Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold100
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: 904619
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.34
File 2 of 8
Found at i:148987 original size:2 final size:2
Alignment explanation
Indices: 148980--149009 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
148970 TAGGTAAGAA
148980 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
149010 TTAAAAATAG
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:150167 original size:21 final size:21
Alignment explanation
Indices: 150123--150165 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
150113 ATTTAAATTT
150123 AATAATAAAAAATATATTTTA
1 AATAATAAAAAATATATTTTA
150144 AATAATAAAAAATA-ATTTTA
1 AATAATAAAAAATATATTTTA
150164 AA
1 AA
150166 ATTAACGAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
AATAATAAAAAATATATTTTA
Found at i:150495 original size:35 final size:37
Alignment explanation
Indices: 150423--150494 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 37
150413 ATTCAAGTTG
*
150423 ATTTAAATTATTATTTATTAATAAAAATAATATTTTT
1 ATTTAAATTATTAATTATTAATAAAAATAATATTTTT
150460 ATTTAAA-T-TTAATTATTAATATAAAATAATATTTT
1 ATTTAAATTATTAATTATTAATA-AAAATAATATTTT
150495 AATAATATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 12 0.36
36 14 0.42
37 7 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (37 bp):
ATTTAAATTATTAATTATTAATAAAAATAATATTTTT
Found at i:151359 original size:14 final size:13
Alignment explanation
Indices: 151337--151371 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
151327 TTATTTTTAT
151337 TTAATTAAAAATA
1 TTAATTAAAAATA
151350 TTAATATAAAAATA
1 TTAAT-TAAAAATA
*
151364 TTATTTAA
1 TTAATTAA
151372 TTTTTTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TTAATTAAAAATA
Found at i:152265 original size:16 final size:16
Alignment explanation
Indices: 152240--152272 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
152230 ATTTTGAATA
152240 TTAAATATTTATAATTT
1 TTAAATATTTAT-ATTT
152257 TTAAA-ATTTATATTT
1 TTAAATATTTATATTT
152272 T
1 T
152273 ATGTAATGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 6 0.38
17 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTAAATATTTATATTT
Found at i:152300 original size:2 final size:2
Alignment explanation
Indices: 152293--152318 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
152283 GTATATTTCC
152293 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
152319 TTATTAGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:152799 original size:12 final size:11
Alignment explanation
Indices: 152777--152801 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
152767 CACGTTAGCA
152777 TAAAAAATTTT
1 TAAAAAATTTT
152788 TAAAAAATTTT
1 TAAAAAATTTT
152799 TAA
1 TAA
152802 TTTTTTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TAAAAAATTTT
Found at i:153549 original size:110 final size:110
Alignment explanation
Indices: 153351--153576 Score: 443
Period size: 110 Copynumber: 2.1 Consensus size: 110
153341 CCAGATGAAC
*
153351 TGTTTAATCTTTAATTAAGTCTACCATTGAGAGAGAAGAATTATAAAACAAATAATTATTTGAGA
1 TGTTCAATCTTTAATTAAGTCTACCATTGAGAGAGAAGAATTATAAAACAAATAATTATTTGAGA
153416 AATTTGGTTTTGATCATTGTTAATATCTACAATCTAATTAAAAGT
66 AATTTGGTTTTGATCATTGTTAATATCTACAATCTAATTAAAAGT
153461 TGTTCAATCTTTAATTAAGTCTACCATTGAGAGAGAAGAATTATAAAACAAATAATTATTTGAGA
1 TGTTCAATCTTTAATTAAGTCTACCATTGAGAGAGAAGAATTATAAAACAAATAATTATTTGAGA
153526 AATTTGGTTTTGATCATTGTTAATATCTACAATCTAATTAAAAGT
66 AATTTGGTTTTGATCATTGTTAATATCTACAATCTAATTAAAAGT
153571 TGTTCA
1 TGTTCA
153577 GCGGAGATTG
Statistics
Matches: 115, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
110 115 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (110 bp):
TGTTCAATCTTTAATTAAGTCTACCATTGAGAGAGAAGAATTATAAAACAAATAATTATTTGAGA
AATTTGGTTTTGATCATTGTTAATATCTACAATCTAATTAAAAGT
Found at i:153788 original size:12 final size:11
Alignment explanation
Indices: 153767--153811 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
153757 TGTATATAGT
*
153767 GAAAGGAAAAAG
1 GAAA-GAAAAAA
153779 GAAAGAAAAAA
1 GAAAGAAAAAA
153790 GAAAGAAAAAGA
1 GAAAGAAAAA-A
*
153802 AAAAGAAAAA
1 GAAAGAAAAA
153812 TTTTATGTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 16 0.53
12 14 0.47
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (11 bp):
GAAAGAAAAAA
Found at i:156473 original size:16 final size:16
Alignment explanation
Indices: 156429--156492 Score: 51
Period size: 16 Copynumber: 3.9 Consensus size: 16
156419 TATCAATTCT
**
156429 AATTTAAATTTAAAAA
1 AATTTAAATTTAATTA
156445 AATTTGATAAATTTAATTA
1 AA-TT--TAAATTTAATTA
*
156464 AATTTAAATTTGATCT-
1 AATTTAAATTTAAT-TA
156480 AATTT-AATTTAAT
1 AATTTAAATTTAAT
156493 CATAAAAGGT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
15 7 0.17
16 16 0.40
17 3 0.08
18 2 0.05
19 12 0.30
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (16 bp):
AATTTAAATTTAATTA
Found at i:159447 original size:13 final size:13
Alignment explanation
Indices: 159429--159455 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
159419 ACATTATGCT
159429 TTGTATCGATACA
1 TTGTATCGATACA
159442 TTGTATCGATACA
1 TTGTATCGATACA
159455 T
1 T
159456 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:159485 original size:20 final size:19
Alignment explanation
Indices: 159439--159495 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
159429 TTGTATCGAT
*
159439 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
159458 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
159477 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
159496 AAACTAGCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:159552 original size:20 final size:20
Alignment explanation
Indices: 159527--159577 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
159517 CCACTGTTTA
*
159527 TATCGATACATGGT-ACATAG
1 TATCGATACATGATGA-ATAG
*
159547 TATCGATACATGATGAATTG
1 TATCGATACATGATGAATAG
159567 TATCGATACAT
1 TATCGATACAT
159578 TGCTTCTAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (20 bp):
TATCGATACATGATGAATAG
Found at i:161041 original size:21 final size:21
Alignment explanation
Indices: 161015--161069 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
161005 AAAAAATCCA
161015 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
161036 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
161057 AATGTATCGATAC
1 AATGTATCGATAC
161070 CGGGTCCCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:161130 original size:19 final size:19
Alignment explanation
Indices: 161106--161173 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
161096 AATTCAACAG
161106 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
161125 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
161140 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
161157 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
161174 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:161144 original size:32 final size:32
Alignment explanation
Indices: 161108--161170 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
161098 TTCAACAGTT
*
161108 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
161140 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
161171 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:161145 original size:13 final size:13
Alignment explanation
Indices: 161127--161151 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
161117 ACATAAGTTT
161127 TGTATCGATACAA
1 TGTATCGATACAA
161140 TGTATCGATACA
1 TGTATCGATACA
161152 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:161231 original size:13 final size:13
Alignment explanation
Indices: 161213--161238 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
161203 CATTTTTCTG
161213 TGTATCGATACAT
1 TGTATCGATACAT
161226 TGTATCGATACAT
1 TGTATCGATACAT
161239 GGATCTTTGT
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:161235 original size:33 final size:33
Alignment explanation
Indices: 161193--161259 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
161183 GCCAAGGAAA
***
161193 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
161226 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
161259 T
1 T
161260 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:163726 original size:54 final size:51
Alignment explanation
Indices: 163593--163726 Score: 171
Period size: 51 Copynumber: 2.6 Consensus size: 51
163583 TTGAGTTTCT
* * *
163593 CAATTCTCCACAATCGGGGATATTCCAACTCCAATTTTATTTTCAAAACAC
1 CAATTCTTCACAATCGGGGATACTCCAACTCCAATTTTATTTCCAAAACAC
* * *
163644 TAATT-TTCTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACAC
1 CAATTCTTC-ACAATCGGGGATACTCCAACTCCAATTTTATTTCC--AAAACAC
163697 CAATTTCTTCACAATCGGGGATACTCCAAC
1 CAA-TTCTTCACAATCGGGGATACTCCAAC
163727 CTCGTTAATC
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
50 2 0.03
51 35 0.50
53 9 0.13
54 21 0.30
55 3 0.04
ACGTcount: A:0.33, C:0.26, G:0.10, T:0.31
Consensus pattern (51 bp):
CAATTCTTCACAATCGGGGATACTCCAACTCCAATTTTATTTCCAAAACAC
Found at i:163796 original size:31 final size:28
Alignment explanation
Indices: 163713--163785 Score: 94
Period size: 27 Copynumber: 2.6 Consensus size: 28
163703 CTTCACAATC
* * ***
163713 GGGGATACTCCAACCTCGTTA-ATCATC
1 GGGGATACTCCAACCCCGTTATTTCCGA
163740 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTATTTCCGA
163768 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
163786 ACTTTATTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 20 0.50
28 20 0.50
ACGTcount: A:0.23, C:0.33, G:0.22, T:0.22
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCCGA
Found at i:163833 original size:51 final size:52
Alignment explanation
Indices: 163768--163887 Score: 181
Period size: 51 Copynumber: 2.3 Consensus size: 52
163758 TTATTTCCGA
* * *
163768 GGGGATACTCCAACCCCGA-CTTTATTTCCAAAATATTGATTTTTCATAATC
1 GGGGATACTCCAACCCCGAGCTTTATTCCCAAAACATTGATTTCTCATAATC
* *
163819 GGGGATACTCCAACCCC-AGCTTTATTCCCAAAGCATTGATTTCTCATAATT
1 GGGGATACTCCAACCCCGAGCTTTATTCCCAAAACATTGATTTCTCATAATC
163870 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
163888 TTATTTTCAA
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
50 1 0.02
51 61 0.98
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.30
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGAGCTTTATTCCCAAAACATTGATTTCTCATAATC
Found at i:163902 original size:79 final size:79
Alignment explanation
Indices: 163819--163993 Score: 215
Period size: 79 Copynumber: 2.2 Consensus size: 79
163809 TTTCATAATC
* * * **
163819 GGGGATACTCCAACCCCAGCTTTATTCCCAAAGCATTGATTTCTCATAATTGGGGATACTCCAAC
1 GGGGATACTCCAACCCCAACTTTATTCCCAAAGCATCGATTTCTCACAACCGGGGATACTCCAAC
163884 CCCGTTATTTTCAA
66 CCCGTTATTTTCAA
* * * ** * * *
163898 GGGGATACTCCAATCCCAATTTTTTTTTCTAATCATCGATTTCTCACAACCGGGGATACTCCAGC
1 GGGGATACTCCAACCCCAACTTTATTCCCAAAGCATCGATTTCTCACAACCGGGGATACTCCAAC
163963 CCCGTTATTTTCAA
66 CCCGTTATTTTCAA
* *
163977 GGGAACACTCCAACCCC
1 GGGGATACTCCAACCCC
163994 GTTATTATCT
Statistics
Matches: 80, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.30
Consensus pattern (79 bp):
GGGGATACTCCAACCCCAACTTTATTCCCAAAGCATCGATTTCTCACAACCGGGGATACTCCAAC
CCCGTTATTTTCAA
Found at i:167117 original size:16 final size:16
Alignment explanation
Indices: 167096--167127 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
167086 TTCAAGACAA
167096 GTCCAAAAAGCAATGG
1 GTCCAAAAAGCAATGG
*
167112 GTCCAAAAAGGAATGG
1 GTCCAAAAAGCAATGG
167128 CTTCATGGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.16, G:0.28, T:0.12
Consensus pattern (16 bp):
GTCCAAAAAGCAATGG
Found at i:175666 original size:12 final size:12
Alignment explanation
Indices: 175649--175707 Score: 57
Period size: 13 Copynumber: 4.7 Consensus size: 12
175639 CTTCTCTTCA
175649 AAAAAAAAAAGC
1 AAAAAAAAAAGC
*
175661 AAAAAAAAAAGGA
1 AAAAAAAAAA-GC
*
175674 AAAAAAACAAAAC
1 AAAAAAA-AAAGC
175687 AAAAAACAAAA-C
1 AAAAAA-AAAAGC
175699 AAAGAAAAA
1 AAA-AAAAA
175708 GAGAGAAAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
12 16 0.40
13 20 0.50
14 4 0.10
ACGTcount: A:0.85, C:0.08, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAGC
Found at i:175679 original size:22 final size:22
Alignment explanation
Indices: 175651--175692 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
175641 TCTCTTCAAA
175651 AAAAAAAAGCAAAA-AAAAAAGG
1 AAAAAAAA-CAAAACAAAAAAGG
175673 AAAAAAAACAAAACAAAAAA
1 AAAAAAAACAAAACAAAAAA
175693 CAAAACAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.86, C:0.07, G:0.07, T:0.00
Consensus pattern (22 bp):
AAAAAAAACAAAACAAAAAAGG
Found at i:175697 original size:21 final size:21
Alignment explanation
Indices: 175651--175707 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
175641 TCTCTTCAAA
*
175651 AAAAAAAAGCAAAAAAAAAAGG
1 AAAAAAAA-CAAAAAAAAAAGC
175673 AAAAAAAACAAAACAAAAAA-C
1 AAAAAAAACAAAA-AAAAAAGC
* *
175694 AAAACAAAGAAAAA
1 AAAAAAAACAAAAA
175708 GAGAGAAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 1 0.03
21 16 0.52
22 14 0.45
ACGTcount: A:0.84, C:0.09, G:0.07, T:0.00
Consensus pattern (21 bp):
AAAAAAAACAAAAAAAAAAGC
Found at i:176793 original size:59 final size:59
Alignment explanation
Indices: 176691--177404 Score: 919
Period size: 59 Copynumber: 12.3 Consensus size: 59
176681 TCCGCTTTTT
*
176691 AGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCC-TTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
*
176751 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * *
176810 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCGAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
176869 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTC
* * * *
176929 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCGAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * *
176988 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCGAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
177047 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCA-CCTTC
* * *
177108 AGTCCTCAAAGAGTAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTC
* *
177169 AGTCCCCAAAGAGCAGGAC-CC----CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTC
* * * **
177224 AGTCCCCGAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C
*
177279 AGTCCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTC
* * * *
177334 AGTCCTCAAAGAGCTGGACGCC-TTTC----AAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTC
177389 AGTCCTCAAAGAGCAG
1 AGTCCTCAAAGAGCAG
177405 AATATACTTT
Statistics
Matches: 599, Mismatches: 40, Indels: 35
0.89 0.06 0.05
Matches are distributed among these distances:
53 2 0.00
54 2 0.00
55 175 0.29
56 8 0.01
57 2 0.00
59 234 0.39
60 98 0.16
61 78 0.13
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.25
Consensus pattern (59 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
Found at i:176994 original size:178 final size:178
Alignment explanation
Indices: 176691--177404 Score: 995
Period size: 178 Copynumber: 4.1 Consensus size: 178
176681 TCCGCTTTTT
176691 AGTCCTCAAAGAGCAGGATGCCTTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTCAGTC
1 AGTCCTCAAAGAGCAGGATG-CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTC
*
176755 CTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAA
65 CTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAA
*
176819 AGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCGAGTTGGTGGCACCTTC
130 AGAGCGGGACGCC-TTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTTC
176869 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCC
1 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCC
* * *
176934 TCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCGAGTTGGTGGCACCTTT-AGTCCTCAAA
66 TCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
*
176998 GAGCGGGACGCCTTTTCTTTTAAAGCCCACCCGAGTTGGTGGCACCTTC
131 GAGCGGGACGCC-TTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTTC
177047 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCCTTCAGTC
1 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-CCTTCAGTC
* * * *
177112 CTCAAAGAGTAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCA
65 CTCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
* * *
177177 AAGAGCAGGAC-CC---CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
129 AAGAGCGGGACGCCTTTCTTTTAAAGCCCACACGAGTTGGTGGCACC-TTC
* * * * **
177224 AGTCCCCGAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTC
1 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT-CAGTC
*
177283 CTCAAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAA
65 CTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAA
* * *
177343 AGAGCTGGACGCCTTTC----AAAGCCCACACGAGTTGGTGGCACTTTTT
130 AGAGCGGGACGCCTTTCTTTTAAAGCCCACACGAGTTGGTGGCAC-CTTC
177389 AGTCCTCAAAGAGCAG
1 AGTCCTCAAAGAGCAG
177405 AATATACTTT
Statistics
Matches: 494, Mismatches: 30, Indels: 37
0.88 0.05 0.07
Matches are distributed among these distances:
165 85 0.17
166 4 0.01
168 2 0.00
169 1 0.00
170 2 0.00
171 47 0.10
175 1 0.00
176 27 0.05
177 30 0.06
178 216 0.44
179 34 0.07
180 28 0.06
181 17 0.03
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.25
Consensus pattern (178 bp):
AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCC
TCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
GAGCGGGACGCCTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTTC
Found at i:180497 original size:54 final size:51
Alignment explanation
Indices: 180364--180497 Score: 171
Period size: 51 Copynumber: 2.6 Consensus size: 51
180354 TTGAGTTTCT
* * *
180364 CAATTCTCCACAATCGGGGATATTCCAACTCCAATTTTATTTTCAAAACAC
1 CAATTCTTCACAATCGGGGATACTCCAACTCCAATTTTATTTCCAAAACAC
* * *
180415 TAATT-TTCTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACAC
1 CAATTCTTC-ACAATCGGGGATACTCCAACTCCAATTTTATTTCC--AAAACAC
180468 CAATTTCTTCACAATCGGGGATACTCCAAC
1 CAA-TTCTTCACAATCGGGGATACTCCAAC
180498 CTCGTTAATC
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
50 2 0.03
51 35 0.50
53 9 0.13
54 21 0.30
55 3 0.04
ACGTcount: A:0.33, C:0.26, G:0.10, T:0.31
Consensus pattern (51 bp):
CAATTCTTCACAATCGGGGATACTCCAACTCCAATTTTATTTCCAAAACAC
Found at i:180567 original size:31 final size:28
Alignment explanation
Indices: 180484--180556 Score: 94
Period size: 27 Copynumber: 2.6 Consensus size: 28
180474 CTTCACAATC
* * ***
180484 GGGGATACTCCAACCTCGTTA-ATCATC
1 GGGGATACTCCAACCCCGTTATTTCCGA
180511 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTATTTCCGA
180539 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
180557 ACTTTATTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 20 0.50
28 20 0.50
ACGTcount: A:0.23, C:0.33, G:0.22, T:0.22
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCCGA
Found at i:180603 original size:79 final size:79
Alignment explanation
Indices: 180508--180793 Score: 358
Period size: 79 Copynumber: 3.6 Consensus size: 79
180498 CTCGTTAATC
*
180508 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGACTTTATTTCCAAAAT
*
180573 ATTGATTTTTCATA
66 ATTGATTTCTCATA
* * * * * *
180587 ATCGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAGT
1 ATCGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGACTTTATTTCCAAAAT
180652 ATTGATTTCTCATA
66 ATTGATTTCTCATA
* * * * * * *
180666 ATTGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAATCCCGATTTTTTTTTC-TAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGACTTTATTTCCAAAAT
* *
180730 CATCGATTTCTCACA
66 -ATTGATTTCTCATA
* * * * *
180745 ACCGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCG
180794 TTATTATCTC
Statistics
Matches: 179, Mismatches: 27, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
78 2 0.01
79 177 0.99
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGACTTTATTTCCAAAAT
ATTGATTTCTCATA
Found at i:182101 original size:9 final size:9
Alignment explanation
Indices: 182084--182117 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
182074 GTCAACCATC
182084 AATGATGAT
1 AATGATGAT
182093 GAA-GATGAT
1 -AATGATGAT
182102 AATGATGAT
1 AATGATGAT
182111 AATGATG
1 AATGATG
182118 GTAACTCGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 2 0.09
9 19 0.83
10 2 0.09
ACGTcount: A:0.44, C:0.00, G:0.26, T:0.29
Consensus pattern (9 bp):
AATGATGAT
Found at i:186024 original size:79 final size:79
Alignment explanation
Indices: 185892--186039 Score: 176
Period size: 79 Copynumber: 1.9 Consensus size: 79
185882 AGATAACAAC
* ** * *
185892 GGGGTTGGAGTACCCTTGATTATAGAAAATTGATGTTTTAAAAATAAAATCGGGATTTG-AGTAT
1 GGGGTTGGAGTACCCTCGATTATAGAAAATCAATATTTTAAAAATAAAATCGGG-GTTGAAGTAT
185956 CCCCGTGAAAATAAT
65 CCCCGTGAAAATAAT
* **
185971 GGGGTTGGAGTATCCC-CGATTAT-GAGAAATCAATATTTTAGAAATAAGGTCGGGGTTGAAGTA
1 GGGGTTGGAGTA-CCCTCGATTATAGA-AAATCAATATTTTAAAAATAAAATCGGGGTTGAAGTA
186034 TCCCCG
64 TCCCCG
186040 ATTGTGAGAA
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
78 5 0.09
79 50 0.86
80 3 0.05
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (79 bp):
GGGGTTGGAGTACCCTCGATTATAGAAAATCAATATTTTAAAAATAAAATCGGGGTTGAAGTATC
CCCGTGAAAATAAT
Found at i:186037 original size:51 final size:51
Alignment explanation
Indices: 185971--186068 Score: 169
Period size: 51 Copynumber: 1.9 Consensus size: 51
185961 TGAAAATAAT
*
185971 GGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAGGTC
1 GGGGTTGAAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAGGTC
* *
186022 GGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAA
1 GGGGTTGAAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAA
186069 AACCGGGCTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.30
Consensus pattern (51 bp):
GGGGTTGAAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAGGTC
Found at i:186085 original size:51 final size:50
Alignment explanation
Indices: 185978--186089 Score: 152
Period size: 51 Copynumber: 2.2 Consensus size: 50
185968 AATGGGGTTG
*** *
185978 GAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAGGTCGGGGTT
1 GAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAACCGGGCTT
* *
186028 GAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAACCGGGCTT
1 G-AGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAACCGGGCTT
186079 AGAGTATCCCC
1 -GAGTATCCCC
186090 TCAGCAATAA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
50 1 0.02
51 52 0.96
52 1 0.02
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (50 bp):
GAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAACCGGGCTT
Found at i:186112 original size:28 final size:30
Alignment explanation
Indices: 186080--186145 Score: 86
Period size: 28 Copynumber: 2.3 Consensus size: 30
186070 ACCGGGCTTA
* *
186080 GAGTATCCCCTC-A-GCAATAACGGTGTTG
1 GAGTATCCCCTCGATGAAATAACGGGGTTG
186108 GAGTAT--CCTCGATGAAATAACGGGGTTG
1 GAGTATCCCCTCGATGAAATAACGGGGTTG
186136 GAGTATCCCC
1 GAGTATCCCC
186146 AATTGTGAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 4 0.12
27 1 0.03
28 25 0.78
30 2 0.06
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (30 bp):
GAGTATCCCCTCGATGAAATAACGGGGTTG
Found at i:186192 original size:51 final size:51
Alignment explanation
Indices: 186132--186230 Score: 146
Period size: 51 Copynumber: 1.9 Consensus size: 51
186122 AAATAACGGG
* *
186132 GTTGGAGTATCCCCAATTGT-GAGACATTATTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCAATTGTGGAGA-ATTAGTGTTTTAGAAATAAAATCGGA
* *
186183 GTTGGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAATC
1 GTTGGAGTATCCCCAATTGTGGAGAATTAGTGTTTTAGAAATAAAATC
186231 AAGGTTAGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 39 0.91
52 4 0.09
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.33
Consensus pattern (51 bp):
GTTGGAGTATCCCCAATTGTGGAGAATTAGTGTTTTAGAAATAAAATCGGA
Found at i:186239 original size:158 final size:158
Alignment explanation
Indices: 185950--186271 Score: 380
Period size: 158 Copynumber: 2.0 Consensus size: 158
185940 ATCGGGATTT
* *
185950 GAGTATCCCCGTGAAAATAATGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAA
1 GAGTATCCCCGTGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAA
** * * **
186015 TAAGGTCGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAACCGGGCTTA
66 TAAAATCGGAGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAACAAGGCTTA
* * *
186080 GAGTATCCCCTCAGCAATAACGGTGTTG
131 GAATATCCCCTCAGAAATAACGGGGTTG
* * * * * * *
186108 GAGTATCCTCGATG-AAATAACGGGGTTGGAGTATCCCCAATTGTGAGACATTATTGTTTTGGAA
1 GAGTATCCCCG-TGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAA
* *** *
186172 ATAAAATCGGAGTTGGAGTATCCCCGATTGTG-GAGAATTGGTGTTTTAGAAATAAAATCAAGG-
65 ATAAAATCGGAGTTGAAGTATCCCCGATTGTGAGA-AATCAATATTTTAGAAATAAAA-CAAGGC
*
186235 TTAGAATATCCCCTTAGAAATAACGGGGTTG
128 TTAGAATATCCCCTCAGAAATAACGGGGTTG
186266 GAGTAT
1 GAGTAT
186272 TCCTGATTAT
Statistics
Matches: 137, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
157 2 0.01
158 130 0.95
159 5 0.04
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (158 bp):
GAGTATCCCCGTGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAA
TAAAATCGGAGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAACAAGGCTTA
GAATATCCCCTCAGAAATAACGGGGTTG
Found at i:186245 original size:51 final size:51
Alignment explanation
Indices: 186139--186247 Score: 123
Period size: 51 Copynumber: 2.1 Consensus size: 51
186129 GGGGTTGGAG
* * * * *
186139 TATCCCCAATTGTGAGACATTATTGTTTTGGAAATAAAATCGGAGTTGGAG
1 TATCCCCAATTGTGAGACATTAGTGTTTTAGAAATAAAATCAGAGTTAGAA
* *
186190 TATCCCCGATTGTGGAGA-ATTGGTGTTTTAGAAATAAAATCA-AGGTTAGAA
1 TATCCCCAATTGT-GAGACATTAGTGTTTTAGAAATAAAATCAGA-GTTAGAA
186241 TATCCCC
1 TATCCCC
186248 TTAGAAATAA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
50 1 0.02
51 44 0.90
52 4 0.08
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (51 bp):
TATCCCCAATTGTGAGACATTAGTGTTTTAGAAATAAAATCAGAGTTAGAA
Found at i:186270 original size:79 final size:79
Alignment explanation
Indices: 186183--186357 Score: 194
Period size: 79 Copynumber: 2.2 Consensus size: 79
186173 TAAAATCGGA
* * * * *
186183 GTTGGAGTATCCCCGATTGTGGAGAATTG-GTGTTTTAGAAATAAA-ATCAAGGTTAGAATATCC
1 GTTGGAGTATCCCCGATTAT-GAGAAATGAATATTTTAGAAATAAAGCT-AAGGTTAGAATAT-C
186246 CCTT-AGAAATAACGGG
63 CCTTCAGAAATAACGGG
* * ** * *
186262 GTTGGAGTATTCCTGATTATGAGAAATGAATATTTTAGAAATAAAGCTGGGGTTGGAGTATCCCT
1 GTTGGAGTATCCCCGATTATGAGAAATGAATATTTTAGAAATAAAGCTAAGGTTAGAATATCCCT
*
186327 TCGGAAATAACGGG
66 TCAGAAATAACGGG
186341 GTTGGAGTATCCCCGAT
1 GTTGGAGTATCCCCGAT
186358 GAAAAATTGA
Statistics
Matches: 79, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
78 12 0.15
79 66 0.84
80 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.30
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATTATGAGAAATGAATATTTTAGAAATAAAGCTAAGGTTAGAATATCCCT
TCAGAAATAACGGG
Found at i:188858 original size:19 final size:20
Alignment explanation
Indices: 188834--188887 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
188824 AGCGATACAT
188834 TGTATCGATACAAAACT-TA
1 TGTATCGATACAAAACTGTA
** *
188853 TGTATCGATACAGTTACTGTT
1 TGTATCGATACA-AAACTGTA
188874 TGTATCGATACAAA
1 TGTATCGATACAAA
188888 TTGTTTGAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 12 0.43
20 3 0.11
21 13 0.46
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (20 bp):
TGTATCGATACAAAACTGTA
Found at i:188894 original size:19 final size:19
Alignment explanation
Indices: 188833--188894 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
188823 TAGCGATACA
188833 TTGTATCGATACAAAACT-T
1 TTGTATCGATAC-AAACTGT
* *
188852 ATGTATCGATACAGTTACTGT
1 TTGTATCGATACA--AACTGT
*
188873 TTGTATCGATACAAATTGT
1 TTGTATCGATACAAACTGT
188892 TTG
1 TTG
188895 AAATTCAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
18 1 0.03
19 18 0.51
20 3 0.09
21 13 0.37
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (19 bp):
TTGTATCGATACAAACTGT
Found at i:190779 original size:15 final size:15
Alignment explanation
Indices: 190759--190788 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
190749 AAATTTTCAG
190759 AATGTATCGATACAT
1 AATGTATCGATACAT
190774 AATGTATCGATACAT
1 AATGTATCGATACAT
190789 CTAGAAAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (15 bp):
AATGTATCGATACAT
Found at i:191614 original size:20 final size:20
Alignment explanation
Indices: 191568--191642 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
191558 TTTTACCCAG
* *
191568 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTCATGA
*
191588 ATATATCGATACATGT-ATGA
1 ATGTATCGATACAT-TCATGA
* * *
191608 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTCATGA
191628 ATGTATCGATACATT
1 ATGTATCGATACATT
191643 ATGTCTTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 1 0.02
20 44 0.96
21 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTCATGA
Found at i:197668 original size:95 final size:95
Alignment explanation
Indices: 197548--197725 Score: 275
Period size: 95 Copynumber: 1.9 Consensus size: 95
197538 GAGGGCTGAC
** *
197548 AATGTGCCAATTCAAGGCCAACGACATCGAGCTAAGGGAAAAGTGGACAATGTGCTAATTCAAGG
1 AATGTGCCAATTCAAGGCCAACGACATCGAGCTAAGGGAAAAACGGACAATGTGCTAATTCAAGA
*
197613 CTAGCAACATTGAGCTAAGGGAAAATGGAT
66 CCAGCAACATTGAGCTAAGGGAAAATGGAT
* * * *
197643 AATGTGCTAATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAACGGACAATGTGCTGATTCAAGA
1 AATGTGCCAATTCAAGGCCAACGACATCGAGCTAAGGGAAAAACGGACAATGTGCTAATTCAAGA
*
197708 CCAGCGACATTGAGCTAA
66 CCAGCAACATTGAGCTAA
197726 TAAAGGTGCC
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
95 74 1.00
ACGTcount: A:0.37, C:0.18, G:0.26, T:0.19
Consensus pattern (95 bp):
AATGTGCCAATTCAAGGCCAACGACATCGAGCTAAGGGAAAAACGGACAATGTGCTAATTCAAGA
CCAGCAACATTGAGCTAAGGGAAAATGGAT
Found at i:197670 original size:47 final size:47
Alignment explanation
Indices: 197545--197725 Score: 263
Period size: 48 Copynumber: 3.8 Consensus size: 47
197535 TTAGAGGGCT
* * *
197545 GACAATGTGCCAATTCAAGGCCAACGACATCGAGCTAAGGGAAAAGTG
1 GACAATGTGCTAATTCAAGGCCAGCGACATTGAGCTAAGGGAAAA-TG
* *
197593 GACAATGTGCTAATTCAAGGCTAGCAACATTGAGCTAAGGGAAAATG
1 GACAATGTGCTAATTCAAGGCCAGCGACATTGAGCTAAGGGAAAATG
* *
197640 GATAATGTGCTAATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAACG
1 GACAATGTGCTAATTCAAGGCCAGCGACATTGAGCTAAGGG-AAAATG
* *
197688 GACAATGTGCTGATTCAAGACCAGCGACATTGAGCTAA
1 GACAATGTGCTAATTCAAGGCCAGCGACATTGAGCTAA
197726 TAAAGGTGCC
Statistics
Matches: 120, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
47 40 0.33
48 80 0.67
ACGTcount: A:0.37, C:0.18, G:0.26, T:0.19
Consensus pattern (47 bp):
GACAATGTGCTAATTCAAGGCCAGCGACATTGAGCTAAGGGAAAATG
Found at i:197888 original size:28 final size:28
Alignment explanation
Indices: 197854--199047 Score: 774
Period size: 28 Copynumber: 42.1 Consensus size: 28
197844 CTAACTTCTA
197854 TGGGCTTTGAAAGGATGCCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* *
197882 TGGGCTTTGGAAGGATGCCACTGACTCG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * *
197910 TGGGCTTTGAAAAGTTGCCACTGACTCG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* *
197938 TGGGCTTTG-AAGAGTTGCCACTGACTTT
1 TGGGCTTTGAAAG-GATGCCACTGACTTG
* *
197966 TGGGCTTGGAAAAGATGCCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* *
197994 TGGGCTTTG-AAGAGTTGCCACTGACTCG
1 TGGGCTTTGAAAG-GATGCCACTGACTTG
*
198022 TGGGCTTTG-AAGAGTTGCCACTGACTTG
1 TGGGCTTTGAAAG-GATGCCACTGACTTG
* * *
198050 TGGGCTTGGAAAAGATGCCATTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* *
198078 TGGGCTTTGAAAAGATGCCACCGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * *
198106 TGGACATTGAAAAGG-TGCCACTAACTTG
1 TGGGCTTTG-AAAGGATGCCACTGACTTG
* *
198134 TGGGCTTTGAAAGGGTGCCCCTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* *
198162 TGGGCTTTGAAAAGATGCCACCGACTTGTG
1 TGGGCTTTGAAAGGATGCCACTGAC-T-TG
* *
198192 TGGGCTTTGAAATGGGTTGCCACCGACTTG
1 TGGGCTTTGAAA--GGATGCCACTGACTTG
* **
198222 TGTGAGCTTTGAAATGGGTTGCCACCAACTTGTG
1 TG-G-GCTTTGAAA--GGATGCCACTGAC-T-TG
* **
198256 TGGGCTTTGAAATAGGTTGCCACCAACTTGTG
1 TGGGCTTTG-AA-AGGATGCCACTGAC-T-TG
* **
198288 TGGGCTTTGAAATGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAAA--GGATGCCACTGAC-T-TG
* * *
198320 TGGGCTTTCAAATGAGTTGCCACCGACTTG
1 TGGGCTTTGAAA-G-GATGCCACTGACTTG
* *
198350 TGTGAGCTTTGAAATAGGCTGCCACCGACTTGTG
1 TG-G-GCTTTG-AA-AGGATGCCACTGAC-T-TG
* * *
198384 TGGGCTTTGAAAGGGTGCTACTAACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * *
198412 TGGGCTTTAAAATGATGCCACTAACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
198440 TGGGCTTTGAAAGGATGCCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * *
198468 TTGGCTTTGGAAA-GATACCACTAACTTG
1 TGGGCTTT-GAAAGGATGCCACTGACTTG
* *
198496 TGGGCTTTGAAAAGATGCCACTGACTTA
1 TGGGCTTTGAAAGGATGCCACTGACTTG
*
198524 TGGGCTTTGAAATGG-TGCCACTAACTTG
1 TGGGCTTTGAAA-GGATGCCACTGACTTG
* *
198552 TGTGTTTTGAAAGGATGCCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
*
198580 TGGGCTTTGAAAAGATGCCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
198608 TGGGCTTTGAGAAGGATGCCACTGACTTG
1 TGGGCTTTGA-AAGGATGCCACTGACTTG
* **
198637 T-GGCTTTGAAAGG-TGCCACGGAGATG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * * *
198663 TGGAC-TTAAAAGGATGCCACGGAATTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * * * *
198690 T-AGATTTCAAAAGAGTGCCA-TAGAGTTG
1 TGGGCTTTGAAAGGA-TGCCACT-GACTTG
* * * * *
198718 TGGAC-TTAAAAGGGTGCCACGGAGTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * * **
198745 TGGACTTT-AAAGGGTGCCACAGGGTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * * * *
198772 TGGAC-TTAAAAGGGTACCA-TGGAGTTG
1 TGGGCTTTGAAAGGATGCCACT-GACTTG
* * * *
198799 TGGAC-TTAAAAGGGTGCCAC-GAAATTG
1 TGGGCTTTGAAAGGATGCCACTG-ACTTG
* * * * *
198826 TGGAC-TTAAAAGAATGCCACGGAGTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * * * *
198853 TGGAC-TTAAAAGGGTGCCACGGAGTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* ** * * * *
198880 TGGACTTCAAAAGGGTTCCACGGAGTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * * * *
198908 TGGACTTTAAAAGGATGCCACAGAGTTA
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * * * *
198936 TGGAC-TTAAAAGGGTGCCACGGAGTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * * *
198963 TGGACTTT-AAAGGGTGCCACGGAGTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * * * *
198990 TGGACTTTAAAAGGGTGCCACGGAGTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * * *
199018 TGGACTTTAAAAGGATGCCACGGAGTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
199046 TG
1 TG
199048 AACTTTAAAA
Statistics
Matches: 1003, Mismatches: 117, Indels: 92
0.83 0.10 0.08
Matches are distributed among these distances:
26 21 0.02
27 218 0.22
28 541 0.54
29 33 0.03
30 33 0.03
31 9 0.01
32 129 0.13
33 9 0.01
34 10 0.01
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (28 bp):
TGGGCTTTGAAAGGATGCCACTGACTTG
Found at i:198218 original size:32 final size:32
Alignment explanation
Indices: 198132--198399 Score: 363
Period size: 32 Copynumber: 8.6 Consensus size: 32
198122 GCCACTAACT
198132 TGTGGGCTTTGAAA-GGG-TGCC-CCTGAC-T-
1 TGTGGGCTTTGAAATGGGTTGCCACC-GACTTG
* *
198160 TGTGGGCTTTGAAA--AGATGCCACCGACTTG
1 TGTGGGCTTTGAAATGGGTTGCCACCGACTTG
198190 TGTGGGCTTTGAAATGGGTTGCCACCGACTTG
1 TGTGGGCTTTGAAATGGGTTGCCACCGACTTG
* *
198222 TGTGAGCTTTGAAATGGGTTGCCACCAACTTG
1 TGTGGGCTTTGAAATGGGTTGCCACCGACTTG
* *
198254 TGTGGGCTTTGAAATAGGTTGCCACCAACTTG
1 TGTGGGCTTTGAAATGGGTTGCCACCGACTTG
*
198286 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
1 TGTGGGCTTTGAAATGGGTTGCCACCGACTTG
* *
198318 TGTGGGCTTTCAAATGAGTTGCCACCGACTTG
1 TGTGGGCTTTGAAATGGGTTGCCACCGACTTG
* * *
198350 TGTGAGCTTTGAAATAGGCTGCCACCGACTTG
1 TGTGGGCTTTGAAATGGGTTGCCACCGACTTG
198382 TGTGGGCTTTGAAA-GGGT
1 TGTGGGCTTTGAAATGGGT
198400 GCTACTAACT
Statistics
Matches: 215, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.00
28 21 0.10
29 3 0.01
30 14 0.07
31 2 0.01
32 174 0.81
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.30
Consensus pattern (32 bp):
TGTGGGCTTTGAAATGGGTTGCCACCGACTTG
Found at i:198295 original size:96 final size:94
Alignment explanation
Indices: 198076--198476 Score: 416
Period size: 96 Copynumber: 4.5 Consensus size: 94
198066 GCCATTGACT
* * * *
198076 TGTGGGCTTTGAAA-A-GATGCCACCGAC-T-TGTGGACATTGAAA-AGG-TGCCACTAACTTGT
1 TGTGGGCTTTGAAATAGGATGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGT
* * *
198135 G-GGCTTTGAAA-GGGTGCC-CCTGAC-T-
66 GTGGCTTTAAAATGGTTGCCACC-AACTTG
*
198160 TGTGGGCTTTGAAA-A-GATGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGT
1 TGTGGGCTTTGAAATAGGATGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGT
*
198223 GTGAGCTTTGAAATGGGTTGCCACCAACTTG
66 GTG-GCTTTAAAAT-GGTTGCCACCAACTTG
* *
198254 TGTGGGCTTTGAAATAGGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGT
1 TGTGGGCTTTGAAATAGGATGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGT
* *
198319 GTGGGCTTTCAAATGAGTTGCCACCGACTTG
66 GT-GGCTTTAAAATG-GTTGCCACCAACTTG
* * * *
198350 TGTGAGCTTTGAAATAGGCTGCCACCGACTTGTGTGGGCTTTGAAA-GGG-TGCTACTAACTTGT
1 TGTGGGCTTTGAAATAGGATGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGT
* *
198413 G-GGCTTTAAAAT-GATGCCACTAAC-T-
66 GTGGCTTTAAAATGGTTGCCACCAACTTG
*
198438 TGTGGGCTTTG-AA-AGGATGCCACTGACTTGT-T-GGCTTTG
1 TGTGGGCTTTGAAATAGGATGCCACCGACTTGTGTGGGCTTTG
198477 GAAAGATACC
Statistics
Matches: 278, Mismatches: 24, Indels: 30
0.84 0.07 0.09
Matches are distributed among these distances:
84 34 0.12
85 2 0.01
86 28 0.10
87 4 0.01
88 23 0.08
89 2 0.01
90 18 0.06
92 18 0.06
93 3 0.01
94 27 0.10
95 5 0.02
96 113 0.41
97 1 0.00
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (94 bp):
TGTGGGCTTTGAAATAGGATGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGT
GTGGCTTTAAAATGGTTGCCACCAACTTG
Found at i:199019 original size:110 final size:109
Alignment explanation
Indices: 198561--199057 Score: 596
Period size: 110 Copynumber: 4.5 Consensus size: 109
198551 GTGTGTTTTG
* * * * * * * *
198561 AAAGGATGCCACTGACTTGTGGGCTTTGAAAA-GATGCCACTGACTTGTGGGCTTTGAGAAGGAT
1 AAAGGGTGCCACGGAGTTGTGGACTTT-AAAAGGATGCCACAGAGTTGTGGAC-TT-AAAAGGAT
* * *
198625 GCCACTGACTTGTGG-CTTTGAAA-GGTGCCACGGAGATGTGGACTTA
63 GCCACGGAGTTGTGGACTTT-AAAGGGTGCCACGGAGTTGTGGACTTA
* * * * *
198671 AAAGGATGCCACGGAATTGTAGA-TTTCAAAA-GAGTGCCATAGAGTTGTGGACTTAAAAGGGTG
1 AAAGGGTGCCACGGAGTTGTGGACTTT-AAAAGGA-TGCCACAGAGTTGTGGACTTAAAAGGATG
198734 CCACGGAGTTGTGGACTTTAAAGGGTGCCACAGG-GTTGTGGACTTA
64 CCACGGAGTTGTGGACTTTAAAGGGTGCCAC-GGAGTTGTGGACTTA
* * * * *
198780 AAAGGGTACCATGGAGTTGTGGAC-TTAAAAGGGTGCCAC-GAAATTGTGGACTTAAAAGAATGC
1 AAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACAG-AGTTGTGGACTTAAAAGGATGC
*
198843 CACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTCA
65 CACGGAGTTGTGGACTTTAAAGGGTGCCACGGAGTTGTGGACTT-A
* * *
198889 AAAGGGTTCCACGGAGTTGTGGACTTTAAAAGGATGCCACAGAGTTATGGACTTAAAAGGGTGCC
1 AAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTAAAAGGATGCC
198954 ACGGAGTTGTGGACTTTAAAGGGTGCCACGGAGTTGTGGACTTTA
66 ACGGAGTTGTGGACTTTAAAGGGTGCCACGGAGTTGTGGAC-TTA
* *
198999 AAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGAACTTTAAAA
1 AAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGAC-TTAAAA
199058 AGAAATGCTA
Statistics
Matches: 337, Mismatches: 37, Indels: 25
0.84 0.09 0.06
Matches are distributed among these distances:
107 3 0.01
108 90 0.27
109 78 0.23
110 157 0.47
111 9 0.03
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (109 bp):
AAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTAAAAGGATGCC
ACGGAGTTGTGGACTTTAAAGGGTGCCACGGAGTTGTGGACTTA
Found at i:199052 original size:28 final size:28
Alignment explanation
Indices: 198561--199057 Score: 563
Period size: 27 Copynumber: 18.1 Consensus size: 28
198551 GTGTGTTTTG
* * * *
198561 AAAGGATGCCACTGACTTGTGGGCTTTGA
1 AAAGGGTGCCACGGAGTTGTGGACTTT-A
* * * *
198590 AAA-GATGCCACTGACTTGTGGGCTTTGA
1 AAAGGGTGCCACGGAGTTGTGGACTTT-A
* * * * *
198618 GAAGGATGCCACTGACTTGTGG-CTTTG
1 AAAGGGTGCCACGGAGTTGTGGACTTTA
*
198645 AAA-GGTGCCACGGAGATGTGGAC-TTA
1 AAAGGGTGCCACGGAGTTGTGGACTTTA
* * *
198671 AAAGGATGCCACGGAATTGTAGA-TTTCA
1 AAAGGGTGCCACGGAGTTGTGGACTTT-A
* **
198699 AAAGAGTGCCATAGAGTTGTGGAC-TTA
1 AAAGGGTGCCACGGAGTTGTGGACTTTA
198726 AAAGGGTGCCACGGAGTTGTGGACTTT-
1 AAAGGGTGCCACGGAGTTGTGGACTTTA
198753 AAAGGGTGCCACAGG-GTTGTGGAC-TTA
1 AAAGGGTGCCAC-GGAGTTGTGGACTTTA
* *
198780 AAAGGGTACCATGGAGTTGTGGAC-TTA
1 AAAGGGTGCCACGGAGTTGTGGACTTTA
* *
198807 AAAGGGTGCCACGAAATTGTGGAC-TTA
1 AAAGGGTGCCACGGAGTTGTGGACTTTA
**
198834 AAAGAATGCCACGGAGTTGTGGAC-TTA
1 AAAGGGTGCCACGGAGTTGTGGACTTTA
*
198861 AAAGGGTGCCACGGAGTTGTGGACTTCA
1 AAAGGGTGCCACGGAGTTGTGGACTTTA
*
198889 AAAGGGTTCCACGGAGTTGTGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTTA
* * *
198917 AAAGGATGCCACAGAGTTATGGAC-TTA
1 AAAGGGTGCCACGGAGTTGTGGACTTTA
198944 AAAGGGTGCCACGGAGTTGTGGACTTT-
1 AAAGGGTGCCACGGAGTTGTGGACTTTA
198971 AAAGGGTGCCACGGAGTTGTGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTTA
198999 AAAGGGTGCCACGGAGTTGTGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTTA
* *
199027 AAAGGATGCCACGGAGTTGTGAACTTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTTA
199055 AAA
1 AAA
199058 AGAAATGCTA
Statistics
Matches: 410, Mismatches: 45, Indels: 27
0.85 0.09 0.06
Matches are distributed among these distances:
26 23 0.06
27 204 0.50
28 162 0.40
29 21 0.05
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (28 bp):
AAAGGGTGCCACGGAGTTGTGGACTTTA
Found at i:200428 original size:14 final size:15
Alignment explanation
Indices: 200400--200446 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
200390 CCCTTTTTTA
200400 TTTTGCTTTTGCATT
1 TTTTGCTTTTGCATT
*
200415 TTTTTCTTTT-CATTT
1 TTTTGCTTTTGCA-TT
200430 TTTGTGCTTTTGC-TT
1 TTT-TGCTTTTGCATT
200445 TT
1 TT
200447 GACTTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 2 0.07
15 18 0.67
16 6 0.22
17 1 0.04
ACGTcount: A:0.04, C:0.13, G:0.11, T:0.72
Consensus pattern (15 bp):
TTTTGCTTTTGCATT
Found at i:201878 original size:611 final size:611
Alignment explanation
Indices: 200715--201937 Score: 2437
Period size: 611 Copynumber: 2.0 Consensus size: 611
200705 CTCCTTGTGA
200715 ACTGAGAAACTATCTTTTGGAGAAAGTTACCTTTGGAAGTTTAAGGTGGAAAGGCAAGACTAGGA
1 ACTGAGAAACTATCTTTTGGAGAAAGTTACCTTTGGAAGTTTAAGGTGGAAAGGCAAGACTAGGA
200780 ATCATGATGATACCATAGGGCGATTCGGTGGCATCGCCTCAGATTTGATTTGGCAAGTTCACTAT
66 ATCATGATGATACCATAGGGCGATTCGGTGGCATCGCCTCAGATTTGATTTGGCAAGTTCACTAT
200845 TCAAAATTGATCTCTAGTTGCTTATCATGAACTATCAGTGCATCTGAAAAGGTGTGAGAAAGAAT
131 TCAAAATTGATCTCTAGTTGCTTATCATGAACTATCAGTGCATCTGAAAAGGTGTGAGAAAGAAT
*
200910 GACATAGACAAAATGTAATGGGGAAAGTTGAAGACAGGAATGTGTATAGACAACAAGTTGAATTA
196 GACATAGACAAAATGTAATGGGGAAAGTTGAAGACAGGAATGTGTATAGACAACAAGTTGAAATA
200975 GTGGTGATGAAATGATTTATGCAAAAATTATTTTCATTGATAATATTTGATAAAGGTTTCCAATG
261 GTGGTGATGAAATGATTTATGCAAAAATTATTTTCATTGATAATATTTGATAAAGGTTTCCAATG
201040 CATAAGATCTCTACATGCCATTGGGCAAAGGCAAGTAGGTTGTCTTGAAATTTACACAAAAGAAG
326 CATAAGATCTCTACATGCCATTGGGCAAAGGCAAGTAGGTTGTCTTGAAATTTACACAAAAGAAG
201105 CAAGAAAAGTGCAAGGATTTCCAGCGTGACTCCATCGTCAAAAGTTGACTCTAATAGATGAGGAT
391 CAAGAAAAGTGCAAGGATTTCCAGCGTGACTCCATCGTCAAAAGTTGACTCTAATAGATGAGGAT
201170 GGATTCCTTTGCTCAAGATTGATGGTTTGCTGGCTCAGTATGGTTCGGAAAATGGTTCACGACAA
456 GGATTCCTTTGCTCAAGATTGATGGTTTGCTGGCTCAGTATGGTTCGGAAAATGGTTCACGACAA
201235 CATTTGGCCCTAGGCTTGCCCCAAATTGCAGAACCTTTGAATCCAAAAGGCCCTGTACCCTTCGT
521 CATTTGGCCCTAGGCTTGCCCCAAATTGCAGAACCTTTGAATCCAAAAGGCCCTGTACCCTTCGT
201300 TTGAAAGGAAAACAATTCTCAATGTC
586 TTGAAAGGAAAACAATTCTCAATGTC
201326 ACTGAGAAACTATCTTTTGGAGAAAGTTACCTTTGGAAGTTTAAGGTGGAAAGGCAAGACTAGGA
1 ACTGAGAAACTATCTTTTGGAGAAAGTTACCTTTGGAAGTTTAAGGTGGAAAGGCAAGACTAGGA
201391 ATCATGATGATACCATAGGGCGATTCGGTGGCATCGCCTCAGATTTGATTTGGCAAGTTCACTAT
66 ATCATGATGATACCATAGGGCGATTCGGTGGCATCGCCTCAGATTTGATTTGGCAAGTTCACTAT
201456 TCAAAATTGATCTCTAGTTGCTTATCATGAACTATCAGTGCATCTGAAAAGGTGTGAGAAAGAAT
131 TCAAAATTGATCTCTAGTTGCTTATCATGAACTATCAGTGCATCTGAAAAGGTGTGAGAAAGAAT
201521 GACATAGACAAAATGTAATGGGGAAAGTTGAAGACAGGAATGTGTATAGACAACAAGTTGAAATA
196 GACATAGACAAAATGTAATGGGGAAAGTTGAAGACAGGAATGTGTATAGACAACAAGTTGAAATA
201586 GTGGTGATGAAATGATTTATGCAAAAATTATTTTCATTGATAATATTTGATAAAGGTTTCCAATG
261 GTGGTGATGAAATGATTTATGCAAAAATTATTTTCATTGATAATATTTGATAAAGGTTTCCAATG
201651 CATAAGATCTCTACATGCCATTGGGCAAAGGCAAGTAGGTTGTCTTGAAATTTACACAAAAGAAG
326 CATAAGATCTCTACATGCCATTGGGCAAAGGCAAGTAGGTTGTCTTGAAATTTACACAAAAGAAG
201716 CAAGAAAAGTGCAAGGATTTCCAGCGTGACTCCATCGTCAAAAGTTGACTCTAATAGATGAGGAT
391 CAAGAAAAGTGCAAGGATTTCCAGCGTGACTCCATCGTCAAAAGTTGACTCTAATAGATGAGGAT
201781 GGATTCCTTTGCTCAAGATTGATGGTTTGCTGGCTCAGTATGGTTCGGAAAATGGTTCACGACAA
456 GGATTCCTTTGCTCAAGATTGATGGTTTGCTGGCTCAGTATGGTTCGGAAAATGGTTCACGACAA
201846 CATTTGGCCCTAGGCTTGCCCCAAATTGCAGAACCTTTGAATCCAAAAGGCCCTGTACCCTTCGT
521 CATTTGGCCCTAGGCTTGCCCCAAATTGCAGAACCTTTGAATCCAAAAGGCCCTGTACCCTTCGT
201911 TTGAAAGGAAAACAATTCTCAATGTC
586 TTGAAAGGAAAACAATTCTCAATGTC
201937 A
1 A
201938 TGTCCCGCTA
Statistics
Matches: 611, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
611 611 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (611 bp):
ACTGAGAAACTATCTTTTGGAGAAAGTTACCTTTGGAAGTTTAAGGTGGAAAGGCAAGACTAGGA
ATCATGATGATACCATAGGGCGATTCGGTGGCATCGCCTCAGATTTGATTTGGCAAGTTCACTAT
TCAAAATTGATCTCTAGTTGCTTATCATGAACTATCAGTGCATCTGAAAAGGTGTGAGAAAGAAT
GACATAGACAAAATGTAATGGGGAAAGTTGAAGACAGGAATGTGTATAGACAACAAGTTGAAATA
GTGGTGATGAAATGATTTATGCAAAAATTATTTTCATTGATAATATTTGATAAAGGTTTCCAATG
CATAAGATCTCTACATGCCATTGGGCAAAGGCAAGTAGGTTGTCTTGAAATTTACACAAAAGAAG
CAAGAAAAGTGCAAGGATTTCCAGCGTGACTCCATCGTCAAAAGTTGACTCTAATAGATGAGGAT
GGATTCCTTTGCTCAAGATTGATGGTTTGCTGGCTCAGTATGGTTCGGAAAATGGTTCACGACAA
CATTTGGCCCTAGGCTTGCCCCAAATTGCAGAACCTTTGAATCCAAAAGGCCCTGTACCCTTCGT
TTGAAAGGAAAACAATTCTCAATGTC
Found at i:207417 original size:19 final size:20
Alignment explanation
Indices: 207389--207429 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
207379 AATCCGGCGA
*
207389 CCGGCCACCA-CGTCGGTCG
1 CCGGCCACCACCGTCGGCCG
*
207408 CCGGCGACCACCGTCGGCCG
1 CCGGCCACCACCGTCGGCCG
207428 CC
1 CC
207430 ACTCAACGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.10, C:0.51, G:0.32, T:0.07
Consensus pattern (20 bp):
CCGGCCACCACCGTCGGCCG
Found at i:208972 original size:3 final size:3
Alignment explanation
Indices: 208964--209012 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
208954 TAGTTAAAGG
208964 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
209012 T
1 T
209013 GAAATAATTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:209729 original size:25 final size:25
Alignment explanation
Indices: 209680--209726 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
209670 TATATTTTTA
209680 ATATTTATATTATAATATAATAAAT
1 ATATTTATATTATAATATAATAAAT
*
209705 ATATTTAT-TT-TTATATAATAAA
1 ATATTTATATTATAATATAATAAA
209727 AATTATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 11 0.52
24 2 0.10
25 8 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
ATATTTATATTATAATATAATAAAT
Found at i:214957 original size:24 final size:22
Alignment explanation
Indices: 214904--214967 Score: 67
Period size: 24 Copynumber: 2.8 Consensus size: 22
214894 TAAATAAAAA
214904 TAAATATATTTTTATTA-ATTAT
1 TAAATAT-TTTTTATTATATTAT
* *
214926 TAATTATTTTTTATTATTTTTAT
1 TAAATATTTTTTATTA-TATTAT
*
214949 TAAAATATTTTTAATTATA
1 T-AAATATTTTTTATTATA
214968 AAATAATCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
21 9 0.26
22 6 0.18
23 6 0.18
24 13 0.38
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TAAATATTTTTTATTATATTAT
Found at i:215123 original size:35 final size:35
Alignment explanation
Indices: 215050--215123 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 35
215040 TTTATTTTTT
** *
215050 AATTATTTTTTATAATTTTTATTAGAGTTTTTTAA
1 AATTATTTTTTATAATTTTTATTAGAGTTAATAAA
215085 AATTATTTTTTATAATTTTTAATTA-A-TTAATAATA
1 AATTATTTTTTATAATTTTT-ATTAGAGTTAATAA-A
215120 AATT
1 AATT
215124 TTAATTTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
34 4 0.12
35 26 0.76
36 4 0.12
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (35 bp):
AATTATTTTTTATAATTTTTATTAGAGTTAATAAA
Found at i:215143 original size:12 final size:12
Alignment explanation
Indices: 215126--215177 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
215116 AATAAATTTT
215126 AATTTTAAATTA
1 AATTTTAAATTA
*
215138 AATTTTATATTTA
1 AATTTTA-AATTA
*
215151 AA-ATTAAATATA
1 AATTTTAAAT-TA
215163 AATTTTAAA-TA
1 AATTTTAAATTA
215174 AATT
1 AATT
215178 CGTATGTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
11 8 0.24
12 14 0.42
13 11 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AATTTTAAATTA
Found at i:215149 original size:19 final size:18
Alignment explanation
Indices: 215118--215177 Score: 77
Period size: 18 Copynumber: 3.3 Consensus size: 18
215108 TAATTAATAA
215118 TAAATTTTAATTTTAAAT
1 TAAATTTTAATTTTAAAT
*
215136 TAAATTTTATATTTAAAAT
1 TAAATTTTA-ATTTTAAAT
* *
215155 TAAATATAAATTTTAAA-
1 TAAATTTTAATTTTAAAT
215172 TAAATT
1 TAAATT
215178 CGTATGTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
17 5 0.14
18 16 0.44
19 15 0.42
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAAATTTTAATTTTAAAT
Found at i:215448 original size:14 final size:13
Alignment explanation
Indices: 215422--215464 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 13
215412 TAATGTTTGG
*
215422 ATAATTTTTTAAA
1 ATAATTATTTAAA
215435 ATATATTATTTAAA
1 ATA-ATTATTTAAA
*
215449 ATAATTA-ATAAA
1 ATAATTATTTAAA
215461 ATAA
1 ATAA
215465 AAAAAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 8 0.30
13 7 0.26
14 12 0.44
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAATTATTTAAA
Found at i:215767 original size:31 final size:31
Alignment explanation
Indices: 215732--215827 Score: 85
Period size: 31 Copynumber: 3.1 Consensus size: 31
215722 TCTATCCTAC
*
215732 AAAATCAATCATTTTAAAATAATAAAAAATT
1 AAAATCAATCATCTTAAAATAATAAAAAATT
* *
215763 AAAAT-AA--AACTTAAAAAAACTAAAAAA-T
1 AAAATCAATCATCTTAAAATAA-TAAAAAATT
*
215791 ATGAATCAATC-TCTTAAAATAATAAAAAGAATT
1 A-AAATCAATCATCTTAAAATAAT-AAAA-AATT
215824 AAAA
1 AAAA
215828 AAATCTACCA
Statistics
Matches: 50, Mismatches: 7, Indels: 15
0.69 0.10 0.21
Matches are distributed among these distances:
28 11 0.22
29 10 0.20
30 5 0.10
31 18 0.36
32 4 0.08
33 2 0.04
ACGTcount: A:0.65, C:0.07, G:0.02, T:0.26
Consensus pattern (31 bp):
AAAATCAATCATCTTAAAATAATAAAAAATT
Found at i:216559 original size:50 final size:50
Alignment explanation
Indices: 216505--216615 Score: 161
Period size: 50 Copynumber: 2.2 Consensus size: 50
216495 TATACTTAGA
* * *
216505 GTCAACAATTATAGCCACCTCTCTT-TATTGTCAAAGGTTGATGAAGAATC
1 GTCAACAATTATAGCCACCTCT-TTCTATTCTCAAAGATTGATAAAGAATC
* *
216555 GTCAACAATTATGGCCACCTCTTTCTATTCTCAAAGATTGGTAAAGAATC
1 GTCAACAATTATAGCCACCTCTTTCTATTCTCAAAGATTGATAAAGAATC
216605 GTCAACAATTA
1 GTCAACAATTA
216616 CGATTATCTT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
49 2 0.04
50 53 0.96
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (50 bp):
GTCAACAATTATAGCCACCTCTTTCTATTCTCAAAGATTGATAAAGAATC
Found at i:216729 original size:3 final size:3
Alignment explanation
Indices: 216721--216752 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
216711 TGTAAAAATA
*
216721 AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
216753 CAACATTGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:217634 original size:21 final size:21
Alignment explanation
Indices: 217608--217649 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
217598 TGCTCAGCTC
217608 ATGACATTAATTCAATCACTT
1 ATGACATTAATTCAATCACTT
217629 ATGACATTAATTCAATCACTT
1 ATGACATTAATTCAATCACTT
217650 TTTTTATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (21 bp):
ATGACATTAATTCAATCACTT
Found at i:218136 original size:15 final size:15
Alignment explanation
Indices: 218112--218144 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
218102 TCATATCATA
218112 TTTGTATAA-TATAT
1 TTTGTATAATTATAT
218126 TTTGTTATAATTATAT
1 TTTG-TATAATTATAT
218142 TTT
1 TTT
218145 AATATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 5 0.29
16 8 0.47
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (15 bp):
TTTGTATAATTATAT
Found at i:223042 original size:11 final size:11
Alignment explanation
Indices: 223028--223067 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
223018 ATATATTTTT
223028 TAAAAATAAAA
1 TAAAAATAAAA
223039 TAAAAATAAAA
1 TAAAAATAAAA
*
223050 TATTTAAATAAAA
1 TA--AAAATAAAA
223063 TAAAA
1 TAAAA
223068 TATTTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 15 0.60
13 10 0.40
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
TAAAAATAAAA
Found at i:223064 original size:18 final size:19
Alignment explanation
Indices: 223036--223073 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
223026 TTTAAAAATA
223036 AAATAAAAATAAAATATTT
1 AAATAAAAATAAAATATTT
223055 AAAT-AAAATAAAATATTT
1 AAATAAAAATAAAATATTT
223073 A
1 A
223074 TTTTTTTCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
AAATAAAAATAAAATATTT
Found at i:223164 original size:20 final size:19
Alignment explanation
Indices: 223141--223183 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
223131 CAATTATTTT
*
223141 AAAATAATAAAAATTAAAAC
1 AAAATAATAAAAA-AAAAAC
**
223161 AAAATTTTAAAAAAAAAAC
1 AAAATAATAAAAAAAAAAC
223180 AAAA
1 AAAA
223184 ATATGAATCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.19
Consensus pattern (19 bp):
AAAATAATAAAAAAAAAAC
Found at i:223625 original size:22 final size:22
Alignment explanation
Indices: 223582--223628 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
223572 TCATATTCGT
* *
223582 ATTATTTTTATATTATATTTTA
1 ATTATTTTTATATCATACTTTA
* *
223604 ATTATTTTTTTGTCATACTTTA
1 ATTATTTTTATATCATACTTTA
223626 ATT
1 ATT
223629 TGTATTATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (22 bp):
ATTATTTTTATATCATACTTTA
Found at i:223866 original size:24 final size:24
Alignment explanation
Indices: 223795--223866 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
223785 GTATTTATTA
* *
223795 TATTA-TTTTGTGTTTATTAAAGG
1 TATTATTTTTGTATTTATTAAATG
* * * *
223818 TATTATGTTAGTATCATATT-TATG
1 TATTATTTTTGTAT-TTATTAAATG
223842 TATTATTTTTGTATTTATTAAATG
1 TATTATTTTTGTATTTATTAAATG
223866 T
1 T
223867 CTCGTATCTA
Statistics
Matches: 36, Mismatches: 10, Indels: 5
0.71 0.20 0.10
Matches are distributed among these distances:
23 9 0.25
24 23 0.64
25 4 0.11
ACGTcount: A:0.28, C:0.01, G:0.12, T:0.58
Consensus pattern (24 bp):
TATTATTTTTGTATTTATTAAATG
Found at i:224093 original size:16 final size:17
Alignment explanation
Indices: 224074--224115 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
224064 AAAAAATTCA
224074 TATATTAATTTTGTAT-
1 TATATTAATTTTGTATC
* *
224090 TATATTTTATTTTTTATC
1 TATA-TTAATTTTGTATC
224108 TATATTAA
1 TATATTAA
224116 ATTTATAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
16 4 0.19
17 13 0.62
18 4 0.19
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (17 bp):
TATATTAATTTTGTATC
Found at i:225086 original size:19 final size:18
Alignment explanation
Indices: 225064--225114 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
225054 CAAAATATTT
225064 ATAATAAATTTTTAATAAA
1 ATAATAAATTTTTAAT-AA
* * *
225083 ATAAAAAATTTTAAATTA
1 ATAATAAATTTTTAATAA
225101 A-AATAAATTTTTAA
1 ATAATAAATTTTTAA
225115 AAAGTACTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 11 0.41
18 2 0.07
19 14 0.52
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATAATAAATTTTTAATAA
Found at i:225104 original size:20 final size:19
Alignment explanation
Indices: 225064--225107 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
225054 CAAAATATTT
* *
225064 ATAATAAATTTTTAATAAA
1 ATAAAAAATTTTAAATAAA
225083 ATAAAAAATTTTAAATTAAA
1 ATAAAAAATTTTAAA-TAAA
225103 ATAAA
1 ATAAA
225108 TTTTTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
ATAAAAAATTTTAAATAAA
Found at i:225112 original size:18 final size:17
Alignment explanation
Indices: 225066--225115 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
225056 AAATATTTAT
225066 AATAAATTTTT-AATAA
1 AATAAATTTTTAAATAA
*
225082 AATAAAAAATTTTAAATTAA
1 AAT--AAATTTTTAAA-TAA
225102 AATAAATTTTTAAA
1 AATAAATTTTTAAA
225116 AAGTACTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
16 3 0.11
18 17 0.61
19 2 0.07
20 6 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AATAAATTTTTAAATAA
Found at i:225369 original size:15 final size:15
Alignment explanation
Indices: 225349--225383 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
225339 GAAAAAAAGT
225349 TATTTTAAATTTTAA
1 TATTTTAAATTTTAA
225364 TATTTTAAATTTTAA
1 TATTTTAAATTTTAA
225379 TATTT
1 TATTT
225384 GTTAAGTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TATTTTAAATTTTAA
Found at i:225370 original size:8 final size:8
Alignment explanation
Indices: 225349--225383 Score: 56
Period size: 7 Copynumber: 4.6 Consensus size: 8
225339 GAAAAAAAGT
225349 TATTTTAA
1 TATTTTAA
225357 -ATTTTAA
1 TATTTTAA
225364 TATTTTAA
1 TATTTTAA
225372 -ATTTTAA
1 TATTTTAA
225379 TATTT
1 TATTT
225384 GTTAAGTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 14 0.56
8 11 0.44
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TATTTTAA
Found at i:225594 original size:77 final size:78
Alignment explanation
Indices: 225489--225640 Score: 200
Period size: 79 Copynumber: 1.9 Consensus size: 78
225479 TATTTATAAA
* ** * *
225489 AATTTAAATAAATTTAAAAAAATTTATATT-AAAATCAACGTATTAATTATTAATTTTTTAATAA
1 AATTTAAATAAATTTAAAAAAATATATATTAAAAATCAAAATATTAATTATAAAGTTTTTAATAA
*
225553 AATTAAAAATTTT
66 AATAAAAAATTTT
* *
225566 AATTTAATTAAATTTAAATAAAA-ATATATTAAAAAATTAAAATATTAATTATAAAGTTTTTAAT
1 AATTTAAATAAATTTAAA-AAAATATATATT-AAAAATCAAAATATTAATTATAAAGTTTTTAAT
225630 AAAATAAAAAA
64 AAAATAAAAAA
225641 ATTAAAATTA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 23 0.36
78 4 0.06
79 37 0.58
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (78 bp):
AATTTAAATAAATTTAAAAAAATATATATTAAAAATCAAAATATTAATTATAAAGTTTTTAATAA
AATAAAAAATTTT
Found at i:226374 original size:74 final size:72
Alignment explanation
Indices: 226109--226635 Score: 381
Period size: 73 Copynumber: 7.2 Consensus size: 72
226099 AAAGGTATTA
* * * * * * * *
226109 TTTAAATTTTTGAACGTTTAATTTATTTTTATTTGTAGAAGCTTAATTTTTTTTTTA-GTTTAAT
1 TTTAAATTTTT-AAGGTATAATTTATTTTTATTTGTAAAAGTTTAAATGTATTTTTAGGTATAAT
* *
226173 TATACGAA
65 TATAAGAG
* ** * * * *
226181 TTTAAATTTTT-GGGATATAATTTATTTTTATTCATATAAGTGTTAATTTGT-TTTTT-GATATG
1 TTTAAATTTTTAAGG-TATAATTTATTTTTATTTGTAAAAGT-TTAA-ATGTATTTTTAGGTATA
*
226243 ATTATACGAG
63 ATTATAAGAG
* * *
226253 TTTAAATTTTTAAGATATAATTAATTTTTATTTGCAAAAGTTTAAATGTATTATTTAGGTATAAT
1 TTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAAAAGTTTAAATGTATT-TTTAGGTATAAT
*
226318 TATAATAG
65 TATAAGAG
* * * * *
226326 TTTAAATTTTTAATGGTATAATTTATTTTTCTTTGTAAAAGTTCAAATGTATTTTTTGATATGAT
1 TTTAAATTTTTAA-GGTATAATTTATTTTTATTTGTAAAAGTTTAAATGTATTTTTAGGTATAAT
226391 TATACA-AG
65 TATA-AGAG
* * * * * *
226399 TTTAAATTTTTTTATGGTATAATTTATTTTTATTGGTAGAAA-TTTAAATTTGCTATTTA--TTT
1 TTTAAA--TTTTTAAGGTATAATTTATTTTTATTTGTA-AAAGTTTAAATGT-ATTTTTAGGTAT
* * **
226461 GATCATGCGAG
62 AATTATAAGAG
* * * * *
226472 TTTAAATTTTTAAGATGTAATTTATTTTGATTTGTAGAAGTTTAAATGTATTTTTAAGGAATAAT
1 TTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAAAAGTTTAAATGTATTTTT-AGGTATAAT
*
226537 TATACGAG
65 TATAAGAG
* * * * * *
226545 TTTAAATTTTTGAAAGTATAATTTATTTTTATTTAT-AGAGTTTTAAATTTATTTTTTAGG-CTG
1 TTTAAATTTTT-AAGGTATAATTTATTTTTATTTGTAAAAG-TTTAAATGTA-TTTTTAGGTATA
*
226608 ATTATACGAG
63 ATTATAAGAG
* *
226618 TTTAAAATTTTAGGGTAT
1 TTTAAATTTTTAAGGTAT
226636 TGTAGACACC
Statistics
Matches: 362, Mismatches: 71, Indels: 44
0.76 0.15 0.09
Matches are distributed among these distances:
70 10 0.03
71 61 0.17
72 71 0.20
73 108 0.30
74 94 0.26
75 18 0.05
ACGTcount: A:0.32, C:0.03, G:0.12, T:0.52
Consensus pattern (72 bp):
TTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAAAAGTTTAAATGTATTTTTAGGTATAATT
ATAAGAG
Found at i:226590 original size:145 final size:146
Alignment explanation
Indices: 226324--226594 Score: 359
Period size: 145 Copynumber: 1.9 Consensus size: 146
226314 TAATTATAAT
* ** * *
226324 AGTTTAAATTTTTAATGGTATAATTTATTTTTCTTTGTAAAAGTTCAAATGTATTTTTTGATATG
1 AGTTTAAATTTTTAATGATATAATTTATTTTGATTTGTAAAAGTTCAAATGTATTTTTGGATATA
* ** *
226389 ATTATACAAGTTTAAATTTTTTTATGGTATAATTTATTTTTATTGGTAGAAATTTAAATTTGCTA
66 ATTATACAAGTTTAAATTTTTTGAAAGTATAATTTATTTTTATTGATAGAAATTTAAATTTGCTA
226454 TTTATTTGATCATGCG
131 TTTATTTGATCATGCG
* * *
226470 AGTTTAAATTTTTAA-GATGTAATTTATTTTGATTTGTAGAAGTTTAAATGTATTTTTAAGGA-A
1 AGTTTAAATTTTTAATGATATAATTTATTTTGATTTGTAAAAGTTCAAATGTATTTTT--GGATA
* * **
226533 TAATTATACGAGTTTAAA-TTTTTGAAAGTATAATTTATTTTTATTTATAGAGTTTTAAATTT
64 TAATTATACAAGTTTAAATTTTTTGAAAGTATAATTTATTTTTATTGATAGAAATTTAAATTT
226595 ATTTTTTAGG
Statistics
Matches: 107, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
145 73 0.68
146 32 0.30
147 2 0.02
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.52
Consensus pattern (146 bp):
AGTTTAAATTTTTAATGATATAATTTATTTTGATTTGTAAAAGTTCAAATGTATTTTTGGATATA
ATTATACAAGTTTAAATTTTTTGAAAGTATAATTTATTTTTATTGATAGAAATTTAAATTTGCTA
TTTATTTGATCATGCG
Found at i:227165 original size:1 final size:1
Alignment explanation
Indices: 227124--227149 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
227114 AGAGGGATCG
227124 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
227150 GGGCTTTCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:227574 original size:11 final size:11
Alignment explanation
Indices: 227536--227576 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
227526 AAATTTAGGT
227536 AAAAAAGAAAG
1 AAAAAAGAAAG
*
227547 AAAGAAGATGAAG
1 AAAAAAGA--AAG
227560 AAAAAAGAAAG
1 AAAAAAGAAAG
227571 AAAAAA
1 AAAAAA
227577 AATATGAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 16 0.62
13 10 0.38
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:230323 original size:73 final size:73
Alignment explanation
Indices: 230194--230930 Score: 709
Period size: 74 Copynumber: 10.0 Consensus size: 73
230184 GTTGCGACAG
* * * ** * *
230194 GTATTATTTATTTTTATTTATAGAAGTTTAAATTTTTTTTTTGGACATGACTATATGAGTTTAAA
1 GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGGTATGATTATATAAGTTTAAA
**
230259 TTTTTATT
66 TTTTTAAA
* * * * ** * *
230267 GTATAATTTGTTTTTATTTGTTGAAGTTTAAATGTGTTTTTTAAGTATTATTATATGAGTTTAAA
1 GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGGTATGATTATATAAGTTTAAA
*
230332 TTTTTAAT
66 TTTTTAAA
* * *
230340 GTTATAATTTATTTTTATTTGTAGAAGTTTAAGTTTACTTTTTGGGT-TGATTATACAAGTTTAA
1 G-TATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGGTATGATTATATAAGTTTAA
*
230404 ATTTTTAGA
65 ATTTTTAAA
* * * * * * **
230413 GTATTATTTATCTTTATTTGTAGATGTATAAATTTATTTTTTAAGATATGATTATGCAAGTTTAA
1 GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT-GGGTATGATTATATAAGTTTAA
*
230478 ATTTTTAAG
65 ATTTTTAAA
* * * *
230487 GTATAATTTATTTTAATTTGTAGAAG-TTAGAATTTATTTTTTGGAGTTTAGAAT-TACAAGTTT
1 GTATAATTTATTTTTATTTGTAGAAGTTTA-AATTTATTTTTTGG-GTAT-GATTATATAAGTTT
*
230550 AAATTTTTGAAT
63 AAATTTTT-AAA
*
230562 GTATAATTTATTTTTATTTGTAAAAGTTTAAATTTATTTTTTGGGT-TGATTATATAAGTTTAAT
1 GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGGTATGATTATATAAGTTTAA-
* *
230626 TTTTTTAAG
65 ATTTTTAAA
* * * * * * *
230635 GTATTATTCATCTTTT-TTTGTAGAAATATAAATTTGTTTTTTTGGATATGATTATATGAGTTTA
1 GTATAATTTAT-TTTTATTTGTAGAAGTTTAAATTT-ATTTTTTGGGTATGATTATATAAGTTTA
*
230699 AATTTTT-AG
64 AATTTTTAAA
* * *
230708 GATATAATTTATTTTTTATTTGTAGAAGTTAAAATTTATTTTTTGGGGTTTAGAATTATACAAGT
1 G-TATAATTTA-TTTTTATTTGTAGAAGTTTAAATTTATTTTTT-GGGTAT-G-ATTATATAAGT
*
230773 TTAAATTTTTGAA
61 TTAAATTTTTAAA
* * *
230786 GTTATAATTTATTTTTATCTGTAGAAGTTTAAATTTGTTTGTTT-GGTATGACTATGA-AAGTTT
1 G-TATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTT-TTTGGGTATGATTAT-ATAAGTTT
230849 AAATTTTTAAA
63 AAATTTTTAAA
* * * * *
230860 ATATTATTTATCTTTATTTGTA-ATAGTTTTAATTTGATTTTTTGGGTATGATTATATGAGTTTA
1 GTATAATTTATTTTTATTTGTAGA-AGTTTAAATTT-ATTTTTTGGGTATGATTATATAAGTTTA
230924 AATTTTT
64 AATTTTT
230931 TTATTTATAA
Statistics
Matches: 549, Mismatches: 89, Indels: 51
0.80 0.13 0.07
Matches are distributed among these distances:
72 39 0.07
73 161 0.29
74 200 0.36
75 82 0.15
76 8 0.01
77 45 0.08
78 14 0.03
ACGTcount: A:0.30, C:0.02, G:0.13, T:0.55
Consensus pattern (73 bp):
GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGGTATGATTATATAAGTTTAAA
TTTTTAAA
Found at i:230867 original size:225 final size:221
Alignment explanation
Indices: 230194--230930 Score: 893
Period size: 225 Copynumber: 3.3 Consensus size: 221
230184 GTTGCGACAG
* * * * *
230194 GTATTATTTATTTTTATTTATAGAAGTTTAAATTT-TTTTTTTGGACATGACTATATGAGTTTAA
1 GTATTATTTATCTTTATTTGTAGAAGTATAAATTTGTTTTTTTGGATATGATTATATGAGTTTAA
* * * * * * *
230258 ATTTTTATTGTATAATTTGTTTTTATTTGTTGAAGTTTAAATGTGTTTTTT-AAGTATT---ATT
66 ATTTTTA-GGTATAATTTATTTTTATTTGTAGAAGTTAAAATTTATTTTTTGGAGT-TTAGAATT
** *
230319 ATATGAGTTTAAATTTTT-AATGTTATAATTTATTTTTATTTGTAGAAGTTTAAGTTTACTTTTT
129 ATACAAGTTTAAATTTTTGAA-GTTATAATTTATTTTTATTTGTAGAAGTTTAAATTTA-TTTTT
* *
230383 GGGTTGATTATACAAGTTTAAATTTTTAGA
192 TGGTTGATTATACAAGTTTAAATTTTTAAA
* * ** ***
230413 GTATTATTTATCTTTATTTGTAGATGTATAAATTTATTTTTTAAGATATGATTATGCAAGTTTAA
1 GTATTATTTATCTTTATTTGTAGAAGTATAAATTTGTTTTTTTGGATATGATTATATGAGTTTAA
* *
230478 ATTTTTAAGGTATAATTTATTTTAATTTGTAGAAGTTAGAATTTATTTTTTGGAGTTTAGAA-T-
66 ATTTTT-AGGTATAATTTATTTTTATTTGTAGAAGTTAAAATTTATTTTTTGGAGTTTAGAATTA
*
230541 TACAAGTTTAAATTTTTGAA-TGTATAATTTATTTTTATTTGTAAAAGTTTAAATTTATTTTTTG
130 TACAAGTTTAAATTTTTGAAGT-TATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT-
* * *
230605 GGTTGATTATATAAGTTTAATTTTTTTAAG
193 GGTTGATTATACAAGTTTAA-ATTTTTAAA
* * *
230635 GTATTATTCATCTTTTTTTGTAGAAATATAAATTTGTTTTTTTGGATATGATTATATGAGTTTAA
1 GTATTATTTATCTTTATTTGTAGAAGTATAAATTTGTTTTTTTGGATATGATTATATGAGTTTAA
*
230700 ATTTTTAGGATATAATTTATTTTTTATTTGTAGAAGTTAAAATTTATTTTTTGGGGTTTAGAATT
66 ATTTTTAGG-TATAATTTA-TTTTTATTTGTAGAAGTTAAAATTTATTTTTTGGAGTTTAGAATT
* *
230765 ATACAAGTTTAAATTTTTGAAGTTATAATTTATTTTTATCTGTAGAAGTTTAAATTTGTTTGTTT
129 ATACAAGTTTAAATTTTTGAAGTTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTT-TTT
*
230830 GGTATGACTATGA-AAGTTTAAATTTTTAAA
193 GGT-TGATTAT-ACAAGTTTAAATTTTTAAA
* * * * *
230860 ATATTATTTATCTTTATTTGTA-ATAGTTTTAATTTGATTTTTTGGGTATGATTATATGAGTTTA
1 GTATTATTTATCTTTATTTGTAGA-AGTATAAATTTGTTTTTTTGGATATGATTATATGAGTTTA
230924 AATTTTT
65 AATTTTT
230931 TTATTTATAA
Statistics
Matches: 443, Mismatches: 56, Indels: 32
0.83 0.11 0.06
Matches are distributed among these distances:
219 31 0.07
220 71 0.16
221 74 0.17
222 79 0.18
223 41 0.09
224 2 0.00
225 126 0.28
226 18 0.04
227 1 0.00
ACGTcount: A:0.30, C:0.02, G:0.13, T:0.55
Consensus pattern (221 bp):
GTATTATTTATCTTTATTTGTAGAAGTATAAATTTGTTTTTTTGGATATGATTATATGAGTTTAA
ATTTTTAGGTATAATTTATTTTTATTTGTAGAAGTTAAAATTTATTTTTTGGAGTTTAGAATTAT
ACAAGTTTAAATTTTTGAAGTTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGT
TGATTATACAAGTTTAAATTTTTAAA
Found at i:231495 original size:10 final size:10
Alignment explanation
Indices: 231466--231497 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
231456 TTTATTTTTA
231466 TTTATAAAAAT
1 TTTA-AAAAAT
231477 TTTAAAAAAT
1 TTTAAAAAAT
231487 TTTAAAAAAT
1 TTTAAAAAAT
231497 T
1 T
231498 CATATTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 17 0.81
11 4 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
TTTAAAAAAT
Found at i:231588 original size:17 final size:16
Alignment explanation
Indices: 231542--231589 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
231532 TAATAAAATT
231542 AAAAAATAAAAT-TTA
1 AAAAAATAAAATATTA
* *
231557 AATAAA-AATATATTA
1 AAAAAATAAAATATTA
231572 AAAAAATTAAAATATTA
1 AAAAAA-TAAAATATTA
231589 A
1 A
231590 TTATAATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 4 0.15
15 13 0.50
17 9 0.35
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAAATAAAATATTA
Found at i:232060 original size:48 final size:44
Alignment explanation
Indices: 232002--232136 Score: 120
Period size: 40 Copynumber: 3.1 Consensus size: 44
231992 TACGAGTTTT
232002 ATTTATTTTTATTTGTAAAAATTTAAATTTATTTTATTTTAAAGTATG
1 ATTTATTTTTATTTGTAAAAATTTAAATTTATTTTA----AAAGTATG
* * *
232050 ATTTATTTTTACTTGT-AAAA-TT-AATTTGA--TTAAAGGTATT
1 ATTTATTTTTATTTGTAAAAATTTAAATTT-ATTTTAAAAGTATG
* * *
232090 ATTTATTTTTATTTGTACAAATTTAAAATTA-TTTATAAGGTATG
1 ATTTATTTTTATTTGTAAAAATTTAAATTTATTTTA-AAAGTATG
232134 ATT
1 ATT
232137 ATACGAATTT
Statistics
Matches: 74, Mismatches: 7, Indels: 16
0.76 0.07 0.16
Matches are distributed among these distances:
40 21 0.28
41 3 0.04
42 3 0.04
43 7 0.09
44 13 0.18
45 5 0.07
46 3 0.04
47 4 0.05
48 15 0.20
ACGTcount: A:0.36, C:0.01, G:0.08, T:0.55
Consensus pattern (44 bp):
ATTTATTTTTATTTGTAAAAATTTAAATTTATTTTAAAAGTATG
Found at i:232167 original size:73 final size:73
Alignment explanation
Indices: 232082--233541 Score: 1265
Period size: 73 Copynumber: 20.0 Consensus size: 73
232072 AATTTGATTA
* * * * * *
232082 AAGGTATTATTTATTTTTATTTGTACAAATTTAAAATTATTTATAAGGTATGATTATACGAATTT
1 AAGGTATAATTTATTTTTATTTGTAGAAATTTAAATTTATTTTTTAGGTATGATTATACGAGTTT
*
232147 AAATTTTG
66 AAATTTTT
* * * **
232155 AAGGTATAATTTATTTTTATTTGTA-AAAGTTTAAATTTGTTTTTT-TGTTTGATTATGTGAGTT
1 AAGGTATAATTTATTTTTATTTGTAGAAA-TTTAAATTTATTTTTTAGGTATGATTATACGAGTT
232218 TAAATTTTT
65 TAAATTTTT
* * *
232227 AAGGTATAATTTATTTTGATTTGTA-AAAGTTTAAATGTATTTTTTAGGTATGATTATATGAGTT
1 AAGGTATAATTTATTTTTATTTGTAGAAA-TTTAAATTTATTTTTTAGGTATGATTATACGAGTT
232291 TAAATTTTT
65 TAAATTTTT
* * * ** * * *
232300 GAACGTTTAAATTATTTTTATTTGTAGAAGCTTAAA-TT-TTTTCT-GGTTTGATTATACGAATT
1 -AAGGTATAATTTATTTTTATTTGTAGAAATTTAAATTTATTTTTTAGGTATGATTATACGAGTT
232362 TAAATTTTT
65 TAAATTTTT
* * * * * * *
232371 GAGATATTATTTATTTTTATTTATATAAGTGTT-AATTTGTTTTTT-GGTATGATTATACGAGTT
1 AAGGTATAATTTATTTTTATTTGTAGAAAT-TTAAATTTATTTTTTAGGTATGATTATACGAGTT
232434 TAAATTTTT
65 TAAATTTTT
* * * * * *
232443 AAGATATAATTAATTTTTATTTGTA-AAAGTTTAAATGTATTATTTAGGTATAATTATACTAGTT
1 AAGGTATAATTTATTTTTATTTGTAGAAA-TTTAAATTTATTTTTTAGGTATGATTATACGAGTT
232507 TAAATTTTT
65 TAAATTTTT
* * * * *
232516 AATGGTATAATTTATTTTTCTTTGTA-AAAGTTTAAATGTATTTTTT-GATATGATTATACAATT
1 AA-GGTATAATTTATTTTTATTTGTAGAAA-TTTAAATTTATTTTTTAGGTATGATTATACGAGT
*
232579 TTAGATTTTTT
64 TTA-AATTTTT
* * * ** * * *
232590 ATGATATAATTTATTTTTATTTGTAGAAATTTAAACTTGCTATTTA--TTTGATTATGCGAGTTT
1 AAGGTATAATTTATTTTTATTTGTAGAAATTTAAATTTATTTTTTAGGTATGATTATACGAGTTT
232653 AAATTTTT
66 AAATTTTT
* * * *
232661 -AGGATGTAATTTATTTTTATTTGTA-AAAGTTTAAATGTATTTTTAAGGTATAATTATACGAGT
1 AAGG-TATAATTTATTTTTATTTGTAGAAA-TTTAAATTTATTTTTTAGGTATGATTATACGAGT
232724 TTAAATTTTT
64 TTAAATTTTT
* * ** * *
232734 GAAAGTATAATTTATTTTTATTTATAGAGTTTTAAATTTATTTTTTAGG-CTGATTACACGAGTT
1 -AAGGTATAATTTATTTTTATTTGTAGAAATTTAAATTTATTTTTTAGGTATGATTATACGAGTT
*
232798 TAAAATTTT
65 TAAATTTTT
* * * * * *
232807 AGGGTATTATTTATTTTTATTTGTAGAAGTTTAAA-TT-TTTTTT-GGACATGACTATATGAGTT
1 AAGGTATAATTTATTTTTATTTGTAGAAATTTAAATTTATTTTTTAGG-TATGATTATACGAGTT
232869 TAAATTTTT
65 TAAATTTTT
* * * * * * * *
232878 ATGGTATAATTTATTTTTATTTGTTGAAGTTTAAATGT-GTTTTTAAGTATCATTATATGAGTTT
1 AAGGTATAATTTATTTTTATTTGTAGAAATTTAAATTTATTTTTTAGGTATGATTATACGAGTTT
*
232942 AATTTTTT
66 AAATTTTT
** * * * * *
232950 AATATTATAATTTATTTTTATTTGTAGAAGTTTAAGTTTACTTTTTGGGT-TGATTATACAAGTT
1 AA-GGTATAATTTATTTTTATTTGTAGAAATTTAAATTTATTTTTTAGGTATGATTATACGAGTT
233014 TAAATTTTT
65 TAAATTTTT
* * ** * * *
233023 ACGGTATTATTT-TTCTTTATTTGTAGATGTATAAATTTATTTTTTAGATATGATTATGCGAGTT
1 AAGGTATAATTTATT-TTTATTTGTAGAAATTTAAATTTATTTTTTAGGTATGATTATACGAGTT
233087 TAAATTTTT
65 TAAATTTTT
* * * * * * *
233096 AAAGTATAATTTATTTTAATTTGTAG-AAGTTAGAATTTATTTTTTGGAGTTTAGAAT-TACAAG
1 AAGGTATAATTTATTTTTATTTGTAGAAATTTA-AATTTATTTTTTAG-GTAT-GATTATACGAG
233159 TTTAAATTTTT
63 TTTAAATTTTT
* * * **
233170 GAATGTATAATTTATTTTTATTTGTA-AAAGTTTAAATTTGTTTTTTGGGT-TGATTATATAAGT
1 -AAGGTATAATTTATTTTTATTTGTAGAAA-TTTAAATTTATTTTTTAGGTATGATTATACGAGT
*
233233 TTAATTTTTTT
64 TTAA-ATTTTT
* * * * *
233244 AAGGTATTATTCATCTTTT-TTTGTAGAAGTATAAATTTATTTTTT-GGATATGATTATATGAGT
1 AAGGTATAATTTAT-TTTTATTTGTAGAAATTTAAATTTATTTTTTAGG-TATGATTATACGAGT
233307 TTAAATTTTT
64 TTAAATTTTT
* * * * *
233317 -AGGATATAATTTATTTTTTGTTTGTAGAAGTTAAAATTTATTTTTTAGTGTTTAGAATTATACA
1 AAGG-TATAATTTA-TTTTTATTTGTAGAAATTTAAATTTATTTTTTAG-GTAT-G-ATTATACG
233381 AGTTTAAATTTTT
61 AGTTTAAATTTTT
* * * * **
233394 GAAGTTATAATTT-TTTTATATGTGTAGAAGTTTAAATTTATTTGTTT-GGTATGACTATAAAAG
1 -AAGGTATAATTTATTTT-TATTTGTAGAAATTTAAATTTATTT-TTTAGGTATGATTATACGAG
233457 TTTAAATTTTT
63 TTTAAATTTTT
** * * * * **
233468 AAAATATTATTTATCTTTATTTGTA-ATAGTTTAAATTTGATTTTTTGGGTATGATTATGTGAGT
1 AAGGTATAATTTATTTTTATTTGTAGA-AATTTAAATTT-ATTTTTTAGGTATGATTATACGAGT
233532 TTAAATTTTT
64 TTAAATTTTT
233542 TATTTGTAAA
Statistics
Matches: 1137, Mismatches: 193, Indels: 113
0.79 0.13 0.08
Matches are distributed among these distances:
69 2 0.00
70 33 0.03
71 124 0.11
72 249 0.22
73 372 0.33
74 240 0.21
75 50 0.04
76 12 0.01
77 42 0.04
78 11 0.01
79 2 0.00
ACGTcount: A:0.31, C:0.02, G:0.13, T:0.54
Consensus pattern (73 bp):
AAGGTATAATTTATTTTTATTTGTAGAAATTTAAATTTATTTTTTAGGTATGATTATACGAGTTT
AAATTTTT
Found at i:232189 original size:40 final size:39
Alignment explanation
Indices: 232144--232262 Score: 105
Period size: 40 Copynumber: 3.2 Consensus size: 39
232134 ATTATACGAA
232144 TTTAAATTTTGAAGGTATAATTTATTTTTATTTGTAAAAG
1 TTTAAATTTT-AAGGTATAATTTATTTTTATTTGTAAAAG
*
232184 TTTAAA-TTT---GT-T--TTT-TTGTTTGATTATGT--GAG
1 TTTAAATTTTAAGGTATAATTTATT-TTT-ATT-TGTAAAAG
*
232216 TTTAAATTTTTAAGGTATAATTTATTTTGATTTGTAAAAG
1 TTTAAA-TTTTAAGGTATAATTTATTTTTATTTGTAAAAG
232256 TTTAAAT
1 TTTAAAT
232263 GTATTTTTTA
Statistics
Matches: 62, Mismatches: 3, Indels: 29
0.66 0.03 0.31
Matches are distributed among these distances:
31 2 0.03
32 14 0.23
33 3 0.05
34 7 0.11
35 2 0.03
37 2 0.03
38 4 0.06
39 7 0.11
40 19 0.31
41 2 0.03
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.55
Consensus pattern (39 bp):
TTTAAATTTTAAGGTATAATTTATTTTTATTTGTAAAAG
Found at i:232239 original size:145 final size:142
Alignment explanation
Indices: 232082--233541 Score: 1192
Period size: 145 Copynumber: 10.0 Consensus size: 142
232072 AATTTGATTA
* **
232082 AAGGTATTATTTATTTTTATTTGTACAAATTTAAAATTATTTATAAGGTATGATTATACGAATTT
1 AAGGTATAATTTATTTTTATTTGTA-AAATTT-AAATTATTT-TTTGGTATGATTATACGAATTT
* * *
232147 AAATTTTGAAGGTATAATTTATTTTTATTTGTAAAAGTTTAAATTTGTTTTTTTGTTTGATTATG
63 AAATTTTTAAGGTATAATTTATTTTTATTTGTAAAAGTTTAAATTTGTTTTTTGGTTTGATTATA
*
232212 TGAGTTTAAATTTTT
128 CGAGTTTAAATTTTT
* * *
232227 AAGGTATAATTTATTTTGATTTGTAAAAGTTTAAATGTATTTTTTAGGTATGATTATATGAGTTT
1 AAGGTATAATTTATTTTTATTTGTAAAA-TTTAAAT-TATTTTTT-GGTATGATTATACGAATTT
* * * * * *
232292 AAATTTTTGAACGTTTAAATTATTTTTATTTGTAGAAGCTTAAA-TT-TTTTCTGGTTTGATTAT
63 AAATTTTT-AAGGTATAATTTATTTTTATTTGTAAAAGTTTAAATTTGTTTTTTGGTTTGATTAT
*
232355 ACGAATTTAAATTTTT
127 ACGAGTTTAAATTTTT
* * * * * * * *
232371 GAGATATTATTTATTTTTATTTATATAAGTGTTAATTTGTTTTTTGGTATGATTATACGAGTTTA
1 AAGGTATAATTTATTTTTATTTGTA-AAAT-TTAAATTATTTTTTGGTATGATTATACGAATTTA
* * * * * * *
232436 AATTTTTAAGATATAATTAATTTTTATTTGTAAAAGTTTAAATGTATTATTTAGGTATAATTATA
64 AATTTTTAAGGTATAATTTATTTTTATTTGTAAAAGTTTAAATTTGTT-TTTTGGTTTGATTATA
*
232501 CTAGTTTAAATTTTT
128 CGAGTTTAAATTTTT
* *
232516 AATGGTATAATTTATTTTTCTTTGTAAAAGTTTAAATGTATTTTTTGATATGATTATAC-AATTT
1 AA-GGTATAATTTATTTTTATTTGTAAAA-TTTAAAT-TATTTTTTGGTATGATTATACGAA-TT
* * * * * * *
232580 TAGATTTTTTATGATATAATTTATTTTTATTTGTAGAAA-TTTAAACTTGCTATTT-ATTTGATT
62 TA-AATTTTTAAGGTATAATTTATTTTTATTTGTA-AAAGTTTAAATTTGTTTTTTGGTTTGATT
*
232643 ATGCGAGTTTAAATTTTT
125 ATACGAGTTTAAATTTTT
* * * *
232661 -AGGATGTAATTTATTTTTATTTGTAAAAGTTTAAATGTATTTTTAAGGTATAATTATACGAGTT
1 AAGG-TATAATTTATTTTTATTTGTAAAA-TTTAAAT-TATTTTT-TGGTATGATTATACGAATT
* * * * *
232725 TAAATTTTTGAAAGTATAATTTATTTTTATTTAT-AGAGTTTTAAATTTATTTTTTAGG-CTGAT
62 TAAATTTTT-AAGGTATAATTTATTTTTATTTGTAAAAG-TTTAAATTTGTTTTTT-GGTTTGAT
* *
232788 TACACGAGTTTAAAATTTT
124 TATACGAGTTTAAATTTTT
* * * * * * *
232807 AGGGTATTATTTATTTTTATTTGTAGAAGTTTAAATT-TTTTTTGGACATGACTATATGAGTTTA
1 AAGGTATAATTTATTTTTATTTGTA-AAATTTAAATTATTTTTTGG-TATGATTATACGAATTTA
* ** * ** * * *
232871 AATTTTTATGGTATAATTTATTTTTATTTGTTGAAGTTTAAATGTGTTTTTAAGTATCATTATAT
64 AATTTTTAAGGTATAATTTATTTTTATTTGTAAAAGTTTAAATTTGTTTTTTGGTTTGATTATAC
*
232936 GAGTTTAATTTTTT
129 GAGTTTAAATTTTT
** * * *
232950 AATATTATAATTTATTTTTATTTGTAGAAGTTTAAGTTTACTTTTTGGGT-TGATTATAC-AAGT
1 AA-GGTATAATTTATTTTTATTTGTA-AAATTTAA-ATTA-TTTTTTGGTATGATTATACGAA-T
* * * * * * * *
233013 TTAAATTTTTACGGTATTATTT-TTCTTTATTTGTAGATGTATAAATTTATTTTTTAGATATGAT
61 TTAAATTTTTAAGGTATAATTTATT-TTTATTTGTAAAAGTTTAAATTTGTTTTTT-GGTTTGAT
*
233077 TATGCGAGTTTAAATTTTT
124 TATACGAGTTTAAATTTTT
* * * * * *
233096 AAAGTATAATTTATTTTAATTTGTAGAAGTTAGAATTTATTTTTTGGAGTTTAGAAT-TAC-AAG
1 AAGGTATAATTTATTTTTATTTGTAAAATTTA-AA-TTATTTTTT-G-GTAT-GATTATACGAA-
* *
233159 TTTAAATTTTTGAATGTATAATTTATTTTTATTTGTAAAAGTTTAAATTTGTTTTTTGGGTTGAT
60 TTTAAATTTTT-AAGGTATAATTTATTTTTATTTGTAAAAGTTTAAATTTGTTTTTTGGTTTGAT
** *
233224 TATATAAGTTTAATTTTTTT
124 TATACGAGTTTAA-ATTTTT
* * * * * *
233244 AAGGTATTATTCATCTTTT-TTTGTAGAAGTATAAATTTATTTTTTGGATATGATTATATGAGTT
1 AAGGTATAATTTAT-TTTTATTTGTA-AAATTTAAA-TTATTTTTTGG-TATGATTATACGAATT
* * * *
233308 TAAATTTTT-AGGATATAATTTATTTTTTGTTTGTAGAAGTTAAAATTTATTTTTTAGTGTTTAG
62 TAAATTTTTAAGG-TATAATTTA-TTTTTATTTGTAAAAGTTTAAATTTGTTTTTT-G-GTTT-G
*
233372 AATTATACAAGTTTAAATTTTT
122 -ATTATACGAGTTTAAATTTTT
* * * * *
233394 GAAGTTATAATTT-TTTTATATGTGTAGAAGTTTAAATTTATTTGTTTGGTATGACTATA-AAAG
1 -AAGGTATAATTTATTTT-TATTTGTA-AAATTTAAA-TTATTT-TTTGGTATGATTATACGAA-
** * * * *
233457 TTTAAATTTTTAAAATATTATTTATCTTTATTTGTAATAGTTTAAATTTGATTTTTTGGGTATGA
60 TTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAAAAGTTTAAATTTG-TTTTTT-GGTTTGA
**
233522 TTATGTGAGTTTAAATTTTT
123 TTATACGAGTTTAAATTTTT
233542 TATTTGTAAA
Statistics
Matches: 1056, Mismatches: 197, Indels: 121
0.77 0.14 0.09
Matches are distributed among these distances:
142 29 0.03
143 86 0.08
144 180 0.17
145 249 0.24
146 160 0.15
147 125 0.12
148 95 0.09
149 15 0.01
150 32 0.03
151 79 0.07
152 6 0.01
ACGTcount: A:0.31, C:0.02, G:0.13, T:0.54
Consensus pattern (142 bp):
AAGGTATAATTTATTTTTATTTGTAAAATTTAAATTATTTTTTGGTATGATTATACGAATTTAAA
TTTTTAAGGTATAATTTATTTTTATTTGTAAAAGTTTAAATTTGTTTTTTGGTTTGATTATACGA
GTTTAAATTTTT
Found at i:232364 original size:216 final size:219
Alignment explanation
Indices: 232085--233541 Score: 1478
Period size: 216 Copynumber: 6.6 Consensus size: 219
232075 TTGATTAAAG
* * * * ** *
232085 GTATTATTTATTTTTATTTGTACAAATTTAAAATTATTTATAAGGTATGATTATACGAA-TTTAA
1 GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTT-TTTGGTTTGATTATACGAAGTTTAA
* * * *
232149 ATTTTGAAGGTATAATTTATTTTTATTTGTAAAAGTTTAAATTTGTTTTTTTGTTTGATTATGTG
65 ATTTTTAAGGTATTATTTATTTTTATTTGTAAAAGTTTAAATTTGTTTTTTGGTATGATTATGTG
*
232214 AGTTTAAATTTTTAAGGTATAATTTATTTTGATTTGTAAAAGTTTAAATGTATTTTTTAGGTATG
130 AGTTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAAAAGTTTAAATGTATTTTTTAGGTATG
*
232279 ATTATATGAGTTTAAATTTTTGAAC
195 ATTATATGAGTTTAAATTTTTGAAT
* * * *
232304 GTTTAAATTATTTTTATTTGTAGAAGCTTAAA-TT-TTTTCTGGTTTGATTATACGAA-TTTAAA
1 GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGTTTGATTATACGAAGTTTAAA
* * * * **
232366 TTTTTGAGATATTATTTATTTTTATTTATATAAGTGTT-AATTTGTTTTTTGGTATGATTATACG
66 TTTTTAAGGTATTATTTATTTTTATTTGTAAAAGT-TTAAATTTGTTTTTTGGTATGATTATGTG
* * * *
232430 AGTTTAAATTTTTAAGATATAATTAATTTTTATTTGTAAAAGTTTAAATGTATTATTTAGGTATA
130 AGTTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAAAAGTTTAAATGTATTTTTTAGGTATG
232495 ATTATACT-AGTTTAAATTTTT-AAT
195 ATTATA-TGAGTTTAAATTTTTGAAT
* * * * * *
232519 GGTATAATTTATTTTTCTTTGTAAAAGTTTAAATGTATTTTTTGATATGATTATAC-AATTTTAG
1 -GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGTTTGATTATACGAAGTTTA-
* * * * * * * * *
232583 ATTTTTTATGATATAATTTATTTTTATTTGTAGAAA-TTTAAACTTGCTATTT-ATTTGATTATG
64 AATTTTTAAGGTATTATTTATTTTTATTTGTA-AAAGTTTAAATTTGTTTTTTGGTATGATTATG
* * *
232646 CGAGTTTAAATTTTT-AGGATGTAATTTATTTTTATTTGTAAAAGTTTAAATGTATTTTTAAGGT
128 TGAGTTTAAATTTTTAAGG-TATAATTTATTTTTATTTGTAAAAGTTTAAATGTATTTTTTAGGT
* * *
232710 ATAATTATACGAGTTTAAATTTTTGAAA
192 ATGATTATATGAGTTTAAATTTTTGAAT
* * *
232738 GTATAATTTATTTTTATTTATAG-AGTTTTAAATTTATTTTTTAGG-CTGATTACACG-AGTTTA
1 GTATAATTTATTTTTATTTGTAGAAG-TTTAAATTTATTTTTT-GGTTTGATTATACGAAGTTTA
* * * * * *
232800 AAATTTTAGGGTATTATTTATTTTTATTTGTAGAAGTTTAAA-TT-TTTTTTGGACATGACTATA
64 AATTTTTAAGGTATTATTTATTTTTATTTGTAAAAGTTTAAATTTGTTTTTTGG-TATGATTATG
* ** * *
232863 TGAGTTTAAATTTTTATGGTATAATTTATTTTTATTTGTTGAAGTTTAAATGT-GTTTTTAAGTA
128 TGAGTTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAAAAGTTTAAATGTATTTTTTAGGTA
* *
232927 TCATTATATGAGTTT-AATTTTTTAAT
193 TGATTATATGAGTTTAAATTTTTGAAT
* * * *
232953 ATTATAATTTATTTTTATTTGTAGAAGTTTAAGTTTACTTTTTGGGTTGATTATAC-AAGTTTAA
1 -GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGTTTGATTATACGAAGTTTAA
* * * * * *
233017 ATTTTTACGGTATTATTT-TTCTTTATTTGTAGATGTATAAATTTATTTTTTAGATATGATTATG
65 ATTTTTAAGGTATTATTTATT-TTTATTTGTAAAAGTTTAAATTTGTTTTTT-GGTATGATTATG
* * * * * *
233081 CGAGTTTAAATTTTTAAAGTATAATTTATTTTAATTTGTAGAAG-TTAGAATTTATTTTTTGGAG
128 TGAGTTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAAAAGTTTA-AATGTATTTTTTAG-G
* *
233145 TTTAGAATTACA--AGTTTAAATTTTTGAAT
191 TAT-G-ATTATATGAGTTTAAATTTTTGAAT
* * * *
233174 GTATAATTTATTTTTATTTGTAAAAGTTTAAATTTGTTTTTTGGGTTGATTATA-TAAGTTTAAT
1 GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGTTTGATTATACGAAGTTTAA-
* * * * * *
233238 TTTTTTAAGGTATTATTCATCTTTT-TTTGTAGAAGTATAAATTTATTTTTTGGATATGATTATA
65 ATTTTTAAGGTATTATTTAT-TTTTATTTGTAAAAGTTTAAATTTGTTTTTTGG-TATGATTATG
* * * *
233302 TGAGTTTAAATTTTT-AGGATATAATTTATTTTTTGTTTGTAGAAGTTAAAATTTATTTTTTAGT
128 TGAGTTTAAATTTTTAAGG-TATAATTTA-TTTTTATTTGTAAAAGTTTAAATGTATTTTTTAG-
* **
233366 GTTTAGAATTATACAAGTTTAAATTTTTGAA-
190 GTAT-G-ATTATATGAGTTTAAATTTTTGAAT
* * * *
233397 GTTATAATTT-TTTTATATGTGTAGAAGTTTAAATTTATTTGTTTGGTATGACTATA-AAAGTTT
1 G-TATAATTTATTTT-TATTTGTAGAAGTTTAAATTTATTT-TTTGGTTTGATTATACGAAGTTT
** * *
233460 AAATTTTTAAAATATTATTTATCTTTATTTGTAATAGTTTAAATTTGATTTTTTGGGTATGATTA
63 AAATTTTTAAGGTATTATTTATTTTTATTTGTAAAAGTTTAAATTTG-TTTTTT-GGTATGATTA
233525 TGTGAGTTTAAATTTTT
126 TGTGAGTTTAAATTTTT
233542 TATTTGTAAA
Statistics
Matches: 1040, Mismatches: 149, Indels: 92
0.81 0.12 0.07
Matches are distributed among these distances:
215 19 0.02
216 288 0.28
217 104 0.10
218 216 0.21
219 72 0.07
220 70 0.07
221 82 0.08
222 48 0.05
223 11 0.01
224 78 0.08
225 50 0.05
226 2 0.00
ACGTcount: A:0.31, C:0.02, G:0.13, T:0.54
Consensus pattern (219 bp):
GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGTTTGATTATACGAAGTTTAAA
TTTTTAAGGTATTATTTATTTTTATTTGTAAAAGTTTAAATTTGTTTTTTGGTATGATTATGTGA
GTTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAAAAGTTTAAATGTATTTTTTAGGTATGA
TTATATGAGTTTAAATTTTTGAAT
Found at i:233624 original size:13 final size:13
Alignment explanation
Indices: 233608--233632 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
233598 ATCGATTTTT
233608 AAATAAAATTTAA
1 AAATAAAATTTAA
233621 AAATAAAATTTA
1 AAATAAAATTTA
233633 CCTAAATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATAAAATTTAA
Found at i:233919 original size:66 final size:66
Alignment explanation
Indices: 233751--233926 Score: 200
Period size: 65 Copynumber: 2.7 Consensus size: 66
233741 GAGATAAGAC
* ** *
233751 TCTC-CTTGACTCCGCCTCAAATAATTGAGGTGGGGGTTATGAAGATGGCAAGGGTAGTCTCGTA
1 TCTCGCTTGACCCCGCCTCAAATAATTGAGGTGAAGGTTATAAAGATGGCAAGGGTAGTCTCGTA
233815 A
66 A
* ** * *
233816 TCTCGC-AGACCCCATCTCAAATAATTGAGAT-AGAGGTTATAAAGATGGCACGAGG-AGTCTCG
1 TCTCGCTTGACCCCGCCTCAAATAATTGAGGTGA-AGGTTATAAAGATGGCAAG-GGTAGTCTCG
*
233878 TGA
64 TAA
233881 -CTTCGCTTGACCCCGCCTCAAATAATTGAGGTGAAGGTTATAAAGA
1 TC-TCGCTTGACCCCGCCTCAAATAATTGAGGTGAAGGTTATAAAGA
233927 AAGAGTTACT
Statistics
Matches: 91, Mismatches: 14, Indels: 11
0.78 0.12 0.09
Matches are distributed among these distances:
64 1 0.01
65 53 0.58
66 36 0.40
67 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (66 bp):
TCTCGCTTGACCCCGCCTCAAATAATTGAGGTGAAGGTTATAAAGATGGCAAGGGTAGTCTCGTA
A
Found at i:234165 original size:18 final size:19
Alignment explanation
Indices: 234142--234198 Score: 59
Period size: 18 Copynumber: 3.1 Consensus size: 19
234132 TTATTAATTT
234142 TTTAATAAAATTAAAAA-A
1 TTTAATAAAATTAAAAATA
*
234160 TTTAATTTAAA-TAAAAATA
1 TTTAA-TAAAATTAAAAATA
234179 TATTAA-AAAATT-AAAATA
1 T-TTAATAAAATTAAAAATA
234197 TT
1 TT
234199 AATTATAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
17 1 0.03
18 21 0.64
19 7 0.21
20 4 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TTTAATAAAATTAAAAATA
Found at i:234208 original size:19 final size:19
Alignment explanation
Indices: 234149--234209 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
234139 TTTTTTAATA
*
234149 AAATTAAAAAATTTAATT-T
1 AAATTAAAATA-TTAATTAT
* *
234168 AAATAAAAATA-T-ATTAAA
1 AAATTAAAATATTAATT-AT
234186 AAATTAAAATATTAATTAT
1 AAATTAAAATATTAATTAT
234205 AAATT
1 AAATT
234210 TTTTAATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 3 0.09
17 1 0.03
18 10 0.30
19 16 0.48
20 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATTAAAATATTAATTAT
Found at i:234787 original size:73 final size:73
Alignment explanation
Indices: 234697--236196 Score: 1357
Period size: 73 Copynumber: 20.5 Consensus size: 73
234687 TTGATTAAAT
* * * * * * ** *
234697 GTATTATTTATTGTTATTTGTAAAAATTTAAAATTATTTATAAGATATGATTATACGAATTTAAA
1 GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTTGGTATGATTATACGAATTTAAA
*
234762 TTTTGAAG
66 TTTTTAAG
* * * ** *
234770 GTATAATTTATTTTTATTTGTAAAAGTTTAAATTT-GTTTTTT-GTTTGATTATGTGAGTTTAAA
1 GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTTGGTATGATTATACGAATTTAAA
234833 TTTTTAAG
66 TTTTTAAG
* * *
234841 GTATAATTTATTTTGATTTGTAGAAGTTTAAATGTATTTTTTTGGTATGATTATACGAGTTTAAA
1 GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTTGGTATGATTATACGAATTT-AA
*
234906 ATTTTGAAG
65 ATTTTTAAG
* * *
234915 GTTTAATTTATTTTTATTTGTAGAAGCTTAAATTTA-TTTTTTGGTTTGATTATACGAATTTAAA
1 GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTTGGTATGATTATACGAATTTAAA
*
234979 TTTTTGAG
66 TTTTTAAG
* * * * **
234987 ATATTATTTATTTTTATTTGTATAAGTGTT-AATTT-GTTTTTTGGTATGATTATACGCGTTTAA
1 GTATAATTTATTTTTATTTGTAGAAGT-TTAAATTTATTTTTTTGGTATGATTATACGAATTTAA
235050 ATTTTTAAG
65 ATTTTTAAG
* * * * * * * ** * * *
235059 ATATAATTAATTTTTGTTTGCAAAAGTTTAAATGTATTATTTACGTATAATTATACTAGTTTAAA
1 GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTTGGTATGATTATACGAATTTAAA
235124 TTTTTAATG
66 TTTTTAA-G
* * ** *
235133 GTATAATTTATTTTTCTTTGTAAAAGTTTAAACGTA-TTTTTTGATATGATTATAC-AAGTTTAA
1 GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTTGGTATGATTATACGAA-TTTAA
*
235196 ATTTTTTATG
65 A-TTTTTAAG
* * * * * * * *
235206 GTGTAATTTATTTTTATTTATAGAAATTTAAATTTGCTATTTAT--T-TGATTATGCGAGTTTAA
1 GTATAATTTATTTTTATTTGTAGAAGTTTAAATTT-ATTTTTTTGGTATGATTATACGAATTTAA
235268 ATTTTT-AG
65 ATTTTTAAG
* * ** * *
235276 GATGTAATTTATTTTTATTTGTAGAAGTTTAAATATATTTTTAAGGTATAATTATACCAATTTAA
1 G-TATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTTGGTATGATTATACGAATTTAA
*
235341 ATTTTTGAAA
65 ATTTTT-AAG
* * * ** *
235351 GTATAATTTATTTTTATTTATAG-AGTTTTAAATTT-GTATTTTGGGCTGATTATACGAGTTTAA
1 GTATAATTTATTTTTATTTGTAGAAG-TTTAAATTTATTTTTTTGGTATGATTATACGAATTTAA
* *
235414 AATTTTAGG
65 ATTTTTAAG
* * * ** *
235423 GTATTATTTATCTTTATTTGTAGAAGTTTAAATTTGTTTTTTTTATATGATTATA-TAAGTTTAA
1 GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTTGGTATGATTATACGAA-TTTAA
*
235487 ATTTTTATG
65 ATTTTTAAG
* * * ** *
235496 GTATAATTTATTTTTATTTGTTGAAGTTTAAATGTGTTTTTTAAGTATCATTATAC-AAGTTTAA
1 GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTTGGTATGATTATACGAA-TTTAA
235560 ATTTTTAATG
65 ATTTTTAA-G
* * *
235570 TTATAATTTATTTTTATTTGTAGAAGTTTAAATTTACTTTTTGGGT-TGATTATAC-AAGTTTAA
1 GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTTGGTATGATTATACGAA-TTTAA
235633 ATTTTTAAG
65 ATTTTTAAG
* * * * * *
235642 GTATTATTTATCTTTATTTGTAGATGTATAAATTTATTTTTTTGGGTATGATTATGCGAGTTTAA
1 GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTT-GGTATGATTATACGAATTTAA
235707 ATTTTTAAG
65 ATTTTTAAG
* * * *
235716 GTATAATTTATTTTAATTTGTAAAAG-TTAGAATTTATTTTTTAGAGTTTAGAATTATAC-AAGT
1 GTATAATTTATTTTTATTTGTAGAAGTTTA-AATTTATTTTTTTG-GTAT-G-ATTATACGAA-T
235779 TTAAATTTTTGAAG
61 TTAAATTTTT-AAG
* * * * *
235793 GTATAATTTATTTTTATTTGTAAAAATTTAAATTTGTTTTTTGGGT-TGATTATA-TAAGTTTAA
1 GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTTGGTATGATTATACGAA-TTTAA
*
235856 TTTTTTAAG
65 ATTTTTAAG
* * * *
235865 GTATTATTTA-TTTT-TTT-TAGAAGTATAAATTTA-TTTTTTGGATATGATTGTACGAGTTTAA
1 GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTTGG-TATGATTATACGAATTTAA
*
235926 ATTTTTATG
65 ATTTTTAAG
* * * *
235935 ATATAATTTATTTTTATTTGTAGAAGTTAAAATTTATTTTTTGGGGTTTAGAATTATAC-AAGTT
1 GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT-TGGTAT-G-ATTATACGAA-TT
*
235999 TAAATTTTTGATG
62 TAAATTTTT-AAG
* * * * *
236012 TTATAATTTATTTTTATCTGTAGAAGTTTAAATTTATTTGTTTGATATGACTAT--GAAAGTTTA
1 GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTTGGTATGATTATACG-AA-TTTA
*
236075 AATTTTTAAA
64 AATTTTTAAG
* * * * * * *
236085 ATATTATTTATCTTTATTTGTAGTAGTTTAAATTTGATTTTTTGGGTATGATTATATGAGTTTAA
1 GTATAATTTATTTTTATTTGTAGAAGTTTAAATTT-ATTTTTTTGGTATGATTATACGAATTTAA
236150 ATTTTTTTAA-
65 A--TTTTTAAG
* *
236160 GTATAATTTATTTTTATTTGTAAAAATTTAAATTTAT
1 GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTAT
236197 ATTGTAATTA
Statistics
Matches: 1170, Mismatches: 202, Indels: 109
0.79 0.14 0.07
Matches are distributed among these distances:
68 7 0.01
69 13 0.01
70 37 0.03
71 102 0.09
72 202 0.17
73 379 0.32
74 255 0.22
75 45 0.04
76 47 0.04
77 80 0.07
78 3 0.00
ACGTcount: A:0.31, C:0.02, G:0.13, T:0.54
Consensus pattern (73 bp):
GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTTGGTATGATTATACGAATTTAAA
TTTTTAAG
Found at i:235527 original size:219 final size:219
Alignment explanation
Indices: 234697--236192 Score: 1589
Period size: 219 Copynumber: 6.8 Consensus size: 219
234687 TTGATTAAAT
* * * * * * ** *
234697 GTATTATTTATTGTTATTTGTAAAAATTTAAAATTATTTATAAGATATGATTATACGAA-TTTAA
1 GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGGT-TGATTATAC-AAGTTTAA
* * * * * **
234761 ATTTTGAAGGTATAATTTATTTTTATTTGTAAAAGTTTAAATTTG-TTTTTTG-TTTGATTATGT
64 ATTTTTAAGGTATTATTTATCTTTATTTGTAGAAGTTTAAATTTGTTTTTTTGATATGATTATAC
* **
234824 GAGTTTAAATTTTTAAGGTATAATTTATTTTGATTTGTAGAAGTTTAAATGTATTTTTTTGGTAT
129 GAGTTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATGTATTTTTAAGGTAT
* * *
234889 GATTATACGAGTTTAAAATTTTGAAG
194 AATTATACAAGTTTAAATTTTTGAAG
* * *
234915 GTTTAATTTATTTTTATTTGTAGAAGCTTAAATTTATTTTTTGGTTTGATTATACGAA-TTTAAA
1 GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGGTTGATTATAC-AAGTTTAAA
* * * * *
234979 TTTTTGAGATATTATTTATTTTTATTTGTATAAGTGTT-AATTTG-TTTTTTGGTATGATTATAC
65 TTTTTAAGGTATTATTTATCTTTATTTGTAGAAGT-TTAAATTTGTTTTTTTGATATGATTATAC
* * * * * * *
235042 GCGTTTAAATTTTTAAGATATAATTAATTTTTGTTTGCAAAAGTTTAAATGTATTATTT-ACGTA
129 GAGTTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATGTATT-TTTAAGGTA
*
235106 TAATTATACTAGTTTAAATTTTT-AATG
193 TAATTATACAAGTTTAAATTTTTGAA-G
* * ** *
235133 GTATAATTTATTTTTCTTTGTAAAAGTTTAAACGTATTTTTT-GATATGATTATACAAGTTTAAA
1 GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGGT-TGATTATACAAGTTTAAA
* * * * * * * * * *
235197 TTTTTTATGGTGTAATTTATTTTTATTTATAGAAATTTAAATTTG-CTATTT-ATTTGATTATGC
65 -TTTTTAAGGTATTATTTATCTTTATTTGTAGAAGTTTAAATTTGTTTTTTTGATATGATTATAC
* *
235260 GAGTTTAAATTTTT-AGGATGTAATTTATTTTTATTTGTAGAAGTTTAAATATATTTTTAAGGTA
129 GAGTTTAAATTTTTAAGG-TATAATTTATTTTTATTTGTAGAAGTTTAAATGTATTTTTAAGGTA
*
235324 TAATTATACCAA-TTTAAATTTTTGAAA
193 TAATTATA-CAAGTTTAAATTTTTGAAG
* * * * *
235351 GTATAATTTATTTTTATTTATAG-AGTTTTAAATTTGTATTTTGGGCTGATTATACGAGTTTAAA
1 GTATAATTTATTTTTATTTGTAGAAG-TTTAAATTTATTTTTTGGGTTGATTATACAAGTTTAAA
* * * **
235415 ATTTTAGGGTATTATTTATCTTTATTTGTAGAAGTTTAAATTTGTTTTTTTTATATGATTATATA
65 TTTTTAAGGTATTATTTATCTTTATTTGTAGAAGTTTAAATTTGTTTTTTTGATATGATTATACG
* * *
235480 AGTTTAAATTTTTATGGTATAATTTATTTTTATTTGTTGAAGTTTAAATGTGTTTTTTAA-GTAT
130 AGTTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATGT-ATTTTTAAGGTAT
*
235544 CATTATACAAGTTTAAATTTTT-AATG
194 AATTATACAAGTTTAAATTTTTGAA-G
* *
235570 TTATAATTTATTTTTATTTGTAGAAGTTTAAATTTACTTTTTGGGTTGATTATACAAGTTTAAAT
1 GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGGTTGATTATACAAGTTTAAAT
* * * * *
235635 TTTTAAGGTATTATTTATCTTTATTTGTAGATGTATAAATTTATTTTTTTGGGTATGATTATGCG
66 TTTTAAGGTATTATTTATCTTTATTTGTAGAAGTTTAAATTTGTTTTTTT-GATATGATTATACG
* * * *
235700 AGTTTAAATTTTTAAGGTATAATTTATTTTAATTTGTAAAAG-TTAGAATTTATTTTTTAGAGTT
130 AGTTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTA-AATGTA-TTTTTA-AG-G
*
235764 TAGAATTATACAAGTTTAAATTTTTGAAG
191 TATAATTATACAAGTTTAAATTTTTGAAG
* * * * *
235793 GTATAATTTATTTTTATTTGTAAAAATTTAAATTTGTTTTTTGGGTTGATTATATAAGTTTAATT
1 GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGGTTGATTATACAAGTTTAAAT
* * * *
235858 TTTTAAGGTATTATTTAT-TTT-TTT-TAGAAGTATAAATTTATTTTTTGGATATGATTGTACGA
66 TTTTAAGGTATTATTTATCTTTATTTGTAGAAGTTTAAATTTGTTTTTTTGATATGATTATACGA
* * * * **
235920 GTTTAAATTTTTATGATATAATTTATTTTTATTTGTAGAAGTTAAAATTTATTTTTTGGGGTTTA
131 GTTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATGTA-TTTTTAAGG--TA
* *
235985 GAATTATACAAGTTTAAATTTTTGATG
193 TAATTATACAAGTTTAAATTTTTGAAG
* * * *
236012 TTATAATTTATTTTTATCTGTAGAAGTTTAAATTTATTTGTTT-GATATGACTATGA-AAGTTTA
1 GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTT-TTTGGGT-TGATTAT-ACAAGTTTA
** * * *
236075 AATTTTTAAAATATTATTTATCTTTATTTGTAGTAGTTTAAATTTGATTTTTTGGGTATGATTAT
63 AATTTTTAAGGTATTATTTATCTTTATTTGTAGAAGTTTAAATTTG-TTTTTTTGATATGATTAT
* * *
236140 ATGAGTTTAAATTTTTTTAA-GTATAATTTATTTTTATTTGTAAAAATTTAAAT
127 ACGAGTTTAAA--TTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAAAT
236193 TTATATTGTA
Statistics
Matches: 1078, Mismatches: 160, Indels: 73
0.82 0.12 0.06
Matches are distributed among these distances:
217 111 0.10
218 305 0.28
219 347 0.32
220 125 0.12
221 8 0.01
222 6 0.01
223 113 0.10
224 28 0.03
225 29 0.03
226 6 0.01
ACGTcount: A:0.31, C:0.02, G:0.13, T:0.54
Consensus pattern (219 bp):
GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGGTTGATTATACAAGTTTAAAT
TTTTAAGGTATTATTTATCTTTATTTGTAGAAGTTTAAATTTGTTTTTTTGATATGATTATACGA
GTTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATGTATTTTTAAGGTATAA
TTATACAAGTTTAAATTTTTGAAG
Found at i:235890 original size:22 final size:22
Alignment explanation
Indices: 235856--235903 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
235846 ATAAGTTTAA
* *
235856 TTTTTTAAGGTAT-TATTTATT
1 TTTTTTAAAGTATAAATTTATT
235877 TTTTTTAGAAGTATAAATTTATT
1 TTTTTTA-AAGTATAAATTTATT
235900 TTTT
1 TTTT
235904 GGATATGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 7 0.30
22 5 0.22
23 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (22 bp):
TTTTTTAAAGTATAAATTTATT
Found at i:236361 original size:24 final size:24
Alignment explanation
Indices: 236301--236365 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 24
236291 ATGTGATTAT
*
236301 TTTTATTTATAAAAATTTACTTTAA
1 TTTTATTTA-AAAATTTTACTTTAA
** * *
236326 TATAAATATAAAAATTTTATTTTAA
1 T-TTTATTTAAAAATTTTACTTTAA
236351 TTTTATTTAAAAATT
1 TTTTATTTAAAAATT
236366 ACGTAACGAT
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
24 11 0.35
25 15 0.48
26 5 0.16
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (24 bp):
TTTTATTTAAAAATTTTACTTTAA
Found at i:243273 original size:21 final size:20
Alignment explanation
Indices: 243247--243286 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
243237 TAAAAATTTT
243247 ATTAAAATTAAAATATAAATA
1 ATTAAAATTAAAAT-TAAATA
*
243268 ATTAAATTTAAAATTAAAT
1 ATTAAAATTAAAATTAAAT
243287 TTATTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATTAAAATTAAAATTAAATA
Found at i:243319 original size:14 final size:14
Alignment explanation
Indices: 243297--243332 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
243287 TTATTTTTTA
243297 TTAAATAAATAAAC
1 TTAAATAAATAAAC
*
243311 TTAATTAAATAAAC
1 TTAAATAAATAAAC
243325 TTAAATAA
1 TTAAATAA
243333 TTTAATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (14 bp):
TTAAATAAATAAAC
Found at i:243568 original size:3 final size:3
Alignment explanation
Indices: 243560--243603 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
243550 ATCAAAGACA
243560 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
243604 AAGTTTTATG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:243808 original size:19 final size:18
Alignment explanation
Indices: 243779--243822 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 18
243769 TTTATCAATT
*
243779 AATTTAAAATAATTTTAA
1 AATTAAAAATAATTTTAA
243797 ATATTAAAAATAATTTTAA
1 A-ATTAAAAATAATTTTAA
243816 AATTAAA
1 AATTAAA
243823 TAAATAATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AATTAAAAATAATTTTAA
Found at i:243830 original size:20 final size:19
Alignment explanation
Indices: 243784--243822 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
243774 CAATTAATTT
243784 AAAATAATTTTAAATATTA
1 AAAATAATTTTAAATATTA
243803 AAAATAATTTTAAA-ATTA
1 AAAATAATTTTAAATATTA
243821 AA
1 AA
243823 TAAATAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAATAATTTTAAATATTA
Found at i:243842 original size:20 final size:20
Alignment explanation
Indices: 243819--243857 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
243809 ATTTTAAAAT
*
243819 TAAATAAATAATGAATATAA
1 TAAATAAATAATAAATATAA
*
243839 TAAATAATTAATAAATATA
1 TAAATAAATAATAAATATA
243858 TAATTAGCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
TAAATAAATAATAAATATAA
Found at i:244311 original size:28 final size:28
Alignment explanation
Indices: 244275--244341 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 28
244265 ATTTTGATAC
* *
244275 ATTTATATATTCATATCG-TGTTAATTTT
1 ATTTTTATATTAATATCGAT-TTAATTTT
244303 ATTTTTATA-TAATATCGCATTTAATTTT
1 ATTTTTATATTAATATCG-ATTTAATTTT
244331 -TTTGTTATATT
1 ATTT-TTATATT
244342 TATTCCATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
27 10 0.30
28 21 0.64
29 2 0.06
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.60
Consensus pattern (28 bp):
ATTTTTATATTAATATCGATTTAATTTT
Found at i:256256 original size:23 final size:23
Alignment explanation
Indices: 256226--256272 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
256216 GAGCACTGAA
256226 AAGAGGTAGAAGACATATGTTCC
1 AAGAGGTAGAAGACATATGTTCC
*
256249 AAGAGGTAGAAGATATATGTTCC
1 AAGAGGTAGAAGACATATGTTCC
256272 A
1 A
256273 TCTCGGGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.11, G:0.26, T:0.23
Consensus pattern (23 bp):
AAGAGGTAGAAGACATATGTTCC
Found at i:256628 original size:34 final size:34
Alignment explanation
Indices: 256589--256679 Score: 146
Period size: 34 Copynumber: 2.7 Consensus size: 34
256579 AAATATCTTA
* *
256589 CTCACCTAACACATTACCTAACACATCTAATATT
1 CTCACCAAATACATTACCTAACACATCTAATATT
*
256623 TTCACCAAATACATTACCTAACACATCTAATATT
1 CTCACCAAATACATTACCTAACACATCTAATATT
*
256657 CTCACCAAATACATCACCTAACA
1 CTCACCAAATACATTACCTAACA
256680 TTCTCACCAA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 52 1.00
ACGTcount: A:0.41, C:0.32, G:0.00, T:0.27
Consensus pattern (34 bp):
CTCACCAAATACATTACCTAACACATCTAATATT
Found at i:256682 original size:25 final size:25
Alignment explanation
Indices: 256649--256704 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
256639 CCTAACACAT
*
256649 CTAATATTCTCACCAAATACATCAC
1 CTAACATTCTCACCAAATACATCAC
256674 CTAACATTCTCACCAAATACATCAC
1 CTAACATTCTCACCAAATACATCAC
256699 CTAACA
1 CTAACA
256705 CACCCAACAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.41, C:0.34, G:0.00, T:0.25
Consensus pattern (25 bp):
CTAACATTCTCACCAAATACATCAC
Found at i:256686 original size:13 final size:13
Alignment explanation
Indices: 256658--256702 Score: 51
Period size: 12 Copynumber: 3.6 Consensus size: 13
256648 TCTAATATTC
256658 TCACC-AAATACA
1 TCACCTAAATACA
*
256670 TCACCTAACATTC-
1 TCACCTAA-ATACA
256683 TCACC-AAATACA
1 TCACCTAAATACA
256695 TCACCTAA
1 TCACCTAA
256703 CACACCCAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
11 3 0.11
12 12 0.44
13 9 0.33
14 3 0.11
ACGTcount: A:0.42, C:0.36, G:0.00, T:0.22
Consensus pattern (13 bp):
TCACCTAAATACA
Found at i:256714 original size:34 final size:34
Alignment explanation
Indices: 256671--256748 Score: 138
Period size: 34 Copynumber: 2.3 Consensus size: 34
256661 CCAAATACAT
256671 CACCTAACATTCTCACCAAATACATCACCTAACA
1 CACCTAACATTCTCACCAAATACATCACCTAACA
* *
256705 CACCCAACATTCTTACCAAATACATCACCTAACA
1 CACCTAACATTCTCACCAAATACATCACCTAACA
256739 CACCTAACAT
1 CACCTAACAT
256749 GCTTCACCTA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.21
Consensus pattern (34 bp):
CACCTAACATTCTCACCAAATACATCACCTAACA
Found at i:256717 original size:59 final size:59
Alignment explanation
Indices: 256615--256738 Score: 185
Period size: 59 Copynumber: 2.1 Consensus size: 59
256605 CCTAACACAT
* * * * * *
256615 CTAATATTTTCACCAAATACATTACCTAACACATCTAATATTCTCACCAAATACATCAC
1 CTAACATTCTCACCAAATACATCACCTAACACACCCAACATTCTCACCAAATACATCAC
*
256674 CTAACATTCTCACCAAATACATCACCTAACACACCCAACATTCTTACCAAATACATCAC
1 CTAACATTCTCACCAAATACATCACCTAACACACCCAACATTCTCACCAAATACATCAC
256733 CTAACA
1 CTAACA
256739 CACCTAACAT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.41, C:0.33, G:0.00, T:0.26
Consensus pattern (59 bp):
CTAACATTCTCACCAAATACATCACCTAACACACCCAACATTCTCACCAAATACATCAC
Found at i:261052 original size:22 final size:22
Alignment explanation
Indices: 261027--261079 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
261017 ACTAATTCTG
261027 GTTCCAAACCGATGAACTCACA
1 GTTCCAAACCGATGAACTCACA
261049 GTTCCAAACCGATGAACTCACA
1 GTTCCAAACCGATGAACTCACA
261071 GTTCCAAAC
1 GTTCCAAAC
261080 TATGCACGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.36, C:0.32, G:0.13, T:0.19
Consensus pattern (22 bp):
GTTCCAAACCGATGAACTCACA
Found at i:261530 original size:34 final size:34
Alignment explanation
Indices: 261492--261606 Score: 140
Period size: 34 Copynumber: 3.4 Consensus size: 34
261482 AATATCTTAC
* *
261492 TCACCTAACACATTACCTAACACACATAATATTT
1 TCACCAAACACATTACCTAACACACCTAATATTT
* *
261526 TCACCAAATACATTACCTAACACACCTAATATTC
1 TCACCAAACACATTACCTAACACACCTAATATTT
* * * *
261560 TCACCAAATACATCACCTAACACACCTAACATGCT
1 TCACCAAACACATTACCTAACACACCTAATAT-TT
*
261595 TCACCTAACACA
1 TCACCAAACACA
261607 CTTAACAAAG
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
34 60 0.86
35 10 0.14
ACGTcount: A:0.41, C:0.34, G:0.01, T:0.24
Consensus pattern (34 bp):
TCACCAAACACATTACCTAACACACCTAATATTT
Found at i:264471 original size:10 final size:10
Alignment explanation
Indices: 264458--264490 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
264448 TAAGATCTTT
*
264458 TAAAAATATA
1 TAAAAAAATA
264468 TAAAAAAATA
1 TAAAAAAATA
264478 TAAAAAAAT-
1 TAAAAAAATA
264487 TAAA
1 TAAA
264491 TATATTCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
TAAAAAAATA
Found at i:270044 original size:33 final size:33
Alignment explanation
Indices: 269979--270040 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
269969 TGGCAGAAAA
269979 ACAGGAACCACTTTCAGTAGTAGTGGAAAACTG
1 ACAGGAACCACTTTCAGTAGTAGTGGAAAACTG
* *
270012 ACAGGAACCACTTTTATTAGTAG-GGAAAA
1 ACAGGAACCACTTTCAGTAGTAGTGGAAAA
270041 ACTGGTTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 6 0.22
33 21 0.78
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.23
Consensus pattern (33 bp):
ACAGGAACCACTTTCAGTAGTAGTGGAAAACTG
Found at i:272386 original size:3 final size:3
Alignment explanation
Indices: 272378--272405 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
272368 ACACTTTGTG
272378 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
272406 TGCAAGAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:273879 original size:45 final size:39
Alignment explanation
Indices: 273794--273869 Score: 136
Period size: 39 Copynumber: 1.9 Consensus size: 39
273784 TAATTAAGTG
273794 AACTCAAATAGTTTAATTTTAATCTTGAATCGAGTTTAA
1 AACTCAAATAGTTTAATTTTAATCTTGAATCGAGTTTAA
273833 AACTCAAATAGTTTAATTTTAATCTTGAA-CTGAGTTT
1 AACTCAAATAGTTTAATTTTAATCTTGAATC-GAGTTT
273870 GACTTTAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 1 0.03
39 35 0.97
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (39 bp):
AACTCAAATAGTTTAATTTTAATCTTGAATCGAGTTTAA
Found at i:274779 original size:2 final size:2
Alignment explanation
Indices: 274772--274805 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
274762 GGAAGAATGA
274772 AT AT 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 AT AT
274806 TTTAATTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.