Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 127 of 230
Found at i:36985695 original size:8 final size:8
Alignment explanation
Indices: 36985682--36985707 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
36985672 AAAAATTTAG
36985682 AATAATAA
1 AATAATAA
36985690 AATAATAA
1 AATAATAA
36985698 AATAATAA
1 AATAATAA
36985706 AA
1 AA
36985708 GCTAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AATAATAA
Found at i:36986897 original size:20 final size:20
Alignment explanation
Indices: 36986874--36986914 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
36986864 TTTGAGTTAA
36986874 TAAATTATCTTTGGGTTTTC
1 TAAATTATCTTTGGGTTTTC
*
36986894 TAAATTCTCTTTGGGTTTTC
1 TAAATTATCTTTGGGTTTTC
36986914 T
1 T
36986915 TTTTTTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.17, C:0.12, G:0.15, T:0.56
Consensus pattern (20 bp):
TAAATTATCTTTGGGTTTTC
Found at i:36986941 original size:28 final size:28
Alignment explanation
Indices: 36986889--36986945 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
36986879 TATCTTTGGG
*
36986889 TTTTCTAAATTCTCTTTGGGTTTTCTTT
1 TTTTCTAAATTCTCTTTGAGTTTTCTTT
36986917 TTTTCTAAAATT-TCTCTTGAG-TTTCTTT
1 TTTTCT-AAATTCTCT-TTGAGTTTTCTTT
36986945 T
1 T
36986946 AGAAGAGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.14, C:0.14, G:0.09, T:0.63
Consensus pattern (28 bp):
TTTTCTAAATTCTCTTTGAGTTTTCTTT
Found at i:36989743 original size:15 final size:17
Alignment explanation
Indices: 36989713--36989744 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
36989703 CATTTCAAGA
36989713 CAAACACAACAAGTGAC
1 CAAACACAACAAGTGAC
36989730 CAAA-ACAA-AAGTGAC
1 CAAACACAACAAGTGAC
36989745 GCATAATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 4 0.27
17 4 0.27
ACGTcount: A:0.56, C:0.25, G:0.12, T:0.06
Consensus pattern (17 bp):
CAAACACAACAAGTGAC
Found at i:36993238 original size:13 final size:13
Alignment explanation
Indices: 36993222--36993249 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
36993212 TTATTCTATT
36993222 TTAATTATTTTAA
1 TTAATTATTTTAA
36993235 TTAATTATTTTAA
1 TTAATTATTTTAA
36993248 TT
1 TT
36993250 CTTTCATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTAATTATTTTAA
Found at i:36993633 original size:8 final size:8
Alignment explanation
Indices: 36993622--36993659 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
36993612 CAAAAGTGAA
36993622 AAAAATAG
1 AAAAATAG
36993630 AAAAATAG
1 AAAAATAG
36993638 AAAAATATG
1 AAAAATA-G
36993647 AAAAGA-AG
1 AAAA-ATAG
36993655 AAAAA
1 AAAAA
36993660 AAAAATTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 1 0.04
8 20 0.71
9 6 0.21
10 1 0.04
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (8 bp):
AAAAATAG
Found at i:36993643 original size:16 final size:17
Alignment explanation
Indices: 36993622--36993659 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
36993612 CAAAAGTGAA
36993622 AAAAATA-GAAAA-ATAG
1 AAAAATATGAAAAGA-AG
36993638 AAAAATATGAAAAGAAG
1 AAAAATATGAAAAGAAG
36993655 AAAAA
1 AAAAA
36993660 AAAAATTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.35
17 12 0.60
18 1 0.05
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (17 bp):
AAAAATATGAAAAGAAG
Found at i:36995372 original size:21 final size:21
Alignment explanation
Indices: 36995346--36995401 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
36995336 AACAGCAGTG
*
36995346 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
36995367 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
36995388 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
36995402 AACAATGATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.09, G:0.38, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:36996461 original size:11 final size:12
Alignment explanation
Indices: 36996432--36996464 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
36996422 TTCAGCTTGG
*
36996432 ATGCTGGTCTGC
1 ATGCTGGTTTGC
36996444 ATGCTGGTTTGC
1 ATGCTGGTTTGC
36996456 -TGCTGGTTT
1 ATGCTGGTTT
36996465 CTTGTTGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.06, C:0.18, G:0.33, T:0.42
Consensus pattern (12 bp):
ATGCTGGTTTGC
Found at i:37001436 original size:24 final size:24
Alignment explanation
Indices: 37001409--37001456 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
37001399 TTTATATACC
37001409 ACATTCTATCTTTCAATCTATTTT
1 ACATTCTATCTTTCAATCTATTTT
* *
37001433 ACATTCTATCTTTCCATTTATTTT
1 ACATTCTATCTTTCAATCTATTTT
37001457 CTTTATTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.23, C:0.21, G:0.00, T:0.56
Consensus pattern (24 bp):
ACATTCTATCTTTCAATCTATTTT
Found at i:37001440 original size:12 final size:13
Alignment explanation
Indices: 37001409--37001450 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 13
37001399 TTTATATACC
37001409 ACATTCTATCTTT
1 ACATTCTATCTTT
*
37001422 -CAATCTAT-TTT
1 ACATTCTATCTTT
37001433 ACATTCTATCTTT
1 ACATTCTATCTTT
*
37001446 CCATT
1 ACATT
37001451 TATTTTCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
11 3 0.12
12 14 0.58
13 7 0.29
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (13 bp):
ACATTCTATCTTT
Found at i:37001965 original size:18 final size:20
Alignment explanation
Indices: 37001920--37001991 Score: 76
Period size: 18 Copynumber: 3.6 Consensus size: 20
37001910 TCATCCCCAA
* *
37001920 TCTCTATTTCTTTTCTCTCAC
1 TCTCTTTTTCTTTT-TCACAC
*
37001941 ACTCTTTTTCTTTTTCA-A-
1 TCTCTTTTTCTTTTTCACAC
*
37001959 TCTCTTTTTCTTGTTCACAC
1 TCTCTTTTTCTTTTTCACAC
*
37001979 TCACTTTTTCTTT
1 TCTCTTTTTCTTT
37001992 CTTTTTCAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
18 15 0.36
19 2 0.05
20 13 0.31
21 12 0.29
ACGTcount: A:0.11, C:0.28, G:0.01, T:0.60
Consensus pattern (20 bp):
TCTCTTTTTCTTTTTCACAC
Found at i:37004066 original size:96 final size:96
Alignment explanation
Indices: 37003881--37004059 Score: 268
Period size: 96 Copynumber: 1.9 Consensus size: 96
37003871 AGAGGAGTAC
* * *
37003881 GATTGATCTCTCACCTATTGTGAAATGTTATTGGTGTAGTTCAAAAGATCATGAGGGTTTCCAAT
1 GATTGAGCTATCACCTATTGTGAAATGTTATTGGTGTAGTTCAAAAGATCATAAGGGTTTCCAAT
*
37003946 GTCCAATTAAATATCTAAATAGAGAGAATAA
66 GTCCAATTAAATATCCAAATAGAGAGAATAA
* * *
37003977 GATTGAGCTATCACCTTTTGTGTAATGTTATTGGTGTAGTTCAAAAGATCATAAGGGTTTTCAAT
1 GATTGAGCTATCACCTATTGTGAAATGTTATTGGTGTAGTTCAAAAGATCATAAGGGTTTCCAAT
** *
37004042 GTGTAATTAAATTTCCAA
66 GTCCAATTAAATATCCAA
37004060 CAAGAGAAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 73 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (96 bp):
GATTGAGCTATCACCTATTGTGAAATGTTATTGGTGTAGTTCAAAAGATCATAAGGGTTTCCAAT
GTCCAATTAAATATCCAAATAGAGAGAATAA
Found at i:37005093 original size:23 final size:24
Alignment explanation
Indices: 37005067--37005115 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
37005057 TTAAAACACC
37005067 TTCTAAAAG-AAACTC-AAGAGTAA
1 TTCTAAAAGAAAACTCAAAGAG-AA
**
37005090 TTCTTGAAGAAAACTCAAAGAGAA
1 TTCTAAAAGAAAACTCAAAGAGAA
37005114 TT
1 TT
37005116 ATTATTAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 7 0.32
24 10 0.45
25 5 0.23
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.24
Consensus pattern (24 bp):
TTCTAAAAGAAAACTCAAAGAGAA
Found at i:37007081 original size:19 final size:19
Alignment explanation
Indices: 37007057--37007098 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
37007047 TTGACAATGT
37007057 GGCCTAGAACATCTTATTG
1 GGCCTAGAACATCTTATTG
37007076 GGCCTAGAACATCTTATTG
1 GGCCTAGAACATCTTATTG
37007095 GGCC
1 GGCC
37007099 GTTTCTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (19 bp):
GGCCTAGAACATCTTATTG
Found at i:37020886 original size:20 final size:20
Alignment explanation
Indices: 37020856--37020908 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
37020846 TTGAAAAGAA
37020856 AACTC-AAAGAGAATTTATT
1 AACTCAAAAGAGAATTTATT
37020875 AACTCAAAAGAGAATTTATT
1 AACTCAAAAGAGAATTTATT
*
37020895 AACTCAAAAAAGAA
1 AACTCAAAAGAGAA
37020909 GTTGAATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 5 0.16
20 27 0.84
ACGTcount: A:0.55, C:0.11, G:0.09, T:0.25
Consensus pattern (20 bp):
AACTCAAAAGAGAATTTATT
Found at i:37022935 original size:96 final size:96
Alignment explanation
Indices: 37022835--37023010 Score: 298
Period size: 96 Copynumber: 1.8 Consensus size: 96
37022825 TCTTTTCTCG
* ** *
37022835 TTGGATATTTAATTGGACATTGGAAACACTTATGATCTTTTGAACTACATTAGTAACATTGCACA
1 TTGGATATTTAATTGGACATTGGAAACACTTATGATCTTCTGAACTACACCAATAACATTGCACA
*
37022900 AAAGGTGATAGCTCAATCGTATTCTCTCTTT
66 AAAGGTGATAACTCAATCGTATTCTCTCTTT
*
37022931 TTGGATATTTAATTGGACATTGGAAACTCTTATGATCTTCTGAACTACACCAATAACATTGCACA
1 TTGGATATTTAATTGGACATTGGAAACACTTATGATCTTCTGAACTACACCAATAACATTGCACA
37022996 AAAGGTGATAACTCA
66 AAAGGTGATAACTCA
37023011 TAGTCATTAG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
96 74 1.00
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (96 bp):
TTGGATATTTAATTGGACATTGGAAACACTTATGATCTTCTGAACTACACCAATAACATTGCACA
AAAGGTGATAACTCAATCGTATTCTCTCTTT
Found at i:37027030 original size:20 final size:18
Alignment explanation
Indices: 37027007--37027047 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
37026997 AAAGAGTTTG
37027007 AGAATAAAAAAATGTGAAAA
1 AGAA-AAAAAAAT-TGAAAA
*
37027027 AGAAAAGAAAATTGAAAA
1 AGAAAAAAAAATTGAAAA
37027045 AGA
1 AGA
37027048 GATTGAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 7 0.35
20 4 0.20
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (18 bp):
AGAAAAAAAAATTGAAAA
Found at i:37029759 original size:26 final size:26
Alignment explanation
Indices: 37029730--37029789 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
37029720 TTGGCCAAAT
*
37029730 ATACTATTACTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAACTTTGCTGCG
* * *
37029756 ATACTGTTGCTGGCAACTTTGTTGCG
1 ATACTATTACTGGCAACTTTGCTGCG
*
37029782 ATGCTATT
1 ATACTATT
37029790 GATGGCTTTG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.38
Consensus pattern (26 bp):
ATACTATTACTGGCAACTTTGCTGCG
Found at i:37029846 original size:32 final size:32
Alignment explanation
Indices: 37029789--37029973 Score: 181
Period size: 32 Copynumber: 5.8 Consensus size: 32
37029779 GCGATGCTAT
* * * *
37029789 TGATGGCTTTGTGCCGTTCAAATTACCATTAG
1 TGATGGCTATGTGCCGATCATATTACCATTAC
*
37029821 TGATGGCTATGTGTCGATCATATTACCATTAC
1 TGATGGCTATGTGCCGATCATATTACCATTAC
* * *
37029853 TGATGGCTATGTACCGATCATATTACAACTAC
1 TGATGGCTATGTGCCGATCATATTACCATTAC
* * ** * *
37029885 TGATGGCTTTGTGTCGGCCATACTACTATTAC
1 TGATGGCTATGTGCCGATCATATTACCATTAC
* * * *
37029917 TAATGGCTGTGTGCCGATCATATTACTACTAC
1 TGATGGCTATGTGCCGATCATATTACCATTAC
* * *
37029949 TAATGGCTTTGTGCCAATCATATTA
1 TGATGGCTATGTGCCGATCATATTA
37029974 TTGTACTTAT
Statistics
Matches: 127, Mismatches: 26, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 127 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (32 bp):
TGATGGCTATGTGCCGATCATATTACCATTAC
Found at i:37029892 original size:64 final size:64
Alignment explanation
Indices: 37029789--37029973 Score: 208
Period size: 64 Copynumber: 2.9 Consensus size: 64
37029779 GCGATGCTAT
* * * * * * *
37029789 TGATGGCTTTGTGCCGTTCAAATTACCATTAGTGATGGCTATGTGTCGATCATATTACCATTAC
1 TGATGGCTATGTGCCGATCATATTACAACTACTGATGGCTTTGTGTCGATCATATTACCATTAC
* ** * *
37029853 TGATGGCTATGTACCGATCATATTACAACTACTGATGGCTTTGTGTCGGCCATACTACTATTAC
1 TGATGGCTATGTGCCGATCATATTACAACTACTGATGGCTTTGTGTCGATCATATTACCATTAC
* * * * * *
37029917 TAATGGCTGTGTGCCGATCATATTACTACTACTAATGGCTTTGTGCCAATCATATTA
1 TGATGGCTATGTGCCGATCATATTACAACTACTGATGGCTTTGTGTCGATCATATTA
37029974 TTGTACTTAT
Statistics
Matches: 99, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
64 99 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (64 bp):
TGATGGCTATGTGCCGATCATATTACAACTACTGATGGCTTTGTGTCGATCATATTACCATTAC
Found at i:37032937 original size:19 final size:19
Alignment explanation
Indices: 37032910--37033002 Score: 72
Period size: 19 Copynumber: 5.1 Consensus size: 19
37032900 TTATTCCAGC
*
37032910 AACTAAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
37032929 AACTTAATTAACTAAGATTTG
1 AACTTAATTAACTAAGA--TG
* * *
37032950 TAA-TTTATT--C-CAG--C
1 -AACTTAATTAACTAAGATG
37032964 AACTTAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
*
37032983 AACTCAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
37033002 A
1 A
37033003 GTAATTTATT
Statistics
Matches: 57, Mismatches: 8, Indels: 18
0.69 0.10 0.22
Matches are distributed among these distances:
13 2 0.04
14 5 0.09
16 1 0.02
17 2 0.04
18 2 0.04
19 36 0.63
21 7 0.12
22 2 0.04
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (19 bp):
AACTTAATTAACTAAGATG
Found at i:37032982 original size:54 final size:54
Alignment explanation
Indices: 37032900--37033024 Score: 205
Period size: 54 Copynumber: 2.3 Consensus size: 54
37032890 CAACAATAAA
* * **
37032900 TTATTCCAGCAACTAAATTAACTAAGATGAACTTAATTAACTAAGATTTGTAAT
1 TTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
37032954 TTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
1 TTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
*
37033008 TTATTCCAGCAAATTAA
1 TTATTCCAGCAACTTAA
37033025 AAATGTGTTG
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (54 bp):
TTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
Found at i:37033327 original size:20 final size:20
Alignment explanation
Indices: 37033297--37033334 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
37033287 GGCATTACCT
37033297 TTTCATGATGG-ATCAAAAA
1 TTTCATGATGGCATCAAAAA
37033316 TTTCATTGATGGCATCAAA
1 TTTCA-TGATGGCATCAAA
37033335 TCAGAATCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (20 bp):
TTTCATGATGGCATCAAAAA
Found at i:37034547 original size:18 final size:18
Alignment explanation
Indices: 37034524--37034570 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
37034514 TATCTTACTA
*
37034524 TCTTTTTCTTTTTCACTT
1 TCTTTTTCTTTTTCAATT
37034542 TCTTTTTCTTTTTCAATT
1 TCTTTTTCTTTTTCAATT
*
37034560 GCTTTTTCTTT
1 TCTTTTTCTTT
37034571 CTTTTCTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.06, C:0.19, G:0.02, T:0.72
Consensus pattern (18 bp):
TCTTTTTCTTTTTCAATT
Found at i:37034553 original size:5 final size:6
Alignment explanation
Indices: 37034524--37034590 Score: 55
Period size: 6 Copynumber: 11.0 Consensus size: 6
37034514 TATCTTACTA
** ** *
37034524 TCTTTT TCTTTT TCACTT TCTTTT TCTTTT TCAATT GCTTTT TCTTTCT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTT-T
*
37034573 TTTCTTT TCTTTT T-TTTT
1 TCT-TTT TCTTTT TCTTTT
37034591 CACTAAATTT
Statistics
Matches: 47, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
5 4 0.09
6 35 0.74
7 6 0.13
8 2 0.04
ACGTcount: A:0.04, C:0.18, G:0.01, T:0.76
Consensus pattern (6 bp):
TCTTTT
Found at i:37038771 original size:17 final size:16
Alignment explanation
Indices: 37038733--37038774 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
37038723 TTTTTCTTTC
37038733 TCTTTTCTTTCAAGCTT
1 TCTTTTCTTTCAA-CTT
37038750 TCTTTTGCTTTCAA-TT
1 TCTTTT-CTTTCAACTT
37038766 TACTTTTCT
1 T-CTTTTCT
37038775 CTCATTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 5 0.22
17 11 0.48
18 7 0.30
ACGTcount: A:0.12, C:0.21, G:0.05, T:0.62
Consensus pattern (16 bp):
TCTTTTCTTTCAACTT
Found at i:37051275 original size:18 final size:18
Alignment explanation
Indices: 37051254--37051288 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
37051244 TTTTTCTTTT
37051254 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
37051272 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
37051289 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:37054481 original size:34 final size:34
Alignment explanation
Indices: 37054443--37054512 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
37054433 AAGTTTCCAA
37054443 AAGTCCTCTACAAAGTAAAAATTCAGCTATTTAT
1 AAGTCCTCTACAAAGTAAAAATTCAGCTATTTAT
37054477 AAGTCCTCTACAAAGTAAAAATTCAGCTATTTAT
1 AAGTCCTCTACAAAGTAAAAATTCAGCTATTTAT
37054511 AA
1 AA
37054513 TAATCTCCTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (34 bp):
AAGTCCTCTACAAAGTAAAAATTCAGCTATTTAT
Found at i:37060307 original size:12 final size:12
Alignment explanation
Indices: 37060276--37060308 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
37060266 ACGAGATTGT
37060276 AAAAAAAA-TTC
1 AAAAAAAATTTC
*
37060287 AAAAAAAATTTG
1 AAAAAAAATTTC
37060299 AAAAAAAATT
1 AAAAAAAATT
37060309 AATTATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 8 0.40
12 12 0.60
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.21
Consensus pattern (12 bp):
AAAAAAAATTTC
Found at i:37061336 original size:30 final size:29
Alignment explanation
Indices: 37061280--37061344 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 29
37061270 ATAGCATGTG
*
37061280 AAAAAGAAAAAGAAGATGAGTGTGAG-AT
1 AAAAAGAAAAAGAAAATGAGTGTGAGAAT
*
37061308 AGAAAAGAAAATTGAAAATGAGAT-TGAGAAT
1 A-AAAAGAAAA-AGAAAATGAG-TGTGAGAAT
37061339 AAAAAG
1 AAAAAG
37061345 GAGTGTGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
28 1 0.03
29 9 0.29
30 17 0.55
31 4 0.13
ACGTcount: A:0.60, C:0.00, G:0.25, T:0.15
Consensus pattern (29 bp):
AAAAAGAAAAAGAAAATGAGTGTGAGAAT
Found at i:37061401 original size:18 final size:17
Alignment explanation
Indices: 37061349--37061418 Score: 59
Period size: 18 Copynumber: 3.9 Consensus size: 17
37061339 AAAAAGGAGT
* *
37061349 GTGAAAAAGAAAAGAAAA
1 GTGAAAAAGAAATG-AGA
* *
37061367 CTGAAAAAGAGAGTGAGA
1 GTGAAAAAGA-AATGAGA
*
37061385 TTGAAGAAAGAAATGAGA
1 GTGAA-AAAGAAATGAGA
*
37061403 GTGCAAAAGAAATGAG
1 GTGAAAAAGAAATGAG
37061419 TGATATGATA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
17 11 0.26
18 24 0.57
19 7 0.17
ACGTcount: A:0.57, C:0.03, G:0.29, T:0.11
Consensus pattern (17 bp):
GTGAAAAAGAAATGAGA
Found at i:37066461 original size:10 final size:10
Alignment explanation
Indices: 37066445--37066502 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
37066435 CAACTCCGAC
37066445 CAGCTCAATT
1 CAGCTCAATT
* *
37066455 GAGCTCATTT
1 CAGCTCAATT
37066465 CAGCTCAA-T
1 CAGCTCAATT
37066474 CGAGCTCAATT
1 C-AGCTCAATT
*
37066485 TAGCTACAATT
1 CAGCT-CAATT
37066496 CAGCTCA
1 CAGCTCA
37066503 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:37066468 original size:20 final size:20
Alignment explanation
Indices: 37066445--37066505 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
37066435 CAACTCCGAC
37066445 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
37066465 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
37066486 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
37066506 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:37068854 original size:37 final size:37
Alignment explanation
Indices: 37068804--37068883 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
37068794 CTTATTACGA
* *
37068804 AGTCTTACCCGGACATAA-TCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATTC-CCACACGAAGTCATCG
*
37068841 AGTCTTACCCGGACAAAATTCCCACACGCAGTCATCG
1 AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
*
37068878 GGTCTT
1 AGTCTT
37068884 TAGAGCCCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
Found at i:37069073 original size:47 final size:47
Alignment explanation
Indices: 37069014--37069485 Score: 722
Period size: 47 Copynumber: 10.2 Consensus size: 47
37069004 TATCACATTT
* * *
37069014 ATACAC-T-TTCACATTCATCACATCGGCCATTAGGCCTTATCTCAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
37069059 ATACACATGCTCACATTTATCACATTGGCCACTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
*
37069106 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTGTCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
37069153 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCTTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
37069200 ATATACATGTTCACTTTCATCACATTGGCCATTCGGTCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
*
37069247 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
*
37069294 AT----ATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
*
37069337 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* *
37069384 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCAT
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
**
37069431 ATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
37069478 ATACACAT
1 ATACACAT
37069486 ATACTATCAT
Statistics
Matches: 394, Mismatches: 27, Indels: 10
0.91 0.06 0.02
Matches are distributed among these distances:
43 43 0.11
45 6 0.02
46 1 0.00
47 344 0.87
ACGTcount: A:0.26, C:0.31, G:0.11, T:0.32
Consensus pattern (47 bp):
ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
Found at i:37069176 original size:25 final size:25
Alignment explanation
Indices: 37069147--37069223 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
37069137 TTCGGCCTTG
37069147 TCACACATATACATGTTCACTTTCA
1 TCACACATATACATGTTCACTTTCA
* *** *
37069172 TCACA-TTGGCCA--TTCGGCTTT-A
1 TCACACATATACATGTTC-ACTTTCA
37069194 TCACACATATACATGTTCACTTTCA
1 TCACACATATACATGTTCACTTTCA
37069219 TCACA
1 TCACA
37069224 TTGGCCATTC
Statistics
Matches: 37, Mismatches: 10, Indels: 10
0.65 0.18 0.18
Matches are distributed among these distances:
22 9 0.24
23 7 0.19
24 7 0.19
25 14 0.38
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.35
Consensus pattern (25 bp):
TCACACATATACATGTTCACTTTCA
Found at i:37069177 original size:23 final size:23
Alignment explanation
Indices: 37069150--37069224 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
37069140 GGCCTTGTCA
37069150 CACATATACATGTTCACTTTCAT
1 CACATATACATGTTCACTTTCAT
* *
37069173 CACAT-TGGCCA--TTCGGCTTT-AT
1 CACATAT--ACATGTTC-ACTTTCAT
37069195 CACACATATACATGTTCACTTTCAT
1 --CACATATACATGTTCACTTTCAT
37069220 CACAT
1 CACAT
37069225 TGGCCATTCG
Statistics
Matches: 39, Mismatches: 4, Indels: 18
0.64 0.07 0.30
Matches are distributed among these distances:
22 6 0.15
23 16 0.41
24 11 0.28
25 6 0.15
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.36
Consensus pattern (23 bp):
CACATATACATGTTCACTTTCAT
Found at i:37069366 original size:184 final size:184
Alignment explanation
Indices: 37069002--37069480 Score: 728
Period size: 184 Copynumber: 2.6 Consensus size: 184
37068992 CCCTTCGGGA
** * *
37069002 CTTATCACATTTATACACT-TTCACATTCATCACATCGGCCATTAGGCCTTATCTCACATACACA
1 CTTATCACACATATACA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCACATACACA
* *
37069066 TGCTCACATTT-ATCACATTGGCCACTCGGCCTTATCACACATACACATGTTCACATTCATCACA
65 TGTTCAC-TTTCATCACATTGGCCATTCGGCCTTATCACACAT----ATGTTCACATTCATCACA
* *
37069130 TTGGCCATTCGGCCTTGTCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
125 TTGGCCATTCGGCCTTATCACACATACACATGTTCACTTTCATCACATTGGCCATTCGGC
* * * *
37069190 TTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGTCTTATCACACATACACAT
1 CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCACATACACAT
*
37069255 GTTCACTTTCATCACATTGGCCATTCGGCCTTATCACACATATGTTCACTTTCATCACATTGGCC
66 GTTCACTTTCATCACATTGGCCATTCGGCCTTATCACACATATGTTCACATTCATCACATTGGCC
37069320 ATTCGGCCTTATCACACATACACATGTTCACTTTCATCACATTGGCCATTCGGC
131 ATTCGGCCTTATCACACATACACATGTTCACTTTCATCACATTGGCCATTCGGC
* * **
37069374 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCAT
1 CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCACATACACAT
*
37069439 GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATA
66 GTTCACTTTCATCACATTGGCCATTCGGCCTTATCACACATA
37069481 CACATATACT
Statistics
Matches: 267, Mismatches: 22, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
184 173 0.65
187 4 0.01
188 90 0.34
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (184 bp):
CTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCACATACACAT
GTTCACTTTCATCACATTGGCCATTCGGCCTTATCACACATATGTTCACATTCATCACATTGGCC
ATTCGGCCTTATCACACATACACATGTTCACTTTCATCACATTGGCCATTCGGC
Found at i:37069409 original size:231 final size:232
Alignment explanation
Indices: 37069014--37069485 Score: 736
Period size: 231 Copynumber: 2.0 Consensus size: 232
37069004 TATCACATTT
37069014 ATACAC-TTTCACATTCATCACATCGGCCATTAGGCCTTATCTCACATACACATGCTCACATTTA
1 ATACACATTTCACATTCATCACATCGGCCATTAGGCCTTA-CTCACA-ACACATGCTCACATTTA
37069078 TCACATTGGCCACTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
64 TCACATTGGCCACTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
* * * *
37069143 CTTGTCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCTTTATCACACATATACAT
129 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACAT
* *
37069208 GTTCACTTTCATCACATTGGCCATTCGGTCTTATCACAC
194 GTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* * * * *
37069247 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTA-TCAC-ACATATGTTCAC-TTTCA
1 ATACACAT-TTCACATTCATCACATCGGCCATTAGGCCTTACTCACAACACATGCTCACATTT-A
* *
37069309 TCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACTTTCATCACATTGGCCATTCGGC
64 TCACATTGGCCACTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
37069374 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCAT
129 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACAT
37069439 GTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
194 GTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
37069478 ATACACAT
1 ATACACAT
37069486 ATACTATCAT
Statistics
Matches: 220, Mismatches: 16, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
230 3 0.01
231 177 0.80
233 10 0.05
234 1 0.00
235 29 0.13
ACGTcount: A:0.26, C:0.31, G:0.11, T:0.32
Consensus pattern (232 bp):
ATACACATTTCACATTCATCACATCGGCCATTAGGCCTTACTCACAACACATGCTCACATTTATC
ACATTGGCCACTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCT
TATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATGT
TCACATTCATCACATTGGCCATTCGGCCTTATCACAC
Found at i:37073809 original size:40 final size:40
Alignment explanation
Indices: 37073752--37074213 Score: 800
Period size: 40 Copynumber: 11.6 Consensus size: 40
37073742 CCAGCATGAT
* * * *
37073752 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
37073792 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
37073832 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
37073872 TGCTCTTCGGAACTTAG-CCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
37073911 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
37073951 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* *
37073991 TGCTCTTCGGATCTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* * *
37074031 TGCTCTTCGGACCTTAGTCCGAATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
37074071 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* *
37074111 TGCTCTTCGGAACTTAGTCCGGATACATCACTTGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
37074151 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
37074191 TGCTCTTCGGAACTTAGCCCGGA
1 TGCTCTTCGGAACTTAGCCCGGA
37074214 CATCATTCGA
Statistics
Matches: 403, Mismatches: 18, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
39 39 0.10
40 364 0.90
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
Found at i:37076060 original size:37 final size:37
Alignment explanation
Indices: 37076010--37076089 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
37076000 CTTATTACGA
* *
37076010 AGTCTTACCCGGACATAA-TCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATTC-CCACACGAAGTCATCG
*
37076047 AGTCTTACCCGGACAAAATTCCCACACGCAGTCATCG
1 AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
*
37076084 GGTCTT
1 AGTCTT
37076090 TAGAGCCCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
Found at i:37076279 original size:47 final size:47
Alignment explanation
Indices: 37076220--37076680 Score: 490
Period size: 47 Copynumber: 10.2 Consensus size: 47
37076210 TATCACATTT
* * *
37076220 ATACAC-T-TTCACATTCATCACATCGGCCATTAGGCCTTATCTCAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
37076265 ATACACATGCTCACATTTATCACATTGGCCACTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
*
37076312 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTGTCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
37076359 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCTTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
37076406 ATATACATGTTCACTTTCATCACATTGGCCATTCGGTCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* **
37076453 ATACACATGTTCACTTTCATCACATTGG-CATT---CC--ATCATTC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* ** ** ** * * *
37076494 ATTCATTTCATCACATT-GGC-CATTCGGCC-TT----ATCA-CACAT
1 ATACACATGTTCACATTCATCACATT-GGCCATTCGGCCTTATCACAC
* * *
37076534 ACACAT--GTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* *
37076579 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCAT
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
**
37076626 ATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
37076673 ATACACAT
1 ATACACAT
37076681 ATACTATCAT
Statistics
Matches: 347, Mismatches: 53, Indels: 30
0.81 0.12 0.07
Matches are distributed among these distances:
38 6 0.02
39 9 0.03
40 17 0.05
41 18 0.05
43 1 0.00
44 2 0.01
45 14 0.04
46 5 0.01
47 275 0.79
ACGTcount: A:0.26, C:0.31, G:0.10, T:0.33
Consensus pattern (47 bp):
ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
Found at i:37076381 original size:94 final size:94
Alignment explanation
Indices: 37076220--37076680 Score: 616
Period size: 94 Copynumber: 5.1 Consensus size: 94
37076210 TATCACATTT
* * * * *
37076220 ATACAC-T-TTCACATTCATCACATCGGCCATTAGGCCTTATCTCACATACACATGCTCACATTT
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATGTTCAC-TTT
*
37076283 -ATCACATTGGCCACTCGGCCTTATCACAC
65 CATCACATTGGCCATTCGGCCTTATCACAC
*
37076312 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTGTCACACATATACATGTTCACTTTC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATGTTCACTTTC
*
37076377 ATCACATTGGCCATTCGGCTTTATCACAC
66 ATCACATTGGCCATTCGGCCTTATCACAC
* * * *
37076406 ATATACATGTTCACTTTCATCACATTGGCCATTCGGTCTTATCACACATACACATGTTCACTTTC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATGTTCACTTTC
37076471 ATCACATTGG-CATT---CC--AT----C
66 ATCACATTGGCCATTCGGCCTTATCACAC
* * *
37076490 AT--TCA--TTCA-TTTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACTTTC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATGTTCACTTTC
37076550 ATCACATTGGCCATTCGGCCTTATCACAC
66 ATCACATTGGCCATTCGGCCTTATCACAC
* * * *
37076579 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATGTTCACTTTC
37076644 ATCACATTGGCCATTCGGCCTTATCACAC
66 ATCACATTGGCCATTCGGCCTTATCACAC
37076673 ATACACAT
1 ATACACAT
37076681 ATACTATCAT
Statistics
Matches: 328, Mismatches: 23, Indels: 34
0.85 0.06 0.09
Matches are distributed among these distances:
79 60 0.18
80 8 0.02
82 2 0.01
83 2 0.01
84 3 0.01
85 2 0.01
88 2 0.01
89 3 0.01
90 1 0.00
91 2 0.01
92 6 0.02
93 12 0.04
94 225 0.69
ACGTcount: A:0.26, C:0.31, G:0.10, T:0.33
Consensus pattern (94 bp):
ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATGTTCACTTTC
ATCACATTGGCCATTCGGCCTTATCACAC
Found at i:37076382 original size:25 final size:25
Alignment explanation
Indices: 37076353--37076429 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
37076343 TTCGGCCTTG
37076353 TCACACATATACATGTTCACTTTCA
1 TCACACATATACATGTTCACTTTCA
* *** *
37076378 TCACA-TTGGCCA--TTCGGCTTT-A
1 TCACACATATACATGTTC-ACTTTCA
37076400 TCACACATATACATGTTCACTTTCA
1 TCACACATATACATGTTCACTTTCA
37076425 TCACA
1 TCACA
37076430 TTGGCCATTC
Statistics
Matches: 37, Mismatches: 10, Indels: 10
0.65 0.18 0.18
Matches are distributed among these distances:
22 9 0.24
23 7 0.19
24 7 0.19
25 14 0.38
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.35
Consensus pattern (25 bp):
TCACACATATACATGTTCACTTTCA
Found at i:37076383 original size:23 final size:23
Alignment explanation
Indices: 37076356--37076430 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
37076346 GGCCTTGTCA
37076356 CACATATACATGTTCACTTTCAT
1 CACATATACATGTTCACTTTCAT
* *
37076379 CACAT-TGGCCA--TTCGGCTTT-AT
1 CACATAT--ACATGTTC-ACTTTCAT
37076401 CACACATATACATGTTCACTTTCAT
1 --CACATATACATGTTCACTTTCAT
37076426 CACAT
1 CACAT
37076431 TGGCCATTCG
Statistics
Matches: 39, Mismatches: 4, Indels: 18
0.64 0.07 0.30
Matches are distributed among these distances:
22 6 0.15
23 16 0.41
24 11 0.28
25 6 0.15
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.36
Consensus pattern (23 bp):
CACATATACATGTTCACTTTCAT
Found at i:37076524 original size:173 final size:174
Alignment explanation
Indices: 37076327--37076659 Score: 560
Period size: 173 Copynumber: 1.9 Consensus size: 174
37076317 CATGTTCACA
* *
37076327 TTCATCACATTGGCCATTCGGCCTTGTCACACATATACATGTTCACTTTCATCACATTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACTTTCATCACATTGGCCATT
* * * *
37076392 CGGCTTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGTCTTATCACACATAC
66 CGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAC
*
37076457 ACATGTTCACTTTCATCACATTGG-CATTCCATCATTCATTCAT
131 ACATGTTCACATTCATCACATTGGCCATTCCATCATTCATTCAT
37076500 TTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACTTTCATCACATTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACTTTCATCACATTGGCCATT
* * *
37076565 CGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATAT
66 CGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAC
*
37076630 GCATGTTCACATTCATCACATTGGCCATTC
131 ACATGTTCACATTCATCACATTGGCCATTC
37076660 GGCCTTATCA
Statistics
Matches: 148, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
173 143 0.97
174 5 0.03
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.35
Consensus pattern (174 bp):
TTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACTTTCATCACATTGGCCATT
CGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAC
ACATGTTCACATTCATCACATTGGCCATTCCATCATTCATTCAT
Found at i:37076551 original size:79 final size:81
Alignment explanation
Indices: 37076415--37076565 Score: 279
Period size: 79 Copynumber: 1.9 Consensus size: 81
37076405 CATATACATG
*
37076415 TTCACTTTCATCACATTGGCCATTCGGTCTTATCACACATACACATGTTCACTTTCATCACATTG
1 TTCACTTTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACTTTCATCACATTG
37076480 G-CATTCCATCATTCA
66 GCCATTCCATCATTCA
37076495 TTCA-TTTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACTTTCATCACATTG
1 TTCACTTTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACTTTCATCACATTG
37076559 GCCATTC
66 GCCATTC
37076566 GGCCTTATCA
Statistics
Matches: 69, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
79 60 0.87
80 9 0.13
ACGTcount: A:0.25, C:0.30, G:0.09, T:0.36
Consensus pattern (81 bp):
TTCACTTTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACTTTCATCACATTG
GCCATTCCATCATTCA
Found at i:37076669 original size:220 final size:219
Alignment explanation
Indices: 37076278--37076680 Score: 698
Period size: 220 Copynumber: 1.8 Consensus size: 219
37076268 CACATGCTCA
37076278 CATTTATCACATTGGCCACTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCA
1 CATTTATCACATTGGCCACTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCA
* * * *
37076343 TTCGGCCTTGTCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCTTTATCACACAT
66 TTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
* *
37076408 ATACATGTTCACTTTCATCACATTGGCCATTCGGTCTTATCACACATACACATGTTCACTTTCAT
131 ATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACTTTCAT
37076473 CACATTGGCATTCCATCATTCATT
196 CACATTGGCATTCCATCATTCATT
* *
37076497 CATTTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACTTTCATCACATTGGCC
1 CATTT-ATCACATTGGCCACTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCC
* *
37076562 ATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATA
65 ATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
*
37076627 TATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACAT
130 TATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACAT
37076681 ATACTATCAT
Statistics
Matches: 172, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
219 5 0.03
220 167 0.97
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (219 bp):
CATTTATCACATTGGCCACTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCA
TTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAT
ATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACTTTCAT
CACATTGGCATTCCATCATTCATT
Found at i:37080269 original size:11 final size:12
Alignment explanation
Indices: 37080246--37080270 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37080236 AAAAGAGAAG
37080246 AAATTCAAAAAA
1 AAATTCAAAAAA
37080258 AAATTCAAAAAA
1 AAATTCAAAAAA
37080270 A
1 A
37080271 TGAAAAAAAG
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:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (12 bp):
AAATTCAAAAAA
Found at i:37081357 original size:21 final size:21
Alignment explanation
Indices: 37081331--37081393 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 21
37081321 AAAGAGATTG
37081331 AAAAAGAAATTGAAAGAAAAC
1 AAAAAGAAATTGAAAGAAAAC
** *
37081352 AAAAAGAAAACGAAA-AAAAG
1 AAAAAGAAATTGAAAGAAAAC
37081372 AAAAAGAAATTGCAAAAGAAAA
1 AAAAAGAAATTG--AAAGAAAA
37081394 AGAAATCAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 14 0.41
21 13 0.38
22 3 0.09
23 4 0.12
ACGTcount: A:0.75, C:0.05, G:0.14, T:0.06
Consensus pattern (21 bp):
AAAAAGAAATTGAAAGAAAAC
Found at i:37081458 original size:18 final size:18
Alignment explanation
Indices: 37081437--37081471 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
37081427 AGAAAAGAAA
37081437 ATTGA-AAAAGAAATTGAG
1 ATTGAGAAAA-AAATTGAG
37081455 ATTGAGAAAAAAATTGA
1 ATTGAGAAAAAAATTGA
37081472 AAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAGAAAAAAATTGAG
Found at i:37083550 original size:21 final size:20
Alignment explanation
Indices: 37083524--37083585 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 20
37083514 CAACTCCGAC
37083524 CAGCTCAATTTGAGCTCATTT
1 CAGCTCAA-TTGAGCTCATTT
*
37083545 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
37083566 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
37083586 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
20 15 0.42
21 21 0.58
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.34
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:37083580 original size:11 final size:10
Alignment explanation
Indices: 37083524--37083582 Score: 57
Period size: 10 Copynumber: 5.7 Consensus size: 10
37083514 CAACTCCGAC
37083524 CAGCTCAATTT
1 CAGCTCAA-TT
* *
37083535 GAGCTCATTT
1 CAGCTCAATT
37083545 CAGCTCAA-T
1 CAGCTCAATT
37083554 CGAGCTCAATT
1 C-AGCTCAATT
*
37083565 TAGCTACAATT
1 CAGCT-CAATT
37083576 CAGCTCA
1 CAGCTCA
37083583 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
9 2 0.05
10 21 0.54
11 16 0.41
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.31
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:37095893 original size:40 final size:40
Alignment explanation
Indices: 37095856--37096080 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
37095846 GCTACTCGTT
* *
37095856 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
37095896 CAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
37095936 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * * *
37095976 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
37096015 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
37096056 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
37096081 CATCATTCGA
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 116 0.72
41 12 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:37096040 original size:119 final size:120
Alignment explanation
Indices: 37095858--37096080 Score: 283
Period size: 119 Copynumber: 1.9 Consensus size: 120
37095848 TACTCGTTCA
* * *
37095858 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTTGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTTCGGACTTAACCCGGAT
* *
37095923 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
37095978 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCACACAAATGCC-TTCGGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCACACAAATGCCTTTCGGA-CTTAACCCGG
* * *
37096040 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
37096081 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 6 0.07
119 62 0.70
120 20 0.23
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTTCGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:37097276 original size:56 final size:56
Alignment explanation
Indices: 37097209--37097328 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
37097199 TATTAGTTTA
37097209 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
37097265 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
37097321 TTGCCCAT
1 TTGCCCAT
37097329 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:37102314 original size:16 final size:16
Alignment explanation
Indices: 37102295--37102326 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37102285 TAATGTGTTT
37102295 TGCTGCTGATGTTTAA
1 TGCTGCTGATGTTTAA
*
37102311 TGCTGCTGTTGTTTAA
1 TGCTGCTGATGTTTAA
37102327 ATGCAGAATG
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:0.16, C:0.12, G:0.25, T:0.47
Consensus pattern (16 bp):
TGCTGCTGATGTTTAA
Found at i:37102648 original size:72 final size:73
Alignment explanation
Indices: 37102513--37102660 Score: 192
Period size: 72 Copynumber: 2.0 Consensus size: 73
37102503 GCAGGTACAT
* * *
37102513 GGACGGCATTTAAAGAAAAGGTGGCTGCTGCATTTTTCCAAAGCTGCCGAATTTATTGAGTGCAT
1 GGACGGCATTTAAAGAAAAGGTGGCTGCTGCATTTTTCCAAACCAGCCGAATTTAGTGAGTGCAT
37102578 GGGACTTG
66 GGGACTTG
* * * * * *
37102586 GGACGGCATTTAAAGCGAAA-GTTGCTGTTGTA-TTTTCCCAACCAGCCGAATTTAGTGTGTGCA
1 GGACGGCATTTAAAG-AAAAGGTGGCTGCTGCATTTTTCCAAACCAGCCGAATTTAGTGAGTGCA
37102649 TGGGACTTG
65 TGGGACTTG
37102658 GGA
1 GGA
37102661 TAGCATTAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
72 38 0.58
73 24 0.37
74 3 0.05
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (73 bp):
GGACGGCATTTAAAGAAAAGGTGGCTGCTGCATTTTTCCAAACCAGCCGAATTTAGTGAGTGCAT
GGGACTTG
Found at i:37104838 original size:18 final size:18
Alignment explanation
Indices: 37104782--37104841 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
37104772 AGTGCGAGCG
37104782 AGAAAAAGAAATCAAAAGAAA
1 AGAAAAAGAAATC--AA-AAA
* **
37104803 AGAAAAAGAGATTGAAAA
1 AGAAAAAGAAATCAAAAA
37104821 AGAAAAAGAAATCAAAAA
1 AGAAAAAGAAATCAAAAA
37104839 AGA
1 AGA
37104842 GAGTGAGGTC
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
18 21 0.64
19 1 0.03
21 11 0.33
ACGTcount: A:0.73, C:0.03, G:0.17, T:0.07
Consensus pattern (18 bp):
AGAAAAAGAAATCAAAAA
Found at i:37110187 original size:40 final size:40
Alignment explanation
Indices: 37110113--37110336 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
37110103 CCTACTCGTT
*
37110113 CAAATGCCTTC-GGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
37110152 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
37110192 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
37110232 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
37110271 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
37110312 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
37110337 CATCATTCGA
Statistics
Matches: 164, Mismatches: 15, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 43 0.26
40 106 0.65
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:37110262 original size:79 final size:79
Alignment explanation
Indices: 37110113--37110336 Score: 283
Period size: 79 Copynumber: 2.8 Consensus size: 79
37110103 CCTACTCGTT
* * *
37110113 CAAATGCCTTCGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGACTTAGCCCGGATT-TAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGG
*
37110177 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
*
37110192 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTC-GGACTTAGCCCGGATTTAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGG
*
37110256 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
* * * * * *
37110271 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCACCAATGCCTTCGGGACTTAGCCCG
37110335 GA
64 GA
37110337 CATCATTCGA
Statistics
Matches: 127, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
78 3 0.02
79 71 0.56
80 51 0.40
81 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:37110320 original size:119 final size:119
Alignment explanation
Indices: 37110115--37110336 Score: 297
Period size: 119 Copynumber: 1.9 Consensus size: 119
37110105 TACTCGTTCA
* *
37110115 AATGCCTTCGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATA
*
37110180 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 TAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * * **
37110234 AATGCCTTCGGGCTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGA
1 AATGCCTTCGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
* * *
37110297 TATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
64 TATAGTAAC-TAGCACAAATGCCTTCGGGACTTAACCCGGA
37110337 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
118 4 0.04
119 77 0.87
120 8 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATA
TAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:37110588 original size:20 final size:20
Alignment explanation
Indices: 37110542--37110588 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
37110532 TAGCTCGTTC
*
37110542 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* * *
37110562 CAACTCATTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
37110582 CAGCTCA
1 CAGCTCA
37110589 ATCTTAACCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:37125387 original size:24 final size:24
Alignment explanation
Indices: 37125352--37125400 Score: 57
Period size: 24 Copynumber: 2.0 Consensus size: 24
37125342 GAATATTGAC
*
37125352 ATAAAAATTAAACTAAGT-AAATAA
1 ATAAAAATTAAA-TAAATAAAATAA
37125376 ATAAATAA-TAAATAAATAAAATAA
1 ATAAA-AATTAAATAAATAAAATAA
37125400 A
1 A
37125401 ACTTTACAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 4 0.18
24 16 0.73
25 2 0.09
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (24 bp):
ATAAAAATTAAATAAATAAAATAA
Found at i:37126965 original size:13 final size:13
Alignment explanation
Indices: 37126947--37126985 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
37126937 AGTAGATTCG
37126947 TGAAAAAAAAATT
1 TGAAAAAAAAATT
*
37126960 TGAAAAAAAGAAAT
1 TGAAAAAAA-AATT
*
37126974 CGAAAAAAAAAT
1 TGAAAAAAAAAT
37126986 AAAAAAATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.72, C:0.03, G:0.10, T:0.15
Consensus pattern (13 bp):
TGAAAAAAAAATT
Found at i:37129236 original size:19 final size:19
Alignment explanation
Indices: 37129208--37129254 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
37129198 GCGAAAATAC
*
37129208 AAAAGAAAAGAAAAATGAAA
1 AAAAG-AAAGAAAAATCAAA
*
37129228 AAAAGAAAGAAAATTCAAA
1 AAAAGAAAGAAAAATCAAA
*
37129247 AAATGAAA
1 AAAAGAAA
37129255 ATGAAAAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.77, C:0.02, G:0.13, T:0.09
Consensus pattern (19 bp):
AAAAGAAAGAAAAATCAAA
Found at i:37129256 original size:33 final size:32
Alignment explanation
Indices: 37129219--37129295 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 32
37129209 AAAGAAAAGA
37129219 AAAATGAAAAAAAGAAAGAAAATTCAAAAA-ATG
1 AAAATGAAAAAAAGAAAGAAAA--CAAAAAGATG
* *
37129252 AAAATGAAAAGAAAGCAAGAAAAGAAAAAGATG
1 AAAATGAAAA-AAAGAAAGAAAACAAAAAGATG
*
37129285 AAAAAGAAAAA
1 AAAATGAAAAA
37129296 GTGAGTGAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
32 6 0.15
33 22 0.56
34 11 0.28
ACGTcount: A:0.74, C:0.03, G:0.16, T:0.08
Consensus pattern (32 bp):
AAAATGAAAAAAAGAAAGAAAACAAAAAGATG
Found at i:37133418 original size:22 final size:23
Alignment explanation
Indices: 37133387--37133429 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
37133377 ACCTTTTTGA
37133387 ACCATTACCAATTCGTACCAAAT
1 ACCATTACCAATTCGTACCAAAT
*
37133410 ACCA-TACCATTTCGTACCAA
1 ACCATTACCAATTCGTACCAA
37133430 CTCCTAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.37, C:0.33, G:0.05, T:0.26
Consensus pattern (23 bp):
ACCATTACCAATTCGTACCAAAT
Found at i:37135112 original size:20 final size:20
Alignment explanation
Indices: 37135089--37135142 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
37135079 AGCTAAAGTA
37135089 AGCTAAATTGAGCTCAAACG
1 AGCTAAATTGAGCTCAAACG
* * *
37135109 AGCTAAATTAAGCTCATATG
1 AGCTAAATTGAGCTCAAACG
*
37135129 AGCTAAATCGAGCT
1 AGCTAAATTGAGCT
37135143 GGGAAAAACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.24
Consensus pattern (20 bp):
AGCTAAATTGAGCTCAAACG
Found at i:37144835 original size:13 final size:13
Alignment explanation
Indices: 37144799--37144853 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
37144789 TTTGAAAAAA
37144799 TTAATT-ATTAAAT
1 TTAATTAATT-AAT
* * *
37144812 ATAAATAATTAGT
1 TTAATTAATTAAT
37144825 TTAATTAATTAAT
1 TTAATTAATTAAT
37144838 TTAATTGAA-TAAT
1 TTAATT-AATTAAT
37144851 TTA
1 TTA
37144854 TACGATTCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
13 29 0.85
14 5 0.15
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (13 bp):
TTAATTAATTAAT
Found at i:37144837 original size:17 final size:17
Alignment explanation
Indices: 37144780--37144838 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
37144770 AATTAAGTCA
37144780 ATAATTAATT-TTGAAA-
1 ATAATTAATTATT-AAAT
37144796 A-AATTAATTATTAAAT
1 ATAATTAATTATTAAAT
* *
37144812 ATAAATAATTAGTTTAAT
1 ATAATTAATTA-TTAAAT
37144830 -TAATTAATT
1 ATAATTAATT
37144839 TAATTGAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
15 11 0.31
16 4 0.11
17 16 0.44
18 5 0.14
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
ATAATTAATTATTAAAT
Found at i:37144906 original size:16 final size:16
Alignment explanation
Indices: 37144887--37144920 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
37144877 ATATTTTAGC
37144887 TTTATCGTATTAAAAT
1 TTTATCGTATTAAAAT
* *
37144903 TTTATTGTATTAGAAT
1 TTTATCGTATTAAAAT
37144919 TT
1 TT
37144921 GTGTAAACGT
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:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (16 bp):
TTTATCGTATTAAAAT
Found at i:37147309 original size:11 final size:10
Alignment explanation
Indices: 37147291--37147315 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
37147281 TATTAAAGTA
37147291 TCTTTTTTTT
1 TCTTTTTTTT
37147301 TCTTTTTTTT
1 TCTTTTTTTT
37147311 TCTTT
1 TCTTT
37147316 GAAAAGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:37160190 original size:32 final size:31
Alignment explanation
Indices: 37160154--37160261 Score: 92
Period size: 32 Copynumber: 3.2 Consensus size: 31
37160144 TTAGAAATCA
37160154 ACCAAGAACACCCAAAACGCCCAAAATCTGAT
1 ACCAAGAACA-CCAAAACGCCCAAAATCTGAT
37160186 ACCAAATGAACAGGGTTTCCAAAACGCCCAAAATCTGAT
1 ACC-AA-GAACA------CCAAAACGCCCAAAATCTGAT
* *
37160225 ACCAA-ATGATACCAAAATGCCCAAAATCTGAT
1 ACCAAGA--ACACCAAAACGCCCAAAATCTGAT
37160257 ACCAA
1 ACCAA
37160262 ATGATAGAGG
Statistics
Matches: 64, Mismatches: 3, Indels: 18
0.75 0.04 0.21
Matches are distributed among these distances:
32 28 0.44
33 2 0.03
34 5 0.08
36 1 0.02
38 4 0.06
39 24 0.38
ACGTcount: A:0.45, C:0.29, G:0.11, T:0.15
Consensus pattern (31 bp):
ACCAAGAACACCAAAACGCCCAAAATCTGAT
Found at i:37160276 original size:32 final size:32
Alignment explanation
Indices: 37160204--37160267 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
37160194 AACAGGGTTT
*
37160204 CCAAAACGCCCAAAATCTGATACCAAATGATA
1 CCAAAATGCCCAAAATCTGATACCAAATGATA
37160236 CCAAAATGCCCAAAATCTGATACCAAATGATA
1 CCAAAATGCCCAAAATCTGATACCAAATGATA
37160268 GAGGAATGCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.47, C:0.27, G:0.09, T:0.17
Consensus pattern (32 bp):
CCAAAATGCCCAAAATCTGATACCAAATGATA
Found at i:37166083 original size:18 final size:19
Alignment explanation
Indices: 37166062--37166103 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
37166052 TTTTTCTTGA
*
37166062 TTTTGTCTTTTT-TAATTT
1 TTTTGACTTTTTCTAATTT
*
37166080 TTTTGACTTTTTCTACTTT
1 TTTTGACTTTTTCTAATTT
37166099 TTTTG
1 TTTTG
37166104 CGGGAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.10, C:0.10, G:0.07, T:0.74
Consensus pattern (19 bp):
TTTTGACTTTTTCTAATTT
Found at i:37176449 original size:51 final size:50
Alignment explanation
Indices: 37176384--37176531 Score: 133
Period size: 50 Copynumber: 2.9 Consensus size: 50
37176374 AAATGCATGG
* * *
37176384 TTTAA-GATGCAAACTAAATGAACAAATGAGTTACTTAATGCATGACTTAA
1 TTTAATGATGCAAACTAAAT-AACAAAGGAGTTACATAATGCATGACATAA
* ** *
37176434 TTTAATGATGCAAACTTTAACTAACATGGGAGTTACATAATGCATGTCATAA
1 TTTAATGATGCAAAC--TAAATAACAAAGGAGTTACATAATGCATGACATAA
* *
37176486 TTT-ATGATGCAAACTTAACTAACATGAA--AGTTACATAATGCTTGAC
1 TTTAATGATGCAAAC-TAAATAACA--AAGGAGTTACATAATGCATGAC
37176532 TTTATTAAAT
Statistics
Matches: 82, Mismatches: 11, Indels: 10
0.80 0.11 0.10
Matches are distributed among these distances:
50 31 0.38
51 20 0.24
52 27 0.33
53 4 0.05
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (50 bp):
TTTAATGATGCAAACTAAATAACAAAGGAGTTACATAATGCATGACATAA
Found at i:37176475 original size:52 final size:51
Alignment explanation
Indices: 37176411--37176542 Score: 176
Period size: 50 Copynumber: 2.6 Consensus size: 51
37176401 ATGAACAAAT
* *
37176411 GAGTTACTTAATGCATGACTTAATTTAATGATGCAAACTTTAACTAACATGG
1 GAGTTACATAATGCATGACTTAATTTAATGATGCAAAC-TTAACTAACATGA
* *
37176463 GAGTTACATAATGCATGTCATAATTT-ATGATGCAAACTTAACTAACATGA
1 GAGTTACATAATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGA
* * * *
37176513 AAGTTACATAATGCTTGACTTTATTAAATG
1 GAGTTACATAATGCATGACTTAATTTAATG
37176543 CATAACACAT
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
50 32 0.46
51 14 0.20
52 23 0.33
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (51 bp):
GAGTTACATAATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGA
Found at i:37181456 original size:25 final size:27
Alignment explanation
Indices: 37181428--37181477 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
37181418 ATTAAGCATT
*
37181428 AAACAATA-ACTTAA-AACACTCATAA
1 AAACAACATACTTAATAACACTCATAA
*
37181453 AAACAACATATTTAATAACACTCAT
1 AAACAACATACTTAATAACACTCAT
37181478 GGACAAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 5 0.24
27 9 0.43
ACGTcount: A:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (27 bp):
AAACAACATACTTAATAACACTCATAA
Found at i:37181770 original size:50 final size:52
Alignment explanation
Indices: 37181660--37181780 Score: 174
Period size: 50 Copynumber: 2.4 Consensus size: 52
37181650 ATGAACAAAT
* ** * *
37181660 GAGTTACTTAATGCATGAGTTAATTTAATGATGCAAACTTTAGCTAACATGG
1 GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
*
37181712 GAGTTACATAATGCATGTCATAATTT-ATGATGCAAAC-TTAACTAACATGA
1 GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
37181762 GAGTTACATAATGCATGAC
1 GAGTTACATAATGCATGAC
37181781 TTTATTAAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 29 0.47
51 11 0.18
52 22 0.35
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.32
Consensus pattern (52 bp):
GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
Found at i:37183718 original size:18 final size:19
Alignment explanation
Indices: 37183673--37183721 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
37183663 AAATATTTAC
*
37183673 ATAAAAATTAAACTAAGTAA
1 ATAAAAA-TAAACTAAATAA
37183693 A-AATAAATAAA-TAAATAA
1 ATAA-AAATAAACTAAATAA
37183711 ATAAAAATAAA
1 ATAAAAATAAA
37183722 AATAAAACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 14 0.54
19 8 0.31
20 4 0.15
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (19 bp):
ATAAAAATAAACTAAATAA
Found at i:37190192 original size:4 final size:4
Alignment explanation
Indices: 37190183--37190209 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
37190173 AACTAAGTAA
37190183 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
37190210 AATAAAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:37191944 original size:27 final size:27
Alignment explanation
Indices: 37191898--37192074 Score: 201
Period size: 27 Copynumber: 6.6 Consensus size: 27
37191888 AACATGTTAG
* *
37191898 GAAAGAAAAGCCTTTATGGCATAATAT
1 GAAAGAAAAGACTTTGTGGCATAATAT
* *
37191925 GAAAGAAAATAATTTGTGGCATAATAT
1 GAAAGAAAAGACTTTGTGGCATAATAT
* * **
37191952 GAAATAAAAGCCTTTGTGGTGTAATAT
1 GAAAGAAAAGACTTTGTGGCATAATAT
* *
37191979 GAAAGGAAAGACTTTGTAGCATAATAT
1 GAAAGAAAAGACTTTGTGGCATAATAT
* *
37192006 AAAAGGAAAGACTTTGTGGCATAATAT
1 GAAAGAAAAGACTTTGTGGCATAATAT
* * *
37192033 GAAAGAAAAGCCTTTGTAGCGTAATAT
1 GAAAGAAAAGACTTTGTGGCATAATAT
* *
37192060 GAAATAAAAGCCTTT
1 GAAAGAAAAGACTTT
37192075 TAGTGGCGTA
Statistics
Matches: 126, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 126 1.00
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.28
Consensus pattern (27 bp):
GAAAGAAAAGACTTTGTGGCATAATAT
Found at i:37191995 original size:54 final size:54
Alignment explanation
Indices: 37191898--37192074 Score: 228
Period size: 54 Copynumber: 3.3 Consensus size: 54
37191888 AACATGTTAG
* * * *
37191898 GAAAGAAAAGCCTTTATGGCATAATATGAAAGAAAATAATTTGTGGCATAATAT
1 GAAAGAAAAGCCTTTGTGGCATAATATGAAAGAAAAGACTTTGTAGCATAATAT
* ** *
37191952 GAAATAAAAGCCTTTGTGGTGTAATATGAAAGGAAAGACTTTGTAGCATAATAT
1 GAAAGAAAAGCCTTTGTGGCATAATATGAAAGAAAAGACTTTGTAGCATAATAT
* * * * *
37192006 AAAAGGAAAGACTTTGTGGCATAATATGAAAGAAAAGCCTTTGTAGCGTAATAT
1 GAAAGAAAAGCCTTTGTGGCATAATATGAAAGAAAAGACTTTGTAGCATAATAT
*
37192060 GAAATAAAAGCCTTT
1 GAAAGAAAAGCCTTT
37192075 TAGTGGCGTA
Statistics
Matches: 102, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 102 1.00
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.28
Consensus pattern (54 bp):
GAAAGAAAAGCCTTTGTGGCATAATATGAAAGAAAAGACTTTGTAGCATAATAT
Found at i:37192033 original size:81 final size:81
Alignment explanation
Indices: 37191898--37192074 Score: 237
Period size: 81 Copynumber: 2.2 Consensus size: 81
37191888 AACATGTTAG
* * * * *
37191898 GAAAGAAAAGCCTTTATGGCATAATATGAAAGAAAATAATTTGTGGCATAATATGAAATAAAAGC
1 GAAAGAAAAGACTTTATAGCATAATATAAAAGAAAAGAATTTGTGGCATAATATGAAAGAAAAGC
* *
37191963 CTTTGTGGTGTAATAT
66 CTTTGTAGCGTAATAT
* * * *
37191979 GAAAGGAAAGACTTTGTAGCATAATATAAAAGGAAAGACTTTGTGGCATAATATGAAAGAAAAGC
1 GAAAGAAAAGACTTTATAGCATAATATAAAAGAAAAGAATTTGTGGCATAATATGAAAGAAAAGC
37192044 CTTTGTAGCGTAATAT
66 CTTTGTAGCGTAATAT
* *
37192060 GAAATAAAAGCCTTT
1 GAAAGAAAAGACTTT
37192075 TAGTGGCGTA
Statistics
Matches: 82, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.28
Consensus pattern (81 bp):
GAAAGAAAAGACTTTATAGCATAATATAAAAGAAAAGAATTTGTGGCATAATATGAAAGAAAAGC
CTTTGTAGCGTAATAT
Found at i:37192349 original size:9 final size:9
Alignment explanation
Indices: 37192335--37192359 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
37192325 TGAAAAAAGT
37192335 TCGAGTTAA
1 TCGAGTTAA
37192344 TCGAGTTAA
1 TCGAGTTAA
37192353 TCGAGTT
1 TCGAGTT
37192360 GATGAATCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.36
Consensus pattern (9 bp):
TCGAGTTAA
Found at i:37194990 original size:16 final size:16
Alignment explanation
Indices: 37194965--37194998 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
37194955 ACGTTTACAC
37194965 AAATTCTAATACAATA
1 AAATTCTAATACAATA
* *
37194981 AAATTTTAATACGATA
1 AAATTCTAATACAATA
37194997 AA
1 AA
37194999 GCTAAAATAT
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:0.56, C:0.09, G:0.03, T:0.32
Consensus pattern (16 bp):
AAATTCTAATACAATA
Found at i:37196156 original size:18 final size:17
Alignment explanation
Indices: 37196133--37196166 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
37196123 TTTATATATA
37196133 ATACTTGTTATATCTTTT
1 ATACTTGTTATA-CTTTT
*
37196151 ATACTTTTTATACTTT
1 ATACTTGTTATACTTT
37196167 ACTTTTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.24, C:0.12, G:0.03, T:0.62
Consensus pattern (17 bp):
ATACTTGTTATACTTTT
Found at i:37204752 original size:20 final size:20
Alignment explanation
Indices: 37204729--37204782 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
37204719 AGTTTTTCCC
*
37204729 AGCTCGATTTAGCTCATATG
1 AGCTCAATTTAGCTCATATG
* * *
37204749 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCATATG
37204769 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
37204783 TACTTTAGCT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.39
Consensus pattern (20 bp):
AGCTCAATTTAGCTCATATG
Found at i:37204764 original size:30 final size:30
Alignment explanation
Indices: 37204729--37204802 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
37204719 AGTTTTTCCC
37204729 AGCTCGATTT-AGCTCATA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
37204759 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
37204789 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
37204803 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:37206450 original size:24 final size:23
Alignment explanation
Indices: 37206396--37206452 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
37206386 GAATAAACAA
*
37206396 GAAATGGTATTTGGTTTAGGTAC
1 GAAATGGTATTTGGGTTAGGTAC
**
37206419 GATTTGGTATTTAGGAGTT-GGTAC
1 GAAATGGTATTT-GG-GTTAGGTAC
37206443 GAAATGGTAT
1 GAAATGGTAT
37206453 GGTATTTGGT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
23 10 0.37
24 15 0.56
25 2 0.07
ACGTcount: A:0.26, C:0.04, G:0.32, T:0.39
Consensus pattern (23 bp):
GAAATGGTATTTGGGTTAGGTAC
Found at i:37206464 original size:22 final size:23
Alignment explanation
Indices: 37206436--37206478 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
37206426 TATTTAGGAG
37206436 TTGGTACGAAATGGT-ATGGTAT
1 TTGGTACGAAATGGTAATGGTAT
*
37206458 TTGGTACGAATTGGTAATGGT
1 TTGGTACGAAATGGTAATGGT
37206479 TCAAAAAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.26, C:0.05, G:0.33, T:0.37
Consensus pattern (23 bp):
TTGGTACGAAATGGTAATGGTAT
Found at i:37210614 original size:33 final size:32
Alignment explanation
Indices: 37210570--37210657 Score: 94
Period size: 33 Copynumber: 2.8 Consensus size: 32
37210560 TTTCACTCAC
*
37210570 TTTTTCTTTTTCATCTTTTTCTTTTCTTGCTT
1 TTTTTCATTTTCATCTTTTTCTTTTCTTGCTT
* *
37210602 TCTTTTCATTTTCAT-TTTTTGAATTTTCTTTCTT
1 T-TTTTCATTTTCATCTTTTT--CTTTTCTTGCTT
37210636 TTTTTCATTTT--TC-TTTTCTTTT
1 TTTTTCATTTTCATCTTTTTCTTTT
37210658 GTATTTTCGC
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
29 4 0.08
31 5 0.10
32 6 0.12
33 22 0.46
34 11 0.23
ACGTcount: A:0.07, C:0.16, G:0.02, T:0.75
Consensus pattern (32 bp):
TTTTTCATTTTCATCTTTTTCTTTTCTTGCTT
Found at i:37210633 original size:19 final size:19
Alignment explanation
Indices: 37210611--37210651 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
37210601 TTCTTTTCAT
*
37210611 TTTCATTTTTTGAATTTTC
1 TTTCATTTTTTCAATTTTC
* *
37210630 TTTCTTTTTTTCATTTTTC
1 TTTCATTTTTTCAATTTTC
37210649 TTT
1 TTT
37210652 TCTTTTGTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.10, C:0.12, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTCATTTTTTCAATTTTC
Found at i:37212927 original size:16 final size:16
Alignment explanation
Indices: 37212892--37212929 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
37212882 ATTTTTTTTA
*
37212892 TTTTTTTTTCGATTTC
1 TTTTTTTTTCAATTTC
37212908 TTTTTTTTTCAAATTT-
1 TTTTTTTTTC-AATTTC
37212924 TTTTTT
1 TTTTTT
37212930 CACGAATCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.11, C:0.08, G:0.03, T:0.79
Consensus pattern (16 bp):
TTTTTTTTTCAATTTC
Found at i:37214499 original size:4 final size:4
Alignment explanation
Indices: 37214490--37214517 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
37214480 AAGTTTTATT
37214490 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
37214518 CTTAGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:37223995 original size:20 final size:20
Alignment explanation
Indices: 37223970--37224017 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
37223960 AACTAAAGTA
*
37223970 AGCTAAAAATGAGCTCATTG
1 AGCTAAAAACGAGCTCATTG
*
37223990 AGCTAAGAACGAGCTCATTG
1 AGCTAAAAACGAGCTCATTG
37224010 AGCTAAAA
1 AGCTAAAA
37224018 TTAAGTTGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.21
Consensus pattern (20 bp):
AGCTAAAAACGAGCTCATTG
Found at i:37226169 original size:20 final size:21
Alignment explanation
Indices: 37226146--37226196 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 21
37226136 GGGTTAAGAT
37226146 TGAGCTGAA-TTGAGCTCGAA
1 TGAGCTGAACTTGAGCTCGAA
*
37226166 TGAGCT-AACTTGAGCTCGAG
1 TGAGCTGAACTTGAGCTCGAA
37226186 TGAGCTGAACT
1 TGAGCTGAACT
37226197 AAGTTAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 2 0.07
20 22 0.79
21 4 0.14
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (21 bp):
TGAGCTGAACTTGAGCTCGAA
Found at i:37227568 original size:25 final size:24
Alignment explanation
Indices: 37227540--37227599 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 24
37227530 CTTTCTCACA
* *
37227540 TTCTTTTTCATTCTCAATCTTGTTT
1 TTCTTTTTCACTCTC-ATCTTCTTT
*
37227565 TTCTGTTTCTCACTCTCATTTTCTTT
1 TTCT-TTT-TCACTCTCATCTTCTTT
37227591 TTCTTTTTC
1 TTCTTTTTC
37227600 GATTTTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 2 0.07
25 7 0.23
26 14 0.47
27 7 0.23
ACGTcount: A:0.08, C:0.23, G:0.03, T:0.65
Consensus pattern (24 bp):
TTCTTTTTCACTCTCATCTTCTTT
Found at i:37230234 original size:13 final size:12
Alignment explanation
Indices: 37230216--37230249 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
37230206 TTACAACATG
37230216 AATTTTTTTTTCA
1 AATTTTTTTTT-A
*
37230229 AATTTTTTTTTG
1 AATTTTTTTTTA
37230241 AATTTTTTT
1 AATTTTTTT
37230250 CAAAACTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (12 bp):
AATTTTTTTTTA
Found at i:37231625 original size:25 final size:25
Alignment explanation
Indices: 37231576--37231627 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 25
37231566 ATAGACTTAG
37231576 ACAAATTAAAACATGCATTAAATAAA
1 ACAAATTAAAACA-GCATTAAATAAA
37231602 ACAAA-TAAAACA-CATTTAACATAAA
1 ACAAATTAAAACAGCA-TTAA-ATAAA
37231627 A
1 A
37231628 ATTAATATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
23 2 0.08
24 4 0.17
25 13 0.54
26 5 0.21
ACGTcount: A:0.63, C:0.13, G:0.02, T:0.21
Consensus pattern (25 bp):
ACAAATTAAAACAGCATTAAATAAA
Found at i:37231761 original size:22 final size:20
Alignment explanation
Indices: 37231735--37231784 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
37231725 AACTAAAGTA
37231735 AGCTAAAAAAATGAGCTCATTG
1 AGCTAAAAAAA--AGCTCATTG
* * *
37231757 TGCTAAGAACAAGCTCATTG
1 AGCTAAAAAAAAGCTCATTG
37231777 AGCTAAAA
1 AGCTAAAA
37231785 TTGAGCTGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
20 15 0.65
22 8 0.35
ACGTcount: A:0.44, C:0.16, G:0.18, T:0.22
Consensus pattern (20 bp):
AGCTAAAAAAAAGCTCATTG
Found at i:37231791 original size:20 final size:19
Alignment explanation
Indices: 37231742--37231791 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
37231732 GTAAGCTAAA
*
37231742 AAAATGAGCTCATTGTGCT
1 AAAATGAGCTCATTGAGCT
**
37231761 AAGAACAAGCTCATTGAGCT
1 AA-AATGAGCTCATTGAGCT
37231781 AAAATTGAGCT
1 AAAA-TGAGCT
37231792 GAATTGAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (19 bp):
AAAATGAGCTCATTGAGCT
Found at i:37239419 original size:39 final size:40
Alignment explanation
Indices: 37239374--37239598 Score: 242
Period size: 40 Copynumber: 5.7 Consensus size: 40
37239364 GCTCCTCGTT
* * * *
37239374 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
37239414 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
37239453 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
37239493 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
37239533 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
37239574 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
37239599 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 20, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
39 39 0.25
40 105 0.66
41 15 0.09
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:37239607 original size:41 final size:41
Alignment explanation
Indices: 37239530--37239607 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
37239520 TTTGTATCTC
* * *
37239530 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
37239571 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
37239608 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:37245274 original size:25 final size:25
Alignment explanation
Indices: 37245241--37245487 Score: 228
Period size: 25 Copynumber: 9.9 Consensus size: 25
37245231 AAACCAAACC
* * * *
37245241 AAGCCTTTGTGGTGAGTTATTTGGA
1 AAGCCTTTATGGTGAATTATCTGTA
* * * **
37245266 AAGCTTTTGTGGTGAACTATCTAAA
1 AAGCCTTTATGGTGAATTATCTGTA
*
37245291 AAGCCTTTATGGTGAGTTATCTGTA
1 AAGCCTTTATGGTGAATTATCTGTA
*
37245316 AAGCCTTTATGGCGAATTATCTG-A
1 AAGCCTTTATGGTGAATTATCTGTA
* * *
37245340 GAAGTCTCTATGGTGAATTATTTGTA
1 -AAGCCTTTATGGTGAATTATCTGTA
* * *
37245366 AAGCCTTTGTGGCGAGTTATCTGTA
1 AAGCCTTTATGGTGAATTATCTGTA
* ** *
37245391 AAGCCTTTGTGGCAAATTATTTGTA
1 AAGCCTTTATGGTGAATTATCTGTA
*
37245416 AAGCCTTTATGGTGAATTATCTGAA
1 AAGCCTTTATGGTGAATTATCTGTA
* *
37245441 AAGCTTTTATGG-CAAGTTATCTGTA
1 AAGCCTTTATGGTGAA-TTATCTGTA
* *
37245466 AAGTCTTTATGGCGAATTATCT
1 AAGCCTTTATGGTGAATTATCT
37245488 AAAACATCTT
Statistics
Matches: 180, Mismatches: 38, Indels: 8
0.80 0.17 0.04
Matches are distributed among these distances:
24 3 0.02
25 174 0.97
26 3 0.02
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (25 bp):
AAGCCTTTATGGTGAATTATCTGTA
Found at i:37245304 original size:50 final size:50
Alignment explanation
Indices: 37245241--37245491 Score: 263
Period size: 50 Copynumber: 5.0 Consensus size: 50
37245231 AAACCAAACC
* * * * * * * *
37245241 AAGCCTTTGTGGTGAGTTATTTGGAAAGCTTTTGTGGTGAACTATCTAAA
1 AAGCCTTTATGGTGAATTATTTGTAAAGCCTTTATGGCGAATTATCTGAA
* * *
37245291 AAGCCTTTATGGTGAGTTATCTGTAAAGCCTTTATGGCGAATTATCTGAG
1 AAGCCTTTATGGTGAATTATTTGTAAAGCCTTTATGGCGAATTATCTGAA
* * * * *
37245341 AAGTCTCTATGGTGAATTATTTGTAAAGCCTTTGTGGCGAGTTATCTGTA
1 AAGCCTTTATGGTGAATTATTTGTAAAGCCTTTATGGCGAATTATCTGAA
* ** *
37245391 AAGCCTTTGTGGCAAATTATTTGTAAAGCCTTTATGGTGAATTATCTGAA
1 AAGCCTTTATGGTGAATTATTTGTAAAGCCTTTATGGCGAATTATCTGAA
* * * *
37245441 AAGCTTTTATGG-CAAGTTATCTGTAAAGTCTTTATGGCGAATTATCT-AA
1 AAGCCTTTATGGTGAA-TTATTTGTAAAGCCTTTATGGCGAATTATCTGAA
37245490 AA
1 AA
37245492 CATCTTTGTG
Statistics
Matches: 168, Mismatches: 32, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
49 6 0.04
50 162 0.96
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (50 bp):
AAGCCTTTATGGTGAATTATTTGTAAAGCCTTTATGGCGAATTATCTGAA
Found at i:37245369 original size:75 final size:75
Alignment explanation
Indices: 37245275--37245487 Score: 284
Period size: 75 Copynumber: 2.8 Consensus size: 75
37245265 AAAGCTTTTG
* * *
37245275 TGGTGAACTATCTAAAAAGCCTTTATGGTGAGTTATCTGTAAAGCCTTTATGGCGAATTATCTG-
1 TGGTGAATTATCTGAAAAGCCTTTATGGCGAGTTATCTGTAAAGCCTTTATGGCGAATTATCTGT
*
37245339 AGAAGTCTCTA
66 A-AAGCCTCTA
* * * * * *
37245350 TGGTGAATTATTTGTAAAGCCTTTGTGGCGAGTTATCTGTAAAGCCTTTGTGGCAAATTATTTGT
1 TGGTGAATTATCTGAAAAGCCTTTATGGCGAGTTATCTGTAAAGCCTTTATGGCGAATTATCTGT
*
37245415 AAAGCCTTTA
66 AAAGCCTCTA
* * *
37245425 TGGTGAATTATCTGAAAAGCTTTTATGGCAAGTTATCTGTAAAGTCTTTATGGCGAATTATCT
1 TGGTGAATTATCTGAAAAGCCTTTATGGCGAGTTATCTGTAAAGCCTTTATGGCGAATTATCT
37245488 AAAACATCTT
Statistics
Matches: 117, Mismatches: 20, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
75 116 0.99
76 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.38
Consensus pattern (75 bp):
TGGTGAATTATCTGAAAAGCCTTTATGGCGAGTTATCTGTAAAGCCTTTATGGCGAATTATCTGT
AAAGCCTCTA
Found at i:37256168 original size:20 final size:19
Alignment explanation
Indices: 37256140--37256181 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
37256130 TTTTCTCTCT
37256140 TTTTCT-TTTTCTAACTCG
1 TTTTCTCTTTTCTAACTCG
* *
37256158 TTTTCTCTTTTCTCACTTG
1 TTTTCTCTTTTCTAACTCG
37256177 TTTTC
1 TTTTC
37256182 AACTCTTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.07, C:0.24, G:0.05, T:0.64
Consensus pattern (19 bp):
TTTTCTCTTTTCTAACTCG
Found at i:37256199 original size:28 final size:29
Alignment explanation
Indices: 37256144--37256222 Score: 76
Period size: 28 Copynumber: 2.8 Consensus size: 29
37256134 CTCTCTTTTT
*
37256144 CTTTTTCT-AACTCGTTTTCTCTT-TTCTCA
1 CTTTTTCTCAACTC-TTTTCT-TTCCTCTCA
*
37256173 CTTGTTT-TCAACTC-TTTCTTTCCTCTCT
1 CTT-TTTCTCAACTCTTTTCTTTCCTCTCA
*
37256201 CTTTTTCTGAACTCTTTTCTTT
1 CTTTTTCTCAACTCTTTTCTTT
37256223 TTCATTTTCC
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
27 5 0.12
28 18 0.43
29 11 0.26
30 8 0.19
ACGTcount: A:0.09, C:0.28, G:0.04, T:0.59
Consensus pattern (29 bp):
CTTTTTCTCAACTCTTTTCTTTCCTCTCA
Found at i:37257765 original size:10 final size:10
Alignment explanation
Indices: 37257750--37257811 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
37257740 TTTGAACCAT
*
37257750 TACCAATTCG
1 TACCAATTCA
*
37257760 TACCAAATACCA
1 TACC-AAT-TCA
*
37257772 TACCATTTCA
1 TACCAATTCA
37257782 TACCAATTCCA
1 TACCAATT-CA
* *
37257793 TACCATTTCG
1 TACCAATTCA
37257803 TACCAATTC
1 TACCAATTC
37257812 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:37257795 original size:21 final size:21
Alignment explanation
Indices: 37257750--37257812 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
37257740 TTTGAACCAT
* *
37257750 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
37257772 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
37257793 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
37257813 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:37259497 original size:20 final size:20
Alignment explanation
Indices: 37259453--37259499 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
37259443 TTGCAACTAA
37259453 AATGAGCTAAAATGAGCTCG
1 AATGAGCTAAAATGAGCTCG
*
37259473 -TTGAGCTAAAATTGAGCT-G
1 AATGAGCTAAAA-TGAGCTCG
37259492 AATGAGCT
1 AATGAGCT
37259500 TGAAGGTAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.26
Consensus pattern (20 bp):
AATGAGCTAAAATGAGCTCG
Found at i:37262393 original size:20 final size:20
Alignment explanation
Indices: 37262370--37262411 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
37262360 AGCTCCAACC
* *
37262370 AGCTCATTTGAGCTTAATTT
1 AGCTCATTCGAGCTCAATTT
37262390 AGCTCATTCGAGCTCAATTT
1 AGCTCATTCGAGCTCAATTT
37262410 AG
1 AG
37262412 TTTCTAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCATTCGAGCTCAATTT
Found at i:37264696 original size:6 final size:6
Alignment explanation
Indices: 37264687--37264796 Score: 71
Period size: 6 Copynumber: 18.0 Consensus size: 6
37264677 AACGAAAAAG
* ** *
37264687 AAGAAA AAGAAA AA-AAA AGTGAAA AAGAAA AAGAAA AAGAAA TTGCAA
1 AAGAAA AAGAAA AAGAAA A-AGAAA AAGAAA AAGAAA AAGAAA AAGAAA
** ** * *
37264735 AAGAAA AAGAAA TCGAAA AAGTGA GA-AAA AAGAAA ACGAAGAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAG-A-AA AAGAAA
*
37264784 ATTGAAA AAGAAA
1 A-AGAAA AAGAAA
37264797 TTGAGATTGA
Statistics
Matches: 76, Mismatches: 22, Indels: 12
0.69 0.20 0.11
Matches are distributed among these distances:
5 6 0.08
6 55 0.72
7 11 0.14
8 4 0.05
ACGTcount: A:0.73, C:0.03, G:0.18, T:0.06
Consensus pattern (6 bp):
AAGAAA
Found at i:37265416 original size:34 final size:34
Alignment explanation
Indices: 37265369--37265478 Score: 195
Period size: 34 Copynumber: 3.2 Consensus size: 34
37265359 GAGTTAGTTT
37265369 ATTAACTTT-AGTTCAGCTCAAATAAGTGTTAGTA
1 ATTAA-TTTCAGTTCAGCTCAAATAAGTGTTAGTA
37265403 ATTAATTTCAGTTCAGCTCAAATAAGTGTTAGTA
1 ATTAATTTCAGTTCAGCTCAAATAAGTGTTAGTA
*
37265437 ATTAATTTCAGTTCAACTCAAATAAGTGTTAGTA
1 ATTAATTTCAGTTCAGCTCAAATAAGTGTTAGTA
37265471 ATTAATTT
1 ATTAATTT
37265479 GTTTAAATCA
Statistics
Matches: 74, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
33 3 0.04
34 71 0.96
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (34 bp):
ATTAATTTCAGTTCAGCTCAAATAAGTGTTAGTA
Found at i:37275436 original size:30 final size:30
Alignment explanation
Indices: 37275402--37275471 Score: 140
Period size: 30 Copynumber: 2.3 Consensus size: 30
37275392 AGATTCGGTT
37275402 TCTTGATTTTCTTGAAAACAAGAAAGTGAA
1 TCTTGATTTTCTTGAAAACAAGAAAGTGAA
37275432 TCTTGATTTTCTTGAAAACAAGAAAGTGAA
1 TCTTGATTTTCTTGAAAACAAGAAAGTGAA
37275462 TCTTGATTTT
1 TCTTGATTTT
37275472 ATTTTTCCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.39
Consensus pattern (30 bp):
TCTTGATTTTCTTGAAAACAAGAAAGTGAA
Found at i:37277295 original size:18 final size:18
Alignment explanation
Indices: 37277272--37277323 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
37277262 CGAAGAGGAA
37277272 GAAAAGAAATA-AAAAGTG
1 GAAAAGAAATAGAAAA-TG
*
37277290 GAAAAGATATAGAAAATG
1 GAAAAGAAATAGAAAATG
* *
37277308 AAAAAGAAAAAGAAAA
1 GAAAAGAAATAGAAAA
37277324 AGAAATTGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 25 0.86
19 4 0.14
ACGTcount: A:0.71, C:0.00, G:0.19, T:0.10
Consensus pattern (18 bp):
GAAAAGAAATAGAAAATG
Found at i:37277327 original size:24 final size:24
Alignment explanation
Indices: 37277291--37277346 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
37277281 TAAAAAGTGG
* *
37277291 AAAAGATATAGAAAATGAAAAAGA
1 AAAAGAAAAAGAAAATGAAAAAGA
* * **
37277315 AAAAGAAAAAGAAATTGCAAGCGA
1 AAAAGAAAAAGAAAATGAAAAAGA
37277339 AAAAGAAA
1 AAAAGAAA
37277347 TCGAAAAAGT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.70, C:0.04, G:0.18, T:0.09
Consensus pattern (24 bp):
AAAAGAAAAAGAAAATGAAAAAGA
Done.