Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, whole genome shotgun sequence
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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 17 of 147
Found at i:3755473 original size:21 final size:21
Alignment explanation
Indices: 3755440--3755490 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
3755430 CTTGAAATTA
3755440 ATAAAATA--TTTTTTAAAAT
1 ATAAAATATTTTTTTTAAAAT
3755459 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATT-TTTTTTAAAAT
3755481 AT-AAATATTT
1 ATAAAATATTT
3755491 AAATAATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.28
20 1 0.03
21 7 0.24
22 13 0.45
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATAAAATATTTTTTTTAAAAT
Found at i:3755474 original size:22 final size:21
Alignment explanation
Indices: 3755446--3755489 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 21
3755436 ATTAATAAAA
3755446 TATTTTTTAAAATATAAAATAT
1 TATTTTTTAAAATAT-AAATAT
3755468 TATTTTTTAAAATATAAATAT
1 TATTTTTTAAAATATAAATAT
3755489 T
1 T
3755490 TAAATAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TATTTTTTAAAATATAAATAT
Found at i:3755495 original size:8 final size:8
Alignment explanation
Indices: 3755475--3755518 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
3755465 TATTATTTTT
3755475 TAAA-ATA
1 TAAATATA
*
3755482 TAAATATT
1 TAAATATA
3755490 TAAATA-A
1 TAAATATA
*
3755497 TAATTATA
1 TAAATATA
3755505 TAAATATA
1 TAAATATA
3755513 TAAATA
1 TAAATA
3755519 AAAAATTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
7 9 0.29
8 22 0.71
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
TAAATATA
Found at i:3763510 original size:52 final size:52
Alignment explanation
Indices: 3763421--3763575 Score: 211
Period size: 52 Copynumber: 3.0 Consensus size: 52
3763411 ATAACCATAT
* * * * * *
3763421 AAACTTGCCCATTAAGAATCTCTCTCCTCTTAAAATTCTTCTCTTGTAAGTC
1 AAACTTGCCTATTAAGAATCTTTTTACTCTTAGAATTCTTCTCTTGCAAGTC
*
3763473 AAACTTGCCTATTAAGAATCTTTTTACTTTTAGAATTCTTCTCTTGCAAGTC
1 AAACTTGCCTATTAAGAATCTTTTTACTCTTAGAATTCTTCTCTTGCAAGTC
* * * *
3763525 AAACTTACCTATTAAGAATCTTTTTTCTCTTGGAATTCTTCTTTTGCAAGT
1 AAACTTGCCTATTAAGAATCTTTTTACTCTTAGAATTCTTCTCTTGCAAGT
3763576 ATTATTATCC
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 91 1.00
ACGTcount: A:0.26, C:0.21, G:0.09, T:0.43
Consensus pattern (52 bp):
AAACTTGCCTATTAAGAATCTTTTTACTCTTAGAATTCTTCTCTTGCAAGTC
Found at i:3763617 original size:11 final size:11
Alignment explanation
Indices: 3763601--3763642 Score: 75
Period size: 11 Copynumber: 3.8 Consensus size: 11
3763591 GCAATATCTG
3763601 ACAAATCTCAA
1 ACAAATCTCAA
3763612 ACAAATCTCAA
1 ACAAATCTCAA
*
3763623 ATAAATCTCAA
1 ACAAATCTCAA
3763634 ACAAATCTC
1 ACAAATCTC
3763643 TTATGAGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.21
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:3763929 original size:24 final size:25
Alignment explanation
Indices: 3763899--3763993 Score: 111
Period size: 25 Copynumber: 3.8 Consensus size: 25
3763889 TCATATCTTA
*
3763899 AACCTTTAGCTCTTCCCACATCTCG
1 AACCTTCAGCTCTTCCCACATCTCG
*
3763924 AACTTTCAGCTCTT-CCACATCTCG
1 AACCTTCAGCTCTTCCCACATCTCG
* * *
3763948 AACCTTCAGCTCTTTCCATATCTTG
1 AACCTTCAGCTCTTCCCACATCTCG
* * *
3763973 AATCTTCAACTCTTCTCACAT
1 AACCTTCAGCTCTTCCCACAT
3763994 TTCAAATCTT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
24 23 0.39
25 36 0.61
ACGTcount: A:0.22, C:0.36, G:0.06, T:0.36
Consensus pattern (25 bp):
AACCTTCAGCTCTTCCCACATCTCG
Found at i:3763959 original size:49 final size:50
Alignment explanation
Indices: 3763899--3763993 Score: 122
Period size: 49 Copynumber: 1.9 Consensus size: 50
3763889 TCATATCTTA
* *
3763899 AACCTTTAGCTCTTCCCACATCTCGAA-CTTTCAGCTCTTC-CACATCTCG
1 AACCTTCAGCTCTTCCCACATCTCGAATC-TTCAACTCTTCTCACATCTCG
* * *
3763948 AACCTTCAGCTCTTTCCATATCTTGAATCTTCAACTCTTCTCACAT
1 AACCTTCAGCTCTTCCCACATCTCGAATCTTCAACTCTTCTCACAT
3763994 TTCAAATCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
49 33 0.85
50 6 0.15
ACGTcount: A:0.22, C:0.36, G:0.06, T:0.36
Consensus pattern (50 bp):
AACCTTCAGCTCTTCCCACATCTCGAATCTTCAACTCTTCTCACATCTCG
Found at i:3770178 original size:19 final size:19
Alignment explanation
Indices: 3770154--3770201 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
3770144 AAATAAGGAG
3770154 TAAGGAACAAAACCACAAA
1 TAAGGAACAAAACCACAAA
*
3770173 TAAGGAACAAAGCCACAAA
1 TAAGGAACAAAACCACAAA
* *
3770192 CAGGGAACAA
1 TAAGGAACAA
3770202 GGAACAATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.58, C:0.21, G:0.17, T:0.04
Consensus pattern (19 bp):
TAAGGAACAAAACCACAAA
Found at i:3784683 original size:149 final size:156
Alignment explanation
Indices: 3784485--3784845 Score: 364
Period size: 169 Copynumber: 2.3 Consensus size: 156
3784475 TCATCGTAGA
* * * * *
3784485 TAAAATTTTAAATTGGTGAC-AAAATT-ATAACGTCACCTAAATTAAAAAAAT-GT-CAAA-TTT
1 TAAAATATTCAATTTGTGACAAAAATTAATAACGTCACCTAAAATAAAAAAATAGTAAAAATTTT
*
3784545 TT-T-TTT-C-AAAAG-TTGTTGACATTTATGTTATTATCATATAACACTATACATTGACGTGAT
66 TTATATTTACAAAAAGTTTG-TGACATTTATGTTATTATAATATAACACTATACATTGACGTGAT
3784605 AAAATTACAATATCATTAATAGTGAAC
130 AAAATTACAATATCATTAATAGTGAAC
* * * *
3784632 TAAAATGTTCAGTTTGTGATAAAAATTAATAACGTCACCTAAAATAAAAAAATATTAGAAAATTT
1 TAAAATATTCAATTTGTGACAAAAATTAATAACGTCACCTAAAATAAAAAAATAGTA-AAAA-TT
* *
3784697 TTTTCACCAAATAAATTTGACCATAAAAGTTTGTGATATTTATGTTATTGTAATATAACACTATA
64 TTTT------AT--ATTT-A-CA-AAAAGTTTGTGACATTTATGTTATTATAATATAACACTATA
** * *
3784762 CATTGACGTGATAAAATTGTAATGTCATTAATAGTTAAC
118 CATTGACGTGATAAAATTACAATATCATTAATAGTGAAC
* *
3784801 TAAAATATTCAATTTGTGACAAAAATTAATAACATCACTTAAAAT
1 TAAAATATTCAATTTGTGACAAAAATTAATAACGTCACCTAAAAT
3784846 CTATTAGAAA
Statistics
Matches: 171, Mismatches: 20, Indels: 24
0.80 0.09 0.11
Matches are distributed among these distances:
147 15 0.09
148 6 0.04
149 24 0.14
150 1 0.01
152 3 0.02
154 5 0.03
161 1 0.01
164 3 0.02
167 1 0.01
169 109 0.64
170 3 0.02
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.37
Consensus pattern (156 bp):
TAAAATATTCAATTTGTGACAAAAATTAATAACGTCACCTAAAATAAAAAAATAGTAAAAATTTT
TTATATTTACAAAAAGTTTGTGACATTTATGTTATTATAATATAACACTATACATTGACGTGATA
AAATTACAATATCATTAATAGTGAAC
Found at i:3785164 original size:233 final size:232
Alignment explanation
Indices: 3784653--3785376 Score: 887
Period size: 233 Copynumber: 3.1 Consensus size: 232
3784643 GTTTGTGATA
* * * ** *
3784653 AAAATTAATAACGTCACCTAAAATAAAAAAATATTAGAAAATTTTTTTCACCAAATAAATTTGAC
1 AAAATT-ATAATGTCACCTAAAAT-AAAAAATGTTACAAAAAATTTTTCACCAAATAAATTTAAC
* * *
3784718 CATAAAAGTTTGTGATATTTATGTTATTGTAATATAACACTATACATTGACGTGATAAAATTGTA
64 AATAAAAGTTTGTGATATTTATGTTATTGTCATATAATAC-ATACATTGACGTGATAAAATTGTA
* * * *
3784783 ATGTCATTAATAGTTAACTAAAATATTCAATTTGTGACAAAAATTAATAACATCACTTAAAATCT
128 ATGTCATTAATAGTTAA-TTAAATATTCAATTTGTGACAAAAATTAATAACGTCACCT-AAATTT
** * *
3784848 ATTAGAAAAAATTCGTCATAAATAAAATTTTAAATTGATGAC
191 ATTAGAAAAAATTTATCACAAATAAAATTTTAAATTGGTGAC
* * *
3784890 AAAATTATAATGTCACCT-AAATAAAAAATGTCACAAAAAAATTTCTCCCCAAATAAATTTAACA
1 AAAATTATAATGTCACCTAAAATAAAAAATGTTAC-AAAAAATTTTTCACCAAATAAATTTAACA
* * * *
3784954 ATAAAA-TATTGTAACATTTATGTTATTGTCATATAATATCATACATTGACATGATAAAATTGCA
65 ATAAAAGT-TTGTGATATTTATGTTATTGTCATATAATA-CATACATTGACGTGATAAAATTGTA
* * * *
3785018 ATGTTATTTATAGTTAATTAAATATTCAATTTGTGATAAAAATTAATAACGTTACCTAAATTTAT
128 ATGTCATTAATAGTTAATTAAATATTCAATTTGTGACAAAAATTAATAACGTCACCTAAATTTAT
*
3785083 TAGAAAAAATTTATCACAAATAAAATTTTAAATTGGTGAT
193 TAGAAAAAATTTATCACAAATAAAATTTTAAATTGGTGAC
* * * * *
3785123 AAAATTATAATGTCACATAAAATAAAAAACGTTACAAAAAATTTTTTACCAAATAAATTTAGCAG
1 AAAATTATAATGTCACCTAAAATAAAAAATGTTACAAAAAATTTTTCACCAAATAAATTTAACAA
* ** * * **
3785188 TAAAAGTTTGTGATATTTATATTATCATCATATAATACCATACATTAATGTGATGTAATTGTAAT
66 TAAAAGTTTGTGATATTTATGTTATTGTCATATAATA-CATACATTGACGTGATAAAATTGTAAT
* * * * *
3785253 GTCATTAATAGTTAATTAAAGTGTTTAATTTATAACAAAAATTAATAACGTCACCTAAATTTATC
130 GTCATTAATAGTTAATTAAA-TATTCAATTTGTGACAAAAATTAATAACGTCACCTAAATTTATT
* *
3785318 AAAAAAAATTTATCACAAATAAAATTTTAAATTAGT-ACC
194 AGAAAAAATTTATCACAAATAAAATTTTAAATTGGTGA-C
*
3785357 AAAATTATAATGTCATCTAA
1 AAAATTATAATGTCACCTAA
3785377 CAAAACTTCA
Statistics
Matches: 417, Mismatches: 63, Indels: 17
0.84 0.13 0.03
Matches are distributed among these distances:
233 154 0.37
234 149 0.36
235 96 0.23
236 12 0.03
237 6 0.01
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.36
Consensus pattern (232 bp):
AAAATTATAATGTCACCTAAAATAAAAAATGTTACAAAAAATTTTTCACCAAATAAATTTAACAA
TAAAAGTTTGTGATATTTATGTTATTGTCATATAATACATACATTGACGTGATAAAATTGTAATG
TCATTAATAGTTAATTAAATATTCAATTTGTGACAAAAATTAATAACGTCACCTAAATTTATTAG
AAAAAATTTATCACAAATAAAATTTTAAATTGGTGAC
Found at i:3785328 original size:14 final size:16
Alignment explanation
Indices: 3785309--3785344 Score: 58
Period size: 14 Copynumber: 2.4 Consensus size: 16
3785299 AACGTCACCT
3785309 AAATTTATCA-AAA-A
1 AAATTTATCACAAATA
3785323 AAATTTATCACAAATA
1 AAATTTATCACAAATA
3785339 AAATTT
1 AAATTT
3785345 TAAATTAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 10 0.50
15 3 0.15
16 7 0.35
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.33
Consensus pattern (16 bp):
AAATTTATCACAAATA
Found at i:3787171 original size:108 final size:106
Alignment explanation
Indices: 3786962--3787182 Score: 255
Period size: 108 Copynumber: 2.0 Consensus size: 106
3786952 TTATTTTTGG
* * * *
3786962 ACTCTATTGGTTATAAAAATGACCATAACATGGTTGCATCCTTAAAAATAGATAATTTTAAATAC
1 ACTCTATTGATTACAAAAATGACCATAACAAGGTTGCATCCCTAAAAATAGATAATTTTAAATAC
* * *
3787027 GATACGATGATACGACATGAAAATTATATGAAAAAAATTATGT
66 GATACAATAACACGACATG-AAA-TATATGAAAAAAATTATGT
* * *
3787070 ACTCTATTGATTACAAAAATGACCATAATAAGGTTGTATCCCTAAAAATAAAACAGCTAATTTTA
1 ACTCTATTGATTACAAAAATGACCATAACAAGGTTGCATCCCTAAAAAT-----AGATAATTTTA
*
3787135 AATACGATACAATAACACGACATGAAA-ATGATAAAAAAAAATTATGT
61 AATACGATACAATAACACGACATGAAATAT-AT-GAAAAAAATTATGT
3787182 A
1 A
3787183 TGTCTTTAGT
Statistics
Matches: 95, Mismatches: 11, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
108 43 0.45
110 2 0.02
111 2 0.02
112 17 0.18
113 31 0.33
ACGTcount: A:0.48, C:0.12, G:0.11, T:0.29
Consensus pattern (106 bp):
ACTCTATTGATTACAAAAATGACCATAACAAGGTTGCATCCCTAAAAATAGATAATTTTAAATAC
GATACAATAACACGACATGAAATATATGAAAAAAATTATGT
Found at i:3787552 original size:15 final size:15
Alignment explanation
Indices: 3787532--3787561 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3787522 TTGGGTTGTA
3787532 TTAAACAAATTAATT
1 TTAAACAAATTAATT
*
3787547 TTAAACATATTAATT
1 TTAAACAAATTAATT
3787562 GTATTGTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (15 bp):
TTAAACAAATTAATT
Found at i:3789863 original size:23 final size:23
Alignment explanation
Indices: 3789832--3789888 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
3789822 AAGAGCATTC
*
3789832 AAAAGTTTTATTAATTTTTTAAA
1 AAAAATTTTATTAATTTTTTAAA
*
3789855 AAAAATTTTATTAATTTTTTTAA
1 AAAAATTTTATTAATTTTTTAAA
3789878 AAAAATTTTAT
1 AAAAATTTTAT
3789889 CATCGGATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
AAAAATTTTATTAATTTTTTAAA
Found at i:3790390 original size:25 final size:26
Alignment explanation
Indices: 3790354--3790405 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
3790344 TCACCTAAAA
* *
3790354 ATTTCTTAAAAAATTAACCATTTGAC
1 ATTTCTTAAAAAATTAAACATTGGAC
*
3790380 ATTTC-TAAAAATTTAAACATTGGAC
1 ATTTCTTAAAAAATTAAACATTGGAC
3790405 A
1 A
3790406 ATCATCATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.44, C:0.13, G:0.06, T:0.37
Consensus pattern (26 bp):
ATTTCTTAAAAAATTAAACATTGGAC
Found at i:3791228 original size:15 final size:16
Alignment explanation
Indices: 3791208--3791239 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
3791198 CTTTTCCCCC
3791208 TTTTCTTCCTT-TTTT
1 TTTTCTTCCTTCTTTT
3791223 TTTTCTTCCTTCTTTT
1 TTTTCTTCCTTCTTTT
3791239 T
1 T
3791240 CAAAACCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTCTTCCTTCTTTT
Found at i:3791556 original size:34 final size:34
Alignment explanation
Indices: 3791477--3791556 Score: 106
Period size: 34 Copynumber: 2.3 Consensus size: 34
3791467 CTGTATTCAC
* *
3791477 AAAATTACATTTTCAAGAATACAACATAATTTTTG
1 AAAATT-CATTTTCAAAAATACAACATAATTTTTA
** *
3791512 AAAACCCATTTTCAAAAATACAATATAATTTTTA
1 AAAATTCATTTTCAAAAATACAACATAATTTTTA
3791546 AAAATTCATTT
1 AAAATTCATTT
3791557 ATTTAACGAT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
34 34 0.89
35 4 0.11
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (34 bp):
AAAATTCATTTTCAAAAATACAACATAATTTTTA
Found at i:3793610 original size:6 final size:6
Alignment explanation
Indices: 3793596--3793638 Score: 61
Period size: 6 Copynumber: 7.2 Consensus size: 6
3793586 ATTTTGTATT
*
3793596 TTTATTA TTTATA TTTATA TTTATA TTTATA TTT-TA TGTATA T
1 TTTA-TA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA T
3793639 ATTTCCTTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
5 4 0.12
6 26 0.76
7 4 0.12
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (6 bp):
TTTATA
Found at i:3793794 original size:26 final size:25
Alignment explanation
Indices: 3793740--3793900 Score: 77
Period size: 22 Copynumber: 6.9 Consensus size: 25
3793730 CTGTTAATAT
*
3793740 TTATATATGTATTTTATTTATCTAA
1 TTATATATTTATTTTATTTATCTAA
*
3793765 TTATATATTTATTATTATTTAT-TCA
1 TTATATATTTATT-TTATTTATCTAA
** *
3793790 TT-TATA--TATTACAATTTATCT-G
1 TTATATATTTATT-TTATTTATCTAA
*
3793812 TTAT-TATTATTTTTTATTTATCT--
1 TTATATATT-TATTTTATTTATCTAA
* *
3793835 TGTA-ATA-TT-TTTTATTTATGTTA
1 T-TATATATTTATTTTATTTATCTAA
*
3793858 TTAT-T-TTT-TTTCTAATTATCT-A
1 TTATATATTTATTT-TATTTATCTAA
3793880 TTA-ATATTT-TTTTATTTATCT
1 TTATATATTTATTTTATTTATCT
3793901 GATTTTTTTT
Statistics
Matches: 109, Mismatches: 12, Indels: 33
0.71 0.08 0.21
Matches are distributed among these distances:
21 11 0.10
22 37 0.34
23 18 0.17
24 16 0.15
25 19 0.17
26 8 0.07
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.65
Consensus pattern (25 bp):
TTATATATTTATTTTATTTATCTAA
Found at i:3793867 original size:22 final size:22
Alignment explanation
Indices: 3793803--3793914 Score: 93
Period size: 22 Copynumber: 5.0 Consensus size: 22
3793793 ATATATTACA
*
3793803 ATTTATCTGTTATTATTATTTTTT
1 ATTTATC--TTATTATTTTTTTTT
* * *
3793827 ATTTATCTT-GTAATATTTTTT
1 ATTTATCTTATTATTTTTTTTT
*
3793848 ATTTATGTTATTATTTTTTTTCT
1 ATTTATCTTATTATTTTTTTT-T
* *
3793871 AATTATC-TATTAATATTTTTTT
1 ATTTATCTTATT-ATTTTTTTTT
* *
3793893 ATTTATCTGATTTTTTTTTTTT
1 ATTTATCTTATTATTTTTTTTT
3793915 GGGCTGAGAT
Statistics
Matches: 71, Mismatches: 13, Indels: 10
0.76 0.14 0.11
Matches are distributed among these distances:
21 18 0.25
22 29 0.41
23 17 0.24
24 7 0.10
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.71
Consensus pattern (22 bp):
ATTTATCTTATTATTTTTTTTT
Found at i:3793885 original size:44 final size:44
Alignment explanation
Indices: 3793810--3793914 Score: 133
Period size: 45 Copynumber: 2.4 Consensus size: 44
3793800 ACAATTTATC
* *
3793810 TGTTATTATTATTTTTTATTTATCTTGTAATA-TTTTTTATTTA
1 TGTTATTATTTTTTTTTAATTATCTTGTAATATTTTTTTATTTA
3793853 TGTTATTATTTTTTTTCTAATTATCTAT-TAATATTTTTTTATTTA
1 TGTTATTATTTTTTTT-TAATTATCT-TGTAATATTTTTTTATTTA
* * *
3793898 TCTGATTTTTTTTTTTT
1 TGTTATTATTTTTTTTT
3793915 GGGCTGAGAT
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
43 15 0.28
44 14 0.26
45 25 0.46
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.71
Consensus pattern (44 bp):
TGTTATTATTTTTTTTTAATTATCTTGTAATATTTTTTTATTTA
Found at i:3794721 original size:17 final size:18
Alignment explanation
Indices: 3794701--3794743 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
3794691 TTTTTTTCTC
*
3794701 ATTTTTTTTATTATT-TT
1 ATTTTATTTATTATTATT
3794718 ATTTTATTTATTATTATT
1 ATTTTATTTATTATTATT
*
3794736 ATTATATT
1 ATTTTATT
3794744 AGGATTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
ATTTTATTTATTATTATT
Found at i:3794830 original size:30 final size:30
Alignment explanation
Indices: 3794796--3794888 Score: 80
Period size: 30 Copynumber: 3.0 Consensus size: 30
3794786 AATATATATT
3794796 TTAAGGAAAAGTTGAAAGTATCAATTTTTC
1 TTAAGGAAAAGTTGAAAGTATCAATTTTTC
* * * * ** *
3794826 TTAAGAATAAATTTTTAAA-AAAAAGATTTTTT
1 TTAAGGA-AAA-GTTGAAAGTATCA-ATTTTTC
*
3794858 TTGAGGAAAAGTTGAAAGTATCAATTTTTC
1 TTAAGGAAAAGTTGAAAGTATCAATTTTTC
3794888 T
1 T
3794889 CGAAATTAAA
Statistics
Matches: 44, Mismatches: 15, Indels: 8
0.66 0.22 0.12
Matches are distributed among these distances:
30 18 0.41
31 10 0.23
32 16 0.36
ACGTcount: A:0.42, C:0.04, G:0.14, T:0.40
Consensus pattern (30 bp):
TTAAGGAAAAGTTGAAAGTATCAATTTTTC
Found at i:3794865 original size:62 final size:61
Alignment explanation
Indices: 3794794--3794979 Score: 227
Period size: 62 Copynumber: 3.1 Consensus size: 61
3794784 AAAATATATA
*
3794794 TTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTTTAAAAAAAAGATTTT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTTTAAAAAAAA-ATTTT
* * * * *
3794856 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAA-ATTAAAAGTTTT--CAAAAAATATT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCT-TAAGAAT-AAATTTTTAAAAAAAAATTTT
* * * *
3794916 TTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCAAAAAAAAAGTTT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTTTAAAAAAAAATTTT
3794976 TTTT
1 TTTT
3794980 CAAAATTAAA
Statistics
Matches: 103, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
58 8 0.08
59 28 0.27
60 19 0.18
61 5 0.05
62 34 0.33
63 9 0.09
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.39
Consensus pattern (61 bp):
TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTTTAAAAAAAAATTTT
Found at i:3794981 original size:18 final size:19
Alignment explanation
Indices: 3794958--3794994 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
3794948 TAAGAATAAA
3794958 TTTTCAAAA-AAAAAGTTT
1 TTTTCAAAATAAAAAGTTT
*
3794976 TTTTCAAAATTAAAAGTTT
1 TTTTCAAAATAAAAAGTTT
3794995 CTAAATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.43
Consensus pattern (19 bp):
TTTTCAAAATAAAAAGTTT
Found at i:3794989 original size:91 final size:92
Alignment explanation
Indices: 3794882--3795060 Score: 299
Period size: 92 Copynumber: 2.0 Consensus size: 92
3794872 AAAGTATCAA
*
3794882 TTTTTCTCGAAATTAAAAGTTT-TCAAA-AAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT
1 TTTTTCTCAAAATTAAAAGTTTCT-AAATAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT
*
3794945 CCTTAAGAATAAATTTTCAAAAAAAAAG
65 CCTTAAAAATAAATTTTCAAAAAAAAAG
* *
3794973 TTTTTTTCAAAATTAAAAGTTTCTAAATAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTT
1 TTTTTCTCAAAATTAAAAGTTTCTAAATAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTC
3795038 CTTAAAAATAAATTTTCAAAAAA
66 CTTAAAAATAAATTTTCAAAAAA
3795061 GGTTTTTTTT
Statistics
Matches: 82, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
91 23 0.28
92 59 0.72
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (92 bp):
TTTTTCTCAAAATTAAAAGTTTCTAAATAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTC
CTTAAAAATAAATTTTCAAAAAAAAAG
Found at i:3795231 original size:119 final size:115
Alignment explanation
Indices: 3795006--3795342 Score: 379
Period size: 119 Copynumber: 2.8 Consensus size: 115
3794996 TAAATAAATA
** * *
3795006 TTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGGTTTTTTTT
1 TTTTTA-GGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAATTTTCAAAAAA------TATT
* * * * *
3795071 TTTGAGAAAAAATTGAAAATATCAATTTTTCTTAAAAATAAATTTTTAGAAAAAGGTTTT
59 TTTGGGAAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCA-AAAAAGG--GT
*
3795131 TTTTTAGGAAAAGTTGAAAGTATCAATATTTCTCGAAATTAAAGTTTTCAAAAAATATTTTTGGG
1 TTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAA-TTTTCAAAAAATATTTTTGGG
*
3795196 AAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAATGGGT
65 AAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAGGGT
* * *
3795247 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTTTCGAAATTAAAATTTCAAAAAAAAATATATTTT
1 TTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAATTTTC---AAAAAATAT-TTTT
*
3795312 -GGAGAAAAGTTGAAAGTATCAATTTTTCCTT
62 GGGA-AAAAATTGAAAGTATCAA-TTTTCCTT
3795343 GTACAAAAAC
Statistics
Matches: 189, Mismatches: 16, Indels: 19
0.84 0.07 0.08
Matches are distributed among these distances:
115 4 0.02
116 41 0.22
118 18 0.10
119 68 0.36
120 8 0.04
124 33 0.17
125 17 0.09
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.39
Consensus pattern (115 bp):
TTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAATTTTCAAAAAATATTTTTGGGA
AAAAATTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAGGGT
Found at i:3795319 original size:61 final size:57
Alignment explanation
Indices: 3794973--3795338 Score: 263
Period size: 58 Copynumber: 6.1 Consensus size: 57
3794963 AAAAAAAAAG
* * *
3794973 TTTTTTTCAAAATTAAAAGTTTCTAAATAAATATTTTTAGG-GAAAAGTTGAAAGTATCAA
1 TTTTTTT-AAAAAT-AAATTTTC-AAAAAAATATTTTT-GGAGAAAAGTTGAAAGTATCAA
* * * * *
3795033 TTTTTCTTAAAAATAAATTTTCAAAAAAGGTTTTTTTTTTTGAGAAAAAATTGAAAATATCAA
1 TTTTT-TTAAAAATAAATTTTCAAAAAA----ATATTTTTGGAG-AAAAGTTGAAAGTATCAA
* * * **
3795096 TTTTTCTTAAAAATAAATTTTTAGAAAAAGGTTTTTTTTTAGGAAAAGTTGAAAGTATCAA
1 TTTTT-TTAAAAATAAATTTTCA-AAAAA-ATATTTTTGGA-GAAAAGTTGAAAGTATCAA
* ** * *
3795157 TATTTCTCGAAATTAAAGTTTTC-AAAAAATATTTTTGG-GAAAAAATTGAAAGTATCAA
1 T-TTTTTTAAAAATAAA-TTTTCAAAAAAATATTTTTGGAG-AAAAGTTGAAAGTATCAA
* ****
3795215 TTTTCCTTAAAAATAAATTTTCAAAAATGGGTTTTT-GAGGAAAAGTTGAAAGTATCAA
1 TTTT-TTTAAAAATAAATTTTCAAAAAAATATTTTTGGA-GAAAAGTTGAAAGTATCAA
* * *
3795273 TTTTTTTCGAAATTAAAATTTCAAAAAAAAATATATTTTGGAGAAAAGTTGAAAGTATCAA
1 TTTTTTT-AAAAATAAATTTTC--AAAAAAATAT-TTTTGGAGAAAAGTTGAAAGTATCAA
3795334 TTTTT
1 TTTTT
3795339 CCTTGTACAA
Statistics
Matches: 245, Mismatches: 40, Indels: 41
0.75 0.12 0.13
Matches are distributed among these distances:
57 12 0.05
58 73 0.30
59 14 0.06
60 21 0.09
61 65 0.27
62 17 0.07
63 38 0.16
64 5 0.02
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (57 bp):
TTTTTTTAAAAATAAATTTTCAAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAA
Found at i:3805796 original size:1 final size:1
Alignment explanation
Indices: 3805737--3805784 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
3805727 ACTATGCTTG
* * ** *
3805737 AAAAAAAAAAAAAATAAAAAATAAAAAAATGAAAAAAGAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3805785 GTGAATGAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.90, C:0.00, G:0.04, T:0.06
Consensus pattern (1 bp):
A
Found at i:3806799 original size:41 final size:40
Alignment explanation
Indices: 3806750--3807001 Score: 198
Period size: 41 Copynumber: 6.1 Consensus size: 40
3806740 GATTGTCAAT
* * *
3806750 GAGCAATTTACTTTTCAAAGTCATGGTGCCTCTGCTTAAAG
1 GAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTG-TTAGAG
** * *
3806791 GAATAATTTACTTTCCAAAGTCGTGGTACTTCTGTCTAGAG
1 GAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGT-TAGAG
* * *
3806832 GAGCAATTTACTTTCCAAAGTCGCGGTGCCTCTATTTAGAT
1 GAGCAATTTACTTTCCAAAGTCGTGGTGCCTCT-GTTAGAG
* * *
3806873 GAGCAATTTACTTTTCAAAGTCGTTGAGCCTCTGATTAGAG
1 GAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTG-TTAGAG
* * * * * * *
3806914 GAGCCATTTATTTTTCAAAATCGTTGAGCCTCTGATTTGAG
1 GAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTG-TTAGAG
* * * * **
3806955 GAACCATTTATGTTTCTCAAAGTCGTTGAACCTCTGCTTAGAG
1 GAGCAATTTA-CTTTC-CAAAGTCGTGGTGCCTCTG-TTAGAG
3806998 GAGC
1 GAGC
3807002 TTTGATCAAA
Statistics
Matches: 174, Mismatches: 32, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
40 1 0.01
41 144 0.83
42 4 0.02
43 25 0.14
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (40 bp):
GAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTAGAG
Found at i:3806913 original size:82 final size:80
Alignment explanation
Indices: 3806750--3807001 Score: 245
Period size: 82 Copynumber: 3.0 Consensus size: 80
3806740 GATTGTCAAT
* ** * * *
3806750 GAGCAATTTACTTTTCAAAGTCATGGTGCCTCTGCTTAAAGGAATAATTTACTTTCCAAAGTCGT
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAACAATTTACTTTTCAAAGTCGT
* *
3806815 GGTACTTCTGTCTAGAG
66 TG-ACCTCTGT-TAGAG
* * * *
3806832 GAGCAATTTACTTTCCAAAGTCGCGGTGCCTCTATTTAGATGAGCAATTTACTTTTCAAAGTCGT
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAACAATTTACTTTTCAAAGTCGT
3806897 TGAGCCTCTGATTAGAG
66 TGA-CCTCTG-TTAGAG
* * * * * * *
3806914 GAGCCATTTATTTTTCAAAATCGTTGAGCCTCTGATTT-GAGGAACCATTTATGTTTCTCAAAGT
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCT-ATTTAGAGGAACAATTTA-CTTT-TCAAAGT
3806978 CGTTGAACCTCTGCTTAGAG
63 CGTTG-ACCTCTG-TTAGAG
3806998 GAGC
1 GAGC
3807002 TTTGATCAAA
Statistics
Matches: 140, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
81 1 0.01
82 102 0.73
83 8 0.06
84 28 0.20
85 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (80 bp):
GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAACAATTTACTTTTCAAAGTCGT
TGACCTCTGTTAGAG
Found at i:3807033 original size:9 final size:8
Alignment explanation
Indices: 3807016--3807064 Score: 55
Period size: 9 Copynumber: 5.9 Consensus size: 8
3807006 ATCAAATTAA
3807016 AAAAAAAC
1 AAAAAAAC
3807024 AAAGAAAAC
1 AAA-AAAAC
3807033 AAAAAAA-
1 AAAAAAAC
*
3807040 ATAAAAAC
1 AAAAAAAC
3807048 AAAAAAAAGC
1 -AAAAAAA-C
3807058 AAAAAAA
1 AAAAAAA
3807065 TTGCCTCTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
7 6 0.17
8 7 0.20
9 21 0.60
10 1 0.03
ACGTcount: A:0.86, C:0.08, G:0.04, T:0.02
Consensus pattern (8 bp):
AAAAAAAC
Found at i:3807036 original size:15 final size:14
Alignment explanation
Indices: 3807014--3807061 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 14
3807004 TGATCAAATT
3807014 AAAA-AAAAACAAAG
1 AAAACAAAAA-AAAG
*
3807028 AAAACAAAAAAAATA
1 AAAACAAAAAAAA-G
3807043 AAAACAAAAAAAAG
1 AAAACAAAAAAAAG
3807057 CAAAA
1 -AAAA
3807062 AAATTGCCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
14 7 0.24
15 22 0.76
ACGTcount: A:0.85, C:0.08, G:0.04, T:0.02
Consensus pattern (14 bp):
AAAACAAAAAAAAG
Found at i:3807065 original size:24 final size:24
Alignment explanation
Indices: 3807014--3807064 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
3807004 TGATCAAATT
*
3807014 AAAA-AAAAACAAAGAAAACAAAA
1 AAAATAAAAACAAAAAAAACAAAA
3807037 AAAATAAAAACAAAAAAAAGCAAAA
1 AAAATAAAAACAAAAAAAA-CAAAA
3807062 AAA
1 AAA
3807065 TTGCCTCTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 4 0.16
24 13 0.52
25 8 0.32
ACGTcount: A:0.86, C:0.08, G:0.04, T:0.02
Consensus pattern (24 bp):
AAAATAAAAACAAAAAAAACAAAA
Found at i:3807136 original size:43 final size:43
Alignment explanation
Indices: 3807067--3807209 Score: 207
Period size: 43 Copynumber: 3.3 Consensus size: 43
3807057 CAAAAAAATT
* *
3807067 GCCTCTGTTTAGAGGAGCTTTGTTTA-TTTTCTAAAGTCATTGA
1 GCCTCTGATTAGAGGAGCTTTATTTATTTTTC-AAAGTCATTGA
* * *
3807110 GCCTTTGATTAGAGGAGCTTTATTTATTTTTCAAAGCCTTTGA
1 GCCTCTGATTAGAGGAGCTTTATTTATTTTTCAAAGTCATTGA
* *
3807153 GCCTCTGATTAGAGGAGCTTTATTTATTTTTCAAAATCGTTGA
1 GCCTCTGATTAGAGGAGCTTTATTTATTTTTCAAAGTCATTGA
3807196 GCCTCTGATTAGAG
1 GCCTCTGATTAGAG
3807210 AAGTTTTGAT
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
43 85 0.94
44 5 0.06
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (43 bp):
GCCTCTGATTAGAGGAGCTTTATTTATTTTTCAAAGTCATTGA
Found at i:3807262 original size:8 final size:8
Alignment explanation
Indices: 3807228--3807261 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
3807218 ATCAAATCTT
3807228 AAAC-AAA
1 AAACAAAA
3807235 AAACAAAA
1 AAACAAAA
3807243 AAACAAAA
1 AAACAAAA
*
3807251 AAATAAAA
1 AAACAAAA
3807259 AAA
1 AAA
3807262 TGTCGAGTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
7 4 0.16
8 21 0.84
ACGTcount: A:0.88, C:0.09, G:0.00, T:0.03
Consensus pattern (8 bp):
AAACAAAA
Found at i:3807422 original size:7 final size:6
Alignment explanation
Indices: 3807401--3807461 Score: 68
Period size: 7 Copynumber: 9.3 Consensus size: 6
3807391 GTAAGCCTAA
*
3807401 TTTTAC TTTTAT TTTGTAT TTTATAT TTTTAT TATTTAT ATTTTAT TTTTAT
1 TTTTAT TTTTAT TTT-TAT TTT-TAT TTTTAT T-TTTAT -TTTTAT TTTTAT
3807453 TATTTAT TT
1 T-TTTAT TT
3807462 ATGTATATAT
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
6 20 0.41
7 28 0.57
8 1 0.02
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (6 bp):
TTTTAT
Found at i:3807429 original size:14 final size:13
Alignment explanation
Indices: 3807401--3807461 Score: 56
Period size: 13 Copynumber: 4.6 Consensus size: 13
3807391 GTAAGCCTAA
3807401 TTTTACTTTTAT-T
1 TTTTA-TTTTATAT
*
3807414 TTGTATTTTATAT
1 TTTTATTTTATAT
3807427 TTTTATTATT-TAT
1 TTTTATT-TTATAT
3807440 ATTTTATTTT-TAT
1 -TTTTATTTTATAT
3807453 TATTTATTT
1 T-TTTATTT
3807462 ATGTATATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
12 7 0.17
13 26 0.62
14 9 0.21
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (13 bp):
TTTTATTTTATAT
Found at i:3807432 original size:20 final size:20
Alignment explanation
Indices: 3807400--3807459 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
3807390 GGTAAGCCTA
*
3807400 ATTTTACTTTTATT-TTGTAT
1 ATTTTATTTTTATTATT-TAT
3807420 -TTTATATTTTTATTATTTAT
1 ATTT-TATTTTTATTATTTAT
3807440 ATTTTATTTTTATTATTTAT
1 ATTTTATTTTTATTATTTAT
3807460 TTATGTATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
19 3 0.08
20 28 0.78
21 5 0.14
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (20 bp):
ATTTTATTTTTATTATTTAT
Found at i:3807439 original size:27 final size:27
Alignment explanation
Indices: 3807408--3807670 Score: 84
Period size: 28 Copynumber: 9.2 Consensus size: 27
3807398 TAATTTTACT
3807408 TTTAT-TTTGTATTTTATATT-TTTATTA
1 TTTATATTT-TATTTT-TATTATTTATTA
3807435 TTTATATTTTATTTTTATTATTTATTTA
1 TTTATATTTTATTTTTATTATTTA-TTA
*
3807463 TGTATATATTTTCCTTTGTATCCTATGTATTTATTA
1 T-T-TATATTTT--ATT-T-T--TAT-TATTTATTA
* * *
3807499 TTTATTTATTTATTATTAGTATTTATTAA
1 TTTATAT-TTTATTTTTATTATTTATT-A
* *
3807528 TATATATATCTTTATTATTATT-TTT-TTC
1 T-T-TATAT-TTTATTTTTATTATTTATTA
*
3807556 TTT-T-TTTCT-TTCTTT-TT-TGTTAATA
1 TTTATATTT-TATT-TTTATTAT-TTATTA
* *
3807581 TTTATATATGTA-TTTTATTTATCTAGTTA
1 TTTATAT-TTTATTTTTA-TTATTTA-TTA
*
3807610 TATAT-TTATTATTATTTATTCATTTA-TA
1 TTTATATT-TTATT-TTTATT-ATTTATTA
*
3807638 TATTATAATTTATTTGTTATTA-TTATTA
1 T-TTATATTTTATTT-TTATTATTTATTA
3807666 TTTAT
1 TTTAT
3807671 TTATCTTGTA
Statistics
Matches: 180, Mismatches: 20, Indels: 72
0.66 0.07 0.26
Matches are distributed among these distances:
23 7 0.04
24 6 0.03
25 5 0.03
26 9 0.05
27 27 0.15
28 32 0.18
29 30 0.17
30 21 0.12
31 16 0.09
32 2 0.01
33 3 0.02
34 5 0.03
35 4 0.02
36 7 0.04
37 6 0.03
ACGTcount: A:0.25, C:0.04, G:0.03, T:0.67
Consensus pattern (27 bp):
TTTATATTTTATTTTTATTATTTATTA
Found at i:3807503 original size:4 final size:4
Alignment explanation
Indices: 3807490--3807702 Score: 63
Period size: 4 Copynumber: 53.2 Consensus size: 4
3807480 GTATCCTATG
* * *
3807490 TATT TA-T TATT TATT TATT TA-T TATT AGTATT TATT AATA TATA TATCT
1 TATT TATT TATT TATT TATT TATT TATT --TATT TATT TATT TATT TAT-T
* * * * * * *
3807539 T-TAT TA-T TATT TTTT TCTT TTTT TCTT TCTT T-TT TGTT AATATT TATA
1 TAT-T TATT TATT TATT TATT TATT TATT TATT TATT TATT --TATT TATT
* * * * *
3807587 TATG TATTT TATT TATC TAGT TATA TATT TA-T TA-T TATT TATT CATT
1 TATT TA-TT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
* * * *
3807634 TATA TATT ATAATT TATT T-GT TA-T TA-T TA-T TATT TATT TATCT TGTAA
1 TATT TATT -T-ATT TATT TATT TATT TATT TATT TATT TATT TAT-T TAT-T
3807682 TATT T-TT TATT TATCT TATT T
1 TATT TATT TATT TAT-T TATT T
3807703 TTTTCTAATT
Statistics
Matches: 161, Mismatches: 29, Indels: 38
0.71 0.13 0.17
Matches are distributed among these distances:
3 32 0.20
4 104 0.65
5 15 0.09
6 10 0.06
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.67
Consensus pattern (4 bp):
TATT
Found at i:3807636 original size:26 final size:25
Alignment explanation
Indices: 3807579--3807743 Score: 98
Period size: 26 Copynumber: 7.2 Consensus size: 25
3807569 TTTTTGTTAA
*
3807579 TATTTATATATGTATTTTATTTATC
1 TATTTATATATTTATTTTATTTATC
*
3807604 TAGTTATATATTTATTATTATTTAT-
1 TATTTATATATTTATT-TTATTTATC
* *
3807629 TCATTTATATATTATAATTTATTTGT-
1 T-ATTTATATATT-TATTTTATTTATC
3807655 TA-TTAT-TA-TTA-TTTATTTATC
1 TATTTATATATTTATTTTATTTATC
*
3807676 T-TGTA-ATA-TT-TTTTATTTATC
1 TATTTATATATTTATTTTATTTATC
* *
3807697 ---TTAT-T-TTT-TTCTAATTATC
1 TATTTATATATTTATTTTATTTATC
3807716 TA-TTA-ATATTT-TTTTATTTATC
1 TATTTATATATTTATTTTATTTATC
3807738 TGATTT
1 T-ATTT
3807744 TTTTTTTTTT
Statistics
Matches: 113, Mismatches: 12, Indels: 31
0.72 0.08 0.20
Matches are distributed among these distances:
19 14 0.12
20 8 0.07
21 23 0.20
22 14 0.12
23 3 0.03
24 6 0.05
25 16 0.14
26 26 0.23
27 3 0.03
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.65
Consensus pattern (25 bp):
TATTTATATATTTATTTTATTTATC
Found at i:3807690 original size:21 final size:20
Alignment explanation
Indices: 3807661--3807738 Score: 79
Period size: 21 Copynumber: 3.8 Consensus size: 20
3807651 TTGTTATTAT
*
3807661 TATTATTTATTTATCTTGTAA
1 TATTTTTTATTTATCTT-TAA
3807682 TATTTTTTATTTATC-TT-A
1 TATTTTTTATTTATCTTTAA
* *
3807700 TTTTTTTCTAATTATCTATTAA
1 TATTTTT-TATTTATCT-TTAA
3807722 TATTTTTTTATTTATCT
1 TA-TTTTTTATTTATCT
3807739 GATTTTTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 7 0.15
19 8 0.17
20 1 0.02
21 16 0.34
22 10 0.21
23 5 0.11
ACGTcount: A:0.24, C:0.06, G:0.01, T:0.68
Consensus pattern (20 bp):
TATTTTTTATTTATCTTTAA
Found at i:3807715 original size:40 final size:41
Alignment explanation
Indices: 3807671--3807747 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
3807661 TATTATTTAT
*
3807671 TTATCT-TGTAATA-TTTTTTATTTATCTTATTTTTTTCTAA
1 TTATCTAT-TAATATTTTTTTATTTATCTGATTTTTTTCTAA
3807711 TTATCTATTAATATTTTTTTATTTATCTGATTTTTTT
1 TTATCTATTAATATTTTTTTATTTATCTGATTTTTTT
3807748 TTTTTTTGGC
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
40 11 0.32
41 23 0.68
ACGTcount: A:0.22, C:0.06, G:0.03, T:0.69
Consensus pattern (41 bp):
TTATCTATTAATATTTTTTTATTTATCTGATTTTTTTCTAA
Found at i:3808297 original size:21 final size:22
Alignment explanation
Indices: 3808268--3808311 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
3808258 ATTCTAGAGA
*
3808268 GAAGGGAGAGAAGA-AAGAAGG
1 GAAGAGAGAGAAGAGAAGAAGG
*
3808289 GAAGAGAGAGAAGAGAGGAAGG
1 GAAGAGAGAGAAGAGAAGAAGG
3808311 G
1 G
3808312 TTCTATTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (22 bp):
GAAGAGAGAGAAGAGAAGAAGG
Found at i:3808443 original size:11 final size:11
Alignment explanation
Indices: 3808427--3808456 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
3808417 GACTTGAGCG
3808427 TCGACCCGCCT
1 TCGACCCGCCT
*
3808438 TCGACCCGCTT
1 TCGACCCGCCT
3808449 TCGACCCG
1 TCGACCCG
3808457 TGTCTCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.10, C:0.50, G:0.20, T:0.20
Consensus pattern (11 bp):
TCGACCCGCCT
Found at i:3808578 original size:3 final size:3
Alignment explanation
Indices: 3808572--3808623 Score: 65
Period size: 3 Copynumber: 18.0 Consensus size: 3
3808562 TCGCTTCTTT
*
3808572 TTA TTA TTA TTA TTT TTA TT- TTA TT- TTA TTTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
3808616 TTA -TA TTA
1 TTA TTA TTA
3808624 AGATTTTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 6 0.14
3 34 0.79
4 3 0.07
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:3808603 original size:29 final size:29
Alignment explanation
Indices: 3808571--3808678 Score: 105
Period size: 29 Copynumber: 3.6 Consensus size: 29
3808561 CTCGCTTCTT
3808571 TTTATTATTATTATTTTTATT-TTATTTTA
1 TTTATTATT-TTATTTTTATTATTATTTTA
**
3808600 TTTATTATTATTATTATTATATTAAGATTTT-
1 TTTATTATT-TTATT-TT-TATTATTATTTTA
*
3808631 TTTATTTATTTTCATTTTTTTTATTA-TTTA
1 TTTA-TTATTTT-ATTTTTATTATTATTTTA
3808661 TTTATTAATTTTATTTTT
1 TTTATT-ATTTTATTTTT
3808679 TTAAATAAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
29 26 0.39
30 16 0.24
31 12 0.18
32 13 0.19
ACGTcount: A:0.25, C:0.01, G:0.01, T:0.73
Consensus pattern (29 bp):
TTTATTATTTTATTTTTATTATTATTTTA
Found at i:3808605 original size:4 final size:5
Alignment explanation
Indices: 3808570--3808677 Score: 52
Period size: 5 Copynumber: 21.8 Consensus size: 5
3808560 TCTCGCTTCT
*
3808570 TTTTA TTATTA TTAT- TTTTA TTTTA TTTTA -TTTA TTATTA TTATTA
1 TTTTA TT-TTA TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA TT-TTA
* * *
3808616 TTATA -TTAA GATTT- TTTTA -TTTA TTTTCA TTTT- TTTTA TTATT-
1 TTTTA TTTTA -TTTTA TTTTA TTTTA TTTT-A TTTTA TTTTA TT-TTA
*
3808659 TATTTA -TTAA TTTTA TTTT
1 T-TTTA TTTTA TTTTA TTTT
3808678 TTTAAATAAA
Statistics
Matches: 80, Mismatches: 9, Indels: 28
0.68 0.08 0.24
Matches are distributed among these distances:
4 23 0.29
5 31 0.39
6 26 0.32
ACGTcount: A:0.25, C:0.01, G:0.01, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:3808605 original size:26 final size:26
Alignment explanation
Indices: 3808570--3808681 Score: 92
Period size: 26 Copynumber: 4.3 Consensus size: 26
3808560 TCTCGCTTCT
3808570 TTTTA-TTATTATTATTTTTATTTTA
1 TTTTATTTATTATTATTTTTATTTTA
* *
3808595 TTTTATTTATTATTATTATTATTATA
1 TTTTATTTATTATTATTTTTATTTTA
**
3808621 TTAAGATTT-TT-TTA--TTTATTTTCA
1 TT-TTATTTATTATTATTTTTATTTT-A
*
3808645 TTTTTTTTATTATTTATTTATTAATTTTA
1 TTTTATTTATTA-TTATTT-TT-ATTTTA
3808674 TTTT-TTTA
1 TTTTATTTA
3808682 AATAAAATTA
Statistics
Matches: 68, Mismatches: 9, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
23 9 0.13
24 5 0.07
25 8 0.12
26 25 0.37
27 4 0.06
28 5 0.07
29 7 0.10
30 5 0.07
ACGTcount: A:0.25, C:0.01, G:0.01, T:0.73
Consensus pattern (26 bp):
TTTTATTTATTATTATTTTTATTTTA
Found at i:3808618 original size:35 final size:33
Alignment explanation
Indices: 3808570--3808663 Score: 98
Period size: 35 Copynumber: 2.7 Consensus size: 33
3808560 TCTCGCTTCT
3808570 TTTTATTATTATTATTTTTATTTTATTTTATTTA
1 TTTTATTATTATTATTTTTATTTT-TTTTATTTA
* * *
3808604 TTATTATTATTATTATATTAAGATTTTTTTATTTA
1 TT-TTATTATTATTATTTTTA-TTTTTTTTATTTA
* *
3808639 TTTTCATTTTTTTTATTATTTATTT
1 TTTT-ATTATTATTATT-TTTATTT
3808664 ATTAATTTTA
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
34 4 0.08
35 38 0.79
36 6 0.12
ACGTcount: A:0.24, C:0.01, G:0.01, T:0.73
Consensus pattern (33 bp):
TTTTATTATTATTATTTTTATTTTTTTTATTTA
Found at i:3808642 original size:44 final size:45
Alignment explanation
Indices: 3808584--3808668 Score: 122
Period size: 44 Copynumber: 1.9 Consensus size: 45
3808574 ATTATTATTA
3808584 TTTTTATTTTATTTT-ATTTATTATTATTA-TTATTATATTAAGATT
1 TTTTTATTTTATTTTCATTT-TTATTATTATTTATT-TATTAAGATT
*
3808629 TTTTTA-TTTATTTTCATTTTTTTTATTATTTATTTATTAA
1 TTTTTATTTTATTTTCATTTTTATTATTATTTATTTATTAA
3808669 TTTTATTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
44 22 0.59
45 15 0.41
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.72
Consensus pattern (45 bp):
TTTTTATTTTATTTTCATTTTTATTATTATTTATTTATTAAGATT
Found at i:3808652 original size:22 final size:25
Alignment explanation
Indices: 3808626--3808681 Score: 73
Period size: 22 Copynumber: 2.4 Consensus size: 25
3808616 TTATATTAAG
*
3808626 ATTTTTTTATTTA-TT-TTCATTTT
1 ATTTTTTTATTTATTTATTAATTTT
*
3808649 -TTTTATTATTTATTTATTAATTTT
1 ATTTTTTTATTTATTTATTAATTTT
3808673 ATTTTTTTA
1 ATTTTTTTA
3808682 AATAAAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 11 0.41
23 2 0.07
24 7 0.26
25 7 0.26
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (25 bp):
ATTTTTTTATTTATTTATTAATTTT
Found at i:3808978 original size:150 final size:151
Alignment explanation
Indices: 3808698--3808981 Score: 430
Period size: 155 Copynumber: 1.9 Consensus size: 151
3808688 ATTAAAAAAA
* * *
3808698 AATATTTTAGGGAAAAGTTAAAAGTATCAATTTTTCTTAAGAATAAATTTTCAAAAAAAAAAGTT
1 AATATTTTAGGAAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAATTTTC---AAAAAAAGTG
* * *
3808763 TTTTTTTTTAGAAAAAGTTGAAAGTATCAACTTTTTTTAAGAATGAATTTTCAAAAAAGAGTTTT
63 TTTTTTTTTAGAAAAAATTGAAAGTATCAACTTTTTTTAAAAATAAATTTTCAAAAAAGAGTTTT
3808828 TTTCGAAATTAAAAGTTTTCAAAT
128 TTTCGAAATTAAAAGTTTTCAAAT
3808852 AATATTTTTAGGAAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAATTTTC-AAAAAA-TGTT
1 AATA-TTTTAGGAAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAGTGTT
*
3808915 TTTTTTTAGAAAAAATTGAAAGTATCAA-TTTTTCTTAAAAATAAATTTTCAAAAAAAGATTTTT
65 TTTTTTTAGAAAAAATTGAAAGTATCAACTTTTT-TTAAAAATAAATTTTC-AAAAAAGAGTTTT
3808979 TTT
128 TTT
3808982 TGGAGAAAAA
Statistics
Matches: 120, Mismatches: 7, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
149 5 0.04
150 44 0.37
151 21 0.17
154 4 0.03
155 46 0.38
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (151 bp):
AATATTTTAGGAAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAGTGTTT
TTTTTTAGAAAAAATTGAAAGTATCAACTTTTTTTAAAAATAAATTTTCAAAAAAGAGTTTTTTT
CGAAATTAAAAGTTTTCAAAT
Found at i:3809033 original size:63 final size:62
Alignment explanation
Indices: 3808863--3809067 Score: 264
Period size: 60 Copynumber: 3.4 Consensus size: 62
3808853 ATATTTTTAG
*
3808863 GAAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAATG-TTTTTTTTT--A
1 GAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAA-GATTTTTTTTTGGA
*
3808923 GAAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAGATTTTTTTTTGGA
1 GAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC-AAAAAAGATTTTTTTTTGGA
* * * * *
3808986 GAAAAAGTTGAAAGTATCAA-TTTTCTTCGAAATTAAAATTTCTAAAAA-A--TATTTTTGGA
1 GAAAAAGTTGAAAGTATCAATTTTTCTT-AAAAATAAATTTTCAAAAAAGATTTTTTTTTGGA
3809045 G-AAAAGTTGAAAGTATCAATTTT
1 GAAAAAGTTGAAAGTATCAATTTT
3809068 CCCTTGTACA
Statistics
Matches: 131, Mismatches: 8, Indels: 13
0.86 0.05 0.09
Matches are distributed among these distances:
58 18 0.14
59 13 0.10
60 41 0.31
61 16 0.12
62 12 0.09
63 31 0.24
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (62 bp):
GAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGATTTTTTTTTGGA
Found at i:3810107 original size:10 final size:10
Alignment explanation
Indices: 3810083--3810112 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
3810073 TATTTTATCA
3810083 ATTAAAATA-
1 ATTAAAATAT
3810092 ATTAAAATAT
1 ATTAAAATAT
3810102 ATTAAAATAT
1 ATTAAAATAT
3810112 A
1 A
3810113 AAAGCTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:3817070 original size:20 final size:20
Alignment explanation
Indices: 3817045--3817084 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
3817035 AGATTTGAAA
3817045 TTTAATATTTA-AATCTTATT
1 TTTAAT-TTTATAATCTTATT
*
3817065 TTTAATTTTATAATTTTATT
1 TTTAATTTTATAATCTTATT
3817085 AAATAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTAATTTTATAATCTTATT
Found at i:3820853 original size:42 final size:41
Alignment explanation
Indices: 3820803--3820885 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 41
3820793 ATAATCTTTT
* * *
3820803 TATATTTTTATAAAACTATTATTTAAGGTAGTTTTTGTACAG
1 TATATTTTTACAAAACAATTATTTAAGGT-GTTTCTGTACAG
**
3820845 TATATTTTTACAAATGAATTATTTAAGGTGTTTCTGTACAG
1 TATATTTTTACAAAACAATTATTTAAGGTGTTTCTGTACAG
3820886 AAAACGCCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 11 0.31
42 25 0.69
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.48
Consensus pattern (41 bp):
TATATTTTTACAAAACAATTATTTAAGGTGTTTCTGTACAG
Found at i:3821038 original size:154 final size:154
Alignment explanation
Indices: 3820845--3821160 Score: 413
Period size: 154 Copynumber: 2.1 Consensus size: 154
3820835 TTTTGTACAG
* * * *
3820845 TATATTTTTACAAATGAATTATTTAAGGTGTTTCTGTACAGAAAACGCCTTAAATAAT-TATTTT
1 TATATTTTTACAAATGAATTATTTAAAGTATTTCTGTACAAAAAACACCTTAAATAATCT-TTTT
* *
3820909 ATATTTTTGAATTTAAGGTTTATA-ATTAATATTTTTATAAAAAGATTATTTAAGACATATTATG
65 ATATTTTAGAATTTAAGGTTTA-AGATTAATATTTTTATAAAAAGATTATTTAAGACATATTATA
* *
3820973 TATAGAAA-AGCCTTAAATAATCATTT
129 TACAGAAACA-CCTTAAATAATCATAT
* * * * *
3820999 TATGTTTTTATAAATGAATTATTTAAAGTATTTTTGTACAAAAAATATCTTAAATAATCTTTTTA
1 TATATTTTTACAAATGAATTATTTAAAGTATTTCTGTACAAAAAACACCTTAAATAATCTTTTTA
** * * * *
3821064 TATTTTAGGGTTTAGGGTTTAAGATTAATATTTTTATAAAATGATTATTTAAGGCATATTCTATA
66 TATTTTAGAATTTAAGGTTTAAGATTAATATTTTTATAAAAAGATTATTTAAGACATATTATATA
3821129 CAGAAACACCTTAAATAATCATAT
131 CAGAAACACCTTAAATAATCATAT
3821153 TATATTTT
1 TATATTTT
3821161 AAATTATAAT
Statistics
Matches: 139, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
153 1 0.01
154 136 0.98
155 2 0.01
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.45
Consensus pattern (154 bp):
TATATTTTTACAAATGAATTATTTAAAGTATTTCTGTACAAAAAACACCTTAAATAATCTTTTTA
TATTTTAGAATTTAAGGTTTAAGATTAATATTTTTATAAAAAGATTATTTAAGACATATTATATA
CAGAAACACCTTAAATAATCATAT
Found at i:3822336 original size:14 final size:15
Alignment explanation
Indices: 3822311--3822347 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
3822301 CGGTTCTTGA
3822311 AAAGAGAAGAAGGAG
1 AAAGAGAAGAAGGAG
3822326 AAAGA-AAGAAGGAG
1 AAAGAGAAGAAGGAG
3822340 AAAG-GAAG
1 AAAGAGAAG
3822348 GGAAGAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 16 0.76
15 5 0.24
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (15 bp):
AAAGAGAAGAAGGAG
Found at i:3825915 original size:45 final size:46
Alignment explanation
Indices: 3825866--3825956 Score: 166
Period size: 47 Copynumber: 2.0 Consensus size: 46
3825856 ACAAACAATC
3825866 TAGAGCTACTTATATAAAA-TGTGTTGTAGGTTAATTAATAAGATT
1 TAGAGCTACTTATATAAAAGTGTGTTGTAGGTTAATTAATAAGATT
3825911 TAGAGCTACTTATATAAAAGGTGTGTTGTAGGTTAATTAATAAGAT
1 TAGAGCTACTTATATAAAA-GTGTGTTGTAGGTTAATTAATAAGAT
3825957 AATTTTAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
45 19 0.43
47 25 0.57
ACGTcount: A:0.37, C:0.04, G:0.20, T:0.38
Consensus pattern (46 bp):
TAGAGCTACTTATATAAAAGTGTGTTGTAGGTTAATTAATAAGATT
Found at i:3825966 original size:18 final size:19
Alignment explanation
Indices: 3825943--3825978 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3825933 GTGTTGTAGG
*
3825943 TTAATTA-ATAAGATAATT
1 TTAATTATAAAAGATAATT
3825961 TTAATTATAAAAGATAAT
1 TTAATTATAAAAGATAAT
3825979 ATTGAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.42
Consensus pattern (19 bp):
TTAATTATAAAAGATAATT
Found at i:3826289 original size:19 final size:21
Alignment explanation
Indices: 3826247--3826295 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 21
3826237 AAATGAAATC
*
3826247 AAATA-AAATCATATTTAATG
1 AAATATAAATCATATTTAATA
3826267 AAATATAAATC-TA-TTAATA
1 AAATATAAATCATATTTAATA
3826286 AAATATAAAT
1 AAATATAAAT
3826296 TAATAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 15 0.56
20 7 0.26
21 5 0.19
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (21 bp):
AAATATAAATCATATTTAATA
Found at i:3826411 original size:22 final size:22
Alignment explanation
Indices: 3826368--3826413 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
3826358 ATATTTATAC
*
3826368 ATGAAATACATCAATTACTCAA
1 ATGAAATACATCAATTAATCAA
*
3826390 ATGAAATAC-TACATTTAATCAA
1 ATGAAATACAT-CAATTAATCAA
3826412 AT
1 AT
3826414 ATAAATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.50, C:0.15, G:0.04, T:0.30
Consensus pattern (22 bp):
ATGAAATACATCAATTAATCAA
Found at i:3826894 original size:19 final size:19
Alignment explanation
Indices: 3826842--3826896 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
3826832 TTTAAATTTT
3826842 AAAT-TATTT-TTAAATAAA
1 AAATATATTTATTAAA-AAA
* * *
3826860 AAATATATTAAATAAAATA
1 AAATATATTTATTAAAAAA
3826879 AAATATATTTATTAAAAA
1 AAATATATTTATTAAAAA
3826897 TCACATGATG
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
18 4 0.14
19 21 0.72
20 4 0.14
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATATATTTATTAAAAAA
Found at i:3837366 original size:21 final size:21
Alignment explanation
Indices: 3837336--3837382 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
3837326 CTAATATCTT
*
3837336 GCATG-GTTTTGATCCATTCTA
1 GCATGTGTTTTG-TCAATTCTA
*
3837357 GCATGTTTTTTGTCAATTCTA
1 GCATGTGTTTTGTCAATTCTA
3837378 GCATG
1 GCATG
3837383 CTCCTCTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.45
Consensus pattern (21 bp):
GCATGTGTTTTGTCAATTCTA
Found at i:3837398 original size:21 final size:21
Alignment explanation
Indices: 3837374--3837414 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
3837364 TTTTGTCAAT
3837374 TCTAGCATGCTCCT-CTTCTTG
1 TCTAGCATGCT-CTACTTCTTG
3837395 TCTAGCATGCTCTACTTCTT
1 TCTAGCATGCTCTACTTCTT
3837415 TTTATGCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.12, C:0.32, G:0.12, T:0.44
Consensus pattern (21 bp):
TCTAGCATGCTCTACTTCTTG
Found at i:3838377 original size:161 final size:159
Alignment explanation
Indices: 3837936--3838520 Score: 495
Period size: 161 Copynumber: 3.7 Consensus size: 159
3837926 TGGCAACTTA
* * * * **
3837936 TTCATGCATATTAA-CTATGGCAACCAAGGTCAATCATTTGGACAAATTTAATATTATGCATTGG
1 TTCATGCATATCAAGC-ATGACAACCAAGTTCAAT-ATTT-GACAAATTTAATATCATATATTGG
* *
3838000 AGCTATCTAAACTATT-AAACAGAAATATAACTATAAATTTATATTTTTATCCTTTGAAAGCATA
63 AGCTATCTAAACTATTAAAACATAAATATAACTATAAATTTATATTTTTATCCTTTGACAGCATA
* * * * *
3838064 AGACGTTTTAAACACACATAAATCGT-AACATT
128 AAAAGTTATAAACACACATAAATCATCAA-TTT
* * ** * * * * * *
3838096 TTCATGTATGTCAAGTGTGAC-GCCAAGTTTAATAATCGTACAAATTTAATATCATGTATTTGAG
1 TTCATGCATATCAAGCATGACAACCAAGTTCAATATTTG-ACAAATTTAATATCATATATTGGAG
* * * * * * * * * *
3838160 CTATCTAAATTGTTAAAATAGAAGTATAATTACAATTTTACATTTTTATCCTTTGACAGCACAAA
65 CTATCTAAACTATTAAAACATAAATATAACTATAAATTTATATTTTTATCCTTTGACAGCATAAA
3838225 AAGTTATAAACACACATAAA-CATCAATTT
130 AAGTTATAAACACACATAAATCATCAATTT
* *
3838254 ATTCATGCATATCAAGCATGACAACCAAGTTCAACTATTTGAACAAGTTTAATATCATATAGTGG
1 -TTCATGCATATCAAGCATGACAACCAAGTTCAA-TATTTG-ACAAATTTAATATCATATATTGG
** * * *
3838319 ATATATCTAAACTGTTAAAACTTATATATAACTATAAATTTATATTTTTA-CGCTTTGACAGCAT
63 AGCTATCTAAACTATTAAAACATAAATATAACTATAAATTTATATTTTTATC-CTTTGACAGCAT
** * *
3838383 AAAAAGTCCTAAAAACATATAAATCA-CAATATT
127 AAAAAGTTATAAACACACATAAATCATCAAT-TT
*** * * * * * *
3838416 TTCAAATATATCAAGCAT-AGTAGCCAAGTTCAACAATTAGACAAGTTTAATATCATGA-ATTGA
1 TTCATGCATATCAAGCATGA-CAACCAAGTTCAA-TATTTGACAAATTTAATATCAT-ATATTGG
* *
3838479 AGCTATCTAAACTATTAAAACATAAATATAATTGTAAATTTA
63 AGCTATCTAAACTATTAAAACATAAATATAACTATAAATTTA
3838521 CAATTTATCC
Statistics
Matches: 338, Mismatches: 75, Indels: 24
0.77 0.17 0.05
Matches are distributed among these distances:
157 1 0.00
158 40 0.12
159 87 0.26
160 79 0.23
161 127 0.38
162 4 0.01
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (159 bp):
TTCATGCATATCAAGCATGACAACCAAGTTCAATATTTGACAAATTTAATATCATATATTGGAGC
TATCTAAACTATTAAAACATAAATATAACTATAAATTTATATTTTTATCCTTTGACAGCATAAAA
AGTTATAAACACACATAAATCATCAATTT
Found at i:3838530 original size:320 final size:320
Alignment explanation
Indices: 3837933--3838546 Score: 688
Period size: 320 Copynumber: 1.9 Consensus size: 320
3837923 AGATGGCAAC
* * * * * *
3837933 TTATTCATGCATATTAACTATGGCAACCAAGGTCAATCATTTGGACAAATTTAATATTATGCATT
1 TTATTCATGCATATCAACTATGACAACCAAGGTCAATCATTTGAACAAATTTAATATCATACAGT
*
3837998 GGAGCTATCTAAACTATTAAACAGAAATATAACTATAAATTTATATTTTTATCCTTTGAAAGCAT
66 GGAGATATCTAAACTATTAAACAGAAATATAACTATAAATTTATATTTTTATCCTTTGAAAGCAT
* * ** * ** ** * *
3838063 AAGACGTTTTAAACACACATAAATCGTAACATTTTCATGTATGTCAAGTGTGACGCCAAGTTTAA
131 AAAAAGTCCTAAAAACACATAAATCACAACATTTTCAAATATATCAAGTGTGACGCCAAGTTCAA
* * * * * * *
3838128 TAATCGTACAAATTTAATATCATGTATTTGAGCTATCTAAATTGTTAAAATAGAAGTATAATTAC
196 CAATAGTACAAATTTAATATCATGTAATTGAGCTATCTAAACTATTAAAACAGAAATATAATTAC
* * *
3838193 AATTTTACATTTTTAT-CCTTTGACAGCACAAAAAGTTATAAACACACATAAACATCAAT
261 AAATTTACATATTTATCCCTTTAACAGCACAAAAAGTTATAAACACACATAAACATCAAT
* * *
3838252 TTATTCATGCATATCAAGC-ATGACAACCAAGTTCAA-CTATTTGAACAAGTTTAATATCATATA
1 TTATTCATGCATATCAA-CTATGACAACCAAGGTCAATC-ATTTGAACAAATTTAATATCATACA
* * ** * *
3838315 GTGGATATATCTAAACTGTTAAAACTTATATATAACTATAAATTTATATTTTTA-CGCTTTGACA
64 GTGGAGATATCTAAACTATT-AAACAGAAATATAACTATAAATTTATATTTTTATC-CTTTGAAA
* *
3838379 GCATAAAAAGTCCTAAAAACATATAAATCACAATATTTTCAAATATATCAAGCATAGT-A-GCCA
127 GCATAAAAAGTCCTAAAAACACATAAATCACAACATTTTCAAATATATCAAG--T-GTGACGCCA
* *
3838442 AGTTCAACAATTAG-ACAAGTTTAATATCATG-AATTGAAGCTATCTAAACTATTAAAACATAAA
189 AGTTCAACAA-TAGTACAAATTTAATATCATGTAATTG-AGCTATCTAAACTATTAAAACAGAAA
** *
3838505 TATAATTGTAAATTTACA-ATTTATCCCTTTAACAGTACAAAA
252 TATAATTACAAATTTACATATTTATCCCTTTAACAGCACAAAA
3838547 TTCCTAAAAA
Statistics
Matches: 241, Mismatches: 44, Indels: 18
0.80 0.15 0.06
Matches are distributed among these distances:
318 1 0.00
319 68 0.28
320 87 0.36
321 79 0.33
322 4 0.02
323 2 0.01
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (320 bp):
TTATTCATGCATATCAACTATGACAACCAAGGTCAATCATTTGAACAAATTTAATATCATACAGT
GGAGATATCTAAACTATTAAACAGAAATATAACTATAAATTTATATTTTTATCCTTTGAAAGCAT
AAAAAGTCCTAAAAACACATAAATCACAACATTTTCAAATATATCAAGTGTGACGCCAAGTTCAA
CAATAGTACAAATTTAATATCATGTAATTGAGCTATCTAAACTATTAAAACAGAAATATAATTAC
AAATTTACATATTTATCCCTTTAACAGCACAAAAAGTTATAAACACACATAAACATCAAT
Found at i:3838607 original size:159 final size:160
Alignment explanation
Indices: 3838278--3838611 Score: 374
Period size: 160 Copynumber: 2.1 Consensus size: 160
3838268 AGCATGACAA
* * * * * *
3838278 CCAAGTTCAACTATTTGAACAAGTTTAATATCATATAGTGGATATATCTAAACTGTTAAAACTTA
1 CCAAGTTCAACAATTAGAACAAGTTTAATATCATATAGTGAAGATATCTAAACTATTAAAACATA
* * * * * * *
3838343 TATATAACTATAAATTTATATTTTTACGCTTTGACAGCATAAAAAGTCCTAAAAACATATAAATC
66 AATATAACTATAAATTTAAATTTATACCCTTTAACAG-ATAAAAAGTCCTAAAAACACATAAACC
3838408 ACAATATTTTCAAATATATCAAGCATAGTAG
130 ACAATATTTTCAAATATATCAAGCATAGTAG
* *
3838439 CCAAGTTCAACAATTAG-ACAAGTTTAATATCATGA-ATTGAAGCTATCTAAACTATTAAAACAT
1 CCAAGTTCAACAATTAGAACAAGTTTAATATCAT-ATAGTGAAGATATCTAAACTATTAAAACAT
* * *
3838502 AAATATAATTGTAAATTTACAATTTAT-CCCTTTAACAG-TACAAAATTCCTAAAAACACATAAA
65 AAATATAACTATAAATTTA-AATTTATACCCTTTAACAGATA-AAAAGTCCTAAAAACACATAAA
* * *
3838565 CCACAACTTTTTCTCACATAT-T-AAGCATGGTAG
128 CCACAA-TATTT-TCAAATATATCAAGCATAGTAG
*
3838598 TCAAGTTCAACAAT
1 CCAAGTTCAACAAT
3838612 AACTTTTTCT
Statistics
Matches: 146, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
158 2 0.01
159 48 0.33
160 68 0.47
161 28 0.19
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.33
Consensus pattern (160 bp):
CCAAGTTCAACAATTAGAACAAGTTTAATATCATATAGTGAAGATATCTAAACTATTAAAACATA
AATATAACTATAAATTTAAATTTATACCCTTTAACAGATAAAAAGTCCTAAAAACACATAAACCA
CAATATTTTCAAATATATCAAGCATAGTAG
Found at i:3838630 original size:43 final size:43
Alignment explanation
Indices: 3838569--3838654 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
3838559 CATAAACCAC
*
3838569 AACTTTTTCTCACATATTAAGCATGGTAGTCAAGTTCAACAAT
1 AACTTTTTCTCACATATTAAGCATGGTAGCCAAGTTCAACAAT
3838612 AACTTTTTCTCACATATTAAGCATGGTAGCCAAGTTCAACAAT
1 AACTTTTTCTCACATATTAAGCATGGTAGCCAAGTTCAACAAT
3838655 CATACAAGTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.34
Consensus pattern (43 bp):
AACTTTTTCTCACATATTAAGCATGGTAGCCAAGTTCAACAAT
Found at i:3838812 original size:160 final size:157
Alignment explanation
Indices: 3838611--3839216 Score: 603
Period size: 160 Copynumber: 3.8 Consensus size: 157
3838601 AGTTCAACAA
* * *
3838611 TAACTTTTTCTCACATATTAAGCATGGTAGCCAAGTTCAACAATCATACAAGTTTAATATAATGT
1 TAACTTTTTCACACATATCAAGCATGGTAGCCAAGTTCAACAATCATACAAGTTTAATATCATGT
*
3838676 ATTAGAGCTATCTAAACTGTTAAAATAGAAATATAA-TCATAAATTTGCATTTTTTCCTTTTAAT
66 ATTGGAGCTATCTAAACTGTTAAAATA-AAATATAACT-ATAAATTTGCATTTTTTCC-TTTAAT
* * *
3838740 AGCATAAAAAGTTCTAAACATAAATAAATTT
128 GGCACAAAAAGTTCTAAACAT-AATAAATTC
* * * * **
3838771 TAACCTTTTCACACATATCAAGTATGATAGCCAATTTCAACAATTGTACAAGTTTAATATCATGT
1 TAACTTTTTCACACATATCAAGCATGGTAGCCAAGTTCAACAATCATACAAGTTTAATATCATGT
* * * * * * *
3838836 ATTTGAGCTATCTAAACTG-TAAGAATATAATATAACTGTAAATTTGTATTTGTGCCTTTAGACG
66 ATTGGAGCTATCTAAACTGTTAA-AATAAAATATAACTATAAATTTGCATTTTTTCCTTTA-ATG
* * * *
3838900 GCACAAAAATTTTTACACAT-ACAAATTC
129 GCACAAAAAGTTCTAAACATAATAAATTC
** * *
3838928 TAA-TTTATTCATGCATATCAAGCATGGTAGCCAAGTTCAACCATTCAAACAAGTTTAATATCAT
1 TAACTTT-TTCACACATATCAAGCATGGTAGCCAAGTTCAA-CAATCATACAAGTTTAATATCAT
* * ***
3838992 GTATTGGAGCTATCTAAACTGTTCAAATAAAAATATAACTACAAATCTATATTTTTTTTCGCTTT
64 GTATTGGAGCTATCTAAACTGTTAAAAT-AAAATATAACTATAAAT-T-TGCATTTTTTC-CTTT
* * * *
3839057 GATGGCACAAAAAGTCCTAAATACAT-ATAAACTG
125 AATGGCACAAAAAGTTCT-AA-ACATAATAAATTC
** * * *
3839091 TAACTTTTTCACACATATCAAATATGGCAACCAAGTTCAACAATCATACAAGTTTAATATTATGT
1 TAACTTTTTCACACATATCAAGCATGGTAGCCAAGTTCAACAATCATACAAGTTTAATATCATGT
* * * * * *
3839156 ATGGGAGCTATCTAAATTGTTAAAA-AAAATATAATTGTAAATTTTCATTTTTACCCTTTAA
66 ATTGGAGCTATCTAAACTGTTAAAATAAAATATAACTATAAATTTGCATTTTT-TCCTTTAA
3839217 CGACATAAAA
Statistics
Matches: 361, Mismatches: 71, Indels: 30
0.78 0.15 0.06
Matches are distributed among these distances:
156 2 0.01
157 37 0.10
158 57 0.16
159 60 0.17
160 94 0.26
161 20 0.06
162 49 0.14
163 39 0.11
164 3 0.01
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (157 bp):
TAACTTTTTCACACATATCAAGCATGGTAGCCAAGTTCAACAATCATACAAGTTTAATATCATGT
ATTGGAGCTATCTAAACTGTTAAAATAAAATATAACTATAAATTTGCATTTTTTCCTTTAATGGC
ACAAAAAGTTCTAAACATAATAAATTC
Found at i:3839128 original size:523 final size:523
Alignment explanation
Indices: 3838117--3839134 Score: 1104
Period size: 523 Copynumber: 1.9 Consensus size: 523
3838107 CAAGTGTGAC
* * * * * *
3838117 GCCAAGTTTAATAATCGTACAAATTTAATATCATGTATTTGAGCTATCTAAATTGTTAAAATAGA
1 GCCAAGTTCAACAATCATACAAATTTAATATAATGTATTAGAGCTATCTAAACTGTTAAAATAGA
* * * * *
3838182 AGTATAATTACAATTTTACATTTTTATCCTTTGACAGCACAAAAAGTTATAAACACACATAAACA
66 AATATAATCACAAATTTACATTTTTATCCTTTAACAGCACAAAAAGTTATAAACACAAATAAACA
* ** *
3838247 TCAATTTATTCATGCATATCAAGCATGACAACCAAGTTCAACTATTTGAACAAGTTTAATATCAT
131 TCAACTTATTCACACATATCAAGCATGACAACCAAGTTCAACTAATTGAACAAGTTTAATATCAT
* *
3838312 ATAGTGGATATATCTAAACTGTTAAAACTTATATATAACTATAAATTTATATTTTTACGCTTTGA
196 ATAGTGGAGATATCTAAACTGTTAAAACTTATATATAACTATAAATTTATATTTGTACGCTTTGA
* * *
3838377 CAGCATAAAAAGTCCTAAAAACATATAAATCACAATATTTTCAAATATATCAAGCATAGTAGCCA
261 CAGCACAAAAAGTCCTAAAAACATACAAATCACAATATTTTCAAACATATCAAGCATAGTAGCCA
* *
3838442 AGTTCAACAATTAGACAAGTTTAATATCATGAATTGAAGCTATCTAAACTATTAAAACATAAATA
326 AGTTCAACAATTAAACAAGTTTAATATCATGAATTGAAGCTATCTAAACTATTAAAACAAAAATA
* ** * *
3838507 TAATTGTAAATTTACAATTTATCCCTTTAACAGTACAAAATTCCTAAAAACACATAAACCACAAC
391 TAACTACAAATTTACAATTTATCCCTTTAACAGCACAAAAGTCCTAAAAACACATAAACCACAAC
* * * * **
3838572 TTTTTCTCACATATTAAGCATGGTAGTCAAGTTCAACAATAACTTTTTCTCACATATTAAGCATG
456 TTTTTCACACATATCAAACATGGCAACCAAGTTCAACAATAACTTTTTCTCACATATTAAGCATG
3838637 GTA
521 GTA
*
3838640 GCCAAGTTCAACAATCATACAAGTTTAATATAATGTATTAGAGCTATCTAAACTGTTAAAATAGA
1 GCCAAGTTCAACAATCATACAAATTTAATATAATGTATTAGAGCTATCTAAACTGTTAAAATAGA
* * * * * * *
3838705 AATATAATCATAAATTTGCATTTTT-TCCTTTTAATAGCATAAAAAGTTCTAAACATAAATAAAT
66 AATATAATCACAAATTTACATTTTTATCC-TTTAACAGCACAAAAAGTTATAAACACAAATAAAC
* * * * * * *
3838769 TTTAACCTT-TTCACACATATCAAGTATGATAGCCAATTTCAAC-AATTGTACAAGTTTAATATC
130 ATCAA-CTTATTCACACATATCAAGCATGACAACCAAGTTCAACTAATTGAACAAGTTTAATATC
* * * * * * *
3838832 ATGTATTTGAGCTATCTAAACTG-TAAGAA--TATAATATAACTGTAAATTTGTATTTGTGC-CT
194 ATATAGTGGAGATATCTAAACTGTTAA-AACTTAT-ATATAACTATAAATTTATATTTGTACGCT
* * ** * * ** *
3838893 TTAGACGGCACAAAAA-T-TTTTACACATACAAATTC-TAAT-TTATTCATGCATATCAAGCATG
257 TT-GACAGCACAAAAAGTCCTAAAAACATACAAA-TCACAATATT-TTCAAACATATCAAGCATA
* * * * *
3838954 GTAGCCAAGTTCAACCATTCAAACAAGTTTAATATCATGTATTGGAGCTATCTAAACTGTTCAAA
319 GTAGCCAAGTTCAACAATT-AAACAAGTTTAATATCATGAATTGAAGCTATCTAAACTATTAAAA
* *** * * * ** * *
3839019 TAAAAATATAACTACAAATCTATATTTTTTTTCGCTTTGATGGCACAAAAAGTCCTAAATACATA
383 CAAAAATATAACTACAAAT-T-TACAATTTATCCCTTTAACAGCAC-AAAAGTCCTAAAAACACA
*** *
3839084 TAAACTGTAACTTTTTCACACATATCAAATATGGCAACCAAGTTCAACAAT
445 TAAACCACAACTTTTTCACACATATCAAACATGGCAACCAAGTTCAACAAT
3839135 CATACAAGTT
Statistics
Matches: 400, Mismatches: 84, Indels: 22
0.79 0.17 0.04
Matches are distributed among these distances:
518 2 0.00
519 46 0.12
520 64 0.16
521 37 0.09
522 56 0.14
523 193 0.48
524 2 0.00
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (523 bp):
GCCAAGTTCAACAATCATACAAATTTAATATAATGTATTAGAGCTATCTAAACTGTTAAAATAGA
AATATAATCACAAATTTACATTTTTATCCTTTAACAGCACAAAAAGTTATAAACACAAATAAACA
TCAACTTATTCACACATATCAAGCATGACAACCAAGTTCAACTAATTGAACAAGTTTAATATCAT
ATAGTGGAGATATCTAAACTGTTAAAACTTATATATAACTATAAATTTATATTTGTACGCTTTGA
CAGCACAAAAAGTCCTAAAAACATACAAATCACAATATTTTCAAACATATCAAGCATAGTAGCCA
AGTTCAACAATTAAACAAGTTTAATATCATGAATTGAAGCTATCTAAACTATTAAAACAAAAATA
TAACTACAAATTTACAATTTATCCCTTTAACAGCACAAAAGTCCTAAAAACACATAAACCACAAC
TTTTTCACACATATCAAACATGGCAACCAAGTTCAACAATAACTTTTTCTCACATATTAAGCATG
GTA
Found at i:3839588 original size:17 final size:17
Alignment explanation
Indices: 3839566--3839598 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3839556 TCTATACTAC
*
3839566 TATTTCGATGGAAATAT
1 TATTTCGATGAAAATAT
3839583 TATTTCGATGAAAATA
1 TATTTCGATGAAAATA
3839599 CCTTTTCTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.39
Consensus pattern (17 bp):
TATTTCGATGAAAATAT
Found at i:3842970 original size:19 final size:19
Alignment explanation
Indices: 3842948--3843009 Score: 51
Period size: 19 Copynumber: 3.5 Consensus size: 19
3842938 GGATTTAAGA
3842948 TTTTACCTAAGGTTTAGAG
1 TTTTACCTAAGGTTTAGAG
** *
3842967 TTTTATTTAGGGTTT--AG
1 TTTTACCTAAGGTTTAGAG
*
3842984 --TTACCTAAGGTTTAGGG
1 TTTTACCTAAGGTTTAGAG
*
3843001 TTTCACCTA
1 TTTTACCTA
3843010 GAGTTTCATT
Statistics
Matches: 31, Mismatches: 8, Indels: 8
0.66 0.17 0.17
Matches are distributed among these distances:
15 10 0.32
17 3 0.10
19 18 0.58
ACGTcount: A:0.23, C:0.11, G:0.21, T:0.45
Consensus pattern (19 bp):
TTTTACCTAAGGTTTAGAG
Found at i:3843224 original size:7 final size:7
Alignment explanation
Indices: 3843212--3843256 Score: 58
Period size: 7 Copynumber: 6.4 Consensus size: 7
3843202 TGAAAATTTA
3843212 TTATTAT
1 TTATTAT
3843219 TTATTAT
1 TTATTAT
3843226 TTATCT-T
1 TTAT-TAT
3843233 TTATTATT
1 TTATTA-T
3843241 TTATT-T
1 TTATTAT
3843247 TTATTAT
1 TTATTAT
3843254 TTA
1 TTA
3843257 ATAATTTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
6 7 0.21
7 20 0.59
8 7 0.21
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (7 bp):
TTATTAT
Found at i:3843340 original size:3 final size:3
Alignment explanation
Indices: 3843332--3843401 Score: 122
Period size: 3 Copynumber: 23.3 Consensus size: 3
3843322 CTCTTTTAGG
*
3843332 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
3843380 TAT TAC TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
3843402 TGTGTTTCAT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:3850241 original size:35 final size:35
Alignment explanation
Indices: 3850202--3850276 Score: 141
Period size: 35 Copynumber: 2.1 Consensus size: 35
3850192 AAACAAATAT
3850202 AAATCGTAATACACATCAAACCCAAATTTACCATA
1 AAATCGTAATACACATCAAACCCAAATTTACCATA
*
3850237 AAATCGTAATACACATCAAACCCAAATTTATCATA
1 AAATCGTAATACACATCAAACCCAAATTTACCATA
3850272 AAATC
1 AAATC
3850277 AACATAAATC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.49, C:0.24, G:0.03, T:0.24
Consensus pattern (35 bp):
AAATCGTAATACACATCAAACCCAAATTTACCATA
Found at i:3850350 original size:17 final size:17
Alignment explanation
Indices: 3850313--3850371 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
3850303 TAATAAATCT
3850313 ATAAAAAAAA-C--CAA
1 ATAAAAAAAATCAACAA
*
3850327 A-AAAAAAACTCAACAA
1 ATAAAAAAAATCAACAA
3850343 ATAAAAAAAATCAACAA
1 ATAAAAAAAATCAACAA
3850360 TACTAAAAAAAA
1 -A-TAAAAAAAA
3850372 CCCAAAAAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
13 7 0.19
14 2 0.05
16 4 0.11
17 14 0.38
18 1 0.03
19 9 0.24
ACGTcount: A:0.76, C:0.14, G:0.00, T:0.10
Consensus pattern (17 bp):
ATAAAAAAAATCAACAA
Found at i:3850350 original size:19 final size:20
Alignment explanation
Indices: 3850326--3850371 Score: 62
Period size: 18 Copynumber: 2.4 Consensus size: 20
3850316 AAAAAAACCA
3850326 AAAAAAAAACTCAACAA-A-T
1 AAAAAAAAA-TCAACAATACT
3850345 -AAAAAAAATCAACAATACT
1 AAAAAAAAATCAACAATACT
3850364 AAAAAAAA
1 AAAAAAAA
3850372 CCCAAAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 7 0.29
18 9 0.38
19 1 0.04
20 7 0.29
ACGTcount: A:0.76, C:0.13, G:0.00, T:0.11
Consensus pattern (20 bp):
AAAAAAAAATCAACAATACT
Found at i:3850378 original size:29 final size:31
Alignment explanation
Indices: 3850346--3850421 Score: 93
Period size: 29 Copynumber: 2.5 Consensus size: 31
3850336 TCAACAAATA
*
3850346 AAAAAAATCAACAATACT-A-AAAAAAACCC
1 AAAAAAATTAACAATACTAACAAAAAAACCC
* *
3850375 AAAAAGATTAACAATACTCAACAAAAAAATCC
1 AAAAAAATTAACAATACT-AACAAAAAAACCC
3850407 AACAAAAATTAACAA
1 AA-AAAAATTAACAA
3850422 AAAGTTTAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
29 16 0.41
31 1 0.03
32 11 0.28
33 11 0.28
ACGTcount: A:0.67, C:0.18, G:0.01, T:0.13
Consensus pattern (31 bp):
AAAAAAATTAACAATACTAACAAAAAAACCC
Found at i:3850456 original size:25 final size:25
Alignment explanation
Indices: 3850410--3850463 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
3850400 AAAATCCAAC
*
3850410 AAAAATTAACAAAAAGTTTAACAAA
1 AAAAATTAACAAAAAGTATAACAAA
*
3850435 AAAAACTTAACAAATA-TATAACAAA
1 AAAAA-TTAACAAAAAGTATAACAAA
3850460 AAAA
1 AAAA
3850464 CCCAACGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 17 0.65
26 9 0.35
ACGTcount: A:0.70, C:0.09, G:0.02, T:0.19
Consensus pattern (25 bp):
AAAAATTAACAAAAAGTATAACAAA
Found at i:3850511 original size:235 final size:236
Alignment explanation
Indices: 3850237--3850707 Score: 840
Period size: 235 Copynumber: 2.0 Consensus size: 236
3850227 ATTTACCATA
*
3850237 AAATCGTAATACACATCAAACCCAAATTTATCATAAAATCAACATAAATCTTACACATTTAAAAA
1 AAATCGTAATACACATCAAACCCAAATTTACCATAAAATCAACATAAATCTTACACATTTAAAAA
3850302 TTAATAAATCTATAAAAAAAACC-AAAA-AAAAAACTCAACAAATAAAAAAAATCAACAATACTA
66 TTAATAAATCTAT-AAAAAAACCAAAAATAAAAAACTCAA-AAATAAAAAAAATCAACAATACTA
3850365 AAAAAAACCCAAAAAGATTAACAATACTCAACAAAAAAATCCAACAAAAATTAACAAAAAGTTTA
129 AAAAAAACCCAAAAAGATTAACAATACTCAACAAAAAAATCCAACAAAAATTAACAAAAAGTTTA
3850430 AC-AAAAAAAACTTAACAAATATATAACAAAAAAACCCAACGT
194 ACAAAAAAAAACTTAACAAATATATAACAAAAAAACCCAACGT
*
3850472 AAATCGTAATACACATCAAACCCAAATTTACCATAAAATCAACATAAATTTTACACATTTAAAAA
1 AAATCGTAATACACATCAAACCCAAATTTACCATAAAATCAACATAAATCTTACACATTTAAAAA
*
3850537 TTAATAAATCTATAAAAAAACCAAAAATAAAAAACTCAAAAATAAAAACAATCAACAATACTAAA
66 TTAATAAATCTATAAAAAAACCAAAAATAAAAAACTCAAAAATAAAAAAAATCAACAATACTAAA
*
3850602 AAAAACCCAAAAAGATTAACAATACTCAACAAAAAAATCCAACAAAAATTAAGAAAAAGTTTAAC
131 AAAAACCCAAAAAGATTAACAATACTCAACAAAAAAATCCAACAAAAATTAACAAAAAGTTTAAC
*
3850667 AAAAAAAAAAACTTAACAAATATATAACCAAAAAACCCAAC
196 --AAAAAAAAACTTAACAAATATATAACAAAAAAACCCAAC
3850708 AAATCTCAAC
Statistics
Matches: 226, Mismatches: 5, Indels: 7
0.95 0.02 0.03
Matches are distributed among these distances:
234 9 0.04
235 169 0.75
236 11 0.05
238 37 0.16
ACGTcount: A:0.62, C:0.17, G:0.02, T:0.19
Consensus pattern (236 bp):
AAATCGTAATACACATCAAACCCAAATTTACCATAAAATCAACATAAATCTTACACATTTAAAAA
TTAATAAATCTATAAAAAAACCAAAAATAAAAAACTCAAAAATAAAAAAAATCAACAATACTAAA
AAAAACCCAAAAAGATTAACAATACTCAACAAAAAAATCCAACAAAAATTAACAAAAAGTTTAAC
AAAAAAAAACTTAACAAATATATAACAAAAAAACCCAACGT
Found at i:3850591 original size:16 final size:15
Alignment explanation
Indices: 3850548--3850596 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
3850538 TAATAAATCT
*
3850548 ATAAAAAAACCAAAA
1 ATAAAAAAATCAAAA
*
3850563 ATAAAAAACTCAAAA
1 ATAAAAAAATCAAAA
*
3850578 ATAAAAACAATCAACA
1 ATAAAAA-AATCAAAA
3850594 ATA
1 ATA
3850597 CTAAAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
15 20 0.69
16 9 0.31
ACGTcount: A:0.73, C:0.14, G:0.00, T:0.12
Consensus pattern (15 bp):
ATAAAAAAATCAAAA
Found at i:3851781 original size:18 final size:19
Alignment explanation
Indices: 3851749--3851790 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
3851739 AGCATTTTTA
3851749 GAAAAAACTAGAAAAATTT
1 GAAAAAACTAGAAAAATTT
* *
3851768 TAAAAATCTA-AAAAATTT
1 GAAAAAACTAGAAAAATTT
3851786 GAAAA
1 GAAAA
3851791 CTTTTTTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.24
Consensus pattern (19 bp):
GAAAAAACTAGAAAAATTT
Found at i:3851818 original size:9 final size:9
Alignment explanation
Indices: 3851804--3851860 Score: 53
Period size: 9 Copynumber: 6.3 Consensus size: 9
3851794 TTTTTTGAAG
3851804 AATTTAAAA
1 AATTTAAAA
3851813 AATTT-AAA
1 AATTTAAAA
* *
3851821 AATCTAAGA
1 AATTTAAAA
*
3851830 AATTAAAAA
1 AATTTAAAA
*
3851839 AATCATAAAA
1 AAT-TTAAAA
*
3851849 ATTTTAAAA
1 AATTTAAAA
3851858 AAT
1 AAT
3851861 GAAAATTCAC
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
8 7 0.19
9 23 0.64
10 6 0.17
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.30
Consensus pattern (9 bp):
AATTTAAAA
Found at i:3852002 original size:9 final size:8
Alignment explanation
Indices: 3851988--3852138 Score: 61
Period size: 8 Copynumber: 17.5 Consensus size: 8
3851978 CTAAAAGTTT
3851988 TTAAAAAA
1 TTAAAAAA
3851996 CTT-AAAAA
1 -TTAAAAAA
3852004 TTAAAAAA
1 TTAAAAAA
* *
3852012 ATAAAAAT
1 TTAAAAAA
3852020 TTCAAAGAAA
1 TT-AAA-AAA
**
3852030 TCCCAAAAA
1 T-TAAAAAA
3852039 TTAAAAAAA
1 TT-AAAAAA
*
3852048 TTAAAAAT
1 TTAAAAAA
3852056 TATAAAAAA
1 T-TAAAAAA
*
3852065 GTAAAAAA
1 TTAAAAAA
* *
3852073 ATATGAAAA
1 TTA-AAAAA
3852082 TTATCAAAAA
1 TTA--AAAAA
***
3852092 AGGAAAAA
1 TTAAAAAA
3852100 TCTAAAAAA
1 T-TAAAAAA
3852109 TTGAAAAAAA
1 TT--AAAAAA
*
3852119 ATAAAAAA
1 TTAAAAAA
**
3852127 TTTGAAAA
1 TTAAAAAA
3852135 TTAA
1 TTAA
3852139 GAACATCCCC
Statistics
Matches: 103, Mismatches: 28, Indels: 23
0.67 0.18 0.15
Matches are distributed among these distances:
7 2 0.02
8 51 0.50
9 34 0.33
10 16 0.16
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (8 bp):
TTAAAAAA
Found at i:3852064 original size:27 final size:26
Alignment explanation
Indices: 3852034--3852137 Score: 93
Period size: 26 Copynumber: 3.9 Consensus size: 26
3852024 AAGAAATCCC
*
3852034 AAAAATTAAAAAAATTAAAAATTATA
1 AAAAAGTAAAAAAATTAAAAATTATA
*
3852060 AAAAAGTAAAAAAATATGAAAATTATCA
1 AAAAAGTAAAAAAAT-TAAAAATTAT-A
* ** *
3852088 AAAAAGGAAAAATCTAAAAAATTGA-A
1 AAAAAGTAAAAAAATTAAAAATT-ATA
* * *
3852114 AAAAAATAAAAAATTTGAAAATTA
1 AAAAAGTAAAAAAATTAAAAATTA
3852138 AGAACATCCC
Statistics
Matches: 62, Mismatches: 13, Indels: 7
0.76 0.16 0.09
Matches are distributed among these distances:
25 1 0.02
26 32 0.52
27 15 0.24
28 14 0.23
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (26 bp):
AAAAAGTAAAAAAATTAAAAATTATA
Found at i:3852070 original size:16 final size:16
Alignment explanation
Indices: 3851988--3852071 Score: 64
Period size: 17 Copynumber: 5.0 Consensus size: 16
3851978 CTAAAAGTTT
**
3851988 TTAAAAAACTTAAAAA
1 TTAAAAAAAGTAAAAA
3852004 TTAAAAAAA-TAAAAA
1 TTAAAAAAAGTAAAAA
*
3852019 TTTCAAAGAAA-TCCCAAAAA
1 -TT-AAAAAAAGT---AAAAA
*
3852039 TTAAAAAAATTAAAAA
1 TTAAAAAAAGTAAAAA
3852055 TTATAAAAAAGTAAAAA
1 TTA-AAAAAAGTAAAAA
3852072 AATATGAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
15 6 0.11
16 18 0.32
17 19 0.33
18 6 0.11
19 3 0.05
20 5 0.09
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (16 bp):
TTAAAAAAAGTAAAAA
Found at i:3852236 original size:35 final size:36
Alignment explanation
Indices: 3852187--3852270 Score: 98
Period size: 35 Copynumber: 2.3 Consensus size: 36
3852177 AACTTTCAAG
* * *
3852187 AAAATAAAAAAAAAGGAAAAATTT-TAAAATTAAAA
1 AAAATAAAGAAAAAGAAAAAATTTAAAAAATTAAAA
*
3852222 AAAATAAAGCAAAAGAAAAAATTTGAAAAAAATTAAAA
1 AAAATAAAGAAAAAGAAAAAATTT--AAAAAATTAAAA
*
3852260 AAGATAAAGAA
1 AAAATAAAGAA
3852271 TTGATGCATT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
35 21 0.52
38 19 0.47
ACGTcount: A:0.74, C:0.01, G:0.08, T:0.17
Consensus pattern (36 bp):
AAAATAAAGAAAAAGAAAAAATTTAAAAAATTAAAA
Found at i:3852567 original size:38 final size:39
Alignment explanation
Indices: 3852486--3852567 Score: 96
Period size: 38 Copynumber: 2.1 Consensus size: 39
3852476 CATAATTAAA
* * **
3852486 TTTTTAAAATTTTTTGGTGTTTTCTTTGAAATTTTTTAG
1 TTTTTAAAATTTTCTGGTGTTTTCTTAGAAATTTAATAG
*
3852525 TTTTTAAAATTTTCT-GTGATTTT-TTAGAAATTTAATAT
1 TTTTTAAAATTTTCTGGTG-TTTTCTTAGAAATTTAATAG
3852563 TTTTT
1 TTTTT
3852568 TTAAAAATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
38 19 0.51
39 18 0.49
ACGTcount: A:0.24, C:0.02, G:0.10, T:0.63
Consensus pattern (39 bp):
TTTTTAAAATTTTCTGGTGTTTTCTTAGAAATTTAATAG
Found at i:3852568 original size:39 final size:40
Alignment explanation
Indices: 3852486--3852573 Score: 92
Period size: 39 Copynumber: 2.2 Consensus size: 40
3852476 CATAATTAAA
* * **
3852486 TTTTTAAAATTTTTTGGTGTTTTCTTTGAAATTTTTTA-G
1 TTTTTAAAATTTTCTGGTGTTTTCTTAGAAATTTAATATG
*
3852525 TTTTTAAAATTTTCT-GTGATTTT-TTAGAAATTTAATATTT
1 TTTTTAAAATTTTCTGGTG-TTTTCTTAGAAATTTAATA-TG
3852565 TTTTTAAAA
1 TTTTTAAAA
3852574 ATATTCTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
38 14 0.34
39 18 0.44
40 9 0.22
ACGTcount: A:0.27, C:0.02, G:0.09, T:0.61
Consensus pattern (40 bp):
TTTTTAAAATTTTCTGGTGTTTTCTTAGAAATTTAATATG
Found at i:3852740 original size:14 final size:15
Alignment explanation
Indices: 3852708--3852746 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
3852698 TTACTTTTTG
3852708 TTTATTTTTTAATATT
1 TTTA-TTTTTAATATT
*
3852724 TTTATTTTTCATA-T
1 TTTATTTTTAATATT
3852738 TTTATTTTT
1 TTTATTTTT
3852747 TTATTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.45
15 8 0.36
16 4 0.18
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTATTTTTAATATT
Found at i:3852747 original size:15 final size:15
Alignment explanation
Indices: 3852708--3852747 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
3852698 TTACTTTTTG
3852708 TTTATTTTTTAATAT
1 TTTATTTTTTAATAT
*
3852723 TTT-TATTTTTCATAT
1 TTTAT-TTTTTAATAT
3852738 TTTATTTTTT
1 TTTATTTTTT
3852748 TATTTTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 1 0.05
15 20 0.91
16 1 0.05
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTATTTTTTAATAT
Found at i:3852755 original size:15 final size:15
Alignment explanation
Indices: 3852708--3852755 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
3852698 TTACTTTTTG
3852708 TTTATTTTTTAATATT
1 TTTATTTTTTAAT-TT
* *
3852724 TTTA-TTTTTCATAT
1 TTTATTTTTTAATTT
*
3852738 TTTATTTTTTTATTT
1 TTTATTTTTTAATTT
3852753 TTT
1 TTT
3852756 TGAAGTTTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 5 0.19
15 18 0.67
16 4 0.15
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTATTTTTTAATTT
Found at i:3855223 original size:12 final size:12
Alignment explanation
Indices: 3855208--3855233 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
3855198 GAGTTTTATT
3855208 TTAATTATTTAA
1 TTAATTATTTAA
3855220 TTAATTATTTAA
1 TTAATTATTTAA
3855232 TT
1 TT
3855234 TTTATAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTAATTATTTAA
Found at i:3855227 original size:21 final size:21
Alignment explanation
Indices: 3855203--3855251 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
3855193 ATTTTGAGTT
3855203 TTATTTTAATTATT-TAATTAA
1 TTATTTTAATTATTATAATT-A
*
3855224 TTA-TTTAATTTTTATAATTA
1 TTATTTTAATTATTATAATTA
3855244 TTATTTTA
1 TTATTTTA
3855252 GGAAATAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TTATTTTAATTATTATAATTA
Found at i:3855979 original size:21 final size:24
Alignment explanation
Indices: 3855948--3856001 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
3855938 AAGTCGAGTC
3855948 ATTTTGATTTT-TTTT-TAG-TATT
1 ATTTT-ATTTTATTTTATAGTTATT
3855970 ATTTTATTTTATTTTATAGTTATT
1 ATTTTATTTTATTTTATAGTTATT
3855994 -TTTTATTT
1 ATTTTATTT
3856002 ATGTGTTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 5 0.17
22 9 0.31
23 11 0.38
24 4 0.14
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (24 bp):
ATTTTATTTTATTTTATAGTTATT
Found at i:3861504 original size:22 final size:22
Alignment explanation
Indices: 3861460--3861504 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
3861450 ATGGTGAAAG
* * **
3861460 ATGAAAAAAAAAGAGGGGGAAA
1 ATGAAAAAAAAAAAGAGAAAAA
3861482 ATGAAAAAAAAAAAGAGAAAAA
1 ATGAAAAAAAAAAAGAGAAAAA
3861504 A
1 A
3861505 AAAGATGAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.22, T:0.04
Consensus pattern (22 bp):
ATGAAAAAAAAAAAGAGAAAAA
Found at i:3863428 original size:81 final size:79
Alignment explanation
Indices: 3863313--3863614 Score: 300
Period size: 81 Copynumber: 3.7 Consensus size: 79
3863303 AAAGTTCTGT
* * *
3863313 TGCCTCTGTTTAGAGGAGCCATTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCATTTT
1 TGCCTCTATTTAGAGGAGCTATTTATTTT-CAAAGTCGTGGAGCCTCTGTTTAGAGGAGCA-TTT
3863378 ATTTTTCAAGTCGTGG
64 ATTTTTCAAGTCGTGG
* * * *
3863394 TGCCTCTATTTAGATGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCATTTA
1 TGCCTCTATTTAGAGGAGCTATTTA-TTTTCAAAGTCGTGGAGCCTCTGTTTAGAGGAGCATTTA
* *
3863459 TTTTTTAAGTCATGG
65 TTTTTCAAGTCGTGG
* * ** * ** * * *
3863474 TGCTTTTGCTTAGAGAATTTATTTATTTTCAAAAGTCGTTGAGCCTATGATTAGAGGAGCCATTT
1 TGCCTCTATTTAGAGGAGCTATTTATTTTC-AAAGTCGTGGAGCCTCTGTTTAGAGGAG-CATTT
**
3863539 ATTTTTCAAAGTCGTTA
64 ATTTTTC-AAGTCGTGG
* * * * *
3863556 AGCCTCTGA-TTAGGGGAGCTATTTATTTTCAAGGTCATGGAGCCTCTGTTTAAAGGAGC
1 TGCCTCT-ATTTAGAGGAGCTATTTATTTTCAAAGTCGTGGAGCCTCTGTTTAGAGGAGC
3863615 TTTGTTTATT
Statistics
Matches: 178, Mismatches: 38, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
79 5 0.03
80 57 0.32
81 85 0.48
82 31 0.17
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.40
Consensus pattern (79 bp):
TGCCTCTATTTAGAGGAGCTATTTATTTTCAAAGTCGTGGAGCCTCTGTTTAGAGGAGCATTTAT
TTTTCAAGTCGTGG
Found at i:3863545 original size:121 final size:120
Alignment explanation
Indices: 3863282--3863657 Score: 303
Period size: 121 Copynumber: 3.0 Consensus size: 120
3863272 ATGATTGTTA
* *
3863282 AGGAGCAATTTATTTTTTTTCAAAGTTCTGTTGCCTCTGTTTAGAGGAGCCATTTATTTTCCAAA
1 AGGAGCAATTTA---TTTTTCAAAGTTGTGATGCCTCTGTTTAGAGGAG-CATTTATTTTCCAAA
* * * *
3863347 GTCGTGGTGCCTCTGTTTAGAGGAGCATTTTATTTTTCAAGTCGTGGTGCCTCTATTTAG
62 GTCATGGTGCCTCTGCTTAGAGGA-CATTTTATTTTTCAAGTCGTGGAGCCTATATTTAG
* * * **
3863407 ATGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCATTTATTTT-TTAAGTCA
1 AGGAGCAATTTATTTTTCAAAGTTGTGATGCCTCTGTTTAGAGGAGCATTTATTTTCCAAAGTCA
* * * *
3863471 TGGTGCTTTTGCTTAGA-GA-ATTTATTTATTTTCAAAAGTCGTTGAGCCTATGA-TTAG
66 TGGTGCCTCTGCTTAGAGGACATTT-TAT-TTTTC--AAGTCGTGGAGCCTAT-ATTTAG
* * * * * * *
3863528 AGGAGCCATTTATTTTTCAAAGTCGTTAAGCCTCTGATTAGGGGAGCTATTTATTTT-CAAGGTC
1 AGGAGCAATTTATTTTTCAAAGTTGTGATGCCTCTGTTTAGAGGAGC-ATTTATTTTCCAAAGTC
* * * * * * * *
3863592 ATGGAGCCTCTGTTTAAAGGAGCTTTGTTTATTTTTTCAAAGTTGTAGAGCCTTTACTTAG
65 ATGGTGCCTCTGCTTAGAGGA-C-AT-TTTA-TTTTTC-AAGTCGTGGAGCCTATATTTAG
3863653 AGGAG
1 AGGAG
3863658 TTTTGATAAA
Statistics
Matches: 202, Mismatches: 36, Indels: 26
0.77 0.14 0.10
Matches are distributed among these distances:
117 4 0.02
118 2 0.01
119 7 0.03
120 19 0.09
121 65 0.32
122 58 0.29
123 2 0.01
124 1 0.00
125 34 0.17
126 7 0.03
127 3 0.01
ACGTcount: A:0.23, C:0.14, G:0.22, T:0.41
Consensus pattern (120 bp):
AGGAGCAATTTATTTTTCAAAGTTGTGATGCCTCTGTTTAGAGGAGCATTTATTTTCCAAAGTCA
TGGTGCCTCTGCTTAGAGGACATTTTATTTTTCAAGTCGTGGAGCCTATATTTAG
Found at i:3863615 original size:40 final size:41
Alignment explanation
Indices: 3863292--3863634 Score: 297
Period size: 41 Copynumber: 8.4 Consensus size: 41
3863282 AGGAGCAATT
*
3863292 TATTT-TTTTTCAAAGTTC-TGTTGCCTCTGTTTAGAGGAGC
1 TATTTATTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGC
* *
3863332 CATTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
1 TATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
* *
3863373 -ATTTTATTTTTC-AAGTCGTGGTGCCTCTATTTAGATGAGC
1 TA-TTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
* * *
3863413 AATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGC
1 TATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
* * * * * * **
3863454 -ATTTATTTTT-TAAGTCATGGTGCTTTTGCTTAGAGAATT
1 TATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
* * * *
3863493 TATTTA-TTTTCAAAAGTCGTTGAGCCTATGATTAGAGGAGC
1 TATTTATTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGC
* *** * *
3863534 CATTTATTTTTCAAAGTCGTTAAGCCTCTGATTAGGGGAGC
1 TATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
* * * *
3863575 TATTTA-TTTTCAAGGTCATGGAGCCTCTGTTTAAAGGAGC
1 TATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
*
3863615 TTTGTTTATTTTTTCAAAGT
1 --TATTTA-TTTTTCAAAGT
3863635 TGTAGAGCCT
Statistics
Matches: 246, Mismatches: 44, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
39 24 0.10
40 83 0.34
41 120 0.49
42 10 0.04
44 9 0.04
ACGTcount: A:0.22, C:0.14, G:0.21, T:0.43
Consensus pattern (41 bp):
TATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
Found at i:3863930 original size:4 final size:4
Alignment explanation
Indices: 3863882--3864073 Score: 78
Period size: 4 Copynumber: 47.8 Consensus size: 4
3863872 GGCTTTTATT
* * * * * *
3863882 TTTA TTTT TATTA TTTG TCTA TTTA TTAA TATA TATA TTTA --TA TTTA
1 TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * *
3863929 TTTT TATTA TTTT TTTA TCTA TTAA TATT- TTTA -TTA TTTA TCTGCT-
1 TTTA T-TTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA T-T--TA
* * * *
3863975 TTTA TTT- TTTA -TTA TTGTTA TTTA TCTA TTTCT TTTA TTTA TCTA ATTA
1 TTTA TTTA TTTA TTTA -T-TTA TTTA TTTA TTT-A TTTA TTTA TTTA TTTA
* * *
3864024 TTT- TTT- GTTA TTTA TTAA TATA TTTA TCTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA
3864071 TTT
1 TTT
3864074 TGATTAATTT
Statistics
Matches: 138, Mismatches: 32, Indels: 36
0.67 0.16 0.17
Matches are distributed among these distances:
2 2 0.01
3 17 0.12
4 97 0.70
5 17 0.12
6 4 0.03
7 1 0.01
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.69
Consensus pattern (4 bp):
TTTA
Found at i:3863978 original size:33 final size:32
Alignment explanation
Indices: 3863941--3864039 Score: 90
Period size: 33 Copynumber: 2.9 Consensus size: 32
3863931 TTTATTATTT
*
3863941 TTTTATCTATTAATATTTTTATTATTTATCTGC
1 TTTTATTTATTAATATTTTTATTATTTAT-TGC
* * * * *
3863974 TTTTATTTTTTATTATTGTTATTTATCTATTTC
1 TTTTATTTATTAATATTTTTA-TTATTTATTGC
*
3864007 TTTTATTTATCTAATTATTTTTTGTTATTTATT
1 TTTTATTTAT-TAA-TA-TTTTTATTATTTATT
3864040 AATATATTTA
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
33 28 0.55
34 9 0.18
35 10 0.20
36 4 0.08
ACGTcount: A:0.21, C:0.06, G:0.03, T:0.70
Consensus pattern (32 bp):
TTTTATTTATTAATATTTTTATTATTTATTGC
Found at i:3864010 original size:27 final size:26
Alignment explanation
Indices: 3863876--3864073 Score: 98
Period size: 26 Copynumber: 7.8 Consensus size: 26
3863866 CCAATTGGCT
* *
3863876 TTTATTTTTATTTTTATTATTTGTCTA
1 TTTATTTTTATTATT-TTATTTATCTA
** *
3863903 TTTATTAATA-TA-TATATTTA--TA
1 TTTATTTTTATTATTTTATTTATCTA
3863925 TTTATTTTTATTATTTT-TTTATCTA
1 TTTATTTTTATTATTTTATTTATCTA
* *
3863950 TTAATATTTTTATTA-TTTATCT-GCT-
1 TT--TATTTTTATTATTTTATTTATCTA
3863975 TTTATTTTTTATTATTGTTATTTATCTA
1 TTTA-TTTTTATTATT-TTATTTATCTA
* * * *
3864003 TTT-CTTTTATT-TATCTAATTAT-TT
1 TTTATTTTTATTAT-TTTATTTATCTA
* * *
3864027 TTTGTTATTTATTAATATATTTATCTTA
1 TTTATT-TTTATTATTTTATTTATC-TA
*
3864055 TTTATTTAT-TTA-TTTATTT
1 TTTATTTTTATTATTTTATTT
3864074 TGATTAATTT
Statistics
Matches: 129, Mismatches: 24, Indels: 38
0.68 0.13 0.20
Matches are distributed among these distances:
22 10 0.08
23 8 0.06
24 20 0.16
25 22 0.17
26 35 0.27
27 25 0.19
28 9 0.07
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (26 bp):
TTTATTTTTATTATTTTATTTATCTA
Found at i:3864027 original size:17 final size:17
Alignment explanation
Indices: 3863985--3864067 Score: 62
Period size: 17 Copynumber: 4.8 Consensus size: 17
3863975 TTTATTTTTT
3863985 ATTATTGTTATTTATCTA
1 ATTATT-TTATTTATCTA
* *
3864003 TTTCTTTTATTTATCTA
1 ATTATTTTATTTATCTA
* *
3864020 ATTATTTTTTGTTAT-TT
1 ATTATTTTAT-TTATCTA
* * *
3864037 ATTAATATATTTATCTT
1 ATTATTTTATTTATCTA
3864054 ATT-TATTTATTTAT
1 ATTAT-TTTATTTAT
3864068 TTATTTTGAT
Statistics
Matches: 51, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
16 4 0.08
17 39 0.76
18 8 0.16
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
ATTATTTTATTTATCTA
Found at i:3864037 original size:22 final size:21
Alignment explanation
Indices: 3863901--3864074 Score: 77
Period size: 21 Copynumber: 8.0 Consensus size: 21
3863891 ATTATTTGTC
* *
3863901 TATTTATTAATATATATATTT
1 TATTTATTAATATATTTCTTT
**
3863922 ATATTTATTTTTATTATTT-TTT
1 -TATTTATTAATA-TATTTCTTT
* *
3863944 TATCTATTAATAT-TTT-TAT
1 TATTTATTAATATATTTCTTT
** * *
3863963 TATTTATCTGCTTTTATTTTTTAT
1 TATTTAT-T-AATATATTTCTT-T
* *
3863987 TATTGTTATTTATCTATTTCTTT
1 TA-T-TTATTAATATATTTCTTT
*
3864010 TATTTATCTAAT-TATTTTTTGT
1 TATTTAT-TAATATATTTCTT-T
* *
3864032 TATTTATTAATATATTTATCT
1 TATTTATTAATATATTTCTTT
* * *
3864053 TATTTATTTATTTATTTATTT
1 TATTTATTAATATATTTCTTT
3864074 T
1 T
3864075 GATTAATTTT
Statistics
Matches: 118, Mismatches: 23, Indels: 23
0.72 0.14 0.14
Matches are distributed among these distances:
19 11 0.09
20 2 0.02
21 46 0.39
22 34 0.29
23 8 0.07
24 11 0.09
25 2 0.02
26 4 0.03
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (21 bp):
TATTTATTAATATATTTCTTT
Found at i:3864048 original size:43 final size:43
Alignment explanation
Indices: 3863888--3864069 Score: 156
Period size: 43 Copynumber: 4.2 Consensus size: 43
3863878 TATTTTTATT
* *
3863888 TTTATTATTTGTCTATTTATTAATATATATATTTATATTTAT-T-
1 TTTATTTTTTGT-TATTTATTAATATATTTATTT-TATTTATCTA
* * * *
3863931 TTTATTATTTTTTTATCTATTAATAT-TTT-TATTATTTATCTGCT
1 TTTATT-TTTTGTTATTTATTAATATATTTATTTTATTTATCT--A
* * * *
3863975 TTTATTTTTTATTATTGTTATTTATCTATTTCTTTTATTTATCTA
1 TTTATTTTTTGTTA-T-TTATTAATATATTTATTTTATTTATCTA
* * *
3864020 ATTATTTTTTGTTATTTATTAATATATTTATCTTATTTATTTA
1 TTTATTTTTTGTTATTTATTAATATATTTATTTTATTTATCTA
3864063 TTTATTT
1 TTTATTT
3864070 ATTTTGATTA
Statistics
Matches: 111, Mismatches: 19, Indels: 18
0.75 0.13 0.12
Matches are distributed among these distances:
40 7 0.06
41 3 0.03
42 2 0.02
43 54 0.49
44 12 0.11
45 19 0.17
46 3 0.03
47 11 0.10
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (43 bp):
TTTATTTTTTGTTATTTATTAATATATTTATTTTATTTATCTA
Found at i:3864437 original size:19 final size:19
Alignment explanation
Indices: 3864413--3864449 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3864403 AATTCGATGA
3864413 AATTTTTTAAAGAGTTTTG
1 AATTTTTTAAAGAGTTTTG
* *
3864432 AATTTTTTGACGAGTTTT
1 AATTTTTTAAAGAGTTTT
3864450 TCGGTCAGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.03, G:0.16, T:0.54
Consensus pattern (19 bp):
AATTTTTTAAAGAGTTTTG
Found at i:3870194 original size:25 final size:26
Alignment explanation
Indices: 3870166--3870215 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
3870156 AGATAATCCT
*
3870166 AATTTATATAATAAAAAT-TAAAAAA
1 AATTTATATAAAAAAAATATAAAAAA
* *
3870191 AATTTTTTTAAAAAAAATATAAAAA
1 AATTTATATAAAAAAAATATAAAAA
3870216 TAAAAATTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (26 bp):
AATTTATATAAAAAAAATATAAAAAA
Found at i:3888762 original size:52 final size:52
Alignment explanation
Indices: 3888660--3888765 Score: 122
Period size: 52 Copynumber: 2.0 Consensus size: 52
3888650 TTTACATATT
* * **
3888660 TATAACTCATTCCCTAAATTACTTGTACCACTATCCCACCATTATGCATAAC
1 TATAACTCATTCCCTAAATTACTCGCACCACTATCCCACCATTACCCATAAC
* * ** **
3888712 TATAGCTCATTTCCTAAATTACTCGCACCACTATGGCATGATTACCCATAAC
1 TATAACTCATTCCCTAAATTACTCGCACCACTATCCCACCATTACCCATAAC
3888764 TA
1 TA
3888766 ATCAACATTT
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.32, C:0.29, G:0.07, T:0.32
Consensus pattern (52 bp):
TATAACTCATTCCCTAAATTACTCGCACCACTATCCCACCATTACCCATAAC
Found at i:3895036 original size:92 final size:93
Alignment explanation
Indices: 3894917--3895087 Score: 222
Period size: 93 Copynumber: 1.8 Consensus size: 93
3894907 TTTTTTGAAA
* * * *
3894917 TTAATCCTACCAAATTATTAAATGATTTAAATC-TCAAATTAAATCTTA-CTAAACTATT-AGAA
1 TTAATCCTACCAAACTATTAAAGGATTTAAATCTTAAAATTAAATATTATC-AAACTATTGA-AA
*
3894979 GGTTTAATTATTTTTTTAAAATAAAATTTT
64 GGTTTAATTATCTTTTTAAAATAAAATTTT
* ** *
3895009 TTAATCCTACTAAACTATTGGAGGATTTAAATCTTAAAATTAAATATTATCAAAGTATTGAAAGG
1 TTAATCCTACCAAACTATTAAAGGATTTAAATCTTAAAATTAAATATTATCAAACTATTGAAAGG
3895074 TTTAATTATCTTTT
66 TTTAATTATCTTTT
3895088 ACAAGAAAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
92 28 0.42
93 37 0.55
94 2 0.03
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (93 bp):
TTAATCCTACCAAACTATTAAAGGATTTAAATCTTAAAATTAAATATTATCAAACTATTGAAAGG
TTTAATTATCTTTTTAAAATAAAATTTT
Found at i:3895088 original size:92 final size:92
Alignment explanation
Indices: 3894917--3895098 Score: 217
Period size: 92 Copynumber: 2.0 Consensus size: 92
3894907 TTTTTTGAAA
* * * *
3894917 TTAATCCTACCAAATTATTAAATGATTTAAATCTCAAATTAAATCTTACTAAACTATTAGAAGGT
1 TTAATCCTACCAAACTATTAAAGGATTTAAATCTAAAATTAAATATTACTAAACTATTAGAAGGT
* *
3894982 TTAATTATTTTTTTAAAATAAAATTTT
66 TTAATTATTCTTTTAAAAGAAAATTTT
* ** *
3895009 TTAATCCTACTAAACTATTGGAGGATTTAAATCTTAAAATTAAATATTA-TCAAAGTATT-GAAA
1 TTAATCCTACCAAACTATTAAAGGATTTAAATC-TAAAATTAAATATTACT-AAACTATTAG-AA
*
3895072 GGTTTAATTA-TCTTTTACAAGAAAATT
63 GGTTTAATTATTCTTTTAAAAGAAAATT
3895099 AAATTTATAA
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
92 44 0.58
93 32 0.42
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.41
Consensus pattern (92 bp):
TTAATCCTACCAAACTATTAAAGGATTTAAATCTAAAATTAAATATTACTAAACTATTAGAAGGT
TTAATTATTCTTTTAAAAGAAAATTTT
Found at i:3898989 original size:23 final size:22
Alignment explanation
Indices: 3898957--3899002 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
3898947 AATTGTAAGA
* *
3898957 TAATATATATATATTAACATAAT
1 TAATAAATATATA-TAACAAAAT
3898980 TAATAAATATATATAACAAAAT
1 TAATAAATATATATAACAAAAT
3899002 T
1 T
3899003 TTATGAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (22 bp):
TAATAAATATATATAACAAAAT
Found at i:3899442 original size:23 final size:23
Alignment explanation
Indices: 3899415--3899461 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
3899405 AAATTAATAC
*
3899415 ATAAATAA-AGATGAGAAAATAAA
1 ATAAAAAACAGATG-GAAAATAAA
*
3899438 ATAAAAAACATATGGAAAATAAA
1 ATAAAAAACAGATGGAAAATAAA
3899461 A
1 A
3899462 AAGTCATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.70, C:0.02, G:0.11, T:0.17
Consensus pattern (23 bp):
ATAAAAAACAGATGGAAAATAAA
Found at i:3899475 original size:3 final size:3
Alignment explanation
Indices: 3899467--3899493 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
3899457 TAAAAAAGTC
3899467 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
3899494 TATTTTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:3901842 original size:18 final size:16
Alignment explanation
Indices: 3901811--3901852 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
3901801 TCCTATAAAT
3901811 TTATAATTATAATTAA
1 TTATAATTATAATTAA
3901827 TTATAA-TATAA-TAA
1 TTATAATTATAATTAA
3901841 TTATAACTTATA
1 TTATAA-TTATA
3901853 TGTTTTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 9 0.38
15 5 0.21
16 10 0.42
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
TTATAATTATAATTAA
Found at i:3904766 original size:18 final size:17
Alignment explanation
Indices: 3904745--3904787 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
3904735 ACGTAAAAAT
3904745 CTAAACCTATATAAAACC
1 CTAAACCTA-ATAAAACC
* *
3904763 CTAAACCCTAGTCAAACC
1 CTAAA-CCTAATAAAACC
3904781 CTAAACC
1 CTAAACC
3904788 CTAAACCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 16 0.73
19 4 0.18
ACGTcount: A:0.44, C:0.35, G:0.02, T:0.19
Consensus pattern (17 bp):
CTAAACCTAATAAAACC
Found at i:3904866 original size:19 final size:19
Alignment explanation
Indices: 3904829--3904942 Score: 67
Period size: 19 Copynumber: 6.0 Consensus size: 19
3904819 AAACACTAGT
*
3904829 CAAACCCTAAACC-AAACC
1 CAAACCTTAAACCTAAACC
3904847 CAAACCTTAAACCTAAACC
1 CAAACCTTAAACCTAAACC
* * * *
3904866 C-TA-GTCAAGCCCTAAACC
1 CAAACCTTAA-ACCTAAACC
* * *
3904884 TAAAACTCAAAACC-AAACCC
1 CAAACCT-TAAACCTAAA-CC
3904904 CAAACCTTAAACCT-AACC
1 CAAACCTTAAACCTAAACC
*
3904922 CTAAACCCTAAACCTTAAACC
1 C-AAACCTTAAACC-TAAACC
3904943 TTAAAACCAA
Statistics
Matches: 72, Mismatches: 14, Indels: 17
0.70 0.14 0.17
Matches are distributed among these distances:
17 3 0.04
18 24 0.33
19 28 0.39
20 11 0.15
21 6 0.08
ACGTcount: A:0.46, C:0.39, G:0.02, T:0.14
Consensus pattern (19 bp):
CAAACCTTAAACCTAAACC
Found at i:3904887 original size:6 final size:6
Alignment explanation
Indices: 3904834--3904961 Score: 62
Period size: 7 Copynumber: 19.2 Consensus size: 6
3904824 CTAGTCAAAC
*
3904834 CCTAAA CC-AAA CCCAAA CCTTAAA CCTAAA CCCTAGTCAA GCCCTAAA
1 CCTAAA CCTAAA CCTAAA CC-TAAA CCTAAA -CCTA---AA --CCTAAA
* * *
3904882 CCTAAAA CTCAAAA CC-AAA CCCCAAA CCTTAAA CCTAAC CCTAAA CCCTAAA
1 CCT-AAA C-CTAAA CCTAAA -CCTAAA CC-TAAA CCTAAA CCTAAA -CCTAAA
*
3904934 CCTTAAA CCTTAAAA CCAAAA CCTAAA C
1 CC-TAAA CC-T-AAA CCTAAA CCTAAA C
3904962 TAAGAACCTA
Statistics
Matches: 100, Mismatches: 7, Indels: 30
0.73 0.05 0.22
Matches are distributed among these distances:
5 8 0.08
6 38 0.38
7 39 0.39
8 8 0.08
10 2 0.02
11 5 0.05
ACGTcount: A:0.47, C:0.37, G:0.02, T:0.15
Consensus pattern (6 bp):
CCTAAA
Done.