Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
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: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 32 of 120
Found at i:8574808 original size:22 final size:22
Alignment explanation
Indices: 8574763--8574808 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
8574753 CCCTCGTCGC
* *
8574763 ATCTTCCTTATGGAACTGGTCA
1 ATCTTCCCTATGGAACTGCTCA
8574785 ATCTTCCCT-TGGAACTGCTGCA
1 ATCTTCCCTATGGAACTGCT-CA
8574807 AT
1 AT
8574809 GCCTTGGCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (22 bp):
ATCTTCCCTATGGAACTGCTCA
Found at i:8579673 original size:39 final size:39
Alignment explanation
Indices: 8579630--8579708 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
8579620 ATCAATGGCT
8579630 ACAATTAAAAGCTGTATACAATTAGAACTCTAAAATTAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAAATTAC
* *
8579669 ACAATTAAAAGTTGTATACAATTAGAACTCTAAGATTAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAAATTAC
8579708 A
1 A
8579709 TAATCATATC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.48, C:0.14, G:0.09, T:0.29
Consensus pattern (39 bp):
ACAATTAAAAGCTGTATACAATTAGAACTCTAAAATTAC
Found at i:8580789 original size:35 final size:35
Alignment explanation
Indices: 8580743--8580849 Score: 205
Period size: 35 Copynumber: 3.1 Consensus size: 35
8580733 GAAAAACAGT
*
8580743 GATATCTGAAATAATTAATTGATTTTATAATATTA
1 GATATCTGAAATTATTAATTGATTTTATAATATTA
8580778 GATATCTGAAATTATTAATTGATTTTATAATATTA
1 GATATCTGAAATTATTAATTGATTTTATAATATTA
8580813 GATATCTGAAATTATTAATTGATTTTATAATATTA
1 GATATCTGAAATTATTAATTGATTTTATAATATTA
8580848 GA
1 GA
8580850 ACTCATCATA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
35 71 1.00
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (35 bp):
GATATCTGAAATTATTAATTGATTTTATAATATTA
Found at i:8581016 original size:13 final size:13
Alignment explanation
Indices: 8580998--8581023 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8580988 ATAATGTATT
8580998 TATTAATTAAAAA
1 TATTAATTAAAAA
8581011 TATTAATTAAAAA
1 TATTAATTAAAAA
8581024 AAGCTTGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TATTAATTAAAAA
Found at i:8582912 original size:20 final size:20
Alignment explanation
Indices: 8582887--8582948 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
8582877 AATTAATTAA
8582887 TTAAAATTTAAAAAATATTT
1 TTAAAATTTAAAAAATATTT
* ** *
8582907 TTAAAAATTACTAAAT-TTA
1 TTAAAATTTAAAAAATATTT
* *
8582926 TTAAAGTATAAAAAAATATTT
1 TTAAAAT-TTAAAAAATATTT
8582947 TT
1 TT
8582949 TTAGATTTTC
Statistics
Matches: 30, Mismatches: 10, Indels: 3
0.70 0.23 0.07
Matches are distributed among these distances:
19 7 0.23
20 19 0.63
21 4 0.13
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
TTAAAATTTAAAAAATATTT
Found at i:8584166 original size:6 final size:6
Alignment explanation
Indices: 8584138--8584209 Score: 74
Period size: 6 Copynumber: 12.2 Consensus size: 6
8584128 TTTAGGGTTT
* * * *
8584138 AAGAAG -AGAAA AATAAG AAGAAA AAGAAA AAGAAG AAGAAG AAGAAG
1 AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG
* * *
8584185 AAGAAG GAGAAG GAGAAG GAGAAG A
1 AAGAAG AAGAAG AAGAAG AAGAAG A
8584210 GAAAAAATGG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
5 4 0.07
6 53 0.93
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (6 bp):
AAGAAG
Found at i:8584195 original size:9 final size:9
Alignment explanation
Indices: 8584138--8584209 Score: 74
Period size: 9 Copynumber: 8.1 Consensus size: 9
8584128 TTTAGGGTTT
8584138 AAGAAG-AG
1 AAGAAGAAG
* *
8584146 AAAAATAAG
1 AAGAAGAAG
*
8584155 AAGAAAAAG
1 AAGAAGAAG
*
8584164 AAAAAGAAG
1 AAGAAGAAG
8584173 AAGAAGAAG
1 AAGAAGAAG
8584182 AAGAAGAAG
1 AAGAAGAAG
* *
8584191 GAGAAGGAG
1 AAGAAGAAG
*
8584200 AAGGAGAAG
1 AAGAAGAAG
8584209 A
1 A
8584210 GAAAAAATGG
Statistics
Matches: 51, Mismatches: 12, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
8 4 0.08
9 47 0.92
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (9 bp):
AAGAAGAAG
Found at i:8586591 original size:11 final size:11
Alignment explanation
Indices: 8586577--8586604 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
8586567 AATTTATTTT
8586577 AAATTTGTTGG
1 AAATTTGTTGG
8586588 AAATTTGTTGG
1 AAATTTGTTGG
8586599 AAATTT
1 AAATTT
8586605 TAGTGTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.46
Consensus pattern (11 bp):
AAATTTGTTGG
Found at i:8591209 original size:16 final size:16
Alignment explanation
Indices: 8591179--8591215 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
8591169 AAACATTTTT
8591179 TTAAA-ATTATAATAC
1 TTAAATATTATAATAC
*
8591194 TTAAATATTTTAATAC
1 TTAAATATTATAATAC
8591210 TTAAAT
1 TTAAAT
8591216 TTAAATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (16 bp):
TTAAATATTATAATAC
Found at i:8591238 original size:19 final size:21
Alignment explanation
Indices: 8591194--8591239 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
8591184 ATTATAATAC
8591194 TTAAATATTTTAATACTTAAAT
1 TTAAATATTTTAATA-TTAAAT
*
8591216 TTAAATATTTT-AT-TTATAT
1 TTAAATATTTTAATATTAAAT
8591235 TTAAA
1 TTAAA
8591240 CACTTTATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 10 0.43
21 2 0.09
22 11 0.48
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
TTAAATATTTTAATATTAAAT
Found at i:8596295 original size:26 final size:26
Alignment explanation
Indices: 8596266--8596315 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
8596256 TTTATTTTGA
* *
8596266 TTTTT-CATTTAATTTTTTTTTTGTC
1 TTTTTACATTTAAATTTGTTTTTGTC
*
8596291 TTTTTACCTTTAAATTTGTTTTTGT
1 TTTTTACATTTAAATTTGTTTTTGT
8596316 TTTATCAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.14, C:0.08, G:0.06, T:0.72
Consensus pattern (26 bp):
TTTTTACATTTAAATTTGTTTTTGTC
Found at i:8599719 original size:18 final size:18
Alignment explanation
Indices: 8599680--8599724 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
8599670 TTAAGCTTAA
*
8599680 TTAATTAACTTAATCATGT
1 TTAATTAACTT-ATCATAT
8599699 TTAATTAAGCTT-TCATAT
1 TTAATTAA-CTTATCATAT
8599717 TTAATTAA
1 TTAATTAA
8599725 TTTAAACTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 13 0.54
19 8 0.33
20 3 0.12
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.49
Consensus pattern (18 bp):
TTAATTAACTTATCATAT
Found at i:8600590 original size:16 final size:16
Alignment explanation
Indices: 8600566--8600596 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8600556 GAAAAAAACA
8600566 TATTGTATTTTTATTC
1 TATTGTATTTTTATTC
*
8600582 TATTTTATTTTTATT
1 TATTGTATTTTTATT
8600597 TTGTATGGGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.74
Consensus pattern (16 bp):
TATTGTATTTTTATTC
Found at i:8601725 original size:2 final size:2
Alignment explanation
Indices: 8601684--8601713 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8601674 CCCTACTTTA
8601684 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
8601714 CATTTGTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8603465 original size:23 final size:23
Alignment explanation
Indices: 8603422--8603476 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 23
8603412 TATCATTTCT
*
8603422 AAAAATATATTAAAAGCAAAT-TC
1 AAAAATATATT-AAAGCAAATATA
8603445 AAAAATAGTATT-AAGCTAAATATA
1 AAAAATA-TATTAAAGC-AAATATA
8603469 AAAAATAT
1 AAAAATAT
8603477 TAAAAATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
22 4 0.14
23 12 0.43
24 12 0.43
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.27
Consensus pattern (23 bp):
AAAAATATATTAAAGCAAATATA
Found at i:8605463 original size:44 final size:44
Alignment explanation
Indices: 8605404--8605497 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 44
8605394 CCTTTATTTT
* *
8605404 AATCCGCTCCACTATAATCTCAGGGAGATAGGAT-TACTAGCTTC
1 AATCTGCTCCACTATAATCTCAGGGAGATAAGATAT-CTAGCTTC
* * *
8605448 AATCTGCTCCGCTATAATCTCAGTGAGATAAGATATCTGGCTTC
1 AATCTGCTCCACTATAATCTCAGGGAGATAAGATATCTAGCTTC
8605492 AATCTG
1 AATCTG
8605498 ATGTGATCTA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 43 0.98
45 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (44 bp):
AATCTGCTCCACTATAATCTCAGGGAGATAAGATATCTAGCTTC
Found at i:8605476 original size:142 final size:142
Alignment explanation
Indices: 8605211--8605537 Score: 521
Period size: 142 Copynumber: 2.3 Consensus size: 142
8605201 GAGATAAGAC
* * *
8605211 CTGATGCGATCTACTCTGCTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCCGCTCCAGTG
1 CTGATGCGATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCCGCTCCACTA
* * * *
8605276 TAATCTCAGTGAGATAGGATTACTAGCTTTAATCTGCTCCGCTGTAATATCAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTATAATATCAGGGAGATAAGATA
8605341 TCTGTG-TTCAAT
131 TCTG-GCTTCAAT
* *
8605353 TTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTA
1 CTGATGCGATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCCGCTCCACTA
* *
8605418 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTCAGTGAGATAAGATA
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTATAATATCAGGGAGATAAGATA
8605483 TCTGGCTTCAAT
131 TCTGGCTTCAAT
* *
8605495 CTGATGTGATCTACTCTACTGTAAGTTCAAAGAGATAAGATCC
1 CTGATGCGATCTACTCTACTGTAACTTCAAAGAGATAAGATCC
8605538 ACCATTTCCG
Statistics
Matches: 169, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
141 1 0.01
142 168 0.99
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (142 bp):
CTGATGCGATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCCGCTCCACTA
TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTATAATATCAGGGAGATAAGATA
TCTGGCTTCAAT
Found at i:8618209 original size:15 final size:16
Alignment explanation
Indices: 8618191--8618220 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8618181 AATTAAAATG
8618191 ATAA-AAAAAAACAAA
1 ATAATAAAAAAACAAA
8618206 ATAATAAAAAAACAA
1 ATAATAAAAAAACAA
8618221 TAAACCCCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (16 bp):
ATAATAAAAAAACAAA
Found at i:8620394 original size:2 final size:2
Alignment explanation
Indices: 8620387--8620419 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8620377 TCATTAACTT
8620387 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8620420 TAAAGTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8623433 original size:16 final size:16
Alignment explanation
Indices: 8623409--8623446 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
8623399 TTTGGTTCGC
* *
8623409 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
8623425 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
8623441 TGTAAT
1 TGTAAT
8623447 AGCAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:8623491 original size:45 final size:44
Alignment explanation
Indices: 8623425--8623519 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
8623415 GGATTAGAGG
*
8623425 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
8623470 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
8623514 TGTAAT
1 TGTAAT
8623520 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 22 0.49
45 23 0.51
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:8623697 original size:16 final size:16
Alignment explanation
Indices: 8623660--8623701 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
8623650 TTAATCATAT
*
8623660 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
8623676 TT-AAATATATTATAA
1 TTAAAATATATTATAA
8623691 TTAAAATATAT
1 TTAAAATATAT
8623702 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:8623708 original size:14 final size:15
Alignment explanation
Indices: 8623669--8623710 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
8623659 TTTAAACATA
*
8623669 ATTATTATTAAATAT
1 ATTATAATTAAATAT
8623684 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
8623698 A-TATAATTTAATA
1 ATTATAATTAAATA
8623711 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:8623832 original size:59 final size:58
Alignment explanation
Indices: 8623663--8623833 Score: 150
Period size: 59 Copynumber: 2.9 Consensus size: 58
8623653 ATCATATTTA
* *
8623663 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAAT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAA-TATAAAT
* * * * * * * * * *
8623722 AATA-ATATTCTTATATGAATTTACTCA-AATCATAATATATGATACT-GTAAAATATAAATT
1 AACATA-ATTATTAT-TAAATATA-TTATAATTAAAATATATAAT-TTAATAAAATATAAA-T
*
8623782 AACATAATTGTTATTAAATATATTATAATTAAAATATATAATTTAATAAAAT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAAT
8623834 TCTTAATAAT
Statistics
Matches: 82, Mismatches: 22, Indels: 16
0.68 0.18 0.13
Matches are distributed among these distances:
58 4 0.05
59 39 0.48
60 35 0.43
61 4 0.05
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (58 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATATAAAT
Found at i:8623900 original size:119 final size:121
Alignment explanation
Indices: 8623658--8623954 Score: 494
Period size: 120 Copynumber: 2.5 Consensus size: 121
8623648 ATTTAATCAT
*
8623658 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
8623723 ATAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
66 ATAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAA
*
8623779 A-TT-AACATAATTGTTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
8623842 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AA
66 A-TAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAA
* * *
8623898 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
8623955 TAAAATAATT
Statistics
Matches: 166, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
119 63 0.38
120 100 0.60
121 3 0.02
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAA
Found at i:8624064 original size:101 final size:93
Alignment explanation
Indices: 8623897--8624177 Score: 286
Period size: 91 Copynumber: 3.0 Consensus size: 93
8623887 TATAAAAGAA
* * * *
8623897 AATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATT-TAAAA
1 AATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTCT----
* * * *
8623960 TAATTATAACTAATAAATTATATTTTATGAATTTGTAT
61 T-A--ATAA-T-ATAAATTTTATTATATGAATTTATAC
* *
8623998 AATTTAAAATAA-TAATTATTACATATAATTTAATAATAATATATAATTTCATAAAATTCTTGAT
1 AATTTAAAATAATTAA-TATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTAAT
*
8624062 -A-ATAAATTTTCTTATATGAATTTATAC
65 AATATAAATTTTATTATATGAATTTATAC
* *
8624089 AATTTAAAATAATTAATATTAAATATAATTTAATAGTGATATATAATTTCATAAAATTCTTAATA
1 AATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTAATA
* *
8624154 ATA-AAATGTTCTTATATGAATTTA
66 ATATAAATTTTATTATATGAATTTA
8624178 CTAAAATCAA
Statistics
Matches: 158, Mismatches: 16, Indels: 21
0.81 0.08 0.11
Matches are distributed among these distances:
91 77 0.49
92 24 0.15
93 1 0.01
94 1 0.01
95 2 0.01
98 1 0.01
100 6 0.04
101 45 0.28
102 1 0.01
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (93 bp):
AATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTAATA
ATATAAATTTTATTATATGAATTTATAC
Found at i:8625495 original size:11 final size:11
Alignment explanation
Indices: 8625481--8625507 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
8625471 AAAAATCAAT
8625481 ACAAAAGTTTC
1 ACAAAAGTTTC
8625492 ACAAAAGTTTC
1 ACAAAAGTTTC
8625503 ACAAA
1 ACAAA
8625508 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:8629427 original size:20 final size:19
Alignment explanation
Indices: 8629388--8629435 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 19
8629378 GGTCCCAAAA
8629388 TTATTATTTTAGAAAATTTT
1 TTATT-TTTTAGAAAATTTT
*
8629408 ATATATTTTTTAG-AATTTTT
1 -T-TATTTTTTAGAAAATTTT
8629428 TTATTTTT
1 TTATTTTT
8629436 AAAAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 7 0.28
19 1 0.04
20 6 0.24
21 7 0.28
22 4 0.16
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (19 bp):
TTATTTTTTAGAAAATTTT
Found at i:8629503 original size:20 final size:19
Alignment explanation
Indices: 8629464--8629514 Score: 77
Period size: 20 Copynumber: 2.7 Consensus size: 19
8629454 TTTTTTGAAA
8629464 TATTTTGAATTTTAAAAAT
1 TATTTTGAATTTTAAAAAT
*
8629483 TATTTTGAATATTTGAAAAT
1 TATTTTGAAT-TTTAAAAAT
8629503 TATTTT-AATTTT
1 TATTTTGAATTTT
8629515 TTTGGTAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 3 0.10
19 13 0.43
20 14 0.47
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (19 bp):
TATTTTGAATTTTAAAAAT
Found at i:8629518 original size:21 final size:20
Alignment explanation
Indices: 8629455--8629515 Score: 76
Period size: 19 Copynumber: 3.2 Consensus size: 20
8629445 AATTTTGGTT
8629455 TTTTTG-AAA-TATTTTGAA
1 TTTTTGAAAATTATTTTGAA
*
8629473 -TTTTAAAAATTATTTTGAA
1 TTTTTGAAAATTATTTTGAA
*
8629492 TATTTGAAAATTATTTT-AA
1 TTTTTGAAAATTATTTTGAA
8629511 TTTTT
1 TTTTT
8629516 TTGGTAATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 4 0.11
18 3 0.08
19 15 0.42
20 14 0.39
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (20 bp):
TTTTTGAAAATTATTTTGAA
Found at i:8631125 original size:10 final size:11
Alignment explanation
Indices: 8631109--8631141 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
8631099 AAATCTTAAT
8631109 TAATTAATTTA
1 TAATTAATTTA
8631120 -AATTAATTTA
1 TAATTAATTTA
8631130 TAATTATATTTA
1 TAATTA-ATTTA
8631142 GATGTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 5 0.25
12 5 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TAATTAATTTA
Found at i:8631456 original size:3 final size:3
Alignment explanation
Indices: 8631444--8631483 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
8631434 ATAAATTGTT
8631444 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA A
8631484 ATTTTAATGG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:8632760 original size:18 final size:19
Alignment explanation
Indices: 8632719--8632762 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
8632709 GGTTTGAGTC
*
8632719 ATTAACATTTTTTTATTGAC
1 ATTAACATTTTTTTA-TGAA
*
8632739 ATTAAGATTTTTTTA-GAA
1 ATTAACATTTTTTTATGAA
8632757 ATTAAC
1 ATTAAC
8632763 TCCGTCAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 7 0.33
20 14 0.67
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (19 bp):
ATTAACATTTTTTTATGAA
Found at i:8633554 original size:2 final size:2
Alignment explanation
Indices: 8633547--8633582 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
8633537 GGTGGTGTGC
8633547 AT 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 AT
8633583 GCATCTATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8636276 original size:25 final size:24
Alignment explanation
Indices: 8636230--8636278 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
8636220 TTTAATCAAA
* *
8636230 ATTAAAATTAAACCAATCAATTTT
1 ATTAAAAATAAACCAATAAATTTT
*
8636254 ATTAAAAATGAACCAATAAAATTTT
1 ATTAAAAATAAACCAAT-AAATTTT
8636279 TTATCTCTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.53, C:0.10, G:0.02, T:0.35
Consensus pattern (24 bp):
ATTAAAAATAAACCAATAAATTTT
Found at i:8647343 original size:28 final size:29
Alignment explanation
Indices: 8647312--8647388 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 29
8647302 TACATTTTAG
* *
8647312 ATAAATATTAATATAAAAAAAT-ATCTAA
1 ATAAATAATAATATAAAAAAATAAACTAA
* * *
8647340 ATAAATAGT-ATTTAAAAAAATAAACTCA
1 ATAAATAATAATATAAAAAAATAAACTAA
* *
8647368 ATAAATAAAAATGTAAAAAAA
1 ATAAATAATAATATAAAAAAA
8647389 AATGGTGGGA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
27 11 0.28
28 19 0.47
29 10 0.25
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (29 bp):
ATAAATAATAATATAAAAAAATAAACTAA
Found at i:8652310 original size:13 final size:13
Alignment explanation
Indices: 8652254--8652314 Score: 70
Period size: 13 Copynumber: 4.7 Consensus size: 13
8652244 TCTTCATTGT
8652254 TTTTGAAAAGTGC
1 TTTTGAAAAGTGC
* *
8652267 TGTAGAAAAGTGC
1 TTTTGAAAAGTGC
*
8652280 TTTT-AAGAAGTAC
1 TTTTGAA-AAGTGC
*
8652293 TTTTGAGAAGTGC
1 TTTTGAAAAGTGC
8652306 TTTTGAAAA
1 TTTTGAAAA
8652315 ATTTTAGTGT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
12 2 0.05
13 35 0.92
14 1 0.03
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Found at i:8656631 original size:24 final size:22
Alignment explanation
Indices: 8656588--8656631 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
8656578 AACAGTAAAT
*
8656588 TATACATAATATTTAAAATATA
1 TATACAAAATATTTAAAATATA
8656610 TATACAAATATATTTCAAAATA
1 TATACAAA-ATATTT-AAAATA
8656632 ATTTACTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 6 0.32
24 6 0.32
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.39
Consensus pattern (22 bp):
TATACAAAATATTTAAAATATA
Found at i:8656658 original size:2 final size:2
Alignment explanation
Indices: 8656651--8656689 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
8656641 AATTACATAC
8656651 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8656690 GAAAGTATCA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8657021 original size:2 final size:2
Alignment explanation
Indices: 8657014--8657045 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8657004 GAACTACTTT
8657014 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8657046 AGTACTAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8657952 original size:5 final size:5
Alignment explanation
Indices: 8657942--8657974 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
8657932 CGAAAATGAA
*
8657942 AAAAT AAAAT AAAAT AAAAT AAAA- AAATT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
8657975 GAAATCTGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 3 0.12
5 22 0.88
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:8658800 original size:19 final size:19
Alignment explanation
Indices: 8658774--8658823 Score: 55
Period size: 23 Copynumber: 2.4 Consensus size: 19
8658764 ACCGGCAGAG
8658774 GACAGAGGAACAAAGAACC
1 GACAGAGGAACAAAGAACC
*
8658793 GGCAGAGGGTAGAACAAAGAACC
1 GACAGA--G--GAACAAAGAACC
8658816 GACAGAGG
1 GACAGAGG
8658824 GCAGAGATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
19 6 0.24
21 2 0.08
23 17 0.68
ACGTcount: A:0.46, C:0.18, G:0.34, T:0.02
Consensus pattern (19 bp):
GACAGAGGAACAAAGAACC
Found at i:8658811 original size:23 final size:23
Alignment explanation
Indices: 8658781--8658824 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
8658771 GAGGACAGAG
*
8658781 GAACAAAGAACCGGCAGAGGGTA
1 GAACAAAGAACCGACAGAGGGTA
8658804 GAACAAAGAACCGACAGAGGG
1 GAACAAAGAACCGACAGAGGG
8658825 CAGAGATGAG
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:0.45, C:0.18, G:0.34, T:0.02
Consensus pattern (23 bp):
GAACAAAGAACCGACAGAGGGTA
Found at i:8661386 original size:17 final size:18
Alignment explanation
Indices: 8661348--8661386 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
8661338 TTTAGCATCC
*
8661348 ATTTAACTTTTCATATTT
1 ATTTAACTTTTCAAATTT
8661366 -TTTAACTTTT-AAATTT
1 ATTTAACTTTTCAAATTT
8661382 ATTTA
1 ATTTA
8661387 TTTTATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTAACTTTTCAAATTT
Found at i:8667334 original size:24 final size:25
Alignment explanation
Indices: 8667307--8667353 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
8667297 GGGAGTGCTT
* *
8667307 GGCAC-CCTATTTTTCGGTTATAAG
1 GGCACACCTATTTGTCAGTTATAAG
*
8667331 GGCACATCTATTTGTCAGTTATA
1 GGCACACCTATTTGTCAGTTATA
8667354 CCGACCAGCG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 5 0.26
25 14 0.74
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (25 bp):
GGCACACCTATTTGTCAGTTATAAG
Found at i:8677598 original size:29 final size:32
Alignment explanation
Indices: 8677566--8677627 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 32
8677556 CTTCTTTGCT
*
8677566 TTTTTCTTCAATTT-GGCCC-AATTGT-TTCC
1 TTTTTCTTCAATTTAGCCCCAAATTGTATTCC
*
8677595 TTTTTCTTCTATTTAGCCCCAAATTGTATTCC
1 TTTTTCTTCAATTTAGCCCCAAATTGTATTCC
8677627 T
1 T
8677628 GCACAAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 13 0.46
30 4 0.14
31 6 0.21
32 5 0.18
ACGTcount: A:0.16, C:0.24, G:0.08, T:0.52
Consensus pattern (32 bp):
TTTTTCTTCAATTTAGCCCCAAATTGTATTCC
Found at i:8680553 original size:31 final size:31
Alignment explanation
Indices: 8680518--8680580 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
8680508 AAGATTAGTG
8680518 TCTATCTATAAGATGAGAGTCCTAAGAGATT
1 TCTATCTATAAGATGAGAGTCCTAAGAGATT
*
8680549 TCTATCTATAAGATGAGAGTCGTAAGAGATT
1 TCTATCTATAAGATGAGAGTCCTAAGAGATT
8680580 T
1 T
8680581 AAATTCTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (31 bp):
TCTATCTATAAGATGAGAGTCCTAAGAGATT
Found at i:8682480 original size:39 final size:39
Alignment explanation
Indices: 8682426--8682503 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
8682416 TTATAAAGTT
8682426 ATATGTATAGCCTACTAATATTTAACCTAACATTGATCA
1 ATATGTATAGCCTACTAATATTTAACCTAACATTGATCA
8682465 ATATGTATAGCCTACTAATATTTAACCTAACATTGATCA
1 ATATGTATAGCCTACTAATATTTAACCTAACATTGATCA
8682504 TTTTGTCTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (39 bp):
ATATGTATAGCCTACTAATATTTAACCTAACATTGATCA
Found at i:8695014 original size:20 final size:20
Alignment explanation
Indices: 8694991--8695028 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
8694981 TCTAAAAAAG
8694991 AAAAAAATCAAAG-AAAATGT
1 AAAAAAAT-AAAGCAAAATGT
*
8695011 AAAAATATAAAGCAAAAT
1 AAAAAAATAAAGCAAAAT
8695029 TTCTATGTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.71, C:0.05, G:0.08, T:0.16
Consensus pattern (20 bp):
AAAAAAATAAAGCAAAATGT
Found at i:8707460 original size:25 final size:26
Alignment explanation
Indices: 8707424--8707506 Score: 91
Period size: 26 Copynumber: 3.3 Consensus size: 26
8707414 GAAGTTCAAG
*
8707424 AGAGCCA-T-ATCAAGTAGCTC-CAA
1 AGAGCCATTAATCAAGAAGCTCACAA
*
8707447 AGAGCCATTAATCAGGAAGCTCACAA
1 AGAGCCATTAATCAAGAAGCTCACAA
* * * *
8707473 AGAGCCTTTAATCGAGAAGTTCACGA
1 AGAGCCATTAATCAAGAAGCTCACAA
8707499 AGAGCCAT
1 AGAGCCAT
8707507 ATAACGGGAT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
23 7 0.14
24 1 0.02
25 10 0.20
26 31 0.63
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (26 bp):
AGAGCCATTAATCAAGAAGCTCACAA
Found at i:8708579 original size:21 final size:19
Alignment explanation
Indices: 8708533--8708580 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 19
8708523 TGATATTTTC
*
8708533 TTTTATTTTTTTATTTTTCA
1 TTTTA-TTTTTTATTTTCCA
8708553 TCTTTATTTTTTATCTTTCCAA
1 T-TTTATTTTTTAT-TTTCC-A
8708575 TTTTAT
1 TTTTAT
8708581 CCTTTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 9 0.38
21 13 0.54
22 2 0.08
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTATTTTTTATTTTCCA
Found at i:8711622 original size:2 final size:2
Alignment explanation
Indices: 8711615--8711640 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8711605 AGAAAAAGGA
8711615 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
8711641 TTAAAACAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8715888 original size:21 final size:21
Alignment explanation
Indices: 8715863--8715959 Score: 141
Period size: 19 Copynumber: 4.9 Consensus size: 21
8715853 ATTTTTTAGG
8715863 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
8715884 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
8715903 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
8715924 ATAT--AATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
* *
8715943 -TTTGTAATCTTAGATAT
1 ATATGCAATCTTAGATAT
8715960 TTAATTTGTA
Statistics
Matches: 71, Mismatches: 1, Indels: 9
0.88 0.01 0.11
Matches are distributed among these distances:
18 2 0.03
19 34 0.48
20 12 0.17
21 23 0.32
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.41
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:8715906 original size:40 final size:38
Alignment explanation
Indices: 8715862--8715959 Score: 151
Period size: 40 Copynumber: 2.5 Consensus size: 38
8715852 AATTTTTTAG
8715862 GATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATAT--AATCTTAGATAT
8715902 GATATGCAATCTTAGATATGATATATAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATATAATCTTAGATAT
* *
8715940 GATTTTGTAATCTTAGATAT
1 GA-TATGCAATCTTAGATAT
8715960 TTAATTTGTA
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
38 14 0.25
39 15 0.27
40 26 0.47
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.41
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATATAATCTTAGATAT
Found at i:8716587 original size:22 final size:21
Alignment explanation
Indices: 8716562--8716603 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
8716552 TATATATATA
8716562 TTTTTTTAAACGAATATTTTCC
1 TTTTTTT-AACGAATATTTTCC
*
8716584 TTTTTTTAATGAATATTTTC
1 TTTTTTTAACGAATATTTTC
8716604 ATATATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.26, C:0.10, G:0.05, T:0.60
Consensus pattern (21 bp):
TTTTTTTAACGAATATTTTCC
Found at i:8716968 original size:3 final size:3
Alignment explanation
Indices: 8716962--8717013 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
8716952 GATGATGTAT
8716962 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8717010 TTA T
1 TTA T
8717014 AGCATTTGTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:8717413 original size:98 final size:98
Alignment explanation
Indices: 8717298--8717494 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
8717288 TTAAAAATAA
* *
8717298 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
8717363 TTAAATCTTGGATAAGTGGATGCTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGCTCTTTTAAAG
*
8717396 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
8717461 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGCTCTTTTAAAG
8717494 T
1 T
8717495 TTTATTGTAC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGCTCTTTTAAAG
Found at i:8721469 original size:9 final size:9
Alignment explanation
Indices: 8721455--8721486 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
8721445 GTTCAGATTC
*
8721455 AAAAAAATA
1 AAAAAAACA
8721464 AAAAAAACA
1 AAAAAAACA
8721473 AAAAAAACA
1 AAAAAAACA
8721482 AAAAA
1 AAAAA
8721487 TGAAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.91, C:0.06, G:0.00, T:0.03
Consensus pattern (9 bp):
AAAAAAACA
Found at i:8721484 original size:17 final size:16
Alignment explanation
Indices: 8721454--8721496 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
8721444 AGTTCAGATT
8721454 CAAAAAAATAAAAAAAA
1 CAAAAAAA-AAAAAAAA
*
8721471 CAAAAAAAACAAAAAAT
1 CAAAAAAAA-AAAAAAA
*
8721488 GAAAAAAAA
1 CAAAAAAAA
8721497 GGGAAAATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 1 0.04
17 22 0.96
ACGTcount: A:0.86, C:0.07, G:0.02, T:0.05
Consensus pattern (16 bp):
CAAAAAAAAAAAAAAA
Found at i:8723019 original size:132 final size:132
Alignment explanation
Indices: 8722845--8723473 Score: 999
Period size: 132 Copynumber: 4.8 Consensus size: 132
8722835 TTGACAGCGA
*
8722845 AGCAGATCGAAGATGGCGAATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* *
8722910 TCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTTAGATCTTATCTCTCTAAGCAGTAGT
66 TCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
8722975 GG
131 GG
* ** * *
8722977 AGCAGATAGAAGATGGCGGATTTTACCTCTTTGTGCTTATAGTGGAGTACATTGAAGCCAATAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* *
8723042 TCTACTTCCCTGGGAAACAGTGGAATAGATTTAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
8723107 GG
131 GG
* *
8723109 AGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTTAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
*
8723174 TCTACTTCTCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
8723239 GG
131 GG
8723241 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* * *
8723306 TCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCATATCTTATCTCCCTAAGTAGTTGT
66 TCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
**
8723371 AA
131 GG
* ** * *
8723373 AGTAGATCGAAGATGGTAGATTTTACCTCCCTATGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* * * *
8723438 CCTA-TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGA
66 TCTACT-TCCCTGGGCAACAGTGGAATAGATTGAAGA
8723474 CTGTAAGTAT
Statistics
Matches: 459, Mismatches: 37, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
131 1 0.00
132 458 1.00
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (132 bp):
AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
GG
Found at i:8723471 original size:43 final size:44
Alignment explanation
Indices: 8723412--8723518 Score: 110
Period size: 43 Copynumber: 2.4 Consensus size: 44
8723402 CCTATGGTTA
* * *
8723412 CAGTGGAGTACATTGAAGCCAGTAA-TCCTATCTCCCTG-GTCAG
1 CAGTGGAATAGATTGAAGCCAGTAAGTACTATCTCCCTGAGT-AG
* * * * *
8723455 CAGTGGAATAGGTTGAAGACTGTAAGTATTATCTCCCTGCAGTTG
1 CAGTGGAATAGATTGAAGCCAGTAAGTACTATCTCCCTG-AGTAG
8723500 CAGTGGAATAGATTGAAGC
1 CAGTGGAATAGATTGAAGC
8723519 ACTAGCTCCT
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
43 20 0.39
44 11 0.22
45 18 0.35
46 2 0.04
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (44 bp):
CAGTGGAATAGATTGAAGCCAGTAAGTACTATCTCCCTGAGTAG
Found at i:8723734 original size:19 final size:19
Alignment explanation
Indices: 8723710--8723783 Score: 103
Period size: 19 Copynumber: 3.8 Consensus size: 19
8723700 AATTTTTGAG
8723710 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
8723729 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
8723748 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
8723767 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
8723784 GATTTAATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 38 0.76
20 12 0.24
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:8725214 original size:98 final size:98
Alignment explanation
Indices: 8725081--8725277 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
8725071 TTAAAAATAA
* * ** *
8725081 TAAAGGAAATATTTCGAGTTTGGGATTTTAAAAGAATTGTGTCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAAGAACCGTGCCCTAACGTATTGGGTGTGATTTC
8725146 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
*
8725179 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAAGAACCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAAGAACCGTGCCCTAACGTATTGGGTGTGATTTC
8725244 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
8725277 T
1 T
8725278 TTTATTGTAC
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAAGAACCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:8742522 original size:43 final size:43
Alignment explanation
Indices: 8742474--8742617 Score: 168
Period size: 43 Copynumber: 3.4 Consensus size: 43
8742464 TGTGATTTCG
* *
8742474 TGTAAGACCATGTCTGGGACATTGACATCGATATGAGATTACT
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTACA
*
8742517 TGTAAGACCATGTCTGGGACATTGGCATCG-TAT-ATGATTTCA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGA-GATTACA
* * * * *
8742559 TATAAGACTC-TGTCTGGGACAGTGGCATCGATACGTGATAACA
1 TGTAAGAC-CATGTCTGGGACATTGGCATCGATATGAGATTACA
*
8742602 TGTAAGACCATATCTG
1 TGTAAGACCATGTCTG
8742618 AGATATGGCA
Statistics
Matches: 85, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
41 1 0.01
42 35 0.41
43 49 0.58
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTACA
Found at i:8744808 original size:13 final size:13
Alignment explanation
Indices: 8744790--8744816 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8744780 TCATAAACAC
8744790 TATATAATAAAAT
1 TATATAATAAAAT
8744803 TATATAATAAAAT
1 TATATAATAAAAT
8744816 T
1 T
8744817 TACAAGCTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TATATAATAAAAT
Found at i:8745476 original size:16 final size:17
Alignment explanation
Indices: 8745457--8745492 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
8745447 TTTGATTTTA
8745457 TTTCAATTAGA-TTGAT
1 TTTCAATTAGATTTGAT
*
8745473 TTTCAATTTGATTTGAT
1 TTTCAATTAGATTTGAT
8745490 TTT
1 TTT
8745493 ATTAAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.25, C:0.06, G:0.11, T:0.58
Consensus pattern (17 bp):
TTTCAATTAGATTTGAT
Found at i:8746010 original size:16 final size:16
Alignment explanation
Indices: 8745977--8746012 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
8745967 TTTTACATAA
* *
8745977 ATATAAATATTTGTTT
1 ATATAAATATTAGCTT
8745993 ATATAAATATTAGCTT
1 ATATAAATATTAGCTT
8746009 ATAT
1 ATAT
8746013 TAAGTTGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (16 bp):
ATATAAATATTAGCTT
Found at i:8756453 original size:17 final size:17
Alignment explanation
Indices: 8756433--8756467 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
8756423 TTGGATTTCG
8756433 ACACTTGGAGGATCAAA
1 ACACTTGGAGGATCAAA
8756450 ACACTTGGAGGATCAAA
1 ACACTTGGAGGATCAAA
8756467 A
1 A
8756468 TGCTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (17 bp):
ACACTTGGAGGATCAAA
Found at i:8764319 original size:70 final size:69
Alignment explanation
Indices: 8764245--8764467 Score: 234
Period size: 70 Copynumber: 3.2 Consensus size: 69
8764235 AATCCCTTAT
* * * * * *
8764245 AACTTCAATATGGTAAGAGGAGGGCTCATTTCAAACCTTGTATCAATAACATGGCGGGAAGAACC
1 AACTTTAACATGGTAAGAGGAGGGC-CATTTCAAACTTTGCAACAATAACATGGCGAGAAGAACC
*
8764310 CTTCC
65 CTTGC
** * * * *
8764315 AACTTTAACATGGTGGGAGGAAAGCCCA-TTCTAAGCTTTGCAAC-ATCAACATGGCAAGAAGAA
1 AACTTTAACATGGTAAGAGG-AGGGCCATTTC-AAACTTTGCAACAAT-AACATGGCGAGAAGAA
8764378 CCCTTGC
63 CCCTTGC
* ** *
8764385 AACTTTAACATGGTAAGAGGAGGAACCATTTCAAACTTTGCAACACCAACATGGTGAGAAGAACC
1 AACTTTAACATGGTAAGAGGAGG-GCCATTTCAAACTTTGCAACAATAACATGGCGAGAAGAACC
8764450 CTTGC
65 CTTGC
8764455 AACTTTAACATGG
1 AACTTTAACATGG
8764468 CGAAAGGAAG
Statistics
Matches: 125, Mismatches: 22, Indels: 12
0.79 0.14 0.08
Matches are distributed among these distances:
69 7 0.06
70 112 0.90
71 6 0.05
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.23
Consensus pattern (69 bp):
AACTTTAACATGGTAAGAGGAGGGCCATTTCAAACTTTGCAACAATAACATGGCGAGAAGAACCC
TTGC
Found at i:8764484 original size:70 final size:69
Alignment explanation
Indices: 8764292--8764517 Score: 240
Period size: 70 Copynumber: 3.2 Consensus size: 69
8764282 TTGTATCAAT
* * ** * *
8764292 AACATGGCGGGAAGAACCCTTCCAACTTTAACATGGTGGGAGGAAAGCCCA-TTCTAAGCTTTGC
1 AACATGGCGAGAAGAACCCTTGCAACTTTAACATGG-GAAAGGAAGGCCCATTTC-AAACTTTGC
8764356 AACATC
64 AACATC
* * *
8764362 AACATGGCAAGAAGAACCCTTGCAACTTTAACATGGTAAGAGG-AGGAACCATTTCAAACTTTGC
1 AACATGGCGAGAAGAACCCTTGCAACTTTAACATGGGAA-AGGAAGG-CCCATTTCAAACTTTGC
*
8764426 AACACC
64 AACATC
* * * *
8764432 AACATGGTGAGAAGAACCCTTGCAACTTTAACATGGCGAAAGGAAGGCCCATTTCGAATTTTACA
1 AACATGGCGAGAAGAACCCTTGCAACTTTAACATGG-GAAAGGAAGGCCCATTTCAAACTTTGCA
*
8764497 CCATC
65 ACATC
* *
8764502 AACATGGTGGGAAGAA
1 AACATGGCGAGAAGAA
8764518 GTTTTGCAAC
Statistics
Matches: 131, Mismatches: 20, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
69 2 0.02
70 121 0.92
71 8 0.06
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (69 bp):
AACATGGCGAGAAGAACCCTTGCAACTTTAACATGGGAAAGGAAGGCCCATTTCAAACTTTGCAA
CATC
Found at i:8764516 original size:140 final size:141
Alignment explanation
Indices: 8764101--8764517 Score: 367
Period size: 140 Copynumber: 3.0 Consensus size: 141
8764091 AAAAGATATT
* * * * * *
8764101 TTGCAACTTCAACATGGTGAGAGGA-TAACCCATTCCGAACTTTGTAGCATCAACATGGAGAGAA
1 TTGCAACTTCAACATGGTAAGAGGAGGAA-CCATTTCAAACTTTGTAACAACAACATGGAGAGAA
*** * * * * * * * * * * *
8764165 GAAGTTTTGCACCCTCAACATGATGAAGGGAAAACCCATTTTGAACTCTACATCATTAACATAGT
65 GAACCCTTGCAACTTTAACATGGTGAAAGGAAAGCCCATTTCGAACTTTACAACATCAACATGGT
8764230 GGGAA-AATCCC
130 GGGAAGAATCCC
** * * * * * * *
8764241 TTATAACTTCAATATGGTAAGAGGAGG-GCTCATTTCAAACCTTGTATCAATAACATGGCGGGAA
1 TTGCAACTTCAACATGGTAAGAGGAGGAAC-CATTTCAAACTTTGTAACAACAACATGGAGAGAA
* ** * *
8764305 GAACCCTTCCAACTTTAACATGGTGGGAGGAAAGCCCA-TTCTAAGCTTTGCAACATCAACATGG
65 GAACCCTTGCAACTTTAACATGGTGAAAGGAAAGCCCATTTCGAA-CTTTACAACATCAACATGG
***
8764369 CAAGAAGAA-CCC
129 TGGGAAGAATCCC
* * * *
8764381 TTGCAACTTTAACATGGTAAGAGGAGGAACCATTTCAAACTTTGCAACACCAACATGGTGAGAAG
1 TTGCAACTTCAACATGGTAAGAGGAGGAACCATTTCAAACTTTGTAACAACAACATGGAGAGAAG
* * * *
8764446 AACCCTTGCAACTTTAACATGGCGAAAGGAAGGCCCATTTCGAATTTTACACCATCAACATGGTG
66 AACCCTTGCAACTTTAACATGGTGAAAGGAAAGCCCATTTCGAACTTTACAACATCAACATGGTG
8764511 GGAAGAA
131 GGAAGAA
8764518 GTTTTGCAAC
Statistics
Matches: 211, Mismatches: 60, Indels: 12
0.75 0.21 0.04
Matches are distributed among these distances:
139 5 0.02
140 198 0.94
141 8 0.04
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (141 bp):
TTGCAACTTCAACATGGTAAGAGGAGGAACCATTTCAAACTTTGTAACAACAACATGGAGAGAAG
AACCCTTGCAACTTTAACATGGTGAAAGGAAAGCCCATTTCGAACTTTACAACATCAACATGGTG
GGAAGAATCCC
Found at i:8766107 original size:70 final size:69
Alignment explanation
Indices: 8765993--8766251 Score: 243
Period size: 70 Copynumber: 3.7 Consensus size: 69
8765983 TAATGACAGG
* * * *
8765993 TTAACATGGTGAGACGAGGGCTCATTCCTAACTTTGTAACATCAACATGACATGAAGAA-CTCTT
1 TTAACATGGTGAGAGGAGGGCCCATTCCAAACTTTGTAACATCAACATGACAGGAAGAACCT-TT
*
8766057 GCAAC
65 ACAAC
** * **
8766062 TGTAACATGGAAAGAGGAGGGCCCATTCCGAACTTTGTAACATCAACATGATGGGAAGAACCTTT
1 T-TAACATGGTGAGAGGAGGGCCCATTCCAAACTTTGTAACATCAACATGACAGGAAGAACCTTT
8766127 ACAAC
65 ACAAC
* * * * ** *
8766132 TTCAACATGGTGAGAGGAGTGCCCATTCCAAACATTGTAACATCAACAAGGCAAAAATAATCC-T
1 TT-AACATGGTGAGAGGAGGGCCCATTCCAAACTTTGTAACATCAACATGACAGGAAGAA-CCTT
8766196 TACAAC
64 TACAAC
* ** * * * *
8766202 TTCAACATGGCGAGAAAAGGTCCAATTCCAAACTTTGCATCATCAACATG
1 TT-AACATGGTGAGAGGAGGGCCCATTCCAAACTTTGTAACATCAACATG
8766252 GCAAGAATAA
Statistics
Matches: 155, Mismatches: 31, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
69 2 0.01
70 149 0.96
71 4 0.03
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (69 bp):
TTAACATGGTGAGAGGAGGGCCCATTCCAAACTTTGTAACATCAACATGACAGGAAGAACCTTTA
CAAC
Found at i:8766286 original size:29 final size:30
Alignment explanation
Indices: 8766235--8766292 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
8766225 AATTCCAAAC
*
8766235 TTTGCATCATCAACATGGCAAGA-ATAAAT
1 TTTGCACCATCAACATGGCAAGAGATAAAT
*
8766264 TTTGCACCCTCAACAT-GCTAAGAGATAAA
1 TTTGCACCATCAACATGGC-AAGAGATAAA
8766293 ACGTGTGACA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 18 0.72
30 5 0.20
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.26
Consensus pattern (30 bp):
TTTGCACCATCAACATGGCAAGAGATAAAT
Found at i:8767056 original size:58 final size:58
Alignment explanation
Indices: 8766918--8767087 Score: 182
Period size: 59 Copynumber: 2.9 Consensus size: 58
8766908 TGTTTTGCTC
* * * * *
8766918 TAACTTTTGGTTAAGGCGTCCAATGAAGGATTTT-AAGCTTAACGATTTTTTTTTTACCT
1 TAACTTTTGCTTAAGTCATCCAATGAAGGATTTTCAA-CTTAATGA-ATTTTTTTTACCT
* * * *
8766977 TAACTTTTGTTTAAGTAATCCATTGAAGGATTTTCAACTTAATGAGATTTTTTTT-CTT
1 TAACTTTTGCTTAAGTCATCCAATGAAGGATTTTCAACTTAATGA-ATTTTTTTTACCT
** * *
8767035 TAACTTTTGCTTAAGTCATCCAAAAAAGGATTTTCAGCTTAATGAACTTTTTT
1 TAACTTTTGCTTAAGTCATCCAATGAAGGATTTTCAACTTAATGAATTTTTTT
8767088 GTGTGTAAAG
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
57 7 0.07
58 41 0.44
59 44 0.47
60 2 0.02
ACGTcount: A:0.28, C:0.13, G:0.14, T:0.45
Consensus pattern (58 bp):
TAACTTTTGCTTAAGTCATCCAATGAAGGATTTTCAACTTAATGAATTTTTTTTACCT
Found at i:8770194 original size:46 final size:46
Alignment explanation
Indices: 8770127--8770425 Score: 507
Period size: 46 Copynumber: 6.6 Consensus size: 46
8770117 TTTGAGTACT
*
8770127 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
8770173 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* * *
8770219 TTTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCGACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
8770264 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
8770310 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTGAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
8770356 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
8770401 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
8770426 ATCATACGTA
Statistics
Matches: 241, Mismatches: 11, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
43 12 0.05
44 5 0.02
45 60 0.25
46 164 0.68
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.28
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:8770285 original size:91 final size:91
Alignment explanation
Indices: 8770127--8770425 Score: 505
Period size: 91 Copynumber: 3.3 Consensus size: 91
8770117 TTTGAGTACT
*
8770127 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGACAAAGT
8770192 GATAAGTGGTAGCTTTAGCTACACTTA
65 GATAAGTGGTAGCTTTAGCTACACTTA
* * *
8770219 TTTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCGACACTTATCTGATCAAGTGACAAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGACAAAGTG
8770284 ATAAGTGGTAGCTTTAGCTACACTTA
66 ATAAGTGGTAGCTTTAGCTACACTTA
8770310 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTGAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTT-AGCTACACTTATCTGATCAAGTGACAAAGT
*
8770375 GATAAGTGGTAGC-CTAGCTACACTTA
65 GATAAGTGGTAGCTTTAGCTACACTTA
*
8770401 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
8770426 ATCATACGTA
Statistics
Matches: 197, Mismatches: 9, Indels: 5
0.93 0.04 0.02
Matches are distributed among these distances:
89 12 0.06
90 5 0.03
91 108 0.55
92 72 0.37
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.28
Consensus pattern (91 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGACAAAGTG
ATAAGTGGTAGCTTTAGCTACACTTA
Found at i:8770330 original size:137 final size:137
Alignment explanation
Indices: 8770127--8770425 Score: 539
Period size: 137 Copynumber: 2.2 Consensus size: 137
8770117 TTTGAGTACT
*
8770127 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
* *
8770192 GATAAGTGGTAGCTTTAGCTACACTTATTTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCG
66 GATAAGTGGTAGCTTGAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCG
8770257 ACACTTA
131 ACACTTA
8770264 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
*
8770329 GATAAGTGGTAGCTTGAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCT
66 GATAAGTGGTAGCTTGAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCG
8770394 ACACTTA
131 ACACTTA
*
8770401 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
8770426 ATCATACGTA
Statistics
Matches: 157, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
135 12 0.08
136 5 0.03
137 140 0.89
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.28
Consensus pattern (137 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
GATAAGTGGTAGCTTGAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCG
ACACTTA
Found at i:8774617 original size:21 final size:21
Alignment explanation
Indices: 8774593--8774638 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
8774583 TGTTCGAAAA
8774593 ATACAAGTATGCAAAATGAAT
1 ATACAAGTATGCAAAATGAAT
8774614 ATACAAGTATGCAAAATGAAT
1 ATACAAGTATGCAAAATGAAT
8774635 ATAC
1 ATAC
8774639 TATACTTAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.52, C:0.11, G:0.13, T:0.24
Consensus pattern (21 bp):
ATACAAGTATGCAAAATGAAT
Found at i:8778340 original size:23 final size:24
Alignment explanation
Indices: 8778283--8778341 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 24
8778273 ATCTTCAATG
8778283 ATATGCAATCTT---AGATATGAT
1 ATATGCAATCTTAGAAGATATGAT
8778304 ATATGCAATCTTAGAAGATATGAT
1 ATATGCAATCTTAGAAGATATGAT
* *
8778328 -TTTGTAATCTTAGA
1 ATATGCAATCTTAGA
8778342 GATTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.36
23 12 0.36
24 9 0.27
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.39
Consensus pattern (24 bp):
ATATGCAATCTTAGAAGATATGAT
Found at i:8778589 original size:23 final size:23
Alignment explanation
Indices: 8778545--8778589 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
8778535 TCTTATTTTG
* *
8778545 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
8778568 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
8778590 CAATTCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:8778780 original size:23 final size:23
Alignment explanation
Indices: 8778735--8778781 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
8778725 TTATTTTAGT
* *
8778735 TTTTATTATTATTAAATTAATTA
1 TTTTAATATTATTAAACTAATTA
8778758 TTTTAATATTATTAATACT-ATTA
1 TTTTAATATTATTAA-ACTAATTA
8778781 T
1 T
8778782 GTGCCATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTTAATATTATTAAACTAATTA
Found at i:8778947 original size:42 final size:41
Alignment explanation
Indices: 8778901--8778990 Score: 94
Period size: 40 Copynumber: 2.2 Consensus size: 41
8778891 ATACGTGCAC
* *
8778901 ATTTTTTAAT-TTTTATAAATATATATACACATACTTTTATAT
1 ATTTTTTAATGTTTCAT-AAT-TATATACACATACTTATATAT
* * *
8778943 ATTTTCT-ATGTTTCATAATTTTATATACATACTTATATAT
1 ATTTTTTAATGTTTCATAATTATATACACATACTTATATAT
*
8778983 ATATTTTA
1 ATTTTTTA
8778991 CATATTAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
40 23 0.59
41 5 0.13
42 11 0.28
ACGTcount: A:0.36, C:0.08, G:0.01, T:0.56
Consensus pattern (41 bp):
ATTTTTTAATGTTTCATAATTATATACACATACTTATATAT
Found at i:8779092 original size:25 final size:23
Alignment explanation
Indices: 8779042--8779086 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
8779032 TATAATTCAC
8779042 ATACATATATATTTTTCTTATAT
1 ATACATATATATTTTTCTTATAT
*
8779065 ATACATATATATATTT-TTATAT
1 ATACATATATATTTTTCTTATAT
8779087 TTTATAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.56
Consensus pattern (23 bp):
ATACATATATATTTTTCTTATAT
Found at i:8779092 original size:27 final size:27
Alignment explanation
Indices: 8779024--8779084 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 27
8779014 ATTTATTTTT
8779024 TATTTTT-TTATA-ATTCACATACATATA
1 TATTTTTATTATATA-T-ACATACATATA
*
8779051 TATTTTTCTTATATATACAT--ATATA
1 TATTTTTATTATATATACATACATATA
8779076 TATTTTTAT
1 TATTTTTAT
8779085 ATTTTATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
25 13 0.42
27 11 0.35
28 6 0.19
29 1 0.03
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.57
Consensus pattern (27 bp):
TATTTTTATTATATATACATACATATA
Found at i:8782596 original size:21 final size:21
Alignment explanation
Indices: 8782571--8782641 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
8782561 TTTTGCTCTG
*
8782571 CTCTGCTTCTCTTGCTGTAGC
1 CTCTGCTTCTCTCGCTGTAGC
*
8782592 CTCTGCTTCCCTCGCTGTAGC
1 CTCTGCTTCTCTCGCTGTAGC
* **
8782613 CGCTGCTTCTCTCGCTGCCGC
1 CTCTGCTTCTCTCGCTGTAGC
8782634 CTCTGCTT
1 CTCTGCTT
8782642 TAAGTTGTAG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.03, C:0.41, G:0.20, T:0.37
Consensus pattern (21 bp):
CTCTGCTTCTCTCGCTGTAGC
Found at i:8788282 original size:25 final size:24
Alignment explanation
Indices: 8788228--8788367 Score: 93
Period size: 27 Copynumber: 5.4 Consensus size: 24
8788218 TCATTATGTG
*
8788228 AGTTATGTATAATGTAAGTTAAGA
1 AGTTATGTATAATGTAAGTTATGA
*
8788252 AGGTTATGTATAATGTAAGTTATGCC
1 A-GTTATGTATAATGTAAGTTATG-A
* *
8788278 AGTTATTTAATTTATGTAAGTTATGTA
1 AGTTATGT-A-TAATGTAAGTTATG-A
*
8788305 AGTTACT-TAATTTATGTAAGTTATGTA
1 AGTTA-TGT-A-TAATGTAAGTTATG-A
* * *
8788332 AGTTATTTAATTTATGTAAGTTATCTA
1 AGTTATGT-A-TAATGTAAGTTAT-GA
8788359 AGTTATGTA
1 AGTTATGTA
8788368 AGTTACTTAA
Statistics
Matches: 101, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
24 1 0.01
25 27 0.27
26 4 0.04
27 68 0.67
28 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.17, T:0.46
Consensus pattern (24 bp):
AGTTATGTATAATGTAAGTTATGA
Found at i:8788298 original size:27 final size:27
Alignment explanation
Indices: 8788264--8788606 Score: 354
Period size: 27 Copynumber: 12.7 Consensus size: 27
8788254 GTTATGTATA
**
8788264 ATGTAAGTTATGCCAGTTATTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
*
8788291 ATGTAAGTTATGTAAGTTACTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
8788318 ATGTAAGTTATGTAAGTTATTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
* * *
8788345 ATGTAAGTTATCTAAGTTATGTAAGTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
* * *
8788372 ACT-TAATTTATGTAAGTTATGTAAGTT
1 A-TGTAAGTTATGTAAGTTATTTAATTT
* * *
8788399 ATGTAAGTTACT-TAATTTATGTAAGTT
1 ATGTAAGTTA-TGTAAGTTATTTAATTT
* * *
8788426 ATGTAAGTTATTTAATTTACTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
**
8788453 ATGTAAGTTATGTAAGACATTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
8788480 ATGTAAGTTATGTAAGTTATTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
* * *
8788507 ACT-TAATTTATGTAAGTTATGTAAGTT
1 A-TGTAAGTTATGTAAGTTATTTAATTT
* * * *
8788534 ACT-TAATTTTTGTAAGTTATGTAATTA
1 A-TGTAAGTTATGTAAGTTATTTAATTT
* * * *
8788561 ATGTAAGTTATTTAATTTATGTAAGTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
*
8788588 ATGTAAGTTAT-TAATTTAT
1 ATGTAAGTTATGTAAGTTAT
8788607 GTNNNNNNNN
Statistics
Matches: 277, Mismatches: 33, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
26 11 0.04
27 263 0.95
28 3 0.01
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.50
Consensus pattern (27 bp):
ATGTAAGTTATGTAAGTTATTTAATTT
Found at i:8788329 original size:36 final size:36
Alignment explanation
Indices: 8788280--8788598 Score: 343
Period size: 36 Copynumber: 9.6 Consensus size: 36
8788270 GTTATGCCAG
* *
8788280 TTATTTAATTTATGTAAGTTATGTAAGTTACTTAAT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTACTTAAT
8788316 TTATGTAAGTTATGTAAG---T-T-A--T--TTAAT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTACTTAAT
*
8788343 TTATGTAAGTTATCTAAGTTATGTAAGTTACTTAAT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTACTTAAT
8788379 TTATGTAAGTTATGTAAGTTATGTAAGTTACTTAAT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTACTTAAT
* *
8788415 TTATGTAAGTTATGTAAGTTATTTAATTTACTTAAT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTACTTAAT
*
8788451 TTATGTAAGTTATGTAAG--A---CA--T--TTAAT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTACTTAAT
* *
8788478 TTATGTAAGTTATGTAAGTTATTTAATTTACTTAA-
1 TTATGTAAGTTATGTAAGTTATGTAAGTTACTTAAT
8788513 -T-T------TATGTAAGTTATGTAAGTTACTTAAT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTACTTAAT
* *
8788541 TTTTGTAAGTTATGTAA-TTAATGTAAGTTATTTAAT
1 TTATGTAAGTTATGTAAGTT-ATGTAAGTTACTTAAT
8788577 TTATGTAAGTTATGTAAGTTAT
1 TTATGTAAGTTATGTAAGTTAT
8788599 TAATTTATGT
Statistics
Matches: 242, Mismatches: 12, Indels: 58
0.78 0.04 0.19
Matches are distributed among these distances:
27 68 0.28
29 4 0.02
30 2 0.01
31 3 0.01
32 3 0.01
33 2 0.01
34 4 0.02
35 2 0.01
36 152 0.63
37 2 0.01
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.50
Consensus pattern (36 bp):
TTATGTAAGTTATGTAAGTTATGTAAGTTACTTAAT
Found at i:8788362 original size:63 final size:63
Alignment explanation
Indices: 8788280--8788608 Score: 446
Period size: 63 Copynumber: 5.1 Consensus size: 63
8788270 GTTATGCCAG
* *
8788280 TTATTTAATTTATGTAAGTTATGTAAGTTACTTAATTTATGTAAGTTATGTAAGTTATTTAAT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTACTTAATTTATGTAAGTTATGTAAGTTATTTAAT
*
8788343 TTATGTAAGTTATCTAAGTTATGTAAGTTACTTAATTTATGTAAGTTATGTAAGTTATGTAAGTT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTACTTAATTTATGTAAGTTATGTAAG---T-T-A--T
8788408 ACTTAAT
59 --TTAAT
* * **
8788415 TTATGTAAGTTATGTAAGTTATTTAATTTACTTAATTTATGTAAGTTATGTAAGACATTTAAT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTACTTAATTTATGTAAGTTATGTAAGTTATTTAAT
* * *
8788478 TTATGTAAGTTATGTAAGTTATTTAATTTACTTAATTTATGTAAGTTATGTAAGTTACTTAAT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTACTTAATTTATGTAAGTTATGTAAGTTATTTAAT
* *
8788541 TTTTGTAAGTTATGTAA-TTAATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTA-TTAAT
1 TTATGTAAGTTATGTAAGTT-ATGTAAGTTACTTAATTTATGTAAGTTATGTAAGTTATTTAAT
8788603 TTATGT
1 TTATGT
8788609 NNNNNNNNNN
Statistics
Matches: 240, Mismatches: 16, Indels: 21
0.87 0.06 0.08
Matches are distributed among these distances:
62 12 0.05
63 166 0.69
65 1 0.00
66 1 0.00
67 2 0.01
68 1 0.00
70 1 0.00
72 56 0.23
ACGTcount: A:0.33, C:0.02, G:0.14, T:0.50
Consensus pattern (63 bp):
TTATGTAAGTTATGTAAGTTATGTAAGTTACTTAATTTATGTAAGTTATGTAAGTTATTTAAT
Found at i:8791154 original size:42 final size:42
Alignment explanation
Indices: 8791096--8791197 Score: 186
Period size: 42 Copynumber: 2.4 Consensus size: 42
8791086 ATTTTAAGAT
*
8791096 ATATTTGCGGCGTTTTAGGCAAAAACGCTGCTATTGCTTCTG
1 ATATTTGCGGCGTTTTAAGCAAAAACGCTGCTATTGCTTCTG
*
8791138 ATATTTGCGGCGTTTTAAGCAAAAATGCTGCTATTGCTTCTG
1 ATATTTGCGGCGTTTTAAGCAAAAACGCTGCTATTGCTTCTG
8791180 ATATTTGCGGCGTTTTAA
1 ATATTTGCGGCGTTTTAA
8791198 TATAAAACGC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.38
Consensus pattern (42 bp):
ATATTTGCGGCGTTTTAAGCAAAAACGCTGCTATTGCTTCTG
Found at i:8791343 original size:83 final size:83
Alignment explanation
Indices: 8791240--8791459 Score: 259
Period size: 84 Copynumber: 2.6 Consensus size: 83
8791230 AAAAACGGTG
*
8791240 CCGC-ATTGACAAACATTAATTCACACTTGCGGCGTTTTCT-TAAAAACGCCACTATAAGATTTC
1 CCGCTATTGGCAAACATTAATTCAC-CTTGCGGCGTTTT-TATAAAAACGCCACTATAAGATTTC
*
8791303 ATTCCAGTAGAGAAACGACA
64 ATTCCAATAGAGAAACGACA
* * *
8791323 TCG-TATTGGCAAAGATTAATTCACTCTTGCGGCGTTTTTATAAAAAGCGCCACTATAAGATTTT
1 CCGCTATTGGCAAACATTAATTCAC-CTTGCGGCGTTTTTATAAAAA-CGCCACTATAAGATTTC
* * *
8791387 ATTCCAATAGATAAACGGCG
64 ATTCCAATAGAGAAACGACA
** *
8791407 CCGCT-TTGGCAAATTTTAATACATCCTTGCGGCGTTTTTATCAAAAACGCCAC
1 CCGCTATTGGCAAACATTAATTCA-CCTTGCGGCGTTTTTAT-AAAAACGCCAC
8791460 AAAATATTTC
Statistics
Matches: 118, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
82 1 0.01
83 39 0.33
84 71 0.60
85 7 0.06
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (83 bp):
CCGCTATTGGCAAACATTAATTCACCTTGCGGCGTTTTTATAAAAACGCCACTATAAGATTTCAT
TCCAATAGAGAAACGACA
Found at i:8791416 original size:84 final size:83
Alignment explanation
Indices: 8791232--8791502 Score: 266
Period size: 83 Copynumber: 3.3 Consensus size: 83
8791222 ACTGAACAAA
* * *
8791232 AAACGGTGCCGCATTGACAAACATTAATTCACACTTGCGGCGTTTTCT-TAAAAACGCCACTATA
1 AAACGGCGCCGCTTTGACAAACATTAATTCACTCTTGCGGCGTTTT-TATAAAAACGCCACTATA
* * *
8791296 AGATTTCATTCCAGTAGAG
65 AGATTTTATTCCAATAGAT
* ** * *
8791315 AAACGACATCG-TATTGGCAAAGATTAATTCACTCTTGCGGCGTTTTTATAAAAAGCGCCACTAT
1 AAACGGCGCCGCT-TTGACAAACATTAATTCACTCTTGCGGCGTTTTTATAAAAA-CGCCACTAT
8791379 AAGATTTTATTCCAATAGAT
64 AAGATTTTATTCCAATAGAT
* ** * *
8791399 AAACGGCGCCGCTTTGGCAAATTTTAATACA-TCCTTGCGGCGTTTTTATCAAAAACGCCAC-AA
1 AAACGGCGCCGCTTTGACAAACATTAATTCACT-CTTGCGGCGTTTTTAT-AAAAACGCCACTAT
* *
8791462 AATATTTCT-TTCCTCA-AGAT
64 AAGATTT-TATTCC-AATAGAT
*
8791482 AAACGGCGCCGTTTTGACAAA
1 AAACGGCGCCGCTTTGACAAA
8791503 TTTTAAAACA
Statistics
Matches: 158, Mismatches: 22, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
82 1 0.01
83 78 0.49
84 73 0.46
85 6 0.04
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (83 bp):
AAACGGCGCCGCTTTGACAAACATTAATTCACTCTTGCGGCGTTTTTATAAAAACGCCACTATAA
GATTTTATTCCAATAGAT
Found at i:8791954 original size:84 final size:85
Alignment explanation
Indices: 8791760--8791987 Score: 234
Period size: 84 Copynumber: 2.7 Consensus size: 85
8791750 ACGGTGTCAC
* * * * *
8791760 ATTGCCAAACATTAATTCAC-TCTTGCAGCGTTTTCTTAAAAAACGCCACTATAAGATTTCATTC
1 ATTGGCAAACATTAATTCACATCTTGCGGCGTTTTCATAAAAAACGCCACTAAAAGATTTTATTC
* *
8791824 GAGTAGAGAAACGGCACCGT
66 CAGTAAAGAAACGGCACCGT
* *
8791844 ATTGGCCAACATTAATTCACAT-TTGCGGCGTTTTCATACAAAACGCCACTAAAAGATTTTATTC
1 ATTGGCAAACATTAATTCACATCTTGCGGCGTTTTCATAAAAAACGCCACTAAAAGATTTTATTC
*
8791908 CAGTAAAGAAACGGCGCCGCT
66 CAGTAAAGAAACGGCACCG-T
** * * ** * *
8791929 -TTGGCAAATTTTAA-TGA-ATCCTTGCGGCGTTTTTATTGAAAACGCAAC-AAAATATTTTA
1 ATTGGCAAACATTAATTCACAT-CTTGCGGCGTTTTCATAAAAAACGCCACTAAAAGATTTTA
8791988 AAATTTTAAT
Statistics
Matches: 121, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
82 2 0.02
83 12 0.10
84 105 0.87
85 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (85 bp):
ATTGGCAAACATTAATTCACATCTTGCGGCGTTTTCATAAAAAACGCCACTAAAAGATTTTATTC
CAGTAAAGAAACGGCACCGT
Found at i:8792210 original size:82 final size:82
Alignment explanation
Indices: 8792112--8792351 Score: 349
Period size: 83 Copynumber: 2.9 Consensus size: 82
8792102 TATAAAGAAC
* * *
8792112 TTATTTAATATATAAATTAA-AAAGTACTAATTAATCTAAATCTTAAACCCTAACCCGACTCCAA
1 TTATTTAATATATAAATTAACAAA-CACTAATTAATCTAAACCCTAAACCCTAACCCGACTCCAA
*
8792176 ATCCCTAACCCCTAAATT
65 ATCCCTAACCCCTAAACT
* ** *
8792194 TTATTTAATATGTAAATTAACAAACACTAATTAATCTAAACCCTAAACCCTAAACCTAACCCCAA
1 TTATTTAATATATAAATTAACAAACACTAATTAATCTAAACCCTAAACCCT-AACCCGACTCCAA
8792259 ATCCCTAACCCCTAAACT
65 ATCCCTAACCCCTAAACT
* *
8792277 TTATTTAATATATAAATTAACAAACACTAATTAATCTAAACCCTAAATCATAACCCGA-TCCTAA
1 TTATTTAATATATAAATTAACAAACACTAATTAATCTAAACCCTAAACCCTAACCCGACTCC-AA
8792341 ATCCCTAACCC
65 ATCCCTAACCC
8792352 TTAACCCTTA
Statistics
Matches: 141, Mismatches: 14, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
81 2 0.01
82 61 0.43
83 78 0.55
ACGTcount: A:0.43, C:0.26, G:0.02, T:0.29
Consensus pattern (82 bp):
TTATTTAATATATAAATTAACAAACACTAATTAATCTAAACCCTAAACCCTAACCCGACTCCAAA
TCCCTAACCCCTAAACT
Found at i:8792241 original size:7 final size:7
Alignment explanation
Indices: 8792229--8792275 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
8792219 ACTAATTAAT
8792229 CTAAACC
1 CTAAACC
8792236 CTAAACC
1 CTAAACC
8792243 CTAAA-C
1 CTAAACC
8792249 CT-AACC
1 CTAAACC
*
8792255 CCAAATCC
1 CTAAA-CC
*
8792263 CTAACCC
1 CTAAACC
8792270 CTAAAC
1 CTAAAC
8792276 TTTATTTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
5 2 0.06
6 5 0.15
7 21 0.64
8 5 0.15
ACGTcount: A:0.40, C:0.45, G:0.00, T:0.15
Consensus pattern (7 bp):
CTAAACC
Found at i:8792446 original size:102 final size:103
Alignment explanation
Indices: 8792267--8792451 Score: 261
Period size: 102 Copynumber: 1.8 Consensus size: 103
8792257 AAATCCCTAA
* * *
8792267 CCCCTAAACTTTATTTAATATATAAATTAACAAACACTAATTAATCTAAACCCTAAATCATAACC
1 CCCCTAAACCTTATTTAATATATAAATTAACAAACACTAATTAATATAAACCCTAAATCATAACA
*
8792332 CGATCCTAAATCCCTAACCCTTAACCCTTAGCCCATAT
66 CGATCATAAATCCCTAACCCTTAACCCTTAGCCCATAT
8792370 CCCCTAAACCTTATTTAATATAT-AATTAA-AACACACTAATTAATATAAACCCTAAACTC-TAA
1 CCCCTAAACCTTATTTAATATATAAATTAACAA-ACACTAATTAATATAAACCCTAAA-TCATAA
* *
8792432 CATGA-CATCGAATCCCTAAC
64 CACGATCAT-AAATCCCTAAC
8792452 TCATAACATC
Statistics
Matches: 73, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
101 4 0.05
102 45 0.62
103 24 0.33
ACGTcount: A:0.42, C:0.28, G:0.02, T:0.29
Consensus pattern (103 bp):
CCCCTAAACCTTATTTAATATATAAATTAACAAACACTAATTAATATAAACCCTAAATCATAACA
CGATCATAAATCCCTAACCCTTAACCCTTAGCCCATAT
Found at i:8792640 original size:20 final size:21
Alignment explanation
Indices: 8792615--8792658 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
8792605 AAAATTAATT
*
8792615 AACCATATATA-TATACCCTA
1 AACCATATATATTAAACCCTA
*
8792635 AACCATATTTATTAAACCCTA
1 AACCATATATATTAAACCCTA
8792656 AAC
1 AAC
8792659 TATAATGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (21 bp):
AACCATATATATTAAACCCTA
Found at i:8793229 original size:115 final size:115
Alignment explanation
Indices: 8793079--8793380 Score: 471
Period size: 115 Copynumber: 2.6 Consensus size: 115
8793069 TAAATTATTT
* * * *
8793079 TAAATCCCTGAGCATTAACGGCGCTTTACTAAAAACACCACTAAATCCCCAAAAAGCTAATAAAA
1 TAAAGCCCTAAGCATTAGCGGCGCTTTACTAAAAACGCCACTAAATCCCCAAAAAGCTAATAAAA
8793144 CGGCGCCGTTGGGCTTAGGTCCCTTTGCGGCACTTTTAACAAAACGCCGC
66 CGGCGCCGTTGGGCTTAGGTCCCTTTGCGGCACTTTTAACAAAACGCCGC
8793194 TAAAGCCCTAAGCATTAGCGGCGCTTTACTAAAAACGCCACTAAATCCCCAAAAAGCTAATAAAA
1 TAAAGCCCTAAGCATTAGCGGCGCTTTACTAAAAACGCCACTAAATCCCCAAAAAGCTAATAAAA
* ** **
8793259 CGGCGTCGTTGGGCTTAGGTCCCTTTGCGGTGCTTTTCCCAAAACGCCGC
66 CGGCGCCGTTGGGCTTAGGTCCCTTTGCGGCACTTTTAACAAAACGCCGC
** * *
8793309 TAAAGCCCTAAGCATTAGCGGCGCTTTACTAAAAACGCCACTAAAGACCC-AAAGGCTAAGAAAA
1 TAAAGCCCTAAGCATTAGCGGCGCTTTACTAAAAACGCCACTAAATCCCCAAAAAGCTAATAAAA
8793373 CGGACGCC
66 CGG-CGCC
8793381 ACTAAAGACA
Statistics
Matches: 172, Mismatches: 14, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
114 15 0.09
115 157 0.91
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.20
Consensus pattern (115 bp):
TAAAGCCCTAAGCATTAGCGGCGCTTTACTAAAAACGCCACTAAATCCCCAAAAAGCTAATAAAA
CGGCGCCGTTGGGCTTAGGTCCCTTTGCGGCACTTTTAACAAAACGCCGC
Found at i:8793381 original size:33 final size:33
Alignment explanation
Indices: 8793343--8793408 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
8793333 TTTACTAAAA
*
8793343 ACGCCACTAAAGACCCAAAGGCTAAGAAAACGG
1 ACGCCACTAAAGACACAAAGGCTAAGAAAACGG
8793376 ACGCCACTAAAGACACAAAGGCTAAGAAAACGG
1 ACGCCACTAAAGACACAAAGGCTAAGAAAACGG
8793409 CGTCGTTGGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.47, C:0.26, G:0.21, T:0.06
Consensus pattern (33 bp):
ACGCCACTAAAGACACAAAGGCTAAGAAAACGG
Found at i:8795184 original size:20 final size:20
Alignment explanation
Indices: 8795159--8795204 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
8795149 GTCCTTCGTG
*
8795159 GAAATTTGCATGATTTTTAT
1 GAAATTTGCACGATTTTTAT
*
8795179 GAAATTTGCACGGTTTTTAT
1 GAAATTTGCACGATTTTTAT
8795199 GAAATT
1 GAAATT
8795205 AAAATAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (20 bp):
GAAATTTGCACGATTTTTAT
Found at i:8795277 original size:12 final size:13
Alignment explanation
Indices: 8795251--8795285 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
8795241 AAGCCAATAG
8795251 TTTTAAAATATTT
1 TTTTAAAATATTT
8795264 TTTTAAAATATTT
1 TTTTAAAATATTT
*
8795277 TTTCAAAAT
1 TTTTAAAAT
8795286 TCTGAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (13 bp):
TTTTAAAATATTT
Found at i:8796102 original size:15 final size:15
Alignment explanation
Indices: 8796082--8796110 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8796072 ATCGCCCGAT
8796082 TTCACAAAACGTAAC
1 TTCACAAAACGTAAC
8796097 TTCACAAAACGTAA
1 TTCACAAAACGTAA
8796111 TCTACAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.24, G:0.07, T:0.21
Consensus pattern (15 bp):
TTCACAAAACGTAAC
Found at i:8799971 original size:6 final size:6
Alignment explanation
Indices: 8799962--8799991 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
8799952 AACAAATGAA
8799962 AATTTG AATTTG AATTTG AATTTG AATTTG
1 AATTTG AATTTG AATTTG AATTTG AATTTG
8799992 GACAAATCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
AATTTG
Found at i:8809426 original size:21 final size:20
Alignment explanation
Indices: 8809402--8809452 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
8809392 ATTTTTTAAA
* *
8809402 TTTAAAAATATTTTTTATTTT
1 TTTAAAAAT-TTTTATAATTT
8809423 TTTAAATAATTTTTATAATTT
1 TTTAAA-AATTTTTATAATTT
8809444 TTTAAAAAT
1 TTTAAAAAT
8809453 GATTGTTGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 3 0.11
21 21 0.78
22 3 0.11
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTAAAAATTTTTATAATTT
Found at i:8809429 original size:19 final size:21
Alignment explanation
Indices: 8809385--8809449 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
8809375 GCATTAATAA
* *
8809385 TTAATTAATTTTT-TAAATTT
1 TTAAATAATTTTTATAATTTT
** *
8809405 AAAAAT-ATTTTT-TATTTTT
1 TTAAATAATTTTTATAATTTT
8809424 TTAAATAATTTTTATAATTTT
1 TTAAATAATTTTTATAATTTT
8809445 TTAAA
1 TTAAA
8809450 AATGATTGTT
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
19 15 0.43
20 9 0.26
21 11 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTAAATAATTTTTATAATTTT
Found at i:8810679 original size:45 final size:44
Alignment explanation
Indices: 8810554--8810689 Score: 159
Period size: 43 Copynumber: 3.1 Consensus size: 44
8810544 GTGGTCGAAG
* * *
8810554 CCACCAATATTTGCAGACAAGATGCCATGTAGATTGAGGATAAA
1 CCACCAATATTCGCAGACAAGCTGCCATGTAGATTGTGGATAAA
* * *
8810598 CCACCAA-ATTCACAGACAAACTGCCATGTAGATTGTGGACAAA
1 CCACCAATATTCGCAGACAAGCTGCCATGTAGATTGTGGATAAA
* * *
8810641 GCCACCAATATTCGCAGACGAGCT-TCAGTGTAGGTTGTGGATAAA
1 -CCACCAATATTCGCAGACAAGCTGCCA-TGTAGATTGTGGATAAA
8810686 CCAC
1 CCAC
8810690 AAATTTTGTA
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
43 30 0.39
44 20 0.26
45 27 0.35
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (44 bp):
CCACCAATATTCGCAGACAAGCTGCCATGTAGATTGTGGATAAA
Found at i:8810731 original size:88 final size:88
Alignment explanation
Indices: 8810549--8810737 Score: 193
Period size: 88 Copynumber: 2.1 Consensus size: 88
8810539 TATATGTGGT
*
8810549 CGAAGCCACCAATATTTGCAGACAAGATGCCATGTAGATTGAGGATAAACCACCAAATTCACAGA
1 CGAAGCCACCAATATTCGCAGACAAGATGCCATGTAGATTGAGGATAAACCACCAAATTCACAGA
* *
8810614 CAAACTGCCATGTAGATTGTGGA
66 CAAACTGCCATATAGATTGTCGA
* * * * * * ***
8810637 CAAAGCCACCAATATTCGCAGACGAGCT-TCAGTGTAGGTTGTGGATAAACCA-CAAATTTTGTA
1 CGAAGCCACCAATATTCGCAGACAAGATGCCA-TGTAGATTGAGGATAAACCACCAAA-TTCACA
** * *
8810700 GACAAGTTGTCATATAGGTTGTCGA
64 GACAAACTGCCATATAGATTGTCGA
*
8810725 CGAAGCCATCAAT
1 CGAAGCCACCAAT
8810738 TCTTCCTCCT
Statistics
Matches: 81, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
87 6 0.07
88 75 0.93
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (88 bp):
CGAAGCCACCAATATTCGCAGACAAGATGCCATGTAGATTGAGGATAAACCACCAAATTCACAGA
CAAACTGCCATATAGATTGTCGA
Found at i:8812290 original size:18 final size:19
Alignment explanation
Indices: 8812255--8812293 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
8812245 AATAAACACA
*
8812255 AAAAAATTATTTTAAAAAT
1 AAAAAAGTATTTTAAAAAT
8812274 AAAAAAGTATTTTAAAAAT
1 AAAAAAGTATTTTAAAAAT
8812293 A
1 A
8812294 TTTTAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (19 bp):
AAAAAAGTATTTTAAAAAT
Found at i:8813837 original size:18 final size:18
Alignment explanation
Indices: 8813816--8813893 Score: 75
Period size: 18 Copynumber: 4.2 Consensus size: 18
8813806 TTTTTAGTTC
8813816 TTTTATTTTTTTTATAAA
1 TTTTATTTTTTTTATAAA
*
8813834 TTTTAGTTTTTTTATAAA
1 TTTTATTTTTTTTATAAA
* * *
8813852 TTTATATATATATTTATAATT
1 TTT-TAT-TTTTTTTATAA-A
* *
8813873 TTTTATTTATTTTGTAAA
1 TTTTATTTTTTTTATAAA
8813891 TTT
1 TTT
8813894 GTAAATTATA
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
18 23 0.49
19 9 0.19
20 12 0.26
21 3 0.06
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
TTTTATTTTTTTTATAAA
Found at i:8813869 original size:20 final size:19
Alignment explanation
Indices: 8813825--8813893 Score: 61
Period size: 20 Copynumber: 3.6 Consensus size: 19
8813815 CTTTTATTTT
*
8813825 TTTTATAAATTT-TAGT-TT
1 TTTTATAAATTTATA-TATA
8813843 TTTTATAAATTTATATATA
1 TTTTATAAATTTATATATA
* * *
8813862 TATTTATAATTTTTTATTTA
1 T-TTTATAAATTTATATATA
*
8813882 TTTTGTAAATTT
1 TTTTATAAATTT
8813894 GTAAATTATA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
18 13 0.31
19 13 0.31
20 16 0.38
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTTATAAATTTATATATA
Found at i:8813940 original size:21 final size:21
Alignment explanation
Indices: 8813899--8813958 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 21
8813889 AATTTGTAAA
*
8813899 TTATATATTTTT-AGATATTT
1 TTATATATTTTTAAAATATTT
*
8813919 TT-TAT-TTTATAAATATATTT
1 TTATATATTTTTAAA-ATATTT
8813939 TTATATATTTTTAAAATATT
1 TTATATATTTTTAAAATATT
8813959 ATTAAAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
18 4 0.12
19 4 0.12
20 10 0.30
21 8 0.24
22 7 0.21
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
TTATATATTTTTAAAATATTT
Found at i:8813946 original size:10 final size:10
Alignment explanation
Indices: 8813842--8813951 Score: 57
Period size: 10 Copynumber: 10.6 Consensus size: 10
8813832 AATTTTAGTT
*
8813842 TTTTTATAAA
1 TTTTTATATA
*
8813852 TTTATATATA
1 TTTTTATATA
*
8813862 TATTTATA-A
1 TTTTTATATA
*
8813871 TTTTTTATTTA
1 -TTTTTATATA
*
8813882 TTTTGTAAAT-
1 TTTT-TATATA
8813892 TTGTAAATTATATA
1 TT-T---TTATATA
*
8813906 TTTTTAGATA
1 TTTTTATATA
8813916 TTTTT-TAT-
1 TTTTTATATA
*
8813924 TTTATAAATATA
1 TTT-T-TATATA
8813936 TTTTTATATA
1 TTTTTATATA
8813946 TTTTTA
1 TTTTTA
8813952 AAATATTATT
Statistics
Matches: 75, Mismatches: 13, Indels: 24
0.67 0.12 0.21
Matches are distributed among these distances:
8 3 0.04
9 4 0.05
10 48 0.64
11 9 0.12
12 3 0.04
13 5 0.07
14 3 0.04
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.64
Consensus pattern (10 bp):
TTTTTATATA
Found at i:8813957 original size:11 final size:11
Alignment explanation
Indices: 8813921--8813967 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
8813911 AGATATTTTT
8813921 TATTTTATAAATA
1 TATTTT-TAAA-A
*
8813934 TATTTTT-ATA
1 TATTTTTAAAA
8813944 TATTTTTAAAA
1 TATTTTTAAAA
*
8813955 TATTATTAAAA
1 TATTTTTAAAA
8813966 TA
1 TA
8813968 AAAAATTGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
10 8 0.27
11 15 0.50
12 1 0.03
13 6 0.20
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:8816374 original size:17 final size:17
Alignment explanation
Indices: 8816337--8816377 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
8816327 GAATTTTAGA
*
8816337 GTTTTG-AGGTTTTAAT
1 GTTTTGTAGGTTTTAAG
*
8816353 TTTTTGTAGGTTTTAAG
1 GTTTTGTAGGTTTTAAG
8816370 GTTTTGTA
1 GTTTTGTA
8816378 CATATTTAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.17, C:0.00, G:0.24, T:0.59
Consensus pattern (17 bp):
GTTTTGTAGGTTTTAAG
Found at i:8821282 original size:5 final size:5
Alignment explanation
Indices: 8821272--8821306 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
8821262 CTTTCAGCTC
8821272 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
8821307 TCCGGTTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:8826891 original size:2 final size:2
Alignment explanation
Indices: 8826884--8826908 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8826874 AGTTTATGCC
8826884 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8826909 GCATGTGCTG
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:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8831805 original size:31 final size:32
Alignment explanation
Indices: 8831770--8831835 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 32
8831760 TTCTTTAGTT
* *
8831770 AAATTTGACAATCATCCTATT-AAAAAGGGTC
1 AAATTTGACAATCAACCTATTAAAAAAGAGTC
* *
8831801 AAATTTGACCATCAACCTTTTAAAAAAGAGTC
1 AAATTTGACAATCAACCTATTAAAAAAGAGTC
8831833 AAA
1 AAA
8831836 ATGATTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 18 0.60
32 12 0.40
ACGTcount: A:0.45, C:0.17, G:0.11, T:0.27
Consensus pattern (32 bp):
AAATTTGACAATCAACCTATTAAAAAAGAGTC
Found at i:8832373 original size:21 final size:21
Alignment explanation
Indices: 8832345--8832392 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 21
8832335 ATTTTATTTT
8832345 AATAATAATATAAGTTTAAAATAA
1 AATAATAA-AT-A-TTTAAAATAA
8832369 AATAATAAATATTTAAAATAA
1 AATAATAAATATTTAAAATAA
8832390 AAT
1 AAT
8832393 TGAATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 13 0.54
22 1 0.04
23 2 0.08
24 8 0.33
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
AATAATAAATATTTAAAATAA
Found at i:8832761 original size:29 final size:30
Alignment explanation
Indices: 8832707--8832764 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
8832697 AGAATCATGT
* *
8832707 ATTAAAAAATATTTTATTTATTTATTTAAA
1 ATTAAAAAATATGTTATTTATATATTTAAA
8832737 ATTAAAAAATATAGTT-TTTA-ATATTTAA
1 ATTAAAAAATAT-GTTATTTATATATTTAA
8832765 CTTAAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 7 0.28
30 16 0.64
31 2 0.08
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (30 bp):
ATTAAAAAATATGTTATTTATATATTTAAA
Found at i:8838503 original size:37 final size:37
Alignment explanation
Indices: 8838462--8838683 Score: 372
Period size: 37 Copynumber: 6.0 Consensus size: 37
8838452 TAGTTTTAGC
8838462 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
8838499 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
** *
8838536 TACACTTATCTGATCAAGTGACAAAGTGATAAGTGGC
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
8838573 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
* *
8838610 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGC
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
** *
8838647 TACACTTATCTGATCAAGTGATAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
8838684 AGCTTCAGCT
Statistics
Matches: 174, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 174 1.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.27
Consensus pattern (37 bp):
TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
Done.