Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 98 of 182
Found at i:32176907 original size:29 final size:29
Alignment explanation
Indices: 32176790--32176907 Score: 91
Period size: 29 Copynumber: 4.1 Consensus size: 29
32176780 GTTAAAGATC
***
32176790 AAATTTTTTTTATCAATTTTTAAGGGTTTT
1 AAATTTTTTTT-TCAATTTTTAAGAAATTT
*
32176820 AATAATTTTTTTTT-AATTTTTAAG-GA-TT
1 -A-AATTTTTTTTTCAATTTTTAAGAAATTT
* * **
32176848 CAATTTTTTTTACTAATTTTTAA-AAGCTT
1 AAATTTTTTTTTC-AATTTTTAAGAAATTT
*
32176877 AAATTTTTTTTTCAACTTTTAAGAAATTT
1 AAATTTTTTTTTCAATTTTTAAGAAATTT
32176906 AA
1 AA
32176908 TATCCCATTT
Statistics
Matches: 71, Mismatches: 10, Indels: 14
0.75 0.11 0.15
Matches are distributed among these distances:
26 10 0.14
28 19 0.27
29 20 0.28
30 10 0.14
31 2 0.03
32 10 0.14
ACGTcount: A:0.32, C:0.05, G:0.06, T:0.57
Consensus pattern (29 bp):
AAATTTTTTTTTCAATTTTTAAGAAATTT
Found at i:32179617 original size:22 final size:22
Alignment explanation
Indices: 32179574--32179618 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
32179564 TTTTAACTAG
* *
32179574 AGTTTTTAATTCTAGTTTAATA
1 AGTTTTTAATTCTAATTGAATA
32179596 AGTTTTTCAATTC-AATTGAATA
1 AGTTTTT-AATTCTAATTGAATA
32179618 A
1 A
32179619 CCACATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.36, C:0.07, G:0.09, T:0.49
Consensus pattern (22 bp):
AGTTTTTAATTCTAATTGAATA
Found at i:32181139 original size:5 final size:5
Alignment explanation
Indices: 32181129--32181180 Score: 50
Period size: 5 Copynumber: 9.8 Consensus size: 5
32181119 GAGATCGGGT
* * *
32181129 TTTTA TTTTA TTTTA TTTTA TTATA TCTTTG TTTTA GTTTTTA TTTTG
1 TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA --TTTTA TTTTA
32181177 TTTT
1 TTTT
32181181 TCAGGAACTC
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
5 31 0.79
6 3 0.08
7 5 0.13
ACGTcount: A:0.15, C:0.02, G:0.06, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:32183904 original size:30 final size:29
Alignment explanation
Indices: 32183870--32184023 Score: 129
Period size: 28 Copynumber: 5.3 Consensus size: 29
32183860 AAAAGGACAC
32183870 GCCTTTGTGGCAAATCTCTGTTAAAGGTAA
1 GCCTTTGTGGCAAA-CTCTGTTAAAGGTAA
* **
32183900 GCCTTTGTGGCAAAC-CTCTTAAAGGTCT
1 GCCTTTGTGGCAAACTCTGTTAAAGGTAA
32183928 GCCTTTGTGG-AAAGTCTCTGTTAAAGGTAA
1 GCCTTTGTGGCAAA--CTCTGTTAAAGGTAA
* * * *
32183958 GCATTTGTGGCGAAC-CTCTTAAAGG-ATT
1 GCCTTTGTGGCAAACTCTGTTAAAGGTA-A
* * *
32183986 TCCTTTATGGCAAAACTCTG-AAAAGGTAA
1 GCCTTTGTGGC-AAACTCTGTTAAAGGTAA
*
32184015 GCATTTGTG
1 GCCTTTGTG
32184024 ATGAATCTCT
Statistics
Matches: 96, Mismatches: 20, Indels: 17
0.72 0.15 0.13
Matches are distributed among these distances:
27 4 0.04
28 37 0.39
29 17 0.18
30 36 0.38
31 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (29 bp):
GCCTTTGTGGCAAACTCTGTTAAAGGTAA
Found at i:32183935 original size:58 final size:57
Alignment explanation
Indices: 32183870--32184058 Score: 229
Period size: 58 Copynumber: 3.3 Consensus size: 57
32183860 AAAAGGACAC
* *
32183870 GCCTTTGTGGCAAATCTCTGTTAAAGGTAAGCCTTTGTGGCAAACCTCTTAAAGGTCT
1 GCCTTTGTGGCAAATCTCTGTTAAAGGTAAGCATTTGTGGCGAACCTCTTAAAGGT-T
32183928 GCCTTTGTGG-AAAGTCTCTGTTAAAGGTAAGCATTTGTGGCGAACCTCTTAAAGGATT
1 GCCTTTGTGGCAAA-TCTCTGTTAAAGGTAAGCATTTGTGGCGAACCTCTTAAAGG-TT
* * * * ** * *
32183986 TCCTTTATGGCAAAACTCTG-AAAAGGTAAGCATTTGTGATGAATCTCTTAAAGGAT
1 GCCTTTGTGGCAAATCTCTGTTAAAGGTAAGCATTTGTGGCGAACCTCTTAAAGGTT
* *
32184042 GACTTTTTGGCAAATCT
1 GCCTTTGTGGCAAATCT
32184059 TTGAAAGGAA
Statistics
Matches: 114, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
56 14 0.12
57 33 0.29
58 63 0.55
59 4 0.04
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (57 bp):
GCCTTTGTGGCAAATCTCTGTTAAAGGTAAGCATTTGTGGCGAACCTCTTAAAGGTT
Found at i:32187050 original size:30 final size:30
Alignment explanation
Indices: 32187016--32187078 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
32187006 CACATGTGCC
32187016 AGATTCCTACCACTAAGGC-TCACATATAAT
1 AGATTCCTACCACTAAGGCGT-ACATATAAT
* * *
32187046 AGATTCTTGCCACTAGGGCGTACATATAAT
1 AGATTCCTACCACTAAGGCGTACATATAAT
32187076 AGA
1 AGA
32187079 GAAAACCACA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (30 bp):
AGATTCCTACCACTAAGGCGTACATATAAT
Found at i:32190312 original size:12 final size:12
Alignment explanation
Indices: 32190295--32190339 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
32190285 CAAATCAGGC
32190295 AAAGAAAGGGAA
1 AAAGAAAGGGAA
*
32190307 AAAGAAAGGAAA
1 AAAGAAAGGGAA
*
32190319 AAAGAGAGGGAA
1 AAAGAAAGGGAA
*
32190331 AAAGGAAGG
1 AAAGAAAGG
32190340 AAATATTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (12 bp):
AAAGAAAGGGAA
Found at i:32190322 original size:24 final size:24
Alignment explanation
Indices: 32190295--32190342 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
32190285 CAAATCAGGC
32190295 AAAGAAAGGGAAAAAGAAAGGAAA
1 AAAGAAAGGGAAAAAGAAAGGAAA
* *
32190319 AAAGAGAGGGAAAAAGGAAGGAAA
1 AAAGAAAGGGAAAAAGAAAGGAAA
32190343 TATTTTTCAA
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:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (24 bp):
AAAGAAAGGGAAAAAGAAAGGAAA
Found at i:32193848 original size:15 final size:15
Alignment explanation
Indices: 32193828--32193877 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
32193818 GTTATTTTAT
32193828 TAATTTTGTTTTGAC
1 TAATTTTGTTTTGAC
**
32193843 TAATTTTGTTATTTTC
1 TAATTTTGTT-TTGAC
*
32193859 TTAATTTTATTTTGAC
1 -TAATTTTGTTTTGAC
32193875 TAA
1 TAA
32193878 AATTATTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 13 0.46
16 6 0.21
17 9 0.32
ACGTcount: A:0.24, C:0.06, G:0.08, T:0.62
Consensus pattern (15 bp):
TAATTTTGTTTTGAC
Found at i:32193857 original size:32 final size:32
Alignment explanation
Indices: 32193816--32193877 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
32193806 TTATTCAAAG
*
32193816 TTGTTATTTTATTAATTTTGTTTTGACTAATT
1 TTGTTATTTTATTAATTTTATTTTGACTAATT
*
32193848 TTGTTATTTTCTTAATTTTATTTTGACTAA
1 TTGTTATTTTATTAATTTTATTTTGACTAA
32193878 AATTATTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.23, C:0.05, G:0.08, T:0.65
Consensus pattern (32 bp):
TTGTTATTTTATTAATTTTATTTTGACTAATT
Found at i:32193865 original size:17 final size:17
Alignment explanation
Indices: 32193816--32193866 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
32193806 TTATTCAAAG
*
32193816 TTGTTATTTTATTAATT
1 TTGTTATTTTCTTAATT
**
32193833 TTGTT-TTGAC-TAATT
1 TTGTTATTTTCTTAATT
32193848 TTGTTATTTTCTTAATT
1 TTGTTATTTTCTTAATT
32193865 TT
1 TT
32193867 ATTTTGACTA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
15 10 0.37
16 5 0.19
17 12 0.44
ACGTcount: A:0.20, C:0.04, G:0.08, T:0.69
Consensus pattern (17 bp):
TTGTTATTTTCTTAATT
Found at i:32219941 original size:15 final size:15
Alignment explanation
Indices: 32219901--32219942 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
32219891 GTTCATAATG
32219901 TGAGTGCTCGCAGCA
1 TGAGTGCTCGCAGCA
** *
32219916 TTTGTGTTCGCAGCA
1 TGAGTGCTCGCAGCA
32219931 TGAGTGCTCGCA
1 TGAGTGCTCGCA
32219943 ATACTAGTGC
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.17, C:0.24, G:0.31, T:0.29
Consensus pattern (15 bp):
TGAGTGCTCGCAGCA
Found at i:32224103 original size:11 final size:11
Alignment explanation
Indices: 32224080--32224125 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
32224070 AATGTACTAA
32224080 TTTTTTGAA--
1 TTTTTTGAATT
32224089 TTTTTTGAATT
1 TTTTTTGAATT
*
32224100 TTTTTTGAGTT
1 TTTTTTGAATT
*
32224111 TTTTTT-CATT
1 TTTTTTGAATT
32224121 TTTTT
1 TTTTT
32224126 AAAAACATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
9 9 0.28
10 7 0.22
11 16 0.50
ACGTcount: A:0.13, C:0.02, G:0.09, T:0.76
Consensus pattern (11 bp):
TTTTTTGAATT
Found at i:32224114 original size:9 final size:9
Alignment explanation
Indices: 32224078--32224103 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
32224068 TAAATGTACT
32224078 AATTTTTTG
1 AATTTTTTG
32224087 AATTTTTTG
1 AATTTTTTG
32224096 AATTTTTT
1 AATTTTTT
32224104 TTGAGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (9 bp):
AATTTTTTG
Found at i:32227073 original size:21 final size:21
Alignment explanation
Indices: 32227030--32227083 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
32227020 GGAAAAAGTT
* **
32227030 AAAATATAAAAATTAAATTAA
1 AAAATATAAAAAGTAAAACAA
*
32227051 AAAATATAAATAGTAAAAC-A
1 AAAATATAAAAAGTAAAACAA
32227071 AAAATAATAAAAA
1 AAAAT-ATAAAAA
32227084 AGGGCTAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 6 0.22
21 21 0.78
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (21 bp):
AAAATATAAAAAGTAAAACAA
Found at i:32238033 original size:15 final size:15
Alignment explanation
Indices: 32238015--32238085 Score: 52
Period size: 15 Copynumber: 4.7 Consensus size: 15
32238005 TTGCAACATG
32238015 AGTGTTCGCAATATC
1 AGTGTTCGCAATATC
* * *
32238030 AGTGTTCACAATGTG
1 AGTGTTCGCAATATC
** * **
32238045 AGTGCCCGTAACGTC
1 AGTGTTCGCAATATC
*
32238060 AGTGTTCGCAATATG
1 AGTGTTCGCAATATC
*
32238075 AGTGCTCGCAA
1 AGTGTTCGCAA
32238086 CACCAATTCT
Statistics
Matches: 40, Mismatches: 16, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
15 40 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.28
Consensus pattern (15 bp):
AGTGTTCGCAATATC
Found at i:32247611 original size:26 final size:26
Alignment explanation
Indices: 32247571--32247649 Score: 140
Period size: 26 Copynumber: 3.0 Consensus size: 26
32247561 TTAAATGCAC
*
32247571 AGACAAGGAATCTTGTCGACGCATTT
1 AGACAAGGAATCTTGTCGACGCATCT
*
32247597 AGATAAGGAATCTTGTCGACGCATCT
1 AGACAAGGAATCTTGTCGACGCATCT
32247623 AGACAAGGAATCTTGTCGACGCATCT
1 AGACAAGGAATCTTGTCGACGCATCT
32247649 A
1 A
32247650 CAAATGGTCC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (26 bp):
AGACAAGGAATCTTGTCGACGCATCT
Found at i:32255587 original size:20 final size:20
Alignment explanation
Indices: 32255554--32255592 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
32255544 ATATTCCCTA
*
32255554 AATTAATTTTTTTTAGTTTTT
1 AATTAATTTGTTTTA-TTTTT
32255575 AATT-ATTTGTTTTATTTT
1 AATTAATTTGTTTTATTTT
32255593 ATTACTAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (20 bp):
AATTAATTTGTTTTATTTTT
Found at i:32258263 original size:21 final size:22
Alignment explanation
Indices: 32258239--32258280 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
32258229 AATAAAAAAG
32258239 AAAAGAAAAATGAGT-AGAAAC
1 AAAAGAAAAATGAGTAAGAAAC
**
32258260 AAAAGAATCATGAGTAAGAAA
1 AAAAGAAAAATGAGTAAGAAA
32258281 ACGTGTGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.64, C:0.05, G:0.19, T:0.12
Consensus pattern (22 bp):
AAAAGAAAAATGAGTAAGAAAC
Found at i:32261571 original size:36 final size:36
Alignment explanation
Indices: 32261524--32261598 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
32261514 AACTGGTCAG
32261524 TTAGTTCAAGATTCAAACATTCACACTATCCATTCA
1 TTAGTTCAAGATTCAAACATTCACACTATCCATTCA
32261560 TTAGTTCAAGATTCAAACATTCACACTATCCATTCA
1 TTAGTTCAAGATTCAAACATTCACACTATCCATTCA
32261596 TTA
1 TTA
32261599 CTGAAGCAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (36 bp):
TTAGTTCAAGATTCAAACATTCACACTATCCATTCA
Found at i:32261923 original size:17 final size:17
Alignment explanation
Indices: 32261884--32261941 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
32261874 ATATATATGG
**
32261884 AAATGCAATGACAATGT
1 AAATGCAATGACAATAA
* *
32261901 AGATGCAGTGACAATAA
1 AAATGCAATGACAATAA
*
32261918 AAATGCAATGACATTAA
1 AAATGCAATGACAATAA
*
32261935 TAATGCA
1 AAATGCA
32261942 GGGACAATTA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.48, C:0.12, G:0.17, T:0.22
Consensus pattern (17 bp):
AAATGCAATGACAATAA
Found at i:32261941 original size:34 final size:34
Alignment explanation
Indices: 32261884--32261949 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
32261874 ATATATATGG
* *
32261884 AAATGCAATGACAATGTAGATGCAGTGACAATAA
1 AAATGCAATGACAATATAGATGCAGGGACAATAA
*
32261918 AAATGCAATGACATTAATA-ATGCAGGGACAAT
1 AAATGCAATGACAAT-ATAGATGCAGGGACAAT
32261950 TATACTACAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 26 0.93
35 2 0.07
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.21
Consensus pattern (34 bp):
AAATGCAATGACAATATAGATGCAGGGACAATAA
Found at i:32261947 original size:17 final size:17
Alignment explanation
Indices: 32261884--32261949 Score: 60
Period size: 17 Copynumber: 3.9 Consensus size: 17
32261874 ATATATATGG
* **
32261884 AAATGCAATGACAATGT
1 AAATGCAGTGACAATAA
*
32261901 AGATGCAGTGACAATAA
1 AAATGCAGTGACAATAA
* *
32261918 AAATGCAATGACATTAA
1 AAATGCAGTGACAATAA
* *
32261935 TAATGCAGGGACAAT
1 AAATGCAGTGACAAT
32261950 TATACTACAG
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.21
Consensus pattern (17 bp):
AAATGCAGTGACAATAA
Found at i:32263984 original size:50 final size:50
Alignment explanation
Indices: 32263930--32264055 Score: 128
Period size: 53 Copynumber: 2.5 Consensus size: 50
32263920 TGACCCACTG
* * *
32263930 CAACTTCAGTGGTATAGGATTTGATGTCATAGCTTCATTTTG-CTCTATTA
1 CAACTTCAGGGGTATAGGATTTGATGTCATAGATTCAATTTGAC-CTATTA
* * * * *
32263980 CAACTTTAGGGAGATAATAAGATTTGCTTTTATAGATTCAATTTGACCTATTA
1 CAACTTCAGGG-G-T-ATAGGATTTGATGTCATAGATTCAATTTGACCTATTA
*
32264033 TAACTTCAGGGGTATAGGATTTG
1 CAACTTCAGGGGTATAGGATTTG
32264056 GTTTTGTAGC
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
50 18 0.30
51 2 0.03
52 2 0.03
53 38 0.62
54 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.40
Consensus pattern (50 bp):
CAACTTCAGGGGTATAGGATTTGATGTCATAGATTCAATTTGACCTATTA
Found at i:32264263 original size:102 final size:102
Alignment explanation
Indices: 32264114--32264763 Score: 759
Period size: 102 Copynumber: 6.4 Consensus size: 102
32264104 TTTGTTTCTG
* * *
32264114 TAGTTTTAAT-CGACCCACTTCAACTTCAGGGGTATAGGATTTGGTGTTGTAACTTCACTCCATT
1 TAGTTTTAATCCGATCCACTACAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATT
* * * *
32264178 CCACTACAACTTCATGGAGATTGAGACCCACTACTAT
66 CCACTGCAACTTCAAGGAGATTGAGATCCGCTACTAT
* * **
32264215 TAGTTTTAATCCAATCCACTGCAACTTCAGGGATATAGGATTCAGTGTTGTAACTTCACTCCATT
1 TAGTTTTAATCCGATCCACTACAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATT
* * *
32264280 CCACTGTAACTTTAGGGAGATTGAGATCCGCTACTAT
66 CCACTGCAACTTCAAGGAGATTGAGATCCGCTACTAT
** * ** *
32264317 TAGTTTTAATTTGATCCACTACAACTTTAGGGATATAGGATTTATTATTGTAACTTCACTCCATT
1 TAGTTTTAATCCGATCCACTACAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATT
* * * * * * *
32264382 CCATTGCAACTTTAGGGAAATTGAGATCCGTTATTGT
66 CCACTGCAACTTCAAGGAGATTGAGATCCGCTACTAT
* * * * * *
32264419 TAGTTTTAATTCGATCCACTACAACTTTAAGGATATAGGATTTGATGTTGTAACTTTATTCCATT
1 TAGTTTTAATCCGATCCACTACAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATT
* * **
32264484 CCATTGTAACTTCAAGGAGATTGAGATATGCTACTAT
66 CCACTGCAACTTCAAGGAGATTGAGATCCGCTACTAT
* * * * *
32264521 TAGTTTTATTCTGATCCATTACAA-ATCTAGGGATATAGGATTTGGTGTTGTAACTTCACTTCAT
1 TAGTTTTAATCCGATCCACTACAACTTC-AGGGATATAGGATTTGGTGTTGTAACTTCACTCCAT
*
32264585 TCCACTGCAACTTCAAGGAGATTGAGATCCACTACTAT
65 TCCACTGCAACTTCAAGGAGATTGAGATCCGCTACTAT
** * ** *
32264623 TAGTTTTAATTTGATCCATTGTAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCTATT
1 TAGTTTTAATCCGATCCACTACAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATT
* * *
32264688 CCATTGCAACTTCAAGGAGATTGAGATCTGCTACTGT
66 CCACTGCAACTTCAAGGAGATTGAGATCCGCTACTAT
* **
32264725 T-GTTTTACTCC-ATTCCACCGCAACTTCAGGGATATAGGA
1 TAGTTTTAATCCGA-TCCACTACAACTTCAGGGATATAGGA
32264764 GTTTTCTATC
Statistics
Matches: 470, Mismatches: 75, Indels: 8
0.85 0.14 0.01
Matches are distributed among these distances:
100 1 0.00
101 41 0.09
102 426 0.91
103 2 0.00
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (102 bp):
TAGTTTTAATCCGATCCACTACAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATT
CCACTGCAACTTCAAGGAGATTGAGATCCGCTACTAT
Found at i:32264291 original size:50 final size:50
Alignment explanation
Indices: 32264128--32264297 Score: 135
Period size: 50 Copynumber: 3.4 Consensus size: 50
32264118 TTTAATCGAC
* * **
32264128 CCACTTCAACTTCAGGGGTATAGGATTTGGTGTTGTAACTTCACTCCATT
1 CCACTGCAACTTCAGGGATATAGGATTCAGTGTTGTAACTTCACTCCATT
* * * * ** * * ** * * *
32264178 CCACTACAACTTCATGGAGATTGAGACCCACTACTAT-TAGTTTTAATCCAAT
1 CCACTGCAACTTCAGGGATATAG-GATTCAGT-GT-TGTAACTTCACTCCATT
32264230 CCACTGCAACTTCAGGGATATAGGATTCAGTGTTGTAACTTCACTCCATT
1 CCACTGCAACTTCAGGGATATAGGATTCAGTGTTGTAACTTCACTCCATT
* *
32264280 CCACTGTAACTTTAGGGA
1 CCACTGCAACTTCAGGGA
32264298 GATTGAGATC
Statistics
Matches: 85, Mismatches: 31, Indels: 8
0.69 0.25 0.06
Matches are distributed among these distances:
49 1 0.01
50 45 0.53
51 8 0.09
52 30 0.35
53 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (50 bp):
CCACTGCAACTTCAGGGATATAGGATTCAGTGTTGTAACTTCACTCCATT
Found at i:32265278 original size:20 final size:20
Alignment explanation
Indices: 32265253--32265297 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
32265243 TGAAAGGATT
*
32265253 AAAAATAGCCAACATCGGTA
1 AAAAATAGCAAACATCGGTA
*
32265273 AAAAATGGCAAACATCGGTA
1 AAAAATAGCAAACATCGGTA
32265293 AAAAA
1 AAAAA
32265298 ATACTAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.56, C:0.16, G:0.16, T:0.13
Consensus pattern (20 bp):
AAAAATAGCAAACATCGGTA
Found at i:32277943 original size:12 final size:13
Alignment explanation
Indices: 32277920--32277948 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
32277910 GATCAAGACG
32277920 AGAAAGAGAAAGA
1 AGAAAGAGAAAGA
32277933 AGAAA-AGAAAGA
1 AGAAAGAGAAAGA
32277945 AGAA
1 AGAA
32277949 GCAGAGTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (13 bp):
AGAAAGAGAAAGA
Found at i:32283831 original size:12 final size:12
Alignment explanation
Indices: 32283814--32283838 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32283804 CTTCTACCGA
32283814 TACATGAGTGAG
1 TACATGAGTGAG
32283826 TACATGAGTGAG
1 TACATGAGTGAG
32283838 T
1 T
32283839 TCTACTGAAA
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:0.32, C:0.08, G:0.32, T:0.28
Consensus pattern (12 bp):
TACATGAGTGAG
Found at i:32286238 original size:150 final size:150
Alignment explanation
Indices: 32285957--32286255 Score: 463
Period size: 150 Copynumber: 2.0 Consensus size: 150
32285947 TGATAACTGT
32285957 TATTATATGCAAACTCTACCAACGACAGATATTTTTCCCAGCTTCCCTCAAACTCAAGTATACAA
1 TATTATATGCAAACTCTACCAACGACAGATATTTTTCCCAGCTTCCCTCAAACTCAAGTATACAA
* *
32286022 CACCGTAACATATCTTAAAGAATCTGAATCACTCGCTCGGATTGGCCATCCGTTTGTGAATCATA
66 CACCGTAACATATCTTAAAGAATCTGAATCACTCGCTCAGATTGGCCATCCGTTTGCGAATCATA
*
32286087 TGTAGTGCTGAAATTCAGTC
131 TGTAGTGCTAAAATTCAGTC
* * ** *
32286107 TATTATATGCAAACTCTACCAGCGACAGATATTTTTCCTAGCTTCCCTCAAACTTGAGTATACAG
1 TATTATATGCAAACTCTACCAACGACAGATATTTTTCCCAGCTTCCCTCAAACTCAAGTATACAA
* * * * * * *
32286172 TATCGTAGCATATCTTATAGAATCTGAATCACTCGCTTAGATTGGCCATCCGTTTGCGGATGATA
66 CACCGTAACATATCTTAAAGAATCTGAATCACTCGCTCAGATTGGCCATCCGTTTGCGAATCATA
32286237 TGTAGTGCTAAAATTCAGT
131 TGTAGTGCTAAAATTCAGT
32286256 TTGGTTCCTA
Statistics
Matches: 134, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
150 134 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (150 bp):
TATTATATGCAAACTCTACCAACGACAGATATTTTTCCCAGCTTCCCTCAAACTCAAGTATACAA
CACCGTAACATATCTTAAAGAATCTGAATCACTCGCTCAGATTGGCCATCCGTTTGCGAATCATA
TGTAGTGCTAAAATTCAGTC
Found at i:32299868 original size:52 final size:52
Alignment explanation
Indices: 32299793--32300032 Score: 390
Period size: 52 Copynumber: 4.6 Consensus size: 52
32299783 TCATTTCATT
* * *
32299793 ATATACTCACGATGACATATAGCCACCGGACCTCATAATCTGTAAAGGATTC
1 ATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGGATTC
* *
32299845 ATATACTCACGATGACACATAGCCATCAGACCACATAATCCGTAAAGGATTC
1 ATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGGATTC
*
32299897 ATATACTCACGATGATACATAGCCATCGGACCTCATAATCCGTAAAGGATTC
1 ATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGGATTC
* *
32299949 ATATACTCACGATGACACATAGCTATCGGACCTCATAATTCGTAAAGGATTC
1 ATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGGATTC
* *
32300001 ATAGACTCACGATGACACATAGCCGTCGGACC
1 ATATACTCACGATGACACATAGCCATCGGACC
32300033 CTTTTTCATT
Statistics
Matches: 174, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 174 1.00
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (52 bp):
ATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGGATTC
Found at i:32319791 original size:21 final size:22
Alignment explanation
Indices: 32319757--32319804 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
32319747 GGTTGATATG
* *
32319757 AAGGAGAAGAAAGAGGAAGCAC
1 AAGGACAAGAAAGAAGAAGCAC
32319779 AAGGACAA-AAAGAAGAAGCAC
1 AAGGACAAGAAAGAAGAAGCAC
32319800 AAGGA
1 AAGGA
32319805 GGAAGGAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.58, C:0.10, G:0.31, T:0.00
Consensus pattern (22 bp):
AAGGACAAGAAAGAAGAAGCAC
Found at i:32323401 original size:38 final size:38
Alignment explanation
Indices: 32323353--32323446 Score: 120
Period size: 37 Copynumber: 2.5 Consensus size: 38
32323343 ACCACTCTGA
*
32323353 CCACCTTGCACACCACAATTGGGCTATAGTAGGAC-CAT
1 CCACCATGCACACCACAATTGGGCTATAGTAGG-CTCAT
* *
32323391 CCACCATGCACACCACAA-TGGGCTATGGTAGGCTCGT
1 CCACCATGCACACCACAATTGGGCTATAGTAGGCTCAT
* *
32323428 CCACCCTACACACCACAAT
1 CCACCATGCACACCACAAT
32323447 AGTGGATCTA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
36 1 0.02
37 31 0.63
38 17 0.35
ACGTcount: A:0.29, C:0.36, G:0.17, T:0.18
Consensus pattern (38 bp):
CCACCATGCACACCACAATTGGGCTATAGTAGGCTCAT
Found at i:32337844 original size:18 final size:18
Alignment explanation
Indices: 32337823--32337866 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
32337813 TTTTTTTTAT
32337823 TTTTTTATTTTTCTCATA-
1 TTTTTTATTTTTCTC-TAC
32337841 TTTTTCT-TTTTTCTCTAC
1 TTTTT-TATTTTTCTCTAC
32337859 TTTTTTAT
1 TTTTTTAT
32337867 CACTTTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 3 0.13
18 19 0.83
19 1 0.04
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTTTATTTTTCTCTAC
Found at i:32339573 original size:26 final size:26
Alignment explanation
Indices: 32339554--32339616 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
32339544 ACTGTATTGC
32339554 CTCGTAAGAGCGATATACTGTAGTAA
1 CTCGTAAGAGCGATATACTGTAGTAA
* *
32339580 CTCGTAAGAGCGATTTACTG-ACTAGA
1 CTCGTAAGAGCGATATACTGTAGTA-A
*
32339606 CTCGTATGAGC
1 CTCGTAAGAGC
32339617 AAAATTTACT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 3 0.09
26 30 0.91
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (26 bp):
CTCGTAAGAGCGATATACTGTAGTAA
Found at i:32339669 original size:26 final size:26
Alignment explanation
Indices: 32339640--32339814 Score: 85
Period size: 26 Copynumber: 7.0 Consensus size: 26
32339630 AGACTTGAAG
*
32339640 ATACTATACTGGCTCGTAGGAGCAAT
1 ATACTATACTGGCTCGTAAGAGCAAT
* *
32339666 ATACTATATTGGCTCGTAAGAGCGAT
1 ATACTATACTGGCTCGTAAGAGCAAT
* * *
32339692 TTACT-GACTGGACTCGTATGAGCAA-
1 ATACTATACTGG-CTCGTAAGAGCAAT
* * ** ** *
32339717 A-A-TTTACTAG-AAG-ACTAG-AAG
1 ATACTATACTGGCTCGTAAGAGCAAT
* * **
32339738 ATACTATACTGGCTCATGAGAGTGAT
1 ATACTATACTGGCTCGTAAGAGCAAT
* * *
32339764 ATACTATACTGGCTCATGAGAGCGAT
1 ATACTATACTGGCTCGTAAGAGCAAT
* * *
32339790 CTACTGTACTGGCTCGTATGAGCAA
1 ATACTATACTGGCTCGTAAGAGCAA
32339815 AATTTACTGA
Statistics
Matches: 109, Mismatches: 32, Indels: 16
0.69 0.20 0.10
Matches are distributed among these distances:
20 2 0.02
21 4 0.04
22 2 0.02
23 7 0.06
24 5 0.05
25 6 0.06
26 83 0.76
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (26 bp):
ATACTATACTGGCTCGTAAGAGCAAT
Found at i:32339706 original size:98 final size:98
Alignment explanation
Indices: 32339530--32339887 Score: 434
Period size: 98 Copynumber: 3.6 Consensus size: 98
32339520 AATGAGGTGT
* * * * * * **
32339530 AAGACTTTGAAGATACTGTATTGCCTCGTAAGAGCGATATACTGTAGTAACTCGTAAGAGCGATT
1 AAGAC-TTGAAGATACTATACTGGCTCGTAAGAGCAATATACTATACTGGCTCGTAAGAGCGATT
*
32339595 TACTGACTAGACTCGTATGAGCAAAATTTACTAG
65 TACTGACTGGACTCGTATGAGCAAAATTTACTAG
* * *
32339629 GAGACTTGAAGATACTATACTGGCTCGTAGGAGCAATATACTATATTGGCTCGTAAGAGCGATTT
1 AAGACTTGAAGATACTATACTGGCTCGTAAGAGCAATATACTATACTGGCTCGTAAGAGCGATTT
32339694 ACTGACTGGACTCGTATGAGCAAAATTTACTAG
66 ACTGACTGGACTCGTATGAGCAAAATTTACTAG
* * * ** * * *
32339727 AAGACTAGAAGATACTATACTGGCTCATGAGAGTGATATACTATACTGGCTCATGAGAGCGATCT
1 AAGACTTGAAGATACTATACTGGCTCGTAAGAGCAATATACTATACTGGCTCGTAAGAGCGATTT
32339792 ACTGTACTGG-CTCGTATGAGCAAAATTTACT-G
66 ACTG-ACTGGACTCGTATGAGCAAAATTTACTAG
* * * * *
32339824 AAAGACTTGAAGATACTGTACTGGCTCGAAAGAGAAATATATTGA-ACTGGCTCGTAAGAACGAT
1 -AAGACTTGAAGATACTATACTGGCTCGTAAGAGCAATATACT-ATACTGGCTCGTAAGAGCGAT
32339888 ATATTAATTA
Statistics
Matches: 223, Mismatches: 33, Indels: 7
0.85 0.13 0.03
Matches are distributed among these distances:
97 1 0.00
98 212 0.95
99 10 0.04
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.28
Consensus pattern (98 bp):
AAGACTTGAAGATACTATACTGGCTCGTAAGAGCAATATACTATACTGGCTCGTAAGAGCGATTT
ACTGACTGGACTCGTATGAGCAAAATTTACTAG
Found at i:32340991 original size:26 final size:26
Alignment explanation
Indices: 32340917--32341072 Score: 85
Period size: 26 Copynumber: 6.2 Consensus size: 26
32340907 GACTCTGAAG
* * * *
32340917 ATACTATATTGGCTCGTAAAAGCGAT
1 ATACTGTACTGGCTAGTAAGAGCGAT
32340943 ATACTGTACTGGCTAGTAAGAGCGAT
1 ATACTGTACTGGCTAGTAAGAGCGAT
* * *
32340969 TTACTG-ACTGGACTCGTATGAGC-A-
1 ATACTGTACTGG-CTAGTAAGAGCGAT
* * ** * * *
32340993 A-AATTTACTAGGAGACT-TGA-AGAT
1 ATACTGTACT-GGCTAGTAAGAGCGAT
*
32341017 AT--TGTACTGGCTCGTAAGAGCGAT
1 ATACTGTACTGGCTAGTAAGAGCGAT
*
32341041 ATACTGTACTGGCTCGTAAGAGCGAT
1 ATACTGTACTGGCTAGTAAGAGCGAT
*
32341067 TTACTG
1 ATACTG
32341073 ACTAGACTCG
Statistics
Matches: 97, Mismatches: 23, Indels: 20
0.69 0.16 0.14
Matches are distributed among these distances:
22 3 0.03
23 13 0.13
24 10 0.10
25 8 0.08
26 63 0.65
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (26 bp):
ATACTGTACTGGCTAGTAAGAGCGAT
Found at i:32341041 original size:24 final size:25
Alignment explanation
Indices: 32341014--32341066 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 25
32341004 GAGACTTGAA
32341014 GATAT-TGTACTGGCTCGTAAGAGC
1 GATATATGTACTGGCTCGTAAGAGC
32341038 GATATACTGTACTGGCTCGTAAGAGC
1 GATATA-TGTACTGGCTCGTAAGAGC
32341064 GAT
1 GAT
32341067 TTACTGACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 5 0.19
26 22 0.81
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (25 bp):
GATATATGTACTGGCTCGTAAGAGC
Found at i:32341081 original size:98 final size:98
Alignment explanation
Indices: 32340906--32341261 Score: 525
Period size: 98 Copynumber: 3.6 Consensus size: 98
32340896 ACGAGATGGA
* * *
32340906 AGACTCTGAAGATACTATATTGGCTCGTAAAAGCGATATACTGTACTGGCTAGTAAGAGCGATTT
1 AGACT-TGAAGATACTATACTGGCTCGTAAGAGCGATATACTGTACTGGCTCGTAAGAGCGATTT
32340971 ACTGACTGGACTCGTATGAGCAAAATTTACTAGG
65 ACTGACTGGACTCGTATGAGCAAAATTTACTAGG
* *
32341005 AGACTTGAAGATATTGTACTGGCTCGTAAGAGCGATATACTGTACTGGCTCGTAAGAGCGATTTA
1 AGACTTGAAGATACTATACTGGCTCGTAAGAGCGATATACTGTACTGGCTCGTAAGAGCGATTTA
* *
32341070 CTGACTAGACTCGTATGAGTAAAATTTACTAGG
66 CTGACTGGACTCGTATGAGCAAAATTTACTAGG
* * * *
32341103 AGACTTGAAGATACTGTACTGGCTCATAAGAGCGATATACTGTACTGGCTCATAAGAACG-TTTA
1 AGACTTGAAGATACTATACTGGCTCGTAAGAGCGATATACTGTACTGGCTCGTAAGAGCGATTTA
* * * *
32341167 CTGATTGGGCTCATATGAGCAAAATTTACTGGG
66 CTGACTGGACTCGTATGAGCAAAATTTACTAGG
* * * *
32341200 AGACTTGAAGATACTATACTGGCTCGGAAGAGCGATATAATGAACTGGCTTGTAAGAGCGAT
1 AGACTTGAAGATACTATACTGGCTCGTAAGAGCGATATACTGTACTGGCTCGTAAGAGCGAT
32341262 ATATTAATTA
Statistics
Matches: 231, Mismatches: 25, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
97 83 0.36
98 143 0.62
99 5 0.02
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (98 bp):
AGACTTGAAGATACTATACTGGCTCGTAAGAGCGATATACTGTACTGGCTCGTAAGAGCGATTTA
CTGACTGGACTCGTATGAGCAAAATTTACTAGG
Found at i:32341082 original size:26 final size:26
Alignment explanation
Indices: 32341019--32341084 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 26
32341009 TTGAAGATAT
*
32341019 TGTACTGGCTCGTAAGAGCGATATAC
1 TGTACTGACTCGTAAGAGCGATATAC
* *
32341045 TGTACTGGCTCGTAAGAGCGATTTAC
1 TGTACTGACTCGTAAGAGCGATATAC
32341071 TG-ACTAGACTCGTA
1 TGTACT-GACTCGTA
32341085 TGAGTAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 3 0.08
26 34 0.92
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (26 bp):
TGTACTGACTCGTAAGAGCGATATAC
Found at i:32341181 original size:25 final size:26
Alignment explanation
Indices: 32341113--32341162 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
32341103 AGACTTGAAG
*
32341113 ATACTGTACTGGCTCATAAGAGCGAT
1 ATACTGTACTGGCTCATAAGAACGAT
32341139 ATACTGTACTGGCTCATAAGAACG
1 ATACTGTACTGGCTCATAAGAACG
32341163 TTTACTGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (26 bp):
ATACTGTACTGGCTCATAAGAACGAT
Found at i:32341249 original size:195 final size:197
Alignment explanation
Indices: 32340906--32341261 Score: 547
Period size: 195 Copynumber: 1.8 Consensus size: 197
32340896 ACGAGATGGA
* * *
32340906 AGACTCTGAAGATACTATATTGGCTCGTAAAAGCGATATACTGTACTGGCTAGTAAGAGCGATTT
1 AGACTCTGAAGATACTATACTGGCTCATAAAAGCGATATACTGTACTGGCTAGTAAGAACGATTT
* * * *
32340971 ACTGACTGGACTCGTATGAGCAAAATTTACTAGGAGACTTGAAGATATTGTACTGGCTCGTAAGA
66 ACTGACTGGACTCATATGAGCAAAATTTACTAGGAGACTTGAAGATACTATACTGGCTCGGAAGA
* *
32341036 GCGATATACTGTACTGGCTCGTAAGAGCGATTTACTGACTAGACTCGTATGAGTAAAATTTACTA
131 GCGATATAATGAACTGGCTCGTAAGAGCGATTTACTGACTAGACTCGTATGAGTAAAATTTACTA
32341101 GG
196 GG
* *
32341103 AGACT-TGAAGATACTGTACTGGCTCATAAGAGCGATATACTGTACTGGCTCA-TAAGAACG-TT
1 AGACTCTGAAGATACTATACTGGCTCATAAAAGCGATATACTGTACTGGCT-AGTAAGAACGATT
* * *
32341165 TACTGATTGGGCTCATATGAGCAAAATTTACTGGGAGACTTGAAGATACTATACTGGCTCGGAAG
65 TACTGACTGGACTCATATGAGCAAAATTTACTAGGAGACTTGAAGATACTATACTGGCTCGGAAG
*
32341230 AGCGATATAATGAACTGGCTTGTAAGAGCGAT
130 AGCGATATAATGAACTGGCTCGTAAGAGCGAT
32341262 ATATTAATTA
Statistics
Matches: 143, Mismatches: 15, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
195 89 0.62
196 48 0.34
197 6 0.04
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (197 bp):
AGACTCTGAAGATACTATACTGGCTCATAAAAGCGATATACTGTACTGGCTAGTAAGAACGATTT
ACTGACTGGACTCATATGAGCAAAATTTACTAGGAGACTTGAAGATACTATACTGGCTCGGAAGA
GCGATATAATGAACTGGCTCGTAAGAGCGATTTACTGACTAGACTCGTATGAGTAAAATTTACTA
GG
Found at i:32342331 original size:26 final size:26
Alignment explanation
Indices: 32342302--32342375 Score: 112
Period size: 26 Copynumber: 2.8 Consensus size: 26
32342292 AAGACTGAAG
32342302 ATACTGTATTGGCTCGTAAGAGCGAT
1 ATACTGTATTGGCTCGTAAGAGCGAT
*
32342328 ATACTGTATTGGCTCGTAAAAGCGAT
1 ATACTGTATTGGCTCGTAAGAGCGAT
* * *
32342354 ATACTATACTGGCTCATAAGAG
1 ATACTGTATTGGCTCGTAAGAG
32342376 TGATTAACTG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (26 bp):
ATACTGTATTGGCTCGTAAGAGCGAT
Found at i:32342477 original size:72 final size:72
Alignment explanation
Indices: 32342354--32342528 Score: 251
Period size: 72 Copynumber: 2.4 Consensus size: 72
32342344 TAAAAGCGAT
* * * *
32342354 ATACTATACTGGCTCATAAGAGTGATTAACTGACTAGACTTGTATGAGCAAAATTTACTAGGAGA
1 ATACTGTACTGGCTCATAAGAGCGATTTACTGACTAGACTCGTATGAGCAAAATTTACTAGGAGA
32342419 CTTGAAG
66 CTTGAAG
* * *
32342426 ATATTGTACTGGCTCATAAGAGCGATTTACTGACTGGGCTCGTATGAGCAAAATTTACTAGGAGA
1 ATACTGTACTGGCTCATAAGAGCGATTTACTGACTAGACTCGTATGAGCAAAATTTACTAGGAGA
32342491 CTTGAAG
66 CTTGAAG
* * * *
32342498 ATACTGTACTAGCTCGTAAGATCGATATACT
1 ATACTGTACTGGCTCATAAGAGCGATTTACT
32342529 AAACTGGCTC
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 91 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (72 bp):
ATACTGTACTGGCTCATAAGAGCGATTTACTGACTAGACTCGTATGAGCAAAATTTACTAGGAGA
CTTGAAG
Found at i:32342538 original size:26 final size:26
Alignment explanation
Indices: 32342509--32342578 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
32342499 TACTGTACTA
32342509 GCTCGTAAGATCGATATACTAAACTG
1 GCTCGTAAGATCGATATACTAAACTG
* * *
32342535 GCTCATAAGAAT-GATATGCTGAACTG
1 GCTCGTAAG-ATCGATATACTAAACTG
*
32342561 GCTCGTAAGAGCGATATA
1 GCTCGTAAGATCGATATA
32342579 TTAATTATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
25 1 0.03
26 33 0.92
27 2 0.06
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (26 bp):
GCTCGTAAGATCGATATACTAAACTG
Found at i:32343636 original size:26 final size:26
Alignment explanation
Indices: 32343607--32343677 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 26
32343597 TTGAAGATAA
* *
32343607 TGTATTGTCTTGTAAGAGCGATATAC
1 TGTATTGGCTCGTAAGAGCGATATAC
* * *
32343633 TGTACTGGCTCGTAAGAGTGATTTAC
1 TGTATTGGCTCGTAAGAGCGATATAC
*
32343659 TG-ATTGGACTCGTATGAGC
1 TGTATTGG-CTCGTAAGAGC
32343678 AAAATTTACT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
25 4 0.11
26 32 0.89
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (26 bp):
TGTATTGGCTCGTAAGAGCGATATAC
Found at i:32343740 original size:99 final size:100
Alignment explanation
Indices: 32343611--32343794 Score: 298
Period size: 99 Copynumber: 1.9 Consensus size: 100
32343601 AGATAATGTA
* * * * *
32343611 TTGTCTTGTAAGAGCGATATACTGTACTGGCTCGTAAGAGTGATTTACTGATTGGACTCGTATGA
1 TTGTCTTGGAAGAGCGATATACTGTACTGGCTCGTAAGAGCGATTTACTGACTAGACTCATATGA
32343676 GCAAAATTTACTGGGAGACTCTAAAGATACTATTC
66 GCAAAATTTACTGGGAGACTCTAAAGATACTATTC
*
32343711 TTGT-TTGGAAGAGCGATATACTTTACTGGCTCGTAAGAGCGATTTACTGACTAGACTCATATGA
1 TTGTCTTGGAAGAGCGATATACTGTACTGGCTCGTAAGAGCGATTTACTGACTAGACTCATATGA
*
32343775 GTAAAATTTACTGGGAGACT
66 GCAAAATTTACTGGGAGACT
32343795 TGAAGATTTT
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
99 73 0.95
100 4 0.05
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (100 bp):
TTGTCTTGGAAGAGCGATATACTGTACTGGCTCGTAAGAGCGATTTACTGACTAGACTCATATGA
GCAAAATTTACTGGGAGACTCTAAAGATACTATTC
Found at i:32343892 original size:72 final size:72
Alignment explanation
Indices: 32343726--32343897 Score: 213
Period size: 72 Copynumber: 2.4 Consensus size: 72
32343716 TGGAAGAGCG
* * * **
32343726 ATATACTTTACTGGCTCGTAAGAGCGATTTACTGACTAGACTCATATGAGTAAAATTTACTGGGA
1 ATATACTATACTGGCTCGTAAGAGCGATTTACTAACTAGACTCATATGAGCAAAATTTACAAGGA
32343791 GACTTGA
66 GACTTGA
* ** * *
32343798 AGATTTTATAC-GAGCTCGTAAGAGCGATTTACTAACTAGACTCGTTTGAGCAAAATTTACAAGG
1 ATATACTATACTG-GCTCGTAAGAGCGATTTACTAACTAGACTCATATGAGCAAAATTTACAAGG
32343862 AGACTTGA
65 AGACTTGA
*
32343870 ATATACTGTACTGGCATC-TAAGAGCGAT
1 ATATACTATACTGGC-TCGTAAGAGCGAT
32343898 ATATTATACT
Statistics
Matches: 83, Mismatches: 14, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
71 1 0.01
72 79 0.95
73 3 0.04
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (72 bp):
ATATACTATACTGGCTCGTAAGAGCGATTTACTAACTAGACTCATATGAGCAAAATTTACAAGGA
GACTTGA
Found at i:32343905 original size:98 final size:98
Alignment explanation
Indices: 32343803--32343998 Score: 297
Period size: 98 Copynumber: 2.0 Consensus size: 98
32343793 CTTGAAGATT
*
32343803 TTATAC-GAGCTCGTAAGAGCGATTTACTAACTAGACTCGTTTGAGCAAAATTTACAAGGAGACT
1 TTATACTG-GCTCGTAAGAGCGATTTACTAACTAGACTCGTATGAGCAAAATTTACAAGGAGACT
* *
32343867 TGAATATACTGTACTGGCATC-TAAGAGCGATATA
65 TGAAGATACTGTACTGGC-TCAGAAGAGCGATATA
* * * *
32343901 TTATACTGGCTCGTTAGAGCGATTTACTAACTAGGCTTGTATGAGCAAAATTTACTAGGAGACTT
1 TTATACTGGCTCGTAAGAGCGATTTACTAACTAGACTCGTATGAGCAAAATTTACAAGGAGACTT
32343966 GAAGATACTGTACTGGCTCAGAAGAGCGATATA
66 GAAGATACTGTACTGGCTCAGAAGAGCGATATA
32343999 CTGACTGGGC
Statistics
Matches: 89, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
97 2 0.02
98 86 0.97
99 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (98 bp):
TTATACTGGCTCGTAAGAGCGATTTACTAACTAGACTCGTATGAGCAAAATTTACAAGGAGACTT
GAAGATACTGTACTGGCTCAGAAGAGCGATATA
Found at i:32343964 original size:170 final size:170
Alignment explanation
Indices: 32343629--32344042 Score: 501
Period size: 170 Copynumber: 2.4 Consensus size: 170
32343619 TAAGAGCGAT
* * *
32343629 ATACTGTACTGGCTCGTAAGAGTGATTTACTGATTGGACTCGTATGAGCAAAATTTACTGGGAGA
1 ATACTATACTGGCTCGTAAGAGCGATTTACTGACTGGACTCGTATGAGCAAAATTTACTGGGAGA
* * * ** *
32343694 CTCTAAAGATACTATTCTTGTTTGGAAGAGCGATATACTTTACTGGCTCGTAAGAGCGATTTACT
66 CT-TGAAGATACTATACTGGCATCGAAGAGCGATATACTTTACTGGCTCGTAAGAGCGATTTACT
* * *
32343759 GACTAGACTCATATGAGTAAAATTTACTGGGAGACTTGAAG
130 AACTAGACTCATATGAGCAAAATTTACTAGGAGACTTGAAG
** * * * **
32343800 ATTTTATAC-GAGCTCGTAAGAGCGATTTACTAACTAGACTCGTTTGAGCAAAATTTACAAGGAG
1 ATACTATACTG-GCTCGTAAGAGCGATTTACTGACTGGACTCGTATGAGCAAAATTTACTGGGAG
* * * *
32343864 ACTTGAATATACTGTACTGGCATCTAAGAGCGATATA-TTATACTGGCTCGTTAGAGCGATTTAC
65 ACTTGAAGATACTATACTGGCATCGAAGAGCGATATACTT-TACTGGCTCGTAAGAGCGATTTAC
* **
32343928 TAACTAGGCTTGTATGAGCAAAATTTACTAGGAGACTTGAAG
129 TAACTAGACTCATATGAGCAAAATTTACTAGGAGACTTGAAG
* * * *
32343970 ATACTGTACTGGCTCAG-AAGAGCGATATACTGACTGGGCTCGTATGAGCTAAATTTACTGGGAG
1 ATACTATACTGGCTC-GTAAGAGCGATTTACTGACTGGACTCGTATGAGCAAAATTTACTGGGAG
32344034 ACTTGAAGA
65 ACTTGAAGA
32344043 GATTGTTGGG
Statistics
Matches: 201, Mismatches: 38, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
169 2 0.01
170 142 0.71
171 57 0.28
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.30
Consensus pattern (170 bp):
ATACTATACTGGCTCGTAAGAGCGATTTACTGACTGGACTCGTATGAGCAAAATTTACTGGGAGA
CTTGAAGATACTATACTGGCATCGAAGAGCGATATACTTTACTGGCTCGTAAGAGCGATTTACTA
ACTAGACTCATATGAGCAAAATTTACTAGGAGACTTGAAG
Found at i:32347911 original size:32 final size:32
Alignment explanation
Indices: 32347867--32347959 Score: 102
Period size: 32 Copynumber: 2.9 Consensus size: 32
32347857 GTACCATACC
*
32347867 AAGTTAGT-ATTTGTTATCATTTCACAAAATTA
1 AAGTT-GTAATTTGTTATCATTTCACAAAATGA
*
32347899 AAGTTGTAATTTGTTATCA-TTCAATAAAATGA
1 AAGTTGTAATTTGTTATCATTTC-ACAAAATGA
* *
32347931 AAGATG-ATATATGTTATCATTTCACAAAA
1 AAGTTGTA-ATTTGTTATCATTTCACAAAA
32347960 CCATGTGTCG
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
31 6 0.12
32 43 0.83
33 3 0.06
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.40
Consensus pattern (32 bp):
AAGTTGTAATTTGTTATCATTTCACAAAATGA
Found at i:32350198 original size:23 final size:22
Alignment explanation
Indices: 32350161--32350203 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
32350151 ATTTCAATTT
* *
32350161 TCTTTTTTCTTTTTCTTTTTTG
1 TCTTTTTTCTCTTTCCTTTTTG
32350183 TCTTTGTTTCTCTTTCCTTTT
1 TCTTT-TTTCTCTTTCCTTTT
32350204 ACAGGTATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.00, C:0.19, G:0.05, T:0.77
Consensus pattern (22 bp):
TCTTTTTTCTCTTTCCTTTTTG
Found at i:32354669 original size:12 final size:12
Alignment explanation
Indices: 32354654--32354678 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32354644 TTTAATCATG
32354654 AGTTTATAAAAT
1 AGTTTATAAAAT
32354666 AGTTTATAAAAT
1 AGTTTATAAAAT
32354678 A
1 A
32354679 TATTTATATT
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:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (12 bp):
AGTTTATAAAAT
Found at i:32354833 original size:11 final size:10
Alignment explanation
Indices: 32354740--32354829 Score: 60
Period size: 10 Copynumber: 9.1 Consensus size: 10
32354730 ATTACATTAT
32354740 TAAATAAA-A
1 TAAATAAATA
32354749 TAAA-AAATA
1 TAAATAAATA
32354758 TAAA-AAATTA
1 TAAATAAA-TA
*
32354768 TAAATAAGTA
1 TAAATAAATA
* * *
32354778 TCAATAATTT
1 TAAATAAATA
**
32354788 TATCTAAATA
1 TAAATAAATA
*
32354798 TAATTAAATAA
1 TAAATAAAT-A
* *
32354809 TAATTAATTA
1 TAAATAAATA
32354819 TAAATAAATA
1 TAAATAAATA
32354829 T
1 T
32354830 TAAAATTTAA
Statistics
Matches: 63, Mismatches: 14, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
8 3 0.05
9 12 0.19
10 37 0.59
11 11 0.17
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.36
Consensus pattern (10 bp):
TAAATAAATA
Found at i:32354854 original size:14 final size:15
Alignment explanation
Indices: 32354836--32354870 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
32354826 ATATTAAAAT
*
32354836 TTAAATCTGAAATCA
1 TTAAATCTCAAATCA
32354851 -TAAATCTCAAATCA
1 TTAAATCTCAAATCA
32354865 TTAAAT
1 TTAAAT
32354871 TAAAAATCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.34
Consensus pattern (15 bp):
TTAAATCTCAAATCA
Found at i:32355661 original size:30 final size:30
Alignment explanation
Indices: 32355625--32355682 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
32355615 GTTCTCCTAA
* *
32355625 TTTTTCTCTATCGTTATTTTATATTTTCAG
1 TTTTTCTCTATCGCTATTTTACATTTTCAG
*
32355655 TTTTTCTCTATTGCTATTTTACATTTTC
1 TTTTTCTCTATCGCTATTTTACATTTTC
32355683 TTGCATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.16, C:0.16, G:0.05, T:0.64
Consensus pattern (30 bp):
TTTTTCTCTATCGCTATTTTACATTTTCAG
Found at i:32359892 original size:16 final size:16
Alignment explanation
Indices: 32359871--32359913 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
32359861 GAAAGAAAGT
*
32359871 AAGAAAAGTAACAACA
1 AAGAAAAGAAACAACA
*
32359887 AAGAAATA-AAACAAGA
1 AAGAAA-AGAAACAACA
32359903 AAGAAAAGAAA
1 AAGAAAAGAAA
32359914 AGAGGTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 1 0.04
16 21 0.91
17 1 0.04
ACGTcount: A:0.74, C:0.07, G:0.14, T:0.05
Consensus pattern (16 bp):
AAGAAAAGAAACAACA
Found at i:32362259 original size:32 final size:32
Alignment explanation
Indices: 32362200--32362260 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
32362190 AATTTTCCTC
*
32362200 TTTTATTTCTACTCATTTTTTTCCTTTTTCTT
1 TTTTATTTCTACTCATTTCTTTCCTTTTTCTT
* *
32362232 TTTTATTTTTCCTCTATTTCTTT-CTTTTT
1 TTTTATTTCTACTC-ATTTCTTTCCTTTTT
32362261 GGCTAACTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 18 0.72
33 7 0.28
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (32 bp):
TTTTATTTCTACTCATTTCTTTCCTTTTTCTT
Found at i:32362879 original size:17 final size:17
Alignment explanation
Indices: 32362857--32362889 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
32362847 AAACTATATG
32362857 AAAAAATTCCTATGTTC
1 AAAAAATTCCTATGTTC
*
32362874 AAAAAATTGCTATGTT
1 AAAAAATTCCTATGTT
32362890 ACGCCTCACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.36
Consensus pattern (17 bp):
AAAAAATTCCTATGTTC
Found at i:32367306 original size:21 final size:21
Alignment explanation
Indices: 32367273--32367315 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
32367263 GAATTTAAAC
32367273 AAATAAAGAAAAGATAA-AAAT
1 AAATAAAGAAAAG-TAAGAAAT
32367294 AAATAAA-ATAAAGTAAGAAAT
1 AAATAAAGA-AAAGTAAGAAAT
32367315 A
1 A
32367316 TCGTATCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.16
Consensus pattern (21 bp):
AAATAAAGAAAAGTAAGAAAT
Found at i:32371207 original size:29 final size:29
Alignment explanation
Indices: 32371169--32371251 Score: 112
Period size: 29 Copynumber: 2.9 Consensus size: 29
32371159 AGATTCTTGA
*
32371169 GATCGGTGTAAATAAGACACTTTTCTTAT
1 GATCGATGTAAATAAGACACTTTTCTTAT
*
32371198 GATCGATGTAAATAAGACACTTTTCTTGT
1 GATCGATGTAAATAAGACACTTTTCTTAT
* * * *
32371227 GATCGTTTTAAATAATATACTTTTC
1 GATCGATGTAAATAAGACACTTTTC
32371252 ACCATACAAG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.41
Consensus pattern (29 bp):
GATCGATGTAAATAAGACACTTTTCTTAT
Found at i:32383089 original size:18 final size:18
Alignment explanation
Indices: 32383055--32383111 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
32383045 TGCAGTCTAC
*
32383055 TGTGGCTACATAC-GAGCA
1 TGTGACTACAT-CTGAGCA
* *
32383073 TGTGATTGCATCTGAGCA
1 TGTGACTACATCTGAGCA
*
32383091 TGTGACTACATCTGATCA
1 TGTGACTACATCTGAGCA
32383109 TGT
1 TGT
32383112 TGTGCCTGCA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
17 1 0.03
18 31 0.97
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (18 bp):
TGTGACTACATCTGAGCA
Found at i:32389552 original size:13 final size:13
Alignment explanation
Indices: 32389534--32389558 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32389524 ATTTATTAAG
32389534 TTTAGATTAATAC
1 TTTAGATTAATAC
32389547 TTTAGATTAATA
1 TTTAGATTAATA
32389559 TCTCTCACAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (13 bp):
TTTAGATTAATAC
Found at i:32393517 original size:18 final size:18
Alignment explanation
Indices: 32393489--32393531 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
32393479 GCAAATGCAC
* *
32393489 CAAAT-AAAATGTAGTGA
1 CAAATAAAAATGCAATGA
32393506 CAAATAAAAATGCAATGA
1 CAAATAAAAATGCAATGA
*
32393524 CAACTAAA
1 CAAATAAA
32393532 TGCTATGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (18 bp):
CAAATAAAAATGCAATGA
Found at i:32395817 original size:16 final size:17
Alignment explanation
Indices: 32395790--32395821 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
32395780 AAAAAACAGA
32395790 TAAAAGAAGAAATAAAG
1 TAAAAGAAGAAATAAAG
32395807 TAAAA-AAGAAATAAA
1 TAAAAGAAGAAATAAA
32395822 CATAAATGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (17 bp):
TAAAAGAAGAAATAAAG
Found at i:32395827 original size:17 final size:17
Alignment explanation
Indices: 32395789--32395827 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
32395779 AAAAAAACAG
32395789 ATAAAAGAAGAAATAAA
1 ATAAAAGAAGAAATAAA
*
32395806 GTAAAA-AAGAAATAAA
1 ATAAAAGAAGAAATAAA
32395822 CATAAA
1 -ATAAA
32395828 TGTAAGAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.74, C:0.03, G:0.10, T:0.13
Consensus pattern (17 bp):
ATAAAAGAAGAAATAAA
Found at i:32405982 original size:936 final size:936
Alignment explanation
Indices: 32404172--32406056 Score: 3628
Period size: 936 Copynumber: 2.0 Consensus size: 936
32404162 CCACTACCTT
32404172 TCATCGATCAGATGCTAGATAGGCTAGCTAGTAAAGCCTATTATTGCTTCCTGGATGGCTACTCT
1 TCATCGATCAGATGCTAGATAGGCTAGCTAGTAAAGCCTATTATTGCTTCCTGGATGGCTACTCT
*
32404237 GGATACAACCAAATAGCCATTACGGCAGAAAGATCAAGCAAAGACAACGTTCACATGTCCTTTTG
66 AGATACAACCAAATAGCCATTACGGCAGAAAGATCAAGCAAAGACAACGTTCACATGTCCTTTTG
*
32404302 GAACATTTGCTTTCCGACGGATGCTGTTTATGTTGTGTAATGCGCCAACAATATTCCAGAGGTGT
131 AAACATTTGCTTTCCGACGGATGCTGTTTATGTTGTGTAATGCGCCAACAATATTCCAGAGGTGT
32404367 ATGATGGAAATCTTCTCAGATATGATTGAGGACTCAGTCGAGGTATTCATGGATGATTTCTCGAT
196 ATGATGGAAATCTTCTCAGATATGATTGAGGACTCAGTCGAGGTATTCATGGATGATTTCTCGAT
32404432 CTATGGATAGAGTTTTGACCAATGCGTTGATAATTTGGCAAGAGTTTTGAAAAGATACGAGGACA
261 CTATGGATAGAGTTTTGACCAATGCGTTGATAATTTGGCAAGAGTTTTGAAAAGATACGAGGACA
*
32404497 CAAATCTCATTCTGAATTGGGAGAAATGTTACTTCATGGCTACTGAAGGCATTGTCCTTGGCCAT
326 CAAATCTCATTCTGAATTGGGAGAAATGTTACTTCATGGCTACTAAAGGCATTGTCCTTGGCCAT
*
32404562 CGCATATCTTGTCAAGGCATTGAGGTTGATAAAGCTAAAGTAGAAATCACCGGAAATTACCACCA
391 CGCATATCTTGTCAAGGCATTGAGGTTGATAAAGCTAAAGTAGAAATCACCAGAAATTACCACCA
*
32404627 CCCACCACTGTCAAAGTAATAAGAAGCTTTCTTGGACACGCTGGCTTTTATAGAAGATTCATTAG
456 CCCACCACTGTAAAAGTAATAAGAAGCTTTCTTGGACACGCTGGCTTTTATAGAAGATTCATTAG
32404692 TGATTTTTCCAAGATAATTTAACCCTTATGCTCATTACTAGAGTAAAATAAAAAGTTTGTGTTCG
521 TGATTTTTCCAAGATAATTTAACCCTTATGCTCATTACTAGAGTAAAATAAAAAGTTTGTGTTCG
*
32404757 ATGATGCCTATTTGGATGCATTCAAAACAATAAAGAAATAGCTGGTACCAGCTTCGATTGTCGTT
586 ATGATGCCTATTTGGATGCATTCAAAACAATAAAGAAATAGCTGGTACAAGCTTCGATTGTCGTT
32404822 GCACCAGACTGGACGCAACCATTCGAACTAATGTGCGATGCCATTGATTTTGCTGTAGGAGCTGT
651 GCACCAGACTGGACGCAACCATTCGAACTAATGTGCGATGCCATTGATTTTGCTGTAGGAGCTGT
32404887 CCTAGGCCAAAGAAAATAAAAGGTATTTCATTCTATTTACTATGATAGTAAAACTTTAATAGAAG
716 CCTAGGCCAAAGAAAATAAAAGGTATTTCATTCTATTTACTATGATAGTAAAACTTTAATAGAAG
*
32404952 CGCAAGTTAATTATACTACTATGGAGAAGGAGTTGCTAGTAGTAGTCTTTGCATTTGACAAGTTC
781 CGCAAGTTAATTATACTACTACGGAGAAGGAGTTGCTAGTAGTAGTCTTTGCATTTGACAAGTTC
32405017 CGTTCCTACCTTGTCGGAGCAAAGACTACAGTTTACATGGACCACTCAGCATTGAGATTCCTTTT
846 CGTTCCTACCTTGTCGGAGCAAAGACTACAGTTTACATGGACCACTCAGCATTGAGATTCCTTTT
32405082 CAACAAAAAAGATGCCAAACCTAGAC
911 CAACAAAAAAGATGCCAAACCTAGAC
32405108 TCATCGATCAGATGCTAGATAGGCTAGCTAGTAAAGCCTATTATTGCTTCCTGGATGGCTACTCT
1 TCATCGATCAGATGCTAGATAGGCTAGCTAGTAAAGCCTATTATTGCTTCCTGGATGGCTACTCT
32405173 AGATACAACCAAATAGCCATTACGGCAGAAAGATCAAGCAAAGACAACGTTCACATGTCCTTTTG
66 AGATACAACCAAATAGCCATTACGGCAGAAAGATCAAGCAAAGACAACGTTCACATGTCCTTTTG
32405238 AAACATTTGCTTTCCGACGGATGCTGTTTATGTTGTGTAATGCGCCAACAATATTCCAGAGGTGT
131 AAACATTTGCTTTCCGACGGATGCTGTTTATGTTGTGTAATGCGCCAACAATATTCCAGAGGTGT
*
32405303 ATGATGGCAATCTTCTCAGATATGATTGAGGACTCAGTCGAGGTATTCATGGATGATTTCTCGAT
196 ATGATGGAAATCTTCTCAGATATGATTGAGGACTCAGTCGAGGTATTCATGGATGATTTCTCGAT
32405368 CTATGGATAGAGTTTTGACCAATGCGTTGATAATTTGGCAAGAGTTTTGAAAAGATACGAGGACA
261 CTATGGATAGAGTTTTGACCAATGCGTTGATAATTTGGCAAGAGTTTTGAAAAGATACGAGGACA
32405433 CAAATCTCATTCTGAATTGGGAGAAATGTTACTTCATGGCTACTAAAGGCATTGTCCTTGGCCAT
326 CAAATCTCATTCTGAATTGGGAGAAATGTTACTTCATGGCTACTAAAGGCATTGTCCTTGGCCAT
*
32405498 CGCATATCTTGTTAAGGCATTGAGGTTGATAAAGCTAAAGTAGAAATCACCAGAAATTACCACCA
391 CGCATATCTTGTCAAGGCATTGAGGTTGATAAAGCTAAAGTAGAAATCACCAGAAATTACCACCA
32405563 CCCACCACTGTAAAAGTAATAAGAAGCTTTCTTGGACACGCTGGCTTTTATAGAAGATTCATTAG
456 CCCACCACTGTAAAAGTAATAAGAAGCTTTCTTGGACACGCTGGCTTTTATAGAAGATTCATTAG
*
32405628 TGATTTTTCCAAGATAGTTTAACCCTTATGCTCATTACTAGAGTAAAATAAAAAGTTTGTGTTCG
521 TGATTTTTCCAAGATAATTTAACCCTTATGCTCATTACTAGAGTAAAATAAAAAGTTTGTGTTCG
32405693 ATGATGCCTATTTGGATGCATTCAAAACAATAAAGAAATAGCTGGTACAAGCTTCGATTGTCGTT
586 ATGATGCCTATTTGGATGCATTCAAAACAATAAAGAAATAGCTGGTACAAGCTTCGATTGTCGTT
*
32405758 GCACCAGACTGGACGCAACCATTCGAACTAATGTGCGATGTCATTGATTTTGCTGTAGGAGCTGT
651 GCACCAGACTGGACGCAACCATTCGAACTAATGTGCGATGCCATTGATTTTGCTGTAGGAGCTGT
32405823 CCTAGGCCAAAGAAAATAAAAGGTATTTCATTCTATTTACTATGATAGTAAAACTTTAATAGAAG
716 CCTAGGCCAAAGAAAATAAAAGGTATTTCATTCTATTTACTATGATAGTAAAACTTTAATAGAAG
*
32405888 CGCAAGTTAATTATACTACTACGGAGAAGGAGTTGCTAGTTGTAGTCTTTGCATTTGACAAGTTC
781 CGCAAGTTAATTATACTACTACGGAGAAGGAGTTGCTAGTAGTAGTCTTTGCATTTGACAAGTTC
* *
32405953 CGTTCCTATCTTGTCGGAGCAAAGACTACAGTTTACATGGACCACTTAGCATTGAGATTCCTTTT
846 CGTTCCTACCTTGTCGGAGCAAAGACTACAGTTTACATGGACCACTCAGCATTGAGATTCCTTTT
32406018 CAACAAAAAAGATGCCAAACCTAGAC
911 CAACAAAAAAGATGCCAAACCTAGAC
32406044 TCATCAGAT-AGAT
1 TCATC-GATCAGAT
32406057 CCTACTCCTC
Statistics
Matches: 934, Mismatches: 14, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
936 931 1.00
937 3 0.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (936 bp):
TCATCGATCAGATGCTAGATAGGCTAGCTAGTAAAGCCTATTATTGCTTCCTGGATGGCTACTCT
AGATACAACCAAATAGCCATTACGGCAGAAAGATCAAGCAAAGACAACGTTCACATGTCCTTTTG
AAACATTTGCTTTCCGACGGATGCTGTTTATGTTGTGTAATGCGCCAACAATATTCCAGAGGTGT
ATGATGGAAATCTTCTCAGATATGATTGAGGACTCAGTCGAGGTATTCATGGATGATTTCTCGAT
CTATGGATAGAGTTTTGACCAATGCGTTGATAATTTGGCAAGAGTTTTGAAAAGATACGAGGACA
CAAATCTCATTCTGAATTGGGAGAAATGTTACTTCATGGCTACTAAAGGCATTGTCCTTGGCCAT
CGCATATCTTGTCAAGGCATTGAGGTTGATAAAGCTAAAGTAGAAATCACCAGAAATTACCACCA
CCCACCACTGTAAAAGTAATAAGAAGCTTTCTTGGACACGCTGGCTTTTATAGAAGATTCATTAG
TGATTTTTCCAAGATAATTTAACCCTTATGCTCATTACTAGAGTAAAATAAAAAGTTTGTGTTCG
ATGATGCCTATTTGGATGCATTCAAAACAATAAAGAAATAGCTGGTACAAGCTTCGATTGTCGTT
GCACCAGACTGGACGCAACCATTCGAACTAATGTGCGATGCCATTGATTTTGCTGTAGGAGCTGT
CCTAGGCCAAAGAAAATAAAAGGTATTTCATTCTATTTACTATGATAGTAAAACTTTAATAGAAG
CGCAAGTTAATTATACTACTACGGAGAAGGAGTTGCTAGTAGTAGTCTTTGCATTTGACAAGTTC
CGTTCCTACCTTGTCGGAGCAAAGACTACAGTTTACATGGACCACTCAGCATTGAGATTCCTTTT
CAACAAAAAAGATGCCAAACCTAGAC
Found at i:32415205 original size:12 final size:13
Alignment explanation
Indices: 32415183--32415224 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
32415173 TAGCAATTTA
32415183 TTCTCTTTTTCTT
1 TTCTCTTTTTCTT
32415196 TTCT-TTTTTCTTT
1 TTCTCTTTTTC-TT
*
32415209 TTCTCATTTTTGTT
1 TTCTC-TTTTTCTT
32415223 TT
1 TT
32415225 TCAAGTGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 6 0.24
13 10 0.40
14 4 0.16
15 5 0.20
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (13 bp):
TTCTCTTTTTCTT
Found at i:32415210 original size:13 final size:14
Alignment explanation
Indices: 32415183--32415226 Score: 56
Period size: 15 Copynumber: 3.2 Consensus size: 14
32415173 TAGCAATTTA
32415183 TTCTCTTTTTC-TT
1 TTCTCTTTTTCTTT
32415196 TTCT-TTTTTCTTT
1 TTCTCTTTTTCTTT
*
32415209 TTCTCATTTTTGTTT
1 TTCTC-TTTTTCTTT
32415224 TTC
1 TTC
32415227 AAGTGATTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 6 0.22
13 10 0.37
15 11 0.41
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TTCTCTTTTTCTTT
Found at i:32432735 original size:19 final size:20
Alignment explanation
Indices: 32432688--32432737 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
32432678 TTGATAAGTC
32432688 TTAA-TATTA-AATTATAAA
1 TTAATTATTATAATTATAAA
*
32432706 TTAAATT-TTATAATT-TATA
1 TT-AATTATTATAATTATAAA
32432725 TTAATTATTATAA
1 TTAATTATTATAA
32432738 AGGTTTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
18 6 0.22
19 16 0.59
20 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTAATTATTATAATTATAAA
Found at i:32433358 original size:9 final size:9
Alignment explanation
Indices: 32433346--32433382 Score: 51
Period size: 8 Copynumber: 4.3 Consensus size: 9
32433336 TTTTCTAATT
32433346 TTTAATTTA
1 TTTAATTTA
32433355 TTTAATTTA
1 TTTAATTTA
*
32433364 -TTAACTT-
1 TTTAATTTA
32433371 TTTAATTTA
1 TTTAATTTA
32433380 TTT
1 TTT
32433383 TAAATTGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
8 12 0.50
9 12 0.50
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTAATTTA
Found at i:32433362 original size:16 final size:15
Alignment explanation
Indices: 32433328--32433378 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 15
32433318 GGTGGTAAGA
*
32433328 AATTTTT-ATTTTCT
1 AATTTTTAATTTTTT
32433342 AATTTTTAATTTATTT
1 AATTTTTAATTT-TTT
*
32433358 AATTTATTAACTTTTT
1 AATTT-TTAATTTTTT
32433374 AATTT
1 AATTT
32433379 ATTTTAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 7 0.22
15 4 0.12
16 15 0.47
17 6 0.19
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (15 bp):
AATTTTTAATTTTTT
Found at i:32433375 original size:8 final size:7
Alignment explanation
Indices: 32433328--32433378 Score: 50
Period size: 8 Copynumber: 6.7 Consensus size: 7
32433318 GGTGGTAAGA
32433328 AATTTTT
1 AATTTTT
32433335 -ATTTTCT
1 AATTTT-T
32433342 AATTTTT
1 AATTTTT
32433349 AATTTATTT
1 AA-TT-TTT
32433358 AATTTATT
1 AATTT-TT
32433366 AACTTTTT
1 AA-TTTTT
32433374 AATTT
1 AATTT
32433379 ATTTTAAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
6 5 0.13
7 8 0.21
8 17 0.45
9 8 0.21
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (7 bp):
AATTTTT
Found at i:32433393 original size:26 final size:25
Alignment explanation
Indices: 32433344--32433393 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
32433334 TATTTTCTAA
*
32433344 TTTTTAATTTATTTAATTTATTAAC
1 TTTTTAATTTATTTAAATTATTAAC
*
32433369 TTTTTAATTTATTTTAAATTGTTAA
1 TTTTTAATTTA-TTTAAATTATTAA
32433394 TATTTTATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (25 bp):
TTTTTAATTTATTTAAATTATTAAC
Found at i:32433399 original size:26 final size:24
Alignment explanation
Indices: 32433341--32433400 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
32433331 TTTTATTTTC
*
32433341 TAATTTTTAATTTATTTAATTTAT
1 TAATTTTTAATTTATTTAAATTAT
*
32433365 TAACTTTTTAATTTATTTTAAATTGT
1 TAA-TTTTTAATTTA-TTTAAATTAT
32433391 TAATATTTTA
1 TAAT-TTTTA
32433401 TACTAATAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 3 0.10
25 12 0.39
26 16 0.52
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (24 bp):
TAATTTTTAATTTATTTAAATTAT
Found at i:32435608 original size:81 final size:81
Alignment explanation
Indices: 32435507--32435688 Score: 251
Period size: 81 Copynumber: 2.2 Consensus size: 81
32435497 CAGTTCTTGA
* *
32435507 TAGCTTGTGTGAGCAGCATCGTGAGTGAGTAACA-TAGACCGTAACGATGGCTGAGGTCCTG-CA
1 TAGCTTGTGTGAGAAGCATCGTGAGTGAGTAA-ATTAGACCATAACGATGGCTGAGGTCC-GACA
32435570 TACGTTGCGGATTCTCAT
64 TACGTTGCGGATTCTCAT
* * * * * *
32435588 TAGCTTGTGTGAGTAGCATCGTGAGTGGGTAAATTGGATCATATCGATGGTTGAGGTCCGACATA
1 TAGCTTGTGTGAGAAGCATCGTGAGTGAGTAAATTAGACCATAACGATGGCTGAGGTCCGACATA
*
32435653 TGTTGCGGATTCTCAT
66 CGTTGCGGATTCTCAT
32435669 TAGCTTGTGTGAGAAGCATC
1 TAGCTTGTGTGAGAAGCATC
32435689 ATATACTGGT
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
80 2 0.02
81 88 0.98
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.30
Consensus pattern (81 bp):
TAGCTTGTGTGAGAAGCATCGTGAGTGAGTAAATTAGACCATAACGATGGCTGAGGTCCGACATA
CGTTGCGGATTCTCAT
Found at i:32440936 original size:13 final size:13
Alignment explanation
Indices: 32440918--32440942 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32440908 ATTAATTTAG
32440918 TTTAGATTAATAC
1 TTTAGATTAATAC
32440931 TTTAGATTAATA
1 TTTAGATTAATA
32440943 TGTCTCACAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (13 bp):
TTTAGATTAATAC
Found at i:32449285 original size:23 final size:23
Alignment explanation
Indices: 32449226--32449338 Score: 111
Period size: 23 Copynumber: 5.0 Consensus size: 23
32449216 GGCAATACAG
* * * *
32449226 AATAAGCCAAAAAGGCATCATAG
1 AATATGCCACAAAGGCATCACAT
* * * *
32449249 GATACGCCATAAAGGAATCACAT
1 AATATGCCACAAAGGCATCACAT
*
32449272 AATATGTCACAAAGGCATCACAT
1 AATATGCCACAAAGGCATCACAT
* *
32449295 AATACGCCACGAAGGCATCACA-
1 AATATGCCACAAAGGCATCACAT
*
32449317 AATATGCCACAAAGGCTTCACA
1 AATATGCCACAAAGGCATCACA
32449339 GAATGAGCTA
Statistics
Matches: 73, Mismatches: 17, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
22 19 0.26
23 54 0.74
ACGTcount: A:0.44, C:0.24, G:0.16, T:0.16
Consensus pattern (23 bp):
AATATGCCACAAAGGCATCACAT
Found at i:32449355 original size:45 final size:46
Alignment explanation
Indices: 32449226--32449355 Score: 138
Period size: 46 Copynumber: 2.8 Consensus size: 46
32449216 GGCAATACAG
* * * * *
32449226 AATAAGCCAAAAAGGCATCATAGGATACGCCATAAAGGAATCACAT
1 AATATGCCACAAAGGCATCACAGAATACGCCATAAAGGCATCACAT
* * **
32449272 AATATGTCACAAAGGCATCACATAATACGCCACGAAGGCATCACA-
1 AATATGCCACAAAGGCATCACAGAATACGCCATAAAGGCATCACAT
* *
32449317 AATATGCCACAAAGGCTTCACAGAATGA-GCTATAAAGGC
1 AATATGCCACAAAGGCATCACAGAAT-ACGCCATAAAGGC
32449356 TTTCTAGAGA
Statistics
Matches: 68, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
45 31 0.46
46 37 0.54
ACGTcount: A:0.44, C:0.22, G:0.18, T:0.16
Consensus pattern (46 bp):
AATATGCCACAAAGGCATCACAGAATACGCCATAAAGGCATCACAT
Found at i:32461489 original size:27 final size:27
Alignment explanation
Indices: 32461459--32461525 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
32461449 ATATATGGCA
* *
32461459 AACTTTGAAGGAATAGTACCTATGACG
1 AACTCTGAAGGAATAATACCTATGACG
* *
32461486 AACTCTGAAGGAATAATACGTATGGCG
1 AACTCTGAAGGAATAATACCTATGACG
*
32461513 AACTCTAAAGGAA
1 AACTCTGAAGGAA
32461526 CGACTCCCTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.22
Consensus pattern (27 bp):
AACTCTGAAGGAATAATACCTATGACG
Found at i:32467913 original size:21 final size:21
Alignment explanation
Indices: 32467887--32467929 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
32467877 TTTTGAATTT
* *
32467887 TGGCTCGAAATAGCATTATTC
1 TGGCTCAAAAGAGCATTATTC
32467908 TGGCTCAAAAGAGCATTATTC
1 TGGCTCAAAAGAGCATTATTC
32467929 T
1 T
32467930 AAATTTTTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (21 bp):
TGGCTCAAAAGAGCATTATTC
Found at i:32482093 original size:14 final size:13
Alignment explanation
Indices: 32482070--32482101 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
32482060 ATGCTAGATC
32482070 ATTTTGATTCTTA
1 ATTTTGATTCTTA
32482083 ATTTATGATTCTTA
1 ATTT-TGATTCTTA
32482097 ATTTT
1 ATTTT
32482102 TTATTGTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.62
Consensus pattern (13 bp):
ATTTTGATTCTTA
Found at i:32486395 original size:55 final size:55
Alignment explanation
Indices: 32486325--32486451 Score: 138
Period size: 55 Copynumber: 2.3 Consensus size: 55
32486315 CCCCAGGTCG
* *
32486325 TGTGCTAGACCGTGTGTATACAT-GAAA-TACCCATACACGATCGTGTCAT-AAACCA
1 TGTGCAAGACTGTGTGTA-ACATCGAAAGTACCC-TACACGATCGTGT-ATGAAACCA
*
32486380 TGTGACAAG-CTGTGTG-AACATGCGAAAGTACCCTACACGCTCGTGTATGAAACCA
1 TGTG-CAAGACTGTGTGTAACAT-CGAAAGTACCCTACACGATCGTGTATGAAACCA
*
32486435 TGTGCCAGACTGTGTGT
1 TGTGCAAGACTGTGTGT
32486452 CAGTTCAAAT
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
53 4 0.07
54 6 0.10
55 43 0.70
56 8 0.13
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (55 bp):
TGTGCAAGACTGTGTGTAACATCGAAAGTACCCTACACGATCGTGTATGAAACCA
Found at i:32487214 original size:52 final size:52
Alignment explanation
Indices: 32487153--32487339 Score: 277
Period size: 52 Copynumber: 3.6 Consensus size: 52
32487143 TTCTCATTAA
*
32487153 ATACTCACGATGACACATAGTCATCAAACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
* *
32487205 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGT-AAGTGATCCAT
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAG-GATTCAT
* * * *
32487257 ATACTCACGATGACACATAGTCGTTAGACCTAATAATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
* *
32487309 ATACTCACGATGACACATAATCATCGGACCT
1 ATACTCACGATGACACATAGTCATCAGACCT
32487340 TTTACATTTT
Statistics
Matches: 120, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
51 3 0.03
52 114 0.95
53 3 0.03
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.25
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
Found at i:32510231 original size:9 final size:9
Alignment explanation
Indices: 32510217--32510241 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
32510207 ACCGACCGAG
32510217 TTGAAAGAA
1 TTGAAAGAA
32510226 TTGAAAGAA
1 TTGAAAGAA
32510235 TTGAAAG
1 TTGAAAG
32510242 CTCAGTTGCA
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:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (9 bp):
TTGAAAGAA
Found at i:32512825 original size:52 final size:52
Alignment explanation
Indices: 32512764--32512954 Score: 251
Period size: 52 Copynumber: 3.6 Consensus size: 52
32512754 TTCTCATTAA
32512764 ATACTCACGATGACACATAGTCATCGGACCTCATAATTCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATTCGTAAAGGATTCAT
* * *
32512816 ATACTCACGATGACACATAGTCATCGAACCTTATAA-TCTTTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATTC-GTAAAGGATTCAT
*
32512868 ATGCTCACGTCACGATGACACATAGTCATCGGACCTCATAATCCGT-AAGGATTCAT
1 A---T-AC-TCACGATGACACATAGTCATCGGACCTCATAATTCGTAAAGGATTCAT
* * *
32512924 ATGCTCATGATGACACACAGTCATCGGACCT
1 ATACTCACGATGACACATAGTCATCGGACCT
32512955 TTTACATTTT
Statistics
Matches: 122, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
51 27 0.22
52 48 0.39
53 1 0.01
55 1 0.01
56 13 0.11
57 31 0.25
58 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.27
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATTCGTAAAGGATTCAT
Found at i:32527438 original size:15 final size:15
Alignment explanation
Indices: 32527418--32527452 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
32527408 ATTTTATATC
32527418 GAATTTTGAATTAGT
1 GAATTTTGAATTAGT
* *
32527433 GAATTTTTAATTATT
1 GAATTTTGAATTAGT
32527448 GAATT
1 GAATT
32527453 AATTATTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.51
Consensus pattern (15 bp):
GAATTTTGAATTAGT
Found at i:32529099 original size:24 final size:24
Alignment explanation
Indices: 32529067--32529117 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
32529057 GTATACTGGT
32529067 TAACCATTCTGGGCTCATAAGAGC
1 TAACCATTCTGGGCTCATAAGAGC
**
32529091 TAACCATTCTGGGCTCATGTGAGC
1 TAACCATTCTGGGCTCATAAGAGC
32529115 TAA
1 TAA
32529118 TGTTGTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (24 bp):
TAACCATTCTGGGCTCATAAGAGC
Found at i:32529728 original size:21 final size:23
Alignment explanation
Indices: 32529702--32529755 Score: 76
Period size: 24 Copynumber: 2.4 Consensus size: 23
32529692 ACTTGGGTTA
32529702 TATCGGTAG-ATG-AATTAGAAG
1 TATCGGTAGCATGTAATTAGAAG
*
32529723 TATCGGTAGTCATGTGATTAGAAG
1 TATCGGTAG-CATGTAATTAGAAG
32529747 TATCGGTAG
1 TATCGGTAG
32529756 TTTGCATACA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 9 0.31
23 3 0.10
24 17 0.59
ACGTcount: A:0.31, C:0.07, G:0.30, T:0.31
Consensus pattern (23 bp):
TATCGGTAGCATGTAATTAGAAG
Found at i:32532393 original size:43 final size:43
Alignment explanation
Indices: 32532295--32532424 Score: 170
Period size: 43 Copynumber: 3.0 Consensus size: 43
32532285 TCAACATGCT
*
32532295 CTCAATCAATCACATACTTTCAATAATAGGGAAACAATGTTCCT
1 CTCAATCAATCACATACTTTCAATAATA-GGAAACAATGTTCCA
* * *
32532339 CTCAATCAATCACATGCTTTTAATAATAGGAAACATTGTTCCA
1 CTCAATCAATCACATACTTTCAATAATAGGAAACAATGTTCCA
* * * * *
32532382 CTTAATTAATCACATACTTACAATAATAGGAAATAGTGTTCCA
1 CTCAATCAATCACATACTTTCAATAATAGGAAACAATGTTCCA
32532425 ACTTTCAAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
43 49 0.65
44 26 0.35
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (43 bp):
CTCAATCAATCACATACTTTCAATAATAGGAAACAATGTTCCA
Found at i:32539042 original size:155 final size:158
Alignment explanation
Indices: 32538737--32539055 Score: 366
Period size: 155 Copynumber: 2.0 Consensus size: 158
32538727 GATTTCGAGA
* * * * * **
32538737 ATTACAAGTTATATGGGCGCTGGTCTTAGATGTCTTACCGATGGTTAAGATCTGACATTTATTGT
1 ATTACAAGTTATATGGGCGCTGCTCTTAGATGTCCTACCCATCGCTAAGATCTGACATTTATTAC
* * * *
32538802 GGATTCTTCACAGCTTGTGTGAGCAGTATCATGTAGCTCAACATCTCGACCCACAGCTAGTGTGA
66 GGATTCTTCACAGCTCGTGTGAGCAGCATCATGTAGCCCAACATCTCGACCCACAACTAGTGTGA
* *
32538867 GCAGGTCCTCTTCACAGCTCGTGTGAGC
131 GCAGGCCCTCTTCACAGCTCGTGTCAGC
* *
32538895 ATTACAGGTTATAT-GG-G-TGCTCTTAGATGTCCTACCCATCGCTGAGATCT-AGCATTTATTA
1 ATTACAAGTTATATGGGCGCTGCTCTTAGATGTCCTACCCATCGCTAAGATCTGA-CATTTATTA
*
32538956 CGGATT-TTCCATAGCTCGTGTGAGCAGCAT-AGTGTAGCCCAACATCTCGACCCACAACTCA-T
65 CGGATTCTT-CACAGCTCGTGTGAGCAGCATCA-TGTAGCCCAACATCTCGACCCACAACT-AGT
* *
32539018 GTGAGTAGGCCCAT-TTCATAGCTCGTGTCAGC
127 GTGAGCAGGCCC-TCTTCACAGCTCGTGTCAGC
*
32539050 AATACA
1 ATTACA
32539056 TGATACAAAG
Statistics
Matches: 137, Mismatches: 19, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
154 4 0.03
155 115 0.84
156 3 0.02
157 2 0.01
158 13 0.09
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.30
Consensus pattern (158 bp):
ATTACAAGTTATATGGGCGCTGCTCTTAGATGTCCTACCCATCGCTAAGATCTGACATTTATTAC
GGATTCTTCACAGCTCGTGTGAGCAGCATCATGTAGCCCAACATCTCGACCCACAACTAGTGTGA
GCAGGCCCTCTTCACAGCTCGTGTCAGC
Found at i:32550225 original size:17 final size:17
Alignment explanation
Indices: 32550171--32550217 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
32550161 AGTCATTTGA
* *
32550171 AAAAGAAACAAAATGAG
1 AAAAGAAAGAAAAAGAG
*
32550188 AAAAAGGAAGAAAAAGAG
1 -AAAAGAAAGAAAAAGAG
32550206 AAAAGAAAGAAA
1 AAAAGAAAGAAA
32550218 GAAAGAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.74, C:0.02, G:0.21, T:0.02
Consensus pattern (17 bp):
AAAAGAAAGAAAAAGAG
Found at i:32551350 original size:8 final size:9
Alignment explanation
Indices: 32551315--32551357 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
32551305 GATCCCTTTG
32551315 ATTCTTATTT
1 ATTCTT-TTT
* *
32551325 AATGTTTTT
1 ATTCTTTTT
32551334 ATTCTTTTT
1 ATTCTTTTT
32551343 ATTCTTTTT
1 ATTCTTTTT
32551352 ATTCTT
1 ATTCTT
32551358 GGATATAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
9 25 0.86
10 4 0.14
ACGTcount: A:0.16, C:0.09, G:0.02, T:0.72
Consensus pattern (9 bp):
ATTCTTTTT
Found at i:32559303 original size:21 final size:22
Alignment explanation
Indices: 32559262--32559303 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
32559252 AACTGGGCTT
* *
32559262 TTTAAATTGGAACTCTAGTCCA
1 TTTAAATTGCAAATCTAGTCCA
32559284 TTTAAATTGCAAAT-TAGTCC
1 TTTAAATTGCAAATCTAGTCC
32559304 GACAACTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (22 bp):
TTTAAATTGCAAATCTAGTCCA
Found at i:32562243 original size:16 final size:16
Alignment explanation
Indices: 32562219--32562249 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32562209 ATATATTTTT
32562219 AATTAAATCCTTTTAA
1 AATTAAATCCTTTTAA
*
32562235 AATTTAATCCTTTTA
1 AATTAAATCCTTTTA
32562250 CCGTTTGTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTAAATCCTTTTAA
Found at i:32562304 original size:27 final size:29
Alignment explanation
Indices: 32562229--32562305 Score: 68
Period size: 31 Copynumber: 2.7 Consensus size: 29
32562219 AATTAAATCC
* *
32562229 TTTTAAAATTTAATCCTTTTACCGTTTGTT
1 TTTTTAAATTTAATCCTTTGACCG-TTGTT
*** *
32562259 TCTTTTAAATTTGCCCCTTTGATC-TT-TT
1 T-TTTTAAATTTAATCCTTTGACCGTTGTT
32562287 TTTTTAAATTTAATCCTTT
1 TTTTTAAATTTAATCCTTT
32562306 TATTATTTTA
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
27 15 0.41
28 3 0.08
29 2 0.05
30 1 0.03
31 16 0.43
ACGTcount: A:0.21, C:0.16, G:0.05, T:0.58
Consensus pattern (29 bp):
TTTTTAAATTTAATCCTTTGACCGTTGTT
Found at i:32562358 original size:21 final size:20
Alignment explanation
Indices: 32562304--32562363 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 20
32562294 ATTTAATCCT
*
32562304 TTTAT-TATT-TTATTTATT
1 TTTATATATTCTTATTTATA
*
32562322 TTTATATATTC-GATTTATA
1 TTTATATATTCTTATTTATA
32562341 TTTATATATTTCTTATTTA-A
1 TTTATATA-TTCTTATTTATA
32562361 TTT
1 TTT
32562364 TTTTAAATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
18 5 0.14
19 18 0.51
20 7 0.20
21 5 0.14
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTATATATTCTTATTTATA
Found at i:32563184 original size:49 final size:49
Alignment explanation
Indices: 32563112--32563335 Score: 254
Period size: 49 Copynumber: 4.6 Consensus size: 49
32563102 GGCGACTCTA
* *
32563112 CAAAGGCGAATCTTATACCCTAGAGATGTGGAGGGAAAGATTGAAGTCG
1 CAAAGGCGAATCTTATACCCTAAAGATGAGGAGGGAAAGATTGAAGTCG
* * * *
32563161 CAAAGGCGAATCTTTTACCCTAGAGATGTGGAGGGAAAGATTGAAGCCG
1 CAAAGGCGAATCTTATACCCTAAAGATGAGGAGGGAAAGATTGAAGTCG
** * * *
32563210 CAAAGGAAAATCTTATACCCTAAAGATGAGGAAAGGCAA-ATTGAAGTCA
1 CAAAGGCGAATCTTATACCCTAAAGATGAGG-AGGGAAAGATTGAAGTCG
* * * * * *
32563259 CAAAGGCGAATCTTATACTCTAAATATGAAGAAGGG-CAGATTCAATTCG
1 CAAAGGCGAATCTTATACCCTAAAGATG-AGGAGGGAAAGATTGAAGTCG
*
32563308 CAAAGACGAATCTTATACCCTAAAGATG
1 CAAAGGCGAATCTTATACCCTAAAGATG
32563336 GAGTGGGGCA
Statistics
Matches: 148, Mismatches: 24, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
48 1 0.01
49 140 0.95
50 7 0.05
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (49 bp):
CAAAGGCGAATCTTATACCCTAAAGATGAGGAGGGAAAGATTGAAGTCG
Found at i:32569963 original size:22 final size:22
Alignment explanation
Indices: 32569912--32569970 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
32569902 CTTATCAGAG
***
32569912 AATCTCACTATTCATGGTAGGG
1 AATCTCACTATTCATGGTAAAA
*
32569934 AATATCACTATTCAT-GTCAAAA
1 AATCTCACTATTCATGGT-AAAA
32569956 AATCTCACTATTCAT
1 AATCTCACTATTCAT
32569971 TTTGTTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 2 0.06
22 29 0.94
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (22 bp):
AATCTCACTATTCATGGTAAAA
Found at i:32570348 original size:14 final size:14
Alignment explanation
Indices: 32570329--32570381 Score: 70
Period size: 14 Copynumber: 3.8 Consensus size: 14
32570319 TAATGAAATG
*
32570329 AAATTAAATTTGAA
1 AAATTAAATTTTAA
32570343 AAATTAAATTTTAA
1 AAATTAAATTTTAA
* *
32570357 AATTTGAATTTTAA
1 AAATTAAATTTTAA
*
32570371 AACTTAAATTT
1 AAATTAAATTT
32570382 AATTTTGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (14 bp):
AAATTAAATTTTAA
Found at i:32570381 original size:20 final size:20
Alignment explanation
Indices: 32570356--32570395 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
32570346 TTAAATTTTA
32570356 AAATTTGAATTTT-AAAACTT
1 AAATTT-AATTTTGAAAACTT
32570376 AAATTTAATTTTGAAAACTT
1 AAATTTAATTTTGAAAACTT
32570396 TTGAGAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (20 bp):
AAATTTAATTTTGAAAACTT
Found at i:32570554 original size:16 final size:17
Alignment explanation
Indices: 32570528--32570560 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
32570518 ATTTCAATCC
32570528 CTTACATCATTACATAA
1 CTTACATCATTACATAA
32570545 CTTA-ATCATTACATAA
1 CTTACATCATTACATAA
32570561 TTTTTCCAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.36
Consensus pattern (17 bp):
CTTACATCATTACATAA
Found at i:32570668 original size:22 final size:22
Alignment explanation
Indices: 32570643--32570701 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 22
32570633 CATGACTGGA
* *
32570643 AATATCAGTGTTCATGTCAGGG
1 AATATCACTGTTCATGTCAGAG
32570665 AATATCACTGTTCATGTCAGAG
1 AATATCACTGTTCATGTCAGAG
* *
32570687 AATCTCACTATTCAT
1 AATATCACTGTTCAT
32570702 TTTGTTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.34
Consensus pattern (22 bp):
AATATCACTGTTCATGTCAGAG
Found at i:32570737 original size:47 final size:47
Alignment explanation
Indices: 32570683--32570772 Score: 144
Period size: 47 Copynumber: 1.9 Consensus size: 47
32570673 TGTTCATGTC
*
32570683 AGAGAATCTCACTATTCATTTTGTTTTTTCTTGAAGAGAATATTGCT
1 AGAGAATCTCACTATTCATTTTATTTTTTCTTGAAGAGAATATTGCT
* * *
32570730 AGAGAATCTCACTGTTCATTTTATTTTTTCTTGCAGGGAATAT
1 AGAGAATCTCACTATTCATTTTATTTTTTCTTGAAGAGAATAT
32570773 CTCCTATTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (47 bp):
AGAGAATCTCACTATTCATTTTATTTTTTCTTGAAGAGAATATTGCT
Found at i:32573186 original size:48 final size:48
Alignment explanation
Indices: 32573116--32573215 Score: 173
Period size: 48 Copynumber: 2.1 Consensus size: 48
32573106 AAGGCAAAAT
*
32573116 TTTATTTTGGTTTTAAAAGGGGCAGCTGATATACAAAAAGATTAGAAA
1 TTTATTTTGGCTTTAAAAGGGGCAGCTGATATACAAAAAGATTAGAAA
* *
32573164 TTTATTTTGGCTTTAAAGGGGGCAGCTGATATACAAAAAGATTAGAAT
1 TTTATTTTGGCTTTAAAAGGGGCAGCTGATATACAAAAAGATTAGAAA
32573212 TTTA
1 TTTA
32573216 AAAAGAAGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.37, C:0.07, G:0.21, T:0.35
Consensus pattern (48 bp):
TTTATTTTGGCTTTAAAAGGGGCAGCTGATATACAAAAAGATTAGAAA
Found at i:32577103 original size:48 final size:48
Alignment explanation
Indices: 32577023--32577124 Score: 168
Period size: 48 Copynumber: 2.1 Consensus size: 48
32577013 ATAAGGCAAC
* * *
32577023 ATTTTATTTTGGCTTTAAAAGGGGCAGTTGATATACAAAAAGATTAGA
1 ATTTTATTTTGGCTTTAAAAGGGACAGCTGATATACAAAAACATTAGA
*
32577071 ATTTTATTTTGGTTTTAAAAGGGACAGCTGATATACAAAAACATTAGA
1 ATTTTATTTTGGCTTTAAAAGGGACAGCTGATATACAAAAACATTAGA
32577119 ATTTTA
1 ATTTTA
32577125 AAAAGAAGAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.37
Consensus pattern (48 bp):
ATTTTATTTTGGCTTTAAAAGGGACAGCTGATATACAAAAACATTAGA
Found at i:32582956 original size:22 final size:22
Alignment explanation
Indices: 32582931--32582991 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
32582921 ATATTGCAAG
32582931 AGAATCTTACTGTTCATGCCAA
1 AGAATCTTACTGTTCATGCCAA
* *
32582953 AGAATATTATTGTTCATGCCAA
1 AGAATCTTACTGTTCATGCCAA
* * *
32582975 AAAATCTCACTATTCAT
1 AGAATCTTACTGTTCAT
32582992 TTTGTTTTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (22 bp):
AGAATCTTACTGTTCATGCCAA
Found at i:32584793 original size:17 final size:17
Alignment explanation
Indices: 32584768--32584801 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
32584758 ATCACTCGTT
* *
32584768 ATTTTAATAGCATTTTC
1 ATTTCAATAACATTTTC
32584785 ATTTCAATAACATTTTC
1 ATTTCAATAACATTTTC
32584802 CATATCAACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.15, G:0.03, T:0.50
Consensus pattern (17 bp):
ATTTCAATAACATTTTC
Found at i:32592651 original size:14 final size:14
Alignment explanation
Indices: 32592616--32592644 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
32592606 TTCCATTTTT
32592616 TAATCAAAATATAC
1 TAATCAAAATATAC
32592630 TAATCAAAATA-AC
1 TAATCAAAATATAC
32592643 TA
1 TA
32592645 GTCCAAACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (14 bp):
TAATCAAAATATAC
Found at i:32593318 original size:13 final size:13
Alignment explanation
Indices: 32593300--32593343 Score: 61
Period size: 13 Copynumber: 3.2 Consensus size: 13
32593290 TCTATTTTTT
32593300 TTATTATAATATA
1 TTATTATAATATA
32593313 TTATTATAATACTA
1 TTATTATAATA-TA
*
32593327 TTATGTATCATATA
1 TTAT-TATAATATA
32593341 TTA
1 TTA
32593344 ACACTATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 11 0.39
14 11 0.39
15 6 0.21
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (13 bp):
TTATTATAATATA
Found at i:32603967 original size:16 final size:16
Alignment explanation
Indices: 32603934--32603963 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32603924 TGAAAGCAAT
32603934 AATAAATAAACATTTA
1 AATAAATAAACATTTA
32603950 AATAAATAAA-ATTT
1 AATAAATAAACATTT
32603964 TAAAGTATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAAATAAACATTTA
Found at i:32606771 original size:25 final size:23
Alignment explanation
Indices: 32606741--32606786 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
32606731 GTTGGATCCA
32606741 AATTAAATCCTAAAAAGATAATTAG
1 AATTAAAT-CTAAAAA-ATAATTAG
*
32606766 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
32606787 TCTTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTAG
Found at i:32609548 original size:28 final size:29
Alignment explanation
Indices: 32609494--32609549 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
32609484 CTGTTTTAAA
*
32609494 AATATTTACAAAAAAAGACAACTAAATTC
1 AATATTTACAAAAAAAGACAACCAAATTC
*
32609523 AATATTTACAAAAATA-ACAACCAAATT
1 AATATTTACAAAAAAAGACAACCAAATT
32609550 TTACGAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.59, C:0.14, G:0.02, T:0.25
Consensus pattern (29 bp):
AATATTTACAAAAAAAGACAACCAAATTC
Found at i:32613368 original size:26 final size:26
Alignment explanation
Indices: 32613312--32613382 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 26
32613302 GAATTACACC
* * * *
32613312 CAGAATTATCGCTGCAGGAACTTGTT
1 CAGAGTTATCGTTGCATGAACATGTT
32613338 CAGAGTTATCGTTGCATGAACATG-T
1 CAGAGTTATCGTTGCATGAACATGTT
*
32613363 CTAGAGTTGTCGTTGCATGA
1 C-AGAGTTATCGTTGCATGA
32613383 GAAAGTTTAG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 2 0.05
26 37 0.95
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (26 bp):
CAGAGTTATCGTTGCATGAACATGTT
Found at i:32626528 original size:9 final size:9
Alignment explanation
Indices: 32626495--32626546 Score: 61
Period size: 9 Copynumber: 5.8 Consensus size: 9
32626485 ATACTCGAAT
32626495 TTTTTTCTTC
1 TTTTTT-TTC
*
32626505 TTTTTCTTC
1 TTTTTTTTC
32626514 TTTTTTTTC
1 TTTTTTTTC
32626523 TTTTTTTT-
1 TTTTTTTTC
**
32626531 AATTTTTTC
1 TTTTTTTTC
32626540 TTTTTTT
1 TTTTTTT
32626547 CAAACTTTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
8 6 0.17
9 24 0.69
10 5 0.14
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:32626536 original size:18 final size:18
Alignment explanation
Indices: 32626496--32626546 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
32626486 TACTCGAATT
* **
32626496 TTTTTCTTCTTTTTCTTCT
1 TTTTT-TTCTTTTTTTTAA
32626515 TTTTTTTCTTTTTTTTAA
1 TTTTTTTCTTTTTTTTAA
32626533 -TTTTTTCTTTTTTT
1 TTTTTTTCTTTTTTT
32626547 CAAACTTTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 14 0.48
18 10 0.34
19 5 0.17
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTTTTTCTTTTTTTTAA
Found at i:32626599 original size:26 final size:26
Alignment explanation
Indices: 32626533--32626599 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 26
32626523 TTTTTTTTAA
*
32626533 TTTTTTCTTTTTTTCAAACTTTGAAT
1 TTTTTTCTTTTTTTTAAACTTTGAAT
*
32626559 TTTCTTT-ATTTTTTTAATA-TTTCG-AT
1 TTT-TTTCTTTTTTTTAA-ACTTT-GAAT
32626585 TTTTTTCTTTTTTTT
1 TTTTTTCTTTTTTTT
32626600 CACTTTTTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
25 3 0.09
26 26 0.76
27 5 0.15
ACGTcount: A:0.15, C:0.09, G:0.03, T:0.73
Consensus pattern (26 bp):
TTTTTTCTTTTTTTTAAACTTTGAAT
Found at i:32627905 original size:50 final size:50
Alignment explanation
Indices: 32627819--32627949 Score: 156
Period size: 50 Copynumber: 2.6 Consensus size: 50
32627809 TGCATGACTT
*
32627819 GATTTAATGATGCAAACTTTAACTAACATGGGAGTTACATAATGCATGAT-AG
1 GATTT-ATGATGCAAA-TTTAACTAACATGGAAGTTACATAATGCATG-TCAG
* * * *
32627871 GATTTATGATGCATATTTAACTAACATGTAAGTTACTTAATGCATGTCAT
1 GATTTATGATGCAAATTTAACTAACATGGAAGTTACATAATGCATGTCAG
* *
32627921 TATTTATGATGCAAACTTAACTAATCATG
1 GATTTATGATGCAAATTTAACTAA-CATG
32627950 AGAGTTAATG
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
49 1 0.01
50 50 0.72
51 13 0.19
52 5 0.07
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (50 bp):
GATTTATGATGCAAATTTAACTAACATGGAAGTTACATAATGCATGTCAG
Found at i:32631996 original size:99 final size:99
Alignment explanation
Indices: 32631697--32631997 Score: 310
Period size: 99 Copynumber: 3.0 Consensus size: 99
32631687 TGGGTCAAAG
* * * * **
32631697 TAAAGCTAGAAGCAGATCTTAATGTCCTTGAGGTTACGGTGGAATAGAGTGAAGCTTCAATAAAA
1 TAAAGCCAAAAGCAGATCTTAATGTCCTTGAGGTTACAGTGGAATAGAGTGAAACTTCAATACCA
* * *
32631762 AATCTTATCTTTCTGAAGTTGCAGTGAAGCGAAT
66 AATCCTATCTTCCTGAAGTTGCAGTGAAGCGGAT
* * * *
32631796 TACAA--CAAGTAGCAGATCTTAATGTCCTTGAGATTACAGTGGAATAGAGTG-AAGTTACAACA
1 TA-AAGCCAA-AAGCAGATCTTAATGTCCTTGAGGTTACAGTGGAATAGAGTGAAACTT-CAATA
* *
32631858 CCAAATCCTATAC--CCATGAAGTTGCAGTG-GGTCAGAT
63 CCAAATCCTAT-CTTCC-TGAAGTTGCAGTGAAG-CGGAT
* * *
32631895 TAAAGCCAAAAGCAGATCTCAATGTCCCTGAGGTTACAATGGAAT-GTAGTGAAACTTCAATACC
1 TAAAGCCAAAAGCAGATCTTAATGTCCTTGAGGTTACAGTGGAATAG-AGTGAAACTTCAATACC
* *
32631959 AAATCCTATCTTCCTAAAGTTACAGTGAAGCGGAT
65 AAATCCTATCTTCCTGAAGTTGCAGTGAAGCGGAT
32631994 TAAA
1 TAAA
32631998 TTAAGTAAGA
Statistics
Matches: 163, Mismatches: 26, Indels: 26
0.76 0.12 0.12
Matches are distributed among these distances:
98 10 0.06
99 140 0.86
100 13 0.08
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.27
Consensus pattern (99 bp):
TAAAGCCAAAAGCAGATCTTAATGTCCTTGAGGTTACAGTGGAATAGAGTGAAACTTCAATACCA
AATCCTATCTTCCTGAAGTTGCAGTGAAGCGGAT
Done.