Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2656
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: 131121
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:922 original size:2 final size:2
Alignment explanation
Indices: 915--956 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
905 TGATGTTTTA
*
915 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT TT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
957 TCTTCATTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
CT
Found at i:7272 original size:4 final size:4
Alignment explanation
Indices: 7263--7293 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
7253 TATGTTTATA
7263 TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
7294 ATCAAGTCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:7588 original size:20 final size:20
Alignment explanation
Indices: 7563--7605 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
7553 ATTTTTTTAC
7563 TTTTAAGAATTGTCTCATGG
1 TTTTAAGAATTGTCTCATGG
7583 TTTTAAGAATTGTCTCATGG
1 TTTTAAGAATTGTCTCATGG
7603 TTT
1 TTT
7606 ATAATTATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.09, G:0.19, T:0.49
Consensus pattern (20 bp):
TTTTAAGAATTGTCTCATGG
Found at i:13800 original size:20 final size:21
Alignment explanation
Indices: 13763--13804 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
13753 TCTTAAAGTA
13763 ATAATATAAAATAATTAATTT
1 ATAATATAAAATAATTAATTT
13784 ATAATATAAAA-AATTAATTT
1 ATAATATAAAATAATTAATTT
13804 A
1 A
13805 CATGTAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
ATAATATAAAATAATTAATTT
Found at i:21707 original size:74 final size:74
Alignment explanation
Indices: 21617--21800 Score: 235
Period size: 74 Copynumber: 2.5 Consensus size: 74
21607 ATGGGCTGGG
* * *
21617 AGCTGCTACTGTTGTTGGTGGATGCTGTCGCTGTTGAAAGCTGCTGGAGTTGCTACCGGTGTTCG
1 AGCTGCTACTGCTGTTGGTGGATGCTGTCGCTGCTGAAAGCTGCTGGAGCTGCTACCGGTGTTCG
21682 C-AGGCTAGA
66 CGA-GCTAGA
* * * * * **
21691 AGCTGTTGCTGCTGTTGGTGGATGCTGTCGTTGCTGGAAGTTGCTGGAGCTGCTGTCGGTGTTCG
1 AGCTGCTACTGCTGTTGGTGGATGCTGTCGCTGCTGAAAGCTGCTGGAGCTGCTACCGGTGTTCG
21756 CGAGCTAGA
66 CGAGCTAGA
* * *
21765 AGCTGCTACTGCTATTGGTGCACGCTGTCGCTGCTG
1 AGCTGCTACTGCTGTTGGTGGATGCTGTCGCTGCTG
21801 CCAGTGTCCG
Statistics
Matches: 93, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
74 92 0.99
75 1 0.01
ACGTcount: A:0.12, C:0.20, G:0.36, T:0.32
Consensus pattern (74 bp):
AGCTGCTACTGCTGTTGGTGGATGCTGTCGCTGCTGAAAGCTGCTGGAGCTGCTACCGGTGTTCG
CGAGCTAGA
Found at i:21847 original size:55 final size:55
Alignment explanation
Indices: 21763--21868 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 55
21753 TCGCGAGCTA
* *
21763 GAAGCTGCTACTGCTATTGGTGCACGCTGTCGCTGCTGCCAGTGTCCGTGGGTTG
1 GAAGCTGCTACTGCTATTGGAGCACGCTGTCGCTGCTACCAGTGTCCGTGGGTTG
* * * * *
21818 GAAGCTGCTACTGCTGTTGGCAG-ATGCTGTCGTTGCTACCGGTGTTCGTGG
1 GAAGCTGCTACTGCTATTGG-AGCACGCTGTCGCTGCTACCAGTGTCCGTGG
21869 AAGCTGCTGG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
55 42 0.98
56 1 0.02
ACGTcount: A:0.11, C:0.24, G:0.35, T:0.30
Consensus pattern (55 bp):
GAAGCTGCTACTGCTATTGGAGCACGCTGTCGCTGCTACCAGTGTCCGTGGGTTG
Found at i:22637 original size:9 final size:9
Alignment explanation
Indices: 22625--22680 Score: 51
Period size: 9 Copynumber: 6.0 Consensus size: 9
22615 TTTTTTTGGA
22625 ATTTTTTTT
1 ATTTTTTTT
*
22634 ATTTTTTTG
1 ATTTTTTTT
22643 ATTTTTTAATT
1 ATTTTTT--TT
*
22654 -TTTTTTTG
1 ATTTTTTTT
22662 ATTTTTTTT
1 ATTTTTTTT
*
22671 GTTTTATTTT
1 ATTTT-TTTT
22681 TAATTTTCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
8 1 0.03
9 26 0.68
10 10 0.26
11 1 0.03
ACGTcount: A:0.12, C:0.00, G:0.05, T:0.82
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:22640 original size:19 final size:17
Alignment explanation
Indices: 22615--22675 Score: 68
Period size: 19 Copynumber: 3.3 Consensus size: 17
22605 CTTTCACGGC
*
22615 TTTTTTTGGAATTTTTTT
1 TTTTTTTTG-ATTTTTTT
22633 TATTTTTTTGATTTTTTAAT
1 T-TTTTTTTGATTTTTT--T
22653 TTTTTTTTGATTTTTTT
1 TTTTTTTTGATTTTTTT
22670 TGTTTT
1 T-TTTT
22676 ATTTTTAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
17 2 0.05
18 12 0.32
19 22 0.58
20 2 0.05
ACGTcount: A:0.11, C:0.00, G:0.08, T:0.80
Consensus pattern (17 bp):
TTTTTTTTGATTTTTTT
Found at i:24720 original size:276 final size:278
Alignment explanation
Indices: 24188--24735 Score: 965
Period size: 276 Copynumber: 2.0 Consensus size: 278
24178 ATTGTGAAAT
24188 TGTTATGCTCGCCCTTAGGTATCGTATCACCTATTTTTGGGCAAATTTTGTTGTGTACATTGGTT
1 TGTTATGCTCGCCCTTAGGTATCGTATCACCTATTTTTGGGCAAATTTTGTTGTGTACATTGGTT
*
24253 GATATTCTTCCATTTCTTTATTAAGGTGCTTATTTATTTATTTATTTAGTTTTTTTTGTTTGTTT
66 GATATTCTTCCATTTCTTTATTAAGGTGCTTATTTATTTATTTATTTAGTTTTTTTTGTTTATTT
*
24318 TGTACAATCATTAATTCATTTTCCTTTTTGTTTTCCTTTATCATGCATTCATTATTTCATCATAA
131 TGTACAATCATTAATTCATTTTCCTTTTTATTTTCCTTTATCATGCATTCATTATTTCATCATAA
* * *
24383 CCACTATCATCATGGGACAATTGGCTAATGGTTTAGTGTTCACCAATGGGTGTCAATCATGGAGC
196 CCACTATCATCATGGGACAATTGGCTAATAGTTCAGTGTTCACCAAGGGGTGTCAATCATGGAGC
24448 AACAATCCACTTTAAACA
261 AACAATCCACTTTAAACA
* *
24466 TGTTCTGCTCGCCCTTAGGTATCGTATCACCT-TTTTTGGGCAAATTTTGTTGTGTACTTTGGTT
1 TGTTATGCTCGCCCTTAGGTATCGTATCACCTATTTTTGGGCAAATTTTGTTGTGTACATTGGTT
*
24530 GATATTCTTCCATTTCTTTATTGAGGTGCTTATTTATTTATTTATTTAG-TTTTTTTGTTTATTT
66 GATATTCTTCCATTTCTTTATTAAGGTGCTTATTTATTTATTTATTTAGTTTTTTTTGTTTATTT
* *
24594 TGTACAATCATTAATTCATTTTCCTTTTTATTTTCTTTTATCATGCATTCATTATTTCATTATAA
131 TGTACAATCATTAATTCATTTTCCTTTTTATTTTCCTTTATCATGCATTCATTATTTCATCATAA
* * *
24659 CCACTGTCATCATGGGACAATTGGCTAATAGTTCAGTGTTTACCAAGGGGTGTCGATCATGGAGC
196 CCACTATCATCATGGGACAATTGGCTAATAGTTCAGTGTTCACCAAGGGGTGTCAATCATGGAGC
24724 AACAATCCACTT
261 AACAATCCACTT
24736 CAGACTTGAA
Statistics
Matches: 257, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
276 147 0.57
277 79 0.31
278 31 0.12
ACGTcount: A:0.22, C:0.16, G:0.15, T:0.47
Consensus pattern (278 bp):
TGTTATGCTCGCCCTTAGGTATCGTATCACCTATTTTTGGGCAAATTTTGTTGTGTACATTGGTT
GATATTCTTCCATTTCTTTATTAAGGTGCTTATTTATTTATTTATTTAGTTTTTTTTGTTTATTT
TGTACAATCATTAATTCATTTTCCTTTTTATTTTCCTTTATCATGCATTCATTATTTCATCATAA
CCACTATCATCATGGGACAATTGGCTAATAGTTCAGTGTTCACCAAGGGGTGTCAATCATGGAGC
AACAATCCACTTTAAACA
Found at i:37803 original size:14 final size:14
Alignment explanation
Indices: 37784--37813 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
37774 TGGGACAGTT
37784 AAAGCAACCAACAA
1 AAAGCAACCAACAA
37798 AAAGCAACCAACAA
1 AAAGCAACCAACAA
37812 AA
1 AA
37814 TATCAAGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.67, C:0.27, G:0.07, T:0.00
Consensus pattern (14 bp):
AAAGCAACCAACAA
Found at i:39856 original size:79 final size:77
Alignment explanation
Indices: 39699--39865 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 77
39689 ATAACGAAGC
* * *
39699 TGGAGTATCCCCGATTGTGAGAAATCAATGATTAGAAAAAAATCGGGATTGGAGTATCCCCTCGG
1 TGGAGTATCCCCAATTATGAGAAATCAATGATTAGAAAAAAACCGGGATTGGAGTATCCCCTCGG
39764 AAATAACCGGGT
66 AAATAACCGGGT
* * * *
39776 TGGAGTATCCCCAATTATGAGAAATCAAT-ATTTTGGGAATAAAGCCGGGGTTGGAGTATCCCCT
1 TGGAGTATCCCCAATTATGAGAAATCAATGA--TT-AGAAAAAAACCGGGATTGGAGTATCCCCT
** **
39840 CGGAGGTAATGGGGT
63 CGGAAATAACCGGGT
39855 TGGAGTATCCC
1 TGGAGTATCCC
39866 TGATGAAATA
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
76 1 0.01
77 27 0.36
78 2 0.03
79 46 0.61
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (77 bp):
TGGAGTATCCCCAATTATGAGAAATCAATGATTAGAAAAAAACCGGGATTGGAGTATCCCCTCGG
AAATAACCGGGT
Found at i:39995 original size:51 final size:51
Alignment explanation
Indices: 39881--40210 Score: 262
Period size: 51 Copynumber: 6.4 Consensus size: 51
39871 AAATAACGAG
* *
39881 GTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTG-TTTTGGAAATAAAATCGGA
* *
39933 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAATTGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
* * * * * *
39984 GTTGGAGTATCCCCGATTAAGAGAAATTGATGTTTTGGAAATGAGACCGG-
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
* ** * *** * * *
40034 GATTGGAGTAT-GCC--TTCGGAAATAACGGGGTTGGAGTATCCCCGATGAT-TAA-CGGG
1 G-TTGGAGTATCCCCGATTATGAAA-AA-----TTGGTGT-T-TTGGA-AATAAAATCGGA
40090 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTG-TTTTGGAAATAAAATCGGA
* * *
40142 GTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATTGGA
1 GTTGGAGTATCCCCGATTATGA-AAAATTGGTGTTTTGGAAATAAAATCGGA
*
40193 G-TGAGAATATCCCCGATT
1 GTTG-GAGTATCCCCGATT
40211 GTGGAGAATT
Statistics
Matches: 221, Mismatches: 38, Indels: 39
0.74 0.13 0.13
Matches are distributed among these distances:
48 5 0.02
49 2 0.01
50 7 0.03
51 104 0.47
52 68 0.31
53 1 0.00
54 5 0.02
55 13 0.06
56 6 0.03
57 4 0.02
58 6 0.03
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
Found at i:40141 original size:209 final size:210
Alignment explanation
Indices: 39774--40210 Score: 623
Period size: 209 Copynumber: 2.1 Consensus size: 210
39764 AAATAACCGG
* * * *
39774 GTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTAAGAGAAATCAATATTTTGGAAATAAAGCCGGGATTGGAGTATCCCC
** * * * *
39839 TCGGAGGTAATGGGGTTGGAGTATCCCTGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAA
66 TCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTATGAA
*
39904 AAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAT-GAAAAATTGGTGTTT
131 AAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATAG-AAAATTAGTGTTT
39968 T-AGAAATAAAATTGGA
195 TGA-AAATAAAATTGGA
** * * *
39984 GTTGGAGTATCCCCGATTAAGAGAAATTGATGTTTTGGAAAT-GAGACCGGGATTGGAGTATGCC
1 GTTGGAGTATCCCCGATTAAGAGAAATCAATATTTTGGAAATAAAG-CCGGGATTGGAGTATCCC
* * *
40048 TTCGGAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACGGGGTTGGAGTATCCCCGATTATGA
65 CTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTATGA
40112 AAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATAGAAAATTAGTGTTT
130 AAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATAGAAAATTAGTGTTT
40177 TGAAAATAAAATTGGA
195 TGAAAATAAAATTGGA
*
40193 G-TGAGAATATCCCCGATT
1 GTTG-GAGTATCCCCGATT
40211 GTGGAGAATT
Statistics
Matches: 203, Mismatches: 20, Indels: 9
0.88 0.09 0.04
Matches are distributed among these distances:
208 2 0.01
209 119 0.59
210 82 0.40
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (210 bp):
GTTGGAGTATCCCCGATTAAGAGAAATCAATATTTTGGAAATAAAGCCGGGATTGGAGTATCCCC
TCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTATGAA
AAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATAGAAAATTAGTGTTTT
GAAAATAAAATTGGA
Found at i:42551 original size:13 final size:13
Alignment explanation
Indices: 42533--42558 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
42523 CAAAGAATAG
42533 ATGTATCGATACA
1 ATGTATCGATACA
42546 ATGTATCGATACA
1 ATGTATCGATACA
42559 CAGAAAAATG
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:42555 original size:34 final size:33
Alignment explanation
Indices: 42512--42578 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
42502 AACTTCCTAG
*
42512 ATGTATCGATACAAAGAATAGATGTATCGATACA
1 ATGTATCGATACAAAGAA-AAATGTATCGATACA
*
42546 ATGTATCGATACACAGAAAAATGTATCGATACA
1 ATGTATCGATACAAAGAAAAATGTATCGATACA
42579 TTTCCTTGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 14 0.45
34 17 0.55
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.25
Consensus pattern (33 bp):
ATGTATCGATACAAAGAAAAATGTATCGATACA
Found at i:42634 original size:19 final size:19
Alignment explanation
Indices: 42610--42682 Score: 92
Period size: 19 Copynumber: 3.7 Consensus size: 19
42600 AGCGATACAT
42610 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
42629 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
** *
42648 TGTATCGATACATTTACTGAA
1 TGTATCGATACA-AAACT-TA
42669 TGTATCGATACAAA
1 TGTATCGATACAAA
42683 TTATTGGAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
19 30 0.65
20 3 0.07
21 13 0.28
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:42745 original size:21 final size:21
Alignment explanation
Indices: 42719--42774 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
42709 GTTGGGACCT
42719 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
*
42740 TGTATCGATATATTCTACAAA
1 TGTATCGATACATTCTACAAA
42761 TGTATCGATACATT
1 TGTATCGATACATT
42775 TGGATAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:43650 original size:20 final size:20
Alignment explanation
Indices: 43605--43656 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
43595 ATAGCCAAAC
**
43605 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
43625 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
43644 TTGTATCGATACA
1 TTGTATCGATACA
43657 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:49763 original size:13 final size:13
Alignment explanation
Indices: 49745--49783 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
49735 ACATTTTTCT
49745 TTGTATCGATACA
1 TTGTATCGATACA
49758 TTGTATCGATACA
1 TTGTATCGATACA
* *
49771 CTGTATCAATACA
1 TTGTATCGATACA
49784 AGGGGATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:49938 original size:20 final size:20
Alignment explanation
Indices: 49895--49940 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
49885 AAATCTTTTG
49895 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
49916 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
49936 CAAAA
1 CAAAA
49941 CCAGCATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:52381 original size:20 final size:20
Alignment explanation
Indices: 52336--52387 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
52326 GTAGCCAAAC
**
52336 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
52356 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
52375 TTGTATCGATACA
1 TTGTATCGATACA
52388 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:53675 original size:61 final size:61
Alignment explanation
Indices: 53579--54345 Score: 659
Period size: 61 Copynumber: 12.5 Consensus size: 61
53569 AACCTTTTAT
* * ** * *
53579 CCTTTTAGTCCTCAAAGAGTAAGACGTTTTTTCCTTTCAAAGTCCACACAAGTTGATGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * **
53640 TCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACATAAGTCAGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * ** * * * *
53701 CCTTTCAGT-CTCAAAGAGCAAGACGTTTTTTCCTTTTAAAACCCACATAAGTTGGTGGTA
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * * *
53761 CCTTTT-GGCTTTCAAAGAGCAAAATACCTTTTCCTTTGAAAGCTCACACAAGTTGGTGGCA
1 CCTTTTAGTC-CTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
53822 CCTTTTGGTCCTCAAAGAGTAAGACGCCTTTTCCTTTCAAAGCCTACAAAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * * * * * *
53883 CCTTTTAGTCCTTAAAGAGTAGGACG-TTTTTCCCTTTTAAAGCCCAAAAAAATTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTT-CCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * * * *
53944 CATTTTTAGTCCTTAAAGAGTAGGATGCCTTGTCCTTTTAAAGCCCACACAAGTTGGTGGTAA
1 C-CTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGG-CA
* * * * * *
54007 CTTTTTAATCCTTAAAGAGTAAGATGCCTTTTCCTTTCGAAGCCCACATAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * * *
54068 -CTTTTCTGTCCTCAAAAAGTAAGATGCATTTT--TTTTAAAGCCCACAAAAGTTGGTGGCA
1 CCTTTT-AGTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * * * * *
54127 CCTTCTAGTCCTTAAAGAG-TAG-GGCATTTTCCTTTAAAAGCCCATACAAGCTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * * * *
54186 CCTTTTAGTCCTCAAAGAACATGACGCTTTTTCTTTTCAAAGCCCATACAAGTTGATGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * * *
54247 CCTTTTAGTCCTCAAAGAGCAAGACACTTCCTTTTTTCTTTTACAGCCCATAGAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAG--A-TGCC-TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
54312 ACTTCTAGTCCTCAAAGACCAAGATGCCTCTTTC
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCT-TTTC
54346 TTTTTCTTTT
Statistics
Matches: 576, Mismatches: 112, Indels: 35
0.80 0.15 0.05
Matches are distributed among these distances:
57 7 0.01
58 2 0.00
59 74 0.13
60 61 0.11
61 270 0.47
62 107 0.19
63 7 0.01
64 1 0.00
65 47 0.08
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (61 bp):
CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:53747 original size:121 final size:122
Alignment explanation
Indices: 53579--54329 Score: 692
Period size: 121 Copynumber: 6.1 Consensus size: 122
53569 AACCTTTTAT
* * * * *
53579 CCTTTTAGTCCTCAAAGAGTAAGACGTTTTTTCCTTTCAAAGTCCACACAAGTTGATGGCATCTT
1 CCTTTTAGTCCTCAAAGAGTAAGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* **
53644 TTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACATAAGTCAGTGGCA
66 TTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * * *
53701 CCTTTCAGT-CTCAAAGAGCAAGACGTTTTTTCCTTTTAAAACCCACATAAGTTGGTGGTACCTT
1 CCTTTTAGTCCTCAAAGAGTAAGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * * * * *
53765 TT-GGCTTTCAAAGAGCAAAATACCTTTTCCTTTGAAAGCTCACACAAGTTGGTGGCA
66 TTAGTC-CTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
53822 CCTTTTGGTCCTCAAAGAGTAAGACGCCTTTTCCTTTCAAAGCCTACAAAAGTTGGTGGCACCTT
1 CCTTTTAGTCCTCAAAGAGTAAGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * * * * * * * *
53887 TTAGTCCTTAAAGAGTAGGACG-TTTTTCCCTTTTAAAGCCCAAAAAAATTGGTGGCA
66 TTAGTCCTCAAAGAGCAAGATGCCTTTT-CCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * * * * *
53944 CATTTTTAGTCCTTAAAGAGTAGGATGCCTTGTCCTTTTAAAGCCCACACAAGTTGGTGGTAACT
1 C-CTTTTAGTCCTCAAAGAGTAAGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGG-CACC
* * * * *
54009 TTTTAATCCTTAAAGAGTAAGATGCCTTTTCCTTTCGAAGCCCACATAAGTTGGTGGCA
64 TTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
54068 -CTTTTCTGTCCTCAAAAAGTAAGATGCATTTT--TTTTAAAGCCCACAAAAGTTGGTGGCACCT
1 CCTTTT-AGTCCTCAAAGAGTAAGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
* * * * * * * *
54130 TCTAGTCCTTAAAGAG-TAG-GGCATTTTCCTTTAAAAGCCCATACAAGCTGGTGGCA
65 TTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
** * * *
54186 CCTTTTAGTCCTCAAAGAACATGACGCTTTTT-CTTTTCAAAGCCCATACAAGTTGATGGCACCT
1 CCTTTTAGTCCTCAAAGAGTAAGACGCTTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCT
* * * * * *
54250 TTTAGTCCTCAAAGAGCAAGACACTTCCTTTTTTCTTTTACAGCCCATAGAAGTTGGTGGCA
65 TTTAGTCCTCAAAGAGCAAG--A-TGCC-TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
54312 ACTTCTAGTCCTCAAAGA
1 CCTTTTAGTCCTCAAAGA
54330 CCAAGATGCC
Statistics
Matches: 507, Mismatches: 105, Indels: 30
0.79 0.16 0.05
Matches are distributed among these distances:
118 49 0.10
119 11 0.02
120 56 0.11
121 129 0.25
122 95 0.19
123 71 0.14
124 47 0.09
125 5 0.01
126 44 0.09
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.32
Consensus pattern (122 bp):
CCTTTTAGTCCTCAAAGAGTAAGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
TTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:53915 original size:182 final size:181
Alignment explanation
Indices: 53607--54441 Score: 694
Period size: 185 Copynumber: 4.5 Consensus size: 181
53597 GTAAGACGTT
* * * * *
53607 TTTTCCTTTCAAAGTCCACACAAGTTGATGGCATCTTTTAGTCCTCAAAGAGCAAGATGCCTTTT
1 TTTTCCTTTAAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACGCCTTTT
** * * *
53672 CCTTTCAAAGCCCACATAAGTCAGTGGCACCTTTCAGT-CTCAAAGAGCAAGACGTTTTTTCCTT
66 CCTTTCAAAGCCCACATAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAAGACGCTTTTTCCTT
* * * * * *
53736 TTAAAACCCACATAAGTTGGTGGTACCTTTTGGCTTTCAAAGAGCAAAATACC
131 TTAAAGCCCACAAAAGTTGGTGGCACCTTTTGTCCTT-AAAGAG-AAAATGCC
* * * *
53789 TTTTCCTTTGAAAGCTCACACAAGTTGGTGGCACCTTTTGGTCCTCAAAGAGTAAGACGCCTTTT
1 TTTTCCTTTAAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACGCCTTTT
* * * *
53854 CCTTTCAAAGCCTACAAAAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAGGACG-TTTTTCCCT
66 CCTTTCAAAGCCCACATAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAAGACGCTTTTT-CCT
* * * **
53918 TTTAAAGCCCAAAAAAATTGGTGGCACATTTTTAGTCCTTAAAGAGTAGGATGCC
130 TTTAAAGCCCACAAAAGTTGGTGGCAC-CTTTT-GTCCTTAAAGAG-AAAATGCC
* * * * * * * *
53973 TTGTCCTTTTAAAGCCCACACAAGTTGGTGGTAACTTTTTAATCCTTAAAGAGTAAGATGCCTTT
1 TTTTCCTTTAAAAGCCCACACAAGTTGGTGG-CACCTTTTAGTCCTCAAAGAGCAAGACGCCTTT
* * * * *
54038 TCCTTTCGAAGCCCACATAAGTTGGTGGCA-CTTTTCTGTCCTCAAAAAGTAAGATGCATTTT--
65 TCCTTTCAAAGCCCACATAAGTTGGTGGCACCTTTT-AGTCCTCAAAGAGTAAGACGCTTTTTCC
* * ** *
54100 TTTTAAAGCCCACAAAAGTTGGTGGCACCTTCTAGTCCTTAAAGAG-TAGGGCA
129 TTTTAAAGCCCACAAAAGTTGGTGGCACCTT-TTGTCCTTAAAGAGAAAATGCC
* * * * *
54153 TTTTCCTTTAAAAGCCCATACAAGCTGGTGGCACCTTTTAGTCCTCAAAGAACATGACGCTTTTT
1 TTTTCCTTTAAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACGCCTTTT
* * * * * *
54218 CTTTTCAAAGCCCATACAAGTTGATGGCACCTTTTAGTCCTCAAAGAGCAAGACACTTCCTTTTT
66 CCTTTCAAAGCCCACATAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAAG--AC--GCTTTTT
* * * * * * * * *
54283 TCTTTTACAGCCCATAGAAGTTGGTGGCAACTTCTAGTCCTCAAAGACCAAGATGCC
127 CCTTTTAAAGCCCACAAAAGTTGGTGGCACCTT-TTGTCCTTAAAGA-GAAAATGCC
* * * *
54340 TCTTTCTTTTTCTTTTTAAAAACCCACAAAAGTTGGTGGTACTCCGTTTTAGTCTTCAAAGAGCA
1 T-TTTC-----C--TTTAAAAGCCCACACAAGTTGGTGG--CACC-TTTTAGTCCTCAAAGAGCA
* * * *
54405 TGACTCCTTTT-CTATCTCAAAGACCACACAAGTTGGT
55 AGACGCCTTTTCCT-T-TCAAAGCCCACATAAGTTGGT
54442 AGCATCTATC
Statistics
Matches: 520, Mismatches: 103, Indels: 43
0.78 0.15 0.06
Matches are distributed among these distances:
179 63 0.12
180 34 0.07
181 1 0.00
182 109 0.21
183 70 0.13
184 48 0.09
185 113 0.22
186 4 0.01
187 3 0.01
188 4 0.01
193 1 0.00
195 21 0.04
197 4 0.01
198 27 0.05
199 18 0.03
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (181 bp):
TTTTCCTTTAAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACGCCTTTT
CCTTTCAAAGCCCACATAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAAGACGCTTTTTCCTT
TTAAAGCCCACAAAAGTTGGTGGCACCTTTTGTCCTTAAAGAGAAAATGCC
Found at i:57173 original size:29 final size:26
Alignment explanation
Indices: 57132--57196 Score: 87
Period size: 26 Copynumber: 2.4 Consensus size: 26
57122 GTTCTTTTCC
57132 AAAA-AAGAAACAAAACAAAAAAGGAAAA
1 AAAAGAAGAAAC-AAACAAAAAA--AAAA
*
57160 AAAAGAAGAAACAAACAAACAAAAAA
1 AAAAGAAGAAACAAACAAAAAAAAAA
57186 AAAAGAAGAAA
1 AAAAGAAGAAA
57197 GGAAAAACTC
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
26 15 0.43
28 13 0.37
29 7 0.20
ACGTcount: A:0.82, C:0.08, G:0.11, T:0.00
Consensus pattern (26 bp):
AAAAGAAGAAACAAACAAAAAAAAAA
Found at i:58175 original size:31 final size:30
Alignment explanation
Indices: 58137--58288 Score: 200
Period size: 30 Copynumber: 5.0 Consensus size: 30
58127 ATACTTTTTT
58137 AAAGTCCACGACTCAGTGGCAATTTCTTC-TC
1 AAAGTCCACGACTCAGTGGC-ATTT-TTCTTC
*
58168 AAAGTCCACGACTCAGTGGCATCTTTCTTC
1 AAAGTCCACGACTCAGTGGCATTTTTCTTC
58198 AAAGTCCACGACTCAGTGGCATTTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATTTT-TCTTC
58228 AAAGTCCACGACTCAGTGGCATTTTTTCTTC
1 AAAGTCCACGACTCAGTGGCA-TTTTTCTTC
* * * *
58259 AAAGCCCACAACTCCGTGGCACCTTTTCTT
1 AAAGTCCACGACTCAGTGGCA-TTTTTCTT
58289 TTTAAAGCCC
Statistics
Matches: 110, Mismatches: 7, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
29 3 0.03
30 54 0.49
31 53 0.48
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (30 bp):
AAAGTCCACGACTCAGTGGCATTTTTCTTC
Found at i:58256 original size:61 final size:60
Alignment explanation
Indices: 58137--58279 Score: 216
Period size: 61 Copynumber: 2.4 Consensus size: 60
58127 ATACTTTTTT
58137 AAAGTCCACGACTCAGTGGCAATTTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTCTTC
1 AAAGTCCACGACTCAGTGGC-ATTTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTCTTC
*
58198 AAAGTCCACGACTCAGTGGCATTT-TGTCTCAAAGTCCACGACTCAGTGGCATTTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATTTCT-TCTCAAAGTCCACGACTCAGTGGCA-TCTTTCTTC
* * *
58259 AAAGCCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
58280 CCTTTTCTTT
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
59 1 0.01
60 29 0.38
61 46 0.61
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.28
Consensus pattern (60 bp):
AAAGTCCACGACTCAGTGGCATTTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTCTTC
Found at i:58305 original size:33 final size:32
Alignment explanation
Indices: 58238--58369 Score: 108
Period size: 33 Copynumber: 3.9 Consensus size: 32
58228 AAAGTCCACG
* * *
58238 ACTCAGTGGCA-TTTT-TTCTTCAAAGCCCACA
1 ACTCCGTGGCACTTTTCTT-TTTAAAGCCCATA
58269 ACTCCGTGGCACCTTTTCTTTTTAAAGCCCATA
1 ACTCCGTGGCA-CTTTTCTTTTTAAAGCCCATA
* *
58302 ACTCCGTGGCACTTTT-TTTCCTTCTAAGTCCATA
1 ACTCCGTGGCACTTTTCTTT--TT-AAAGCCCATA
*
58336 ATTCCGTGGCATCTTTCTCTTTTTCTAAAGCCCA
1 ACTCCGTGGCA-CTTT-TC-TTTT-TAAAGCCCA
58370 CACAAGTCGG
Statistics
Matches: 82, Mismatches: 8, Indels: 17
0.77 0.07 0.16
Matches are distributed among these distances:
31 13 0.16
32 5 0.06
33 28 0.34
34 20 0.24
35 4 0.05
36 8 0.10
37 1 0.01
38 3 0.04
ACGTcount: A:0.20, C:0.30, G:0.12, T:0.38
Consensus pattern (32 bp):
ACTCCGTGGCACTTTTCTTTTTAAAGCCCATA
Found at i:58397 original size:33 final size:33
Alignment explanation
Indices: 58359--58555 Score: 319
Period size: 33 Copynumber: 6.0 Consensus size: 33
58349 TTTCTCTTTT
58359 TCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
58392 TCTAAAGCCCACACAAGTCGGTGGCAA-CCTTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
*
58424 TTCTAAAGCCCACACAAGTCGGTGGTAACCCTTC
1 -TCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
58458 TC-AAAGCCCACACAAGTCGGTGGCAACCC-TC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
* *
58489 TCTAAAGCCCACACAAGTTGGTGGCAACCATTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
* *
58522 TCTAAAGCCCACGCATGTCGGTGGCAACCCTTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
58555 T
1 T
58556 AAGCCCAATA
Statistics
Matches: 152, Mismatches: 8, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
31 4 0.03
32 56 0.37
33 87 0.57
34 5 0.03
ACGTcount: A:0.27, C:0.35, G:0.19, T:0.20
Consensus pattern (33 bp):
TCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
Found at i:58529 original size:97 final size:97
Alignment explanation
Indices: 58358--58562 Score: 335
Period size: 97 Copynumber: 2.1 Consensus size: 97
58348 CTTTCTCTTT
58358 TTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCTT
1 TTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCTT
*
58423 CTTCTAAAGCCCACACAAGTCGGTGGTAACCC
66 CTTCTAAAGCCCACACAAGTCGGTGGCAACCC
*
58455 TTCTCAAAGCCCACACAAGTCGGTGGCAACCC-TCTCTAAAGCCCACACAAGTTGGTGGCAACCA
1 TTCT-AAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACC-
* *
58519 TTC-TCTAAAGCCCACGCATGTCGGTGGCAACCC
64 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACCC
58552 TTCT-AAGCCCA
1 TTCTAAAGCCCA
58563 ATATCGCTGG
Statistics
Matches: 102, Mismatches: 4, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
95 7 0.07
97 65 0.64
98 30 0.29
ACGTcount: A:0.27, C:0.35, G:0.19, T:0.20
Consensus pattern (97 bp):
TTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCTT
CTTCTAAAGCCCACACAAGTCGGTGGCAACCC
Found at i:58662 original size:43 final size:43
Alignment explanation
Indices: 58601--59235 Score: 707
Period size: 43 Copynumber: 14.1 Consensus size: 43
58591 GCACCTTCAT
* * *
58601 CTTTATGTCCAATGTAGCTGGCCTTGAATTAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
58644 CTTTAAATCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
58687 CTTTAAGTCCAATATAGCTAGCCTTGAATTAGCATATTGGCACCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
*
58734 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
** *
58779 CTCCAAGTCCAATATCA-CTGGCCTTGAATCAGCATATTGGCACC
1 CTTTAAGTCCAATAT-AGCTGGCCTTGAATCAGCACATTGGCA-C
*
58823 TTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 -----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
58871 CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C
* *
58915 TTTATCTTTAAGTCCAATGTAGCTGGTCTTGAATCAGCACATTGGCAC
1 -----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
58963 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
*
59006 CTTTATCTTTATGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTA-----A-GTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
59055 CTTTAAGT-CAATATAGCTGACCTTGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
* *
59101 TTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
*
59146 CTTTAAGTCTAATATAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
59189 TTTTGAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
59232 CTTT
1 CTTT
59236 TCCATCTTTA
Statistics
Matches: 506, Mismatches: 53, Indels: 66
0.81 0.08 0.11
Matches are distributed among these distances:
42 30 0.06
43 278 0.55
44 4 0.01
45 2 0.00
46 1 0.00
47 1 0.00
48 12 0.02
49 178 0.35
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:58740 original size:92 final size:92
Alignment explanation
Indices: 58601--59235 Score: 929
Period size: 92 Copynumber: 7.0 Consensus size: 92
58591 GCACCTTCAT
* * * * *
58601 CTTTATGTCCAATGTAGCTGGCCTTGAATTAGCACATTGGCA----C--CTTTAAATCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
58660 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* *
58687 CTTTAAGTCCAATATAGCTAGCCTTGAATTAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
58752 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
** *
58779 CTCCAAGTCCAATATCA-CTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
1 CTTTAAGTCCAATAT-AGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
58843 AGCTGGCCTTGAATCAGCACATTGGCAC
65 AGCTGGCCTTGAATCAGCACATTGGCAC
* * *
58871 CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
*
58936 GCTGGTCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * * *
58963 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTATGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
59028 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* *
59055 CTTTAAGT-CAATATAGCTGACCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
*
59119 GCTGGCCTTGAATCAGCACATTAGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * * *
59146 CTTTAAGTCTAATATAGCTGGCCTTGAATCAGCACATTGGCA----C-T-TTTGAGTCCAATATA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
*
59205 GCTGGCCTTGAATCAGCATATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
59232 CTTT
1 CTTT
59236 TCCATCTTTA
Statistics
Matches: 507, Mismatches: 33, Indels: 18
0.91 0.06 0.03
Matches are distributed among these distances:
86 80 0.16
87 1 0.00
88 1 0.00
90 1 0.00
91 85 0.17
92 338 0.67
93 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (92 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:58873 original size:21 final size:20
Alignment explanation
Indices: 58849--58916 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 20
58839 ATGTAGCTGG
58849 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCA-ATTGGCA
* *
58870 CCTTTAAGTC--CAATATCGCTA
1 CCTTGAA-TCAGCAAT-TGGC-A
58891 GCCTTGAATCAGCATATTGGCA
1 -CCTTGAATCAGCA-ATTGGCA
58913 CCTT
1 CCTT
58917 TATCTTTAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 13 0.36
22 9 0.25
23 5 0.14
24 2 0.06
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.29
Consensus pattern (20 bp):
CCTTGAATCAGCAATTGGCA
Found at i:59057 original size:21 final size:21
Alignment explanation
Indices: 59033--59099 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
59023 ATGTAGCTGG
*
59033 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCATATTGGCA
* *
59054 CCTTTAAGTCA--ATA-TAGCTGA
1 CCTTGAA-TCAGCATATTGGC--A
59075 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCATATTGGCA
59096 CCTT
1 CCTT
59100 CTTCTTTAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 12
0.67 0.10 0.23
Matches are distributed among these distances:
19 3 0.09
20 5 0.14
21 18 0.51
22 6 0.17
23 3 0.09
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.30
Consensus pattern (21 bp):
CCTTGAATCAGCATATTGGCA
Found at i:59453 original size:49 final size:49
Alignment explanation
Indices: 59357--59454 Score: 117
Period size: 49 Copynumber: 2.0 Consensus size: 49
59347 CTTTTCTCAT
** *
59357 CTTCATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCAC
1 CTTCATCTTTAAGTCCAATGTCGCAGGCCTTGAATCAGCACAGTGGCAC
* * * *
59406 CTTCATCTTTAAGTCTAGTGTGGCAGGCCTTGAATCTA-CATAGTGGCAC
1 CTTCATCTTTAAGTCCAATGTCGCAGGCCTTGAATC-AGCACAGTGGCAC
59455 ACTGCAAGAC
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
49 40 0.98
50 1 0.02
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.33
Consensus pattern (49 bp):
CTTCATCTTTAAGTCCAATGTCGCAGGCCTTGAATCAGCACAGTGGCAC
Found at i:60032 original size:32 final size:32
Alignment explanation
Indices: 59977--60077 Score: 148
Period size: 32 Copynumber: 3.1 Consensus size: 32
59967 TTCAACGATT
*
59977 TGTATCCATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACA-AAAGTGTTGTATCGATACAA
*
60010 TGTATCGATACACAAGTGTTGTATCGATACAA
1 TGTATCGATACAAAAGTGTTGTATCGATACAA
* * *
60042 TGTATCGATACATAAGTTTTGTATCGATATAA
1 TGTATCGATACAAAAGTGTTGTATCGATACAA
60074 TGTA
1 TGTA
60078 AGCTACTGCC
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
32 52 0.83
33 11 0.17
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCGATACAAAAGTGTTGTATCGATACAA
Found at i:60066 original size:19 final size:17
Alignment explanation
Indices: 59975--60070 Score: 64
Period size: 13 Copynumber: 5.7 Consensus size: 17
59965 ATTTCAACGA
*
59975 TTTGTATCCATACATAAAG
1 TTTGTATCGATAC--AAAG
59994 TGTTGTATCGATAC-AA-
1 T-TTGTATCGATACAAAG
60010 --TGTATCGATACACAAG
1 TTTGTATCGATACA-AAG
60026 TGTTGTATCGATAC-AA-
1 T-TTGTATCGATACAAAG
60042 --TGTATCGATACATAAG
1 TTTGTATCGATACA-AAG
60058 TTTTGTATCGATA
1 -TTTGTATCGATA
60071 TAATGTAAGC
Statistics
Matches: 63, Mismatches: 1, Indels: 26
0.70 0.01 0.29
Matches are distributed among these distances:
13 22 0.35
15 4 0.06
17 4 0.06
19 22 0.35
20 11 0.17
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (17 bp):
TTTGTATCGATACAAAG
Found at i:60133 original size:13 final size:13
Alignment explanation
Indices: 60115--60139 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60105 ATTACTCAAA
60115 TGTATCGATACAT
1 TGTATCGATACAT
60128 TGTATCGATACA
1 TGTATCGATACA
60140 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:60204 original size:52 final size:52
Alignment explanation
Indices: 60148--60276 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
60138 CACTGATCTT
60148 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTAACGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTAACGATACACTATAAAA
*
60200 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTAACGATACACTATAAAA
*
60252 TTTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
60277 TCATATTTCG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTAACGATACACTATAAAA
Found at i:63697 original size:21 final size:20
Alignment explanation
Indices: 63671--63767 Score: 79
Period size: 21 Copynumber: 4.7 Consensus size: 20
63661 TTCTACAATT
*
63671 TGTATCGATACAAACAGTAAA
1 TGTATCGATACAAAC-CTAAA
* *
63692 TGTATCGATACATAA-GTGAA
1 TGTATCGATACA-AACCTAAA
* **
63712 TGTATTGATACATGCCTAACA
1 TGTATCGATACAAACCTAA-A
*
63733 TATATCGATACAAACCTAAAA
1 TGTATCGATACAAACCT-AAA
*
63754 TATATCGATACAAA
1 TGTATCGATACAAA
63768 ACCATCCTAC
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
20 17 0.27
21 41 0.66
22 4 0.06
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.28
Consensus pattern (20 bp):
TGTATCGATACAAACCTAAA
Found at i:63715 original size:20 final size:21
Alignment explanation
Indices: 63671--63724 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
63661 TTCTACAATT
*
63671 TGTATCGATACAAACAGTAAA
1 TGTATCGATACATACAGTAAA
*
63692 TGTATCGATACATA-AGTGAA
1 TGTATCGATACATACAGTAAA
*
63712 TGTATTGATACAT
1 TGTATCGATACAT
63725 GCCTAACATA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (21 bp):
TGTATCGATACATACAGTAAA
Found at i:66355 original size:79 final size:78
Alignment explanation
Indices: 66208--66721 Score: 415
Period size: 79 Copynumber: 6.6 Consensus size: 78
66198 TTCATTGATT
* ** * *
66208 TTTTTCATTTTCAAAATATGATTTTTTCACCATC-GAGGATACTCCAACCCCGTTGTTTCCT-AG
1 TTTTT-ATTTCCAAAATAT-AAATTTTCACCATCAG-GGATACTCCAACCCCGTTATTT-TTGAG
* *
66271 GGGATACTCCAATCTTG
62 GGGATACTCCAACCTCG
** * *
66288 TTTTTATTTCCAAAATATCGATTCTTCACCATCAGGGATACTCCAACCTCGTTATTTTTGAGAGG
1 TTTTTATTTCCAAAATATAAATT-TTCACCATCAGGGATACTCCAACCCCGTTATTTTTGAGGGG
* *
66353 ATACTCCAACCCCT
65 ATACTCCAACCTCG
* * * * *
66367 TTTTTATTTCCAAAATATCAATTTTCACCATCGGGGTTACTACAACCCCGTTATTTTTGAGGGGG
1 TTTTTATTTCCAAAATATAAATTTTCACCATCAGGGATACTCCAACCCCGTTATTTTTGAGGGGA
* * *
66432 TATTCCAACCCCA
66 TACTCCAACCTCG
* * * **
66445 TTTTTATTTTCAAAATATTAAATTTT---C-TCAAGGATACTCAAACCTTGTTATTTTTGA-GGG
1 TTTTTATTTCCAAAATA-TAAATTTTCACCATCAGGGATACTCCAACCCCGTTATTTTTGAGGGG
* *
66505 ATACTCTAACCTTG
65 ATACTCCAACCTCG
* * * * * * *
66519 TTTTTATTTTCAAAATATTAAAATTTTCATC-TTAGGGATACTCCAACCCCATCAATTATGAGGG
1 TTTTTATTTCCAAAATA-T-AAATTTTCACCATCAGGGATACTCCAACCCCGTTATTTTTGAGGG
66583 GATACTCCAACCTCG
64 GATACTCCAACCTCG
* * *** * *
66598 TTTTTATTTCTAAAATATTAATTTT--TTTTC-GAGGATACTCCAACCCCATTATTTATGAGGGG
1 TTTTTATTTCCAAAATATAAATTTTCACCATCAG-GGATACTCCAACCCCGTTATTTTTGAGGGG
* *
66660 ATACTCTAATCTCG
65 ATACTCCAACCTCG
* * *
66674 TTTTTATTTCAAAAATATTAAAATTTTCATC-TTA-GGATACTCCAACCC
1 TTTTTATTTCCAAAATA-T-AAATTTTCACCATCAGGGATACTCCAACCC
66722 TGTATTCCGT
Statistics
Matches: 358, Mismatches: 60, Indels: 34
0.79 0.13 0.08
Matches are distributed among these distances:
74 30 0.08
75 32 0.09
76 58 0.16
77 7 0.02
78 109 0.30
79 115 0.32
80 7 0.02
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.39
Consensus pattern (78 bp):
TTTTTATTTCCAAAATATAAATTTTCACCATCAGGGATACTCCAACCCCGTTATTTTTGAGGGGA
TACTCCAACCTCG
Found at i:66497 original size:28 final size:27
Alignment explanation
Indices: 66466--66520 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
66456 AAAATATTAA
66466 ATTTTCTCAAGGATACTCAAACCTTGTT
1 ATTTT-TCAAGGATACTCAAACCTTGTT
* * *
66494 ATTTTTGAGGGATACTCTAACCTTGTT
1 ATTTTTCAAGGATACTCAAACCTTGTT
66521 TTTATTTTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 19 0.79
28 5 0.21
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.42
Consensus pattern (27 bp):
ATTTTTCAAGGATACTCAAACCTTGTT
Found at i:66568 original size:153 final size:154
Alignment explanation
Indices: 66323--66721 Score: 452
Period size: 153 Copynumber: 2.6 Consensus size: 154
66313 TCACCATCAG
* * *
66323 GGATACTCCAACCTCGTTATTTTTGAGAGGATACTCCAACCCCT-TTTTTATTTCCAAAATA-T-
1 GGATACTCCAACCTCGTTATTTTTGAG-GGATACTCTAA-CCTTGTTTTTATTTTCAAAATATTA
* * ** * * * * * * * *
66385 CAATTTTCACCATCGGGGTTACTACAACCCCGTTATTTTTGAGGGGGTATTCCAACCCCATTTTT
64 AAATTTTCATC-TTAGGGATACTCCAACCCCATCAATTATGAGGGGATACTCCAACCCCATTTTT
66450 ATTT-TCAAAATATTAA-ATTTTCTCAA
128 ATTTCT-AAAATATTAATATTTTCTCAA
* *
66476 GGATACTCAAACCTTGTTATTTTTGAGGGATACTCTAACCTTGTTTTTATTTTCAAAATATTAAA
1 GGATACTCCAACCTCGTTATTTTTGAGGGATACTCTAACCTTGTTTTTATTTTCAAAATATTAAA
* *
66541 ATTTTCATCTTAGGGATACTCCAACCCCATCAATTATGAGGGGATACTCCAACCTCGTTTTTATT
66 ATTTTCATCTTAGGGATACTCCAACCCCATCAATTATGAGGGGATACTCCAACCCCATTTTTATT
* * *
66606 TCTAAAATATTAATTTTTTTTCGA
131 TCTAAAATATTAATATTTTCTCAA
* * * * *
66630 GGATACTCCAACCCCATTATTTATGAGGGGATACTCTAATCTCGTTTTTA-TTTCAAAAATATTA
1 GGATACTCCAACCTCGTTATTTTTGA-GGGATACTCTAACCTTGTTTTTATTTTC-AAAATATTA
66694 AAATTTTCATCTTA-GGATACTCCAACCC
64 AAATTTTCATCTTAGGGATACTCCAACCC
66722 TGTATTCCGT
Statistics
Matches: 210, Mismatches: 29, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
151 3 0.01
152 26 0.12
153 81 0.39
154 56 0.27
155 44 0.21
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.39
Consensus pattern (154 bp):
GGATACTCCAACCTCGTTATTTTTGAGGGATACTCTAACCTTGTTTTTATTTTCAAAATATTAAA
ATTTTCATCTTAGGGATACTCCAACCCCATCAATTATGAGGGGATACTCCAACCCCATTTTTATT
TCTAAAATATTAATATTTTCTCAA
Found at i:66736 original size:76 final size:76
Alignment explanation
Indices: 66238--66746 Score: 301
Period size: 78 Copynumber: 6.6 Consensus size: 76
66228 ATTTTTTCAC
* * * * * * *
66238 CATCGAGGATACTCCAACCCCGTTGT-TTCCT-AGGGGATACTCCAATCTTGTTTTTATTTCCAA
1 CATCTAGGATACTCCAACCCC-ATGTATT-ATGAGGGGATACTCTAACCTCGTTTTTATTTTCAA
**
66301 AATA-TCGATTCTT
64 AATATTAAATT-TT
* * * * * * * * *
66314 CACCATCAGGGATACTCCAACCTCGT-TATTTTTGAGAGGATACTCCAACCCCTTTTTTATTTCC
1 CATC-T-A-GGATACTCCAACCCCATGTA-TTATGAGGGGATACTCTAACCTCGTTTTTATTTTC
*
66378 AAAATA-TCAATTTT
62 AAAATATTAAATTTT
** * * * * * * * * *
66392 CACCATCGGGGTTACTACAACCCCGT-TATTTTTGAGGGGGTATTCCAACCCCATTTTTATTTTC
1 ---CATCTAGGATACTCCAACCCCATGTA-TTATGAGGGGATACTCTAACCTCGTTTTTATTTTC
66456 AAAATATTAAATTTT
62 AAAATATTAAATTTT
* * * * *
66471 C-TCAAGGATACT-CAA-ACCTTGTTATTTTTGA-GGGATACTCTAACCTTGTTTTTATTTTCAA
1 CATCTAGGATACTCCAACCCCATG-TA-TTATGAGGGGATACTCTAACCTCGTTTTTATTTTCAA
66532 AATATTAAAATTTT
64 AATATT-AAATTTT
** *
66546 CATCTTAGGGATACTCCAACCCCATCAATTATGAGGGGATACTCCAACCTCGTTTTTA-TTTCTA
1 CATC-TA-GGATACTCCAACCCCATGTATTATGAGGGGATACTCTAACCTCGTTTTTATTTTC-A
*
66610 AAATATTAATTTTT
63 AAATATTAAATTTT
** * *
66624 TTTCGAGGATACTCCAACCCCAT-TATTTATGAGGGGATACTCTAATCTCGTTTTTA-TTTCAAA
1 CATCTAGGATACTCCAACCCCATGTA-TTATGAGGGGATACTCTAACCTCGTTTTTATTTTC-AA
66687 AATATTAAAATTTT
64 AATATT-AAATTTT
** * *
66701 CATCTTAGGATACTCCAA-CCC-TGTATTCCGTGGGGACACTCTAACC
1 CATC-TAGGATACTCCAACCCCATGTATTATGAGGGGATACTCTAACC
66747 CTGCCTCTTT
Statistics
Matches: 350, Mismatches: 59, Indels: 48
0.77 0.13 0.11
Matches are distributed among these distances:
73 3 0.01
74 33 0.09
75 26 0.07
76 80 0.23
77 16 0.05
78 94 0.27
79 92 0.26
80 3 0.01
81 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.38
Consensus pattern (76 bp):
CATCTAGGATACTCCAACCCCATGTATTATGAGGGGATACTCTAACCTCGTTTTTATTTTCAAAA
TATTAAATTTT
Found at i:66744 original size:231 final size:228
Alignment explanation
Indices: 66243--66746 Score: 514
Period size: 231 Copynumber: 2.2 Consensus size: 228
66233 TTCACCATCG
* * *
66243 AGGATACTCCAACCCCGTTGT-TTCCTAGGGGATACTCCAATCTTGTTTTTATTTCCAAAATATC
1 AGGATACTCCAA-CCC--TGTATTCCT-GGGGATACTCTAACCTTGTTTTTATTTCCAAAATATA
* * * * * * *
66307 GATTCTTCACCATCAGGGATACTCCAACCTCGTTATTTTTGAGAGGATACTCCAACCCCTTTTTT
62 AATTCTTCACCATCAGGGATACTCCAACCCCATCAATTATGAGAGGATACTCCAACCCCGTTTTT
* * * * * *
66372 ATTTCCAAAATATCAATTTTCACCATCGGGGTTACTACAACCCCGTTATTTTTGAGGGGGTATTC
127 ATTTCCAAAATATCAATTTT-ACCATCGAGGATACTACAACCCCATTATTTATGAGGGGATACTC
66437 CAACCCCATTTTTATTTTCAAAATATTAAATTTTCTCA
191 CAACCCCATTTTTATTTTCAAAATATTAAATTTTCTCA
* * ** *
66475 AGGATACTCAAACCTTGTTATTTTTGAGGGATACTCTAACCTTGTTTTTATTTTCAAAATATTAA
1 AGGATACTCCAACCCTG-TATTCCTG-GGGATACTCTAACCTTGTTTTTATTTCCAAAATA-T-A
* * * *
66540 AATT-TTCATC-TTAGGGATACTCCAACCCCATCAATTATGAGGGGATACTCCAACCTCGTTTTT
62 AATTCTTCACCATCAGGGATACTCCAACCCCATCAATTATGAGAGGATACTCCAACCCCGTTTTT
* * *** * *
66603 ATTTCTAAAATATTAATTTT-TTTTCGAGGATACTCCAACCCCATTATTTATGAGGGGATACTCT
127 ATTTCCAAAATATCAATTTTACCATCGAGGATACTACAACCCCATTATTTATGAGGGGATACTCC
* * * *
66667 AATCTCGTTTTTA-TTTCAAAAATATTAAAATTTTCATCTT
192 AACCCCATTTTTATTTTC-AAAATATT-AAATTTTC-TC-A
*
66707 AGGATACTCCAACCCTGTATTCCGTGGGGACACTCTAACC
1 AGGATACTCCAACCCTGTATTCC-TGGGGATACTCTAACC
66747 CTGCCTCTTT
Statistics
Matches: 221, Mismatches: 41, Indels: 21
0.78 0.14 0.07
Matches are distributed among these distances:
228 4 0.02
229 53 0.24
230 10 0.05
231 117 0.53
232 34 0.15
233 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (228 bp):
AGGATACTCCAACCCTGTATTCCTGGGGATACTCTAACCTTGTTTTTATTTCCAAAATATAAATT
CTTCACCATCAGGGATACTCCAACCCCATCAATTATGAGAGGATACTCCAACCCCGTTTTTATTT
CCAAAATATCAATTTTACCATCGAGGATACTACAACCCCATTATTTATGAGGGGATACTCCAACC
CCATTTTTATTTTCAAAATATTAAATTTTCTCA
Found at i:70571 original size:13 final size:13
Alignment explanation
Indices: 70553--70611 Score: 55
Period size: 13 Copynumber: 4.1 Consensus size: 13
70543 ACATAAAGTG
70553 TTGTATCGATACA
1 TTGTATCGATACA
70566 TTGTATCGATACATAA
1 TTGTATCGATAC---A
70582 GTGTTGTATCGATACA
1 ---TTGTATCGATACA
*
70598 ATGTATCGATACA
1 TTGTATCGATACA
70611 T
1 T
70612 AAGTTTTGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
13 24 0.63
16 2 0.05
19 12 0.32
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:70589 original size:32 final size:32
Alignment explanation
Indices: 70534--70634 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
70524 TTCAACGATT
*
70534 TGTATCGATACATAAAGTGTTGTATCGATACAT
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
70567 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
70599 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
70631 TGTA
1 TGTA
70635 AGCTACTGCC
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 53 0.80
33 13 0.20
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:70590 original size:19 final size:18
Alignment explanation
Indices: 70532--70629 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
70522 ATTTCAACGA
70532 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
70551 TGTTGTATCGATAC---A-
1 T-TTGTATCGATACATAAG
70566 -TTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
70583 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
70599 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
70615 TTTTGTATCGATACA
1 -TTTGTATCGATACA
70630 ATGTAAGCTA
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 23 0.35
15 2 0.03
16 2 0.03
17 2 0.03
19 25 0.38
20 12 0.18
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:70690 original size:13 final size:13
Alignment explanation
Indices: 70672--70696 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70662 ATTACTCAAA
70672 TGTATCGATACAT
1 TGTATCGATACAT
70685 TGTATCGATACA
1 TGTATCGATACA
70697 CTAATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:70740 original size:86 final size:85
Alignment explanation
Indices: 70586--70769 Score: 205
Period size: 86 Copynumber: 2.2 Consensus size: 85
70576 ACATAAGTGT
* * *
70586 TGTATCGATACAATGTATCGATACATAAGTTTTGTATCGATACAATGTAAGCTACTGCCAAAAAA
1 TGTATCGATACATTGTATCGATACATAAGTTTTGTATCGATACAATGCAAGCAACTGCCAAAAAA
* *
70651 TGTATCGATACATTACTCAAA
66 TGTATCGATACACTA-TAAAA
* *
70672 TGTATCGATACATTGTATCGATACACTAA-TCTTTGTATCGATAC-ATGCAGGCAAATTTG-C-A
1 TGTATCGATACATTGTATCGATACA-TAAGT-TTTGTATCGATACAATGCAAGC-AA-CTGCCAA
* *
70733 CAGATGTATCGATACACTATAAAA
62 AAAATGTATCGATACACTATAAAA
*
70757 TGTATCAATACAT
1 TGTATCGATACAT
70770 GCAGGCAAAT
Statistics
Matches: 84, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
85 16 0.19
86 48 0.57
87 18 0.21
88 2 0.02
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (85 bp):
TGTATCGATACATTGTATCGATACATAAGTTTTGTATCGATACAATGCAAGCAACTGCCAAAAAA
TGTATCGATACACTATAAAA
Found at i:70749 original size:52 final size:52
Alignment explanation
Indices: 70705--70833 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
70695 CACTAATCTT
70705 TGTATCGATACATGCAGGCAAATTTGCACAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCACAGATGTATCGATACACTATAAAA
* *
70757 TGTATCAATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCACAGATGTATCGATACACTATAAAA
70809 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
70834 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCACAGATGTATCGATACACTATAAAA
Found at i:78029 original size:17 final size:16
Alignment explanation
Indices: 78002--78075 Score: 50
Period size: 14 Copynumber: 4.8 Consensus size: 16
77992 TGTTCTTTTC
*
78002 CAAAAAAGAAACAAAG
1 CAAAAAAGAAAAAAAG
78018 CAAAAAAGGAAAAAAAG
1 CAAAAAA-GAAAAAAAG
* *
78035 --AAGAAGAAACAAA-
1 CAAAAAAGAAAAAAAG
*
78048 CAAACAA-AAAAAAAG
1 CAAAAAAGAAAAAAAG
*
78063 -AAGAAAGGAAAAA
1 CAA-AAAAGAAAAA
78076 CCCCTTTTCA
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
14 15 0.33
15 10 0.22
16 12 0.27
17 8 0.18
ACGTcount: A:0.77, C:0.08, G:0.15, T:0.00
Consensus pattern (16 bp):
CAAAAAAGAAAAAAAG
Found at i:78058 original size:28 final size:30
Alignment explanation
Indices: 78007--78067 Score: 90
Period size: 28 Copynumber: 2.1 Consensus size: 30
77997 TTTTCCAAAA
78007 AAGAAACAAAGCAAAAAAGGAAAAAAAGAAG
1 AAGAAACAAAGCAAAAAA-GAAAAAAAGAAG
*
78038 AAGAAACAAA-CAAACAA-AAAAAAAGAAG
1 AAGAAACAAAGCAAAAAAGAAAAAAAGAAG
78066 AA
1 AA
78068 AGGAAAAACC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 13 0.45
30 6 0.21
31 10 0.34
ACGTcount: A:0.77, C:0.08, G:0.15, T:0.00
Consensus pattern (30 bp):
AAGAAACAAAGCAAAAAAGAAAAAAAGAAG
Found at i:79091 original size:32 final size:32
Alignment explanation
Indices: 79020--79326 Score: 153
Period size: 31 Copynumber: 9.8 Consensus size: 32
79010 AAATACCTTC
* *
79020 TTAAAGTCCATGACTCCGTGGGA-CCTTCTT-T
1 TTAAAGTCCACGACTCCGTGGCATCCTT-TTCT
* *
79051 TCAAAGTCCACGACTCAGTGGCATCCTTTTCT
1 TTAAAGTCCACGACTCCGTGGCATCCTTTTCT
*
79083 TTAAAGTCCACGACTCAGTGGCAT--TTTGTC-
1 TTAAAGTCCACGACTCCGTGGCATCCTTT-TCT
* * ** *
79113 TCAAAATCCACGACTCAATGGCAT-TTTTTCT
1 TTAAAGTCCACGACTCCGTGGCATCCTTTTCT
* * *
79144 TAAAAGCCCACAACTCCGTGGCA-CCTTCTTCTTT
1 TTAAAGTCCACGACTCCGTGGCATCCTT-TTC--T
* * **
79178 TTAAAGCCCACAACTCCGTGGCACTTTTTTTCCT
1 TTAAAGTCCACGACTCCGTGGCA-TCCTTTT-CT
* *
79212 TCT-AAGTCCACAACTCCGTGGCA-CC--CT-T
1 T-TAAAGTCCACGACTCCGTGGCATCCTTTTCT
* * *
79240 TTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCT
1 TTAAAGTCCACGACTCCGTGGCA-TCCTTTT--CT
* * *
79275 TTTAAGTCCACAATTCCGTGGCA-CC----CT
1 TTAAAGTCCACGACTCCGTGGCATCCTTTTCT
* *
79302 TTTAAGTCCACAACTCCGTGGCATC
1 TTAAAGTCCACGACTCCGTGGCATC
79327 TTTCTCCTTT
Statistics
Matches: 224, Mismatches: 30, Indels: 47
0.74 0.10 0.16
Matches are distributed among these distances:
27 25 0.11
28 22 0.10
30 28 0.12
31 45 0.20
32 32 0.14
33 1 0.00
34 44 0.20
35 24 0.11
36 3 0.01
ACGTcount: A:0.22, C:0.32, G:0.14, T:0.32
Consensus pattern (32 bp):
TTAAAGTCCACGACTCCGTGGCATCCTTTTCT
Found at i:79123 original size:62 final size:61
Alignment explanation
Indices: 79051--79166 Score: 160
Period size: 61 Copynumber: 1.9 Consensus size: 61
79041 GACCTTCTTT
* * * * *
79051 TCAAAGTCCACGACTCAGTGGCATCCTTTTCTTTAAAGTCCACGACTCAGTGGCATTTTGTC
1 TCAAAATCCACGACTCAATGGCAT-CTTTTCTTAAAAGCCCACAACTCAGTGGCATTTTGTC
* *
79113 TCAAAATCCACGACTCAATGGCATTTTTTCTTAAAAGCCCACAACTCCGTGGCA
1 TCAAAATCCACGACTCAATGGCATCTTTTCTTAAAAGCCCACAACTCAGTGGCA
79167 CCTTCTTCTT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
61 25 0.53
62 22 0.47
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (61 bp):
TCAAAATCCACGACTCAATGGCATCTTTTCTTAAAAGCCCACAACTCAGTGGCATTTTGTC
Found at i:79125 original size:30 final size:29
Alignment explanation
Indices: 79051--79140 Score: 108
Period size: 30 Copynumber: 3.0 Consensus size: 29
79041 GACCTTCTTT
*
79051 TCAAAGTCCACGACTCAGTGGCATCCTTTTC
1 TCAAAATCCACGACTCAGTGGCAT--TTTTC
* *
79082 TTTAAAGTCCACGACTCAGTGGCATTTTGTC
1 -TCAAAATCCACGACTCAGTGGCATTTT-TC
*
79113 TCAAAATCCACGACTCAATGGCATTTTT
1 TCAAAATCCACGACTCAGTGGCATTTTT
79141 TCTTAAAAGC
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
29 1 0.02
30 27 0.51
31 2 0.04
32 23 0.43
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.32
Consensus pattern (29 bp):
TCAAAATCCACGACTCAGTGGCATTTTTC
Found at i:79184 original size:34 final size:34
Alignment explanation
Indices: 79146--79299 Score: 153
Period size: 34 Copynumber: 4.7 Consensus size: 34
79136 TTTTTTCTTA
*
79146 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTCTTCCTTTT
* * *
79180 AAAGCCCACAACTCCGTGGCACTTTTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCAC-CTTCTTCCTTTT
*
79215 -AAGTCCACAACTCCGTGGCA----C--CCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTCTTCCTTTT
*
79242 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTCTT-CCTTTT
* *
79278 -AAGTCCACAATTCCGTGGCACC
1 AAAGCCCACAACTCCGTGGCACC
79300 CTTTTAAGTC
Statistics
Matches: 99, Mismatches: 11, Indels: 20
0.76 0.08 0.15
Matches are distributed among these distances:
27 5 0.05
28 19 0.19
34 42 0.42
35 27 0.27
36 6 0.06
ACGTcount: A:0.21, C:0.36, G:0.13, T:0.30
Consensus pattern (34 bp):
AAAGCCCACAACTCCGTGGCACCTTCTTCCTTTT
Found at i:79287 original size:63 final size:62
Alignment explanation
Indices: 79176--79337 Score: 256
Period size: 62 Copynumber: 2.6 Consensus size: 62
79166 ACCTTCTTCT
* *
79176 TTTTAAAGCCCACAACTCCGTGGCACTTTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCC
*
79238 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAATTCCGTGGCACCC
1 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTTAAGTCCACAACTCCGTGGCACCC
* *
79301 TTTT-AAGTCCACAACTCCGTGGCA-TCTTTCTCCTTTT
1 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
79338 CAAAAGCCCA
Statistics
Matches: 94, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
60 6 0.06
61 6 0.06
62 51 0.54
63 31 0.33
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.34
Consensus pattern (62 bp):
TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCC
Found at i:79293 original size:35 final size:36
Alignment explanation
Indices: 79235--79304 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 36
79225 CTCCGTGGCA
*
79235 CCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCCTTTTAAAGCCCACAACTCCGTGGCACCCTTTTT
* *
79271 CCCTTTT-AAGTCCACAATTCCGTGGCACCCTTTT
1 CCCTTTTAAAGCCCACAACTCCGTGGCACCCTTTT
79305 AAGTCCACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
35 24 0.77
36 7 0.23
ACGTcount: A:0.19, C:0.36, G:0.11, T:0.34
Consensus pattern (36 bp):
CCCTTTTAAAGCCCACAACTCCGTGGCACCCTTTTT
Found at i:79309 original size:27 final size:27
Alignment explanation
Indices: 79271--79324 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
79261 CACTCTTTTT
*
79271 CCCTTTTAAGTCCACAATTCCGTGGCA
1 CCCTTTTAAGTCCACAACTCCGTGGCA
79298 CCCTTTTAAGTCCACAACTCCGTGGCA
1 CCCTTTTAAGTCCACAACTCCGTGGCA
79325 TCTTTCTCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.22, C:0.35, G:0.15, T:0.28
Consensus pattern (27 bp):
CCCTTTTAAGTCCACAACTCCGTGGCA
Found at i:79377 original size:33 final size:33
Alignment explanation
Indices: 79332--79661 Score: 464
Period size: 33 Copynumber: 10.1 Consensus size: 33
79322 GCATCTTTCT
*
79332 CCTT-TTCAAAAGCCCACACAAGTCGGTGGCAA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
79364 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
*
79397 CCCTTC-TCTAAAGCCCACATAAGTCGGTGGCAA
1 -CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
* *
79430 CC--CTTCTCAAAGCCCGCACAAGTTGGTGGCAA
1 CCTTCTTCT-AAAGCCCACACAAGTCGGTGGCAA
*
79462 CC-ACTCTCTAAAGCCCACACAAGTCGGTGGCAA
1 CCTTCT-TCTAAAGCCCACACAAGTCGGTGGCAA
79495 CCTT-TCTCTAAAGCCCACACAAGTCGGTGGCAA
1 CCTTCT-TCTAAAGCCCACACAAGTCGGTGGCAA
*
79528 CCTTCTTTTAAAGCCCACACAAGTCGGTGGCAA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
79561 CC--CTTCTCAAAGCCCACACAAGTCGGTGGCAA
1 CCTTCTTCT-AAAGCCCACACAAGTCGGTGGCAA
* *
79593 CCCTCTT-TAAAGCCCACACAAGTTGGTGGCAA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
79625 CCATTC-TCTAAAGCCCACACAAGTCGGTGGCAA
1 CC-TTCTTCTAAAGCCCACACAAGTCGGTGGCAA
79658 CCTT
1 CCTT
79662 TTAAGTCCAA
Statistics
Matches: 272, Mismatches: 13, Indels: 26
0.87 0.04 0.08
Matches are distributed among these distances:
30 1 0.00
31 7 0.03
32 83 0.31
33 169 0.62
34 12 0.04
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.20
Consensus pattern (33 bp):
CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
Found at i:79385 original size:98 final size:95
Alignment explanation
Indices: 79330--79659 Score: 407
Period size: 98 Copynumber: 3.4 Consensus size: 95
79320 TGGCATCTTT
79330 CTCCTTTTCAAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGC
1 CTCCTTTTC-AAAGCCCACACAAGTCGGTGGCAACC--CTTCTAAAGCCCACACAAGTCGGTGGC
*
79395 AACCCTTCTCTAAAGCCCACATAAGTCGGTGGCAA
63 AACCCTTCTCTAAAGCCCAC--AAGTCGGTGGCAC
* * *
79430 C-CCTTCTCAAAGCCCGCACAAGTTGGTGGCAACCACTCTCTAAAGCCCACACAAGTCGGTGGCA
1 CTCCTTTTCAAAGCCCACACAAGTCGGTGGCAACC-CT-TCTAAAGCCCACACAAGTCGGTGGCA
*
79494 ACCTTTCTCTAAAGCCCACACAAGTCGGTGGCAAC
64 ACCCTTCTCTAAAG-CC-CACAAGTCGGTGGC-AC
*
79529 CTTCTTTT-AAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCAA
1 CTCCTTTTCAAAGCCCACACAAGTCGGTGGCAACCCTTCT-AAAGCCCACACAAGTCGGTGGCAA
* * *
79593 CCC-TCTTTAAAGCCCACACAAGTTGGTGGCAA
65 CCCTTCTCTAAAG-CC-CACAAGTCGGTGGCAC
* *
79625 C-CATTCTCTAAAGCCCACACAAGTCGGTGGCAACC
1 CTCCTTTTC-AAAGCCCACACAAGTCGGTGGCAACC
79660 TTTTAAGTCC
Statistics
Matches: 205, Mismatches: 17, Indels: 19
0.85 0.07 0.08
Matches are distributed among these distances:
95 3 0.01
96 2 0.01
97 56 0.27
98 102 0.50
99 34 0.17
100 8 0.04
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.20
Consensus pattern (95 bp):
CTCCTTTTCAAAGCCCACACAAGTCGGTGGCAACCCTTCTAAAGCCCACACAAGTCGGTGGCAAC
CCTTCTCTAAAGCCCACAAGTCGGTGGCAC
Found at i:79427 original size:131 final size:131
Alignment explanation
Indices: 79335--79659 Score: 507
Period size: 131 Copynumber: 2.5 Consensus size: 131
79325 TCTTTCTCCT
79335 TTTCAAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACCC
1 TTTC-AAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACCC
* * *
79400 TTC-TCTAAAGCCCACATAAGTCGGTGGCAACCCTTCTCAAAGCCCGCACAAGTTGGTGGCAACC
65 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCAACC
*
79464 AC
130 TC
*
79466 TCTCTAAAGCCCACACAAGTCGGTGGCAACCTT-TCTCTAAAGCCCACACAAGTCGGTGGCAA-C
1 TTTC-AAAGCCCACACAAGTCGGTGGCAACCTTCT-TCTAAAGCCCACACAAGTCGGTGGCAACC
*
79529 CTTCTTTTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCAAC
64 CTTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCAA-
79594 CCTC
128 CCTC
*
79598 TTT-AAAGCCCACACAAGTTGGTGGCAACCATTC-TCTAAAGCCCACACAAGTCGGTGGCAACC
1 TTTCAAAGCCCACACAAGTCGGTGGCAACC-TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
79660 TTTTAAGTCC
Statistics
Matches: 179, Mismatches: 9, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
130 58 0.32
131 116 0.65
132 5 0.03
ACGTcount: A:0.28, C:0.34, G:0.19, T:0.19
Consensus pattern (131 bp):
TTTCAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCT
TCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCT
C
Found at i:79470 original size:65 final size:65
Alignment explanation
Indices: 79340--79659 Score: 502
Period size: 65 Copynumber: 4.9 Consensus size: 65
79330 CTCCTTTTCA
79340 AAAGCCCACACAAGTCGGTGGCAA-CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTC-TCTAAAGCCCACACAAGTCGGTGGCAACCC-TCT
79404 CT
64 CT
* * *
79406 AAAGCCCACATAAGTCGGTGGCAACCCTTCTC-AAAGCCCGCACAAGTTGGTGGCAACCACTCTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACC-CTCTC
79470 T
65 T
* * *
79471 AAAGCCCACACAAGTCGGTGGCAACCTTTCTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTC-TC
79536 T
65 T
*
79537 AAAGCCCACACAAGTCGGTGGCAACCCTTCTC-AAAGCCCACACAAGTCGGTGGCAACCCTCTTT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCT
* *
79601 AAAGCCCACACAAGTTGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGCAACC
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACC
79660 TTTTAAGTCC
Statistics
Matches: 236, Mismatches: 13, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
64 33 0.14
65 115 0.49
66 83 0.35
67 5 0.02
ACGTcount: A:0.28, C:0.34, G:0.19, T:0.19
Consensus pattern (65 bp):
AAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCT
Found at i:79772 original size:43 final size:43
Alignment explanation
Indices: 79709--80129 Score: 428
Period size: 43 Copynumber: 9.1 Consensus size: 43
79699 GCACCTTCAT
*
79709 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
79752 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACA-T--TG-----G-CAC
* * *
79804 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
79847 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
* * *
79894 ATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATT---G-----G-CAC
* *
79948 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
79991 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
*
80038 TTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
*
80083 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
80126 CTTT
1 CTTT
80130 TCCATCTTTA
Statistics
Matches: 322, Mismatches: 26, Indels: 60
0.79 0.06 0.15
Matches are distributed among these distances:
43 159 0.49
44 3 0.01
45 1 0.00
46 2 0.01
47 2 0.01
49 78 0.24
51 2 0.01
52 72 0.22
57 1 0.00
58 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:79849 original size:21 final size:21
Alignment explanation
Indices: 79825--79892 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
79815 ATGTCGCTGG
79825 CCTTGAATCAACACATTGGCA
1 CCTTGAATCAACACATTGGCA
* * * *
79846 CCTTTAAGTCCAATATAGCTGG--
1 CCTTGAA-T-CAACACA-TTGGCA
*
79868 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAACACATTGGCA
79889 CCTT
1 CCTT
79893 CATCTTTAAG
Statistics
Matches: 33, Mismatches: 9, Indels: 10
0.63 0.17 0.19
Matches are distributed among these distances:
19 3 0.09
20 4 0.12
21 11 0.33
22 7 0.21
23 5 0.15
24 3 0.09
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (21 bp):
CCTTGAATCAACACATTGGCA
Found at i:79921 original size:144 final size:143
Alignment explanation
Indices: 79661--80086 Score: 646
Period size: 144 Copynumber: 3.0 Consensus size: 143
79651 GTGGCAACCT
* * *
79661 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATAG
79726 CTGGCCTTGAATCAGCACATTGGCA----C-CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCA
60 CTGGCCTTGAATCAGCACATTGGCACCTTCTCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCA
*
79786 TATTGGTGCCTTTGTCATC
125 TATTGGCGCCTTTGTCATC
*
79805 TTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTTAAGTCCAATATAGCTGGCC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCC
79870 TTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
66 TTGAATCAGCACATTGGCACCTTC-TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
79935 GCGCCTTTGTCATC
130 GCGCCTTTGTCATC
*
79949 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTAGCC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCC
* * * *
80014 TTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
66 TTGAATCAGCACATTGGCACCTTC-TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
*
80079 GCACCTTT
130 GCGCCTTT
80087 AAGTCCAATA
Statistics
Matches: 263, Mismatches: 13, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
138 41 0.16
140 1 0.00
142 1 0.00
144 220 0.84
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (143 bp):
TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCC
TTGAATCAGCACATTGGCACCTTCTCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
CGCCTTTGTCATC
Found at i:79993 original size:21 final size:20
Alignment explanation
Indices: 79969--80036 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 20
79959 ATGTCGCTGG
79969 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCA-ATTGGCA
* *
79990 CCTTTAAGTC--CAATATAGCTA
1 CCTTGAA-TCAGCAAT-TGGC-A
80011 GCCTTGAATCAGCATATTGGCA
1 -CCTTGAATCAGCA-ATTGGCA
80033 CCTT
1 CCTT
80037 CTTCTTTAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 13 0.36
22 9 0.25
23 5 0.14
24 2 0.06
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (20 bp):
CCTTGAATCAGCAATTGGCA
Found at i:79997 original size:187 final size:190
Alignment explanation
Indices: 79652--80171 Score: 601
Period size: 187 Copynumber: 2.8 Consensus size: 190
79642 CACAAGTCGG
* *
79652 TGGCAACCTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGT
1 TGGC-ACC-TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * * *
79717 CCAATGTAGCTGGCCTTGAATCAGCACATT---G-----G-CACCTTTAAGTCCAATATCGCTGG
64 CCAATATAGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGG
* * * * *
79773 CCTTGAATCAGCATATTGGTGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAACA
129 CCTTGAATCAGCACA-T-GTG----TGTCACCTTTAAGTCCAATATAGCTAGCCTTGAATCAACA
79838 CAT
188 CAT
79841 TGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
1 TGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
*
79906 AATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCC
66 AATATAGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCC
* *
79971 TTGAATCAGCACAT-TG-G-CACCTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATAT
131 TTGAATCAGCACATGTGTGTCACCTTTAAGTCCAATATAGCTAGCCTTGAATCAACACAT
*
80028 TGGCACCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTT
1 TGGCA----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
* * *
80087 AAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT-TCCATCTTTAAGTTCAATGTA
60 AAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCGCCTTTGT-CATCTTTAAGTCCAATGTC
*
80151 ACTGGCCTTGAATCAGCACAT
124 GCTGGCCTTGAATCAGCACAT
80172 CGACATCCTT
Statistics
Matches: 295, Mismatches: 20, Indels: 34
0.85 0.06 0.10
Matches are distributed among these distances:
186 1 0.00
187 202 0.68
188 4 0.01
189 5 0.02
190 1 0.00
191 1 0.00
193 43 0.15
195 2 0.01
196 36 0.12
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (190 bp):
TGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
AATATAGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCC
TTGAATCAGCACATGTGTGTCACCTTTAAGTCCAATATAGCTAGCCTTGAATCAACACAT
Found at i:80075 original size:92 final size:93
Alignment explanation
Indices: 79896--80171 Score: 446
Period size: 92 Copynumber: 2.9 Consensus size: 93
79886 GCACCTTCAT
* *
79896 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TT-TCATCTTTAAGTCCAAT
*
79961 GTCGCTGGCCTTGAATCAGCACATTGGCAC
64 GTAGCTGGCCTTGAATCAGCACATTGGCAC
* *
79991 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACC-TTCTTCTTTAAGTCCAATGT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCATCTTTAAGTCCAATGT
80055 AGCTGGCCTTGAATCAGCACATTGGCAC
66 AGCTGGCCTTGAATCAGCACATTGGCAC
*
80083 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT-CATCTTTAAGTCCAAT
*
80148 GTAACTGGCCTTGAATCAGCACAT
64 GTAGCTGGCCTTGAATCAGCACAT
80172 CGACATCCTT
Statistics
Matches: 169, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
92 88 0.52
93 1 0.01
94 2 0.01
95 78 0.46
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (93 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:80916 original size:13 final size:13
Alignment explanation
Indices: 80898--80954 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
80888 CATAAAGTGT
80898 TGTATCGATACAA
1 TGTATCGATACAA
80911 TGTATCGATACATAA
1 TGTATCGATAC--AA
80926 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
80943 TGTATCGATACA
1 TGTATCGATACA
80955 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:80933 original size:32 final size:32
Alignment explanation
Indices: 80878--80978 Score: 184
Period size: 32 Copynumber: 3.1 Consensus size: 32
80868 TTCAACGATT
80878 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
80911 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
80943 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
80975 TGTA
1 TGTA
80979 AGCTACTGCC
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 54 0.81
33 13 0.19
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:80935 original size:19 final size:18
Alignment explanation
Indices: 80876--80973 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
80866 ATTTCAACGA
80876 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
80895 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
80911 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
80927 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
80943 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
80959 TTTTGTATCGATACA
1 -TTTGTATCGATACA
80974 ATGTAAGCTA
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
15 4 0.06
17 4 0.06
19 24 0.36
20 12 0.18
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:81034 original size:13 final size:13
Alignment explanation
Indices: 81016--81040 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
81006 ATTACTCAAA
81016 TGTATCGATACAT
1 TGTATCGATACAT
81029 TGTATCGATACA
1 TGTATCGATACA
81041 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:81094 original size:52 final size:52
Alignment explanation
Indices: 81049--81177 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
81039 CACTGATCTT
* *
81049 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGAGACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
81101 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
81153 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
81178 TCATATTTCG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:84384 original size:3 final size:3
Alignment explanation
Indices: 84376--84405 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
84366 CCACTCAAAG
84376 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
84406 GGTTGAGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:88800 original size:19 final size:20
Alignment explanation
Indices: 88754--88809 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
88744 AGATTTTTTC
*
88754 CAAAATGTATCGATATAATA
1 CAAAATGTATCAATATAATA
*
88774 CAAAATGTATCAATATACTA
1 CAAAATGTATCAATATAATA
88794 C-AAATGTATCAATATA
1 CAAAATGTATCAATATA
88810 TATAGATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 15 0.44
20 19 0.56
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.30
Consensus pattern (20 bp):
CAAAATGTATCAATATAATA
Found at i:88884 original size:27 final size:27
Alignment explanation
Indices: 88846--88911 Score: 123
Period size: 27 Copynumber: 2.4 Consensus size: 27
88836 TAATGAACAA
88846 TGTATCGATACATCTGGGTTTCTAGAT
1 TGTATCGATACATCTGGGTTTCTAGAT
*
88873 TGTATTGATACATCTGGGTTTCTAGAT
1 TGTATCGATACATCTGGGTTTCTAGAT
88900 TGTATCGATACA
1 TGTATCGATACA
88912 CTCACTAATG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.41
Consensus pattern (27 bp):
TGTATCGATACATCTGGGTTTCTAGAT
Found at i:96023 original size:56 final size:56
Alignment explanation
Indices: 95954--96077 Score: 140
Period size: 56 Copynumber: 2.2 Consensus size: 56
95944 GATGTCATCG
* * * * *
95954 GCCATGTTATAAGCCTAGAAAAGTTAGACCATAGTGAGTAAACCCCAATATAGCTG
1 GCCATGTTGTAAGCCGAGAAAAGTTAGACCATAATGAGTAAACCCCAATATAACTA
* * * * * * *
96010 GCTATGTTGTAAGCCGAGTAATGTTGGTCCATAATGAGTAAAGCCCAATGTAACTA
1 GCCATGTTGTAAGCCGAGAAAAGTTAGACCATAATGAGTAAACCCCAATATAACTA
96066 GCCATGTTGTAA
1 GCCATGTTGTAA
96078 ACGTAAGGTT
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (56 bp):
GCCATGTTGTAAGCCGAGAAAAGTTAGACCATAATGAGTAAACCCCAATATAACTA
Found at i:96356 original size:77 final size:76
Alignment explanation
Indices: 96209--96381 Score: 192
Period size: 77 Copynumber: 2.2 Consensus size: 76
96199 AAAAAAAAAT
96209 CAATTTAGTTGGTTTAGAAAAAGTACAATGTGATTGGCACCTTTAGGGAAGTTATGCTTTAAAGA
1 CAATTTAGTTGGTTTAGAAAAAGTACAATGTGATTGGCACCTTTAGGGAAGTTATGCTTTAAAG-
96274 AAGAGA-AAGTC
65 AAGAGATAAGTC
* * * * * * *
96285 TAATTTAGTTAGTTTAGATAGACG-ACTAATGTGTTTGGCATCTTTA-GGAAGGTTTTGCCTTAT
1 CAATTTAGTTGGTTTAGA-AAAAGTAC-AATGTGATTGGCACCTTTAGGGAA-GTTATG-CTT-T
96348 AAAG-AGAGATTAAGTC
61 AAAGAAGAGA-TAAGTC
96364 CAATTTAGTTGGTTTAGA
1 CAATTTAGTTGGTTTAGA
96382 GGGAAGACCA
Statistics
Matches: 81, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
76 22 0.27
77 30 0.37
78 3 0.04
79 26 0.32
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.35
Consensus pattern (76 bp):
CAATTTAGTTGGTTTAGAAAAAGTACAATGTGATTGGCACCTTTAGGGAAGTTATGCTTTAAAGA
AGAGATAAGTC
Found at i:96379 original size:79 final size:76
Alignment explanation
Indices: 96209--96381 Score: 197
Period size: 79 Copynumber: 2.2 Consensus size: 76
96199 AAAAAAAAAT
96209 CAATTTAGTTGGTTTAGAAAAAGTACAATGTGATTGGCACCTTTAGGGAAGTTATGCTTTAAAGA
1 CAATTTAGTTGGTTTAGAAAAAGTACAATGTGATTGGCACCTTTAGGGAAGTTATGCTTTAAAGA
96274 AAGAGAAAGTC
66 AAGAGAAAGTC
* * * * * * *
96285 TAATTTAGTTAGTTTAGATAGACG-ACTAATGTGTTTGGCATCTTTA-GGAAGGTTTTGCCTTAT
1 CAATTTAGTTGGTTTAGA-AAAAGTAC-AATGTGATTGGCACCTTTAGGGAA-GTTATG-CTT-T
* **
96348 AAAGAGAGATTAAGTC
61 AAAGAAAGAGAAAGTC
96364 CAATTTAGTTGGTTTAGA
1 CAATTTAGTTGGTTTAGA
96382 GGGAAGACCA
Statistics
Matches: 80, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
76 22 0.28
77 25 0.31
78 3 0.04
79 30 0.38
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.35
Consensus pattern (76 bp):
CAATTTAGTTGGTTTAGAAAAAGTACAATGTGATTGGCACCTTTAGGGAAGTTATGCTTTAAAGA
AAGAGAAAGTC
Found at i:100327 original size:22 final size:22
Alignment explanation
Indices: 100299--100368 Score: 86
Period size: 22 Copynumber: 3.2 Consensus size: 22
100289 ATGCATTTTA
*
100299 TTATAGTTATATGTACATAATG
1 TTATAGTCATATGTACATAATG
* * *
100321 TTGTAGTGATATGTACATAATA
1 TTATAGTCATATGTACATAATG
* *
100343 TTATAATCATATGTACATATTG
1 TTATAGTCATATGTACATAATG
100365 TTAT
1 TTAT
100369 TGTAAAATGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.36, C:0.06, G:0.13, T:0.46
Consensus pattern (22 bp):
TTATAGTCATATGTACATAATG
Found at i:103574 original size:51 final size:52
Alignment explanation
Indices: 103455--103592 Score: 215
Period size: 51 Copynumber: 2.7 Consensus size: 52
103445 TATTGTCTGC
* * *
103455 ATGTATCGATACATTGAAAAATGTATCGATACATTTGGGTCAAAAACCCAGA
1 ATGTATCGATACAATCAAAAATGTATCGATACATTCGGGTCAAAAACCCAGA
* * *
103507 ATGTATCAATACAATCAAAAATGTATTGATACATTCGGGTC-ATAACCCAGA
1 ATGTATCGATACAATCAAAAATGTATCGATACATTCGGGTCAAAAACCCAGA
103558 ATGTATCGATACAATCAAAAATGTATCGATACATT
1 ATGTATCGATACAATCAAAAATGTATCGATACATT
103593 TCCATTCCAA
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
51 42 0.54
52 36 0.46
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.28
Consensus pattern (52 bp):
ATGTATCGATACAATCAAAAATGTATCGATACATTCGGGTCAAAAACCCAGA
Found at i:104859 original size:22 final size:22
Alignment explanation
Indices: 104834--104903 Score: 95
Period size: 22 Copynumber: 3.2 Consensus size: 22
104824 TATCTTTATG
*
104834 CATATTATTATAGTTATATGTA
1 CATAATATTATAGTTATATGTA
* * *
104856 CATAATGTTGTAGTGATATGTA
1 CATAATATTATAGTTATATGTA
*
104878 CATAATATTACAGTTATATGTA
1 CATAATATTATAGTTATATGTA
104900 CATA
1 CATA
104904 TTGTTATTGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (22 bp):
CATAATATTATAGTTATATGTA
Found at i:104921 original size:44 final size:44
Alignment explanation
Indices: 104834--104921 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
104824 TATCTTTATG
* * * * *
104834 CATATTATTATAGTTATATGTACATAATGTTGTAGTGATATGTA
1 CATAATATTACAGTTATATGTACATAATGTTATAGTAAAATGTA
* *
104878 CATAATATTACAGTTATATGTACATATTGTTATTGTAAAATGTA
1 CATAATATTACAGTTATATGTACATAATGTTATAGTAAAATGTA
104922 TATTCAATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.36, C:0.06, G:0.14, T:0.44
Consensus pattern (44 bp):
CATAATATTACAGTTATATGTACATAATGTTATAGTAAAATGTA
Found at i:105056 original size:22 final size:22
Alignment explanation
Indices: 104972--105058 Score: 72
Period size: 22 Copynumber: 4.0 Consensus size: 22
104962 GTAATGGTTC
*
104972 TTTTGGAAAAGGTTAGTTATCTT
1 TTTTGG-AAAGGTTAGTTCTCTT
* *
104995 TCTTGGAAAGGTTGGTTCTC-T
1 TTTTGGAAAGGTTAGTTCTCTT
* *
105016 TTGT-GATGAA-GCTAGTTCTCTT
1 TTTTGGA--AAGGTTAGTTCTCTT
*
105038 TTTTGGAAGGGTTAGTTCTCT
1 TTTTGGAAAGGTTAGTTCTCT
105059 GTGTGAAAAG
Statistics
Matches: 49, Mismatches: 10, Indels: 11
0.70 0.14 0.16
Matches are distributed among these distances:
20 2 0.04
21 12 0.24
22 28 0.57
23 7 0.14
ACGTcount: A:0.18, C:0.10, G:0.25, T:0.46
Consensus pattern (22 bp):
TTTTGGAAAGGTTAGTTCTCTT
Found at i:105677 original size:19 final size:17
Alignment explanation
Indices: 105652--105716 Score: 66
Period size: 19 Copynumber: 3.8 Consensus size: 17
105642 ATTTCAACGA
105652 TTTGTATCGATACATAGG
1 TTTGTATCGATACATA-G
105670 TGTTGTATCGATACA-A-
1 T-TTGTATCGATACATAG
105686 --TGTATCGATACATAAG
1 TTTGTATCGATACAT-AG
105702 TTTTGTATCGATACA
1 -TTTGTATCGATACA
105717 ATGTACAGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 12 0.30
15 1 0.03
18 2 0.05
19 25 0.62
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.38
Consensus pattern (17 bp):
TTTGTATCGATACATAG
Found at i:105690 original size:32 final size:32
Alignment explanation
Indices: 105654--105721 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
105644 TTCAACGATT
*
105654 TGTATCGATACATAGGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
105686 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
105718 TGTA
1 TGTA
105722 CAGTTATGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:105691 original size:13 final size:13
Alignment explanation
Indices: 105673--105697 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
105663 ACATAGGTGT
105673 TGTATCGATACAA
1 TGTATCGATACAA
105686 TGTATCGATACA
1 TGTATCGATACA
105698 TAAGTTTTGT
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):
TGTATCGATACAA
Found at i:105846 original size:52 final size:52
Alignment explanation
Indices: 105789--105917 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
105779 CACTGATCTT
105789 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
**
105841 TGTATCGATACATATAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
105893 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
105918 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:110734 original size:52 final size:52
Alignment explanation
Indices: 110656--110836 Score: 292
Period size: 52 Copynumber: 3.5 Consensus size: 52
110646 CGAAATATGA
* *
110656 AAATTTGCCTACATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTACATGTATCGATACATTGTATAATGTATCGATACATCTGGGC
* *
110708 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTACATGTATCGATACATTGTATAATGTATCGATACATCTGGGC
*
110760 AAATTTGCCAACATGTATCGATACA-TGTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTACATGTATCGATACATTG-TATAATGTATCGATACATCTGGGC
*
110812 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTACATGTATCGATACA
110837 AAGATCAGTG
Statistics
Matches: 119, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
51 1 0.01
52 118 0.99
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTACATGTATCGATACATTGTATAATGTATCGATACATCTGGGC
Found at i:124931 original size:52 final size:52
Alignment explanation
Indices: 124853--125033 Score: 292
Period size: 52 Copynumber: 3.5 Consensus size: 52
124843 CGAAATATGA
* *
124853 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGTATAATGTATCGATACATCTGGGC
* *
124905 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCAGGGC
1 AAATTTGCCTGCATGTATCGATACATTGTATAATGTATCGATACATCTGGGC
**
124957 AAATTTGCCAACATGTATCGATACA-TGTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-TATAATGTATCGATACATCTGGGC
125009 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
125034 AAGATCAGTG
Statistics
Matches: 118, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
51 1 0.01
52 117 0.99
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTGTATAATGTATCGATACATCTGGGC
Found at i:125060 original size:13 final size:13
Alignment explanation
Indices: 125042--125066 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
125032 CAAAGATCAG
125042 TGTATCGATACAA
1 TGTATCGATACAA
125055 TGTATCGATACA
1 TGTATCGATACA
125067 TTTGAGTAAT
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):
TGTATCGATACAA
Found at i:125146 original size:13 final size:13
Alignment explanation
Indices: 125128--125152 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
125118 ACAAAAAAAA
125128 TGTATCGATACAT
1 TGTATCGATACAT
125141 TGTATCGATACA
1 TGTATCGATACA
125153 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:127361 original size:22 final size:22
Alignment explanation
Indices: 127335--127414 Score: 85
Period size: 22 Copynumber: 3.7 Consensus size: 22
127325 TCTTTAAAAG
*
127335 AGGTTGGTTCTCTTTTTTGGAA
1 AGGTTAGTTCTCTTTTTTGGAA
* * *
127357 AGGTTGGTTCTC-TTTGT-AATA
1 AGGTTAGTTCTCTTTTTTGGA-A
*
127378 AGGTTAGTTCTCTTTCTTGGAA
1 AGGTTAGTTCTCTTTTTTGGAA
127400 AGGTTAGTTCT-TTTT
1 AGGTTAGTTCTCTTTT
127415 GTGAAAAAGT
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
20 1 0.02
21 19 0.40
22 27 0.56
23 1 0.02
ACGTcount: A:0.16, C:0.10, G:0.24, T:0.50
Consensus pattern (22 bp):
AGGTTAGTTCTCTTTTTTGGAA
Found at i:127388 original size:43 final size:43
Alignment explanation
Indices: 127335--127416 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
127325 TCTTTAAAAG
* * *
127335 AGGTTGGTTCTCTTTTTTGGAAAGGTTGGTTCTCTTTGTAATA
1 AGGTTAGTTCTCTTTCTTGGAAAGGTTAGTTCTCTTTGTAATA
*
127378 AGGTTAGTTCTCTTTCTTGGAAAGGTTAGTTCTTTTTGT
1 AGGTTAGTTCTCTTTCTTGGAAAGGTTAGTTCTCTTTGT
127417 GAAAAAGTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.16, C:0.10, G:0.24, T:0.50
Consensus pattern (43 bp):
AGGTTAGTTCTCTTTCTTGGAAAGGTTAGTTCTCTTTGTAATA
Found at i:127423 original size:22 final size:22
Alignment explanation
Indices: 127355--127423 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
127345 TCTTTTTTGG
* *
127355 AAAGGTTGGTTCTCTTTGT-AA
1 AAAGGTTAGTTCTTTTTGTGAA
* *
127376 TAAGGTTAGTTCTCTTTCT-TG-G
1 AAAGGTTAGTTCT-TTT-TGTGAA
127398 AAAGGTTAGTTCTTTTTGTGAA
1 AAAGGTTAGTTCTTTTTGTGAA
127420 AAAG
1 AAAG
127424 TTGTTTTCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
20 1 0.03
21 16 0.43
22 19 0.51
23 1 0.03
ACGTcount: A:0.25, C:0.09, G:0.23, T:0.43
Consensus pattern (22 bp):
AAAGGTTAGTTCTTTTTGTGAA
Found at i:128370 original size:21 final size:22
Alignment explanation
Indices: 128343--128393 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 22
128333 TTAGTTATGA
* *
128343 TATATGTACATATAGTTTTTGT
1 TATATGTACATATAATTTTTGC
128365 TA-ATGTACATATAATTTTTGC
1 TATATGTACATATAATTTTTGC
128386 TATATGTA
1 TATATGTA
128394 TAAATGCTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.51
Consensus pattern (22 bp):
TATATGTACATATAATTTTTGC
Found at i:129336 original size:21 final size:21
Alignment explanation
Indices: 129302--129377 Score: 70
Period size: 21 Copynumber: 3.7 Consensus size: 21
129292 CTTTTTATTG
129302 AGGAAACCAA-CCTTTCACAA
1 AGGAAACCAACCCTTTCACAA
**
129322 AGGAAACCAACCCTTTCATTA
1 AGGAAACCAACCCTTTCACAA
*
129343 AGTG-AGCCAAGCCC-TTCACAA
1 AG-GAAACCAA-CCCTTTCACAA
129364 A-GAGAACCAACCCT
1 AGGA-AACCAACCCT
129378 CCAAAAAAGT
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
19 1 0.02
20 13 0.30
21 26 0.59
22 4 0.09
ACGTcount: A:0.39, C:0.32, G:0.13, T:0.16
Consensus pattern (21 bp):
AGGAAACCAACCCTTTCACAA
Found at i:129972 original size:13 final size:13
Alignment explanation
Indices: 129956--129985 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
129946 ATATATTGTT
129956 CATTGTATCGATA
1 CATTGTATCGATA
*
129969 CATTGTATTGATA
1 CATTGTATCGATA
129982 CATT
1 CATT
129986 CTGGGTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:130005 original size:29 final size:29
Alignment explanation
Indices: 129972--130043 Score: 117
Period size: 29 Copynumber: 2.5 Consensus size: 29
129962 ATCGATACAT
* *
129972 TGTATTGATACATTCTGGGTTTACCCAAA
1 TGTATCGATACATTCTGGATTTACCCAAA
*
130001 TGTATCGATACATTCTGGATTTACCCAGA
1 TGTATCGATACATTCTGGATTTACCCAAA
130030 TGTATCGATACATT
1 TGTATCGATACATT
130044 TTACAATGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.38
Consensus pattern (29 bp):
TGTATCGATACATTCTGGATTTACCCAAA
Done.