Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 115 of 214
Found at i:34912557 original size:16 final size:16
Alignment explanation
Indices: 34912532--34912569 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
34912522 AATAGAATGC
34912532 AAAAATT-AAATTAAA
1 AAAAATTAAAATTAAA
34912547 AAAATATTAAAATTAAA
1 AAAA-ATTAAAATTAAA
34912564 ATAAAA
1 A-AAAA
34912570 AATTGCTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 4 0.20
16 3 0.15
17 10 0.50
18 3 0.15
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAATTAAAATTAAA
Found at i:34914518 original size:18 final size:19
Alignment explanation
Indices: 34914495--34914535 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
34914485 TTTTATGTGT
*
34914495 TATAAATTATATAATAT-A
1 TATAAATAATATAATATAA
34914513 TATAAATAATATAATATAA
1 TATAAATAATATAATATAA
34914532 TATA
1 TATA
34914536 TTAATTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TATAAATAATATAATATAA
Found at i:34914526 original size:5 final size:5
Alignment explanation
Indices: 34914503--34914535 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
34914493 GTTATAAATT
34914503 ATATA ATAT- ATATA A-ATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA
34914536 TTAATTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 8 0.31
5 18 0.69
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:34914540 original size:8 final size:10
Alignment explanation
Indices: 34914503--34914535 Score: 52
Period size: 9 Copynumber: 3.5 Consensus size: 10
34914493 GTTATAAATT
34914503 ATATAATAT-
1 ATATAATATA
34914512 ATATAA-ATA
1 ATATAATATA
34914521 ATATAATATA
1 ATATAATATA
34914531 ATATA
1 ATATA
34914536 TTAATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 2 0.09
9 12 0.55
10 8 0.36
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
ATATAATATA
Found at i:34914921 original size:2 final size:2
Alignment explanation
Indices: 34914871--34914904 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
34914861 CTGTTATAGA
34914871 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34914905 GATTTGTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34915201 original size:15 final size:16
Alignment explanation
Indices: 34915171--34915203 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
34915161 ATAAATCTTA
34915171 TAAAATATGGAATAAAT
1 TAAAATAT-GAATAAAT
34915188 TAAAATAT-AATAAAT
1 TAAAATATGAATAAAT
34915203 T
1 T
34915204 GAGAAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (16 bp):
TAAAATATGAATAAAT
Found at i:34915520 original size:25 final size:24
Alignment explanation
Indices: 34915458--34915525 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 24
34915448 TAAGTATATA
** *
34915458 ATAATTTAAAAATAATTAAA-ATT
1 ATAATTTTTAAATAATTAAATACT
*
34915481 A-AATTTTTTAA-AATTAAATTACT
1 ATAATTTTTAAATAATTAAA-TACT
34915504 ATAATTTTTAAATAATTTAAAT
1 ATAATTTTTAAATAA-TTAAAT
34915526 CAAATTATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
21 7 0.20
22 7 0.20
23 4 0.11
24 9 0.26
25 3 0.09
26 5 0.14
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (24 bp):
ATAATTTTTAAATAATTAAATACT
Found at i:34916587 original size:75 final size:75
Alignment explanation
Indices: 34916508--34916688 Score: 229
Period size: 75 Copynumber: 2.3 Consensus size: 75
34916498 ATATGTTTCT
* * * **
34916508 GTTTTTTTTTTAATATTTATTTTTTAGTAGATGCAAGTAAGGTATGATCCCATTGAGTTTATTTA
1 GTTTTTTTTTTAACATTTATTTTTTAGTAAATGCAAATAACATATGATCCCATTGAGTTTATTTA
34916573 TTTTTTGATA
66 TTTTTTGATA
* *
34916583 G-TTTTTTTTTAACATTTGTTTTTTTAGTAAATGCAAATAACATATGATCCTATTGAGTTTATTT
1 GTTTTTTTTTTAACATTT-ATTTTTTAGTAAATGCAAATAACATATGATCCCATTGAGTTTATTT
*
34916647 GTTTTTTGATA
65 ATTTTTTGATA
34916658 GTTTATGTTTCTTTAACATTATTATTTTTTA
1 GTTT-T-TTT-TTTAACA-T-TTATTTTTTA
34916689 TGTACTTAAT
Statistics
Matches: 90, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
74 15 0.17
75 52 0.58
76 2 0.02
77 1 0.01
78 3 0.03
79 7 0.08
80 8 0.09
81 2 0.02
ACGTcount: A:0.25, C:0.06, G:0.12, T:0.56
Consensus pattern (75 bp):
GTTTTTTTTTTAACATTTATTTTTTAGTAAATGCAAATAACATATGATCCCATTGAGTTTATTTA
TTTTTTGATA
Found at i:34922344 original size:21 final size:22
Alignment explanation
Indices: 34922311--34922351 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
34922301 TTAAAAAAAC
*
34922311 ATACTAAA-TTTTTTTTTATAT
1 ATACTAAACTTTTGTTTTATAT
*
34922332 ATACTAACCTTTTGTTTTAT
1 ATACTAAACTTTTGTTTTAT
34922352 CTTCTTTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.59
Consensus pattern (22 bp):
ATACTAAACTTTTGTTTTATAT
Found at i:34927456 original size:46 final size:46
Alignment explanation
Indices: 34927388--34927624 Score: 325
Period size: 46 Copynumber: 5.1 Consensus size: 46
34927378 TACCCTATTT
* * *
34927388 TGGACAGCATTTATACATCAAATTGGACAACATTAATATGCTCAAAA
1 TGGACAACA-TTATACATCAAATTGGACAGCATCAATATGCTCAAAA
*
34927435 TGGACAACATTATACATCAAATTGGATAGCATCAATATGCTCAAAA
1 TGGACAACATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
* * *
34927481 TGGACAGA-ATTATACATCAAATTGGACAGCTTTAATATGCTCAAAT
1 TGGACA-ACATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
* *
34927527 TGGA-AATCATTATACATCAAATTGGACAACATCAATATGCTTAAAA
1 TGGACAA-CATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
* * *
34927573 TGGACAACATTATCCATCAAATTGGACAGCATCAATATACTCAAAT
1 TGGACAACATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
34927619 TGGACA
1 TGGACA
34927625 GCATCAATAT
Statistics
Matches: 168, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 155 0.92
47 11 0.07
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.27
Consensus pattern (46 bp):
TGGACAACATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
Found at i:34930011 original size:49 final size:47
Alignment explanation
Indices: 34929788--34930285 Score: 758
Period size: 47 Copynumber: 10.6 Consensus size: 47
34929778 CCCTTCGGGA
* * * * * *
34929788 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
34929834 CTCTGTCACATATATACACTTTCACATTCATCTCATCGGCCATTAGGC
1 CT-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
34929882 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34929929 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34929976 CTTATCACATAGATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAT--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
34930025 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGC
34930074 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34930121 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGC
34930170 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34930219 C-T-T---AT-TATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
34930260 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
34930286 CACAATTATC
Statistics
Matches: 420, Mismatches: 16, Indels: 31
0.90 0.03 0.07
Matches are distributed among these distances:
41 37 0.09
42 3 0.01
43 1 0.00
46 4 0.01
47 193 0.46
48 3 0.01
49 177 0.42
51 2 0.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:34930076 original size:145 final size:143
Alignment explanation
Indices: 34929788--34930285 Score: 773
Period size: 145 Copynumber: 3.5 Consensus size: 143
34929778 CCCTTCGGGA
* * * * * * *
34929788 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-CTCTGTCACAT-ATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT-TATCACATGATATAC
* *
34929851 ACTTTCACATTCATCTCATCGGCCATTAGGCCTCATCACA-TATATACACTTTCACATTCATCAC
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATTATATACACTTTCACATTCATCAC
*
34929915 ATCGGCTATTAGGC
130 ATCGGCCATTAGGC
34929929 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAGATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT-GATATAC
34929994 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT-TATATACACTTTCACATTCATCA
34930059 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
34930074 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATG-ATATAC
34930139 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT-TATATACACTTTCACATTCATCA
34930204 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
*
34930219 C-T-T---AT-TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT-ATATATA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGATATACA
*
34930277 CATTCACAT
66 CTTTCACAT
34930286 CACAATTATC
Statistics
Matches: 338, Mismatches: 13, Indels: 16
0.92 0.04 0.04
Matches are distributed among these distances:
137 14 0.04
139 46 0.14
140 2 0.01
141 47 0.14
142 2 0.01
143 45 0.13
144 2 0.01
145 180 0.53
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGATATACA
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATTATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:34930229 original size:41 final size:41
Alignment explanation
Indices: 34930183--34930264 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
34930173 ATCACATATA
34930183 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
34930224 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
34930265 CACATATATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (41 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
Found at i:34935375 original size:23 final size:22
Alignment explanation
Indices: 34935324--34935375 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
34935314 CCTCGTCTTT
*
34935324 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
34935346 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
34935369 TTCTTTT
1 TTCTTTT
34935376 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:34935390 original size:18 final size:18
Alignment explanation
Indices: 34935369--34935407 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
34935359 TTTCTTCAAC
* *
34935369 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
34935387 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
34935405 TTC
1 TTC
34935408 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:34938026 original size:40 final size:40
Alignment explanation
Indices: 34937935--34938065 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
34937925 TGACTCGTAT
* * **
34937935 CACTAAGTGCCTTACATAGCCGAAGCTATCTCAGTCTCGCA
1 CACTAAGTGCCATAAATAGCCGAAGCTATCTCA-AATCGCA
* *
34937976 CACTAAGTGCCATATATAGCCGAAGCTATTTCAAATCGCA
1 CACTAAGTGCCATAAATAGCCGAAGCTATCTCAAATCGCA
**
34938016 CACTAAGTGCCATAAATAGCCGAAGCTATCTCAAATTTCA
1 CACTAAGTGCCATAAATAGCCGAAGCTATCTCAAATCGCA
*
34938056 TACTAAGTGC
1 CACTAAGTGC
34938066 TAAACATAGC
Statistics
Matches: 80, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
40 50 0.62
41 30 0.38
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (40 bp):
CACTAAGTGCCATAAATAGCCGAAGCTATCTCAAATCGCA
Found at i:34944475 original size:46 final size:46
Alignment explanation
Indices: 34944407--34944687 Score: 386
Period size: 46 Copynumber: 6.1 Consensus size: 46
34944397 TACCTTGTTT
*
34944407 TGGACATCATTTATACATCAAATTGGACAGCAAT-AATATGCTCAAAA
1 TGGACAACA-TTATACATCAAATTGGACAGC-ATCAATATGCTCAAAA
34944454 TGGACAACATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
1 TGGACAACATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
* * * * * * *
34944500 TGGAGAGCATTATACATCAAATTAGATAGCTTTAATATGCTCAAAT
1 TGGACAACATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
* * * *
34944546 TGGACTGA-ATTATACATCAAATTAGACAACATCAATATGGTCAAAA
1 TGGAC-AACATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
* *
34944592 TGGACAGCATTATACATCGAATTGGACAGCATCAATATGCTCAAAA
1 TGGACAACATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
*
34944638 TGGACAACATTATACATCAAATTGGGCAGCATCAATATGCTCAAAA
1 TGGACAACATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
34944684 TGGA
1 TGGA
34944688 GAATTATAAC
Statistics
Matches: 205, Mismatches: 26, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
45 2 0.01
46 195 0.95
47 8 0.04
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (46 bp):
TGGACAACATTATACATCAAATTGGACAGCATCAATATGCTCAAAA
Found at i:34945447 original size:41 final size:40
Alignment explanation
Indices: 34945383--34945518 Score: 166
Period size: 41 Copynumber: 3.4 Consensus size: 40
34945373 TTGCCATCGT
* * *
34945383 ATAGCCGAAGTTATTATAATCTCGCACACTAAGTGCCTTAC
1 ATAGCCGAAGCTATTAT-ATCTCGCACACTAAGTGCCATAA
*
34945424 ATAGCCGAAGCTATCT-TAGTCTCGCACACTAAGTGCCATAT
1 ATAGCCGAAGCTAT-TATA-TCTCGCACACTAAGTGCCATAA
** **
34945465 ATAGCCGAAGCTATTCCAAATCGCACACTAAGTGCCATAA
1 ATAGCCGAAGCTATTATATCTCGCACACTAAGTGCCATAA
34945505 ATAGCCGAAGCTAT
1 ATAGCCGAAGCTAT
34945519 CTTGAATTTC
Statistics
Matches: 85, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
40 35 0.41
41 49 0.58
42 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (40 bp):
ATAGCCGAAGCTATTATATCTCGCACACTAAGTGCCATAA
Found at i:34945500 original size:40 final size:42
Alignment explanation
Indices: 34945404--34945518 Score: 155
Period size: 40 Copynumber: 2.8 Consensus size: 42
34945394 TATTATAATC
* * * **
34945404 TCGCACACTAAGTGCCTTACATAGCCGAAGCTA-TCTTAGTC
1 TCGCACACTAAGTGCCATAAATAGCCGAAGCTATTCTCAGAA
*
34945445 TCGCACACTAAGTGCCATATATAGCCGAAGCTATTC-CA-AA
1 TCGCACACTAAGTGCCATAAATAGCCGAAGCTATTCTCAGAA
34945485 TCGCACACTAAGTGCCATAAATAGCCGAAGCTAT
1 TCGCACACTAAGTGCCATAAATAGCCGAAGCTAT
34945519 CTTGAATTTC
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
40 33 0.49
41 32 0.48
42 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (42 bp):
TCGCACACTAAGTGCCATAAATAGCCGAAGCTATTCTCAGAA
Found at i:34945535 original size:40 final size:39
Alignment explanation
Indices: 34945383--34945539 Score: 154
Period size: 41 Copynumber: 3.9 Consensus size: 39
34945373 TTGCCATCGT
* * *
34945383 ATAGCCGAAGTTAT-TATAATCTCGCACACTAAGTGCCTTAC
1 ATAGCCGAAGCTATCT-TAAT-T-GCACACTAAGTGCCATAA
* *
34945424 ATAGCCGAAGCTATCTTAGTCTCGCACACTAAGTGCCATAT
1 ATAGCCGAAGCTATCTTAAT-T-GCACACTAAGTGCCATAA
** *
34945465 ATAGCCGAAGCTATTCCAAATCGCACACTAAGTGCCATAA
1 ATAGCCGAAGCTA-TCTTAATTGCACACTAAGTGCCATAA
* *
34945505 ATAGCCGAAGCTATCTTGAATTTCATACTAAGTGC
1 ATAGCCGAAGCTATCTT-AATTGCACACTAAGTGC
34945540 TAAACATAGC
Statistics
Matches: 99, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 2 0.02
40 44 0.44
41 48 0.48
42 5 0.05
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (39 bp):
ATAGCCGAAGCTATCTTAATTGCACACTAAGTGCCATAA
Found at i:34950759 original size:43 final size:45
Alignment explanation
Indices: 34950712--34950796 Score: 138
Period size: 44 Copynumber: 1.9 Consensus size: 45
34950702 TTCTAACTAA
* *
34950712 AAATTATAATTA-TTTTAAATGTGTAATTATCAAAA-TTTTTATT
1 AAATTATAATTATTTTTAAATGTATAATTATAAAAACTTTTTATT
34950755 AAATTATAATTATTTTTAAATGTATAATTATAAAAACTTTTT
1 AAATTATAATTATTTTTAAATGTATAATTATAAAAACTTTTT
34950797 TATATCAACT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
43 12 0.32
44 21 0.55
45 5 0.13
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (45 bp):
AAATTATAATTATTTTTAAATGTATAATTATAAAAACTTTTTATT
Found at i:34950795 original size:24 final size:23
Alignment explanation
Indices: 34950713--34950795 Score: 64
Period size: 23 Copynumber: 3.7 Consensus size: 23
34950703 TCTAACTAAA
** *
34950713 AATTATAATTATTTTAAATGTGT
1 AATTATAAAAATTTTAAATGTAT
* *
34950736 AATTATCAAAATTTT-TAT-TA-
1 AATTATAAAAATTTTAAATGTAT
* *
34950756 AATTATAATTATTTTTAAATGTAT
1 AATTATAA-AAATTTTAAATGTAT
34950780 AATTATAAAAACTTTT
1 AATTATAAAAA-TTTT
34950796 TTATATCAAC
Statistics
Matches: 44, Mismatches: 11, Indels: 9
0.69 0.17 0.14
Matches are distributed among these distances:
20 7 0.16
21 6 0.14
22 4 0.09
23 15 0.34
24 12 0.27
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (23 bp):
AATTATAAAAATTTTAAATGTAT
Found at i:34953188 original size:21 final size:22
Alignment explanation
Indices: 34953148--34953188 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
34953138 ATATTTTCTA
* *
34953148 AATTATTAAAATTTTTAATTAG
1 AATTATTAAAATATTAAATTAG
34953170 AATT-TTAAAATATTAAATT
1 AATTATTAAAATATTAAATT
34953189 TTATGCAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
AATTATTAAAATATTAAATTAG
Found at i:34968473 original size:40 final size:40
Alignment explanation
Indices: 34968436--34968621 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
34968426 GCTACTCGTT
* *
34968436 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
34968476 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
34968516 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
34968556 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
34968597 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
34968622 CATCATTCAA
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 3 0.02
40 117 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:34976440 original size:40 final size:40
Alignment explanation
Indices: 34976403--34976588 Score: 268
Period size: 40 Copynumber: 4.7 Consensus size: 40
34976393 GCTACTCGTT
*
34976403 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
34976443 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
34976483 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
34976523 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
34976564 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
34976589 CATCATTCAA
Statistics
Matches: 135, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
39 3 0.02
40 121 0.90
41 11 0.08
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:34978592 original size:16 final size:16
Alignment explanation
Indices: 34978571--34978602 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34978561 TAATTGATTG
*
34978571 ATTTTTAGTTTAATTA
1 ATTTTTAGGTTAATTA
34978587 ATTTTTAGGTTAATTA
1 ATTTTTAGGTTAATTA
34978603 GATTAATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.59
Consensus pattern (16 bp):
ATTTTTAGGTTAATTA
Found at i:34982291 original size:23 final size:23
Alignment explanation
Indices: 34982263--34982306 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
34982253 CTTTCTTACT
*
34982263 GTAGTAATTTTCGGGGTATTATA
1 GTAGTAATTTTCGGGATATTATA
34982286 GTAGTAATTTTCGGGATATTA
1 GTAGTAATTTTCGGGATATTA
34982307 CACATCATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.27, C:0.05, G:0.25, T:0.43
Consensus pattern (23 bp):
GTAGTAATTTTCGGGATATTATA
Found at i:34982817 original size:21 final size:21
Alignment explanation
Indices: 34982791--34982832 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
34982781 CGAGTAGAAA
34982791 TCTAGTAAACTAAAAAAAGCC
1 TCTAGTAAACTAAAAAAAGCC
34982812 TCTAGTAAACTAAAAAAAGCC
1 TCTAGTAAACTAAAAAAAGCC
34982833 CACGAACAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.19, G:0.10, T:0.19
Consensus pattern (21 bp):
TCTAGTAAACTAAAAAAAGCC
Found at i:34989489 original size:43 final size:44
Alignment explanation
Indices: 34989429--34989585 Score: 171
Period size: 43 Copynumber: 3.6 Consensus size: 44
34989419 TTCGTATAAT
* * *
34989429 ACCATAGCTGGGCTA-TGGCATCAATATATGAGATTTTGTGTAA-
1 ACCATATCTGGGATATTGGCATCGATATATG-GATTTTGTGTAAG
* **
34989472 ACTATATCTGGGATA-TGGCATCGATATATGTGATTGCGTGTAAG
1 ACCATATCTGGGATATTGGCATCGATATATG-GATTTTGTGTAAG
* *
34989516 ACCATGTCTGGGACATTGGCATCGATATAT-GA-TTTGTGTAAG
1 ACCATATCTGGGATATTGGCATCGATATATGGATTTTGTGTAAG
* *
34989558 ACCATAGCTGGGCTATTGGCATCGATAT
1 ACCATATCTGGGATATTGGCATCGATAT
34989586 GTGATAACAT
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
42 32 0.33
43 38 0.40
44 12 0.12
45 14 0.15
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.32
Consensus pattern (44 bp):
ACCATATCTGGGATATTGGCATCGATATATGGATTTTGTGTAAG
Found at i:34989569 original size:42 final size:41
Alignment explanation
Indices: 34989414--34989590 Score: 155
Period size: 42 Copynumber: 4.1 Consensus size: 41
34989404 ATGGCATTAC
* * *
34989414 ATGATTTCGTATAATACCATAGCTGGGC-TATGGCATCAATAT
1 ATGATTT-GTGTAAGACCATAGCTGGGCAT-TGGCATCGATAT
* *
34989456 ATGAGATTTTGTGTAA-ACTATATCTGGG-ATATGGCATCGATAT
1 AT--GA-TTTGTGTAAGACCATAGCTGGGCAT-TGGCATCGATAT
*
34989499 ATGTGATTGCGTGTAAGACCAT-GTCTGGGACATTGGCATCGATAT
1 A--TGATT-TGTGTAAGACCATAG-CTGGG-CATTGGCATCGATAT
34989544 ATGATTTGTGTAAGACCATAGCTGGGCTATTGGCATCGATAT
1 ATGATTTGTGTAAGACCATAGCTGGGC-ATTGGCATCGATAT
*
34989586 GTGAT
1 ATGAT
34989591 AACATGTAAG
Statistics
Matches: 113, Mismatches: 9, Indels: 26
0.76 0.06 0.18
Matches are distributed among these distances:
41 1 0.01
42 39 0.35
43 38 0.34
44 16 0.14
45 17 0.15
46 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.34
Consensus pattern (41 bp):
ATGATTTGTGTAAGACCATAGCTGGGCATTGGCATCGATAT
Found at i:34989599 original size:85 final size:86
Alignment explanation
Indices: 34989444--34989602 Score: 198
Period size: 85 Copynumber: 1.8 Consensus size: 86
34989434 AGCTGGGCTA
* * **
34989444 TGGCATCAATATATGAGATTTTGTGTAAACTATATCTGGGATATGGCATCGATATATGTGATTGC
1 TGGCATCAATATAT-AGATTTTGTGTAAACCATAGCTGGGATATGGCATCGA-ATATGTGATAAC
*
34989509 GTGTAAGACCATGTCTGGGACAT
64 ATGTAAGACCATGTCTGGGACAT
* *
34989532 TGGCATCGATATAT-GA-TTTGTGTAAGACCATAGCTGGGCTATTGGCATCG-ATATGTGATAAC
1 TGGCATCAATATATAGATTTTGTGTAA-ACCATAGCTGGGATA-TGGCATCGAATATGTGATAAC
34989594 ATGTAAGAC
64 ATGTAAGAC
34989603 TATATCTAGG
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
85 27 0.44
86 14 0.23
87 8 0.13
88 13 0.21
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (86 bp):
TGGCATCAATATATAGATTTTGTGTAAACCATAGCTGGGATATGGCATCGAATATGTGATAACAT
GTAAGACCATGTCTGGGACAT
Found at i:34989620 original size:42 final size:42
Alignment explanation
Indices: 34989466--34989630 Score: 149
Period size: 42 Copynumber: 3.9 Consensus size: 42
34989456 ATGAGATTTT
* *
34989466 GTGTAA-ACTATATCTGGGATA-TGGCATCGATATATGTGATTGC
1 GTGTAAGACCATATCTGGGATATTGGCATCG--ATATGTGA-TAC
* * * **
34989509 GTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATTT
1 GTGTAAGACCATATCTGGGATATTGGCATCGATATGTGATAC
* *
34989551 GTGTAAGACCATAGCTGGGCTATTGGCATCGATATGTGATAAC
1 GTGTAAGACCATATCTGGGATATTGGCATCGATATGTGAT-AC
* * * *
34989594 ATGTAAGACTATATCTAGGATA-TGGCATTG-TATGTGA
1 GTGTAAGACCATATCTGGGATATTGGCATCGATATGTGA
34989631 CATACGAGAC
Statistics
Matches: 100, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
41 7 0.07
42 43 0.43
43 30 0.30
44 12 0.12
45 8 0.08
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATTGGCATCGATATGTGATAC
Found at i:34992811 original size:11 final size:11
Alignment explanation
Indices: 34992795--34992893 Score: 51
Period size: 11 Copynumber: 9.9 Consensus size: 11
34992785 TAAAAAATTT
34992795 TATTTTAAAAA
1 TATTTTAAAAA
34992806 TATTTT--AAA
1 TATTTTAAAAA
34992815 -A--TTAAAAA
1 TATTTTAAAAA
** *
34992823 -AAATTAAAAG
1 TATTTTAAAAA
34992833 TATTTTAAAAA
1 TATTTTAAAAA
34992844 TATTTT--AAA
1 TATTTTAAAAA
34992853 -A--TTAAAAA
1 TATTTTAAAAA
*
34992861 -ATTTAAAAAAA
1 TATTT-TAAAAA
*
34992872 GTATTTTAAAAT
1 -TATTTTAAAAA
34992884 TATTTTAAAA
1 TATTTTAAAA
34992894 TTTAAAAAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 24
0.69 0.07 0.24
Matches are distributed among these distances:
6 4 0.06
8 10 0.14
9 6 0.09
10 7 0.10
11 34 0.49
12 4 0.06
13 4 0.06
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:34992888 original size:40 final size:39
Alignment explanation
Indices: 34992756--34992911 Score: 179
Period size: 40 Copynumber: 3.8 Consensus size: 39
34992746 ATAAATACCA
**
34992756 AAAAATTATTTTGAAAATTAAAACAAAAATAAAAAATTTTATTTT
1 AAAAA-TATTTT-AAAATT--AA-AAAAATAAAAAA-AGTATTTT
**
34992801 AAAAATATTTTAAAATTAAAAAAA-ATTAAAAGTATTTT
1 AAAAATATTTTAAAATTAAAAAAATAAAAAAAGTATTTT
*
34992839 AAAAATATTTTAAAATTAAAAAATTTAAAAAAAGTATTTT
1 AAAAATATTTTAAAATTAAAAAA-ATAAAAAAAGTATTTT
*
34992879 AAAATTATTTTAAAATTTAAAAAAATAAAAAAA
1 AAAAATATTTTAAAA-TTAAAAAAATAAAAAAA
34992912 TAAAAAAATT
Statistics
Matches: 99, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
38 29 0.29
39 4 0.04
40 39 0.39
41 10 0.10
43 6 0.06
44 6 0.06
45 5 0.05
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.36
Consensus pattern (39 bp):
AAAAATATTTTAAAATTAAAAAAATAAAAAAAGTATTTT
Found at i:34992909 original size:9 final size:8
Alignment explanation
Indices: 34992896--34992920 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
34992886 TTTTAAAATT
34992896 TAAAAAAA
1 TAAAAAAA
34992904 TAAAAAAA
1 TAAAAAAA
34992912 TAAAAAAA
1 TAAAAAAA
34992920 T
1 T
34992921 TATTGTATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (8 bp):
TAAAAAAA
Found at i:34993373 original size:43 final size:43
Alignment explanation
Indices: 34993325--34993411 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
34993315 TTCATATTTC
* *
34993325 TTTTCTCATCTCATAATCATTTCTCATCTTTTCCATTTCAATA
1 TTTTCTCATCTCATAATCATTTCTCACCTTTGCCATTTCAATA
*
34993368 TTTTCTCATCTCATATTCATTTCTCACCTTTGCCATTTCAATA
1 TTTTCTCATCTCATAATCATTTCTCACCTTTGCCATTTCAATA
34993411 T
1 T
34993412 CAGTCACATA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.22, C:0.26, G:0.01, T:0.51
Consensus pattern (43 bp):
TTTTCTCATCTCATAATCATTTCTCACCTTTGCCATTTCAATA
Found at i:34994099 original size:25 final size:24
Alignment explanation
Indices: 34994053--34994100 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
34994043 AATATTACTC
*
34994053 ATTTTAATTTCACATTAAATTTTA
1 ATTTTAATTTCACACTAAATTTTA
*
34994077 ATTTTAATTTTCACACTATATTTT
1 ATTTTAA-TTTCACACTAAATTTT
34994101 GCTTATTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.56
Consensus pattern (24 bp):
ATTTTAATTTCACACTAAATTTTA
Found at i:34994601 original size:24 final size:23
Alignment explanation
Indices: 34994569--34994623 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
34994559 TCATTTCATT
*
34994569 TTATATATTTTAGTATAA-ATATTA
1 TTATATA-TTTAATATAACATA-TA
*
34994593 TTATTTATTTAATATAACATATA
1 TTATATATTTAATATAACATATA
*
34994616 TTAAATAT
1 TTATATAT
34994624 ATATACATGC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 17 0.65
24 9 0.35
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
TTATATATTTAATATAACATATA
Found at i:35001357 original size:18 final size:20
Alignment explanation
Indices: 35001334--35001373 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
35001324 AAGGTGGCAA
35001334 TTTTTC-TAT-CACTTCAAT
1 TTTTTCTTATGCACTTCAAT
35001352 TTTTTCTTTATGCACTTCAAT
1 TTTTTC-TTATGCACTTCAAT
35001373 T
1 T
35001374 CCTCTCTGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
20 3 0.16
21 10 0.53
ACGTcount: A:0.20, C:0.20, G:0.03, T:0.57
Consensus pattern (20 bp):
TTTTTCTTATGCACTTCAAT
Found at i:35013168 original size:21 final size:21
Alignment explanation
Indices: 35013135--35013174 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
35013125 AAAGCAATAT
35013135 TAAAAATTCTAACTAAAATGCC
1 TAAAAATTCTAAC-AAAATGCC
*
35013157 TAAAAA-TGTAACAAAATG
1 TAAAAATTCTAACAAAATG
35013175 TACCTAAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 5 0.29
22 6 0.35
ACGTcount: A:0.55, C:0.12, G:0.07, T:0.25
Consensus pattern (21 bp):
TAAAAATTCTAACAAAATGCC
Found at i:35019434 original size:32 final size:32
Alignment explanation
Indices: 35019398--35019460 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
35019388 GAAAAGGCAT
35019398 AATATCATTTCTCAACTTGGCATTCATAGTAA
1 AATATCATTTCTCAACTTGGCATTCATAGTAA
35019430 AATATCATTTCTCAACTTGGCATTCATAGTA
1 AATATCATTTCTCAACTTGGCATTCATAGTA
35019461 GGTGGGTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (32 bp):
AATATCATTTCTCAACTTGGCATTCATAGTAA
Found at i:35028663 original size:27 final size:27
Alignment explanation
Indices: 35028593--35028652 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
35028583 GGAATCTATT
*
35028593 AGAATATGTCACAAAGGCTTTCCATTC
1 AGAATATGCCACAAAGGCTTTCCATTC
*
35028620 AGAATATGCCACAAAGGTTTTCCATTC
1 AGAATATGCCACAAAGGCTTTCCATTC
35028647 AGAATA
1 AGAATA
35028653 CTCCATAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (27 bp):
AGAATATGCCACAAAGGCTTTCCATTC
Found at i:35045635 original size:18 final size:18
Alignment explanation
Indices: 35045612--35045647 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
35045602 GCTTGCTTAG
*
35045612 AAAACTTGCCATGTTTAA
1 AAAACTTACCATGTTTAA
35045630 AAAACTTACCATGTTTAA
1 AAAACTTACCATGTTTAA
35045648 GTTAGCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (18 bp):
AAAACTTACCATGTTTAA
Found at i:35046295 original size:14 final size:14
Alignment explanation
Indices: 35046259--35046287 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
35046249 ATATTGTATA
35046259 TTCATTATTATTTT
1 TTCATTATTATTTT
35046273 TTCATTATTATTTT
1 TTCATTATTATTTT
35046287 T
1 T
35046288 CTCTTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (14 bp):
TTCATTATTATTTT
Found at i:35047843 original size:14 final size:14
Alignment explanation
Indices: 35047824--35047850 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
35047814 TTCAATAAAA
35047824 TATAAATTCAGTAC
1 TATAAATTCAGTAC
35047838 TATAAATTCAGTA
1 TATAAATTCAGTA
35047851 ATTTTTTTCT
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:0.44, C:0.11, G:0.07, T:0.37
Consensus pattern (14 bp):
TATAAATTCAGTAC
Found at i:35092047 original size:52 final size:53
Alignment explanation
Indices: 35091963--35092063 Score: 168
Period size: 52 Copynumber: 1.9 Consensus size: 53
35091953 CCTATGATGA
*
35091963 TTCTAGAATGGAAATGGGAACAAGTTACGAAGGATTTTGTATTGAGATTGCCT
1 TTCTAGAATGGAAATGGGAACAAGTTACGAAGGATTTTGTATCGAGATTGCCT
* *
35092016 TTCT-GAATGGAGATGGGAACAAGTTATGAAGGATTTTGTATCGAGATT
1 TTCTAGAATGGAAATGGGAACAAGTTACGAAGGATTTTGTATCGAGATT
35092064 ACCTCTATCT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
52 41 0.91
53 4 0.09
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.33
Consensus pattern (53 bp):
TTCTAGAATGGAAATGGGAACAAGTTACGAAGGATTTTGTATCGAGATTGCCT
Found at i:35104781 original size:50 final size:50
Alignment explanation
Indices: 35104706--35104891 Score: 207
Period size: 50 Copynumber: 3.7 Consensus size: 50
35104696 GAGAATGTGA
* **
35104706 TCCCATGTAAGACCATGTCTGGGACATGGAATTGGCACCAAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAAC
* * * *
35104756 TCCCATGTAAGACCATGTCTAGGACATGGCATAGGCACCTATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAAC
* * **
35104806 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACA-A-GA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA-AGATGAGAAC
* * *
35104854 ATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 -TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
35104892 TGTTATATTC
Statistics
Matches: 115, Mismatches: 19, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
48 3 0.03
49 34 0.30
50 77 0.67
51 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAAC
Found at i:35108044 original size:14 final size:14
Alignment explanation
Indices: 35108025--35108052 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
35108015 CTACTCGTAT
35108025 AAATATTCTTTTTG
1 AAATATTCTTTTTG
35108039 AAATATTCTTTTTG
1 AAATATTCTTTTTG
35108053 TTTTGTACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (14 bp):
AAATATTCTTTTTG
Found at i:35110084 original size:50 final size:49
Alignment explanation
Indices: 35109976--35110144 Score: 142
Period size: 56 Copynumber: 3.3 Consensus size: 49
35109966 ATTTGGGTAA
* *
35109976 AGAGATCCCATGTAAGACCATGTCT-AGGACATGTCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGA-GACATGGC-TTGGCA-CA--GAG---ATG
35110032 AGAGGTCCCATGTAAGACCATGTCTGAGACATGGCGTTGGCACAGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGAGACATGGC-TTGGCACAGAGATG
** * * * * * *
35110082 AGAGGTCCCCCGTAAGACCATATCTGGGATATGGCATGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGAGACATGGCTTGGCACAGAGATG
**
35110131 AGAACTCCCATGTA
1 AGAGGTCCCATGTA
35110145 TTGGCAGTAC
Statistics
Matches: 97, Mismatches: 15, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
49 21 0.22
50 33 0.34
53 3 0.03
55 2 0.02
56 37 0.38
57 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (49 bp):
AGAGGTCCCATGTAAGACCATGTCTGAGACATGGCTTGGCACAGAGATG
Found at i:35125627 original size:12 final size:12
Alignment explanation
Indices: 35125610--35125635 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
35125600 CATTCCGAAG
35125610 TATATATATACA
1 TATATATATACA
35125622 TATATATATACA
1 TATATATATACA
35125634 TA
1 TA
35125636 AGTATGCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:35126145 original size:27 final size:27
Alignment explanation
Indices: 35126114--35126291 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
35126104 TAAATTGTAC
35126114 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
35126141 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35126167 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
35126195 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
35126223 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35126250 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
35126277 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35126292 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:35126228 original size:82 final size:81
Alignment explanation
Indices: 35126115--35126270 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35126105 AAATTGTACA
* *
35126115 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
35126179 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
35126196 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
35126261 TGCGAGTTGA
65 TGCGAATTGA
35126271 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:35126282 original size:82 final size:81
Alignment explanation
Indices: 35126111--35126291 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
35126101 GATTAAATTG
* *
35126111 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
35126176 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
35126192 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
35126256 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
35126274 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
35126292 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:35134259 original size:27 final size:27
Alignment explanation
Indices: 35134228--35134405 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
35134218 TAAATTGTAC
35134228 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
35134255 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35134281 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
35134309 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
35134337 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35134364 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
35134391 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35134406 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:35134342 original size:82 final size:81
Alignment explanation
Indices: 35134229--35134384 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35134219 AAATTGTACA
* *
35134229 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
35134293 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
35134310 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
35134375 TGCGAGTTGA
65 TGCGAATTGA
35134385 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:35134396 original size:82 final size:81
Alignment explanation
Indices: 35134225--35134405 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
35134215 GATTAAATTG
* *
35134225 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
35134290 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
35134306 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
35134370 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
35134388 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
35134406 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:35137493 original size:17 final size:15
Alignment explanation
Indices: 35137466--35137504 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
35137456 TTGCTGGGGA
*
35137466 TGTTGTTTGTTTGATG
1 TGTTTTTTGTTTG-TG
35137482 TGTATTTTTGTTTGTG
1 TGT-TTTTTGTTTGTG
35137498 TGTTTTT
1 TGTTTTT
35137505 GCACTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 4 0.19
16 8 0.38
17 9 0.43
ACGTcount: A:0.05, C:0.00, G:0.26, T:0.69
Consensus pattern (15 bp):
TGTTTTTTGTTTGTG
Found at i:35140405 original size:29 final size:29
Alignment explanation
Indices: 35140371--35140443 Score: 119
Period size: 29 Copynumber: 2.5 Consensus size: 29
35140361 ATGTATTAGT
* *
35140371 TTAGGACATATTTAAAACACTTGAACTAA
1 TTAGGACATATTTAAAACACCTAAACTAA
*
35140400 TTAGGACATATTTAAAACTCCTAAACTAA
1 TTAGGACATATTTAAAACACCTAAACTAA
35140429 TTAGGACATATTTAA
1 TTAGGACATATTTAA
35140444 TAATATCTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.33
Consensus pattern (29 bp):
TTAGGACATATTTAAAACACCTAAACTAA
Found at i:35144029 original size:39 final size:42
Alignment explanation
Indices: 35143928--35144038 Score: 133
Period size: 40 Copynumber: 2.8 Consensus size: 42
35143918 TTGAATGATG
* *
35143928 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCAAA
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGAGTGACCAAA
* * * *
35143968 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGA-T-ACTAAT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGAGTGACCAAA
35144008 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAG
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
35144039 NNNNNNNNNN
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
39 19 0.31
40 32 0.52
41 9 0.15
42 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (42 bp):
TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGAGTGACCAAA
Found at i:35160444 original size:26 final size:26
Alignment explanation
Indices: 35160414--35160465 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
35160404 GCATTTTTGA
35160414 TACCTTGATGGTAGGTGTCATTATGG
1 TACCTTGATGGTAGGTGTCATTATGG
35160440 TACCTTGATGGTAGGTGTCATTATGG
1 TACCTTGATGGTAGGTGTCATTATGG
35160466 ATAAGTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.12, G:0.31, T:0.38
Consensus pattern (26 bp):
TACCTTGATGGTAGGTGTCATTATGG
Found at i:35160694 original size:20 final size:22
Alignment explanation
Indices: 35160669--35160712 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
35160659 TTATGATTCA
35160669 TTGAATTGGT-TGTTT-TATGC
1 TTGAATTGGTATGTTTATATGC
35160689 TTGAATTGGTATGTTTATATGC
1 TTGAATTGGTATGTTTATATGC
35160711 TT
1 TT
35160713 TGGTTAAGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 10 0.45
21 5 0.23
22 7 0.32
ACGTcount: A:0.18, C:0.05, G:0.23, T:0.55
Consensus pattern (22 bp):
TTGAATTGGTATGTTTATATGC
Found at i:35168580 original size:51 final size:51
Alignment explanation
Indices: 35168498--35168628 Score: 156
Period size: 51 Copynumber: 2.6 Consensus size: 51
35168488 TATACACACG
* * * *
35168498 TGTGTAGTACTAAGTGCAGGTTACTACGTGTATC-GATAGATAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACCACGTGTACCAGA-AGATAATGGTCACA
* * ** *
35168549 TGTGTAGTACTATGTGCAGGCTACCATGTGTACCAGAAGGTTTTGGTCACG
1 TGTGTAGTACTATGTGCAGGCTACCACGTGTACCAGAAGATAATGGTCACA
*
35168600 TGTGTAGTACTATGTGCAGGCTACTACGT
1 TGTGTAGTACTATGTGCAGGCTACCACGT
35168629 CTATCGAATG
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
51 66 0.97
52 2 0.03
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACCACGTGTACCAGAAGATAATGGTCACA
Found at i:35176233 original size:40 final size:40
Alignment explanation
Indices: 35176189--35176427 Score: 316
Period size: 40 Copynumber: 6.0 Consensus size: 40
35176179 GTAAATTATA
* * *
35176189 CCCTGACTGCACCTACGTGCCCCCGTTTGTACTTCGGTAC
1 CCCTGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTAC
* * *
35176229 CCCTGACTGCACTTATGTGCCCCTGTTTGTACTTCAGTAC
1 CCCTGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTAC
* * *
35176269 CCCTAATTGCACTTACGTGCCCCTATTTGTACTTTGGTAC
1 CCCTGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTAC
** * *
35176309 CCCTGATTGCACTTACGTGCCATTTTTTGTACTTCAGTAC
1 CCCTGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTAC
* * * *
35176349 CCTTGATTGCACTTACGTGCCCTTGTTTGTGCTTCGATAC
1 CCCTGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTAC
*
35176389 CCCTGATTGCACTTACGTGCCCCTGTTTATACTTCGGTA
1 CCCTGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTA
35176428 ATTTCAATCG
Statistics
Matches: 172, Mismatches: 27, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 172 1.00
ACGTcount: A:0.15, C:0.31, G:0.18, T:0.36
Consensus pattern (40 bp):
CCCTGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTAC
Found at i:35176413 original size:20 final size:20
Alignment explanation
Indices: 35176189--35176413 Score: 118
Period size: 20 Copynumber: 11.2 Consensus size: 20
35176179 GTAAATTATA
* *
35176189 CCCTGACTGCACCTACGTGC
1 CCCTGATTGCACTTACGTGC
* * * *
35176209 CCCCGTTTGTACTT-CGGTAC
1 CCCTGATTGCACTTAC-GTGC
* *
35176229 CCCTGACTGCACTTATGTGC
1 CCCTGATTGCACTTACGTGC
* * *
35176249 CCCTGTTTGTACTT-CAGTAC
1 CCCTGATTGCACTTAC-GTGC
*
35176269 CCCTAATTGCACTTACGTGC
1 CCCTGATTGCACTTACGTGC
* ** *
35176289 CCCT-ATTTGTACTTTGGTAC
1 CCCTGA-TTGCACTTACGTGC
35176309 CCCTGATTGCACTTACGTGC
1 CCCTGATTGCACTTACGTGC
** ** * *
35176329 CATTTTTTGTACTT-CAGTAC
1 CCCTGATTGCACTTAC-GTGC
*
35176349 CCTTGATTGCACTTACGTGC
1 CCCTGATTGCACTTACGTGC
* * ** *
35176369 CCTTGTTTGTGCTT-CGATAC
1 CCCTGATTGCACTTACG-TGC
35176389 CCCTGATTGCACTTACGTGC
1 CCCTGATTGCACTTACGTGC
35176409 CCCTG
1 CCCTG
35176414 TTTATACTTC
Statistics
Matches: 146, Mismatches: 49, Indels: 20
0.68 0.23 0.09
Matches are distributed among these distances:
19 5 0.03
20 136 0.93
21 5 0.03
ACGTcount: A:0.15, C:0.32, G:0.18, T:0.35
Consensus pattern (20 bp):
CCCTGATTGCACTTACGTGC
Found at i:35176999 original size:12 final size:12
Alignment explanation
Indices: 35176982--35177010 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
35176972 TCAGGTAGTT
35176982 ACACGGCCTAGC
1 ACACGGCCTAGC
35176994 ACACGGCCTAGC
1 ACACGGCCTAGC
35177006 ACACG
1 ACACG
35177011 AGCGTGTGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.28, C:0.41, G:0.24, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:35178000 original size:23 final size:21
Alignment explanation
Indices: 35177970--35178013 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
35177960 CATGAGAATG
35177970 TCAATGCAAAGCTTTTTCAAAAA
1 TCAATGC-AAG-TTTTTCAAAAA
*
35177993 TCAATGCATGTTTTTCAAAAA
1 TCAATGCAAGTTTTTCAAAAA
35178014 CATTCCTACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
22 2 0.10
23 7 0.35
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (21 bp):
TCAATGCAAGTTTTTCAAAAA
Found at i:35178290 original size:42 final size:42
Alignment explanation
Indices: 35178231--35178323 Score: 150
Period size: 42 Copynumber: 2.2 Consensus size: 42
35178221 ATATTTTTAG
* *
35178231 TGGCATGCTTAACATGTGAATCAAATTTATAATCAACATAGT
1 TGGCATGCTAAACATGTGAATCAAATTTATAATCAACACAGT
* *
35178273 TGGCATGCTAAACATGTGAATCAAATTTATAATTAATACAGT
1 TGGCATGCTAAACATGTGAATCAAATTTATAATCAACACAGT
35178315 TGGCATGCT
1 TGGCATGCT
35178324 TAATATGGGA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (42 bp):
TGGCATGCTAAACATGTGAATCAAATTTATAATCAACACAGT
Found at i:35182238 original size:40 final size:40
Alignment explanation
Indices: 35182041--35182224 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 40
35182031 TGAATGATGT
* ** * *
35182041 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGCGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
35182081 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
35182121 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* * *
35182159 TCCGGGTTAAGTCCCAAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35182200 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
35182225 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 35 0.29
40 77 0.63
41 10 0.08
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:35182246 original size:79 final size:79
Alignment explanation
Indices: 35182096--35182247 Score: 193
Period size: 79 Copynumber: 1.9 Consensus size: 79
35182086 CTAAGATCCG
* * **
35182096 AAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATC
1 AAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATC
35182161 CGGGTTAAGTCCCA
66 CGGGTTAAGTCCCA
* * *
35182175 AAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTAT
1 AAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAA
35182238 ATCC-GGTTAA
63 ATCCGGGTTAA
35182248 ATTCCGAAGG
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 36 0.57
80 25 0.40
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (79 bp):
AAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATC
CGGGTTAAGTCCCA
Found at i:35186781 original size:39 final size:39
Alignment explanation
Indices: 35186684--35186944 Score: 311
Period size: 39 Copynumber: 6.6 Consensus size: 39
35186674 TTGAATGATG
*
35186684 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
35186722 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
*
35186763 TCCGGGCTAAGCCGGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
35186802 TCCGGGCTAAG-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
35186840 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
*
35186879 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
35186918 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
35186945 AACGAGGAGC
Statistics
Matches: 198, Mismatches: 16, Indels: 15
0.86 0.07 0.07
Matches are distributed among these distances:
38 37 0.19
39 91 0.46
40 58 0.29
41 11 0.06
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:35186833 original size:77 final size:78
Alignment explanation
Indices: 35186684--35186944 Score: 311
Period size: 77 Copynumber: 3.3 Consensus size: 78
35186674 TTGAATGATG
* * *
35186684 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAA-ATCCGGGCTAAG-CCCGAAGGCA
35186745 TTTGTGCGAGATACTAAT
61 TTTGTGCGAGATACTAAT
* *
35186763 TCCGGGCTAAGCCGGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCGAAGGCATTTGT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGT
35186827 GCGAGATACTAAT
66 GCGAGATACTAAT
* *
35186840 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTG
35186905 TGCGA-ATTACT-AT
65 TGCGAGA-TACTAAT
* *
35186918 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
35186945 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 10, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
77 73 0.45
78 11 0.07
79 54 0.33
80 24 0.15
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGT
GCGAGATACTAAT
Found at i:35186975 original size:79 final size:79
Alignment explanation
Indices: 35186713--35186977 Score: 242
Period size: 77 Copynumber: 3.4 Consensus size: 79
35186703 GCTTGTGCTA
* *
35186713 AGTGAC-AATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCC
1 AGTGACTAA-ATCCGGATTAA-ATCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCC
* **
35186776 GGAAGGCATTTGTGCG
64 CGAAGGCATTTGAACG
* ** * *
35186792 AGAT-ACTAATTCCGGGCT-AA-GCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCC
1 AG-TGACTAAATCCGGATTAAATCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCC
**
35186854 GAAGGCATTTGTGCG
65 GAAGGCATTTGAACG
* * * *
35186869 AGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTC
1 AGTGACTAAATCCGGATTAAATCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-C
35186932 CCGAAGGCATTTGAACG
63 CCGAAGGCATTTGAACG
* *
35186949 AG-GAGCTATATCC-GATTAAATTCCGAAGG
1 AGTGA-CTAAATCCGGATTAAATCCCGAAGG
35186978 TACGTGATTT
Statistics
Matches: 160, Mismatches: 16, Indels: 20
0.82 0.08 0.10
Matches are distributed among these distances:
76 1 0.01
77 70 0.44
78 5 0.03
79 56 0.35
80 28 0.17
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (79 bp):
AGTGACTAAATCCGGATTAAATCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCG
AAGGCATTTGAACG
Found at i:35203288 original size:12 final size:12
Alignment explanation
Indices: 35203271--35203296 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
35203261 CATTCCGAAG
35203271 TATATATATACA
1 TATATATATACA
35203283 TATATATATACA
1 TATATATATACA
35203295 TA
1 TA
35203297 AGTATGCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:35203802 original size:27 final size:27
Alignment explanation
Indices: 35203771--35203948 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
35203761 TAAATTGTAC
35203771 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
35203798 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35203824 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
35203852 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
35203880 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35203907 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
35203934 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35203949 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:35203885 original size:82 final size:81
Alignment explanation
Indices: 35203772--35203927 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35203762 AAATTGTACA
* *
35203772 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
35203836 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
35203853 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
35203918 TGCGAGTTGA
65 TGCGAATTGA
35203928 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:35203939 original size:82 final size:81
Alignment explanation
Indices: 35203768--35203948 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
35203758 GATTAAATTG
* *
35203768 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
35203833 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
35203849 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
35203913 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
35203931 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
35203949 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:35209732 original size:45 final size:45
Alignment explanation
Indices: 35209662--35209969 Score: 270
Period size: 45 Copynumber: 6.8 Consensus size: 45
35209652 TATACACCTA
* * * *
35209662 AAATGTGTAAGACTAGAGTTGAAAGATGTTATGACATCATGATAT
1 AAATGAGTAAGACCATAGTTGAAAGATGCTATGACATCATGATAT
* * **
35209707 AAATAAGTAAGACCATAGTTGAAAGAT-CTTATGGCATCACCATA-
1 AAATGAGTAAGACCATAGTTGAAAGATGC-TATGACATCATGATAT
* * * *
35209751 AAGATTAGTAAGACCATA-TATTAAAGATGCTATGGCATCATGCTAT
1 AA-ATGAGTAAGACCATAGT-TGAAAGATGCTATGACATCATGATAT
*
35209797 AAATGAGTTAA-ACCATAGTTGAAAGATGCCAT-AGCATCATGATAT
1 AAATGAG-TAAGACCATAGTTGAAAGATGCTATGA-CATCATGATAT
* *
35209842 AAATGAGTAAGCCCATAGCTGAAAGATGCTATCG-CATCATGATAT
1 AAATGAGTAAGACCATAGTTGAAAGATGCTAT-GACATCATGATAT
* * * * * *
35209887 AAATGTGTAAGACCTTGGCTGAAAGATGCTATAACATCATGGTA-
1 AAATGAGTAAGACCATAGTTGAAAGATGCTATGACATCATGATAT
* * * * *
35209931 ACCATTACTAAGACCATAGTTGAAAGACGCTATGCCATC
1 A-AATGAGTAAGACCATAGTTGAAAGATGCTATGACATC
35209970 CTAGTAGTCT
Statistics
Matches: 213, Mismatches: 37, Indels: 26
0.77 0.13 0.09
Matches are distributed among these distances:
44 7 0.03
45 199 0.93
46 7 0.03
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (45 bp):
AAATGAGTAAGACCATAGTTGAAAGATGCTATGACATCATGATAT
Found at i:35209912 original size:135 final size:135
Alignment explanation
Indices: 35209678--35209927 Score: 301
Period size: 135 Copynumber: 1.9 Consensus size: 135
35209668 GTAAGACTAG
** * *
35209678 AGTTGAAAGATGTTATGACATCATGATATAAATAAGTAAGACCATAGTTGAAAGATCTTATGGCA
1 AGTTGAAAGATGCCATGACATCATGATATAAATAAGTAAGACCATAGCTGAAAGATCTTATCGCA
* * **
35209743 TCACCATAAAGATTAGTAAGACCATATATTAAAGATGCTATGGCATCATGCTATAAATGAGTTAA
66 TCACCATAAAGATTAGTAAGACCATAGATGAAAGATGCTATAACATCATGCTATAAATGAGTTAA
35209808 ACCAT
131 ACCAT
* *
35209813 AGTTGAAAGATGCCAT-AGCATCATGATATAAATGAGTAAGCCCATAGCTGAAAGATGC-TATCG
1 AGTTGAAAGATGCCATGA-CATCATGATATAAATAAGTAAGACCATAGCTGAAAGAT-CTTATCG
** * * *
35209876 CATCATGATATAA-ATGT-GTAAGACCTTGGCTGAAAGATGCTATAACATCATG
64 CATCACCATA-AAGAT-TAGTAAGACCATAGATGAAAGATGCTATAACATCATG
35209928 GTAACCATTA
Statistics
Matches: 96, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
134 1 0.01
135 91 0.95
136 4 0.04
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.28
Consensus pattern (135 bp):
AGTTGAAAGATGCCATGACATCATGATATAAATAAGTAAGACCATAGCTGAAAGATCTTATCGCA
TCACCATAAAGATTAGTAAGACCATAGATGAAAGATGCTATAACATCATGCTATAAATGAGTTAA
ACCAT
Found at i:35210111 original size:27 final size:27
Alignment explanation
Indices: 35210056--35210114 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
35210046 CAATCTGATG
*
35210056 GGACATTAAACACAGGATAGTCTGACA
1 GGACATTAAACACAGGATAGCCTGACA
* *
35210083 GGACATTAAATACTGGATAGCCT-ATCA
1 GGACATTAAACACAGGATAGCCTGA-CA
35210110 GGACA
1 GGACA
35210115 GTAATCATGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.20
Consensus pattern (27 bp):
GGACATTAAACACAGGATAGCCTGACA
Found at i:35212252 original size:20 final size:20
Alignment explanation
Indices: 35212227--35212267 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
35212217 AAGAATGTAA
35212227 AAATAACTACGTCTGCATCT
1 AAATAACTACGTCTGCATCT
35212247 AAATAACTACGTCTGCATCT
1 AAATAACTACGTCTGCATCT
35212267 A
1 A
35212268 GGAAACAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (20 bp):
AAATAACTACGTCTGCATCT
Found at i:35226351 original size:76 final size:76
Alignment explanation
Indices: 35226225--35226380 Score: 312
Period size: 76 Copynumber: 2.1 Consensus size: 76
35226215 AATTAACCTA
35226225 ATTAGTTAACCTTACTTAAGATTAATCCAATCTCTATGACCTAACATAACATAAATTAGTGAAAT
1 ATTAGTTAACCTTACTTAAGATTAATCCAATCTCTATGACCTAACATAACATAAATTAGTGAAAT
35226290 GAATGGCCATG
66 GAATGGCCATG
35226301 ATTAGTTAACCTTACTTAAGATTAATCCAATCTCTATGACCTAACATAACATAAATTAGTGAAAT
1 ATTAGTTAACCTTACTTAAGATTAATCCAATCTCTATGACCTAACATAACATAAATTAGTGAAAT
35226366 GAATGGCCATG
66 GAATGGCCATG
35226377 ATTA
1 ATTA
35226381 ACACATGCCA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 80 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.32
Consensus pattern (76 bp):
ATTAGTTAACCTTACTTAAGATTAATCCAATCTCTATGACCTAACATAACATAAATTAGTGAAAT
GAATGGCCATG
Found at i:35226840 original size:39 final size:39
Alignment explanation
Indices: 35226786--35226864 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
35226776 AAGATAAAAG
35226786 TTTGATTTTTGGAGGTTTCCTTTTAAATTTTCCTTATCT
1 TTTGATTTTTGGAGGTTTCCTTTTAAATTTTCCTTATCT
35226825 TTTGATTTTTGGAGGTTTCCTTTTAAATTTTCCTTATCT
1 TTTGATTTTTGGAGGTTTCCTTTTAAATTTTCCTTATCT
35226864 T
1 T
35226865 GAATCGTCTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.15, C:0.13, G:0.13, T:0.59
Consensus pattern (39 bp):
TTTGATTTTTGGAGGTTTCCTTTTAAATTTTCCTTATCT
Found at i:35233364 original size:16 final size:16
Alignment explanation
Indices: 35233343--35233378 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
35233333 TAAAACATCC
35233343 TTATGTTCCACAATAA
1 TTATGTTCCACAATAA
35233359 TTATGTTCCACAATAA
1 TTATGTTCCACAATAA
35233375 TTAT
1 TTAT
35233379 TAACTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.36, C:0.17, G:0.06, T:0.42
Consensus pattern (16 bp):
TTATGTTCCACAATAA
Found at i:35237797 original size:50 final size:50
Alignment explanation
Indices: 35237738--35237855 Score: 164
Period size: 50 Copynumber: 2.3 Consensus size: 50
35237728 ATTTAAATTC
* *
35237738 TAATTTGGAAACAAATTAAAATCGAATAAAATCTTGTTAAACGGAGGGAA
1 TAATTTGGAAACAAATTAAAATCGAATAAAATCTTATTAAACAGAGGGAA
** *
35237788 TAATTTGGAAACAAAACAAAATCGAATAAAATCTTATTAAACAGCGGGAA
1 TAATTTGGAAACAAATTAAAATCGAATAAAATCTTATTAAACAGAGGGAA
* *
35237838 TAAATCTCGAAACAAATT
1 T-AATTTGGAAACAAATT
35237856 TTATTTAATT
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
50 46 0.79
51 12 0.21
ACGTcount: A:0.50, C:0.11, G:0.14, T:0.25
Consensus pattern (50 bp):
TAATTTGGAAACAAATTAAAATCGAATAAAATCTTATTAAACAGAGGGAA
Found at i:35237881 original size:84 final size:84
Alignment explanation
Indices: 35237788--35238706 Score: 867
Period size: 84 Copynumber: 11.0 Consensus size: 84
35237778 ACGGAGGGAA
* * * *
35237788 TAATTTGGAAACAAAACAAAATCGAATAAAATCTTATTAAACAGCGGGAATAAATCTCGAAACAA
1 TAATTTGGAAACAAAATAAAATCGAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACAA
35237853 ATTTTATTTAATTTAATTC
66 ATTTTATTTAATTTAATTC
* * ** *
35237872 TAATTTGGAAACAAAATAAAATCAAATAAAATCTTATTAAACGATGAGAATAAATCCCGAAACAA
1 TAATTTGGAAACAAAATAAAATCGAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACAA
35237937 ATTTTATTTAATTTAATTC
66 ATTTTATTTAATTTAATTC
* * * * *
35237956 TAATTTGGAAACAAAATAAAATAGAATAAAATCTTGTTAATCGGCAGGAATAAATCCTGAAACAG
1 TAATTTGGAAACAAAATAAAATCGAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACAA
35238021 A-TTTATTTAATTTAATTC
66 ATTTTATTTAATTTAATTC
* ** *
35238039 TAATTTTGAAACAAAATAAAATAAAATAAAATCTTGTTAAACGGCGGGAATAAATCCAGAAACAA
1 TAATTTGGAAACAAAATAAAATCGAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACAA
35238104 ATTTTATTTAATTTAATTC
66 ATTTTATTTAATTTAATTC
* * * *
35238123 TAATTTGGAAACAAAATAAAATTGAATAAAATATTGTTAAACTGCGAGAATAAATCCCGAAACAA
1 TAATTTGGAAACAAAATAAAATCGAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACAA
35238188 ATTTTATTTAATTTAATTC
66 ATTTTATTTAATTTAATTC
* * *
35238207 TAAATTT-GAAATAAAATAAAATCGAATAAAATCTTGTTAAACGGCGGGAATAAATCTCAAAACA
1 T-AATTTGGAAACAAAATAAAATCGAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACA
35238271 AATTTTATTTAATTTTAATTTC
65 AATTTTATTTAA-TTTAA-TTC
* * * * * * *
35238293 TCATTTTGGCAACAAAATCAAAAT-GTGATAAAATC-CGTTGAACGGCGGGATTAAATCTCGAAA
1 T-AATTTGGAAACAAAAT-AAAATCG-AATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAA
* *
35238356 TAGATTTTATTTAACTTTAATTTC
63 CAAATTTTATTTAA-TTTAA-TTC
** * * ** * * * * *
35238380 TTGTTT-GAAAAAAAATAAAAT-AAAGGAAA-CTTCCATTGAACAGCAGGAATAAATCCCAAAAC
1 TAATTTGGAAACAAAATAAAATCGAATAAAATCTT--GTTAAACGGCGGGAATAAATCCCGAAAC
*
35238442 AAATTTTAATTTAATTTTAATAC
64 AAATTTT-ATTTAA-TTTAATTC
** * * * * * **
35238465 TCGTTTTGGAAATAAAATCAAAATTGGAATAAAATC-CGTTGAACGACATGAATAAATCCCGAAA
1 T-AATTTGGAAACAAAAT-AAAA-TCGAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAA
* **
35238529 CAGATTTTATTCGA--T--TT-
63 CAAATTTTATTTAATTTAATTC
* * *
35238546 TAATTTGGAAAC-----AAAATCGAATAAAAT-ATGTTAAACGGCGGGAATAAATCCTGAAACAG
1 TAATTTGGAAACAAAATAAAATCGAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACAA
*
35238605 ATTTTATTTGATTTGAATAT-
66 ATTTTATTTAATTT-AAT-TC
** * * * * *
35238625 TCGTTTGGAAATAAAAATAAAATAAAGAATAAAATC-TGTTGAACAGCGGGGAT-AATCCCGAAA
1 TAATTTGGAAA-CAAAATAAAAT--CGAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAA
35238688 -AAGATTTTATTTAATTTAA
63 CAA-ATTTTATTTAATTTAA
35238707 AATTTTATTT
Statistics
Matches: 696, Mismatches: 105, Indels: 67
0.80 0.12 0.08
Matches are distributed among these distances:
73 45 0.06
74 4 0.01
75 1 0.00
78 1 0.00
79 10 0.01
80 8 0.01
81 1 0.00
82 2 0.00
83 81 0.12
84 296 0.43
85 56 0.08
86 47 0.07
87 91 0.13
88 46 0.07
89 1 0.00
90 5 0.01
91 1 0.00
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.32
Consensus pattern (84 bp):
TAATTTGGAAACAAAATAAAATCGAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACAA
ATTTTATTTAATTTAATTC
Found at i:35237934 original size:135 final size:135
Alignment explanation
Indices: 35237676--35237937 Score: 379
Period size: 135 Copynumber: 1.9 Consensus size: 135
35237666 AATTAATATA
* *
35237676 GAATAAAATCTTCTTAAACGACGGGAATAAATCCTGAAACATATTTTATTTAATTTAAATTCTAA
1 GAATAAAATCTTATTAAACGACGGGAATAAATCCTGAAACAAATTTTATTTAATTTAAATTCTAA
* * * * ***
35237741 TTTGGAAACAAATTAAAATCGAATAAAATCTTGTTAAACGGAGGGAATAATTTGGAAACAAAACA
66 TTTGGAAACAAAATAAAATCAAATAAAATCTTATTAAACGGAGAGAATAATCCCGAAACAAAACA
35237806 AAATC
131 AAATC
35237811 GAATAAAATCTTATTAAAC-AGCGGGAATAAAT-CTCGAAACAAATTTTATTTAATTT-AATTCT
1 GAATAAAATCTTATTAAACGA-CGGGAATAAATCCT-GAAACAAATTTTATTTAATTTAAATTCT
35237873 AATTTGGAAACAAAATAAAATCAAATAAAATCTTATTAAAC-GATGAGAATAAATCCCGAAACAA
64 AATTTGGAAACAAAATAAAATCAAATAAAATCTTATTAAACGGA-GAGAAT-AATCCCGAAACAA
35237937 A
127 A
35237938 TTTTATTTAA
Statistics
Matches: 114, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
133 2 0.02
134 52 0.46
135 60 0.53
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.29
Consensus pattern (135 bp):
GAATAAAATCTTATTAAACGACGGGAATAAATCCTGAAACAAATTTTATTTAATTTAAATTCTAA
TTTGGAAACAAAATAAAATCAAATAAAATCTTATTAAACGGAGAGAATAATCCCGAAACAAAACA
AAATC
Found at i:35238060 original size:167 final size:167
Alignment explanation
Indices: 35237788--35238539 Score: 769
Period size: 167 Copynumber: 4.4 Consensus size: 167
35237778 ACGGAGGGAA
* * * *
35237788 TAATTTGGAAACAAAACAAAATCGAATAAAATCTTATTAAACAGCGGGAATAAAT-CTCGAAACA
1 TAATTTGGAAACAAAATAAAAT-GAATAAAATCTTGTT-AACGGCAGGAATAAATCCT-GAAACA
* * *
35237852 AATTTTATTTAATTTAATTCTAATTTGGAAACAAAATAAAATCAAATAAAATCTTATTAAACGAT
63 GATTTTATTTAATTTAATTCTAATTTTGAAACAAAATAAAATCAAATAAAATCTTATTAAACGAC
*
35237917 GAGAATAAATCCCGAAACAAATTTTATTTAA-TTTAATTC
128 GAGAATAAATCCCAAAACAAATTTTATTTAATTTTAATTC
35237956 TAATTTGGAAACAAAATAAAATAGAATAAAATCTTGTTAATCGGCAGGAATAAATCCTGAAACAG
1 TAATTTGGAAACAAAATAAAAT-GAATAAAATCTTGTTAA-CGGCAGGAATAAATCCTGAAACAG
* * *
35238021 A-TTTATTTAATTTAATTCTAATTTTGAAACAAAATAAAATAAAATAAAATCTTGTTAAACGGCG
64 ATTTTATTTAATTTAATTCTAATTTTGAAACAAAATAAAATCAAATAAAATCTTATTAAACGACG
*
35238085 GGAATAAAT-CCAGAAACAAATTTTATTTAA-TTTAATTC
129 AGAATAAATCCCA-AAACAAATTTTATTTAATTTTAATTC
* * *
35238123 TAATTTGGAAACAAAATAAAATTGAATAAAATATTGTTAAACTGC-GAGAATAAATCCCGAAACA
1 TAATTTGGAAACAAAATAAAA-TGAATAAAATCTTGTT-AACGGCAG-GAATAAATCCTGAAACA
* * * * * *
35238187 AATTTTATTTAATTTAATTCTAAATTTGAAATAAAATAAAATCGAATAAAATCTTGTTAAACGGC
63 GATTTTATTTAATTTAATTCTAATTTTGAAACAAAATAAAATCAAATAAAATCTTATTAAACGAC
* *
35238252 GGGAATAAATCTCAAAACAAATTTTATTTAATTTTAATTTC
128 GAGAATAAATCCCAAAACAAATTTTATTTAATTTTAA-TTC
* * * * * *
35238293 TCATTTTGGCAACAAAATCAAAATGTGATAAAATC-CGTTGAACGGCGGGATTAAAT-CTCGAAA
1 T-AATTTGGAAACAAAAT-AAAATG-AATAAAATCTTGTT-AACGGCAGGAATAAATCCT-GAAA
* * **
35238356 TAGATTTTATTTAACTTTAATTTCT--TGTTTGAAAAAAAATAAAAT-AAAGGAAA-CTTCCATT
61 CAGATTTTATTTAA-TTTAA-TTCTAAT-TTTGAAACAAAATAAAATCAAATAAAATCTT--ATT
* *
35238417 GAAC-A-GCAGGAATAAATCCCAAAACAAATTTTAATTTAATTTTAATAC
121 AAACGACG-A-GAATAAATCCCAAAACAAATTTT-ATTTAATTTTAATTC
** * * * * *
35238465 TCGTTTTGGAAATAAAATCAAAATTGGAATAAAATC-CGTTGAACGACATGAATAAATCCCGAAA
1 T-AATTTGGAAACAAAAT-AAAA-T-GAATAAAATCTTGTT-AACGGCAGGAATAAATCCTGAAA
35238529 CAGATTTTATT
61 CAGATTTTATT
35238540 CGATTTTAAT
Statistics
Matches: 504, Mismatches: 54, Indels: 47
0.83 0.09 0.08
Matches are distributed among these distances:
166 3 0.01
167 148 0.29
168 142 0.28
169 9 0.02
170 9 0.02
171 52 0.10
172 83 0.16
173 56 0.11
174 2 0.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (167 bp):
TAATTTGGAAACAAAATAAAATGAATAAAATCTTGTTAACGGCAGGAATAAATCCTGAAACAGAT
TTTATTTAATTTAATTCTAATTTTGAAACAAAATAAAATCAAATAAAATCTTATTAAACGACGAG
AATAAATCCCAAAACAAATTTTATTTAATTTTAATTC
Found at i:35238238 original size:251 final size:248
Alignment explanation
Indices: 35237788--35238706 Score: 872
Period size: 251 Copynumber: 3.7 Consensus size: 248
35237778 ACGGAGGGAA
* ** * *
35237788 TAATTTGGAAACAAAACAAAATCGAATAAAATCTTATTAAACAGCGGGAATAAATCTCGAAACAA
1 TAATTTGGAAACAAAATAAAATAAAATAAAATC-TGTTAAACGGCGGGAATAAATCTCGAAACAA
* * *
35237853 ATTTTATTTAATTTAATTCTAATTTGGAAACAAAATAAAATCAAATAAAATCTTATTAAAC-GAT
65 ATTTTATTTAATTTAATTCTAATTTGGAAAAAAAATAAAATTAAATAAAAT-TTATTAAACAG-C
*
35237917 GAGAATAAATCCCGAAACAAATTTTATTTAATTTAATTCTAATTTGGAAACAAAATAAAATAGAA
128 GAGAATAAATCCCGAAACAAATTTTATTTAATTTAATTCTAATTTGGAAATAAAATAAAATAGAA
35237982 TAAAATCTTGTTAATCGGCAGGAATAAATCCTGAAACAGATTTATTTAATTTAATTC
193 TAAAATCTTGTTAA-CGGCAGGAATAAATCCTGAAACAGATTTATTTAATTTAATTC
*
35238039 TAATTTTGAAACAAAATAAAATAAAATAAAATCTTGTTAAACGGCGGGAATAAATC-CAGAAACA
1 TAATTTGGAAACAAAATAAAATAAAATAAAATC-TGTTAAACGGCGGGAATAAATCTC-GAAACA
* * * *
35238103 AATTTTATTTAATTTAATTCTAATTTGGAAACAAAATAAAATTGAATAAAATATTGTTAAACTGC
64 AATTTTATTTAATTTAATTCTAATTTGGAAAAAAAATAAAATTAAATAAAAT-TTATTAAACAGC
*
35238168 GAGAATAAATCCCGAAACAAATTTTATTTAATTTAATTCTAAATTT-GAAATAAAATAAAATCGA
128 GAGAATAAATCCCGAAACAAATTTTATTTAATTTAATTCT-AATTTGGAAATAAAATAAAATAGA
* * *
35238232 ATAAAATCTTGTTAAACGGCGGGAATAAAT-CTCAAAACAAATTTTATTTAATTTTAATTTC
192 ATAAAATCTTGTT-AACGGCAGGAATAAATCCT-GAAACAGA-TTTATTTAA-TTTAA-TTC
* * *** * * * *
35238293 TCATTTTGGCAACAAAATCAAAATGTGATAAAATCCGTTGAACGGCGGGATTAAATCTCGAAATA
1 T-AATTTGGAAACAAAAT-AAAATAAAATAAAATCTGTTAAACGGCGGGAATAAATCTCGAAACA
* ** * * * *
35238358 GATTTTATTTAACTTTAATTTCTTGTTT-GAAAAAAAATAAAA-TAAAGGAAACTTCCATTGAAC
64 AATTTTATTTAA-TTTAA-TTCTAATTTGGAAAAAAAATAAAATTAAA-TAAAATT-TATTAAAC
* * **
35238421 AGC-AGGAATAAATCCCAAAACAAATTTTAATTTAATTTTAATACTCGTTTTGGAAATAAAATCA
125 AGCGA-GAATAAATCCCGAAACAAATTTT-ATTTAA-TTTAATTCT-AATTTGGAAATAAAAT-A
* * * * * **
35238485 AAATTGGAATAAAATC-CGTTGAACGACATGAATAAATCCCGAAACAGA--T-TTT-ATTCGATT
185 AAA-TAGAATAAAATCTTGTT-AACGGCAGGAATAAATCCTGAAACAGATTTATTTAATTTAATT
*
35238545 T
248 C
** *
35238546 TAATTTGGAAACAAAATCGAATAAAAT---A--TGTTAAACGGCGGGAATAAATC-CTGAAACAG
1 TAATTTGGAAACAAAATAAAATAAAATAAAATCTGTTAAACGGCGGGAATAAATCTC-GAAACAA
* ** * * * *
35238605 ATTTTATTTGATTTGAATAT-TCGTTTGGAAATAAAAATAAAATAAAGAATAAAATCTGTTGAAC
65 ATTTTATTTAATTT-AAT-TCTAATTTGGAAA-AAAAATAAAAT-TA-AATAAAATTTATTAAAC
* *
35238669 AGCGGGGAT-AATCCCGAAA-AAGATTTTATTTAATTTAA
125 AGCGAGAATAAATCCCGAAACAA-ATTTTATTTAATTTAA
35238707 AATTTTATTT
Statistics
Matches: 560, Mismatches: 76, Indels: 70
0.79 0.11 0.10
Matches are distributed among these distances:
245 15 0.03
246 50 0.09
247 24 0.04
248 13 0.02
249 5 0.01
250 5 0.01
251 207 0.37
252 31 0.06
253 8 0.01
254 7 0.01
255 54 0.10
256 68 0.12
257 14 0.03
258 11 0.02
259 10 0.02
260 26 0.05
261 12 0.02
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.32
Consensus pattern (248 bp):
TAATTTGGAAACAAAATAAAATAAAATAAAATCTGTTAAACGGCGGGAATAAATCTCGAAACAAA
TTTTATTTAATTTAATTCTAATTTGGAAAAAAAATAAAATTAAATAAAATTTATTAAACAGCGAG
AATAAATCCCGAAACAAATTTTATTTAATTTAATTCTAATTTGGAAATAAAATAAAATAGAATAA
AATCTTGTTAACGGCAGGAATAAATCCTGAAACAGATTTATTTAATTTAATTC
Found at i:35238571 original size:172 final size:172
Alignment explanation
Indices: 35237919--35238561 Score: 450
Period size: 172 Copynumber: 3.8 Consensus size: 172
35237909 TAAACGATGA
* *
35237919 GAATAAATCCCGAAACAAATTTTATTTAA-TTTAATT-CT-AATTTGGAAACAAAAT-AAAATAG
1 GAATAAATCCCAAAACAAATTTTATTTAATTTTAATTACTCATTTTGGAAACAAAATCAAAAT-G
* * * * *
35237980 -AATAAAATCTTGTT-AATCGGCAGGAATAAATCCTGAAACAGATTTATTTAATTTAA-TTCTAA
65 TGATAAAATC-CGTTGAA-CGACAGGAATAAATCCCGAAACAGA--T-TTT-ATTCAACTT-TAA
* * * * *
35238042 TTT-T-GAAACAAAATAAAATAAAAT-AA--AATCTT--GTTAAACGGCGG
123 TTTCTGGAAACAAAA-AAAATAAAATAAAGGAAACTTCCATTGAACAGCAG
*
35238086 GAATAAAT-CCAGAAACAAATTTTATTTAA-TTTAATT-CT-AATTTGGAAACAAAAT-AAAAT-
1 GAATAAATCCCA-AAACAAATTTTATTTAATTTTAATTACTCATTTTGGAAACAAAATCAAAATG
** * * *
35238145 TGAATAAAATATTGTTAAACTG-C-GAGAATAAATCCCGAAACAAATTTTATTTAA-TTTAA-TT
65 TG-ATAAAAT-CCGTTGAAC-GACAG-GAATAAATCCCGAAACAGATTTTATTCAACTTTAATTT
* * * ** * * * *
35238206 CT--AAATTTGAAATAAAATAAAATCGAATAAAATCTT--GTTAAACGGCGG
126 CTGGAAA---CAAAAAAAATAAAAT-AAAGGAAA-CTTCCATTGAACAGCAG
* * *
35238254 GAATAAATCTCAAAACAAATTTTATTTAATTTTAATTTCTCATTTTGGCAACAAAATCAAAATGT
1 GAATAAATCCCAAAACAAATTTTATTTAATTTTAATTACTCATTTTGGAAACAAAATCAAAATGT
* * * * * * * *
35238319 GATAAAATCCGTTGAACGGCGGGATTAAATCTCGAAATAGATTTTATTTAACTTTAATTTCTTGT
66 GATAAAATCCGTTGAACGACAGGAATAAATCCCGAAACAGATTTTATTCAACTTTAATTTCTGGA
***
35238384 TTGAAAAAAAATAAAATAAAGGAAACTTCCATTGAACAGCAG
131 AACAAAAAAAATAAAATAAAGGAAACTTCCATTGAACAGCAG
* *
35238426 GAATAAATCCCAAAACAAATTTTAATTTAATTTTAA-TACTCGTTTTGGAAATAAAATCAAAAT-
1 GAATAAATCCCAAAACAAATTTT-ATTTAATTTTAATTACTCATTTTGGAAACAAAATCAAAATG
* * *
35238489 TGGAATAAAATCCGTTGAACGACATGAATAAATCCCGAAACAGATTTTATTCGATTTTAA-TT-T
65 T-G-ATAAAATCCGTTGAACGACAGGAATAAATCCCGAAACAGATTTTATTCAACTTTAATTTCT
35238552 GGAAACAAAA
128 GGAAACAAAA
35238562 TCGAATAAAA
Statistics
Matches: 395, Mismatches: 48, Indels: 62
0.78 0.10 0.12
Matches are distributed among these distances:
161 5 0.01
162 4 0.01
163 18 0.05
164 6 0.02
165 3 0.01
166 3 0.01
167 87 0.22
168 43 0.11
169 9 0.02
170 6 0.02
171 58 0.15
172 88 0.22
173 65 0.16
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (172 bp):
GAATAAATCCCAAAACAAATTTTATTTAATTTTAATTACTCATTTTGGAAACAAAATCAAAATGT
GATAAAATCCGTTGAACGACAGGAATAAATCCCGAAACAGATTTTATTCAACTTTAATTTCTGGA
AACAAAAAAAATAAAATAAAGGAAACTTCCATTGAACAGCAG
Found at i:35242517 original size:17 final size:17
Alignment explanation
Indices: 35242492--35242531 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
35242482 ACATTAAATA
35242492 ATAAATAAAAAACATAT
1 ATAAATAAAAAACATAT
* *
35242509 ATAATTAAAAAATATAT
1 ATAAATAAAAAACATAT
*
35242526 TTAAAT
1 ATAAAT
35242532 GAATTGATGC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAAATAAAAAACATAT
Found at i:35248401 original size:30 final size:30
Alignment explanation
Indices: 35248356--35248420 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
35248346 ACTGCAAGGG
* *
35248356 TCACACGGCCGTATGACCAGGCTGTGTGGC
1 TCACACGGCCGTATGACCAAGCCGTGTGGC
* *
35248386 TCACTCGGTCGTATGACCAAGCCGTGTGGC
1 TCACACGGCCGTATGACCAAGCCGTGTGGC
35248416 TCACA
1 TCACA
35248421 TGGCTGAGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.18, C:0.31, G:0.29, T:0.22
Consensus pattern (30 bp):
TCACACGGCCGTATGACCAAGCCGTGTGGC
Found at i:35250054 original size:7 final size:7
Alignment explanation
Indices: 35250042--35250073 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
35250032 AGATAGCATT
35250042 GATACGA
1 GATACGA
35250049 GATACGA
1 GATACGA
35250056 GATACGA
1 GATACGA
35250063 GATACGA
1 GATACGA
35250070 GATA
1 GATA
35250074 GTAGTGGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.28, T:0.16
Consensus pattern (7 bp):
GATACGA
Found at i:35255722 original size:26 final size:26
Alignment explanation
Indices: 35255679--35255735 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
35255669 AAGTGTTTTA
35255679 AAACTGATACATGCTATGATATTCTG
1 AAACTGATACATGCTATGATATTCTG
* * *
35255705 AAACTTATATATGTTATGATATTCTG
1 AAACTGATACATGCTATGATATTCTG
35255731 AAACT
1 AAACT
35255736 ACTGTAGGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (26 bp):
AAACTGATACATGCTATGATATTCTG
Found at i:35262640 original size:40 final size:40
Alignment explanation
Indices: 35262595--35262749 Score: 240
Period size: 40 Copynumber: 3.9 Consensus size: 40
35262585 AACACACTAG
* *
35262595 ACAGAAGCTTATAAGAGTTGATCCAACTGAAACACGTCAA
1 ACAGAAGCTCATAAGAGTTGATCCAACTGAAACACGCCAA
*
35262635 ACAGAAGCTCATAAGAGTTGATCCAACTGAAACTCGCCAA
1 ACAGAAGCTCATAAGAGTTGATCCAACTGAAACACGCCAA
* *
35262675 ACAAAAGCTCATAAGAGCT-AGTCCAACTGAAACACGCCAA
1 ACAGAAGCTCATAAGAGTTGA-TCCAACTGAAACACGCCAA
*
35262715 ACAGAAGCTCATAAGAGTTGATCCAACCGAAACAC
1 ACAGAAGCTCATAAGAGTTGATCCAACTGAAACAC
35262750 ACCAGACAAA
Statistics
Matches: 104, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.01
40 102 0.98
41 1 0.01
ACGTcount: A:0.43, C:0.25, G:0.17, T:0.16
Consensus pattern (40 bp):
ACAGAAGCTCATAAGAGTTGATCCAACTGAAACACGCCAA
Found at i:35262759 original size:80 final size:80
Alignment explanation
Indices: 35262579--35262759 Score: 258
Period size: 80 Copynumber: 2.3 Consensus size: 80
35262569 ATCATTAGAT
* * * * *
35262579 CAACCG-AACACACTAGACAGAAGCTTATAAGAGTTGATCCAACTGAAACACGTCAAACAGAAGC
1 CAACCGAAACACACCAGACAAAAGCTCATAAGAGTAGATCCAACTGAAACACGCCAAACAGAAGC
35262643 TCATAAGAGTTGATC
66 TCATAAGAGTTGATC
* * * *
35262658 CAACTGAAACTCGCCAAACAAAAGCTCATAAGAGCTAG-TCCAACTGAAACACGCCAAACAGAAG
1 CAACCGAAACACACCAGACAAAAGCTCATAAGAG-TAGATCCAACTGAAACACGCCAAACAGAAG
35262722 CTCATAAGAGTTGATC
65 CTCATAAGAGTTGATC
35262738 CAACCGAAACACACCAGACAAA
1 CAACCGAAACACACCAGACAAA
35262760 GAGTATAACA
Statistics
Matches: 87, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 5 0.06
80 80 0.92
81 2 0.02
ACGTcount: A:0.44, C:0.26, G:0.16, T:0.14
Consensus pattern (80 bp):
CAACCGAAACACACCAGACAAAAGCTCATAAGAGTAGATCCAACTGAAACACGCCAAACAGAAGC
TCATAAGAGTTGATC
Found at i:35263720 original size:42 final size:42
Alignment explanation
Indices: 35263661--35263744 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
35263651 CAATCCCTTG
35263661 AAGAAGAAAACCATTATGTTTTCTTATATTTAAACCTTTTAT
1 AAGAAGAAAACCATTATGTTTTCTTATATTTAAACCTTTTAT
**
35263703 AAGAAGAAAACTGTTATGTTTTCTTATATTTAAACCTTTTAT
1 AAGAAGAAAACCATTATGTTTTCTTATATTTAAACCTTTTAT
35263745 TCTTTTATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (42 bp):
AAGAAGAAAACCATTATGTTTTCTTATATTTAAACCTTTTAT
Found at i:35263748 original size:21 final size:19
Alignment explanation
Indices: 35263723--35263775 Score: 54
Period size: 21 Copynumber: 2.7 Consensus size: 19
35263713 CTGTTATGTT
35263723 TTCTTATATTTAAACCTTTTA
1 TTCTTATATTTAAA--TTTTA
* *
35263744 TTCTTTTATTTTAATTTTA
1 TTCTTATATTTAAATTTTA
35263763 TTACTTAT-TTTAA
1 TT-CTTATATTTAA
35263776 TTATTTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 11 0.41
20 4 0.15
21 12 0.44
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.64
Consensus pattern (19 bp):
TTCTTATATTTAAATTTTA
Found at i:35264111 original size:30 final size:30
Alignment explanation
Indices: 35264077--35264173 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
35264067 AGCTCACTCC
35264077 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
35264107 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
35264137 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
35264167 TAGCTCA
1 TAGCTCA
35264174 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:35272822 original size:21 final size:21
Alignment explanation
Indices: 35272798--35272840 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
35272788 TAATAGCAAA
* *
35272798 ATTTTACCATTAAATAAAATT
1 ATTTTAACAATAAATAAAATT
35272819 ATTTTAACAATAAATAAAATT
1 ATTTTAACAATAAATAAAATT
35272840 A
1 A
35272841 AATCGATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTTTAACAATAAATAAAATT
Found at i:35275710 original size:22 final size:21
Alignment explanation
Indices: 35275680--35275721 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
35275670 ACACAAAAAC
*
35275680 AGGCTTTTAGCGACGCTTTTTT
1 AGGCCTTTAG-GACGCTTTTTT
*
35275702 AGGCCTTTAGGGCGCTTTTT
1 AGGCCTTTAGGACGCTTTTT
35275722 AGCTAGCGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.12, C:0.19, G:0.26, T:0.43
Consensus pattern (21 bp):
AGGCCTTTAGGACGCTTTTTT
Found at i:35275831 original size:43 final size:43
Alignment explanation
Indices: 35275764--35275968 Score: 310
Period size: 43 Copynumber: 4.8 Consensus size: 43
35275754 GCGTCGCTAA
35275764 CTTTAGCGGCG--TTTCTCCATCAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTC-CCA-CAAACGCCGCTAAAGACCAAGAC
* *
35275807 CTTCAGCGGCGCTTTTCCCACAAACGCCGCTAAAGGCCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
*
35275850 CTTTAGCGGCGCTTTTCCCACAAACGTCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
*
35275893 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGA--ATAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCA-AGAC
*
35275935 CTTTAGCGGCGCTTTTCACACAAACGCCGCTAAA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAA
35275969 AAATATCTTT
Statistics
Matches: 150, Mismatches: 9, Indels: 7
0.90 0.05 0.04
Matches are distributed among these distances:
41 1 0.01
42 36 0.24
43 106 0.71
44 3 0.02
45 4 0.03
ACGTcount: A:0.27, C:0.33, G:0.19, T:0.21
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
Found at i:35276001 original size:14 final size:16
Alignment explanation
Indices: 35275984--35276015 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
35275974 TCTTTTAAAA
35275984 AAATAAT-TTT-TTTC
1 AAATAATATTTATTTC
35275998 AAATAATATTTATTTC
1 AAATAATATTTATTTC
35276014 AA
1 AA
35276016 TGAAAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 3 0.19
16 6 0.38
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (16 bp):
AAATAATATTTATTTC
Found at i:35276286 original size:43 final size:43
Alignment explanation
Indices: 35276238--35276328 Score: 139
Period size: 43 Copynumber: 2.1 Consensus size: 43
35276228 ACATATGCAA
* * *
35276238 GGTAATAAAATATACAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAATATACAATACATTTACTTAATCAAGGAAATCTT
*
35276281 GGTAATAAAATATATAATACATTTACTTAATCAAGGAAATCTT
1 GGTAATAAAATATACAATACATTTACTTAATCAAGGAAATCTT
35276324 -GTAAT
1 GGTAAT
35276329 GAACTCAAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
42 5 0.11
43 39 0.89
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (43 bp):
GGTAATAAAATATACAATACATTTACTTAATCAAGGAAATCTT
Found at i:35277390 original size:2 final size:2
Alignment explanation
Indices: 35277383--35277407 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
35277373 ATGATCAACT
35277383 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
35277408 TGAAAAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:35288101 original size:14 final size:14
Alignment explanation
Indices: 35288077--35288116 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
35288067 ACATATCTTG
35288077 CCATA-GGTCTTAA
1 CCATATGGTCTTAA
35288090 CCATATGGTCTTAA
1 CCATATGGTCTTAA
* *
35288104 CGACATGGTCTTA
1 CCATATGGTCTTA
35288117 CACACATTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 5 0.21
14 19 0.79
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.33
Consensus pattern (14 bp):
CCATATGGTCTTAA
Found at i:35289868 original size:49 final size:50
Alignment explanation
Indices: 35289804--35290027 Score: 168
Period size: 49 Copynumber: 4.4 Consensus size: 50
35289794 GCTATGTCCT
* * *
35289804 AGACATAGTCTTACATGGGATGTT-TCTTATA-CTGCCAATGTCATATCCC
1 AGACATGGTCTTACATGGGA-GTTCTCATATAGCTGCCAATGCCATATCCC
* * * *
35289853 AGATATGGTCTTACATGGGAGTTCTCATATAGGTGCCCATGCCATGTCCC
1 AGACATGGTCTTACATGGGAGTTCTCATATAGCTGCCAATGCCATATCCC
* ** * * * * * *
35289903 AGACATGGTCTTAC-GGGGACCTCTCGTCTTGATGCCAACGCCAT-GCCC
1 AGACATGGTCTTACATGGGAGTTCTCATATAGCTGCCAATGCCATATCCC
** * *
35289951 AAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATGCCATGTCCC
1 -AGACATGGTCTTACATGGGAGTTCTCAT-A--T--A-GCTGCCAATGCCATATCCC
35290008 AGACATGGTCTTACATGGGA
1 AGACATGGTCTTACATGGGA
35290028 TCTCTTTACC
Statistics
Matches: 140, Mismatches: 24, Indels: 15
0.78 0.13 0.08
Matches are distributed among these distances:
48 6 0.04
49 59 0.42
50 38 0.27
53 1 0.01
56 33 0.24
57 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (50 bp):
AGACATGGTCTTACATGGGAGTTCTCATATAGCTGCCAATGCCATATCCC
Found at i:35294233 original size:7 final size:7
Alignment explanation
Indices: 35294221--35294261 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
35294211 TAGTAAACAA
35294221 TAATATT
1 TAATATT
35294228 TAATATT
1 TAATATT
35294235 TAATATT
1 TAATATT
35294242 TAATATT
1 TAATATT
35294249 TAATATT
1 TAATATT
35294256 TAATAT
1 TAATAT
35294262 AGTATGTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TAATATT
Found at i:35295544 original size:29 final size:31
Alignment explanation
Indices: 35295480--35295553 Score: 100
Period size: 29 Copynumber: 2.5 Consensus size: 31
35295470 ACTACCAAAA
*
35295480 TAGTCACTTTTGTTTGGCACAAGTTACATTT
1 TAGTCACTTATGTTTGGCACAAGTTACATTT
*
35295511 TAGTCACTTATGTTT-G-A-AATGTTACGTTT
1 TAGTCACTTATGTTTGGCACAA-GTTACATTT
35295540 TAGTCACTTATGTT
1 TAGTCACTTATGTT
35295554 ATCACGTTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 2 0.05
29 23 0.57
30 1 0.03
31 14 0.35
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.47
Consensus pattern (31 bp):
TAGTCACTTATGTTTGGCACAAGTTACATTT
Found at i:35295575 original size:31 final size:29
Alignment explanation
Indices: 35295505--35295578 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
35295495 GGCACAAGTT
* *
35295505 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTATGTTTCAAATGTA
* **
35295534 ACGTTTTAGTCACTTATGTTATCACGTTGTA
1 ACATTTTAGTCACTTATGTT-TCA-AATGTA
35295565 ACATTTTAGTCACT
1 ACATTTTAGTCACT
35295579 GAGCCGTTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 19 0.51
30 2 0.05
31 16 0.43
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.46
Consensus pattern (29 bp):
ACATTTTAGTCACTTATGTTTCAAATGTA
Found at i:35301136 original size:37 final size:37
Alignment explanation
Indices: 35301086--35301164 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
35301076 TTATTACGAA
* * *
35301086 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
35301123 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
35301160 GTCTT
1 GTCTT
35301165 TAGAGCTCGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:35301359 original size:47 final size:47
Alignment explanation
Indices: 35301281--35301573 Score: 415
Period size: 47 Copynumber: 6.2 Consensus size: 47
35301271 CCCTTCGGGA
* * * * * *
35301281 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
35301328 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCTTTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** * *
35301375 CTTATCACGCATATACACTTTCACATTCATCACATTGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35301422 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35301471 CTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35301518 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35301565 CTTATCACA
1 CTTATCACA
35301574 ATTTAGAATT
Statistics
Matches: 218, Mismatches: 26, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
47 177 0.81
49 41 0.19
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:35301497 original size:143 final size:141
Alignment explanation
Indices: 35301281--35301578 Score: 425
Period size: 143 Copynumber: 2.1 Consensus size: 141
35301271 CCCTTCGGGA
* * * * *
35301281 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATTTATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACACATATACAC
* * *
35301346 TTTCACATTCATCACATCGGCCTTTAAGCCTTATCACGCATATACACTTTCACATTCATCACATT
66 TTTCACATTCATCACATCGGCCATTAAGCCTTATCACACATATACACTTTCACATTCATCACATC
35301411 GGCCATTAAGC
131 GGCCATTAAGC
* * * * *
35301422 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCGCACATATAC
1 CTTATCACAT-T-TATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACACATATAC
* *
35301487 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACACATATACACTTTCACATTCATCACA
*
35301552 TCGGCCATTAGGC
129 TCGGCCATTAAGC
35301565 CTTATCACAATTTA
1 CTTATCAC-ATTTA
35301579 GAATTCACAT
Statistics
Matches: 138, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
141 10 0.07
142 3 0.02
143 123 0.89
144 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (141 bp):
CTTATCACATTTATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACACATATACAC
TTTCACATTCATCACATCGGCCATTAAGCCTTATCACACATATACACTTTCACATTCATCACATC
GGCCATTAAGC
Found at i:35303014 original size:13 final size:13
Alignment explanation
Indices: 35302996--35303020 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35302986 TACTAAATTT
35302996 TCATGGATTCAAG
1 TCATGGATTCAAG
35303009 TCATGGATTCAA
1 TCATGGATTCAA
35303021 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:35310881 original size:46 final size:46
Alignment explanation
Indices: 35310814--35310907 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
35310804 GAACATATGT
35310814 TAGGTGAGAGTTCAGTTTAGTTGATTCATGCAGCTACACTAGGACC
1 TAGGTGAGAGTTCAGTTTAGTTGATTCATGCAGCTACACTAGGACC
35310860 TAGGTGAGAGTTCAGTTTAGTTGATTCATGCAGCTACACTAGGACC
1 TAGGTGAGAGTTCAGTTTAGTTGATTCATGCAGCTACACTAGGACC
35310906 TA
1 TA
35310908 TCCTAGGGAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (46 bp):
TAGGTGAGAGTTCAGTTTAGTTGATTCATGCAGCTACACTAGGACC
Found at i:35311226 original size:6 final size:6
Alignment explanation
Indices: 35311215--35311248 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
35311205 GAACATGTCC
35311215 TAATTT TAATTT TAATTT TAATTT TAATTT TAAT
1 TAATTT TAATTT TAATTT TAATTT TAATTT TAAT
35311249 AACTACAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
TAATTT
Found at i:35311729 original size:21 final size:20
Alignment explanation
Indices: 35311658--35311729 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 20
35311648 GAAATATTAT
35311658 AAAATTATTAAAGATTAC-A
1 AAAATTATTAAAGATTACTA
* *
35311677 AAAATAATTTATAAAATTTA-TAA
1 AAAATTA-TTA-AAGA-TTACT-A
*
35311700 AAAAATATTAAAGAGTTACTA
1 AAAATTATTAAAGA-TTACTA
35311721 AAAATTATT
1 AAAATTATT
35311730 TAAATATTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
19 6 0.15
20 3 0.08
21 18 0.45
22 7 0.17
23 6 0.15
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (20 bp):
AAAATTATTAAAGATTACTA
Found at i:35311732 original size:22 final size:21
Alignment explanation
Indices: 35311665--35311738 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 21
35311655 TATAAAATTA
35311665 TTAAAGATTAC-AAAAATAAT
1 TTAAAGATTACTAAAAATAAT
*
35311685 TTATAAAATTTA-TAAAAA-AAT
1 TTA-AAGA-TTACTAAAAATAAT
*
35311706 ATTAAAGAGTTACTAAAAATTAT
1 -TTAAAGA-TTACTAAAAATAAT
*
35311729 TTAAATATTA
1 TTAAAGATTA
35311739 TAGAACTTCT
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
20 3 0.07
21 15 0.35
22 23 0.53
23 2 0.05
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.36
Consensus pattern (21 bp):
TTAAAGATTACTAAAAATAAT
Found at i:35311740 original size:42 final size:39
Alignment explanation
Indices: 35311644--35311740 Score: 106
Period size: 42 Copynumber: 2.4 Consensus size: 39
35311634 AAAAAGAGAA
* *
35311644 TATTGAAATATTAT-AAAATTATTAAAGATTACAAAAAT
1 TATTTAAATATTATAAAAAATATTAAAGATTACAAAAAT
* *
35311682 AATTTATAAAATTTATAAAAAAATATTAAAGAGTTACTAAAAAT
1 TATTTA-AATA-TTAT-AAAAAATATTAAAGA-TTAC-AAAAAT
35311726 TATTTAAATATTATA
1 TATTTAAATATTATA
35311741 GAACTTCTAG
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
38 4 0.09
39 3 0.06
40 4 0.09
41 1 0.02
42 17 0.36
43 7 0.15
44 11 0.23
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (39 bp):
TATTTAAATATTATAAAAAATATTAAAGATTACAAAAAT
Found at i:35311772 original size:19 final size:18
Alignment explanation
Indices: 35311748--35311787 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
35311738 ATAGAACTTC
*
35311748 TAGAAAATCATATAAAATA
1 TAGAAAATCAT-TAAAAAA
*
35311767 TAGAAAATTATTAAAAAA
1 TAGAAAATCATTAAAAAA
35311785 TAG
1 TAG
35311788 TTATAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (18 bp):
TAGAAAATCATTAAAAAA
Found at i:35311797 original size:22 final size:19
Alignment explanation
Indices: 35311770--35311814 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 19
35311760 TAAAATATAG
35311770 AAAATTATTAAAAAATAGTTAT
1 AAAATTA-TAAAAAA-A-TTAT
*
35311792 AAAATTATAGAAAAATTAT
1 AAAATTATAAAAAAATTAT
35311811 AAAA
1 AAAA
35311815 ATGAGAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 1 0.05
21 6 0.27
22 7 0.32
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (19 bp):
AAAATTATAAAAAAATTAT
Done.