Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009460.1 Hibiscus syriacus cultivar Beakdansim tig00113722_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: 2853300
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 8 of 14
Found at i:1312935 original size:9 final size:9
Alignment explanation
Indices: 1312921--1312954 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
1312911 TAAGTAAAAT
1312921 ATTAAATAA
1 ATTAAATAA
1312930 ATTAAAT-A
1 ATTAAATAA
*
1312938 CTTAAATAA
1 ATTAAATAA
1312947 ATTAAATA
1 ATTAAATA
1312955 CAAAATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (9 bp):
ATTAAATAA
Found at i:1312953 original size:17 final size:17
Alignment explanation
Indices: 1312917--1312955 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
1312907 TATATAAGTA
1312917 AAATA-TTAAATAAATT
1 AAATACTTAAATAAATT
1312933 AAATACTTAAATAAATT
1 AAATACTTAAATAAATT
1312950 AAATAC
1 AAATAC
1312956 AAAATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATACTTAAATAAATT
Found at i:1312968 original size:24 final size:25
Alignment explanation
Indices: 1312933--1312979 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
1312923 TAAATAAATT
*
1312933 AAATACTTAAATA-AATTAAATACA
1 AAATACTTAAATATAATAAAATACA
1312957 AAATA-TTAAAATATAATAAAATA
1 AAATACTT-AAATATAATAAAATA
1312980 TACCTTAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 10 0.50
25 8 0.40
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (25 bp):
AAATACTTAAATATAATAAAATACA
Found at i:1315257 original size:29 final size:29
Alignment explanation
Indices: 1315225--1315288 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
1315215 ATCGAACAAA
* *
1315225 AATTTATTTGAAAATTATTAATTGAACCG
1 AATTAATTTGAAAATTATTAACTGAACCG
1315254 AATTAATTTGAAAATTATTAACTGAACCG
1 AATTAATTTGAAAATTATTAACTGAACCG
1315283 AATTAA
1 AATTAA
1315289 CCAATTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.38
Consensus pattern (29 bp):
AATTAATTTGAAAATTATTAACTGAACCG
Found at i:1315531 original size:99 final size:95
Alignment explanation
Indices: 1315256--1315549 Score: 423
Period size: 93 Copynumber: 3.1 Consensus size: 95
1315246 TTGAACCGAA
*
1315256 TTAATTTGAAAATTATTAA-CTGAACCGAATTAACCAATTTTTTTTTTAAATTATTAACCGAATT
1 TTAATTTGAAAATTATTAATC-GAACCGAATTAACCAA--ATTTTTTTAAATTATTAACCGAATT
* * *
1315320 AATCGAAGCAAAAATTTGGTTAATTCGGTTCAG
63 AATCGAAGCAAAAATTCGGTTAATTCAGTTCGG
* *
1315353 TTAATTCGAAAATTATTAATCGAACCGAATTAACC--GTTTTTTTAAATTATTAACCGAATTAAT
1 TTAATTTGAAAATTATTAATCGAACCGAATTAACCAAATTTTTTTAAATTATTAACCGAATTAAT
1315416 CGAAGCAAAAATTCGGTTAATTCAGTTCGG
66 CGAAGCAAAAATTCGGTTAATTCAGTTCGG
*
1315446 TTAATTTGAAAATTATTAATCGAACCGAATTAGCCAAAAATTTTTTTGAAAATTATTAACCGAAT
1 TTAATTTGAAAATTATTAATCGAACCGAATTAACC--AAATTTTTTT--AAATTATTAACCGAAT
* *
1315511 TAATCGAAGTAAAAATTCGGTTAATTTAGTTCGG
62 TAATCGAAGCAAAAATTCGGTTAATTCAGTTCGG
1315545 TTAAT
1 TTAAT
1315550 CGAACAAAAA
Statistics
Matches: 180, Mismatches: 10, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
93 87 0.48
97 39 0.22
98 1 0.01
99 53 0.29
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (95 bp):
TTAATTTGAAAATTATTAATCGAACCGAATTAACCAAATTTTTTTAAATTATTAACCGAATTAAT
CGAAGCAAAAATTCGGTTAATTCAGTTCGG
Found at i:1315649 original size:29 final size:29
Alignment explanation
Indices: 1315617--1315675 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
1315607 AAATTTTTGG
*
1315617 TTAATTTGGTTTGATTAATAATTTTTAAA
1 TTAATTCGGTTTGATTAATAATTTTTAAA
*
1315646 TTAATTCGGTTTGGTTAATAATTTTTAAA
1 TTAATTCGGTTTGATTAATAATTTTTAAA
1315675 T
1 T
1315676 AAAATAACCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.54
Consensus pattern (29 bp):
TTAATTCGGTTTGATTAATAATTTTTAAA
Found at i:1315782 original size:20 final size:20
Alignment explanation
Indices: 1315743--1315785 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1315733 ATTAGTCGTG
**
1315743 AATAATTTATTTAATTAAAT
1 AATAATTTATTTAAACAAAT
*
1315763 AATAATTTGTTTAAACAAAT
1 AATAATTTATTTAAACAAAT
1315783 AAT
1 AAT
1315786 TTGTTTAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
AATAATTTATTTAAACAAAT
Found at i:1319243 original size:701 final size:703
Alignment explanation
Indices: 1318330--1319663 Score: 1760
Period size: 701 Copynumber: 1.9 Consensus size: 703
1318320 CAAAGAGATC
* *
1318330 TATTCATAAAATCTAATAAGATATGAAACTAACTTTATATTCGAAAACATTTGATGCATTTACCT
1 TATTCATAAAATCTAAAAAGATATGAAACTAACTTTATATTCGAAAACATTTAATGCATTTACCT
* *
1318395 AAATCACAAGAAAAATGTTAATAAACTAACAAATTCTCATAAACTAACTAATCACTTCACAGATA
66 AAATCACAAGAAAAATGTTAATAAACTAACAAATTCTCACAAACTAACAAATCACTTCACAGATA
* * * * * *
1318460 GACATATTTTTTATAATTCAACAATTCACAACTGAATTTGTTTAAATTTCAAATAAAAATTAATG
131 GACAGATTTATTATAAATCAACAATTCACAACTGAATTTATTTAAATTTCAAATAAAAATCAATA
** *
1318525 AACGTTAAATACAAAAACACTTGTAATTGTCTACAAAGAGA-TATATTCATAAAAATCT-AAAAG
196 AACGTTAAATACAAAAACACGCGTAATTATCTACAAAGAGACT-TATTCATAAAAATCTAAAAAG
* * * *
1318588 ATATGAAACT-TTTTTATTTGAATACGTTTAAGGCA-TTTACCTAGATCACGAGAAAAATATTAA
260 ATATGAAACTATTTCTATTCGAAAACGTTTAAGGCATTTTACCTAAATCACGAGAAAAATATTAA
*
1318651 TAGACTCACATATTCTCACAAACTGACAAATC-ACTTTACAGATAGACT-GATTCTTATAAATCA
325 TAAACTCACATATTCTCACAAACTGACAAATCAACTTTACAGATAGA-TAGATTCTTATAAATCA
* * * ** *
1318714 ACAATTCATTGCTGAATTTGTTTAGATTTCAAATGAAGA-TTAATAAACGTTAAATACCAAAACA
389 ACAATTCACTACTGAATTTGTTTAAATTTCAAATGAA-ACACAATAAA--TTAAATACAAAAACA
*
1318778 CGTGTAATTA-TATAGAGAGAGACTTATTCATAAAAGTCT-AAAAAGATATGAAACTAACTTTCC
451 CGTGTAA-TAGTATAGAGAGAGAC---TTCATAAAAATCTAAAAAAGATATGAAACTAACTTTCC
* * *
1318841 ATTTGAAAATGTTTAATGCATTTACCTAAATCACGAG-AAAATATTAATATACTCACATATTCTC
512 ATTCGAAAACGTTTAATGCATTTACCTAAATCACGAGAAAAATATTAATAAACTCACATATTCTC
* * * *
1318905 ACAAACTGACAAA-CCA-TTTACTCATAAACATATTCTTATAAATCAACAATTCATTGCCGAATT
577 ACAAACTGACAAATCAACTTTACACATAAACAAATTCTTAGAAATCAACAATTCATTGCCGAATT
1318968 TGTTTAGATTTCAAATGAAAATTAATAAATGTTAAACACGTGTAATTATATATAGAGAGAAT
642 TGTTTAGATTTCAAATGAAAATTAATAAATGTTAAACACGTGTAATTATATATAGAGAGAAT
* *
1319030 TATTCATGAAAATCTAAAAAGATATGAAACTAACTTTCTATTCGAAAACGTTTAATGCATTTACC
1 TATTCAT-AAAATCTAAAAAGATATGAAACTAACTTTATATTCGAAAACATTTAATGCATTTACC
* * * * * * *
1319095 TAAATCACGAGAAAAATGTTAATAGATTGAGAAATTCTCACAAACTGACAAATCAACTTTACAGA
65 TAAATCACAAGAAAAATGTTAATAAACTAACAAATTCTCACAAACTAACAAATC-ACTTCACAGA
* **** *
1319160 TAGATAGA-TTATTATAAATCAACAATTCATTGTTGAATTTATTTAAATTTCAAATGAAAATCAA
129 TAGACAGATTTATTATAAATCAACAATTCACAACTGAATTTATTTAAATTTCAAATAAAAATCAA
* * *
1319224 TAAATGTTAAGA-ACAAAAACACGCGTAATTATCTACAGAGTGACTTATTCATAAAAATCTAAAA
194 TAAACGTTAA-ATACAAAAACACGCGTAATTATCTACAAAGAGACTTATTCATAAAAATCTAAAA
* * *
1319288 ATATATGAAACTAACTTTCTATTCGAAAACGTTTAATGCATTTTACCTAAATCACGAGAAAAATG
258 AGATATGAAACT-A-TTTCTATTCGAAAACGTTTAAGGCATTTTACCTAAATCACGAGAAAAATA
* * * * *
1319353 TTAGTAAACTGACATATTCTTACAAATTGACAAATCAACTTTACAGATAGATATATTCTTATAAA
321 TTAATAAACTCACATATTCTCACAAACTGACAAATCAACTTTACAGATAGATAGATTCTTATAAA
* * * *
1319418 TCATCAATTTACTATTGAATTTGTTTAAATTTCAAATGAAACACAATAAATTAAGTACAAAAACA
386 TCAACAATTCACTACTGAATTTGTTTAAATTTCAAATGAAACACAATAAATTAAATACAAAAACA
* * *
1319483 CGTGTAATAGTCTAGAGAGAGACTTCATAAAAATCTAAAAAATATATGAAACTAACTTTCTATTC
451 CGTGTAATAGTATAGAGAGAGACTTCATAAAAATCTAAAAAAGATATGAAACTAACTTTCCATTC
* * * * * ** *
1319548 GAAAACGTTTAATGTATTTACCTAAATCATGAGAAAAATGTTAGTAAATTGTCATATTCTCATAA
516 GAAAACGTTTAATGCATTTACCTAAATCACGAGAAAAATATTAATAAACTCACATATTCTCACAA
* * *
1319613 ACTGACAAATTAACTTTACAGATAGACAAATTCTTAGAAATCAACAATTCA
581 ACTGACAAATCAACTTTACACATAAACAAATTCTTAGAAATCAACAATTCA
1319664 CCATAAAATT
Statistics
Matches: 541, Mismatches: 76, Indels: 28
0.84 0.12 0.04
Matches are distributed among these distances:
700 7 0.01
701 195 0.36
702 43 0.08
703 55 0.10
704 35 0.06
705 54 0.10
706 87 0.16
707 65 0.12
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.32
Consensus pattern (703 bp):
TATTCATAAAATCTAAAAAGATATGAAACTAACTTTATATTCGAAAACATTTAATGCATTTACCT
AAATCACAAGAAAAATGTTAATAAACTAACAAATTCTCACAAACTAACAAATCACTTCACAGATA
GACAGATTTATTATAAATCAACAATTCACAACTGAATTTATTTAAATTTCAAATAAAAATCAATA
AACGTTAAATACAAAAACACGCGTAATTATCTACAAAGAGACTTATTCATAAAAATCTAAAAAGA
TATGAAACTATTTCTATTCGAAAACGTTTAAGGCATTTTACCTAAATCACGAGAAAAATATTAAT
AAACTCACATATTCTCACAAACTGACAAATCAACTTTACAGATAGATAGATTCTTATAAATCAAC
AATTCACTACTGAATTTGTTTAAATTTCAAATGAAACACAATAAATTAAATACAAAAACACGTGT
AATAGTATAGAGAGAGACTTCATAAAAATCTAAAAAAGATATGAAACTAACTTTCCATTCGAAAA
CGTTTAATGCATTTACCTAAATCACGAGAAAAATATTAATAAACTCACATATTCTCACAAACTGA
CAAATCAACTTTACACATAAACAAATTCTTAGAAATCAACAATTCATTGCCGAATTTGTTTAGAT
TTCAAATGAAAATTAATAAATGTTAAACACGTGTAATTATATATAGAGAGAAT
Found at i:1319254 original size:467 final size:469
Alignment explanation
Indices: 1318330--1319663 Score: 1593
Period size: 467 Copynumber: 2.8 Consensus size: 469
1318320 CAAAGAGATC
* * * *
1318330 TATTCATAAAATCTAATAAGATATGAAACTAACTTTATATTCGAAAACATTTGATGCATTTACCT
1 TATTCATAAAATCTAAAAAGATATGAAACTAACTTTCTATTCGAAAACGTTTAATGCATTTACCT
* * * * * * *
1318395 AAATCACAAGAAAAATGTTAATAAACTAACAAATTCTCATAAACTAACTAATCACTTCACAGATA
66 AAATCACGAGAAAAATGTTAATAAACTAACATATTCTCACAAACTGACAAACCACTTTACAGATA
* * * * *
1318460 GACATATTTTTTATAATTCAACAATTCACAACTGAATTTGTTTAAATTTCAAATAAAAATTAATG
131 GACATA-TTCTTATAAATCAACAATTCACTACTGAATTTGTTTAAATTTCAAATGAAAATTAATA
* * * * * *
1318525 AACGTTAAATACAAAAACACTTGTAATTGTCTACAAAGAG-ATATATTCATAAAAATCT-AAAAG
195 AATG-T--AT----AAACACGTGTAATTATATATAGAGAGAAT-TATTCATAAAAATCTAAAAAG
* * * * * *
1318588 ATATGAAACT---TTTTTATTTGAATACGTTTAAGGCATTTACCTAGATCACGAGAAAAATATTA
252 ATATGAAACTAACTTTCTATTCGAAAACGTTTAATGCATTTACCTAAATCACGAGAAAAATGTTA
* *
1318650 ATAGACTCACATATTCTCACAAACTGACAAATC-ACTTTACAGATAGACT-GATTCTTATAAATC
317 ATAGATTGACATATTCTCACAAACTGACAAATCAACTTTACAGATAGA-TAGATTCTTATAAATC
* * * * *
1318713 AACAATTCATTGCTGAATTTGTTTAGATTTCAAATGAAGATTAATAAACGTTAAATACCAAAACA
381 AACAATTCATTGCTGAATTTATTTAAATTTCAAATGAAAATCAATAAACGTTAAATACAAAAACA
* *
1318778 CGTGTAATTATATAGAGAGAGACT
446 CGCGTAATTATATACAGAGAGACT
* * *
1318802 TATTCATAAAAGTCTAAAAAGATATGAAACTAACTTTCCATTTGAAAATGTTTAATGCATTTACC
1 TATTCATAAAA-TCTAAAAAGATATGAAACTAACTTTCTATTCGAAAACGTTTAATGCATTTACC
* * * **
1318867 TAAATCACGAG-AAAATATTAATATACTCACATATTCTCACAAACTGACAAACCA-TTTACTCAT
65 TAAATCACGAGAAAAATGTTAATAAACTAACATATTCTCACAAACTGACAAACCACTTTACAGAT
* * * * *
1318930 AAACATATTCTTATAAATCAACAATTCATTGCCGAATTTGTTTAGATTTCAAATGAAAATTAATA
130 AGACATATTCTTATAAATCAACAATTCACTACTGAATTTGTTTAAATTTCAAATGAAAATTAATA
*
1318995 AATGT-TAAACACGTGTAATTATATATAGAGAGAATTATTCATGAAAATCTAAAAAGATATGAAA
195 AATGTATAAACACGTGTAATTATATATAGAGAGAATTATTCATAAAAATCTAAAAAGATATGAAA
1319059 CTAACTTTCTATTCGAAAACGTTTAATGCATTTACCTAAATCACGAGAAAAATGTTAATAGATTG
260 CTAACTTTCTATTCGAAAACGTTTAATGCATTTACCTAAATCACGAGAAAAATGTTAATAGATTG
* * *
1319124 AGAAATTCTCACAAACTGACAAATCAACTTTACAGATAGATAGATTATTATAAATCAACAATTCA
325 ACATATTCTCACAAACTGACAAATCAACTTTACAGATAGATAGATTCTTATAAATCAACAATTCA
* *
1319189 TTGTTGAATTTATTTAAATTTCAAATGAAAATCAATAAATGTTAAGA-ACAAAAACACGCGTAAT
390 TTGCTGAATTTATTTAAATTTCAAATGAAAATCAATAAACGTTAA-ATACAAAAACACGCGTAAT
* *
1319253 TATCTACAGAGTGACT
454 TATATACAGAGAGACT
*
1319269 TATTCATAAAAATCTAAAAATATATGAAACTAACTTTCTATTCGAAAACGTTTAATGCATTTTAC
1 TATTCAT-AAAATCTAAAAAGATATGAAACTAACTTTCTATTCGAAAACGTTTAATGCA-TTTAC
* * * * *
1319334 CTAAATCACGAGAAAAATGTTAGTAAACTGACATATTCTTACAAATTGACAAATCAACTTTACAG
64 CTAAATCACGAGAAAAATGTTAATAAACTAACATATTCTCACAAACTGACAAA-CCACTTTACAG
* * * * *
1319399 ATAGATATATTCTTATAAATCATCAATTTACTATTGAATTTGTTTAAATTTCAAATGAAACA-CA
128 ATAGACATATTCTTATAAATCAACAATTCACTACTGAATTTGTTTAAATTTCAAATGAAA-ATTA
* * * *
1319463 ATAAATTAAGTACAAAAACACGTGTAA-TA-GTCTAGAGAGAGA--CTTCATAAAAATCTAAAAA
192 ATAAA-T--GT--ATAAACACGTGTAATTATATATAGAGAGA-ATTATTCATAAAAATCT-AAAA
* * *
1319524 ATATATGAAACTAACTTTCTATTCGAAAACGTTTAATGTATTTACCTAAATCATGAGAAAAATGT
250 AGATATGAAACTAACTTTCTATTCGAAAACGTTTAATGCATTTACCTAAATCACGAGAAAAATGT
* * * * * * * *
1319589 TAGTAAATTGTCATATTCTCATAAACTGACAAATTAACTTTACAGATAGACAAATTCTTAGAAAT
315 TAATAGATTGACATATTCTCACAAACTGACAAATCAACTTTACAGATAGATAGATTCTTATAAAT
1319654 CAACAATTCA
380 CAACAATTCA
1319664 CCATAAAATT
Statistics
Matches: 739, Mismatches: 100, Indels: 43
0.84 0.11 0.05
Matches are distributed among these distances:
462 35 0.05
463 17 0.02
466 77 0.10
467 153 0.21
468 22 0.03
469 35 0.05
470 54 0.07
471 74 0.10
472 48 0.06
473 56 0.08
474 14 0.02
475 139 0.19
476 3 0.00
477 12 0.02
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.32
Consensus pattern (469 bp):
TATTCATAAAATCTAAAAAGATATGAAACTAACTTTCTATTCGAAAACGTTTAATGCATTTACCT
AAATCACGAGAAAAATGTTAATAAACTAACATATTCTCACAAACTGACAAACCACTTTACAGATA
GACATATTCTTATAAATCAACAATTCACTACTGAATTTGTTTAAATTTCAAATGAAAATTAATAA
ATGTATAAACACGTGTAATTATATATAGAGAGAATTATTCATAAAAATCTAAAAAGATATGAAAC
TAACTTTCTATTCGAAAACGTTTAATGCATTTACCTAAATCACGAGAAAAATGTTAATAGATTGA
CATATTCTCACAAACTGACAAATCAACTTTACAGATAGATAGATTCTTATAAATCAACAATTCAT
TGCTGAATTTATTTAAATTTCAAATGAAAATCAATAAACGTTAAATACAAAAACACGCGTAATTA
TATACAGAGAGACT
Found at i:1319630 original size:235 final size:233
Alignment explanation
Indices: 1318332--1319688 Score: 1456
Period size: 235 Copynumber: 5.8 Consensus size: 233
1318322 AAGAGATCTA
* * * *
1318332 TTCAT-AAAATCTAATAAGATATGAAACTAACTTTATATTCGAAAACATTTGATGCATTTACCTA
1 TTCATAAAAATCTAAAAAGATATGAAACTAACTTTCTATTCGAAAACGTTTAATGCATTTACCTA
* * * * * * *
1318396 AATCACAAGAAAAATGTTAATAAACTAACAAATTCTCATAAACTAACTAATC-ACTTCACAGATA
66 AATCACGAGAAAAATGTTAATAAACTGACATATTCTCACAAACTGAC-AAACAACTTTACAGATA
* * * *
1318460 GACATATTTTTTATAATTCAACAATTCACAACTGAATTTGTTTAAATTTCAAATAAAAATTAATG
130 GACATA-TTCTTATAAATCAACAATTCACTACTGAATTTGTTTAAATTTCAAATGAAAATTAAT-
* * * * * * *
1318525 AACGTTAAATACAAAAACACTTGTAATTGTCTACAAAGAGATATA
193 AA-ATTAAGTACAAAAACACGTGTAATTATCT--AGAGAGAGA-C
* * * *
1318570 TTCATAAAAATCT-AAAAGATATGAAACT---TTTTTATTTGAATACGTTTAAGGCATTTACCTA
1 TTCATAAAAATCTAAAAAGATATGAAACTAACTTTCTATTCGAAAACGTTTAATGCATTTACCTA
* * * *
1318631 GATCACGAGAAAAATATTAATAGACTCACATATTCTCACAAACTGACAAATC-ACTTTACAGATA
66 AATCACGAGAAAAATGTTAATAAACTGACATATTCTCACAAACTGACAAA-CAACTTTACAGATA
* * * *
1318695 GAC-TGATTCTTATAAATCAACAATTCATTGCTGAATTTGTTTAGATTTCAAATGAAGATTAATA
130 GACAT-ATTCTTATAAATCAACAATTCACTACTGAATTTGTTTAAATTTCAAATGAAAATTAATA
* * *
1318759 AACGTTAAATACCAAAACACGTGTAATTATATAGAGAGAGAC
194 AA--TTAAGTACAAAAACACGTGTAATTATCTAGAGAGAGAC
* * * *
1318801 TTATTCATAAAAGTCTAAAAAGATATGAAACTAACTTTCCATTTGAAAATGTTTAATGCATTTAC
1 ---TTCATAAAAATCTAAAAAGATATGAAACTAACTTTCTATTCGAAAACGTTTAATGCATTTAC
* * * * **
1318866 CTAAATCACGAG-AAAATATTAATATACTCACATATTCTCACAAACTGACAAACCA-TTTACTCA
63 CTAAATCACGAGAAAAATGTTAATAAACTGACATATTCTCACAAACTGACAAACAACTTTACAGA
* * * * *
1318929 TAAACATATTCTTATAAATCAACAATTCATTGCCGAATTTGTTTAGATTTCAAATGAAAATTAAT
128 TAGACATATTCTTATAAATCAACAATTCACTACTGAATTTGTTTAAATTTCAAATGAAAATTAAT
* * * *
1318994 AAA-T--GT---TAAACACGTGTAATTATATATAGAGAGAATTA
193 AAATTAAGTACAAAAACACGTGTAATTATCTAGAGAGAG-A--C
*
1319032 TTCATGAAAATCTAAAAAGATATGAAACTAACTTTCTATTCGAAAACGTTTAATGCATTTACCTA
1 TTCATAAAAATCTAAAAAGATATGAAACTAACTTTCTATTCGAAAACGTTTAATGCATTTACCTA
* * * *
1319097 AATCACGAGAAAAATGTTAATAGATTGAGAAATTCTCACAAACTGACAAATCAACTTTACAGATA
66 AATCACGAGAAAAATGTTAATAAACTGACATATTCTCACAAACTGACAAA-CAACTTTACAGATA
* * * * ** * *
1319162 GATAGATTATTATAAATCAACAATTCATTGTTGAATTTATTTAAATTTCAAATGAAAATCAATAA
130 GACATATTCTTATAAATCAACAATTCACTACTGAATTTGTTTAAATTTCAAATGAAAATTAATAA
* * * *
1319227 ATGTTAAGAACAAAAACACGCGTAATTATCTACAGAGTGAC
195 A--TTAAGTACAAAAACACGTGTAATTATCTAGAGAGAGAC
*
1319268 TTATTCATAAAAATCTAAAAATATATGAAACTAACTTTCTATTCGAAAACGTTTAATGCATTTTA
1 ---TTCATAAAAATCTAAAAAGATATGAAACTAACTTTCTATTCGAAAACGTTTAATGCA-TTTA
* * *
1319333 CCTAAATCACGAGAAAAATGTTAGTAAACTGACATATTCTTACAAATTGACAAATCAACTTTACA
62 CCTAAATCACGAGAAAAATGTTAATAAACTGACATATTCTCACAAACTGACAAA-CAACTTTACA
* * * * *
1319398 GATAGATATATTCTTATAAATCATCAATTTACTATTGAATTTGTTTAAATTTCAAATGAAACA-C
126 GATAGACATATTCTTATAAATCAACAATTCACTACTGAATTTGTTTAAATTTCAAATGAAA-ATT
1319462 AATAAATTAAGTACAAAAACACGTGTAA-TAGTCTAGAGAGAGAC
190 AATAAATTAAGTACAAAAACACGTGTAATTA-TCTAGAGAGAGAC
* *
1319506 TTCATAAAAATCTAAAAAATATATGAAACTAACTTTCTATTCGAAAACGTTTAATGTATTTACCT
1 TTCATAAAAATCT-AAAAAGATATGAAACTAACTTTCTATTCGAAAACGTTTAATGCATTTACCT
* * * * * *
1319571 AAATCATGAGAAAAATGTTAGTAAATTGTCATATTCTCATAAACTGACAAATTAACTTTACAGAT
65 AAATCACGAGAAAAATGTTAATAAACTGACATATTCTCACAAACTGACAAA-CAACTTTACAGAT
* * * *
1319636 AGACAAATTCTTAGAAATCAACAATTCACCA-TAAAATTTGTTTAAAATTTCAA
129 AGACATATTCTTATAAATCAACAATTCACTACT-GAATTTGTTT-AAATTTCAA
1319689 TAAAAATAAA
Statistics
Matches: 967, Mismatches: 115, Indels: 76
0.84 0.10 0.07
Matches are distributed among these distances:
228 94 0.10
229 35 0.04
230 2 0.00
231 66 0.07
232 7 0.01
233 3 0.00
234 90 0.09
235 209 0.22
236 123 0.13
237 43 0.04
238 87 0.09
239 84 0.09
240 123 0.13
241 1 0.00
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.32
Consensus pattern (233 bp):
TTCATAAAAATCTAAAAAGATATGAAACTAACTTTCTATTCGAAAACGTTTAATGCATTTACCTA
AATCACGAGAAAAATGTTAATAAACTGACATATTCTCACAAACTGACAAACAACTTTACAGATAG
ACATATTCTTATAAATCAACAATTCACTACTGAATTTGTTTAAATTTCAAATGAAAATTAATAAA
TTAAGTACAAAAACACGTGTAATTATCTAGAGAGAGAC
Found at i:1335062 original size:6 final size:6
Alignment explanation
Indices: 1335051--1335102 Score: 104
Period size: 6 Copynumber: 8.7 Consensus size: 6
1335041 AAATGACTCC
1335051 TTATAA TTATAA TTATAA TTATAA TTATAA TTATAA TTATAA TTATAA
1 TTATAA TTATAA TTATAA TTATAA TTATAA TTATAA TTATAA TTATAA
1335099 TTAT
1 TTAT
1335103 TATGTTTTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTATAA
Found at i:1343273 original size:20 final size:20
Alignment explanation
Indices: 1343248--1343289 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
1343238 CATACCAAAA
1343248 TTCTCTCAAATCATCTCAAC
1 TTCTCTCAAATCATCTCAAC
*
1343268 TTCTCTCAAATCCTCTCAAC
1 TTCTCTCAAATCATCTCAAC
1343288 TT
1 TT
1343290 AAGGTATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.26, C:0.36, G:0.00, T:0.38
Consensus pattern (20 bp):
TTCTCTCAAATCATCTCAAC
Found at i:1343317 original size:17 final size:18
Alignment explanation
Indices: 1343295--1343328 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1343285 AACTTAAGGT
1343295 ATATTTTATTA-TATTTA
1 ATATTTTATTAGTATTTA
*
1343312 ATATTTTGTTAGTATTT
1 ATATTTTATTAGTATTT
1343329 TATTTAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTTATTAGTATTTA
Found at i:1344058 original size:20 final size:20
Alignment explanation
Indices: 1344029--1344067 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1344019 AGAGCTCATA
*
1344029 TAAGATCATATAGATGCATT
1 TAAGAGCATATAGATGCATT
*
1344049 TAAGAGCATATAGTTGCAT
1 TAAGAGCATATAGATGCAT
1344068 GTGGTGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.33
Consensus pattern (20 bp):
TAAGAGCATATAGATGCATT
Found at i:1351915 original size:11 final size:11
Alignment explanation
Indices: 1351899--1351925 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
1351889 CCCACTTTGT
1351899 AAAAAAAAAGA
1 AAAAAAAAAGA
1351910 AAAAAAAAAGA
1 AAAAAAAAAGA
1351921 AAAAA
1 AAAAA
1351926 TGAAGTTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:1355640 original size:15 final size:15
Alignment explanation
Indices: 1355620--1355651 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1355610 TAACGACGAC
*
1355620 GATGATGATGATGGT
1 GATGATGATGATAGT
1355635 GATGATGATGATAGT
1 GATGATGATGATAGT
1355650 GA
1 GA
1355652 GGAGTCAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.38, T:0.31
Consensus pattern (15 bp):
GATGATGATGATAGT
Found at i:1359468 original size:60 final size:60
Alignment explanation
Indices: 1359349--1359473 Score: 139
Period size: 60 Copynumber: 2.1 Consensus size: 60
1359339 ATGAATAATA
* * * * * *
1359349 ATCATTTTATAATTTTTAATAGTTAAATGATTTAATAAAATAACACTTTATAATCAAAAT
1 ATCATTTTATAATTTATAATAGATAAATGATTCAACAAAACAACACATTATAATCAAAAT
* * *
1359409 ATCATTTTGTAATTTATAATA-ATAGAATGATTCAACAAAACAA-ACATTATACTCGAAA-
1 ATCATTTTATAATTTATAATAGATA-AATGATTCAACAAAACAACACATTATAATCAAAAT
1359467 ATCATTT
1 ATCATTT
1359474 GTGTAGTTCA
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
58 7 0.13
59 14 0.25
60 34 0.62
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.39
Consensus pattern (60 bp):
ATCATTTTATAATTTATAATAGATAAATGATTCAACAAAACAACACATTATAATCAAAAT
Found at i:1363904 original size:25 final size:25
Alignment explanation
Indices: 1363871--1363929 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
1363861 CGAGTAAAAT
*
1363871 GGTTTGGTTCGGTTT-GATTTTAAAC
1 GGTTCGGTTCGGTTTAG-TTTTAAAC
*
1363896 GGTTCGGTTCGGTTTAGTTTTAAAT
1 GGTTCGGTTCGGTTTAGTTTTAAAC
1363921 GGTTCGGTT
1 GGTTCGGTT
1363930 TTTAGTTCGG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 30 0.97
26 1 0.03
ACGTcount: A:0.14, C:0.08, G:0.31, T:0.47
Consensus pattern (25 bp):
GGTTCGGTTCGGTTTAGTTTTAAAC
Found at i:1370194 original size:22 final size:21
Alignment explanation
Indices: 1370169--1370218 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 21
1370159 TCCTTGACAT
1370169 TTAAATTGTTATATTATTTGTC
1 TTAAA-TGTTATATTATTTGTC
1370191 TTAAA----ATATTATTTGTC
1 TTAAATGTTATATTATTTGTC
1370208 TTAAAATGTTA
1 TT-AAATGTTA
1370219 ATTCTATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 10
0.70 0.00 0.30
Matches are distributed among these distances:
17 14 0.61
18 3 0.13
22 6 0.26
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.54
Consensus pattern (21 bp):
TTAAATGTTATATTATTTGTC
Found at i:1370199 original size:17 final size:17
Alignment explanation
Indices: 1370179--1370214 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
1370169 TTAAATTGTT
1370179 ATATTATTTGTCTTAAA
1 ATATTATTTGTCTTAAA
1370196 ATATTATTTGTCTTAAA
1 ATATTATTTGTCTTAAA
1370213 AT
1 AT
1370215 GTTAATTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.53
Consensus pattern (17 bp):
ATATTATTTGTCTTAAA
Found at i:1381446 original size:21 final size:18
Alignment explanation
Indices: 1381406--1381441 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1381396 AATATAATTC
1381406 AATATATTAAAGGAAGAA
1 AATATATTAAAGGAAGAA
*
1381424 AATATATTAAACGAAGAA
1 AATATATTAAAGGAAGAA
1381442 GAAAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.61, C:0.03, G:0.14, T:0.22
Consensus pattern (18 bp):
AATATATTAAAGGAAGAA
Found at i:1384130 original size:20 final size:22
Alignment explanation
Indices: 1384101--1384146 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
1384091 CTAAGTTGTT
* *
1384101 CTAACGAAT-AAACTGCAA-GC
1 CTAACAAATAAAAATGCAAGGC
1384121 CTAACAAATAAAAATGCAAGGC
1 CTAACAAATAAAAATGCAAGGC
1384143 CTAA
1 CTAA
1384147 TTTTCTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 8 0.36
21 8 0.36
22 6 0.27
ACGTcount: A:0.50, C:0.22, G:0.13, T:0.15
Consensus pattern (22 bp):
CTAACAAATAAAAATGCAAGGC
Found at i:1384648 original size:14 final size:14
Alignment explanation
Indices: 1384629--1384668 Score: 80
Period size: 14 Copynumber: 2.9 Consensus size: 14
1384619 TTTCTATCGT
1384629 TGGATTTGAAGTTA
1 TGGATTTGAAGTTA
1384643 TGGATTTGAAGTTA
1 TGGATTTGAAGTTA
1384657 TGGATTTGAAGT
1 TGGATTTGAAGT
1384669 AACAAAAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (14 bp):
TGGATTTGAAGTTA
Found at i:1384874 original size:60 final size:60
Alignment explanation
Indices: 1384780--1384929 Score: 160
Period size: 60 Copynumber: 2.5 Consensus size: 60
1384770 AATTAATCCC
* * *
1384780 TAAACTTTTAAACATTTCAATTTTATTCTTAAACTATGA-CTATCGTTCTAAATCAATTCT
1 TAAACTTTTAAACATTTCAATTTTATCCTCAAACTATGATCT-TCATTCTAAATCAATTCT
* * * * *
1384840 TAAACTTTTAAACATTTC-ATTTTCATCCTCAAACTGTGATCTTCATTCTAAATTAGTCCC
1 TAAACTTTTAAACATTTCAATTTT-ATCCTCAAACTATGATCTTCATTCTAAATCAATTCT
* * *
1384900 CAAACTTTTTGAATATTTCAATTTTATCCT
1 TAAAC-TTTTAAACATTTCAATTTTATCCT
1384930 AAATTATACG
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
59 5 0.07
60 47 0.63
61 18 0.24
62 5 0.07
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.45
Consensus pattern (60 bp):
TAAACTTTTAAACATTTCAATTTTATCCTCAAACTATGATCTTCATTCTAAATCAATTCT
Found at i:1389494 original size:33 final size:33
Alignment explanation
Indices: 1389419--1389502 Score: 100
Period size: 34 Copynumber: 2.5 Consensus size: 33
1389409 GTAATAAACA
*
1389419 AAATTAACCAAAATACATTAACAAAAAGTCCAAC
1 AAATTAA-CAAAATAAATTAACAAAAAGTCCAAC
1389453 AAATTTAACAAAATAAATTAA-AATAAA-TCCAACC
1 AAA-TTAACAAAATAAATTAACAA-AAAGTCCAA-C
*
1389487 AAATTAACGAAATAAA
1 AAATTAACAAAATAAA
1389503 GTATTAAATG
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
33 19 0.42
34 22 0.49
35 4 0.09
ACGTcount: A:0.62, C:0.15, G:0.02, T:0.20
Consensus pattern (33 bp):
AAATTAACAAAATAAATTAACAAAAAGTCCAAC
Found at i:1391732 original size:17 final size:17
Alignment explanation
Indices: 1391707--1391739 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
1391697 TAATTAAATA
1391707 AAATATTAAA-AAATTT
1 AAATATTAAATAAATTT
1391723 AAATACTTAAATAAATT
1 AAATA-TTAAATAAATT
1391740 ACAAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATTAAATAAATTT
Found at i:1392553 original size:21 final size:21
Alignment explanation
Indices: 1392529--1392573 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
1392519 CCAAGTTTCC
1392529 AAATTTGCAACGCG-ATTATGT
1 AAATTTGCAACGCGAATT-TGT
1392550 AAA-TTGCAACGCGAATTTGT
1 AAATTTGCAACGCGAATTTGT
1392570 AAAT
1 AAAT
1392574 CACAACACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (21 bp):
AAATTTGCAACGCGAATTTGT
Found at i:1392579 original size:20 final size:20
Alignment explanation
Indices: 1392536--1392579 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
1392526 TCCAAATTTG
**
1392536 CAACGCGATTATGTAAATTG
1 CAACGCGATTATGTAAATCA
1392556 CAACGCGAATT-TGTAAATCA
1 CAACGCG-ATTATGTAAATCA
1392576 CAAC
1 CAAC
1392580 ACATAAGTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (20 bp):
CAACGCGATTATGTAAATCA
Found at i:1392601 original size:20 final size:20
Alignment explanation
Indices: 1392576--1392618 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
1392566 TTGTAAATCA
*
1392576 CAACACATAAGTCAAATTCG
1 CAACACAAAAGTCAAATTCG
1392596 CAACACAAAAGTCAAATTCG
1 CAACACAAAAGTCAAATTCG
1392616 CAA
1 CAA
1392619 AGTGCGTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.26, G:0.09, T:0.16
Consensus pattern (20 bp):
CAACACAAAAGTCAAATTCG
Found at i:1393191 original size:20 final size:20
Alignment explanation
Indices: 1393147--1393194 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
1393137 CTTAAATTCA
*
1393147 CAACACGAAAATGAAAATCG
1 CAACGCGAAAATGAAAATCG
*
1393167 CAACGCGAACATGAAAATCG
1 CAACGCGAAAATGAAAATCG
1393187 CAACGCGA
1 CAACGCGA
1393195 TTTTAGTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.48, C:0.25, G:0.19, T:0.08
Consensus pattern (20 bp):
CAACGCGAAAATGAAAATCG
Found at i:1393224 original size:20 final size:20
Alignment explanation
Indices: 1393191--1393294 Score: 129
Period size: 20 Copynumber: 5.2 Consensus size: 20
1393181 AAATCGCAAC
*
1393191 GCGA-TTTTAGTTTCGCGTT
1 GCGATTTTTATTTTCGCGTT
*
1393210 GCGATTTTTATTTTCGTGTT
1 GCGATTTTTATTTTCGCGTT
* *
1393230 GCGATTTTCATGTTCGCGTT
1 GCGATTTTTATTTTCGCGTT
*
1393250 GCGATTTTCTAGTTTCGCGTT
1 GCGATTTT-TATTTTCGCGTT
* *
1393271 TCGATTTTAATTTTCGCGTT
1 GCGATTTTTATTTTCGCGTT
1393291 GCGA
1 GCGA
1393295 ATTTAAGTTT
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
19 4 0.06
20 51 0.72
21 16 0.23
ACGTcount: A:0.12, C:0.16, G:0.23, T:0.49
Consensus pattern (20 bp):
GCGATTTTTATTTTCGCGTT
Found at i:1393278 original size:41 final size:40
Alignment explanation
Indices: 1393191--1393305 Score: 142
Period size: 41 Copynumber: 2.9 Consensus size: 40
1393181 AAATCGCAAC
* * *
1393191 GCGATTTTAGT-TTCGCGTTGCGATTTTTATTTTCGTGTT
1 GCGATTTTAATGTTCGCGTTGCGATTTTTAGTTTCGCGTT
*
1393230 GCGATTTTCATGTTCGCGTTGCGATTTTCTAGTTTCGCGTT
1 GCGATTTTAATGTTCGCGTTGCGATTTT-TAGTTTCGCGTT
* * * *
1393271 TCGATTTTAATTTTCGCGTTGCGAATTTAAGTTTC
1 GCGATTTTAATGTTCGCGTTGCGATTTTTAGTTTC
1393306 AGAAACTACT
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
39 9 0.14
40 22 0.34
41 34 0.52
ACGTcount: A:0.13, C:0.16, G:0.22, T:0.50
Consensus pattern (40 bp):
GCGATTTTAATGTTCGCGTTGCGATTTTTAGTTTCGCGTT
Found at i:1394643 original size:22 final size:22
Alignment explanation
Indices: 1394618--1394661 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
1394608 TACCATATAT
1394618 AAACAAGTTATTACTAGTACAC
1 AAACAAGTTATTACTAGTACAC
1394640 AAACAAGTTATTACTAGTACAC
1 AAACAAGTTATTACTAGTACAC
1394662 GTTTAACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.27
Consensus pattern (22 bp):
AAACAAGTTATTACTAGTACAC
Found at i:1395343 original size:383 final size:383
Alignment explanation
Indices: 1394636--1395402 Score: 1507
Period size: 383 Copynumber: 2.0 Consensus size: 383
1394626 TATTACTAGT
1394636 ACACAAACAAGTTATTACTAGTACACGTTTAACTTTGTTTGAACTTTTATATTGTTAGGAGGCTA
1 ACACAAACAAGTTATTACTAGTACACGTTTAACTTTGTTTGAACTTTTATATTGTTAGGAGGCTA
1394701 ACTATCCATTACAGTGACTGACACCCACAGAGACTGAGCTTGCCACTGATTGGTGGCAAGCTAGT
66 ACTATCCATTACAGTGACTGACACCCACAGAGACTGAGCTTGCCACTGATTGGTGGCAAGCTAGT
1394766 AAGTTGTTTTTTGATAAGACGGATGATGAGCACCCCCCACTTCGAGAGCCATCACCTGATCTGGC
131 AAGTTGTTTTTTGATAAGACGGATGATGAGCACCCCCCACTTCGAGAGCCATCACCTGATCTGGC
1394831 CGATTCTACAGCTCGACACCCGGAGCCATCATCTGATCGAGCCTCTTCTCCACCTCCACCATCAC
196 CGATTCTACAGCTCGACACCCGGAGCCATCATCTGATCGAGCCTCTTCTCCACCTCCACCATCAC
*
1394896 CTATTCCATCACATCATCGAGTCTCTTCTCCACTATCACCTCATGATAGGCGACGGACAAAGAGG
261 CTATTCCATCACATCATCGAGTCTCTTCTCCACCATCACCTCATGATAGGCGACGGACAAAGAGG
1394961 TCACGACATTTATCTCCCTGTTCTCCACCTCCACGGGATGAGTTAGGGGTGTTACGTG
326 TCACGACATTTATCTCCCTGTTCTCCACCTCCACGGGATGAGTTAGGGGTGTTACGTG
1395019 ACACAAACAAGTTATTACTAGTACACGTTTAACTTTGTTTGAACTTTTATATTGTTAGGAGGCTA
1 ACACAAACAAGTTATTACTAGTACACGTTTAACTTTGTTTGAACTTTTATATTGTTAGGAGGCTA
*
1395084 ACTATCCATTACAGTGACTGACACCCACAGAGGCTGAGCTTGCCACTGATTGGTGGCAAGCTAGT
66 ACTATCCATTACAGTGACTGACACCCACAGAGACTGAGCTTGCCACTGATTGGTGGCAAGCTAGT
*
1395149 AAGTTGTTTTTTGATAAGACGGATGATGAGCACCCCCCACTTCGAGAGCCATCATCTGATCTGGC
131 AAGTTGTTTTTTGATAAGACGGATGATGAGCACCCCCCACTTCGAGAGCCATCACCTGATCTGGC
1395214 CGATTCTACAGCTCGACACCCGGAGCCATCATCTGATCGAGCCTCTTCTCCACCTCCACCATCAC
196 CGATTCTACAGCTCGACACCCGGAGCCATCATCTGATCGAGCCTCTTCTCCACCTCCACCATCAC
1395279 CTATTCCATCACATCATCGAGTCTCTTCTCCACCATCACCTCATGATAGGCGACGGACAAAGAGG
261 CTATTCCATCACATCATCGAGTCTCTTCTCCACCATCACCTCATGATAGGCGACGGACAAAGAGG
1395344 TCACGACATTTATCTCCCTGTTCTCCACCTCCACGGGATGAGTTAGGGGTGTTACGTG
326 TCACGACATTTATCTCCCTGTTCTCCACCTCCACGGGATGAGTTAGGGGTGTTACGTG
1395402 A
1 A
1395403 TGAGGTCGGT
Statistics
Matches: 381, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
383 381 1.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (383 bp):
ACACAAACAAGTTATTACTAGTACACGTTTAACTTTGTTTGAACTTTTATATTGTTAGGAGGCTA
ACTATCCATTACAGTGACTGACACCCACAGAGACTGAGCTTGCCACTGATTGGTGGCAAGCTAGT
AAGTTGTTTTTTGATAAGACGGATGATGAGCACCCCCCACTTCGAGAGCCATCACCTGATCTGGC
CGATTCTACAGCTCGACACCCGGAGCCATCATCTGATCGAGCCTCTTCTCCACCTCCACCATCAC
CTATTCCATCACATCATCGAGTCTCTTCTCCACCATCACCTCATGATAGGCGACGGACAAAGAGG
TCACGACATTTATCTCCCTGTTCTCCACCTCCACGGGATGAGTTAGGGGTGTTACGTG
Found at i:1395922 original size:21 final size:21
Alignment explanation
Indices: 1395875--1395929 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
1395865 GGTGTCTCCT
* *
1395875 ATCGTTCACGAGGCCCCTCTC
1 ATCGTTCAAGAGGCCCATCTC
* *
1395896 ACCGTTCAAGAGGCCCATGTC
1 ATCGTTCAAGAGGCCCATCTC
*
1395917 ATCGTTTAAGAGG
1 ATCGTTCAAGAGG
1395930 TCAAGCCCGC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.22, C:0.31, G:0.24, T:0.24
Consensus pattern (21 bp):
ATCGTTCAAGAGGCCCATCTC
Found at i:1397944 original size:34 final size:34
Alignment explanation
Indices: 1397895--1397980 Score: 138
Period size: 34 Copynumber: 2.5 Consensus size: 34
1397885 ACTTTCGCAA
*
1397895 CGCGAAAGTCAAATTCGCGTTACGATTTTCTCG-
1 CGCGATAGTCAAATTCGCGTTACGATTTTCTCGT
*
1397928 CTGCGATAGTCAAATTCGCGTTGCGATTTTCTCGT
1 C-GCGATAGTCAAATTCGCGTTACGATTTTCTCGT
1397963 CGCGATAGTCAAATTCGC
1 CGCGATAGTCAAATTCGC
1397981 AACGCGAAAG
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
33 1 0.02
34 47 0.96
35 1 0.02
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.31
Consensus pattern (34 bp):
CGCGATAGTCAAATTCGCGTTACGATTTTCTCGT
Found at i:1397992 original size:20 final size:20
Alignment explanation
Indices: 1397963--1398060 Score: 108
Period size: 20 Copynumber: 4.9 Consensus size: 20
1397953 ATTTTCTCGT
*
1397963 CGCGATAGTCAAATTCGCAA
1 CGCGAAAGTCAAATTCGCAA
* *
1397983 CGCGAAAGTCAAATTCGTAT
1 CGCGAAAGTCAAATTCGCAA
* *
1398003 TGC-AATAGTCAAATTTGCAA
1 CGCGAA-AGTCAAATTCGCAA
** *
1398023 CGTTAAAGTTAAATTCGCAA
1 CGCGAAAGTCAAATTCGCAA
1398043 CGCGAAAGTCAAATTCGC
1 CGCGAAAGTCAAATTCGC
1398061 GTTGTAATTT
Statistics
Matches: 62, Mismatches: 14, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
19 2 0.03
20 58 0.94
21 2 0.03
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.24
Consensus pattern (20 bp):
CGCGAAAGTCAAATTCGCAA
Found at i:1400679 original size:24 final size:24
Alignment explanation
Indices: 1400645--1400698 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
1400635 CTGAAACATC
*
1400645 ATCAAAATCCGAGTATTGATAAAG
1 ATCAAAATCCGAGTATTGACAAAG
* * *
1400669 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACAAAG
1400693 ATCAAA
1 ATCAAA
1400699 TTTCGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACAAAG
Found at i:1401889 original size:2 final size:2
Alignment explanation
Indices: 1401882--1401907 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1401872 GGTTATTTTC
1401882 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
1401908 AAAGTTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1406489 original size:2 final size:2
Alignment explanation
Indices: 1406482--1406536 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
1406472 CCACTATTAC
1406482 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
1406524 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
1406537 CATTATATCA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1407296 original size:33 final size:33
Alignment explanation
Indices: 1407219--1407318 Score: 112
Period size: 33 Copynumber: 2.9 Consensus size: 33
1407209 TTTATTTTGT
1407219 TCGGGTCGGG-TTTTTTAAGTGTGATATTCGGGTCGAG
1 TCGGGTCGGGTTTTTTTAAGTGTGATA-T----TCGAG
*
1407256 TCTGGTCGGGTTTTTTTAAGTGTGATATTCGAG
1 TCGGGTCGGGTTTTTTTAAGTGTGATATTCGAG
* * *
1407289 TCGGGTCGGTTTTTTTTAAATGTAATATTC
1 TCGGGTCGGGTTTTTTTAAGTGTGATATTC
1407319 AGGTTAGATC
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
33 31 0.54
37 10 0.18
38 16 0.28
ACGTcount: A:0.16, C:0.10, G:0.30, T:0.44
Consensus pattern (33 bp):
TCGGGTCGGGTTTTTTTAAGTGTGATATTCGAG
Found at i:1407332 original size:38 final size:35
Alignment explanation
Indices: 1407219--1407332 Score: 108
Period size: 38 Copynumber: 3.2 Consensus size: 35
1407209 TTTATTTTGT
* *
1407219 TCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGA
1 TCGGGTCGGTTTTTTTAAGTGTGATATTC-GGTAGA
*
1407255 GTCTGGTCGGGTTTTTTTAAGTGTGATATTC-G-AG-
1 -TCGGGTC-GGTTTTTTTAAGTGTGATATTCGGTAGA
* *
1407289 TCGGGTCGGTTTTTTTTAAATGTAATATTCAGGTTAGA
1 TCGGGTCGG-TTTTTTTAAGTGTGATATTC-GG-TAGA
1407327 TCGGGT
1 TCGGGT
1407333 TCGGGTTTAG
Statistics
Matches: 64, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
32 2 0.03
33 24 0.38
35 2 0.03
36 1 0.02
37 8 0.12
38 27 0.42
ACGTcount: A:0.17, C:0.10, G:0.32, T:0.42
Consensus pattern (35 bp):
TCGGGTCGGTTTTTTTAAGTGTGATATTCGGTAGA
Found at i:1407950 original size:17 final size:17
Alignment explanation
Indices: 1407924--1407971 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
1407914 ATATGAAATT
* *
1407924 AGATTTCAATTCCTGAC
1 AGATTCCAATTCCTCAC
*
1407941 AGATTCCAATTTCTTCAC
1 AGATTCCAA-TTCCTCAC
*
1407959 ATATTCCAATTCC
1 AGATTCCAATTCC
1407972 CTCATAAACA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.29, C:0.27, G:0.06, T:0.38
Consensus pattern (17 bp):
AGATTCCAATTCCTCAC
Found at i:1408283 original size:13 final size:13
Alignment explanation
Indices: 1408265--1408290 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1408255 CAACTATAAG
1408265 ATGTCACTTTGTT
1 ATGTCACTTTGTT
1408278 ATGTCACTTTGTT
1 ATGTCACTTTGTT
1408291 GAGTAATCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.54
Consensus pattern (13 bp):
ATGTCACTTTGTT
Found at i:1413389 original size:52 final size:52
Alignment explanation
Indices: 1413311--1413414 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
1413301 GTTGCTTGGC
1413311 CTTATTCAACCCAAAGAACTTGTCAATCACATTTCACTTTCACATTCATATA
1 CTTATTCAACCCAAAGAACTTGTCAATCACATTTCACTTTCACATTCATATA
*
1413363 CTTATTCAACCCCAAGAACTTGTCAATCACATTTCACTTTCACATTCATATA
1 CTTATTCAACCCAAAGAACTTGTCAATCACATTTCACTTTCACATTCATATA
1413415 AATACTCCAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.34, C:0.28, G:0.04, T:0.35
Consensus pattern (52 bp):
CTTATTCAACCCAAAGAACTTGTCAATCACATTTCACTTTCACATTCATATA
Found at i:1420197 original size:39 final size:39
Alignment explanation
Indices: 1420154--1420239 Score: 163
Period size: 39 Copynumber: 2.2 Consensus size: 39
1420144 ACTCCCCTAT
*
1420154 TATCTAATTTCTATTTTTGTCATTTGGTTATTAAAAATA
1 TATCTAATTTCTATTTTTGTCATTTGATTATTAAAAATA
1420193 TATCTAATTTCTATTTTTGTCATTTGATTATTAAAAATA
1 TATCTAATTTCTATTTTTGTCATTTGATTATTAAAAATA
1420232 TATCTAAT
1 TATCTAAT
1420240 ATTAAATTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.53
Consensus pattern (39 bp):
TATCTAATTTCTATTTTTGTCATTTGATTATTAAAAATA
Found at i:1429820 original size:23 final size:23
Alignment explanation
Indices: 1429788--1429860 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
1429778 TGTTCGTTTA
* *
1429788 TTTAACATTCGCGAACGTGTTCG
1 TTTAACATTCGTGAACATGTTCG
* *
1429811 TTTAATATTCATGAACATGTTCG
1 TTTAACATTCGTGAACATGTTCG
* *
1429834 TTCAACATTCGTGAACATTTTCG
1 TTTAACATTCGTGAACATGTTCG
1429857 TTTA
1 TTTA
1429861 GTGTTTGTTC
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (23 bp):
TTTAACATTCGTGAACATGTTCG
Found at i:1432407 original size:20 final size:20
Alignment explanation
Indices: 1432384--1432426 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1432374 AATCCACCAC
*
1432384 ATGCAACTATATGCTCCTAA
1 ATGCAACTAAATGCTCCTAA
* *
1432404 ATGCATCTAAATGGTCCTAA
1 ATGCAACTAAATGCTCCTAA
1432424 ATG
1 ATG
1432427 GGCTCTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGCAACTAAATGCTCCTAA
Found at i:1435061 original size:13 final size:13
Alignment explanation
Indices: 1435045--1435084 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
1435035 AGGAAACTAG
1435045 AAAGTGAAAGTAA
1 AAAGTGAAAGTAA
* *
1435058 AAAGAGAAAGTGA
1 AAAGTGAAAGTAA
1435071 AAAGTGAAAAGTAA
1 AAAGTG-AAAGTAA
1435085 GTGGGGTAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.62, C:0.00, G:0.25, T:0.12
Consensus pattern (13 bp):
AAAGTGAAAGTAA
Found at i:1442755 original size:20 final size:20
Alignment explanation
Indices: 1442732--1442774 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1442722 AATCCACCAC
*
1442732 ATGCAACTATATGCTCCTAA
1 ATGCAACTAAATGCTCCTAA
* *
1442752 ATGCATCTAAATGGTCCTAA
1 ATGCAACTAAATGCTCCTAA
1442772 ATG
1 ATG
1442775 GGCTCTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGCAACTAAATGCTCCTAA
Found at i:1444584 original size:2 final size:2
Alignment explanation
Indices: 1444577--1444621 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
1444567 GGTTTCGCAA
1444577 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
1444619 AT A
1 AT A
1444622 GTTATTCGTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1445345 original size:31 final size:31
Alignment explanation
Indices: 1445261--1445350 Score: 144
Period size: 31 Copynumber: 2.9 Consensus size: 31
1445251 TACAATCTCT
*
1445261 AACATTTAGTCTGTTTGCAATACAGTCCCCC
1 AACATTTAGTCTGTTTGCAATATAGTCCCCC
*
1445292 AACATTTAGTCCGTTTGCAATATAGTCCCCC
1 AACATTTAGTCTGTTTGCAATATAGTCCCCC
* *
1445323 AACATTTAGTCTGTTTACAATATGGTCC
1 AACATTTAGTCTGTTTGCAATATAGTCC
1445351 TCGACGTAAC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 54 1.00
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.34
Consensus pattern (31 bp):
AACATTTAGTCTGTTTGCAATATAGTCCCCC
Found at i:1451578 original size:3 final size:3
Alignment explanation
Indices: 1451570--1451640 Score: 61
Period size: 3 Copynumber: 23.0 Consensus size: 3
1451560 ATTAATTTAT
* * * * *
1451570 TTA TTA TTA TTA TTAA ATA TTA TTA TTA TAA TTA TAA TTA CTA ATA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
1451616 TTA TTA TTTA TTA CTA ATA TTA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA
1451641 ATAAAAAATT
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
3 49 0.91
4 5 0.09
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (3 bp):
TTA
Found at i:1451594 original size:19 final size:19
Alignment explanation
Indices: 1451577--1451641 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
1451567 TATTTATTAT
* *
1451577 TATTATTAAATATTATTAT
1 TATTATTAAATATTACTAA
* *
1451596 TATAATTATA-ATTACTAA
1 TATTATTAAATATTACTAA
**
1451614 TATTATTATTTATTACTAA
1 TATTATTAAATATTACTAA
1451633 TATTATTAA
1 TATTATTAA
1451642 TAAAAAATTA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
18 14 0.37
19 24 0.63
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
TATTATTAAATATTACTAA
Found at i:1459927 original size:253 final size:251
Alignment explanation
Indices: 1459432--1459935 Score: 990
Period size: 253 Copynumber: 2.0 Consensus size: 251
1459422 CCCTGAAGAT
1459432 ATATCCCTCAATAAACTTGACAAATTGTGGGACATATAGCCGCTGACATTACATAACGTTCACGG
1 ATATCCCTCAATAAACTTGACAAATTGTGGGACATATAGCCGCTGACATTACATAACGTTCACGG
1459497 ATGATGAAATACCGGAAGGCGGAATGGGGTCAGTAAAAGCTTTGAACATCACGACACATTGTCAT
66 ATGATGAAATACCGGAAGGCGGAATGGGGTCAGTAAAAGCTTTGAACATCACGACACATTGTCAT
1459562 GGTCATGTGTTGCCAGGAGTATTGATTGACAATGGATCCACTCTCAACTTGATGCCTCTAGTCAC
131 GGTCATGTGTTGCCAGGAGTATTGATTGACAATGGATCCACTCTCAACTTGATGCCTCTAGTCAC
1459627 ACTTCAAAGAATGCCTGTGGATCAATCACACATGAAGAGTTATCAGAATGTAGTGC
196 ACTTCAAAGAATGCCTGTGGATCAATCACACATGAAGAGTTATCAGAATGTAGTGC
1459683 ATATCCCTCAATAAACTTGACAGAATTGTGGGACATATAGCCGCTGACAATTACATAACGTTCAC
1 ATATCCCTCAATAAACTTGACA-AATTGTGGGACATATAGCCGCTGAC-ATTACATAACGTTCAC
1459748 GGATGATGAAATACCGGAAGGCGGAATGGGGTCAGTAAAAGCTTTGAACATCACGACACATTGTC
64 GGATGATGAAATACCGGAAGGCGGAATGGGGTCAGTAAAAGCTTTGAACATCACGACACATTGTC
1459813 ATGGTCATGTGTTGCCAGGAGTATTGATTGACAATGGATCCACTCTCAACTTGATGCCTCTAGTC
129 ATGGTCATGTGTTGCCAGGAGTATTGATTGACAATGGATCCACTCTCAACTTGATGCCTCTAGTC
1459878 ACACTTCAAAGAATGCCTGTGGATCAATCACACATGAAGAGTTATCAGAATGTAGTGC
194 ACACTTCAAAGAATGCCTGTGGATCAATCACACATGAAGAGTTATCAGAATGTAGTGC
1459936 GAGCATTTGA
Statistics
Matches: 251, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
251 22 0.09
252 25 0.10
253 204 0.81
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (251 bp):
ATATCCCTCAATAAACTTGACAAATTGTGGGACATATAGCCGCTGACATTACATAACGTTCACGG
ATGATGAAATACCGGAAGGCGGAATGGGGTCAGTAAAAGCTTTGAACATCACGACACATTGTCAT
GGTCATGTGTTGCCAGGAGTATTGATTGACAATGGATCCACTCTCAACTTGATGCCTCTAGTCAC
ACTTCAAAGAATGCCTGTGGATCAATCACACATGAAGAGTTATCAGAATGTAGTGC
Found at i:1464304 original size:9 final size:10
Alignment explanation
Indices: 1464290--1464322 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
1464280 GCTTGAAGAG
*
1464290 AAAAAAGTAA
1 AAAAAAGGAA
1464300 AAAAAAGGAA
1 AAAAAAGGAA
1464310 AAAAAA-GAA
1 AAAAAAGGAA
1464319 AAAA
1 AAAA
1464323 GGGGGGTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 7 0.32
10 15 0.68
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (10 bp):
AAAAAAGGAA
Found at i:1464667 original size:16 final size:18
Alignment explanation
Indices: 1464648--1464693 Score: 69
Period size: 16 Copynumber: 2.6 Consensus size: 18
1464638 CTATTTCAAG
1464648 TTCAATTTATTT-GAAA-
1 TTCAATTTATTTCGAAAT
1464664 TTCAATTTATTTTCGAAAT
1 TTCAATTTA-TTTCGAAAT
1464683 TTCAATTTATT
1 TTCAATTTATT
1464694 CTTCTATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 9 0.33
17 3 0.11
18 6 0.22
19 9 0.33
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.54
Consensus pattern (18 bp):
TTCAATTTATTTCGAAAT
Found at i:1464688 original size:19 final size:17
Alignment explanation
Indices: 1464648--1464693 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 17
1464638 CTATTTCAAG
1464648 TTCAATTTA-TTTGAAA
1 TTCAATTTATTTTGAAA
1464664 TTCAATTTATTTTCGAAA
1 TTCAATTTATTTT-GAAA
1464682 TTTCAATTTATT
1 -TTCAATTTATT
1464694 CTTCTATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.33
17 3 0.11
18 4 0.15
19 11 0.41
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.54
Consensus pattern (17 bp):
TTCAATTTATTTTGAAA
Found at i:1465493 original size:82 final size:82
Alignment explanation
Indices: 1465353--1465653 Score: 548
Period size: 82 Copynumber: 3.7 Consensus size: 82
1465343 ACTGGGATAG
* *
1465353 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGTCAGAATCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATC
1465418 ATTGAATTTGAAGATGA
66 ATTGAATTTGAAGATGA
1465435 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATC
1465500 ATTGAATTTGAAGATGA
66 ATTGAATTTGAAGATGA
1465517 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATC
1465582 ATTGAATTTAGAAGATGA
66 ATTGAATTT-GAAGATGA
* * *
1465600 ATTTGCTCATAGCATCTTCTGGAAGTGATCTTTGAGTTATCTGATATGGTTTGG
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
1465654 TAGGAACTAC
Statistics
Matches: 213, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
82 154 0.72
83 59 0.28
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (82 bp):
ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATC
ATTGAATTTGAAGATGA
Found at i:1467137 original size:113 final size:113
Alignment explanation
Indices: 1466376--1467141 Score: 1224
Period size: 113 Copynumber: 6.8 Consensus size: 113
1466366 GATTCAAATC
* *
1466376 CATCACTTGATGGATCAGCTTTTCCAGAGAAAGTCCATAAAGAGAAGAACTCATCTGAAGAAGGA
1 CATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
1466441 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACATGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGAATT
1466489 CATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * *
1466554 AGAAAAAGTTCATAATGAG-AG--CTTGTTCAACCTTTTTGC-TCAAATC
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACC-TTTTGCAT-GAATT
* *
1466600 CATCACTTGATGGATCAGCCTTTCCAGAG-AAGTTCATAAAGAGAAGAACTCATCTGAAGAAGGA
1 CATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
1466664 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCATGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGAATT
1466712 CATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * * *
1466777 AGAAAAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC-TCAAATC
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCAT-GAATT
*
1466825 CATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAAAGAGAAGAACTCATCTGAAGAAGGA
1 CATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
1466890 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCATGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGAATT
1466938 CATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
1467003 AGAAGAAGTTCATAATTAGAAGAACTTGTTCAACCTTTTACATGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGAATT
* * * *
1467051 CATCAATTGATGGATTAGCCTTGCCAGA-AAGAGTTCATAATGAGAAGAACTCATC-GAAAGAAG
1 CATCACTTGATGGATCAGCTTTTCCAGAGAA-AGTTCATAATGAGAAGAACTCATCTG-AAGAAG
*
1467114 GATGAAGAAGTTCATAATGAGAAGAACT
64 GAAGAAGAAGTTCATAATGAGAAGAACT
1467142 CATCAAGAGC
Statistics
Matches: 606, Mismatches: 36, Indels: 22
0.91 0.05 0.03
Matches are distributed among these distances:
110 63 0.10
111 38 0.06
112 43 0.07
113 461 0.76
114 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (113 bp):
CATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGAATT
Found at i:1467463 original size:19 final size:19
Alignment explanation
Indices: 1467407--1467473 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
1467397 ATTAATTTAT
* * * *
1467407 TATTATTATTAAATATTAG
1 TATTATTATTTATTACTAA
*
1467426 TATTATAATTGTAATTACTAA
1 TATTATTATT-T-ATTACTAA
*
1467447 TATTATTATTTATTACTGA
1 TATTATTATTTATTACTAA
1467466 TATTATTA
1 TATTATTA
1467474 ATAAAAAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
19 24 0.62
20 1 0.03
21 14 0.36
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (19 bp):
TATTATTATTTATTACTAA
Found at i:1470363 original size:24 final size:25
Alignment explanation
Indices: 1470307--1470363 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 25
1470297 GCCGGGTGTA
1470307 TATATATATTTAAATTAAATATATAT
1 TATAT-TATTTAAATTAAATATATAT
*
1470333 T-TTTTATTTAAATTAAAT-T-TAT
1 TATATTATTTAAATTAAATATATAT
1470355 TAATATTAT
1 T-ATATTAT
1470364 ATATATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
22 4 0.15
23 1 0.04
24 19 0.70
25 2 0.07
26 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TATATTATTTAAATTAAATATATAT
Found at i:1470423 original size:13 final size:12
Alignment explanation
Indices: 1470392--1470425 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1470382 TTTTAATATT
*
1470392 TATCGGGTCGGG
1 TATCGGGGCGGG
1470404 TATCGGGGCGGG
1 TATCGGGGCGGG
1470416 TAATCGGGGC
1 T-ATCGGGGC
1470426 AGGGATTACC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.12, C:0.18, G:0.50, T:0.21
Consensus pattern (12 bp):
TATCGGGGCGGG
Found at i:1471944 original size:31 final size:32
Alignment explanation
Indices: 1471908--1471991 Score: 109
Period size: 33 Copynumber: 2.6 Consensus size: 32
1471898 ATGAAAAATA
*
1471908 AGTTGGCCACCTACCAAAGA-T-TTTTCCAATG
1 AGTTGGCCACCAACC-AAGATTATTTTCCAATG
*
1471939 AGTTGGCCACCAACCAAGATTAATTTTTCAATG
1 AGTTGGCCACCAACCAAGATT-ATTTTCCAATG
*
1471972 AGTTGGCCACCAACTAAGAT
1 AGTTGGCCACCAACCAAGAT
1471992 GAAATTTCTA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
30 4 0.09
31 15 0.32
33 28 0.60
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (32 bp):
AGTTGGCCACCAACCAAGATTATTTTCCAATG
Found at i:1471976 original size:33 final size:34
Alignment explanation
Indices: 1471927--1471991 Score: 114
Period size: 33 Copynumber: 1.9 Consensus size: 34
1471917 CCTACCAAAG
1471927 ATTTTTCCAATGAGTTGGCCACCAACCAAGATTA
1 ATTTTTCCAATGAGTTGGCCACCAACCAAGATTA
*
1471961 ATTTTT-CAATGAGTTGGCCACCAACTAAGAT
1 ATTTTTCCAATGAGTTGGCCACCAACCAAGAT
1471992 GAAATTTCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 24 0.80
34 6 0.20
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (34 bp):
ATTTTTCCAATGAGTTGGCCACCAACCAAGATTA
Found at i:1475128 original size:2 final size:2
Alignment explanation
Indices: 1475083--1475112 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1475073 ATAATTAAGA
1475083 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
1475113 TATTAATAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1475333 original size:17 final size:18
Alignment explanation
Indices: 1475300--1475335 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1475290 ATATATATGT
*
1475300 ATAATAATAACATGAATA
1 ATAAAAATAACATGAATA
1475318 ATAAAAATAA-ATGAATA
1 ATAAAAATAACATGAATA
1475335 A
1 A
1475336 AATATTCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.25
Consensus pattern (18 bp):
ATAAAAATAACATGAATA
Found at i:1475425 original size:35 final size:35
Alignment explanation
Indices: 1475386--1475457 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
1475376 CTAAAAAACC
1475386 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
1 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
*
1475421 CTATTTTAGATTAGTATTTGAGTCCTAATCCAACT
1 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
1475456 CT
1 CT
1475458 TCTTTTTTGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.42
Consensus pattern (35 bp):
CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
Found at i:1477949 original size:33 final size:31
Alignment explanation
Indices: 1477873--1477960 Score: 106
Period size: 33 Copynumber: 2.8 Consensus size: 31
1477863 AAACATGAAA
*
1477873 AATAAGTTGGCCACCTACCAAAGA-TTTTTCC
1 AATAAGTTGGCCACCAACC-AAGATTTTTTCC
* *
1477904 AATGAGTTGGCCACCAACCAAGATTAATTTTTC
1 AATAAGTTGGCCACCAACCAAGATT--TTTTCC
*
1477937 AATAAGTTGGCCATCAACCAAGAT
1 AATAAGTTGGCCACCAACCAAGAT
1477961 GAAATTTCTA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
30 4 0.08
31 18 0.37
33 27 0.55
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (31 bp):
AATAAGTTGGCCACCAACCAAGATTTTTTCC
Found at i:1483879 original size:17 final size:17
Alignment explanation
Indices: 1483857--1483907 Score: 95
Period size: 17 Copynumber: 3.1 Consensus size: 17
1483847 CATAAAGAGA
1483857 AAAGATGTAATATAAAG
1 AAAGATGTAATATAAAG
1483874 AAAGATGTAATATAAAG
1 AAAGATGTAATATAAAG
1483891 -AAGATGTAATATAAAG
1 AAAGATGTAATATAAAG
1483907 A
1 A
1483908 CATTTTTTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
16 16 0.48
17 17 0.52
ACGTcount: A:0.59, C:0.00, G:0.18, T:0.24
Consensus pattern (17 bp):
AAAGATGTAATATAAAG
Found at i:1483896 original size:16 final size:16
Alignment explanation
Indices: 1483858--1483907 Score: 91
Period size: 16 Copynumber: 3.1 Consensus size: 16
1483848 ATAAAGAGAA
1483858 AAGATGTAATATAAAG
1 AAGATGTAATATAAAG
1483874 AAAGATGTAATATAAAG
1 -AAGATGTAATATAAAG
1483891 AAGATGTAATATAAAG
1 AAGATGTAATATAAAG
1483907 A
1 A
1483908 CATTTTTTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 17 0.52
17 16 0.48
ACGTcount: A:0.58, C:0.00, G:0.18, T:0.24
Consensus pattern (16 bp):
AAGATGTAATATAAAG
Found at i:1489511 original size:18 final size:19
Alignment explanation
Indices: 1489474--1489512 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
1489464 AAGTATACGA
**
1489474 TAAATATAAAAATATTAAG
1 TAAATATAAAAATAAAAAG
1489493 TAAA-ATAAAAATAAAAAG
1 TAAATATAAAAATAAAAAG
1489511 TA
1 TA
1489513 TCCATACCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (19 bp):
TAAATATAAAAATAAAAAG
Found at i:1490108 original size:11 final size:11
Alignment explanation
Indices: 1490092--1490116 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1490082 AGGAAAGGCG
1490092 GGTTAATATAC
1 GGTTAATATAC
1490103 GGTTAATATAC
1 GGTTAATATAC
1490114 GGT
1 GGT
1490117 GTTACCGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (11 bp):
GGTTAATATAC
Found at i:1490506 original size:20 final size:19
Alignment explanation
Indices: 1490478--1490528 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 19
1490468 AAAACGATAT
1490478 ACCATGTAAAAATATGATAAA
1 ACCA-GTAAAAA-ATGATAAA
1490499 ACCAGTAACAAAATGATAAA
1 ACCAGTAA-AAAATGATAAA
*
1490519 ACCGGTAAAA
1 ACCAGTAAAA
1490529 CTTTACCGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 2 0.07
20 19 0.68
21 7 0.25
ACGTcount: A:0.57, C:0.14, G:0.12, T:0.18
Consensus pattern (19 bp):
ACCAGTAAAAAATGATAAA
Found at i:1490616 original size:181 final size:183
Alignment explanation
Indices: 1490270--1490742 Score: 675
Period size: 182 Copynumber: 2.6 Consensus size: 183
1490260 GATCCAAATT
* * * **
1490270 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATTGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * * * *
1490335 AAATCGGTAAAGCTCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAATGATCGACACTTC
66 AAATCGGTAAAACTATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* * *
1490400 GTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTTGATACTTT-TA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAAA
* * * *
1490452 AAAAATGTATCGATCCAAAACGATATACCATGTAAAAATATGATAAAACCAGTAACAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * *
1490517 AAACCGGTAAAACTTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAATCGGTAAAACTATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** *
1490581 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAAA
* *
1490634 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1490699 AAATC-GTAAAA-TGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAATCGGTAAAACT-ATACCGGATATATTGAAAGTGTCGATACTTT
1490743 CGTAAGTATG
Statistics
Matches: 258, Mismatches: 31, Indels: 5
0.88 0.11 0.02
Matches are distributed among these distances:
180 1 0.00
181 98 0.38
182 159 0.62
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (183 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAATCGGTAAAACTATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAAA
Found at i:1490687 original size:20 final size:20
Alignment explanation
Indices: 1490664--1490701 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1490654 CGATATAACA
1490664 GGTA-AAAATATGATAAAACC
1 GGTATAAAA-ATGATAAAACC
*
1490684 GGTATCAAAATGATAAAA
1 GGTATAAAAATGATAAAA
1490702 TCGTAAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.55, C:0.08, G:0.16, T:0.21
Consensus pattern (20 bp):
GGTATAAAAATGATAAAACC
Found at i:1492965 original size:21 final size:21
Alignment explanation
Indices: 1492939--1493003 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
1492929 AAGACAATCA
*
1492939 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
1492960 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* * *
1492981 AGAGTCAAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
1493002 AG
1 AG
1493004 GCATAAGGGG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.43, C:0.11, G:0.29, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:1493079 original size:33 final size:33
Alignment explanation
Indices: 1493037--1493102 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1493027 AAATAGATAG
*
1493037 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
1493070 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
1493103 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:1493314 original size:21 final size:21
Alignment explanation
Indices: 1493288--1493328 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1493278 GAAAAAATAT
1493288 GAAGAAGAAAAGAGGGAAGAG
1 GAAGAAGAAAAGAGGGAAGAG
* *
1493309 GAAGAAGAAGAGATGGAAGA
1 GAAGAAGAAAAGAGGGAAGA
1493329 AATGAGGAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.41, T:0.02
Consensus pattern (21 bp):
GAAGAAGAAAAGAGGGAAGAG
Found at i:1494298 original size:4 final size:4
Alignment explanation
Indices: 1494289--1494313 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1494279 TAAGAGATTG
1494289 GTAT GTAT GTAT GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT G
1494314 AAAGGACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (4 bp):
GTAT
Found at i:1494917 original size:19 final size:20
Alignment explanation
Indices: 1494893--1494941 Score: 84
Period size: 19 Copynumber: 2.5 Consensus size: 20
1494883 AATGTAGGGT
1494893 TAATTTTGTATAA-GATTTA
1 TAATTTTGTATAACGATTTA
1494912 TAATTTTGTA-AACGATTTA
1 TAATTTTGTATAACGATTTA
1494931 TAATTTTGTAT
1 TAATTTTGTAT
1494942 GTGAATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 2 0.07
19 26 0.93
ACGTcount: A:0.35, C:0.02, G:0.10, T:0.53
Consensus pattern (20 bp):
TAATTTTGTATAACGATTTA
Found at i:1495397 original size:200 final size:200
Alignment explanation
Indices: 1495054--1496551 Score: 2699
Period size: 200 Copynumber: 7.5 Consensus size: 200
1495044 AATTTACAAT
*
1495054 ATGGCAAACAGGGTGCAACCATAAAGTGTCAATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
1495119 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCAGTTTT
66 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
1495184 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
1495249 AATGA
196 AATGA
*
1495254 ATGGCAAACAGGGTGCAACCATAAAGTATCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
1495319 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCAGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
1495384 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
1495449 AATGA
196 AATGA
1495454 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1495519 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
1495584 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
1495649 AATGA
196 AATGA
1495654 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1495719 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
1495784 ATGAGAGAATATGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
1495849 AATGA
196 AATGA
* *
1495854 ATGGTAAACAGGGTGCAATCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
1495919 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCAAACCGATACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
1495984 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
1496049 AATGA
196 AATGA
* * * *
1496054 ATGGCAAACAAGGTACAATCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCTATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
1496119 CGAAACCCAAAAGTATAATATAATATGTAATTTTTCAATCTAACCAGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* *
1496184 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTACAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
1496249 AATGA
196 AATGA
*
1496254 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
1496319 CGAAACCCATAAGTATAATGTAATAGGTAAATTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* * *
1496384 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTTTTAATTTGTGTCGATATTTTTGGTCCA
131 ATGAGAGAATAGGTCTAAATAATGTATCGACAC-TTTTGTAGTTTGTGTCGATATTTTTGGTCCA
*
1496449 GAATAA
195 GAATGA
* *
1496455 ATGGCAAACAAGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
1496520 CGAAACCCATAAGTATAATGTAATAGGTAATT
66 CGAAACCCAAAAGTATAATGTAATATGTAATT
1496552 GAATTACTGT
Statistics
Matches: 1257, Mismatches: 40, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
200 1129 0.90
201 128 0.10
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
AATGA
Found at i:1496115 original size:18 final size:19
Alignment explanation
Indices: 1496076--1496115 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
1496066 GTACAATCAT
1496076 AAAGTGTCGATCCATATATAA
1 AAAGTGTCGATCC--ATATAA
1496097 AAAGTGTCGATCC-TATAA
1 AAAGTGTCGATCCATATAA
1496115 A
1 A
1496116 CATCGAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
21 13 0.68
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (19 bp):
AAAGTGTCGATCCATATAA
Found at i:1497824 original size:183 final size:183
Alignment explanation
Indices: 1497478--1498416 Score: 1675
Period size: 183 Copynumber: 5.1 Consensus size: 183
1497468 CAAAGTTTTC
* * *
1497478 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACATTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
* *
1497543 CAAAAAGTGTCG--ATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
66 CAAAAAGTGTCGACATT---TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
*
1497606 TATAACCGGTATAAATATATCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
128 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
1497662 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
* *
1497727 CAAAAAGTATCGACATTTACACATCGAAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
1497792 AACCGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
1497845 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
* *
1497910 CAAAAAGTGTCGACGTTTACACATTGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
1497975 AACCGGTATAAATATACCGGTTTTATGAGTGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
1498028 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
*
1498093 CAAAAAGTTTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
1498158 AACCGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
1498211 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATATGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
*
1498276 CAAAAAGTGTCGACATTTACACATCGGAACCTAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
1498341 AACCGGTATAAATATACCGGTTTTATGATCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
1498394 AAACTTTTTAATATTGTGTCGGT
1 ACACTTTTTAATATTGTGTCGGT
1498417 TATTTTAAGT
Statistics
Matches: 727, Mismatches: 26, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
183 651 0.90
184 73 0.10
186 3 0.00
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (183 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:1501292 original size:23 final size:23
Alignment explanation
Indices: 1501261--1501333 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
1501251 ATAGGTAAAA
*
1501261 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
1501284 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
1501307 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
1501330 ATAT
1 ATAT
1501334 TGTAAATTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1501734 original size:23 final size:23
Alignment explanation
Indices: 1501689--1501734 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
1501679 ATTACATAAC
*
1501689 TTTATAAAAAGTATCGATCCTTT
1 TTTATAAAAAGTATCGAACCTTT
1501712 TTTATAAAAAGTAT-GAACACTTT
1 TTTATAAAAAGTATCGAAC-CTTT
1501735 CAATATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (23 bp):
TTTATAAAAAGTATCGAACCTTT
Found at i:1501783 original size:23 final size:23
Alignment explanation
Indices: 1501752--1501824 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
1501742 ATAGGTAAAA
*
1501752 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
1501775 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
1501798 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
1501821 ATAT
1 ATAT
1501825 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1502223 original size:22 final size:22
Alignment explanation
Indices: 1502179--1502223 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1502169 ATTACATAAC
**
1502179 TTTATAAAAAGTATCGATCCTT
1 TTTATAAAAAGTATCGAAACTT
*
1502201 TTTATAAAAAGTATGGAAACTT
1 TTTATAAAAAGTATCGAAACTT
1502223 T
1 T
1502224 CAATATAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (22 bp):
TTTATAAAAAGTATCGAAACTT
Found at i:1502272 original size:23 final size:23
Alignment explanation
Indices: 1502241--1502313 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1502231 ATAGGTAAAA
*
1502241 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1502264 ATATAATGTAATAGGTTGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
**
1502287 ATATAATGTAATAGGTATTGCTT
1 ATATAATGTAATAGGTAGCGCTT
1502310 ATAT
1 ATAT
1502314 TGTAAAGTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1502506 original size:490 final size:490
Alignment explanation
Indices: 1500917--1502717 Score: 3265
Period size: 490 Copynumber: 3.7 Consensus size: 490
1500907 AGGTATGTAC
1500917 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATA-G-G-CTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
* * *
1500979 GTTACGGTATATATTATTATTAAATTAAAAACAATAAAAATATATAATACATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
* * *
1501044 TTTGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAAAATAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
1501109 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
196 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
* *
1501174 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGAC
261 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGAA
1501239 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCG
326 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCG
* *
1501304 TTTATATAATGTAATAGGTAGTGCTTATATTGTAAATTATCTATCCCTTTTATAAAAGTGTCCAT
391 TTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCAT
1501369 ACTTTTTTCACTGTAGAAAATATTAATTTAAGGTT
456 ACTTTTTTCACTGTAGAAAATATTAATTTAAGGTT
*
1501404 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATAATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1501469 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
1501534 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
1501599 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
196 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
*
1501664 AAAATTGAAACATAAATTACATAACTTTATAAAAAGTATCGATCCTTTTTTATAAAAAGTAT-GA
261 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCC-TTTTTATAAAAAGTATGGA
1501728 ACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAG
325 A-ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAG
1501793 CGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCC
389 CGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCC
1501858 ATACTTTTTTCACTGT-GAAAAATATTAATTTAAGGTT
454 ATACTTTTTTCACTGTAG-AAAATATTAATTTAAGGTT
1501895 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
*
1501960 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTATATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
1502025 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
1502090 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAA
196 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
*
1502154 AAAATTGAAACATAAATTACATAACTTTATAAAAAGTATCGATCCTTTTTATAAAAAGTATGGAA
261 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGAA
*
1502219 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTTGCG
326 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCG
* *
1502284 TTTATATAATGTAATAGGTATTGCTTATATTGTAAAGTATCTATCATTTTTTATAAAAGTGTCCA
391 TTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATC-CTTTTTATAAAAGTGTCCA
* * *
1502349 TACTTTTTTTATTGTAGAAAACATTAATTTAAGGTT
455 TACTTTTTTCACTGTAGAAAATATTAATTTAAGGTT
1502385 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1502450 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
*
1502515 TTTGGTTAATATTGTTAAATTTAAATTCTAAGTATTATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
* * *
1502580 ATTTTTTGTGCAAATGGAATTATTAAATTAATATTGTAGGTGAAAAACATGAAACACTATT-AAA
196 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
* *
1502644 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTTTTTTATAAAAAAGTATAGA
261 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTAT-AAAAAGTATGGA
*
1502709 CACTTTCAA
325 AACTTTCAA
1502718 CATATTATAA
Statistics
Matches: 1275, Mismatches: 29, Indels: 16
0.97 0.02 0.01
Matches are distributed among these distances:
487 41 0.03
488 1 0.00
489 125 0.10
490 657 0.52
491 451 0.35
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (490 bp):
ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGAA
ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCG
TTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCAT
ACTTTTTTCACTGTAGAAAATATTAATTTAAGGTT
Found at i:1502939 original size:981 final size:973
Alignment explanation
Indices: 1500931--1502721 Score: 2964
Period size: 981 Copynumber: 1.8 Consensus size: 973
1500921 TTTGAGTGAG
* * * * * *
1500931 TTTTAAGATATTAATTTAGTAATTATAG--GCTAATGATTTATTTTTTACGTTACGGTATATATT
1 TTTTAACATATCAATTTAGTAATGATAGCATCTAATGATTAATTTTTTACGTTACGATATATATT
1500994 ATTATTAAATTAAAAACAATAAAAATATATAATACATATTTATTATTATCTTTGGTTAATATTGT
66 ATTATTAAATTAAAAACAATAAAAATATATAATACATATTTATTATTATCTTTGGTTAATATTGT
*
1501059 TAAATTTAAATACTAAATAATATTTTATAAAATATCAAAATAATCAAATAATTTTTTGTGTAAAT
131 TAAATTTAAATACTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAAT
1501124 GAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAA
196 GAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAA
*
1501189 ATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATA
261 ATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGAAACTTTCAATATAATA
1501254 GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAAT
326 GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAAT
*
1501319 AGGTAGTGCTTATATTGTAAATTATCTATCCCTTTTATAAAAGTGTCCATACTTTTTTCACTGTA
391 AGGTAGTGCTTATATTGTAAAGTATCTATCCCTTTTATAAAAGTGTCCATACTTTTTTCACTGTA
*
1501384 GAAAATATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
456 GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
1501449 TCTAATAATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATAT
521 TCTAATAATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATAT
1501514 ATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAA
586 ATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAA
* *
1501579 AATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAA
651 AATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGAAA
*
1501644 AACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTATAAAAAGTATCGATCC
716 AACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCC
* * *
1501709 TTTTTTATAAAAAGTATGAACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCT
781 TTTTTTATAAAAAGTATGAACACTTTCAACATAATA-GTAAAAATATGA-GTAATAGGCAACGCT
* * *
1501774 TATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTAT
844 TATATAATATAATA-GTAGCGTTTATATAA--TAATAGG-AGTGC-TATATTATAAAGTACCTAT
* * * * * ** * ***
1501839 CCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGAAAAATATTAATTTAAGGTTATCTTTTGA
904 ACATTATATAAAAGTGACCATACTTTTTTCACTGTGAAAAATATTAATTAAAAATTAACTACCGA
* *
1501904 GTGAG
969 GTAAA
* * * * *
1501909 TTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
1 TTTTAACATATCAATTTAGTAATGATA-GCATCTAATGATTAATTTTTTACGTTACGATATATAT
* * *
1501974 TATTATTAAATTAAAAACAATAAACATATATATTATATATTTATTATTATCTTTGGTTAATATTG
65 TATTATTAAATTAAAAACAATAAAAATATATAATACATATTTATTATTATCTTTGGTTAATATTG
* *
1502039 TTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAA
130 TTAAATTTAAATACTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAA
1502104 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATA
195 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
* *
1502168 AATTACATAACTTTATAAAAAGTATCGATCCTTTTTATAAAAAGTATGGAAACTTTCAATATAAT
260 AATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGAAACTTTCAATATAAT
*
1502233 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTTGCGTTTATATAATGTAA
325 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAA
* ** * *
1502298 TAGGTATTGCTTATATTGTAAAGTATCTATCATTTTTTATAAAAGTGTCCATACTTTTTTTATTG
390 TAGGTAGTGCTTATATTGTAAAGTATCTATC-CCTTTTATAAAAGTGTCCATACTTTTTTCACTG
1502363 TAGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
454 TAGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
*
1502428 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATAT
519 CGTCTAATAATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATAT
*
1502493 ATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAGTATTATTTTAT
584 ATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTAT
*
1502558 AAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGGAATTATTAAATTAATATTGTAGGTGA
649 AAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGA
1502623 AAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGAT
714 AAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGAT
1502687 -CTTTTTTATAAAAAAGTAT-AGACACTTTCAACATA
779 CCTTTTTTAT-AAAAAGTATGA-ACACTTTCAACATA
1502722 TTATAATGTA
Statistics
Matches: 781, Mismatches: 26, Indels: 10
0.96 0.03 0.01
Matches are distributed among these distances:
978 27 0.03
979 11 0.01
980 239 0.31
981 504 0.65
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (973 bp):
TTTTAACATATCAATTTAGTAATGATAGCATCTAATGATTAATTTTTTACGTTACGATATATATT
ATTATTAAATTAAAAACAATAAAAATATATAATACATATTTATTATTATCTTTGGTTAATATTGT
TAAATTTAAATACTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAAT
GAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAA
ATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGAAACTTTCAATATAATA
GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAAT
AGGTAGTGCTTATATTGTAAAGTATCTATCCCTTTTATAAAAGTGTCCATACTTTTTTCACTGTA
GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
TCTAATAATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATAT
ATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAA
AATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGAAA
AACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCC
TTTTTTATAAAAAGTATGAACACTTTCAACATAATAGTAAAAATATGAGTAATAGGCAACGCTTA
TATAATATAATAGTAGCGTTTATATAATAATAGGAGTGCTATATTATAAAGTACCTATACATTAT
ATAAAAGTGACCATACTTTTTTCACTGTGAAAAATATTAATTAAAAATTAACTACCGAGTAAA
Found at i:1511135 original size:23 final size:23
Alignment explanation
Indices: 1511086--1511148 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
1511076 GTGTTATATT
* **
1511086 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAATATATTAATTAAA
* *
1511109 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAATATATTAATTAAA
1511132 ATATTATTTAAATATAT
1 ATA-T-TTTAAATATAT
1511149 AAATAATATT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 21 0.66
24 1 0.03
25 10 0.31
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAATATATTAATTAAA
Found at i:1511176 original size:19 final size:20
Alignment explanation
Indices: 1511124--1511176 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
1511114 TTAAATATCT
1511124 TTATTAAA-ATATTATTTAA
1 TTATTAAATATATTATTTAA
* *
1511143 ATATATAAATAATATTA-TTCA
1 TTAT-TAAAT-ATATTATTTAA
1511164 TTATTAAATATAT
1 TTATTAAATATAT
1511177 AAAATTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 7 0.25
20 9 0.32
21 6 0.21
22 6 0.21
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TTATTAAATATATTATTTAA
Found at i:1511189 original size:30 final size:30
Alignment explanation
Indices: 1511132--1511278 Score: 105
Period size: 29 Copynumber: 5.0 Consensus size: 30
1511122 CTTTATTAAA
1511132 ATATTATTTAAATATAT-AAA-TAATATTAT
1 ATATTA-TTAAATATATAAAATTAATATTAT
**
1511161 -TCATTATTAAATATATAAAATTTTTATTAT
1 AT-ATTATTAAATATATAAAATTAATATTAT
1511191 ATATTATTAAA-ATA-AAAATATAATATCT-T
1 ATATTATTAAATATATAAAAT-TAATAT-TAT
** *
1511220 ATATTATTATAATATA-ATTGATT-ATTTTAT
1 ATATTATTA-AATATATA-AAATTAATATTAT
* * *
1511250 ATAATATTAAAAATATAATATT-ATATTAT
1 ATATTATTAAATATATAAAATTAATATTAT
1511279 TATAAATATT
Statistics
Matches: 95, Mismatches: 12, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
28 16 0.17
29 39 0.41
30 32 0.34
31 6 0.06
32 2 0.02
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (30 bp):
ATATTATTAAATATATAAAATTAATATTAT
Found at i:1511274 original size:22 final size:23
Alignment explanation
Indices: 1511249--1511292 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
1511239 GATTATTTTA
1511249 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
1511271 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
1511293 AAATAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:1511522 original size:42 final size:42
Alignment explanation
Indices: 1511470--1511579 Score: 184
Period size: 42 Copynumber: 2.6 Consensus size: 42
1511460 TACATTCTGG
* *
1511470 AAAACCAATTACGTGAAACAAACACGGGAAAACATTTTCCGA
1 AAAACGAATTACGTGAAACAAACACGGGAAAACATTTTCCAA
*
1511512 AAAACGAATTACGTGAAACAAACACGGGAAAATATTTTCCAA
1 AAAACGAATTACGTGAAACAAACACGGGAAAACATTTTCCAA
*
1511554 AAAACGAATTACGTGAAATAAACACG
1 AAAACGAATTACGTGAAACAAACACG
1511580 TCAAGAAAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.50, C:0.18, G:0.15, T:0.17
Consensus pattern (42 bp):
AAAACGAATTACGTGAAACAAACACGGGAAAACATTTTCCAA
Found at i:1513626 original size:21 final size:21
Alignment explanation
Indices: 1513602--1513666 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
1513592 CAACTTTGAA
1513602 AAATGTTTTTCAAAGTTTGGT
1 AAATGTTTTTCAAAGTTTGGT
**
1513623 AAATG--TTTC----TTTGAA
1 AAATGTTTTTCAAAGTTTGGT
1513638 AAATGTTTTTCAAAGTTTGGT
1 AAATGTTTTTCAAAGTTTGGT
*
1513659 AGATGTTT
1 AAATGTTT
1513667 GTTGAAAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 12
0.66 0.10 0.24
Matches are distributed among these distances:
15 9 0.27
17 4 0.12
19 4 0.12
21 16 0.48
ACGTcount: A:0.29, C:0.05, G:0.18, T:0.48
Consensus pattern (21 bp):
AAATGTTTTTCAAAGTTTGGT
Found at i:1513641 original size:36 final size:36
Alignment explanation
Indices: 1513595--1513674 Score: 135
Period size: 36 Copynumber: 2.2 Consensus size: 36
1513585 TGGCAACCAA
1513595 CTTTGAAAAATGTTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGTTTTTCAAAGTTTGGTAAATGTTT
*
1513631 CTTTGAAAAATGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATGTTTTTCAAAGTTTGGTAAATGTTT
*
1513667 -GTTGAAAA
1 CTTTGAAAA
1513675 TAGGAATGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
35 7 0.17
36 35 0.83
ACGTcount: A:0.31, C:0.05, G:0.19, T:0.45
Consensus pattern (36 bp):
CTTTGAAAAATGTTTTTCAAAGTTTGGTAAATGTTT
Found at i:1513791 original size:7 final size:7
Alignment explanation
Indices: 1513779--1513808 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
1513769 CTTCAAAATC
1513779 ATCCCAA
1 ATCCCAA
1513786 ATCCCAA
1 ATCCCAA
1513793 ATCCCAA
1 ATCCCAA
*
1513800 ATCTCAA
1 ATCCCAA
1513807 AT
1 AT
1513809 TATTTCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (7 bp):
ATCCCAA
Found at i:1518213 original size:21 final size:21
Alignment explanation
Indices: 1518189--1518249 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
1518179 GGCAACCAAC
1518189 TTTGAAAAATGTTTTTCAAAG
1 TTTGAAAAATGTTTTTCAAAG
**
1518210 TTTGGTAAATG--TTTC----
1 TTTGAAAAATGTTTTTCAAAG
*
1518225 TTTGAAAAATGTTTTTTAAAG
1 TTTGAAAAATGTTTTTCAAAG
1518246 TTTG
1 TTTG
1518250 GTAGATGTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 12
0.63 0.11 0.26
Matches are distributed among these distances:
15 9 0.31
17 3 0.10
19 4 0.14
21 13 0.45
ACGTcount: A:0.31, C:0.03, G:0.16, T:0.49
Consensus pattern (21 bp):
TTTGAAAAATGTTTTTCAAAG
Found at i:1518235 original size:36 final size:36
Alignment explanation
Indices: 1518188--1518267 Score: 126
Period size: 36 Copynumber: 2.2 Consensus size: 36
1518178 TGGCAACCAA
1518188 CTTTGAAAAATGTTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGTTTTTCAAAGTTTGGTAAATGTTT
* *
1518224 CTTTGAAAAATGTTTTTTAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATGTTTTTCAAAGTTTGGTAAATGTTT
*
1518260 -GTTGAAAA
1 CTTTGAAAA
1518268 TAGGAATGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
35 7 0.17
36 34 0.83
ACGTcount: A:0.31, C:0.04, G:0.19, T:0.46
Consensus pattern (36 bp):
CTTTGAAAAATGTTTTTCAAAGTTTGGTAAATGTTT
Found at i:1518785 original size:34 final size:34
Alignment explanation
Indices: 1518746--1518830 Score: 152
Period size: 34 Copynumber: 2.5 Consensus size: 34
1518736 ATTATATATA
1518746 TATATATATAATATTTTATATTTTTTATATTAAT
1 TATATATATAATATTTTATATTTTTTATATTAAT
1518780 TATATATATAATATTTTATATTTTTTATATTAAT
1 TATATATATAATATTTTATATTTTTTATATTAAT
* *
1518814 TATATATAAAATGTTTT
1 TATATATATAATATTTT
1518831 CGGGTTCGGG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 49 1.00
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (34 bp):
TATATATATAATATTTTATATTTTTTATATTAAT
Found at i:1521580 original size:2 final size:2
Alignment explanation
Indices: 1521573--1521646 Score: 123
Period size: 2 Copynumber: 37.0 Consensus size: 2
1521563 TGACATTTGA
1521573 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
*
1521615 AT AT AT AT AT AT AT AT AT GAT AT GT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT
1521647 TGATTTAAAA
Statistics
Matches: 69, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
1 1 0.01
2 66 0.96
3 2 0.03
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1522541 original size:2 final size:2
Alignment explanation
Indices: 1522534--1522579 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
1522524 TCAAATTTTG
1522534 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
1522576 AT AT
1 AT AT
1522580 CAAAATTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1523392 original size:31 final size:31
Alignment explanation
Indices: 1523354--1523478 Score: 198
Period size: 31 Copynumber: 4.0 Consensus size: 31
1523344 CCCGAAGGAC
* * *
1523354 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
1523385 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1523416 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
1523447 CAGTCCATATGTCCCAAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1523478 C
1 C
1523479 CCTCGACCCT
Statistics
Matches: 89, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
31 88 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:1527596 original size:31 final size:31
Alignment explanation
Indices: 1527558--1527713 Score: 251
Period size: 31 Copynumber: 5.0 Consensus size: 31
1527548 CCCGAAGGAC
* * *
1527558 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
1527589 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
1527620 CAATCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1527651 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
1527682 CAGTCCATATGTCCCAAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1527713 C
1 C
1527714 CCTCGACCCT
Statistics
Matches: 118, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
31 117 0.99
32 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:1530446 original size:18 final size:18
Alignment explanation
Indices: 1530394--1530450 Score: 66
Period size: 17 Copynumber: 3.3 Consensus size: 18
1530384 TTTCATATAA
*
1530394 AAAATAAATAA--AATTT
1 AAAATAAATAATTAATAT
*
1530410 CAAAATAAAT-ATTATTAT
1 -AAAATAAATAATTAATAT
1530428 AAAATAAATAATTAATAT
1 AAAATAAATAATTAATAT
1530446 AAAAT
1 AAAAT
1530451 TTAGATTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
16 1 0.03
17 18 0.53
18 15 0.44
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATAAATAATTAATAT
Found at i:1538410 original size:14 final size:15
Alignment explanation
Indices: 1538393--1538437 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
1538383 ATTAAAGTAC
1538393 AATAG-TTAAAATTT
1 AATAGATTAAAATTT
* *
1538407 AATAGATTAAAGTAT
1 AATAGATTAAAATTT
1538422 AAT-GATTAAAATTT
1 AATAGATTAAAATTT
1538436 AA
1 AA
1538438 AATTATAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
14 16 0.62
15 10 0.38
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (15 bp):
AATAGATTAAAATTT
Found at i:1538417 original size:29 final size:29
Alignment explanation
Indices: 1538380--1538437 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
1538370 ACAATCGATT
1538380 TAGATTAAAGTACAAT-AGTTAAAATTTAA
1 TAGATTAAAGTACAATGA-TTAAAATTTAA
*
1538409 TAGATTAAAGTATAATGATTAAAATTTAA
1 TAGATTAAAGTACAATGATTAAAATTTAA
1538438 AATTATAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 26 0.96
30 1 0.04
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.36
Consensus pattern (29 bp):
TAGATTAAAGTACAATGATTAAAATTTAA
Found at i:1538424 original size:15 final size:15
Alignment explanation
Indices: 1538380--1538431 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 15
1538370 ACAATCGATT
*
1538380 TAGATTAAAGTACAA
1 TAGATTAAAGTATAA
* *
1538395 TAG-TTAAAATTTAA
1 TAGATTAAAGTATAA
1538409 TAGATTAAAGTATAA
1 TAGATTAAAGTATAA
1538424 T-GATTAAA
1 TAGATTAAA
1538432 ATTTAAAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
14 18 0.58
15 13 0.42
ACGTcount: A:0.52, C:0.02, G:0.12, T:0.35
Consensus pattern (15 bp):
TAGATTAAAGTATAA
Found at i:1539868 original size:26 final size:26
Alignment explanation
Indices: 1539834--1539887 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
1539824 AAGTCTATCA
1539834 AATAATTTCTCATAAATAAGATATTC
1 AATAATTTCTCATAAATAAGATATTC
*
1539860 AATAGTTTCTCATAAATAAGATATTC
1 AATAATTTCTCATAAATAAGATATTC
1539886 AA
1 AA
1539888 ACGATTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.37
Consensus pattern (26 bp):
AATAATTTCTCATAAATAAGATATTC
Found at i:1555601 original size:18 final size:18
Alignment explanation
Indices: 1555578--1555615 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
1555568 AGGATTATTG
1555578 GAATGAATGCCA-CAATAT
1 GAATG-ATGCCACCAATAT
*
1555596 GAATGATGCTACCAATAT
1 GAATGATGCCACCAATAT
1555614 GA
1 GA
1555616 TAGTGACAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (18 bp):
GAATGATGCCACCAATAT
Found at i:1563439 original size:23 final size:24
Alignment explanation
Indices: 1563391--1563447 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 24
1563381 AAATAATAGA
*
1563391 TCATTAACTATATATTGTCTTTCAAT
1 TCATTAACTATATA-T-CCTTTCAAT
1563417 TCATTAACTATATA-CCTTTCAAT
1 TCATTAACTATATATCCTTTCAAT
1563440 TCA-TAACT
1 TCATTAACT
1563448 CGTAAAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 5 0.17
23 11 0.37
26 14 0.47
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.46
Consensus pattern (24 bp):
TCATTAACTATATATCCTTTCAAT
Found at i:1563788 original size:18 final size:18
Alignment explanation
Indices: 1563765--1563800 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1563755 TAGTTAAAAC
*
1563765 TCAAATCAAATATGCAAT
1 TCAAATCAAATATACAAT
1563783 TCAAATCAAATATACAAT
1 TCAAATCAAATATACAAT
1563801 CTTGATCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.17, G:0.03, T:0.28
Consensus pattern (18 bp):
TCAAATCAAATATACAAT
Found at i:1565343 original size:632 final size:619
Alignment explanation
Indices: 1564394--1565521 Score: 1503
Period size: 632 Copynumber: 1.8 Consensus size: 619
1564384 ATATTTTGAA
** * *
1564394 AATATTCTAAAATAATATGTATCTAAAAATATTCGTAAATAAAGTAAATATTTGTAATATTTAAT
1 AATATTCTAAAATAATATAAAACTAAAAATATTCGTAAATAAACTAAATATTTGTAATATTTAAT
* * * ***
1564459 ATCGCATCTAGAATTATCAATAAAAAATCTTAAACATTTATAAGGTCATTAGCCGAAATGTTGAC
66 ATCACATCTAGAATTATCAATAAAAAATCTTAAACATTTATAAGATCAATAGAAAAAATGTTGAC
** * * *
1564524 ACGTATAACAATCCAATGAACAATATATCTATAAATATGAGATGAAATTTATCATTATTACTAGA
131 ACGTATAACAATCCAAAAAACAATAAATCTATAAATATGAAATGAAATTTATAATTATTACTAGA
*
1564589 ATAGTGAAGAGTGTTAAAGTAAGAGAACTTATACGTAGAAAAGAAAAAAAAATAATAGGGTAAGT
196 ATAGTGAAGAGTGTTAAAGTAAGAGAACTTATACGTACAAAAGAAAAAAAAATAATAGGGTAAGT
* * * * *
1564654 GTGTTATATTACAATTTTATTATGTATTAATAAAAGTGTTGCATTCTCTTGTAATTATACGTTTT
261 GTGTTATATTACAATTGTATTATGTACTAATAAAAGTGTTACATTCTCTTGTAATTATAAGTTTC
*
1564719 CCGACTAAACCTTAATTTATTTTAAGTTATTAGTTCATTTGTGTTAATTTTAATATATGATCAGT
326 CCGACTAAACCTTAATTTATTTCAAGTTATTAGTTCATTTGTGTTAATTTTAATATATGATCAGT
* * * * * *
1564784 TCTATCC-AGTGGCGGATCCACTAAGGACCTAGGCTGAACATGTACACACCCTGGAATT-TAATT
391 TCTA-CCTAGTGACAGATCCACTAAAGACCTAGGCTGAACATGTACACACACTGAAATTCGAATT
*
1564847 TT-TCTCTTGATAATTATATATTTTAATAGTTTTGTCCACCTTGAAATTTTAATTGTGCCCACCA
455 TTAT-TC-GGATAATTATATATTTTAATAGTTTTGTCCACCTTGAAATTTTAATTGTGCCCACCA
1564911 TGTATCAAAATTTTATGTAATTAATATATATGTGTGTCCACCCTAAAAAATATTTCTAGATTCGC
518 TGTATCAAAATTTTATGTAATTAATATATATGTGTGTCCACCCTAAAAAATATTTCTAGATTCGC
1564976 CACTGAAATATATAATTATTACGAGATGTAGCTCGAG
583 CACTGAAATATATAATTATTACGAGATGTAGCTCGAG
* * * * *
1565013 AATATTCTAAAATAATATAAAACTGAAAATATTTGTTAAATAATCTAAATATTTTTAATATTTGA
1 AATATTCTAAAATAATATAAAACTAAAAATATTCG-TAAATAAACTAAATATTTGTAATATTTAA
* * * *
1565078 TATCACATCTAGAATTATCTATAAAAGAT-TCTCAACATTTATAAGATGAATAGAAAAAATGTTG
65 TATCACATCTAGAATTATCAATAAAAAATCT-TAAACATTTATAAGATCAATAGAAAAAATGTTG
* * ** * *
1565142 ACATGTATCAACAATCCAAAAAACACTAAAATCTATAAATATGAAATGGGATTTGTAATTGTTAC
129 ACACGTAT-AACAATCCAAAAAACAAT-AAATCTATAAATATGAAATGAAATTTATAATTATTAC
* * *
1565207 TAGAGTAGTGAAGAGTGTAAAAAGTATGGTAGAGTAAGAGAACTTATAGGTACATAAG-AAAAAA
192 TAGAATAGTGAAGAGTGT------TA----A-AGTAAGAGAACTTATACGTACAAAAGAAAAAAA
* ** *
1565271 AATAAT-GATGTAAGTGTGTTATATTGTAATTGTATTATGTACTAATAAAGGTGTTACATTCTCT
246 AATAATAG-GGTAAGTGTGTTATATTACAATTGTATTATGTACTAATAAAAGTGTTACATTCTCT
* *
1565335 TGTAATTATAAGTTTCCCGATTAAACCTTAATTTGTTTCAAGTTATTAGTTCATTTGTGTTAATT
310 TGTAATTATAAGTTTCCCGACTAAACCTTAATTTATTTCAAGTTATTAGTTCATTTGTGTTAATT
* * * * * *
1565400 TTAATATATGATCAGTTCTACCTAGTGACAGATCTATTAAAGATCTAGGGTGAGCATGTGCACAC
375 TTAATATATGATCAGTTCTACCTAGTGACAGATCCACTAAAGACCTAGGCTGAACATGTACACAC
*
1565465 ATTGAAATTCGAATTTTATTCGGATAATTATATATTTTAATAGTTTTGTCCACCTTG
440 ACTGAAATTCGAATTTTATTCGGATAATTATATATTTTAATAGTTTTGTCCACCTTG
1565522 TATCAAAATT
Statistics
Matches: 430, Mismatches: 60, Indels: 25
0.83 0.12 0.05
Matches are distributed among these distances:
619 31 0.07
620 84 0.20
621 15 0.03
622 47 0.11
628 2 0.00
631 3 0.01
632 216 0.50
633 31 0.07
634 1 0.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (619 bp):
AATATTCTAAAATAATATAAAACTAAAAATATTCGTAAATAAACTAAATATTTGTAATATTTAAT
ATCACATCTAGAATTATCAATAAAAAATCTTAAACATTTATAAGATCAATAGAAAAAATGTTGAC
ACGTATAACAATCCAAAAAACAATAAATCTATAAATATGAAATGAAATTTATAATTATTACTAGA
ATAGTGAAGAGTGTTAAAGTAAGAGAACTTATACGTACAAAAGAAAAAAAAATAATAGGGTAAGT
GTGTTATATTACAATTGTATTATGTACTAATAAAAGTGTTACATTCTCTTGTAATTATAAGTTTC
CCGACTAAACCTTAATTTATTTCAAGTTATTAGTTCATTTGTGTTAATTTTAATATATGATCAGT
TCTACCTAGTGACAGATCCACTAAAGACCTAGGCTGAACATGTACACACACTGAAATTCGAATTT
TATTCGGATAATTATATATTTTAATAGTTTTGTCCACCTTGAAATTTTAATTGTGCCCACCATGT
ATCAAAATTTTATGTAATTAATATATATGTGTGTCCACCCTAAAAAATATTTCTAGATTCGCCAC
TGAAATATATAATTATTACGAGATGTAGCTCGAG
Found at i:1565886 original size:23 final size:23
Alignment explanation
Indices: 1565859--1565907 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
1565849 GTTAGCGAAC
1565859 ATGTTCACTTAATATTCATTTAT
1 ATGTTCACTTAATATTCATTTAT
* * *
1565882 ATGTTCATTTATTTTTCATTTAT
1 ATGTTCACTTAATATTCATTTAT
1565905 ATG
1 ATG
1565908 GTCGCGAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.27, C:0.10, G:0.06, T:0.57
Consensus pattern (23 bp):
ATGTTCACTTAATATTCATTTAT
Found at i:1565901 original size:11 final size:12
Alignment explanation
Indices: 1565859--1565907 Score: 57
Period size: 11 Copynumber: 4.2 Consensus size: 12
1565849 GTTAGCGAAC
*
1565859 ATGTTCACTTA-
1 ATGTTCATTTAT
*
1565870 ATATTCATTTAT
1 ATGTTCATTTAT
1565882 ATGTTCATTTAT
1 ATGTTCATTTAT
*
1565894 -TTTTCATTTAT
1 ATGTTCATTTAT
1565905 ATG
1 ATG
1565908 GTCGCGAACA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
11 19 0.61
12 12 0.39
ACGTcount: A:0.27, C:0.10, G:0.06, T:0.57
Consensus pattern (12 bp):
ATGTTCATTTAT
Found at i:1574649 original size:32 final size:32
Alignment explanation
Indices: 1574608--1574705 Score: 178
Period size: 32 Copynumber: 3.1 Consensus size: 32
1574598 TTCGTAACCG
1574608 ATGCAACTATCATTGAGGCAAAATGCACTCGA
1 ATGCAACTATCATTGAGGCAAAATGCACTCGA
1574640 ATGCAACTATCATTGAGGCAAAATGCACTCGA
1 ATGCAACTATCATTGAGGCAAAATGCACTCGA
**
1574672 ATGCAACTATCATCAAGGCAAAATGCACTCGA
1 ATGCAACTATCATTGAGGCAAAATGCACTCGA
1574704 AT
1 AT
1574706 AGGGGCACTG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 64 1.00
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.21
Consensus pattern (32 bp):
ATGCAACTATCATTGAGGCAAAATGCACTCGA
Found at i:1581661 original size:23 final size:23
Alignment explanation
Indices: 1581627--1581712 Score: 88
Period size: 23 Copynumber: 3.7 Consensus size: 23
1581617 ACATATTATA
*
1581627 TGGCACTACGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
*
1581650 TGGCACTTCGGTGC-ATCTCTATG
1 TGGCACTTCGGTGCAAT-TCTACG
*
1581673 TGGTC-CTTCGG-GACAAATTCTACA
1 TGG-CACTTCGGTG-C-AATTCTACG
1581697 TGGCACTTCGGTGCAA
1 TGGCACTTCGGTGCAA
1581713 ATTTATATGA
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
22 3 0.06
23 31 0.60
24 15 0.29
25 3 0.06
ACGTcount: A:0.20, C:0.26, G:0.26, T:0.29
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:1582292 original size:21 final size:22
Alignment explanation
Indices: 1582251--1582295 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
1582241 TACGGAAGTA
*
1582251 CTGTAGCAGGGGAATCGATTCC
1 CTGTAGCAGGGGAACCGATTCC
*
1582273 CTGTAGCA-GGGTACCGATTCC
1 CTGTAGCAGGGGAACCGATTCC
1582294 CT
1 CT
1582296 ATTTGCATGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.20, C:0.27, G:0.29, T:0.24
Consensus pattern (22 bp):
CTGTAGCAGGGGAACCGATTCC
Done.