Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 252 of 356
Found at i:82705714 original size:10 final size:10
Alignment explanation
Indices: 82705695--82705744 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
82705685 TTAAATTCTA
82705695 AAAGATAAAT
1 AAAGATAAAT
82705705 ATAA-ATAAAT
1 A-AAGATAAAT
*
82705715 AAAGATAATT
1 AAAGATAAAT
82705725 AAAGATAAAT
1 AAAGATAAAT
*
82705735 AAAAATAAAT
1 AAAGATAAAT
82705745 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:82705794 original size:14 final size:13
Alignment explanation
Indices: 82705758--82705795 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
82705748 AAAATTAAAT
82705758 CTAAATAATTATC
1 CTAAATAATTATC
*
82705771 CTTAATAATTATC
1 CTAAATAATTATC
82705784 CTAATATAATTA
1 CTAA-ATAATTA
82705796 AATATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (13 bp):
CTAAATAATTATC
Found at i:82706517 original size:96 final size:97
Alignment explanation
Indices: 82706389--82706572 Score: 246
Period size: 96 Copynumber: 1.9 Consensus size: 97
82706379 ATTTAATTTA
* ** * * *
82706389 TTTATTTTTTCTTAGGAGTATATTGAACCTTTTGACACAAAGAGATATGACAGCTAAGCA-CTTC
1 TTTATTTTTTCTTAAGAACATATCGAACCTTTTGACACAAAGAGAGATGACAGCCAAGCATC-TC
82706453 ACCCCGGTTACTCAGCCCAACACACTCCTAATT
65 ACCCCGGTTACTCAGCCCAACACACTCCTAATT
* ** * *
82706486 TTTA-TTTTTCTTAAGAACATATCGAATCTTTTGATGCGAAGAGAGATGATAGCCAAGCATCTCA
1 TTTATTTTTTCTTAAGAACATATCGAACCTTTTGACACAAAGAGAGATGACAGCCAAGCATCTCA
82706550 CCCCGGTTACTCAGCCCAACACA
66 CCCCGGTTACTCAGCCCAACACA
82706573 TTCTTAAAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
96 70 0.93
97 5 0.07
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (97 bp):
TTTATTTTTTCTTAAGAACATATCGAACCTTTTGACACAAAGAGAGATGACAGCCAAGCATCTCA
CCCCGGTTACTCAGCCCAACACACTCCTAATT
Found at i:82709160 original size:21 final size:21
Alignment explanation
Indices: 82709139--82709233 Score: 74
Period size: 21 Copynumber: 4.6 Consensus size: 21
82709129 ATAAATAATT
** *
82709139 AAAATAAAATATTAATTAATT
1 AAAATAAAATAAAAAATAATT
*
82709160 AAATTAAAATAAAAAATAATT
1 AAAATAAAATAAAAAATAATT
* *
82709181 AAAATAAAA-AATAAA-AATA
1 AAAATAAAATAAAAAATAATT
82709200 AAAATAAAAATAAAGAAA-AA-T
1 AAAAT-AAAATAAA-AAATAATT
82709221 AAAGA-AAAATAAA
1 AAA-ATAAAATAAA
82709234 GAGAAATAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
19 8 0.13
20 17 0.28
21 30 0.49
22 6 0.10
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (21 bp):
AAAATAAAATAAAAAATAATT
Found at i:82709174 original size:6 final size:6
Alignment explanation
Indices: 82709160--82709233 Score: 62
Period size: 6 Copynumber: 12.2 Consensus size: 6
82709150 TTAATTAATT
* * *
82709160 AAATTA AAAT-A AAA-AA TAATTA AAATAAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAAT-AA AAATAA AAATAA AAATAA
* *
82709207 AAATAA AGAAAAA TAAAGAA AAATAA A
1 AAATAA A-AATAA -AAATAA AAATAA A
82709234 GAGAAATAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
5 7 0.12
6 35 0.62
7 13 0.23
8 1 0.02
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:82709180 original size:16 final size:16
Alignment explanation
Indices: 82709161--82709194 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
82709151 TAATTAATTA
82709161 AATTAAAATAAAAAAT
1 AATTAAAATAAAAAAT
82709177 AATTAAAATAAAAAAT
1 AATTAAAATAAAAAAT
82709193 AA
1 AA
82709195 AAATAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AATTAAAATAAAAAAT
Found at i:82709195 original size:28 final size:28
Alignment explanation
Indices: 82709106--82709203 Score: 85
Period size: 29 Copynumber: 3.4 Consensus size: 28
82709096 ATTAATATCC
82709106 AAAATAAAATAAATAATTAAGTAATAAATAATT
1 AAAAT-AAA-AAATAATTAA--AATAAA-AATT
* *
82709139 AAAATAAAATATTAATT--AAT-TAAATT
1 AAAATAAAA-AATAATTAAAATAAAAATT
*
82709165 AAAATAAAAAATAATTAAAATAAAAAATA
1 AAAATAAAAAATAATTAAAAT-AAAAATT
82709194 AAAATAAAAA
1 AAAATAAAAA
82709204 TAAAAATAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
25 6 0.11
26 13 0.24
27 4 0.07
28 3 0.05
29 14 0.25
31 1 0.02
32 9 0.16
33 5 0.09
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.28
Consensus pattern (28 bp):
AAAATAAAAAATAATTAAAATAAAAATT
Found at i:82709204 original size:28 final size:28
Alignment explanation
Indices: 82709116--82709206 Score: 89
Period size: 28 Copynumber: 3.2 Consensus size: 28
82709106 AAAATAAAAT
*
82709116 AAATAATTAAGTAATAAATAATTAAAAT-A
1 AAATAATTAA--AATAAAAAATTAAAATAA
* *
82709145 AAAT-ATT-AATTAATTAAATTAAAATAAA
1 AAATAATTAAAATAA-AAAATTAAAAT-AA
*
82709173 AAATAATTAAAATAAAAAATAAAAATAA
1 AAATAATTAAAATAAAAAATTAAAATAA
82709201 AAATAA
1 AAATAA
82709207 AAATAAAGAA
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
25 4 0.08
26 9 0.18
27 1 0.02
28 16 0.31
29 16 0.31
30 5 0.10
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (28 bp):
AAATAATTAAAATAAAAAATTAAAATAA
Found at i:82709220 original size:10 final size:10
Alignment explanation
Indices: 82709187--82709243 Score: 73
Period size: 10 Copynumber: 5.9 Consensus size: 10
82709177 AATTAAAATA
82709187 AAAAATAAA-
1 AAAAATAAAG
* *
82709196 AATAA-AAAT
1 AAAAATAAAG
82709205 AAAAATAAAG
1 AAAAATAAAG
82709215 AAAAATAAAG
1 AAAAATAAAG
82709225 AAAAATAAAG
1 AAAAATAAAG
*
82709235 AGAAATAAA
1 AAAAATAAA
82709244 AATTAGGTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
8 3 0.07
9 8 0.19
10 31 0.74
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.12
Consensus pattern (10 bp):
AAAAATAAAG
Found at i:82709246 original size:16 final size:16
Alignment explanation
Indices: 82709193--82709233 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
82709183 AATAAAAAAT
82709193 AAAAATAAAAATAAA-
1 AAAAATAAAAATAAAG
*
82709208 AATAAAGAAAAATAAAG
1 AA-AAATAAAAATAAAG
82709225 AAAAATAAA
1 AAAAATAAA
82709234 GAGAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 2 0.09
16 18 0.82
17 2 0.09
ACGTcount: A:0.83, C:0.00, G:0.05, T:0.12
Consensus pattern (16 bp):
AAAAATAAAAATAAAG
Found at i:82712088 original size:20 final size:20
Alignment explanation
Indices: 82712063--82712104 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
82712053 CCTTATGATT
82712063 TTGTAGTACCTGGATCAAAC
1 TTGTAGTACCTGGATCAAAC
82712083 TTGTAGTACCTGGATCAAAC
1 TTGTAGTACCTGGATCAAAC
82712103 TT
1 TT
82712105 TCTTTTTCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (20 bp):
TTGTAGTACCTGGATCAAAC
Found at i:82714896 original size:17 final size:18
Alignment explanation
Indices: 82714874--82714907 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
82714864 AGTTGAATTG
82714874 AAATTGC-AAAATTAAAT
1 AAATTGCGAAAATTAAAT
82714891 AAATTGCGAAAATTAAA
1 AAATTGCGAAAATTAAA
82714908 ATAGAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (18 bp):
AAATTGCGAAAATTAAAT
Found at i:82715656 original size:10 final size:10
Alignment explanation
Indices: 82715629--82715678 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
82715619 TTAAATTCTA
82715629 AAAGATAAAT
1 AAAGATAAAT
*
82715639 ACAA-ATAATT
1 A-AAGATAAAT
*
82715649 AAAGATAATT
1 AAAGATAAAT
82715659 AAAGATAAAT
1 AAAGATAAAT
*
82715669 AAAAATAAAT
1 AAAGATAAAT
82715679 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:82726344 original size:16 final size:15
Alignment explanation
Indices: 82726323--82726370 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
82726313 TGAAAAACAG
82726323 AAAAATTTAAGTACTA
1 AAAAATTTAAGTA-TA
*
82726339 AAAAA-TTAAATATA
1 AAAAATTTAAGTATA
82726353 AAAAATTTTAAGTGATA
1 AAAAA-TTTAAGT-ATA
82726370 A
1 A
82726371 TTCAAGTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 7 0.26
15 6 0.22
16 10 0.37
17 4 0.15
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.31
Consensus pattern (15 bp):
AAAAATTTAAGTATA
Found at i:82727175 original size:64 final size:65
Alignment explanation
Indices: 82727106--82727227 Score: 174
Period size: 64 Copynumber: 1.9 Consensus size: 65
82727096 TGACAAAAAA
* * * *
82727106 ATATAATTTTTGAAGAAACTAAAACTTAGGCTATAAATA-TATATGTGAAAAATATTTAATGTAT
1 ATATAATTTATCAAGAAACTAAAAATTAGACTATAAATAGTATATGTGAAAAATATTTAATGTAT
* *
82727170 ATATAATTTATCAAGAAATTAAAAATTAGATTATAAATATGTATATGTGAAAAATATT
1 ATATAATTTATCAAGAAACTAAAAATTAGACTATAAATA-GTATATGTGAAAAATATT
82727228 AAAAAGTATT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
64 33 0.66
66 17 0.34
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.38
Consensus pattern (65 bp):
ATATAATTTATCAAGAAACTAAAAATTAGACTATAAATAGTATATGTGAAAAATATTTAATGTAT
Found at i:82730361 original size:15 final size:15
Alignment explanation
Indices: 82730341--82730370 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
82730331 ATTAAGAAGA
82730341 TTGAATAACAAATTC
1 TTGAATAACAAATTC
82730356 TTGAATAACAAATTC
1 TTGAATAACAAATTC
82730371 AATAGCTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (15 bp):
TTGAATAACAAATTC
Found at i:82734191 original size:39 final size:39
Alignment explanation
Indices: 82734148--82734223 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
82734138 AAATGATCGT
*
82734148 AAGATAAGATATTTATTTGATTGCCTGCACTTTTTTAGG
1 AAGATAAGATATTTATTTGACTGCCTGCACTTTTTTAGG
82734187 AAGATAAGATATTTATTTGACTGCCTGCACTTTTTTA
1 AAGATAAGATATTTATTTGACTGCCTGCACTTTTTTA
82734224 CTAAGGGAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (39 bp):
AAGATAAGATATTTATTTGACTGCCTGCACTTTTTTAGG
Found at i:82737970 original size:34 final size:34
Alignment explanation
Indices: 82737927--82737996 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
82737917 CTCAACACTG
82737927 TTAGTCCGAATTTGTCTGCGGGGCTCGTCTTTGC
1 TTAGTCCGAATTTGTCTGCGGGGCTCGTCTTTGC
82737961 TTAGTCCGAATTTGTCTGCGGGGCTCGTCTTTGC
1 TTAGTCCGAATTTGTCTGCGGGGCTCGTCTTTGC
82737995 TT
1 TT
82737997 CTGATTCTGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.09, C:0.23, G:0.29, T:0.40
Consensus pattern (34 bp):
TTAGTCCGAATTTGTCTGCGGGGCTCGTCTTTGC
Found at i:82745536 original size:17 final size:17
Alignment explanation
Indices: 82745514--82745546 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
82745504 TTAATTTAAC
82745514 TAAATTAATTTT-TCAAT
1 TAAATT-ATTTTCTCAAT
82745531 TAAATTATTTTCTCAA
1 TAAATTATTTTCTCAA
82745547 CCCAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (17 bp):
TAAATTATTTTCTCAAT
Found at i:82748990 original size:27 final size:27
Alignment explanation
Indices: 82748958--82749046 Score: 92
Period size: 27 Copynumber: 3.3 Consensus size: 27
82748948 AGGGGTGGTG
**
82748958 CCTATCTGGTAGGCGTCACTG-GTAACT
1 CCTATCTGGTAGGCACCACTGAGT-ACT
*
82748985 CCTATCTGATAGGCACCACTGAGTACT
1 CCTATCTGGTAGGCACCACTGAGTACT
** *
82749012 CCTATCTGGTAGGTGCCACT-AGTGACC
1 CCTATCTGGTAGGCACCACTGAGT-ACT
82749039 CCTATCTG
1 CCTATCTG
82749047 ACAAGCGGCA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 3 0.06
27 48 0.91
28 2 0.04
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.28
Consensus pattern (27 bp):
CCTATCTGGTAGGCACCACTGAGTACT
Found at i:82751516 original size:55 final size:53
Alignment explanation
Indices: 82751326--82751581 Score: 247
Period size: 55 Copynumber: 4.8 Consensus size: 53
82751316 ACACGGGTAC
* * * * *
82751326 CTTACCATTGCCATGACTTGGCATGGTCTTACGTGGTA---T-CCTT-TTGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAG-AA
* *
82751375 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAA
* * *
82751428 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AA
* * * * *
82751483 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAA
*
82751536 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTG
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTG
82751582 AACCCTAACG
Statistics
Matches: 173, Mismatches: 21, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
49 35 0.20
52 2 0.01
53 47 0.27
54 14 0.08
55 73 0.42
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAA
Found at i:82751517 original size:108 final size:110
Alignment explanation
Indices: 82751373--82751573 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
82751363 ATCCTTTTGA
* *
82751373 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
82751436 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
82751481 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
82751546 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
82751574 TATCCTTGAA
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.58
109 7 0.08
110 28 0.33
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:82758692 original size:16 final size:16
Alignment explanation
Indices: 82758673--82758703 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
82758663 CTTCTTCACT
82758673 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
82758689 TACTTACTTACTTAA
1 TACTCACTTACTTAA
82758704 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:82758709 original size:20 final size:20
Alignment explanation
Indices: 82758670--82758709 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
82758660 AAACTTCTTC
* *
82758670 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
82758690 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
82758710 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:82759096 original size:108 final size:110
Alignment explanation
Indices: 82758942--82759142 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
82758932 ATCCTTTTGA
* *
82758942 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
82759005 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * * * * *
82759050 AACTTATCAATGCCATGTCTTGACATGGTCTTATATGATTTGCTTGCCTTAGAAACCTTACTAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
82759115 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
82759143 TATCCTTGAA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.57
109 6 0.07
110 28 0.34
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:82759097 original size:55 final size:52
Alignment explanation
Indices: 82758895--82759146 Score: 199
Period size: 55 Copynumber: 4.8 Consensus size: 52
82758885 ACACGGGTAC
* * * * * *
82758895 CTTACCATTGCCATGACTTGGCATGGTCTTACGTGGTA---T-CCTTTTGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCTTGCCTTATG-AA
* *
82758944 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGATAT-CTTGCCTTATGAA
* * * ** *
82758997 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGATATC-TTGCCTTAT-G-AA
* * *
82759052 CTTATCAATGCCATGTCTTGACATGGTCTTATATGATTTGCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGATAT-CTTGCCTTATG-AA
* * * *
82759105 CCTTACTAATTGCCATGCCTTGGCATGGTCTTACATGGTATC
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGATATC
82759147 CTTGAACCCT
Statistics
Matches: 165, Mismatches: 27, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
49 35 0.21
52 1 0.01
53 48 0.29
54 14 0.08
55 66 0.40
56 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (52 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCTTGCCTTATGAA
Found at i:82759290 original size:31 final size:31
Alignment explanation
Indices: 82759252--82759311 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
82759242 CTTCTTTGAA
82759252 TAATTTCATAAAATAAATATACACATGCTGG
1 TAATTTCATAAAATAAATATACACATGCTGG
82759283 TAATTTCATAAAATAAATATACACATGCT
1 TAATTTCATAAAATAAATATACACATGCT
82759312 AGAAATTAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (31 bp):
TAATTTCATAAAATAAATATACACATGCTGG
Found at i:82768634 original size:45 final size:45
Alignment explanation
Indices: 82768570--82768659 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
82768560 GAGTCTCTAT
*
82768570 AACTTACTAAAATCATTCAATACATTTCCTTACTTTAAACCATGC
1 AACTTACTAAAATCATTCAAAACATTTCCTTACTTTAAACCATGC
*
82768615 AACTTATTAAAATCATTCAAAACATTTCCTTACTTTAAACCATGC
1 AACTTACTAAAATCATTCAAAACATTTCCTTACTTTAAACCATGC
82768660 TATAACCTGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.39, C:0.23, G:0.02, T:0.36
Consensus pattern (45 bp):
AACTTACTAAAATCATTCAAAACATTTCCTTACTTTAAACCATGC
Found at i:82769567 original size:90 final size:89
Alignment explanation
Indices: 82769381--82769605 Score: 204
Period size: 90 Copynumber: 2.5 Consensus size: 89
82769371 TAGGGTGCCA
* * * * **
82769381 AAGCCATGTCCCAGACATGGTCTTACATGGGACCACACATCGATGTCATATCCCAGATATGGTCT
1 AAGCCATGTCCCAGACATGGTCTTACACGGGACCACACATCGATGCCACATCCCAGACATACTCT
* *
82769446 TATACGAAGTCTCGAATCAGCGGT
66 TATACGAAATCACGAATCAGCGGT
* * * *
82769470 AATGCCATG-CCCAAGACATGGTCTTATACGGGACCTCATATCGATGCCACATCCTAGACATACT
1 AA-GCCATGTCCC-AGACATGGTCTTACACGGGACCACACATCGATGCCACATCCCAGACATACT
*
82769534 CTTATACGAAATCACTTAA-CGATGCGG-
64 CTTATACGAAATCAC-GAATC-A-GCGGT
* * ** * * *
82769561 AAGCCATATCCCTGTTATGGTCTTACACGAGATCACATATCGATG
1 AAGCCATGTCCCAGACATGGTCTTACACGGGACCACACATCGATG
82769606 TCGATGCCAT
Statistics
Matches: 109, Mismatches: 21, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
89 5 0.05
90 92 0.84
91 8 0.07
92 4 0.04
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.25
Consensus pattern (89 bp):
AAGCCATGTCCCAGACATGGTCTTACACGGGACCACACATCGATGCCACATCCCAGACATACTCT
TATACGAAATCACGAATCAGCGGT
Found at i:82769605 original size:48 final size:48
Alignment explanation
Indices: 82769533--82769642 Score: 114
Period size: 48 Copynumber: 2.3 Consensus size: 48
82769523 CTAGACATAC
* * * ** *
82769533 TCTTATACGAAATCACTTAACGATG-CGGAAGCCATATCCCTGTTATGG
1 TCTTACACGAGATCACATAACGATGTC-GAAGCCATATCCCAATCATGG
* * *
82769581 TCTTACACGAGATCACATATCGATGTCGATGCCATGTCCCAATCATGG
1 TCTTACACGAGATCACATAACGATGTCGAAGCCATATCCCAATCATGG
*
82769629 TCTTACACGGGATC
1 TCTTACACGAGATC
82769643 TTGTTAATGA
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
48 50 0.98
49 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (48 bp):
TCTTACACGAGATCACATAACGATGTCGAAGCCATATCCCAATCATGG
Found at i:82773149 original size:46 final size:45
Alignment explanation
Indices: 82773082--82773386 Score: 213
Period size: 47 Copynumber: 6.6 Consensus size: 45
82773072 TATTTCTTGT
82773082 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGATGACATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGAT-ACATTATGA
* **
82773128 GTGCCAGTGTAAGACATGTCTGGGACATGCATTGGCCACATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCA-TCGATACATTATGA
* ** * * * **
82773174 GTGCTAGTACAAGACCATGTCTGAGACATGACATCAATATAGAGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACATG-CATCGATACA-TTATGA
* * *
82773222 GTGCCAGTATAAGACATGTCTGGGACATGCATTGACTTCGATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGA-TAC-ATTATGA
** * * * * * *
82773269 CAGCCAGTGTAAGACGTGTTTGAGACACGCATCG--GC--TAAGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGATACATTATGA
* * *
82773310 GTTTTGCTAGTGTAAGACATGTCTAGGACATGCATCGACACGTATATATGA
1 G---TGCCAGTGTAAGACATGTCTGGGACATGCATCGATAC--AT-TATGA
* *
82773361 GAGCCAGTATAAGACCATGTCTGGGA
1 GTGCCAGTGTAAGA-CATGTCTGGGA
82773387 TATAGCATTG
Statistics
Matches: 195, Mismatches: 47, Indels: 31
0.71 0.17 0.11
Matches are distributed among these distances:
41 4 0.02
44 27 0.14
46 56 0.29
47 64 0.33
48 29 0.15
49 10 0.05
51 5 0.03
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.26
Consensus pattern (45 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGATACATTATGA
Found at i:82773293 original size:94 final size:94
Alignment explanation
Indices: 82773124--82773383 Score: 235
Period size: 94 Copynumber: 2.8 Consensus size: 94
82773114 CGATGACATT
* * ** *
82773124 ATGAGTGCCAGTGTAAGACATGTCTGGGACATGCATTGGCCACATTATGAGTGCTAGTACAAGAC
1 ATGAGTGCCAGTATAAGACATGTCTGGGACATGCATTGACCACATTATGACAGCCAGTACAAGAC
82773189 CATGTCTGAGACATGACATCAATATAGAG
66 CATGTCTGAGACATGACATCAATATAGAG
** **
82773218 ATGAGTGCCAGTATAAGACATGTCTGGGACATGCATTGACTTCGATTATGACAGCCAGTGTAAGA
1 ATGAGTGCCAGTATAAGACATGTCTGGGACATGCATTGACCAC-ATTATGACAGCCAGTACAAGA
* * * **
82773283 -CGTGTTTGAGACACG-CATCGGCTA-AGAG
65 CCATGTCTGAGACATGACATC-AATATAGAG
** * * * * * *
82773311 -T-TTTGCTAGTGTAAGACATGTCTAGGACATGCATCGA-CACGTATATATGAGAGCCAGTATAA
1 ATGAGTGCCAGTATAAGACATGTCTGGGACATGCATTGACCAC--AT-TATGACAGCCAGTACAA
82773373 GACCATGTCTG
63 GACCATGTCTG
82773384 GGATATAGCA
Statistics
Matches: 134, Mismatches: 27, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
90 1 0.01
91 32 0.24
92 18 0.13
93 14 0.10
94 53 0.40
95 16 0.12
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (94 bp):
ATGAGTGCCAGTATAAGACATGTCTGGGACATGCATTGACCACATTATGACAGCCAGTACAAGAC
CATGTCTGAGACATGACATCAATATAGAG
Found at i:82780195 original size:30 final size:30
Alignment explanation
Indices: 82780161--82780246 Score: 145
Period size: 30 Copynumber: 2.9 Consensus size: 30
82780151 TTTTTGAGCA
* *
82780161 TAGGGGTAAAATGGTTATTTTGCCAAGGTC
1 TAGGGGCAAAATGGTCATTTTGCCAAGGTC
82780191 TAGGGGCAAAATGGTCATTTTGCCAAGGTC
1 TAGGGGCAAAATGGTCATTTTGCCAAGGTC
*
82780221 TAGGGGCAAAATGGTCATTTTTCCAA
1 TAGGGGCAAAATGGTCATTTTGCCAA
82780247 AGATGTGAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTGCCAAGGTC
Found at i:82780887 original size:49 final size:49
Alignment explanation
Indices: 82780636--82780948 Score: 274
Period size: 49 Copynumber: 6.6 Consensus size: 49
82780626 AGTGCCAGTA
* * * * *
82780636 TAAGACCATGTCTGAGACATGGCATCGGCATAGA-GATGAGT-GCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATG-CTAGCTAGTG
* ** *
82780684 TAAGA-CATGTCTGGGACAT-GCATCGGCTTCGATGATAATAGCTAATG
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGCTAGCTAGTG
* * * * ** *
82780731 TAAGA-CGTGTTTGGGACA-CGCATCGG-CT--AAGATTTTTGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGCTAGCTAGTG
* * * * * *
82780775 TAAGA-CATGTCTGGGACAT-GCATCAGCAT-GCAT-ATACGAGAGTAGTA
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCG-ATGATGCTAG-CTAGTG
*
82780822 TAAGACCATGTCTGGGACATGGCACCGGCCTCGATGATGCTAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGCTAGCTAGTG
* *
82780871 TAAGACCATGTTTGGGACATGGCACCGGCCTCGATGATGCTAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGCTAGCTAGTG
*
82780920 TAAGACCATGTTTGGGACATGGCATCGGC
1 TAAGACCATGTCTGGGACATGGCATCGGC
82780949 AACTTATCAC
Statistics
Matches: 218, Mismatches: 35, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
44 33 0.15
45 1 0.00
46 16 0.07
47 54 0.25
48 19 0.09
49 89 0.41
50 6 0.03
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (49 bp):
TAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGCTAGCTAGTG
Found at i:82785529 original size:44 final size:44
Alignment explanation
Indices: 82785451--82785535 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
82785441 CAGATATGTG
**
82785451 ATTTCGTGTAAGACCAAGTCCGGGACATTGGCATCG-ATTTAAT
1 ATTTCGTGTAAGACCAAGTCCGGGACATCAGCATCGTATTTAAT
* **
82785494 ATTTACGTGTAAGACCATGTTTGGGACATCAGCATCGTATTT
1 ATTT-CGTGTAAGACCAAGTCCGGGACATCAGCATCGTATTT
82785536 GATTTCATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 4 0.11
44 27 0.77
45 4 0.11
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (44 bp):
ATTTCGTGTAAGACCAAGTCCGGGACATCAGCATCGTATTTAAT
Found at i:82785601 original size:43 final size:43
Alignment explanation
Indices: 82785531--82785615 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
82785521 ATCAGCATCG
*
82785531 TATTTGATTTCATATAACACCCTATCTGGAACAGTGGCATTGA
1 TATTTGATTACATATAACACCCTATCTGGAACAGTGGCATTGA
* * * *
82785574 TATTTGATTACATGTAAGACCAC-ATCTGGGACATTGGCATTG
1 TATTTGATTACATATAACACC-CTATCTGGAACAGTGGCATTG
82785616 TATGAGCTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
43 35 0.97
44 1 0.03
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (43 bp):
TATTTGATTACATATAACACCCTATCTGGAACAGTGGCATTGA
Found at i:82788527 original size:64 final size:64
Alignment explanation
Indices: 82788425--82788586 Score: 270
Period size: 64 Copynumber: 2.5 Consensus size: 64
82788415 AGATACGACT
*
82788425 TTATTACTAGTACTTTCACTCTTTATGATACTTTGTGCAAACGAAGAAGCTTCTTCTCCATATG
1 TTATTACTAGTACTTTCACTCTTTATGATACTTCGTGCAAACGAAGAAGCTTCTTCTCCATATG
* * ** *
82788489 TTATTACTGGTACTTTCATTCTTTATGATACTTCGTGCAAGTGAAGAAGCTTCTTTTCCATATG
1 TTATTACTAGTACTTTCACTCTTTATGATACTTCGTGCAAACGAAGAAGCTTCTTCTCCATATG
82788553 TTATTACTAGTACTTTCACTCTTTATGATACTTC
1 TTATTACTAGTACTTTCACTCTTTATGATACTTC
82788587 TGTGATTACA
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 90 1.00
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (64 bp):
TTATTACTAGTACTTTCACTCTTTATGATACTTCGTGCAAACGAAGAAGCTTCTTCTCCATATG
Found at i:82793459 original size:15 final size:16
Alignment explanation
Indices: 82793434--82793476 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
82793424 AAGAAAAATA
82793434 AAATAAATAATAAAG-T
1 AAAT-AATAATAAAGAT
*
82793450 AAATAATAATAATGAT
1 AAATAATAATAAAGAT
82793466 AAA-AATAATAA
1 AAATAATAATAA
82793477 TAATGACAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 17 0.68
16 8 0.32
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.26
Consensus pattern (16 bp):
AAATAATAATAAAGAT
Found at i:82793462 original size:18 final size:16
Alignment explanation
Indices: 82793429--82793479 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 16
82793419 AATCAAAGAA
82793429 AAAT-AAAATAAATAAT
1 AAATAAAAAT-AATAAT
82793445 AAAGTAAATAATAATAAT
1 AAA-TAAA-AATAATAAT
*
82793463 -GATAAAAATAATAAT
1 AAATAAAAATAATAAT
82793478 AA
1 AA
82793480 TGACAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
15 9 0.31
16 7 0.24
17 2 0.07
18 8 0.28
19 3 0.10
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (16 bp):
AAATAAAAATAATAAT
Found at i:82793480 original size:18 final size:18
Alignment explanation
Indices: 82793450--82793487 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
82793440 ATAATAAAGT
*
82793450 AAATAATAATAATGATAA
1 AAATAATAATAATGACAA
82793468 AAATAATAATAATGACAA
1 AAATAATAATAATGACAA
82793486 AA
1 AA
82793488 TATGCACAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (18 bp):
AAATAATAATAATGACAA
Found at i:82795514 original size:44 final size:44
Alignment explanation
Indices: 82795466--82795693 Score: 294
Period size: 44 Copynumber: 5.2 Consensus size: 44
82795456 AGAGGTATTG
* * ** * * *
82795466 GATTTGTTGTTTCAATCTGCTTTATTGTAACTTTAGGGAGATAA
1 GATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGAGAGATAA
* * * * * *
82795510 GATTTGTAGCTTCAATCTGCTCTACTGTAACTTCAAAAAGTTAA
1 GATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGAGAGATAA
*
82795554 GATTTGTAGCTTTAATCTGCTCCACTGCAACTTTAGAGAGATAA
1 GATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGAGAGATAA
82795598 GATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGAGAGATAA
1 GATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGAGAGATAA
* * * *
82795642 GATTTGTAGCTTCAATCTGCTCCACTGTAAATTCATAGAGATAA
1 GATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGAGAGATAA
82795686 GATTTGTA
1 GATTTGTA
82795694 ACTTGTAACT
Statistics
Matches: 163, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 163 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (44 bp):
GATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGAGAGATAA
Found at i:82795710 original size:51 final size:51
Alignment explanation
Indices: 82795645--82795770 Score: 171
Period size: 51 Copynumber: 2.5 Consensus size: 51
82795635 GAGATAAGAT
* * * *
82795645 TTGTAGCTTCAATCTGCTCCACTGTAAATTCATAGAGATAAGATTTGTAAC
1 TTGTAGCTTTAATCTGTTCCACTGTAAATTCAGAGAAATAAGATTTGTAAC
* * *
82795696 TTGTAACTTTAATCTGTTCCACTGTAACTTCAGGGAAATAAGATTTGTAAC
1 TTGTAGCTTTAATCTGTTCCACTGTAAATTCAGAGAAATAAGATTTGTAAC
* *
82795747 TTGTGGCTTTAGTCTGTTCCACTG
1 TTGTAGCTTTAATCTGTTCCACTG
82795771 CAACTTTAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 65 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.38
Consensus pattern (51 bp):
TTGTAGCTTTAATCTGTTCCACTGTAAATTCAGAGAAATAAGATTTGTAAC
Found at i:82795785 original size:51 final size:51
Alignment explanation
Indices: 82795645--82795791 Score: 159
Period size: 51 Copynumber: 2.9 Consensus size: 51
82795635 GAGATAAGAT
* * * * * * *
82795645 TTGTAGCTTCAATCTGCTCCACTGTAAATTCATAGAGATAAGATTTGTAAC
1 TTGTAACTTTAATCTGTTCCACTGCAACTTCAAAGAAATAAGATTTGTAAC
* **
82795696 TTGTAACTTTAATCTGTTCCACTGTAACTTCAGGGAAATAAGATTTGTAAC
1 TTGTAACTTTAATCTGTTCCACTGCAACTTCAAAGAAATAAGATTTGTAAC
** * * *
82795747 TTGTGGCTTTAGTCTGTTCCACTGCAACTTTAAAGAAATGAGATT
1 TTGTAACTTTAATCTGTTCCACTGCAACTTCAAAGAAATAAGATT
82795792 CGTTATCTTC
Statistics
Matches: 81, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 81 1.00
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (51 bp):
TTGTAACTTTAATCTGTTCCACTGCAACTTCAAAGAAATAAGATTTGTAAC
Found at i:82798645 original size:21 final size:23
Alignment explanation
Indices: 82798621--82798663 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
82798611 CAACACAACT
82798621 TCTCA-ATT-AGTGAATATCTTG
1 TCTCACATTAAGTGAATATCTTG
*
82798642 TCTCACATTAAGTGAATTTCTT
1 TCTCACATTAAGTGAATATCTT
82798664 ACTGAGGTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 3 0.16
23 11 0.58
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (23 bp):
TCTCACATTAAGTGAATATCTTG
Found at i:82803034 original size:28 final size:28
Alignment explanation
Indices: 82802994--82803147 Score: 256
Period size: 28 Copynumber: 5.5 Consensus size: 28
82802984 TAAATTGTAC
*
82802994 AGCAGTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
82803022 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
82803050 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
82803078 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* *
82803106 AGCACTAAGTGTGCGAG-TTGCTTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
82803133 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
82803148 GACTTAATAC
Statistics
Matches: 122, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 23 0.19
28 99 0.81
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.34
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:82803065 original size:56 final size:56
Alignment explanation
Indices: 82802969--82803147 Score: 261
Period size: 56 Copynumber: 3.2 Consensus size: 56
82802959 GAGATTGGCG
* * * * *
82802969 CTAAGTGTGCGGGTTTAAATTGTACAGCAGTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
82803026 CTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
* *
82803082 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAG-TTGCTTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
82803137 CTGAGTGTGCG
1 CTAAGTGTGCG
82803148 GACTTAATAC
Statistics
Matches: 112, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
55 22 0.20
56 75 0.67
57 15 0.13
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.34
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:82815675 original size:16 final size:16
Alignment explanation
Indices: 82815650--82815686 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
82815640 AAAATCAAAT
82815650 AAAATTACATTA-TAA
1 AAAATTACATTACTAA
82815665 AAAACTTACATTACTAA
1 AAAA-TTACATTACTAA
82815682 AAAAT
1 AAAAT
82815687 AACAAAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 4 0.20
16 9 0.45
17 7 0.35
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAATTACATTACTAA
Found at i:82815822 original size:80 final size:81
Alignment explanation
Indices: 82815670--82815833 Score: 258
Period size: 80 Copynumber: 2.0 Consensus size: 81
82815660 TATAAAAAAC
* * * *
82815670 TTACATTACTAAAAAATAACAAAACATTAAACTAAACACTAACAATTTATAACCTAATCATACAT
1 TTACATTAATAAAAAATAACAAAACACTAAACTAAACACTAACAATTTATAACATAATCATAAAT
82815735 TACTAACAAAATAATT
66 TACTAACAAAATAATT
* * *
82815751 TTACATTAATAAACAATCACAAAACACTAAACTAAACAC-AACAATTTATAACATAATCCTAAAT
1 TTACATTAATAAAAAATAACAAAACACTAAACTAAACACTAACAATTTATAACATAATCATAAAT
82815815 TACTAACAAAATAATT
66 TACTAACAAAATAATT
82815831 TTA
1 TTA
82815834 AAATAATTAT
Statistics
Matches: 76, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
80 41 0.54
81 35 0.46
ACGTcount: A:0.54, C:0.18, G:0.00, T:0.28
Consensus pattern (81 bp):
TTACATTAATAAAAAATAACAAAACACTAAACTAAACACTAACAATTTATAACATAATCATAAAT
TACTAACAAAATAATT
Found at i:82815866 original size:16 final size:16
Alignment explanation
Indices: 82815842--82815879 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
82815832 TAAAATAATT
*
82815842 ATAAAAAAATTACATTC
1 ATAAAAAAATTA-AATC
82815859 ATAAAAAAATTAAATC
1 ATAAAAAAATTAAATC
82815875 ATAAA
1 ATAAA
82815880 TACTAAACAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (16 bp):
ATAAAAAAATTAAATC
Found at i:82816012 original size:13 final size:13
Alignment explanation
Indices: 82815996--82816046 Score: 50
Period size: 14 Copynumber: 3.9 Consensus size: 13
82815986 TACCTTTTTT
82815996 TTCTTTCTTTCTC
1 TTCTTTCTTTCTC
*
82816009 TTCTTTTTTTCTTC
1 TTCTTTCTTTC-TC
*
82816023 TCCTTTCTTTC-C
1 TTCTTTCTTTCTC
* *
82816035 CTCTTTTTTTCT
1 TTCTTTCTTTCT
82816047 TCACTTCTGC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
12 9 0.30
13 10 0.33
14 11 0.37
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (13 bp):
TTCTTTCTTTCTC
Found at i:82816031 original size:21 final size:21
Alignment explanation
Indices: 82815991--82816031 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
82815981 ATACATACCT
*
82815991 TTTTTTTCTTTCTTTCTCTTC
1 TTTTTTTCTTTCCTTCTCTTC
82816012 TTTTTTTCTTCTCCTT-TCTT
1 TTTTTTTCTT-TCCTTCTCTT
82816032 TCCCTCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTTTTCTTTCCTTCTCTTC
Found at i:82816046 original size:26 final size:27
Alignment explanation
Indices: 82815998--82816048 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
82815988 CCTTTTTTTT
*
82815998 CTTTCTTTCTCTTCTTTTTTTCTTCTC
1 CTTTCTTTCTCCTCTTTTTTTCTTCTC
82816025 CTTTCTTTC-CCTCTTTTTTTCTTC
1 CTTTCTTTCTCCTCTTTTTTTCTTC
82816049 ACTTCTGCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (27 bp):
CTTTCTTTCTCCTCTTTTTTTCTTCTC
Found at i:82816355 original size:23 final size:23
Alignment explanation
Indices: 82816324--82816375 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
82816314 CCTGATATAT
* *
82816324 ATATATTTTTAAATAATAAAAAA
1 ATATATTTTTAAAAAACAAAAAA
*
82816347 ATATTTTTTTAAAAAACAAAAAA
1 ATATATTTTTAAAAAACAAAAAA
82816370 AT-TATT
1 ATATATT
82816376 AAAAAATAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 3 0.12
23 22 0.88
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
ATATATTTTTAAAAAACAAAAAA
Found at i:82817014 original size:20 final size:20
Alignment explanation
Indices: 82816967--82817015 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
82816957 ATACAGAATA
* *
82816967 AATAATTATTTAATGAAATTT
1 AATAA-TATTAAATAAAATTT
82816988 AATTAATATTAAATAAAATTT
1 AA-TAATATTAAATAAAATTT
*
82817009 TATAATA
1 AATAATA
82817016 AAGAAAAGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 5 0.21
21 16 0.67
22 3 0.12
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
AATAATATTAAATAAAATTT
Found at i:82817319 original size:9 final size:9
Alignment explanation
Indices: 82817305--82817345 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
82817295 GGACGAGGAC
82817305 GACAAGAAG
1 GACAAGAAG
82817314 GACAAGAAG
1 GACAAGAAG
*
82817323 GACAAAAAG
1 GACAAGAAG
*
82817332 GACAAGAAA
1 GACAAGAAG
82817341 GACAA
1 GACAA
82817346 AGATCACAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.61, C:0.12, G:0.27, T:0.00
Consensus pattern (9 bp):
GACAAGAAG
Found at i:82817354 original size:18 final size:18
Alignment explanation
Indices: 82817333--82817369 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
82817323 GACAAAAAGG
82817333 ACAAGAAAGACAAAGATC
1 ACAAGAAAGACAAAGATC
*
82817351 ACAAGAAAGGCAAAGATC
1 ACAAGAAAGACAAAGATC
82817369 A
1 A
82817370 TAAAGATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.16, G:0.19, T:0.05
Consensus pattern (18 bp):
ACAAGAAAGACAAAGATC
Found at i:82817557 original size:21 final size:21
Alignment explanation
Indices: 82817533--82817574 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
82817523 CACTGGTGAT
*
82817533 AAAGATGACGATAAGCACAAG
1 AAAGATGACCATAAGCACAAG
82817554 AAAGATGACCATAAGCACAAG
1 AAAGATGACCATAAGCACAAG
82817575 GAACGCAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.52, C:0.17, G:0.21, T:0.10
Consensus pattern (21 bp):
AAAGATGACCATAAGCACAAG
Found at i:82817612 original size:105 final size:105
Alignment explanation
Indices: 82817378--82817604 Score: 402
Period size: 105 Copynumber: 2.2 Consensus size: 105
82817368 CATAAAGATG
*
82817378 ACAAAGATGAAGGGATGATGGATAAAATCAAGGACATGATCACGGGTGATAAAGATGACGATAAG
1 ACAAGGATGAAGGGATGATGGATAAAATCAAGGACATGATCACGGGTGATAAAGATGACGATAAG
* *
82817443 CATAAGAAAGATGACCATAAGCACAAGGACAGCAAAGACC
66 CACAAGAAAGATGACCATAAGCACAAGGACAGCAAAGAAC
*
82817483 ACAAGGATGAAGGGATGATGGATAAAATCAAGGACATGATCACTGGTGATAAAGATGACGATAAG
1 ACAAGGATGAAGGGATGATGGATAAAATCAAGGACATGATCACGGGTGATAAAGATGACGATAAG
82817548 CACAAGAAAGATGACCATAAGCACAAGGA-ACGCAAAGAAC
66 CACAAGAAAGATGACCATAAGCACAAGGACA-GCAAAGAAC
82817588 ACAAGGATGAAGGGATG
1 ACAAGGATGAAGGGATG
82817605 CTAGATAAGA
Statistics
Matches: 117, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
104 1 0.01
105 116 0.99
ACGTcount: A:0.46, C:0.14, G:0.27, T:0.13
Consensus pattern (105 bp):
ACAAGGATGAAGGGATGATGGATAAAATCAAGGACATGATCACGGGTGATAAAGATGACGATAAG
CACAAGAAAGATGACCATAAGCACAAGGACAGCAAAGAAC
Found at i:82817811 original size:15 final size:16
Alignment explanation
Indices: 82817774--82817811 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
82817764 AGTGATGACG
82817774 AGAAG-AAGAAAAAGA
1 AGAAGAAAGAAAAAGA
*
82817789 AGAAGAAAGGAAAA-A
1 AGAAGAAAGAAAAAGA
82817804 AGAAGAAA
1 AGAAGAAA
82817812 CACGATGGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (16 bp):
AGAAGAAAGAAAAAGA
Found at i:82820638 original size:29 final size:29
Alignment explanation
Indices: 82820605--82820680 Score: 125
Period size: 29 Copynumber: 2.6 Consensus size: 29
82820595 TGACACGAAT
* *
82820605 TCTCAATGAACAAGTTCTTTATCGTGAAC
1 TCTCAACGAACAAGTTCTTCATCGTGAAC
*
82820634 TCTCAACAAACAAGTTCTTCATCGTGAAC
1 TCTCAACGAACAAGTTCTTCATCGTGAAC
82820663 TCTCAACGAACAAGTTCT
1 TCTCAACGAACAAGTTCT
82820681 CCACCTCTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (29 bp):
TCTCAACGAACAAGTTCTTCATCGTGAAC
Found at i:82824003 original size:27 final size:27
Alignment explanation
Indices: 82823973--82824150 Score: 142
Period size: 27 Copynumber: 6.6 Consensus size: 27
82823963 ATATTGAGCC
*
82823973 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
* * *
82824000 CGCACACTTAGTGCCATGTAATCAAAT
1 CGCACACTTAGTGCTATATAATCAACT
* *
82824027 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTATATAATCA-ACT
*** ** *
82824055 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATATAATCAACT
* **
82824082 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTAT-ATAATCAACT
* * * * *
82824109 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTATATAATCAACT
*
82824136 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
82824151 GTACAATTTA
Statistics
Matches: 122, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
27 98 0.80
28 24 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:82824112 original size:82 final size:81
Alignment explanation
Indices: 82823994--82824149 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
82823984 TGCTATATAA
* * * *
82823994 TCAACTCGCACACTTAGTGCCATGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCATATAATCAAATCGCACACTGAGTGCAACATAGTCA-AATCGCA
82824059 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
82824076 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCAT-ATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCA
*
82824140 CCCTTAGTGC
65 CACTTAGTGC
82824150 TGTACAATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 18 0.28
82 46 0.72
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCATATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:82824133 original size:54 final size:55
Alignment explanation
Indices: 82823973--82824150 Score: 173
Period size: 54 Copynumber: 3.3 Consensus size: 55
82823963 ATATTGAGCC
* * * * * ** *
82823973 CGCACACTCAGTGCTATATAATCA-ACTCGCACACTTAGTGCCATGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAGACTCGCACACTGAGTGCAACATAGTCAAAT
* ** * *
82824027 CGCACACTTAGTGCTACATAGTCAGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAGACTCGCACACTGAGTGCAACATAGTCAAAT
* **
82824082 CGCACACTTAGTGC-ATCATATTCA-TTTCGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAGACTCGCACACTGAGTGCAACATAGTCAAAT
*
82824136 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
82824151 GTACAATTTA
Statistics
Matches: 103, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
54 58 0.56
55 45 0.44
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAGACTCGCACACTGAGTGCAACATAGTCAAAT
Found at i:82841401 original size:37 final size:36
Alignment explanation
Indices: 82841340--82841412 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 36
82841330 TTAATGAAAC
82841340 TTGGATAAAAGAAACCAAGCCTTACTTATAG-TAGG
1 TTGGATAAAAGAAACCAAGCCTTACTTATAGATAGG
* *
82841375 TTGGATAAAAAGAAAACCAAGTCTTACTTGTAGATAGG
1 TTGGAT-AAAAG-AAACCAAGCCTTACTTATAGATAGG
82841413 GAGGATTTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
35 6 0.18
36 5 0.15
37 18 0.55
38 4 0.12
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.26
Consensus pattern (36 bp):
TTGGATAAAAGAAACCAAGCCTTACTTATAGATAGG
Found at i:82844562 original size:18 final size:19
Alignment explanation
Indices: 82844541--82844577 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
82844531 TTTTTAAAAA
82844541 ATATAAA-ATTTGGAATTT
1 ATATAAATATTTGGAATTT
*
82844559 ATATAAATATTTTGAATTT
1 ATATAAATATTTGGAATTT
82844578 TAAAATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (19 bp):
ATATAAATATTTGGAATTT
Found at i:82846007 original size:18 final size:18
Alignment explanation
Indices: 82845965--82846009 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
82845955 TTTTCAAAAT
82845965 AAATTT-TA-AAATTCAA
1 AAATTTATATAAATTCAA
*
82845981 AATATTTATATAAATTCTA
1 AA-ATTTATATAAATTCAA
82846000 AAATTTATAT
1 AAATTTATAT
82846010 TTTTTAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 2 0.08
17 4 0.16
18 10 0.40
19 9 0.36
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATTTATATAAATTCAA
Found at i:82846021 original size:17 final size:17
Alignment explanation
Indices: 82845998--82846031 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
82845988 ATATAAATTC
*
82845998 TAAAATTTAT-ATTTTT
1 TAAAAATTATAATTTTT
82846014 TAAAAATTATAATTTTT
1 TAAAAATTATAATTTTT
82846031 T
1 T
82846032 TTTTAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TAAAAATTATAATTTTT
Found at i:82853261 original size:30 final size:31
Alignment explanation
Indices: 82853226--82853306 Score: 85
Period size: 30 Copynumber: 2.6 Consensus size: 31
82853216 ATATAAGTGT
82853226 TAATTTTTAAAAATTAAAAAT-ATTGTAAAA
1 TAATTTTTAAAAATTAAAAATAATTGTAAAA
** * * * *
82853256 TAATTTTTATAATTTTAAAATTAATTTTTATA
1 TAATTTTTA-AAAATTAAAAATAATTGTAAAA
82853288 -AATTTTTAAAAATTAAAAA
1 TAATTTTTAAAAATTAAAAA
82853307 AATAATTAAT
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
30 17 0.43
31 17 0.43
32 6 0.15
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (31 bp):
TAATTTTTAAAAATTAAAAATAATTGTAAAA
Found at i:82853282 original size:21 final size:23
Alignment explanation
Indices: 82853251--82853303 Score: 76
Period size: 21 Copynumber: 2.4 Consensus size: 23
82853241 AAAAATATTG
82853251 TAAAA-TAATTTTTAT-AA-TTT
1 TAAAATTAATTTTTATAAATTTT
82853271 TAAAATTAATTTTTATAAATTTT
1 TAAAATTAATTTTTATAAATTTT
82853294 TAAAAATTAA
1 T-AAAATTAA
82853304 AAAAATAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.17
21 10 0.34
22 2 0.07
23 4 0.14
24 8 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TAAAATTAATTTTTATAAATTTT
Found at i:82855228 original size:19 final size:19
Alignment explanation
Indices: 82855204--82855243 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
82855194 ATAACGTGTT
* * *
82855204 ATAAAATAAAAGACAGAGA
1 ATAAAAAAAAACAAAGAGA
82855223 ATAAAAAAAAACAAAGAGA
1 ATAAAAAAAAACAAAGAGA
82855242 AT
1 AT
82855244 GAGAGAGCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.72, C:0.05, G:0.12, T:0.10
Consensus pattern (19 bp):
ATAAAAAAAAACAAAGAGA
Found at i:82856786 original size:22 final size:23
Alignment explanation
Indices: 82856752--82856797 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
82856742 TAGTACAATG
82856752 AAATATTAAGAA-TAAATTGATAA
1 AAATATTAAGAATTAAATT-ATAA
*
82856775 AAAT-TTAGGAATTAAATTATAA
1 AAATATTAAGAATTAAATTATAA
82856797 A
1 A
82856798 TTTCTCAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.33
Consensus pattern (23 bp):
AAATATTAAGAATTAAATTATAA
Found at i:82858522 original size:36 final size:36
Alignment explanation
Indices: 82858475--82858546 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
82858465 GGCGTAGGAG
82858475 AAAGTTCTTATTTTATTGCATTTGACCTAGTTTTTT
1 AAAGTTCTTATTTTATTGCATTTGACCTAGTTTTTT
82858511 AAAGTTCTTATTTTATTGCATTTGACCTAGTTTTTT
1 AAAGTTCTTATTTTATTGCATTTGACCTAGTTTTTT
82858547 CTTTGCATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.11, G:0.11, T:0.56
Consensus pattern (36 bp):
AAAGTTCTTATTTTATTGCATTTGACCTAGTTTTTT
Found at i:82860366 original size:17 final size:17
Alignment explanation
Indices: 82860324--82860366 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
82860314 TGTTAATTAG
82860324 AATTGAGTTGAGAAATT
1 AATTGAGTTGAGAAATT
*
82860341 TATTGAGTTGAGAAATT
1 AATTGAGTTGAGAAATT
*
82860358 AATTTAGTT
1 AATTGAGTT
82860367 TATTTAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.21, T:0.42
Consensus pattern (17 bp):
AATTGAGTTGAGAAATT
Found at i:82862776 original size:41 final size:41
Alignment explanation
Indices: 82862731--82862864 Score: 94
Period size: 41 Copynumber: 3.1 Consensus size: 41
82862721 CTCTCCGTTG
82862731 AACACAGAGATACCAAATCATCTTAGATTTGCTTCAACGTA
1 AACACAGAGATACCAAATCATCTTAGATTTGCTTCAACGTA
* * * * * *
82862772 AACAC-GTGAAAGCCAAATAAGCTATGTCTTCGATCTGCTCTC--TGTCG
1 AACACAGAGATA-CCAAAT---C-A--TCTTAGATTTGCT-TCAACGT-A
* *
82862819 AACACAGAGATGCCAAATCATCTTAGATTTGCTTCAACATA
1 AACACAGAGATACCAAATCATCTTAGATTTGCTTCAACGTA
82862860 AACAC
1 AACAC
82862865 GTGAAAGTCA
Statistics
Matches: 67, Mismatches: 14, Indels: 24
0.64 0.13 0.23
Matches are distributed among these distances:
40 6 0.09
41 27 0.40
42 1 0.01
43 1 0.01
44 2 0.03
45 1 0.01
46 2 0.03
47 22 0.33
48 5 0.07
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (41 bp):
AACACAGAGATACCAAATCATCTTAGATTTGCTTCAACGTA
Found at i:82862862 original size:88 final size:88
Alignment explanation
Indices: 82862710--82862943 Score: 378
Period size: 88 Copynumber: 2.7 Consensus size: 88
82862700 CATGTCGATA
* * * *
82862710 TCTTCGATCAGCTCTCCGTTGAACACAGAGATACCAAATCATCTTAGATTTGCTTCAACGTAAAC
1 TCTTCGATCTGCTCTCCGTCGAACACAGAGATGCCAAATCATCTTAGATTTGCTTCAACATAAAC
82862775 ACGTGAAAGCCAAATAAGCTATG
66 ACGTGAAAGCCAAATAAGCTATG
*
82862798 TCTTCGATCTGCTCTCTGTCGAACACAGAGATGCCAAATCATCTTAGATTTGCTTCAACATAAAC
1 TCTTCGATCTGCTCTCCGTCGAACACAGAGATGCCAAATCATCTTAGATTTGCTTCAACATAAAC
* *
82862863 ACGTGAAAGTCAAATCAGCTATG
66 ACGTGAAAGCCAAATAAGCTATG
* * *
82862886 TCTTCGATCTGCTCTCCGTCAAACACAGAGATGCCAAATCATCTTAGATCTGCCTCAA
1 TCTTCGATCTGCTCTCCGTCGAACACAGAGATGCCAAATCATCTTAGATTTGCTTCAA
82862944 TGAAGGTCAA
Statistics
Matches: 135, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 135 1.00
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (88 bp):
TCTTCGATCTGCTCTCCGTCGAACACAGAGATGCCAAATCATCTTAGATTTGCTTCAACATAAAC
ACGTGAAAGCCAAATAAGCTATG
Found at i:82863198 original size:45 final size:45
Alignment explanation
Indices: 82862964--82863193 Score: 290
Period size: 45 Copynumber: 5.2 Consensus size: 45
82862954 ATCTGCTACG
* * * * * *
82862964 TCTTCGATCTGCTTCCCGTCGAATACAGAGAGATAAAATCTGTCA
1 TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCA
82863009 TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCA
1 TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCA
*
82863054 TCTTGGATCTACTCCCCGTCCATTACGGAGAGATAAGATCTGTCA
1 TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCA
* *
82863099 TCTTGGATCTACTCCCCGTTCATTAC--AGAG---AGATCTTTCA
1 TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCA
* * * * *
82863139 TCTTGGATCTGCCCCCCGTCCATTACAGAGAGATAAGGTCCGCCA
1 TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCA
*
82863184 TATTGGATCT
1 TCTTGGATCT
82863194 GCCCCGATGA
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
40 32 0.20
42 4 0.02
43 4 0.02
45 123 0.75
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.30
Consensus pattern (45 bp):
TCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCTGTCA
Found at i:82867296 original size:14 final size:14
Alignment explanation
Indices: 82867273--82867302 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
82867263 ATCTCGACTC
82867273 AATTTCATTTAGAA
1 AATTTCATTTAGAA
*
82867287 AATTTTATTTAGAA
1 AATTTCATTTAGAA
82867301 AA
1 AA
82867303 AGAATATCTT
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:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (14 bp):
AATTTCATTTAGAA
Found at i:82870368 original size:27 final size:26
Alignment explanation
Indices: 82870308--82870368 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
82870298 AAATTAACCC
* *
82870308 TAGGGGTATAATGGTCATTTTGCACT
1 TAGGGGTAAAATGGTAATTTTGCACT
82870334 TAGGGGTAAAATGGTAATTTT-CATACT
1 TAGGGGTAAAATGGTAATTTTGC--ACT
82870361 TAGGGGTA
1 TAGGGGTA
82870369 GTTCAATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
25 1 0.03
26 19 0.61
27 11 0.35
ACGTcount: A:0.28, C:0.08, G:0.28, T:0.36
Consensus pattern (26 bp):
TAGGGGTAAAATGGTAATTTTGCACT
Found at i:82871481 original size:27 final size:29
Alignment explanation
Indices: 82871420--82871496 Score: 86
Period size: 27 Copynumber: 2.7 Consensus size: 29
82871410 ATAGAGGAAA
* * *
82871420 AAAGAAAAAGAAGAGGAGAAAGTAGATGG
1 AAAGAAAAAGAAGAAGAGAAAGAAGAAGG
*
82871449 AGAGAAAAAGAA-AAGA-AAAGAAGAAGG
1 AAAGAAAAAGAAGAAGAGAAAGAAGAAGG
**
82871476 AAAGAAATGGAAGAAGAGAAA
1 AAAGAAAAAGAAGAAGAGAAA
82871497 ATATCAAAAC
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
27 18 0.46
28 7 0.18
29 14 0.36
ACGTcount: A:0.65, C:0.00, G:0.31, T:0.04
Consensus pattern (29 bp):
AAAGAAAAAGAAGAAGAGAAAGAAGAAGG
Found at i:82871496 original size:35 final size:40
Alignment explanation
Indices: 82871419--82871490 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 40
82871409 TATAGAGGAA
* *
82871419 AAAAGAAAAAGAAGAGGAGAAAGTAGATGGAGAGAAAAAG
1 AAAAGAAAAAGAAGAAGAGAAAGTAAATGGAGAGAAAAAG
82871459 AAAAG-AAAAGAAGAAG-GAAAG-AAATGGA-AGAA
1 AAAAGAAAAAGAAGAAGAGAAAGTAAATGGAGAGAA
82871491 GAGAAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 4 0.13
37 6 0.20
38 5 0.17
39 10 0.33
40 5 0.17
ACGTcount: A:0.65, C:0.00, G:0.31, T:0.04
Consensus pattern (40 bp):
AAAAGAAAAAGAAGAAGAGAAAGTAAATGGAGAGAAAAAG
Found at i:82872408 original size:15 final size:15
Alignment explanation
Indices: 82872371--82872399 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
82872361 TTTTTCTATC
82872371 TAATAATAATAATTA
1 TAATAATAATAATTA
82872386 TAATAATAATAATT
1 TAATAATAATAATT
82872400 TTATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:82872408 original size:27 final size:28
Alignment explanation
Indices: 82872378--82872468 Score: 78
Period size: 27 Copynumber: 3.1 Consensus size: 28
82872368 ATCTAATAAT
82872378 AATAAT-TATAATAATAATAATTTTATA
1 AATAATATATAATAATAATAATTTTATA
* * *
82872405 AAT-ATATCTAATAATAAAAATTTCAAATATC
1 AATAATATATAATAATAATAATTT----TATA
82872436 AATAATATAGTAAATAATAATAATTTTCATA
1 AATAATATA-T-AATAATAATAATTTT-ATA
82872467 AA
1 AA
82872469 AAATTTCAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
26 2 0.04
27 18 0.37
30 1 0.02
31 10 0.20
32 4 0.08
33 1 0.02
34 13 0.27
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.38
Consensus pattern (28 bp):
AATAATATATAATAATAATAATTTTATA
Found at i:82874179 original size:29 final size:29
Alignment explanation
Indices: 82874147--82874203 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
82874137 ATATAACTAA
*
82874147 TATTTACAA-AAATAAAATAATATATAAAG
1 TATTTAAAATAAATAAAA-AATATATAAAG
* *
82874176 TATTTAAAATAAATTAAAAATATGTAAA
1 TATTTAAAATAAATAAAAAATATATAAA
82874204 AGGATTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (29 bp):
TATTTAAAATAAATAAAAAATATATAAAG
Found at i:82879161 original size:24 final size:23
Alignment explanation
Indices: 82879109--82879163 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
82879099 AAAAGACATT
*
82879109 TATACATAATATATACAAAAATG
1 TATACATAATATATACAAAAATA
**
82879132 TATACATAATATAGTATTAAAATA
1 TATACATAATATA-TACAAAAATA
*
82879156 TTTACATA
1 TATACATA
82879164 GCATTTACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 13 0.48
24 14 0.52
ACGTcount: A:0.53, C:0.07, G:0.04, T:0.36
Consensus pattern (23 bp):
TATACATAATATATACAAAAATA
Found at i:82879228 original size:3 final size:3
Alignment explanation
Indices: 82879204--82879260 Score: 55
Period size: 3 Copynumber: 18.7 Consensus size: 3
82879194 AAGTACCTAT
*
82879204 TAA TAA TAT TATA TAA -ATA TAA TAA TAAA TAA TAA TAA T-A TAA TAA
1 TAA TAA TAA TA-A TAA TA-A TAA TAA T-AA TAA TAA TAA TAA TAA TAA
*
82879250 TAA CAA TAA TA
1 TAA TAA TAA TA
82879261 GTAAAAATAC
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
2 3 0.07
3 36 0.80
4 6 0.13
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:82879245 original size:21 final size:20
Alignment explanation
Indices: 82879219--82879260 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
82879209 ATATTATATA
*
82879219 AATATAATAATAAATAATAAT
1 AATATAATAAT-AACAATAAT
82879240 AATATAATAATAACAATAAT
1 AATATAATAATAACAATAAT
82879260 A
1 A
82879261 GTAAAAATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (20 bp):
AATATAATAATAACAATAAT
Found at i:82879251 original size:29 final size:30
Alignment explanation
Indices: 82879204--82879260 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
82879194 AAGTACCTAT
* *
82879204 TAATAATATTATATAAAT-ATAATAATAAA
1 TAATAATAATATATAAATAACAATAATAAA
82879233 TAATAATAATATA-ATAATAACAATAATA
1 TAATAATAATATATA-AATAACAATAATA
82879261 GTAAAAATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 1 0.04
29 15 0.62
30 8 0.33
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (30 bp):
TAATAATAATATATAAATAACAATAATAAA
Found at i:82879257 original size:17 final size:18
Alignment explanation
Indices: 82879225--82879269 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
82879215 TATAAATATA
*
82879225 ATAATAAATAATAATAAT
1 ATAATAAATAACAATAAT
82879243 ATAAT-AATAACAATAAT
1 ATAATAAATAACAATAAT
82879260 AGTAA-AAATA
1 A-TAATAAATA
82879270 CAAAAGAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (18 bp):
ATAATAAATAACAATAAT
Found at i:82879269 original size:21 final size:22
Alignment explanation
Indices: 82879216--82879269 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
82879206 ATAATATTAT
*
82879216 ATAAATATAATAATAAATAATA
1 ATAAAAATAATAATAAATAATA
*
82879238 ATAATATAATAATAA-CAATAATA
1 ATAA-A-AATAATAATAAATAATA
*
82879261 GTAAAAATA
1 ATAAAAATA
82879270 CAAAAGAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 4 0.15
22 5 0.19
23 11 0.41
24 7 0.26
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (22 bp):
ATAAAAATAATAATAAATAATA
Found at i:82879428 original size:3 final size:3
Alignment explanation
Indices: 82879420--82879532 Score: 90
Period size: 3 Copynumber: 37.0 Consensus size: 3
82879410 ACTAATATTT
* *
82879420 ATA ATA ATA ATA GTA A-A TATA ATA ATA ATA ATA ATA ATA ATA TTA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
82879465 AGT- ATA GT- ATAA ATA ATA TGTA CATA ACA ATA ATA ATA ATA ATA AGTA
1 A-TA ATA ATA AT-A ATA ATA -ATA -ATA ATA ATA ATA ATA ATA ATA A-TA
*
82879513 ACA ATA AT- ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA
82879533 TAGCAAAATT
Statistics
Matches: 88, Mismatches: 13, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
2 5 0.06
3 72 0.82
4 11 0.12
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:82881537 original size:14 final size:14
Alignment explanation
Indices: 82881518--82881552 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
82881508 AGTTGATTTC
82881518 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
82881532 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
82881546 TTGAAAA
1 TTGAAAA
82881553 TACCTCAACG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:82881570 original size:88 final size:86
Alignment explanation
Indices: 82881215--82881876 Score: 581
Period size: 87 Copynumber: 7.7 Consensus size: 86
82881205 GGCATGTGAT
** * * * * * *
82881215 CCTGA-GCTCAACTCATTTCTCGCAATATGAATTGACTCTTTAAAAATAGACATT-AAAAATAGA
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTGAAAAACAGA
* * * *
82881278 AATTGAAGATAGCTCAGCATGTGAG
65 AATTGAAAATACCTCA--ACGTG-C
* * ** * ** *
82881303 CC-AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTG-AAACTTAATTTGAAAAGTAGAT
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAAACAGAA
* *
82881366 TTTGAAAATACCTCGACATGTGAC
66 ATTGAAAATACCTC-A-ACGTG-C
* * *
82881390 CC-AAGGCTCAACTCAACTCTCGCAATATGAGTTGATTTTTGAAATATATG-AATTGAAAAAAAC
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-ACA-GAAATTG--AAAAAC
*
82881453 AGAAATTGAAAATACCTCAACGTGT
62 AGAAATTGAAAATACCTCAACGTGC
* *
82881478 CCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTCTTGAAAAGCAGAAATTGAAAAGCAG
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-TTGAAAA-CAGAAATTGAAAAACAG
82881543 AAATTGAAAATACCTCAACGTGC
64 AAATTGAAAATACCTCAACGTGC
* * *
82881566 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAATATAAATTGAAAAACAGA
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTGAAAAACAGA
* *
82881631 AATTGAAAATACCTCAGCGTGT
65 AATTGAAAATACCTCAACGTGC
* ** *
82881653 CCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTT-----------TTGATGAACAAAA
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAAACAGAA
* *
82881707 ATT-AATATTACCTCAACGTGT
66 ATTGAA-AATACCTCAACGTGC
* *
82881728 CCTGAGGCTCAATTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGGCAGAAATTGAAAAACAG
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAA-ACAGAAATTGAAAAACAG
* *
82881793 AAATTGAAAATACCTCAGCAAGTGAA
64 AAATTGAAAATACCTCA--ACGTG-C
* * *
82881819 AC-GAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAATAGAAATT-AAAA
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTGAAAA
82881877 TCACCTCAGC
Statistics
Matches: 480, Mismatches: 62, Indels: 64
0.79 0.10 0.11
Matches are distributed among these distances:
74 2 0.00
75 60 0.12
76 5 0.01
86 11 0.02
87 140 0.29
88 128 0.27
89 62 0.13
90 51 0.11
91 21 0.04
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (86 bp):
CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAAACAGAA
ATTGAAAATACCTCAACGTGC
Found at i:82881787 original size:14 final size:14
Alignment explanation
Indices: 82881776--82881802 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
82881766 TTTTGAAAGG
82881776 CAGAAATTGAAAAA
1 CAGAAATTGAAAAA
82881790 CAGAAATTGAAAA
1 CAGAAATTGAAAA
82881803 TACCTCAGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.07, G:0.15, T:0.15
Consensus pattern (14 bp):
CAGAAATTGAAAAA
Found at i:82881898 original size:163 final size:162
Alignment explanation
Indices: 82881532--82882267 Score: 907
Period size: 163 Copynumber: 4.6 Consensus size: 162
82881522 AAAGCAGAAA
* *
82881532 TTGAAAAGCAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* * * **
82881597 GTTGATTTTTTAAAAATATAAATTGAAAAACAGAAATTGAAAATACCTCAGC-GTGTCCTGAGGC
66 GTTGATTTTTTGAAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCTGTGAACTGAGGC
* *
82881661 TCAACTCACCTCTTGCAATATGAGTTGATTTTT
131 TCAACTCACCTCTCGCAATATGAGTCGA-TTTT
** * * *
82881694 TTGATGAACAAAAATT-AATATTACCTCAACGTGTCCTGAGGCTCAATTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTGAA-AATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
* *
82881758 AGTTGATTTTTTGAAAGGCAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCAAGTGAAAC-G
65 AGTTGATTTTTTGAAA-ACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGC-TGTG-AACTG
82881822 AGGCTCAACTCACCTCTCGCAATATGAGTCGA-TTT
127 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTT
* * *
82881857 TTGAAAAATAGAAATT-AAAATCACCTCAGCGTGTGCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTGAAAAT-ACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
*
82881921 AGTTGATTTTTTGAAAGATAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCATGTGAAAC-G
65 AGTTGATTTTTTGAAA-ACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGC-TGTG-AACTG
* *
82881985 AGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTT
127 AGGCTCAACTCACCTCTCGCAATATGAGTCGA-TTTT
** * * * * *
82882022 TTG---ATGATAAATTGAGAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* **
82882084 GTTGA-TTTTTG-AAACATAAATT-AAAAA-A-AAATTGAAAATACCTCAG-TGTGCCCTGAGGC
66 GTTGATTTTTTGAAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCTGTGAACTGAGGC
*
82882143 TCAACTCACCTTTCGCAATATGAGTCGA-TTT
131 TCAACTCACCTCTCGCAATATGAGTCGATTTT
* * * * *
82882174 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACATCTTGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
82882239 GTTGA-TTTTTGAAAACAGAAA-T-AAAAACA
66 GTTGATTTTTTGAAAACAGAAATTGAAAAACA
82882268 TCAGAATACC
Statistics
Matches: 504, Mismatches: 55, Indels: 36
0.85 0.09 0.06
Matches are distributed among these distances:
152 6 0.01
153 1 0.00
154 34 0.07
155 66 0.13
156 27 0.05
157 1 0.00
158 5 0.01
159 7 0.01
160 2 0.00
161 8 0.02
162 121 0.24
163 185 0.37
165 40 0.08
166 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (162 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTGAAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCTGTGAACTGAGGC
TCAACTCACCTCTCGCAATATGAGTCGATTTT
Found at i:82881916 original size:73 final size:75
Alignment explanation
Indices: 82881782--82881951 Score: 240
Period size: 73 Copynumber: 2.3 Consensus size: 75
82881772 AAGGCAGAAA
*
82881782 TTGAAAAACAGAAATTGAAAATACCTCAGCAAGTGAAACGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAATAGAAATTGAAAATACCTCAGC-AGTGAAACGAGGCTCAACTCACCTCTCGCAATAT
82881847 GAGTCGA-TTT
65 GAGTCGATTTT
**
82881857 TTGAAAAATAGAAATT-AAAATCACCTCAGC-GTG-TGCTGAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAATAGAAATTGAAAAT-ACCTCAGCAGTGAAAC-GAGGCTCAACTCACCTCTCGCAATA
*
82881919 TGAGTTGATTTT
64 TGAGTCGATTTT
*
82881931 TTGAAAGATAGAAATTGAAAA
1 TTGAAAAATAGAAATTGAAAA
82881952 ACAGAAATTG
Statistics
Matches: 86, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
72 1 0.01
73 35 0.41
74 23 0.27
75 27 0.31
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (75 bp):
TTGAAAAATAGAAATTGAAAATACCTCAGCAGTGAAACGAGGCTCAACTCACCTCTCGCAATATG
AGTCGATTTT
Found at i:82882008 original size:90 final size:88
Alignment explanation
Indices: 82881857--82882022 Score: 255
Period size: 90 Copynumber: 1.9 Consensus size: 88
82881847 GAGTCGATTT
* *
82881857 TTGAAAAATAGAAATTAAAATCACCTCAGCGTGTGCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTAAAATCACCTCAGCATGTGCTGAGGCTCAACTCACCTCTCGCAATATGA
82881922 GTTGATTTTTTGAAAGATAGAAA
66 GTTGATTTTTTGAAAGATAGAAA
*
82881945 TTGAAAAACAGAAATTGAAAAT-ACCTCAGCATGTGAAAC-GAGGCTTAACTCACCTCTCGCAAT
1 TTGAAAAACAGAAATT-AAAATCACCTCAGCATGTG---CTGAGGCTCAACTCACCTCTCGCAAT
82882008 ATGAGTTGATTTTTT
62 ATGAGTTGATTTTTT
82882023 TGATGATAAA
Statistics
Matches: 71, Mismatches: 3, Indels: 6
0.89 0.04 0.08
Matches are distributed among these distances:
88 27 0.38
89 5 0.07
90 38 0.54
91 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (88 bp):
TTGAAAAACAGAAATTAAAATCACCTCAGCATGTGCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTGAAAGATAGAAA
Found at i:82882061 original size:325 final size:314
Alignment explanation
Indices: 82881532--82882267 Score: 1009
Period size: 325 Copynumber: 2.3 Consensus size: 314
82881522 AAAGCAGAAA
* * * *
82881532 TTGAAAAGCAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTG-TCTGAGGCTCAACTCACCTCTCGCAATATGA
* * **
82881597 GTTGATTTTTTAAAAATATAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCT
65 GTTGATTTTTTGAAAATAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGAACTGAGGCT
* * *
82881662 CAACTCACCTCTTGCAATATGAGTTGATTTTTTTGATGAACAAAAATTAATATTACCTCAACGTG
130 CAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATG-A-AAAAATTAAGAATACCTCAACGTG
* *
82881727 TCCTGAGGCTCAATTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGGCAGAAATTGAAAAACA
193 ACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAA--CAGAAATT-AAAAA-A
82881792 GAAATTGAAAATACCTCAGCAAGTGAAAC-GAGGCTCAACTCACCTCTCGCAATATGAGTCGATT
253 -AAATTGAAAATACCTCAG--AGTG-AACTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATT
82881856 T
314 T
*
82881857 TTGAAAAATAGAAATT-AAAATCACCTCAGCGTGTGCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTAAAAAT-ACCTCAGCGTGT-CTGAGGCTCAACTCACCTCTCGCAATATG
82881921 AGTTGATTTTTTGAAAGATAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCATGTGAAAC-G
64 AGTTGATTTTTTGAAA-ATAGAAATTGAAAAACAGAAATTGAAAATACCTCAGC--GTG-AACTG
* * * *
82881985 AGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATG-ATAAATTGAGAATACCTCAAT
125 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATGAAAAAATTAAGAATACCTCAAC
* *
82882049 GTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTAAAAAAAA
190 GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAGAAATTAAAAAAAA
* ** *
82882114 ATTGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCACCTTTCGCAATATGAGTCGATTT
255 ATTGAAAATACCTCAGAGTGAACTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTT
* *
82882174 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACATCTTGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTC-TGAGGCTCAACTCACCTCTCGCAATATGA
*
82882239 GTTGA-TTTTTGAAAACAGAAA-T-AAAAACA
65 GTTGATTTTTTGAAAATAGAAATTGAAAAACA
82882268 TCAGAATACC
Statistics
Matches: 375, Mismatches: 27, Indels: 30
0.87 0.06 0.07
Matches are distributed among these distances:
313 7 0.02
314 1 0.00
315 6 0.02
316 11 0.03
317 97 0.26
318 5 0.01
319 18 0.05
320 1 0.00
321 5 0.01
322 7 0.02
324 14 0.04
325 121 0.32
326 36 0.10
328 45 0.12
329 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (314 bp):
TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTGAAAATAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGAACTGAGGCTC
AACTCACCTCTCGCAATATGAGTTGATTTTTTTGATGAAAAAATTAAGAATACCTCAACGTGACC
TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAGAAATTAAAAAAAAATTGAA
AATACCTCAGAGTGAACTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTT
Found at i:82882075 original size:72 final size:73
Alignment explanation
Indices: 82881956--82882248 Score: 259
Period size: 73 Copynumber: 3.9 Consensus size: 73
82881946 TGAAAAACAG
*** *
82881956 AAATTGAAAATACCTCAGCATGTGAAACGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCA--ATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* ** *
82882021 T-TTGATGAT
64 TATTAAAAAA
*
82882030 AAATTGAGAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT-
82882095 AAACATAAATTAAAAAA
64 -----T--ATTAAAAAA
* * * * *
82882112 AAATTGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCACCTTTCGCAATATGAGTCGATTTTTG
1 AAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-
*
82882177 A--AAAACAG
65 ATTAAAA-AA
* ** * * *
82882185 AAATTAAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACATCTTGCAATATGAGTTGATTTTT
1 AAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
82882249 GAAAACAGAA
Statistics
Matches: 183, Mismatches: 25, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
72 42 0.23
73 61 0.33
74 17 0.09
75 1 0.01
79 1 0.01
81 4 0.02
82 57 0.31
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (73 bp):
AAATTGAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTA
TTAAAAAA
Found at i:82882167 original size:82 final size:80
Alignment explanation
Indices: 82882030--82882265 Score: 263
Period size: 82 Copynumber: 3.0 Consensus size: 80
82882020 TTTTGATGAT
* * *
82882030 AAATTGAGAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAGTGTGACTTGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTG
82882095 AAACATAAATTAAAAAA
66 AAACA-AAA-TAAAAAA
* * *
82882112 AAATTGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCACCTTTCGCAATATGAGTCGATTTTTG
1 AAATTGAAAATACCTCAGTGTGACTTGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTG
* *
82882177 ------AA-AAACAG
66 AAACAAAATAAAAAA
* * * *
82882185 AAATTAAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACATCTT-GCAATATGAGTTGATTTTT
1 AAATTGAAAATACCTCAGTGTGACTTGAGGCTCAACTCACCT-TTCGCAATATGAGTTGATTTTT
82882249 GAAAACAGAAATAAAAA
65 G-AAACA-AAATAAAAA
82882266 CATCAGAATA
Statistics
Matches: 129, Mismatches: 15, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
73 60 0.47
74 2 0.02
75 2 0.02
81 2 0.02
82 63 0.49
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (80 bp):
AAATTGAAAATACCTCAGTGTGACTTGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTG
AAACAAAATAAAAAA
Found at i:82882234 original size:73 final size:72
Alignment explanation
Indices: 82882112--82882265 Score: 222
Period size: 73 Copynumber: 2.1 Consensus size: 72
82882102 AATTAAAAAA
* * *
82882112 AAATTGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCACCTTTCGCAATATGAGTCGATTTTTG
1 AAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACATTTCGCAATATGAGTCGATTTTTG
82882177 AAAAACAG
66 -AAAACAG
* * *
82882185 AAATTAAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACATCTT-GCAATATGAGTTGATTTTT
1 AAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACAT-TTCGCAATATGAGTCGATTTTT
82882249 GAAAACAG
65 GAAAACAG
82882257 AAA-TAAAAA
1 AAATTAAAAA
82882266 CATCAGAATA
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
71 6 0.08
72 10 0.14
73 56 0.76
74 2 0.03
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (72 bp):
AAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACATTTCGCAATATGAGTCGATTTTTG
AAAACAG
Found at i:82892660 original size:20 final size:20
Alignment explanation
Indices: 82892612--82892660 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 20
82892602 TATACATAAT
* *
82892612 AATACTAAAAATATATACAT
1 AATACTAATAATATATACAA
82892632 AATAC--ATAATATATTA-AA
1 AATACTAATAATATA-TACAA
82892650 AATACTAATAA
1 AATACTAATAA
82892661 CAAAAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
18 13 0.54
19 2 0.08
20 9 0.38
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (20 bp):
AATACTAATAATATATACAA
Found at i:82893073 original size:18 final size:19
Alignment explanation
Indices: 82893030--82893074 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 19
82893020 AAATATATAC
82893030 ATAATA-ATAGTATTAAAA
1 ATAATATATAGTATTAAAA
82893048 AT-ATATATA-TATATAAAA
1 ATAATATATAGTAT-TAAAA
82893066 GATAATATA
1 -ATAATATA
82893075 AGAAAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 6 0.26
18 10 0.43
19 2 0.09
20 5 0.22
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (19 bp):
ATAATATATAGTATTAAAA
Found at i:82893163 original size:23 final size:24
Alignment explanation
Indices: 82893137--82893191 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
82893127 AAAAGACATA
*
82893137 TATACGTAATATA-TATAAAAATG
1 TATACATAATATAGTATAAAAATG
* *
82893160 TATACATAATATAGTATTAAAATA
1 TATACATAATATAGTATAAAAATG
*
82893184 TTTACATA
1 TATACATA
82893192 GCATTTACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 12 0.44
24 15 0.56
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (24 bp):
TATACATAATATAGTATAAAAATG
Found at i:82893297 original size:17 final size:17
Alignment explanation
Indices: 82893247--82893294 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
82893237 ATATTATATA
* *
82893247 AATATAATAATAAATAAT
1 AATATAAAAAT-AACAAT
*
82893265 AATATAATAATAACAAT
1 AATATAAAAATAACAAT
82893282 AATAGTAAAAATA
1 AATA-TAAAAATA
82893295 CAAAAGAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (17 bp):
AATATAAAAATAACAAT
Found at i:82893455 original size:3 final size:3
Alignment explanation
Indices: 82893447--82893544 Score: 60
Period size: 3 Copynumber: 32.0 Consensus size: 3
82893437 ACTAATATTT
* * * *
82893447 ATA ATA ATA ATA GTA A-A TACA ATA ATA ATA TTA AGT- ATA GT- ATAA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA A-TA ATA ATA AT-A
* *
82893492 ATA ATA TGTA CATA ATA ATA ATA ATA ATA AGTA ACA ATA AT- ATA ATA
1 ATA ATA -ATA -ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA
82893539 ATA ATA
1 ATA ATA
82893545 TAGCAAAATT
Statistics
Matches: 74, Mismatches: 12, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
2 5 0.07
3 58 0.78
4 11 0.15
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:82894718 original size:23 final size:23
Alignment explanation
Indices: 82894692--82894758 Score: 91
Period size: 23 Copynumber: 2.9 Consensus size: 23
82894682 TTTGGGCTTC
**
82894692 GGGTTT-GATGTAAATGGGTTTTG
1 GGGTTTAG-TGTAAATGGGTCATG
*
82894715 GGGTTTAGTGTAAATGAGTCATG
1 GGGTTTAGTGTAAATGGGTCATG
82894738 GGGTTTAGTGTAAATGGGTCA
1 GGGTTTAGTGTAAATGGGTCA
82894759 GGCAAAATTG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 38 0.97
24 1 0.03
ACGTcount: A:0.22, C:0.03, G:0.37, T:0.37
Consensus pattern (23 bp):
GGGTTTAGTGTAAATGGGTCATG
Found at i:82905682 original size:13 final size:13
Alignment explanation
Indices: 82905661--82905694 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
82905651 TTTGAAGGGT
*
82905661 ACACAGGCTAGAC
1 ACACGGGCTAGAC
82905674 ACACGGGCTAGAC
1 ACACGGGCTAGAC
82905687 ACACGGGC
1 ACACGGGC
82905695 GTGCGGTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.32, C:0.32, G:0.29, T:0.06
Consensus pattern (13 bp):
ACACGGGCTAGAC
Found at i:82912010 original size:24 final size:25
Alignment explanation
Indices: 82911983--82912034 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
82911973 GCCTAGCCTC
82911983 TTTTAAT-AACAGGGGCAAAGCCCT
1 TTTTAATAAACAGGGGCAAAGCCCT
* *
82912007 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACAGGGGCAAAGCCCT
82912032 TTT
1 TTT
82912035 CGGTAAATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (25 bp):
TTTTAATAAACAGGGGCAAAGCCCT
Found at i:82912028 original size:25 final size:25
Alignment explanation
Indices: 82911994--82912059 Score: 96
Period size: 25 Copynumber: 2.6 Consensus size: 25
82911984 TTTAATAACA
*
82911994 GGGGCAAAGCCCTTTTTGATAAACT
1 GGGGCAAAGCCCTTTTCGATAAACT
* *
82912019 GGGGCAAAGCCCTTTTCGGTAAATT
1 GGGGCAAAGCCCTTTTCGATAAACT
*
82912044 GGGGCATAGCCCTTTT
1 GGGGCAAAGCCCTTTT
82912060 GCACTTCCTC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (25 bp):
GGGGCAAAGCCCTTTTCGATAAACT
Found at i:82912128 original size:11 final size:10
Alignment explanation
Indices: 82912104--82912139 Score: 63
Period size: 10 Copynumber: 3.5 Consensus size: 10
82912094 ATATATGAAT
82912104 ATATCATGGC
1 ATATCATGGC
82912114 ATATCATGTGC
1 ATATCATG-GC
82912125 ATATCATGGC
1 ATATCATGGC
82912135 ATATC
1 ATATC
82912140 GTAAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 15 0.60
11 10 0.40
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (10 bp):
ATATCATGGC
Found at i:82913739 original size:32 final size:32
Alignment explanation
Indices: 82913700--82913763 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
82913690 AAATTTTTAA
82913700 TAAGGCTATCTATCCAAAGCCCCTAACTTCTT
1 TAAGGCTATCTATCCAAAGCCCCTAACTTCTT
82913732 TAAGGCTATCTATCCAAAGCCCCTAACTTCTT
1 TAAGGCTATCTATCCAAAGCCCCTAACTTCTT
82913764 ATGTCTAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.31
Consensus pattern (32 bp):
TAAGGCTATCTATCCAAAGCCCCTAACTTCTT
Found at i:82919381 original size:31 final size:31
Alignment explanation
Indices: 82919343--82919402 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
82919333 TGTTTAACGG
*
82919343 TTACTGGGTCGAAGCCTTTTCATAATTCACA
1 TTACTGGGTCGAAGCCTTTCCATAATTCACA
*
82919374 TTACTGGGTCGAAGCCTTTCCATATTTCA
1 TTACTGGGTCGAAGCCTTTCCATAATTCA
82919403 TATTTCATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (31 bp):
TTACTGGGTCGAAGCCTTTCCATAATTCACA
Found at i:82919679 original size:25 final size:25
Alignment explanation
Indices: 82919651--82919745 Score: 154
Period size: 25 Copynumber: 3.8 Consensus size: 25
82919641 CTCTTTTAAT
*
82919651 AACTGGGGCAATGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
82919676 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
82919701 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
82919726 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
82919746 GCACTTCCTC
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 66 1.00
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.28
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:82919803 original size:10 final size:10
Alignment explanation
Indices: 82919790--82919827 Score: 67
Period size: 10 Copynumber: 3.7 Consensus size: 10
82919780 ATATATGAAT
82919790 ATATCATGGC
1 ATATCATGGC
82919800 ATATCATGTGC
1 ATATCATG-GC
82919811 ATATCATGGC
1 ATATCATGGC
82919821 ATATCAT
1 ATATCAT
82919828 AAAAAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 17 0.63
11 10 0.37
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (10 bp):
ATATCATGGC
Found at i:82933914 original size:31 final size:29
Alignment explanation
Indices: 82933843--82933920 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 29
82933833 CCGTTTACAT
82933843 AGGCTTCGG-CC-GTGATATGATTTATGA
1 AGGCTTCGGCCCAGTGATATGATTTATGA
* *
82933870 AGGCTGCGACCCAGTGATATGATTTATGGAA
1 AGGCTTCGGCCCAGTGATATGATTTAT-G-A
82933901 AGGCTTCGGCCCAGT-ATATG
1 AGGCTTCGGCCCAGTGATATG
82933921 TCAGACTAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
27 7 0.16
28 2 0.05
29 14 0.33
30 6 0.14
31 14 0.33
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.28
Consensus pattern (29 bp):
AGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:82935599 original size:40 final size:40
Alignment explanation
Indices: 82935429--82935592 Score: 262
Period size: 40 Copynumber: 4.2 Consensus size: 40
82935419 AACCCAAGTA
* *
82935429 CCTTCGGGATTTAG-CCGGATATAGCAACT-GCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* * *
82935467 -CTTCGGGACTTAGCCCGTATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
82935506 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
82935546 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
82935586 CCTTCGG
1 CCTTCGG
82935593 ATCTTAGTCC
Statistics
Matches: 115, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
37 12 0.10
38 11 0.10
39 9 0.08
40 83 0.72
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:82936877 original size:13 final size:13
Alignment explanation
Indices: 82936854--82936887 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
82936844 TTATTTTATT
82936854 ATTTCTAACACAAA
1 ATTT-TAACACAAA
82936868 ATTTTAACACAAA
1 ATTTTAACACAAA
82936881 ATGTTTA
1 AT-TTTA
82936888 TAATATGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (13 bp):
ATTTTAACACAAA
Found at i:82943575 original size:40 final size:40
Alignment explanation
Indices: 82943403--82943568 Score: 271
Period size: 40 Copynumber: 4.2 Consensus size: 40
82943393 AACCCAAGTA
* * *
82943403 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
82943442 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
82943482 CCTTCGGGACTTAGCCCAGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
82943522 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
82943562 CCTTCGG
1 CCTTCGG
82943569 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 13 0.11
40 104 0.89
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:82944894 original size:13 final size:13
Alignment explanation
Indices: 82944871--82944904 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
82944861 TTATTTTATT
82944871 ATTTCTAACACAAA
1 ATTT-TAACACAAA
82944885 ATTTTAACACAAA
1 ATTTTAACACAAA
82944898 ATGTTTA
1 AT-TTTA
82944905 TAATATGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (13 bp):
ATTTTAACACAAA
Found at i:82947669 original size:93 final size:93
Alignment explanation
Indices: 82947562--82947734 Score: 294
Period size: 93 Copynumber: 1.9 Consensus size: 93
82947552 CGCCCATAAG
*
82947562 CGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCGGA-CGCTCGCATCCATAAGTGAACTCGGACTCAACTC
82947626 AACAAGCTCGGATGCCTAGTTACATCTCA
65 AACAAGCTCGGATGCCTAGTTACATCTCA
*
82947655 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
82947720 ACGAGTTCGGATGCC
66 ACAAGCTCGGATGCC
82947735 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
93 73 0.97
94 2 0.03
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACAAGCTCGGATGCCTAGTTACATCTCA
Done.