Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold193
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: 3104049
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.32
Warning! 172765 characters in sequence are not A, C, G, or T
File 7 of 18
Found at i:1262242 original size:20 final size:20
Alignment explanation
Indices: 1262219--1262285 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 20
1262209 ACATTTTGCA
1262219 TTGTATCGATACATCGCTCG
1 TTGTATCGATACATCGCTCG
1262239 TTGTATCGATACA-------
1 TTGTATCGATACATCGCTCG
1262252 TTGTATCGATACATCGCTCG
1 TTGTATCGATACATCGCTCG
1262272 TTGTATCGATACAT
1 TTGTATCGATACAT
1262286 TGTATCGATA
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 13 0.32
20 27 0.68
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATCGCTCG
Found at i:1262259 original size:33 final size:33
Alignment explanation
Indices: 1262217--1262319 Score: 188
Period size: 33 Copynumber: 3.1 Consensus size: 33
1262207 ATACATTTTG
1262217 CATTGTATCGATACATCGCTCGTTGTATCGATA
1 CATTGTATCGATACATCGCTCGTTGTATCGATA
1262250 CATTGTATCGATACATCGCTCGTTGTATCGATA
1 CATTGTATCGATACATCGCTCGTTGTATCGATA
* *
1262283 CATTGTATCGATACATTGCTCATTGTATCGATA
1 CATTGTATCGATACATCGCTCGTTGTATCGATA
1262316 CATT
1 CATT
1262320 CAGGCATTTT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 68 1.00
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (33 bp):
CATTGTATCGATACATCGCTCGTTGTATCGATA
Found at i:1262308 original size:20 final size:19
Alignment explanation
Indices: 1262283--1262320 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
1262273 TGTATCGATA
1262283 CATTGTATCGATACATTGCT
1 CATTGTATCGATACATT-CT
1262303 CATTGTATCGATACATTC
1 CATTGTATCGATACATTC
1262321 AGGCATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.39
Consensus pattern (19 bp):
CATTGTATCGATACATTCT
Found at i:1262319 original size:13 final size:13
Alignment explanation
Indices: 1262239--1262300 Score: 64
Period size: 13 Copynumber: 5.2 Consensus size: 13
1262229 ACATCGCTCG
1262239 TTGTATCGATACA
1 TTGTATCGATACA
1262252 TTGTATCGATAC-
1 TTGTATCGATACA
* *
1262264 ----ATCGCT-CG
1 TTGTATCGATACA
1262272 TTGTATCGATACA
1 TTGTATCGATACA
1262285 TTGTATCGATACA
1 TTGTATCGATACA
1262298 TTG
1 TTG
1262301 CTCATTGTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
7 1 0.03
8 5 0.12
12 5 0.12
13 29 0.73
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.39
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1264672 original size:51 final size:50
Alignment explanation
Indices: 1264617--1264781 Score: 206
Period size: 51 Copynumber: 3.2 Consensus size: 50
1264607 TTCATCTCGA
* * * *
1264617 GGATACTCCAA-TCCCGATTTCATTTTTAAAACATCAATTTCTCTTAATCGG
1 GGATACTCCAACT-CCGATTTTATTTCTAAAACACCAATTT-TCATAATCGG
*
1264668 GGATACTCCAACTCCGATTTTATTTCTAAAACACCCATTTTCCATAATCGG
1 GGATACTCCAACTCCGATTTTATTTCTAAAACACCAATTTT-CATAATCGG
* * * *
1264719 GGATACTGCAACTCTGATTTTATTTCCAAAACACCGAATTTTCACAATCGG
1 GGATACTCCAACTCCGATTTTATTTCTAAAACACC-AATTTTCATAATCGG
1264770 GGATACTCCAAC
1 GGATACTCCAAC
1264782 CCCGTTATTT
Statistics
Matches: 100, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
50 1 0.01
51 93 0.93
52 6 0.06
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (50 bp):
GGATACTCCAACTCCGATTTTATTTCTAAAACACCAATTTTCATAATCGG
Found at i:1264897 original size:51 final size:51
Alignment explanation
Indices: 1264796--1264915 Score: 132
Period size: 51 Copynumber: 2.4 Consensus size: 51
1264786 TTATTTTCTG
* * *
1264796 GGGGATACTCTAACCCCGGTTTTATTTCTAAAACACCAATTCTCCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTCTCCACAATC
* * * * * * *
1264847 GGGGATATTCCAACTCCGATTTTATTTCCAAAATACTAATTTTTCGCAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTCTCCACAATC
**
1264898 AAGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
1264916 TTATTTCATC
Statistics
Matches: 55, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTCTCCACAATC
Found at i:1264904 original size:130 final size:130
Alignment explanation
Indices: 1264663--1264943 Score: 386
Period size: 130 Copynumber: 2.2 Consensus size: 130
1264653 ATTTCTCTTA
* * * * *
1264663 ATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACACCCATTTTCCATAATCGGGGATACTGC
1 ATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTCTCCACAATCGGGGATACTCC
* **
1264728 AACTCTGATTTTATTTCCAAAACACCGAATTTTCACAATCGGGGATACTCCAACCCCGTTATTTT
66 AACTCCGATTTTATTTCCAAAACACCGAATTTTCACAATCAAGGATACTCCAACCCCGTTA-TTT
1264793 C
130 C
* * * *
1264794 -TGGGGGATACTCTAACCCCGGTTTTATTTCTAAAACACCAATTCTCCACAATCGGGGATATTCC
1 ATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTCTCCACAATCGGGGATACTCC
* * *
1264858 AACTCCGATTTTATTTCCAAAATA-CTAATTTTTCGCAATCAAGGATACTCCAACCCCGTTATTT
66 AACTCCGATTTTATTTCCAAAACACCGAA-TTTTCACAATCAAGGATACTCCAACCCCGTTATTT
1264922 C
130 C
*
1264923 ATCGGGGATACTCCAATCCCG
1 ATCGGGGATACTCCAACCCCG
1264944 TTATTTTCGA
Statistics
Matches: 130, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
129 7 0.05
130 123 0.95
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (130 bp):
ATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTCTCCACAATCGGGGATACTCC
AACTCCGATTTTATTTCCAAAACACCGAATTTTCACAATCAAGGATACTCCAACCCCGTTATTTC
Found at i:1264943 original size:28 final size:27
Alignment explanation
Indices: 1264900--1264967 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 27
1264890 TCGCAATCAA
1264900 GGATACTCCAACCCCGTTA-TTTCATCGG
1 GGATACTCCAACCCCGTTATTTTCA--GG
*
1264928 GGATACTCCAATCCCGTTATTTTCGAGG
1 GGATACTCCAACCCCGTTATTTTC-AGG
1264956 GGATACTCCAAC
1 GGATACTCCAAC
1264968 TCCGATTGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
28 31 0.86
29 4 0.11
30 1 0.03
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (27 bp):
GGATACTCCAACCCCGTTATTTTCAGG
Found at i:1264966 original size:107 final size:106
Alignment explanation
Indices: 1264847--1265045 Score: 267
Period size: 107 Copynumber: 1.9 Consensus size: 106
1264837 CTCCACAATC
* * * * *
1264847 GGGGATATTCCAACTCCGATTTTATTTCCAAA-ATACTAATTTTTCGCAATCAAGGATACTCCAA
1 GGGGATACTCCAACTCCGATTGTATTTCCAAACAT-C-AATTTCTCACAATCAAGGACACTCCAA
*
1264911 CCCCGTTA-TTTCATCGGGGATACTCCAATCCCGTTATTTTCGA
64 CCCCGTTATTTTC-GCGGGGATACTCCAATCCCGTTATTTTCGA
**
1264954 GGGGATACTCCAACTCCGATTGTATTTCCAAAGCATCAATTTCTCACAATCGGGGACACTCCAAC
1 GGGGATACTCCAACTCCGATTGTATTTCCAAA-CATCAATTTCTCACAATCAAGGACACTCCAAC
*
1265019 CTCGTTATTTTCGCGGGGATACTCCAA
65 CCCGTTATTTTCGCGGGGATACTCCAA
1265046 CCTCGGCCTC
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
107 73 0.91
108 5 0.06
109 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.31
Consensus pattern (106 bp):
GGGGATACTCCAACTCCGATTGTATTTCCAAACATCAATTTCTCACAATCAAGGACACTCCAACC
CCGTTATTTTCGCGGGGATACTCCAATCCCGTTATTTTCGA
Found at i:1265060 original size:79 final size:79
Alignment explanation
Indices: 1264923--1265074 Score: 209
Period size: 79 Copynumber: 1.9 Consensus size: 79
1264913 CCGTTATTTC
* * *
1264923 ATCGGGGATACTCCAATCCCGTTATTTTCGAGGGGATACTCCAACTCCGATTGTATTTCCAAAGC
1 ATCGGGGACACTCCAATCCCGTTATTTTCGAGGGGATACTCCAACTCCGACTGCATTTCCAAAGC
1264988 ATCAATTTCTCACA
66 ATCAATTTCTCACA
* * * *
1265002 ATCGGGGACACTCCAA-CCTCGTTATTTTCGCGGGGATACTCCAACCTCGGCCT-CATTTCTAAA
1 ATCGGGGACACTCCAATCC-CGTTATTTTCGAGGGGATACTCCAA-CTCCGACTGCATTTCCAAA
1265065 GCATCAATTT
64 GCATCAATTT
1265075 TCTATAATCA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
78 2 0.03
79 57 0.89
80 5 0.08
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (79 bp):
ATCGGGGACACTCCAATCCCGTTATTTTCGAGGGGATACTCCAACTCCGACTGCATTTCCAAAGC
ATCAATTTCTCACA
Found at i:1269186 original size:22 final size:22
Alignment explanation
Indices: 1269161--1269206 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
1269151 CACCCACTGC
1269161 ATATGAACAAAGAGTAAAAGAA
1 ATATGAACAAAGAGTAAAAGAA
1269183 ATATGAACAAAGAGTAAAAGAA
1 ATATGAACAAAGAGTAAAAGAA
1269205 AT
1 AT
1269207 GGCTATAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.63, C:0.04, G:0.17, T:0.15
Consensus pattern (22 bp):
ATATGAACAAAGAGTAAAAGAA
Found at i:1270508 original size:11 final size:11
Alignment explanation
Indices: 1270481--1270509 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
1270471 TTTTTAAAGT
1270481 ATATTAAAAAA
1 ATATTAAAAAA
1270492 AT-TTAAAAAA
1 ATATTAAAAAA
1270502 ATATTAAA
1 ATATTAAA
1270510 TTAAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
ATATTAAAAAA
Found at i:1273149 original size:31 final size:31
Alignment explanation
Indices: 1273097--1273155 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
1273087 AATATATAAA
* *
1273097 TATGTTAAAATTTAATAAAATAAATTATCAT
1 TATGTAAAAAATTAATAAAATAAATTATCAT
*
1273128 TATGTAAAAAATT-ATATAAATAATTTAT
1 TATGTAAAAAATTAATA-AAATAAATTAT
1273156 AATATTTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 3 0.12
31 21 0.88
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (31 bp):
TATGTAAAAAATTAATAAAATAAATTATCAT
Found at i:1274823 original size:2 final size:2
Alignment explanation
Indices: 1274816--1274849 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
1274806 CACGAATCTT
1274816 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1274850 TTAGTGTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1277529 original size:8 final size:8
Alignment explanation
Indices: 1277472--1277530 Score: 50
Period size: 8 Copynumber: 7.2 Consensus size: 8
1277462 TTGTATCATA
1277472 TTTAT-TT
1 TTTATATT
1277479 TATTAT-TT
1 T-TTATATT
1277487 TTTATATT
1 TTTATATT
*
1277495 TATTAAATAT
1 T-TTATAT-T
*
1277505 GTTATATT
1 TTTATATT
*
1277513 CTTATATT
1 TTTATATT
1277521 TTTATATT
1 TTTATATT
1277529 TT
1 TT
1277531 GTTCAAAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
7 5 0.12
8 27 0.63
9 10 0.23
10 1 0.02
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (8 bp):
TTTATATT
Found at i:1279611 original size:14 final size:16
Alignment explanation
Indices: 1279570--1279617 Score: 64
Period size: 14 Copynumber: 3.1 Consensus size: 16
1279560 CCTTACTGAC
1279570 TTATCTCATTAAAACAT
1 TTATC-CATTAAAACAT
*
1279587 TTATTCATTAAAA-AT
1 TTATCCATTAAAACAT
1279602 TT-TCCATTAAAACAT
1 TTATCCATTAAAACAT
1279617 T
1 T
1279618 ACAAAATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 9 0.32
15 7 0.25
16 8 0.29
17 4 0.14
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.44
Consensus pattern (16 bp):
TTATCCATTAAAACAT
Found at i:1279721 original size:19 final size:18
Alignment explanation
Indices: 1279688--1279734 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
1279678 TATCTTTTAA
*
1279688 AATTTAATA-AAAATAAT
1 AATTAAATATAAAATAAT
1279705 ATATTAAATATAAAATAAT
1 A-ATTAAATATAAAATAAT
1279724 AATTAAA-ATAA
1 AATTAAATATAA
1279735 TTATTAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 5 0.19
18 13 0.48
19 9 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AATTAAATATAAAATAAT
Found at i:1279764 original size:17 final size:16
Alignment explanation
Indices: 1279744--1279786 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
1279734 ATTATTAATT
1279744 TAATTAATATTAATAAA
1 TAATTAATATTAAT-AA
1279761 TAATTAA-ATTTAATAA
1 TAATTAATA-TTAATAA
*
1279777 TATTTAATAT
1 TAATTAATAT
1279787 AAACTATCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TAATTAATATTAATAA
Found at i:1280698 original size:29 final size:29
Alignment explanation
Indices: 1280643--1280699 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
1280633 TTTATATTTT
* *
1280643 AAAATATATTTTATAATTGAGATTAAATA
1 AAAATATATTTTATAATTAAGAATAAATA
*
1280672 AAAATAT-TTTTATTAATTAATAATAAAT
1 AAAATATATTTTA-TAATTAAGAATAAAT
1280700 TCGTACTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (29 bp):
AAAATATATTTTATAATTAAGAATAAATA
Found at i:1284856 original size:22 final size:22
Alignment explanation
Indices: 1284828--1284882 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
1284818 TGGACATGTT
1284828 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
1284850 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
1284872 AAAAATGCATG
1 AAAAATGCATG
1284883 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:1285838 original size:20 final size:20
Alignment explanation
Indices: 1285791--1285865 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
1285781 AAAAAGACAT
*
1285791 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
1285810 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
1285831 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
1285851 AATGTATCGATACAT
1 AATGTATCGATACAT
1285866 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:1285859 original size:40 final size:39
Alignment explanation
Indices: 1285788--1285865 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1285778 GGTAAAAAGA
* *
1285788 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
1285827 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
1285866 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:1286576 original size:28 final size:28
Alignment explanation
Indices: 1286473--1288403 Score: 1390
Period size: 28 Copynumber: 67.5 Consensus size: 28
1286463 CACTGACACA
* **
1286473 TGTGGGCTTTGAAAAGAGTGTTACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* *
1286502 TGCATGGGCTTTAAAAGGGTGCCACTGACT
1 TG--TGGGCTTTGAAAGGATGCCACTGACT
1286532 TGCGTGGGCTTTGAAAGGATGCCACTGACT
1 T--GTGGGCTTTGAAAGGATGCCACTGACT
**
1286562 CATGGGCTTTGAAA-GAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
*
1286590 TGTGGGCTTTGAAAGG-TGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
1286617 CGTGGGCTTTGAAAAGG-TACCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
** *
1286645 CATGGGC-TTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
1286672 TGTGGGCTTTGAAA-GAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
*
1286700 CGTGGGCTTTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
1286728 TGCATGGGCTTTGAAAGGAGTGCCACTGACTT
1 TG--TGGGCTTTGAAAGGA-TGCCACTGAC-T
* *
1286760 GTGTGGGCTTTGAAAGGGTGCCACTAACT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
*
1286789 CGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
1286817 TGTGGGCTTTGAAA-GAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* *
1286845 CGTGGGCTTTGAAAAGG-TACCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* *
1286873 TGCGTGAGCTTTAAAAGGAGTGCCACTGACTT
1 T--GTGGGCTTTGAAAGGA-TGCCACTGAC-T
* *
1286905 GTGTGGGCTTTAAAAGGGTGCCACTGACT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
*
1286934 TGTGGGCTTTGAAA-GAGTGCCACTGAAT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
*
1286962 TGTGGG-TTTCGCAATGG-TGCCACTGACT
1 TGTGGGCTTT-G-AAAGGATGCCACTGACT
*
1286990 TGTGGGCTTCGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* * * *
1287018 TATGGGCTCTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
1287046 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
1287074 TGTGGGCTTTGAAAAGAGTGCCACTGATT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
1287103 TGTGGGCTTTGAAA-GAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
1287131 TGTGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
*
1287160 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
1287188 TGTGGGCTTTGAAAAGAGTGCCACTGATT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
*
1287217 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
1287246 TGTGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
*
1287275 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
1287303 TGTGGGCTTTGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
1287332 TGTGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* *
1287361 TGTGGGCTTTGAAAAGAGTGCCATTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
1287390 TGTGGGCTTTGAAAGGAGTGCCACTGACTT
1 TGTGGGCTTTGAAAGGA-TGCCACTGAC-T
1287420 GTGTGGGCTTTGAAAGGAGTGCCACTGACTT
1 -TGTGGGCTTTGAAAGGA-TGCCACTGAC-T
*
1287451 GTGTGGGCTTTGAAATGG-TGCCACCGACTT
1 -TGTGGGCTTTGAAA-GGATGCCACTGAC-T
* *
1287481 GTGTGGGCTTTGAAAAGGGTTGCCACCGACTT
1 -TGTGGGCTTTG-AAA-GGATGCCACTGAC-T
* * * *
1287513 GTGTGGGATTTGAAATGGGTTACCACCGACTT
1 -TGTGGGCTTTGAAA--GGATGCCACTGAC-T
* *
1287545 GTGTGGGCTTTGAAA-TAGTGCCACCGACTT
1 -TGTGGGCTTTGAAAGGA-TGCCACTGAC-T
1287575 GTGTGGGCTTTGAAATGG-TGCCACTGACT
1 -TGTGGGCTTTGAAA-GGATGCCACTGACT
* *
1287604 TGTGGGCTTTGAAAAGGGTTGCCACCGACT
1 TGTGGGCTTTG-AAA-GGATGCCACTGACT
* **
1287634 TGTGGGCTTTGAAAGAATGCCACCAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
1287662 TGTGTGGACTTTGAAAAGATGCCACTGACT
1 TGTG-GG-CTTTGAAAGGATGCCACTGACT
* *
1287692 TGTGGGCTTTGAAAAGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
1287720 TGTGGGCTTTGAAAAAGG-TGCCACTAACT
1 TGTGGGCTTTG--AAAGGATGCCACTGACT
* * *
1287749 TGTGGGCTTTAGAAGGGAATGCCACCGCCT
1 TGTGGGCTTT-GAAAGG-ATGCCACTGACT
* ** * *
1287779 TGTGGACTTAAAAAGGGTGCCAC-GAAGT
1 TGTGGGCTTTGAAAGGATGCCACTG-ACT
** * *
1287807 TGTGAAC-TTAAAAGGGATGCCACGGACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* * * * *
1287835 TAT-GGATTTAAAAGGGATGCCACGGAGT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* *** * *
1287863 TGTGGACTCAAAAAGGGTGCCA-TGGAGT
1 TGTGGGCTTTGAAAGGATGCCACT-GACT
* * * * *
1287891 TGTGGACTTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
1287919 TGTGGAC-TTAAAAGGGATGCCACGGAGT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* *** * * *
1287947 TGTGGACTCAAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * * *
1287975 TGTGGACTTTAAAAGGGTGCTACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
1288003 TGTGGAC-TTAAAAGGGATGCCACGGAGT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* *** * * *
1288031 TGTGGACTCAAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
1288059 TGTGGACTTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
1288087 TATGGAC-TTAAAAGGGATGCCACGGAGT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* *** * * *
1288115 TGTGGACTCAAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
1288143 TGTGGACTTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
1288171 TGTGGAC-TTAAAAGGGATGCCACGGAGT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* * * * *
1288199 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
1288226 TGTGGAC-TTAAAAGGGATGCCACGGAGT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* * * * *
1288254 TGTGGAC-TTAAAAGGGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * * *
1288281 TGTGGAC-TTAAAAGGGTGTCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
1288308 TGTGGAC-TTAAAATGGATGCCACGGAGT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* * * * *
1288336 TGTGGAC-TTAAAAGGGTGCCACGGAAT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
1288363 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
1288390 TGTGGACTTT-AAAG
1 TGTGGGCTTTGAAAG
1288404 AGGTCACAGT
Statistics
Matches: 1677, Mismatches: 152, Indels: 148
0.85 0.08 0.07
Matches are distributed among these distances:
26 5 0.00
27 207 0.12
28 787 0.47
29 310 0.18
30 196 0.12
31 112 0.07
32 57 0.03
33 3 0.00
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:1286590 original size:58 final size:56
Alignment explanation
Indices: 1286428--1287801 Score: 1439
Period size: 58 Copynumber: 23.6 Consensus size: 56
1286418 TTTAAAAATG
* * *
1286428 TGCCACT-AGCTTGTGTAGGCTTTGAAAAAAGTTGCCACTGACACATGTGGGCTTTGAAAAGA
1 TGCCACTGA-CTTGTG--GGCTTTG-AAAGAG-TGCCACTG--ACTTGTGGGCTTTGAAAGGA
** * *
1286490 GTGTTACTGACTTGCATGGGCTTTAAAAGGGTGCCACTGACTTGCGTGGGCTTTGAAAGGA
1 -TGCCACTGACTTG--TGGGCTTTGAAAGAGTGCCACTGACTT--GTGGGCTTTGAAAGGA
**
1286551 TGCCACTGACTCATGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG-
1 TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGA
* * * ** *
1286606 TGCCACTAACTCGTGGGCTTTGAAA-AGGTACCACTGACTCATGGGC-TTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGA-GTGCCACTGACTTGTGGGCTTTGAAAGGA
*
1286661 TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAAGG-
1 TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGA
*
1286717 TGCCACTGACTTGCATGGGCTTTGAAAGGAGTGCCACTGACTTGTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTG--TGGGCTTTGAAA-GAGTGCCACTGAC-T-TGTGGGCTTTGAAAGGA
* *
1286778 TGCCACTAACTCGTGGGCTTTGAAAG-GATGCCACTGACTTGTGGGCTTTGAAA-GA
1 TGCCACTGACTTGTGGGCTTTGAAAGAG-TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * *
1286833 GTGCCACTGACTCGTGGGCTTTGAAA-AGGTACCACTGACTTGCGTGAGCTTTAAAAGGA
1 -TGCCACTGACTTGTGGGCTTTGAAAGA-GTGCCACTGACTT--GTGGGCTTTGAAAGGA
* *
1286892 GTGCCACTGACTTGTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAA-GA
1 -TGCCACTGAC-T-TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
1286950 GTGCCACTGAATTGTGGG-TTTCGCAATG-GTGCCACTGACTTGTGGGCTTCGAAAAGG-
1 -TGCCACTGACTTGTGGGCTTT-G-AAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGA
* * * * *
1287007 TGCCACTGACTTATGGGCTCTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGA
*
1287063 TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAA-GA
1 TGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGA
*
1287119 GTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGG
1 -TGCCACTGACTTGTGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGCTTTGAAAGGA
* *
1287177 TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGA
*
1287234 GTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGG
1 -TGCCACTGACTTGTGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGCTTTGAAAGGA
*
1287292 TGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGA
*
1287349 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCATTGACTTGTGGGCTTTGAAAGGA
1 -TGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGA
1287407 GTGCCACTGACTTGTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGTGGGCTTTGAAATGG-
1 -TGCCACTGAC-T-TGTGGGCTTTGAAA-GAGTGCCACTGAC-T-TGTGGGCTTTGAAA-GGA
* * * * *
1287469 TGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGATTTGAAATGGGT
1 TGCCACTGAC-T-TGTGGGCTTTG-AAAGAG-TGCCACTGAC-T-TGTGGGCTTTGAAA--GGA
* * * *
1287533 TACCACCGACTTGTGTGGGCTTTGAAATAGTGCCACCGACTTGTGTGGGCTTTGAAATGG-
1 TGCCACTGAC-T-TGTGGGCTTTGAAAGAGTGCCACTGAC-T-TGTGGGCTTTGAAA-GGA
* * *
1287593 TGCCACTGACTTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGGGCTTTGAAAGAA
1 TGCCACTGACTTGTGGGCTTTG-AAAGAG-TGCCACTGACTTGTGGGCTTTGAAAGGA
** *
1287651 TGCCACCAACTTGTGTGGACTTTGAAA-AGATGCCACTGACTTGTGGGCTTTGAAAAGA
1 TGCCACTGACTTGTG-GG-CTTTGAAAGAG-TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * *
1287709 TGCCACTAACTTGTGGGCTTTGAAAAAGGTGCCACTAACTTGTGGGCTTTAGAAGGGAA
1 TGCCACTGACTTGTGGGCTTTGAAAGA-GTGCCACTGACTTGTGGGCTTT-GAAAGG-A
* * * ** *
1287768 TGCCACCGCCTTGTGGACTTAAAAAGGGTGCCAC
1 TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCAC
1287802 GAAGTTGTGA
Statistics
Matches: 1151, Mismatches: 99, Indels: 127
0.84 0.07 0.09
Matches are distributed among these distances:
54 9 0.01
55 91 0.08
56 178 0.15
57 222 0.19
58 285 0.25
59 87 0.08
60 62 0.05
61 96 0.08
62 72 0.06
63 23 0.02
64 24 0.02
65 2 0.00
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.28
Consensus pattern (56 bp):
TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGA
Found at i:1287099 original size:29 final size:29
Alignment explanation
Indices: 1286427--1287758 Score: 1524
Period size: 28 Copynumber: 45.8 Consensus size: 29
1286417 TTTTAAAAAT
*
1286427 GTGCCACT-AGCTTGTGTAGGCTTTGAAAAAA
1 GTGCCACTGA-CTTGTG--GGCTTTGAAAAGA
*
1286458 GTTGCCACTGACACATGTGGGCTTTGAAAAGA
1 G-TGCCACTG--ACTTGTGGGCTTTGAAAAGA
** *
1286490 GTGTTACTGACTTGCATGGGCTTT-AAAAGG
1 GTGCCACTGACTTG--TGGGCTTTGAAAAGA
*
1286520 GTGCCACTGACTTGCGTGGGCTTTGAAAGGA
1 GTGCCACTGACTT--GTGGGCTTTGAAAAGA
**
1286551 -TGCCACTGACTCATGGGCTTTG-AAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1286578 GTGCCACTGACTTGTGGGCTTTG-AAAG-
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
1286605 GTGCCACTAACTCGTGGGCTTTGAAAAG-
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* ** *
1286633 GTACCACTGACTCATGGGC-TTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1286660 GTGCCACTGACTTGTGGGCTTTG-AAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
1286688 GTGCCACTGACTCGTGGGCTTTGAAAAG-
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
1286716 GTGCCACTGACTTGCATGGGCTTTGAAAGGA
1 GTGCCACTGACTTG--TGGGCTTTGAAAAGA
*
1286747 GTGCCACTGACTTGTGTGGGCTTTG-AAAGG
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAAGA
* * *
1286777 GTGCCACTAACTCGTGGGCTTTGAAAGGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1286806 -TGCCACTGACTTGTGGGCTTTG-AAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
1286833 GTGCCACTGACTCGTGGGCTTTGAAAAG-
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
1286861 GTACCACTGACTTGCGTGAGCTTT-AAAAGGA
1 GTGCCACTGACTT--GTGGGCTTTGAAAA-GA
*
1286892 GTGCCACTGACTTGTGTGGGCTTT-AAAAGG
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAAGA
1286922 GTGCCACTGACTTGTGGGCTTTG-AAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
1286950 GTGCCACTGAATTGTGGG-TTTCGCAATG-
1 GTGCCACTGACTTGTGGGCTTT-GAAAAGA
*
1286978 GTGCCACTGACTTGTGGGCTTCGAAAAG-
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
1287006 GTGCCACTGACTTATGGGCTCTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
1287034 GTGCCACTAACTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1287062 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
1287091 GTGCCACTGATTTGTGGGCTTTG-AAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
1287119 GTGCCACTGACTTGTGGGCTTTGAAAGGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
1287148 GTGCCACTGACTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1287176 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
1287205 GTGCCACTGATTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
1287234 GTGCCACTGACTTGTGGGCTTTGAAAGGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
1287263 GTGCCACTGACTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
1287291 GTGCCACTGACTTGTGGGCTTTGAAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
1287320 GTGCCACTGACTTGTGGGCTTTGAAAGGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1287349 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
1287378 GTGCCATTGACTTGTGGGCTTTGAAAGGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
1287407 GTGCCACTGACTTGTGTGGGCTTTGAAAGGA
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAAGA
*
1287438 GTGCCACTGACTTGTGTGGGCTTTGAAATG-
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAAGA
* *
1287468 GTGCCACCGACTTGTGTGGGCTTTGAAAAGG
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAAGA
* * * *
1287499 GTTGCCACCGACTTGTGTGGGATTTGAAATGG
1 G-TGCCACTGAC-T-TGTGGGCTTTGAAAAGA
* * *
1287531 GTTACCACCGACTTGTGTGGGCTTTG-AAATA
1 G-TGCCACTGAC-T-TGTGGGCTTTGAAAAGA
* *
1287562 GTGCCACCGACTTGTGTGGGCTTTGAAATG-
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAAGA
*
1287592 GTGCCACTGACTTGTGGGCTTTGAAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
1287621 GTTGCCACCGACTTGTGGGCTTTG-AAAGA
1 G-TGCCACTGACTTGTGGGCTTTGAAAAGA
* **
1287650 ATGCCACCAACTTGTGTGGACTTTGAAAAGA
1 GTGCCACTGACTTGTG-GG-CTTTGAAAAGA
1287681 -TGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
1287709 -TGCCACTAACTTGTGGGCTTTGAAAA-A
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
1287736 GGTGCCACTAACTTGTGGGCTTT
1 -GTGCCACTGACTTGTGGGCTTT
1287759 AGAAGGGAAT
Statistics
Matches: 1155, Mismatches: 97, Indels: 100
0.85 0.07 0.07
Matches are distributed among these distances:
26 4 0.00
27 56 0.05
28 421 0.36
29 289 0.25
30 183 0.16
31 118 0.10
32 75 0.06
33 3 0.00
34 5 0.00
35 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (29 bp):
GTGCCACTGACTTGTGGGCTTTGAAAAGA
Found at i:1295899 original size:22 final size:23
Alignment explanation
Indices: 1295871--1295926 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
1295861 TAGACATGTT
1295871 AAAAATGCATGAAACATAAT-AA
1 AAAAATGCATGAAACATAATAAA
1295893 AAAAATGCATGAAACATAATAAA
1 AAAAATGCATGAAACATAATAAA
1295916 AAAAATGCATG
1 AAAAATGCATG
1295927 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 20 0.61
23 13 0.39
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (23 bp):
AAAAATGCATGAAACATAATAAA
Found at i:1296867 original size:20 final size:20
Alignment explanation
Indices: 1296838--1296912 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
1296828 AAAAAGACAT
1296838 AATGTATCGATACATT-ATA
1 AATGTATCGATACATTCATA
*
1296857 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
1296878 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
1296898 AATGTATCGATACAT
1 AATGTATCGATACAT
1296913 CAAGGTAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 43 0.93
21 3 0.07
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:1296906 original size:40 final size:39
Alignment explanation
Indices: 1296835--1296912 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 39
1296825 GGTAAAAAGA
*
1296835 CATAATGTATCGATACATTATAGAATATATCGATACATT
1 CATAATGTATCGATACATTATAAAATATATCGATACATT
* *
1296874 CATACATGTATCGATATATTGA-AAAATGTATCGATACAT
1 CATA-ATGTATCGATACATT-ATAAAATATATCGATACAT
1296913 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 4 0.12
40 29 0.85
41 1 0.03
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTATAAAATATATCGATACATT
Found at i:1297492 original size:14 final size:14
Alignment explanation
Indices: 1297473--1297509 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
1297463 TAGTTTAATT
1297473 ATTTTATATTTTAA
1 ATTTTATATTTTAA
1297487 ATTTTATA-TTTAA
1 ATTTTATATTTTAA
*
1297500 TTTTTA-ATTT
1 ATTTTATATTT
1297510 AAGTTAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 1 0.05
13 12 0.57
14 8 0.38
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
ATTTTATATTTTAA
Found at i:1297493 original size:19 final size:19
Alignment explanation
Indices: 1297471--1297509 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1297461 ATTAGTTTAA
1297471 TTAT-TTTATATTTTAAATT
1 TTATATTTA-ATTTTAAATT
*
1297490 TTATATTTAATTTTTAATT
1 TTATATTTAATTTTAAATT
1297509 T
1 T
1297510 AAGTTAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTATATTTAATTTTAAATT
Found at i:1298154 original size:3 final size:3
Alignment explanation
Indices: 1298136--1298187 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
1298126 AGAAAAGTCG
* *
1298136 ATA ATG ATA CTA ATA ATA ATA ATA A-A ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1298183 ATA AT
1 ATA AT
1298188 GAGGGTAAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1298348 original size:32 final size:32
Alignment explanation
Indices: 1298295--1298364 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
1298285 AAAAATTAAA
*
1298295 AATTTAAACTCGTAAAAATTTGAATTTAAAAT
1 AATTTAAACTCGTAAAAATTTGAACTTAAAAT
* * *
1298327 AATTTAAATTCG-AAATTATTTGAACTTGAAAT
1 AATTTAAACTCGTAAA-AATTTGAACTTAAAAT
*
1298359 GATTTA
1 AATTTA
1298365 GATTTTAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 3 0.09
32 29 0.91
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.40
Consensus pattern (32 bp):
AATTTAAACTCGTAAAAATTTGAACTTAAAAT
Found at i:1298618 original size:169 final size:169
Alignment explanation
Indices: 1298339--1298669 Score: 547
Period size: 169 Copynumber: 2.0 Consensus size: 169
1298329 TTTAAATTCG
* * * *
1298339 AAATTATTTGAACTTGAAATGATTTAGATTTTAAATGAGTTAAATTTAAATTGATCCAAACTTAG
1 AAATTATTTAAACTCGAAATGATTTAGATTTTAAATGAATTAAATTTAAATTGATCCAAACTCAG
*
1298404 AATGACTCAACTTAGGACTAACTCGATTATAAATTTGTAGTAACCTAAATTCAATAATAAAATAA
66 AATGACTCAACTTAGGACTAACTCGATTATAAATCTGTAGTAACCTAAATTCAATAATAAAATAA
*
1298469 AAACAATTAAATTTGTAATTAAATAATTTTTTGAACTCA
131 AAACAATTAAATTTATAATTAAATAATTTTTTGAACTCA
*
1298508 AAATTATTTAAACTCGAAATGATTTGGATTTTAAATGAATTAAATTTAAATTGATCCAAACTCAG
1 AAATTATTTAAACTCGAAATGATTTAGATTTTAAATGAATTAAATTTAAATTGATCCAAACTCAG
* *
1298573 AATGACTCAACTT-GAGACTAATTCGATTATAAATCTGTAGTAACCTGAATTCAATAATAAAATA
66 AATGACTCAACTTAG-GACTAACTCGATTATAAATCTGTAGTAACCTAAATTCAATAATAAAATA
* *
1298637 AAAATAATTGAATTTATAATTAAATAATTTTTT
130 AAAACAATTAAATTTATAATTAAATAATTTTTT
1298670 CCCTAAAATA
Statistics
Matches: 150, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
168 1 0.01
169 149 0.99
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.37
Consensus pattern (169 bp):
AAATTATTTAAACTCGAAATGATTTAGATTTTAAATGAATTAAATTTAAATTGATCCAAACTCAG
AATGACTCAACTTAGGACTAACTCGATTATAAATCTGTAGTAACCTAAATTCAATAATAAAATAA
AAACAATTAAATTTATAATTAAATAATTTTTTGAACTCA
Found at i:1298800 original size:14 final size:15
Alignment explanation
Indices: 1298781--1298809 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1298771 ATTTTTTATC
1298781 ATTACTA-TTAAATA
1 ATTACTATTTAAATA
1298795 ATTACTATTTAAATA
1 ATTACTATTTAAATA
1298810 GTAAATTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTACTATTTAAATA
Found at i:1299420 original size:20 final size:20
Alignment explanation
Indices: 1299391--1299497 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
1299381 TTTACCCAGA
*
1299391 TGTATCGATACATT-TTGCAT
1 TGTATCGATACATTGCT-CAT
*
1299411 TGTATTGATACATTGCTCAT
1 TGTATCGATACATTGCTCAT
1299431 TGTATCGAT--A-----CAT
1 TGTATCGATACATTGCTCAT
1299444 TGTATCGATACATTGCTCAT
1 TGTATCGATACATTGCTCAT
* * *
1299464 TGTATTGATACATT-TTACAA
1 TGTATCGATACATTGCT-CAT
1299484 TGTATCGATACATT
1 TGTATCGATACATT
1299498 CAGGCATTTT
Statistics
Matches: 71, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
13 12 0.17
15 1 0.01
18 1 0.01
19 1 0.01
20 55 0.77
21 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTGCTCAT
Found at i:1299454 original size:33 final size:33
Alignment explanation
Indices: 1299408--1299477 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
1299398 ATACATTTTG
*
1299408 CATTGTATTGATACATTGCTCATTGTATCGATA
1 CATTGTATCGATACATTGCTCATTGTATCGATA
*
1299441 CATTGTATCGATACATTGCTCATTGTATTGATA
1 CATTGTATCGATACATTGCTCATTGTATCGATA
1299474 CATT
1 CATT
1299478 TTACAATGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (33 bp):
CATTGTATCGATACATTGCTCATTGTATCGATA
Found at i:1299465 original size:53 final size:53
Alignment explanation
Indices: 1299391--1299497 Score: 155
Period size: 53 Copynumber: 2.0 Consensus size: 53
1299381 TTTACCCAGA
* *
1299391 TGTATCGATACATTTTGCATTGTATTGATACATTGCT-CATTGTATCGATACAT
1 TGTATCGATACATTCTGCATTGTATTGATACATT-CTACAATGTATCGATACAT
*
1299444 TGTATCGATACATTGCT-CATTGTATTGATACATTTTACAATGTATCGATACAT
1 TGTATCGATACATT-CTGCATTGTATTGATACATTCTACAATGTATCGATACAT
1299497 T
1 T
1299498 CAGGCATTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
52 1 0.02
53 47 0.96
54 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (53 bp):
TGTATCGATACATTCTGCATTGTATTGATACATTCTACAATGTATCGATACAT
Found at i:1299477 original size:13 final size:13
Alignment explanation
Indices: 1299428--1299458 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
1299418 ATACATTGCT
1299428 CATTGTATCGATA
1 CATTGTATCGATA
1299441 CATTGTATCGATA
1 CATTGTATCGATA
1299454 CATTG
1 CATTG
1299459 CTCATTGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:1301876 original size:51 final size:51
Alignment explanation
Indices: 1301800--1301949 Score: 158
Period size: 51 Copynumber: 2.9 Consensus size: 51
1301790 TTCATCTCAG
* * **
1301800 GGATACTCCAA-TCCCGGTTTCATTTCCAAAACATCAATTTTTCTTAATCAA
1 GGATACTCCAACT-CCGATTTTATTTCCAAAACATCAATTTTTCGCAATCAA
* * * ** **
1301851 GGATACTCCAACTCCGATTTTATTTCTAAAGCATCGATTTACCGCAATCGG
1 GGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCGCAATCAA
* * *
1301902 GGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTTCACAAT
1 GGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCGCAAT
1301950 TGGGATATTC
Statistics
Matches: 79, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
51 78 0.99
52 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (51 bp):
GGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCGCAATCAA
Found at i:1302191 original size:79 final size:78
Alignment explanation
Indices: 1302095--1302364 Score: 267
Period size: 79 Copynumber: 3.4 Consensus size: 78
1302085 AAAACACAAA
* **
1302095 TTTCTCACAATCGGGGATACTCCAACCCCGTCATTTCTGCGAGGATACTCCAACCCCGACCTTA-
1 TTTC-CACAATCGGGGATACTCCAACCCCGTTATTTCTGCGAGGATACTCCAACCCCGATTTTAT
1302159 TTTCTAAACCATTGAT
65 TTTC-AAA-CATTGAT
* *
1302175 TTTCCACAATCGGGGATACTCCAACCCCGTTATTT-T-CGAGGGGATACTCTAAACCCGATTTTA
1 TTTCCACAATCGGGGATACTCCAACCCCGTTATTTCTGCGA--GGATACTCCAACCCCGATTTTA
* **
1302238 TTTTCAAAACGTCAAT
64 TTTTC-AAACATTGAT
* * * * * * *
1302254 TTTCTATAATCAGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATT
1 TTTCCACAATCGGGGATACTCCAACCCCGTTATTTCTGCGAGGATACTCCAACCCCGATTTTATT
* *
1302319 TTCAGAATACTGAT
66 TTCA-AACATTGAT
* * *
1302333 TTTCCATAATCAGGGAATACTCCAGCCCCGTT
1 TTTCCACAATC-GGGGATACTCCAACCCCGTT
1302365 GTCATCTCCA
Statistics
Matches: 155, Mismatches: 28, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
77 3 0.02
78 2 0.01
79 122 0.79
80 27 0.17
81 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (78 bp):
TTTCCACAATCGGGGATACTCCAACCCCGTTATTTCTGCGAGGATACTCCAACCCCGATTTTATT
TTCAAACATTGAT
Found at i:1302233 original size:158 final size:159
Alignment explanation
Indices: 1302056--1302364 Score: 392
Period size: 158 Copynumber: 1.9 Consensus size: 159
1302046 TTCCATAATC
** *
1302056 GGGGATACTCTAATTCCGATCTTATTTTCAAAAC-ACAAATTTCTCACAATCGGGGATACTCCAA
1 GGGGATACTCTAAACCCGATCTTATTTTCAAAACGACAAATTTCT-ACAATCAGGGATACTCCAA
* * *
1302120 CCCCGTCATTTCTGCGAGGATACTCCAACCCCGACCTTA-TTTCTA-AACCATTGATTTTCCACA
65 CCCCGTCATTTCCGAGAGGATACTCCAACCCCGACCTTATTTTC-AGAA-CACTGATTTTCCACA
*
1302183 ATC-GGGGATACTCCAACCCCGTTATTTTCGA
128 ATCAGGGAATACTCCAACCCCGTTATTTTCGA
* * * *
1302214 GGGGATACTCTAAACCCGATTTTATTTTCAAAACGTCAATTTTCTATAATCAGGGATACTCCAAC
1 GGGGATACTCTAAACCCGATCTTATTTTCAAAACGACAAATTTCTACAATCAGGGATACTCCAAC
* * * ** * *
1302279 CCTGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTTCAGAATACTGATTTTCCATAATC
66 CCCGTCATTTCCGAGAGGATACTCCAACCCCGACCTTATTTTCAGAACACTGATTTTCCACAATC
*
1302344 AGGGAATACTCCAGCCCCGTT
131 AGGGAATACTCCAACCCCGTT
1302365 GTCATCTCCA
Statistics
Matches: 128, Mismatches: 19, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
158 96 0.75
159 32 0.25
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.31
Consensus pattern (159 bp):
GGGGATACTCTAAACCCGATCTTATTTTCAAAACGACAAATTTCTACAATCAGGGATACTCCAAC
CCCGTCATTTCCGAGAGGATACTCCAACCCCGACCTTATTTTCAGAACACTGATTTTCCACAATC
AGGGAATACTCCAACCCCGTTATTTTCGA
Found at i:1311518 original size:28 final size:28
Alignment explanation
Indices: 1311486--1311557 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
1311476 TCACAATTGA
*
1311486 GGATACTCCAACCCCGTTA-TTTCATCGG
1 GGATACTCCAACCCCGTTATTTTCA-AGG
*
1311514 GGATACTCCAACCCTGTTATTTTCAAGG
1 GGATACTCCAACCCCGTTATTTTCAAGG
* *
1311542 GGGTAATCCAACCCCG
1 GGATACTCCAACCCCG
1311558 GCTTTATATC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
28 33 0.87
29 5 0.13
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTATTTTCAAGG
Found at i:1311630 original size:28 final size:28
Alignment explanation
Indices: 1311589--1311667 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 28
1311579 ATTTCTTTCA
* *
1311589 TAATCTGGGGTACTTCAACCCCGTTATT
1 TAATCAGGGATACTTCAACCCCGTTATT
* * *
1311617 TAATCAGGGATACTCCAATCCTGTTATT
1 TAATCAGGGATACTTCAACCCCGTTATT
****
1311645 TCCGAAGGGATACTTCAACCCCG
1 TAATCAGGGATACTTCAACCCCG
1311668 ATTTTATTTC
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (28 bp):
TAATCAGGGATACTTCAACCCCGTTATT
Found at i:1311694 original size:110 final size:110
Alignment explanation
Indices: 1311433--1311691 Score: 278
Period size: 110 Copynumber: 2.4 Consensus size: 110
1311423 TACCGCAATC
* * * *
1311433 GGGGATACTTCAACTCTGATTTTATTT-TCAAAACACCAA-TT-TTTCACAATTGAGGATACTCC
1 GGGGATACTTCAACCCCGATTTTATTTCTAAAAATACCAATTTCTTTCACAATTGAGGATACTCC
* * *
1311495 AACCCCGTTATTTCATCGGGGATACTCCAACCCTGTTATTTTCAA
66 AACCCCGTTATTTAATCAGGGATACTCCAACCCTGTTATTTCCAA
* * * ** * *** * * *
1311540 GGGGGTAATCCAACCCCGGCTTTATATCTAAAAATATTGATTTCTTTCATAATCTG-GGGTACTT
1 GGGGATACTTCAACCCCGATTTTATTTCTAAAAATACCAATTTCTTTCACAAT-TGAGGATACTC
*
1311604 CAACCCCGTTATTTAATCAGGGATACTCCAATCCTGTTATTTCCGAA
65 CAACCCCGTTATTTAATCAGGGATACTCCAACCCTGTTATTTCC-AA
1311651 -GGGATACTTCAACCCCGATTTTATTTCT-AAAATACCAATTT
1 GGGGATACTTCAACCCCGATTTTATTTCTAAAAATACCAATTT
1311692 TCTATAATCG
Statistics
Matches: 118, Mismatches: 29, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
107 19 0.16
108 7 0.06
109 12 0.10
110 76 0.64
111 4 0.03
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (110 bp):
GGGGATACTTCAACCCCGATTTTATTTCTAAAAATACCAATTTCTTTCACAATTGAGGATACTCC
AACCCCGTTATTTAATCAGGGATACTCCAACCCTGTTATTTCCAA
Found at i:1311787 original size:79 final size:78
Alignment explanation
Indices: 1311701--1311922 Score: 264
Period size: 79 Copynumber: 2.8 Consensus size: 78
1311691 TTCTATAATC
* * * * * * * *
1311701 GGAGATACTCAAACTCTAATCTTATTTCCAAAACACCAATTTCTCACAATCGGGGATACTCTAAC
1 GGAGATACTCCAACCCCAATTTTATTTTCAAAATACCAATTT-TCATAATCGGGGATACTCCAAC
*
1311766 CCCGTTATTTTCGA
65 CCCGTTATTTCCGA
* * * *
1311780 GGGGATACTCCAACCCCGATTTTATTTTCAAAATGCCAATTTTCTATAATCAGGGATACTCCAAC
1 GGAGATACTCCAACCCCAATTTTATTTTCAAAATACCAATTTTC-ATAATCGGGGATACTCCAAC
*
1311845 CCTGTTATTTCCGA
65 CCCGTTATTTCCGA
* *
1311859 GGAGATACTCCAACCCCAATTTTATTTTCAGAATACCGATTTTTCATAATCAGGGGATACTCCA
1 GGAGATACTCCAACCCCAATTTTATTTTCAAAATACC-AATTTTCATAATC-GGGGATACTCCA
1311923 GCCTCGTTGT
Statistics
Matches: 120, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
78 2 0.02
79 101 0.84
80 17 0.14
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (78 bp):
GGAGATACTCCAACCCCAATTTTATTTTCAAAATACCAATTTTCATAATCGGGGATACTCCAACC
CCGTTATTTCCGA
Found at i:1316089 original size:29 final size:29
Alignment explanation
Indices: 1316040--1316098 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
1316030 AATTAAAAGG
1316040 AAACAAAAAATTTAAAAGAAATTAAATGAA
1 AAACAAAAAATTTAAAAGAAA-TAAATGAA
* * *
1316070 AAACCAAAAATTT-AAGGAAATGAATGAA
1 AAACAAAAAATTTAAAAGAAATAAATGAA
1316098 A
1 A
1316099 GGTTTAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 8 0.31
29 6 0.23
30 12 0.46
ACGTcount: A:0.66, C:0.05, G:0.10, T:0.19
Consensus pattern (29 bp):
AAACAAAAAATTTAAAAGAAATAAATGAA
Found at i:1318636 original size:22 final size:22
Alignment explanation
Indices: 1318611--1318652 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
1318601 ATAAAATCAT
1318611 AATTTAAAA-TTATTTAAATTAA
1 AATTTAAAATTTA-TTAAATTAA
*
1318633 AATTTTAAATTTATTAAATT
1 AATTTAAAATTTATTAAATT
1318653 TTATCTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATTTAAAATTTATTAAATTAA
Found at i:1319049 original size:114 final size:113
Alignment explanation
Indices: 1318844--1319186 Score: 533
Period size: 114 Copynumber: 3.0 Consensus size: 113
1318834 TTAAACGAAC
* * * * * *
1318844 TTATTTTTCCTTTTTCTTTCGTTCTCTTCTTTTAAGCATTGGCATGCTGGAATCAGCAAAGTACC
1 TTATTCTTCCTTCTTCTTTCATTCTCTTCTCTGAAGCA-TGGTATGCTGGAATCAGCAAAGTACC
** * *
1318909 CGCACCTGGTATGTATTCGGTACGAGTACACGTTGGGTACATCTAGGTA
65 CATACCTGGTATGTATTCGGTTCGAGTACACGTTGGGTACATCTAGATA
*
1318958 TTATTCTTCCTTCTTCTTTCATTCACTTCTCTGAAGCATGGTTATGCTGGAATCAGCAAAGTACC
1 TTATTCTTCCTTCTTCTTTCATTCTCTTCTCTGAAGCATGG-TATGCTGGAATCAGCAAAGTACC
* *
1319023 CATATCTGGTATGTATTCGGTTCGAGTACACGTTGGGTACTTCTAGATA
65 CATACCTGGTATGTATTCGGTTCGAGTACACGTTGGGTACATCTAGATA
*
1319072 TTATTCTTCCTTCTTCTTTCATTCTCTTCTCTGAAGCATGGGTATGCTGGAATCTGCAAAGTACC
1 TTATTCTTCCTTCTTCTTTCATTCTCTTCTCTGAAGCAT-GGTATGCTGGAATCAGCAAAGTACC
1319137 CATACCTGGTATGTATTCGGTTCGAGTACACGTTGGGTACATCTAGATA
65 CATACCTGGTATGTATTCGGTTCGAGTACACGTTGGGTACATCTAGATA
1319186 T
1 T
1319187 GTACTAGGTA
Statistics
Matches: 210, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
113 3 0.01
114 205 0.98
115 2 0.01
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.38
Consensus pattern (113 bp):
TTATTCTTCCTTCTTCTTTCATTCTCTTCTCTGAAGCATGGTATGCTGGAATCAGCAAAGTACCC
ATACCTGGTATGTATTCGGTTCGAGTACACGTTGGGTACATCTAGATA
Found at i:1320248 original size:16 final size:15
Alignment explanation
Indices: 1320197--1320250 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 15
1320187 TCAACCGATT
*
1320197 CGAAATGATCCGAAC
1 CGAAATGATCCAAAC
* *
1320212 CTAAAATGATCTAAAC
1 C-GAAATGATCCAAAC
1320228 TCGAAATGATCCAAATC
1 -CGAAATGATCCAAA-C
1320245 CGAAAT
1 CGAAAT
1320251 AATCTGAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
15 1 0.03
16 28 0.90
17 2 0.06
ACGTcount: A:0.44, C:0.22, G:0.13, T:0.20
Consensus pattern (15 bp):
CGAAATGATCCAAAC
Found at i:1322458 original size:13 final size:13
Alignment explanation
Indices: 1322440--1322465 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1322430 CAATTTTTTG
1322440 TGTATCGATACAT
1 TGTATCGATACAT
1322453 TGTATCGATACAT
1 TGTATCGATACAT
1322466 ACTTGGTGTA
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:1322480 original size:32 final size:33
Alignment explanation
Indices: 1322420--1322483 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1322410 TACAAGCCAA
** *
1322420 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
1322453 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
1322484 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:1330413 original size:13 final size:13
Alignment explanation
Indices: 1330395--1330420 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1330385 CAATTTTTTG
1330395 TGTATCGATACAT
1 TGTATCGATACAT
1330408 TGTATCGATACAT
1 TGTATCGATACAT
1330421 ACTTGGTGTA
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:1330435 original size:32 final size:33
Alignment explanation
Indices: 1330375--1330436 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
1330365 TACAAGCCAA
** *
1330375 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
1330408 TGTATCGATAC-ATACTTGGTGTATCGATA
1 TGTATCGATACAATACTTGGTGTATCGATA
1330437 TAAGTTTGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 15 0.58
33 11 0.42
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:1332126 original size:166 final size:165
Alignment explanation
Indices: 1331801--1332521 Score: 677
Period size: 166 Copynumber: 4.4 Consensus size: 165
1331791 AAAATTCTTC
* * * *
1331801 AAATATTA-CAATTTATTTCATATTAAATCA-TATCTCAAAAACTAATTCATTTTCATGAATCTT
1 AAATATTATC-ATTTATTTCATATTAAATCAGT-TTTCAAAAATTAATTAATTTTCATGAGT-TT
* * * * * ***
1331864 TGAA-TTTTTTCTTGGAAATTTCTCTTTTTTTAAAATACGATATTTTATATTTTGTAAATTTTTT
63 TTAATTTTTTTCTT-GAAACTTC-CTTTTTTTGAAATACGATATTTTCTACTCCATAAATTTTTT
* * * *
1331928 TGAAGGGATTTTTCTGGGTTTTAAATTTTTAAATTTCATT
126 CGAGGGGATTTTTCTTGGTTTTTAATTTTTAAATTTCATT
*
1331968 AAATATTATCATTTATTTCATATTAAATCAGTTTTCAAAAATTAGTTAATTTTCATGAGTTTTTA
1 AAATATTATCATTTATTTCATATTAAATCAGTTTTCAAAAATTAATTAATTTTCATGAGTTTTTA
* *
1332033 ATTTTTTTCCTTGAACCTTCCTTTTTTTGAAATACAATATTTTCTACTCCATAAATTTTTTCGAG
66 ATTTTTTT-CTTGAAACTTCCTTTTTTTGAAATACGATATTTTCTACTCCATAAATTTTTTCGAG
* **
1332098 GGGATTTTTTTTATTTTTTAATTTTTAAATTTCATT
130 GGGATTTTTCTTGGTTTTTAATTTTTAAATTTCATT
* * * *
1332134 AAATATTATCATTTATTTTAAATTAAAAT-AGTTTTTAAAAATTAATTTATTTTCATGAGTTTTT
1 AAATATTATCATTTATTTCATATT-AAATCAGTTTTCAAAAATTAATTAATTTTCATGAGTTTTT
* * * * ** **
1332198 GATTTTTTTCCTTGAAAC-TCTTTTTTTCCCTGAAATACGGTGTTTTCTAAACTGTAAATTTTTT
65 AATTTTTTT-CTTGAAACTTCCTTTTTT---TGAAATACGATATTTTCTACTCCATAAATTTTTT
* * *
1332262 CGAGAGGATTTTTCTTTGTTTTTAA-TTTTAAAGTTTCATC
126 CGAGGGGATTTTTCTTGGTTTTTAATTTTTAAA-TTTCATT
* * *
1332302 AAATATTATCATTTATTTAATATTAAATCATTTTTC----A--AA--AA-TTT-ATGAGTTTTTG
1 AAATATTATCATTTATTTCATATTAAATCAGTTTTCAAAAATTAATTAATTTTCATGAGTTTTTA
* * * * *
1332357 ATTTTTTTCGTGAAACACCTT-TTTTTTTTGAAATACGGTGTTTTCTACTCCATAAATTTTTTTG
66 ATTTTTTTCTTG-AA-A-CTTCCTTTTTTTGAAATACGATATTTTCTACTCCATAAATTTTTTCG
* * *
1332421 AGGGGATTTTTCTCGGTTTTCAATTTTTAAATTTCATA
128 AGGGGATTTTTCTTGGTTTTTAATTTTTAAATTTCATT
* * * * * **
1332459 AAACATCATTATTTGA-TTCATATTAAATCATTTTTAAAAAATTAATCCATTTTCATGAGTTTT
1 AAATATTATCATTT-ATTTCATATTAAATCAGTTTTCAAAAATTAATTAATTTTCATGAGTTTT
1332522 GGATTTTTGT
Statistics
Matches: 464, Mismatches: 64, Indels: 52
0.80 0.11 0.09
Matches are distributed among these distances:
157 88 0.19
158 29 0.06
159 4 0.01
160 9 0.02
161 2 0.00
162 2 0.00
163 2 0.00
164 1 0.00
165 9 0.02
166 145 0.31
167 87 0.19
168 86 0.19
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (165 bp):
AAATATTATCATTTATTTCATATTAAATCAGTTTTCAAAAATTAATTAATTTTCATGAGTTTTTA
ATTTTTTTCTTGAAACTTCCTTTTTTTGAAATACGATATTTTCTACTCCATAAATTTTTTCGAGG
GGATTTTTCTTGGTTTTTAATTTTTAAATTTCATT
Found at i:1332501 original size:325 final size:329
Alignment explanation
Indices: 1331916--1332529 Score: 775
Period size: 325 Copynumber: 1.9 Consensus size: 329
1331906 TTTTATATTT
* *
1331916 TGTAAATTTTTTTGAAGGGATTTTTCTGGGTTTTAAATTTTTAAATTTCATTAAATATTATCATT
1 TGTAAATTTTTTCGAAGGGATTTTTCTGGGTTTTAAATTTTTAAATTTCATCAAATATTATCATT
* *
1331981 TATTTCATATTAAATCAGTTTTCAAAAATTAGTTAATTTTCATGAGTTTTTAATTTTTTTCCTTG
66 TATTTAATATTAAATCAGTTTTC--AAA-TA--TAATTTTCATGAGTTTTTAATTTTTTTCCGTG
* *
1332046 AACCTTCCTTTTTTTGAAATACAATATTTTCTACTCCATAAATTTTTTCGAGGGGATTTTTTTTA
126 AACCTTCCTTTTTTTGAAATACAATATTTTCTACTCCATAAATTTTTTCGAGGGGATTTTTCTCA
* * * * * *
1332111 TTTTTTAATTTTTAAATTTCATTAAATATTATCATTTATTTTAAATTAAAATAGTTTTTAAAAAT
191 GTTTTCAATTTTTAAATTTCATAAAACATCATCATTTATTTCAAATTAAAATAGTTTTTAAAAAT
** *
1332176 TAATTTATTTTCATGAGTTTTTGATTTTTTTCCTTGAAACTCTTTTTTTCCCTGAAATACGGTGT
256 TAATCCATTTTCATGAGTTTTGGATTTTTTTCCTTGAAACTCTTTTTTTCCCTGAAATACGGTGT
1332241 TTTCTAAAC
321 TTTCTAAAC
** *
1332250 TGTAAATTTTTTCG-AGAGGATTTTTCTTTGTTTTTAA-TTTTAAAGTTTCATCAAATATTATCA
1 TGTAAATTTTTTCGAAG-GGATTTTTCTGGGTTTTAAATTTTTAAA-TTTCATCAAATATTATCA
* *
1332313 TTTATTTAATATTAAATCATTTTTC-AA-A-AA-TTT-ATGAGTTTTTGATTTTTTT-CGTGAAA
64 TTTATTTAATATTAAATCAGTTTTCAAATATAATTTTCATGAGTTTTTAATTTTTTTCCGTG--A
* ** * * *
1332372 CACCTT-TTTTTTTTGAAATACGGTGTTTTCTACTCCATAAATTTTTTTGAGGGGATTTTTCTCG
127 -ACCTTCCTTTTTTTGAAATACAATATTTTCTACTCCATAAATTTTTTCGAGGGGATTTTTCTCA
* *
1332436 GTTTTCAATTTTTAAATTTCATAAAACATCATTATTTGA-TTCATATT-AAATCA-TTTTTAAAA
191 GTTTTCAATTTTTAAATTTCATAAAACATCATCATTT-ATTTCAAATTAAAAT-AGTTTTT-AAA
1332498 AATTAATCCATTTTCATGAGTTTTGGATTTTT
253 AATTAATCCATTTTCATGAGTTTTGGATTTTT
1332530 GTTGAAATTT
Statistics
Matches: 244, Mismatches: 28, Indels: 25
0.82 0.09 0.08
Matches are distributed among these distances:
323 3 0.01
324 27 0.11
325 124 0.51
326 8 0.03
329 1 0.00
331 2 0.01
333 9 0.04
334 70 0.29
ACGTcount: A:0.29, C:0.10, G:0.09, T:0.52
Consensus pattern (329 bp):
TGTAAATTTTTTCGAAGGGATTTTTCTGGGTTTTAAATTTTTAAATTTCATCAAATATTATCATT
TATTTAATATTAAATCAGTTTTCAAATATAATTTTCATGAGTTTTTAATTTTTTTCCGTGAACCT
TCCTTTTTTTGAAATACAATATTTTCTACTCCATAAATTTTTTCGAGGGGATTTTTCTCAGTTTT
CAATTTTTAAATTTCATAAAACATCATCATTTATTTCAAATTAAAATAGTTTTTAAAAATTAATC
CATTTTCATGAGTTTTGGATTTTTTTCCTTGAAACTCTTTTTTTCCCTGAAATACGGTGTTTTCT
AAAC
Found at i:1334204 original size:128 final size:128
Alignment explanation
Indices: 1333969--1334211 Score: 344
Period size: 128 Copynumber: 1.9 Consensus size: 128
1333959 CCTTATGATT
* * * *
1333969 TAAACAAATATTAATCGTTTTTAATCTTTTATATTTCTATGGGTATCTGTAGGGGTATAAAAGAT
1 TAAACAAATATTAATCATTTTTAATCTTTTATATTCCTATGGGTATCTGTAGGAGTACAAAAGAT
* * * * ** ***
1334034 TTCAAATATTTTTTGTATTTTTTTGGGTTTTCATTGCGGTACAAAATGATTTTTTTTCAAAAA
66 TTCAAAAATGTTTCGTATCTTTGCGGGTTTTCATTAAAGTACAAAATGATTTTTTTTCAAAAA
*
1334097 TAAATAAATATTAATCATTTTTAATCTTTTATATTCCTATGGGTATCTGTAGGAGTACAAAAGAT
1 TAAACAAATATTAATCATTTTTAATCTTTTATATTCCTATGGGTATCTGTAGGAGTACAAAAGAT
1334162 TTCAAAAATGTTTCGTATCTTTGCGGG-TTTCTATTAAAGTACAAAATGAT
66 TTCAAAAATGTTTCGTATCTTTGCGGGTTTTC-ATTAAAGTACAAAATGAT
1334212 ACTTTTTAAG
Statistics
Matches: 100, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
127 4 0.04
128 96 0.96
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (128 bp):
TAAACAAATATTAATCATTTTTAATCTTTTATATTCCTATGGGTATCTGTAGGAGTACAAAAGAT
TTCAAAAATGTTTCGTATCTTTGCGGGTTTTCATTAAAGTACAAAATGATTTTTTTTCAAAAA
Found at i:1334635 original size:25 final size:25
Alignment explanation
Indices: 1334601--1334649 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
1334591 ATAAGATTAC
*
1334601 CGGGTCTGCTTCAATGTCAAAGGTA
1 CGGGTCTGCTTCAATGCCAAAGGTA
*
1334626 CGGGTTTGCTTCAATGCCAAAGGT
1 CGGGTCTGCTTCAATGCCAAAGGT
1334650 GGGTATTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (25 bp):
CGGGTCTGCTTCAATGCCAAAGGTA
Found at i:1346932 original size:166 final size:164
Alignment explanation
Indices: 1346255--1347090 Score: 831
Period size: 166 Copynumber: 5.0 Consensus size: 164
1346245 TTCAAACACC
* * * *
1346255 AAAATTCTTCAAATATTATCATTTATTTCATATTAAATCAGCTCTAAAAAATTAATTCATTTTCA
1 AAAATTCATCAAATATTATCATTTATTTCATATTAAATCA-TTTTCAAAAATTAATTCATTTTCA
* * ** ** * *
1346320 TGAGTCTTCTAATTTTTTCCTTGACATTTCTCTTTTTTTGAAATACGATATTTTCTACTCCATAA
65 TGAGT-TTTTAATTTTTTCTTTGA-AACTCTCTTTTTTCAAAATACGGTATTTTCTACTCCGTAA
* * *
1346385 ATTTTTTTGAGGAGA-GTTTCTTA-GTTTTTAATTTTT
128 ATTTTTTTGAGGGGATTTTTC-TAGGTTTTAAATTTTT
* * *
1346421 AAATTTTATCAAATATTATCATTCATTTCATATTAAATCAATTTTCAAAAATTAATTCATTTTCA
1 AAAATTCATCAAATATTATCATTTATTTCATATTAAATC-ATTTTCAAAAATTAATTCATTTTCA
* * *
1346486 TGAGTTTTTAATTTTTTTTCTTTGAAACTCCTATTTTTTTCTGAAATACGGTATTTTCTACTCTG
65 TGAGTTTTTAA--TTTTTTCTTTGAAACT-CT-CTTTTTTC-AAAATACGGTATTTTCTACTCCG
* * *
1346551 TAAATTTTTTTGATGAGATTTTTCTTA-GTTTTTAATTTTT
125 TAAATTTTTTTGAGGGGATTTTTC-TAGGTTTTAAATTTTT
* * *
1346591 AAATTTCATAAAACATTATCATTTATTTCATATTAAATCCATTTTCAAAAATTAATTCATTTTCA
1 AAAATTCATCAAATATTATCATTTATTTCATATTAAAT-CATTTTCAAAAATTAATTCATTTTCA
* * * * * * * * * *
1346656 CGAGTTTCTAATTTTTTCCTTGAAACTCTTTTTTTTTAAAAAATGGTGTTTTCTACTCTGCAAAT
65 TGAGTTTTTAATTTTTTCTTTGAAACTCTCTTTTTTCAAAATACGGTATTTTCTACTCCGTAAAT
* * *
1346721 GTTTTTGAGGGGATTTTTCTTGGTTTTCAATTTTT
130 TTTTTTGAGGGGATTTTTCTAGGTTTTAAATTTTT
* * * * * *
1346756 AAATTTCATCAAATATTATCATTTATTTTATATTAAATAAGTTTCCAAAAATTCATTGATTTT-A
1 AAAATTCATCAAATATTATCATTTATTTCATATTAAATCA-TTTTCAAAAATTAATTCATTTTCA
* * *
1346820 CTGATTTTTTGATATTTTCTTTGAAACTCTCATTTTTTCAAAATACGGTATTTTCTACTCCGTAA
65 -TGAGTTTTTAATTTTTTCTTTGAAACTCTC-TTTTTTCAAAATACGGTATTTTCTACTCCGTAA
*
1346885 ATTTTTTCGAGGGGATTTTTCTAGGTTTTAAATTTTT
128 ATTTTTTTGAGGGGATTTTTCTAGGTTTTAAATTTTT
* * * * * * *
1346922 AAAATTCATCAAACATAATTATTTGATTT-ATATTAAATCATTTTTAAAAAATTTATCCATATTC
1 AAAATTCATCAAATATTATCATTT-ATTTCATATTAAATCA-TTTTCAAAAATTAATTCATTTTC
** * * ** * *
1346986 ATGAGTTTTGGATTTTTT-TGTTGAAATTCTCTTTTTTCGAGAAGCCGG-GTTTTCTTCTCCGTA
64 ATGAGTTTTTAATTTTTTCT-TTGAAACTCTCTTTTTTC-AAAATACGGTATTTTCTACTCCGTA
* * * *
1347049 AATTTTTTTGGGGGGATTTTTCTTGGTGTAAAATTTTT
127 AATTTTTTTGAGGGGATTTTTCTAGGTTTTAAATTTTT
1347087 AAAA
1 AAAA
1347091 CTCTTCTAAT
Statistics
Matches: 568, Mismatches: 86, Indels: 33
0.83 0.13 0.05
Matches are distributed among these distances:
164 3 0.01
165 191 0.34
166 206 0.36
167 21 0.04
168 21 0.04
169 37 0.07
170 88 0.15
171 1 0.00
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.50
Consensus pattern (164 bp):
AAAATTCATCAAATATTATCATTTATTTCATATTAAATCATTTTCAAAAATTAATTCATTTTCAT
GAGTTTTTAATTTTTTCTTTGAAACTCTCTTTTTTCAAAATACGGTATTTTCTACTCCGTAAATT
TTTTTGAGGGGATTTTTCTAGGTTTTAAATTTTT
Found at i:1347003 original size:331 final size:333
Alignment explanation
Indices: 1346255--1347089 Score: 963
Period size: 331 Copynumber: 2.5 Consensus size: 333
1346245 TTCAAACACC
* * * *
1346255 AAAATTCTTCAAATATTATCATTTATTTCATATTAAATCAGCTCTAAAAAATTAATTCATTTTCA
1 AAAATTCATCAAACATTATCATTTATTTCATATTAAATCA-TTTTAAAAAATTAATTCATTTTCA
* * * * * * *
1346320 TGAGTCTTCTAATTTTTTCCTTGACATTTCTCTTTTTTTGAAATACGATATTTTCTACTCCATAA
65 TGAGT-TTCTAATTTTTTCCTTGA-AATTCTTTTTTTTTAAAAAACGGTGTTTTCTACTCCGTAA
* * * * *
1346385 ATTTTTTTGAGGAGA-GTTTCTTAGTTTTTAATTTTTAAATTTTATCAAATATTATCATTCATTT
128 ATTTTTTTGAGGGGATTTTTCTTGGTTTTAAATTTTTAAATTTCATCAAATATTATCATTCATTT
* *
1346449 CATATTAAATCAATTTTCAAAAATTAATTCATTTTCATGAGTTTTTAATTTTTTTTCTTTGAAAC
193 CATATTAAATCAATTTCCAAAAATTAATTCATTTTCATGAGTTTTTAA-TTATTTTCTTTGAAAC
* * * *
1346514 TCCTATTTTTTTCTGAAATACGGTATTTTCTACTCTGTAAATTTTTTTGATGAGATTTTTCTTAG
257 TCCTATTTTTTTCTAAAATACGGTATTTTCTACTCCGTAAATTTTTTCGAGGAGATTTTTCTTAG
*
1346579 TTTTTAATTTTT
322 TTTTAAATTTTT
* * *
1346591 AAATTTCATAAAACATTATCATTTATTTCATATTAAATCCATTTTCAAAAATTAATTCATTTTCA
1 AAAATTCATCAAACATTATCATTTATTTCATATTAAAT-CATTTTAAAAAATTAATTCATTTTCA
* * * * *
1346656 CGAGTTTCTAATTTTTTCCTTGAAACTCTTTTTTTTTAAAAAATGGTGTTTTCTACTCTGCAAAT
65 TGAGTTTCTAATTTTTTCCTTGAAATTCTTTTTTTTTAAAAAACGGTGTTTTCTACTCCGTAAAT
* * * *
1346721 GTTTTTGAGGGGATTTTTCTTGGTTTTCAATTTTTAAATTTCATCAAATATTATCATTTATTTTA
130 TTTTTTGAGGGGATTTTTCTTGGTTTTAAATTTTTAAATTTCATCAAATATTATCATTCATTTCA
* * * *
1346786 TATTAAAT-AAGTTTCCAAAAATTCATTGATTTT-ACTGATTTTTTGA-TATTTTCTTTGAAACT
195 TATTAAATCAA-TTTCCAAAAATTAATTCATTTTCA-TGAGTTTTTAATTATTTTCTTTGAAACT
*
1346848 -CTCA-TTTTTTC-AAAATACGGTATTTTCTACTCCGTAAATTTTTTCGAGGGGATTTTTC-TAG
258 CCT-ATTTTTTTCTAAAATACGGTATTTTCTACTCCGTAAATTTTTTCGAGGAGATTTTTCTTA-
1346909 GTTTTAAATTTTT
321 GTTTTAAATTTTT
* * * * *
1346922 AAAATTCATCAAACATAATTATTTGATTT-ATATTAAATCATTTTTAAAAAATTTATCCATATTC
1 AAAATTCATCAAACATTATCATTT-ATTTCATATTAAATCA-TTTTAAAAAATTAATTCATTTTC
* ** ** * ** *
1346986 ATGAGTTT-TGGATTTTTTTGTTGAAATTCTCTTTTTTCGAGAAGCCGG-GTTTTCTTCTCCGTA
64 ATGAGTTTCT-AATTTTTTCCTTGAAATTCT-TTTTTTTTAAAAAACGGTGTTTTCTACTCCGTA
* * *
1347049 AATTTTTTTGGGGGGATTTTTCTTGGTGTAAAATTTTTAAA
127 AATTTTTTTGAGGGGATTTTTCTTGGTTTTAAATTTTTAAA
1347090 ACTCTTCTAA
Statistics
Matches: 423, Mismatches: 66, Indels: 25
0.82 0.13 0.05
Matches are distributed among these distances:
330 5 0.01
331 173 0.41
332 24 0.06
333 16 0.04
334 45 0.11
335 99 0.23
336 59 0.14
337 2 0.00
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.50
Consensus pattern (333 bp):
AAAATTCATCAAACATTATCATTTATTTCATATTAAATCATTTTAAAAAATTAATTCATTTTCAT
GAGTTTCTAATTTTTTCCTTGAAATTCTTTTTTTTTAAAAAACGGTGTTTTCTACTCCGTAAATT
TTTTTGAGGGGATTTTTCTTGGTTTTAAATTTTTAAATTTCATCAAATATTATCATTCATTTCAT
ATTAAATCAATTTCCAAAAATTAATTCATTTTCATGAGTTTTTAATTATTTTCTTTGAAACTCCT
ATTTTTTTCTAAAATACGGTATTTTCTACTCCGTAAATTTTTTCGAGGAGATTTTTCTTAGTTTT
AAATTTTT
Found at i:1347090 original size:165 final size:164
Alignment explanation
Indices: 1346263--1347089 Score: 824
Period size: 165 Copynumber: 5.0 Consensus size: 164
1346253 CCAAAATTCT
* * * *
1346263 TCAAATATTATCATTTATTTCATATTAAATCAGCTCTAAAAAATTAATTCATTTTCATGAGTCTT
1 TCAAACATTATCATTTATTTCATATTAAATCA-TTTTCAAAAATTAATTCATTTTCATGAGT-TT
* * ** * * *
1346328 CTAATTTTTTCCTTGACATTTCTCTTTTTTTG-AAATACGATATTTTCTACTCCATAAATTTTTT
64 TTAATTTTTT-TTTGA-AACTCTCTTTTTTCGAAAATACGGTATTTTCTACTCCGTAAATTTTTT
* * * * *
1346392 TGAGGAGA-GTTTCTTAGTTTTTAATTTTTAAATTTTA
127 TGAGGGGATTTTTCTTGGTTTTAAATTTTTAAATTTCA
* *
1346429 TCAAATATTATCATTCATTTCATATTAAATCAATTTTCAAAAATTAATTCATTTTCATGAGTTTT
1 TCAAACATTATCATTTATTTCATATTAAATC-ATTTTCAAAAATTAATTCATTTTCATGAGTTTT
* *
1346494 TAATTTTTTTTCTTTGAAACTCCTATTTTTTTCTG-AAATACGGTATTTTCTACTCTGTAAATTT
65 TAA--TTTTTT-TTTGAAACT-CT-CTTTTTTC-GAAAATACGGTATTTTCTACTCCGTAAATTT
* * * *
1346558 TTTTGATGAGATTTTTCTTAGTTTTTAATTTTTAAATTTCA
124 TTTTGAGGGGATTTTTCTTGGTTTTAAATTTTTAAATTTCA
* * *
1346599 TAAAACATTATCATTTATTTCATATTAAATCCATTTTCAAAAATTAATTCATTTTCACGAGTTTC
1 TCAAACATTATCATTTATTTCATATTAAAT-CATTTTCAAAAATTAATTCATTTTCATGAGTTTT
* ** * * * * * *
1346664 TAATTTTTTCCTTGAAACTCT-TTTTTTTTAAAAAATGGTGTTTTCTACTCTGCAAATGTTTTTG
65 TAATTTTTT-TTTGAAACTCTCTTTTTTCGAAAATACGGTATTTTCTACTCCGTAAATTTTTTTG
*
1346728 AGGGGATTTTTCTTGGTTTTCAATTTTTAAATTTCA
129 AGGGGATTTTTCTTGGTTTTAAATTTTTAAATTTCA
* * * * * * *
1346764 TCAAATATTATCATTTATTTTATATTAAATAAGTTTCCAAAAATTCATTGATTTT-ACTGATTTT
1 TCAAACATTATCATTTATTTCATATTAAATCA-TTTTCAAAAATTAATTCATTTTCA-TGAGTTT
* *
1346828 TTGATATTTTCTTTGAAACTCTCATTTTTTC-AAAATACGGTATTTTCTACTCCGTAAATTTTTT
64 TTAAT-TTTTTTTTGAAACTCTC-TTTTTTCGAAAATACGGTATTTTCTACTCCGTAAATTTTTT
* * *
1346892 CGAGGGGATTTTTCTAGGTTTTAAATTTTTAAAATTCA
127 TGAGGGGATTTTTCTTGGTTTTAAATTTTTAAATTTCA
* * * * * *
1346930 TCAAACATAATTATTTGATTT-ATATTAAATCATTTTTAAAAAATTTATCCATATTCATGAGTTT
1 TCAAACATTATCATTT-ATTTCATATTAAATCA-TTTTCAAAAATTAATTCATTTTCATGAGTTT
** * * ** * *
1346994 TGGATTTTTTTGTTGAAATTCTCTTTTTTCGAGAAGCCGG-GTTTTCTTCTCCGTAAATTTTTTT
64 TTAATTTTTTT-TTGAAACTCTCTTTTTTCGAAAATACGGTATTTTCTACTCCGTAAATTTTTTT
* * *
1347058 GGGGGGATTTTTCTTGGTGTAAAATTTTTAAA
128 GAGGGGATTTTTCTTGGTTTTAAATTTTTAAA
1347090 ACTCTTCTAA
Statistics
Matches: 561, Mismatches: 82, Indels: 37
0.82 0.12 0.05
Matches are distributed among these distances:
164 2 0.00
165 197 0.35
166 188 0.34
167 27 0.05
168 21 0.04
169 37 0.07
170 88 0.16
171 1 0.00
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.50
Consensus pattern (164 bp):
TCAAACATTATCATTTATTTCATATTAAATCATTTTCAAAAATTAATTCATTTTCATGAGTTTTT
AATTTTTTTTTGAAACTCTCTTTTTTCGAAAATACGGTATTTTCTACTCCGTAAATTTTTTTGAG
GGGATTTTTCTTGGTTTTAAATTTTTAAATTTCA
Found at i:1347501 original size:11 final size:11
Alignment explanation
Indices: 1347480--1347519 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
1347470 CTAGCCAAGT
*
1347480 GAGAAGAAAAA
1 GAGAAAAAAAA
*
1347491 GAGAAAGAAAA
1 GAGAAAAAAAA
1347502 GAGAAAAAAAA
1 GAGAAAAAAAA
*
1347513 GTGAAAA
1 GAGAAAA
1347520 CTAAGCTACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.03
Consensus pattern (11 bp):
GAGAAAAAAAA
Found at i:1348672 original size:128 final size:128
Alignment explanation
Indices: 1348437--1348676 Score: 347
Period size: 128 Copynumber: 1.9 Consensus size: 128
1348427 CCTTATGATT
1348437 TAAACAAATATTAATCATTTTTAATCTTTTATATTTCTATGGGTATCCGTAAGAATATAAAAGAT
1 TAAACAAATATTAATCATTTTTAATCTTTTATATTTCTATGGGTATCCGTAAGAATATAAAAGAT
* **
1348502 TTTAAAAACTTTTCGTATCTTTTTGAGTTTCCATTAAAGTACGAAATGATTTTTTTCCAAAAA
66 TTCAAAAACTTTTCGTATCTTTGCGAGTTTCCATTAAAGTACGAAATGATTTTTTTCCAAAAA
* * * * **
1348565 TAAATAAATATTAATCGTTTTTAATCTTTTATA-TTCTTATGGGTATCTGTGAGGGTATAAAAGA
1 TAAACAAATATTAATCATTTTTAATCTTTTATATTTC-TATGGGTATCCGTAAGAATATAAAAGA
* * * *
1348629 TTTCAAAAACTTTTTGTATCTTTGCGGGTTTCGATTAAGGTACGAAAT
65 TTTCAAAAACTTTTCGTATCTTTGCGAGTTTCCATTAAAGTACGAAAT
1348677 TATACTTTTT
Statistics
Matches: 98, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
127 3 0.03
128 95 0.97
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.43
Consensus pattern (128 bp):
TAAACAAATATTAATCATTTTTAATCTTTTATATTTCTATGGGTATCCGTAAGAATATAAAAGAT
TTCAAAAACTTTTCGTATCTTTGCGAGTTTCCATTAAAGTACGAAATGATTTTTTTCCAAAAA
Found at i:1352757 original size:15 final size:15
Alignment explanation
Indices: 1352737--1352798 Score: 61
Period size: 15 Copynumber: 3.8 Consensus size: 15
1352727 AATTTTTATA
1352737 AATTTAAATTAATTT
1 AATTTAAATTAATTT
1352752 AATTTAAATTATTATTT
1 AATTTAAATTA--ATTT
* *
1352769 AATAATAAAAATAATATT
1 AAT--TTAAATTAAT-TT
1352787 AATTTAAATTAA
1 AATTTAAATTAA
1352799 ATTATAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
15 11 0.29
16 7 0.18
17 9 0.24
18 5 0.13
19 6 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATTTAAATTAATTT
Found at i:1356082 original size:3 final size:3
Alignment explanation
Indices: 1356074--1356112 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
1356064 ATTGAAAGTG
1356074 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1356113 GAGCCCCTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1356792 original size:2 final size:2
Alignment explanation
Indices: 1356785--1356813 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1356775 AGATGTTGAC
1356785 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 A
1356814 ACACTATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1362272 original size:7 final size:8
Alignment explanation
Indices: 1362260--1362344 Score: 54
Period size: 7 Copynumber: 10.6 Consensus size: 8
1362250 ATAATAAAAC
1362260 TATTAA-A
1 TATTAATA
1362267 TATTAATA
1 TATTAATA
*
1362275 TAATACATA
1 TATTA-ATA
1362284 TATTAA-A
1 TATTAATA
*
1362291 T-GTAATA
1 TATTAATA
1362298 TATTAATTA
1 TATTAA-TA
1362307 TATTTAAATA
1 TA-TT-AATA
1362317 TATT-ATA
1 TATTAATA
*
1362324 TTATAAATA
1 -TATTAATA
*
1362333 T-TTATTA
1 TATTAATA
1362340 TATTA
1 TATTA
1362345 TTTTTTATAT
Statistics
Matches: 61, Mismatches: 7, Indels: 19
0.70 0.08 0.22
Matches are distributed among these distances:
6 3 0.05
7 18 0.30
8 16 0.26
9 16 0.26
10 6 0.10
11 2 0.03
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (8 bp):
TATTAATA
Found at i:1362287 original size:24 final size:23
Alignment explanation
Indices: 1362240--1362334 Score: 77
Period size: 24 Copynumber: 4.0 Consensus size: 23
1362230 TCAGTGTATC
* *
1362240 AAATATAAATATAATAAAACTATT
1 AAATATTAATATAATAATA-TATT
1362264 AAATATTAATATAATACATATATT
1 AAATATTAATATAATA-ATATATT
* *
1362288 AAAT-GTAATATATTAATTATATTT
1 AAATATTAATATAATAA-TATA-TT
* *
1362312 AAATATATTATATTATAA-ATATT
1 AAATAT-TAATATAATAATATATT
1362335 TATTATATTA
Statistics
Matches: 58, Mismatches: 8, Indels: 11
0.75 0.10 0.14
Matches are distributed among these distances:
22 1 0.02
23 15 0.26
24 32 0.55
25 2 0.03
26 8 0.14
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (23 bp):
AAATATTAATATAATAATATATT
Found at i:1362321 original size:33 final size:33
Alignment explanation
Indices: 1362245--1362343 Score: 87
Period size: 33 Copynumber: 3.0 Consensus size: 33
1362235 GTATCAAATA
* * *
1362245 TAAATATAATAAAACTATTAAATATTAA-TATA-A
1 TAAATAT-ATTAAATTA-TAAATATTAATTATATT
* *
1362278 TACATATATTAAATGTA-ATATATTAATTATATT
1 TAAATATATTAAAT-TATAAATATTAATTATATT
* *
1362311 TAAATATATTATATTATAAATATTTATTATATT
1 TAAATATATTAAATTATAAATATTAATTATATT
1362344 ATTTTTTATA
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
31 8 0.15
32 11 0.21
33 34 0.64
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (33 bp):
TAAATATATTAAATTATAAATATTAATTATATT
Found at i:1362340 original size:18 final size:18
Alignment explanation
Indices: 1362297--1362345 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
1362287 TAAATGTAAT
*
1362297 ATATTAATTATATT-TAA
1 ATATTTATTATATTATAA
1362314 ATA--TATTATATTATAA
1 ATATTTATTATATTATAA
1362330 ATATTTATTATATTAT
1 ATATTTATTATATTAT
1362346 TTTTTATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 8 0.29
16 6 0.21
17 3 0.11
18 11 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATATTTATTATATTATAA
Found at i:1362356 original size:23 final size:24
Alignment explanation
Indices: 1362262--1362363 Score: 77
Period size: 24 Copynumber: 4.3 Consensus size: 24
1362252 AATAAAACTA
* * *
1362262 TTAAATAT-TAATATAATACATAT
1 TTAAATATATTATATTATATATAT
* *
1362285 ATTAAATGTAATATATTA-ATTATAT
1 -TTAAATATATTATATTATA-TATAT
*
1362310 TTAAATATATTATATTATAAATAT
1 TTAAATATATTATATTATATATAT
* * *
1362334 TT-ATTATATTATTTTTTATATA-
1 TTAAATATATTATATTATATATAT
1362356 TTAAATAT
1 TTAAATAT
1362364 CTCATATTTT
Statistics
Matches: 61, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
22 2 0.03
23 20 0.33
24 29 0.48
25 10 0.16
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (24 bp):
TTAAATATATTATATTATATATAT
Found at i:1363908 original size:16 final size:18
Alignment explanation
Indices: 1363881--1363916 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
1363871 TCTATATACG
1363881 TTGTATTCATATTAT-TT
1 TTGTATTCATATTATATT
1363898 TTGTA-TCATATTATATT
1 TTGTATTCATATTATATT
1363915 TT
1 TT
1363917 AATTAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.64
Consensus pattern (18 bp):
TTGTATTCATATTATATT
Found at i:1364683 original size:16 final size:15
Alignment explanation
Indices: 1364662--1364729 Score: 57
Period size: 16 Copynumber: 4.3 Consensus size: 15
1364652 TTATATCATA
1364662 AAAATAATTAAAATAT
1 AAAATAA-TAAAATAT
*
1364678 AAAATAAATATAATAT
1 AAAAT-AATAAAATAT
* *
1364694 AATATAAAAAAATA-
1 AAAATAATAAAATAT
1364708 AAAATACGATATAAATAT
1 AAAATA--ATA-AAATAT
1364726 AAAA
1 AAAA
1364730 ATATTTTAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
14 5 0.12
15 7 0.17
16 18 0.44
17 7 0.17
18 4 0.10
ACGTcount: A:0.71, C:0.01, G:0.01, T:0.26
Consensus pattern (15 bp):
AAAATAATAAAATAT
Found at i:1364713 original size:21 final size:21
Alignment explanation
Indices: 1364673--1364728 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
1364663 AAATAATTAA
* *
1364673 AATATAAAATAAATATAATAT
1 AATATAAAATAAATAAAATAC
1364694 AATATAAAA-AAATAAAAATAC
1 AATATAAAATAAAT-AAAATAC
*
1364715 GATATAAATATAAA
1 AATATAAA-ATAAA
1364729 AATATTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 4 0.14
21 21 0.72
22 1 0.03
23 3 0.10
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.27
Consensus pattern (21 bp):
AATATAAAATAAATAAAATAC
Found at i:1364746 original size:28 final size:28
Alignment explanation
Indices: 1364708--1364800 Score: 89
Period size: 29 Copynumber: 3.1 Consensus size: 28
1364698 TAAAAAAATA
1364708 AAAATACGATATAAATATAAAAATATTTT
1 AAAAT-CGATATAAATATAAAAATATTTT
1364737 AAAATCGATAT-AATATAAATCATCATCATTTT
1 AAAATCGATATAAATATAAA--A--AT-ATTTT
** *
1364769 AAAATTTATAATAAATATTAAAATATTTT
1 AAAATCGAT-ATAAATATAAAAATATTTT
1364798 AAA
1 AAA
1364801 TATAATTATA
Statistics
Matches: 54, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
27 8 0.15
28 6 0.11
29 14 0.26
30 2 0.04
31 2 0.04
32 13 0.24
33 2 0.04
34 7 0.13
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (28 bp):
AAAATCGATATAAATATAAAAATATTTT
Found at i:1367054 original size:21 final size:21
Alignment explanation
Indices: 1367030--1367074 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
1367020 AATATCACTT
1367030 AAATTA-TTATTTAAATAATAA
1 AAATTATTTATTTAAAT-ATAA
*
1367051 AAA-TATTTATTTAAATTTAA
1 AAATTATTTATTTAAATATAA
1367071 AAAT
1 AAAT
1367075 ATAAAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AAATTATTTATTTAAATATAA
Found at i:1367071 original size:20 final size:21
Alignment explanation
Indices: 1367036--1367076 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1367026 ACTTAAATTA
1367036 TTATTTAAATAATAAAAATAT
1 TTATTTAAATAATAAAAATAT
*
1367057 TTATTTAAAT-TTAAAAATAT
1 TTATTTAAATAATAAAAATAT
1367077 AAAAATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TTATTTAAATAATAAAAATAT
Found at i:1367091 original size:28 final size:28
Alignment explanation
Indices: 1367037--1367097 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
1367027 CTTAAATTAT
* *
1367037 TATTTAAATAATAAAAATATTTATTTAA
1 TATTTAAAAAATAAAAATATATATTTAA
*
1367065 -ATTTAAAAATATAAAAATATATCTTTAA
1 TATTTAAAAA-ATAAAAATATATATTTAA
1367093 TATTT
1 TATTT
1367098 TAATATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 8 0.29
28 16 0.57
29 4 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (28 bp):
TATTTAAAAAATAAAAATATATATTTAA
Found at i:1367534 original size:14 final size:14
Alignment explanation
Indices: 1367498--1367537 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
1367488 CATTTAAAAT
1367498 ATAATAAAAATATA
1 ATAATAAAAATATA
*
1367512 AAAATAAAAATAT-
1 ATAATAAAAATATA
1367525 -TAATAAAAA-ATA
1 ATAATAAAAATATA
1367537 A
1 A
1367538 GTTATATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
11 2 0.09
12 8 0.36
14 12 0.55
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (14 bp):
ATAATAAAAATATA
Found at i:1369358 original size:16 final size:16
Alignment explanation
Indices: 1369335--1369386 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
1369325 TTATTTTATT
1369335 ATAA-TTATATTTAAA
1 ATAATTTATATTTAAA
*
1369350 ATAATTTATATTTATA
1 ATAATTTATATTTAAA
*
1369366 TTAATTTTAATATATTAAA
1 ATAA-TTT-ATAT-TTAAA
1369385 AT
1 AT
1369387 TTATATTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 4 0.14
16 13 0.45
17 3 0.10
18 4 0.14
19 5 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATAATTTATATTTAAA
Found at i:1369387 original size:16 final size:16
Alignment explanation
Indices: 1369368--1369405 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1369358 TATTTATATT
1369368 AATTT-TAATATATTAA
1 AATTTATAATATA-TAA
*
1369384 AATTTATATTATATAA
1 AATTTATAATATATAA
1369400 AATTTA
1 AATTTA
1369406 AATTATTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AATTTATAATATATAA
Found at i:1369410 original size:16 final size:17
Alignment explanation
Indices: 1369376--1369411 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
1369366 TTAATTTTAA
*
1369376 TATATTAAAATTTATAT
1 TATATTAAAATTTAAAT
1369393 TATA-TAAAATTTAAAT
1 TATATTAAAATTTAAAT
1369409 TAT
1 TAT
1369412 TCATATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TATATTAAAATTTAAAT
Found at i:1369635 original size:28 final size:28
Alignment explanation
Indices: 1369595--1369661 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
1369585 GTCGAATTTT
* *
1369595 TTTTTAGATAAAAAAATTTAT-TTCTTAA
1 TTTTTAAAAAAAAAAATTTATCTT-TTAA
*
1369623 TTTTTAAAAAAAAATATTTATCTTTTAA
1 TTTTTAAAAAAAAAAATTTATCTTTTAA
**
1369651 CATTTAAAAAA
1 TTTTTAAAAAA
1369662 TATTTATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 31 0.94
29 2 0.06
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.46
Consensus pattern (28 bp):
TTTTTAAAAAAAAAAATTTATCTTTTAA
Found at i:1369646 original size:26 final size:28
Alignment explanation
Indices: 1369595--1369646 Score: 65
Period size: 26 Copynumber: 1.9 Consensus size: 28
1369585 GTCGAATTTT
*
1369595 TTTTTAGATAAAAAAATTTATTTCTTAA
1 TTTTTAGATAAAAAAATTTATATCTTAA
1369623 TTTTTA-A-AAAAAAATATT-TATCTT
1 TTTTTAGATAAAAAAAT-TTATATCTT
1369647 TTAACATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
26 13 0.59
27 3 0.14
28 6 0.27
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (28 bp):
TTTTTAGATAAAAAAATTTATATCTTAA
Found at i:1369763 original size:7 final size:7
Alignment explanation
Indices: 1369753--1369786 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
1369743 AATATATACT
1369753 TTATTAA
1 TTATTAA
1369760 TTATTAA
1 TTATTAA
*
1369767 TTAGTAA
1 TTATTAA
1369774 TTATTAA
1 TTATTAA
1369781 TTATTA
1 TTATTA
1369787 TTTTTTCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (7 bp):
TTATTAA
Found at i:1370492 original size:18 final size:18
Alignment explanation
Indices: 1370455--1370491 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
1370445 TTTAATTTGA
1370455 TTATAATTAAAAATAATT
1 TTATAATTAAAAATAATT
1370473 TTATAATTAAAAAT-ATT
1 TTATAATTAAAAATAATT
1370490 TT
1 TT
1370492 TCTTAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTATAATTAAAAATAATT
Found at i:1371775 original size:13 final size:12
Alignment explanation
Indices: 1371738--1371807 Score: 52
Period size: 13 Copynumber: 5.4 Consensus size: 12
1371728 ACATTCATAT
1371738 TAAAAAATTAAA
1 TAAAAAATTAAA
* *
1371750 TTAATAATATAAA
1 TAAAAAAT-TAAA
1371763 TAAAAGAATTAAA
1 TAAAA-AATTAAA
*
1371776 CTAAATAATCTAAAA
1 -TAAAAAAT-T-AAA
1371791 TTAAAAAA-TAAA
1 -TAAAAAATTAAA
1371803 TAAAA
1 TAAAA
1371808 TTAAAAAATT
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
11 5 0.11
12 9 0.20
13 15 0.33
14 8 0.17
15 9 0.20
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.27
Consensus pattern (12 bp):
TAAAAAATTAAA
Found at i:1379273 original size:2 final size:2
Alignment explanation
Indices: 1379266--1379308 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
1379256 ATATAAAAAG
1379266 TA TA TA 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
1379308 T
1 T
1379309 GAATTAAGGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1379514 original size:2 final size:2
Alignment explanation
Indices: 1379501--1379543 Score: 61
Period size: 2 Copynumber: 21.5 Consensus size: 2
1379491 TAAAGTGCAG
*
1379501 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT
1379543 A
1 A
1379544 CAAATATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
1 1 0.03
2 34 0.92
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1382903 original size:35 final size:34
Alignment explanation
Indices: 1382770--1382901 Score: 185
Period size: 34 Copynumber: 3.9 Consensus size: 34
1382760 AACCTTACAA
* *
1382770 CCTTATCTTTT-TAAAGACTAAGATAGAACATCTT
1 CCTTATCTTTTCAAAAG-CTAAGATAGAACATTTT
*
1382804 CCTTATCTTTTCATAAGCTAAGATAGAACATTTT
1 CCTTATCTTTTCAAAAGCTAAGATAGAACATTTT
* *
1382838 CCTTATCTTTTCACAAGCTAAGATAGAACCTTTT
1 CCTTATCTTTTCAAAAGCTAAGATAGAACATTTT
*
1382872 CCCTATCTTTTTCAAAAGCTAAGATAGAAC
1 CCTTATC-TTTTCAAAAGCTAAGATAGAAC
1382902 CTCTAAATTA
Statistics
Matches: 89, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
34 65 0.73
35 24 0.27
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.37
Consensus pattern (34 bp):
CCTTATCTTTTCAAAAGCTAAGATAGAACATTTT
Found at i:1388398 original size:2 final size:2
Alignment explanation
Indices: 1388391--1388420 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1388381 AAGACTGACA
1388391 AT AT 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 AT AT
1388421 GAATTAGTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1389331 original size:19 final size:22
Alignment explanation
Indices: 1389307--1389349 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
1389297 TAAAAATTAT
1389307 AATTA-TTAAAA-AAT-AAAAA
1 AATTATTTAAAATAATCAAAAA
1389326 AATTATTTAAAATAATCAAAAA
1 AATTATTTAAAATAATCAAAAA
1389348 AA
1 AA
1389350 AAATATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.24
20 6 0.29
21 3 0.14
22 7 0.33
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (22 bp):
AATTATTTAAAATAATCAAAAA
Found at i:1389349 original size:25 final size:24
Alignment explanation
Indices: 1389321--1389372 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 24
1389311 ATTAAAAAAT
*
1389321 AAAAAAAT-TATTTAAAATAATCAAA
1 AAAAAAATAT-TTTAAAAAAAT-AAA
1389346 AAAAAAATATTTTAAAAAAATAAA
1 AAAAAAATATTTTAAAAAAATAAA
1389370 AAA
1 AAA
1389373 TTCAAAAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 6 0.24
25 18 0.72
26 1 0.04
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (24 bp):
AAAAAAATATTTTAAAAAAATAAA
Found at i:1393711 original size:21 final size:20
Alignment explanation
Indices: 1393665--1393717 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
1393655 ATTTGAGACA
*
1393665 TGTATCAATACATTCACTTG
1 TGTATCGATACATTCACTTG
1393685 TGTATCGATACATTCACTAAT-
1 TGTATCGATACATTCACT--TG
1393706 TGTATCGATACA
1 TGTATCGATACA
1393718 AATTATAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 17 0.57
21 12 0.40
22 1 0.03
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTCACTTG
Found at i:1394705 original size:61 final size:63
Alignment explanation
Indices: 1394596--1394761 Score: 178
Period size: 62 Copynumber: 2.7 Consensus size: 63
1394586 GGCGCCCTAC
* * * * **
1394596 TCTTTGAAGACTAAAGGGTGCCACCAGCTTCTGTGGGCTTTTAAAAAG-AAAAGGCT-TCTTGA
1 TCTTTGAAGACTAAAAGTTGCCACCAACTTGTGTAAGCTTTTAAAAAGAAAAAGG-TGTCTTGA
* *
1394658 TCTTTGAAGACTAAAAGTTGCCACCAACTTGTGTAAG-TTTTAAAAAGAAAAATGTGTCTTGC
1 TCTTTGAAGACTAAAAGTTGCCACCAACTTGTGTAAGCTTTTAAAAAGAAAAAGGTGTCTTGA
* * * *
1394720 TCTTTGAGGACTAAAA-TGTGCCACTAATTTGTGTGAGCTTTT
1 TCTTTGAAGACTAAAAGT-TGCCACCAACTTGTGTAAGCTTTT
1394762 GAAAGGGTTG
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
61 12 0.14
62 72 0.82
63 4 0.05
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (63 bp):
TCTTTGAAGACTAAAAGTTGCCACCAACTTGTGTAAGCTTTTAAAAAGAAAAAGGTGTCTTGA
Found at i:1394848 original size:32 final size:32
Alignment explanation
Indices: 1394738--1394957 Score: 189
Period size: 32 Copynumber: 6.9 Consensus size: 32
1394728 GACTAAAATG
* * *
1394738 TGCCACTAATTTGTGTGAGCTTTTGAAAGGGT
1 TGCCACTAACTTGTGTGGGCTTTAGAAAGGGT
* ** * *
1394770 TGCTACCGACTTTTGTGGGCTTTAAGAAAAAGGT
1 TGCCACTAACTTGTGTGGGCTTT-AG-AAAGGGT
*
1394804 TGCCA-TCAACTTGTGTAGGCTTTAGAAAGGGT
1 TGCCACT-AACTTGTGTGGGCTTTAGAAAGGGT
* * * *
1394836 TGCCACTGACTTGTGTGAGTTTTA-AGAGGGT
1 TGCCACTAACTTGTGTGGGCTTTAGAAAGGGT
* * * * *
1394867 TACAACCTGACTTGTGTAGGCTTTA-AGAGGGT
1 TGCCA-CTAACTTGTGTGGGCTTTAGAAAGGGT
*
1394899 TGCCACTAACTTGTGTGGGCTTTAGAGAGGGT
1 TGCCACTAACTTGTGTGGGCTTTAGAAAGGGT
1394931 TGCCA-TCAACTTGTGTGGGCTTT-GAAA
1 TGCCACT-AACTTGTGTGGGCTTTAGAAA
1394958 AGGAATGCCA
Statistics
Matches: 152, Mismatches: 29, Indels: 15
0.78 0.15 0.08
Matches are distributed among these distances:
31 30 0.20
32 95 0.62
33 4 0.03
34 23 0.15
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.33
Consensus pattern (32 bp):
TGCCACTAACTTGTGTGGGCTTTAGAAAGGGT
Found at i:1394930 original size:95 final size:96
Alignment explanation
Indices: 1394738--1394957 Score: 254
Period size: 95 Copynumber: 2.3 Consensus size: 96
1394728 GACTAAAATG
* * * * *
1394738 TGCCACTAATTTGTGTGAGCTTTTGAAAGGGTTGCTACCGACTTTTGTGGGCTTTAAGAAAAAGG
1 TGCCACTAACTTGTGTGAGCTTTTGAAAGGGTTACAACCGACTTGTGTAGGCTTTAAG--AAAGG
1394803 TTGCCATCAACTTGTGTAGGCTTTAGAAAGGGT
64 TTGCCATCAACTTGTGTAGGCTTTAGAAAGGGT
* *
1394836 TGCCACTGACTTGTGTGAG-TTTT-AAGAGGGTTACAACCTGACTTGTGTAGGCTTTAAG-AGGG
1 TGCCACTAACTTGTGTGAGCTTTTGAA-AGGGTTACAACC-GACTTGTGTAGGCTTTAAGAAAGG
* *
1394898 TTGCCA-CTAACTTGTGTGGGCTTTAGAGAGGGT
64 TTGCCATC-AACTTGTGTAGGCTTTAGAAAGGGT
*
1394931 TGCCA-TCAACTTGTGTGGGC-TTTGAAA
1 TGCCACT-AACTTGTGTGAGCTTTTGAAA
1394958 AGGAATGCCA
Statistics
Matches: 105, Mismatches: 11, Indels: 15
0.80 0.08 0.11
Matches are distributed among these distances:
94 2 0.02
95 51 0.49
96 4 0.04
97 14 0.13
98 34 0.32
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.33
Consensus pattern (96 bp):
TGCCACTAACTTGTGTGAGCTTTTGAAAGGGTTACAACCGACTTGTGTAGGCTTTAAGAAAGGTT
GCCATCAACTTGTGTAGGCTTTAGAAAGGGT
Found at i:1394943 original size:63 final size:64
Alignment explanation
Indices: 1394748--1394957 Score: 212
Period size: 63 Copynumber: 3.3 Consensus size: 64
1394738 TGCCACTAAT
* * ** * * *
1394748 TTGTGT-GAGCTTTTGAAAGGGTTGCTACCGACTTTTGTGGGCTTTAAGAAAAAGGTTGCCATCA
1 TTGTGTAG-GCTTTAGAAAGGGTTGCCACTAACTTGTGTGGGCTTT-AG-AGAGGGTTGCCATCA
1394812 AC
63 AC
* * * * * * *
1394814 TTGTGTAGGCTTTAGAAAGGGTTGCCACTGACTTGTGTGAGTTTTA-AGAGGGTTACAACCTGAC
1 TTGTGTAGGCTTTAGAAAGGGTTGCCACTAACTTGTGTGGGCTTTAGAGAGGGTTGCCATC-AAC
*
1394878 TTGTGTAGGCTTTA-AGAGGGTTGCCACTAACTTGTGTGGGCTTTAGAGAGGGTTGCCATCAAC
1 TTGTGTAGGCTTTAGAAAGGGTTGCCACTAACTTGTGTGGGCTTTAGAGAGGGTTGCCATCAAC
*
1394941 TTGTGTGGGCTTT-GAAA
1 TTGTGTAGGCTTTAGAAA
1394958 AGGAATGCCA
Statistics
Matches: 118, Mismatches: 22, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
63 52 0.44
64 27 0.23
65 1 0.01
66 37 0.31
67 1 0.01
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.33
Consensus pattern (64 bp):
TTGTGTAGGCTTTAGAAAGGGTTGCCACTAACTTGTGTGGGCTTTAGAGAGGGTTGCCATCAAC
Found at i:1395021 original size:34 final size:33
Alignment explanation
Indices: 1394954--1395228 Score: 139
Period size: 34 Copynumber: 8.5 Consensus size: 33
1394944 TGTGGGCTTT
* *
1394954 GAAAAGGAATGCCAC-GAAGTTGTGGACTTTAAAA
1 GAAAAGG-GTGCCACAGAA-TTGTAGACTTTAAAA
* **
1394988 GAAATAGGGTGCTATGGAATTGTAGACTTTAAAA
1 GAAA-AGGGTGCCACAGAATTGTAGACTTTAAAA
* * *
1395022 GGAAAGTGATGTCCACAGAGTTGTAGACTTTAAAA
1 GAAAAG-GGTG-CCACAGAATTGTAGACTTTAAAA
* *
1395057 GAAAAAAGGTGCCACAGAATTGTGGACTTTAAAA
1 G-AAAAGGGTGCCACAGAATTGTAGACTTTAAAA
** *
1395091 GAAAAAAGTGTCAC-GAAGTTG-AGGAC-TT----
1 GAAAAGGGTGCCACAGAA-TTGTA-GACTTTAAAA
* * *
1395119 -AAAAGGGTGTCACATAGTTGT-GAACTTTAAAA
1 GAAAAGGGTGCCACAGAATTGTAG-ACTTTAAAA
* * * * *
1395151 G-CAA---TGCCACGGAGTTGTGGATTTTAAAA
1 GAAAAGGGTGCCACAGAATTGTAGACTTTAAAA
* *
1395180 GAAAAAGGTGCCACAGAGTTGTAGAC-TTAAAA
1 GAAAAGGGTGCCACAGAATTGTAGACTTTAAAA
* *
1395212 GAAAAAGGTGCTACAGA
1 GAAAAGGGTGCCACAGA
1395229 GTTATGGTCT
Statistics
Matches: 188, Mismatches: 32, Indels: 44
0.71 0.12 0.17
Matches are distributed among these distances:
26 1 0.01
27 16 0.09
28 3 0.02
29 20 0.11
30 3 0.02
32 29 0.15
33 34 0.18
34 50 0.27
35 29 0.15
36 3 0.02
ACGTcount: A:0.40, C:0.11, G:0.26, T:0.23
Consensus pattern (33 bp):
GAAAAGGGTGCCACAGAATTGTAGACTTTAAAA
Found at i:1395145 original size:27 final size:28
Alignment explanation
Indices: 1395098--1395151 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
1395088 AAAGAAAAAA
*
1395098 GTGTCACGAAGTTGAGGAC-TTAAAAGG
1 GTGTCACGAAGTTGAGAACTTTAAAAGG
*
1395125 GTGTCAC-ATAGTTGTGAACTTTAAAAG
1 GTGTCACGA-AGTTGAGAACTTTAAAAG
1395152 CAATGCCACG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 1 0.04
27 15 0.65
28 7 0.30
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.28
Consensus pattern (28 bp):
GTGTCACGAAGTTGAGAACTTTAAAAGG
Found at i:1395199 original size:33 final size:33
Alignment explanation
Indices: 1395155--1395245 Score: 123
Period size: 32 Copynumber: 2.8 Consensus size: 33
1395145 TTAAAAGCAA
* *
1395155 TGCCACGGAGTTGTGGATTTTAAAAGAAAAAGG
1 TGCCACAGAGTTGTGGATCTTAAAAGAAAAAGG
*
1395188 TGCCACAGAGTTGTAGA-CTTAAAAGAAAAAGG
1 TGCCACAGAGTTGTGGATCTTAAAAGAAAAAGG
* *
1395220 TGCTACAGAGTTATGG-TCTTAAAAGA
1 TGCCACAGAGTTGTGGATCTTAAAAGA
1395246 GTGCCAAGGA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
32 36 0.71
33 15 0.29
ACGTcount: A:0.38, C:0.11, G:0.26, T:0.24
Consensus pattern (33 bp):
TGCCACAGAGTTGTGGATCTTAAAAGAAAAAGG
Found at i:1395267 original size:121 final size:123
Alignment explanation
Indices: 1395034--1395271 Score: 290
Period size: 121 Copynumber: 2.0 Consensus size: 123
1395024 AAAGTGATGT
*
1395034 CCACAGAGTTGTAGACTTTAAAAGAAAAAAGGTGCCACAGAATTGTGGACTTTAAAAGAAAAAAG
1 CCACAGAGTTGTAGACTTTAAAAGAAAAAAGGTGCCACAGAATTGTAGACTTTAAAAGAAAAAAG
* * * *
1395099 TGTCACGAAGTTGAGGACTTAAAAGGGTGTCACATAGTTGTGAACTTTAAAAGCAATG
66 TGTCACGAAGTTGAGGACTTAAAAGAGTGCCACAGAGTTATGAACTTTAAAAGCAATG
* * * * *
1395157 CCACGGAGTTGTGGATTTTAAAAG-AAAAAGGTGCCACAGAGTTGTAGAC-TTAAAAGAAAAAGG
1 CCACAGAGTTGTAGACTTTAAAAGAAAAAAGGTGCCACAGAATTGTAGACTTTAAAAGAAAAAAG
* *
1395220 TG-CTAC-AGAGTT-ATGGTCTTAAAAGAGTGCCA-AGGAGTTATGGACTTTAAAA
66 TGTC-ACGA-AGTTGA-GGACTTAAAAGAGTGCCACA-GAGTTATGAACTTTAAAA
1395272 TAAAGAGGGT
Statistics
Matches: 99, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
120 4 0.04
121 51 0.52
122 23 0.23
123 21 0.21
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.24
Consensus pattern (123 bp):
CCACAGAGTTGTAGACTTTAAAAGAAAAAAGGTGCCACAGAATTGTAGACTTTAAAAGAAAAAAG
TGTCACGAAGTTGAGGACTTAAAAGAGTGCCACAGAGTTATGAACTTTAAAAGCAATG
Found at i:1395303 original size:61 final size:61
Alignment explanation
Indices: 1395208--1395355 Score: 174
Period size: 61 Copynumber: 2.4 Consensus size: 61
1395198 TTGTAGACTT
* * ** *
1395208 AAAAGAAA-AAGGTGCTACAGAGTTATGGTCTTAAAAGAGTGCCAAGGAGTTATGGACTTT-
1 AAAAGAAAGAGGGTGCCACAGAGTTATGGAATTAAAAGAGTGCCAAGGACTTAT-GACTTTC
* * * *
1395268 AAAATAAAGAGGGTGCCACGGAGTTATGGAATTAAAAGAGTGCTACGGACTTATGACTTTC
1 AAAAGAAAGAGGGTGCCACAGAGTTATGGAATTAAAAGAGTGCCAAGGACTTATGACTTTC
* *
1395329 AAAAGAAAGAGGGTGCTACATAGTTAT
1 AAAAGAAAGAGGGTGCCACAGAGTTAT
1395356 ATACTTTAAA
Statistics
Matches: 73, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
60 13 0.18
61 60 0.82
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (61 bp):
AAAAGAAAGAGGGTGCCACAGAGTTATGGAATTAAAAGAGTGCCAAGGACTTATGACTTTC
Found at i:1395315 original size:27 final size:27
Alignment explanation
Indices: 1395214--1395322 Score: 76
Period size: 27 Copynumber: 3.8 Consensus size: 27
1395204 ACTTAAAAGA
* * **
1395214 AAAAG-GTGCTACAGAGTTATGGTCTT
1 AAAAGAGTGCCACGGAGTTATGGAATT
* *
1395240 AAAAGAGTGCCAAGGAGTTATGGACTTT
1 AAAAGAGTGCCACGGAGTTATGGA-ATT
1395268 AAAATAAAGAGGGTGCCACGGAGTTATGGAATT
1 ---A-AAAGA--GTGCCACGGAGTTATGGAATT
* *
1395301 AAAAGAGTGCTACGGACTTATG
1 AAAAGAGTGCCACGGAGTTATG
1395323 ACTTTCAAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
26 5 0.08
27 28 0.42
28 2 0.03
29 5 0.08
30 1 0.02
31 1 0.02
32 5 0.08
33 2 0.03
34 17 0.26
ACGTcount: A:0.36, C:0.11, G:0.28, T:0.25
Consensus pattern (27 bp):
AAAAGAGTGCCACGGAGTTATGGAATT
Found at i:1395443 original size:30 final size:30
Alignment explanation
Indices: 1395398--1395670 Score: 263
Period size: 30 Copynumber: 9.2 Consensus size: 30
1395388 CTTTAAAAAA
1395398 AGAAG-GATGCCACTGAGTCATGGACTTTG
1 AGAAGAGATGCCACTGAGTCATGGACTTTG
* * * *
1395427 AGAAGAGGTGCGACTGAGTCGTGGACTTGG
1 AGAAGAGATGCCACTGAGTCATGGACTTTG
* * * *
1395457 AAAAAAAATGCCA-TGGAGTCATGGACTTGG
1 AGAAGAGATGCCACT-GAGTCATGGACTTTG
* *
1395487 AGAAGAGATGCCATTGAGTCTTGGACTTTG
1 AGAAGAGATGCCACTGAGTCATGGACTTTG
* *
1395517 AAGAA-TGAT-ACACTGAGTCATGGACTTTG
1 -AGAAGAGATGCCACTGAGTCATGGACTTTG
** *
1395546 AAGAAG-GATGCCACTGAGTTGTGGACTTAG
1 -AGAAGAGATGCCACTGAGTCATGGACTTTG
* **
1395576 AAAAGAGATGCCACTGAGTTGTGGACTTTG
1 AGAAGAGATGCCACTGAGTCATGGACTTTG
1395606 AAGAAG-GATGCCACTGAGTCATGGAC-TTG
1 -AGAAGAGATGCCACTGAGTCATGGACTTTG
* * *
1395635 AAGAAAAGATGCTACTAAGTCATGGACTTTG
1 -AGAAGAGATGCCACTGAGTCATGGACTTTG
1395666 AGAAG
1 AGAAG
1395671 GTTACATTAC
Statistics
Matches: 202, Mismatches: 32, Indels: 19
0.80 0.13 0.08
Matches are distributed among these distances:
29 43 0.21
30 147 0.73
31 12 0.06
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (30 bp):
AGAAGAGATGCCACTGAGTCATGGACTTTG
Found at i:1395479 original size:60 final size:58
Alignment explanation
Indices: 1395403--1395671 Score: 299
Period size: 60 Copynumber: 4.5 Consensus size: 58
1395393 AAAAAAGAAG
* *
1395403 GATGCCACTGAGTCATGGACTTTGAGAAGAGGTGCGACTGAGTCGTGGACTTGGAAAAAA
1 GATGCCACTGAGTCATGGACTTTGAGAAG-GATGCCACTGAGTCGTGGACTT-GAAAAAA
* * * * * *
1395463 AATGCCA-TGGAGTCATGGACTTGGAGAAGAGATGCCATTGAGTCTTGGACTTTGAAGAAT
1 GATGCCACT-GAGTCATGGACTTTGAGAAG-GATGCCACTGAGTCGTGGAC-TTGAAAAAA
* * *
1395523 GAT-ACACTGAGTCATGGACTTTGAAGAAGGATGCCACTGAGTTGTGGACTTAGAAAAGA
1 GATGCCACTGAGTCATGGACTTTG-AGAAGGATGCCACTGAGTCGTGGACTT-GAAAAAA
** *
1395582 GATGCCACTGAGTTGTGGACTTTGAAGAAGGATGCCACTGAGTCATGGACTTGAAGAAAA
1 GATGCCACTGAGTCATGGACTTTG-AGAAGGATGCCACTGAGTCGTGGACTTGAA-AAAA
* *
1395642 GATGCTACTAAGTCATGGACTTTGAGAAGG
1 GATGCCACTGAGTCATGGACTTTGAGAAGG
1395672 TTACATTACT
Statistics
Matches: 175, Mismatches: 27, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
58 2 0.01
59 50 0.29
60 121 0.69
61 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.24
Consensus pattern (58 bp):
GATGCCACTGAGTCATGGACTTTGAGAAGGATGCCACTGAGTCGTGGACTTGAAAAAA
Found at i:1395624 original size:119 final size:118
Alignment explanation
Indices: 1395408--1395671 Score: 327
Period size: 119 Copynumber: 2.2 Consensus size: 118
1395398 AGAAGGATGC
* * *
1395408 CACTGAGTCATGGACTTTGAGAAGAGGTGCGACTGAGTCGTGGACTTGGAAAAAAAATGCCATGG
1 CACTGAGTCATGGACTTTGAGAAG-GATGCCACTGAGTCGTGGACTTAGAAAAAAAATGCCATGG
* * * *
1395473 AGTCATGGACTTGGAGAAGAGATGCCATTGAGTCTTGGACTTTGAAG-AATGATA
65 AGTCATGGACTTGAAGAAGAGATGCCACTGAGTCATGGAC-TTGAAGAAAAGATA
* * *
1395527 CACTGAGTCATGGACTTTGAAGAAGGATGCCACTGAGTTGTGGACTTAGAAAAGAGATGCCACT-
1 CACTGAGTCATGGACTTTG-AGAAGGATGCCACTGAGTCGTGGACTTAGAAAAAAAATGCCA-TG
** *
1395591 GAGTTGTGGACTTTGAAGAAG-GATGCCACTGAGTCATGGACTTGAAGAAAAGATG
64 GAGTCATGGAC-TTGAAGAAGAGATGCCACTGAGTCATGGACTTGAAGAAAAGATA
*
1395646 CTACTAAGTCATGGACTTTGAGAAGG
1 C-ACTGAGTCATGGACTTTGAGAAGG
1395672 TTACATTACT
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
118 6 0.05
119 89 0.71
120 31 0.25
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.24
Consensus pattern (118 bp):
CACTGAGTCATGGACTTTGAGAAGGATGCCACTGAGTCGTGGACTTAGAAAAAAAATGCCATGGA
GTCATGGACTTGAAGAAGAGATGCCACTGAGTCATGGACTTGAAGAAAAGATA
Found at i:1397141 original size:33 final size:34
Alignment explanation
Indices: 1397073--1397144 Score: 85
Period size: 33 Copynumber: 2.1 Consensus size: 34
1397063 TTTTTGTCCC
* * *
1397073 TTTTTTTTGTTTTTGTTTTGTTCTGTGTTTCTCA
1 TTTTTTTTGTTTTTCTTTTGTACTGTGTTTATCA
*
1397107 TTTTTTTTGCTTTTTCTTTTG-ACT-TTTTTATCA
1 TTTTTTTTG-TTTTTCTTTTGTACTGTGTTTATCA
1397140 TTTTT
1 TTTTT
1397145 GAAGGGAACT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 12 0.36
34 11 0.33
35 10 0.30
ACGTcount: A:0.06, C:0.10, G:0.10, T:0.75
Consensus pattern (34 bp):
TTTTTTTTGTTTTTCTTTTGTACTGTGTTTATCA
Found at i:1398040 original size:19 final size:20
Alignment explanation
Indices: 1397996--1398049 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
1397986 CTGCTAATCT
* *
1397996 CATGTATCGATACAATTATC
1 CATGTATCGATACAACTATA
1398016 CATGTATCGATACAACTA-A
1 CATGTATCGATACAACTATA
1398035 CATGTATCGATACAA
1 CATGTATCGATACAA
1398050 AACATAATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAACTATA
Found at i:1405459 original size:20 final size:19
Alignment explanation
Indices: 1405413--1405463 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
1405403 AAAATCCCAG
1405413 AATGTATCGATACAAACAA
1 AATGTATCGATACAAACAA
* *
1405432 ATTGTATCGATAC-ATCTGAA
1 AATGTATCGATACAAAC--AA
1405452 AATGTATCGATA
1 AATGTATCGATA
1405464 TATTTACTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 2 0.07
19 12 0.44
20 13 0.48
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (19 bp):
AATGTATCGATACAAACAA
Found at i:1405571 original size:20 final size:21
Alignment explanation
Indices: 1405543--1405593 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
1405533 TTGAGACATA
* *
1405543 TATCGATACATTCACTTA-TG
1 TATCAATACATTCACTAATTG
1405563 TATCAATACATTCACTAATTG
1 TATCAATACATTCACTAATTG
*
1405584 TACCAATACA
1 TATCAATACA
1405594 AATTATAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.35
Consensus pattern (21 bp):
TATCAATACATTCACTAATTG
Found at i:1406389 original size:23 final size:23
Alignment explanation
Indices: 1406348--1406406 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
1406338 ATTAATTAAA
*
1406348 AATTTTAAAATTTTATATTAGATG
1 AATTTT-ATATTTTATATTAGATG
* **
1406372 ACATTTT-TATTTTTTATTTTATG
1 A-ATTTTATATTTTATATTAGATG
1406395 AATTTTATATTT
1 AATTTTATATTT
1406407 AATTCAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
22 5 0.17
23 18 0.62
24 1 0.03
25 5 0.17
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (23 bp):
AATTTTATATTTTATATTAGATG
Found at i:1406446 original size:23 final size:23
Alignment explanation
Indices: 1406414--1406457 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
1406404 TTTAATTCAA
* * *
1406414 ATATTTATATCATTTAATAAACT
1 ATATTAATATCAATAAATAAACT
1406437 ATATTAATATCAATAAATAAA
1 ATATTAATATCAATAAATAAA
1406458 TTAATATCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (23 bp):
ATATTAATATCAATAAATAAACT
Found at i:1406462 original size:18 final size:19
Alignment explanation
Indices: 1406429--1406468 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
1406419 TATATCATTT
*
1406429 AATAAACTATATTAATATC
1 AATAAACTAAATTAATATC
1406448 AATAAA-TAAATTAATATC
1 AATAAACTAAATTAATATC
1406466 AAT
1 AAT
1406469 CTTAAGAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (19 bp):
AATAAACTAAATTAATATC
Found at i:1406697 original size:35 final size:34
Alignment explanation
Indices: 1406629--1406699 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
1406619 AAATAAAAAG
1406629 TAAGTTAAAATTATGTAATAAAAATATAGTTTTT
1 TAAGTTAAAATTATGTAATAAAAATATAGTTTTT
* *
1406663 TAAGTTAATATTATCTTAATAAAAAGT-TA-TTTTT
1 TAAGTTAAAATTAT-GTAATAAAAA-TATAGTTTTT
1406697 TAA
1 TAA
1406700 AATAGAAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 21 0.64
35 11 0.33
36 1 0.03
ACGTcount: A:0.45, C:0.01, G:0.07, T:0.46
Consensus pattern (34 bp):
TAAGTTAAAATTATGTAATAAAAATATAGTTTTT
Found at i:1407918 original size:15 final size:16
Alignment explanation
Indices: 1407900--1407941 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
1407890 TAGTTTTATG
*
1407900 TTTTTTAAATTTAGCT
1 TTTTTTAAATTTAACT
1407916 TTTTTTAAATTTAA-T
1 TTTTTTAAATTTAACT
1407931 TTTTTTAAATT
1 TTTTTTAAATT
1407942 CATATTCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (16 bp):
TTTTTTAAATTTAACT
Found at i:1408249 original size:20 final size:20
Alignment explanation
Indices: 1408212--1408248 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
1408202 AGGATAAATT
*
1408212 TTATAATTTATATATTTTGA
1 TTATAATTTAAATATTTTGA
1408232 TTAT-ATTTAAATATTTT
1 TTATAATTTAAATATTTT
1408249 TATATATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
TTATAATTTAAATATTTTGA
Found at i:1408263 original size:18 final size:18
Alignment explanation
Indices: 1408242--1408322 Score: 63
Period size: 18 Copynumber: 4.3 Consensus size: 18
1408232 TTATATTTAA
*
1408242 ATATTTTTATATATTATT
1 ATATTTTAATATATTATT
*
1408260 ATATTTAAATATTATTTATAT
1 ATATTTTAATA-TA-TTAT-T
* *
1408281 AAATTTTAATATATTAAT
1 ATATTTTAATATATTATT
* * * *
1408299 AAATTATATTATATAATT
1 ATATTTTAATATATTATT
1408317 ATATTT
1 ATATTT
1408323 ATATCTCAAA
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
18 28 0.57
19 5 0.10
20 6 0.12
21 10 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATATTTTAATATATTATT
Found at i:1408305 original size:47 final size:47
Alignment explanation
Indices: 1408205--1408326 Score: 110
Period size: 47 Copynumber: 2.7 Consensus size: 47
1408195 AGCGGTTAGG
* * * * *
1408205 ATAAATT-TTATAATTTATATATT-TTGAT-TATATTTAAATATTTTT
1 ATAAATTATTAT-ATTTAAATATTATTTATATAAATTTAAATATATTA
* *
1408250 ATATATTATTATATTTAAATATTATTTATATAAATTTTAATATATTA
1 ATAAATTATTATATTTAAATATTATTTATATAAATTTAAATATATTA
* *
1408297 ATAAATTA-TATTATATAATTA-TATTTATAT
1 ATAAATTATTA-TATTTAAATATTATTTATAT
1408327 CTCAAATTAT
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
45 16 0.25
46 19 0.30
47 28 0.44
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.57
Consensus pattern (47 bp):
ATAAATTATTATATTTAAATATTATTTATATAAATTTAAATATATTA
Found at i:1409091 original size:29 final size:26
Alignment explanation
Indices: 1409052--1409135 Score: 82
Period size: 29 Copynumber: 3.1 Consensus size: 26
1409042 AATTTTTATA
*
1409052 AAAAAGATATTTATTTTTTTAATAATT
1 AAAAATATATTTATTTTTTT-ATAATT
*
1409079 AAAAATATTTATTTATTTTTAAATTTTAATT
1 AAAAATA--TATTTATTTTT---TTATAATT
1409110 AAAAATATATTTA-TTTTTTA-AATT
1 AAAAATATATTTATTTTTTTATAATT
1409134 AA
1 AA
1409136 TATTTTTAAG
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
24 6 0.12
25 2 0.04
27 6 0.12
28 4 0.08
29 17 0.35
31 12 0.24
32 2 0.04
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (26 bp):
AAAAATATATTTATTTTTTTATAATT
Found at i:1409103 original size:25 final size:25
Alignment explanation
Indices: 1409053--1409135 Score: 69
Period size: 25 Copynumber: 3.1 Consensus size: 25
1409043 ATTTTTATAA
*
1409053 AAAAGATATTTATTT-TTTTAATAATT
1 AAAA-ATATTTATTTATTTTTA-AATT
1409079 AAAAATATTTATTTATTTTTAAATTTT
1 AAAAATATTTATTTATTTTTAAA--TT
* *
1409106 AATTAAAAATATATTTATTTTTTAAATT
1 AA--AAATATTTATTTA-TTTTTAAATT
1409134 AA
1 AA
1409136 TATTTTTAAG
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
25 12 0.25
26 9 0.19
27 4 0.08
28 4 0.08
29 11 0.23
30 8 0.17
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (25 bp):
AAAAATATTTATTTATTTTTAAATT
Done.