Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 346 of 362
Found at i:114921114 original size:22 final size:22
Alignment explanation
Indices: 114921089--114921134 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
114921079 TTTTAGAGGA
114921089 ATTAAAGTATAAATT-TATAATT
1 ATTAAAGTATAAATTATA-AATT
**
114921111 ATTAATTTATAAATTATAAATT
1 ATTAAAGTATAAATTATAAATT
114921133 AT
1 AT
114921135 AAAAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTAAAGTATAAATTATAAATT
Found at i:114923475 original size:20 final size:22
Alignment explanation
Indices: 114923444--114923497 Score: 53
Period size: 22 Copynumber: 2.5 Consensus size: 22
114923434 ATATGCTACT
114923444 TGACA-AATTTATTCA-GAA-TG
1 TGACATAA-TTATTCACGAATTG
*
114923464 TGACATAATTA-TCACTAATTTG
1 TGACATAATTATTCACGAA-TTG
114923486 TGACATAATTAT
1 TGACATAATTAT
114923498 CACTAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 3 0.11
20 10 0.36
21 2 0.07
22 13 0.46
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (22 bp):
TGACATAATTATTCACGAATTG
Found at i:114923488 original size:22 final size:22
Alignment explanation
Indices: 114923462--114923503 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
114923452 TTATTCAGAA
114923462 TGTGACATAATTATCACTAATT
1 TGTGACATAATTATCACTAATT
114923484 TGTGACATAATTATCACTAA
1 TGTGACATAATTATCACTAA
114923504 AAATATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (22 bp):
TGTGACATAATTATCACTAATT
Found at i:114924056 original size:2 final size:2
Alignment explanation
Indices: 114924049--114924075 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
114924039 TATAATACTA
114924049 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
114924076 ATTCAACACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:114925184 original size:20 final size:19
Alignment explanation
Indices: 114925139--114925178 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
114925129 TATAAAATCT
114925139 TTCATTAAAAATTGTAATA
1 TTCATTAAAAATTGTAATA
*
114925158 TTCATTAAAAATTTTAATA
1 TTCATTAAAAATTGTAATA
114925177 TT
1 TT
114925179 TGATTAGAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (19 bp):
TTCATTAAAAATTGTAATA
Found at i:114925697 original size:4 final size:4
Alignment explanation
Indices: 114925658--114925682 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
114925648 TGTGTTTGGT
114925658 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
114925683 GAAAACAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:114930678 original size:20 final size:20
Alignment explanation
Indices: 114930650--114930692 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
114930640 TATTTATGTT
*
114930650 AATTTATTTTTAT-TGTTAA
1 AATTTATTTTTATATATTAA
114930669 AATTTAATTTTTATATATTAA
1 AATTT-ATTTTTATATATTAA
114930690 AAT
1 AAT
114930693 AAAATGCATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.24
20 8 0.38
21 8 0.38
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
AATTTATTTTTATATATTAA
Found at i:114931162 original size:25 final size:26
Alignment explanation
Indices: 114931104--114931164 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 26
114931094 AATGAAAATG
*
114931104 ATTAATAAATAAT-TTTTTATCTATAA
1 ATTAATAAA-AATATTTTTATATATAA
114931130 A--AAT-AAAATATTTTTATATA-AA
1 ATTAATAAAAATATTTTTATATATAA
114931152 ATTAATAAAAATA
1 ATTAATAAAAATA
114931165 CATATTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
22 6 0.20
23 11 0.37
24 6 0.20
25 6 0.20
26 1 0.03
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
ATTAATAAAAATATTTTTATATATAA
Found at i:114939069 original size:31 final size:30
Alignment explanation
Indices: 114939016--114939073 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 30
114939006 TATAAAATGG
* *
114939016 TTAAATTTTAATTTGATATTTATATTTCAC
1 TTAAATTTAAATTTAATATTTATATTTCAC
*
114939046 TTAAATTATAAATTTAATCTTTATATTT
1 TTAAATT-TAAATTTAATATTTATATTT
114939074 TATGTAACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 7 0.29
31 17 0.71
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (30 bp):
TTAAATTTAAATTTAATATTTATATTTCAC
Found at i:114941516 original size:3 final size:3
Alignment explanation
Indices: 114941508--114941540 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
114941498 GATTTAGTCC
114941508 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
114941541 CTACTTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:114954088 original size:46 final size:45
Alignment explanation
Indices: 114954021--114954267 Score: 163
Period size: 46 Copynumber: 5.6 Consensus size: 45
114954011 ATTATACAGG
* * *
114954021 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAA-TTCAGA
* *
114954067 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACA-T-A-A
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGA-ATTCAGA
* * * ** **
114954110 TCCTATCTCCCTGAAGTTACAGTGGAGCGGA-TTAA-AATAAAGGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTCA-GA
** * ** * * *
114954154 TCTTATCTTTCTGAAGTTACAGCAGAGTAGATCG-CG---TCA-A
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTCAGA
* *
114954194 GTCTTATTTCCCTGAGGTTACAGTGGAACAGACCGAAGAATTTCAGA
1 -TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAA-TTCAGA
* *
114954241 TCTTACCTCCCTGTGGTTACAGTGGAG
1 TCTTATCTCCCTGAGGTTACAGTGGAG
114954268 TACATTGAAG
Statistics
Matches: 149, Mismatches: 38, Indels: 28
0.69 0.18 0.13
Matches are distributed among these distances:
40 2 0.01
41 26 0.17
42 5 0.03
43 28 0.19
44 26 0.17
45 1 0.01
46 59 0.40
47 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (45 bp):
TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTCAGA
Found at i:114954269 original size:87 final size:89
Alignment explanation
Indices: 114954020--114954269 Score: 258
Period size: 87 Copynumber: 2.9 Consensus size: 89
114954010 TATTATACAG
*
114954020 GTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGGTT
1 GTCTTATCTCCCTGAGGTTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGGTT
*
114954085 ACAGCGGAGCAGATCGAAGACATA
66 ACAGCGGAGTAGATCGAAGACATA
* * * * * ** ** ** *
114954109 ATCCTATCTCCCTGAAGTTACAGTGGAGCGGA-TTAA-AA-TAAAGGATCTTATCTTTCTGAAGT
1 GTCTTATCTCCCTGAGGTTACAGTGGAACAGACCAAAGAATTTCA-GATCTTATCTCCCTGAGGT
* * *
114954171 TACAGCAGAGTAGATCG-CGTCA-A
65 TACAGCGGAGTAGATCGAAGACATA
* * * *
114954194 GTCTTATTTCCCTGAGGTTACAGTGGAACAGACCGAAGAATTTCAGATCTTACCTCCCTGTGGTT
1 GTCTTATCTCCCTGAGGTTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGGTT
*
114954259 ACAGTGGAGTA
66 ACAGCGGAGTA
114954270 CATTGAAGCC
Statistics
Matches: 123, Mismatches: 34, Indels: 10
0.74 0.20 0.06
Matches are distributed among these distances:
85 27 0.22
86 7 0.06
87 59 0.48
88 4 0.03
89 26 0.21
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (89 bp):
GTCTTATCTCCCTGAGGTTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGGTT
ACAGCGGAGTAGATCGAAGACATA
Found at i:114955802 original size:3 final size:3
Alignment explanation
Indices: 114955794--114955835 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
114955784 GATTTAGTCC
114955794 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
114955836 CTACTTATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:114957230 original size:41 final size:40
Alignment explanation
Indices: 114957173--114957271 Score: 128
Period size: 41 Copynumber: 2.5 Consensus size: 40
114957163 TTCGGTTTAA
* * *
114957173 CTGATGAGATATTGGGTGTCAATTTACTACTTCGGATTTAT
1 CTGATGAGACACTGGGTGTCAATTTACTACTTC-GAATTAT
*
114957214 -TCGATGAGACACTGGGTGTCAATTTACTCCTTCGAATTAT
1 CT-GATGAGACACTGGGTGTCAATTTACTACTTCGAATTAT
*
114957254 CTGATGAGGCACTGGGTG
1 CTGATGAGACACTGGGTG
114957272 CCAAACTGGT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
40 22 0.43
41 29 0.57
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.35
Consensus pattern (40 bp):
CTGATGAGACACTGGGTGTCAATTTACTACTTCGAATTAT
Found at i:114962425 original size:24 final size:24
Alignment explanation
Indices: 114962391--114962436 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
114962381 TATATGAAAT
* *
114962391 ATAAATTTTAAATATTTTTAAGCA
1 ATAAATATTAAATATTTATAAGCA
*
114962415 ATAAATATTAATTATTTATAAG
1 ATAAATATTAAATATTTATAAG
114962437 ATTTAATTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (24 bp):
ATAAATATTAAATATTTATAAGCA
Found at i:114966196 original size:25 final size:25
Alignment explanation
Indices: 114966168--114966218 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
114966158 TATAAAATTT
** *
114966168 TAAATTAAATTAATAATGATAAAAA
1 TAAATTAAACCAAAAATGATAAAAA
*
114966193 TAAATTAACCCAAAAATGATAAAAA
1 TAAATTAAACCAAAAATGATAAAAA
114966218 T
1 T
114966219 CTAAAAATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.27
Consensus pattern (25 bp):
TAAATTAAACCAAAAATGATAAAAA
Found at i:114974136 original size:11 final size:11
Alignment explanation
Indices: 114974120--114974155 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
114974110 CTAACATAAC
114974120 TTAGTAAATAT
1 TTAGTAAATAT
114974131 TTAGTAAATAT
1 TTAGTAAATAT
*
114974142 TTATTAAATAT
1 TTAGTAAATAT
114974153 TTA
1 TTA
114974156 TGAGTCTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (11 bp):
TTAGTAAATAT
Found at i:114974776 original size:5 final size:5
Alignment explanation
Indices: 114974762--114974798 Score: 65
Period size: 5 Copynumber: 7.2 Consensus size: 5
114974752 ATTATTAGAT
114974762 TATTA TTATTA TATTA TATTA TATTA TATTA TATTA T
1 TATTA -TATTA TATTA TATTA TATTA TATTA TATTA T
114974799 TAAATAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATTA
Found at i:114975753 original size:18 final size:19
Alignment explanation
Indices: 114975718--114975756 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
114975708 TGAGTATTGA
114975718 TATTGAATTGAATGAAAATG
1 TATTGAATTG-ATGAAAATG
114975738 TATTGAATTG-TGAAAATG
1 TATTGAATTGATGAAAATG
114975756 T
1 T
114975757 GTGAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (19 bp):
TATTGAATTGATGAAAATG
Found at i:114976197 original size:12 final size:13
Alignment explanation
Indices: 114976178--114976215 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
114976168 AATGATCTTG
114976178 ATTAAGAAATGAA
1 ATTAAGAAATGAA
114976191 A-TAAGAAATTGAA
1 ATTAAGAAA-TGAA
*
114976204 ATTGAGAAATGA
1 ATTAAGAAATGA
114976216 GAAATGAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 7 0.32
13 9 0.41
14 6 0.27
ACGTcount: A:0.58, C:0.00, G:0.18, T:0.24
Consensus pattern (13 bp):
ATTAAGAAATGAA
Found at i:114977788 original size:19 final size:19
Alignment explanation
Indices: 114977740--114977789 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 19
114977730 AAAATGAGTG
114977740 GTTAATTAGAGTTTAATTAA
1 GTTAATTA-AGTTTAATTAA
*
114977760 GTGAATTTAA-TTTAATTAA
1 GTTAA-TTAAGTTTAATTAA
114977779 GATTAATTAAG
1 G-TTAATTAAG
114977790 AAAAAGGACT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 14 0.56
20 8 0.32
21 3 0.12
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.44
Consensus pattern (19 bp):
GTTAATTAAGTTTAATTAA
Found at i:114979257 original size:15 final size:14
Alignment explanation
Indices: 114979237--114979278 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
114979227 CGATGAATTT
114979237 ATTGAATTTATATTG
1 ATTGAA-TTATATTG
*
114979252 ATTGAAATTATTTTG
1 ATTG-AATTATATTG
114979267 ATTGAATTATAT
1 ATTGAATTATAT
114979279 AATATATATG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 7 0.29
15 15 0.62
16 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (14 bp):
ATTGAATTATATTG
Found at i:114979681 original size:23 final size:22
Alignment explanation
Indices: 114979651--114979758 Score: 123
Period size: 21 Copynumber: 5.0 Consensus size: 22
114979641 GCTTTACCAA
* *
114979651 TTAGGCACTTTATGTGTCGTATT
1 TTAGGCACCTTGTGTGTCGTA-T
*
114979674 TTAGGCACCTCGTGTGTCGTA-
1 TTAGGCACCTTGTGTGTCGTAT
*
114979695 TCAGGCACCTTGTGTGTCGTA-
1 TTAGGCACCTTGTGTGTCGTAT
*
114979716 TTAGGCACCTCGTGTGTCGT-T
1 TTAGGCACCTTGTGTGTCGTAT
* *
114979737 TTAGGCACTTTATGTGTCGTAT
1 TTAGGCACCTTGTGTGTCGTAT
114979759 ACTGATCAGG
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
21 54 0.74
22 1 0.01
23 18 0.25
ACGTcount: A:0.15, C:0.19, G:0.26, T:0.40
Consensus pattern (22 bp):
TTAGGCACCTTGTGTGTCGTAT
Found at i:114979716 original size:44 final size:43
Alignment explanation
Indices: 114979653--114979758 Score: 160
Period size: 42 Copynumber: 2.5 Consensus size: 43
114979643 TTTACCAATT
114979653 AGGCACTTTATGTGTCGTATTTTAGGCACCTCGTGTGTCGTATC
1 AGGCACTTTATGTGTCGTA-TTTAGGCACCTCGTGTGTCGTATC
* * * *
114979697 AGGCACCTTGTGTGTCGTA-TTAGGCACCTCGTGTGTCGTTTT
1 AGGCACTTTATGTGTCGTATTTAGGCACCTCGTGTGTCGTATC
114979739 AGGCACTTTATGTGTCGTAT
1 AGGCACTTTATGTGTCGTAT
114979759 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
42 38 0.69
44 17 0.31
ACGTcount: A:0.15, C:0.20, G:0.26, T:0.39
Consensus pattern (43 bp):
AGGCACTTTATGTGTCGTATTTAGGCACCTCGTGTGTCGTATC
Found at i:114989441 original size:20 final size:20
Alignment explanation
Indices: 114989416--114989454 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
114989406 CCACATATAA
114989416 ATATCTTAAAAATAAAATAT
1 ATATCTTAAAAATAAAATAT
*
114989436 ATATCTTAAAATTAAAATA
1 ATATCTTAAAAATAAAATA
114989455 CAACTATTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (20 bp):
ATATCTTAAAAATAAAATAT
Found at i:115001378 original size:21 final size:21
Alignment explanation
Indices: 115001352--115001394 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
115001342 GGTGAAGAAA
115001352 GCATATCACCAGGATTAGTTG
1 GCATATCACCAGGATTAGTTG
*
115001373 GCATATCACCTGGATTAGTTG
1 GCATATCACCAGGATTAGTTG
115001394 G
1 G
115001395 ACCCATGTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (21 bp):
GCATATCACCAGGATTAGTTG
Found at i:115004943 original size:11 final size:11
Alignment explanation
Indices: 115004909--115004949 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
115004899 TTATAATTAC
115004909 TTATTTTAAAA
1 TTATTTTAAAA
115004920 TT-TTATATAAAA
1 TTATT-T-TAAAA
115004932 TTATTTTAAAA
1 TTATTTTAAAA
115004943 TTATTTT
1 TTATTTT
115004950 TTTACATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 2 0.07
11 15 0.56
12 8 0.30
13 2 0.07
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TTATTTTAAAA
Found at i:115007673 original size:66 final size:66
Alignment explanation
Indices: 115007567--115007698 Score: 264
Period size: 66 Copynumber: 2.0 Consensus size: 66
115007557 TTTGTAAGTT
115007567 TTAGATCAAGACACATATATTAACGAGTGTAACATTACACGTGCATGCAATGAGACATGTGAAAC
1 TTAGATCAAGACACATATATTAACGAGTGTAACATTACACGTGCATGCAATGAGACATGTGAAAC
115007632 C
66 C
115007633 TTAGATCAAGACACATATATTAACGAGTGTAACATTACACGTGCATGCAATGAGACATGTGAAAC
1 TTAGATCAAGACACATATATTAACGAGTGTAACATTACACGTGCATGCAATGAGACATGTGAAAC
115007698 C
66 C
115007699 ATCTTTGGCA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (66 bp):
TTAGATCAAGACACATATATTAACGAGTGTAACATTACACGTGCATGCAATGAGACATGTGAAAC
C
Found at i:115014273 original size:29 final size:29
Alignment explanation
Indices: 115014238--115014293 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
115014228 TCAAAACCTA
*
115014238 CTTTTAGCATATCTGTGATACCCAAAACG
1 CTTTTAGCATATCTGTGATACCAAAAACG
*
115014267 CTTTTAGCATATTTGTGATACCAAAAA
1 CTTTTAGCATATCTGTGATACCAAAAA
115014294 GAATGAAGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (29 bp):
CTTTTAGCATATCTGTGATACCAAAAACG
Found at i:115024248 original size:3 final size:3
Alignment explanation
Indices: 115024240--115024264 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
115024230 CATTGCTGTA
115024240 GCT GCT GCT GCT GCT GCT GCT GCT G
1 GCT GCT GCT GCT GCT GCT GCT GCT G
115024265 GTAGTCCTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.36, T:0.32
Consensus pattern (3 bp):
GCT
Found at i:115024368 original size:21 final size:21
Alignment explanation
Indices: 115024344--115024394 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
115024334 CCATATTGTA
115024344 ACCCATCTGACCACCCATTTG
1 ACCCATCTGACCACCCATTTG
*
115024365 ACCCATCTGACGACCCATTTG
1 ACCCATCTGACCACCCATTTG
*
115024386 GCCCATCTG
1 ACCCATCTG
115024395 CCCCATATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.22, C:0.41, G:0.14, T:0.24
Consensus pattern (21 bp):
ACCCATCTGACCACCCATTTG
Found at i:115024423 original size:6 final size:6
Alignment explanation
Indices: 115024412--115024446 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
115024402 TTCTTACTGC
115024412 CACCAG CACCAG CACCAG CACCAG CACCAG CACCA
1 CACCAG CACCAG CACCAG CACCAG CACCAG CACCA
115024447 CCTCCCCCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.34, C:0.51, G:0.14, T:0.00
Consensus pattern (6 bp):
CACCAG
Found at i:115025054 original size:12 final size:12
Alignment explanation
Indices: 115025039--115025091 Score: 70
Period size: 12 Copynumber: 4.4 Consensus size: 12
115025029 TCATCATCAA
*
115025039 CATCATCGAACT
1 CATCATCAAACT
*
115025051 CATCATCAAATT
1 CATCATCAAACT
*
115025063 CATCATCGAACT
1 CATCATCAAACT
*
115025075 CATCACCAAACT
1 CATCATCAAACT
115025087 CATCA
1 CATCA
115025092 AAATCACAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.38, C:0.34, G:0.04, T:0.25
Consensus pattern (12 bp):
CATCATCAAACT
Found at i:115025055 original size:21 final size:23
Alignment explanation
Indices: 115025029--115025091 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 23
115025019 AAATTCCCCT
115025029 TCATCATC-AA-CATCATCGAAC
1 TCATCATCAAATCATCATCGAAC
115025050 TCATCATCAAATTCATCATCGAAC
1 TCATCATCAAA-TCATCATCGAAC
*
115025074 TCATCACCAAACTCATCA
1 TCATCATCAAA-TCATCA
115025092 AAATCACAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
21 8 0.22
22 2 0.05
24 27 0.73
ACGTcount: A:0.38, C:0.33, G:0.03, T:0.25
Consensus pattern (23 bp):
TCATCATCAAATCATCATCGAAC
Found at i:115025066 original size:24 final size:24
Alignment explanation
Indices: 115025039--115025091 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
115025029 TCATCATCAA
* *
115025039 CATCATCGAACTCATCATCAAATT
1 CATCATCGAACTCATCACCAAACT
115025063 CATCATCGAACTCATCACCAAACT
1 CATCATCGAACTCATCACCAAACT
115025087 CATCA
1 CATCA
115025092 AAATCACAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.38, C:0.34, G:0.04, T:0.25
Consensus pattern (24 bp):
CATCATCGAACTCATCACCAAACT
Found at i:115025877 original size:12 final size:12
Alignment explanation
Indices: 115025860--115025890 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
115025850 AGAAAGAAAA
115025860 AGACAGACAAAG
1 AGACAGACAAAG
*
115025872 AGACAGACAGAG
1 AGACAGACAAAG
115025884 AGACAGA
1 AGACAGA
115025891 AGATGAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.55, C:0.16, G:0.29, T:0.00
Consensus pattern (12 bp):
AGACAGACAAAG
Found at i:115027276 original size:46 final size:46
Alignment explanation
Indices: 115027224--115027321 Score: 169
Period size: 46 Copynumber: 2.1 Consensus size: 46
115027214 AAATGATGAT
*
115027224 ACTTTGTCAAGAATGCAACAACATTGGAGAATTCTTTTGTGGCTTA
1 ACTTTGTCAAGAATACAACAACATTGGAGAATTCTTTTGTGGCTTA
* *
115027270 ACTTTGTCAAGAATACAATAACATTGGAGTATTCTTTTGTGGCTTA
1 ACTTTGTCAAGAATACAACAACATTGGAGAATTCTTTTGTGGCTTA
115027316 ACTTTG
1 ACTTTG
115027322 CGGCAACATA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (46 bp):
ACTTTGTCAAGAATACAACAACATTGGAGAATTCTTTTGTGGCTTA
Found at i:115028305 original size:16 final size:17
Alignment explanation
Indices: 115028281--115028329 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
115028271 TTTTAATTTA
115028281 TTAAATAAAA-ATTATC
1 TTAAATAAAATATTATC
*
115028297 TTAATTAAAATATTAT-
1 TTAAATAAAATATTATC
*
115028313 TTCAATAAAATAATTAT
1 TTAAATAAAAT-ATTAT
115028330 ATTTCACATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 18 0.64
17 10 0.36
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAAATAAAATATTATC
Found at i:115028348 original size:21 final size:18
Alignment explanation
Indices: 115028303--115028352 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
115028293 TATCTTAATT
115028303 AAAATATTATTTCAATAAA
1 AAAAT-TTATTTCAATAAA
*
115028322 ATAATTATATTTCACATTAAA
1 AAAATT-TATTTCA-A-TAAA
115028343 AAAATTTATT
1 AAAATTTATT
115028353 AATCGTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 1 0.04
19 11 0.42
20 5 0.19
21 9 0.35
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAATTTATTTCAATAAA
Found at i:115028787 original size:41 final size:42
Alignment explanation
Indices: 115028723--115028804 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 42
115028713 TCATGATATG
* * * *
115028723 ATTTTGATGATAGGTTTACAACAATTATCTCTCTATAACAAT
1 ATTTTGATGATAGGTGTACAACAACTATCTCACCATAACAAT
* *
115028765 ATTTT-ATTATAGGTGTATAACAACTATCTCACCATAACAA
1 ATTTTGATGATAGGTGTACAACAACTATCTCACCATAACAA
115028805 GCCAAATATT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 29 0.85
42 5 0.15
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (42 bp):
ATTTTGATGATAGGTGTACAACAACTATCTCACCATAACAAT
Found at i:115031800 original size:4 final size:4
Alignment explanation
Indices: 115031791--115031819 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
115031781 AGCAAACGTG
115031791 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
115031820 TAGAAAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:115032648 original size:47 final size:47
Alignment explanation
Indices: 115032584--115032694 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
115032574 GACATTGAGT
* *
115032584 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTATTC
* * *
115032631 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTATTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
115032678 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
115032695 CTTATCCCGG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 51 0.93
48 4 0.07
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
Found at i:115037678 original size:14 final size:14
Alignment explanation
Indices: 115037661--115037690 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
115037651 TCTTGAATTA
*
115037661 TTTTTATTAAATAT
1 TTTTTATAAAATAT
115037675 TTTTTATAAAATAT
1 TTTTTATAAAATAT
115037689 TT
1 TT
115037691 AAAATTATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTTATAAAATAT
Found at i:115051480 original size:11 final size:11
Alignment explanation
Indices: 115051464--115051488 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
115051454 TAATTTTTTT
115051464 AAAAAATTATA
1 AAAAAATTATA
115051475 AAAAAATTATA
1 AAAAAATTATA
115051486 AAA
1 AAA
115051489 TTTAATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAAAATTATA
Found at i:115051817 original size:13 final size:13
Alignment explanation
Indices: 115051799--115051831 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
115051789 AATTAATATC
*
115051799 AAATAAAAAGCAA
1 AAATAAAAAACAA
115051812 AAATAAAAAACAA
1 AAATAAAAAACAA
115051825 AAA-AAAA
1 AAATAAAA
115051832 TTGCTCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.85, C:0.06, G:0.03, T:0.06
Consensus pattern (13 bp):
AAATAAAAAACAA
Found at i:115052637 original size:99 final size:99
Alignment explanation
Indices: 115052447--115052642 Score: 311
Period size: 99 Copynumber: 2.0 Consensus size: 99
115052437 CCCCCCTTTC
* * * *
115052447 TTCTCTTATTTCTAAATTATTGTCGTTATTTTGAGCCTCGAGGTCTAACTCGATGACTGTATTAT
1 TTCTCTTATTTCTAAATCATTGTCGTTATTTTGAGCCTCGAAGTCTAACTCAATAACTGTATTAT
* * *
115052512 CTAACTCAATGGGTTGGCTCATAGGATCACCAAG
66 CTAACTCAATGAGTTGACTCACAGGATCACCAAG
* *
115052546 TTCTGTTATTTCTAAATCATTGTCGTTATTTTGAGCCTCGAAGTTTAACTCAATAACTGTATTAT
1 TTCTCTTATTTCTAAATCATTGTCGTTATTTTGAGCCTCGAAGTCTAACTCAATAACTGTATTAT
115052611 CTAACTCAATGAGTTGACTCACAGGATCACCA
66 CTAACTCAATGAGTTGACTCACAGGATCACCA
115052643 GGTTGAGTAG
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
99 88 1.00
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (99 bp):
TTCTCTTATTTCTAAATCATTGTCGTTATTTTGAGCCTCGAAGTCTAACTCAATAACTGTATTAT
CTAACTCAATGAGTTGACTCACAGGATCACCAAG
Found at i:115057117 original size:13 final size:15
Alignment explanation
Indices: 115057099--115057130 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
115057089 AATTTTTTTA
115057099 TTTTTA-ATTAA-TT
1 TTTTTATATTAACTT
115057112 TTTTTATATTAACTT
1 TTTTTATATTAACTT
115057127 TTTT
1 TTTT
115057131 GCTTAAATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 5 0.29
15 6 0.35
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTTATATTAACTT
Found at i:115064183 original size:29 final size:29
Alignment explanation
Indices: 115064141--115064199 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
115064131 TTAACGAAAG
115064141 TTAATAGTTAAATGATAAAAATATAACAA
1 TTAATAGTTAAATGATAAAAATATAACAA
115064170 TTAATAGTTAAATGATAAAAATATAACAA
1 TTAATAGTTAAATGATAAAAATATAACAA
115064199 T
1 T
115064200 CTGATAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.32
Consensus pattern (29 bp):
TTAATAGTTAAATGATAAAAATATAACAA
Found at i:115065304 original size:48 final size:48
Alignment explanation
Indices: 115065233--115065331 Score: 189
Period size: 48 Copynumber: 2.1 Consensus size: 48
115065223 GAGAAAACAA
115065233 CATTTTATAAGCCACCATCACATGTAAACAAAGAGAAAAGGAATCTAC
1 CATTTTATAAGCCACCATCACATGTAAACAAAGAGAAAAGGAATCTAC
*
115065281 CATTTTATAAGCCATCATCACATGTAAACAAAGAGAAAAGGAATCTAC
1 CATTTTATAAGCCACCATCACATGTAAACAAAGAGAAAAGGAATCTAC
115065329 CAT
1 CAT
115065332 ATGAAAAGAC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.45, C:0.20, G:0.12, T:0.22
Consensus pattern (48 bp):
CATTTTATAAGCCACCATCACATGTAAACAAAGAGAAAAGGAATCTAC
Found at i:115071880 original size:27 final size:27
Alignment explanation
Indices: 115071850--115071905 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
115071840 CATTTAAAGA
115071850 AATGAATACATACATTTATTTCATATT
1 AATGAATACATACATTTATTTCATATT
115071877 AATGAATACATACATTTATTTCATATT
1 AATGAATACATACATTTATTTCATATT
115071904 AA
1 AA
115071906 ATTAATATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.43
Consensus pattern (27 bp):
AATGAATACATACATTTATTTCATATT
Found at i:115074008 original size:20 final size:20
Alignment explanation
Indices: 115073983--115074025 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
115073973 CTCAGTATTC
115073983 TTATCCTGAATTTTAGGATT
1 TTATCCTGAATTTTAGGATT
*
115074003 TTATCCTGAATTTTAGTATT
1 TTATCCTGAATTTTAGGATT
115074023 TTA
1 TTA
115074026 ATTTGGATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.09, G:0.12, T:0.53
Consensus pattern (20 bp):
TTATCCTGAATTTTAGGATT
Found at i:115085512 original size:21 final size:21
Alignment explanation
Indices: 115085486--115085568 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 21
115085476 TGATCAGTAT
*
115085486 ACGACACATAAAGTGCCTAAA
1 ACGACACACAAAGTGCCTAAA
* * * *
115085507 ACGACACACGAGGTGCCTGAT
1 ACGACACACAAAGTGCCTAAA
* * *
115085528 ACGACACGCGAGGTGCCTGAAA
1 ACGACACACAAAGTGCCT-AAA
*
115085550 TACGACACATAAAGTGCCT
1 -ACGACACACAAAGTGCCT
115085569 GATCAGTAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
21 33 0.69
22 1 0.02
23 14 0.29
ACGTcount: A:0.36, C:0.27, G:0.23, T:0.14
Consensus pattern (21 bp):
ACGACACACAAAGTGCCTAAA
Found at i:115085556 original size:23 final size:23
Alignment explanation
Indices: 115085484--115085558 Score: 86
Period size: 21 Copynumber: 3.4 Consensus size: 23
115085474 CCTGATCAGT
** *
115085484 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACGAGGTGCCTGAA
115085506 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACGAGGTGCCTGAA
*
115085526 ATACGACACGCGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTGAA
115085549 ATACGACACA
1 ATACGACACA
115085559 TAAAGTGCCT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
20 1 0.02
21 33 0.75
22 1 0.02
23 9 0.20
ACGTcount: A:0.37, C:0.27, G:0.23, T:0.13
Consensus pattern (23 bp):
ATACGACACACGAGGTGCCTGAA
Found at i:115092114 original size:18 final size:17
Alignment explanation
Indices: 115092091--115092133 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
115092081 CGTAAGATTC
115092091 TTCTTCTTCAGTATGCAT
1 TTCTTCTTCAGTAT-CAT
*
115092109 TTCTTCATCAGTATCAT
1 TTCTTCTTCAGTATCAT
*
115092126 TTATTCTT
1 TTCTTCTT
115092134 TCATTCGACA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.19, C:0.21, G:0.07, T:0.53
Consensus pattern (17 bp):
TTCTTCTTCAGTATCAT
Found at i:115093423 original size:21 final size:21
Alignment explanation
Indices: 115093397--115093480 Score: 78
Period size: 21 Copynumber: 3.9 Consensus size: 21
115093387 TGATCAGTAT
*
115093397 ACGACACATAAAGTGCCTAAA
1 ACGACACACAAAGTGCCTAAA
* * * *
115093418 ACGACACACGAGGTGCCTGAT
1 ACGACACACAAAGTGCCTAAA
* *
115093439 ACGACACACGAGGTGCCTAAAA
1 ACGACACACAAAGTGCCT-AAA
*
115093461 TACGACACATAAAGTGCCTA
1 -ACGACACACAAAGTGCCTA
115093481 TTCAGTAAAG
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
21 34 0.67
22 2 0.04
23 15 0.29
ACGTcount: A:0.39, C:0.26, G:0.20, T:0.14
Consensus pattern (21 bp):
ACGACACACAAAGTGCCTAAA
Found at i:115093463 original size:23 final size:22
Alignment explanation
Indices: 115093395--115093469 Score: 91
Period size: 21 Copynumber: 3.5 Consensus size: 22
115093385 CCTGATCAGT
** *
115093395 ATACGACACATAAAGTGCCTAA
1 ATACGACACACGAGGTGCCTAA
*
115093417 A-ACGACACACGAGGTGCCT-G
1 ATACGACACACGAGGTGCCTAA
115093437 ATACGACACACGAGGTGCCTAAA
1 ATACGACACACGAGGTGCCT-AA
115093460 ATACGACACA
1 ATACGACACA
115093470 TAAAGTGCCT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.02
21 33 0.73
22 1 0.02
23 10 0.22
ACGTcount: A:0.40, C:0.27, G:0.20, T:0.13
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTAA
Found at i:115098216 original size:50 final size:50
Alignment explanation
Indices: 115098092--115098340 Score: 266
Period size: 50 Copynumber: 4.8 Consensus size: 50
115098082 GATAATAACA
* ** ** * *
115098092 TGCCAAAGCCATGTCCCAGACATGGTCTTACATAGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
115098143 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
115098193 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
115098243 TGCCCATGCCATGTCCCTGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
115098298 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
115098341 TTACCCAAAT
Statistics
Matches: 167, Mismatches: 24, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.54
51 32 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 38 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:115098267 original size:100 final size:104
Alignment explanation
Indices: 115098091--115098340 Score: 339
Period size: 100 Copynumber: 2.4 Consensus size: 104
115098081 TGATAATAAC
* **
115098091 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATAGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
115098156 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
115098193 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
*
115098256 TCCCTGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
115098298 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
115098341 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
99 1 0.01
100 49 0.37
101 35 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.31
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:115098453 original size:13 final size:13
Alignment explanation
Indices: 115098435--115098466 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
115098425 GCTTGGATCA
115098435 TCATAAAATAAAT
1 TCATAAAATAAAT
115098448 TCATAAAATAAAT
1 TCATAAAATAAAT
115098461 TCATAA
1 TCATAA
115098467 TTGCTGGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:115100162 original size:30 final size:30
Alignment explanation
Indices: 115100128--115100187 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
115100118 CTTAATACGA
115100128 ACTTTGGCAAAATTAC-CATTTTGCCCCTAG
1 ACTTTGGCAAAATTACAC-TTTTGCCCCTAG
* *
115100158 ACTTTTGCATAATTACACTTTTGCCCCTAG
1 ACTTTGGCAAAATTACACTTTTGCCCCTAG
115100188 GCTCGGGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.37
Consensus pattern (30 bp):
ACTTTGGCAAAATTACACTTTTGCCCCTAG
Found at i:115102880 original size:21 final size:21
Alignment explanation
Indices: 115102841--115102880 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
115102831 TATTTTGACC
*
115102841 TTTTTTTTAAATTCTTTCAAT
1 TTTTTTTTAAATTCATTCAAT
* *
115102862 TTTTTTTTCATTTCATTCA
1 TTTTTTTTAAATTCATTCA
115102881 TAATTCAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.12, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTTTTTAAATTCATTCAAT
Found at i:115107397 original size:45 final size:45
Alignment explanation
Indices: 115107343--115107653 Score: 303
Period size: 45 Copynumber: 6.9 Consensus size: 45
115107333 TTAGACGGGG
115107343 AGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCGA
1 AGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCGA
* * * * * * *
115107388 AGTAGATCGAAGAT-GACAGATTTGGCGTCTC-TGT-ATTAGA-CGGG
1 AGCAGATCGAAGATAG-CAGATCTGACAT-TCGTGTGTTTACATC-GA
* * * *
115107432 AGGAGATCGAAGATAGTAGATCTGGCATTCATGTGTTTACATCGA
1 AGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCGA
* *
115107477 AGCAGGTCGAAGATAACAGATCTGACATTCGTGTGTTTACATCGA
1 AGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCGA
* * * * * * *
115107522 AGCAGATCGAAGAT-GATAGATTTGACGTCCCTGT-ATTAGA-CGA
1 AGCAGATCGAAGATAG-CAGATCTGACATTCGTGTGTTTACATCGA
* **
115107565 GGAGCAGATCAAAGATAGTGGATCTGACATTCGTGTGTTTACATCGA
1 --AGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCGA
*
115107612 AGCAGGTCGAAGATAGCAGATCTGACATTCGTGTGTTTACAT
1 AGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACAT
115107654 GTAATGACCC
Statistics
Matches: 212, Mismatches: 41, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
43 6 0.03
44 35 0.17
45 160 0.75
46 8 0.04
47 3 0.01
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (45 bp):
AGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCGA
Found at i:115107471 original size:89 final size:90
Alignment explanation
Indices: 115107299--115107497 Score: 303
Period size: 89 Copynumber: 2.2 Consensus size: 90
115107289 AGGGGGCAAT
115107299 GTAGATC-AACGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGA
1 GTAGATCGAA-GATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGA
*
115107363 TCTGACATTCGTGTGTTTACATCGAA
65 TCTGACATTCATGTGTTTACATCGAA
* * *
115107389 GTAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGAC-GGGAGGAGATCGAAGATAGTAGAT
1 GTAGATCGAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGAT
*
115107453 CTGGCATTCATGTGTTTACATCGAA
66 CTGACATTCATGTGTTTACATCGAA
* * *
115107478 GCAGGTCGAAGATAACAGAT
1 GTAGATCGAAGATGACAGAT
115107498 CTGACATTCG
Statistics
Matches: 100, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
89 62 0.62
90 36 0.36
91 2 0.02
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (90 bp):
GTAGATCGAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGAT
CTGACATTCATGTGTTTACATCGAA
Found at i:115107543 original size:134 final size:135
Alignment explanation
Indices: 115107343--115107653 Score: 516
Period size: 135 Copynumber: 2.3 Consensus size: 135
115107333 TTAGACGGGG
* *
115107343 AGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGTAGATCGAAGATGACAGA
1 AGCAGGTCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGACAGA
* * * * *
115107408 TTTGGCGTCTCTGTATTAGACG-GGAGGAGATCGAAGATAGTAGATCTGGCATTCATGTGTTTAC
66 TTTGACGTCCCTGTATTAGACGAGGAGCAGATCAAAGATAGTAGATCTGACATTCATGTGTTTAC
115107472 ATCGA
131 ATCGA
* *
115107477 AGCAGGTCGAAGATAACAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGATAGA
1 AGCAGGTCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGACAGA
* *
115107542 TTTGACGTCCCTGTATTAGACGAGGAGCAGATCAAAGATAGTGGATCTGACATTCGTGTGTTTAC
66 TTTGACGTCCCTGTATTAGACGAGGAGCAGATCAAAGATAGTAGATCTGACATTCATGTGTTTAC
115107607 ATCGA
131 ATCGA
115107612 AGCAGGTCGAAGATAGCAGATCTGACATTCGTGTGTTTACAT
1 AGCAGGTCGAAGATAGCAGATCTGACATTCGTGTGTTTACAT
115107654 GTAATGACCC
Statistics
Matches: 164, Mismatches: 12, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
134 81 0.49
135 83 0.51
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (135 bp):
AGCAGGTCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGACAGA
TTTGACGTCCCTGTATTAGACGAGGAGCAGATCAAAGATAGTAGATCTGACATTCATGTGTTTAC
ATCGA
Found at i:115107943 original size:8 final size:8
Alignment explanation
Indices: 115107930--115107958 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
115107920 TTATGTTTAG
115107930 TATATTAT
1 TATATTAT
115107938 TATATTAT
1 TATATTAT
115107946 TATATTAT
1 TATATTAT
115107954 TATAT
1 TATAT
115107959 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:115109320 original size:14 final size:15
Alignment explanation
Indices: 115109270--115109320 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 15
115109260 CGATGAATTT
115109270 ATTGAATTTATATTG
1 ATTGAATTTATATTG
115109285 ATTG-A---A-A-TG
1 ATTGAATTTATATTG
115109294 ATTGAATTTATATTG
1 ATTGAATTTATATTG
115109309 ATTGAA-TTATAT
1 ATTGAATTTATAT
115109321 AATATATATG
Statistics
Matches: 30, Mismatches: 0, Indels: 13
0.70 0.00 0.30
Matches are distributed among these distances:
9 6 0.20
10 2 0.07
11 1 0.03
13 1 0.03
14 8 0.27
15 12 0.40
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:115109730 original size:23 final size:23
Alignment explanation
Indices: 115109704--115109778 Score: 95
Period size: 21 Copynumber: 3.4 Consensus size: 23
115109694 AGGCACTTTA
115109704 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
115109727 TGTGTCGTA--TCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
* **
115109748 TGTGTCGT-TTT-AGGCACTTTA
1 TGTGTCGTATTTCAGGCACCTCG
115109769 TGTGTCGTAT
1 TGTGTCGTAT
115109779 ACTGATCAGG
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
21 35 0.76
22 2 0.04
23 9 0.20
ACGTcount: A:0.13, C:0.21, G:0.27, T:0.39
Consensus pattern (23 bp):
TGTGTCGTATTTCAGGCACCTCG
Found at i:115110931 original size:45 final size:45
Alignment explanation
Indices: 115110882--115111027 Score: 136
Period size: 45 Copynumber: 3.2 Consensus size: 45
115110872 TTAGACGGGG
*
115110882 AGCAGATCAAAGATAGTAGATCTGACATTCGTGTGTTTACATCGA
1 AGCAGATCAAAGATAGCAGATCTGACATTCGTGTGTTTACATCGA
* * * * * * * *
115110927 AGCAGATCGAAGAT-GACAGATTTGGCATCTC-TATATTAGACA-AGG
1 AGCAGATCAAAGATAG-CAGATCTGACAT-TCGTGTGTT-TACATCGA
* * *
115110972 AGCAGATCAAAGATAGCAGATCTGATATTTGTGTGTTTACATCAA
1 AGCAGATCAAAGATAGCAGATCTGACATTCGTGTGTTTACATCGA
115111017 AGCAGATCAAA
1 AGCAGATCAAA
115111028 AATGACAGAT
Statistics
Matches: 75, Mismatches: 20, Indels: 12
0.70 0.19 0.11
Matches are distributed among these distances:
44 5 0.07
45 64 0.85
46 6 0.08
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (45 bp):
AGCAGATCAAAGATAGCAGATCTGACATTCGTGTGTTTACATCGA
Found at i:115111054 original size:90 final size:90
Alignment explanation
Indices: 115110828--115111075 Score: 354
Period size: 90 Copynumber: 2.8 Consensus size: 90
115110818 GGACGTTACA
*
115110828 TTACATCGAAGCAGATCGAAGATGACAGATTTGGCATCCCTATATTAGACGGGGAGCAGATCAAA
1 TTACATCGAAGCAGATCGAAGATGACAGATTTGGCATCCTTATATTAGACGGGGAGCAGATCAAA
*
115110893 GATAGTAGATCTGACATTCGTGTGT
66 GATAGCAGATCTGACATTCGTGTGT
**
115110918 TTACATCGAAGCAGATCGAAGATGACAGATTTGGCAT-CTCTATATTAGACAAGGAGCAGATCAA
1 TTACATCGAAGCAGATCGAAGATGACAGATTTGGCATCCT-TATATTAGACGGGGAGCAGATCAA
* *
115110982 AGATAGCAGATCTGATATTTGTGTGT
65 AGATAGCAGATCTGACATTCGTGTGT
* * * * * * * *
115111008 TTACATCAAAGCAGATCAAAAATGACAGATTTGACGTCCTTGTATTAGGCGGGGAGTAGATCAAA
1 TTACATCGAAGCAGATCGAAGATGACAGATTTGGCATCCTTATATTAGACGGGGAGCAGATCAAA
115111073 GAT
66 GAT
115111076 TTCAGCATGG
Statistics
Matches: 140, Mismatches: 16, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
89 1 0.01
90 137 0.98
91 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.26
Consensus pattern (90 bp):
TTACATCGAAGCAGATCGAAGATGACAGATTTGGCATCCTTATATTAGACGGGGAGCAGATCAAA
GATAGCAGATCTGACATTCGTGTGT
Found at i:115112629 original size:12 final size:12
Alignment explanation
Indices: 115112612--115112765 Score: 89
Period size: 12 Copynumber: 13.1 Consensus size: 12
115112602 GAATGTAAAA
115112612 ATTATTATATAT
1 ATTATTATATAT
115112624 ATTATT-T-T-T
1 ATTATTATATAT
115112633 ATTATTATAT-T
1 ATTATTATATAT
115112644 A-T-TTATAT-T
1 ATTATTATATAT
115112653 -TTATTATATAT
1 ATTATTATATAT
* *
115112664 TTTGATTTATACAT
1 ATT-A-TTATATAT
*
115112678 TTTATTATATAT
1 ATTATTATATAT
115112690 CATTTTATTATATAT
1 -A--TTATTATATAT
115112705 ATTATTCAT-TAT
1 ATTATT-ATATAT
*
115112717 ATT-TTTTAT-T
1 ATTATTATATAT
115112727 ATATATTATATA-
1 AT-TATTATATAT
*
115112739 ATTATATATTATTT
1 ATTAT-TA-TATAT
*
115112753 ATTATTATGTAT
1 ATTATTATATAT
115112765 A
1 A
115112766 ATTTTAAAAA
Statistics
Matches: 115, Mismatches: 8, Indels: 38
0.71 0.05 0.24
Matches are distributed among these distances:
9 15 0.13
10 13 0.11
11 12 0.10
12 39 0.34
13 9 0.08
14 16 0.14
15 11 0.10
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.62
Consensus pattern (12 bp):
ATTATTATATAT
Found at i:115112726 original size:16 final size:16
Alignment explanation
Indices: 115112615--115112718 Score: 60
Period size: 14 Copynumber: 7.4 Consensus size: 16
115112605 TGTAAAAATT
115112615 ATTATATATATTATT-
1 ATTATATATATTATTC
115112630 -TT-TAT-TATTA-T-
1 ATTATATATATTATTC
*
115112641 ATTATTTATATT-TT-
1 ATTATATATATTATTC
*
115112655 A-T-TATATATT-TTG
1 ATTATATATATTATTC
*
115112668 ATT-TATACATT-TT-
1 ATTATATATATTATTC
115112681 ATTATATATCATT-TT-
1 ATTATATAT-ATTATTC
115112696 ATTATATATATTATTC
1 ATTATATATATTATTC
115112712 ATTATAT
1 ATTATAT
115112719 TTTTTATTAT
Statistics
Matches: 75, Mismatches: 4, Indels: 19
0.77 0.04 0.19
Matches are distributed among these distances:
11 1 0.01
12 16 0.21
13 10 0.13
14 25 0.33
15 16 0.21
16 7 0.09
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (16 bp):
ATTATATATATTATTC
Found at i:115112749 original size:41 final size:41
Alignment explanation
Indices: 115112624--115112757 Score: 110
Period size: 43 Copynumber: 3.1 Consensus size: 41
115112614 TATTATATAT
* *
115112624 ATTAT-TTTTATTATTATATTATTTATATTTTATTATATATT-TTG
1 ATTATATTTT-TTATTATA-TA-TTATA--TAATTATATATTATTC
** * * *
115112668 ATTTATACATTTTATTATATATCATTTTATTATATATATTATTC
1 A-TTATATTTTTTATTATATATTA-TATAAT-TATATATTATTC
*
115112712 ATTATATTTTTTATTATATATTATATAATTATATATTATTT
1 ATTATATTTTTTATTATATATTATATAATTATATATTATTC
115112753 ATTAT
1 ATTAT
115112758 TATGTATAAT
Statistics
Matches: 72, Mismatches: 13, Indels: 13
0.73 0.13 0.13
Matches are distributed among these distances:
41 16 0.22
42 6 0.08
43 29 0.40
44 7 0.10
45 12 0.17
46 2 0.03
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (41 bp):
ATTATATTTTTTATTATATATTATATAATTATATATTATTC
Found at i:115113162 original size:18 final size:18
Alignment explanation
Indices: 115113139--115113173 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
115113129 ATCTCATAAA
*
115113139 TTATTTGTTATTTTTATG
1 TTATTTATTATTTTTATG
*
115113157 TTATTTATTGTTTTTAT
1 TTATTTATTATTTTTAT
115113174 ATATTCGCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (18 bp):
TTATTTATTATTTTTATG
Found at i:115133165 original size:13 final size:13
Alignment explanation
Indices: 115133126--115133165 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
115133116 AGTTTGGTAA
115133126 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* * *
115133139 TGCTGTAGAGAAG
1 TGCTTTTGAAAAG
115133152 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
115133165 T
1 T
115133166 TTAGTTTAAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.30, C:0.07, G:0.28, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:115142437 original size:16 final size:17
Alignment explanation
Indices: 115142413--115142446 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
115142403 TTTCATTTTT
115142413 TAATATATATT-TTAAA
1 TAATATATATTATTAAA
*
115142429 TAATTTATATTATTAAA
1 TAATATATATTATTAAA
115142446 T
1 T
115142447 TACATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TAATATATATTATTAAA
Found at i:115143149 original size:14 final size:14
Alignment explanation
Indices: 115143130--115143159 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
115143120 CATCTGTTAA
115143130 TATTTTTAGAATTT
1 TATTTTTAGAATTT
*
115143144 TATTTTTAGGATTT
1 TATTTTTAGAATTT
115143158 TA
1 TA
115143160 ATCTCATTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (14 bp):
TATTTTTAGAATTT
Found at i:115152626 original size:18 final size:18
Alignment explanation
Indices: 115152603--115152644 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
115152593 AGATAGGGAA
115152603 AGAAAA-AAAAATTAAAAG
1 AGAAAACAAAAATT-AAAG
115152621 AGAAAACAAAAATTAAAG
1 AGAAAACAAAAATTAAAG
115152639 AGAAAA
1 AGAAAA
115152645 TATGGTGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.10
Consensus pattern (18 bp):
AGAAAACAAAAATTAAAG
Found at i:115158102 original size:105 final size:105
Alignment explanation
Indices: 115157867--115158180 Score: 317
Period size: 105 Copynumber: 3.0 Consensus size: 105
115157857 TGTGATATTG
* * * * * * * * *
115157867 TCACATATAATATATTGATCGATGCACATTGTAAGGAGGGGATGATTTATAAAGCTGTAGATATC
1 TCACGTATAATATACTGATTGATGCATATTGTAAAGAGGGAATGGTTTCTAAAGCTATAGATATC
* * * * * *
115157932 GTTGATACAATGGGGAAGCAAGGCATTGAACCTAATATTG
66 GTTGACACAATGAGAAAGCAAGGCATTGAGCCTAATGTTA
* * * * *
115157972 TCACGTATAATATATTTATTGATGCATATTGCAAAGAGGGAATGGTTTCTAAAGCTATAGAAACC
1 TCACGTATAATATACTGATTGATGCATATTGTAAAGAGGGAATGGTTTCTAAAGCTATAGATATC
* *
115158037 ATTGACACAATGAGAAAGCAAGGTATTGAGCCTAATGTTA
66 GTTGACACAATGAGAAAGCAAGGCATTGAGCCTAATGTTA
* * * * * *
115158077 TCACGTATAATATACTGGTTTATGCATATTTTAACA-AGGCAATGGTTACTGAAGCTGA-AGATA
1 TCACGTATAATATACTGATTGATGCATATTGTAA-AGAGGGAATGGTTTCTAAAGCT-ATAGATA
* * *
115158140 TTGTTGACACAATGATAAAGCAAGGCATTGAGCCTGATGTT
64 TCGTTGACACAATGAGAAAGCAAGGCATTGAGCCTAATGTT
115158181 GTTACCTATA
Statistics
Matches: 171, Mismatches: 36, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
105 169 0.99
106 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (105 bp):
TCACGTATAATATACTGATTGATGCATATTGTAAAGAGGGAATGGTTTCTAAAGCTATAGATATC
GTTGACACAATGAGAAAGCAAGGCATTGAGCCTAATGTTA
Found at i:115159991 original size:58 final size:58
Alignment explanation
Indices: 115159927--115160042 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
115159917 TAGGTAATAA
115159927 AAATAACATAAAAGATATAAAAGAAAAATTGTTGACTTCGAAAAACTTAATACTCTAT
1 AAATAACATAAAAGATATAAAAGAAAAATTGTTGACTTCGAAAAACTTAATACTCTAT
115159985 AAATAACATAAAAGATATAAAAGAAAAATTGTTGACTTCGAAAAACTTAATACTCTAT
1 AAATAACATAAAAGATATAAAAGAAAAATTGTTGACTTCGAAAAACTTAATACTCTAT
115160043 GCTAACTCAT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.53, C:0.10, G:0.09, T:0.28
Consensus pattern (58 bp):
AAATAACATAAAAGATATAAAAGAAAAATTGTTGACTTCGAAAAACTTAATACTCTAT
Found at i:115160925 original size:13 final size:13
Alignment explanation
Indices: 115160847--115160923 Score: 75
Period size: 13 Copynumber: 5.9 Consensus size: 13
115160837 ACACTTAAAT
*
115160847 TTTTCTAAAGCAC
1 TTTTCAAAAGCAC
* *
115160860 TTCTCAAAAGTAC
1 TTTTCAAAAGCAC
* *
115160873 TTCTCAAAAGCAT
1 TTTTCAAAAGCAC
*
115160886 TTTTCCACAA-CAC
1 TTTT-CAAAAGCAC
*
115160899 TTTTCAAAAGCAA
1 TTTTCAAAAGCAC
115160912 TTTTCAAAAGCA
1 TTTTCAAAAGCA
115160924 ATGAAGAACT
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
12 4 0.08
13 44 0.85
14 4 0.08
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.32
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:115180247 original size:3 final size:3
Alignment explanation
Indices: 115180239--115180268 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
115180229 AAGAATTGCT
115180239 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
115180269 AAGAATTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:115182822 original size:14 final size:14
Alignment explanation
Indices: 115182803--115182832 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
115182793 ATATCCAAAC
115182803 AATAACAATAAAAT
1 AATAACAATAAAAT
*
115182817 AATAACAATATAAT
1 AATAACAATAAAAT
115182831 AA
1 AA
115182833 CGAAATGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (14 bp):
AATAACAATAAAAT
Found at i:115186818 original size:33 final size:33
Alignment explanation
Indices: 115186776--115186842 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
115186766 CCTTTGTGGG
115186776 CAATGGCTATTTTCCAAGGAACTCCCCTCAGCT
1 CAATGGCTATTTTCCAAGGAACTCCCCTCAGCT
*
115186809 CAATGGCTATTTTCCAAGGAACTCCCCTCGGCT
1 CAATGGCTATTTTCCAAGGAACTCCCCTCAGCT
115186842 C
1 C
115186843 TATCTATCGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.22, C:0.34, G:0.16, T:0.27
Consensus pattern (33 bp):
CAATGGCTATTTTCCAAGGAACTCCCCTCAGCT
Found at i:115189670 original size:18 final size:18
Alignment explanation
Indices: 115189638--115189702 Score: 85
Period size: 18 Copynumber: 3.4 Consensus size: 18
115189628 TTATAACTAT
*
115189638 TTATATATATCTTTATATC
1 TTAT-TATATATTTATATC
115189657 TTATTATATATTTATATC
1 TTATTATATATTTATATC
115189675 TTATTATATATCTATATATC
1 TTATTATATAT-T-TATATC
*
115189695 TTTTTATA
1 TTATTATA
115189703 AACATATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
18 24 0.57
19 5 0.12
20 13 0.31
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATTATATATTTATATC
Found at i:115189881 original size:30 final size:30
Alignment explanation
Indices: 115189809--115189881 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
115189799 TACGTCTATT
* *
115189809 TTCTTTTATATATACATATACATACTTACA
1 TTCTTTTATTTTTACATATACATACTTACA
* *
115189839 TTGTTTTA-TTTTACGATATACATACTTATA
1 TTCTTTTATTTTTAC-ATATACATACTTACA
115189869 -TCTTTTATTTTTA
1 TTCTTTTATTTTTA
115189882 TGTAATATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 10 0.28
30 26 0.72
ACGTcount: A:0.30, C:0.12, G:0.03, T:0.55
Consensus pattern (30 bp):
TTCTTTTATTTTTACATATACATACTTACA
Found at i:115194407 original size:39 final size:40
Alignment explanation
Indices: 115194362--115194439 Score: 115
Period size: 39 Copynumber: 2.0 Consensus size: 40
115194352 AGAAAAACAA
115194362 AATCAAAATCAAAATAAAAA-AT-AAAAACAAAGAGAAATC
1 AATCAAAATCAAAATAAAAATATGAAAAACAAAGA-AAATC
* *
115194401 AATCAAAGTCAAAATAAAAATATGAAAAGCAAAGAAAAT
1 AATCAAAATCAAAATAAAAATATGAAAAACAAAGAAAAT
115194440 AAAAGAAGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
39 19 0.54
40 6 0.17
41 10 0.29
ACGTcount: A:0.69, C:0.09, G:0.08, T:0.14
Consensus pattern (40 bp):
AATCAAAATCAAAATAAAAATATGAAAAACAAAGAAAATC
Found at i:115195775 original size:53 final size:53
Alignment explanation
Indices: 115195695--115195800 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
115195685 ATAAAAGAGG
115195695 ATTGAGGAAAAACCATATTTCTACCCTTGGATTGTAGTGGGAGAATGATGGTA
1 ATTGAGGAAAAACCATATTTCTACCCTTGGATTGTAGTGGGAGAATGATGGTA
115195748 ATTGAGGAAAAACCATATTTCTACCCTTGGATTGTAGTGGGAGAATGATGGTA
1 ATTGAGGAAAAACCATATTTCTACCCTTGGATTGTAGTGGGAGAATGATGGTA
115195801 CAAATTTTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.30
Consensus pattern (53 bp):
ATTGAGGAAAAACCATATTTCTACCCTTGGATTGTAGTGGGAGAATGATGGTA
Found at i:115196147 original size:44 final size:44
Alignment explanation
Indices: 115196099--115196325 Score: 158
Period size: 44 Copynumber: 5.2 Consensus size: 44
115196089 AGTTAAAGAT
*
115196099 CTTGCCTTCCTGCATTGACAGTGAAACAGATTGAAGACACAAAC
1 CTTGCCTTCCTGCATTGACAGTGAAGCAGATTGAAGACACAAAC
* * * ** * * * * *
115196143 CTTGCC-TCTTTCGGTTGTGA-TGGAGCTGGTTGAAGACAAAAGAT
1 CTTGCCTTCCTGC-ATTGACAGTGAAGCAGATTGAAGACACAA-AC
* *
115196187 CTTGCCTTTCTGCATTGACAGCGAAGCAGATTGAAGACACAAAC
1 CTTGCCTTCCTGCATTGACAGTGAAGCAGATTGAAGACACAAAC
* * * * * * * *
115196231 CTTGCC-TCTTTCGGTTG-C-GATGGAGCTGGTTGAAGACAAAAGAT
1 CTTGCCTTCCTGC-ATTGACAG-TGAAGCAGATTGAAGACACAA-AC
* * *
115196275 CTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCTGCATTGACAGTGAAGCAGATTGAAGACACAAAC
115196319 CTTGCCT
1 CTTGCCT
115196326 CTTTCGGTTG
Statistics
Matches: 129, Mismatches: 44, Indels: 20
0.67 0.23 0.10
Matches are distributed among these distances:
42 1 0.01
43 40 0.31
44 49 0.38
45 38 0.29
46 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (44 bp):
CTTGCCTTCCTGCATTGACAGTGAAGCAGATTGAAGACACAAAC
Found at i:115196242 original size:88 final size:88
Alignment explanation
Indices: 115196093--115196508 Score: 563
Period size: 88 Copynumber: 4.8 Consensus size: 88
115196083 CAATGAAGTT
* * *
115196093 AAAGATCTTGCCTTCCTGCATTGACAGTGAAACAGATTGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
115196158 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
* *
115196181 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATTGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
*
115196246 TGCGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
*
115196269 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
*
115196334 TGTGATAGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
* * * ** *
115196357 AAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAA-A-ACAAAGCCTTGCATCCATCGA
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTCTTTCGG
* * *
115196420 TTG-CAGTGGAGCTAGTTAAAGA-A
65 TTGTGA-TGGAGCTGGTTGAAGACA
** * * * **
115196443 GTAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAGACA-AAGCCTTGCCTCCATCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
115196507 TG
66 TG
115196509 CATTGGAGCA
Statistics
Matches: 299, Mismatches: 25, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
86 60 0.20
87 31 0.10
88 208 0.70
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (88 bp):
AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
TGTGATGGAGCTGGTTGAAGACA
Found at i:115196367 original size:44 final size:43
Alignment explanation
Indices: 115196129--115196369 Score: 161
Period size: 43 Copynumber: 5.5 Consensus size: 43
115196119 GTGAAACAGA
* *
115196129 TTGAAGACACAAACCTTGCCTCTTTCGGTTGTGATGGAGCTGG
1 TTGAAGACAAAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGG
* ** * * *
115196172 TTGAAGACAAAAGATCTTG-C-CTTTCTGCAT-TGACAGCGAAGCAGA
1 TTGAAGACAAAA-ACCTTGCCTCTTTC-GGTTGTGATA--G-AGCTGG
* * *
115196217 TTGAAGACACAAACCTTGCCTCTTTCGGTTGCGATGGAGCTGG
1 TTGAAGACAAAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGG
* ** * * *
115196260 TTGAAGACAAAAGATCTTG-C-CTTTCTGCAT-TGACAGCGAAGCAGA
1 TTGAAGACAAAA-ACCTTGCCTCTTTC-GGTTGTGATA--G-AGCTGG
* *
115196305 TCGAAGACACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGG
1 TTGAAGACAAAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGG
*
115196348 TTGAAGACAAAAGATCTTGCCT
1 TTGAAGACAAAA-ACCTTGCCT
115196370 TCCTACATTA
Statistics
Matches: 144, Mismatches: 37, Indels: 33
0.67 0.17 0.15
Matches are distributed among these distances:
42 15 0.10
43 46 0.32
44 32 0.22
45 35 0.24
46 16 0.11
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (43 bp):
TTGAAGACAAAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGG
Found at i:115196556 original size:86 final size:86
Alignment explanation
Indices: 115196196--115196571 Score: 242
Period size: 88 Copynumber: 4.3 Consensus size: 86
115196186 TCTTGCCTTT
* ** * * ** * *
115196196 CTGCATTGACAGCGAAGCAGATTGAAGACACAAACCTTGCCTCTTTCGGTTGC-GATGGAGCTGG
1 CTGCATTAACAGCGAAGCAGATCAAAGACA-AAGCCTTGCATCCATCGATTGCAG-TGGAGCTAG
* ** * **
115196260 TTGAAGACAAAAGATCTTGCCTTT
64 TTAAAGA-AGTAGATCTTACCTCC
* * * * ** * * * *
115196284 CTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG-TGATAGAGCTGG
1 CTGCATTAACAGCGAAGCAGATCAAAGACA-AAGCCTTGCATCCATCGATTGCAG-TGGAGCTAG
* ** * *
115196348 TTGAAGACAAAAGATCTTGCCTTC
64 TTAAAGA-AGTAGATCTTACCTCC
*
115196372 CTACATTAACAGCGAAGCAGATCGAAA-ACAAAGCCTTGCATCCATCGATTGCAGTGGAGCTAGT
1 CTGCATTAACAGCGAAGCAGATC-AAAGACAAAGCCTTGCATCCATCGATTGCAGTGGAGCTAGT
* *
115196436 TAAAGAAGTAGATCTTGCCTTC
65 TAAAGAAGTAGATCTTACCTCC
* * *
115196458 CTGCATTAACAGCGAAGCAGATCAAAGACAAAGCCTTGCCTCCATCGGTTGCATTGGAGC-AGAT
1 CTGCATTAACAGCGAAGCAGATCAAAGACAAAGCCTTGCATCCATCGATTGCAGTGGAGCTAG-T
* * * *
115196522 TGAAGCCAG-AGGTCTTATCTCC
65 TAAAG-AAGTAGATCTTACCTCC
* *
115196544 CTGAGATT-ACAGCGGAGCAGATCAAAGA
1 CTG-CATTAACAGCGAAGCAGATCAAAGA
115196572 TAGTAATCCT
Statistics
Matches: 252, Mismatches: 29, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
85 5 0.02
86 102 0.40
87 34 0.13
88 109 0.43
89 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (86 bp):
CTGCATTAACAGCGAAGCAGATCAAAGACAAAGCCTTGCATCCATCGATTGCAGTGGAGCTAGTT
AAAGAAGTAGATCTTACCTCC
Found at i:115196585 original size:44 final size:42
Alignment explanation
Indices: 115196534--115197115 Score: 295
Period size: 44 Copynumber: 13.6 Consensus size: 42
115196524 AAGCCAGAGG
*
115196534 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATAG--A
* * * * *
115196578 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG---GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATAGA
* * * * *
115196617 TCTTATCTCTCTGA-AGTTACAGTAGAGAAGATC--ACATCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGAT-AGA
*
115196658 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATAG--A
* * * * *
115196702 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG---GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATAGA
* * * * *
115196741 TCTTATCTCTCTGA-AGTTACAGTAGAGAAGATC--ACATCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGAT-AGA
* * *
115196782 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTGCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAG-A-T--AGA
* * * * *
115196828 TCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATATAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATA-GA
* * *
115196871 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAA-ATAAAGGA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGAT--A-GA
* * * *
115196915 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGATC---GCATCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAG-AT-AGA
* * * * *
115196956 TCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAG-A-T--AGA
* ** *
115197002 TCTTATCCCCCTGA-AGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAG--ATAGA
* * * * *
115197046 TCTTATCTCCCCGAGATTACAGCGGAGCAGATCGAAGACACTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATA-GA
*
115197089 TCCTATCTCCCTGA-AGTTACAGTGGAG
1 TCTTATCTCCCTGAGA-TTACAGTGGAG
115197116 TGGGTTAAAA
Statistics
Matches: 410, Mismatches: 90, Indels: 77
0.71 0.16 0.13
Matches are distributed among these distances:
37 2 0.00
38 2 0.00
39 48 0.12
41 87 0.21
42 11 0.03
43 58 0.14
44 129 0.31
45 4 0.01
46 68 0.17
47 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (42 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATAGA
Found at i:115196664 original size:41 final size:41
Alignment explanation
Indices: 115196617--115197033 Score: 202
Period size: 41 Copynumber: 9.8 Consensus size: 41
115196607 GATTAAAGGA
* * *
115196617 TCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGG
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATCACATCAGG
* * *
115196658 TCTTATCTCCCTG-AGATTACAGCGGAGCAGATCAAAGAT-AGTAA
1 TCTTATCTCCCTGAAG-TTACAGTGGAGCAGATC--ACATCAG--G
* * * * *
115196702 TCCTATCTCCTTG-AGATTACAATGGAGCGGATTA-A--AGG
1 TCTTATCTCCCTGAAG-TTACAGTGGAGCAGATCACATCAGG
* * *
115196740 ATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGG
1 -TCTTATCTCCCTGAAGTTACAGTGGAGCAGATCACATCAGG
* * * *
115196782 TCTTATCTCCCTG-AGATTACAGTGGAACAGACCGAAGAATTGCAGA
1 TCTTATCTCCCTGAAG-TTACAGTGGAGCAGATC--A-CA-T-CAGG
* * * * **
115196828 TCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGAT-ATAA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATC--ACATCA-GG
* * * * *
115196871 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGG
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGA-TCACAT-CAGG
* * * *
115196914 ATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
1 -TCTTATCTCCCTGAAGTTACAGTGGAGCAGATCACATCAGG
* * * * * *
115196956 TCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCAGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATC--A-CA-T-CAGG
*
115197002 TCTTATCCCCCTGAAGTTACAGTGGAGCAGAT
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGAT
115197034 TGAAGCCAGA
Statistics
Matches: 285, Mismatches: 64, Indels: 49
0.72 0.16 0.12
Matches are distributed among these distances:
39 23 0.08
40 9 0.03
41 82 0.29
42 13 0.05
43 34 0.12
44 58 0.20
45 3 0.01
46 62 0.22
47 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (41 bp):
TCTTATCTCCCTGAAGTTACAGTGGAGCAGATCACATCAGG
Found at i:115196751 original size:124 final size:124
Alignment explanation
Indices: 115196531--115196812 Score: 546
Period size: 124 Copynumber: 2.3 Consensus size: 124
115196521 TTGAAGCCAG
115196531 AGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATT
1 AGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATT
115196596 ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATC
66 ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATC
115196655 AGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATT
1 AGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATT
115196720 ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATC
66 ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATC
* *
115196779 AGGTCTTATCTCCCTGAGATTACAGTGGAACAGA
1 AGGTCTTATCTCCCTGAGATTACAGCGGAGCAGA
115196813 CCGAAGAATT
Statistics
Matches: 156, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
124 156 1.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (124 bp):
AGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATT
ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATC
Found at i:115196934 original size:174 final size:170
Alignment explanation
Indices: 115196658--115197066 Score: 563
Period size: 174 Copynumber: 2.4 Consensus size: 170
115196648 TCACATCAGG
* * *
115196658 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTACA
1 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATAGTAATCCTATCTCCCTGAGATTACA
115196723 ATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTAT
66 ATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTAT
115196788 CTCCCTGAGATTACAGTGGAACAGACCGAAGAATTGCAGA
131 CTCCCTGAGATTACAGTGGAACAGACCGAAGAATTGCAGA
*
115196828 TCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATA-TAATCCTATCTCCCTGA-AGTTAC
1 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATAGTAATCCTATCTCCCTGAGA-TTAC
* * *
115196891 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
65 AATGGAGCGGA-T----TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGG
* * **
115196956 TCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCAGA
125 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTGCAGA
* * * * ** * *
115197002 TCTTATCCCCCTGAAGTTACAGTGGAGCAGATTGAAGCCAG-AGATCTTATCTCCCCGAGATTAC
1 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATAGTA-ATCCTATCTCCCTGAGATTAC
115197066 A
65 A
115197067 GCGGAGCAGA
Statistics
Matches: 210, Mismatches: 20, Indels: 13
0.86 0.08 0.05
Matches are distributed among these distances:
168 1 0.00
169 30 0.14
170 38 0.18
174 122 0.58
175 18 0.09
176 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (170 bp):
TCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATAGTAATCCTATCTCCCTGAGATTACA
ATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTAT
CTCCCTGAGATTACAGTGGAACAGACCGAAGAATTGCAGA
Found at i:115197004 original size:87 final size:87
Alignment explanation
Indices: 115196739--115197111 Score: 312
Period size: 87 Copynumber: 4.3 Consensus size: 87
115196729 CGGATTAAAG
* * * *
115196739 GATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACAG
1 GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAG
*
115196804 TGGAACAGACCGAAGAATTGCA
66 TGGAGCAGACCGAAGAATTGCA
* * ** * ** * *
115196826 GATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGAT-ATAATCCTATCTCCCTGAAGTTA
1 GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCG--CATCA-GGTCTTATCTCCCTGAGGTTA
* ** **
115196890 CAGTGGAGCGGA-TTAA-AA-TAAA
63 CAGTGGAGCAGACCGAAGAATTGCA
* * *
115196912 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCTCTGAGGTTACA
1 -GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGGTTACA
*
115196977 GTGGAGTAGACCGAAGAATTGCA
65 GTGGAGCAGACCGAAGAATTGCA
* * * * * * *
115197000 GATCTTATCCCCCTGAAGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCCGAGATTA
1 GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCA-TCAG-G-TCTTATCTCCCTGAGGTTA
* *
115197065 CAGCGGAGCAGATCGAAG-A---CA
63 CAGTGGAGCAGACCGAAGAATTGCA
* *
115197086 CTATCCTATCTCCCTGAAGTTACAGT
1 -GATCTTATCTCCCTGAAGTTACAGT
115197112 GGAGTGGGTT
Statistics
Matches: 221, Mismatches: 53, Indels: 24
0.74 0.18 0.08
Matches are distributed among these distances:
85 28 0.13
86 7 0.03
87 117 0.53
88 8 0.04
89 30 0.14
90 31 0.14
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (87 bp):
GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAG
TGGAGCAGACCGAAGAATTGCA
Found at i:115197008 original size:46 final size:45
Alignment explanation
Indices: 115196739--115197115 Score: 218
Period size: 46 Copynumber: 8.6 Consensus size: 45
115196729 CGGATTAAAG
* * * * *
115196739 GATCTTATCTCTCTGAAGTTACAGTAGAGAAGATC--A-CA-TCA
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAATTCA
* *
115196780 GGTCTTATCTCCCTG-AGATTACAGTGGAACAGACCGAAGAATTGCA
1 GATCTTATCTCCCTGAAG-TTACAGTGGAGCAGACCGAAGAATT-CA
* * * *
115196826 GATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAG-ATAT-A
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAAT-TCA
* * ** **
115196870 -ATCCTATCTCCCTGAAGTTACAGTGGAGCGGA-TTAA-AATAAA
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAATTCA
* * * * *
115196912 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC---GCA-TCA
1 -GATCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAATTCA
* * * *
115196954 GGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCA
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAATT-CA
* ** * *
115197000 GATCTTATCCCCCTGAAGTTACAGTGGAGCAGATTGAAGCCA--GA
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAG-AATTCA
* * *
115197044 GATCTTATCTCCCCG-AGATTACAGCGGAGCAGATCGAAG-A--CA
1 GATCTTATCTCCCTGAAG-TTACAGTGGAGCAGACCGAAGAATTCA
* *
115197086 CTATCCTATCTCCCTGAAGTTACAGTGGAG
1 -GATCTTATCTCCCTGAAGTTACAGTGGAG
115197116 TGGGTTAAAA
Statistics
Matches: 260, Mismatches: 53, Indels: 44
0.73 0.15 0.12
Matches are distributed among these distances:
40 2 0.01
41 57 0.22
42 8 0.03
43 53 0.20
44 66 0.25
45 4 0.02
46 68 0.26
47 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (45 bp):
GATCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAATTCA
Found at i:115197078 original size:131 final size:128
Alignment explanation
Indices: 115196828--115197079 Score: 276
Period size: 131 Copynumber: 1.9 Consensus size: 128
115196818 GAATTGCAGA
* * *
115196828 TCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTACAG
1 TCTTATCTCCCTGAGGTTACAGCGGAGCAGACCGAAGATATAATCCTATCCCCCTGAAGTTACAG
* * * * * *
115196893 TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
66 TGGAGCAGATTAAAACAAAGGATCTTATCTCCCCGAAGTTACAGCAGAGCAGATCGCATCAGG
* * * *
115196956 TCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGA-ATTGCAGATCTTATCCCCCTGAAGTT
1 TCTTATCTCCCTGAGGTTACAGCGGAGCAGACCGAAGATA-T--A-ATCCTATCCCCCTGAAGTT
* * * *
115197020 ACAGTGGAGCAGATTGAAGC-CAGAGATCTTATCTCCCCG-AGATTACAGCGGAGCAGATCG
62 ACAGTGGAGCAGATTAAAACAAAG-GATCTTATCTCCCCGAAG-TTACAGCAGAGCAGATCG
115197080 AAGACACTAT
Statistics
Matches: 101, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
127 1 0.01
128 34 0.34
130 5 0.05
131 61 0.60
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (128 bp):
TCTTATCTCCCTGAGGTTACAGCGGAGCAGACCGAAGATATAATCCTATCCCCCTGAAGTTACAG
TGGAGCAGATTAAAACAAAGGATCTTATCTCCCCGAAGTTACAGCAGAGCAGATCGCATCAGG
Found at i:115197105 original size:174 final size:171
Alignment explanation
Indices: 115196513--115197116 Score: 525
Period size: 174 Copynumber: 3.5 Consensus size: 171
115196503 CGGTTGCATT
* * * * *
115196513 GGAGCAGATTGAAGCCAGAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAA
1 GGAGCAGATCGAAGACAGA-ATCCTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGA-AG-GA
* * * ** * * *
115196578 TCCTATCTCCTTG-AGATTACAATGGAGCGGAT-TA-AAGGATCTTATCTCTCTGAAGTTACAGT
63 TCCTATCTCCCTGAAG-TTACAGTAGAGTAGATCCATCAGG-TCTTATCTCTCTGAGGTTACAGT
* * * *
115196640 AGAGAAGATC--A-CA-T-CAGGTCTTATCTCCCTG-AGATTACAGC
126 GGAGAAGACCGAAGAATTGCAGATCTTATCTCCCTGAAG-TTACAGC
* * * ** * *
115196681 GGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTACAATGGAGCGGAT--TA-AAGGATC
1 GGAGCAGATCGAAGACAG-AATCCTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGAAGGATC
* * * * *
115196743 TTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACAGTGGA
65 CTATCTCCCTGAAGTTACAGTAGAGTAGATC-CATCAGGTCTTATCTCTCTGAGGTTACAGTGGA
* *
115196808 -ACAGACCGAAGAATTGCAGATCTTGTCTCCCTGAGGTTACAGC
129 GA-AGACCGAAGAATTGCAGATCTTATCTCCCTGAAGTTACAGC
* * * * * *
115196851 GGAGCAGATCGAAGATATAATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAATAAAGGA
1 GGAGCAGATCGAAGACAGAATCCTATCTCCCTGAGA-TTACAGCGGAGCAGA-TCAAA-GAAGGA
* *
115196915 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCTCTGAGGTTACAGTG
63 TCCTATCTCCCTGAAGTTACAGTAGAGTAGATC-CATCAGGTCTTATCTCTCTGAGGTTACAGTG
* * *
115196980 GAGTAGACCGAAGAATTGCAGATCTTATCCCCCTGAAGTTACAGT
127 GAGAAGACCGAAGAATTGCAGATCTTATCTCCCTGAAGTTACAGC
* * * * * **
115197025 GGAGCAGATTGAAGCCAGAGATCTTATCTCCCCGAGATTACAGCGGAGCAGATCGAAGACACTAT
1 GGAGCAGATCGAAGACAGA-ATCCTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGA-AGGAT
*
115197090 CCTATCTCCCTGAAGTTACAGTGGAGT
64 CCTATCTCCCTGAAGTTACAGTAGAGT
115197117 GGGTTAAAAT
Statistics
Matches: 354, Mismatches: 60, Indels: 38
0.78 0.13 0.08
Matches are distributed among these distances:
163 23 0.06
164 5 0.01
165 28 0.08
166 4 0.01
167 1 0.00
168 43 0.12
169 31 0.09
170 39 0.11
171 1 0.00
172 1 0.00
173 1 0.00
174 150 0.42
175 26 0.07
176 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (171 bp):
GGAGCAGATCGAAGACAGAATCCTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGAAGGATCC
TATCTCCCTGAAGTTACAGTAGAGTAGATCCATCAGGTCTTATCTCTCTGAGGTTACAGTGGAGA
AGACCGAAGAATTGCAGATCTTATCTCCCTGAAGTTACAGC
Found at i:115198697 original size:18 final size:18
Alignment explanation
Indices: 115198665--115198729 Score: 85
Period size: 18 Copynumber: 3.4 Consensus size: 18
115198655 TTATAACTAT
*
115198665 TTATATATATCTTTATATC
1 TTAT-TATATATTTATATC
115198684 TTATTATATATTTATATC
1 TTATTATATATTTATATC
115198702 TTATTATATATCTATATATC
1 TTATTATATAT-T-TATATC
*
115198722 TTTTTATA
1 TTATTATA
115198730 AACATATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
18 24 0.57
19 5 0.12
20 13 0.31
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATTATATATTTATATC
Found at i:115198908 original size:30 final size:30
Alignment explanation
Indices: 115198836--115198908 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
115198826 TACGTCTATT
* *
115198836 TTCTTTTATATATACATATACATACTTACA
1 TTCTTTTATTTTTACATATACATACTTACA
* *
115198866 TTGTTTTA-TTTTACGATATACATACTTATA
1 TTCTTTTATTTTTAC-ATATACATACTTACA
115198896 -TCTTTTATTTTTA
1 TTCTTTTATTTTTA
115198909 TGTAATATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 10 0.28
30 26 0.72
ACGTcount: A:0.30, C:0.12, G:0.03, T:0.55
Consensus pattern (30 bp):
TTCTTTTATTTTTACATATACATACTTACA
Found at i:115200859 original size:107 final size:107
Alignment explanation
Indices: 115200663--115200861 Score: 233
Period size: 107 Copynumber: 1.9 Consensus size: 107
115200653 AGGCAATCCA
* * * * *
115200663 GCCTTGACCTAAGATAAACCCTGAACTACTTCGCTATGCAGATCGTTATGTTGTTAAAGAAACCA
1 GCCTTGACCTAACATAAACCCGGAACTACTTCGCTATGCAGATCATTAAGTTGCTAAAGAAACCA
* **
115200728 TGAAACTAGAATCAGATGTTCTCATCTATCCGAAGCAGGTTT
66 GGAAACTAGAATCAGATGACCTCATCTATCCGAAGCAGGTTT
* * * *
115200770 GCCTTGACCGT-ACATAAACCCGGGAA-TACTTTGCTATGCTGATCATTAAGTTGCTAGATAAAC
1 GCCTTGACC-TAACATAAACCC-GGAACTACTTCGCTATGCAGATCATTAAGTTGCTAAAGAAAC
*
115200833 CAGGTAACTAGAATC-GAATGACCTCATCT
64 CAGGAAACTAGAATCAG-ATGACCTCATCT
115200862 GGCTAACCAG
Statistics
Matches: 76, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
106 1 0.01
107 71 0.93
108 4 0.05
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (107 bp):
GCCTTGACCTAACATAAACCCGGAACTACTTCGCTATGCAGATCATTAAGTTGCTAAAGAAACCA
GGAAACTAGAATCAGATGACCTCATCTATCCGAAGCAGGTTT
Found at i:115205578 original size:21 final size:19
Alignment explanation
Indices: 115205552--115205590 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
115205542 GGTTTATTTT
115205552 ATTATATTTACTATTAATATA
1 ATTATATTTA-T-TTAATATA
115205573 ATTATATTTATTTAATAT
1 ATTATATTTATTTAATAT
115205591 TAATAGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 1 0.06
21 10 0.56
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTATATTTATTTAATATA
Found at i:115208309 original size:23 final size:23
Alignment explanation
Indices: 115208260--115208309 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
115208250 ATTCGTATGG
* *
115208260 TATTAATTTTTTACAAATATTTA
1 TATTAATTTTATACAAATAGTTA
*
115208283 TATTAATTTTCATACCAATAGTT-
1 TATTAATTTT-ATACAAATAGTTA
115208306 TATT
1 TATT
115208310 GTATATTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.36, C:0.08, G:0.02, T:0.54
Consensus pattern (23 bp):
TATTAATTTTATACAAATAGTTA
Found at i:115212250 original size:21 final size:21
Alignment explanation
Indices: 115212226--115212267 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
115212216 CTCCACGACC
*
115212226 GCCTCCTCTACCACCACCTCT
1 GCCTCCTCCACCACCACCTCT
*
115212247 GCCTCCTCCACGACCACCTCT
1 GCCTCCTCCACCACCACCTCT
115212268 TCCACCACCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.14, C:0.57, G:0.07, T:0.21
Consensus pattern (21 bp):
GCCTCCTCCACCACCACCTCT
Found at i:115214135 original size:28 final size:28
Alignment explanation
Indices: 115214104--115214159 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
115214094 TTTTATATTA
* * *
115214104 TATAATTAAATTTTAATTTATTTTAAAT
1 TATAATTAAAATTAAATTAATTTTAAAT
115214132 TATAATTAAAATTAAATTAATTTTAAAT
1 TATAATTAAAATTAAATTAATTTTAAAT
115214160 AGAAAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
TATAATTAAAATTAAATTAATTTTAAAT
Found at i:115214146 original size:17 final size:17
Alignment explanation
Indices: 115214107--115214150 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
115214097 TATATTATAT
* *
115214107 AATTAAATTTTAATTTA
1 AATTAAATTATAATTAA
**
115214124 TTTTAAATTATAATTAA
1 AATTAAATTATAATTAA
115214141 AATTAAATTA
1 AATTAAATTA
115214151 ATTTTAAATA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTAAATTATAATTAA
Found at i:115221699 original size:23 final size:23
Alignment explanation
Indices: 115221640--115221699 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 23
115221630 ATGTATAGAC
115221640 TAAAT-AA-AATAA-TAAAATAA
1 TAAATAAATAATAATTAAAATAA
* * *
115221660 T-AATAAATATTTTATTAAAATAT
1 TAAATAAATA-ATAATTAAAATAA
115221683 TAAATAAATAATAATTA
1 TAAATAAATAATAATTA
115221700 TCTAATTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
19 3 0.10
20 3 0.10
21 1 0.03
22 2 0.07
23 13 0.43
24 8 0.27
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
TAAATAAATAATAATTAAAATAA
Found at i:115221708 original size:31 final size:31
Alignment explanation
Indices: 115221639--115221709 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
115221629 CATGTATAGA
*
115221639 CTAAATAAAATAATAAAATAATAATAAATAT
1 CTAATTAAAATAATAAAATAATAATAAATAT
* * * *
115221670 TTTATTAAAAT-ATTAAATAAATAATAATTAT
1 CTAATTAAAATAATAAAAT-AATAATAAATAT
115221701 CTAATTAAA
1 CTAATTAAA
115221710 TAACTATAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
30 6 0.19
31 26 0.81
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAAATAT
Found at i:115221977 original size:31 final size:31
Alignment explanation
Indices: 115221920--115221978 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
115221910 CACCCTTAAA
* * *
115221920 ATATTTTCACTATTAGTCCTTCAATTTTTTC
1 ATATTTACACTATTAATCCTTAAATTTTTTC
115221951 ATATTTACACT-TTAATCCCTTAAATTTT
1 ATATTTACACTATTAAT-CCTTAAATTTT
115221979 GAGTATTTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 4 0.17
31 20 0.83
ACGTcount: A:0.27, C:0.19, G:0.02, T:0.53
Consensus pattern (31 bp):
ATATTTACACTATTAATCCTTAAATTTTTTC
Found at i:115227641 original size:41 final size:41
Alignment explanation
Indices: 115227584--115227666 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
115227574 TATAACCTGG
115227584 ATACTATTAACAGAAATTAGTAGTGTTATCGAGTTTGAGTC
1 ATACTATTAACAGAAATTAGTAGTGTTATCGAGTTTGAGTC
115227625 ATACTATTAACAGAAATTAGTAGTGTTATCGAGTTTGAGTC
1 ATACTATTAACAGAAATTAGTAGTGTTATCGAGTTTGAGTC
115227666 A
1 A
115227667 AGTTTAAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.36
Consensus pattern (41 bp):
ATACTATTAACAGAAATTAGTAGTGTTATCGAGTTTGAGTC
Found at i:115234182 original size:124 final size:125
Alignment explanation
Indices: 115233997--115234243 Score: 388
Period size: 124 Copynumber: 2.0 Consensus size: 125
115233987 GTAGAATGTA
* * * *
115233997 TATTAATTATGTCATTTTAAGTTTTAGTTTAATGTATTGTAATAATGAGAATAACATAAGTTCAA
1 TATTAATTATGTCATTTTAAGTTTTAGTTTAATCTATTGTAATAATCAGAAGAACAAAAGTTCAA
* *
115234062 GTGTGCTTAATCATGCATTTTTCTTTGATTTAAGAGTTTGAGAGAATTATAAGTAAAATG
66 GCGTGCTTAATCATGCATTTTTCTTCGATTTAAGAGTTTGAGAGAATTATAAGTAAAATG
* *
115234122 TATTAATTATGTCA-TTTGAGTTTTAGTTTAATCTATTGTAATAATCAGGAGAACAAAAGTTCAA
1 TATTAATTATGTCATTTTAAGTTTTAGTTTAATCTATTGTAATAATCAGAAGAACAAAAGTTCAA
* * *
115234186 GCGTGCTTAATCATGTATTTTTCTTCGATTTAAGAGTTTGAGAGGATTTTAAGTAAAA
66 GCGTGCTTAATCATGCATTTTTCTTCGATTTAAGAGTTTGAGAGAATTATAAGTAAAA
115234244 ATAGACATTC
Statistics
Matches: 111, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
124 97 0.87
125 14 0.13
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.42
Consensus pattern (125 bp):
TATTAATTATGTCATTTTAAGTTTTAGTTTAATCTATTGTAATAATCAGAAGAACAAAAGTTCAA
GCGTGCTTAATCATGCATTTTTCTTCGATTTAAGAGTTTGAGAGAATTATAAGTAAAATG
Found at i:115237387 original size:23 final size:24
Alignment explanation
Indices: 115237361--115237407 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
115237351 AAATATCTAA
115237361 TATGATGTATA-AAAAATTAAAAT
1 TATGATGTATATAAAAATTAAAAT
* * *
115237384 TATGGTTTATATAAAATTTAAAAT
1 TATGATGTATATAAAAATTAAAAT
115237408 GGAAACGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (24 bp):
TATGATGTATATAAAAATTAAAAT
Found at i:115244636 original size:11 final size:11
Alignment explanation
Indices: 115244622--115244647 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
115244612 TGAAATTTTC
115244622 TCAAAATTCTA
1 TCAAAATTCTA
115244633 TCAAAATTCTA
1 TCAAAATTCTA
115244644 TCAA
1 TCAA
115244648 TTTATTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (11 bp):
TCAAAATTCTA
Found at i:115244901 original size:48 final size:47
Alignment explanation
Indices: 115244783--115244917 Score: 157
Period size: 48 Copynumber: 2.8 Consensus size: 47
115244773 AGTGATAATT
* * *
115244783 TTAAATTTTCAATACTATTCGATATTTTCTTAATTTATGCAAATTTAA
1 TTAAAATTTCAATACTATT-GATATTTTTTTCATTTATGCAAATTTAA
*
115244831 TT-AAATTTGCAATACTATTTGATATTTTTTTCATTTATGC-AGTTATAA
1 TTAAAATTT-CAATACTA-TTGATATTTTTTTCATTTATGCAAATT-TAA
* *
115244879 TTAAAATTTCAATACTGCTTGATTTTTTTTTCATTTATG
1 TTAAAATTTCAATACT-ATTGATATTTTTTTCATTTATG
115244918 ATGTTTGCAT
Statistics
Matches: 76, Mismatches: 6, Indels: 10
0.83 0.07 0.11
Matches are distributed among these distances:
47 8 0.11
48 60 0.79
49 8 0.11
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.53
Consensus pattern (47 bp):
TTAAAATTTCAATACTATTGATATTTTTTTCATTTATGCAAATTTAA
Found at i:115246540 original size:18 final size:18
Alignment explanation
Indices: 115246517--115246559 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
115246507 CGCGAGGTGC
*
115246517 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
*
115246535 GTATCCTAACCTTTATAT
1 GTATCCTAACCCTTATAT
*
115246553 GTTTCCT
1 GTATCCT
115246560 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.26, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:115249544 original size:75 final size:75
Alignment explanation
Indices: 115249465--115249644 Score: 279
Period size: 75 Copynumber: 2.4 Consensus size: 75
115249455 GGTACATATC
* *
115249465 CCATCCACTAACGGAGTGTCGTGCAGGGGTTGGGTATTCCATACTACTACTAAACACGGGCGCTT
1 CCATCCACTAACGGAGTGTCGTGCAGGGGTTGGGTATTCCATAATACTACTAAACACGGGCACTT
115249530 CCGTGTTTTG
66 CCGTGTTTTG
* * *
115249540 CCATCCACTAACGGAGTGTTGTGCAGGGGTTGGGTATTCCATAATGCTACTAAACATGGGCACTT
1 CCATCCACTAACGGAGTGTCGTGCAGGGGTTGGGTATTCCATAATACTACTAAACACGGGCACTT
** *
115249605 TGGTGTTTTT
66 CCGTGTTTTG
*
115249615 CCATCCACTAACGGAGTGTCGGGCAGGGGT
1 CCATCCACTAACGGAGTGTCGTGCAGGGGT
115249645 CGTGTACTCC
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
75 95 1.00
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (75 bp):
CCATCCACTAACGGAGTGTCGTGCAGGGGTTGGGTATTCCATAATACTACTAAACACGGGCACTT
CCGTGTTTTG
Found at i:115250258 original size:127 final size:125
Alignment explanation
Indices: 115250107--115250485 Score: 510
Period size: 126 Copynumber: 3.0 Consensus size: 125
115250097 GCTCATTTGT
*
115250107 AGGCTCATTTTTCTGCGAACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGAACTT
1 AGGCTCATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTG-GAGCTTTTTTCAGAAC-T
* *
115250172 TTTGCTGACAGTGCATCTTGCTTGAAGCATTTTCGATACTATTTGTTCAGAAACGTCTACTC
64 TTTGCTGACAGTGCATCTTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTC
* * * * *
115250234 AGGCTCATTTTCCTACAAATTACTGTAGCAAAAGAGCGTTCACGTGGAAACTTTTTTCAGAACTT
1 AGGCTCATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGG-AGCTTTTTTCAGAACTT
* * * *
115250299 TTGTTAACAGTGCATCCTACTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTC
65 TTGCTGACAGTGCATCTTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTC
** * * *
115250360 AGATTTATTTTTCTACGAACTACTGTAGCAAAAGAGTGTCCACGTGGGAG-TTTTTTCCAGAAAT
1 AGGCTCATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGT-GGAGCTTTTTT-CAGAACT
* * * *
115250424 TTT-CTGACACTGCATCTTGCTTGAAGTGTTTTCGACACTATTTGTTTAGAAATGTCTACTC
64 TTTGCTGACAGTGCATCTTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTC
115250485 A
1 A
115250486 AAATTATTCT
Statistics
Matches: 219, Mismatches: 30, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
125 57 0.26
126 105 0.48
127 57 0.26
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (125 bp):
AGGCTCATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGAGCTTTTTTCAGAACTTT
TGCTGACAGTGCATCTTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTC
Found at i:115251195 original size:9 final size:9
Alignment explanation
Indices: 115251142--115251208 Score: 54
Period size: 9 Copynumber: 8.0 Consensus size: 9
115251132 TTTTTTTTAT
115251142 AAACCCTAA
1 AAACCCTAA
**
115251151 AAA-CCTTT
1 AAACCCTAA
115251159 AAACCCT-A
1 AAACCCTAA
*
115251167 AAA-CATAA
1 AAACCCTAA
*
115251175 AAAACCT--
1 AAACCCTAA
*
115251182 TAACCCTAA
1 AAACCCTAA
115251191 AAACCCTAA
1 AAACCCTAA
115251200 AAACCCTAA
1 AAACCCTAA
115251209 CGTAAAAACG
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
7 7 0.16
8 13 0.29
9 25 0.56
ACGTcount: A:0.54, C:0.30, G:0.00, T:0.16
Consensus pattern (9 bp):
AAACCCTAA
Found at i:115251201 original size:24 final size:24
Alignment explanation
Indices: 115251142--115251217 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 24
115251132 TTTTTTTTAT
115251142 AAACCCTAAAAACCTTTAAACCCT-A
1 AAACCCTAAAAACC-TT-AACCCTAA
*
115251167 AAA-CATAAAAAACCTTAACCCTAA
1 AAACCCT-AAAAACCTTAACCCTAA
* *
115251191 AAACCCTAAAAACCCTAA-CGTAA
1 AAACCCTAAAAACCTTAACCCTAA
115251214 AAAC
1 AAAC
115251218 GGGCAAAATG
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
23 14 0.32
24 18 0.41
25 12 0.27
ACGTcount: A:0.54, C:0.29, G:0.01, T:0.16
Consensus pattern (24 bp):
AAACCCTAAAAACCTTAACCCTAA
Done.