Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 110 of 235
Found at i:37890953 original size:30 final size:30
Alignment explanation
Indices: 37890912--37890978 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
37890902 CCACTGGATT
* *
37890912 TGAAACTTCACACATATTTGAATTTAAATA
1 TGAATCTTCACACATATTTGAATCTAAATA
37890942 TGAATCTTCACACATATTTGAATCTAAATA
1 TGAATCTTCACACATATTTGAATCTAAATA
37890972 TGAATCT
1 TGAATCT
37890979 ATCTTTGATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.37
Consensus pattern (30 bp):
TGAATCTTCACACATATTTGAATCTAAATA
Found at i:37890965 original size:18 final size:18
Alignment explanation
Indices: 37890909--37890966 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
37890899 TCACCACTGG
*
37890909 ATTTGAAACTTCACACAT
1 ATTTGAATCTTCACACAT
37890927 ATTTGAAT-TT-A-A-AT
1 ATTTGAATCTTCACACAT
37890941 A--TGAATCTTCACACAT
1 ATTTGAATCTTCACACAT
37890957 ATTTGAATCT
1 ATTTGAATCT
37890967 AAATATGAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
12 5 0.15
13 2 0.06
14 4 0.12
15 2 0.06
16 4 0.12
17 2 0.06
18 14 0.42
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.40
Consensus pattern (18 bp):
ATTTGAATCTTCACACAT
Found at i:37893110 original size:34 final size:34
Alignment explanation
Indices: 37893072--37893158 Score: 129
Period size: 34 Copynumber: 2.6 Consensus size: 34
37893062 CAAGAACTAC
*
37893072 TAACCTATCAGGGCCTATTCAATCAACTAGTCAT
1 TAACCTAGCAGGGCCTATTCAATCAACTAGTCAT
* ** *
37893106 TAACCTAGCAAGTTCTATTCAATGAACTAGTCAT
1 TAACCTAGCAGGGCCTATTCAATCAACTAGTCAT
37893140 TAACCTAGCAGGGCCTATT
1 TAACCTAGCAGGGCCTATT
37893159 GGCATTCCAC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (34 bp):
TAACCTAGCAGGGCCTATTCAATCAACTAGTCAT
Found at i:37894147 original size:18 final size:18
Alignment explanation
Indices: 37894124--37894166 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
37894114 GGAGAAAAAT
37894124 GGCAAAGGCATCGTCATC
1 GGCAAAGGCATCGTCATC
37894142 GGCAAAGGCATCGTCATC
1 GGCAAAGGCATCGTCATC
*
37894160 AGCAAAG
1 GGCAAAG
37894167 ACTACTGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.33, C:0.26, G:0.28, T:0.14
Consensus pattern (18 bp):
GGCAAAGGCATCGTCATC
Found at i:37898831 original size:23 final size:23
Alignment explanation
Indices: 37898804--37898864 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
37898794 ATAGAAAATG
*
37898804 GAAATAAAAACTACAATTGAAAA
1 GAAATAAAAACTAAAATTGAAAA
** * *
37898827 GAAATCTAAATTAAAATTGAAAG
1 GAAATAAAAACTAAAATTGAAAA
*
37898850 GAAAATTAAAACTAA
1 G-AAATAAAAACTAA
37898865 GTAAAAAGTC
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
23 19 0.66
24 10 0.34
ACGTcount: A:0.62, C:0.07, G:0.10, T:0.21
Consensus pattern (23 bp):
GAAATAAAAACTAAAATTGAAAA
Found at i:37902423 original size:21 final size:21
Alignment explanation
Indices: 37902398--37902438 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
37902388 AGTTTTTAAA
37902398 ATTAAATTAATAATTAAATCG
1 ATTAAATTAATAATTAAATCG
* *
37902419 ATTAAATTATTAATTTAATC
1 ATTAAATTAATAATTAAATC
37902439 AGTTCATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (21 bp):
ATTAAATTAATAATTAAATCG
Found at i:37903013 original size:18 final size:19
Alignment explanation
Indices: 37902974--37903020 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
37902964 ATTATTTGAA
*
37902974 TATTATATAATTTTTGTTT
1 TATTATATAATTTTTGTAT
37902993 TATTAT-TAATTTTAT-TAT
1 TATTATATAATTTT-TGTAT
*
37903011 TATTTTATAA
1 TATTATATAA
37903021 ATATTTACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
TATTATATAATTTTTGTAT
Found at i:37903018 original size:11 final size:11
Alignment explanation
Indices: 37902933--37903018 Score: 59
Period size: 11 Copynumber: 7.7 Consensus size: 11
37902923 TTTATTTTGC
*
37902933 TATTATATTA-
1 TATTTTATTAT
37902943 TATTGTTATTAT
1 TATT-TTATTAT
*
37902955 T-TTAATATTAT
1 TATT-TTATTAT
* *
37902966 TATTTGAATAT
1 TATTTTATTAT
* * *
37902977 TATATAATTTT
1 TATTTTATTAT
*
37902988 TGTTTTATTAT
1 TATTTTATTAT
37902999 TAATTTTATTAT
1 T-ATTTTATTAT
37903011 TATTTTAT
1 TATTTTAT
37903019 AAATATTTAC
Statistics
Matches: 57, Mismatches: 15, Indels: 7
0.72 0.19 0.09
Matches are distributed among these distances:
10 4 0.07
11 40 0.70
12 13 0.23
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.65
Consensus pattern (11 bp):
TATTTTATTAT
Found at i:37903187 original size:23 final size:23
Alignment explanation
Indices: 37903127--37903176 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
37903117 TTTTTAGTGT
37903127 ATTTAATATATTATATTTTTAAA
1 ATTTAATATATTATATTTTTAAA
37903150 ATTTAATATATTATATTTTTAAA
1 ATTTAATATATTATATTTTTAAA
37903173 ATTT
1 ATTT
37903177 GTTTATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
ATTTAATATATTATATTTTTAAA
Found at i:37904776 original size:2 final size:2
Alignment explanation
Indices: 37904769--37904799 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
37904759 TTATCTTAAA
37904769 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
37904800 TGTGGCTAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:37905114 original size:12 final size:12
Alignment explanation
Indices: 37905097--37905135 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
37905087 GTTATTAATA
37905097 TAATTTAGTTCT
1 TAATTTAGTTCT
37905109 TAATTTAGTTC-
1 TAATTTAGTTCT
37905120 TAATTT-GTT-T
1 TAATTTAGTTCT
37905130 TAATTT
1 TAATTT
37905136 TTTAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 9 0.35
11 6 0.23
12 11 0.42
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.62
Consensus pattern (12 bp):
TAATTTAGTTCT
Found at i:37905333 original size:15 final size:16
Alignment explanation
Indices: 37905313--37905342 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
37905303 AAATTAATAT
37905313 GGCCGGGC-CGGGCCA
1 GGCCGGGCTCGGGCCA
37905328 GGCCGGGCTCGGGCC
1 GGCCGGGCTCGGGCC
37905343 TATCATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.03, C:0.40, G:0.53, T:0.03
Consensus pattern (16 bp):
GGCCGGGCTCGGGCCA
Found at i:37909278 original size:6 final size:6
Alignment explanation
Indices: 37909254--37909305 Score: 68
Period size: 6 Copynumber: 8.7 Consensus size: 6
37909244 TCTGGCCGCC
* * * *
37909254 GCTCTG GGTCTG GCACTG CCTCTG CCTCTG GCTCTG GCTCTG GCTCTG
1 GCTCTG GCTCTG GCTCTG GCTCTG GCTCTG GCTCTG GCTCTG GCTCTG
37909302 GCTC
1 GCTC
37909306 CGGAGTTGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.02, C:0.37, G:0.31, T:0.31
Consensus pattern (6 bp):
GCTCTG
Found at i:37914292 original size:3 final size:3
Alignment explanation
Indices: 37914286--37914345 Score: 50
Period size: 3 Copynumber: 19.7 Consensus size: 3
37914276 TAACATTTTT
* * * * *
37914286 TTC TTC TTTC TCC TCC TTC TCC TTC TTC TTT TTC TTT TTC TTC TTC
1 TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
37914332 TTC TT- TTC TCTC TT
1 TTC TTC TTC T-TC TT
37914346 TGCTGCTGCA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 2 0.04
3 38 0.83
4 6 0.13
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:37916427 original size:12 final size:14
Alignment explanation
Indices: 37916393--37916430 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
37916383 GTCCTCTCAA
37916393 ATTCTTCTTTTTGAT
1 ATTCTTCTTTTT-AT
37916408 ATTCTTCTTTTT-T
1 ATTCTTCTTTTTAT
37916421 ATT-TTCTTTT
1 ATTCTTCTTTT
37916431 GTCTTTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.30
13 4 0.17
15 12 0.52
ACGTcount: A:0.11, C:0.13, G:0.03, T:0.74
Consensus pattern (14 bp):
ATTCTTCTTTTTAT
Found at i:37919252 original size:48 final size:48
Alignment explanation
Indices: 37919039--37919310 Score: 186
Period size: 48 Copynumber: 5.7 Consensus size: 48
37919029 TAAGGTATAA
* * * * * * *
37919039 TGCCAATGCCATGTCCTAGACATGGTCTTACACTGGCTCGTCCATGAAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTAT-ACG
* * * *
37919088 T--TGATACCATGTCCCAGACATGGTCTTACACTGACTA--TCGAAACCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACCTCTATA-CG
* ** * * * *
37919134 AGGCCGACACCATGTCCCGGACATGGTCTTACACT-AGCTCTCACATATTCG
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CAC-CTC-TATACG
*
37919185 TACCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACG
* * *
37919233 TGCTGATGCCATGTCCCAGATATGGTCTTACACTGACACATCT-T--G
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACG
* *
37919278 TAGCCGATG-CATATCCCAAACAT-GTCTTACACT
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACT
37919311 AGCTCTTGTC
Statistics
Matches: 177, Mismatches: 34, Indels: 29
0.74 0.14 0.12
Matches are distributed among these distances:
44 10 0.06
45 14 0.08
46 10 0.06
47 30 0.17
48 45 0.25
49 32 0.18
50 31 0.18
51 4 0.02
52 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACG
Found at i:37925993 original size:13 final size:13
Alignment explanation
Indices: 37925975--37925999 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37925965 AATGAACATA
37925975 ACATATATTTAAC
1 ACATATATTTAAC
37925988 ACATATATTTAA
1 ACATATATTTAA
37926000 AATGTTACTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (13 bp):
ACATATATTTAAC
Found at i:37928863 original size:9 final size:9
Alignment explanation
Indices: 37928849--37928874 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
37928839 GAGACGTATA
37928849 TCTAGAATG
1 TCTAGAATG
37928858 TCTAGAATG
1 TCTAGAATG
37928867 TCTAGAAT
1 TCTAGAAT
37928875 CTTTAACTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.35
Consensus pattern (9 bp):
TCTAGAATG
Found at i:37929502 original size:12 final size:13
Alignment explanation
Indices: 37929474--37929506 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
37929464 TTATTTCTTT
37929474 TTCTCCATCTACC
1 TTCTCCATCTACC
*
37929487 TTCTCC-TCTTCC
1 TTCTCCATCTACC
37929499 TTCTCCAT
1 TTCTCCAT
37929507 AGCCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:37930309 original size:8 final size:8
Alignment explanation
Indices: 37930296--37930327 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
37930286 CTAGATCGGC
37930296 AAAAGCCG
1 AAAAGCCG
37930304 AAAAGCCG
1 AAAAGCCG
*
37930312 AAATGCCG
1 AAAAGCCG
37930320 AAAAGCCG
1 AAAAGCCG
37930328 GTATTTTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.25, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:37930606 original size:28 final size:28
Alignment explanation
Indices: 37930574--37930638 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
37930564 ATTTACTAGA
*
37930574 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
37930602 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
37930630 ATACCCCTA
1 ATACCCCTA
37930639 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:37930802 original size:27 final size:27
Alignment explanation
Indices: 37930744--37930844 Score: 130
Period size: 28 Copynumber: 3.6 Consensus size: 27
37930734 AGGAAGCGTC
*
37930744 CTGGTGGCTATGCCACAAATTATCTGTT
1 CTGGTGGCTCTGCCACAAA-TATCTGTT
* *
37930772 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGTT
*
37930799 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCTCTGCCAC-AAATATCTGT-T
*
37930828 CTGGTGGCTCTGTCACA
1 CTGGTGGCTCTGCCACA
37930845 TTTTCTATAT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
27 23 0.36
28 26 0.41
29 15 0.23
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGTT
Found at i:37930858 original size:56 final size:55
Alignment explanation
Indices: 37930744--37930858 Score: 144
Period size: 55 Copynumber: 2.1 Consensus size: 55
37930734 AGGAAGCGTC
* *
37930744 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGGCCCTGCCACATATATCTATT
* * *
37930799 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGGCTCTGTCACAT-TTTCTATAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGGCCCTGCCACATATATCTAT-T
37930855 CTGG
1 CTGG
37930859 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (55 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGGCCCTGCCACATATATCTATT
Found at i:37931320 original size:19 final size:19
Alignment explanation
Indices: 37931296--37931334 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
37931286 TTTTAATTAT
* *
37931296 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
37931315 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
37931334 T
1 T
37931335 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:37935491 original size:26 final size:26
Alignment explanation
Indices: 37935460--37935567 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
37935450 TGAAATGCCC
*
37935460 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
37935486 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
37935512 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
37935538 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
37935564 ATCA
1 ATCA
37935568 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:37938784 original size:16 final size:15
Alignment explanation
Indices: 37938750--37938783 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
37938740 ACAGTAATCC
37938750 AAAATAAAATTTCCA
1 AAAATAAAATTTCCA
37938765 AAAATAACAA-TTCCA
1 AAAATAA-AATTTCCA
37938780 AAAA
1 AAAA
37938784 AATCATCAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 16 0.89
16 2 0.11
ACGTcount: A:0.65, C:0.15, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAATAAAATTTCCA
Found at i:37940460 original size:28 final size:28
Alignment explanation
Indices: 37940420--37940477 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
37940410 AATTGAGTAA
37940420 ATTGAAATTAAGTTGCCATATGCCTTGG
1 ATTGAAATTAAGTTGCCATATGCCTTGG
37940448 ATTGAAATTAAGTTGCCATATGCCTTGG
1 ATTGAAATTAAGTTGCCATATGCCTTGG
37940476 AT
1 AT
37940478 AGGATATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (28 bp):
ATTGAAATTAAGTTGCCATATGCCTTGG
Found at i:37944858 original size:43 final size:44
Alignment explanation
Indices: 37944766--37944880 Score: 139
Period size: 43 Copynumber: 2.7 Consensus size: 44
37944756 TGAGATTACA
** *
37944766 TGTAAGAAAATGTCTGGGACATTGGCAT-TGTACTATTATTATG
1 TGTAAGACCATGTCTGGGACATTGGCATCTGTACTATGATTATG
37944809 TGTAAGACCATGTCTGGGACATTGGCATCAT-TA-TATGATT-TCG
1 TGTAAGACCATGTCTGGGACATTGGCATC-TGTACTATGATTAT-G
* *
37944852 TTTAAGACCATGTCTAGGACATTGGCATC
1 TGTAAGACCATGTCTGGGACATTGGCATC
37944881 GATATGAGAT
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
42 1 0.02
43 60 0.94
44 2 0.03
45 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.35
Consensus pattern (44 bp):
TGTAAGACCATGTCTGGGACATTGGCATCTGTACTATGATTATG
Found at i:37944901 original size:43 final size:43
Alignment explanation
Indices: 37944809--37944905 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 43
37944799 TATTATTATG
* ** *
37944809 TGTAAGACCATGTCTGGGACATTGGCATCATTATATGATTTCG
1 TGTAAGACCATGTCTAGGACATTGGCATCATTATATGATAACA
*
37944852 TTTAAGACCATGTCTAGGACATTGGCATCGA-TATGA-GATAACA
1 TGTAAGACCATGTCTAGGACATTGGCATC-ATTAT-ATGATAACA
37944895 TGTAAGACCAT
1 TGTAAGACCAT
37944906 ATTTGGGATA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
43 44 0.96
44 2 0.04
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACATTGGCATCATTATATGATAACA
Found at i:37945398 original size:33 final size:33
Alignment explanation
Indices: 37945355--37945432 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
37945345 TAAGTTGTCA
*
37945355 AATAAGACCATAGCTGGG-CTATGGCAATCGAAT
1 AATAAAACCATAGC-GGGACTATGGCAATCGAAT
*
37945388 AATAAAACCATAGCGGGACTATGGCAATCGACT
1 AATAAAACCATAGCGGGACTATGGCAATCGAAT
37945421 AA-AAAGACCATA
1 AATAAA-ACCATA
37945433 ACCAAGTTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
32 6 0.15
33 35 0.85
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.18
Consensus pattern (33 bp):
AATAAAACCATAGCGGGACTATGGCAATCGAAT
Found at i:37948875 original size:46 final size:46
Alignment explanation
Indices: 37948849--37949026 Score: 356
Period size: 46 Copynumber: 3.9 Consensus size: 46
37948839 TCTGTCATGT
37948849 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATACCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATACCAGGC
37948895 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATACCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATACCAGGC
37948941 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATACCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATACCAGGC
37948987 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
37949027 TCAGAGAGCA
Statistics
Matches: 132, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 132 1.00
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.34
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATACCAGGC
Found at i:37950738 original size:30 final size:30
Alignment explanation
Indices: 37950671--37950738 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
37950661 CACCCTTAAA
* * *
37950671 ATATTTGCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
37950701 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
37950730 AGTATTTAC
1 A-TATTTAC
37950739 TTTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:37951298 original size:33 final size:32
Alignment explanation
Indices: 37951225--37951302 Score: 84
Period size: 33 Copynumber: 2.4 Consensus size: 32
37951215 ATGTGCATAC
* * *
37951225 GTGTAAGACCATAGCTGGGCTATGACATCCTA
1 GTGTAAGACCATAACTGGGCTATGACATACGA
* * *
37951257 ATGATAAGACCATAACTGGGTTATGGCATTACGA
1 GTG-TAAGACCATAACTGGGCTATGACA-TACGA
37951291 GTGTAAGACCAT
1 GTGTAAGACCAT
37951303 GGCAATATAT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
32 2 0.05
33 30 0.81
34 5 0.14
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (32 bp):
GTGTAAGACCATAACTGGGCTATGACATACGA
Found at i:37951638 original size:30 final size:30
Alignment explanation
Indices: 37951604--37951669 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
37951594 GCCCAAGAGT
* *
37951604 AAATACTCAAAA-TTTGAGGGATTAA-AGTGC
1 AAATA-TCAAAAGTTT-AAGGACTAATAGTGC
*
37951634 AAATATGAAAAGTTTAAGGACTAATAGTGC
1 AAATATCAAAAGTTTAAGGACTAATAGTGC
37951664 AAATAT
1 AAATAT
37951670 TTTAAGGGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
29 12 0.39
30 19 0.61
ACGTcount: A:0.47, C:0.08, G:0.18, T:0.27
Consensus pattern (30 bp):
AAATATCAAAAGTTTAAGGACTAATAGTGC
Found at i:37951930 original size:29 final size:31
Alignment explanation
Indices: 37951882--37951945 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 31
37951872 TTTATAGTTA
*
37951882 TTTAATTAGATAATTATTATT-TATTTAATAT
1 TTTAATAAGATAATTATTATTAT-TTTAATAT
*
37951913 TTTAATAAGAT-ATT-TTATTATTTTATTAT
1 TTTAATAAGATAATTATTATTATTTTAATAT
37951942 TTTA
1 TTTA
37951946 TTTAGTCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 16 0.53
30 4 0.13
31 10 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (31 bp):
TTTAATAAGATAATTATTATTATTTTAATAT
Found at i:37951934 original size:8 final size:8
Alignment explanation
Indices: 37951923--37951947 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
37951913 TTTAATAAGA
37951923 TATTTTAT
1 TATTTTAT
37951931 TATTTTAT
1 TATTTTAT
37951939 TATTTTAT
1 TATTTTAT
37951947 T
1 T
37951948 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:37960113 original size:6 final size:6
Alignment explanation
Indices: 37960097--37960134 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
37960087 TACTAAACAC
37960097 TCTTCTT TCTTTT TCTTTT TCTTTT T-TTTT T-TTTT TCT
1 TCTT-TT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCT
37960135 GTCACGATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 10 0.33
6 16 0.53
7 4 0.13
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TCTTTT
Found at i:37960120 original size:16 final size:16
Alignment explanation
Indices: 37960099--37960134 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
37960089 CTAAACACTC
37960099 TTCTTTCTTTTTCTTT
1 TTCTTTCTTTTTCTTT
* *
37960115 TTCTTTTTTTTTTTTT
1 TTCTTTCTTTTTCTTT
37960131 TTCT
1 TTCT
37960135 GTCACGATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (16 bp):
TTCTTTCTTTTTCTTT
Found at i:37961204 original size:23 final size:23
Alignment explanation
Indices: 37961178--37961234 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
37961168 AAATTACTTT
*
37961178 TTTTTTTAAATTTAAGACAAGTA
1 TTTTTTTAAATTTAAGACAAATA
* * *
37961201 TTTTTATAAA-TTAAGATAAATT
1 TTTTTTTAAATTTAAGACAAATA
*
37961223 TTTTTTTTAATT
1 TTTTTTTAAATT
37961235 CCACCTGATG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (23 bp):
TTTTTTTAAATTTAAGACAAATA
Found at i:37972189 original size:29 final size:30
Alignment explanation
Indices: 37972142--37972200 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
37972132 GAATTGGATC
*
37972142 AAATCAAAATTTCAAGTATAAAATTGCACA
1 AAATCAAAATTTCAAGTATAAAATTACACA
* *
37972172 AAATCAAAA-TTCATGTATAGAATTACACA
1 AAATCAAAATTTCAAGTATAAAATTACACA
37972201 TTAAATCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.53, C:0.14, G:0.07, T:0.27
Consensus pattern (30 bp):
AAATCAAAATTTCAAGTATAAAATTACACA
Found at i:37975724 original size:20 final size:21
Alignment explanation
Indices: 37975687--37975725 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
37975677 AGTATTTTTG
**
37975687 AAAAAAAAATTGCTATAAAAT
1 AAAAAAAAATTGAGATAAAAT
37975708 AAAAAAAAA-TGAGATAAA
1 AAAAAAAAATTGAGATAAA
37975726 TGGATAAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.72, C:0.03, G:0.08, T:0.18
Consensus pattern (21 bp):
AAAAAAAAATTGAGATAAAAT
Found at i:37982123 original size:32 final size:32
Alignment explanation
Indices: 37982087--37982151 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
37982077 TGTATGCATT
37982087 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
37982119 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
37982151 T
1 T
37982152 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:37984426 original size:17 final size:17
Alignment explanation
Indices: 37984401--37984437 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
37984391 TAGATCATTC
37984401 CACCCTTAAAATATTTG
1 CACCCTTAAAATATTTG
*
37984418 CACCTTTAAAATATTTG
1 CACCCTTAAAATATTTG
37984435 CAC
1 CAC
37984438 TATTGGTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.35
Consensus pattern (17 bp):
CACCCTTAAAATATTTG
Found at i:37986556 original size:25 final size:25
Alignment explanation
Indices: 37986528--37986581 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
37986518 TTTACGGAGT
37986528 GTTAGTGAGTTAGTATTAAAGTTCC
1 GTTAGTGAGTTAGTATTAAAGTTCC
37986553 GTTAGTGAGTTAGTATTAAAGTTCC
1 GTTAGTGAGTTAGTATTAAAGTTCC
37986578 GTTA
1 GTTA
37986582 CAAAATTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (25 bp):
GTTAGTGAGTTAGTATTAAAGTTCC
Found at i:37987812 original size:33 final size:33
Alignment explanation
Indices: 37987775--37987900 Score: 80
Period size: 33 Copynumber: 3.8 Consensus size: 33
37987765 TGTACATGTG
37987775 TAAGACCATAGCTGGGCTATGGCATCATGATGA
1 TAAGACCATAGCTGGGCTATGGCATCATGATGA
* * * * * *
37987808 TAAGATCATAACTAGGTTATGGCATTACGA-GTA
1 TAAGACCATAGCTGGGCTATGGCATCATGATG-A
* ** *
37987841 TAAGACCATGGCACGGCCATGGCAAT-AT-ACGTG-
1 TAAGACCATAGCTGGGCTATGGC-ATCATGA--TGA
* *
37987874 TAAGACCATAGTTGGACTATGGCATCA
1 TAAGACCATAGCTGGGCTATGGCATCA
37987901 AGAAAACGAT
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
32 4 0.06
33 60 0.90
34 2 0.03
35 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (33 bp):
TAAGACCATAGCTGGGCTATGGCATCATGATGA
Found at i:37991798 original size:29 final size:31
Alignment explanation
Indices: 37991741--37991809 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
37991731 TCAACCTTAA
* *
37991741 AATATTTGCACTATTAGTCCTTCAAATTTT-
1 AATATTTACACTATTAATCCTTCAAATTTTG
*
37991771 CATATTTACACT-TTAATCCCTT-AAATTTTG
1 AATATTTACACTATTAAT-CCTTCAAATTTTG
37991801 AATATTTAC
1 AATATTTAC
37991810 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 11 0.33
30 22 0.67
ACGTcount: A:0.32, C:0.17, G:0.04, T:0.46
Consensus pattern (31 bp):
AATATTTACACTATTAATCCTTCAAATTTTG
Found at i:37992883 original size:14 final size:15
Alignment explanation
Indices: 37992842--37992887 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
37992832 ATAATTGTAA
37992842 ATATACATTCATATCTC
1 ATATACATTCA-AT-TC
*
37992859 AAATA-ATTCAATT-
1 ATATACATTCAATTC
37992872 ATATACATTCAATTC
1 ATATACATTCAATTC
37992887 A
1 A
37992888 ACCATTGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 4 0.16
14 9 0.36
15 3 0.12
16 5 0.20
17 4 0.16
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.39
Consensus pattern (15 bp):
ATATACATTCAATTC
Found at i:37993869 original size:17 final size:17
Alignment explanation
Indices: 37993847--37993881 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
37993837 AAAATTTCTT
37993847 TACGAAACTTTCACATA
1 TACGAAACTTTCACATA
37993864 TACGAAACTTTCACATA
1 TACGAAACTTTCACATA
37993881 T
1 T
37993882 TTTATCAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.23, G:0.06, T:0.31
Consensus pattern (17 bp):
TACGAAACTTTCACATA
Found at i:38000260 original size:40 final size:40
Alignment explanation
Indices: 38000214--38000295 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
38000204 CTAGTATTTG
38000214 GAGTACATTAATGCGTCTAAGGTTCTTTATTATTTGATAA
1 GAGTACATTAATGCGTCTAAGGTTCTTTATTATTTGATAA
38000254 GAGTACATTAATGCGTCTAAGGTTCTTTATTATTTGATAA
1 GAGTACATTAATGCGTCTAAGGTTCTTTATTATTTGATAA
38000294 GA
1 GA
38000296 TATTTTCTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.41
Consensus pattern (40 bp):
GAGTACATTAATGCGTCTAAGGTTCTTTATTATTTGATAA
Found at i:38000285 original size:22 final size:22
Alignment explanation
Indices: 38000220--38000285 Score: 52
Period size: 20 Copynumber: 3.2 Consensus size: 22
38000210 TTTGGAGTAC
38000220 ATTAATGCGTCTAAGGTTCTTT
1 ATTAATGCGTCTAAGGTTCTTT
** * *
38000242 ATT-ATTTG-ATAAGAGTAC---
1 ATTAATGCGTCTAAG-GTTCTTT
38000260 ATTAATGCGTCTAAGGTTCTTT
1 ATTAATGCGTCTAAGGTTCTTT
38000282 ATTA
1 ATTA
38000286 TTTGATAAGA
Statistics
Matches: 30, Mismatches: 8, Indels: 12
0.60 0.16 0.24
Matches are distributed among these distances:
18 3 0.10
19 6 0.20
20 8 0.27
21 6 0.20
22 7 0.23
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.44
Consensus pattern (22 bp):
ATTAATGCGTCTAAGGTTCTTT
Found at i:38015565 original size:17 final size:15
Alignment explanation
Indices: 38015541--38015577 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 15
38015531 AATCAATTAA
38015541 TTAAAATTTAATATTT
1 TTAAAATTTAAT-TTT
38015557 TTAACAATTTAATTTT
1 TTAA-AATTTAATTTT
38015573 TTAAA
1 TTAAA
38015578 TATATTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 1 0.05
16 11 0.55
17 8 0.40
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (15 bp):
TTAAAATTTAATTTT
Found at i:38016631 original size:25 final size:25
Alignment explanation
Indices: 38016603--38016657 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
38016593 ATATCTAAAG
* *
38016603 GTTATTGCATCCACTATAAAAGAAA
1 GTTATTGCACCCACCATAAAAGAAA
*
38016628 GTTATTGCACCCACCATAAAAGAAT
1 GTTATTGCACCCACCATAAAAGAAA
38016653 GTTAT
1 GTTAT
38016658 ACCTTTCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (25 bp):
GTTATTGCACCCACCATAAAAGAAA
Found at i:38017096 original size:18 final size:18
Alignment explanation
Indices: 38017073--38017108 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
38017063 TTTATGACCA
* *
38017073 TTTTAATATTATTTTTAT
1 TTTTAAGATAATTTTTAT
38017091 TTTTAAGATAATTTTTAT
1 TTTTAAGATAATTTTTAT
38017109 CTTTGGAACC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTTAAGATAATTTTTAT
Found at i:38018767 original size:53 final size:53
Alignment explanation
Indices: 38018626--38018776 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
38018616 ATAAGTGCGC
* **
38018626 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
38018679 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
38018732 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
38018777 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:38027108 original size:31 final size:31
Alignment explanation
Indices: 38027073--38027138 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
38027063 TACAAAATAA
* *
38027073 TTATTAAATTATTCAAAAAATTTTATTTAAG
1 TTATTAAACTACTCAAAAAATTTTATTTAAG
* **
38027104 TTATTAAACTACTCAGAAGTTTTTATTTAAG
1 TTATTAAACTACTCAAAAAATTTTATTTAAG
38027135 TTAT
1 TTAT
38027139 AAGGATGTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (31 bp):
TTATTAAACTACTCAAAAAATTTTATTTAAG
Found at i:38030209 original size:227 final size:227
Alignment explanation
Indices: 38029814--38030248 Score: 861
Period size: 227 Copynumber: 1.9 Consensus size: 227
38029804 GAGCACAGAA
*
38029814 CCAAGGGTGGTCTTGGGAGGCACAAAGATGTACTCATCCCCATCGAAGAAGAATATCCATTTTGC
1 CCAAGGGTGGTCTTGGGAGGCACAAAGATGTACTCATCCACATCGAAGAAGAATATCCATTTTGC
38029879 CATAAACTTGTACCTGTGCAAGCAATCGTTCACCACCAAGAACTGGTTGTGGTAGTACCCATCGA
66 CATAAACTTGTACCTGTGCAAGCAATCGTTCACCACCAAGAACTGGTTGTGGTAGTACCCATCGA
38029944 ATCTCTCCTGCTCCCTTATGTCTTGAAGCGACACATAGCCAAGCTCCATCCATGGCTTTAAAACC
131 ATCTCTCCTGCTCCCTTATGTCTTGAAGCGACACATAGCCAAGCTCCATCCATGGCTTTAAAACC
38030009 TCCAACACTTCCTCATGGACCCCACCGGCGTC
196 TCCAACACTTCCTCATGGACCCCACCGGCGTC
38030041 CCAAGGGTGGTCTTGGGAGGCACAAAGATGTACTCATCCACATCGAAGAAGAATATCCATTTTGC
1 CCAAGGGTGGTCTTGGGAGGCACAAAGATGTACTCATCCACATCGAAGAAGAATATCCATTTTGC
38030106 CATAAACTTGTACCTGTGCAAGCAATCGTTCACCACCAAGAACTGGTTGTGGTAGTACCCATCGA
66 CATAAACTTGTACCTGTGCAAGCAATCGTTCACCACCAAGAACTGGTTGTGGTAGTACCCATCGA
38030171 ATCTCTCCTGCTCCCTTATGTCTTGAAGCGACACATAGCCAAGCTCCATCCATGGCTTTAAAACC
131 ATCTCTCCTGCTCCCTTATGTCTTGAAGCGACACATAGCCAAGCTCCATCCATGGCTTTAAAACC
38030236 TCCAACACTTCCT
196 TCCAACACTTCCT
38030249 TGTATAACGA
Statistics
Matches: 207, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
227 207 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (227 bp):
CCAAGGGTGGTCTTGGGAGGCACAAAGATGTACTCATCCACATCGAAGAAGAATATCCATTTTGC
CATAAACTTGTACCTGTGCAAGCAATCGTTCACCACCAAGAACTGGTTGTGGTAGTACCCATCGA
ATCTCTCCTGCTCCCTTATGTCTTGAAGCGACACATAGCCAAGCTCCATCCATGGCTTTAAAACC
TCCAACACTTCCTCATGGACCCCACCGGCGTC
Found at i:38035448 original size:28 final size:28
Alignment explanation
Indices: 38035392--38035454 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
38035382 GTCATTATCA
*
38035392 ACCCCATAAGTTATAAATCTCTTCCTAT
1 ACCCCATAAGTTATAAATCTCTTCATAT
* *
38035420 ACCCCATAAGTTATGAGA-CTTTTCATAT
1 ACCCCATAAGTTAT-AAATCTCTTCATAT
38035448 ACCCCAT
1 ACCCCAT
38035455 TAATATGGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 29 0.94
29 2 0.06
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (28 bp):
ACCCCATAAGTTATAAATCTCTTCATAT
Found at i:38041194 original size:8 final size:9
Alignment explanation
Indices: 38041150--38041197 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
38041140 CTTCTGCTTG
38041150 AAAAATATA
1 AAAAATATA
*
38041159 AAAAATACA
1 AAAAATATA
38041168 AAAAATATA
1 AAAAATATA
* *
38041177 TAAATTATTA
1 AAAAATA-TA
38041187 AAAAAT-TA
1 AAAAATATA
38041195 AAA
1 AAA
38041198 TTACAATAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
8 5 0.16
9 21 0.66
10 6 0.19
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (9 bp):
AAAAATATA
Found at i:38044511 original size:135 final size:135
Alignment explanation
Indices: 38044264--38044529 Score: 406
Period size: 135 Copynumber: 2.0 Consensus size: 135
38044254 TCGTTGGACC
* *
38044264 ATTCCTTCCTTATCCTCAACTTCTTGTTGACTTTCAGCAACATCAGCTTGCATTTGTACACGAGA
1 ATTCCTTCCTTATCATCAACTTCTTGTTGACTTTCAGCAACATCAGCTTGCATCTGTACACGAGA
* * * * *
38044329 AGTCATTAATCGGTTCATTTTCTCTAGGAAATCACTGTCAAATAAAGTTGAAACTCTTCCCCTGC
66 AGTCATTAATCGGTCCATTGTATCTAGGAAATCACTGCCAAACAAAGTTGAAACTCTTCCCCTGC
38044394 ATATA
131 ATATA
* ** * *
38044399 ATTCCTTCCTTATCATCCACTTCTTGTTGACTTTCAGCCCCATCCGCTTGGATCTGTACACGAGA
1 ATTCCTTCCTTATCATCAACTTCTTGTTGACTTTCAGCAACATCAGCTTGCATCTGTACACGAGA
* *
38044464 AGTCATTAATCGGTCCATTGTATCTCGGAAATCACTGCCAAGCAAAGTTGAAACTCTTCCCCTGC
66 AGTCATTAATCGGTCCATTGTATCTAGGAAATCACTGCCAAACAAAGTTGAAACTCTTCCCCTGC
38044529 A
131 A
38044530 AGTAAATTGG
Statistics
Matches: 117, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
135 117 1.00
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.33
Consensus pattern (135 bp):
ATTCCTTCCTTATCATCAACTTCTTGTTGACTTTCAGCAACATCAGCTTGCATCTGTACACGAGA
AGTCATTAATCGGTCCATTGTATCTAGGAAATCACTGCCAAACAAAGTTGAAACTCTTCCCCTGC
ATATA
Found at i:38052903 original size:58 final size:57
Alignment explanation
Indices: 38052771--38052905 Score: 164
Period size: 58 Copynumber: 2.3 Consensus size: 57
38052761 TTTAATTCAT
* ***
38052771 ATAATAATTATATTAAGAATTTTAATAAATTATATATTATTTTATTAAATTATATTTA
1 ATAATAATTATATTAA-AATATGGTTAAATTATATATTATTTTATTAAATTATATTTA
* * * *
38052829 ATAGTAATTATGTTAAAATATGGTTAAATTATTTATTATTTTTATTAAATTATTTTTA
1 ATAATAATTATATTAAAATATGGTTAAATTATATATTA-TTTTATTAAATTATATTTA
38052887 ATAATAATCT-TATTAAAAT
1 ATAATAAT-TATATTAAAAT
38052906 TTAATAACAA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
57 17 0.26
58 47 0.72
59 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.52
Consensus pattern (57 bp):
ATAATAATTATATTAAAATATGGTTAAATTATATATTATTTTATTAAATTATATTTA
Found at i:38053291 original size:27 final size:27
Alignment explanation
Indices: 38053261--38053328 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
38053251 GCCTTTCTCT
38053261 GAGGCGCAAATGGTTATGCATA-CCTCA
1 GAGGCGCAAATGGTTATGCATATCC-CA
* * *
38053288 GAGGCACAAATGGTTGTGCCTATCCCA
1 GAGGCGCAAATGGTTATGCATATCCCA
38053315 GAGGCGCAAATGGT
1 GAGGCGCAAATGGT
38053329 GGGGCCCACA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
27 34 0.94
28 2 0.06
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (27 bp):
GAGGCGCAAATGGTTATGCATATCCCA
Found at i:38056879 original size:33 final size:33
Alignment explanation
Indices: 38056815--38056885 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
38056805 AGAGTACGGT
*
38056815 GGTGGATACGAGCCAGAAAGAGTGAAGTACTGA
1 GGTGGATACGAGCCAGAAAGACTGAAGTACTGA
* * *
38056848 GGTGGATATGAGCCAGGATGACTGGAA-TACTGA
1 GGTGGATACGAGCCAGAAAGACT-GAAGTACTGA
*
38056881 TGTGG
1 GGTGG
38056886 TAGTGGGCTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
33 29 0.91
34 3 0.09
ACGTcount: A:0.31, C:0.11, G:0.38, T:0.20
Consensus pattern (33 bp):
GGTGGATACGAGCCAGAAAGACTGAAGTACTGA
Found at i:38059959 original size:60 final size:61
Alignment explanation
Indices: 38059890--38060012 Score: 194
Period size: 60 Copynumber: 2.0 Consensus size: 61
38059880 CAACAATTTA
* * * *
38059890 TAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTA-CAAACACAAAAAAATT
1 TAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTATAAAAAACAAAAAAATT
*
38059950 TAACATAATCTTAAATTACTAACAAATTAATTTTAAAATAATTATAAAAAACAAAAAAATT
1 TAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTATAAAAAACAAAAAAATT
38060011 TA
1 TA
38060013 CATTCATACA
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
60 41 0.72
61 16 0.28
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (61 bp):
TAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTATAAAAAACAAAAAAATT
Found at i:38060215 original size:13 final size:13
Alignment explanation
Indices: 38060166--38060220 Score: 69
Period size: 13 Copynumber: 4.2 Consensus size: 13
38060156 CTTTTTATTT
38060166 TTTTCTTTCT-TC
1 TTTTCTTTCTCTC
38060178 TTCTTC-TTCTCTTC
1 TT-TTCTTTCTC-TC
38060192 TTTTCCTTTCTCTC
1 TTTT-CTTTCTCTC
38060206 TTTTCTTTCTCTC
1 TTTTCTTTCTCTC
38060219 TT
1 TT
38060221 CCGGTGTGTG
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.16
13 16 0.42
14 11 0.29
15 5 0.13
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTCTTTCTCTC
Found at i:38060220 original size:27 final size:27
Alignment explanation
Indices: 38060165--38060217 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
38060155 CCTTTTTATT
*
38060165 TTTTTCTTTCTTCTTCTTCTTCTCTTC
1 TTTTCCTTTCTTCTTCTTCTTCTCTTC
38060192 TTTTCCTTTCTCTCTT-TTCTTTCTCT
1 TTTTCCTTTCT-TCTTCTTC-TTCTCT
38060218 CTTCCGGTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (27 bp):
TTTTCCTTTCTTCTTCTTCTTCTCTTC
Found at i:38060812 original size:16 final size:16
Alignment explanation
Indices: 38060791--38060861 Score: 115
Period size: 16 Copynumber: 4.4 Consensus size: 16
38060781 TGAATTACTG
* *
38060791 ATTACAGCTCTATTCC
1 ATTACAGCCCTATTCA
38060807 ATTACAGCCCTATTCA
1 ATTACAGCCCTATTCA
38060823 ATTACAGCCCTATTCA
1 ATTACAGCCCTATTCA
*
38060839 ATTACAGCCCTATTCC
1 ATTACAGCCCTATTCA
38060855 ATTACAG
1 ATTACAG
38060862 TGAACTAAAC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.32
Consensus pattern (16 bp):
ATTACAGCCCTATTCA
Found at i:38066690 original size:16 final size:15
Alignment explanation
Indices: 38066656--38066687 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
38066646 CTCCCAAGTG
38066656 AACCAATTTCCAGAA
1 AACCAATTTCCAGAA
38066671 AACCAATTTCCAGAA
1 AACCAATTTCCAGAA
38066686 AA
1 AA
38066688 ACCCACGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (15 bp):
AACCAATTTCCAGAA
Found at i:38068164 original size:500 final size:499
Alignment explanation
Indices: 38067223--38068221 Score: 1971
Period size: 500 Copynumber: 2.0 Consensus size: 499
38067213 GGGCCTGGTG
*
38067223 GGCTTACCTTGTGGCAGCCGCCGATGATACAAGATTAAAATCAACCATTCTTCTACTCCTTGCCA
1 GGCTTACCTTGTGGCACCCGCCGATGATACAAGATTAAAATCAACCATTCTTCTACTCCTTGCCA
38067288 TTGCATTATCACTTTCCTTCTTTCCTGTCGAATCTTCCATCTCCCCTTGATTACGCTTTTTCCCC
66 TTGCATTATCACTTTCCTTCTTTCCTGTCGAATCTTCCATCTCCCCTTGATTACGCTTTTTCCCC
38067353 TCCTCATTTATTAAAATATCATCTTCTAAATCATGTCTCATGGCAGTTTGCATCTGATCCAGCCA
131 TCCTCATTTATTAAAATATCATCTTCTAAATCATGTCTCATGGCAGTTTGCATCTGATCCAGCCA
38067418 ATTTTTCTCCCTCCTTTCATCAAGAGATGGCGTTCCCCCTTCTATGTTAAATCCCAAATGTGGAT
196 ATTTTTCTCCCTCCTTTCATCAAGAGATGGCGTTCCCCCTTCTATGTTAAATCCCAAATGTGGAT
38067483 CAATAAATTGCCCACTTCTTTTTTTATTTGTCCCCTCTCATGATTTACATCCCAAAATCCTATTA
261 CAATAAATTGCCCACTTCTTTTTTTATTTGTCCCCTCTCATGATTTACATCCCAAAATCCTATTA
38067548 TCCTGTCAGCTGCCTTCCCTTTTTCCTGAACCTTTTTCTTGTAGCCATATGTTATTCATTGATGT
326 TCCTGTCAGCTGCCTTCCCTTTTTCCTGAACCTTTTTCTTGTAGCCATATGTTATTCATTGATGT
38067613 AGCTCTTCGAGATTGTGCTCTTAATGATAAATCCCACCCCATTTTAGCAATTTCCACCCCTAGCA
391 AGCTCTTCGAGATTGTGCTCTTAATGATAAATCCCACCCCATTTTAGCAATTTCCACCCCTAGCA
38067678 TCATTTTTGCCTCGCAAAAAGAGTCGCCATGGCCCAAGCGTCCA
456 TCATTTTTGCCTCGCAAAAAGAGTCGCCATGGCCCAAGCGTCCA
*
38067722 NGGCTTACTTTGTGGCACCCGCCGATGATACAAGATTAAAATCAACCATTCTTCTACTCCTTGCC
1 -GGCTTACCTTGTGGCACCCGCCGATGATACAAGATTAAAATCAACCATTCTTCTACTCCTTGCC
38067787 ATTGCATTATCACTTTCCTTCTTTCCTGTCGAATCTTCCATCTCCCCTTGATTACGCTTTTTCCC
65 ATTGCATTATCACTTTCCTTCTTTCCTGTCGAATCTTCCATCTCCCCTTGATTACGCTTTTTCCC
38067852 CTCCTCATTTATTAAAATATCATCTTCTAAATCATGTCTCATGGCAGTTTGCATCTGATCCAGCC
130 CTCCTCATTTATTAAAATATCATCTTCTAAATCATGTCTCATGGCAGTTTGCATCTGATCCAGCC
38067917 AATTTTTCTCCCTCCTTTCATCAAGAGATGGCGTTCCCCCTTCTATGTTAAATCCCAAATGTGGA
195 AATTTTTCTCCCTCCTTTCATCAAGAGATGGCGTTCCCCCTTCTATGTTAAATCCCAAATGTGGA
38067982 TCAATAAATTGCCCACTTCTTTTTTTATTTGTCCCCTCTCATGATTTACATCCCAAAATCCTATT
260 TCAATAAATTGCCCACTTCTTTTTTTATTTGTCCCCTCTCATGATTTACATCCCAAAATCCTATT
38068047 ATCCTGTCAGCTGCCTTCCCTTTTTCCTGAACCTTTTTCTTGTAGCCATATGTTATTCATTGATG
325 ATCCTGTCAGCTGCCTTCCCTTTTTCCTGAACCTTTTTCTTGTAGCCATATGTTATTCATTGATG
38068112 TAGCTCTTCGAGATTGTGCTCTTAATGATAAATCCCACCCCATTTTAGCAATTTCCACCCCTAGC
390 TAGCTCTTCGAGATTGTGCTCTTAATGATAAATCCCACCCCATTTTAGCAATTTCCACCCCTAGC
38068177 ATCATTTTTGCCTCGCAAAAAGAGTCGCCATGGCCCAAGCGTCCA
455 ATCATTTTTGCCTCGCAAAAAGAGTCGCCATGGCCCAAGCGTCCA
38068222 CAATAGAAAC
Statistics
Matches: 497, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
500 497 1.00
ACGTcount: A:0.22, C:0.29, G:0.12, T:0.37
Consensus pattern (499 bp):
GGCTTACCTTGTGGCACCCGCCGATGATACAAGATTAAAATCAACCATTCTTCTACTCCTTGCCA
TTGCATTATCACTTTCCTTCTTTCCTGTCGAATCTTCCATCTCCCCTTGATTACGCTTTTTCCCC
TCCTCATTTATTAAAATATCATCTTCTAAATCATGTCTCATGGCAGTTTGCATCTGATCCAGCCA
ATTTTTCTCCCTCCTTTCATCAAGAGATGGCGTTCCCCCTTCTATGTTAAATCCCAAATGTGGAT
CAATAAATTGCCCACTTCTTTTTTTATTTGTCCCCTCTCATGATTTACATCCCAAAATCCTATTA
TCCTGTCAGCTGCCTTCCCTTTTTCCTGAACCTTTTTCTTGTAGCCATATGTTATTCATTGATGT
AGCTCTTCGAGATTGTGCTCTTAATGATAAATCCCACCCCATTTTAGCAATTTCCACCCCTAGCA
TCATTTTTGCCTCGCAAAAAGAGTCGCCATGGCCCAAGCGTCCA
Found at i:38071953 original size:13 final size:13
Alignment explanation
Indices: 38071935--38071960 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38071925 TAGAGAAAGA
38071935 GAGGAAGAGGGAC
1 GAGGAAGAGGGAC
38071948 GAGGAAGAGGGAC
1 GAGGAAGAGGGAC
38071961 AGACAGAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.54, T:0.00
Consensus pattern (13 bp):
GAGGAAGAGGGAC
Found at i:38076668 original size:32 final size:32
Alignment explanation
Indices: 38076610--38076685 Score: 82
Period size: 32 Copynumber: 2.4 Consensus size: 32
38076600 TTGTTGGATT
*
38076610 TTGAAATTATTATGTCTTGAATTTGTTACATA
1 TTGAAATTATTATGTCTTGAACTTGTTACATA
* * **
38076642 TTGAATTTATTATGT-TTTAAGCTTGTTGGATA
1 TTGAAATTATTATGTCTTGAA-CTTGTTACATA
*
38076674 TTGAAATGATTA
1 TTGAAATTATTA
38076686 ACAATGACAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 4 0.11
32 32 0.89
ACGTcount: A:0.30, C:0.04, G:0.16, T:0.50
Consensus pattern (32 bp):
TTGAAATTATTATGTCTTGAACTTGTTACATA
Found at i:38079163 original size:84 final size:84
Alignment explanation
Indices: 38079022--38079192 Score: 315
Period size: 84 Copynumber: 2.0 Consensus size: 84
38079012 ACATGTATGG
*
38079022 TGTTGAGTGCACATCATGTGTACAAGAGAGCTACGGGACATTATGATGTAGCTAGGTCGCATGGG
1 TGTTGAGTGCACATCATGTGTACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGGG
*
38079087 TGATACTATGTATACACTA
66 TGATACTATGTATACACCA
38079106 TGTTGAGTGCACATCATGTGTACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGGG
1 TGTTGAGTGCACATCATGTGTACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGGG
*
38079171 TGATACTATGTGTACACCA
66 TGATACTATGTATACACCA
38079190 TGT
1 TGT
38079193 AGACAAGAGA
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 84 1.00
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (84 bp):
TGTTGAGTGCACATCATGTGTACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGGG
TGATACTATGTATACACCA
Found at i:38082311 original size:16 final size:18
Alignment explanation
Indices: 38082290--38082322 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
38082280 GAAAATACTT
38082290 ATTTTTT-AAAT-TTAAA
1 ATTTTTTGAAATGTTAAA
38082306 ATTTTTTGAAATGTTAA
1 ATTTTTTGAAATGTTAA
38082323 GCTTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (18 bp):
ATTTTTTGAAATGTTAAA
Found at i:38085627 original size:5 final size:5
Alignment explanation
Indices: 38085621--38085650 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
38085611 CCTTGACCCA
*
38085621 CCCCA CCCCG CCCCG CCCCG CCCCG CCCCG
1 CCCCG CCCCG CCCCG CCCCG CCCCG CCCCG
38085651 AATTTAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.03, C:0.80, G:0.17, T:0.00
Consensus pattern (5 bp):
CCCCG
Found at i:38085722 original size:45 final size:45
Alignment explanation
Indices: 38085658--38085750 Score: 134
Period size: 45 Copynumber: 2.1 Consensus size: 45
38085648 CCGAATTTAA
* * *
38085658 TTTAATTATTTTATTTTTTATTTTGAGGCAAATAATA-TTACATTT
1 TTTAATTATTTTATTTTTTATTTTGAAGAAAATAAGATTTAC-TTT
*
38085703 TTTAATTGTTTTATTTTTTATTTTGAAGAAAATAAGATTTACTTT
1 TTTAATTATTTTATTTTTTATTTTGAAGAAAATAAGATTTACTTT
38085748 TTT
1 TTT
38085751 GAGTTTAGAC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
45 39 0.91
46 4 0.09
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.59
Consensus pattern (45 bp):
TTTAATTATTTTATTTTTTATTTTGAAGAAAATAAGATTTACTTT
Found at i:38087216 original size:16 final size:16
Alignment explanation
Indices: 38087195--38087240 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
38087185 TTTGGTTCAG
*
38087195 TGTAATGGAATAGAGT
1 TGTAATAGAATAGAGT
*
38087211 TGTAATAGAATAAAGT
1 TGTAATAGAATAGAGT
*
38087227 TATAATAGAATAGA
1 TGTAATAGAATAGA
38087241 ACTGTAGTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.48, C:0.00, G:0.22, T:0.30
Consensus pattern (16 bp):
TGTAATAGAATAGAGT
Found at i:38087451 original size:21 final size:21
Alignment explanation
Indices: 38087433--38087477 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
38087423 ATTATTAAAT
38087433 ATAATAATACATAATTTAACA
1 ATAATAATACATAATTTAACA
* *
38087454 ATAATAATATATAATTTAATA
1 ATAATAATACATAATTTAACA
38087475 ATA
1 ATA
38087478 TTCTTAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (21 bp):
ATAATAATACATAATTTAACA
Found at i:38087657 original size:12 final size:12
Alignment explanation
Indices: 38087640--38087674 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
38087630 TATATGTTAC
38087640 TTAAAAAATAAT
1 TTAAAAAATAAT
38087652 TTAAAAGAATAAT
1 TTAAAA-AATAAT
*
38087665 TTAAAGAATA
1 TTAAAAAATA
38087675 TCTTGTCTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (12 bp):
TTAAAAAATAAT
Found at i:38087664 original size:13 final size:13
Alignment explanation
Indices: 38087640--38087674 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
38087630 TATATGTTAC
38087640 TTAAAA-AATAAT
1 TTAAAAGAATAAT
38087652 TTAAAAGAATAAT
1 TTAAAAGAATAAT
38087665 TT-AAAGAATA
1 TTAAAAGAATA
38087675 TCTTGTCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 14 0.64
13 8 0.36
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (13 bp):
TTAAAAGAATAAT
Found at i:38092162 original size:48 final size:48
Alignment explanation
Indices: 38092091--38092318 Score: 438
Period size: 48 Copynumber: 4.8 Consensus size: 48
38092081 NNNNNNNNNN
* *
38092091 TATGAGATATGTATATGTGGTAAAGTCGAATGGCTAGTGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
38092139 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
38092187 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
38092235 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
38092283 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
38092319 GTGATATGGC
Statistics
Matches: 178, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 178 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.32
Consensus pattern (48 bp):
TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
Found at i:38092541 original size:37 final size:37
Alignment explanation
Indices: 38092491--38092593 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
38092481 GGAAATATAT
38092491 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
38092528 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
38092565 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
38092594 CGACTATTCG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:38101770 original size:48 final size:48
Alignment explanation
Indices: 38101699--38101931 Score: 385
Period size: 48 Copynumber: 4.9 Consensus size: 48
38101689 NNNNNNNNNN
38101699 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
38101747 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* * *
38101795 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* * *
38101843 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* * *
38101891 TGTGGTAAAGCCGAATGACTAGTGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
38101932 GTGTGTATAT
Statistics
Matches: 176, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 176 1.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
Found at i:38106369 original size:3 final size:3
Alignment explanation
Indices: 38106363--38106401 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
38106353 GTGAAAAAAA
*
38106363 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG AGAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A-AG AA
38106402 AAATAACACA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:38106834 original size:21 final size:21
Alignment explanation
Indices: 38106810--38106849 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
38106800 CAAAACAACG
38106810 TAGTTTT-ACCTTTTAACTTGA
1 TAGTTTTGA-CTTTTAACTTGA
38106831 TAGTTTTGACTTTTAACTT
1 TAGTTTTGACTTTTAACTT
38106850 TAGATAAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.23, C:0.12, G:0.10, T:0.55
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTGA
Found at i:38107175 original size:18 final size:19
Alignment explanation
Indices: 38107154--38107194 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
38107144 TTTTATAAAA
38107154 TTTTTA-AATTTTAAATTT
1 TTTTTATAATTTTAAATTT
* *
38107172 TTTTTATATTTTTAGATTT
1 TTTTTATAATTTTAAATTT
38107191 TTTT
1 TTTT
38107195 AAAAAAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTTTATAATTTTAAATTT
Found at i:38107228 original size:19 final size:20
Alignment explanation
Indices: 38107187--38107229 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
38107177 ATATTTTTAG
*
38107187 ATTTTTTTAAAAAAATCATA
1 ATTTTTTTAAAAAAATCAAA
*
38107207 ATTTTTTTAAAAATA-CAAA
1 ATTTTTTTAAAAAAATCAAA
38107226 ATTT
1 ATTT
38107230 AGAATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTTTTTTAAAAAAATCAAA
Found at i:38107293 original size:19 final size:19
Alignment explanation
Indices: 38107232--38107295 Score: 85
Period size: 20 Copynumber: 3.4 Consensus size: 19
38107222 CAAAATTTAG
*
38107232 AATTTTTATAAA-TATTTT
1 AATTTTTAAAAATTATTTT
*
38107250 AAATTTTAAAAATTATTTT
1 AATTTTTAAAAATTATTTT
38107269 AAATTTTTAAAAATTATTTT
1 -AATTTTTAAAAATTATTTT
*
38107289 GATTTTT
1 AATTTTT
38107296 TTAATTTTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
18 10 0.25
19 12 0.30
20 18 0.45
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
AATTTTTAAAAATTATTTT
Found at i:38107296 original size:20 final size:20
Alignment explanation
Indices: 38107227--38107288 Score: 92
Period size: 20 Copynumber: 3.1 Consensus size: 20
38107217 AAATACAAAA
*
38107227 TTTAGAATTTTTATAAA-TAT
1 TTTA-AATTTTTAAAAATTAT
38107247 TTTAAA-TTTTAAAAATTAT
1 TTTAAATTTTTAAAAATTAT
38107266 TTTAAATTTTTAAAAATTAT
1 TTTAAATTTTTAAAAATTAT
38107286 TTT
1 TTT
38107289 GATTTTTTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
18 8 0.21
19 11 0.28
20 20 0.51
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTAAATTTTTAAAAATTAT
Found at i:38117641 original size:19 final size:20
Alignment explanation
Indices: 38117619--38117662 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
38117609 AATATTAAGA
38117619 ATAAAGTA-AAATGAATTA-T
1 ATAAAGTATAAAT-AATTATT
*
38117638 ATAAATTATAAATAATTATT
1 ATAAAGTATAAATAATTATT
38117658 ATAAA
1 ATAAA
38117663 AATTAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
ATAAAGTATAAATAATTATT
Found at i:38117678 original size:24 final size:24
Alignment explanation
Indices: 38117633--38117696 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 24
38117623 AGTAAAATGA
* *
38117633 ATTATATAAATT--ATAAATAATT
1 ATTATAAAAATTAAATAAAAAATT
38117655 ATTATAAAAATTAAATAAAAAATT
1 ATTATAAAAATTAAATAAAAAATT
* *
38117679 -TATATTAATATTAAATAA
1 AT-TATAAAAATTAAATAA
38117697 TTATATGAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
22 11 0.31
23 1 0.03
24 23 0.66
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
ATTATAAAAATTAAATAAAAAATT
Found at i:38117682 original size:44 final size:43
Alignment explanation
Indices: 38117634--38117717 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 43
38117624 GTAAAATGAA
*
38117634 TTATATAAAT-TATAAATAATTATTATAAAAATTAAATAAAAAAT
1 TTATATAAATAT-TAAATAATTA-TATAAAAATAAAATAAAAAAT
* *
38117678 TTATATTAATATTAAATAATTATATGAAAATAAAATAAAA
1 TTATATAAATATTAAATAATTATATAAAAATAAAATAAAA
38117718 TAAAATCCTC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
43 16 0.44
44 19 0.53
45 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (43 bp):
TTATATAAATATTAAATAATTATATAAAAATAAAATAAAAAAT
Found at i:38117713 original size:19 final size:20
Alignment explanation
Indices: 38117667--38117715 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
38117657 TATAAAAATT
*
38117667 AAATAAAA-AATTTATATTA
1 AAATAAAATAATTTATATGA
* *
38117686 ATATTAAATAA-TTATATGA
1 AAATAAAATAATTTATATGA
38117705 AAATAAAATAA
1 AAATAAAATAA
38117716 AATAAAATCC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 22 0.92
20 2 0.08
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
AAATAAAATAATTTATATGA
Found at i:38119570 original size:35 final size:35
Alignment explanation
Indices: 38119481--38119570 Score: 126
Period size: 35 Copynumber: 2.6 Consensus size: 35
38119471 ACAAGAGTCG
38119481 ATCCATCCGAAACACACCAATGCTCATAAGAGCTA
1 ATCCATCCGAAACACACCAATGCTCATAAGAGCTA
* * *
38119516 ATCCCTCTGAAACATACCAATGCTCATAAGAGCTA
1 ATCCATCCGAAACACACCAATGCTCATAAGAGCTA
* * *
38119551 GTCCAACCGAAATACACCAA
1 ATCCATCCGAAACACACCAA
38119571 AATAGAAAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.40, C:0.31, G:0.11, T:0.18
Consensus pattern (35 bp):
ATCCATCCGAAACACACCAATGCTCATAAGAGCTA
Found at i:38128915 original size:24 final size:23
Alignment explanation
Indices: 38128879--38128923 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
38128869 GAGGATTTTA
38128879 TTTTAGTTTATATTAATATAATT
1 TTTTAGTTTATATTAATATAATT
*
38128902 TTTTTGTTTAATATTAATATAA
1 TTTTAGTTT-ATATTAATATAA
38128924 AACTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (23 bp):
TTTTAGTTTATATTAATATAATT
Found at i:38128930 original size:24 final size:24
Alignment explanation
Indices: 38128879--38128937 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
38128869 GAGGATTTTA
***
38128879 TTTTAGTTT-ATATTAATATAATTT
1 TTTT-GTTTAATATTAATATAAAAC
38128903 TTTTGTTTAATATTAATATAAAAC
1 TTTTGTTTAATATTAATATAAAAC
*
38128927 TTTTATTTAAT
1 TTTTGTTTAAT
38128938 TTTTACAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 4 0.13
24 26 0.87
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (24 bp):
TTTTGTTTAATATTAATATAAAAC
Found at i:38147289 original size:50 final size:50
Alignment explanation
Indices: 38147218--38147352 Score: 261
Period size: 50 Copynumber: 2.7 Consensus size: 50
38147208 ACATGCCAAA
38147218 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
38147268 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
*
38147318 GCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
38147353 TTACCCAAAT
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 84 1.00
ACGTcount: A:0.17, C:0.33, G:0.24, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
Found at i:38147468 original size:13 final size:13
Alignment explanation
Indices: 38147447--38147478 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
38147437 GCTTGGATCA
*
38147447 TCATCAAATAAAT
1 TCATAAAATAAAT
38147460 TCATAAAATAAAT
1 TCATAAAATAAAT
38147473 TCATAA
1 TCATAA
38147479 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:38147726 original size:30 final size:30
Alignment explanation
Indices: 38147690--38147747 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
38147680 CCTCGACTCT
*
38147690 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
38147720 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
38147748 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:38150995 original size:39 final size:39
Alignment explanation
Indices: 38150952--38151079 Score: 193
Period size: 39 Copynumber: 3.3 Consensus size: 39
38150942 GGTCTTTAAC
** * *
38150952 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* *
38150991 CCGGATATATTTCTAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
*
38151030 CCGGATATTTTTCCAGCATATAGCCTGCGAACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
38151069 CCGGATATTTT
1 CCGGATATTTT
38151080 CAATCTCATA
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:38153661 original size:29 final size:29
Alignment explanation
Indices: 38153623--38153683 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
38153613 TCTTTATTTT
38153623 GTACCGAGGTAAGTTCAGATGTAAATGTA
1 GTACCGAGGTAAGTTCAGATGTAAATGTA
*
38153652 GTACCGAGGTAAGTTCAGGTGTAAATGTA
1 GTACCGAGGTAAGTTCAGATGTAAATGTA
38153681 GTA
1 GTA
38153684 ACATAATTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.28
Consensus pattern (29 bp):
GTACCGAGGTAAGTTCAGATGTAAATGTA
Found at i:38156853 original size:26 final size:22
Alignment explanation
Indices: 38156818--38156876 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 22
38156808 ATAGTGGTGT
*
38156818 TTAAAAATAATATGTAAAAATTAA
1 TTAATAATAATAT-T-AAAATTAA
*
38156842 TTAATCATATAAT-TTGAAATTAA
1 TTAAT-A-ATAATATTAAAATTAA
38156865 TTAATAATAATA
1 TTAATAATAATA
38156877 ACAAATTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
21 5 0.17
22 1 0.03
23 12 0.40
24 5 0.17
25 2 0.07
26 5 0.17
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (22 bp):
TTAATAATAATATTAAAATTAA
Found at i:38161020 original size:22 final size:22
Alignment explanation
Indices: 38160995--38161038 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
38160985 TAGTCTTATA
38160995 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
38161017 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
38161039 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:38161074 original size:13 final size:14
Alignment explanation
Indices: 38161058--38161099 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
38161048 TTTCAATTTT
38161058 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
38161071 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
38161086 ATTTTAAATAATAT
1 ATTTT-AATAATAT
38161100 TATTCATGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:38161084 original size:16 final size:16
Alignment explanation
Indices: 38161062--38161098 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
38161052 AATTTTATTT
38161062 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
38161079 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
38161094 TAATA
1 TAATA
38161099 TTATTCATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:38162530 original size:582 final size:582
Alignment explanation
Indices: 38161426--38162589 Score: 2328
Period size: 582 Copynumber: 2.0 Consensus size: 582
38161416 ACCCAATGGG
38161426 CAAAACCTCGATTAAGAGAAAAAGAGTGCAATGCGTATTTACTCTCCCTCATGAAAACATCACAT
1 CAAAACCTCGATTAAGAGAAAAAGAGTGCAATGCGTATTTACTCTCCCTCATGAAAACATCACAT
38161491 ATTTTCTCATATTCTACATATTCAATCTTGAATACTAGTTTTTCAAATGACTATTTGAATGTATT
66 ATTTTCTCATATTCTACATATTCAATCTTGAATACTAGTTTTTCAAATGACTATTTGAATGTATT
38161556 GCTAACCATTTATATCACCATTCTTTTAAAAGTCACGAGTGAGGGAAATTTGGGGAAATATATTT
131 GCTAACCATTTATATCACCATTCTTTTAAAAGTCACGAGTGAGGGAAATTTGGGGAAATATATTT
38161621 TGATCTCTTCAGGAGACTCAACAATAATCATAACAAACTTTAATCATGATTCTTTTATAAAAACA
196 TGATCTCTTCAGGAGACTCAACAATAATCATAACAAACTTTAATCATGATTCTTTTATAAAAACA
38161686 CAAATAAGTCTTTTGGATCATTTTATAATCCTCCTTCAACTACTATTCACTAAGTCAAATTTAAC
261 CAAATAAGTCTTTTGGATCATTTTATAATCCTCCTTCAACTACTATTCACTAAGTCAAATTTAAC
38161751 ACATATATTCAAATTATTTCAATTCATATAAATGAACAATTTCTCAAGAATTTCAATATGCTTCT
326 ACATATATTCAAATTATTTCAATTCATATAAATGAACAATTTCTCAAGAATTTCAATATGCTTCT
38161816 AGCATCCCAAATCCTTTAAAGATTTTAATATAAACTTTACTATATAATGATTCATAAAAGGTTGT
391 AGCATCCCAAATCCTTTAAAGATTTTAATATAAACTTTACTATATAATGATTCATAAAAGGTTGT
38161881 AACAATAACCATTAGACGTAAGTTAAATCTTTTGTGAATTGTCAATTTAATAATATATCTAAAAG
456 AACAATAACCATTAGACGTAAGTTAAATCTTTTGTGAATTGTCAATTTAATAATATATCTAAAAG
38161946 TTATTGCATCCACCACAAAAGAATATTATATCTTTTCATAATCAATGCCAGGACTTAGCGAA
521 TTATTGCATCCACCACAAAAGAATATTATATCTTTTCATAATCAATGCCAGGACTTAGCGAA
38162008 CAAAACCTCGATTAAGAGAAAAAGAGTGCAATGCGTATTTACTCTCCCTCATGAAAACATCACAT
1 CAAAACCTCGATTAAGAGAAAAAGAGTGCAATGCGTATTTACTCTCCCTCATGAAAACATCACAT
38162073 ATTTTCTCATATTCTACATATTCAATCTTGAATACTAGTTTTTCAAATGACTATTTGAATGTATT
66 ATTTTCTCATATTCTACATATTCAATCTTGAATACTAGTTTTTCAAATGACTATTTGAATGTATT
38162138 GCTAACCATTTATATCACCATTCTTTTAAAAGTCACGAGTGAGGGAAATTTGGGGAAATATATTT
131 GCTAACCATTTATATCACCATTCTTTTAAAAGTCACGAGTGAGGGAAATTTGGGGAAATATATTT
38162203 TGATCTCTTCAGGAGACTCAACAATAATCATAACAAACTTTAATCATGATTCTTTTATAAAAACA
196 TGATCTCTTCAGGAGACTCAACAATAATCATAACAAACTTTAATCATGATTCTTTTATAAAAACA
38162268 CAAATAAGTCTTTTGGATCATTTTATAATCCTCCTTCAACTACTATTCACTAAGTCAAATTTAAC
261 CAAATAAGTCTTTTGGATCATTTTATAATCCTCCTTCAACTACTATTCACTAAGTCAAATTTAAC
38162333 ACATATATTCAAATTATTTCAATTCATATAAATGAACAATTTCTCAAGAATTTCAATATGCTTCT
326 ACATATATTCAAATTATTTCAATTCATATAAATGAACAATTTCTCAAGAATTTCAATATGCTTCT
38162398 AGCATCCCAAATCCTTTAAAGATTTTAATATAAACTTTACTATATAATGATTCATAAAAGGTTGT
391 AGCATCCCAAATCCTTTAAAGATTTTAATATAAACTTTACTATATAATGATTCATAAAAGGTTGT
38162463 AACAATAACCATTAGACGTAAGTTAAATCTTTTGTGAATTGTCAATTTAATAATATATCTAAAAG
456 AACAATAACCATTAGACGTAAGTTAAATCTTTTGTGAATTGTCAATTTAATAATATATCTAAAAG
38162528 TTATTGCATCCACCACAAAAGAATATTATATCTTTTCATAATCAATGCCAGGACTTAGCGAA
521 TTATTGCATCCACCACAAAAGAATATTATATCTTTTCATAATCAATGCCAGGACTTAGCGAA
38162590 ATACTTCATA
Statistics
Matches: 582, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
582 582 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (582 bp):
CAAAACCTCGATTAAGAGAAAAAGAGTGCAATGCGTATTTACTCTCCCTCATGAAAACATCACAT
ATTTTCTCATATTCTACATATTCAATCTTGAATACTAGTTTTTCAAATGACTATTTGAATGTATT
GCTAACCATTTATATCACCATTCTTTTAAAAGTCACGAGTGAGGGAAATTTGGGGAAATATATTT
TGATCTCTTCAGGAGACTCAACAATAATCATAACAAACTTTAATCATGATTCTTTTATAAAAACA
CAAATAAGTCTTTTGGATCATTTTATAATCCTCCTTCAACTACTATTCACTAAGTCAAATTTAAC
ACATATATTCAAATTATTTCAATTCATATAAATGAACAATTTCTCAAGAATTTCAATATGCTTCT
AGCATCCCAAATCCTTTAAAGATTTTAATATAAACTTTACTATATAATGATTCATAAAAGGTTGT
AACAATAACCATTAGACGTAAGTTAAATCTTTTGTGAATTGTCAATTTAATAATATATCTAAAAG
TTATTGCATCCACCACAAAAGAATATTATATCTTTTCATAATCAATGCCAGGACTTAGCGAA
Found at i:38165595 original size:7 final size:7
Alignment explanation
Indices: 38165583--38165611 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
38165573 AGAGATGGAG
38165583 AGAATAA
1 AGAATAA
38165590 AGAATAA
1 AGAATAA
38165597 AGAATAA
1 AGAATAA
38165604 AGAATAA
1 AGAATAA
38165611 A
1 A
38165612 AAAAATATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (7 bp):
AGAATAA
Found at i:38165814 original size:15 final size:15
Alignment explanation
Indices: 38165765--38165816 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
38165755 ATTCAATATT
*
38165765 AATATTTTAATAATA
1 AATATATTAATAATA
*
38165780 AATAATTATTACAATTATA
1 AAT-A-TATT--AATAATA
38165799 AATATATTAATAATA
1 AATATATTAATAATA
38165814 AAT
1 AAT
38165817 GTTTTGTAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
AATATATTAATAATA
Found at i:38166259 original size:19 final size:19
Alignment explanation
Indices: 38166235--38166280 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
38166225 CATCCAAACA
*
38166235 CCAGAAAATATTAA-ATTTT
1 CCAGAAAAT-TAAATATTTT
38166254 CCAGAAAATTAAATTATTTT
1 CCAGAAAATTAAA-TATTTT
38166274 CCAGAAA
1 CCAGAAA
38166281 TCATTTTCCG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 3 0.12
19 9 0.38
20 12 0.50
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.33
Consensus pattern (19 bp):
CCAGAAAATTAAATATTTT
Found at i:38167862 original size:44 final size:44
Alignment explanation
Indices: 38167799--38167887 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
38167789 TTGATAAAGA
38167799 AAAAATAAGAATATTGCGATATGTCTACATAGTTCAATTTTCTT
1 AAAAATAAGAATATTGCGATATGTCTACATAGTTCAATTTTCTT
38167843 AAAAATAAGAATATTGCGATATGTCTACATAGTTCAATTTTCTT
1 AAAAATAAGAATATTGCGATATGTCTACATAGTTCAATTTTCTT
38167887 A
1 A
38167888 CATCTATGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.38
Consensus pattern (44 bp):
AAAAATAAGAATATTGCGATATGTCTACATAGTTCAATTTTCTT
Found at i:38170803 original size:55 final size:55
Alignment explanation
Indices: 38170716--38170827 Score: 197
Period size: 55 Copynumber: 2.0 Consensus size: 55
38170706 TTAGCGTCAA
* * *
38170716 CTTCAAGGATAAGATCAAGTAGTTTGTGTTTGAATTTCAAATTTCAAATACAAGG
1 CTTCAAGGATAAGAACAAGTAGTTTGTATTTGAATTTAAAATTTCAAATACAAGG
38170771 CTTCAAGGATAAGAACAAGTAGTTTGTATTTGAATTTAAAATTTCAAATACAAGG
1 CTTCAAGGATAAGAACAAGTAGTTTGTATTTGAATTTAAAATTTCAAATACAAGG
38170826 CT
1 CT
38170828 GCCATATAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (55 bp):
CTTCAAGGATAAGAACAAGTAGTTTGTATTTGAATTTAAAATTTCAAATACAAGG
Found at i:38172687 original size:22 final size:23
Alignment explanation
Indices: 38172654--38172706 Score: 92
Period size: 22 Copynumber: 2.4 Consensus size: 23
38172644 AGTTGCAGAC
38172654 GTTGAA-ACAGGGGAGTAGGAGT
1 GTTGAAGACAGGGGAGTAGGAGT
38172676 GTTGAAGA-AGGGGAGTAGGAGT
1 GTTGAAGACAGGGGAGTAGGAGT
38172698 GTTGAAGAC
1 GTTGAAGAC
38172707 TACTACAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.32, C:0.04, G:0.45, T:0.19
Consensus pattern (23 bp):
GTTGAAGACAGGGGAGTAGGAGT
Found at i:38179650 original size:27 final size:27
Alignment explanation
Indices: 38179606--38179667 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
38179596 TTTTATCCTA
38179606 GTAAAA-TTTTGACAATTTTAACCTCG
1 GTAAAATTTTTGACAATTTTAACCTCG
** * *
38179632 GTAAAATTTTTGATGATTTTACCCTTG
1 GTAAAATTTTTGACAATTTTAACCTCG
38179659 GTAAAATTT
1 GTAAAATTT
38179668 CGAGAAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 6 0.19
27 25 0.81
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.44
Consensus pattern (27 bp):
GTAAAATTTTTGACAATTTTAACCTCG
Found at i:38183426 original size:22 final size:24
Alignment explanation
Indices: 38183392--38183435 Score: 56
Period size: 22 Copynumber: 1.9 Consensus size: 24
38183382 CTTCACTCAC
*
38183392 TTTGGTACAT-AA-ATTTTTTTAA
1 TTTGATACATAAAGATTTTTTTAA
*
38183414 TTTGATACTTAAAGATTTTTTT
1 TTTGATACATAAAGATTTTTTT
38183436 TGTCACAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 8 0.44
23 2 0.11
24 8 0.44
ACGTcount: A:0.30, C:0.05, G:0.09, T:0.57
Consensus pattern (24 bp):
TTTGATACATAAAGATTTTTTTAA
Found at i:38186426 original size:14 final size:14
Alignment explanation
Indices: 38186407--38186434 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
38186397 ACAATGTTTG
38186407 TTTGGAATAATCGA
1 TTTGGAATAATCGA
38186421 TTTGGAATAATCGA
1 TTTGGAATAATCGA
38186435 AAGCTTCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
TTTGGAATAATCGA
Found at i:38187249 original size:42 final size:42
Alignment explanation
Indices: 38187198--38187358 Score: 261
Period size: 42 Copynumber: 3.8 Consensus size: 42
38187188 GTTTACAAAC
* *
38187198 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
38187240 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
* *
38187282 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-AGG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGA-A
*
38187324 GAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
38187359 TTTTTTTTCT
Statistics
Matches: 112, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
41 1 0.01
42 111 0.99
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
Found at i:38187389 original size:43 final size:41
Alignment explanation
Indices: 38187200--38187453 Score: 206
Period size: 42 Copynumber: 6.1 Consensus size: 41
38187190 TTACAAACAA
* * **** *
38187200 AAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAA
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTTTAC
* **** *
38187242 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAA
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTTTAC
****
38187284 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAGGGA-
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TT-TTTTAC
* *
38187326 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTTC
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTTTAC
* * *
38187368 TAATCGCCGCTAAAGAACATGTTCTTTAGTGGC-ATTTTTAC
1 -AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTAC
* * *
38187409 AAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTTTTATAC
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTTTAC
38187451 AAA
1 AAA
38187454 AACGCCACTA
Statistics
Matches: 186, Mismatches: 21, Indels: 10
0.86 0.10 0.05
Matches are distributed among these distances:
40 30 0.16
41 6 0.03
42 118 0.63
43 32 0.17
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.28
Consensus pattern (41 bp):
AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTAC
Found at i:38187536 original size:14 final size:14
Alignment explanation
Indices: 38187513--38187546 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
38187503 GCCCTCCTGT
*
38187513 AGCAAAATTTCAAA
1 AGCAACATTTCAAA
38187527 AGCAACATTTCAAA
1 AGCAACATTTCAAA
38187541 AGCAAC
1 AGCAAC
38187547 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (14 bp):
AGCAACATTTCAAA
Found at i:38187838 original size:21 final size:21
Alignment explanation
Indices: 38187770--38187840 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
38187760 TTTTGCTCTG
* *
38187770 CTCTGCTTCTCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
38187791 CTCCGCTTCCCTCGCTGCAGT
1 CTCTGCTTCCCTCGCTGCAGC
* * *
38187812 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
38187833 CTCTGCTT
1 CTCTGCTT
38187841 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.45, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:38193332 original size:9 final size:9
Alignment explanation
Indices: 38193318--38193553 Score: 117
Period size: 9 Copynumber: 27.9 Consensus size: 9
38193308 AAGATATACA
38193318 TTATGTAAG
1 TTATGTAAG
38193327 TTATGTAAG
1 TTATGTAAG
38193336 TTATGTAAG
1 TTATGTAAG
*
38193345 TTGTGTAAG
1 TTATGTAAG
**
38193354 TTGCGTAAG
1 TTATGTAAG
* *
38193363 ATGTGT-A-
1 TTATGTAAG
* *
38193370 TTATGAAAC
1 TTATGTAAG
38193379 TTATGTAAG
1 TTATGTAAG
38193388 TTATGTAAG
1 TTATGTAAG
*
38193397 TTGTGTAAG
1 TTATGTAAG
**
38193406 TTGCGTAAG
1 TTATGTAAG
* *
38193415 ATGTGT-A-
1 TTATGTAAG
* *
38193422 TTATGAAAC
1 TTATGTAAG
38193431 TTATGTAAG
1 TTATGTAAG
*
38193440 TTATGT--C
1 TTATGTAAG
*
38193447 TTATGTTAG
1 TTATGTAAG
*
38193456 TTATGTAAT
1 TTATGTAAG
*
38193465 TTTTGT-A-
1 TTATGTAAG
*
38193472 TTATTTACA-
1 TTATGTA-AG
*
38193481 -CATGTAAG
1 TTATGTAAG
*
38193489 TTATGT--C
1 TTATGTAAG
38193496 TTATGTAAG
1 TTATGTAAG
* **
38193505 ATGCGTAAG
1 TTATGTAAG
*
38193514 TTGTGT-A-
1 TTATGTAAG
*
38193521 TTATGAAAG
1 TTATGTAAG
38193530 TTATGTAAG
1 TTATGTAAG
38193539 TTATGT--G
1 TTATGTAAG
38193546 TTATGTAA
1 TTATGTAA
38193554 ATGAATATAT
Statistics
Matches: 173, Mismatches: 38, Indels: 32
0.71 0.16 0.13
Matches are distributed among these distances:
7 34 0.20
8 11 0.06
9 128 0.74
ACGTcount: A:0.30, C:0.04, G:0.22, T:0.44
Consensus pattern (9 bp):
TTATGTAAG
Found at i:38193386 original size:52 final size:50
Alignment explanation
Indices: 38193317--38193553 Score: 253
Period size: 52 Copynumber: 4.7 Consensus size: 50
38193307 CAAGATATAC
* * * *
38193317 ATTATGTAAGTTATGTAAGTTATGTAAGTTGTGTAAGTTGCGTAAGATGTGT
1 ATTATGAAACTTATGTAAGTTATGT--CTTATGTAAGTTGCGTAAGATGTGT
* *
38193369 ATTATGAAACTTATGTAAGTTATGTAAGTTGTGTAAGTTGCGTAAGATGTGT
1 ATTATGAAACTTATGTAAGTTATGT--CTTATGTAAGTTGCGTAAGATGTGT
* ** ** *
38193421 ATTATGAAACTTATGTAAGTTATGTCTTATGTTAGTTATGTAATTTTTGT
1 ATTATGAAACTTATGTAAGTTATGTCTTATGTAAGTTGCGTAAGATGTGT
* * * *
38193471 ATTATTTACAC--ATGTAAGTTATGTCTTATGTAAGATGCGTAAGTTGTGT
1 ATTA-TGAAACTTATGTAAGTTATGTCTTATGTAAGTTGCGTAAGATGTGT
* *
38193520 ATTATGAAAGTTATGTAAGTTATGTGTTATGTAA
1 ATTATGAAACTTATGTAAGTTATGTCTTATGTAA
38193554 ATGAATATAT
Statistics
Matches: 160, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
48 3 0.02
49 36 0.22
50 42 0.26
51 4 0.03
52 75 0.47
ACGTcount: A:0.30, C:0.04, G:0.22, T:0.44
Consensus pattern (50 bp):
ATTATGAAACTTATGTAAGTTATGTCTTATGTAAGTTGCGTAAGATGTGT
Found at i:38193449 original size:16 final size:16
Alignment explanation
Indices: 38193430--38193461 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
38193420 TATTATGAAA
38193430 CTTATGTAAGTTATGT
1 CTTATGTAAGTTATGT
*
38193446 CTTATGTTAGTTATGT
1 CTTATGTAAGTTATGT
38193462 AATTTTTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.06, G:0.19, T:0.53
Consensus pattern (16 bp):
CTTATGTAAGTTATGT
Done.