Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009605.1 Hibiscus syriacus cultivar Beakdansim tig00116989_pilon, whole genome shotgun sequence
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: 9158330
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 25 of 35
Found at i:5984344 original size:13 final size:14
Alignment explanation
Indices: 5984316--5984347 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
5984306 AATTATTGAT
5984316 TTTTTAAATTATAA
1 TTTTTAAATTATAA
5984330 TTTTTAAATTA-AA
1 TTTTTAAATTATAA
5984343 TTTTT
1 TTTTT
5984348 GAGCAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTTTAAATTATAA
Found at i:5987143 original size:182 final size:181
Alignment explanation
Indices: 5986602--5987638 Score: 1617
Period size: 182 Copynumber: 5.7 Consensus size: 181
5986592 TTGTCGGTTT
* * * *
5986602 GTGTCGATACTGTATAAAAATTTATCGATCCGTAACAATATAACAGGTAAAAAATGCCAAAACCG
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAATGACAAAACCG
* * *
5986667 GTCTATAAATGATAAAACCGACAAAACGCTACCGGATATGTTGAAAGTGTCGATACATTAATATA
66 GTCTATAAATGACAAAACCGGCAAAGCGCTACCGGATATGTTGAAAGTGTCGATACATTAATATA
*
5986732 AGTATCGACACCTTTGGAATTTAAAAGAGGAGCAGTAATGGCGCCTATAAA
131 AGTATCGACACCTTTAGAATTTAAAAGAGGAGCAGTAATGGCGCCTATAAA
** * *
5986783 GTGTCGATACTTTATAAAAATGTATTAATCCATAATAATATAACATGTAAAAAATGACAAAACCG
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAATGACAAAACCG
*
5986848 GTCTATAAATGACAAAACCGGCAAAGCGTTACCGGATATGTTGAAAGTGTCGATACATTAATATA
66 GTCTATAAATGACAAAACCGGCAAAGCGCTACCGGATATGTTGAAAGTGTCGATACATTAATATA
*
5986913 AGTATCGACACCTTTGGAATTTAAAAGAGGAGCAGTAATGGCGCCTATAAA
131 AGTATCGACACCTTTAGAATTTAAAAGAGGAGCAGTAATGGCGCCTATAAA
* *
5986964 GTGTCGATACTTTATAAAAATGTATCGATTCATAACAATATAACAGGTAAAAAAATGACAAAATC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAAATGACAAAACC
* * *
5987029 GATCTGTAAATGACAAAATCGGCAAAGCGCTACCGGATATGTTGAAAGTGTCGATACATTAATAT
65 GGTCTATAAATGACAAAACCGGCAAAGCGCTACCGGATATGTTGAAAGTGTCGATACATTAATAT
*
5987094 AAGTATCGACACCTTTAGAATTTAAAAGAGGAGCAGTAATGGTGCCTATAAA
130 AAGTATCGACACCTTTAGAATTTAAAAGAGGAGCAGTAATGGCGCCTATAAA
* * *
5987146 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAATAGATAAAAAAATGATAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAAATGACAAAACC
* * * *
5987211 GGTCTATAAATAACAAAACCGGCAAAGTGCTACCGGATATGTTGAAGGTGTCGATACATTAACAT
65 GGTCTATAAATGACAAAACCGGCAAAGCGCTACCGGATATGTTGAAAGTGTCGATACATTAATAT
* *
5987276 AATTATCGACACCTTT-GTAATTTAAAAGATGAGCAGTAATGGCGCCTATAAA
130 AAGTATCGACACCTTTAG-AATTTAAAAGAGGAGCAGTAATGGCGCCTATAAA
* * * * *
5987328 GTGTCGATACTGTAAAAAAAATGTATCGATCCATAACAATATAATAAGTAAAAAATGACAAAACT
1 GTGTCGATACT-TTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAATGACAAAACC
* * * *
5987393 AGTCTATAAATGACAAAACTGGTAAAGCGCTACCGGATATGTTGAATGTGTCGATACATTAATAT
65 GGTCTATAAATGACAAAACCGGCAAAGCGCTACCGGATATGTTGAAAGTGTCGATACATTAATAT
* * *
5987458 AAGTATCGACACTTTTAGAATTTAAAAGAGGAGCAGTAATAGTGCCTATAAA
130 AAGTATCGACACCTTTAGAATTTAAAAGAGGAGCAGTAATGGCGCCTATAAA
* *
5987510 GTGTTGATACTTTATAAAAATGTATCAATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAAATGACAAAACC
* *
5987575 GGTCTATAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGAAAGTGTCGATACATTAATA
65 GGTCTATAAATGACAAAACCGGCAAAGCGCTACCGGATATGTTGAAAGTGTCGATACATTAATA
5987639 AGTAGGCGTA
Statistics
Matches: 783, Mismatches: 68, Indels: 9
0.91 0.08 0.01
Matches are distributed among these distances:
181 245 0.31
182 504 0.64
183 34 0.04
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.26
Consensus pattern (181 bp):
GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAATGACAAAACCG
GTCTATAAATGACAAAACCGGCAAAGCGCTACCGGATATGTTGAAAGTGTCGATACATTAATATA
AGTATCGACACCTTTAGAATTTAAAAGAGGAGCAGTAATGGCGCCTATAAA
Found at i:5992868 original size:201 final size:201
Alignment explanation
Indices: 5992224--5993776 Score: 2038
Period size: 201 Copynumber: 7.8 Consensus size: 201
5992214 GTAAACATAT
* * * *
5992224 GTGTCAATACATTTATAAACAGTATTGATCCC-AAAACATCGAAACTCATAATTTTAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTTTAATGTAATA
* * * * * * * * *
5992288 GGTAATTTTGCAATGTAACTGATATAAATATACTGGTTTTATAAGAGAATAGGTCTACATAATAT
66 GGTAATTTTGCAATGTAACCGGTATAAATATACCGGTTTAATTAGAAAAGAGGTCAACATAATGT
* * * * * *
5992353 ATCGACACATGTGT-AATTTGTGTCGATACAAT-TTGTCCAG-ATGAATACCCAAA--AGGGTGC
131 ATCGACAC-TTTTTAAATTTGTGTCGGTAC-TTCTTGTCCAGAATGTATGCCCAAACTA-GGTGC
**
5992413 AAGCATAAA
193 ACCCATAAA
* * *
5992422 GTGTCGATACATTTA-AAAAATGTATCGATTCCAAAAACATCGAAACCGATAAATTTAATGTAAT
1 GTGTCGATACATTTATAAAAA-GTATCGATCCCAAAAACATCGAAACCCATAATTTTAATGTAAT
* ** * * * * * * * * *
5992486 AGGTAAATTAACAATGTAACCCGTATAAATTTATCGGTTTTATAAGAAAACATGTCTACATAACG
65 AGGTAATTTTGCAATGTAACCGGTATAAATATACCGGTTTAATTAGAAAAGAGGTCAACATAATG
* * *
5992551 TATCGACACTTGTGT-AATTTGTGTCGATACTTTTTGTCCAG-A---ATG-----ACTAGGTGCA
130 TATCGACACTT-TTTAAATTTGTGTCGGTACTTCTTGTCCAGAATGTATGCCCAAACTAGGTGCA
5992606 CCCATAAA
194 CCCATAAA
* * *
5992614 GTGTCGATATATTTATAAAAAGTATTGATCCCAAAAACATTGAAACCCATAATTTTAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTTTAATGTAATA
* *
5992679 GGTAATTTTGCATTGTAACCGGTATAAATATACCGGTTTAATTAGAAAATAGGTCAACATAATGT
66 GGTAATTTTGCAATGTAACCGGTATAAATATACCGGTTTAATTAGAAAAGAGGTCAACATAATGT
* *
5992744 ATCGACACTTTTTAAATTTGTGTCGGTACTTCTTGTCCAAAATGTATGCCAAAACTAGGTGCACC
131 ATCGACACTTTTTAAATTTGTGTCGGTACTTCTTGTCCAGAATGTATGCCCAAACTAGGTGCACC
*
5992809 CATAAC
196 CATAAA
*
5992815 GTGTCGATACATTTATAAAACA-TATCGATCCCAAAAACATCAAAACCCATAATTTTAATGTAAT
1 GTGTCGATACATTTATAAAA-AGTATCGATCCCAAAAACATCGAAACCCATAATTTTAATGTAAT
* * * *
5992879 AGGTAATTTTGCAATGTAACCGGTATAAATATACTGATTTAATTAGAAAAGCGGTCAACTTAATG
65 AGGTAATTTTGCAATGTAACCGGTATAAATATACCGGTTTAATTAGAAAAGAGGTCAACATAATG
* *
5992944 TATCGACATTTTTTAAATTTGTGTCGGTACTTCTTGTCCAGAATGTGTGCCCAAACTAGGTGCAC
130 TATCGACACTTTTTAAATTTGTGTCGGTACTTCTTGTCCAGAATGTATGCCCAAACTAGGTGCAC
5993009 CCATAAA
195 CCATAAA
* * *
5993016 GTGTCGATACATTTATAAAACGTATCGATCCCAAAAACAACGAAACCCATTATTTTAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTTTAATGTAATA
* * * *
5993081 GGTAATTTTGCAATGTAACTC-GTATAAA-ATACTGGTTTAATTAGAAAAGCGGTCAACTTAATA
66 GGTAATTTTGCAATGTAAC-CGGTATAAATATACCGGTTTAATTAGAAAAGAGGTCAACATAATG
* *
5993144 TATCAACACTTTTTAAATTTGTGTCGGTACTTCTTGTCCAGAATGTATGCCCAAACTATGTGCAC
130 TATCGACACTTTTTAAATTTGTGTCGGTACTTCTTGTCCAGAATGTATGCCCAAACTAGGTGCAC
5993209 CCATAAA
195 CCATAAA
* *
5993216 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAATCATCGAAACCCATTATTTTAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTTTAATGTAATA
* * *
5993281 GGTAATTTTGCAATGTAACCGGAATAAATATACCTGTTTAATTAGAAAA-ACGGTCAACTTAATG
66 GGTAATTTTGCAATGTAACCGGTATAAATATACCGGTTTAATTAGAAAAGA-GGTCAACATAATG
*
5993345 TATCGACACTTTTTAAATTTGTGTCGGTACTTCTTATCCAGAATGT-TAGCCCAAACTAGGTGCA
130 TATCGACACTTTTTAAATTTGTGTCGGTACTTCTTGTCCAGAATGTAT-GCCCAAACTAGGTGCA
5993409 CCCATAAA
194 CCCATAAA
* *
5993417 GTGTCGATACATTTATAAAAAGTATCGATCCTAAAAACATCGAAACACA-AATTTTTAATGTAAT
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAA-TTTTAATGTAAT
* * * * * *
5993481 AGGTAAATTTGAAATGTAGCCGGTATAAATATACCGGTTTAATTAGAAAAGCGATCAACTTAATG
65 AGGTAATTTTGCAATGTAACCGGTATAAATATACCGGTTTAATTAGAAAAGAGGTCAACATAATG
* * * *
5993546 TATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCATAATGTGTGCCCAAACTAGGTGCAC
130 TATCGACACTTTTTAAATTTGTGTCGGTACTTCTTGTCCAGAATGTATGCCCAAACTAGGTGCAC
5993611 CCATAAA
195 CCATAAA
**
5993618 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAGTATCGAAACCCATAATTTTAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTTTAATGTAATA
** * *
5993683 GGTAATTTTGCAATGTAACATGTATAAATATTCCGGTTTAATTAGAAAAGCGGTCAACATAATGT
66 GGTAATTTTGCAATGTAACCGGTATAAATATACCGGTTTAATTAGAAAAGAGGTCAACATAATGT
* *
5993748 ATCGACACATGTGT-AATTTGTGTCGGTAC
131 ATCGACAC-TTTTTAAATTTGTGTCGGTAC
5993777 CTTTTTAAAT
Statistics
Matches: 1210, Mismatches: 116, Indels: 55
0.88 0.08 0.04
Matches are distributed among these distances:
191 3 0.00
192 150 0.12
193 7 0.01
196 5 0.00
197 4 0.00
198 25 0.02
199 116 0.10
200 190 0.16
201 702 0.58
202 8 0.01
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (201 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTTTAATGTAATA
GGTAATTTTGCAATGTAACCGGTATAAATATACCGGTTTAATTAGAAAAGAGGTCAACATAATGT
ATCGACACTTTTTAAATTTGTGTCGGTACTTCTTGTCCAGAATGTATGCCCAAACTAGGTGCACC
CATAAA
Found at i:5993228 original size:401 final size:401
Alignment explanation
Indices: 5992224--5993776 Score: 2056
Period size: 401 Copynumber: 3.9 Consensus size: 401
5992214 GTAAACATAT
* * * *
5992224 GTGTCAATACATTTATAAACAGTATTGATCCC-AAAACATCGAAACTCATAATTTTAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTTTAATGTAATA
* * * * * * * *
5992288 GGTAATTTTGCAATGTAACTGATATAAATATACTGGTTTTATAAGAGAATAGGTCTACATAATAT
66 GGTAATTTTGCAATGTAACCGGTATAAATATACCGGTTTAATTAGAAAAGAGGTCAACATAATAT
* * * * *
5992353 ATCGACACATGTGT-AATTTGTGTCGATACAAT-TTGTCCAG-ATGAATACCCAAA--AGGGTGC
131 ATCGACAC-TTTTTAAATTTGTGTCGATAC-TTCTTGTCCAGAATGTATGCCCAAACTA-GGTGC
** * * *
5992413 AAGCATAAAGTGTCGATACATTTA-AAAAATGTATCGATTCCAAAAACATCGAAACCGATAAATT
193 ACCCATAAAGTGTCGATACATTTATAAAAA-GTATCGATCCCAAAAACATCGAAACCCATAATTT
* ** * * * * *
5992477 TAATGTAATAGGTAAATTAACAATGTAACCCGTATAAATTTA-TCGGTTTTATAAGAAAA-CATG
257 TAATGTAATAGGTAATTTTGCAATGTAACCGGTATAAATATACT-GGTTTAATTAGAAAAGC-GG
* * * *
5992540 TCTACATAACGTATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAA---TG-----A
320 TCAACATAATGTATCGACACTTGTGTAATTTGTGTCGGTACTTCTTGTCCAGAATGTTGCCCAAA
5992597 CTAGGTGCACCCATAAA
385 CTAGGTGCACCCATAAA
* * *
5992614 GTGTCGATATATTTATAAAAAGTATTGATCCCAAAAACATTGAAACCCATAATTTTAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTTTAATGTAATA
* * *
5992679 GGTAATTTTGCATTGTAACCGGTATAAATATACCGGTTTAATTAGAAAATAGGTCAACATAATGT
66 GGTAATTTTGCAATGTAACCGGTATAAATATACCGGTTTAATTAGAAAAGAGGTCAACATAATAT
* * *
5992744 ATCGACACTTTTTAAATTTGTGTCGGTACTTCTTGTCCAAAATGTATGCCAAAACTAGGTGCACC
131 ATCGACACTTTTTAAATTTGTGTCGATACTTCTTGTCCAGAATGTATGCCCAAACTAGGTGCACC
* *
5992809 CATAACGTGTCGATACATTTATAAAACA-TATCGATCCCAAAAACATCAAAACCCATAATTTTAA
196 CATAAAGTGTCGATACATTTATAAAA-AGTATCGATCCCAAAAACATCGAAACCCATAATTTTAA
*
5992873 TGTAATAGGTAATTTTGCAATGTAACCGGTATAAATATACTGATTTAATTAGAAAAGCGGTCAAC
260 TGTAATAGGTAATTTTGCAATGTAACCGGTATAAATATACTGGTTTAATTAGAAAAGCGGTCAAC
* * *
5992938 TTAATGTATCGACA-TTTTTTAAATTTGTGTCGGTACTTCTTGTCCAGAATGTGTGCCCAAACTA
325 ATAATGTATCGACACTTGTGT-AATTTGTGTCGGTACTTCTTGTCCAGAATGT-TGCCCAAACTA
5993002 GGTGCACCCATAAA
388 GGTGCACCCATAAA
* * *
5993016 GTGTCGATACATTTATAAAACGTATCGATCCCAAAAACAACGAAACCCATTATTTTAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTTTAATGTAATA
* * *
5993081 GGTAATTTTGCAATGTAACTC-GTATAAA-ATACTGGTTTAATTAGAAAAGCGGTCAACTTAATA
66 GGTAATTTTGCAATGTAAC-CGGTATAAATATACCGGTTTAATTAGAAAAGAGGTCAACATAATA
* * *
5993144 TATCAACACTTTTTAAATTTGTGTCGGTACTTCTTGTCCAGAATGTATGCCCAAACTATGTGCAC
130 TATCGACACTTTTTAAATTTGTGTCGATACTTCTTGTCCAGAATGTATGCCCAAACTAGGTGCAC
* *
5993209 CCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAATCATCGAAACCCATTATTTTAA
195 CCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTTTAA
* *
5993274 TGTAATAGGTAATTTTGCAATGTAACCGGAATAAATATACCT-GTTTAATTAGAAAAACGGTCAA
260 TGTAATAGGTAATTTTGCAATGTAACCGGTATAAATATA-CTGGTTTAATTAGAAAAGCGGTCAA
* * *
5993338 CTTAATGTATCGACACTT-TTTAAATTTGTGTCGGTACTTCTTATCCAGAATGTTAGCCCAAACT
324 CATAATGTATCGACACTTGTGT-AATTTGTGTCGGTACTTCTTGTCCAGAATGTT-GCCCAAACT
5993402 AGGTGCACCCATAAA
387 AGGTGCACCCATAAA
* *
5993417 GTGTCGATACATTTATAAAAAGTATCGATCCTAAAAACATCGAAACACA-AATTTTTAATGTAAT
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAA-TTTTAATGTAAT
* * * * * * *
5993481 AGGTAAATTTGAAATGTAGCCGGTATAAATATACCGGTTTAATTAGAAAAGCGATCAACTTAATG
65 AGGTAATTTTGCAATGTAACCGGTATAAATATACCGGTTTAATTAGAAAAGAGGTCAACATAATA
* * *
5993546 TATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCATAATGTGTGCCCAAACTAGGTGCAC
130 TATCGACACTTTTTAAATTTGTGTCGATACTTCTTGTCCAGAATGTATGCCCAAACTAGGTGCAC
**
5993611 CCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAGTATCGAAACCCATAATTTTAA
195 CCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTTTAA
** * *
5993676 TGTAATAGGTAATTTTGCAATGTAACATGTATAAATATTCCGGTTTAATTAGAAAAGCGGTCAAC
260 TGTAATAGGTAATTTTGCAATGTAACCGGTATAAATATACTGGTTTAATTAGAAAAGCGGTCAAC
*
5993741 ATAATGTATCGACACATGTGTAATTTGTGTCGGTAC
325 ATAATGTATCGACACTTGTGTAATTTGTGTCGGTAC
5993777 CTTTTTAAAT
Statistics
Matches: 1035, Mismatches: 98, Indels: 48
0.88 0.08 0.04
Matches are distributed among these distances:
390 33 0.03
391 115 0.11
392 14 0.01
393 147 0.14
394 7 0.01
395 1 0.00
397 2 0.00
400 4 0.00
401 363 0.35
402 346 0.33
403 3 0.00
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (401 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTTTAATGTAATA
GGTAATTTTGCAATGTAACCGGTATAAATATACCGGTTTAATTAGAAAAGAGGTCAACATAATAT
ATCGACACTTTTTAAATTTGTGTCGATACTTCTTGTCCAGAATGTATGCCCAAACTAGGTGCACC
CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTTTAAT
GTAATAGGTAATTTTGCAATGTAACCGGTATAAATATACTGGTTTAATTAGAAAAGCGGTCAACA
TAATGTATCGACACTTGTGTAATTTGTGTCGGTACTTCTTGTCCAGAATGTTGCCCAAACTAGGT
GCACCCATAAA
Found at i:5993403 original size:602 final size:593
Alignment explanation
Indices: 5992224--5993776 Score: 2103
Period size: 602 Copynumber: 2.6 Consensus size: 593
5992214 GTAAACATAT
* * *
5992224 GTGTCAATACATTTAT-AAACAGTATTGATCCC-AAAACATCGAAACTCATAATTTTAATGTAAT
1 GTGTCGATACATTTATAAAACAGTATCGATCCCAAAAACATCGAAACACATAATTTTAATGTAAT
* * * * * ** * * *
5992287 AGGTAATTTTGCAATGTAACTGATATAAATATACTGGTTTTATAAGAGAATAGGTCTACATAATA
66 AGGTAATTTTGCAATGTAACCGGTATAAATATACTGGTTTAATTAGAAAAGCGGTCAACTTAATG
* * * ** *
5992352 TATCGACACATGTGT-AATTTGTGTCGATACAATTTGTCCAG-ATGAATACCCAAA--AGGGTGC
131 TATCGACA-ATTTTTAAATTTGTGTCGATAC-TTTTGTCCAGAATGTGTGCCCAAACTA-GGTGC
** * * *
5992413 AAGCATAAAGTGTCGATACATTTA-AAAAATGTATCGATTCCAAAAACATCGAAACCGATAAATT
193 ACCCATAAAGTGTCGATACATTTATAAAAA-GTATCGATCCCAAAAACATCGAAACCCATAATTT
* ** * * * * *
5992477 TAATGTAATAGGTAAATTAACAATGTAACCCGTATAAATTTA-TCGGTTTTATAAGAAAA-CATG
257 TAATGTAATAGGTAATTTTGCAATGTAACTCGTATAAATATACT-GGTTTAATTAGAAAAGC-GG
* * * *
5992540 TCTACATAACGTATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAATGACTAGGTGC
320 TCAACATAATGTATCGACACTT-TGTAATTTGTGTCGGTACTTCTTGTCCAGAATGACTAGGTGC
* * *
5992605 ACCCATAAAGTGTCGATATATTTATAAAAAGTATTGATCCCAAAAACATTGAAACCCATAATTTT
384 ACCCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTTT
* *
5992670 AATGTAATAGGTAATTTTGCATTGTAACCGGTATAAATATACCGGTTTAATTAGAAAATAGGTCA
449 AATGTAATAGGTAATTTTGCAATGTAACCGGAATAAATATACCGGTTTAATTAGAAAATAGGTCA
*
5992735 ACATAATGTATCGACACTTTTTAAATTTGTGTCGGTACTTCTTGTCCAAAATGTATGCCAAAACT
514 ACATAATGTATCGACACTTTTTAAATTTGTGTCGGTACTTCTTATCCAAAATGTATGCCAAAACT
*
5992800 AGGTGCACCCATAAC
579 AGGTGCACCCATAAA
* *
5992815 GTGTCGATACATTTATAAAACA-TATCGATCCCAAAAACATCAAAACCCATAATTTTAATGTAAT
1 GTGTCGATACATTTATAAAACAGTATCGATCCCAAAAACATCGAAACACATAATTTTAATGTAAT
*
5992879 AGGTAATTTTGCAATGTAACCGGTATAAATATACTGATTTAATTAGAAAAGCGGTCAACTTAATG
66 AGGTAATTTTGCAATGTAACCGGTATAAATATACTGGTTTAATTAGAAAAGCGGTCAACTTAATG
* *
5992944 TATCGACATTTTTTAAATTTGTGTCGGTACTTCTTGTCCAGAATGTGTGCCCAAACTAGGTGCAC
131 TATCGACAATTTTTAAATTTGTGTCGATACTT-TTGTCCAGAATGTGTGCCCAAACTAGGTGCAC
* * *
5993009 CCATAAAGTGTCGATACATTTATAAAACGTATCGATCCCAAAAACAACGAAACCCATTATTTTAA
195 CCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTTTAA
5993074 TGTAATAGGTAATTTTGCAATGTAACTCGTATAAA-ATACTGGTTTAATTAGAAAAGCGGTCAAC
260 TGTAATAGGTAATTTTGCAATGTAACTCGTATAAATATACTGGTTTAATTAGAAAAGCGGTCAAC
* * * * *
5993138 TTAATATATCAACACTTTTTAAATTTGTGTCGGTACTTCTTGTCCAGAATGTATGCCCAAACTAT
325 ATAATGTATCGACACTTTGT-AATTTGTGTCGGTACTTCTTGTCCAG-A---ATG-----ACTAG
* *
5993203 GTGCACCCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAATCATCGAAACCCATTA
380 GTGCACCCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAA
*
5993268 TTTTAATGTAATAGGTAATTTTGCAATGTAACCGGAATAAATATACCTGTTTAATTAGAAAA-AC
445 TTTTAATGTAATAGGTAATTTTGCAATGTAACCGGAATAAATATACCGGTTTAATTAGAAAATA-
* *
5993332 GGTCAACTTAATGTATCGACACTTTTTAAATTTGTGTCGGTACTTCTTATCCAGAATGT-TAGCC
509 GGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGGTACTTCTTATCCAAAATGTAT-GCC
*
5993396 CAAACTAGGTGCACCCATAAA
573 AAAACTAGGTGCACCCATAAA
*
5993417 GTGTCGATACATTTATAAAA-AGTATCGATCCTAAAAACATCGAAACACA-AATTTTTAATGTAA
1 GTGTCGATACATTTATAAAACAGTATCGATCCCAAAAACATCGAAACACATAA-TTTTAATGTAA
* * * * *
5993480 TAGGTAAATTTGAAATGTAGCCGGTATAAATATACCGGTTTAATTAGAAAAGCGATCAACTTAAT
65 TAGGTAATTTTGCAATGTAACCGGTATAAATATACTGGTTTAATTAGAAAAGCGGTCAACTTAAT
* *
5993545 GTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCATAATGTGTGCCCAAACTAGGTGCA
130 GTATCGACAATTTTTAAATTTGTGTCGATAC-TTTTGTCCAGAATGTGTGCCCAAACTAGGTGCA
**
5993610 CCCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAGTATCGAAACCCATAATTTTA
194 CCCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTTTA
* *
5993675 ATGTAATAGGTAATTTTGCAATGTAACAT-GTATAAATATTCCGGTTTAATTAGAAAAGCGGTCA
259 ATGTAATAGGTAATTTTGCAATGTAAC-TCGTATAAATATACTGGTTTAATTAGAAAAGCGGTCA
*
5993739 ACATAATGTATCGACACATGTGTAATTTGTGTCGGTAC
323 ACATAATGTATCGACAC-TTTGTAATTTGTGTCGGTAC
5993777 CTTTTTAAAT
Statistics
Matches: 849, Mismatches: 85, Indels: 44
0.87 0.09 0.04
Matches are distributed among these distances:
591 28 0.03
592 120 0.14
593 67 0.08
594 93 0.11
595 5 0.01
597 3 0.00
601 5 0.01
602 468 0.55
603 57 0.07
604 3 0.00
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (593 bp):
GTGTCGATACATTTATAAAACAGTATCGATCCCAAAAACATCGAAACACATAATTTTAATGTAAT
AGGTAATTTTGCAATGTAACCGGTATAAATATACTGGTTTAATTAGAAAAGCGGTCAACTTAATG
TATCGACAATTTTTAAATTTGTGTCGATACTTTTGTCCAGAATGTGTGCCCAAACTAGGTGCACC
CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTTTAAT
GTAATAGGTAATTTTGCAATGTAACTCGTATAAATATACTGGTTTAATTAGAAAAGCGGTCAACA
TAATGTATCGACACTTTGTAATTTGTGTCGGTACTTCTTGTCCAGAATGACTAGGTGCACCCATA
AAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTTTAATGTAA
TAGGTAATTTTGCAATGTAACCGGAATAAATATACCGGTTTAATTAGAAAATAGGTCAACATAAT
GTATCGACACTTTTTAAATTTGTGTCGGTACTTCTTATCCAAAATGTATGCCAAAACTAGGTGCA
CCCATAAA
Found at i:5994110 original size:15 final size:15
Alignment explanation
Indices: 5994090--5994118 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
5994080 TCTTTCTCAA
5994090 AGCTCTTCTCAACCC
1 AGCTCTTCTCAACCC
5994105 AGCTCTTCTCAACC
1 AGCTCTTCTCAACC
5994119 ATAACCTCAT
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:0.21, C:0.45, G:0.07, T:0.28
Consensus pattern (15 bp):
AGCTCTTCTCAACCC
Found at i:5995306 original size:3 final size:3
Alignment explanation
Indices: 5995275--5995318 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
5995265 CAAGTGGTCA
* * * *
5995275 ATG AAG ATG AAG ATG ACG ATG AAG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
5995319 CCAAACAAGT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.41, C:0.02, G:0.32, T:0.25
Consensus pattern (3 bp):
ATG
Found at i:5995315 original size:12 final size:12
Alignment explanation
Indices: 5995275--5995318 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
5995265 CAAGTGGTCA
*
5995275 ATGAAGATGAAG
1 ATGATGATGAAG
*
5995287 ATGACGATGAAG
1 ATGATGATGAAG
*
5995299 ATGATGATGATG
1 ATGATGATGAAG
5995311 ATGATGAT
1 ATGATGAT
5995319 CCAAACAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.41, C:0.02, G:0.32, T:0.25
Consensus pattern (12 bp):
ATGATGATGAAG
Found at i:5996662 original size:24 final size:24
Alignment explanation
Indices: 5996611--5996663 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
5996601 TTTCATATGT
* * *
5996611 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
* *
5996635 AATTTGAGTTTGGATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
5996659 AATTT
1 AATTT
5996664 TGACTCTACT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:5998207 original size:199 final size:199
Alignment explanation
Indices: 5997866--5998853 Score: 1438
Period size: 199 Copynumber: 5.0 Consensus size: 199
5997856 TTCAGTAATC
* ** * * **
5997866 TCCAGAATAAATGCCCAACCGAGGTGCACGCATAAAGTGTCGATACATTTATTAAA-AATATCGA
1 TCCAGAATGAATGCCCAAAAGGGGTGCACTCATAAAGTGTCGATACATTTA--AAATTGTATCGA
* *
5997930 TCCCAAAAACACCGAATAAGTTAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAA
64 TCCCAAAAACATCGAATAAGTTAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAA
* *
5997995 TATACCGGTTAATTCCAAAATAGGTCTACATTATGTATCGACACTTATGTAAATTGTGTCGATAC
129 TATACCGGTTAATTCGAAAATAGGTCTACATAATGTATCGACACTTATGTAAATTGTGTCGATAC
5998060 TTTTTG
194 TTTTTG
5998066 TCCAGAATGAATGCCCAAAAGGGGTGCACTCATAAAGTGTCGATACATTTAAAATTGTATCGATC
1 TCCAGAATGAATGCCCAAAAGGGGTGCACTCATAAAGTGTCGATACATTTAAAATTGTATCGATC
* * *
5998131 CCAGAAACATCGAATAAGTTAATTATAATGCAATAGGTAAATTTACGATGTAACCGGTAGAAATA
66 CCAAAAACATCGAATAAGTTAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATA
* * *
5998196 TACCGGTTAATTCGAAAATAGGTCTACATAATGTATCGACACTTGTGTAACTTGTGTCGATACTC
131 TACCGGTTAATTCGAAAATAGGTCTACATAATGTATCGACACTTATGTAAATTGTGTCGATACTT
5998261 TTTG
196 TTTG
* *
5998265 TCCAGAATGAATACCCAAAAGGGGTGCACTCATAAAGTGTCGATACATTTAAATTTGTATCGATC
1 TCCAGAATGAATGCCCAAAAGGGGTGCACTCATAAAGTGTCGATACATTTAAAATTGTATCGATC
* * * ** * *
5998330 CCAGAAACATTGAATAAGTTAATTATAATGTAATAGGTAAATTTACAAAGTGTCCAGTCGAAATA
66 CCAAAAACATCGAATAAGTTAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATA
* *
5998395 TACCGGTTAATTCGAAAATAGGTCTAAATAATGTATCGACACTTATG-AAACTTGTTTCGATACT
131 TACCGGTTAATTCGAAAATAGGTCTACATAATGTATCGACACTTATGTAAA-TTGTGTCGATACT
5998459 TTTTG
195 TTTTG
*** *
5998464 TCCAGAATGAATG-CC--TTTGGGTGCACTCATAAAGTGTCAATACATTTAAAATTGTATCGATC
1 TCCAGAATGAATGCCCAAAAGGGGTGCACTCATAAAGTGTCGATACATTTAAAATTGTATCGATC
* * *
5998526 CCAACAACATCGAATAAGTTAATTATAATGTAGTAGGTAAATTTACAATGTAACTGGTAGAAATA
66 CCAAAAACATCGAATAAGTTAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATA
* * * *
5998591 TACCGATTAATTCGAAAATAGGTCTACATAATGTATCGACACTTGTGGAACTTGTGTCGATACTT
131 TACCGGTTAATTCGAAAATAGGTCTACATAATGTATCGACACTTATGTAAATTGTGTCGATACTT
5998656 TTTG
196 TTTG
* ** *
5998660 TACAGAATGAATG-CC---TTGGGTGCACTCATAAAGTTTCGATACATTTAAAATTGTATCGATC
1 TCCAGAATGAATGCCCAAAAGGGGTGCACTCATAAAGTGTCGATACATTTAAAATTGTATCGATC
* *
5998721 CCAAAAACATCGAATAAGTTAATTATAATATAATAGGTAAATTTACAATGTAACCGGTAGATATA
66 CCAAAAACATCGAATAAGTTAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATA
* * *
5998786 TACCGTTTAATTCAAAAATAGGTCTACATAATGTATCGACACTT-TTTAAAGTTGTGTCGATACT
131 TACCGGTTAATTCGAAAATAGGTCTACATAATGTATCGACACTTATGTAAA-TTGTGTCGATACT
5998850 TTTT
195 TTTT
5998854 TCAATTACGC
Statistics
Matches: 718, Mismatches: 66, Indels: 13
0.90 0.08 0.02
Matches are distributed among these distances:
194 3 0.00
195 163 0.23
196 172 0.24
197 2 0.00
198 7 0.01
199 325 0.45
200 46 0.06
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (199 bp):
TCCAGAATGAATGCCCAAAAGGGGTGCACTCATAAAGTGTCGATACATTTAAAATTGTATCGATC
CCAAAAACATCGAATAAGTTAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATA
TACCGGTTAATTCGAAAATAGGTCTACATAATGTATCGACACTTATGTAAATTGTGTCGATACTT
TTTG
Found at i:5998668 original size:395 final size:391
Alignment explanation
Indices: 5997888--5998853 Score: 1443
Period size: 395 Copynumber: 2.4 Consensus size: 391
5997878 GCCCAACCGA
* *** *
5997888 GGTGCACGCATAAAGTGTCGATACATTTATTAAAAATATCGATCCCAAAAACACCGAATAAGTTA
1 GGTGCACTCATAAAGTGTCGATACATTTA--AATTGTATCGATCCCAAAAACATCGAATAAGTTA
* *
5997953 ATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTAATTCCAAAATAG
64 ATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATATACCGGTTAATTCAAAAATAG
*
5998018 GTCTACATTATGTATCGACACTTATGTAAATTGTGTCGATACTTTTTGTCCAGAATGAATGCCCA
129 GTCTACATAATGTATCGACACTTATG-AAATTGTGTCGATACTTTTTGTCCAGAATGAATGCCC-
*
5998083 AAAGGGGTGCACTCATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAGAAACATCGAATAA
192 AAAGGGGTGCACTCATAAAGTGTCAATACATTTAAAATTGTATCGATCCCAGAAACATCGAATAA
* *
5998148 GTTAATTATAATGCAATAGGTAAATTTACGATGTAACCGGTAGAAATATACCGGTTAATTCGAAA
257 GTTAATTATAATGCAATAGGTAAATTTACAATGTAACCGGTAGAAATATACCGATTAATTCGAAA
* *
5998213 ATAGGTCTACATAATGTATCGACACTTGTGTAACTTGTGTCGATACTCTTTGTCCAGAATGAATA
322 ATAGGTCTACATAATGTATCGACACTTGTGGAACTTGTGTCGATACTCTTTGTACAGAATGAAT-
5998278 CCCAAAAGG
386 CCC---AGG
* *
5998287 GGTGCACTCATAAAGTGTCGATACATTTAAATTTGTATCGATCCCAGAAACATTGAATAAGTTAA
1 GGTGCACTCATAAAGTGTCGATACATTTAAA-TTGTATCGATCCCAAAAACATCGAATAAGTTAA
* ** * * *
5998352 TTATAATGTAATAGGTAAATTTACAAAGTGTCCAGTCGAAATATACCGGTTAATTCGAAAATAGG
65 TTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATATACCGGTTAATTCAAAAATAGG
* * *
5998417 TCTAAATAATGTATCGACACTTATGAAACTTGTTTCGATACTTTTTGTCCAGAATGAATG-CC-T
130 TCTACATAATGTATCGACACTTATGAAA-TTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAA
**
5998480 TTGGGTGCACTCATAAAGTGTCAATACATTTAAAATTGTATCGATCCCA-ACAACATCGAATAAG
194 AGGGGTGCACTCATAAAGTGTCAATACATTTAAAATTGTATCGATCCCAGA-AACATCGAATAAG
* * *
5998544 TTAATTATAATGTAGTAGGTAAATTTACAATGTAACTGGTAGAAATATACCGATTAATTCGAAAA
258 TTAATTATAATGCAATAGGTAAATTTACAATGTAACCGGTAGAAATATACCGATTAATTCGAAAA
* *
5998609 TAGGTCTACATAATGTATCGACACTTGTGGAACTTGTGTCGATACTTTTTGTACAGAATGAATGC
323 TAGGTCTACATAATGTATCGACACTTGTGGAACTTGTGTCGATACTCTTTGTACAGAATGAATCC
**
5998674 CTTG
388 CAGG
*
5998678 GGTGCACTCATAAAGTTTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAATAAGTTAA
1 GGTGCACTCATAAAGTGTCGATACATTT-AAATTGTATCGATCCCAAAAACATCGAATAAGTTAA
* * *
5998743 TTATAATATAATAGGTAAATTTACAATGTAACCGGTAGATATATACCGTTTAATTCAAAAATAGG
65 TTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATATACCGGTTAATTCAAAAATAGG
* *
5998808 TCTACATAATGTATCGACACTTTTTAAAGTTGTGTCGATACTTTTT
130 TCTACATAATGTATCGACACTTATGAAA-TTGTGTCGATACTTTTT
5998854 TCAATTACGC
Statistics
Matches: 514, Mismatches: 49, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
391 156 0.30
392 3 0.01
394 3 0.01
395 179 0.35
397 7 0.01
398 138 0.27
399 28 0.05
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (391 bp):
GGTGCACTCATAAAGTGTCGATACATTTAAATTGTATCGATCCCAAAAACATCGAATAAGTTAAT
TATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATATACCGGTTAATTCAAAAATAGGT
CTACATAATGTATCGACACTTATGAAATTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAG
GGGTGCACTCATAAAGTGTCAATACATTTAAAATTGTATCGATCCCAGAAACATCGAATAAGTTA
ATTATAATGCAATAGGTAAATTTACAATGTAACCGGTAGAAATATACCGATTAATTCGAAAATAG
GTCTACATAATGTATCGACACTTGTGGAACTTGTGTCGATACTCTTTGTACAGAATGAATCCCAG
G
Found at i:6000480 original size:19 final size:19
Alignment explanation
Indices: 6000456--6000503 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
6000446 ATGTAGGGGA
*
6000456 AATTTTGTATACGGTTCAT
1 AATTTTGTATACGATTCAT
*
6000475 AATTTTGTATACGATTTAT
1 AATTTTGTATACGATTCAT
6000494 AATTTTGTAT
1 AATTTTGTAT
6000504 GTAAATGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.52
Consensus pattern (19 bp):
AATTTTGTATACGATTCAT
Found at i:6003328 original size:200 final size:198
Alignment explanation
Indices: 6002979--6003662 Score: 912
Period size: 200 Copynumber: 3.4 Consensus size: 198
6002969 ACCTATATAT
* *
6002979 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCAAAATCCATAATTATAATGTAATA
1 GTGTCGATACATTTACAAAAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATA
*
6003044 GGTAAATTTACAATGTAACCGGTATAAATTTACAGGTTTTATGAGAAAATAGGTCTACATAATGT
66 GGTAAATTTACAATGTAACCGGTAGAAATTTAC-GGTTTTATGAGAAAATAGGTCTACATAATGT
* *
6003109 ATCGACACTTGTGTAACTTGTTTCGATACTTGTTCTCCAGAATGAATGCCCAAAAGGGTGCACGC
130 ATCGACACTTGTTTAACTTGTGTCGATACTT-TTCTCCAGAATGAATGCCCAAAAGGGTGCACGC
6003174 ATAAA
194 ATAAA
* *
6003179 GTGTCGATACATTTACAAAAAGTATCGAT-CCAAATAATATCGAAACCCATAATTATAATGTAAT
1 GTGTCGATACATTTACAAAAAGTATCGATCCCAAA-AACATCAAAACCCATAATTATAATGTAAT
** * *
6003243 AGGTAAATTTACAATAAAACCGGTAGAAATTTATCGGTTTTATGAAAAAATAGGTCAACATAATG
65 AGGTAAATTTACAATGTAACCGGTAGAAATTTA-CGGTTTTATGAGAAAATAGGTCTACATAATG
* * *
6003308 TATCGACACTTGTTTAACTTGTGTCGATACTTTTTGTCCAGAATAAATG-CCAAACGGGGTGCAC
129 TATCGACACTTGTTTAACTTGTGTCGATAC-TTTTCTCCAGAATGAATGCCCAAA-AGGGTGCAC
6003372 GCATAAA
192 GCATAAA
* ** * *
6003379 GTGTCGAAACATTTATTAAAAGTATCGATCCCAAAAACATCAAAACCGATAATTACAATGTAATA
1 GTGTCGATACATTTACAAAAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATA
* * * * * *
6003444 GGTAAATTTACAATGTACCCGATAGAAATATACCGGTTTTTTGAGAAAATAGTTCTCCATAATGT
66 GGTAAATTTACAATGTAACCGGTAGAAATTTA-CGGTTTTATGAGAAAATAGGTCTACATAATGT
* * * * *
6003509 ATCGACACTT-TTTAAGTTTGTGTCGATACTTTTTTCCATAATGAATGCCC-AACGAGGTGCATG
130 ATCGACACTTGTTTAA-CTTGTGTCGATACTTTTCTCCAGAATGAATGCCCAAAAG-GGTGCACG
6003572 CATAAA
193 CATAAA
** * * *
6003578 GTGTCGATACATTTACAATTA-TATCGAT-CCAAAAAAATCGAAACCGATAATTATAATGTAATA
1 GTGTCGATACATTTACAAAAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATA
* *
6003641 GGTAAATTTGCAATGTTACCGG
66 GGTAAATTTACAATGTAACCGG
6003663 CACAGACAAA
Statistics
Matches: 426, Mismatches: 50, Indels: 19
0.86 0.10 0.04
Matches are distributed among these distances:
197 50 0.12
198 8 0.02
199 61 0.14
200 299 0.70
201 8 0.02
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (198 bp):
GTGTCGATACATTTACAAAAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGGTAGAAATTTACGGTTTTATGAGAAAATAGGTCTACATAATGTA
TCGACACTTGTTTAACTTGTGTCGATACTTTTCTCCAGAATGAATGCCCAAAAGGGTGCACGCAT
AAA
Found at i:6005445 original size:23 final size:24
Alignment explanation
Indices: 6005397--6005443 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
6005387 TTTTAAATTT
*
6005397 TAAAAATGAAAATAAAAATATTAAA
1 TAAAAAT-AAAATAAAAATATAAAA
6005422 TAAAAAT-AAATAAAAAT-TAAAA
1 TAAAAATAAAATAAAAATATAAAA
6005444 ATTAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 10 0.48
25 7 0.33
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (24 bp):
TAAAAATAAAATAAAAATATAAAA
Found at i:6007557 original size:2 final size:2
Alignment explanation
Indices: 6007550--6007595 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
6007540 ACATTTTTGA
6007550 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6007591 AT AT A
1 AT AT A
6007596 GTTTTGAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6007621 original size:37 final size:38
Alignment explanation
Indices: 6007578--6007862 Score: 201
Period size: 38 Copynumber: 7.7 Consensus size: 38
6007568 ATATATATAT
6007578 ATATATATATATAATATAGTTTTGAAAACATTTTCAAAA
1 ATATATATATAT-ATATAGTTTTGAAAACATTTTCAAAA
*
6007617 ATATATATA-ATATATAGTTTTGAAAACATTTTTGAAAA
1 ATATATATATATATATAGTTTTGAAAACA-TTTTCAAAA
6007655 A-ATATATATAATATATAGTTTTG-AAA-A---T-----
1 ATATATATAT-ATATATAGTTTTGAAAACATTTTCAAAA
* **** *
6007683 ATATATATA-ATATATAATTTTGGAATTTTTTTTGAAATA
1 ATATATATATATATATAGTTTT-GAAAACATTTTCAAA-A
* *
6007722 TATATATATAATAATATATAGTTTTGGAAACATTTTCGAAA
1 -ATATATAT-AT-ATATATAGTTTTGAAAACATTTTCAAAA
* * *
6007763 ATAT-TATACATAATATAGTTTTGAAAATATTTTTCGAAA
1 ATATATATATAT-ATATAGTTTTGAAAACA-TTTTCAAAA
* **
6007802 ATATATATAT-TATATAGTTTT-AAAACGTTTT-TGAA
1 ATATATATATATATATAGTTTTGAAAACATTTTCAAAA
* *
6007837 ATATATA-AAATATATAGTTTTAAAAA
1 ATATATATATATATATAGTTTTGAAAA
6007863 TATGATTTAT
Statistics
Matches: 199, Mismatches: 22, Indels: 53
0.73 0.08 0.19
Matches are distributed among these distances:
27 11 0.06
28 2 0.01
29 8 0.04
33 2 0.01
34 1 0.01
35 20 0.10
36 8 0.04
37 31 0.16
38 40 0.20
39 39 0.20
40 16 0.08
41 2 0.01
42 8 0.04
43 11 0.06
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (38 bp):
ATATATATATATATATAGTTTTGAAAACATTTTCAAAA
Found at i:6007686 original size:25 final size:27
Alignment explanation
Indices: 6007646--6007704 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
6007636 TTGAAAACAT
* *
6007646 TTTTGAAAAAATATATATAATATATAG
1 TTTTGAAAATATATATATAATATATAA
6007673 TTTTGAAAATATATATATAATATATAA
1 TTTTGAAAATATATATATAATATATAA
6007700 TTTTG
1 TTTTG
6007705 GAATTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.46
Consensus pattern (27 bp):
TTTTGAAAATATATATATAATATATAA
Found at i:6007721 original size:102 final size:108
Alignment explanation
Indices: 6007517--6007792 Score: 306
Period size: 102 Copynumber: 2.6 Consensus size: 108
6007507 TAGACCTAAC
* * * *
6007517 ATATATAATATATAGTTTTGAAAACATTTTTGAATATATATATAT-ATATATA--TAT-ATATAT
1 ATATATAATATATAGTTTTGAAAACATTTTTGAAAAAATATATATAATATATAGTTTTGA-AAAT
*
6007578 ATATATATATATAATATAGTTTTGAAAACATTTTC-AAA-A-AT
65 ATATATATATATAATATAATTTTGAAAACATTTTCAAAATATAT
6007619 ATATATAATATATAGTTTTGAAAACATTTTTGAAAAAATATATATAATATATAGTTTTGAAAATA
1 ATATATAATATATAGTTTTGAAAACATTTTTGAAAAAATATATATAATATATAGTTTTGAAAATA
**** *
6007684 TATATATA-AT-ATATAATTTTGGAATTTTTTTTGAAATATATAT
66 TATATATATATAATATAATTTT-GAAAACATTTTCAAA-ATATAT
* *
6007727 ATATAATAATATATAGTTTTGGAAACATTTTCG--AAAATAT-TATACATAATATAGTTTTGAAA
1 ATAT-ATAATATATAGTTTTGAAAACATTTTTGAAAAAATATATATA-AT-ATATAGTTTTGAAA
6007789 ATAT
63 ATAT
6007793 TTTTCGAAAA
Statistics
Matches: 150, Mismatches: 12, Indels: 18
0.83 0.07 0.10
Matches are distributed among these distances:
102 43 0.29
103 16 0.11
104 9 0.06
105 16 0.11
106 6 0.04
107 10 0.07
108 24 0.16
109 26 0.17
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.45
Consensus pattern (108 bp):
ATATATAATATATAGTTTTGAAAACATTTTTGAAAAAATATATATAATATATAGTTTTGAAAATA
TATATATATATAATATAATTTTGAAAACATTTTCAAAATATAT
Found at i:6007776 original size:43 final size:43
Alignment explanation
Indices: 6007681--6007777 Score: 108
Period size: 43 Copynumber: 2.3 Consensus size: 43
6007671 AGTTTTGAAA
* *** *
6007681 ATATATAT-ATAATATATAATTTTGGAATTTTTTTTGAAATAT
1 ATATACATAATAATATATAATTTTGGAAACATTTTCGAAATAT
* *
6007723 ATATATATAATAATATATAGTTTTGGAAACATTTTCGAAA-AT
1 ATATACATAATAATATATAATTTTGGAAACATTTTCGAAATAT
6007765 ATTATACATAATA
1 A-TATACATAATA
6007778 TAGTTTTGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
42 11 0.23
43 36 0.77
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.45
Consensus pattern (43 bp):
ATATACATAATAATATATAATTTTGGAAACATTTTCGAAATAT
Found at i:6007916 original size:20 final size:20
Alignment explanation
Indices: 6007880--6007917 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6007870 TATAGTTTAC
*
6007880 TTATTTATTTTTTTATTTGT
1 TTATTTATTTTTCTATTTGT
6007900 TTATTT-TTTATTCTATTT
1 TTATTTATTT-TTCTATTT
6007918 TATTTTTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.79
Consensus pattern (20 bp):
TTATTTATTTTTCTATTTGT
Found at i:6010182 original size:18 final size:18
Alignment explanation
Indices: 6010159--6010203 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
6010149 TAGTTTGATT
*
6010159 AATGAACTAACATTGTTC
1 AATGAACTAACATTATTC
*
6010177 AATGAACTAACTTTATTC
1 AATGAACTAACATTATTC
6010195 AATGAACTA
1 AATGAACTA
6010204 GATGCATGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (18 bp):
AATGAACTAACATTATTC
Found at i:6013228 original size:45 final size:45
Alignment explanation
Indices: 6013164--6013257 Score: 188
Period size: 45 Copynumber: 2.1 Consensus size: 45
6013154 CAACTTGAGG
6013164 AGAACATGTTAAGGTTGTAAAGGGAGCTGGAGGAGAAAATAAGTC
1 AGAACATGTTAAGGTTGTAAAGGGAGCTGGAGGAGAAAATAAGTC
6013209 AGAACATGTTAAGGTTGTAAAGGGAGCTGGAGGAGAAAATAAGTC
1 AGAACATGTTAAGGTTGTAAAGGGAGCTGGAGGAGAAAATAAGTC
6013254 AGAA
1 AGAA
6013258 TAATCAAAAC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.41, C:0.06, G:0.33, T:0.19
Consensus pattern (45 bp):
AGAACATGTTAAGGTTGTAAAGGGAGCTGGAGGAGAAAATAAGTC
Found at i:6018633 original size:17 final size:16
Alignment explanation
Indices: 6018584--6018635 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
6018574 AACGTGCAAA
6018584 AAGAAAGAAAGTAAAAG
1 AAGAAAGAAAG-AAAAG
* * *
6018601 AAAAAACAAAACAAAAG
1 AAGAAA-GAAAGAAAAG
6018618 CAAGAAAGAAAGAAAAG
1 -AAGAAAGAAAGAAAAG
6018635 A
1 A
6018636 GAAGCAAAGT
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
16 1 0.04
17 18 0.67
18 8 0.30
ACGTcount: A:0.75, C:0.06, G:0.17, T:0.02
Consensus pattern (16 bp):
AAGAAAGAAAGAAAAG
Found at i:6018640 original size:22 final size:21
Alignment explanation
Indices: 6018598--6018642 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
6018588 AAGAAAGTAA
6018598 AAGAAAAAACAAAACAAAAGC
1 AAGAAAAAACAAAACAAAAGC
* * *
6018619 AAGAAAGAAAGAAAAGAGAAGC
1 AAGAAA-AAACAAAACAAAAGC
6018641 AA
1 AA
6018643 AGTTAAAACC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.73, C:0.09, G:0.18, T:0.00
Consensus pattern (21 bp):
AAGAAAAAACAAAACAAAAGC
Found at i:6019550 original size:21 final size:21
Alignment explanation
Indices: 6019526--6019573 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
6019516 CTTTATCATC
6019526 ACACCAAGTTCTTCAAGATCA
1 ACACCAAGTTCTTCAAGATCA
6019547 ACACCAAGTTCTTCAAGATCA
1 ACACCAAGTTCTTCAAGATCA
6019568 ACACCA
1 ACACCA
6019574 TCTAAAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.40, C:0.31, G:0.08, T:0.21
Consensus pattern (21 bp):
ACACCAAGTTCTTCAAGATCA
Found at i:6023426 original size:2 final size:2
Alignment explanation
Indices: 6023419--6023445 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6023409 ACATTTTTGA
6023419 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
6023446 GTTTTGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6023510 original size:39 final size:39
Alignment explanation
Indices: 6023427--6023698 Score: 259
Period size: 39 Copynumber: 6.7 Consensus size: 39
6023417 GAATATATAT
6023427 ATATATATATATATATATAGTTTTGAAAACATTTTC-AAA
1 ATATATATATA-ATATATAGTTTTGAAAACATTTTCAAAA
6023466 A-ATATATATAATATATAGTTTTGAAAACATTTTCAAAA
1 ATATATATATAATATATAGTTTTGAAAACATTTTCAAAA
*
6023504 ATATATATATAATATATAGTTTTGGAAACATTTTCGAAAACATA
1 ATATATATATAATATATAGTTTTGAAAACATTTTC---AA-A-A
*
6023548 TATATATATATATATAATATGTAGTTTTGGAAACATTTTCAAAA
1 -ATATATATATA-AT-ATA--TAGTTTTGAAAACATTTTCAAAA
* * *
6023592 ATATATATA-CATAATATAGTTTTGAAAACATTTTTCGAAT
1 ATATATATATAAT-ATATAGTTTTGAAAACA-TTTTCAAAA
* * * **
6023632 ATATATATATATATATATAATATATTTAAAACGTTTT--TGA
1 ATATATATATA-ATATATAGT-T-TTGAAAACATTTTCAAAA
*
6023672 A-ATATATATAATATATAGTTTTAAAAA
1 ATATATATATAATATATAGTTTTGAAAA
6023699 ATGATTTATA
Statistics
Matches: 202, Mismatches: 14, Indels: 37
0.80 0.06 0.15
Matches are distributed among these distances:
36 6 0.03
37 25 0.12
38 21 0.10
39 55 0.27
40 17 0.08
41 12 0.06
42 9 0.04
43 17 0.08
44 2 0.01
45 12 0.06
46 4 0.02
47 3 0.01
49 19 0.09
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (39 bp):
ATATATATATAATATATAGTTTTGAAAACATTTTCAAAA
Found at i:6023567 original size:88 final size:86
Alignment explanation
Indices: 6023386--6023656 Score: 311
Period size: 88 Copynumber: 3.2 Consensus size: 86
6023376 TATACATAAC
** * * * *
6023386 ATATATAATATATAGTTTTGGAAACATTTTTGAATATATATATATATATATA-TATAT-ATA-GT
1 ATATATAATATATAGTTTTGGAAACATTTTCAAAAATATATATATATATATAGT-TTTGAAACAT
* ** * *
6023448 TTT-GAAAACATTTTCAAAAAT
65 TTTCGAAAACATATATATATAT
*
6023469 ATATATAATATATAGTTTTGAAAACATTTTCAAAAATATATATATAATATATAGTTTTGGAAACA
1 ATATATAATATATAGTTTTGGAAACATTTTCAAAAATATATATAT-ATATATAGTTTT-GAAACA
6023534 TTTTCGAAAACATATATATATAT
64 TTTTCGAAAACATATATATATAT
* *
6023557 ATATATAATATGTAGTTTTGGAAACATTTTCAAAAATATATATACATAATATAGTTTTGAAAACA
1 ATATATAATATATAGTTTTGGAAACATTTTCAAAAATATATATATAT-ATATAGTTTTG-AAACA
*
6023622 TTTTTCG--AATATATATATATAT
64 -TTTTCGAAAACATATATATATAT
6023644 ATATATAATATAT
1 ATATATAATATAT
6023657 TTAAAACGTT
Statistics
Matches: 162, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
83 41 0.25
84 9 0.06
85 1 0.01
86 2 0.01
87 33 0.20
88 70 0.43
89 6 0.04
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (86 bp):
ATATATAATATATAGTTTTGGAAACATTTTCAAAAATATATATATATATATAGTTTTGAAACATT
TTCGAAAACATATATATATAT
Found at i:6023688 original size:88 final size:81
Alignment explanation
Indices: 6023425--6023686 Score: 266
Period size: 88 Copynumber: 3.1 Consensus size: 81
6023415 TTGAATATAT
* *
6023425 ATATATATATATATATATATAGTTTTGAAAACATTTTC-AAAAATATATATA-ATATATAGT-T-
1 ATATATATATA-ATA-ATATAGTTTTGAAAACATTTTCGAAATATATATATATATATATAATATA
* *
6023486 TTGAAAACATTTTCAAAA
64 TTTAAAACATTTTGAAAA
*
6023504 ATATATATATAAT-ATATAGTTTTGGAAACATTTTCGAAAACATATATATATATATATATAATAT
1 ATATATATATAATAATATAGTTTTGAAAACATTTTCG--AA-ATATATATATATATATATAATA-
* *
6023568 GTAGTTTTGGAAACATTTTCAAAA
62 -TA--TTT-AAAACATTTTGAAAA
*
6023592 ATATATATA-CATAATATAGTTTTGAAAACATTTTTCGAATATATATATATATATATATAATATA
1 ATATATATATAATAATATAGTTTTGAAAACA-TTTTCGAA-ATATATATATATATATATAATATA
* *
6023656 TTTAAAACGTTTTTGAAAT
64 TTTAAAAC-ATTTTGAAAA
6023675 ATATATAATATA
1 ATATAT-ATATA
6023687 TAGTTTTAAA
Statistics
Matches: 153, Mismatches: 13, Indels: 28
0.79 0.07 0.14
Matches are distributed among these distances:
76 21 0.14
78 2 0.01
79 13 0.08
80 10 0.07
81 8 0.05
82 4 0.03
83 16 0.10
84 4 0.03
85 2 0.01
87 28 0.18
88 39 0.25
89 6 0.04
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.42
Consensus pattern (81 bp):
ATATATATATAATAATATAGTTTTGAAAACATTTTCGAAATATATATATATATATATAATATATT
TAAAACATTTTGAAAA
Found at i:6023739 original size:8 final size:7
Alignment explanation
Indices: 6023722--6023778 Score: 55
Period size: 7 Copynumber: 8.0 Consensus size: 7
6023712 TACTTATTTC
6023722 TTTTTTA
1 TTTTTTA
6023729 TTTTATTA
1 TTTT-TTA
6023737 TTTCTTTA
1 TTT-TTTA
6023745 -TTTTTA
1 TTTTTTA
6023751 TTTGTTTA
1 TTT-TTTA
*
6023759 -TTTTTC
1 TTTTTTA
*
6023765 TCTTTTA
1 TTTTTTA
6023772 TTTTTTA
1 TTTTTTA
6023779 AGTTCGAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
6 7 0.17
7 20 0.49
8 13 0.32
9 1 0.02
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.79
Consensus pattern (7 bp):
TTTTTTA
Found at i:6024247 original size:17 final size:18
Alignment explanation
Indices: 6024222--6024257 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
6024212 ATACCAAACT
*
6024222 ACCACAGCAACCAAAGCA
1 ACCACAGCAAACAAAGCA
6024240 ACCA-AGCAAACAAAGCA
1 ACCACAGCAAACAAAGCA
6024257 A
1 A
6024258 AAACAAGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.56, C:0.33, G:0.11, T:0.00
Consensus pattern (18 bp):
ACCACAGCAAACAAAGCA
Found at i:6025090 original size:18 final size:18
Alignment explanation
Indices: 6025055--6025095 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
6025045 TTATTTATTT
*
6025055 TTTTATTATTATTTTTTC
1 TTTTATTATTATTCTTTC
6025073 ATTTT-TTATTATTCTTTC
1 -TTTTATTATTATTCTTTC
6025091 TTTTA
1 TTTTA
6025096 ACTTGATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 4 0.20
18 12 0.60
19 4 0.20
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTATTATTATTCTTTC
Found at i:6025121 original size:23 final size:26
Alignment explanation
Indices: 6025076--6025122 Score: 64
Period size: 23 Copynumber: 1.9 Consensus size: 26
6025066 TTTTTTCATT
*
6025076 TTTTATTATTCTTTCTTTTAACTTGA
1 TTTTATTATTCTTTCTTTAAACTTGA
6025102 TTTTATT-TT-TTTC-TTAAACTT
1 TTTTATTATTCTTTCTTTAAACTT
6025123 TTTTTTTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 7 0.35
24 4 0.20
25 2 0.10
26 7 0.35
ACGTcount: A:0.19, C:0.11, G:0.02, T:0.68
Consensus pattern (26 bp):
TTTTATTATTCTTTCTTTAAACTTGA
Found at i:6025128 original size:23 final size:26
Alignment explanation
Indices: 6025074--6025128 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 26
6025064 TATTTTTTCA
*
6025074 TTTTTTATTATTCTTTCTTTTAACTT
1 TTTTTTATTATTCTTTCTTTAAACTT
**
6025100 GATTTTATT-TT-TTTC-TTAAACTT
1 TTTTTTATTATTCTTTCTTTAAACTT
6025123 TTTTTT
1 TTTTTT
6025129 TTCCTTTTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
23 11 0.46
24 4 0.17
25 2 0.08
26 7 0.29
ACGTcount: A:0.16, C:0.09, G:0.02, T:0.73
Consensus pattern (26 bp):
TTTTTTATTATTCTTTCTTTAAACTT
Found at i:6026750 original size:184 final size:183
Alignment explanation
Indices: 6026409--6026778 Score: 553
Period size: 184 Copynumber: 2.0 Consensus size: 183
6026399 ATTAAATTTT
* * * * *
6026409 AAATTTTAAATATATTATATATAACATATCTGTTCAGCCCAAACCATTTAAAACCCAATTAATAA
1 AAATATTAAAAATATTATATATAACATATCGGCTAAGCCCAAACCATTTAAAACCCAATTAATAA
* *
6026474 TTTAAGATCTAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
66 TTTAAGATCAAATAACTTTTAAACATAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
* * *
6026539 TTATTTTATAATTATATATTATTTAAATTAATTGTAAACTGTTTTTTTTATTAA
131 TTATTTTATAATTATATATTATTTAAATTAATTATAAACT-TCTTTTTAATTAA
* * * *
6026593 AAATATTAAAAATATTATATATAACATATGGGCTAAGCTCAAACTATTTAAAACTCAATTAATAA
1 AAATATTAAAAATATTATATATAACATATCGGCTAAGCCCAAACCATTTAAAACCCAATTAATAA
* * * *
6026658 TTTAAGATCAAATAACTTTTAAACATAAATTAATATTAATTAATT-AAAAAATTATCTGAATTTT
66 TTTAAGATCAAATAACTTTTAAACATAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
6026722 TTATTTTATAATTATATATTATTTTAAATTAATTATAAACTTCTTTTTAATTAA
131 TTATTTTATAATTATATATTA-TTTAAATTAATTATAAACTTCTTTTTAATTAA
6026776 AAA
1 AAA
6026779 AACATTTAAT
Statistics
Matches: 167, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
183 51 0.31
184 116 0.69
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (183 bp):
AAATATTAAAAATATTATATATAACATATCGGCTAAGCCCAAACCATTTAAAACCCAATTAATAA
TTTAAGATCAAATAACTTTTAAACATAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
TTATTTTATAATTATATATTATTTAAATTAATTATAAACTTCTTTTTAATTAA
Found at i:6026773 original size:22 final size:21
Alignment explanation
Indices: 6026730--6026775 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
6026720 TTTTATTTTA
*
6026730 TAATTATATATTATTTTAAAT
1 TAATTATAAATTATTTTAAAT
* *
6026751 TAATTATAAACTTCTTTTTAAT
1 TAATTATAAA-TTATTTTAAAT
6026773 TAA
1 TAA
6026776 AAAAACATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.54
Consensus pattern (21 bp):
TAATTATAAATTATTTTAAAT
Found at i:6026915 original size:29 final size:29
Alignment explanation
Indices: 6026859--6026917 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
6026849 ACCGAAATTT
* **
6026859 ATTCGGTTCGGTTAATATGTTCGAAAAAA
1 ATTCGGTTCGATTAATATGTTAAAAAAAA
6026888 ATTCGGTTCGATTAATA-GTTAAAGAAAAA
1 ATTCGGTTCGATTAATATGTTAAA-AAAAA
6026917 A
1 A
6026918 AAATTTAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 4 0.15
29 22 0.85
ACGTcount: A:0.41, C:0.08, G:0.19, T:0.32
Consensus pattern (29 bp):
ATTCGGTTCGATTAATATGTTAAAAAAAA
Found at i:6028045 original size:12 final size:12
Alignment explanation
Indices: 6028006--6028049 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 12
6027996 TTTACAATTG
6028006 AATTTAAATAAA
1 AATTTAAATAAA
*
6028018 AATTTGAATTAAA
1 AATTT-AAATAAA
6028031 AATTTCAAAT-AA
1 AATTT-AAATAAA
6028043 AATTTAA
1 AATTTAA
6028050 GTTATGAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 2 0.07
12 12 0.43
13 14 0.50
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (12 bp):
AATTTAAATAAA
Found at i:6029026 original size:73 final size:73
Alignment explanation
Indices: 6028930--6029065 Score: 247
Period size: 73 Copynumber: 1.9 Consensus size: 73
6028920 TTTACTCTTT
6028930 TTTTTTTAATGTAGTTTGTAACTTTATATTTTATTAAATTTGTTCCACTAACTACAACTCTTTAA
1 TTTTTTTAATGTAGTTTGTAACTTTATATTTTATTAAATTTGTTCCACTAACTACAACTCTTTAA
6028995 ATTTAATC
66 ATTTAATC
*
6029003 TTTTTTTAATGTAGTTCT-TAACTTTATATTTTATTAAATTTGTTCCACTAACTACGACTCTTT
1 TTTTTTTAATGTAGTT-TGTAACTTTATATTTTATTAAATTTGTTCCACTAACTACAACTCTTT
6029066 GTAAATTTCC
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
73 60 0.98
74 1 0.02
ACGTcount: A:0.28, C:0.13, G:0.06, T:0.53
Consensus pattern (73 bp):
TTTTTTTAATGTAGTTTGTAACTTTATATTTTATTAAATTTGTTCCACTAACTACAACTCTTTAA
ATTTAATC
Found at i:6029337 original size:17 final size:17
Alignment explanation
Indices: 6029294--6029340 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 17
6029284 AATCAAGTAG
*
6029294 TTTTTAAATATAT-A-T
1 TTTTTAAATATTTAATT
*
6029309 TTTATAAA-ATTTAATT
1 TTTTTAAATATTTAATT
6029325 TTTTTAAATATTTAAT
1 TTTTTAAATATTTAAT
6029341 ATAATAATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 3 0.12
15 8 0.31
16 8 0.31
17 7 0.27
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTTAAATATTTAATT
Found at i:6031259 original size:19 final size:19
Alignment explanation
Indices: 6031232--6031270 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
6031222 AATCTGTTAT
*
6031232 GGTTGCTGAAAATGTTAGG
1 GGTTACTGAAAATGTTAGG
*
6031251 GGTTACTGAAACTGTTAGG
1 GGTTACTGAAAATGTTAGG
6031270 G
1 G
6031271 ATGATGAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.08, G:0.36, T:0.31
Consensus pattern (19 bp):
GGTTACTGAAAATGTTAGG
Found at i:6031279 original size:37 final size:36
Alignment explanation
Indices: 6031183--6031287 Score: 106
Period size: 37 Copynumber: 2.9 Consensus size: 36
6031173 ACTGACTTGG
*
6031183 CTGAAACTGTTAGGGTGCATGAAAATGTAAGGGTGGT
1 CTGAAACTGTTAGGGTG-ATGAAAATGTTAGGGTGGT
* * * *
6031220 -TGAATCTGTTATGGTTGCTGAAAATGTTAGGG-GTT
1 CTGAAACTGTTA-GGGTGATGAAAATGTTAGGGTGGT
*
6031255 ACTGAAACTGTTAGGGATGATGAAACTGTTAGG
1 -CTGAAACTGTTAGGG-TGATGAAAATGTTAGG
6031288 ATTGATCAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
35 2 0.04
36 25 0.45
37 28 0.51
ACGTcount: A:0.29, C:0.08, G:0.32, T:0.31
Consensus pattern (36 bp):
CTGAAACTGTTAGGGTGATGAAAATGTTAGGGTGGT
Found at i:6031280 original size:18 final size:17
Alignment explanation
Indices: 6031184--6031317 Score: 88
Period size: 18 Copynumber: 7.4 Consensus size: 17
6031174 CTGACTTGGC
6031184 TGAAACTGTTAGGGTGCA
1 TGAAACTGTTAGGGTG-A
* * *
6031202 TGAAAATGTAAGGGTGGT
1 TGAAACTGTTAGGGT-GA
* * *
6031220 TGAATCTGTTATGGTTGC
1 TGAAACTGTTA-GGGTGA
* *
6031238 TGAAAATGTTAGGGGTTA
1 TGAAACTGTTA-GGGTGA
6031256 CTGAAACTGTTAGGGATGA
1 -TGAAACTGTTAGGG-TGA
*
6031275 TGAAACTGTTAGGATTGA
1 TGAAACTGTTAGG-GTGA
* *
6031293 TCAAACTATTAGGGTTGA
1 TGAAACTGTTAGGG-TGA
*
6031311 TAAAACT
1 TGAAACT
6031318 TTTTTGACTG
Statistics
Matches: 89, Mismatches: 21, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
18 73 0.82
19 16 0.18
ACGTcount: A:0.31, C:0.07, G:0.29, T:0.32
Consensus pattern (17 bp):
TGAAACTGTTAGGGTGA
Found at i:6031422 original size:21 final size:20
Alignment explanation
Indices: 6031388--6031428 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
6031378 GACAATTTGT
6031388 TTGAGGATAGTGAGAATGAC
1 TTGAGGATAGTGAGAATGAC
* *
6031408 TTGAGTGATGGTGAGGATGAC
1 TTGAG-GATAGTGAGAATGAC
6031429 ATATGTGATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.29, C:0.05, G:0.39, T:0.27
Consensus pattern (20 bp):
TTGAGGATAGTGAGAATGAC
Found at i:6035786 original size:16 final size:16
Alignment explanation
Indices: 6035765--6035803 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
6035755 GTTCTAAAAG
*
6035765 CTAAAAGCTTTTGCAA
1 CTAAAAGCTATTGCAA
6035781 CTAAAAGCTATTGCAA
1 CTAAAAGCTATTGCAA
*
6035797 CAAAAAG
1 CTAAAAG
6035804 AACTTATCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (16 bp):
CTAAAAGCTATTGCAA
Found at i:6036004 original size:16 final size:16
Alignment explanation
Indices: 6035983--6036021 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
6035973 TTTCTAAAAG
*
6035983 CTAAAAGCTTTTGCAA
1 CTAAAAGCTATTGCAA
6035999 CTAAAAGCTATTGCAA
1 CTAAAAGCTATTGCAA
*
6036015 CAAAAAG
1 CTAAAAG
6036022 AACTTATCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (16 bp):
CTAAAAGCTATTGCAA
Found at i:6036039 original size:113 final size:112
Alignment explanation
Indices: 6035701--6036081 Score: 688
Period size: 113 Copynumber: 3.5 Consensus size: 112
6035691 CAGTAAAATC
6035701 ATAGGACGTAAAAACAGTTCATTCATTTAAGCAACAAAAAAACAACTTGTTTATG-TTCTAAAAG
1 ATAGGACGTAAAAACAGTTCATTCATTTAAGCAAC-AAAAAACAACTTGTTTATGTTTCTAAAAG
6035765 CTAAAAGCTTTTGCAACTAAAAGCTATTGCAACAAAAAGAACTTATCT
65 CTAAAAGCTTTTGCAACTAAAAGCTATTGCAACAAAAAGAACTTATCT
6035813 ATAGG-CGTAAAAACAGTTCA-TCATTTAAGCAAC-AAAAACAACTTGTTTATGTTTCT-AAAGC
1 ATAGGACGTAAAAACAGTTCATTCATTTAAGCAACAAAAAACAACTTGTTTATGTTTCTAAAAGC
6035874 TAAAAGC-TTTGCAACT-AAAGCTATTGC-ACAAAAAGAACTTATCT
66 TAAAAGCTTTTGCAACTAAAAGCTATTGCAACAAAAAGAACTTATCT
6035918 ATAGGACGTAAAAACAGTTCATTCATTTAAGCAACAAAAAAACAACTTGTTTATGTTTCTAAAAG
1 ATAGGACGTAAAAACAGTTCATTCATTTAAGCAAC-AAAAAACAACTTGTTTATGTTTCTAAAAG
6035983 CTAAAAGCTTTTGCAACTAAAAGCTATTGCAACAAAAAGAACTTATCT
65 CTAAAAGCTTTTGCAACTAAAAGCTATTGCAACAAAAAGAACTTATCT
6036031 ATAGGACGTAAAAACAGTTCATTCATTTAAGCAACAAAAAACAACTTGTTT
1 ATAGGACGTAAAAACAGTTCATTCATTTAAGCAACAAAAAACAACTTGTTT
6036082 TAGTACACAT
Statistics
Matches: 260, Mismatches: 0, Indels: 18
0.94 0.00 0.06
Matches are distributed among these distances:
105 22 0.08
106 26 0.10
107 22 0.08
108 30 0.12
109 27 0.10
110 25 0.10
111 24 0.09
112 32 0.12
113 52 0.20
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (112 bp):
ATAGGACGTAAAAACAGTTCATTCATTTAAGCAACAAAAAACAACTTGTTTATGTTTCTAAAAGC
TAAAAGCTTTTGCAACTAAAAGCTATTGCAACAAAAAGAACTTATCT
Found at i:6036362 original size:19 final size:20
Alignment explanation
Indices: 6036335--6036376 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
6036325 TTATTAAACA
6036335 CATCAGATCGCATCAG-CTG
1 CATCAGATCGCATCAGACTG
*
6036354 CATCGGATCGCATCAGACTG
1 CATCAGATCGCATCAGACTG
6036374 CAT
1 CAT
6036377 TATGTACCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.21
Consensus pattern (20 bp):
CATCAGATCGCATCAGACTG
Found at i:6037074 original size:20 final size:20
Alignment explanation
Indices: 6037039--6037089 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
6037029 GCAATATGCA
**
6037039 TGTGTTAATTATAATCAGAC-
1 TGTGTTAATTGGAATCAG-CT
*
6037059 TGTGTTAATTGGAATCTGCT
1 TGTGTTAATTGGAATCAGCT
6037079 TGTGTTAATTG
1 TGTGTTAATTG
6037090 ATTGAATGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.25, C:0.08, G:0.22, T:0.45
Consensus pattern (20 bp):
TGTGTTAATTGGAATCAGCT
Found at i:6038992 original size:19 final size:19
Alignment explanation
Indices: 6038964--6039032 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 19
6038954 TACTGTTCAT
*
6038964 AGTTTCGAAACTT-TGTAAG
1 AGTTTTGAAACTTCT-TAAG
6038983 AGTTTTGAAACTTCCATTAAG
1 AGTTTTGAAACTT-C-TTAAG
* *
6039004 AGTTTTGAAACTTCATAAA
1 AGTTTTGAAACTTCTTAAG
*
6039023 AGTTTCGAAA
1 AGTTTTGAAA
6039033 ATTTTCTTGT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
19 24 0.56
20 1 0.02
21 17 0.40
22 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (19 bp):
AGTTTTGAAACTTCTTAAG
Found at i:6045178 original size:11 final size:11
Alignment explanation
Indices: 6045148--6045184 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
6045138 TTTTAGTTAA
*
6045148 TTAAAATATGT
1 TTAAAATGTGT
6045159 TT-AAA-GTGT
1 TTAAAATGTGT
6045168 TTAAAATGTGT
1 TTAAAATGTGT
6045179 TTAAAA
1 TTAAAA
6045185 CTTTTTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
9 5 0.22
10 6 0.26
11 12 0.52
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (11 bp):
TTAAAATGTGT
Found at i:6045931 original size:23 final size:23
Alignment explanation
Indices: 6045908--6045973 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 23
6045898 TGCCACATAG
6045908 ATTTGTCCTGAAGGACCAAGTAGA
1 ATTTGTCCTGAA-GACCAAGTAGA
* *
6045932 ATTTGTTCCT-AAAACCCATGTAGA
1 ATTTG-TCCTGAAGA-CCAAGTAGA
6045956 ATTTGTCCTGAAAGACCA
1 ATTTGTCCTG-AAGACCA
6045974 CGTATAACTC
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
23 5 0.14
24 23 0.66
25 7 0.20
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (23 bp):
ATTTGTCCTGAAGACCAAGTAGA
Found at i:6046103 original size:15 final size:15
Alignment explanation
Indices: 6046083--6046152 Score: 59
Period size: 15 Copynumber: 4.6 Consensus size: 15
6046073 AGTATTATTT
*
6046083 ATTCACATAGAACTC
1 ATTCACATAGAACAC
* *
6046098 ATTCACGTAGCACAC
1 ATTCACATAGAACAC
* * *
6046113 ATTCGCTTAGAACAT
1 ATTCACATAGAACAC
* *
6046128 TTTCCACGTAGAACAC
1 ATT-CACATAGAACAC
6046144 ATTCACATA
1 ATTCACATA
6046153 TCTCATATTC
Statistics
Matches: 41, Mismatches: 13, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
15 30 0.73
16 11 0.27
ACGTcount: A:0.36, C:0.27, G:0.10, T:0.27
Consensus pattern (15 bp):
ATTCACATAGAACAC
Found at i:6046699 original size:21 final size:20
Alignment explanation
Indices: 6046632--6046683 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
6046622 TTTTCAATTA
*
6046632 CAGTATCGATACCT-TACTTT
1 CAGTATCGATACCTCTAC-AT
**
6046652 TGGTATCGATACCTCTACAT
1 CAGTATCGATACCTCTACAT
6046672 CAGTATCGATAC
1 CAGTATCGATAC
6046684 TACTTCAATC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 23 0.88
21 3 0.12
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (20 bp):
CAGTATCGATACCTCTACAT
Found at i:6050578 original size:179 final size:180
Alignment explanation
Indices: 6050278--6050636 Score: 711
Period size: 179 Copynumber: 2.0 Consensus size: 180
6050268 ATTGGTGTTG
6050278 TTCCCGGCATAACCTCAATTTAAAACTCAACCTCTCTATTTAGAGGTAATCCCGGTAACTGAGCT
1 TTCCCGGCATAACCTCAATTTAAAACTCAACCTCTCTATTTAGAGGTAATCCCGGTAACTGAGCT
6050343 GTAAATACACCTGGAAATTCTTGGACCATCGGAATATCCTCCAGTCTCCTCTCCTTGGCTCGAGT
66 GTAAATACACCTGGAAATTCTTGGACCATCGGAATATCCTCCAGTCTCCTCTCCTTGGCTCGAGT
6050408 ATCGATCACACTGGCGATGAAAGATTA-ATCCTTATAACATTAGCTTCTT
131 ATCGATCACACTGGCGATGAAAGATTACATCCTTATAACATTAGCTTCTT
6050457 TTCCCGGCATAACCTCAATTTAAAACTCAACCTCTCTATTTAGAGGTAATCCCGGTAACTGAGCT
1 TTCCCGGCATAACCTCAATTTAAAACTCAACCTCTCTATTTAGAGGTAATCCCGGTAACTGAGCT
6050522 GTAAATACACCTGGAAATTCTTGGACCATCGGAATATCCTCCAGTCTCCTCTCCTTGGCTCGAGT
66 GTAAATACACCTGGAAATTCTTGGACCATCGGAATATCCTCCAGTCTCCTCTCCTTGGCTCGAGT
6050587 ATCGATCACACTGGCGATGAAAGATTACATCCTTATAACATTAGCTTCTT
131 ATCGATCACACTGGCGATGAAAGATTACATCCTTATAACATTAGCTTCTT
6050637 AGCCGACATA
Statistics
Matches: 179, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
179 157 0.88
180 22 0.12
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (180 bp):
TTCCCGGCATAACCTCAATTTAAAACTCAACCTCTCTATTTAGAGGTAATCCCGGTAACTGAGCT
GTAAATACACCTGGAAATTCTTGGACCATCGGAATATCCTCCAGTCTCCTCTCCTTGGCTCGAGT
ATCGATCACACTGGCGATGAAAGATTACATCCTTATAACATTAGCTTCTT
Found at i:6053063 original size:24 final size:24
Alignment explanation
Indices: 6053018--6053066 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
6053008 TGCCACACAG
*
6053018 ATTTGTCCCGAAAGACTACGTAGA
1 ATTTGTCCCGAAAGACCACGTAGA
* * *
6053042 ATTTGTTCCGAATGACCGCGTAGA
1 ATTTGTCCCGAAAGACCACGTAGA
6053066 A
1 A
6053067 CCCTCGACTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (24 bp):
ATTTGTCCCGAAAGACCACGTAGA
Found at i:6053238 original size:15 final size:15
Alignment explanation
Indices: 6053169--6053238 Score: 68
Period size: 15 Copynumber: 4.6 Consensus size: 15
6053159 AGTATTATTT
*
6053169 ATTCACATAGAACTC
1 ATTCACATAGAACAC
* * **
6053184 ATTAACTTAGCGCAC
1 ATTCACATAGAACAC
*
6053199 ATTCGCATAGAACAC
1 ATTCACATAGAACAC
*
6053214 TTTCCACATAGAACAC
1 ATT-CACATAGAACAC
6053230 ATTCACATA
1 ATTCACATA
6053239 TCTCATATTC
Statistics
Matches: 41, Mismatches: 13, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
15 28 0.68
16 13 0.32
ACGTcount: A:0.39, C:0.27, G:0.09, T:0.26
Consensus pattern (15 bp):
ATTCACATAGAACAC
Found at i:6054737 original size:20 final size:20
Alignment explanation
Indices: 6054714--6054767 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
6054704 AAGAGTTTAG
*
6054714 AAACTTTCATCAAAGTTTCA
1 AAACTTTCATCAAAGATTCA
* *
6054734 AAACTTTTATCAAAGATTCG
1 AAACTTTCATCAAAGATTCA
*
6054754 AAACTTTCTTCAAA
1 AAACTTTCATCAAA
6054768 TTTTTTAAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.35
Consensus pattern (20 bp):
AAACTTTCATCAAAGATTCA
Found at i:6055550 original size:62 final size:63
Alignment explanation
Indices: 6055476--6055610 Score: 186
Period size: 66 Copynumber: 2.1 Consensus size: 63
6055466 CAAAATGCAT
*
6055476 AATA-CTTAACATTTCATTCATAATAC-T-TAATATCCTTAACAAAAATATCAATGGATAAGCA
1 AATACCTTAACATTTCATTCATAATACTTATAATATCCTTAAC-AAAATATCAATGGATAAACA
* *
6055537 ACTACCTTAACATTTCATTGATAATACTTAACATAATATCCTTAACAAAATATCAATGGATAAAC
1 AATACCTTAACATTTCATTCATAATACTT---ATAATATCCTTAACAAAATATCAATGGATAAAC
6055602 A
63 A
6055603 AATACCTT
1 AATACCTT
6055611 TGATTATGTT
Statistics
Matches: 64, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
61 3 0.05
62 21 0.33
63 1 0.02
66 26 0.41
67 13 0.20
ACGTcount: A:0.45, C:0.18, G:0.04, T:0.33
Consensus pattern (63 bp):
AATACCTTAACATTTCATTCATAATACTTATAATATCCTTAACAAAATATCAATGGATAAACA
Found at i:6059462 original size:21 final size:21
Alignment explanation
Indices: 6059438--6059477 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
6059428 AAATGCCTAG
6059438 TATAGAGG-GTATCAATACTCC
1 TATA-AGGAGTATCAATACTCC
6059459 TATAAGGAGTATCAATACT
1 TATAAGGAGTATCAATACT
6059478 ACCTTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (21 bp):
TATAAGGAGTATCAATACTCC
Found at i:6059554 original size:20 final size:20
Alignment explanation
Indices: 6059529--6059577 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
6059519 TGGGCCTGAC
6059529 GGTATCGATTCTAAGCCTAT
1 GGTATCGATTCTAAGCCTAT
6059549 GGTATCGATTCTAAGCCTAT
1 GGTATCGATTCTAAGCCTAT
6059569 GGTATCGAT
1 GGTATCGAT
6059578 ACTGCTATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (20 bp):
GGTATCGATTCTAAGCCTAT
Found at i:6060716 original size:31 final size:31
Alignment explanation
Indices: 6060675--6060734 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
6060665 GAATAAAATA
* * *
6060675 AGAGAGAATAAATTAGAGTGAGCAAAATAGG
1 AGAGAAAATAAAATAGAGAGAGCAAAATAGG
6060706 AGAGAAAATAAAATAGAGAGAGCAAAATA
1 AGAGAAAATAAAATAGAGAGAGCAAAATA
6060735 TGTGTGTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.58, C:0.03, G:0.25, T:0.13
Consensus pattern (31 bp):
AGAGAAAATAAAATAGAGAGAGCAAAATAGG
Found at i:6065643 original size:2 final size:2
Alignment explanation
Indices: 6065638--6065717 Score: 153
Period size: 2 Copynumber: 40.5 Consensus size: 2
6065628 ATTAGTTAAG
6065638 AT AT AT 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 AT AT AT
6065680 AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6065718 GCAATTAAAT
Statistics
Matches: 77, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 76 0.99
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6072795 original size:46 final size:46
Alignment explanation
Indices: 6072703--6072873 Score: 267
Period size: 46 Copynumber: 3.8 Consensus size: 46
6072693 ATAAACTGGC
* ** *
6072703 AAATAAGCTTACGAGCTTATG-GAAT-AATGGCGAGTATATTAGTA
1 AAATAAGCTTACGAGCTTATGAGATTAAATGGTAAGTATATTGGTA
6072747 AAATAAGCTTACGAGCTTATGAGATTAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGAGATTAAATGGTAAGTATATTGGTA
6072793 AAATAAGCTTACGAGCTTATGAGATTAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGAGATTAAATGGTAAGTATATTGGTA
* *
6072839 AAATAAACTTACGAGCTTATGGGA-TAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGAGATTAAATGGTAAG
6072874 AGATTTTATC
Statistics
Matches: 119, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
44 21 0.18
45 14 0.12
46 84 0.71
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (46 bp):
AAATAAGCTTACGAGCTTATGAGATTAAATGGTAAGTATATTGGTA
Found at i:6076359 original size:47 final size:47
Alignment explanation
Indices: 6076290--6076507 Score: 322
Period size: 47 Copynumber: 4.8 Consensus size: 47
6076280 ATAAAATCTT
* * *
6076290 TTACCATTT--ATTTCATAAGCTCGTAAGCTTATTTTACCAAAATAC
1 TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAATATAC
6076335 TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAATATAC
1 TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAATATAC
*
6076382 TTACCATTTAAAATCCATAAGCTCGTAAGCTTATTTTATCAATATAC
1 TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAATATAC
* *
6076429 TTACCATTTAAAATCCATAAGCTCATAAGCTTATTTTATCAATATAC
1 TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAATATAC
* *
6076476 TTGCCA-TT--ATT-CATAAGCTCATAAGCTTATTT
1 TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTT
6076508 GCATGCTTAC
Statistics
Matches: 164, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
43 21 0.13
44 2 0.01
45 9 0.05
46 2 0.01
47 130 0.79
ACGTcount: A:0.34, C:0.19, G:0.06, T:0.40
Consensus pattern (47 bp):
TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAATATAC
Found at i:6076738 original size:61 final size:61
Alignment explanation
Indices: 6076623--6076738 Score: 146
Period size: 61 Copynumber: 1.9 Consensus size: 61
6076613 CTAAACCTGG
* * * *
6076623 ACTAAGCTTACGACATAGTGCTAATCCAGACAATATACATAAGGTCGTGCCCACCACCTAC
1 ACTAAGCTTACGACAGAGTGCTAATCCAGACAATATACAAAAAGTCGTACCCACCACCTAC
* *
6076684 ACTAAGCTTAC-ACTAGAGTGCTAATCCGGAC-ATGATACAAAAAGTCGTATCCACC
1 ACTAAGCTTACGAC-AGAGTGCTAATCCAGACAAT-ATACAAAAAGTCGTACCCACC
6076739 TTTCTTGCAC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
60 4 0.09
61 43 0.91
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.22
Consensus pattern (61 bp):
ACTAAGCTTACGACAGAGTGCTAATCCAGACAATATACAAAAAGTCGTACCCACCACCTAC
Found at i:6080368 original size:2 final size:2
Alignment explanation
Indices: 6080361--6080394 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6080351 CACAAGTGAA
6080361 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
6080395 CATCTCTAAT
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:6080428 original size:6 final size:5
Alignment explanation
Indices: 6080404--6080491 Score: 51
Period size: 5 Copynumber: 17.4 Consensus size: 5
6080394 TCATCTCTAA
* * *
6080404 TTTTT TTTTC TTTTC TTTTC ATTTTC TGTT- TTTTC -TTTC TTTT- TCATT-
1 TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC TTTTC TTTTC TTTTC T-TTTC
*
6080452 TTTTC TATTTT TTTTC -TTTC TTTTTC ATTTTC TATTTC TT
1 TTTTC T-TTTC TTTTC TTTTC -TTTTC -TTTTC T-TTTC TT
6080492 CATTTATGTT
Statistics
Matches: 66, Mismatches: 8, Indels: 18
0.72 0.09 0.20
Matches are distributed among these distances:
4 14 0.21
5 29 0.44
6 23 0.35
ACGTcount: A:0.06, C:0.15, G:0.01, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:6080435 original size:25 final size:26
Alignment explanation
Indices: 6080407--6080488 Score: 105
Period size: 27 Copynumber: 3.1 Consensus size: 26
6080397 TCTCTAATTT
*
6080407 TTTTTTCTTTTC-TTTTCATTTTCTG
1 TTTTTTCTTTTCTTTTTCATTTTCTA
6080432 TTTTTTC-TTTCTTTTTCATTTTTTCTA
1 TTTTTTCTTTTCTTTTTCA--TTTTCTA
*
6080459 TTTTTTTTCTTTCTTTTTCATTTTCTA
1 TTTTTTCT-TTTCTTTTTCATTTTCTA
6080486 TTT
1 TTT
6080489 CTTCATTTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
24 4 0.08
25 13 0.26
27 22 0.44
29 11 0.22
ACGTcount: A:0.06, C:0.15, G:0.01, T:0.78
Consensus pattern (26 bp):
TTTTTTCTTTTCTTTTTCATTTTCTA
Found at i:6080442 original size:19 final size:18
Alignment explanation
Indices: 6080414--6080488 Score: 55
Period size: 19 Copynumber: 4.1 Consensus size: 18
6080404 TTTTTTTTTC
*
6080414 TTTTCTTTTCATTTTCTGTT
1 TTTTC-TTTCATTTTC-ATT
*
6080434 TTTTCTTTCTTTTTCATT
1 TTTTCTTTCATTTTCATT
**
6080452 TTTTCTATTTTTTTTC-TT
1 TTTTCT-TTCATTTTCATT
*
6080470 TCTT-TTTCATTTTCTATT
1 TTTTCTTTCATTTTC-ATT
6080488 T
1 T
6080489 CTTCATTTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
16 7 0.15
17 1 0.02
18 16 0.35
19 17 0.37
20 5 0.11
ACGTcount: A:0.07, C:0.15, G:0.01, T:0.77
Consensus pattern (18 bp):
TTTTCTTTCATTTTCATT
Found at i:6080464 original size:29 final size:27
Alignment explanation
Indices: 6080405--6080482 Score: 99
Period size: 29 Copynumber: 2.9 Consensus size: 27
6080395 CATCTCTAAT
6080405 TTTTTTTTCTTT-TCTTTTCA--TTTTC
1 TTTTTTTTCTTTCT-TTTTCATTTTTTC
*
6080430 TGTTTTTTCTTTCTTTTTCATTTTTTC
1 TTTTTTTTCTTTCTTTTTCATTTTTTC
6080457 TATTTTTTTTCTTTCTTTTTCATTTT
1 --TTTTTTTTCTTTCTTTTTCATTTT
6080483 CTATTTCTTC
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
25 17 0.37
26 1 0.02
27 5 0.11
29 23 0.50
ACGTcount: A:0.05, C:0.14, G:0.01, T:0.79
Consensus pattern (27 bp):
TTTTTTTTCTTTCTTTTTCATTTTTTC
Found at i:6083328 original size:47 final size:47
Alignment explanation
Indices: 6083272--6083428 Score: 243
Period size: 47 Copynumber: 3.4 Consensus size: 47
6083262 CATTTATCCG
*
6083272 ATAAGCTCGTAAGCTTATTTTA-CTAAAATACTTACCATTTAAATTCC
1 ATAAGCTCGTAAGCTTATTTTATC-AATATACTTACCATTTAAATTCC
* *
6083319 ATAAGCTCGTAAGCTTATTTTATCAATATACTTACGATTTAAAATCC
1 ATAAGCTCGTAAGCTTATTTTATCAATATACTTACCATTTAAATTCC
6083366 ATAAGCTCGTAAGCTTATTTTATCAATATACTTACCA-TT--ATT-C
1 ATAAGCTCGTAAGCTTATTTTATCAATATACTTACCATTTAAATTCC
6083409 ATAAGCTCGTAAGCTTATTT
1 ATAAGCTCGTAAGCTTATTT
6083429 GCATACTTAC
Statistics
Matches: 104, Mismatches: 5, Indels: 6
0.90 0.04 0.05
Matches are distributed among these distances:
43 21 0.20
44 2 0.02
46 2 0.02
47 78 0.75
48 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.39
Consensus pattern (47 bp):
ATAAGCTCGTAAGCTTATTTTATCAATATACTTACCATTTAAATTCC
Found at i:6084350 original size:14 final size:14
Alignment explanation
Indices: 6084333--6084440 Score: 216
Period size: 14 Copynumber: 7.7 Consensus size: 14
6084323 TCTATTTAGT
6084333 AGAATCTGCTTTGC
1 AGAATCTGCTTTGC
6084347 AGAATCTGCTTTGC
1 AGAATCTGCTTTGC
6084361 AGAATCTGCTTTGC
1 AGAATCTGCTTTGC
6084375 AGAATCTGCTTTGC
1 AGAATCTGCTTTGC
6084389 AGAATCTGCTTTGC
1 AGAATCTGCTTTGC
6084403 AGAATCTGCTTTGC
1 AGAATCTGCTTTGC
6084417 AGAATCTGCTTTGC
1 AGAATCTGCTTTGC
6084431 AGAATCTGCT
1 AGAATCTGCT
6084441 GTCCGATTTT
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 94 1.00
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.35
Consensus pattern (14 bp):
AGAATCTGCTTTGC
Found at i:6085505 original size:30 final size:30
Alignment explanation
Indices: 6085471--6085543 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
6085461 AAAATTACAT
* * *
6085471 TTTGGTCCCTAAACTTT-TCAAAGTTTATAC
1 TTTGGTCCCTAAACTTTACCAAA-TTAATAA
6085501 TTTGGTCACC-AAACTTTACCAAATTAATAA
1 TTTGGTC-CCTAAACTTTACCAAATTAATAA
*
6085531 TTTGGTCACTAAA
1 TTTGGTCCCTAAA
6085544 TAAATCCATT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
29 1 0.03
30 29 0.81
31 6 0.17
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (30 bp):
TTTGGTCCCTAAACTTTACCAAATTAATAA
Found at i:6086614 original size:14 final size:14
Alignment explanation
Indices: 6086595--6086626 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
6086585 GTCATCTATG
6086595 TCTCCGAAGATCTC
1 TCTCCGAAGATCTC
6086609 TCTCCGAAGATCTC
1 TCTCCGAAGATCTC
6086623 TCTC
1 TCTC
6086627 AGCGTTTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.19, C:0.38, G:0.12, T:0.31
Consensus pattern (14 bp):
TCTCCGAAGATCTC
Found at i:6087137 original size:22 final size:22
Alignment explanation
Indices: 6087099--6087152 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
6087089 CTCTACTTGT
6087099 AGTATCGATA-CCCTATGGCCA
1 AGTATCGATACCCCTATGGCCA
6087120 AGTATCGATACCCCTATGGCCA
1 AGTATCGATACCCCTATGGCCA
*
6087142 AGTATCAATAC
1 AGTATCGATAC
6087153 TCTCTCCCTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 10 0.32
22 21 0.68
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (22 bp):
AGTATCGATACCCCTATGGCCA
Found at i:6087689 original size:14 final size:14
Alignment explanation
Indices: 6087670--6087711 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
6087660 GAAGATTAAG
6087670 GAAGAAGAAATAGA
1 GAAGAAGAAATAGA
*
6087684 GAAGAAGATATAAAGA
1 GAAGAAGA-A-ATAGA
6087700 GAAG-AGAAATAG
1 GAAGAAGAAATAG
6087712 GGTGAGATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
13 3 0.12
14 9 0.38
15 4 0.17
16 8 0.33
ACGTcount: A:0.62, C:0.00, G:0.29, T:0.10
Consensus pattern (14 bp):
GAAGAAGAAATAGA
Found at i:6089593 original size:41 final size:41
Alignment explanation
Indices: 6089548--6089630 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 41
6089538 CTAGTCGTTG
* * *
6089548 CAGCCTTCG-TGCATGGATACATAGCAGGATGCATCGATGCA
1 CAGCCTT-GATGCATCGATACACAGAAGGATGCATCGATGCA
*
6089589 CAGCCTTGATGCATCGATGCACAGAAGGATGCATCGATGCA
1 CAGCCTTGATGCATCGATACACAGAAGGATGCATCGATGCA
6089630 C
1 C
6089631 TAATTGCATT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
40 1 0.03
41 36 0.97
ACGTcount: A:0.28, C:0.25, G:0.27, T:0.20
Consensus pattern (41 bp):
CAGCCTTGATGCATCGATACACAGAAGGATGCATCGATGCA
Found at i:6089600 original size:21 final size:20
Alignment explanation
Indices: 6089573--6089630 Score: 80
Period size: 21 Copynumber: 2.9 Consensus size: 20
6089563 GATACATAGC
*
6089573 AGGATGCATCGATGCACAGCC
1 AGGATGCATCGATGCACAG-A
**
6089594 TTGATGCATCGATGCACAGA
1 AGGATGCATCGATGCACAGA
6089614 AGGATGCATCGATGCAC
1 AGGATGCATCGATGCAC
6089631 TAATTGCATT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.29, C:0.24, G:0.28, T:0.19
Consensus pattern (20 bp):
AGGATGCATCGATGCACAGA
Found at i:6089722 original size:21 final size:21
Alignment explanation
Indices: 6089696--6089749 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
6089686 AGTGCAGGTA
6089696 CATGGATGCACTACAGGGATG
1 CATGGATGCACTACAGGGATG
* *
6089717 CATGGATGCAATACAGGGGTG
1 CATGGATGCACTACAGGGATG
6089738 CATGGATGCACT
1 CATGGATGCACT
6089750 TTGACACCCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.28, C:0.19, G:0.33, T:0.20
Consensus pattern (21 bp):
CATGGATGCACTACAGGGATG
Found at i:6089850 original size:29 final size:29
Alignment explanation
Indices: 6089829--6089886 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
6089819 AAACTTTGAA
6089829 TAAATTCAATT-AAGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
6089858 TAAATTCAATTCAAGTCCAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
6089887 TGCCTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 11 0.41
30 14 0.52
31 2 0.07
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:6089876 original size:30 final size:30
Alignment explanation
Indices: 6089829--6089888 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
6089819 AAACTTTGAA
6089829 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
6089858 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
6089889 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:6093248 original size:20 final size:19
Alignment explanation
Indices: 6093223--6093279 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 19
6093213 CGGTGTTTGA
6093223 GTGCATGGATGCACTGCATG
1 GTGCATGGATGCACTGCA-G
*
6093243 GTGCATCGATGCACTAGTGCAG
1 GTGCATGGATGCAC---TGCAG
6093265 GTGCATGGATGCACT
1 GTGCATGGATGCACT
6093280 TTGACACCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
19 1 0.03
20 13 0.41
22 14 0.44
23 4 0.12
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.25
Consensus pattern (19 bp):
GTGCATGGATGCACTGCAG
Found at i:6093270 original size:22 final size:23
Alignment explanation
Indices: 6093237--6093279 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
6093227 ATGGATGCAC
6093237 TGCATGGTGCATCGATGCACTAG
1 TGCATGGTGCATCGATGCACTAG
*
6093260 TGCA-GGTGCATGGATGCACT
1 TGCATGGTGCATCGATGCACT
6093280 TTGACACCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.26
Consensus pattern (23 bp):
TGCATGGTGCATCGATGCACTAG
Found at i:6093380 original size:29 final size:29
Alignment explanation
Indices: 6093348--6093410 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 29
6093338 GAAACCTTTT
6093348 AAAACTTTGAATAAATTCAATT-AAGTCCAA
1 AAAACTTTG--TAAATTCAATTCAAGTCCAA
*
6093378 AAATATTTTGTAAATTCAATTCAAGTCCAA
1 AAA-ACTTTGTAAATTCAATTCAAGTCCAA
6093408 AAA
1 AAA
6093411 CCATTTTGTC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 11 0.37
30 14 0.47
31 5 0.17
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (29 bp):
AAAACTTTGTAAATTCAATTCAAGTCCAA
Found at i:6093406 original size:30 final size:30
Alignment explanation
Indices: 6093359--6093419 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 30
6093349 AAACTTTGAA
*
6093359 TAAATTCAATTAAGTCCAAAAA-TATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
6093388 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
6093419 T
1 T
6093420 CTTAAATTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.36
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:6094182 original size:58 final size:57
Alignment explanation
Indices: 6093936--6094316 Score: 299
Period size: 58 Copynumber: 6.8 Consensus size: 57
6093926 ACCAAACTTG
* * *
6093936 ATTCTTAAG-AAATAAATTCAACGATTTATTTTCTTTTACAAAACAGAATCATATAAG
1 ATTCCTAAGAAAATAAATTCAACGATTTATTTTCTTTTACAAAATAGAATCA-ATAAT
* * * * * * *
6093993 ACT-CTTAGAAAAATAAATTCAACAATTTATTTCCTTCTACAAAATAGATTCATTCAAT
1 ATTCCTAAG-AAAATAAATTCAACGATTTATTTTCTTTTACAAAATAGAATCAAT-AAT
* * *
6094051 ATTCCTAAGAAAA-AAATTCGACGA--TATTTT-TTATT---AATTAGAAT-AATAAG
1 ATTCCTAAGAAAATAAATTCAACGATTTATTTTCTT-TTACAAAATAGAATCAATAAT
* * * *
6094101 ATTTCC-AAGAAACTAAACTCAACGATTTATTTTCTTTTACAAAGTAGAAT-ATTTCAAT
1 A-TTCCTAAGAAAATAAATTCAACGATTTATTTTCTTTTACAAAATAGAATCA-AT-AAT
** **
6094159 ATTCCTAAGAAAATAAATTCAACGAGATATTTTCTTTTACAAACCAGAATC-ATACAT
1 ATTCCTAAGAAAATAAATTCAACGATTTATTTTCTTTTACAAAATAGAATCAATA-AT
* * *
6094216 GATGCAC-AAGAAAATAAATTCAACTATTTATTTCCTTTTACAAAATAGAATC-ATATAT
1 -ATTC-CTAAGAAAATAAATTCAACGATTTATTTTCTTTTACAAAATAGAATCAATA-AT
* * *
6094274 GACTCCTAGGAAAATAAATTCAATGATTTA-TTTCTTTTACAAA
1 -ATTCCTAAGAAAATAAATTCAACGATTTATTTTCTTTTACAAA
6094317 GCAGAAATAT
Statistics
Matches: 256, Mismatches: 47, Indels: 42
0.74 0.14 0.12
Matches are distributed among these distances:
50 9 0.04
51 15 0.06
52 7 0.03
53 8 0.03
54 4 0.02
55 6 0.02
56 13 0.05
57 33 0.13
58 156 0.61
59 5 0.02
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (57 bp):
ATTCCTAAGAAAATAAATTCAACGATTTATTTTCTTTTACAAAATAGAATCAATAAT
Found at i:6094361 original size:39 final size:39
Alignment explanation
Indices: 6094283--6094392 Score: 129
Period size: 39 Copynumber: 2.9 Consensus size: 39
6094273 TGACTCCTAG
* *
6094283 GAAA-ATAAATTCAATGATTTA-TTTCTTTTACAAAGCA
1 GAAATATAAATTCAACGATTTATTTTCTTTTACAAAACA
*
6094320 GAAATATAAATTCAACGATATATTTTCTTTTACAAAACA
1 GAAATATAAATTCAACGATTTATTTTCTTTTACAAAACA
* *
6094359 G-AATCATATAA-TCAACTATTTATTTTCATTTACA
1 GAAAT-ATA-AATTCAACGATTTATTTTCTTTTACA
6094393 TAATAGGATC
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
37 4 0.06
38 18 0.29
39 39 0.62
40 2 0.03
ACGTcount: A:0.43, C:0.13, G:0.05, T:0.39
Consensus pattern (39 bp):
GAAATATAAATTCAACGATTTATTTTCTTTTACAAAACA
Found at i:6094454 original size:43 final size:43
Alignment explanation
Indices: 6094400--6094484 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
6094390 ACATAATAGG
* * *
6094400 ATCATTTAAGATTCCCAATAAAATAAATTCAATAATTTATTTA
1 ATCATTCAAGATTCCCAAGAAAATAAATTCAACAATTTATTTA
* *
6094443 ATCATTCAAGATTCTCAAGAAAATAAATTTAACAATTTATTT
1 ATCATTCAAGATTCCCAAGAAAATAAATTCAACAATTTATTT
6094485 TCTTTTTGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.39
Consensus pattern (43 bp):
ATCATTCAAGATTCCCAAGAAAATAAATTCAACAATTTATTTA
Found at i:6094674 original size:58 final size:59
Alignment explanation
Indices: 6094605--6094756 Score: 191
Period size: 58 Copynumber: 2.6 Consensus size: 59
6094595 AATCATCCAC
* * *
6094605 GATTCTCAAGAAAACAAATTCAATGATTTATTTTACTTACAAGGTTAGAAT-TATACAA
1 GATTCTCAAGAAAATAAATTCAATGATTTATTTTACTTACAAAGTTAGAATCAATACAA
* * ** *
6094663 GATTCTCAAGAAAATAAATTCAATTATTTATTTTCCTTTTAAAGTTAGAATCAATGCAA
1 GATTCTCAAGAAAATAAATTCAATGATTTATTTTACTTACAAAGTTAGAATCAATACAA
6094722 GATTCT-AACGATGAAATAAATTCAATGATTTATTT
1 GATTCTCAA-GA--AAATAAATTCAATGATTTATTT
6094757 CTCTCTTTTT
Statistics
Matches: 81, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
58 47 0.58
59 13 0.16
61 21 0.26
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.38
Consensus pattern (59 bp):
GATTCTCAAGAAAATAAATTCAATGATTTATTTTACTTACAAAGTTAGAATCAATACAA
Found at i:6094753 original size:61 final size:58
Alignment explanation
Indices: 6094578--6094765 Score: 189
Period size: 58 Copynumber: 3.2 Consensus size: 58
6094568 TATTAGTTGA
** * * * * *
6094578 TTTCCTTTTAAAAATAAAATCATCCACGATTCTCAAGAAAACAAATTCAATGATTTAT
1 TTTCCTTTTAAAGTTAGAATAATACAAGATTCTCAAGAAAATAAATTCAATGATTTAT
* ** * * *
6094636 TTTACTTACAAGGTTAGAATTATACAAGATTCTCAAGAAAATAAATTCAATTATTTAT
1 TTTCCTTTTAAAGTTAGAATAATACAAGATTCTCAAGAAAATAAATTCAATGATTTAT
*
6094694 TTTCCTTTTAAAGTTAGAATCAATGCAAGATTCT-AACGATGAAATAAATTCAATGATTTAT
1 TTTCCTTTTAAAGTTAGAAT-AATACAAGATTCTCAA-GA--AAATAAATTCAATGATTTAT
6094755 TTCTCTCTTTT
1 TT-TC-CTTTT
6094766 TTAAGGTTAT
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
58 64 0.61
59 13 0.12
61 21 0.20
62 2 0.02
63 5 0.05
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (58 bp):
TTTCCTTTTAAAGTTAGAATAATACAAGATTCTCAAGAAAATAAATTCAATGATTTAT
Found at i:6094927 original size:45 final size:45
Alignment explanation
Indices: 6094878--6095130 Score: 221
Period size: 45 Copynumber: 5.6 Consensus size: 45
6094868 AAACAATCCA
* * * *
6094878 TTAATTTTAGCAAACTAATAATAAAAAAGAACCAATCTTTTGATT
1 TTAATTTTAGCAAACTAATAATCAAAAGGAACTAATCATTTGATT
* * *
6094923 TTAATTTTTCA-CAACCTAATAATCAAAAGGAACGAATCTTTTGATT
1 TTAA-TTTT-AGCAAACTAATAATCAAAAGGAACTAATCATTTGATT
*** * *
6094969 TTAATTTCCTC-AACTCAATACTCAAAGGGAACTAATCATTTGATT
1 TTAATTTTAGCAAACT-AATAATCAAAAGGAACTAATCATTTGATT
* * *
6095014 TTAA-TTTCG-ACAACTAGTAA-CAAAAATGAACTAATCATTTGATT
1 TTAATTTTAGCA-AACTAATAATC-AAAAGGAACTAATCATTTGATT
* * * *
6095058 TTAATTTTAGCAACCCAATAATCAAAAGGAAATAATCCTTTGATT
1 TTAATTTTAGCAAACTAATAATCAAAAGGAACTAATCATTTGATT
* *
6095103 TTACTTTTGGC-AACTAAATAATCAAAAG
1 TTAATTTTAGCAAACT-AATAATCAAAAG
6095131 TCTTGGATTA
Statistics
Matches: 169, Mismatches: 28, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 35 0.21
45 91 0.54
46 41 0.24
47 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.35
Consensus pattern (45 bp):
TTAATTTTAGCAAACTAATAATCAAAAGGAACTAATCATTTGATT
Found at i:6095077 original size:89 final size:90
Alignment explanation
Indices: 6094878--6095130 Score: 253
Period size: 89 Copynumber: 2.8 Consensus size: 90
6094868 AAACAATCCA
* * * * * *
6094878 TTAATTTTAGCAAACTAATAATAAAAAAGAACCAATCTTTTGATTTTAATTTTTCACAACCTAAT
1 TTAATTTTAGCAACCCAATAATCAAAAGGAACTAATCATTTGATTTTAA-TTTTCACAACCTAAT
*
6094943 AATCAAAAGGAACGAATCTTTTGATT
65 AATCAAAAGGAACGAATCATTTGATT
*** * * * *
6094969 TTAATTTCCTCAACTCAATACTCAAAGGGAACTAATCATTTGATTTTAA-TTTCGACAA-CTAGT
1 TTAATTTTAGCAACCCAATAATCAAAAGGAACTAATCATTTGATTTTAATTTTC-ACAACCTAAT
* *
6095032 AA-CAAAAATGAACTAATCATTTGATT
65 AATC-AAAAGGAACGAATCATTTGATT
* * * **
6095058 TTAATTTTAGCAACCCAATAATCAAAAGGAAATAATCCTTTGATTTTACTTTTGGCAA-CTAAAT
1 TTAATTTTAGCAACCCAATAATCAAAAGGAACTAATCATTTGATTTTAATTTTCACAACCT-AAT
6095122 AATCAAAAG
65 AATCAAAAG
6095131 TCTTGGATTA
Statistics
Matches: 128, Mismatches: 29, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
88 1 0.01
89 74 0.58
90 15 0.12
91 38 0.30
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.35
Consensus pattern (90 bp):
TTAATTTTAGCAACCCAATAATCAAAAGGAACTAATCATTTGATTTTAATTTTCACAACCTAATA
ATCAAAAGGAACGAATCATTTGATT
Found at i:6097148 original size:3 final size:3
Alignment explanation
Indices: 6097140--6097298 Score: 129
Period size: 3 Copynumber: 53.0 Consensus size: 3
6097130 AGGTGGAAAA
* * * * * *
6097140 GAG GAG GAG GAG GAA GAG GTG GAA GAA GAG GAG GAG AAA GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
* * * * *
6097188 GAG GAG GAG GTG GAA GAA GAG GAG GAG AAA GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
* * * * * * * * * *
6097236 GAG GAA GAA GAA AAG GAG GAG AAA GAG AAG AAG GAG GAG GAG AAT GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
6097284 GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG
6097299 AAGAAGAAGA
Statistics
Matches: 124, Mismatches: 32, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 124 1.00
ACGTcount: A:0.43, C:0.00, G:0.55, T:0.02
Consensus pattern (3 bp):
GAG
Found at i:6097148 original size:26 final size:27
Alignment explanation
Indices: 6097125--6097262 Score: 133
Period size: 27 Copynumber: 5.3 Consensus size: 27
6097115 AGAAGGAGTC
6097125 GGAAGAGGTGGAA-AAGAGGAGGAGGA
1 GGAAGAGGTGGAAGAAGAGGAGGAGGA
6097151 GGAAGAGGTGGAAGAAGAGGAGGA-GA
1 GGAAGAGGTGGAAGAAGAGGAGGAGGA
* * * *
6097177 --AAGAGGAGGAGGAGGAGGAGGTGGA
1 GGAAGAGGTGGAAGAAGAGGAGGAGGA
* *
6097202 AGAAGAGGAGG-AGAAAGAGGAGGAGGA
1 GGAAGAGGTGGAAG-AAGAGGAGGAGGA
* * **
6097229 GGAGGAGGAGGAAGAAGAAAAGGAGGA
1 GGAAGAGGTGGAAGAAGAGGAGGAGGA
*
6097256 GAAAGAG
1 GGAAGAG
6097263 AAGAAGGAGG
Statistics
Matches: 93, Mismatches: 13, Indels: 11
0.79 0.11 0.09
Matches are distributed among these distances:
24 18 0.19
25 2 0.02
26 16 0.17
27 55 0.59
28 2 0.02
ACGTcount: A:0.44, C:0.00, G:0.54, T:0.02
Consensus pattern (27 bp):
GGAAGAGGTGGAAGAAGAGGAGGAGGA
Found at i:6097274 original size:39 final size:39
Alignment explanation
Indices: 6097144--6097277 Score: 196
Period size: 39 Copynumber: 3.4 Consensus size: 39
6097134 GGAAAAGAGG
* *
6097144 AGGAGGAGGAAGAGGTGGAAGAAGAGGAGGAGAAAGAGG
1 AGGAGGAGGAGGAGGTGGAAGAAGAGGAGGAGAAAGAGA
*
6097183 AGGAGGAGGAGGAGGTGGAAGAAGAGGAGGAGAAAGAGG
1 AGGAGGAGGAGGAGGTGGAAGAAGAGGAGGAGAAAGAGA
*
6097222 AGGAGGAGGAGGAGGAGGAAGAAGAAAAGGAGGAGAAAGAGA
1 AGGAGGAGGAGGAGGTGGAAGAAG---AGGAGGAGAAAGAGA
*
6097264 AGAAGGAGGAGGAG
1 AGGAGGAGGAGGAG
6097278 AATGAGGAGG
Statistics
Matches: 88, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
39 61 0.69
42 27 0.31
ACGTcount: A:0.45, C:0.00, G:0.54, T:0.01
Consensus pattern (39 bp):
AGGAGGAGGAGGAGGTGGAAGAAGAGGAGGAGAAAGAGA
Found at i:6097295 original size:42 final size:42
Alignment explanation
Indices: 6097144--6097309 Score: 180
Period size: 42 Copynumber: 4.0 Consensus size: 42
6097134 GGAAAAGAGG
*
6097144 AGGAGGAGGA-AGAGGTGGAAGAAGAGGAGGAGAAAGAG--G-
1 AGGAGGAGGAGA-AGGAGGAAGAAGAGGAGGAGAAAGAGAAGA
* * * *
6097183 AGGAGGAGGAGGAGGTGGAAGAAGAGGAGGAGAAAGAGGAGG
1 AGGAGGAGGAGAAGGAGGAAGAAGAGGAGGAGAAAGAGAAGA
* * *
6097225 AGGAGGAGGAGGAGGAAGAAGAAAAGGAGGAGAAAGAGAAGA
1 AGGAGGAGGAGAAGGAGGAAGAAGAGGAGGAGAAAGAGAAGA
* * *
6097267 AGGAGGAGGAGAATGAGGAGGAGGAGGAGGAG-AAGAAGAAGA
1 AGGAGGAGGAGAAGGAGGAAGAAGAGGAGGAGAAAG-AGAAGA
6097309 A
1 A
6097310 TAAGAAGAAG
Statistics
Matches: 110, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 36 0.33
41 4 0.04
42 70 0.64
ACGTcount: A:0.46, C:0.00, G:0.52, T:0.02
Consensus pattern (42 bp):
AGGAGGAGGAGAAGGAGGAAGAAGAGGAGGAGAAAGAGAAGA
Found at i:6097762 original size:23 final size:21
Alignment explanation
Indices: 6097732--6097774 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
6097722 TCCCATCAAC
6097732 AAAACTAAATTTA-AACGATTTT
1 AAAACT-AATTTATAA-GATTTT
6097754 AAAATCTAATTTATAAGATTT
1 AAAA-CTAATTTATAAGATTT
6097775 CAAACCTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.40
Consensus pattern (21 bp):
AAAACTAATTTATAAGATTTT
Found at i:6100867 original size:54 final size:54
Alignment explanation
Indices: 6100774--6100948 Score: 260
Period size: 54 Copynumber: 3.2 Consensus size: 54
6100764 TTATATGAGT
* *
6100774 GTGTATCGATACACTGAAAACATTGAATACCATTTGTGTATCGGTACACTGAGGA
1 GTGTATCGATACACTCAAAA-ATCGAATACCATTTGTGTATCGGTACACTGAGGA
*
6100829 GTGTATCGATACACTCAAAAATCGAATATCATTTGTGTATCGGTACACTGAGGA
1 GTGTATCGATACACTCAAAAATCGAATACCATTTGTGTATCGGTACACTGAGGA
* * * * *
6100883 GTGTATCGATACCCTCAAACATCGAATGCAATTTGTGTATCGGTACACTAAGGA
1 GTGTATCGATACACTCAAAAATCGAATACCATTTGTGTATCGGTACACTGAGGA
*
6100937 GTGTATCAATAC
1 GTGTATCGATAC
6100949 CCCTTGTTAT
Statistics
Matches: 110, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
54 91 0.83
55 19 0.17
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.29
Consensus pattern (54 bp):
GTGTATCGATACACTCAAAAATCGAATACCATTTGTGTATCGGTACACTGAGGA
Found at i:6101573 original size:22 final size:22
Alignment explanation
Indices: 6101519--6101582 Score: 60
Period size: 23 Copynumber: 2.9 Consensus size: 22
6101509 TCCTCCGGGA
*
6101519 CAAA-TATGTGGCACTTCGGTG
1 CAAACTATGTGGCACTTCAGTG
* * *
6101540 CAACCCTATGTGGCACTTCATTT
1 CAA-ACTATGTGGCACTTCAGTG
6101563 CAAACTATGTGGTC-CTTCAG
1 CAAACTATGTGG-CACTTCAG
6101583 GATAATTATG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
21 3 0.09
22 13 0.38
23 18 0.53
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.31
Consensus pattern (22 bp):
CAAACTATGTGGCACTTCAGTG
Found at i:6107866 original size:54 final size:55
Alignment explanation
Indices: 6107672--6107864 Score: 271
Period size: 55 Copynumber: 3.5 Consensus size: 55
6107662 TATGAGTGTA
** * * *
6107672 TATCGGTACACTGAGTTGTGTACCGATACACTCAAAACATCGAATACCATTTGTG
1 TATCGGTACACTGAGGAGTGTATCGATACACTCAAAACATCGAATGCAATTTGTG
* ** *
6107727 TATTGGTACACTGAGGAGTGTATCGATACACTCAAAACATCGAATGTTATTTATG
1 TATCGGTACACTGAGGAGTGTATCGATACACTCAAAACATCGAATGCAATTTGTG
*
6107782 TATCGGTACACTGAGGAGTGTATCGATACCCTC-AAACATCGAATGCAATTTGTG
1 TATCGGTACACTGAGGAGTGTATCGATACACTCAAAACATCGAATGCAATTTGTG
* *
6107836 TATCAGTACACTAAGGAGTGTATCGATAC
1 TATCGGTACACTGAGGAGTGTATCGATAC
6107865 CCCTAATTAT
Statistics
Matches: 123, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
54 45 0.37
55 78 0.63
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.30
Consensus pattern (55 bp):
TATCGGTACACTGAGGAGTGTATCGATACACTCAAAACATCGAATGCAATTTGTG
Found at i:6108966 original size:2 final size:2
Alignment explanation
Indices: 6108959--6109009 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
6108949 TTTTTAAAAC
6108959 AT AT AT 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 AT AT AT
6109001 AT AT AT AT A
1 AT AT AT AT A
6109010 CCCCCATCCC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6109196 original size:24 final size:24
Alignment explanation
Indices: 6109169--6109220 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
6109159 AACGGATATA
*
6109169 TCAAAAATCAAAACATAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
** * *
6109193 TCAAGTATCATATCAGAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
6109217 TCAA
1 TCAA
6109221 GTAACAGATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (24 bp):
TCAAAAATCAAAACAGAAATCAGG
Found at i:6109280 original size:48 final size:48
Alignment explanation
Indices: 6109192--6109310 Score: 150
Period size: 48 Copynumber: 2.5 Consensus size: 48
6109182 CATAAATCAG
* *
6109192 GTCAAGTATCATATCAGAAATCAGGTCAAGTAACAGATCAGAATCCAA
1 GTCAAGTATCAAATCAGAATTCAGGTCAAGTAACAGATCAGAATCCAA
* * * * *
6109240 GTCAAGTATCAAATCAGAATTTATGTC-AGATATCATATCAGAATCCAT
1 GTCAAGTATCAAATCAGAATTCAGGTCAAG-TAACAGATCAGAATCCAA
*
6109288 GTCAAGTATCAGATCAGAATTCA
1 GTCAAGTATCAAATCAGAATTCA
6109311 AATCGAAAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
47 2 0.03
48 59 0.97
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (48 bp):
GTCAAGTATCAAATCAGAATTCAGGTCAAGTAACAGATCAGAATCCAA
Found at i:6109307 original size:24 final size:24
Alignment explanation
Indices: 6109192--6109307 Score: 128
Period size: 24 Copynumber: 4.8 Consensus size: 24
6109182 CATAAATCAG
* *
6109192 GTCAAGTATCATATCAGAAAT-CAG
1 GTCAAGTATCAGATCAG-AATCCAT
* *
6109216 GTCAAGTAACAGATCAGAATCCAA
1 GTCAAGTATCAGATCAGAATCCAT
* **
6109240 GTCAAGTATCAAATCAGAATTTAT
1 GTCAAGTATCAGATCAGAATCCAT
*
6109264 GTC-AGATATCATATCAGAATCCAT
1 GTCAAG-TATCAGATCAGAATCCAT
6109288 GTCAAGTATCAGATCAGAAT
1 GTCAAGTATCAGATCAGAAT
6109308 TCAAATCGAA
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
23 5 0.06
24 70 0.91
25 2 0.03
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.26
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAT
Found at i:6110525 original size:18 final size:18
Alignment explanation
Indices: 6110502--6110536 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6110492 TGTCATCCGG
*
6110502 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
6110520 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
6110537 GTCCTCTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:6111866 original size:13 final size:13
Alignment explanation
Indices: 6111847--6111892 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
6111837 CAACGGACAA
6111847 CGGGTCAACGGGT
1 CGGGTCAACGGGT
* *
6111860 TGGGTCAACAGGT
1 CGGGTCAACGGGT
* *
6111873 CGGATAAACGGGT
1 CGGGTCAACGGGT
6111886 CGGGTCA
1 CGGGTCA
6111893 GGTCGGGTTA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.22, C:0.20, G:0.41, T:0.17
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:6114014 original size:24 final size:24
Alignment explanation
Indices: 6113987--6114038 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
6113977 AACGGATATA
*
6113987 TCAAAAATCAAAACATAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
** * *
6114011 TCAAGTATCATATCAGAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
6114035 TCAA
1 TCAA
6114039 GTAACATATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (24 bp):
TCAAAAATCAAAACAGAAATCAGG
Found at i:6114077 original size:24 final size:24
Alignment explanation
Indices: 6114010--6114149 Score: 169
Period size: 24 Copynumber: 5.8 Consensus size: 24
6114000 CATAAATCAG
* *
6114010 GTCAAGTATCATATCAGAAAT-CAG
1 GTCAAGTATCAGATCAG-AATCCAT
* * *
6114034 GTCAAGTAACATATCAGAATCCAA
1 GTCAAGTATCAGATCAGAATCCAT
6114058 GTCAAGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAT
*
6114082 GTC-AGATATCAGATCAGGATCCAT
1 GTCAAG-TATCAGATCAGAATCCAT
*
6114106 GTC-AGATATCAGATCAGGATCCAT
1 GTCAAG-TATCAGATCAGAATCCAT
6114130 GTCAAGTATCAGATCAGAAT
1 GTCAAGTATCAGATCAGAAT
6114150 TCAAATCGAA
Statistics
Matches: 106, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
23 5 0.05
24 99 0.93
25 2 0.02
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAT
Found at i:6114165 original size:48 final size:47
Alignment explanation
Indices: 6114010--6114167 Score: 158
Period size: 48 Copynumber: 3.3 Consensus size: 47
6114000 CATAAATCAG
* * * *
6114010 GTCAAGTATCATATCAGAAAT-CAGGTCAAGTAACATATCAGAATCCAA
1 GTCAA-TATCAGATCAG-AATCCATGTCAAGTATCAGATCAGAATCCAA
* *
6114058 GTCAAGTATCAGATCAGAATCCATGTC-AGATATCAGATCAGGATCCAT
1 GTCAA-TATCAGATCAGAATCCATGTCAAG-TATCAGATCAGAATCCAA
* *
6114106 GTCAGATATCAGATCAGGATCCATGTCAAGTATCAGATCAGAATTCAA
1 GTCA-ATATCAGATCAGAATCCATGTCAAGTATCAGATCAGAATCCAA
* *
6114154 ATCGAAAATCAGAT
1 GTC-AATATCAGAT
6114168 AAAATATTCA
Statistics
Matches: 93, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
47 5 0.05
48 84 0.90
49 4 0.04
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.24
Consensus pattern (47 bp):
GTCAATATCAGATCAGAATCCATGTCAAGTATCAGATCAGAATCCAA
Found at i:6115368 original size:18 final size:18
Alignment explanation
Indices: 6115345--6115379 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6115335 TGTCATCCGG
*
6115345 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
6115363 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
6115380 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:6116722 original size:18 final size:18
Alignment explanation
Indices: 6116699--6116737 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
6116689 CAACGGTCAA
6116699 CGGGTCGGGTCAACAGGT
1 CGGGTCGGGTCAACAGGT
*
6116717 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACAGGT
6116735 CGG
1 CGG
6116738 ATAAACATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.13, C:0.23, G:0.49, T:0.15
Consensus pattern (18 bp):
CGGGTCGGGTCAACAGGT
Found at i:6116730 original size:31 final size:31
Alignment explanation
Indices: 6116693--6116757 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
6116683 AACGGTCAAC
* *
6116693 GGTCAACGGGTCGGGTCAACAGGTCGGGTCG
1 GGTCAACGGGTCGGATAAACAGGTCGGGTCG
*
6116724 GGTCAACGGGTCGGATAAACATGTCGGGTCG
1 GGTCAACGGGTCGGATAAACAGGTCGGGTCG
6116755 GGT
1 GGT
6116758 TATGACTGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.18, C:0.20, G:0.43, T:0.18
Consensus pattern (31 bp):
GGTCAACGGGTCGGATAAACAGGTCGGGTCG
Found at i:6116737 original size:13 final size:13
Alignment explanation
Indices: 6116693--6116722 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
6116683 AACGGTCAAC
*
6116693 GGTCAACGGGTCG
1 GGTCAACAGGTCG
6116706 GGTCAACAGGTCG
1 GGTCAACAGGTCG
6116719 GGTC
1 GGTC
6116723 GGGTCAACGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.43, T:0.17
Consensus pattern (13 bp):
GGTCAACAGGTCG
Found at i:6117621 original size:23 final size:22
Alignment explanation
Indices: 6117583--6117672 Score: 82
Period size: 23 Copynumber: 4.2 Consensus size: 22
6117573 TCCTCTAGGA
*
6117583 CAAA-TATTTGGCACTTCGGTG
1 CAAACTATGTGGCACTTCGGTG
*
6117604 CAACCCTATGTGGCACTTCGGTG
1 CAA-ACTATGTGGCACTTCGGTG
6117627 CAAACTATGTGGTC-CTTCGG-G
1 CAAACTATGTGG-CACTTCGGTG
* *
6117648 -ACAATTATGCGGCACTTC-GTG
1 CA-AACTATGTGGCACTTCGGTG
6117669 CAAA
1 CAAA
6117673 TTACGAGTTG
Statistics
Matches: 57, Mismatches: 5, Indels: 14
0.75 0.07 0.18
Matches are distributed among these distances:
20 3 0.05
21 19 0.33
22 15 0.26
23 20 0.35
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.28
Consensus pattern (22 bp):
CAAACTATGTGGCACTTCGGTG
Found at i:6119701 original size:22 final size:22
Alignment explanation
Indices: 6119663--6119711 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
6119653 AATTTAAGCA
6119663 TTTTTCGTTTTAGTTAT-TCATT
1 TTTTTCGTTTTAGTTATGT-ATT
*
6119685 TTTTTC-TTTTAATTTATGTATT
1 TTTTTCGTTTT-AGTTATGTATT
6119707 TTTTT
1 TTTTT
6119712 ATTTATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 4 0.17
22 19 0.79
23 1 0.04
ACGTcount: A:0.14, C:0.06, G:0.06, T:0.73
Consensus pattern (22 bp):
TTTTTCGTTTTAGTTATGTATT
Found at i:6119758 original size:25 final size:25
Alignment explanation
Indices: 6119698--6119758 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
6119688 TTCTTTTAAT
* * *
6119698 TTATGTATTTTTTTATTTATTTTTTA
1 TTAT-TATTTTCTTAATTATTTTTCA
* *
6119724 TTTTTCTTTTCTTAATTATTTTTCA
1 TTATTATTTTCTTAATTATTTTTCA
6119749 TTATTATTTT
1 TTATTATTTT
6119759 ATCATCCTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
25 25 0.89
26 3 0.11
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (25 bp):
TTATTATTTTCTTAATTATTTTTCA
Found at i:6126754 original size:16 final size:18
Alignment explanation
Indices: 6126735--6126772 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
6126725 TATATATATA
6126735 TAATTTT-AT-ATTTTTT
1 TAATTTTAATAATTTTTT
6126751 TAATTTTAAATAATTTTTT
1 TAATTTT-AATAATTTTTT
6126770 TAA
1 TAA
6126773 AATCACCAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
18 2 0.11
19 10 0.53
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TAATTTTAATAATTTTTT
Found at i:6131895 original size:156 final size:156
Alignment explanation
Indices: 6131611--6131923 Score: 601
Period size: 156 Copynumber: 2.0 Consensus size: 156
6131601 GATAGAGAGA
6131611 TCAATGTGTTTAGGACTTAGAGATTTGCTAAGGTAAGCCAAGGGACGACCTCCTTGAGAAAAAAT
1 TCAATGTGTTTAGGACTTAGAGATTTGCTAAGGTAAGCCAAGGGACGACCTCCTTGAGAAAAAAT
*
6131676 AGCCCTTATACCTTCTGAGCTCGCGTCTGTTTCCAATCAAAATTCTTTAGTGAAATCAGGAAGAG
66 AGCCCTTAGACCTTCTGAGCTCGCGTCTGTTTCCAATCAAAATTCTTTAGTGAAATCAGGAAGAG
6131741 CCAAAAACAGATCCTTACACATTACT
131 CCAAAAACAGATCCTTACACATTACT
6131767 TCAATGGTGTTTAGGACTTAGAGA-TTGCTAAGGTAAGCCAAGGGACGACCTCCTTGAGAAAAAA
1 TCAAT-GTGTTTAGGACTTAGAGATTTGCTAAGGTAAGCCAAGGGACGACCTCCTTGAGAAAAAA
6131831 TAGCCCTTAGACCTTCTGAGCTCGCGTCTGTTTCCAATCAAAATTCTTTAGTGAAATCAGGAAGA
65 TAGCCCTTAGACCTTCTGAGCTCGCGTCTGTTTCCAATCAAAATTCTTTAGTGAAATCAGGAAGA
6131896 GCCAAAAACAGATCCTTACACATTACT
130 GCCAAAAACAGATCCTTACACATTACT
6131923 T
1 T
6131924 TCTTCAATTG
Statistics
Matches: 155, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
156 137 0.88
157 18 0.12
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (156 bp):
TCAATGTGTTTAGGACTTAGAGATTTGCTAAGGTAAGCCAAGGGACGACCTCCTTGAGAAAAAAT
AGCCCTTAGACCTTCTGAGCTCGCGTCTGTTTCCAATCAAAATTCTTTAGTGAAATCAGGAAGAG
CCAAAAACAGATCCTTACACATTACT
Found at i:6133611 original size:20 final size:20
Alignment explanation
Indices: 6133586--6133658 Score: 121
Period size: 20 Copynumber: 3.7 Consensus size: 20
6133576 AAAAGCCTGA
6133586 GTGCATCGATGCATGGTCTT
1 GTGCATCGATGCATGGTCTT
6133606 GTGCATCGATGCATGGTCTT
1 GTGCATCGATGCATGGTCTT
* *
6133626 GTGCATCGATGCATGAT-AT
1 GTGCATCGATGCATGGTCTT
6133645 GTGCATCGATGCAT
1 GTGCATCGATGCAT
6133659 AAAATGCATT
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
19 15 0.29
20 36 0.71
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.33
Consensus pattern (20 bp):
GTGCATCGATGCATGGTCTT
Done.