 0.03
ACGTcount: A:0.23, C:0.14, G:0.30, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTAATA
Found at i:39205205 original size:101 final size:100
Alignment explanation
Indices: 39204984--39205174 Score: 276
Period size: 102 Copynumber: 1.9 Consensus size: 100
39204974 AGTGATGGTC
*
39204984 ACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTACTA
1 ACGTGTGTA-TACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTACTA
* * *
39205049 TGTGCAGGCTACTATGCGTACCGGATAGCTTCGATC
65 TGTGCAGGCTAATATGCGAACCGGATAGCTTCGATA
* *
39205085 ACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGAT-GGTCACATGTGTAGTAC
1 ACGTGTGTA-TACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCACATGTGTAGTAC
*
39205149 TATGTGCAGGCTAATATGTGAACCGG
63 TATGTGCAGGCTAATATGCGAACCGG
39205175 TATCATTAAT
Statistics
Matches: 82, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
101 38 0.46
102 40 0.49
103 4 0.05
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (100 bp):
ACGTGTGTATACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTACTAT
GTGCAGGCTAATATGCGAACCGGATAGCTTCGATA
Found at i:39205243 original size:46 final size:43
Alignment explanation
Indices: 39205170--39205268 Score: 117
Period size: 46 Copynumber: 2.2 Consensus size: 43
39205160 TAATATGTGA
* *
39205170 ACCGGTATCATTAATTATAAGGTGGTTGCTATGTGCTGATCCC
1 ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAACCC
* * *
39205213 ACCGGATATCATTGATTACAAAGGGTGGTTGTTGTGTGCTGAACCC
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTGCTATGTGCTGAACCC
39205259 ACCGTGTATC
1 ACCG-GTATC
39205269 TGTTATTATT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
43 5 0.11
44 11 0.23
45 2 0.04
46 28 0.60
47 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.32
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAACCC
Found at i:39205413 original size:16 final size:16
Alignment explanation
Indices: 39205392--39205423 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
39205382 TGATTGAAAG
*
39205392 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
39205408 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
39205424 GCAACAAAAC
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:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:39208489 original size:19 final size:18
Alignment explanation
Indices: 39208442--39208488 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
39208432 ATTTTAAAAT
39208442 TTTTATTTTTAACT-TTAA
1 TTTTATTTTTAA-TGTTAA
39208460 TTTCTATTTTTAATGTTAA
1 TTT-TATTTTTAATGTTAA
39208479 TTTTATTTTT
1 TTTTATTTTT
39208489 TTATGTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 11 0.41
19 16 0.59
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTATTTTTAATGTTAA
Found at i:39208498 original size:20 final size:20
Alignment explanation
Indices: 39208439--39208499 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 20
39208429 TTAATTTTAA
* *
39208439 AATTTTTATTTTTAA-CTTT
1 AATTTCTATTTTTAATGTTT
39208458 AATTTCTATTTTTAATG-TT
1 AATTTCTATTTTTAATGTTT
*
39208477 AATTT-TATTTTTTTATGTTT
1 AATTTCTA-TTTTTAATGTTT
39208497 AAT
1 AAT
39208500 AAGGGGGTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
18 2 0.06
19 29 0.81
20 5 0.14
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.67
Consensus pattern (20 bp):
AATTTCTATTTTTAATGTTT
Found at i:39213857 original size:26 final size:27
Alignment explanation
Indices: 39213823--39213875 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
39213813 ACCATAGCAC
39213823 AAATCAGTCATTTACCCACGAGGGGCA
1 AAATCAGTCATTTACCCACGAGGGGCA
* *
39213850 AAAT-AGTCATTTACCCTCTAGGGGCA
1 AAATCAGTCATTTACCCACGAGGGGCA
39213876 TTACGGTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (27 bp):
AAATCAGTCATTTACCCACGAGGGGCA
Found at i:39216803 original size:279 final size:279
Alignment explanation
Indices: 39216303--39216864 Score: 1124
Period size: 279 Copynumber: 2.0 Consensus size: 279
39216293 GAATGTTTTC
39216303 TGAACATTGTTAAGCATGATGAAAATGAATTGAGTTTATTAATATAATTATCCTAGCCTATTTCA
1 TGAACATTGTTAAGCATGATGAAAATGAATTGAGTTTATTAATATAATTATCCTAGCCTATTTCA
39216368 TGTTGATTATTTTTGTTGCTAAAGCCATTCATTCATACATTTAGATAATTTGTATTTAGATTAAA
66 TGTTGATTATTTTTGTTGCTAAAGCCATTCATTCATACATTTAGATAATTTGTATTTAGATTAAA
39216433 ATTACATTAGGGGTCAATTTTTGCATCTAGTTAATTTAATCATCACTATCCAAAATTATTGAATT
131 ATTACATTAGGGGTCAATTTTTGCATCTAGTTAATTTAATCATCACTATCCAAAATTATTGAATT
39216498 TTTAGTGATTTATAATTTTGCAATTAATCGATTAACATACACAGTCCCTGTGGAGACGATAATTC
196 TTTAGTGATTTATAATTTTGCAATTAATCGATTAACATACACAGTCCCTGTGGAGACGATAATTC
39216563 ATTTTACTTACTTATTACT
261 ATTTTACTTACTTATTACT
39216582 TGAACATTGTTAAGCATGATGAAAATGAATTGAGTTTATTAATATAATTATCCTAGCCTATTTCA
1 TGAACATTGTTAAGCATGATGAAAATGAATTGAGTTTATTAATATAATTATCCTAGCCTATTTCA
39216647 TGTTGATTATTTTTGTTGCTAAAGCCATTCATTCATACATTTAGATAATTTGTATTTAGATTAAA
66 TGTTGATTATTTTTGTTGCTAAAGCCATTCATTCATACATTTAGATAATTTGTATTTAGATTAAA
39216712 ATTACATTAGGGGTCAATTTTTGCATCTAGTTAATTTAATCATCACTATCCAAAATTATTGAATT
131 ATTACATTAGGGGTCAATTTTTGCATCTAGTTAATTTAATCATCACTATCCAAAATTATTGAATT
39216777 TTTAGTGATTTATAATTTTGCAATTAATCGATTAACATACACAGTCCCTGTGGAGACGATAATTC
196 TTTAGTGATTTATAATTTTGCAATTAATCGATTAACATACACAGTCCCTGTGGAGACGATAATTC
39216842 ATTTTACTTACTTATTACT
261 ATTTTACTTACTTATTACT
39216861 TGAA
1 TGAA
39216865 TGACTATGTA
Statistics
Matches: 283, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
279 283 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (279 bp):
TGAACATTGTTAAGCATGATGAAAATGAATTGAGTTTATTAATATAATTATCCTAGCCTATTTCA
TGTTGATTATTTTTGTTGCTAAAGCCATTCATTCATACATTTAGATAATTTGTATTTAGATTAAA
ATTACATTAGGGGTCAATTTTTGCATCTAGTTAATTTAATCATCACTATCCAAAATTATTGAATT
TTTAGTGATTTATAATTTTGCAATTAATCGATTAACATACACAGTCCCTGTGGAGACGATAATTC
ATTTTACTTACTTATTACT
Found at i:39217891 original size:37 final size:37
Alignment explanation
Indices: 39217844--39217937 Score: 134
Period size: 38 Copynumber: 2.5 Consensus size: 37
39217834 TGAGATTTGA
39217844 TTGCATGTTAAACATGCCCTACATGATATAATCCGAT
1 TTGCATGTTAAACATGCCCTACATGATATAATCCGAT
* * *
39217881 TTGCATGTTAAAACACGCCCTACATGATATTATTCGAT
1 TTGCATGTT-AAACATGCCCTACATGATATAATCCGAT
* *
39217919 TTACATGTTCAACATGCCC
1 TTGCATGTTAAACATGCCC
39217938 AATGTGACAA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
37 17 0.34
38 33 0.66
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (37 bp):
TTGCATGTTAAACATGCCCTACATGATATAATCCGAT
Found at i:39220811 original size:27 final size:28
Alignment explanation
Indices: 39220778--39220844 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 28
39220768 AGTCAGCCAG
*
39220778 GACATTAAACACAAAGG-AGTCTATCAA
1 GACATTAAACACAAAGGTAGTCCATCAA
* * *
39220805 GATATTAAACAC-GAGGTAGTCCATCAG
1 GACATTAAACACAAAGGTAGTCCATCAA
39220832 GACATTAAACACA
1 GACATTAAACACA
39220845 GGAAGTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
26 3 0.09
27 30 0.91
ACGTcount: A:0.45, C:0.19, G:0.16, T:0.19
Consensus pattern (28 bp):
GACATTAAACACAAAGGTAGTCCATCAA
Found at i:39222920 original size:20 final size:18
Alignment explanation
Indices: 39222874--39222922 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
39222864 AAAATTGAGC
*
39222874 GAATAAAAGCAATGTGAA
1 GAATAAAAGCAAAGTGAA
**
39222892 GGTTAAAAGCAAAGTGATTA
1 GAATAAAAGCAAAGTGA--A
39222912 GAATAAAAGCA
1 GAATAAAAGCA
39222923 TGGTTAGTGA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 14 0.58
20 10 0.42
ACGTcount: A:0.53, C:0.06, G:0.22, T:0.18
Consensus pattern (18 bp):
GAATAAAAGCAAAGTGAA
Found at i:39238108 original size:25 final size:26
Alignment explanation
Indices: 39238076--39238160 Score: 79
Period size: 25 Copynumber: 3.3 Consensus size: 26
39238066 ATTATATATT
* *
39238076 TATAAAAACATTAAAGTATTTAAATA
1 TATAAAAGCATTAAAGTATATAAATA
39238102 TATAAAAGTCCA-T-AA-TATATAAATA
1 TATAAAAG--CATTAAAGTATATAAATA
* * *
39238127 TATAAAAGC-CTATAGTATGTAAATA
1 TATAAAAGCATTAAAGTATATAAATA
39238152 TATAAAAGC
1 TATAAAAGC
39238161 TTTATAAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
23 2 0.04
24 1 0.02
25 35 0.70
26 9 0.18
27 1 0.02
28 2 0.04
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.32
Consensus pattern (26 bp):
TATAAAAGCATTAAAGTATATAAATA
Found at i:39238203 original size:14 final size:14
Alignment explanation
Indices: 39238163--39238206 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
39238153 ATAAAAGCTT
* * *
39238163 TATAAATTTATTAG
1 TATATATTTATAAA
39238177 TATATATTTTATAAA
1 TATATA-TTTATAAA
39238192 TATATATTTATAAA
1 TATATATTTATAAA
39238206 T
1 T
39238207 TTTTATAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 14 0.54
15 12 0.46
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (14 bp):
TATATATTTATAAA
Found at i:39238203 original size:23 final size:23
Alignment explanation
Indices: 39238161--39238223 Score: 60
Period size: 23 Copynumber: 2.7 Consensus size: 23
39238151 ATATAAAAGC
*
39238161 TTTATAAATT-TATTAGTATATAT
1 TTTATAAATTATATTA-TATAAAT
39238184 TTTATAAATATATATT-TATAAAT
1 TTTATAAAT-TATATTATATAAAT
39238207 TTT-TATAATGTATATTA
1 TTTATA-AAT-TATATTA
39238224 AAATTATAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
22 2 0.06
23 27 0.79
24 1 0.03
25 4 0.12
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (23 bp):
TTTATAAATTATATTATATAAAT
Found at i:39241269 original size:27 final size:28
Alignment explanation
Indices: 39241210--39241270 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
39241200 AAAAATTCAA
*
39241210 ATTTTTAAATATTTATGGGGTTAGGTCG
1 ATTTTTAAATATTTATGGGATTAGGTCG
* * *
39241238 TTTTTTAAATATTTGT-GGATTAGGTTG
1 ATTTTTAAATATTTATGGGATTAGGTCG
39241265 ATTTTT
1 ATTTTT
39241271 GAAAATGCAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 14 0.50
28 14 0.50
ACGTcount: A:0.23, C:0.02, G:0.21, T:0.54
Consensus pattern (28 bp):
ATTTTTAAATATTTATGGGATTAGGTCG
Found at i:39241481 original size:21 final size:21
Alignment explanation
Indices: 39241457--39241497 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
39241447 ATTTTCTCTC
39241457 AATTCTCTCAAATTTTATTAA
1 AATTCTCTCAAATTTTATTAA
* * *
39241478 AATTGTCTTAAGTTTTATTA
1 AATTCTCTCAAATTTTATTA
39241498 TTATTTAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.10, G:0.05, T:0.51
Consensus pattern (21 bp):
AATTCTCTCAAATTTTATTAA
Found at i:39241677 original size:7 final size:7
Alignment explanation
Indices: 39241665--39241694 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
39241655 AGTTGTTATA
39241665 TTAAAAT
1 TTAAAAT
39241672 TTAAAAT
1 TTAAAAT
39241679 TTAAAAT
1 TTAAAAT
39241686 TTAAAAT
1 TTAAAAT
39241693 TT
1 TT
39241695 TGTATGTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TTAAAAT
Found at i:39249866 original size:50 final size:50
Alignment explanation
Indices: 39249812--39249911 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
39249802 CTAATTAAAA
**
39249812 TTCAACATCTAACTTCAATTCTACTTCTTAAGATTTGTTGATTTAAAGAG
1 TTCAACATCTAACTTCAATTCTACTTCTTAAGATTTGTCAATTTAAAGAG
39249862 TTCAACATCTAACTTCAATTCTACTTCTTAAGATTTGTCAATTTAAAGAG
1 TTCAACATCTAACTTCAATTCTACTTCTTAAGATTTGTCAATTTAAAGAG
39249912 CGTCCTACTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (50 bp):
TTCAACATCTAACTTCAATTCTACTTCTTAAGATTTGTCAATTTAAAGAG
Found at i:39250431 original size:40 final size:40
Alignment explanation
Indices: 39250399--39250626 Score: 307
Period size: 40 Copynumber: 5.7 Consensus size: 40
39250389 CCAGCATGAT
* * * * *
39250399 TGCTCTTCGGGACCTAGCCCGGATATAACACCAACACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * * * *
39250439 TACTCTTCGAGG-TTTAGCACGGATATATTACTAGCACGAA
1 TGCTCTTCG-GGACTTAGCCCGGATACATCACTAGCACGAA
* *
39250479 TGCTCTTCGGAACTTAGCCCAGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
39250519 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
39250559 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
39250599 TGCTCTTCGGGACTTAGCCCGGAT-CATC
1 TGCTCTTCGGGACTTAGCCCGGATACATC
39250627 GTCGAGACCT
Statistics
Matches: 166, Mismatches: 20, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 5 0.03
40 159 0.96
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:39255342 original size:100 final size:100
Alignment explanation
Indices: 39255169--39255369 Score: 402
Period size: 100 Copynumber: 2.0 Consensus size: 100
39255159 AAAATTTTAC
39255169 TTTTGAAATTAATTTCACTATTCACAACAAAGCTGTCCACCTGCACAGCAATTACTAAAGTAATT
1 TTTTGAAATTAATTTCACTATTCACAACAAAGCTGTCCACCTGCACAGCAATTACTAAAGTAATT
39255234 ATAACTTGAGCTAAGAAACTCAAAATTTAGATCCG
66 ATAACTTGAGCTAAGAAACTCAAAATTTAGATCCG
39255269 TTTTGAAATTAATTTCACTATTCACAACAAAGCTGTCCACCTGCACAGCAATTACTAAAGTAATT
1 TTTTGAAATTAATTTCACTATTCACAACAAAGCTGTCCACCTGCACAGCAATTACTAAAGTAATT
39255334 ATAACTTGAGCTAAGAAACTCAAAATTTAGATCCG
66 ATAACTTGAGCTAAGAAACTCAAAATTTAGATCCG
39255369 T
1 T
39255370 AAATTTTTCT
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 101 1.00
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (100 bp):
TTTTGAAATTAATTTCACTATTCACAACAAAGCTGTCCACCTGCACAGCAATTACTAAAGTAATT
ATAACTTGAGCTAAGAAACTCAAAATTTAGATCCG
Found at i:39256574 original size:49 final size:50
Alignment explanation
Indices: 39256489--39256626 Score: 154
Period size: 49 Copynumber: 2.8 Consensus size: 50
39256479 CTCATGTCTA
* * * *
39256489 ATAATACATGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTTC
1 ATAATAC-TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTC
* *
39256541 -T-ATACTGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTC
1 ATAATACTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTC
** * *
39256589 ATAATGGTGCCCATGCCATGTCCTAGACATGGTCTTAC
1 ATAATACTGCCAATGCCATGTCCCAGACATGGTCTTAC
39256627 GGGAGACCTC
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
48 5 0.07
49 33 0.46
50 33 0.46
51 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (50 bp):
ATAATACTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTC
Found at i:39256639 original size:50 final size:49
Alignment explanation
Indices: 39256546--39256655 Score: 116
Period size: 50 Copynumber: 2.2 Consensus size: 49
39256536 TTTTCTATAC
* *
39256546 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATAATGG
1 TGCCAATGCCATATCCCAGACATGGTCTTACA-GGGAGCTCTCATAATGG
* * * *
39256596 TGCCCATGCCATGTCCTAGACATGGTCTTAC-GGGAGACCTCTCAT-CTCGG
1 TGCCAATGCCATATCCCAGACATGGTCTTACAGGGAG--CTCTCATAAT-GG
39256646 TGCCAATGCC
1 TGCCAATGCC
39256656 TTAATACTCA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
48 5 0.10
49 1 0.02
50 44 0.88
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (49 bp):
TGCCAATGCCATATCCCAGACATGGTCTTACAGGGAGCTCTCATAATGG
Found at i:39265266 original size:50 final size:50
Alignment explanation
Indices: 39265198--39265331 Score: 160
Period size: 50 Copynumber: 2.7 Consensus size: 50
39265188 TTTTTTGTAT
* * **
39265198 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATAACAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATAACAG
* ** * ** *
39265248 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATAACAG
*
39265298 TGCCAACGCCATGTCCCAGACATGGTCTTACATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
39265332 GGATCTCTTT
Statistics
Matches: 69, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 69 1.00
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATAACAG
Found at i:39268498 original size:18 final size:19
Alignment explanation
Indices: 39268472--39268508 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
39268462 AATTTTGGAA
39268472 TGGAAAGAAGAGA-GAAAG
1 TGGAAAGAAGAGAGGAAAG
*
39268490 TGGAGAGAAGAGAGGAAAG
1 TGGAAAGAAGAGAGGAAAG
39268509 ATGTGAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.43, T:0.05
Consensus pattern (19 bp):
TGGAAAGAAGAGAGGAAAG
Found at i:39276080 original size:14 final size:14
Alignment explanation
Indices: 39276061--39276089 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
39276051 GTATGGATAG
39276061 ACTCGATGAATCAT
1 ACTCGATGAATCAT
39276075 ACTCGATGAATCAT
1 ACTCGATGAATCAT
39276089 A
1 A
39276090 AATGGACCGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.28
Consensus pattern (14 bp):
ACTCGATGAATCAT
Found at i:39282489 original size:18 final size:19
Alignment explanation
Indices: 39282463--39282499 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
39282453 AATTTTGGAA
39282463 TAGAAAGAAGAGA-GAAAG
1 TAGAAAGAAGAGAGGAAAG
*
39282481 TAGAGAGAAGAGAGGAAAG
1 TAGAAAGAAGAGAGGAAAG
39282500 ATGTGAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.57, C:0.00, G:0.38, T:0.05
Consensus pattern (19 bp):
TAGAAAGAAGAGAGGAAAG
Found at i:39287376 original size:25 final size:26
Alignment explanation
Indices: 39287315--39287380 Score: 82
Period size: 25 Copynumber: 2.6 Consensus size: 26
39287305 GGCCCATTTC
39287315 ACAGCTTGTGTGAGC-ATTGACAATT
1 ACAGCTTGTGTGAGCAATTGACAATT
* ** *
39287340 ACAACTCATGTGAGCAATT-ACAGTT
1 ACAGCTTGTGTGAGCAATTGACAATT
39287365 ACAGCTTGTGTGAGCA
1 ACAGCTTGTGTGAGCA
39287381 TTATTCCCAT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
25 30 0.91
26 3 0.09
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (26 bp):
ACAGCTTGTGTGAGCAATTGACAATT
Found at i:39296855 original size:10 final size:10
Alignment explanation
Indices: 39296804--39296855 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
39296794 GAATCTGTCG
*
39296804 AAAA-TAATC
1 AAAATTAATT
*
39296813 AAAATTAATC
1 AAAATTAATT
39296823 AAAATTAACTAT
1 AAAATTAA-T-T
39296835 AAAATTAATT
1 AAAATTAATT
*
39296845 AAAATTCATT
1 AAAATTAATT
39296855 A
1 A
39296856 TGTTCATATT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
9 4 0.11
10 24 0.63
11 2 0.05
12 8 0.21
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAATTAATT
Found at i:39298739 original size:181 final size:181
Alignment explanation
Indices: 39298382--39298729 Score: 624
Period size: 181 Copynumber: 1.9 Consensus size: 181
39298372 CTATAGACAG
*
39298382 CTCAACAAAGTCACAATCAAGAAAAAATATCCCTTGCCACGTATTGATGATTTGTTTGATCAGTT
1 CTCAACAAAGTCACAATCAAGAAAAAATATCCCTTGCCACGTATTGATGATTTGTTTGATCAGAT
* *
39298447 GAAAGGTGCGACAGTACTTTCAAAGATTCATCTCTGTTGTGGATATTATCAACTATGGGTTAAAG
66 GAAAGGTGCGACAGTACTTTCAAAGATTCATCTCTATTGTGGATATTATCAACTACGGGTTAAAG
39298512 ATTTGGACGTGTCAAAAACTACTTTTAGAACTAGGTAAAAACACTATACAA
131 ATTTGGACGTGTCAAAAACTACTTTTAGAACTAGGTAAAAACACTATACAA
*
39298563 CTCAACAAAGTCACAATCAAGAAAAAATATCCCTTGCCATGTATTGATGATTTGTTTGATCAGAT
1 CTCAACAAAGTCACAATCAAGAAAAAATATCCCTTGCCACGTATTGATGATTTGTTTGATCAGAT
* *
39298628 GAAAGGTGCGACAGTATTTTCAAAGATTCATCTCTATTGTTGATATTATCAACTACGGGTTAAAG
66 GAAAGGTGCGACAGTACTTTCAAAGATTCATCTCTATTGTGGATATTATCAACTACGGGTTAAAG
**
39298693 ATTTGGACGTGTTGAAAACTACTTTTAGAACTAGGTA
131 ATTTGGACGTGTCAAAAACTACTTTTAGAACTAGGTA
39298730 CGGACACTAT
Statistics
Matches: 159, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
181 159 1.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.32
Consensus pattern (181 bp):
CTCAACAAAGTCACAATCAAGAAAAAATATCCCTTGCCACGTATTGATGATTTGTTTGATCAGAT
GAAAGGTGCGACAGTACTTTCAAAGATTCATCTCTATTGTGGATATTATCAACTACGGGTTAAAG
ATTTGGACGTGTCAAAAACTACTTTTAGAACTAGGTAAAAACACTATACAA
Found at i:39301344 original size:29 final size:29
Alignment explanation
Indices: 39301293--39301466 Score: 90
Period size: 29 Copynumber: 5.9 Consensus size: 29
39301283 GCTATAGATT
* **
39301293 ATGAAAAAGGATGGTGACAACCATCAACA
1 ATGAAAAGGGATGGTGATGACCATCAACA
*
39301322 ATGAAAAGGGATGGTGATGACCATTGAAC-
1 ATGAAAAGGGATGGTGATGACCA-TCAACA
* * * * * *
39301351 TTGAAAAGCGATGGCT--TCAGCTATCGAGCC
1 ATGAAAAGGGATGG-TGATGA-CCATC-AACA
* * *
39301381 ATGAAAAGGGATAGCT--TCAGCAATCAA-A
1 ATGAAAAGGGAT-GGTGATGA-CCATCAACA
* *
39301409 TTATGAAAAGGGAGGGTGATGGCCATCAACA
1 --ATGAAAAGGGATGGTGATGACCATCAACA
*
39301440 ATGAAAAGGGATGGTGACGACCATCAA
1 ATGAAAAGGGATGGTGATGACCATCAA
39301467 ATTATGGAAA
Statistics
Matches: 110, Mismatches: 24, Indels: 22
0.71 0.15 0.14
Matches are distributed among these distances:
28 3 0.03
29 63 0.57
30 41 0.37
31 3 0.03
ACGTcount: A:0.39, C:0.16, G:0.27, T:0.18
Consensus pattern (29 bp):
ATGAAAAGGGATGGTGATGACCATCAACA
Found at i:39301437 original size:30 final size:30
Alignment explanation
Indices: 39301403--39301479 Score: 95
Period size: 29 Copynumber: 2.6 Consensus size: 30
39301393 AGCTTCAGCA
* *
39301403 ATCAAATTATGAAAAGGGAGGGTGATGGCC
1 ATCAAATTATGAAAAGGGAGGGTGACGACC
*
39301433 ATCAACA--ATGAAAAGGGATGGTGACGACC
1 ATCAA-ATTATGAAAAGGGAGGGTGACGACC
39301462 ATCAAATTATGGAAAAGG
1 ATCAAATTAT-GAAAAGG
39301480 ATAGCTTTGG
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
28 1 0.03
29 24 0.60
30 7 0.17
31 8 0.20
ACGTcount: A:0.42, C:0.12, G:0.29, T:0.18
Consensus pattern (30 bp):
ATCAAATTATGAAAAGGGAGGGTGACGACC
Found at i:39301510 original size:30 final size:30
Alignment explanation
Indices: 39301469--39301542 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
39301459 ACCATCAAAT
* *
39301469 TATGGAAAAGGAT-AGCTTTGGCTGTCGAA-C
1 TATGAAAAAGGATGA-CTTTGGCTATC-AAGC
* *
39301499 TATGAAAAAGGATGACTTTGGTTATCAAGT
1 TATGAAAAAGGATGACTTTGGCTATCAAGC
39301529 TATGAAAAAGGATG
1 TATGAAAAAGGATG
39301543 GGTCAACCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
29 2 0.05
30 35 0.92
31 1 0.03
ACGTcount: A:0.36, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TATGAAAAAGGATGACTTTGGCTATCAAGC
Found at i:39315126 original size:40 final size:40
Alignment explanation
Indices: 39315065--39315185 Score: 154
Period size: 40 Copynumber: 3.0 Consensus size: 40
39315055 NNNNNNNNNN
* * *
39315065 ATTTGTGCTAG-TGATTTTATCCGGGCTAAGACCTGAAGGC
1 ATTTGTGCAAGTTGA-TATATCCGGGCTAAGACCCGAAGGC
*
39315105 ATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGC
1 ATTTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGC
* * * *
39315145 AATTATGCAAGTTGATATGTCCGGGTTAAGACCCGAAGGC
1 ATTTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGC
39315185 A
1 A
39315186 AATGTGTTTG
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 69 0.96
41 3 0.04
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.27
Consensus pattern (40 bp):
ATTTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGC
Found at i:39315186 original size:40 final size:40
Alignment explanation
Indices: 39315082--39315186 Score: 156
Period size: 40 Copynumber: 2.6 Consensus size: 40
39315072 CTAGTGATTT
* * * *
39315082 TATCCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTGATA
1 TATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTGATA
39315122 TATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTGATA
1 TATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTGATA
* *
39315162 TGTCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCAA
39315187 ATGTGTTTGC
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTGATA
Found at i:39320455 original size:59 final size:59
Alignment explanation
Indices: 39320340--39320527 Score: 168
Period size: 59 Copynumber: 3.2 Consensus size: 59
39320330 ATGGAATATT
* * * * * *
39320340 AAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATGGCTGTGGCTATCGAACAATG
1 AAAAGGGATAGCTTCGACTATCAATTATGAAAAGGGATGGCTGCGACCATCGAACAATG
39320399 AAAAGGGATAGCTTCGACTATCAAATTATGAAAAGGGATGG-TGACGACCATC-AACAATG
1 AAAAGGGATAGCTTCGACTATC-AATTATGAAAAGGGATGGCTG-CGACCATCGAACAATG
* * * * * * * * *
39320458 AAAATGGAT-GGTGACGACCATGAATTTATGGAAAA-GGATAGCTTCGACTATCGAACTATG
1 AAAAGGGATAGCT-TCGACTATCAA-TTAT-GAAAAGGGATGGCTGCGACCATCGAACAATG
39320518 AAAAGGGATA
1 AAAAGGGATA
39320528 ACTTTGGTTA
Statistics
Matches: 105, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
58 4 0.04
59 59 0.56
60 42 0.40
ACGTcount: A:0.38, C:0.13, G:0.27, T:0.23
Consensus pattern (59 bp):
AAAAGGGATAGCTTCGACTATCAATTATGAAAAGGGATGGCTGCGACCATCGAACAATG
Found at i:39320521 original size:29 final size:30
Alignment explanation
Indices: 39320312--39320527 Score: 144
Period size: 29 Copynumber: 7.3 Consensus size: 30
39320302 CGACAAATGG
* *
39320312 AAAGGGATAGCTTC-AGCTATGGAA-TATTA
1 AAAGGGATAGCTTCGA-CTATCGAACTATGA
* * *
39320341 AAAGGGATAGCTTTGGCTATCG-ATTATGA
1 AAAGGGATAGCTTCGACTATCGAACTATGA
* * *
39320370 AAAGGGATGGCTGT-GGCTATCGAACAATGA
1 AAAGGGATAGCT-TCGACTATCGAACTATGA
* *
39320400 AAAGGGATAGCTTCGACTATCAAATTATGA
1 AAAGGGATAGCTTCGACTATCGAACTATGA
* * * *
39320430 AAAGGGAT-GGTGACGACCATC-AACAATGA
1 AAAGGGATAGCT-TCGACTATCGAACTATGA
* * * * *
39320459 AAATGGAT-GGTGACGACCAT-GAATTTATGGA
1 AAAGGGATAGCT-TCGACTATCGAA-CTAT-GA
39320490 AAA-GGATAGCTTCGACTATCGAACTATGA
1 AAAGGGATAGCTTCGACTATCGAACTATGA
39320519 AAAGGGATA
1 AAAGGGATA
39320528 ACTTTGGTTA
Statistics
Matches: 151, Mismatches: 24, Indels: 23
0.76 0.12 0.12
Matches are distributed among these distances:
28 1 0.01
29 76 0.50
30 64 0.42
31 10 0.07
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (30 bp):
AAAGGGATAGCTTCGACTATCGAACTATGA
Found at i:39336218 original size:5 final size:6
Alignment explanation
Indices: 39336201--39336228 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
39336191 TATTTGATCC
39336201 TATTTT TATTTT TATTTT TATTTT TATT
1 TATTTT TATTTT TATTTT TATTTT TATT
39336229 ATAATGTTTA
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:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TATTTT
Found at i:39337022 original size:24 final size:24
Alignment explanation
Indices: 39336985--39337039 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
39336975 TATAATTAAG
* *
39336985 TTTTAAATATGATTT-TCTTACAAT
1 TTTTAATTAGGATTTAT-TTACAAT
*
39337009 TTTTAATTAGGATTTATTTAGAAT
1 TTTTAATTAGGATTTATTTACAAT
39337033 TTTTAAT
1 TTTTAAT
39337040 GATGGTGTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 26 0.96
25 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.56
Consensus pattern (24 bp):
TTTTAATTAGGATTTATTTACAAT
Found at i:39337925 original size:25 final size:28
Alignment explanation
Indices: 39337883--39337943 Score: 78
Period size: 25 Copynumber: 2.4 Consensus size: 28
39337873 ATTAGATTTT
39337883 AATTCA-TAA-TTTTCATTTTCAT-AAA
1 AATTCACTAACTTTTCATTTTCATAAAA
*
39337908 AATT-ACTAACTTTT-ATTTTCCTAAAA
1 AATTCACTAACTTTTCATTTTCATAAAA
39337934 AATTCACTAA
1 AATTCACTAA
39337944 ATGCATTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
24 1 0.03
25 14 0.45
26 11 0.35
27 5 0.16
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (28 bp):
AATTCACTAACTTTTCATTTTCATAAAA
Found at i:39339785 original size:27 final size:27
Alignment explanation
Indices: 39339726--39339797 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
39339716 CCCAAACTGA
*
39339726 TATAAAATGACTGTTATGCCCCCAAGT
1 TATAAAATGACTATTATGCCCCCAAGT
** * *
39339753 GGTAAAATGACTATTATGCCCCTATGT
1 TATAAAATGACTATTATGCCCCCAAGT
39339780 TATAAAATGACTA-TATGC
1 TATAAAATGACTATTATGC
39339798 TTTATATTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 5 0.13
27 33 0.87
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (27 bp):
TATAAAATGACTATTATGCCCCCAAGT
Found at i:39347389 original size:27 final size:26
Alignment explanation
Indices: 39347330--39347411 Score: 85
Period size: 27 Copynumber: 3.1 Consensus size: 26
39347320 CCCAAACTGA
* *
39347330 TATAAAATGACTATTATGCCCCCACGT
1 TATAAAATGACT-TTATGCCCCTATGT
**
39347357 GGTAAAATGACTGTTATGCCCCTATGT
1 TATAAAATGACT-TTATGCCCCTATGT
* *
39347384 TATAAAATGACTATATG-CTCTATGT
1 TATAAAATGACTTTATGCCCCTATGT
39347409 TAT
1 TAT
39347412 GTATGATTGT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
25 10 0.22
26 4 0.09
27 32 0.70
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (26 bp):
TATAAAATGACTTTATGCCCCTATGT
Found at i:39351138 original size:20 final size:20
Alignment explanation
Indices: 39351113--39351161 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
39351103 AGATGCATAG
* *
39351113 CAGGGGCATCAAA-GTGTAGA
1 CAGGGGCA-CAAATGTGCAAA
39351133 CAGGGGCACAAATGTGCAAA
1 CAGGGGCACAAATGTGCAAA
39351153 CAGGGGCAC
1 CAGGGGCAC
39351162 TGTAGCGCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 4 0.15
20 22 0.85
ACGTcount: A:0.35, C:0.20, G:0.35, T:0.10
Consensus pattern (20 bp):
CAGGGGCACAAATGTGCAAA
Found at i:39367574 original size:528 final size:529
Alignment explanation
Indices: 39366577--39367610 Score: 1705
Period size: 528 Copynumber: 2.0 Consensus size: 529
39366567 ATTTCTTCGG
* *
39366577 AAATGTCTCCAGGAAAAAATCCCAAGTTAATTTGTTCACAGCATTTCCCTGCTTCATAGTGTTCC
1 AAATGTCTCCAGGAAAAAATCCCAAGTTAATTTGTTCACAGCAGTTCCCTGCTTCACAGTGTTCC
*** *
39366642 ATTTGCGATAAGCTTCACCAGTGAGTAGTGACATAGTGCATCCCACTTTTTTCTTCCTCAGTACA
66 ACCAGCGATAAGCTTCACCAGTGAGTACTGACATAGTGCATCCCACTTTTTTCTTCCTCAGTACA
*
39366707 GGCCATTTGCTCAAGGATTTTCTCAACTCCCTCGACCTAATACTCAGCCTTGGTAGGATCAGTTC
131 GGCCATTTGCTCAAGGATTTTCTCAACTCCCTCGACCCAATACTCAGCCTTGGTAGGATCAGTTC
* * *
39366772 CTCTAACTCCACTATTGGCAGACGCTCTAATGGCAATCCTCAATTGGCAGGGACATGGTTCGCAC
196 CTCTAACCCCACTATTGGAAGACGCTCTAATGGCAATCCTCAATTGGCAGGGACATGGGTCGCAC
* *
39366837 CAGCATATCGTTGAAATGCTCCTAGCATAGCTTGTACCCGTGGTTCGAAATTCTCATCCAAAGCA
261 CAGCATATCGTTGAAATGCTCCTAGCATAGCTTGTACCAGTGGTTCGAAACTCTCATCCAAAGCA
*
39366902 CTAGCCCTGCAAGATCGCACTAGTGATGTCAAAGTCCTATCACCTTCTAAAAGGTCCACAGTTCC
326 CTAGCCCTGCAAGATCGCACTAGTGATGTCAAAATCCTATCACCTTCTAAAAGGTCCACAGTTCC
* * *
39366967 ATTAACACAACTTGTATTCACACTTTTGGGAGGCAATTTACTTACTCTAGATGTGCATAAGACAT
391 ATTAACACAACTTGGATTCACACTTTTGGGAGGCAATTTACTTACTCTAGATGTGCAAAAGACAC
*
39367032 AAGCTTAAGCACATAAAATTATACATTCTAAGATTACCAAACACATTTGCACATAAAATTATAAA
456 AAGCTTAAGCACATAAAATTATACATTCTAAGATTAACAAACACATTTGCACATAAAATTATAAA
39367097 TATCCTCTT
521 TATCCTCTT
*
39367106 AAATGTCTCCAGGAAGAAATCCCAAGTTAATTTGTTCAC-GACAGTTCCCTGCTTCACAGTGTTC
1 AAATGTCTCCAGGAAAAAATCCCAAGTTAATTTGTTCACAG-CAGTTCCCTGCTTCACAGTGTTC
* * * * *
39367170 CACCAGCTATGAGCTTCGCTAGTGAGTACTGGCATAGTGCATCCCAC-TTTTTCTTCCTC-GATA
65 CACCAGCGATAAGCTTCACCAGTGAGTACTGACATAGTGCATCCCACTTTTTTCTTCCTCAG-TA
*
39367233 CAGGCCATTTGCTCAAGGATTTTCTCAACTCCCTCGACCCAATACTCTGCCTTGGTAGGATCAGT
129 CAGGCCATTTGCTCAAGGATTTTCTCAACTCCCTCGACCCAATACTCAGCCTTGGTAGGATCAGT
* * *
39367298 TCCTTTAACCCCACTGTTGGAAGACGCTCTAATGGCAATCCTCAATTGGCAGGGACATGGGTCGT
194 TCCTCTAACCCCACTATTGGAAGACGCTCTAATGGCAATCCTCAATTGGCAGGGACATGGGTCGC
39367363 ACCAGCATATCGTTGAAATGCTCCTAGCATAGCTTGTACCAGTGGTTCGAAACTCTCATCCAAAG
259 ACCAGCATATCGTTGAAATGCTCCTAGCATAGCTTGTACCAGTGGTTCGAAACTCTCATCCAAAG
* * * * *
39367428 CACTAGCCCTGCAAGGTCGCATTAGTGATGTCAAAATCCTATCACCTTCTAAAAGTTCTACGGTT
324 CACTAGCCCTGCAAGATCGCACTAGTGATGTCAAAATCCTATCACCTTCTAAAAGGTCCACAGTT
* * * *
39367493 CCATTAACACAAGTTGGATTCACACTTTTGGGAGGCATTTTACTTATTCTAGATGTGCAAAAGGC
389 CCATTAACACAACTTGGATTCACACTTTTGGGAGGCAATTTACTTACTCTAGATGTGCAAAAGAC
39367558 ACAAGCTTAAGCACATAAAATTATACATTCTAAGATTAACAAACACATTTGCA
454 ACAAGCTTAAGCACATAAAATTATACATTCTAAGATTAACAAACACATTTGCA
39367611 AACTTAGTTC
Statistics
Matches: 467, Mismatches: 36, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
527 1 0.00
528 369 0.79
529 97 0.21
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (529 bp):
AAATGTCTCCAGGAAAAAATCCCAAGTTAATTTGTTCACAGCAGTTCCCTGCTTCACAGTGTTCC
ACCAGCGATAAGCTTCACCAGTGAGTACTGACATAGTGCATCCCACTTTTTTCTTCCTCAGTACA
GGCCATTTGCTCAAGGATTTTCTCAACTCCCTCGACCCAATACTCAGCCTTGGTAGGATCAGTTC
CTCTAACCCCACTATTGGAAGACGCTCTAATGGCAATCCTCAATTGGCAGGGACATGGGTCGCAC
CAGCATATCGTTGAAATGCTCCTAGCATAGCTTGTACCAGTGGTTCGAAACTCTCATCCAAAGCA
CTAGCCCTGCAAGATCGCACTAGTGATGTCAAAATCCTATCACCTTCTAAAAGGTCCACAGTTCC
ATTAACACAACTTGGATTCACACTTTTGGGAGGCAATTTACTTACTCTAGATGTGCAAAAGACAC
AAGCTTAAGCACATAAAATTATACATTCTAAGATTAACAAACACATTTGCACATAAAATTATAAA
TATCCTCTT
Found at i:39372528 original size:17 final size:17
Alignment explanation
Indices: 39372488--39372530 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
39372478 CTAGGACTTA
*
39372488 ATTTTATGTTTTTCTTT
1 ATTTTATGTTTCTCTTT
39372505 ATGTTTATGTTTCT-TTT
1 AT-TTTATGTTTCTCTTT
39372522 ACTTTTATG
1 A-TTTTATG
39372531 AACCGATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.14, C:0.07, G:0.09, T:0.70
Consensus pattern (17 bp):
ATTTTATGTTTCTCTTT
Found at i:39380371 original size:31 final size:31
Alignment explanation
Indices: 39380334--39380395 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
39380324 AGATAATTTT
*
39380334 AAAGAGTTTTATTAGGATTCGATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
39380365 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
39380396 TAATTTGCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.42
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:39386545 original size:32 final size:31
Alignment explanation
Indices: 39386503--39386596 Score: 179
Period size: 31 Copynumber: 3.0 Consensus size: 31
39386493 AGATAATTTT
39386503 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
39386534 AAAGAGTTTTTATTAGGATTCAATTACTCTTG
1 AAAGAG-TTTTATTAGGATTCAATTACTCTTG
39386566 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
39386597 TAATTTGCCT
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
31 31 0.50
32 31 0.50
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.43
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:39388318 original size:46 final size:46
Alignment explanation
Indices: 39388251--39388342 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
39388241 GTTATAAGAG
39388251 AAAGGCCACCGGTTGATAAGATCAGAAAACAAAGGGCTGAAGAATT
1 AAAGGCCACCGGTTGATAAGATCAGAAAACAAAGGGCTGAAGAATT
39388297 AAAGGCCACCGGTTGATAAGATCAGAAAACAAAGGGCTGAAGAATT
1 AAAGGCCACCGGTTGATAAGATCAGAAAACAAAGGGCTGAAGAATT
39388343 TTGGGCTACT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.43, C:0.15, G:0.26, T:0.15
Consensus pattern (46 bp):
AAAGGCCACCGGTTGATAAGATCAGAAAACAAAGGGCTGAAGAATT
Found at i:39393188 original size:50 final size:49
Alignment explanation
Indices: 39393108--39393348 Score: 214
Period size: 50 Copynumber: 4.9 Consensus size: 49
39393098 TAAGATTATA
*
39393108 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAAATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACC-AAATG
* * *
39393158 AGAGGTCGCAAGTAAGACCATGTCTAGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAA-ATG
* * * * *
39393208 AGTGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACC-AAATG
** * * * * * **
39393258 AGAACTCTCATGTAAGAACATATCTGGGATATGGCATTGGCAGTACAA-G
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCA-AATG
* ** * * * *
39393307 AAACATCTCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
39393349 TGTTATATTC
Statistics
Matches: 155, Mismatches: 33, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
49 37 0.24
50 117 0.75
51 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (49 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAATG
Found at i:39393273 original size:100 final size:100
Alignment explanation
Indices: 39393111--39393299 Score: 243
Period size: 100 Copynumber: 1.9 Consensus size: 100
39393101 GATTATAAGA
* * * ** *
39393111 GGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAAATGAGAGGTCGCAAGTAAGAC
1 GGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAAATGAGAACTCGCAAGTAAGAA
* *
39393176 CATGTCTAGGACATGGCGTTGGCACCAAGATGAGT
66 CATATCTAGGACATGGCATTGGCACCAAGATGAGT
* * * * *
39393211 GGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAACTCTCATGTAAGAA
1 GGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAAATGAGAACTCGCAAGTAAGAA
* *
39393276 CATATCTGGGATATGGCATTGGCA
66 CATATCTAGGACATGGCATTGGCA
39393300 GTACAAGAAA
Statistics
Matches: 74, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
100 74 1.00
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.23
Consensus pattern (100 bp):
GGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAAATGAGAACTCGCAAGTAAGAA
CATATCTAGGACATGGCATTGGCACCAAGATGAGT
Found at i:39393333 original size:49 final size:49
Alignment explanation
Indices: 39393218--39393338 Score: 138
Period size: 49 Copynumber: 2.4 Consensus size: 49
39393208 AGTGGTCCCC
* *
39393218 TGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAACTCTCA
1 TGTAAGA-CATGTCTGGGACATGGCATGGGCACCTACAAGAGAACTCTCA
* * * *
39393268 TGTAAGAACATATCTGGGATATGGCATTGGCA-GTACAAGA-AACATCTCA
1 TGTAAG-ACATGTCTGGGACATGGCATGGGCACCTACAAGAGAAC-TCTCA
39393317 TGTAAGACTATGTCTGGGACAT
1 TGTAAGAC-ATGTCTGGGACAT
39393339 AGCTTTGGCA
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
48 5 0.08
49 27 0.45
50 27 0.45
51 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (49 bp):
TGTAAGACATGTCTGGGACATGGCATGGGCACCTACAAGAGAACTCTCA
Found at i:39397138 original size:21 final size:21
Alignment explanation
Indices: 39397114--39397164 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
39397104 TGTTGAAAAG
*
39397114 GAAGTTGCTGCTGCAGAAGAA
1 GAAGTTGCTGCTGAAGAAGAA
**
39397135 GAAGTTATTGCTGAAGAAGAA
1 GAAGTTGCTGCTGAAGAAGAA
39397156 GAAGTTGCT
1 GAAGTTGCT
39397165 AAAGATGAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.35, C:0.10, G:0.31, T:0.24
Consensus pattern (21 bp):
GAAGTTGCTGCTGAAGAAGAA
Found at i:39397169 original size:18 final size:19
Alignment explanation
Indices: 39397128--39397169 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
39397118 TTGCTGCTGC
*
39397128 AGAAGAAGAAGTTATTGCTGA
1 AGAAGAAGAAG-T-TTGCTAA
39397149 AGAAGAAGAAG-TTGCTAA
1 AGAAGAAGAAGTTTGCTAA
39397167 AGA
1 AGA
39397170 TGAAAAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 9 0.45
21 11 0.55
ACGTcount: A:0.48, C:0.05, G:0.29, T:0.19
Consensus pattern (19 bp):
AGAAGAAGAAGTTTGCTAA
Done.