Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, 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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 184 of 195
Found at i:31893047 original size:7 final size:7
Alignment explanation
Indices: 31893035--31893060 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
31893025 AATTTATCGA
31893035 TTTTAAT
1 TTTTAAT
31893042 TTTTAAT
1 TTTTAAT
31893049 TTTTAAT
1 TTTTAAT
31893056 TTTTA
1 TTTTA
31893061 TTTAATCACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTAAT
Found at i:31898848 original size:22 final size:21
Alignment explanation
Indices: 31898823--31898890 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 21
31898813 CCCGAAATTA
*
31898823 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTAATTTTT-AAAT
31898845 ATAAAATATTAATTTTTAAAT
1 ATAAAATATTAATTTTTAAAT
* * *
31898866 ATAAATATATAAATATATAAAT
1 ATAAA-ATATTAATTTTTAAAT
31898888 ATA
1 ATA
31898891 TATTATATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.22
22 32 0.78
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATAAAATATTAATTTTTAAAT
Found at i:31898867 original size:14 final size:14
Alignment explanation
Indices: 31898841--31898892 Score: 52
Period size: 16 Copynumber: 3.6 Consensus size: 14
31898831 TTATTTTTTA
31898841 AAATATA-AAATAT
1 AAATATATAAATAT
* * *
31898854 TAATTTTTAAATAT
1 AAATATATAAATAT
31898868 AAATATATAAATATAT
1 AAATATAT-AA-ATAT
31898884 AAATATATA
1 AAATATATA
31898893 TTATATATAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
13 4 0.13
14 11 0.37
15 3 0.10
16 12 0.40
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AAATATATAAATAT
Found at i:31898877 original size:8 final size:8
Alignment explanation
Indices: 31898864--31898905 Score: 66
Period size: 8 Copynumber: 5.1 Consensus size: 8
31898854 TAATTTTTAA
31898864 ATATAAAT
1 ATATAAAT
31898872 ATATAAAT
1 ATATAAAT
31898880 ATATAAAT
1 ATATAAAT
*
31898888 ATATATTAT
1 ATATA-AAT
31898897 ATATAAAT
1 ATATAAAT
31898905 A
1 A
31898906 AAAAATTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
8 24 0.77
9 7 0.23
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
ATATAAAT
Found at i:31905466 original size:8 final size:8
Alignment explanation
Indices: 31905452--31905506 Score: 83
Period size: 8 Copynumber: 6.6 Consensus size: 8
31905442 TGGATGAAGA
31905452 AAAAGAATG
1 AAAA-AATG
*
31905461 AAAGAATG
1 AAAAAATG
31905469 AAAAAATG
1 AAAAAATG
31905477 AAAAAAATG
1 -AAAAAATG
31905486 AAAAAATG
1 AAAAAATG
31905494 AAAAAATG
1 AAAAAATG
31905502 AAAAA
1 AAAAA
31905507 TGTGAAAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
8 32 0.74
9 11 0.26
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.11
Consensus pattern (8 bp):
AAAAAATG
Found at i:31905472 original size:17 final size:16
Alignment explanation
Indices: 31905452--31905506 Score: 83
Period size: 17 Copynumber: 3.3 Consensus size: 16
31905442 TGGATGAAGA
*
31905452 AAAAGAATGAAAGAATG
1 AAAA-AATGAAAAAATG
31905469 AAAAAATGAAAAAAATG
1 AAAAAATG-AAAAAATG
31905486 AAAAAATGAAAAAATG
1 AAAAAATGAAAAAATG
31905502 AAAAA
1 AAAAA
31905507 TGTGAAAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
16 17 0.47
17 19 0.53
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.11
Consensus pattern (16 bp):
AAAAAATGAAAAAATG
Found at i:31905480 original size:25 final size:25
Alignment explanation
Indices: 31905450--31905515 Score: 96
Period size: 25 Copynumber: 2.6 Consensus size: 25
31905440 AATGGATGAA
*
31905450 GAAAAAGAATGAAAGAATGAAAAAAT
1 GAAAAA-AATGAAAAAATGAAAAAAT
31905476 GAAAAAAATGAAAAAATGAAAAAAT
1 GAAAAAAATGAAAAAATGAAAAAAT
**
31905501 GAAAAATGTGAAAAA
1 GAAAAAAATGAAAAA
31905516 TGATGAATGT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
25 31 0.84
26 6 0.16
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (25 bp):
GAAAAAAATGAAAAAATGAAAAAAT
Found at i:31905514 original size:16 final size:17
Alignment explanation
Indices: 31905459--31905518 Score: 70
Period size: 16 Copynumber: 3.6 Consensus size: 17
31905449 AGAAAAAGAA
31905459 TGAAAGAATGAAAAAATG
1 TGAAA-AATGAAAAAATG
**
31905477 AAAAAAATGAAAAAATG
1 TGAAAAATGAAAAAATG
*
31905494 -AAAAAATG-AAAAATG
1 TGAAAAATGAAAAAATG
31905509 TGAAAAATGA
1 TGAAAAATGA
31905519 TGAATGTGCA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
15 7 0.19
16 15 0.41
17 12 0.32
18 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (17 bp):
TGAAAAATGAAAAAATG
Found at i:31905524 original size:16 final size:17
Alignment explanation
Indices: 31905479--31905532 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 17
31905469 AAAAAATGAA
* *
31905479 AAAAATGAAAAA-ATGA
1 AAAAATGAAAAATGTGC
31905495 AAAAATGAAAAATGTG-
1 AAAAATGAAAAATGTGC
**
31905511 AAAAATGATGAATGTGC
1 AAAAATGAAAAATGTGC
31905528 AAAAA
1 AAAAA
31905533 AAAAAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
16 26 0.79
17 7 0.21
ACGTcount: A:0.65, C:0.02, G:0.17, T:0.17
Consensus pattern (17 bp):
AAAAATGAAAAATGTGC
Found at i:31906751 original size:21 final size:22
Alignment explanation
Indices: 31906725--31906850 Score: 130
Period size: 24 Copynumber: 5.5 Consensus size: 22
31906715 GTTAAAAATG
31906725 ATGAGAATCTTT-GAGTTTTAA
1 ATGAGAATCTTTAGAGTTTTAA
*
31906746 ATGAGAACCTTTA-AGTTTTAA
1 ATGAGAATCTTTAGAGTTTTAA
*
31906767 ATGAGAATCTTTAAGAATTTTTAA
1 ATGAGAATCTTT-AG-AGTTTTAA
** *
31906791 ACAAGAATATTTAAAGAGTTTTAA
1 ATGAGAATCTTT--AGAGTTTTAA
*
31906815 ATAAGAATCTTTAAGAAGTTTTAA
1 ATGAGAATCTTT-AG-AGTTTTAA
31906839 ATGAGAATCTTT
1 ATGAGAATCTTT
31906851 GAATGAAAAT
Statistics
Matches: 89, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
21 30 0.34
22 1 0.01
23 3 0.03
24 52 0.58
25 3 0.03
ACGTcount: A:0.41, C:0.06, G:0.14, T:0.39
Consensus pattern (22 bp):
ATGAGAATCTTTAGAGTTTTAA
Found at i:31907297 original size:16 final size:16
Alignment explanation
Indices: 31907267--31907310 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
31907257 ATCTAAAATT
31907267 TTACGAAT-TTGAGTTC
1 TTACGAATCTT-AGTTC
*
31907283 TTATGAATCTTAGTTC
1 TTACGAATCTTAGTTC
*
31907299 TTGCGAATCTTA
1 TTACGAATCTTA
31907311 AAATCTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 22 0.92
17 2 0.08
ACGTcount: A:0.25, C:0.14, G:0.16, T:0.45
Consensus pattern (16 bp):
TTACGAATCTTAGTTC
Found at i:31907333 original size:33 final size:34
Alignment explanation
Indices: 31907296--31907360 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
31907286 TGAATCTTAG
* *
31907296 TTCTTGCGAATCT-TAAAATCTTATAAATCAAAA
1 TTCTTGCAAATCTGAAAAATCTTATAAATCAAAA
* *
31907329 TTCTTGCAAATCTGAAAAATTTTATTAATCAA
1 TTCTTGCAAATCTGAAAAATCTTATAAATCAA
31907361 GTTCTTCTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 12 0.44
34 15 0.56
ACGTcount: A:0.42, C:0.14, G:0.06, T:0.38
Consensus pattern (34 bp):
TTCTTGCAAATCTGAAAAATCTTATAAATCAAAA
Found at i:31907366 original size:33 final size:33
Alignment explanation
Indices: 31907294--31907366 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
31907284 TATGAATCTT
* *
31907294 AGTTCTTGCGAATCTTAAAATCTTATAAATCAA
1 AGTTCTTGCAAATCTAAAAATCTTATAAATCAA
* * *
31907327 AATTCTTGCAAATCTGAAAAATTTTATTAATC-A
1 AGTTCTTGCAAATCT-AAAAATCTTATAAATCAA
31907360 AGTTCTT
1 AGTTCTT
31907367 CTGAAATTGA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
33 20 0.61
34 13 0.39
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (33 bp):
AGTTCTTGCAAATCTAAAAATCTTATAAATCAA
Found at i:31907405 original size:17 final size:17
Alignment explanation
Indices: 31907385--31907433 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
31907375 GAATTCTTAC
31907385 GAATTTGAAATTTTTGT
1 GAATTTGAAATTTTTGT
* *
31907402 GAATCTG-AATTCCTTGT
1 GAATTTGAAATT-TTTGT
31907419 GAATTTGAAATTTTT
1 GAATTTGAAATTTTT
31907434 AAAACCTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 4 0.15
17 18 0.69
18 4 0.15
ACGTcount: A:0.29, C:0.06, G:0.16, T:0.49
Consensus pattern (17 bp):
GAATTTGAAATTTTTGT
Found at i:31907458 original size:18 final size:18
Alignment explanation
Indices: 31907435--31907469 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
31907425 GAAATTTTTA
31907435 AAACCTAAAAATTCTTGT
1 AAACCTAAAAATTCTTGT
31907453 AAACCTAAAAATTCTTG
1 AAACCTAAAAATTCTTG
31907470 CGAACTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.17, G:0.06, T:0.31
Consensus pattern (18 bp):
AAACCTAAAAATTCTTGT
Found at i:31907481 original size:19 final size:18
Alignment explanation
Indices: 31907435--31907491 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 18
31907425 GAAATTTTTA
*
31907435 AAACCTAAAAATTCTTGT
1 AAACCTAAAAATTCTTGC
31907453 AAACCTAAAAATTCTTGC
1 AAACCTAAAAATTCTTGC
* * * *
31907471 GAACTTGAAAATTTTTGC
1 AAACCTAAAAATTCTTGC
31907489 AAA
1 AAA
31907492 TATGAAAGTC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.32
Consensus pattern (18 bp):
AAACCTAAAAATTCTTGC
Found at i:31910813 original size:95 final size:94
Alignment explanation
Indices: 31910702--31910886 Score: 266
Period size: 95 Copynumber: 2.0 Consensus size: 94
31910692 TAGAATATAT
*
31910702 GAAAAAATAAAAAATAAAATATATATCAATATTTTAAT-TTCATTTATAAAATT-AAGAAATTCT
1 GAAAAAATAAAAAATAAAATATATATCAATATTTTAATCTT-ATTTATAAAATTAAAAAAATTCT
* * * *
31910765 TTTGATAATATATCATATCATCATAAGAAC
65 ATTCACAATATATCAAATCATCATAAGAAC
* *
31910795 GAAAATAATTAAAAAATAAAATATATATCAGTTTTTTAATCTTATTTATAAAATTAAAAAAATTC
1 GAAAA-AA-TAAAAAATAAAATATATATCAATATTTTAATCTTATTTATAAAATTAAAAAAATTC
31910860 TATTCACAATATATCAAATCATCATAA
64 TATTCACAATATATCAAATCATCATAA
31910887 TAATGAATAT
Statistics
Matches: 81, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
93 5 0.06
94 2 0.02
95 41 0.51
96 33 0.41
ACGTcount: A:0.52, C:0.08, G:0.03, T:0.37
Consensus pattern (94 bp):
GAAAAAATAAAAAATAAAATATATATCAATATTTTAATCTTATTTATAAAATTAAAAAAATTCTA
TTCACAATATATCAAATCATCATAAGAAC
Found at i:31911230 original size:2 final size:2
Alignment explanation
Indices: 31911223--31911267 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
31911213 AGATTTAAAA
31911223 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
31911265 AG A
1 AG A
31911268 AAAGCAGTTG
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:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:31912665 original size:2 final size:2
Alignment explanation
Indices: 31912658--31912689 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
31912648 AGCTAACAGC
31912658 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
31912690 TGGACCCCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31919788 original size:38 final size:37
Alignment explanation
Indices: 31919713--31919804 Score: 107
Period size: 38 Copynumber: 2.4 Consensus size: 37
31919703 TTATTTGAAA
* *
31919713 TTAATTAAAATAAAATTTAAATTTAAATTAATTATTAT
1 TTAATTAAATTTAAATTTAAA-TTAAATTAATTATTAT
31919751 TTAATTAAATTTAAATTTAAA-T-AATTCAATTTAATTAT
1 TTAATTAAATTTAAATTTAAATTAAATT-AA-TT-ATTAT
*
31919789 TGAATTAAATTTAAAT
1 TTAATTAAATTTAAAT
31919805 ATTTTTATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
35 4 0.08
36 3 0.06
37 2 0.04
38 39 0.81
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (37 bp):
TTAATTAAATTTAAATTTAAATTAAATTAATTATTAT
Found at i:31919805 original size:32 final size:30
Alignment explanation
Indices: 31919725--31919805 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 30
31919715 AATTAAAATA
31919725 AAATTTAAATTTAAATTAATTATTATTTAATT
1 AAATTTAAATTTAAA-TAATTA-TATTTAATT
31919757 AAATTTAAATTTAAATAATTCA-ATTTAATT
1 AAATTTAAATTTAAATAATT-ATATTTAATT
31919787 ATTGAA-TTAAATTTAAATA
1 A---AATTTAAATTTAAATA
31919806 TTTTTATATT
Statistics
Matches: 45, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
30 9 0.20
31 5 0.11
32 29 0.64
33 2 0.04
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (30 bp):
AAATTTAAATTTAAATAATTATATTTAATT
Found at i:31929373 original size:39 final size:39
Alignment explanation
Indices: 31929315--31929393 Score: 106
Period size: 39 Copynumber: 2.0 Consensus size: 39
31929305 TTTAATGATG
* * *
31929315 AAAACCTTAAGATTGAAAGAAC-ACCTATTATTTATTTTC
1 AAAACCTTAAGACTAAAAGAACTA-CTATTATGTATTTTC
*
31929354 AAAACCTTAAGACTAAAAGAACTACTATTGTGTATTTTC
1 AAAACCTTAAGACTAAAAGAACTACTATTATGTATTTTC
31929393 A
1 A
31929394 TCATATTGGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 34 0.97
40 1 0.03
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (39 bp):
AAAACCTTAAGACTAAAAGAACTACTATTATGTATTTTC
Found at i:31955466 original size:15 final size:15
Alignment explanation
Indices: 31955446--31955477 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
31955436 AAAAAATATG
31955446 ATAAAATTATATGTA
1 ATAAAATTATATGTA
*
31955461 ATAAAATTATATTTA
1 ATAAAATTATATGTA
31955476 AT
1 AT
31955478 TCACATATAT
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:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (15 bp):
ATAAAATTATATGTA
Found at i:31955638 original size:21 final size:22
Alignment explanation
Indices: 31955590--31955638 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
31955580 CTTAATCAAA
*
31955590 ATTTAAATGAATTTAAAATTTAT
1 ATTT-AATAAATTTAAAATTTAT
* *
31955613 GTTTAATAAATTT-AAATTTTT
1 ATTTAATAAATTTAAAATTTAT
31955634 ATTTA
1 ATTTA
31955639 TTTTTTTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 11 0.50
22 8 0.36
23 3 0.14
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (22 bp):
ATTTAATAAATTTAAAATTTAT
Found at i:31962668 original size:12 final size:12
Alignment explanation
Indices: 31962651--31962676 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
31962641 AATTTTATAT
31962651 ATACGATGATAC
1 ATACGATGATAC
31962663 ATACGATGATAC
1 ATACGATGATAC
31962675 AT
1 AT
31962677 CGAAAGTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (12 bp):
ATACGATGATAC
Found at i:31962932 original size:15 final size:15
Alignment explanation
Indices: 31962905--31962949 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
31962895 TCGTAACATG
31962905 AAATAATTATAATATA
1 AAATAA-TATAATATA
*
31962921 AAATAATATAATTTA
1 AAATAATATAATATA
*
31962936 AAATTATAGTAATA
1 AAATAATA-TAATA
31962950 ATTATATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 15 0.60
16 10 0.40
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (15 bp):
AAATAATATAATATA
Found at i:31962968 original size:40 final size:40
Alignment explanation
Indices: 31962906--31962983 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
31962896 CGTAACATGA
* * *
31962906 AATAATTATAATATAAAATAATATAATTTAAAATTATAGT
1 AATAATTATAATATAAAATAATAAAATTAAAAAATATAGT
*
31962946 AATAATTAT-ATATAAATTTAATAAAATTAAAAAATATA
1 AATAATTATAATATAAA-ATAATAAAATTAAAAAATATA
31962984 TTTTTTATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 7 0.21
40 26 0.79
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (40 bp):
AATAATTATAATATAAAATAATAAAATTAAAAAATATAGT
Found at i:31963020 original size:12 final size:12
Alignment explanation
Indices: 31963003--31963047 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
31962993 TTTTTATATC
31963003 AATATAAATTAT
1 AATATAAATTAT
* *
31963015 AATATAATTTTT
1 AATATAAATTAT
* *
31963027 TATATAAAATAT
1 AATATAAATTAT
31963039 AATATAAAT
1 AATATAAAT
31963048 ATACGAATGA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
AATATAAATTAT
Found at i:31963730 original size:13 final size:13
Alignment explanation
Indices: 31963709--31963739 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
31963699 TGTTATTTTT
31963709 TAAAATAATTATA
1 TAAAATAATTATA
*
31963722 TAAATTAATTATA
1 TAAAATAATTATA
31963735 TAAAA
1 TAAAA
31963740 AAAACAACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TAAAATAATTATA
Found at i:31969385 original size:100 final size:100
Alignment explanation
Indices: 31969196--31969382 Score: 304
Period size: 99 Copynumber: 1.9 Consensus size: 100
31969186 CTGATCTCAG
** *
31969196 CTAGATTAAGTTCTTATGTAAGAATTTATGATCAGTTGTGCTTTGCAAGTTGGAATATTGATGTT
1 CTAGATTAAGTTCTTACATAAGAATTTATAATCAGTTGTGCTTTGCAAGTTGGAATATTGATGTT
31969261 TTTATTGTATTTTTGAAGTTAAATTCTGACCTTAT
66 TTTATTGTATTTTTGAAGTTAAATTCTGACCTTAT
* * *
31969296 CTAGATTAAGTTCTTACATGAGAATTTA-AATCAGTTGTGCTTTGGAAGTTGGAATATTGCTGTT
1 CTAGATTAAGTTCTTACATAAGAATTTATAATCAGTTGTGCTTTGCAAGTTGGAATATTGATGTT
*
31969360 TTTATTGTATTTTTTAAGTTAAA
66 TTTATTGTATTTTTGAAGTTAAA
31969383 ATTTATATGT
Statistics
Matches: 80, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
99 55 0.69
100 25 0.31
ACGTcount: A:0.28, C:0.07, G:0.18, T:0.47
Consensus pattern (100 bp):
CTAGATTAAGTTCTTACATAAGAATTTATAATCAGTTGTGCTTTGCAAGTTGGAATATTGATGTT
TTTATTGTATTTTTGAAGTTAAATTCTGACCTTAT
Found at i:31973536 original size:2 final size:2
Alignment explanation
Indices: 31973529--31973557 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
31973519 TTTAAGTGTT
31973529 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
31973558 TACATTGTCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:31974536 original size:18 final size:18
Alignment explanation
Indices: 31974510--31974569 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
31974500 TAAAATATAC
*
31974510 AAATCATAAATAAATTTT
1 AAATTATAAATAAATTTT
31974528 AAATTAT-AATAAAATATTT
1 AAATTATAAAT-AAAT-TTT
* *
31974547 AATATAATAATTAAA-TTT
1 AA-ATTATAAATAAATTTT
31974565 AAATT
1 AAATT
31974570 TTTTTTAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
17 5 0.15
18 15 0.44
19 5 0.15
20 7 0.21
21 2 0.06
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATTATAAATAAATTTT
Found at i:31974556 original size:20 final size:18
Alignment explanation
Indices: 31974521--31974568 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
31974511 AATCATAAAT
*
31974521 AAATTTTAAATTATAATA
1 AAATTTTAAATAATAATA
*
31974539 AAATATTTAATATAATAATT
1 AAAT-TTTAA-ATAATAATA
31974559 AAA-TTTAAAT
1 AAATTTTAAAT
31974569 TTTTTTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 2 0.08
18 9 0.35
19 5 0.19
20 10 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATTTTAAATAATAATA
Found at i:31974618 original size:32 final size:29
Alignment explanation
Indices: 31974545--31974619 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
31974535 AATAAAATAT
* **
31974545 TTAATATAATAATTAAATTTAAATTTTTT
1 TTAATATAATACTTAAATTTAAATTTTAA
31974574 TTAATATAATACTTAAATTATAAATTCATTAA
1 TTAATATAATACTTAAATT-TAAATT--TTAA
*
31974606 TTAATATTATACTT
1 TTAATATAATACTT
31974620 GATGAATTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
29 18 0.46
30 6 0.15
32 15 0.38
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (29 bp):
TTAATATAATACTTAAATTTAAATTTTAA
Found at i:31976026 original size:20 final size:19
Alignment explanation
Indices: 31976001--31976047 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
31975991 TAGAGGGGTA
* *
31976001 AAAAATGAAGGAGAATGAAG
1 AAAAATAAAAGAGAA-GAAG
*
31976021 AAAAATAAAAGAGAAGGAG
1 AAAAATAAAAGAGAAGAAG
31976040 AAAAATAA
1 AAAAATAA
31976048 TTAAAAATGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.68, C:0.00, G:0.23, T:0.09
Consensus pattern (19 bp):
AAAAATAAAAGAGAAGAAG
Found at i:31976147 original size:14 final size:15
Alignment explanation
Indices: 31976125--31976164 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
31976115 TTAATATTTT
31976125 TAATA-AAAT-ATAA
1 TAATATAAATAATAA
31976138 TAATATAAATAATAA
1 TAATATAAATAATAA
*
31976153 -AATATAATTAAT
1 TAATATAAATAAT
31976165 TATCATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 5 0.21
14 15 0.62
15 4 0.17
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
TAATATAAATAATAA
Found at i:31976226 original size:12 final size:11
Alignment explanation
Indices: 31976188--31976246 Score: 57
Period size: 11 Copynumber: 5.4 Consensus size: 11
31976178 TTAATTGTGA
31976188 TTAATAAT-AT
1 TTAATAATAAT
* *
31976198 TTTATAATAAA
1 TTAATAATAAT
31976209 TTAATAATTAAT
1 TTAATAA-TAAT
*
31976221 TTAATAAAAAT
1 TTAATAATAAT
**
31976232 AAAATAATAAT
1 TTAATAATAAT
31976243 TTAA
1 TTAA
31976247 ACTTAATCCA
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
10 7 0.19
11 20 0.54
12 10 0.27
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TTAATAATAAT
Found at i:31976231 original size:22 final size:22
Alignment explanation
Indices: 31976187--31976246 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
31976177 ATTAATTGTG
*
31976187 ATTAATAAT-ATTTTATAATAA
1 ATTAATAATAATTTAATAATAA
31976208 ATTAATAATTAATTTAATAA-AA
1 ATTAATAA-TAATTTAATAATAA
*
31976230 ATAAAATAATAATTTAA
1 AT-TAATAATAATTTAA
31976247 ACTTAATCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 8 0.24
22 13 0.38
23 13 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
ATTAATAATAATTTAATAATAA
Found at i:31979007 original size:21 final size:21
Alignment explanation
Indices: 31978983--31979051 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
31978973 TTTGTACGAC
31978983 TTAATTCGTTTTTTAGTGCCA
1 TTAATTCGTTTTTTAGTGCCA
* *
31979004 TTAATTATGTTTTGTTA-TGAC-
1 TTAATT-CGTTTT-TTAGTGCCA
* *
31979025 TTAATTCGTCTATTAGTGCCA
1 TTAATTCGTTTTTTAGTGCCA
31979046 TTAATT
1 TTAATT
31979052 ATTCAAAAGA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
19 3 0.08
20 6 0.16
21 18 0.47
22 8 0.21
23 3 0.08
ACGTcount: A:0.23, C:0.12, G:0.13, T:0.52
Consensus pattern (21 bp):
TTAATTCGTTTTTTAGTGCCA
Found at i:31979029 original size:42 final size:41
Alignment explanation
Indices: 31978972--31979053 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 41
31978962 GGATCATAGT
* *
31978972 TTTTGTACGACTTAATTCGTTTTTTAGTGCCATTAATTATG
1 TTTTGTACGACTTAATTCGTCTATTAGTGCCATTAATTATG
*
31979013 TTTTGTTATGACTTAATTCGTCTATTAGTGCCATTAATTAT
1 TTTTG-TACGACTTAATTCGTCTATTAGTGCCATTAATTAT
31979054 TCAAAAGAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
41 5 0.14
42 32 0.86
ACGTcount: A:0.23, C:0.12, G:0.13, T:0.51
Consensus pattern (41 bp):
TTTTGTACGACTTAATTCGTCTATTAGTGCCATTAATTATG
Found at i:31981507 original size:16 final size:16
Alignment explanation
Indices: 31981481--31981521 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
31981471 AAATTAAATT
31981481 ATATT-ATATTTTAAA
1 ATATTAATATTTTAAA
31981496 ATATTAATATTTTAAA
1 ATATTAATATTTTAAA
*
31981512 ATTTTAATAT
1 ATATTAATAT
31981522 ATTTTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 5 0.21
16 19 0.79
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATATTAATATTTTAAA
Found at i:31981518 original size:24 final size:23
Alignment explanation
Indices: 31981488--31981534 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
31981478 ATTATATTAT
31981488 ATTTTAAAATATTAATATTTTAAA
1 ATTTTAAAATATT-ATATTTTAAA
* *
31981512 ATTTTAATATATTTTATTTTAAA
1 ATTTTAAAATATTATATTTTAAA
31981535 TTTCAAGTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTTTAAAATATTATATTTTAAA
Found at i:31982003 original size:17 final size:17
Alignment explanation
Indices: 31981981--31982014 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
31981971 GCTGCTTCTA
31981981 GTTGAAGGCAGGAACTC
1 GTTGAAGGCAGGAACTC
31981998 GTTGAAGGCAGGAACTC
1 GTTGAAGGCAGGAACTC
31982015 AGAGAGGTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.35, T:0.18
Consensus pattern (17 bp):
GTTGAAGGCAGGAACTC
Found at i:31991072 original size:21 final size:20
Alignment explanation
Indices: 31991020--31991072 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
31991010 CAAATCTTAT
*
31991020 AAAAAATTTATTTGATATTA
1 AAAAAATTTATTTGATAATA
** *
31991040 ATTAGATATTATTTGATGAATA
1 AAAAAAT-TTATTTGAT-AATA
31991062 AAAAAATTTAT
1 AAAAAATTTAT
31991073 AAAAAAAAAT
Statistics
Matches: 24, Mismatches: 7, Indels: 3
0.71 0.21 0.09
Matches are distributed among these distances:
20 4 0.17
21 13 0.54
22 7 0.29
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (20 bp):
AAAAAATTTATTTGATAATA
Found at i:31991407 original size:13 final size:14
Alignment explanation
Indices: 31991389--31991417 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
31991379 ATTAAAAAAT
31991389 TTATAAAT-ATTAA
1 TTATAAATAATTAA
31991402 TTATAAATAATTAA
1 TTATAAATAATTAA
31991416 TT
1 TT
31991418 TAATTGTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TTATAAATAATTAA
Found at i:32003356 original size:92 final size:92
Alignment explanation
Indices: 32003194--32003382 Score: 344
Period size: 92 Copynumber: 2.1 Consensus size: 92
32003184 GAATAATTTT
*
32003194 ATCAATTTCCCTTTCTTGATAATTACTGCTTTAGGCTTAACCAATATAACTTCTATGTCTGCTTC
1 ATCATTTTCCCTTTCTTGATAATTACTGCTTTAGGCTTAACCAATATAACTTCTATGTCTGCTTC
32003259 TTTTCCTGG-ATGAACTTGAACCAAAAG
66 TTTTCCTGGCA-GAACTTGAACCAAAAG
*
32003286 ATCATTTTCCCTTTCTTGATAATTACTGTTTTAGGCTTAACCAATATAACTTCTATGTCTGCTTC
1 ATCATTTTCCCTTTCTTGATAATTACTGCTTTAGGCTTAACCAATATAACTTCTATGTCTGCTTC
32003351 TTTTCCTGGCAGAACTTGAACCAAAAG
66 TTTTCCTGGCAGAACTTGAACCAAAAG
32003378 ATCAT
1 ATCAT
32003383 CAGTTCAAGT
Statistics
Matches: 94, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
92 93 0.99
93 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.40
Consensus pattern (92 bp):
ATCATTTTCCCTTTCTTGATAATTACTGCTTTAGGCTTAACCAATATAACTTCTATGTCTGCTTC
TTTTCCTGGCAGAACTTGAACCAAAAG
Found at i:32013168 original size:29 final size:29
Alignment explanation
Indices: 32013123--32013209 Score: 81
Period size: 30 Copynumber: 2.9 Consensus size: 29
32013113 TGCTATTAAA
32013123 TAAAAAATATAATGATAAAATTTTATA-ATT
1 TAAAAAATA-AA-GATAAAATTTTATATATT
*
32013153 TAAAAAATCAAAGAT-AAATTTGATATATT
1 TAAAAAAT-AAAGATAAAATTTTATATATT
*
32013182 TATATAAAATAAA-ATAACAAATTTATAT
1 TA-A-AAAATAAAGATAA-AATTTTATAT
32013210 CTGATCTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
28 9 0.19
29 10 0.21
30 15 0.31
31 14 0.29
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.37
Consensus pattern (29 bp):
TAAAAAATAAAGATAAAATTTTATATATT
Found at i:32014968 original size:23 final size:24
Alignment explanation
Indices: 32014932--32014979 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
32014922 TTGCAATATT
*
32014932 GAAAAAAAAAAACCCAAAA-AAAG
1 GAAAAAAAAAAACCAAAAAGAAAG
* *
32014955 GAAAAAGAAGAACCAAAAAGAAAG
1 GAAAAAAAAAAACCAAAAAGAAAG
32014979 G
1 G
32014980 GCAAGCAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.73, C:0.10, G:0.17, T:0.00
Consensus pattern (24 bp):
GAAAAAAAAAAACCAAAAAGAAAG
Found at i:32017834 original size:3 final size:3
Alignment explanation
Indices: 32017826--32017870 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
32017816 ATTCTTAGAT
* * *
32017826 ATA ATA ATA ATA ATA ATA ATA ATG ATA ATA ACA ATG ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
32017871 CATGTAAGCC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:32017843 original size:12 final size:12
Alignment explanation
Indices: 32017826--32017870 Score: 72
Period size: 12 Copynumber: 3.8 Consensus size: 12
32017816 ATTCTTAGAT
*
32017826 ATAATAATAATA
1 ATAATAATAATG
32017838 ATAATAATAATG
1 ATAATAATAATG
*
32017850 ATAATAACAATG
1 ATAATAATAATG
32017862 ATAATAATA
1 ATAATAATA
32017871 CATGTAAGCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (12 bp):
ATAATAATAATG
Found at i:32026448 original size:13 final size:13
Alignment explanation
Indices: 32026430--32026455 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32026420 TTGAATAGGG
32026430 GATAGAGATGGGA
1 GATAGAGATGGGA
32026443 GATAGAGATGGGA
1 GATAGAGATGGGA
32026456 ATGATAGGGG
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:0.38, C:0.00, G:0.46, T:0.15
Consensus pattern (13 bp):
GATAGAGATGGGA
Found at i:32026581 original size:2 final size:2
Alignment explanation
Indices: 32026576--32026618 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
32026566 CTCTATTTTG
32026576 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
32026618 A
1 A
32026619 GATAGAGAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:32030441 original size:2 final size:2
Alignment explanation
Indices: 32030434--32030467 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
32030424 TGTAATTTTC
32030434 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
32030468 TCTCAAACTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32031309 original size:2 final size:2
Alignment explanation
Indices: 32031302--32031346 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
32031292 ACGTCAAAAG
*
32031302 TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32031344 TA T
1 TA T
32031347 TCTGATCTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:32035277 original size:1 final size:1
Alignment explanation
Indices: 32035237--32035262 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
32035227 AGGAAACCTT
32035237 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
32035263 GAAGAAGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:32037290 original size:16 final size:17
Alignment explanation
Indices: 32037269--32037300 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
32037259 TGCTACATAG
32037269 TTTTTTTCT-TTTTTAA
1 TTTTTTTCTCTTTTTAA
32037285 TTTTTTTCTCTTTTTA
1 TTTTTTTCTCTTTTTA
32037301 TCTTTGTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTTTTCTCTTTTTAA
Found at i:32037425 original size:21 final size:23
Alignment explanation
Indices: 32037407--32037449 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
32037397 TTTTTTGAAC
32037407 CATTTTTA-AAAAATATTGAATA
1 CATTTTTATAAAAATATTGAATA
* *
32037429 TATTTTTATCAAAATATTGAA
1 CATTTTTATAAAAATATTGAA
32037450 AAAGAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (23 bp):
CATTTTTATAAAAATATTGAATA
Found at i:32040185 original size:26 final size:26
Alignment explanation
Indices: 32040129--32040185 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
32040119 TCACTTTGAC
* * ** *
32040129 TTTTTTTCTGAATTTTTTTTAATTTA
1 TTTTTTTATGAATTTTATCAAAATTA
*
32040155 ATTTTTTATGAATTTTATCAAAATTA
1 TTTTTTTATGAATTTTATCAAAATTA
32040181 TTTTT
1 TTTTT
32040186 CAATGTGACC
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.67
Consensus pattern (26 bp):
TTTTTTTATGAATTTTATCAAAATTA
Found at i:32040712 original size:22 final size:21
Alignment explanation
Indices: 32040666--32040727 Score: 90
Period size: 21 Copynumber: 2.9 Consensus size: 21
32040656 TTTAATTTAA
32040666 TTTTAAATTAATAAAATATTATT
1 TTTTAAA-T-ATAAAATATTATT
32040689 TTTTAAATATAAAATATTATT
1 TTTTAAATATAAAATATTATT
32040710 TTTTAAA-ATATAAATATT
1 TTTTAAATATA-AAATATT
32040728 TAAATATATA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.08
21 27 0.71
22 1 0.03
23 7 0.18
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTTAAATATAAAATATTATT
Found at i:32040733 original size:8 final size:8
Alignment explanation
Indices: 32040713--32040753 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
32040703 TATTATTTTT
32040713 TAAA-ATA
1 TAAATATA
*
32040720 TAAATATT
1 TAAATATA
32040728 TAAATATA
1 TAAATATA
*
32040736 TAATTATA
1 TAAATATA
32040744 TAAATATA
1 TAAATATA
32040752 TA
1 TA
32040754 TAAATAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
7 4 0.14
8 25 0.86
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
TAAATATA
Found at i:32040759 original size:26 final size:24
Alignment explanation
Indices: 32040717--32040768 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 24
32040707 ATTTTTTAAA
* *
32040717 ATATAAATATTTAAATATATAATT
1 ATATAAATATTTAAATAAAAAATT
32040741 ATATAAATATATATAAATAAAAAATT
1 ATATAAATAT-T-TAAATAAAAAATT
32040767 AT
1 AT
32040769 TTTTAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 10 0.42
25 1 0.04
26 13 0.54
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
ATATAAATATTTAAATAAAAAATT
Found at i:32040784 original size:12 final size:13
Alignment explanation
Indices: 32040760--32040786 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
32040750 TATATAAATA
32040760 AAAAATTATTTTT
1 AAAAATTATTTTT
32040773 AAAAATTATTTTT
1 AAAAATTATTTTT
32040786 A
1 A
32040787 TATAATATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AAAAATTATTTTT
Found at i:32045180 original size:72 final size:72
Alignment explanation
Indices: 32045104--32045246 Score: 175
Period size: 72 Copynumber: 2.0 Consensus size: 72
32045094 TTTTCTTTCT
* * * * *
32045104 GAAATTTTAATTT-TAAGAAAATTTGATATTTTTAACTTTTTCTCA-AAATACTTTTTGAA-AAT
1 GAAATTTT-ATTTGCAAAAAAAATTGATACTTTCAACTTTTTCTCATAAA-ACTTTTTGAACAA-
32045166 TTTTATTTTA
63 TTTTATTTTA
* *
32045176 GAAATTTTATTTGCAAAAAAAATTGATACTTTCAACTTTTTCTCATAAAATTTTTTTAACAATTT
1 GAAATTTTATTTGCAAAAAAAATTGATACTTTCAACTTTTTCTCATAAAACTTTTTGAACAATTT
32045241 TATTTT
66 TATTTT
32045247 CAAGGAAAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
71 4 0.07
72 52 0.85
73 5 0.08
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.51
Consensus pattern (72 bp):
GAAATTTTATTTGCAAAAAAAATTGATACTTTCAACTTTTTCTCATAAAACTTTTTGAACAATTT
TATTTTA
Found at i:32045200 original size:134 final size:132
Alignment explanation
Indices: 32045059--32045308 Score: 314
Period size: 134 Copynumber: 1.9 Consensus size: 132
32045049 TATTTTTAAG
* **
32045059 AAAAATTGGTACTTCCAACTTTTTCTCA-AAATATTTTTTCTTTCTGAAATTTTAATTTT-AA-G
1 AAAAATTGATACTTCCAACTTTTTCTCATAAA-ATTTTTT-TAAC---AATTTT-ATTTTCAAGG
* * *
32045121 AAAATTTGATATTTTTAAC-TTTTTCTC-AAAATA-CTTTTTGAAAATTTTTATTTTAGAAATTT
60 AAAAATTGATACTTTCAACTTTTTTCTCAAAAATATCTTTTTG-AAA-TTTTATTTTAGAAATTT
32045183 TATTTGCAAA
123 TATTTGCAAA
*
32045193 AAAAATTGATACTTTCAACTTTTTCTCATAAAATTTTTTTAACAATTTTATTTTCAAGGAAAAAT
1 AAAAATTGATACTTCCAACTTTTTCTCATAAAATTTTTTTAACAATTTTATTTTCAAGGAAAAAT
*
32045258 TGATACTTTCAACTTTTTTCTCAAAAATATTTTTTTGAAATTTTATTTTAG
66 TGATACTTTCAACTTTTTTCTCAAAAATATCTTTTTGAAATTTTATTTTAG
32045309 GAAAATCATT
Statistics
Matches: 102, Mismatches: 8, Indels: 14
0.82 0.06 0.11
Matches are distributed among these distances:
129 5 0.05
130 8 0.08
131 17 0.17
132 19 0.19
133 11 0.11
134 39 0.38
135 3 0.03
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.50
Consensus pattern (132 bp):
AAAAATTGATACTTCCAACTTTTTCTCATAAAATTTTTTTAACAATTTTATTTTCAAGGAAAAAT
TGATACTTTCAACTTTTTTCTCAAAAATATCTTTTTGAAATTTTATTTTAGAAATTTTATTTGCA
AA
Found at i:32045291 original size:60 final size:59
Alignment explanation
Indices: 32045161--32045313 Score: 190
Period size: 59 Copynumber: 2.6 Consensus size: 59
32045151 ATACTTTTTG
* *
32045161 AAAATTTTTATTTTAGAAATTTTATTTGCAA-AAAAAATTGATACTTTCAACTTTTTCTCAT
1 AAAA-TTTT-TTTTA-AAATTTTATTTTCAAGGAAAAATTGATACTTTCAACTTTTTCTCAT
32045222 AAAA-TTTTTTTAACAATTTTATTTTCAAGGAAAAATTGATACTTTCAACTTTTTTCTCA-
1 AAAATTTTTTTTAA-AATTTTATTTTCAAGGAAAAATTGATACTTTCAAC-TTTTTCTCAT
*
32045281 AAAATATTTTTTTGAAATTTTATTTT--AGGAAAA
1 AAAAT-TTTTTTTAAAATTTTATTTTCAAGGAAAA
32045314 TCATTGAAAA
Statistics
Matches: 84, Mismatches: 3, Indels: 13
0.84 0.03 0.13
Matches are distributed among these distances:
57 1 0.01
58 25 0.30
59 26 0.31
60 20 0.24
61 12 0.14
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (59 bp):
AAAATTTTTTTTAAAATTTTATTTTCAAGGAAAAATTGATACTTTCAACTTTTTCTCAT
Found at i:32045320 original size:60 final size:58
Alignment explanation
Indices: 32045193--32045313 Score: 183
Period size: 60 Copynumber: 2.1 Consensus size: 58
32045183 TATTTGCAAA
*
32045193 AAAAATTGATACTTTCAACTTTTTCTCATAAAATTTTTTTAACAATTTTATTTTCAAGG
1 AAAAATTGATACTTTCAACTTTTTCTCAAAAAATTTTTTTAACAATTTTATTTT-AAGG
*
32045252 AAAAATTGATACTTTCAACTTTTTTCTCAAAAATATTTTTTTGA-AATTTTATTTT-AGG
1 AAAAATTGATACTTTCAAC-TTTTTCTCAAAAA-ATTTTTTTAACAATTTTATTTTAAGG
32045310 AAAA
1 AAAA
32045314 TCATTGAAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
58 7 0.12
59 19 0.33
60 23 0.40
61 9 0.16
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.47
Consensus pattern (58 bp):
AAAAATTGATACTTTCAACTTTTTCTCAAAAAATTTTTTTAACAATTTTATTTTAAGG
Found at i:32046616 original size:20 final size:20
Alignment explanation
Indices: 32046591--32046629 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
32046581 TTTCTGTGCA
32046591 ACATGAATTATGCAAAGACG
1 ACATGAATTATGCAAAGACG
32046611 ACATGAATTATGCAAAGAC
1 ACATGAATTATGCAAAGAC
32046630 ATAGACACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.15, G:0.18, T:0.21
Consensus pattern (20 bp):
ACATGAATTATGCAAAGACG
Found at i:32047261 original size:41 final size:41
Alignment explanation
Indices: 32047214--32047370 Score: 131
Period size: 44 Copynumber: 3.6 Consensus size: 41
32047204 GTTTCACATA
* *
32047214 TCAAAGATTCTCATTTAAAATTTAAA-TTTTTTCATTTGAAT
1 TCAAAGATTCTCATTTAAAATTCAAAGGTTTTT-ATTTGAAT
32047255 TCAAAGATTCTCATTTAAAATTCAAAGGTTTTTATTTGAAAACAT
1 TCAAAGATTCTCATTTAAAATTCAAAGGTTTTTATTTG---A-AT
* * * *
32047300 CTTAAAGATTCTCA--TAAGATTCAAAGATTCTTATTTGGAAAT
1 -TCAAAGATTCTCATTTAAAATTCAAAGGTTTTTATTT-G-AAT
*
32047342 ATCTTAAAGATTCTCATTTAAGATTCAAA
1 -TC--AAAGATTCTCATTTAAAATTCAAA
32047371 TATTCTCATT
Statistics
Matches: 97, Mismatches: 8, Indels: 17
0.80 0.07 0.14
Matches are distributed among these distances:
41 30 0.31
42 8 0.08
43 2 0.02
44 31 0.32
45 3 0.03
46 23 0.24
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.41
Consensus pattern (41 bp):
TCAAAGATTCTCATTTAAAATTCAAAGGTTTTTATTTGAAT
Found at i:32047278 original size:21 final size:21
Alignment explanation
Indices: 32047214--32047381 Score: 117
Period size: 21 Copynumber: 7.8 Consensus size: 21
32047204 GTTTCACATA
32047214 TCAAAGATTCTCATTTAAAAT
1 TCAAAGATTCTCATTTAAAAT
* ** * *
32047235 TTAAATTTTTTCATTT-GAAT
1 TCAAAGATTCTCATTTAAAAT
32047255 TCAAAGATTCTCATTTAAAAT
1 TCAAAGATTCTCATTTAAAAT
* * *
32047276 TCAAAGGTTTTTATTTGAAAACAT
1 TCAAAGATTCTCATTT--AAA-AT
* *
32047300 CTTAAAGATTCTCA--TAAGAT
1 -TCAAAGATTCTCATTTAAAAT
*
32047320 TCAAAGATTCTTATTTGGAAATAT
1 TCAAAGATTCTCATTT--AAA-AT
* *
32047344 CTTAAAGATTCTCATTTAAGAT
1 -TCAAAGATTCTCATTTAAAAT
*
32047366 TCAAATATTCTCATTT
1 TCAAAGATTCTCATTT
32047382 GGAAACGTCT
Statistics
Matches: 110, Mismatches: 26, Indels: 22
0.70 0.16 0.14
Matches are distributed among these distances:
19 11 0.10
20 17 0.15
21 45 0.41
22 2 0.02
23 8 0.07
24 4 0.04
25 23 0.21
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.43
Consensus pattern (21 bp):
TCAAAGATTCTCATTTAAAAT
Found at i:32047360 original size:25 final size:24
Alignment explanation
Indices: 32047322--32047400 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 24
32047312 CATAAGATTC
*
32047322 AAAGATTCTTATTTGGAAATATCTT
1 AAAGATTCTCATTTGGAAAT-TCTT
32047347 AAAGATTCTCATTT--AAGATTC--
1 AAAGATTCTCATTTGGAA-ATTCTT
* *
32047368 AAATATTCTCATTTGGAAACGTCTT
1 AAAGATTCTCATTTGGAAA-TTCTT
*
32047393 AAAAATTC
1 AAAGATTC
32047401 ATCTTAAAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
21 13 0.30
22 1 0.02
23 8 0.18
24 2 0.05
25 20 0.45
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (24 bp):
AAAGATTCTCATTTGGAAATTCTT
Found at i:32047382 original size:46 final size:46
Alignment explanation
Indices: 32047257--32047413 Score: 185
Period size: 46 Copynumber: 3.5 Consensus size: 46
32047247 ATTTGAATTC
* * * * *
32047257 AAAGATTCTCATTTAAAATTCAAAGGTTTTTATTTGAAAACATCTT
1 AAAGATTCTCATTTAAGATTCAAAGATTCTCATTTGGAAACATCTT
* *
32047303 AAAGATTCTCA--TAAGATTCAAAGATTCTTATTTGGAAATATCTT
1 AAAGATTCTCATTTAAGATTCAAAGATTCTCATTTGGAAACATCTT
* *
32047347 AAAGATTCTCATTTAAGATTCAAATATTCTCATTTGGAAACGTCTT
1 AAAGATTCTCATTTAAGATTCAAAGATTCTCATTTGGAAACATCTT
* *
32047393 AAAAATTCATC-TTAAAGATTC
1 AAAGATTC-TCATTTAAGATTC
32047414 TCATTTAAAA
Statistics
Matches: 97, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
44 39 0.40
46 56 0.58
47 2 0.02
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.39
Consensus pattern (46 bp):
AAAGATTCTCATTTAAGATTCAAAGATTCTCATTTGGAAACATCTT
Found at i:32047435 original size:21 final size:21
Alignment explanation
Indices: 32047409--32047476 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
32047399 TCATCTTAAA
32047409 GATTCTCATTTAAAACTCAAT
1 GATTCTCATTTAAAACTCAAT
*
32047430 GATTCTCATTT-GAA--C-AT
1 GATTCTCATTTAAAACTCAAT
* *
32047447 --TTCTTATTTAAAACTCAAA
1 GATTCTCATTTAAAACTCAAT
32047466 GATTCTCATTT
1 GATTCTCATTT
32047477 GAGGATTTCT
Statistics
Matches: 36, Mismatches: 5, Indels: 12
0.68 0.09 0.23
Matches are distributed among these distances:
15 8 0.22
16 2 0.06
17 2 0.06
18 2 0.06
19 1 0.03
20 2 0.06
21 19 0.53
ACGTcount: A:0.34, C:0.18, G:0.06, T:0.43
Consensus pattern (21 bp):
GATTCTCATTTAAAACTCAAT
Found at i:32047463 original size:36 final size:36
Alignment explanation
Indices: 32047411--32047495 Score: 134
Period size: 36 Copynumber: 2.4 Consensus size: 36
32047401 ATCTTAAAGA
* *
32047411 TTCTCATTTAAAACTCAATGATTCTCATTTGAACAT
1 TTCTTATTTAAAACTCAAAGATTCTCATTTGAACAT
**
32047447 TTCTTATTTAAAACTCAAAGATTCTCATTTGAGGAT
1 TTCTTATTTAAAACTCAAAGATTCTCATTTGAACAT
32047483 TTCTTATTTAAAA
1 TTCTTATTTAAAA
32047496 ACTAAAAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.44
Consensus pattern (36 bp):
TTCTTATTTAAAACTCAAAGATTCTCATTTGAACAT
Found at i:32048606 original size:16 final size:16
Alignment explanation
Indices: 32048585--32048631 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
32048575 TTGAGTCTTC
32048585 TTTTTTTTCTTTTTTA
1 TTTTTTTTCTTTTTTA
**
32048601 TTTTTTTTAATTTTTA
1 TTTTTTTTCTTTTTTA
* *
32048617 ATTTTTCTCTTTTTT
1 TTTTTTTTCTTTTTT
32048632 TTCCATCCAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTTTTCTTTTTTA
Found at i:32048607 original size:17 final size:17
Alignment explanation
Indices: 32048585--32048622 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
32048575 TTGAGTCTTC
* *
32048585 TTTTTTTT-CTTTTTTA
1 TTTTTTTTAATTTTTAA
32048601 TTTTTTTTAATTTTTAA
1 TTTTTTTTAATTTTTAA
32048618 TTTTT
1 TTTTT
32048623 CTCTTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTTTTTAATTTTTAA
Found at i:32048644 original size:22 final size:22
Alignment explanation
Indices: 32048617--32048660 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
32048607 TTAATTTTTA
*
32048617 ATTTTTCTCTTTTTTTTCCATCC
1 ATTTTTCT-TTGTTTTTCCATCC
*
32048640 ATTTTTCTTTGTTTTTTCATC
1 ATTTTTCTTTGTTTTTCCATC
32048661 TTTTTTCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.09, C:0.20, G:0.02, T:0.68
Consensus pattern (22 bp):
ATTTTTCTTTGTTTTTCCATCC
Found at i:32052763 original size:46 final size:47
Alignment explanation
Indices: 32052712--32052810 Score: 123
Period size: 47 Copynumber: 2.1 Consensus size: 47
32052702 ATTTGAAAGT
32052712 TTTTTA-TTTTAAGAAAAATTAATACTT-TCAACTTTTTCTT-AAAATA
1 TTTTTATTTTTAAGAAAAATTAATACTTCT-AAC-TTTTCTTCAAAATA
* **
32052758 TTTTTATTTTTAAGGAAAATTGGTACTTCTAACTTTTCTTCAAAATA
1 TTTTTATTTTTAAGAAAAATTAATACTTCTAACTTTTCTTCAAAATA
32052805 TATTTT
1 T-TTTT
32052811 TTAAAATTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
46 13 0.28
47 28 0.61
48 5 0.11
ACGTcount: A:0.34, C:0.09, G:0.05, T:0.52
Consensus pattern (47 bp):
TTTTTATTTTTAAGAAAAATTAATACTTCTAACTTTTCTTCAAAATA
Found at i:32052951 original size:72 final size:71
Alignment explanation
Indices: 32052809--32052955 Score: 179
Period size: 72 Copynumber: 2.1 Consensus size: 71
32052799 AAAATATATT
* * * *
32052809 TTTTAAAATTTTAATTTCAAAAAAAATTAATACTTTCAATTTTTTCTCAAAATACCTTTTGAAAA
1 TTTTAAAATTTTAATTTCAAAAAAAATTAATACTTTCAACTTTTCCTCAAAAAAACTTTTGAAAA
32052874 TTTTTA
66 TTTTTA
* * * * * *
32052880 TTTTAGAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAATTTTTTAAC
1 TTTTA-AAATTTTAATTTCAAAAAAAATTAATACTTTCAACTTTTCCTCAAAAAAACTTTTGAA-
32052945 AA-TTTTA
64 AATTTTTA
32052952 TTTT
1 TTTT
32052956 CAAGGAAAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
71 5 0.08
72 57 0.89
73 2 0.03
ACGTcount: A:0.39, C:0.10, G:0.03, T:0.49
Consensus pattern (71 bp):
TTTTAAAATTTTAATTTCAAAAAAAATTAATACTTTCAACTTTTCCTCAAAAAAACTTTTGAAAA
TTTTTA
Found at i:32053087 original size:59 final size:57
Alignment explanation
Indices: 32052880--32053081 Score: 282
Period size: 58 Copynumber: 3.5 Consensus size: 57
32052870 AAAATTTTTA
* *
32052880 TTTTAGAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAATT
1 TTTTA-AAATTTTATTTTTAAGAAAAATTGATACTTTCAATTTTTCCTCAAAAATATT
* *
32052938 TTTTAACAATTTTATTTTCAAGGAAAATTTGATACTTTCAACTTTTTCCTCAAAAATATT
1 TTTTAA-AATTTTATTTTTAA-GAAAAATTGATACTTTCAA-TTTTTCCTCAAAAATATT
* *
32052998 TTTTAAAAATTTTATTTTTAAGAAAAATTGATACTGTCAATTTTTTCTCAAAAATATT
1 TTTT-AAAATTTTATTTTTAAGAAAAATTGATACTTTCAATTTTTCCTCAAAAATATT
32053056 TTTTGAAAATTTTA-TTTT-AGAAAAAT
1 TTTT-AAAATTTTATTTTTAAGAAAAAT
32053082 CATTGAAAAA
Statistics
Matches: 131, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
56 8 0.06
57 5 0.04
58 48 0.37
59 35 0.27
60 33 0.25
61 2 0.02
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.47
Consensus pattern (57 bp):
TTTTAAAATTTTATTTTTAAGAAAAATTGATACTTTCAATTTTTCCTCAAAAATATT
Found at i:32053169 original size:20 final size:20
Alignment explanation
Indices: 32053144--32053182 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
32053134 TTAATCAATA
*
32053144 AATAAATAAGCAAAAAAAAT
1 AATAAATAAACAAAAAAAAT
*
32053164 AATAAATAAATAAAAAAAA
1 AATAAATAAACAAAAAAAA
32053183 AACCTTAACA
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:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (20 bp):
AATAAATAAACAAAAAAAAT
Found at i:32053169 original size:24 final size:22
Alignment explanation
Indices: 32053140--32053184 Score: 72
Period size: 24 Copynumber: 2.0 Consensus size: 22
32053130 CAATTTAATC
32053140 AATAAATAAATAAGCAAAAAAAAT
1 AATAAATAAATAA--AAAAAAAAT
32053164 AATAAATAAATAAAAAAAAAA
1 AATAAATAAATAAAAAAAAAA
32053185 CCTTAACACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.38
24 13 0.62
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (22 bp):
AATAAATAAATAAAAAAAAAAT
Found at i:32054517 original size:28 final size:27
Alignment explanation
Indices: 32054486--32054578 Score: 84
Period size: 28 Copynumber: 3.4 Consensus size: 27
32054476 TGAAAGTAAG
* *
32054486 AACAAATAAATAATCAGTTCAAAAATAA
1 AACAAAAAAATAATCAATTC-AAAATAA
* * *
32054514 AACAAAAAAAT-AT-AAAT-ATAGTAAA
1 AACAAAAAAATAATCAATTCAAAAT-AA
*
32054539 AACAAATAAATAATCAATTCGAAAATAA
1 AACAAAAAAATAATCAATTC-AAAATAA
32054567 AACAAAAAAATA
1 AACAAAAAAATA
32054579 TAAATATAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
24 3 0.06
25 12 0.24
26 4 0.08
27 5 0.10
28 23 0.46
29 3 0.06
ACGTcount: A:0.69, C:0.09, G:0.03, T:0.19
Consensus pattern (27 bp):
AACAAAAAAATAATCAATTCAAAATAA
Found at i:32054543 original size:53 final size:53
Alignment explanation
Indices: 32054480--32054586 Score: 187
Period size: 53 Copynumber: 2.0 Consensus size: 53
32054470 AAAAATTGAA
* *
32054480 AGTAAGAACAAATAAATAATCAGTTCAAAAATAAAACAAAAAAATATAAATAT
1 AGTAAAAACAAATAAATAATCAATTCAAAAATAAAACAAAAAAATATAAATAT
*
32054533 AGTAAAAACAAATAAATAATCAATTCGAAAATAAAACAAAAAAATATAAATAT
1 AGTAAAAACAAATAAATAATCAATTCAAAAATAAAACAAAAAAATATAAATAT
32054586 A
1 A
32054587 AAAAATGGAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.67, C:0.07, G:0.05, T:0.21
Consensus pattern (53 bp):
AGTAAAAACAAATAAATAATCAATTCAAAAATAAAACAAAAAAATATAAATAT
Found at i:32054591 original size:28 final size:27
Alignment explanation
Indices: 32054506--32054604 Score: 87
Period size: 28 Copynumber: 3.7 Consensus size: 27
32054496 TAATCAGTTC
32054506 AAAAATAAAACAAAAAAATATAAATAT
1 AAAAATAAAACAAAAAAATATAAATAT
** * *
32054533 -AGTA-AAAACAAATAAATAATCAAT-T
1 AAAAATAAAACAAAAAAAT-ATAAATAT
*
32054558 CGAAAATAAAACAAAAAAATATAAATAT
1 -AAAAATAAAACAAAAAAATATAAATAT
**
32054586 AAAAAATGGAACAAAAAAA
1 -AAAAATAAAACAAAAAAA
32054605 AAATGAATGG
Statistics
Matches: 55, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
25 13 0.24
26 7 0.13
27 7 0.13
28 28 0.51
ACGTcount: A:0.73, C:0.06, G:0.04, T:0.17
Consensus pattern (27 bp):
AAAAATAAAACAAAAAAATATAAATAT
Found at i:32055307 original size:13 final size:13
Alignment explanation
Indices: 32055285--32055322 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
32055275 TTAATAAAAT
32055285 TATT-ATTTAATA
1 TATTAATTTAATA
* *
32055297 TTTTAATTTAAGA
1 TATTAATTTAATA
32055310 TATTAATTTAATA
1 TATTAATTTAATA
32055323 AAAATTATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 3 0.14
13 18 0.86
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (13 bp):
TATTAATTTAATA
Found at i:32061323 original size:21 final size:23
Alignment explanation
Indices: 32061282--32061325 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
32061272 AAGTATTTTA
*
32061282 TTTATAATTATTTTTATTATAAT
1 TTTATAATTATTTTAATTATAAT
32061305 TTTATAA-TA-TTTAATTATAAT
1 TTTATAATTATTTTAATTATAAT
32061326 AAAAAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
22 2 0.10
23 7 0.35
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTATAATTATTTTAATTATAAT
Found at i:32061419 original size:21 final size:19
Alignment explanation
Indices: 32061394--32061435 Score: 66
Period size: 21 Copynumber: 2.1 Consensus size: 19
32061384 AAATCTCGTA
32061394 TAATTATAAATTATAATTAAT
1 TAATTATAAA-TATAA-TAAT
32061415 TAATTATAAATATAATAAT
1 TAATTATAAATATAATAAT
32061434 TA
1 TA
32061436 CAGGTGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 6 0.29
20 5 0.24
21 10 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TAATTATAAATATAATAAT
Found at i:32065529 original size:26 final size:28
Alignment explanation
Indices: 32065500--32065557 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 28
32065490 CTTTTTTTTG
*
32065500 CTCTTTGCA-GTTTG-CTCCCCCTCAGT
1 CTCTTTGCATCTTTGCCTCCCCCTCAGT
* *
32065526 CTC-TTGCATCTTTGCCTCCCTCTTAGT
1 CTCTTTGCATCTTTGCCTCCCCCTCAGT
32065553 CTCTT
1 CTCTT
32065558 GCTCGACTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 5 0.19
26 7 0.27
27 13 0.50
28 1 0.04
ACGTcount: A:0.07, C:0.38, G:0.12, T:0.43
Consensus pattern (28 bp):
CTCTTTGCATCTTTGCCTCCCCCTCAGT
Found at i:32067207 original size:30 final size:28
Alignment explanation
Indices: 32067171--32067275 Score: 86
Period size: 29 Copynumber: 3.5 Consensus size: 28
32067161 TGTGACCACT
32067171 ATTTTATTATTGTTTCATTATTTGAATATA
1 ATTTTATTATT-TTT-ATTATTTGAATATA
* *
32067201 ATTTTATTTTTATTTATTATTTTAATATA
1 ATTTTATTATT-TTTATTATTTGAATATA
*
32067230 ATATAATTATTTATTTTTTATTGTTTG-ATATA
1 AT-T--TTA-TTA-TTTTTATTATTTGAATATA
* *
32067262 ATTTGATTTTTTTT
1 ATTTTATTATTTTT
32067276 TTTAAAGATG
Statistics
Matches: 62, Mismatches: 8, Indels: 13
0.75 0.10 0.16
Matches are distributed among these distances:
27 5 0.08
28 2 0.03
29 17 0.27
30 14 0.23
31 1 0.02
32 10 0.16
33 11 0.18
34 2 0.03
ACGTcount: A:0.29, C:0.01, G:0.05, T:0.66
Consensus pattern (28 bp):
ATTTTATTATTTTTATTATTTGAATATA
Found at i:32067227 original size:29 final size:29
Alignment explanation
Indices: 32067171--32067272 Score: 96
Period size: 30 Copynumber: 3.4 Consensus size: 29
32067161 TGTGACCACT
* * *
32067171 ATTTTATTATTGTTTCATTATTTGAATATA
1 ATTTTATTTTTATTT-ATTATTTTAATATA
32067201 ATTTTATTTTTATTTATTATTTTAATATA
1 ATTTTATTTTTATTTATTATTTTAATATA
* * * *
32067230 ATATAATTATTTATTTTTTATTGTTTGATATA
1 ATTTTATT-TTTATTTATTA-T-TTTAATATA
*
32067262 ATTTGATTTTT
1 ATTTTATTTTT
32067273 TTTTTTAAAG
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
29 19 0.32
30 23 0.38
31 4 0.07
32 14 0.23
ACGTcount: A:0.29, C:0.01, G:0.05, T:0.65
Consensus pattern (29 bp):
ATTTTATTTTTATTTATTATTTTAATATA
Found at i:32069033 original size:15 final size:17
Alignment explanation
Indices: 32069003--32069034 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
32068993 AAGTACAAGA
32069003 GGTATAAGATTGAACAT
1 GGTATAAGATTGAACAT
32069020 GGTA-AAGA-TGAACAT
1 GGTATAAGATTGAACAT
32069035 AAATCAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 4 0.27
17 4 0.27
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (17 bp):
GGTATAAGATTGAACAT
Found at i:32069422 original size:32 final size:32
Alignment explanation
Indices: 32069385--32069450 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
32069375 TATACCATAA
* *
32069385 TTTATTT-TTTAAAGATTATTATTTTTTATTTT
1 TTTATTTGTTTAAAGATTACT-TTTGTTATTTT
*
32069417 TTTATTTGTTTAAAGCTTACTTTTGTTATTTT
1 TTTATTTGTTTAAAGATTACTTTTGTTATTTT
32069449 TT
1 TT
32069451 GCTTATATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.21, C:0.03, G:0.06, T:0.70
Consensus pattern (32 bp):
TTTATTTGTTTAAAGATTACTTTTGTTATTTT
Found at i:32070546 original size:21 final size:21
Alignment explanation
Indices: 32070507--32070546 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
32070497 TCCAATATAT
* *
32070507 GTTACCAAAATTGTTTTAATA
1 GTTACCAAAATTATATTAATA
*
32070528 GTTATCAAAATTATATTAA
1 GTTACCAAAATTATATTAA
32070547 AATTTTATCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.42
Consensus pattern (21 bp):
GTTACCAAAATTATATTAATA
Found at i:32070657 original size:21 final size:21
Alignment explanation
Indices: 32070529--32070667 Score: 65
Period size: 21 Copynumber: 6.4 Consensus size: 21
32070519 GTTTTAATAG
*
32070529 TTATCAAAATTATATTAAAATT
1 TTATCAAAATTATA-TAAAAAT
*
32070551 TTATCAAAAGTT-TCT-AAAAT
1 TTATCAAAA-TTATATAAAAAT
* * *
32070571 TGTATTAAAGATTTATTATCATAAT
1 T-TATCAAA-A-TTA-TATAAAAAT
*
32070596 TATATCATATATTATCA-AAATAA-
1 T-TATCA-AAATTAT-ATAAA-AAT
* *
32070619 -TATCAAAGTT-TATCAAAAT
1 TTATCAAAATTATATAAAAAT
32070638 TTATCAAAATTATATAAAAAT
1 TTATCAAAATTATATAAAAAT
*
32070659 TTACCAAAA
1 TTATCAAAA
32070668 ATTTATTAAA
Statistics
Matches: 87, Mismatches: 17, Indels: 27
0.66 0.13 0.21
Matches are distributed among these distances:
18 3 0.03
19 3 0.03
20 17 0.20
21 28 0.32
22 13 0.15
23 4 0.05
24 8 0.09
25 10 0.11
26 1 0.01
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.40
Consensus pattern (21 bp):
TTATCAAAATTATATAAAAAT
Found at i:32070667 original size:10 final size:10
Alignment explanation
Indices: 32070451--32070687 Score: 93
Period size: 11 Copynumber: 21.8 Consensus size: 10
32070441 CTATGCAAGG
32070451 TTATCAAAAT
1 TTATCAAAAT
* *
32070461 TATATTAAAAA
1 T-TATCAAAAT
32070472 TTATCAAAAT
1 TTATCAAAAT
*
32070482 TATATCAAATT
1 T-TATCAAAAT
32070493 TGTATCCAATATAT
1 T-TAT-CAA-A-AT
*
32070507 GTTACCAAAAT
1 -TTATCAAAAT
* * * *
32070518 TGTTTTAATAG
1 T-TATCAAAAT
32070529 TTATCAAAAT
1 TTATCAAAAT
*
32070539 TATATTAAAATT
1 T-TATCAAAA-T
*
32070551 TTATCAAAAG
1 TTATCAAAAT
32070561 TT-TCTAAAAT
1 TTATC-AAAAT
*
32070571 TGTATTAAAGATTT
1 T-TATCAAA-A--T
*
32070585 ATTATCATAAT
1 -TTATCAAAAT
*
32070596 TATATC-ATAT
1 T-TATCAAAAT
32070606 ATTATCAAAAT
1 -TTATCAAAAT
* *
32070617 AATATCAAAGT
1 -TTATCAAAAT
32070628 TTATCAAAAT
1 TTATCAAAAT
32070638 TTATCAAAAT
1 TTATCAAAAT
*
32070648 TATATAAAAAT
1 T-TATCAAAAT
*
32070659 TTACCAAAAAT
1 TTATC-AAAAT
*
32070670 TTATTAAAGA-
1 TTATCAAA-AT
32070680 TTATCAAA
1 TTATCAAA
32070688 CTTCTAACAA
Statistics
Matches: 168, Mismatches: 37, Indels: 44
0.67 0.15 0.18
Matches are distributed among these distances:
9 2 0.01
10 61 0.36
11 81 0.48
12 8 0.05
13 5 0.03
14 9 0.05
15 2 0.01
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.41
Consensus pattern (10 bp):
TTATCAAAAT
Found at i:32070687 original size:21 final size:22
Alignment explanation
Indices: 32070633--32070687 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
32070623 AAAGTTTATC
32070633 AAAATTTATC-AAAATTATATA
1 AAAATTTATCAAAAATTATATA
*
32070654 AAAATTTACCAAAAATT-TATTA
1 AAAATTTATCAAAAATTATA-TA
*
32070676 AAGA-TTATCAAA
1 AAAATTTATCAAA
32070688 CTTCTAACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (22 bp):
AAAATTTATCAAAAATTATATA
Found at i:32071056 original size:49 final size:49
Alignment explanation
Indices: 32070995--32071093 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
32070985 TTTATAATAA
32070995 ATAATATTCATAATAAATTTAATAAATCAATAAGTATAATTTTGTTTAT
1 ATAATATTCATAATAAATTTAATAAATCAATAAGTATAATTTTGTTTAT
*
32071044 ATAATATTCATAATAAATTTAATAAATCAGTAAGTATAATTTTGTTTAT
1 ATAATATTCATAATAAATTTAATAAATCAATAAGTATAATTTTGTTTAT
32071093 A
1 A
32071094 ATTTTTTAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.44
Consensus pattern (49 bp):
ATAATATTCATAATAAATTTAATAAATCAATAAGTATAATTTTGTTTAT
Found at i:32071094 original size:26 final size:26
Alignment explanation
Indices: 32071016--32071094 Score: 60
Period size: 26 Copynumber: 3.2 Consensus size: 26
32071006 AATAAATTTA
32071016 ATAAATCAATAAGTATAATTTTGTTT
1 ATAAATCAATAAGTATAATTTTGTTT
* ** *
32071042 AT--AT-AAT-ATTCATAATAAAT-TTA
1 ATAAATCAATAAGT-ATAAT-TTTGTTT
*
32071065 ATAAATCAGTAAGTATAATTTTGTTT
1 ATAAATCAATAAGTATAATTTTGTTT
32071091 ATAA
1 ATAA
32071095 TTTTTTAATG
Statistics
Matches: 37, Mismatches: 9, Indels: 14
0.62 0.15 0.23
Matches are distributed among these distances:
22 2 0.05
23 12 0.32
24 3 0.08
25 3 0.08
26 15 0.41
27 2 0.05
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (26 bp):
ATAAATCAATAAGTATAATTTTGTTT
Found at i:32071668 original size:15 final size:16
Alignment explanation
Indices: 32071650--32071682 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
32071640 AAATTTATCC
32071650 AATTA-AAAAAATAAA
1 AATTATAAAAAATAAA
32071665 AATTATAAAAAATAAA
1 AATTATAAAAAATAAA
32071681 AA
1 AA
32071683 AGCAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (16 bp):
AATTATAAAAAATAAA
Found at i:32071800 original size:28 final size:28
Alignment explanation
Indices: 32071760--32071836 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 28
32071750 AACATAATTA
32071760 AAAATAATAAAAATAAAAAAGCTAAAACT
1 AAAA-AATAAAAATAAAAAAGCTAAAACT
* * * *
32071789 AAAAAATAAAAA-AGGAAAAGTTTAAAGT
1 AAAAAATAAAAATA-AAAAAGCTAAAACT
*
32071817 AAAAACAAAAAAATAAAAAA
1 AAAAA-ATAAAAATAAAAAA
32071837 AGAAATGAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
27 1 0.03
28 23 0.59
29 14 0.36
30 1 0.03
ACGTcount: A:0.75, C:0.04, G:0.06, T:0.14
Consensus pattern (28 bp):
AAAAAATAAAAATAAAAAAGCTAAAACT
Found at i:32072844 original size:19 final size:18
Alignment explanation
Indices: 32072811--32072846 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
32072801 ATAAAATAAA
*
32072811 AGAAAAGAAAAGAAAAAG
1 AGAAAACAAAAGAAAAAG
32072829 AGAAAACAATAAGAAAAA
1 AGAAAACAA-AAGAAAAA
32072847 AAAAAGGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.78, C:0.03, G:0.17, T:0.03
Consensus pattern (18 bp):
AGAAAACAAAAGAAAAAG
Found at i:32079489 original size:26 final size:25
Alignment explanation
Indices: 32079455--32079513 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
32079445 AGTTAAGTAT
*
32079455 TAAATAATTTT-TTAATTTAATAAAA
1 TAAATAATTTTATT-ATATAATAAAA
32079480 TAAATAAATTTTATTATATAAT-AAA
1 TAAAT-AATTTTATTATATAATAAAA
*
32079505 TTAATAATT
1 TAAATAATT
32079514 GGATATTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 4 0.13
25 12 0.40
26 12 0.40
27 2 0.07
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
TAAATAATTTTATTATATAATAAAA
Found at i:32079783 original size:21 final size:21
Alignment explanation
Indices: 32079732--32079789 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
32079722 ATTATCAATT
* *
32079732 TTAATCTTATAATTATAATAA
1 TTAATCTCATAATTATAACAA
* * *
32079753 TCAATTTCATTATTATAACAA
1 TTAATCTCATAATTATAACAA
*
32079774 TTAATCTCATATTTAT
1 TTAATCTCATAATTAT
32079790 CATTATTTTT
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.48
Consensus pattern (21 bp):
TTAATCTCATAATTATAACAA
Found at i:32081228 original size:2 final size:2
Alignment explanation
Indices: 32081221--32081256 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
32081211 ATTATATCAT
32081221 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32081257 CCCATCATCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32084242 original size:2 final size:2
Alignment explanation
Indices: 32084235--32084274 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
32084225 CTCGATGGCA
32084235 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
32084275 CATTTGGACT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32084528 original size:2 final size:2
Alignment explanation
Indices: 32084521--32084553 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
32084511 TAATTCCTTC
32084521 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
32084554 CTATAATTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:32090628 original size:195 final size:195
Alignment explanation
Indices: 32090296--32090688 Score: 777
Period size: 195 Copynumber: 2.0 Consensus size: 195
32090286 CCCCGCATCT
*
32090296 CCACATTTTCCTTTTTCTTTGTGGGTATTCTGATCCAAAAAAGCCCAATCAGACCCTGAGTTTTT
1 CCACATTTTCCTTTTTCGTTGTGGGTATTCTGATCCAAAAAAGCCCAATCAGACCCTGAGTTTTT
32090361 GGATTCAGGTTCGGCCCATAAGGCTCAAAAGATTCAAAACCCATCCCTTCAATCAATGCGCGCCC
66 GGATTCAGGTTCGGCCCATAAGGCTCAAAAGATTCAAAACCCATCCCTTCAATCAATGCGCGCCC
32090426 TGCTAAACCCCACAGACAGAAGAAACCGATGAAGAGAGGAAACCTCTGGTCATTCCGAGGAAAGC
131 TGCTAAACCCCACAGACAGAAGAAACCGATGAAGAGAGGAAACCTCTGGTCATTCCGAGGAAAGC
32090491 CCACATTTTCCTTTTTCGTTGTGGGTATTCTGATCCAAAAAAGCCCAATCAGACCCTGAGTTTTT
1 CCACATTTTCCTTTTTCGTTGTGGGTATTCTGATCCAAAAAAGCCCAATCAGACCCTGAGTTTTT
32090556 GGATTCAGGTTCGGCCCATAAGGCTCAAAAGATTCAAAACCCATCCCTTCAATCAATGCGCGCCC
66 GGATTCAGGTTCGGCCCATAAGGCTCAAAAGATTCAAAACCCATCCCTTCAATCAATGCGCGCCC
32090621 TGCTAAACCCCACAGACAGAAGAAACCGATGAAGAGAGGAAACCTCTGGTCATTCCGAGGAAAGC
131 TGCTAAACCCCACAGACAGAAGAAACCGATGAAGAGAGGAAACCTCTGGTCATTCCGAGGAAAGC
32090686 CCA
1 CCA
32090689 TGAGTGCAAC
Statistics
Matches: 197, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
195 197 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.23
Consensus pattern (195 bp):
CCACATTTTCCTTTTTCGTTGTGGGTATTCTGATCCAAAAAAGCCCAATCAGACCCTGAGTTTTT
GGATTCAGGTTCGGCCCATAAGGCTCAAAAGATTCAAAACCCATCCCTTCAATCAATGCGCGCCC
TGCTAAACCCCACAGACAGAAGAAACCGATGAAGAGAGGAAACCTCTGGTCATTCCGAGGAAAGC
Found at i:32095245 original size:65 final size:65
Alignment explanation
Indices: 32095147--32095275 Score: 249
Period size: 65 Copynumber: 2.0 Consensus size: 65
32095137 CTCCAGTGTT
*
32095147 TATATATATATATATATAACCAATTAAAACCCAACTATTGTAACAAGTTCATGAAATAATTTATA
1 TATATATATATATATATAACCAATTAAAACCCAACTATTATAACAAGTTCATGAAATAATTTATA
32095212 TATATATATATATATATAACCAATTAAAACCCAACTATTATAACAAGTTCATGAAATAATTTAT
1 TATATATATATATATATAACCAATTAAAACCCAACTATTATAACAAGTTCATGAAATAATTTAT
32095276 TACTCAGAAT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.48, C:0.12, G:0.04, T:0.36
Consensus pattern (65 bp):
TATATATATATATATATAACCAATTAAAACCCAACTATTATAACAAGTTCATGAAATAATTTATA
Found at i:32103657 original size:2 final size:2
Alignment explanation
Indices: 32103652--32103688 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
32103642 TAAAAAAAAA
* *
32103652 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32103689 AATTTGTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:32105898 original size:16 final size:17
Alignment explanation
Indices: 32105858--32105898 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
32105848 GAAAGAAGAA
32105858 AACAAATA--AAAGATT
1 AACAAATAGTAAAGATT
*
32105873 AACTAATAGTAAAGATT
1 AACAAATAGTAAAGATT
32105890 -ACAAATAGT
1 AACAAATAGT
32105899 TTTACATCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 7 0.32
16 8 0.36
17 7 0.32
ACGTcount: A:0.59, C:0.07, G:0.10, T:0.24
Consensus pattern (17 bp):
AACAAATAGTAAAGATT
Found at i:32112954 original size:16 final size:18
Alignment explanation
Indices: 32112928--32112961 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
32112918 CCTATCAATA
32112928 AATATATTTATTA-ATTT
1 AATATATTTATTATATTT
32112945 AATA-ATTTATTATATTT
1 AATATATTTATTATATTT
32112962 TATTATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
AATATATTTATTATATTT
Found at i:32125002 original size:20 final size:22
Alignment explanation
Indices: 32124977--32125030 Score: 78
Period size: 21 Copynumber: 2.5 Consensus size: 22
32124967 GATATTTTTA
32124977 AATATTTATATTT-AAAA-AAT
1 AATATTTATATTTAAAAATAAT
32124997 AATATTTTATATTTAAAAATAAT
1 AATA-TTTATATTTAAAAATAAT
32125020 AATATTT-TATT
1 AATATTTATATT
32125031 AATTTCAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.13
21 13 0.42
22 7 0.23
23 7 0.23
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATATTTATATTTAAAAATAAT
Found at i:32125007 original size:21 final size:23
Alignment explanation
Indices: 32124977--32125029 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
32124967 GATATTTTTA
32124977 AATA-TTTATATTT-AAAA-AAT
1 AATATTTTATATTTAAAAATAAT
32124997 AATATTTTATATTTAAAAATAAT
1 AATATTTTATATTTAAAAATAAT
32125020 AATATTTTAT
1 AATATTTTAT
32125030 TAATTTCAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.13
21 9 0.30
22 4 0.13
23 13 0.43
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
AATATTTTATATTTAAAAATAAT
Found at i:32125032 original size:20 final size:20
Alignment explanation
Indices: 32124977--32125032 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 20
32124967 GATATTTTTA
*
32124977 AATATTTATATTTAAAAAAT
1 AATATTTATATTAAAAAAAT
32124997 AATATTTTATATTTAAAAATAAT
1 AATA-TTTATA-TTAAAAA-AAT
32125020 AATATTT-TATTAA
1 AATATTTATATTAA
32125033 TTTCAGATCG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 8 0.25
21 8 0.25
22 9 0.28
23 7 0.22
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
AATATTTATATTAAAAAAAT
Found at i:32126260 original size:336 final size:332
Alignment explanation
Indices: 32125613--32126277 Score: 711
Period size: 336 Copynumber: 2.0 Consensus size: 332
32125603 GTTTAGTATG
*
32125613 CAAGATATGATAAGATATAATAAAATGATATTATAAATAAATTAGATTAAATAATATAATCTTAT
1 CAAGATATGATAAGATATAATAAAATAATATTATAAATAAATTAGATTAAATAATATAATCTTAT
* *
32125678 ATTATATTTGATGTGTGCAATAATTAAGATAAGATAATTTATTTATTGATCAAAATTATTTTTCT
66 ATTATATTTGATGTATGCAATAATTAAGATAAGATAATTTATTTATTGATCAAAATTATTTTCCT
* * * * * *
32125743 TTAAAGTTATATAATTTAAATTATTGATATAATTTTTAAGGGCATAATAGTACATAAGTTTAATC
131 TAAAAGTTATACAATTTAAATTATTAATATAATTTTTAAAGACATAATAGTACATAAATTTAATC
* * * * **
32125808 CCACTGATTAAAAATAATCCTCTACACTTTAGAATAATTGAATCATCATATACTAAAATGATGAT
196 CCACTGATTAAAAATAATCCTATACACTTTAGAAGAATTGAATAATCATACACTAAAAAAATGAT
* * * *
32125873 TAATTTTTCTTATAATCATATCATTTTTTTATACAAAATAAATATAATATAAAATGATTATCATC
261 TAATTATCCTTACAATCATATCATTCTTTTAT--AAAATAAATATAATATAAAATGATTATCATC
32125938 CTATACACA
324 CTATACACA
* * * *
32125947 CAAGATTATGAT-AGAATATGATAATATAATATTATAAATAGGATTAGATTAAATAATGTAAT-T
1 CAAGA-TATGATAAG-ATATAATAAAATAATATTATAAATA-AATTAGATTAAATAATATAATCT
* * * *
32126010 CTATTTTGTATTTGATGTATGCAATAATTATGATAGGATAA-TTATTTATTTG-TCAAAATTATA
63 -TATATTATATTTGATGTATGCAATAATTAAGATAAGATAATTTATTTA-TTGATCAAAATTAT-
* ** *
32126073 TTTCCTTAAAATTTATACAATTTAAATTATTAATATAATTTTTAAAGATGTAAT-TTAACATATA
125 TTTCCTTAAAAGTTATACAATTTAAATTATTAATATAATTTTTAAAGACATAATAGT-AC--ATA
* *** * * *
32126137 AATTTTATTTTA-TAGATTAAAAA-AATCCTATCCAC-TTATGAAGGATTGAATAATCCTACA-T
187 AATTTAATCCCACT-GATTAAAAATAATCCTATACACTTTA-GAAGAATTGAATAATCATACACT
*
32126198 CAAAAAAAT-ATTAATTATCCTTACAATCCATATCCCTCTCTTTTATATATAAATCAAATATAAT
250 -AAAAAAATGATTAATTATCCTTACAAT-CATAT-CAT-TC-TTT-TATA-AAAT-AAATATAAT
*
32126262 ATAAAATAATTATCAT
307 ATAAAATGATTATCAT
32126278 TATATCTTAT
Statistics
Matches: 272, Mismatches: 40, Indels: 31
0.79 0.12 0.09
Matches are distributed among these distances:
334 7 0.03
335 47 0.17
336 123 0.45
337 38 0.14
338 21 0.08
339 2 0.01
340 7 0.03
341 27 0.10
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (332 bp):
CAAGATATGATAAGATATAATAAAATAATATTATAAATAAATTAGATTAAATAATATAATCTTAT
ATTATATTTGATGTATGCAATAATTAAGATAAGATAATTTATTTATTGATCAAAATTATTTTCCT
TAAAAGTTATACAATTTAAATTATTAATATAATTTTTAAAGACATAATAGTACATAAATTTAATC
CCACTGATTAAAAATAATCCTATACACTTTAGAAGAATTGAATAATCATACACTAAAAAAATGAT
TAATTATCCTTACAATCATATCATTCTTTTATAAAATAAATATAATATAAAATGATTATCATCCT
ATACACA
Found at i:32126409 original size:2 final size:2
Alignment explanation
Indices: 32126402--32126426 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32126392 ATATTAGTCA
32126402 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
32126427 CTTGTAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32126528 original size:2 final size:2
Alignment explanation
Indices: 32126523--32126548 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32126513 TGATCCTTTC
32126523 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
32126549 ATATATATAT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:32127298 original size:16 final size:17
Alignment explanation
Indices: 32127270--32127301 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
32127260 AGGTAAGAGA
32127270 AAAGGGAAAATGCATGG
1 AAAGGGAAAATGCATGG
32127287 AAAGGG-AAATGCATG
1 AAAGGGAAAATGCATG
32127302 CATGAACCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.47, C:0.06, G:0.34, T:0.12
Consensus pattern (17 bp):
AAAGGGAAAATGCATGG
Found at i:32127692 original size:2 final size:2
Alignment explanation
Indices: 32127685--32127714 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
32127675 CTTTATAAGC
*
32127685 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32127715 TAAATACATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:32128476 original size:23 final size:23
Alignment explanation
Indices: 32128450--32128508 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
32128440 TAAGCTTATC
* *
32128450 ATATTTTTATTAATATATTAT-AT
1 ATATTTATATTAATA-AATATGAT
*
32128473 ATATTTATATTTATAAATATGAT
1 ATATTTATATTAATAAATATGAT
32128496 ATATTATATATTA
1 ATATT-TATATTA
32128509 TTAATTGATC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 4 0.13
23 20 0.67
24 6 0.20
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
ATATTTATATTAATAAATATGAT
Done.