Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold467
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: 175679
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Found at i:1790 original size:18 final size:16
Alignment explanation
Indices: 1760--1793 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
1750 TATGATATAT
1760 GAAAAAAAAAAAAGAA
1 GAAAAAAAAAAAAGAA
1776 GAAAAGAAAAGAAAAGAA
1 GAAAA-AAAA-AAAAGAA
1794 AAACCATGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 4 0.25
18 7 0.44
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (16 bp):
GAAAAAAAAAAAAGAA
Found at i:2690 original size:21 final size:21
Alignment explanation
Indices: 2641--2681 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2631 AACAAGGCAA
* *
2641 TCAACCTTAAGCTTTAAAACC
1 TCAACTTTAAGCCTTAAAACC
2662 TCAACTTTAAGCCTTAAAAC
1 TCAACTTTAAGCCTTAAAAC
2682 TTGATCTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.27, G:0.05, T:0.29
Consensus pattern (21 bp):
TCAACTTTAAGCCTTAAAACC
Found at i:4112 original size:20 final size:20
Alignment explanation
Indices: 4067--4112 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
4057 ATATAATTAA
4067 AAATTTATTTAAATTCGATT
1 AAATTTATTTAAATTCGATT
* *
4087 AGATTTATTTGAA-TCGATTT
1 AAATTTATTTAAATTCGA-TT
4107 AAATTT
1 AAATTT
4113 TTCACTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.50
Consensus pattern (20 bp):
AAATTTATTTAAATTCGATT
Found at i:15760 original size:2 final size:2
Alignment explanation
Indices: 15747--15777 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
15737 CAGCGGTTGA
*
15747 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15778 AAAACCAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:23215 original size:20 final size:20
Alignment explanation
Indices: 23190--23240 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
23180 AATTCTATTG
*
23190 ATACAATTTAAAGTGTATCA
1 ATACAAATTAAAGTGTATCA
23210 ATACAAATTAAAGTGTATCA
1 ATACAAATTAAAGTGTATCA
23230 ATACAAATTAA
1 ATACAAATTAA
23241 GGTTTCAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.51, C:0.10, G:0.08, T:0.31
Consensus pattern (20 bp):
ATACAAATTAAAGTGTATCA
Found at i:29881 original size:167 final size:165
Alignment explanation
Indices: 29426--30014 Score: 778
Period size: 167 Copynumber: 3.6 Consensus size: 165
29416 TTCAAATATC
* *
29426 AAAATTCATCAAATATTATTATTTCTTTCATATTAAATTAATTTTTAAAAATTAATTCATTTTCA
1 AAAATTCATCAAATATTATTATTTATTTCATATTAAATTATTTTTTAAAAATTAATTCATTTTCA
* * * * *
29491 TGAGTTTTTAAATTTTTTCCTTAAAATATCTTTTTTTCGAAATACGTTATTTTTTACTTTATGAT
66 TGAGTTTTTAAATTTTTTCCTTGAAATGTCTTTTTTTCGAAATACGTTATTTTCTACTTCATAAT
* * *
29556 TTTTTTGAGAGGA-TATTTCTTGGTTTTTAGTTTTC
131 TTTTTTGAG-GGAGTTTTTCTTGGTTTTTAATTTTT
* * * ** *
29591 AAAATTCATTAAATATTATTATTT-TTTTATATTACACCAGTTTTTAAAAATTAA-TCTATTTTC
1 AAAATTCATCAAATATTATTATTTATTTCATATTAAATTATTTTTTAAAAATTAATTC-ATTTTC
* * * *
29654 ATGAGTTTTTGAA-TTTTTCCTTGAAATGTCCATTTTTTGGAAATACGTTATTTTCTACTTCGTA
65 ATGAGTTTTTAAATTTTTTCCTTGAAATGT-CTTTTTTTCGAAATACGTTATTTTCTACTTCATA
*
29718 ATTTTTTCGAGGGAGTTTTTTCTTGGTTTTTAATTTTT
129 ATTTTTTTGAGGGAG-TTTTTCTTGGTTTTTAATTTTT
* *
29756 AAAATTTATCATATATTATTATTTATTTCATATTAAA-TATTTTTTTAAAAATTAATTCATTTTC
1 AAAATTCATCAAATATTATTATTTATTTCATATTAAATTA-TTTTTTAAAAATTAATTCATTTTC
*
29820 ATGAGTTTTTAAATTTTTTCCTTGAAATGTCTTTTTTTTCGAAATACGTTGTTTTCTACTTCATA
65 ATGAGTTTTTAAATTTTTTCCTTGAAATGTC-TTTTTTTCGAAATACGTTATTTTCTACTTCATA
29885 ATTTTTTTG-GGGTAGGATTTTT-TTGGTTTTTAATTTTT
129 ATTTTTTTGAGGG-A-G-TTTTTCTTGGTTTTTAATTTTT
* * * *
29923 AAAATTCATCACATATCATTATTTATTCCATATTAAATTATTTTTTAAAAATTAATTCATCTTCA
1 AAAATTCATCAAATATTATTATTTATTTCATATTAAATTATTTTTTAAAAATTAATTCATTTTCA
* *
29988 TGAGTTTTAAAATTTTTTTCTTGAAAT
66 TGAGTTTTTAAATTTTTTCCTTGAAAT
30015 CCCCATTTTC
Statistics
Matches: 372, Mismatches: 40, Indels: 22
0.86 0.09 0.05
Matches are distributed among these distances:
163 19 0.05
164 81 0.22
165 64 0.17
166 46 0.12
167 154 0.41
168 8 0.02
ACGTcount: A:0.29, C:0.09, G:0.08, T:0.54
Consensus pattern (165 bp):
AAAATTCATCAAATATTATTATTTATTTCATATTAAATTATTTTTTAAAAATTAATTCATTTTCA
TGAGTTTTTAAATTTTTTCCTTGAAATGTCTTTTTTTCGAAATACGTTATTTTCTACTTCATAAT
TTTTTTGAGGGAGTTTTTCTTGGTTTTTAATTTTT
Found at i:30057 original size:167 final size:166
Alignment explanation
Indices: 29426--30132 Score: 763
Period size: 167 Copynumber: 4.3 Consensus size: 166
29416 TTCAAATATC
* *
29426 AAAATTCATCAAATATTATTATTTCTTTCATATTAAATTAATTTTTAAAAATTAATTCATTTTCA
1 AAAATTCATCAAATATTATTATTTATTTCATATTAAATTATTTTTTAAAAATTAATTCATTTTCA
* * * * *** *
29491 TGAGTTTTTAAATTTTTTCCTTAAAATAT-CTTTTTTTCGAAATACGTTATTTTTTACTTTATGA
66 TGAGTTTTTAAATTTTTTCCTTGAAATGTCCATTTTTTCGAAATACGTTATTTTCTACTCCGTAA
* * * *
29555 TTTTTTTGAGAGGATATTTCTTGGTTTTTAGTTTTC
131 TTTTTTTGGGAGGATTTTTCTTGGTTTTTAATTTTT
* * * ** *
29591 AAAATTCATTAAATATTATTATTT-TTTTATATTACACCAGTTTTTAAAAATTAA-TCTATTTTC
1 AAAATTCATCAAATATTATTATTTATTTCATATTAAATTATTTTTTAAAAATTAATTC-ATTTTC
* * *
29654 ATGAGTTTTTGAA-TTTTTCCTTGAAATGTCCATTTTTTGGAAATACGTTATTTTCTACTTCGTA
65 ATGAGTTTTTAAATTTTTTCCTTGAAATGTCCATTTTTTCGAAATACGTTATTTTCTACTCCGTA
* *
29718 ATTTTTTCGAGG-GAGTTTTTTCTTGGTTTTTAATTTTT
130 ATTTTTTTG-GGAG-GATTTTTCTTGGTTTTTAATTTTT
* *
29756 AAAATTTATCATATATTATTATTTATTTCATATTAAA-TATTTTTTTAAAAATTAATTCATTTTC
1 AAAATTCATCAAATATTATTATTTATTTCATATTAAATTA-TTTTTTAAAAATTAATTCATTTTC
** * * *
29820 ATGAGTTTTTAAATTTTTTCCTTGAAATGTCTTTTTTTTCGAAATACGTTGTTTTCTACTTCATA
65 ATGAGTTTTTAAATTTTTTCCTTGAAATGTCCATTTTTTCGAAATACGTTATTTTCTACTCCGTA
29885 ATTTTTTTGGGGTAGGATTTTT-TTGGTTTTTAATTTTT
130 ATTTTTTT-GGG-AGGATTTTTCTTGGTTTTTAATTTTT
* * * *
29923 AAAATTCATCACATATCATTATTTATTCCATATTAAATTATTTTTTAAAAATTAATTCATCTTCA
1 AAAATTCATCAAATATTATTATTTATTTCATATTAAATTATTTTTTAAAAATTAATTCATTTTCA
* * ** * * * *
29988 TGAGTTTTAAAATTTTTTTCTTGAAATCCCCATTTTCT-AAAAAAC-TGAATTTTCCT-CTCCGT
66 TGAGTTTTTAAATTTTTTCCTTGAAATGTCCATTTTTTCGAAATACGT-TATTTT-CTACTCCGT
* * **
30050 AAATTTTTTGGTG-GGATTTTTCTTGATTTAAAATTTTT
129 AATTTTTTTGG-GAGGATTTTTCTTGGTTTTTAATTTTT
* * * * *
30088 AAAATTCACCTAAA-ATTGTCATTAAATTCATATTAAATTATTTTT
1 AAAATTCATC-AAATATTATTATTTATTTCATATTAAATTATTTTT
30133 GGAAAATTCA
Statistics
Matches: 459, Mismatches: 66, Indels: 34
0.82 0.12 0.06
Matches are distributed among these distances:
163 16 0.03
164 88 0.19
165 116 0.25
166 66 0.14
167 163 0.36
168 9 0.02
169 1 0.00
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.53
Consensus pattern (166 bp):
AAAATTCATCAAATATTATTATTTATTTCATATTAAATTATTTTTTAAAAATTAATTCATTTTCA
TGAGTTTTTAAATTTTTTCCTTGAAATGTCCATTTTTTCGAAATACGTTATTTTCTACTCCGTAA
TTTTTTTGGGAGGATTTTTCTTGGTTTTTAATTTTT
Found at i:30655 original size:21 final size:19
Alignment explanation
Indices: 30618--30657 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
30608 AAAAAAAGAG
30618 GAAAAAAAAACAAAGAAAA
1 GAAAAAAAAACAAAGAAAA
*
30637 GAAAGAAAAAATAAGAGAAAA
1 GAAA-AAAAAACAA-AGAAAA
30658 TAGAGTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 8 0.44
21 6 0.33
ACGTcount: A:0.80, C:0.03, G:0.15, T:0.03
Consensus pattern (19 bp):
GAAAAAAAAACAAAGAAAA
Found at i:36774 original size:80 final size:80
Alignment explanation
Indices: 36679--36882 Score: 191
Period size: 80 Copynumber: 2.6 Consensus size: 80
36669 AACGAAGTTC
* * * * ** * **
36679 CTAAAATGAA-CTTAATAGG-CATGTTTCGATTTGAAAATGTCAATATGACCTAAAAGATTTGGT
1 CTAAAAT-AACCTTAATAGGAAATGTTTCGATATGAAAATGCCAACACAACCTAAAAGACTAAGT
36742 TTTGATGAAAAAAATT
65 TTTGATGAAAAAAATT
* *
36758 CTTAAAATAACCTTAAT-GGAAATGTTTTGATATGAAAATGCCAACACAACCTAAATGACTAAGT
1 C-TAAAATAACCTTAATAGGAAATGTTTCGATATGAAAATGCCAACACAACCTAAAAGACTAAGT
***
36822 TTTGATGAAAATTTTT
65 TTTGATGAAAAAAATT
* * * * *
36838 CCAAAATAACCTTAATA-GATATATTTCGATATAAAAATGCAAACA
1 CTAAAATAACCTTAATAGGAAATGTTTCGATATGAAAATGCCAACA
36883 TGACCTTAAA
Statistics
Matches: 101, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
79 42 0.42
80 59 0.58
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (80 bp):
CTAAAATAACCTTAATAGGAAATGTTTCGATATGAAAATGCCAACACAACCTAAAAGACTAAGTT
TTGATGAAAAAAATT
Found at i:37700 original size:38 final size:39
Alignment explanation
Indices: 37611--37701 Score: 118
Period size: 38 Copynumber: 2.4 Consensus size: 39
37601 ATTTTATGTT
37611 TTGAT-TTTTGATT-TAAGGTTTTATTTTGGGATTTATA
1 TTGATGTTTTGATTATAAGGTTTTATTTTGGGATTTATA
* * *
37648 TTAAGGTTTTGATTAT-AGGTTTTATTTTAGGG-TTTGTA
1 TTGATGTTTTGATTATAAGGTTTTATTTT-GGGATTTATA
37686 TTGATGTTTTGATTAT
1 TTGATGTTTTGATTAT
37702 GGATATAGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
37 3 0.07
38 39 0.85
39 4 0.09
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.58
Consensus pattern (39 bp):
TTGATGTTTTGATTATAAGGTTTTATTTTGGGATTTATA
Found at i:41945 original size:33 final size:33
Alignment explanation
Indices: 41900--41978 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
41890 TTACAAGCCA
* * **
41900 ATGTATCAATACATTGTATCGATACATTTTGGG
1 ATGTATCGATACAATGTATCGATACATAATGGG
*
41933 ATGTATCGATACAATGTATCGATACATAATGTG
1 ATGTATCGATACAATGTATCGATACATAATGGG
41966 -TGTATCGATACAA
1 ATGTATCGATACAA
41979 ACAGTTAAGG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
32 13 0.32
33 28 0.68
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (33 bp):
ATGTATCGATACAATGTATCGATACATAATGGG
Found at i:41951 original size:13 final size:13
Alignment explanation
Indices: 41933--41958 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41923 ACATTTTGGG
41933 ATGTATCGATACA
1 ATGTATCGATACA
41946 ATGTATCGATACA
1 ATGTATCGATACA
41959 TAATGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:42089 original size:13 final size:13
Alignment explanation
Indices: 42059--42083 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42049 ACATTTGGTC
42059 ATGTATCGATACA
1 ATGTATCGATACA
42072 ATGTATCGATAC
1 ATGTATCGATAC
42084 TGTGTAATAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:42646 original size:22 final size:22
Alignment explanation
Indices: 42619--42663 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
42609 TTTTCTTTTC
42619 TCTCCCCCTTAATCAAAA-AATT
1 TCTCCCCCTTAAT-AAAATAATT
42641 TCTCCCCCTTAATAAAATAATT
1 TCTCCCCCTTAATAAAATAATT
42663 T
1 T
42664 AACAGTTTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.36, C:0.29, G:0.00, T:0.36
Consensus pattern (22 bp):
TCTCCCCCTTAATAAAATAATT
Found at i:44380 original size:20 final size:21
Alignment explanation
Indices: 44351--44391 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
44341 TGTTTTTGTT
44351 GATGATTTTG-A-TGAAAAAC
1 GATGATTTTGAAGTGAAAAAC
44370 GATGTATTTTGAAGTGAAAAAC
1 GATG-ATTTTGAAGTGAAAAAC
44392 AAGAAATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (21 bp):
GATGATTTTGAAGTGAAAAAC
Found at i:44541 original size:13 final size:13
Alignment explanation
Indices: 44523--44560 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
44513 ATAAACCCTT
*
44523 TGTATCGATACAC
1 TGTATCGATACAA
44536 TGTATCGATACAA
1 TGTATCGATACAA
44549 TGTATCGATACA
1 TGTATCGATACA
44561 GAGAATGCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:50712 original size:13 final size:13
Alignment explanation
Indices: 50694--50719 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50684 TACAAGCCAA
50694 TGTATCGATACAT
1 TGTATCGATACAT
50707 TGTATCGATACAT
1 TGTATCGATACAT
50720 AATGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:50837 original size:13 final size:13
Alignment explanation
Indices: 50819--50843 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50809 ACATTTGGTC
50819 ATGTATCGATACA
1 ATGTATCGATACA
50832 ATGTATCGATAC
1 ATGTATCGATAC
50844 TATGCAATAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:53348 original size:58 final size:56
Alignment explanation
Indices: 53285--53456 Score: 186
Period size: 58 Copynumber: 3.0 Consensus size: 56
53275 GTTATTTCAA
* * *
53285 ATAATTTAGGGTCATTTTAGCAATTTTCATATATTTTAGGGCCATTTAGGTTATTTT
1 ATAATTTAAGGTCATTTTAGTAATTTTCAT-TATTTTAGGGCTATTTAGGTTATTTT
* * * * * *
53342 ACTAATTTAAAGTCAGTTTAGTACTTTT-ATCATTTTAAGACTATTTAGGTTATTTGAT
1 A-TAATTTAAGGTCATTTTAGTAATTTTCATTATTTTAGGGCTATTTAGGTTATTT--T
* *
53400 ATAATCTAAGGTCATTTTAGTAATTTTC-TTCATTTTAGGGCTATTTATGTTATTTT
1 ATAATTTAAGGTCATTTTAGTAATTTTCATT-ATTTTAGGGCTATTTAGGTTATTTT
53456 A
1 A
53457 GAAATTTTCA
Statistics
Matches: 93, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
56 23 0.25
57 26 0.28
58 44 0.47
ACGTcount: A:0.28, C:0.09, G:0.13, T:0.50
Consensus pattern (56 bp):
ATAATTTAAGGTCATTTTAGTAATTTTCATTATTTTAGGGCTATTTAGGTTATTTT
Found at i:55814 original size:16 final size:16
Alignment explanation
Indices: 55772--55814 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
55762 GGGTTTAAAT
*
55772 TTTTTTAAGTTTGAAC
1 TTTTTCAAGTTTGAAC
* * *
55788 TTATTCGAGTTTGAGC
1 TTTTTCAAGTTTGAAC
55804 TTTTTCAAGTT
1 TTTTTCAAGTT
55815 CAAATTTTTT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.21, C:0.09, G:0.16, T:0.53
Consensus pattern (16 bp):
TTTTTCAAGTTTGAAC
Found at i:55838 original size:15 final size:16
Alignment explanation
Indices: 55820--55863 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
55810 AAGTTCAAAT
55820 TTTTTCGGATTCGGA-
1 TTTTTCGGATTCGGAC
*
55835 TTTTTCAGATTCGGAC
1 TTTTTCGGATTCGGAC
* *
55851 TTATTCGGGTTCG
1 TTTTTCGGATTCG
55864 TGTTCGGGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 14 0.58
16 10 0.42
ACGTcount: A:0.14, C:0.16, G:0.25, T:0.45
Consensus pattern (16 bp):
TTTTTCGGATTCGGAC
Found at i:56087 original size:18 final size:18
Alignment explanation
Indices: 56048--56087 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
56038 ATATTTATAT
*
56048 ATAAAATTAATTTGTTAT
1 ATAAAATTAATTTGTTAA
56066 ATAAAATTAA-TTGTTCAA
1 ATAAAATTAATTTGTT-AA
56084 ATAA
1 ATAA
56088 TTTATTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (18 bp):
ATAAAATTAATTTGTTAA
Found at i:56253 original size:11 final size:10
Alignment explanation
Indices: 56225--56267 Score: 61
Period size: 11 Copynumber: 4.2 Consensus size: 10
56215 TAACTGAATT
56225 AATATTTAAA
1 AATATTTAAA
56235 AA-ATTTAAA
1 AATATTTAAA
56244 ATATATTTAATA
1 A-ATATTTAA-A
56256 AATATTTAAA
1 AATATTTAAA
56266 AA
1 AA
56268 CTCATTTATC
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
9 8 0.27
10 6 0.20
11 14 0.47
12 2 0.07
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
AATATTTAAA
Found at i:56275 original size:23 final size:20
Alignment explanation
Indices: 56226--56266 Score: 64
Period size: 20 Copynumber: 1.9 Consensus size: 20
56216 AACTGAATTA
56226 ATATTTAAAAAATTTAAAAT
1 ATATTTAAAAAATTTAAAAT
56246 ATATTTAATAAATATTTAAAA
1 ATATTTAA-AAA-ATTTAAAA
56267 ACTCATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
21 3 0.16
22 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATTTAAAAAATTTAAAAT
Found at i:56456 original size:16 final size:17
Alignment explanation
Indices: 56419--56458 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
56409 AAATTAATAA
56419 AATTTCATTTATAATATT
1 AATTT-ATTTATAATATT
56437 -ATTTATTT-TAATATT
1 AATTTATTTATAATATT
56452 AATTTAT
1 AATTTAT
56459 AGGTTTGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 7 0.33
16 10 0.48
17 4 0.19
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (17 bp):
AATTTATTTATAATATT
Found at i:56754 original size:16 final size:15
Alignment explanation
Indices: 56729--56758 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
56719 ATATTAACTT
56729 TATATTCTATTCTAC
1 TATATTCTATTCTAC
56744 TATATTACTATTCTA
1 TATATT-CTATTCTA
56759 AGTGTAACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.30, C:0.17, G:0.00, T:0.53
Consensus pattern (15 bp):
TATATTCTATTCTAC
Found at i:68900 original size:108 final size:108
Alignment explanation
Indices: 68560--69041 Score: 483
Period size: 108 Copynumber: 4.5 Consensus size: 108
68550 TTAGATGATA
** * * * **
68560 ACTTATTTTTGGGTCAATCTTTTGGTACTCGAATTTATGTAATTGATGCAGAAACTGAATTGTCC
1 ACTTATTTCGGGGCCAATCTTTTGGTGCTCGAATTTACGTAATTGATGCAGAAAAAG-ATTGTCC
* ** *
68625 TATGTAAAGGGCGTTCGTACGTCATTTTACGACTCTAGATAATG
65 TATGTAAAGGGCGTTCGTACGCCGCTTTACGACTCTAGACAATG
* * *
68669 ACTTATTTCGGAGTCAATCTTTTGGTGCTTC-AATTTACGTAATTGATACA-AAAAAGATTGTCC
1 ACTTATTTCGGGGCCAATCTTTTGGTGC-TCGAATTTACGTAATTGATGCAGAAAAAGATTGTCC
* * * * **
68732 TGTGTAAAGGGTGTTCGTACGTCGCTTTACGACTTTAGACAACA
65 TATGTAAAGGGCGTTCGTACGCCGCTTTACGACTCTAGACAATG
* * * * **
68776 ATTTACTTT-GAGGCCAATCTTTTGGTG-TCGAAATTTACGTAATTAATGCAGACACTGAATT-T
1 ACTTA-TTTCGGGGCCAATCTTTTGGTGCTCG-AATTTACGTAATTGATGCAGAAAAAG-ATTGT
* * * * *
68838 CCTATATGAAGGACGTTTGTACGCCGCTTTACAACTCTAGACAATG
63 CCTATGTAAAGGGCGTTCGTACGCCGCTTTACGACTCTAGACAATG
* * *
68884 ACCTATTTCGGGGCCAATCTTTTGGTGCCCGAATTTACGTAATTGATGCAAAAAAAGATTGTCCT
1 ACTTATTTCGGGGCCAATCTTTTGGTGCTCGAATTTACGTAATTGATGCAGAAAAAGATTGTCCT
*
68949 ATGTAAAGGGCGTTCGTACGCCGCTTTACGACTCTAGACAATA
66 ATGTAAAGGGCGTTCGTACGCCGCTTTACGACTCTAGACAATG
* * * * * *
68992 ATTTACTTT-GAGGG-CAATCTCTTGGTGCCCGAATCTACATAATTAATGCA
1 ACTTA-TTTCG-GGGCCAATCTTTTGGTGCTCGAATTTACGTAATTGATGCA
69042 ATTAAATTCT
Statistics
Matches: 305, Mismatches: 57, Indels: 23
0.79 0.15 0.06
Matches are distributed among these distances:
105 2 0.01
107 85 0.28
108 164 0.54
109 52 0.17
110 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (108 bp):
ACTTATTTCGGGGCCAATCTTTTGGTGCTCGAATTTACGTAATTGATGCAGAAAAAGATTGTCCT
ATGTAAAGGGCGTTCGTACGCCGCTTTACGACTCTAGACAATG
Found at i:68921 original size:215 final size:216
Alignment explanation
Indices: 68574--69041 Score: 627
Period size: 216 Copynumber: 2.2 Consensus size: 216
68564 ATTTTTGGGT
* * * * *
68574 CAATCTTTTGGTACTCGAATTTATGTAATTGATGCAGAAACTGAATTGTCCTATGTAAAGGGCGT
1 CAATCTTTTGGT-GTCGAATTTACGTAATTAATGCAGAAACTGAATTGTCCTATATAAAGGACGT
* * * * * * *
68639 TCGTACGTCATTTTACGACTCTAGATAATGACTTATTTCGGAGTCAATCTTTTGGTGCTTCAATT
65 TCGTACGCCACTTTACAACTCTAGACAATGACCTATTTCGGAGCCAATCTTTTGGTGCTCCAATT
* * * *
68704 TACGTAATTGATAC-AAAAAAGATTGTCCTGTGTAAAGGGTGTTCGTACGTCGCTTTACGACTTT
130 TACGTAATTGATACAAAAAAAGATTGTCCTATGTAAAGGGCGTTCGTACGCCGCTTTACGACTCT
68768 AGACAACAATTTACTTTGAGGC
195 AGACAACAATTTACTTTGAGGC
* *
68790 CAATCTTTTGGTGTCGAAATTTACGTAATTAATGCAGACACTGAATT-TCCTATATGAAGGACGT
1 CAATCTTTTGGTGTCG-AATTTACGTAATTAATGCAGAAACTGAATTGTCCTATATAAAGGACGT
* * *
68854 TTGTACGCCGCTTTACAACTCTAGACAATGACCTATTTCGGGGCCAATCTTTTGGTGC-CCGAAT
65 TCGTACGCCACTTTACAACTCTAGACAATGACCTATTTCGGAGCCAATCTTTTGGTGCTCC-AAT
*
68918 TTACGTAATTGATGCAAAAAAAGATTGTCCTATGTAAAGGGCGTTCGTACGCCGCTTTACGACTC
129 TTACGTAATTGATACAAAAAAAGATTGTCCTATGTAAAGGGCGTTCGTACGCCGCTTTACGACTC
* *
68983 TAGACAATAATTTACTTTGAGGG
194 TAGACAACAATTTACTTTGAGGC
* * * *
69006 CAATCTCTTGGTGCCCGAATCTACATAATTAATGCA
1 CAATCTTTTGGTG-TCGAATTTACGTAATTAATGCA
69042 ATTAAATTCT
Statistics
Matches: 220, Mismatches: 28, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
214 1 0.00
215 83 0.38
216 134 0.61
217 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (216 bp):
CAATCTTTTGGTGTCGAATTTACGTAATTAATGCAGAAACTGAATTGTCCTATATAAAGGACGTT
CGTACGCCACTTTACAACTCTAGACAATGACCTATTTCGGAGCCAATCTTTTGGTGCTCCAATTT
ACGTAATTGATACAAAAAAAGATTGTCCTATGTAAAGGGCGTTCGTACGCCGCTTTACGACTCTA
GACAACAATTTACTTTGAGGC
Found at i:69787 original size:14 final size:14
Alignment explanation
Indices: 69739--69795 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
69729 ATTTCCATTT
69739 TTTTCCTTT-TTGT-
1 TTTTCCTTTCTT-TC
*
69752 TTTT-CTTTTTTTC
1 TTTTCCTTTCTTTC
*
69765 TCCTTCCTTTCTTTC
1 T-TTTCCTTTCTTTC
69780 TTTTCCTTTCTTTC
1 TTTTCCTTTCTTTC
69794 TT
1 TT
69796 CTTCTTCCTC
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
12 5 0.14
13 7 0.19
14 16 0.43
15 9 0.24
ACGTcount: A:0.00, C:0.25, G:0.02, T:0.74
Consensus pattern (14 bp):
TTTTCCTTTCTTTC
Found at i:69792 original size:18 final size:18
Alignment explanation
Indices: 69753--69808 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
69743 CCTTTTTGTT
*
69753 TTTCTTTTTTTCTCCTTCC
1 TTTCTTTCTTT-TCCTTCC
*
69772 TTTCTTTCTTTTCCTTTC
1 TTTCTTTCTTTTCCTTCC
69790 TTTC-TTCTTCTTCC-TCC
1 TTTCTTTCTT-TTCCTTCC
69807 TT
1 TT
69809 CCTTCTTCTC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 9 0.27
18 14 0.42
19 10 0.30
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTCTTTCTTTTCCTTCC
Found at i:71302 original size:97 final size:97
Alignment explanation
Indices: 71125--71302 Score: 234
Period size: 97 Copynumber: 1.8 Consensus size: 97
71115 TAATTTGGAC
* * *
71125 AAAATAAGACTTAAATTTCAATGAGTTTAAAAACGGGGTTGGAGTATTCCCTCGGAGGAATGAGG
1 AAAATAAGACTTAAATTTCAATAAGTTTAAAAACGGGGTTGGAGTATTCCCTCGGAGCAACGAGG
*
71190 TTGTAGTGTCCCCGATGATGATAATTTAACCG
66 TTGTAGTATCCCCGATGATGATAATTTAACCG
* ** * *
71222 AAAATAAGATTTAAATTTTGATAAGTTTAAAAGCGGGGTTGGAGTA-TCCCTTCGGAGCAACGGG
1 AAAATAAGACTTAAATTTCAATAAGTTTAAAAACGGGGTTGGAGTATTCCC-TCGGAGCAACGAG
*
71286 GTTGGT-GTATCTCCGAT
65 GTT-GTAGTATCCCCGAT
71303 AAACAAAATT
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
96 4 0.06
97 63 0.91
98 2 0.03
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (97 bp):
AAAATAAGACTTAAATTTCAATAAGTTTAAAAACGGGGTTGGAGTATTCCCTCGGAGCAACGAGG
TTGTAGTATCCCCGATGATGATAATTTAACCG
Found at i:71830 original size:9 final size:10
Alignment explanation
Indices: 71806--71833 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
71796 AAAATTGTTT
71806 GAAAAATCTG
1 GAAAAATCTG
71816 GAAAAATCTG
1 GAAAAATCTG
71826 GAAAAATC
1 GAAAAATC
71834 ATCTAATGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.54, C:0.11, G:0.18, T:0.18
Consensus pattern (10 bp):
GAAAAATCTG
Found at i:73392 original size:14 final size:14
Alignment explanation
Indices: 73373--73402 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
73363 TTTTGCTTTC
73373 TCAATTGCTTGCTT
1 TCAATTGCTTGCTT
*
73387 TCAATTTCTTGCTT
1 TCAATTGCTTGCTT
73401 TC
1 TC
73403 TCCTTTACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.10, T:0.53
Consensus pattern (14 bp):
TCAATTGCTTGCTT
Found at i:73614 original size:25 final size:25
Alignment explanation
Indices: 73586--73634 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
73576 CATTTTCATT
*
73586 TTTTTTGGATATTTAATTTTTTTTA
1 TTTTTTGAATATTTAATTTTTTTTA
* *
73611 TTTTTTTAATTTTTAATTTTTTTT
1 TTTTTTGAATATTTAATTTTTTTT
73635 TGTTTTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (25 bp):
TTTTTTGAATATTTAATTTTTTTTA
Found at i:73632 original size:18 final size:18
Alignment explanation
Indices: 73597--73635 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
73587 TTTTTGGATA
*
73597 TTTAATTTTTTTTATTTT
1 TTTAATTTTTATTATTTT
73615 TTTAATTTTTAATT-TTTT
1 TTTAATTTTT-ATTATTTT
73633 TTT
1 TTT
73636 GTTTTTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTAATTTTTATTATTTT
Found at i:74661 original size:61 final size:60
Alignment explanation
Indices: 74566--74785 Score: 192
Period size: 62 Copynumber: 3.6 Consensus size: 60
74556 GGATAAGGAG
* * * * * * *
74566 AGTGCCAATGTGCTAATTCAAGGCTAGCGATATTATACTTAAAAATGAGAAGAACGATAAA
1 AGTGCCAATATGCTGATTCAAGGCCAACGATATTACACTTAAAGATGA-AAGAAAGATAAA
*
74627 AGTGCCAATATGCTGATTCAAGGCCAACGATATTAGA-TCTAAAGATGCAAAGAAATGATAAA
1 AGTGCCAATATGCTGATTCAAGGCCAACGATATTACACT-TAAAGATG-AAAGAAA-GATAAA
* *** *** * *
74689 GGTGTTGATATGCTGATTCACTACCAACGATATTACGCTTGAAAGATGAAAAAAAAGATAAA
1 AGTGCCAATATGCTGATTCAAGGCCAACGATATTACACTT-AAAGATG-AAAGAAAGATAAA
* *
74751 AGTACTAATATGCTGATTCAAGG-CAAGCGATATTA
1 AGTGCCAATATGCTGATTCAAGGCCAA-CGATATTA
74786 GGCTTGAAAG
Statistics
Matches: 128, Mismatches: 25, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
60 1 0.01
61 47 0.37
62 66 0.52
63 14 0.11
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.25
Consensus pattern (60 bp):
AGTGCCAATATGCTGATTCAAGGCCAACGATATTACACTTAAAGATGAAAGAAAGATAAA
Found at i:74945 original size:31 final size:32
Alignment explanation
Indices: 74851--74946 Score: 115
Period size: 32 Copynumber: 3.0 Consensus size: 32
74841 CATCGGACTT
* * * *
74851 AGAAGAGTTACCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCAACTTGTGTAGGCTTT-G
*
74884 AGAA-GGCTGCCACCAACTTGTGTAGGCTTTG
1 AGAAGGGTTGCCACCAACTTGTGTAGGCTTTG
*
74915 AGAAGGGTTGCCACCAACTTGTAT-GGCTTTG
1 AGAAGGGTTGCCACCAACTTGTGTAGGCTTTG
74946 A
1 A
74947 AAGAAAAATG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
31 13 0.24
32 38 0.69
33 4 0.07
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (32 bp):
AGAAGGGTTGCCACCAACTTGTGTAGGCTTTG
Found at i:75035 original size:61 final size:60
Alignment explanation
Indices: 74927--75131 Score: 202
Period size: 61 Copynumber: 3.4 Consensus size: 60
74917 AAGGGTTGCC
* * ** *
74927 ACCAACTTGTATGGCTTTGAAA-GA-AAAATGTCCTGCTCTTTGGGGACTAGAAGGTGCT
1 ACCAACTTGTGTGGCTTTAAAAGGAGAAGGTGTCCTGCTCTTTGAGGACTAGAAGGTGCT
* * * *
74985 ACCAACTCGTGTGAGCTTTGAAAAGGA-AAGGTGTCCTGTTCTTCGAGGACTAAAAGGTGCT
1 ACCAACTTGTGTG-GCTTT-AAAAGGAGAAGGTGTCCTGCTCTTTGAGGACTAGAAGGTGCT
* * * * * *
75046 ACCAACTTGTATGGACTTTAAATGGAGAAGGCGTCCTACTCTTTGAGGACT-GAAACGTGCC
1 ACCAACTTGTGTGG-CTTTAAAAGGAGAAGGTGTCCTGCTCTTTGAGGACTAG-AAGGTGCT
75107 ACCAACTTGTGTGGGCTTTAAAAGG
1 ACCAACTTGTGT-GGCTTTAAAAGG
75132 GTCTACCAAC
Statistics
Matches: 119, Mismatches: 21, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
58 11 0.09
59 5 0.04
60 10 0.08
61 91 0.76
62 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (60 bp):
ACCAACTTGTGTGGCTTTAAAAGGAGAAGGTGTCCTGCTCTTTGAGGACTAGAAGGTGCT
Found at i:75183 original size:28 final size:28
Alignment explanation
Indices: 75145--77923 Score: 2075
Period size: 28 Copynumber: 97.5 Consensus size: 28
75135 TACCAACTTA
*
75145 TGTGGGCTTTGGAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
** * *
75173 CATGGGTTTTGAAAAGG-TGCCACTAACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
** * *
75201 CATGGGATTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
75229 TGTGGGATTTTAAAAGGATGCCACTGACT
1 TGTGGG-CTTTGAAAGGATGCCACTGACT
* * *
75258 TATGGGATTTTGAAAGGATGCCACTGGCT
1 TGTGGG-CTTTGAAAGGATGCCACTGACT
* ** *
75287 TATGAGATTTTGAAAGGATGCCACTAACT
1 TGTG-GGCTTTGAAAGGATGCCACTGACT
* * *
75316 CT-T-AGCTTTGGAAAGG-TACCACTAACT
1 -TGTGGGCTTT-GAAAGGATGCCACTGACT
* * *
75343 CGTGGGCTTTGAGAAGG-TGCTACTGGCT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
* * * *
75371 CGTGGGCTTTGAAAGGGTGCCATTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
75399 TATGGGCTTTGAAAGGGTGCCACTGGCC
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
75427 TGTGGACTTTTGAAAAGG-TGCAACTGACT
1 TGTGGGC-TTTG-AAAGGATGCCACTGACT
** * * *
75456 TGTAGGATTTTGAAAGGATGCCATTAATT
1 TGT-GGGCTTTGAAAGGATGCCACTGACT
* * *
75485 TGTGGGCTTTGGAAGGATGCCAGTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
75513 TGTGGGCTTTAAAAAGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
75541 TGTGGGCTTTAAAAGGGGTGCCATTGACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* *
75570 TGTGGGCTTTAAAAGGGGTGCCACTGACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* * *
75599 TGTGGGCTTTGGAAGGTTGCCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
75627 TGTGGGCTTTTCAAAAGG-TGCCACTGACT
1 TGTGGGC-TTT-GAAAGGATGCCACTGACT
* * *
75656 TGTGAGCTTTGGAAGGATGCCACT-AAT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
75683 TCATGGGCTTTGGAAGGGTGCCCCTGACT
1 T-GTGGGCTTTGAAAGGATGCCACTGACT
* * *
75712 TGTGGGCTTTGAAAGGGTGCCCCTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
75740 TGTGGGCTTT-AAAAGAGTGCCATTTACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
75768 TGTGGGCTTTTGAAAGGATGCCACTGACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
* * *
75797 TATGGGATTTTGAAAGGATGCCACTAACT
1 TGTGGG-CTTTGAAAGGATGCCACTGACT
*
75826 TGTGGGCTTTGGAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
75854 TGTGGACTTTAAAAGGGGTGCCACTAACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* * * *
75883 TGCGGGTTTTAAAAAGGGTGCCACTGACT
1 TGTGGGCTTT-GAAAGGATGCCACTGACT
* **
75912 TATGGGCTTT-AAAAAAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* *
75940 CGTGGGCTTTGGAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
75968 TGTAGGCTTT-AAAAGAGTGCC-CTTGACT
1 TGTGGGCTTTGAAAGGA-TGCCAC-TGACT
*
75996 TGTGGGCTTTAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
76024 TGTGGGCTTTTGAAAGGATGCCACTGACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
* *
76053 TGTGGGCTTTTGAAAAGATGCCATTGACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
*
76082 TGTGGGCTTTGGAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
76110 TATGGGCTTTAAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
76138 TGTTGGCTTTAAAAAGGGTGCCACTGAAT
1 TGTGGGCTTT-GAAAGGATGCCACTGACT
* * *
76167 TGTGGGCTTTAAAAGGGGTGCCACTGATT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* * *
76196 TGTGGGCTTT-AAAGGGGTGCCACTAATT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* * *
76224 TGTGGGCTTTAAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
76252 CGTGGGCTATGGAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
76280 CGTGGGCTTTGAAAGGGTGCCCCTGATT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * **
76308 TGTGGGCTTTAAAAGGGTGTTACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
76336 TGTGAGATTTAAAAGGGGTGCCACTGACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* * *
76365 TGTGGGCTTTAAAAGAGGTGCCACTAACT
1 TGTGGGCTTTGAAAG-GATGCCACTGACT
* * * *
76394 TGTGAGCTTTGAAAAGGGTGCCTCTAACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* *
76423 TGTGGGCTTTTCAAAGGGTGCCACTGACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
* *
76452 TGTGGGCTTTGGAAGGATGCCACT-AAT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
76479 TCATGGGCTTTGGAAGGGTGCCCCTAACT
1 T-GTGGGCTTTGAAAGGATGCCACTGACT
* * *
76508 TGTGGGCTTTGAAA-AAGTGCCCCTAACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* * *
76536 TGTGGGCTTTAAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
76564 TGTGGGCTTTTGAAAGGATACCACTGACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
* *
76593 TGTGGGCTTTGGAAA-AATGCCATTGACT
1 TGTGGGCTTT-GAAAGGATGCCACTGACT
* * *
76621 TGTGGACTTTAAAAGGGGTGCCACTGACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* * *
76650 TGTGGGTTTTAAAAAGG-TGCCACTGATT
1 TGTGGGCTTT-GAAAGGATGCCACTGACT
* * *
76678 TATGGGCTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
**
76706 CATGGGCTTT-AGAAGGATGCCACTGACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
** *
76734 CATGGGCTTTGGAAA-GATGCCACTTACT
1 TGTGGGCTTT-GAAAGGATGCCACTGACT
* *
76762 TGTAGGCTTT-AAAAGAGTGCC-CTTGACT
1 TGTGGGCTTTGAAAGGA-TGCCAC-TGACT
* *
76790 TGTGGGCTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
76818 TGTGAGCTTTTAAAAGAATGCCACTGACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
* * *
76847 TGTGGGCTTTTGAAAAGATGTCACTAACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
76876 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
76904 TATGAGCTTTAAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
76932 TGTGGGCTTTAAAAGGGGTGCCACTGACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
*
76961 TGTGGGCTTT-AAAGGGGTGCCACTGACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* *
76989 TGTGGGCTTT-AAAGGGGTGCCACTGATT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* * *
77017 TGTGGCCTTTAAAAAGG-TGCCACTAACT
1 TGTGGGCTTT-GAAAGGATGCCACTGACT
* * * * *
77045 CGTGAGCTATGGAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
77073 TGTGGGCTTT-AAAGGGGTGCCATTGATT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* * *
77101 TGTGGCCTTTAAAAAGG-TGCCACTAACT
1 TGTGGGCTTT-GAAAGGATGCCACTGACT
* * * *
77129 CGTGAGCTATGGAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
77157 TGTAGGCTTT-AAAAGAGTGCCCCTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
**
77185 TGTGGGCTTT-AAAAAAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* * * *
77213 TGTGGGATTTAAAAGGGTACCAC-GACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
77240 TGTGGACTTTTGAAAGGATGCTATTGACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
** *
77269 TGTAGGATTTTGAAAGGATGCCACTAACT
1 TGT-GGGCTTTGAAAGGATGCCACTGACT
* *
77298 TGTGGGCTTCTGAAAAGATGCCATTGACT
1 TGTGGGCTT-TGAAAGGATGCCACTGACT
* **
77327 TGTGGACTTTGAAAGGATATCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
77355 TGTGGGCTTTAAAATGGGTGCCACTAACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* *
77384 TGTGGGCTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
77412 TGTGAGCTTTTGAAAAGATGCCACTGATT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
* * * *
77441 TGTGGGATTTTGAAATGATGCTACTGATT
1 TGTGGG-CTTTGAAAGGATGCCACTGACT
* ** *
77470 TATGAGATTTTGAAAGGATGCCACTGATT
1 TGTG-GGCTTTGAAAGGATGCCACTGACT
* *
77499 TGTGGGCTTTGGAAGAATGCCACTGACTT
1 TGTGGGCTTTGAAAGGATGCCACTGAC-T
* * *
77528 ATGTAGACTTTGAAAAAGG-TGCCATTGACT
1 -TGTGGGCTTTG--AAAGGATGCCACTGACT
* *
77558 TGTGAGCTTTTGAAAGGATTGAAAGGGTGCCATTGACT
1 TGTGGGC-TTTGAAA-G---G--A---TGCCACTGACT
77596 TGTGGGCTTTTGATAAGG-TGCCACTCG-CT
1 TGTGGGC-TTTGA-AAGGATGCCACT-GACT
*
77625 TGTGAGCTTTGAAAAATGG-TGCCACTGACT
1 TGTGGGCTTTG--AAA-GGATGCCACTGACT
* * *
77655 TGTGGGCTTTAAAAGGATACCACTGATT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
77683 TATAGGCTTTGAAAGGGTACCACTGATT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
77711 TATGGGCTTTAAAAGGGTTCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
77739 TGTGGGCTTTAAAAAGG-TGCCATTAACT
1 TGTGGGCTTT-GAAAGGATGCCACTGACT
* * *
77767 TGTCGACTTTTGAAAGGGGGTGCCACTGACT
1 TGTGGGC-TTTGAAA--GGATGCCACTGACT
* * * * *
77798 TGTGAGATTTAAAAAGATGCCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
77826 TGTGGGCTTTGAAAGGGTGCTATTGATT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* ** *
77854 TGTGGG-TTTTAAAAAAGTGCCACTAACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* *
77882 TGTGGGCTTTAAAAGGGTGCCACT-AGCT
1 TGTGGGCTTTGAAAGGATGCCACTGA-CT
77910 TGTGGGCTTTGAAA
1 TGTGGGCTTTGAAA
77924 AGGAAAAAGA
Statistics
Matches: 2257, Mismatches: 387, Indels: 214
0.79 0.14 0.07
Matches are distributed among these distances:
26 3 0.00
27 92 0.04
28 1250 0.55
29 771 0.34
30 89 0.04
31 21 0.01
32 4 0.00
35 1 0.00
38 24 0.01
39 2 0.00
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:75496 original size:170 final size:169
Alignment explanation
Indices: 75145--77926 Score: 2072
Period size: 170 Copynumber: 16.3 Consensus size: 169
75135 TACCAACTTA
* * ** * ** *
75145 TGTGGGCTTTG-GAAGGATGCCACTGACTCATGGGTTTTGAAAAGGTGCCACTAACTCATGGGAT
1 TGTGGGCTTTGAAAAGG-TGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCT
* * * *
75209 TTGAAAGGGTGCCACTGACTTGTGGGATTTTAAAAGGATGCCACTGACTTATGGGATTTTG-AAA
65 TTGAAAGGGTGCCACTGACTTGTGGG-CTTTAAAAGGGTGCCACTGACTTGTGGG-CTTTGAAAA
* * * * *
75273 GGATGCCACTGGCTTATGAGATTTTGAAAGGATGCCACTAACT
128 GGATGCCACTGACTTGTG-GGTTTTAAAAGGATGCCACTGACT
* * * * * * ** *
75316 CT-T-AGCTTTGGAAAGGTACCACTAACTCGTGGGCTTTGAGAAGGTGCTACTGGCTCGTGGGCT
1 -TGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCT
* * * * * * *
75379 TTGAAAGGGTGCCATTAACTTATGGGCTTTGAAAGGGTGCCACTGGCCTGTGGACTTTTGAAAAG
65 TTGAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGC-TTTGAAAAG
* * * * * *
75444 G-TGCAACTGACTTGTAGGATTTTGAAAGGATGCCATTAATT
129 GATGCCACTGACTTGT-GGGTTTTAAAAGGATGCCACTGACT
* * * *
75485 TGTGGGCTTTG-GAAGGATGCCAGTAACTTGTGGGCTTTAAAAAGATGCCACTAACTTGTGGGCT
1 TGTGGGCTTTGAAAAGG-TGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCT
* * *
75549 TTAAAAGGGGTGCCATTGACTTGTGGGCTTTAAAAGGGGTGCCACTGACTTGTGGGCTTTG-GAA
65 TTGAAA-GGGTGCCACTGACTTGTGGGCTTTAAAA-GGGTGCCACTGACTTGTGGGCTTTGAAAA
* *
75613 GGTTGCCATTGACTTGTGGGCTTTTCAAAAGG-TGCCACTGACT
128 GGATGCCACTGACTTGTGGG-TTTT-AAAAGGATGCCACTGACT
* * * * * * *
75656 TGTGAGCTTTG-GAAGGATGCCACTAA-TTCATGGGCTTTGGAAGGGTGCCCCTGACTTGTGGGC
1 TGTGGGCTTTGAAAAGG-TGCCACTAACTT-GTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGC
* * * * *
75719 TTTGAAAGGGTGCCCCTAACTTGTGGGCTTTAAAAGAGTGCCATTTACTTGTGGGCTTTTG-AAA
64 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGC-TTTGAAAA
* * *
75783 GGATGCCACTGACTTATGGGATTTTGAAAGGATGCCACTAACT
128 GGATGCCACTGACTTGTGGG-TTTTAAAAGGATGCCACTGACT
* * * *
75826 TGTGGGCTTTG-GAAGGATGCCACTGACTTGTGGACTTT-AAAAGGGGTGCCACTAACTTGCGGG
1 TGTGGGCTTTGAAAAGG-TGCCACTAACTTGTGGGCTTTGAAAA--GGTGCCACTAACTTGTGGG
* * * ** * *
75889 TTTTAAAAAGGGTGCCACTGACTTATGGGCTTTAAAAAAGTGCCACTGACTCGTGGGCTTTG-GA
63 CTTT-GAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAA
* *
75953 AGGATGCCACTGACTTGTAGGCTTTAAAA-GAGTGCC-CTTGACT
127 AGGATGCCACTGACTTGTGGGTTTTAAAAGGA-TGCCAC-TGACT
* *
75996 TGTGGGCTTT-AAAAGGATGCCACTGACTTGTGGGCTTTTG-AAAGGATGCCACTGACTTGTGGG
1 TGTGGGCTTTGAAAAGG-TGCCACTAACTTGTGGGC-TTTGAAAAGG-TGCCACTAACTTGTGGG
* * * ** * *
76059 CTTTTGAAAAGATGCCATTGACTTGTGGGCTTTGGAAGGATGCCACTGACTTATGGGCTTT-AAA
63 C-TTTGAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAA
* * * * *
76123 AGGATGCCACTAACTTGTTGGCTTTAAAAAGGGTGCCACTGAAT
127 AGGATGCCACTGACTTG-TGGGTTTTAAAAGGATGCCACTGACT
* * * *
76167 TGTGGGCTTT-AAAAGGGGTGCCACTGATTTGTGGGCTTT-AAAGGGGTGCCACTAATTTGTGGG
1 TGTGGGCTTTGAAAA--GGTGCCACTAACTTGTGGGCTTTGAAA-AGGTGCCACTAACTTGTGGG
* * * * ** * *
76230 CTTTAAAAGGGTGCCACTAACTCGTGGGCTATGGAAGGATGCCACTGACTCGTGGGCTTTG-AAA
63 CTTTGAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAA
* * * * * **
76294 GGGTGCCCCTGATTTGTGGGCTTTAAAAGGGTGTTACTGACT
128 GGATGCCACTGACTTGTGGGTTTTAAAAGGATGCCACTGACT
* * * * *
76336 TGTGAGATTT-AAAAGGGGTGCCACTGACTTGTGGGCTTTAAAAGAGGTGCCACTAACTTGTGAG
1 TGTGGGCTTTGAAAA--GGTGCCACTAACTTGTGGGCTTTGAAA-AGGTGCCACTAACTTGTGGG
* * * *
76400 CTTTGAAAAGGGTGCCTCTAACTTGTGGGCTTTTCAAAGGGTGCCACTGACTTGTGGGCTTTG-G
63 CTTTG-AAAGGGTGCCACTGACTTGTGGGC-TTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAA
* * * ** * * *
76464 AAGGATGCCACT-AATTCATGGGCTTTGGAAGGGTGCCCCTAACT
126 AAGGATGCCACTGACTT-GTGGGTTTTAAAAGGATGCCACTGACT
* *
76508 TGTGGGCTTTGAAAAAGTGCCCCTAACTTGTGGGCTTT-AAAAGGGTGCCACTAACTTGTGGGCT
1 TGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTGAAAA-GGTGCCACTAACTTGTGGGC-
* * * * *
76572 TTTGAAAGGATACCACTGACTTGTGGGCTTTGGAAAA--ATGCCATTGACTTGTGGACTTT-AAA
64 TTTGAAAGGGTGCCACTGACTTGTGGGCTTT--AAAAGGGTGCCACTGACTTGTGGGCTTTGAAA
* *
76634 AGGGGTGCCACTGACTTGTGGGTTTTAAAAAGG-TGCCACTGATT
127 A-GGATGCCACTGACTTGTGGGTTTT-AAAAGGATGCCACTGACT
* * ** * * **
76678 TATGGGCTTT-AAAAGGGTGCCACTGACTCATGGGCTTT-AGAAGGATGCCACTGACTCATGGGC
1 TGTGGGCTTTGAAAA-GGTGCCACTAACTTGTGGGCTTTGAAAAGG-TGCCACTAACTTGTGGGC
* * * *
76741 TTTGGAAA-GATGCCACTTACTTGTAGGCTTTAAAAGAGTGCC-CTTGACTTGTGGGCTTT-AAA
64 TTT-GAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCAC-TGACTTGTGGGCTTTGAAA
* * *
76803 AGGGTGCCACTGACTTGTGAGCTTTTAAAAGAATGCCACTGACT
127 AGGATGCCACTGACTTGTG-GGTTTTAAAAGGATGCCACTGACT
* * * * *
76847 TGTGGGCTTTTGAAAAGATGTCACTAACTTGTGGGCTTTG-AAAGGATGCCACTGACTTATGAGC
1 TGTGGGC-TTTGAAAAGGTGCCACTAACTTGTGGGCTTTGAAAAGG-TGCCACTAACTTGTGGGC
* * * *
76911 TTTAAAAGGATGCCACTAACTTGTGGGCTTTAAAAGGGGTGCCACTGACTTGTGGGCTTT-AAAG
64 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTAAAA-GGGTGCCACTGACTTGTGGGCTTTGAAAA
* * * * *
76975 GGGTGCCACTGACTTGTGGGCTTTAAAGGGGTGCCACTGATT
128 GGATGCCACTGACTTGTGGGTTTTAAAAGGATGCCACTGACT
* * * * * *
77017 TGTGGCCTTTAAAAAGGTGCCACTAACTCGTGAGCTATG-GAAGGATGCCACTAACTTGTGGGCT
1 TGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTGAAAAGG-TGCCACTAACTTGTGGGCT
* * * * * * * * *
77081 TT-AAAGGGGTGCCATTGATTTGTGGCCTTTAAAAAGGTGCCACTAACTCGTGAGCTATG-GAAG
65 TTGAAA-GGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAG
* * *
77144 GATGCCACTGACTTGTAGGCTTTAAAA-GAGTGCCCCTGACT
129 GATGCCACTGACTTGTGGGTTTTAAAAGGA-TGCCACTGACT
* * * * * * *
77185 TGTGGGCTTTAAAAAAGTGCCACTGACTTGTGGGATTT-AAAAGGGTACCAC-GACTTGTGGACT
1 TGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTGAAAA-GGTGCCACTAACTTGTGGGC-
* * * ** * * *
77248 TTTGAAAGGATGCTATTGACTTGTAGGATTTTGAAAGGATGCCACTAACTTGTGGGCTTCTGAAA
64 TTTGAAAGGGTGCCACTGACTTGT-GGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTT-TGAAA
* ** * **
77313 A-GATGCCATTGACTTGTGGACTTTGAAAGGATATCACTGACT
127 AGGATGCCACTGACTTGTGGGTTTTAAAAGGATGCCACTGACT
* *
77355 TGTGGGCTTT-AAAATGGGTGCCACTAACTTGTGGGCTTT-AAAAGGGTGCCACTGACTTGTGAG
1 TGTGGGCTTTGAAAA--GGTGCCACTAACTTGTGGGCTTTGAAAA-GGTGCCACTAACTTGTGGG
* * * * * * * * * * **
77418 CTTTTGAAAAGATGCCACTGATTTGTGGGATTTTGAAATGATGCTACTGATTTATGAGATTTTG-
63 C-TTTGAAAGGGTGCCACTGACTTGTGGG-CTTTAAAAGGGTGCCACTGACTTGTG-GGCTTTGA
* * ** *
77482 AAAGGATGCCACTGATTTGTGGGCTTTGGAAGAATGCCACTGACTT
125 AAAGGATGCCACTGACTTGTGGGTTTTAAAAGGATGCCACTGAC-T
* * * * * * *
77528 ATGTAGACTTTGAAAAAGGTGCCATTGACTTGTGAGCTTTTGAAAGGATTGAAAGGGTGCCATTG
1 -TGTGGGCTTTG-AAAAGGTGCCACTAACTTGTGGGC-TTT-----GA---AAA-GGTGCCACTA
* *
77593 ACTTGTGGGCTTTTGATAA-GGTGCCACTCG-CTTGTGAGCTTTGAAAAATGGTGCCACTGACTT
54 ACTTGTGGGC-TTTGA-AAGGGTGCCACT-GACTTGTGGGCTTT--AAAAGGGTGCCACTGACTT
* * * * * * * * *
77656 GTGGGCTTT-AAAAGGATACCACTGATTTATAGGCTTTGAAAGGGTACCACTGATT
114 GTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGTTTTAAAAGGATGCCACTGACT
* * * * * * *
77711 TATGGGCTTT-AAAAGGGTTCCACTGACTTGTGGGCTTTAAAAAGGTGCCATTAACTTGTCGACT
1 TGTGGGCTTTGAAAA-GGTGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGC-
* * * * *
77775 TTTGAAAGGGGGTGCCACTGACTTGTGAGATTTAAAAAGATGCCATTGACTTGTGGGCTTTG-AA
64 TTTGAAA--GGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAA
* * * * * *
77839 AGGGTGCTATTGATTTGTGGGTTTTAAAA-AAGTGCCACTAACT
127 AGGATGCCACTGACTTGTGGGTTTTAAAAGGA-TGCCACTGACT
*
77882 TGTGGGCTTT-AAAAGGGTGCCACTAGCTTGTGGGCTTTGAAAAGG
1 TGTGGGCTTTGAAAA-GGTGCCACTAACTTGTGGGCTTTGAAAAGG
77927 AAAAAGATTT
Statistics
Matches: 2125, Mismatches: 380, Indels: 211
0.78 0.14 0.08
Matches are distributed among these distances:
167 14 0.01
168 136 0.06
169 356 0.17
170 687 0.32
171 485 0.23
172 246 0.12
173 30 0.01
174 25 0.01
175 4 0.00
176 4 0.00
180 7 0.00
181 18 0.01
182 7 0.00
183 4 0.00
184 82 0.04
185 20 0.01
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.30
Consensus pattern (169 bp):
TGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTT
TGAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGA
TGCCACTGACTTGTGGGTTTTAAAAGGATGCCACTGACT
Found at i:77646 original size:97 final size:96
Alignment explanation
Indices: 77479--77672 Score: 234
Period size: 97 Copynumber: 2.0 Consensus size: 96
77469 TTATGAGATT
*
77479 TTGAAAGGATGCCACTGATTTGTGGGCTTTGGAAGAATGCCACTGACTTATGTAGACTTTGAAAA
1 TTGAAAGGATGCCACTGACTTGTGGGCTTTGGAAGAATGCCACTGACTTATGTAGACTTTGAAAA
* *
77544 AGGTGCCATTGACTTGTGAGCTTTTGAAAGGA
66 AGGTGCCACTGACTTGTGAGC-TTTAAAAGGA
* * * * *
77576 TTGAAAGGGTGCCATTGACTTGTGGGCTTTTGATA-AGGTGCCACTCG-CTTGTG-AG-CTTTGA
1 TTGAAAGGATGCCACTGACTTGTGGGCTTTGGA-AGA-ATGCCACT-GACTTATGTAGACTTTGA
*
77637 AAAATGGTGCCACTGACTTGTGGGCTTTAAAAGGA
63 AAAA-GGTGCCACTGACTTGTGAGCTTTAAAAGGA
77672 T
1 T
77673 ACCACTGATT
Statistics
Matches: 84, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
96 20 0.24
97 50 0.60
98 13 0.15
99 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.31
Consensus pattern (96 bp):
TTGAAAGGATGCCACTGACTTGTGGGCTTTGGAAGAATGCCACTGACTTATGTAGACTTTGAAAA
AGGTGCCACTGACTTGTGAGCTTTAAAAGGA
Found at i:77708 original size:184 final size:181
Alignment explanation
Indices: 77395--77748 Score: 390
Period size: 184 Copynumber: 1.9 Consensus size: 181
77385 GTGGGCTTTA
* * *
77395 AAAGGGTGCCACTGACTTGTGAGCTTTTGAAAAGATGCCACTGATTTGTGGGATTTTGAAATGAT
1 AAAGGGTGCCACTGACTTGTGAGCTTTTGAAAAGATGCCACTGACTTGTGAGACTTTGAAATGAT
* * * * * * * * *
77460 GCTACTGATTTATGAGATTTTGAAAGGATGCCACTGATTTGTGGGCTTTGGAAGAATGCCACTGA
66 GCCACTGACTTATGAGACTTTAAAAGGATACCACTGATTTATAGGCTTTGAAAGAATACCACTGA
*
77525 CTTATGTAGACTTTGAAAAAGGTGCCATTGACTTGTGAGCTTTTGAAAGGATTG
131 CTTATG--GACTTT-AAAAAGGTGCCACTGACTTGTGAGCTTTTGAAAGGATTG
* * * *
77579 AAAGGGTGCCATTGACTTGTGGGCTTTTGATAAGGTGCCACTCG-CTTGTGAG-CTTTGAAAAAT
1 AAAGGGTGCCACTGACTTGTGAGCTTTTGAAAAGATGCCACT-GACTTGTGAGACTTTG--AAAT
* * * **
77642 GGTGCCACTGACTTGTG-GGCTTTAAAAGGATACCACTGATTTATAGGCTTTGAAAGGGTACCAC
63 GATGCCACTGACTTATGAGACTTTAAAAGGATACCACTGATTTATAGGCTTTGAAAGAATACCAC
* * * * *
77706 TGATTTATGGGCTTTAAAAGGGTTCCACTGACTTGTGGGCTTT
128 TGACTTATGGACTTTAAAAAGGTGCCACTGACTTGTGAGCTTT
77749 AAAAAGGTGC
Statistics
Matches: 140, Mismatches: 27, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
181 24 0.17
182 5 0.04
183 4 0.03
184 89 0.64
185 18 0.13
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.33
Consensus pattern (181 bp):
AAAGGGTGCCACTGACTTGTGAGCTTTTGAAAAGATGCCACTGACTTGTGAGACTTTGAAATGAT
GCCACTGACTTATGAGACTTTAAAAGGATACCACTGATTTATAGGCTTTGAAAGAATACCACTGA
CTTATGGACTTTAAAAAGGTGCCACTGACTTGTGAGCTTTTGAAAGGATTG
Found at i:81800 original size:26 final size:26
Alignment explanation
Indices: 81739--81802 Score: 110
Period size: 26 Copynumber: 2.5 Consensus size: 26
81729 TGCTAGCTAT
* *
81739 GTTTTGAGTCGACATTGGTTTCATTA
1 GTTTTGACTTGACATTGGTTTCATTA
81765 GTTTTGACTTGACATTGGTTTCATTA
1 GTTTTGACTTGACATTGGTTTCATTA
81791 GTTTTGACTTGA
1 GTTTTGACTTGA
81803 TATTAGTTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.19, C:0.11, G:0.22, T:0.48
Consensus pattern (26 bp):
GTTTTGACTTGACATTGGTTTCATTA
Found at i:82391 original size:69 final size:69
Alignment explanation
Indices: 82308--82452 Score: 218
Period size: 69 Copynumber: 2.1 Consensus size: 69
82298 AGAGTTGGAT
* * *
82308 TATCCCCGAAAATGATAATTTGGACAAAATAATACTTAAATTTTGATGAGTTTAAAAACAGGGTT
1 TATCCCCGAAAATGATAATTTAGACAAAATAAGACTTAAATTTCGATGAGTTTAAAAACAGGGTT
*
82373 AGGG
66 AGAG
* * * *
82377 TATCCTCGATAATGATAATTTAGACAAAATAAGATTTAAATTTCGATGAGTTTAAAAACGGGGTT
1 TATCCCCGAAAATGATAATTTAGACAAAATAAGACTTAAATTTCGATGAGTTTAAAAACAGGGTT
82442 AGAG
66 AGAG
82446 TATCCCC
1 TATCCCC
82453 TCGGAGGAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (69 bp):
TATCCCCGAAAATGATAATTTAGACAAAATAAGACTTAAATTTCGATGAGTTTAAAAACAGGGTT
AGAG
Found at i:82544 original size:97 final size:97
Alignment explanation
Indices: 82368--82579 Score: 259
Period size: 97 Copynumber: 2.2 Consensus size: 97
82358 TTTAAAAACA
* * * *
82368 GGGTTAGG-GTATCCTCGATAATGATAATTTAGA-C-AAAATAAGATTTAAATTTCGATGAGTTT
1 GGGTT-GGAGTATCCCCGATGATGACAATTTA-ACCAAAAATAAGATTTAAATTTCGATAAGTTT
*
82430 AAAAACGGGGTTAGAGTATCCCCTCGGAGGAATG
64 AAAAACGAGGTTAGAGTATCCCCTCGGAGGAATG
* * *
82464 GGGTTGGAGTGTCCCCGATGATGACAATTTAACCAAAAATAATATTTAAATTTTGATAAGTTTAA
1 GGGTTGGAGTATCCCCGATGATGACAATTTAACCAAAAATAAGATTTAAATTTCGATAAGTTTAA
* * ** *
82529 AAGCGAGGTTGGAGTATCCTTTTGGAGGAATG
66 AAACGAGGTTAGAGTATCCCCTCGGAGGAATG
*
82561 GGGTTGGTGTATCCCCGAT
1 GGGTTGGAGTATCCCCGAT
82580 AAACAAAATT
Statistics
Matches: 98, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
95 3 0.03
96 25 0.26
97 70 0.71
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.31
Consensus pattern (97 bp):
GGGTTGGAGTATCCCCGATGATGACAATTTAACCAAAAATAAGATTTAAATTTCGATAAGTTTAA
AAACGAGGTTAGAGTATCCCCTCGGAGGAATG
Found at i:94251 original size:17 final size:17
Alignment explanation
Indices: 94223--94256 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
94213 TTAGACTATT
94223 AAAAGAGTAAAGCAAAAA
1 AAAAGAGTAAAG-AAAAA
94241 AAAAGAG-AAAGAAAAA
1 AAAAGAGTAAAGAAAAA
94257 TCTATTAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 4 0.25
18 7 0.44
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (17 bp):
AAAAGAGTAAAGAAAAA
Found at i:100510 original size:108 final size:107
Alignment explanation
Indices: 99988--100573 Score: 432
Period size: 108 Copynumber: 5.4 Consensus size: 107
99978 TCAAAGAGAC
* * * * *
99988 TTATTTCGGGGCTAATCTTTTGGTGTCCGAGTATTATGTAATTTAT--AAGAAAAAAATTATCC-
1 TTATTTCGAGGC-AATCTTTTGGTGCCCGAAT-TTACGTAATTAATGCAA-AAAAAAATTATCCT
* ** * * * * * * *
100050 -TATAAAGGACATTCGCACGCCACTTTATGATTCTAGACGATGAC
63 ATATAAAGGGCATTCATACGTCGCTTTACGACTCTAGACAATAAT
* * ** * * * *** *
100094 CTATTTCG-GGATCAATCTTTTGATGTTCAAATTTACGTAATTGATGCAGAACTGAATTGTCCTA
1 TTATTTCGAGG--CAATCTTTTGGTGCCCGAATTTACGTAATTAATGCAAAAAAAAATTATCCTA
* * * ** * * * *
100158 TGTAACGGGCGTTTGTACATCACTTTACGACTCTAGACAATGAC
64 TATAAAGGGCATTCATACGTCGCTTTACGACTCTAGACAATAAT
* * * * * * *
100202 CTATTTTGGAGTCAATCTTTTGGTG-CTGAATTTACATAATTAATGC-AAAAAAGATTATCATAT
1 TTA-TTTCGAGGCAATCTTTTGGTGCCCGAATTTACGTAATTAATGCAAAAAAAAATTATCCTAT
* * *
100265 GTAAAGGGCATTCGTACGTCGCTTTACGACTCTAGACAACAAT
65 ATAAAGGGCATTCATACGTCGCTTTACGACTCTAGACAATAAT
* * * * *** * *
100308 TTATTTTGAGGCTAATCTTTCGGTGCCCAAATTTACGTAATTAATGTAGAAATTGAATTGTCCCA
1 TTATTTCGAGGC-AATCTTTTGGTGCCCGAATTTACGTAATTAATGCA-AAAAAAAATTATCCTA
* * * *
100373 TATAAAGGGCATTCATACGCCACTTTACGATTCTAGATAATAAT
64 TATAAAGGGCATTCATACGTCGCTTTACGACTCTAGACAATAAT
* * * * *
100417 GTT-TTTCGAGGACAATCTTTTGGCGCTCGAATTTATGTGATTGATGCAAAAAAAAATTATCCTA
1 -TTATTTCGAGG-CAATCTTTTGGTGCCCGAATTTACGTAATTAATGCAAAAAAAAATTATCCTA
*
100481 TATAAAGGGTATTCATACGTCGCTTTACGACTCTAGACAATAAT
64 TATAAAGGGCATTCATACGTCGCTTTACGACTCTAGACAATAAT
*
100525 TTACTTCGAGGCCAATCTTTTGGTGCCCGAATTTACGTAATTAATGCAA
1 TTATTTCGAGG-CAATCTTTTGGTGCCCGAATTTACGTAATTAATGCAA
100574 TTCTAAATAA
Statistics
Matches: 371, Mismatches: 94, Indels: 28
0.75 0.19 0.06
Matches are distributed among these distances:
105 20 0.05
106 89 0.24
107 37 0.10
108 137 0.37
109 84 0.23
110 4 0.01
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (107 bp):
TTATTTCGAGGCAATCTTTTGGTGCCCGAATTTACGTAATTAATGCAAAAAAAAATTATCCTATA
TAAAGGGCATTCATACGTCGCTTTACGACTCTAGACAATAAT
Found at i:100519 original size:217 final size:214
Alignment explanation
Indices: 100121--100572 Score: 555
Period size: 217 Copynumber: 2.1 Consensus size: 214
100111 TTTTGATGTT
* * * * * ** *
100121 CAAATTTACGTAATTGATGCAGAACTGAATTGTCCTATGTAACGGGCGTTTGTACATCACTTTAC
1 CAAATTTACGTAATTAATGCAGAACTGAATTGTCCCATATAAAGGGCATTCATACACCACTTTAC
* * * *
100186 GACTCTAGACAATGACCTATTTTGGAGTCAATCTTTTGGTGCTGAATTTACATAATTAATGCAAA
66 GACTCTAGACAATAACCTATTTTCGAGACAATCTTTTGGCGCTGAATTTACATAATTAATGCAAA
* * * * *
100251 AAAGATTATCATATGTAAAGGGCATTCGTACGTCGCTTTACGACTCTAGACAACAATTTATTTTG
131 AAAAATTATCATATATAAAGGGCATTCATACGTCGCTTTACGACTCTAGACAACAATTTACTTCG
*
100316 AGGCTAATCTTTCGGTGCC
196 AGGCCAATCTTTCGGTGCC
* * *
100335 CAAATTTACGTAATTAATGTAGAAATTGAATTGTCCCATATAAAGGGCATTCATACGCCACTTTA
1 CAAATTTACGTAATTAATGCAG-AACTGAATTGTCCCATATAAAGGGCATTCATACACCACTTTA
* * ** ** * *
100400 CGATTCTAGATAATAATGT-TTTTCGAGGACAATCTTTTGGCGCTCGAATTTATGTGATTGATGC
65 CGACTCTAGACAATAACCTATTTTCGA-GACAATCTTTTGGCGCT-GAATTTACATAATTAATGC
* * *
100464 AAAAAAAAATTATCCTATATAAAGGGTATTCATACGTCGCTTTACGACTCTAGACAATAATTTAC
128 -AAAAAAAATTATCATATATAAAGGGCATTCATACGTCGCTTTACGACTCTAGACAACAATTTAC
*
100529 TTCGAGGCCAATCTTTTGGTGCC
192 TTCGAGGCCAATCTTTCGGTGCC
*
100552 CGAATTTACGTAATTAATGCA
1 CAAATTTACGTAATTAATGCA
100573 ATTCTAAATA
Statistics
Matches: 199, Mismatches: 35, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
214 26 0.13
215 62 0.31
216 15 0.08
217 96 0.48
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (214 bp):
CAAATTTACGTAATTAATGCAGAACTGAATTGTCCCATATAAAGGGCATTCATACACCACTTTAC
GACTCTAGACAATAACCTATTTTCGAGACAATCTTTTGGCGCTGAATTTACATAATTAATGCAAA
AAAAATTATCATATATAAAGGGCATTCATACGTCGCTTTACGACTCTAGACAACAATTTACTTCG
AGGCCAATCTTTCGGTGCC
Found at i:101234 original size:20 final size:21
Alignment explanation
Indices: 101211--101279 Score: 69
Period size: 20 Copynumber: 3.5 Consensus size: 21
101201 TTCACTTTTT
*
101211 TTCCTTT-TTTTTTTTCCTTC
1 TTCCTTTCTTTCTTTTCCTTC
101231 TTCCTTTCTTTCTTTTCC-T-
1 TTCCTTTCTTTCTTTTCCTTC
101250 TT-CTTTC-TTCTTCTTCC-TC
1 TTCCTTTCTTTCTT-TTCCTTC
*
101269 CTCCTTTCTTT
1 TTCCTTTCTTT
101280 TCAGCTGCTA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
17 5 0.12
18 10 0.24
19 3 0.07
20 13 0.31
21 11 0.26
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (21 bp):
TTCCTTTCTTTCTTTTCCTTC
Found at i:101250 original size:14 final size:14
Alignment explanation
Indices: 101231--101258 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
101221 TTTTTCCTTC
101231 TTCCTTTCTTTCTT
1 TTCCTTTCTTTCTT
101245 TTCCTTTCTTTCTT
1 TTCCTTTCTTTCTT
101259 CTTCTTCCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (14 bp):
TTCCTTTCTTTCTT
Found at i:101438 original size:10 final size:10
Alignment explanation
Indices: 101423--101455 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
101413 ATCTGAGGTC
101423 AATTTTTTTA
1 AATTTTTTTA
101433 AATTTTTTTA
1 AATTTTTTTA
*
101443 AGTTTTTTTA
1 AATTTTTTTA
101453 AAT
1 AAT
101456 CTAAGAGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (10 bp):
AATTTTTTTA
Found at i:101870 original size:16 final size:17
Alignment explanation
Indices: 101845--101881 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
101835 GCTGCCTTTC
101845 TTTTCTTTTTTGCTCTT
1 TTTTCTTTTTTGCTCTT
101862 TTTTCTTTTTT-CTCTT
1 TTTTCTTTTTTGCTCTT
101878 TTTT
1 TTTT
101882 TATTTATTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.81
Consensus pattern (17 bp):
TTTTCTTTTTTGCTCTT
Found at i:101882 original size:17 final size:18
Alignment explanation
Indices: 101840--101882 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 18
101830 TGTTTGCTGC
101840 CTTTCTTTTCTTTTTTGCT
1 CTTT-TTTTCTTTTTTGCT
101859 C-TTTTTTCTTTTTT-CT
1 CTTTTTTTCTTTTTTGCT
101875 CTTTTTTT
1 CTTTTTTT
101883 ATTTATTGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 3 0.13
17 17 0.74
18 2 0.09
19 1 0.04
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (18 bp):
CTTTTTTTCTTTTTTGCT
Found at i:104035 original size:15 final size:16
Alignment explanation
Indices: 104003--104040 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 16
103993 GCGTGGTTGA
104003 TTACGTTTTTTTACCTTT
1 TTAC-TTTTTTTA-CTTT
104021 TTACTTTTTTT-CTTT
1 TTACTTTTTTTACTTT
104036 TTACT
1 TTACT
104041 ACACTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 9 0.45
17 7 0.35
18 4 0.20
ACGTcount: A:0.11, C:0.16, G:0.03, T:0.71
Consensus pattern (16 bp):
TTACTTTTTTTACTTT
Found at i:105882 original size:21 final size:19
Alignment explanation
Indices: 105860--105897 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
105850 TAATCTCATT
105860 ATTA-TTTTTTATCTCACC
1 ATTATTTTTTTATCTCACC
105878 ATTATTTTTTTATCTCACC
1 ATTATTTTTTTATCTCACC
105897 A
1 A
105898 AAACTGATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTATTTTTTTATCTCACC
Found at i:111808 original size:9 final size:9
Alignment explanation
Indices: 111782--111823 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
111772 ATTATTTCCT
*
111782 TTTTCTTTTC
1 TTTT-TTTTA
111792 TTTTTTTT-
1 TTTTTTTTA
111800 TTTTATTTTA
1 TTTT-TTTTA
111810 TTTTTTTTA
1 TTTTTTTTA
111819 TTTTT
1 TTTTT
111824 AAATATATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 4 0.13
9 18 0.60
10 8 0.27
ACGTcount: A:0.07, C:0.05, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:111808 original size:18 final size:18
Alignment explanation
Indices: 111781--111822 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
111771 CATTATTTCC
* *
111781 TTTTTCTTTTCTTTTTTT
1 TTTTTATTTTATTTTTTT
111799 TTTTTATTTTATTTTTTT
1 TTTTTATTTTATTTTTTT
111817 TATTTT
1 T-TTTT
111823 TAAATATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.07, C:0.05, G:0.00, T:0.88
Consensus pattern (18 bp):
TTTTTATTTTATTTTTTT
Found at i:111813 original size:14 final size:13
Alignment explanation
Indices: 111781--111823 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
111771 CATTATTTCC
* *
111781 TTTTTCTTTTCTT
1 TTTTTTTTTTATT
111794 TTTTTTTTTTATT
1 TTTTTTTTTTATT
111807 TTATTTTTTTTATT
1 TT-TTTTTTTTATT
111821 TTT
1 TTT
111824 AAATATATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 14 0.52
14 13 0.48
ACGTcount: A:0.07, C:0.05, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTTTTATT
Found at i:111832 original size:21 final size:19
Alignment explanation
Indices: 111792--111836 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
111782 TTTTCTTTTC
* *
111792 TTTTTTTTTTTTATTTTAT
1 TTTTTTTTTTTTAATATAT
111811 TTTTTTTATTTTTAAATATAT
1 TTTTTTT-TTTTT-AATATAT
111832 TTTTT
1 TTTTT
111837 AACTGATTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 7 0.32
20 5 0.23
21 10 0.45
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTTTTTTTTTAATATAT
Found at i:114468 original size:24 final size:26
Alignment explanation
Indices: 114426--114473 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 26
114416 TGAGTTAAAT
*
114426 AAAAATAACTCAATTAAATAATTGTC
1 AAAAATAACTCAATAAAATAATTGTC
*
114452 AAAAA-AAC-CAATAAAATTATTG
1 AAAAATAACTCAATAAAATAATTG
114474 AAATAGATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 12 0.60
25 3 0.15
26 5 0.25
ACGTcount: A:0.58, C:0.10, G:0.04, T:0.27
Consensus pattern (26 bp):
AAAAATAACTCAATAAAATAATTGTC
Found at i:114682 original size:23 final size:23
Alignment explanation
Indices: 114656--114707 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
114646 AAATTATTTA
114656 AAATTTTAATTT-GAAATTATAAG
1 AAATTTTAATTTAG-AATTATAAG
114679 AAATTTTAATTTAGAATTATAAG
1 AAATTTTAATTTAGAATTATAAG
*
114702 AGATTT
1 AAATTT
114708 CTTAAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (23 bp):
AAATTTTAATTTAGAATTATAAG
Found at i:116621 original size:122 final size:120
Alignment explanation
Indices: 116428--116649 Score: 302
Period size: 122 Copynumber: 1.8 Consensus size: 120
116418 CATTCATTTA
* * *
116428 GTGGGTGAAAATAAATTTTGTTAATAAAAAATTGTTATATATTAAAAAATATAAGTTAAAATTTT
1 GTGGGTGAAAATAAAATTTGTTAATAAAAAATTATTATATATTAAAAAATATAAGTTAAAATTTA
** * *
116493 TTAAAAAAAGTAATTTTTTCAAAATTAAATAATTAAAAAATGCAGTTCACTCACTTT
66 AAAAAAAAAGTAA-GTATT-AAAATTAAATAATTAAAAAATGCAGTTCACTCACTTT
* * *
116550 GTGGGTGAAAATAAAATTTGTTGATAAAAAATTATTATGTTTTAAAGAAAATATAAGTTAAAA-T
1 GTGGGTGAAAATAAAATTTGTTAATAAAAAATTATTATATATT-AA-AAAATATAAGTTAAAATT
*
116614 TAAAAAAAAAAGTAAGTATTAAAGTTAAATAATTAA
64 TAAAAAAAAAAGTAAGTATTAAAATTAAATAATTAA
116650 GAATGTAGTT
Statistics
Matches: 87, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
121 15 0.17
122 41 0.47
123 15 0.17
124 16 0.18
ACGTcount: A:0.50, C:0.03, G:0.11, T:0.36
Consensus pattern (120 bp):
GTGGGTGAAAATAAAATTTGTTAATAAAAAATTATTATATATTAAAAAATATAAGTTAAAATTTA
AAAAAAAAAGTAAGTATTAAAATTAAATAATTAAAAAATGCAGTTCACTCACTTT
Found at i:117862 original size:3 final size:3
Alignment explanation
Indices: 117847--117898 Score: 61
Period size: 3 Copynumber: 17.7 Consensus size: 3
117837 TTGGATGTTT
* * * *
117847 ATA ATA ATG ATA ATA ATA ATT ATA ATA ACA ATA ATA ATA AT- ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
117894 ATA AT
1 ATA AT
117899 TCAGAGTGTG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:118626 original size:31 final size:30
Alignment explanation
Indices: 118582--118669 Score: 81
Period size: 31 Copynumber: 2.8 Consensus size: 30
118572 TGGAAAGCTC
118582 AAATTATTATATATAAATTAATAAAATTTAA
1 AAATTATT-TATATAAATTAATAAAATTTAA
**
118613 AAATATATTTATATATTTTTAAT-AAATTTAA
1 AAAT-TATTTATATA-AATTAATAAAATTTAA
*
118644 ATAATTTTTTATTATTAAA-TAATAAA
1 A-AATTATTTA-TA-TAAATTAATAAA
118670 TCAAGTTAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
31 28 0.61
32 16 0.35
33 2 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (30 bp):
AAATTATTTATATAAATTAATAAAATTTAA
Found at i:118641 original size:19 final size:20
Alignment explanation
Indices: 118614--118652 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
118604 AAAATTTAAA
* *
118614 AATATATTTATAT-ATTTTT
1 AATAAATTTAAATAATTTTT
118633 AATAAATTTAAATAATTTTT
1 AATAAATTTAAATAATTTTT
118653 TATTATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
AATAAATTTAAATAATTTTT
Found at i:121702 original size:92 final size:92
Alignment explanation
Indices: 121545--121730 Score: 327
Period size: 92 Copynumber: 2.0 Consensus size: 92
121535 ATGAAAATGT
** *
121545 CACTTGAAATTGCTAATCTGTCATGAGGACATAAATAAAAATATCATCTACTTTTCTTAGATTTT
1 CACTTGAAATTGCTAATCTAACATGAGGACATAAATAAAAAAATCATCTACTTTTCTTAGATTTT
121610 GAGTTATCCATCGTGTCTTGCATGCGC
66 GAGTTATCCATCGTGTCTTGCATGCGC
*
121637 CACTTGAAATTGCTAATCTAACATGAGGCCATAAATAAAAAAATCATCTACTTTTCTTAGATTTT
1 CACTTGAAATTGCTAATCTAACATGAGGACATAAATAAAAAAATCATCTACTTTTCTTAGATTTT
*
121702 GAGTTATCCGTCGTGTCTTGCATGCGC
66 GAGTTATCCATCGTGTCTTGCATGCGC
121729 CA
1 CA
121731 TTAATTCTAT
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 89 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.35
Consensus pattern (92 bp):
CACTTGAAATTGCTAATCTAACATGAGGACATAAATAAAAAAATCATCTACTTTTCTTAGATTTT
GAGTTATCCATCGTGTCTTGCATGCGC
Found at i:122072 original size:20 final size:20
Alignment explanation
Indices: 122049--122163 Score: 73
Period size: 20 Copynumber: 5.7 Consensus size: 20
122039 ATGATAGATA
122049 ATATATAAATATATTAAAAT
1 ATATATAAATATATTAAAAT
*
122069 ATATATAACAT-TAATTATTAAT
1 ATATATAA-ATAT-ATTA-AAAT
122091 ATAT-TAAA-AT-TT-AAAT
1 ATATATAAATATATTAAAAT
* *
122107 AAATATATAATAT-TTTAAAT
1 ATATATA-AATATATTAAAAT
*
122127 A-ATATAATTATATTAAGTAAAT
1 ATATATAAATATATT-A--AAAT
122149 ATAATATAAATATAT
1 AT-ATATAAATATAT
122164 ATTTTTAAAC
Statistics
Matches: 75, Mismatches: 6, Indels: 24
0.71 0.06 0.23
Matches are distributed among these distances:
16 6 0.08
17 2 0.03
18 8 0.11
19 11 0.15
20 16 0.21
21 9 0.12
22 12 0.16
24 11 0.15
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.43
Consensus pattern (20 bp):
ATATATAAATATATTAAAAT
Found at i:124437 original size:33 final size:32
Alignment explanation
Indices: 124386--124450 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 32
124376 CAAAATCATA
124386 CTTCAAAAAATATATATTAAAGCAATTAAATT
1 CTTCAAAAAATATATATTAAAGCAATTAAATT
124418 CTTCAAAAACATATATATTAAAGCAATTAAATT
1 CTTCAAAAA-ATATATATTAAAGCAATTAAATT
124451 GTAATTAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 9 0.28
33 23 0.72
ACGTcount: A:0.52, C:0.11, G:0.03, T:0.34
Consensus pattern (32 bp):
CTTCAAAAAATATATATTAAAGCAATTAAATT
Found at i:124954 original size:2 final size:2
Alignment explanation
Indices: 124947--124981 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
124937 ATTGCATAGC
124947 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
124982 CACACACAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:125177 original size:2 final size:2
Alignment explanation
Indices: 125172--125197 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
125162 TTTAGTTAGG
125172 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
125198 TTATTAGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:126278 original size:14 final size:14
Alignment explanation
Indices: 126259--126311 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
126249 TTTATCATAA
126259 ATTATAATTTTATT
1 ATTATAATTTTATT
126273 ATTATAATATTTA--
1 ATTATAAT-TTTATT
*
126286 ATT-TTA-TTTATT
1 ATTATAATTTTATT
126298 ATTATTAATTTTAT
1 ATTA-TAATTTTAT
126312 CAAAATTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 11
0.70 0.05 0.25
Matches are distributed among these distances:
10 4 0.13
12 5 0.16
13 3 0.10
14 10 0.32
15 9 0.29
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTATAATTTTATT
Found at i:126279 original size:21 final size:22
Alignment explanation
Indices: 126248--126311 Score: 75
Period size: 21 Copynumber: 3.1 Consensus size: 22
126238 TAAATATATA
*
126248 ATTTATCATAA-ATTATAATTTT
1 ATTTATTATAATATT-TAATTTT
126270 AT-TATTATAATATTTAATTTT
1 ATTTATTATAATATTTAATTTT
126291 ATTTATTAT--TA-TTAATTTT
1 ATTTATTATAATATTTAATTTT
126310 AT
1 AT
126312 CAAAATTAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
19 10 0.26
20 2 0.05
21 16 0.41
22 11 0.28
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (22 bp):
ATTTATTATAATATTTAATTTT
Found at i:126305 original size:19 final size:19
Alignment explanation
Indices: 126259--126311 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 19
126249 TTTATCATAA
126259 ATTA-TAATTTTA-TTATT
1 ATTATTAATTTTATTTATT
126276 ATAATATTTAATTTTATTTATT
1 AT--TA-TTAATTTTATTTATT
126298 ATTATTAATTTTAT
1 ATTATTAATTTTAT
126312 CAAAATTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 2 0.06
19 12 0.39
20 2 0.06
21 8 0.26
22 7 0.23
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTATTAATTTTATTTATT
Found at i:130999 original size:16 final size:16
Alignment explanation
Indices: 130961--131001 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
130951 AGCCAATGAA
130961 ATTT-TATAATTATTC
1 ATTTATATAATTATTC
130976 ATTTTATATAATTACTT-
1 A-TTTATATAATTA-TTC
130993 ATTTATATA
1 ATTTATATA
131002 TGTTTTCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 1 0.04
16 11 0.48
17 9 0.39
18 2 0.09
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTTATATAATTATTC
Found at i:131250 original size:18 final size:18
Alignment explanation
Indices: 131224--131266 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
131214 ACTATTATTT
*
131224 AATTATAATTTATCATTA
1 AATTTTAATTTATCATTA
* *
131242 AATTTTAATTTTTTATTA
1 AATTTTAATTTATCATTA
131260 AATTTTA
1 AATTTTA
131267 CTATTCAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
AATTTTAATTTATCATTA
Found at i:141763 original size:10 final size:10
Alignment explanation
Indices: 141748--141777 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
141738 TGACCAAAGA
141748 GGAAGTGTTT
1 GGAAGTGTTT
141758 GGAAGTGTTT
1 GGAAGTGTTT
141768 GGAAGTGTTT
1 GGAAGTGTTT
141778 CTTTTGAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (10 bp):
GGAAGTGTTT
Found at i:144507 original size:2 final size:2
Alignment explanation
Indices: 144500--144524 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
144490 GATACAAGTG
144500 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
144525 GAAGAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:146358 original size:22 final size:22
Alignment explanation
Indices: 146330--146379 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
146320 AAGTTTAATT
*
146330 ATTATTTATAAACATTGATTAA
1 ATTATTTATAAAAATTGATTAA
* *
146352 ATTATTT-TAAAAATTTATTTA
1 ATTATTTATAAAAATTGATTAA
146373 A-TATTTA
1 ATTATTTA
146380 ATTAATTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 5 0.21
21 12 0.50
22 7 0.29
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
ATTATTTATAAAAATTGATTAA
Found at i:146404 original size:30 final size:30
Alignment explanation
Indices: 146368--146429 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
146358 TTAAAAATTT
* *
146368 ATTTAATATTTAATTAATTATATTTTTTAA
1 ATTTAATATTTAATAAATTATAGTTTTTAA
146398 ATTTAATATTTAATAAATTATAGTTTTTAA
1 ATTTAATATTTAATAAATTATAGTTTTTAA
146428 AT
1 AT
146430 ACTATCTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (30 bp):
ATTTAATATTTAATAAATTATAGTTTTTAA
Found at i:148431 original size:33 final size:33
Alignment explanation
Indices: 148376--148454 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
148366 GGACCTGCTG
*** *
148376 AGATGGCTGGATGGCAATCATCAGG-TTCTCCAC
1 AGATGGCTGGACAACAACCATCAGGCTT-TCCAC
*
148409 AGATGGCTGGACAACAACCATCAGGCTTTCCTC
1 AGATGGCTGGACAACAACCATCAGGCTTTCCAC
*
148442 AGATGGCAGGACA
1 AGATGGCTGGACA
148455 GCAATATTCT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
33 37 0.95
34 2 0.05
ACGTcount: A:0.28, C:0.25, G:0.27, T:0.20
Consensus pattern (33 bp):
AGATGGCTGGACAACAACCATCAGGCTTTCCAC
Found at i:156204 original size:10 final size:10
Alignment explanation
Indices: 156189--156214 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
156179 GCTCTCACCT
156189 ATCTTCTTCA
1 ATCTTCTTCA
156199 ATCTTCTTCA
1 ATCTTCTTCA
156209 ATCTTC
1 ATCTTC
156215 AAAATCCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.31, G:0.00, T:0.50
Consensus pattern (10 bp):
ATCTTCTTCA
Found at i:158287 original size:36 final size:36
Alignment explanation
Indices: 158236--158307 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
158226 TGAAGTGACA
158236 AGTTAAGGCACCATTTGATTGTTACTTTTAAGACTT
1 AGTTAAGGCACCATTTGATTGTTACTTTTAAGACTT
*
158272 AGTTAAGGCATCATTTGATTGTTACTTTTAAGACTT
1 AGTTAAGGCACCATTTGATTGTTACTTTTAAGACTT
158308 TTTGCTTTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43
Consensus pattern (36 bp):
AGTTAAGGCACCATTTGATTGTTACTTTTAAGACTT
Found at i:160850 original size:15 final size:15
Alignment explanation
Indices: 160826--160866 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
160816 TTATAAGTTA
*
160826 TTATTATTATTATTG
1 TTATTGTTATTATTG
160841 TTATTGTTATTATTG
1 TTATTGTTATTATTG
*
160856 TTATTGCTATT
1 TTATTGTTATT
160867 GGGCCAAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.22, C:0.02, G:0.10, T:0.66
Consensus pattern (15 bp):
TTATTGTTATTATTG
Found at i:160968 original size:8 final size:8
Alignment explanation
Indices: 160955--161012 Score: 50
Period size: 8 Copynumber: 7.4 Consensus size: 8
160945 TTATAATTCG
160955 TATATTTA
1 TATATTTA
*
160963 TATATTTTT
1 TATA-TTTA
*
160972 TATATTTT
1 TATATTTA
160980 TATA-TT-
1 TATATTTA
*
160986 TGTATTTA
1 TATATTTA
160994 TA-ATATTA
1 TATAT-TTA
161002 TATATTTA
1 TATATTTA
161010 TAT
1 TAT
161013 TAATTTTGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
6 3 0.07
7 6 0.14
8 24 0.57
9 9 0.21
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (8 bp):
TATATTTA
Found at i:164414 original size:22 final size:23
Alignment explanation
Indices: 164389--164431 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
164379 CCTAATTAAC
* *
164389 TAAATAATTATGCA-ATTGAGCT
1 TAAAAAATCATGCATATTGAGCT
164411 TAAAAAATCATGCATATTGAG
1 TAAAAAATCATGCATATTGAG
164432 ATCATTTGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (23 bp):
TAAAAAATCATGCATATTGAGCT
Found at i:164648 original size:2 final size:2
Alignment explanation
Indices: 164636--164683 Score: 87
Period size: 2 Copynumber: 23.5 Consensus size: 2
164626 TTATAGCAAG
164636 TA TA GTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
164679 TA TA T
1 TA TA T
164684 TATGTAGAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 43 0.96
3 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:165423 original size:32 final size:33
Alignment explanation
Indices: 165366--165427 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
165356 CACCCAAATG
* *
165366 TATCGATACATATTGCTTAGTATCGATACATTA
1 TATCAATACATATTGCATAGTATCGATACATTA
165399 TATCAATACATATT-CATAGTATCGATACA
1 TATCAATACATATTGCATAGTATCGATACA
165428 CCCTGAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (33 bp):
TATCAATACATATTGCATAGTATCGATACATTA
Found at i:168299 original size:14 final size:14
Alignment explanation
Indices: 168280--168307 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
168270 AGTATGAAAG
168280 TTGTATTTGAATCA
1 TTGTATTTGAATCA
168294 TTGTATTTGAATCA
1 TTGTATTTGAATCA
168308 CAAAATTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (14 bp):
TTGTATTTGAATCA
Found at i:172873 original size:27 final size:24
Alignment explanation
Indices: 172820--172871 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
172810 AATTAATTTC
172820 TTATACAACAAATATTATATATTA
1 TTATACAACAAATATTATATATTA
172844 TTATACAACAAATATTATATATTA
1 TTATACAACAAATATTATATATTA
172868 TTAT
1 TTAT
172872 TAGCCCATCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (24 bp):
TTATACAACAAATATTATATATTA
Found at i:175039 original size:2 final size:2
Alignment explanation
Indices: 175032--175090 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
175022 TTATTTAACC
175032 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
175074 CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT C
175091 ATTTTGCTTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Done.