Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, 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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 22 of 84
Found at i:4489542 original size:37 final size:36
Alignment explanation
Indices: 4489465--4489569 Score: 147
Period size: 37 Copynumber: 2.9 Consensus size: 36
4489455 AAATTTTATT
* * *
4489465 ATTATATAAATTAATAAAATTTATTATTATATTATGA
1 ATTA-ATAAATAAATAAAATTTATTATTATATGATAA
*
4489502 ATTAATAAATAAATAACATTTAATTATTATATGATAA
1 ATTAATAAATAAATAAAATTT-ATTATTATATGATAA
*
4489539 ATTAATAAGTAAATAAAATTTATTATTATAT
1 ATTAATAAATAAATAAAATTTATTATTATAT
4489570 AATTAATATG
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
36 25 0.41
37 36 0.59
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (36 bp):
ATTAATAAATAAATAAAATTTATTATTATATGATAA
Found at i:4489657 original size:11 final size:11
Alignment explanation
Indices: 4489641--4489665 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4489631 TTTATATAAA
4489641 AATAATTTATT
1 AATAATTTATT
4489652 AATAATTTATT
1 AATAATTTATT
4489663 AAT
1 AAT
4489666 TTTATAAATA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
AATAATTTATT
Found at i:4501097 original size:18 final size:19
Alignment explanation
Indices: 4501050--4501097 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
4501040 ATTTTTTAAA
*
4501050 TTATTAGATATTATTTGATT
1 TTATT-GATATTATTTAATT
* *
4501070 TTTTTTATATT-TTTAATT
1 TTATTGATATTATTTAATT
4501088 TTATTGATAT
1 TTATTGATAT
4501098 ATCCTCTATA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 14 0.61
19 5 0.22
20 4 0.17
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (19 bp):
TTATTGATATTATTTAATT
Found at i:4502420 original size:34 final size:34
Alignment explanation
Indices: 4502355--4502420 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
4502345 AAATTAACAC
** *
4502355 ATCACTCACTTATTTTATCAATTTTTTTTTTTAT
1 ATCACTCACTTATTTTATCAATTAGTCTTTTTAT
*
4502389 ATCACTCACTTATTTTTTCAATTAGTCTTTTT
1 ATCACTCACTTATTTTATCAATTAGTCTTTTT
4502421 TAATATACCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.23, C:0.17, G:0.02, T:0.59
Consensus pattern (34 bp):
ATCACTCACTTATTTTATCAATTAGTCTTTTTAT
Found at i:4503827 original size:22 final size:21
Alignment explanation
Indices: 4503705--4503821 Score: 83
Period size: 22 Copynumber: 5.3 Consensus size: 21
4503695 AATTTAGACA
* * *
4503705 AAATCAATAATAATTTTATACT
1 AAAT-AATAATAACTTAATAAT
* *
4503727 AAATTAATGATAACTGT-ATAGT
1 AAA-TAATAATAACT-TAATAAT
* * *
4503749 AAATTATGAATAACTTATTAGT
1 AAATAAT-AATAACTTAATAAT
*
4503771 AAAATAATAATAACTTAATAGT
1 -AAATAATAATAACTTAATAAT
*
4503793 AAATAAATAATAATTTAATAAT
1 AAAT-AATAATAACTTAATAAT
4503815 AAATAAT
1 AAATAAT
4503822 TGATAAAAAA
Statistics
Matches: 79, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
21 11 0.14
22 60 0.76
23 8 0.10
ACGTcount: A:0.54, C:0.04, G:0.05, T:0.37
Consensus pattern (21 bp):
AAATAATAATAACTTAATAAT
Found at i:4503863 original size:22 final size:22
Alignment explanation
Indices: 4503838--4503886 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
4503828 AAAATGTATG
*
4503838 ATAACATAATAATAAAT-ACATA
1 ATAACATAATAAGAAATGACA-A
* *
4503860 ATAATATAGTAAGAAATGACAA
1 ATAACATAATAAGAAATGACAA
4503882 ATAAC
1 ATAAC
4503887 TTAACTGTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.61, C:0.08, G:0.06, T:0.24
Consensus pattern (22 bp):
ATAACATAATAAGAAATGACAA
Found at i:4504050 original size:44 final size:44
Alignment explanation
Indices: 4503933--4504052 Score: 161
Period size: 44 Copynumber: 2.7 Consensus size: 44
4503923 TAACACATAT
* * * *
4503933 TAGTAAATTAA-GAATAACTTAATAAAAAATAAGTGATAACTTAA
1 TAGTAAATTAATG-ATAATTTAATAATAAATAAATGAGAACTTAA
* *
4503977 TAGTTAATTATTGATAATTTAATAATAAATAAATGAGAACTTAA
1 TAGTAAATTAATGATAATTTAATAATAAATAAATGAGAACTTAA
*
4504021 TAGTAAATTAATGATAATTTAATAGTAAATAA
1 TAGTAAATTAATGATAATTTAATAATAAATAA
4504053 TATTCAGTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
44 65 0.98
45 1 0.02
ACGTcount: A:0.53, C:0.03, G:0.09, T:0.35
Consensus pattern (44 bp):
TAGTAAATTAATGATAATTTAATAATAAATAAATGAGAACTTAA
Found at i:4504066 original size:22 final size:22
Alignment explanation
Indices: 4503933--4504050 Score: 114
Period size: 22 Copynumber: 5.4 Consensus size: 22
4503923 TAACACATAT
*
4503933 TAGTAAATTAA-GAATAACTTAA
1 TAGTAAATTAATG-ATAATTTAA
* * *
4503955 TA-AAAAATAAGTGATAACTTAA
1 TAGTAAATTAA-TGATAATTTAA
* *
4503977 TAGTTAATTATTGATAATTTAA
1 TAGTAAATTAATGATAATTTAA
* * * *
4503999 TAATAAATAAATGAGAACTTAA
1 TAGTAAATTAATGATAATTTAA
4504021 TAGTAAATTAATGATAATTTAA
1 TAGTAAATTAATGATAATTTAA
4504043 TAGTAAAT
1 TAGTAAAT
4504051 AATATTCAGT
Statistics
Matches: 76, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
21 6 0.08
22 65 0.86
23 5 0.07
ACGTcount: A:0.53, C:0.03, G:0.09, T:0.36
Consensus pattern (22 bp):
TAGTAAATTAATGATAATTTAA
Found at i:4504509 original size:24 final size:24
Alignment explanation
Indices: 4504481--4504570 Score: 62
Period size: 24 Copynumber: 3.7 Consensus size: 24
4504471 CGGTAAATTA
4504481 ATAGTTAATTAATAATAATTTAGT
1 ATAGTTAATTAATAATAATTTAGT
* *
4504505 ATAGTAAATTAGAGATATAATTTA--
1 ATAGTTAATTA-ATA-ATAATTTAGT
* *
4504529 ATAG-TATATCAATTATAATTTAGT
1 ATAGTTA-ATTAATAATAATTTAGT
*
4504553 AGTAGATT-AGTAATAATA
1 A-TAG-TTAATTAATAATA
4504571 TAATAGTCAT
Statistics
Matches: 49, Mismatches: 9, Indels: 15
0.67 0.12 0.21
Matches are distributed among these distances:
22 8 0.16
23 2 0.04
24 18 0.37
25 12 0.24
26 8 0.16
27 1 0.02
ACGTcount: A:0.47, C:0.01, G:0.11, T:0.41
Consensus pattern (24 bp):
ATAGTTAATTAATAATAATTTAGT
Found at i:4504568 original size:22 final size:22
Alignment explanation
Indices: 4504482--4504569 Score: 68
Period size: 22 Copynumber: 3.8 Consensus size: 22
4504472 GGTAAATTAA
*
4504482 TAGTTAATTAATAATAATTTAG
1 TAGTAAATTAATAATAATTTAG
* *
4504504 TATAGTAAATTAGAGATATAATTTAA
1 --TAGTAAATTA-ATA-ATAATTTAG
* * *
4504530 TAGTATATCAATTATAATTTAG
1 TAGTAAATTAATAATAATTTAG
* *
4504552 TAGTAGATTAGTAATAAT
1 TAGTAAATTAATAATAAT
4504570 ATAATAGTCA
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
22 22 0.44
23 1 0.02
24 17 0.34
25 2 0.04
26 8 0.16
ACGTcount: A:0.45, C:0.01, G:0.11, T:0.42
Consensus pattern (22 bp):
TAGTAAATTAATAATAATTTAG
Found at i:4504632 original size:22 final size:22
Alignment explanation
Indices: 4504607--4504655 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
4504597 AATAACAATT
* *
4504607 ATAACGTAATTGTAAATGCATA
1 ATAACATAATTGTAAATGAATA
* * *
4504629 ATAATATAGTTGTAAATTAATA
1 ATAACATAATTGTAAATGAATA
4504651 ATAAC
1 ATAAC
4504656 TTCATAAAAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.35
Consensus pattern (22 bp):
ATAACATAATTGTAAATGAATA
Found at i:4504708 original size:22 final size:22
Alignment explanation
Indices: 4504683--4505118 Score: 114
Period size: 22 Copynumber: 19.5 Consensus size: 22
4504673 CTTAATGATT
4504683 AATCATTGATAATTTAGTAGTA
1 AATCATTGATAATTTAGTAGTA
* *
4504705 AATCAATGAAAATTTAGTAGTA
1 AATCATTGATAATTTAGTAGTA
* * *** *
4504727 AATTAGTGATAGCATAATAGTA
1 AATCATTGATAATTTAGTAGTA
* * * *
4504749 AATTTATT-TTAGTTTAATAGTA
1 AA-TCATTGATAATTTAGTAGTA
* * * *
4504771 ATTAAATAATAAATTTAGTAGTA
1 AATCATTGAT-AATTTAGTAGTA
** *
4504794 AATCATAAATAACTTAGT-GATA
1 AATCATTGATAATTTAGTAG-TA
* *
4504816 AATCAATGATAATTTAATAGCT-
1 AATCATTGATAATTTAGTAG-TA
* * * *
4504838 AATCACT-AAAACTCAGTAGTA
1 AATCATTGATAATTTAGTAGTA
* *** *
4504859 AATCAATGATAACAAAGTAGCA
1 AATCATTGATAATTTAGTAGTA
* * * *
4504881 AATGCA-TAACACTATAGTAGTA
1 AAT-CATTGATAATTTAGTAGTA
* *
4504903 AATCATTAATAATTTAGTAATA
1 AATCATTGATAATTTAGTAGTA
* * * *
4504925 AATTATCGATAACTTAGTAATA
1 AATCATTGATAATTTAGTAGTA
* * ** *
4504947 AATTATTAATAACGTAATAGTA
1 AATCATTGATAATTTAGTAGTA
* *
4504969 AAACACTGATAATTTAGTTA-TA
1 AATCATTGATAATTTAG-TAGTA
* * * *
4504991 AATTAGTTAATTATTAATAACTTATAGTA
1 AATCA-TTGATAATT--T-A---GTAGTA
* ** * *
4505020 AATTATCAATAACTTAGTAATA
1 AATCATTGATAATTTAGTAGTA
* *
4505042 AATCATTTATAATTTAATAGTA
1 AATCATTGATAATTTAGTAGTA
* * *
4505064 AATCATTTATAACTTACT-GATA
1 AATCATTGATAATTTAGTAG-TA
* *
4505086 AAT-AATGATGATTTAGTAGTA
1 AATCATTGATAATTTAGTAGTA
*
4505107 AATCAGTGATAA
1 AATCATTGATAA
4505119 GATAATAGTC
Statistics
Matches: 301, Mismatches: 92, Indels: 42
0.69 0.21 0.10
Matches are distributed among these distances:
20 1 0.00
21 35 0.12
22 214 0.71
23 32 0.11
25 2 0.01
26 2 0.01
28 8 0.03
29 7 0.02
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.36
Consensus pattern (22 bp):
AATCATTGATAATTTAGTAGTA
Found at i:4504925 original size:11 final size:11
Alignment explanation
Indices: 4504895--4505044 Score: 51
Period size: 11 Copynumber: 14.0 Consensus size: 11
4504885 CATAACACTA
*
4504895 TAGTAGTAAAT
1 TAGTAATAAAT
* * *
4504906 CATTAATAATT
1 TAGTAATAAAT
4504917 TAGTAATAAAT
1 TAGTAATAAAT
* *
4504928 TA-TCGATAACT
1 TAGT-AATAAAT
4504939 TAGTAATAAAT
1 TAGTAATAAAT
* **
4504950 TATTAATAACG
1 TAGTAATAAAT
* * *
4504961 TAATAGTAAAA
1 TAGTAATAAAT
* * * *
4504972 CACTGATAATT
1 TAGTAATAAAT
*
4504983 TAGTTATAAAT
1 TAGTAATAAAT
4504994 TAGT--T-AAT
1 TAGTAATAAAT
* *
4505002 TATTAATAACT
1 TAGTAATAAAT
*
4505013 TA-TAGTAAAT
1 TAGTAATAAAT
*
4505023 TA-TCAATAACT
1 TAGT-AATAAAT
4505034 TAGTAATAAAT
1 TAGTAATAAAT
4505045 CATTTATAAT
Statistics
Matches: 97, Mismatches: 35, Indels: 14
0.66 0.24 0.10
Matches are distributed among these distances:
8 6 0.06
9 1 0.01
10 11 0.11
11 77 0.79
12 2 0.02
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39
Consensus pattern (11 bp):
TAGTAATAAAT
Found at i:4505431 original size:22 final size:22
Alignment explanation
Indices: 4505383--4505759 Score: 136
Period size: 22 Copynumber: 17.4 Consensus size: 22
4505373 GTATATCATA
*
4505383 AATAACTTAGTAGTAATTCAAT
1 AATAACTTAGTAGTAAATCAAT
*
4505405 AATAATTTAGTAGTAAAT-AATT
1 AATAACTTAGTAGTAAATCAA-T
* * * * *
4505427 GATAACTTAATTGCTAACT-ATT
1 AATAACTTAGTAG-TAAATCAAT
* *
4505449 AAAAACTTAGTAATAAATCAAT
1 AATAACTTAGTAGTAAATCAAT
**
4505471 GGTAA--T-G-AGTAAATGC-AT
1 AATAACTTAGTAGTAAAT-CAAT
* *
4505489 AATAA-TATAATAGTAAATCACT
1 AATAACT-TAGTAGTAAATCAAT
* * *
4505511 -A-AATTTAGCAGTAAATCACT
1 AATAACTTAGTAGTAAATCAAT
* * * *
4505531 AATAACGTAGTAATAAGTCATT
1 AATAACTTAGTAGTAAATCAAT
* * *
4505553 TAGAACTTAGTTA-TATATCAAT
1 AATAACTTAG-TAGTAAATCAAT
* * *
4505575 GATAATTTTGTAGTAAATC-AT
1 AATAACTTAGTAGTAAATCAAT
* * *
4505596 CGATAACTTCA-TAGTAAATTAGT
1 -AATAACTT-AGTAGTAAATCAAT
* * * *
4505619 TATAACTTTA-TAATAAATTAGT
1 AATAAC-TTAGTAGTAAATCAAT
*
4505641 AATAACTTAGTATTAAATC-AT
1 AATAACTTAGTAGTAAATCAAT
* *
4505662 CAATAACTCAGTAGTAAATCATT
1 -AATAACTTAGTAGTAAATCAAT
* * *
4505685 AATAACTTAATAGTAAATTATT
1 AATAACTTAGTAGTAAATCAAT
* * * * * *
4505707 ATTAATTTAATAATAAATTATT
1 AATAACTTAGTAGTAAATCAAT
* * *
4505729 AATAACATAGTAATAAATCAGT
1 AATAACTTAGTAGTAAATCAAT
4505751 AATAACTTA
1 AATAACTTA
4505760 ATTGTCAATC
Statistics
Matches: 266, Mismatches: 68, Indels: 42
0.71 0.18 0.11
Matches are distributed among these distances:
18 11 0.04
19 2 0.01
20 17 0.06
21 18 0.07
22 207 0.78
23 11 0.04
ACGTcount: A:0.46, C:0.08, G:0.09, T:0.36
Consensus pattern (22 bp):
AATAACTTAGTAGTAAATCAAT
Found at i:4505643 original size:11 final size:11
Alignment explanation
Indices: 4505610--4505755 Score: 73
Period size: 11 Copynumber: 13.3 Consensus size: 11
4505600 AACTTCATAG
*
4505610 TAAATTAGTTA
1 TAAATTAGTAA
*
4505621 TAACTTTA-TAA
1 TAA-ATTAGTAA
4505632 TAAATTAGTAA
1 TAAATTAGTAA
* *
4505643 TAACTTAGTAT
1 TAAATTAGTAA
*
4505654 TAAATCA-TCAA
1 TAAATTAGT-AA
* * *
4505665 TAACTCAGTAG
1 TAAATTAGTAA
* *
4505676 TAAATCATTAA
1 TAAATTAGTAA
* * *
4505687 TAACTTAATAG
1 TAAATTAGTAA
* *
4505698 TAAATTATTAT
1 TAAATTAGTAA
* *
4505709 TAATTTAATAA
1 TAAATTAGTAA
*
4505720 TAAATTATTAA
1 TAAATTAGTAA
4505731 TAACA-TAGTAA
1 TAA-ATTAGTAA
*
4505742 TAAATCAGTAA
1 TAAATTAGTAA
4505753 TAA
1 TAA
4505756 CTTAATTGTC
Statistics
Matches: 102, Mismatches: 27, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
10 5 0.05
11 92 0.90
12 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.38
Consensus pattern (11 bp):
TAAATTAGTAA
Found at i:4505648 original size:88 final size:89
Alignment explanation
Indices: 4505556--4505757 Score: 227
Period size: 88 Copynumber: 2.3 Consensus size: 89
4505546 AGTCATTTAG
* * * ** * *
4505556 AACTTAGTTATATATCAAT-GATAATTTTGTAGTAAATCATCGATAACTTCATAGTAAATTAGTT
1 AACTTAGTTATAAATCAATCAATAACTCAGTAGTAAATCATCAATAACTTAATAGTAAATTA-TT
4505620 A-TAACTTT-ATAATAAATTAGTAAT
65 ATTAA-TTTAATAATAAATTAGTAAT
*
4505644 AACTTAG-TATTAAATC-ATCAATAACTCAGTAGTAAATCATTAATAACTTAATAGTAAATTATT
1 AACTTAGTTA-TAAATCAATCAATAACTCAGTAGTAAATCATCAATAACTTAATAGTAAATTATT
*
4505707 ATTAATTTAATAATAAATTATTAAT
65 ATTAATTTAATAATAAATTAGTAAT
* * *
4505732 AACATAGTAATAAATCAGT-AATAACT
1 AACTTAGTTATAAATCAATCAATAACT
4505758 TAATTGTCAA
Statistics
Matches: 96, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
87 10 0.10
88 84 0.88
89 2 0.02
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.39
Consensus pattern (89 bp):
AACTTAGTTATAAATCAATCAATAACTCAGTAGTAAATCATCAATAACTTAATAGTAAATTATTA
TTAATTTAATAATAAATTAGTAAT
Found at i:4505724 original size:66 final size:67
Alignment explanation
Indices: 4505588--4505761 Score: 185
Period size: 66 Copynumber: 2.6 Consensus size: 67
4505578 AATTTTGTAG
* * * * *
4505588 TAAATCATCGATAACTTCA-TAGTAAATTAGTT-ATAACTTTATAATAAATTAGTAATAACTTAG
1 TAAATCATCAATAACATCAGTAGTAAATCA-TTAATAACTTAATAATAAATTAGTAATAACTTAA
*
4505651 TAT
65 TAA
* * * *
4505654 TAAATCATCAATAAC-TCAGTAGTAAATCATTAATAACTTAATAGTAAATTATTATTAATTTAAT
1 TAAATCATCAATAACATCAGTAGTAAATCATTAATAACTTAATAATAAATTAGTAATAACTTAAT
4505718 AA
66 AA
* * * *
4505720 TAAATTATTAATAACAT-AGTAATAAATCAGTAATAACTTAAT
1 TAAATCATCAATAACATCAGTAGTAAATCATTAATAACTTAAT
4505762 TGTCAATCGA
Statistics
Matches: 92, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
65 5 0.05
66 86 0.93
67 1 0.01
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.38
Consensus pattern (67 bp):
TAAATCATCAATAACATCAGTAGTAAATCATTAATAACTTAATAATAAATTAGTAATAACTTAAT
AA
Found at i:4506050 original size:22 final size:22
Alignment explanation
Indices: 4506008--4506050 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
4505998 TTTGAATAAC
* * *
4506008 TTAATAGTAAATTATTTATATT
1 TTAATAATAAATTAGTGATATT
4506030 TTAATAATAAATTAGTGATAT
1 TTAATAATAAATTAGTGATAT
4506051 AACTTAGCAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (22 bp):
TTAATAATAAATTAGTGATATT
Found at i:4507605 original size:11 final size:11
Alignment explanation
Indices: 4507589--4507628 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
4507579 ATTTTATAGT
4507589 AAAAAATATTA
1 AAAAAATATTA
**
4507600 AAAAAATAAGA
1 AAAAAATATTA
4507611 AAAAAATATATA
1 AAAAAATAT-TA
4507623 AAAAAA
1 AAAAAA
4507629 GAATGAAGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
11 17 0.71
12 7 0.29
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (11 bp):
AAAAAATATTA
Found at i:4508042 original size:12 final size:12
Alignment explanation
Indices: 4508025--4508080 Score: 67
Period size: 12 Copynumber: 4.6 Consensus size: 12
4508015 TATTTTTATG
4508025 TTAATATAAATT
1 TTAATATAAATT
4508037 TTAATATATAATT
1 TTAATATA-AATT
* *
4508050 TTTATATAAAAT
1 TTAATATAAATT
**
4508062 AAAATATAAATT
1 TTAATATAAATT
4508074 TTAATAT
1 TTAATAT
4508081 TTTAATATTT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
12 24 0.69
13 11 0.31
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
TTAATATAAATT
Found at i:4508486 original size:30 final size:31
Alignment explanation
Indices: 4508446--4508503 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
4508436 GCATTTGTCT
4508446 ATATTCATAAAATTACCATTTTATTCTTTTC
1 ATATTCATAAAATTACCATTTTATTCTTTTC
* **
4508477 ATATT-ATAAATTTATTATTTTATTCTT
1 ATATTCATAAAATTACCATTTTATTCTT
4508504 CAATCAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (31 bp):
ATATTCATAAAATTACCATTTTATTCTTTTC
Found at i:4511606 original size:2 final size:2
Alignment explanation
Indices: 4511595--4511624 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4511585 CATTACTACC
4511595 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4511625 TTGACTTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4515065 original size:32 final size:32
Alignment explanation
Indices: 4515027--4515092 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
4515017 GACAGAGTTT
4515027 CAGTTTAGGGGTTTATCTATTGTCAGTCATAA
1 CAGTTTAGGGGTTTATCTATTGTCAGTCATAA
4515059 CAGTTTAGGGGTTTATCTATTGTCAGTCATAA
1 CAGTTTAGGGGTTTATCTATTGTCAGTCATAA
4515091 CA
1 CA
4515093 AGGAATAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.39
Consensus pattern (32 bp):
CAGTTTAGGGGTTTATCTATTGTCAGTCATAA
Found at i:4517783 original size:30 final size:30
Alignment explanation
Indices: 4517749--4517818 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 30
4517739 AAAAACATAG
4517749 TTGAATATAAATTAAAGA-ATAAA-ATTTTAT
1 TTGAATATAAATTAAA-ATATAAATA-TTTAT
*
4517779 TTGAACAT-AATTAAAATATAAATATTTAT
1 TTGAATATAAATTAAAATATAAATATTTAT
*
4517808 TTAAATA-AAAT
1 TTGAATATAAAT
4517819 GTTAAATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
28 1 0.03
29 25 0.74
30 8 0.24
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.40
Consensus pattern (30 bp):
TTGAATATAAATTAAAATATAAATATTTAT
Found at i:4532936 original size:84 final size:84
Alignment explanation
Indices: 4532832--4532998 Score: 266
Period size: 84 Copynumber: 2.0 Consensus size: 84
4532822 AGTCAGGAGA
*
4532832 GGTGTGCTGCTGCTGAGGCAGCCCACCCAAGTCCCCTTGCGGGACTAGCATGATGGTT-GGTGTC
1 GGTGTGCTGCAGCTGAGGCAGCCCACCCAAGTCCCCTTGCGGGACTAGCATGAT-GTTGGGTGTC
*
4532896 AA-CTATGCGTGTGGGCGGCT
65 AATC-ATGCGTGCGGGCGGCT
* *
4532916 GGTGTGCTGCAGCTGCGGCAGTCCACCCAAGTCCCCTTGCGGGACTAGCATGATGTTGGGTGTCA
1 GGTGTGCTGCAGCTGAGGCAGCCCACCCAAGTCCCCTTGCGGGACTAGCATGATGTTGGGTGTCA
4532981 ATCATGCGTGCGGGCGGC
66 ATCATGCGTGCGGGCGGC
4532999 CGATATTGAT
Statistics
Matches: 77, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
83 3 0.04
84 73 0.95
85 1 0.01
ACGTcount: A:0.14, C:0.27, G:0.36, T:0.23
Consensus pattern (84 bp):
GGTGTGCTGCAGCTGAGGCAGCCCACCCAAGTCCCCTTGCGGGACTAGCATGATGTTGGGTGTCA
ATCATGCGTGCGGGCGGCT
Found at i:4535940 original size:43 final size:43
Alignment explanation
Indices: 4535879--4535966 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
4535869 GCGGGGACCT
*
4535879 GGCTAGTTTGAAGTGAGCTACTCTTAGACACTGCTGGTGGCTA
1 GGCTAGTTTGAAGTGAGCTACTCCTAGACACTGCTGGTGGCTA
*
4535922 GGCTAGTTTGAAGTGAGCTACTCCTAGTCACTGCTGGTGGCTA
1 GGCTAGTTTGAAGTGAGCTACTCCTAGACACTGCTGGTGGCTA
4535965 GG
1 GG
4535967 TGAGCGAGCA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.19, C:0.19, G:0.32, T:0.30
Consensus pattern (43 bp):
GGCTAGTTTGAAGTGAGCTACTCCTAGACACTGCTGGTGGCTA
Found at i:4536335 original size:84 final size:84
Alignment explanation
Indices: 4536236--4536402 Score: 266
Period size: 84 Copynumber: 2.0 Consensus size: 84
4536226 AGTCAGGAGA
*
4536236 GGTGTGCTGCTGCTGGGGCAGCCCACCCAAATCCCCTTGCGGGACTAGCATGATGGTT-GGTGTC
1 GGTGTGCTGCAGCTGGGGCAGCCCACCCAAATCCCCTTGCGGGACTAGCATGAT-GTTGGGTGTC
4536300 AA-CTATGCGTGCGGGCGGCT
65 AATC-ATGCGTGCGGGCGGCT
* * *
4536320 GGTGTGCTGCAGCTGGGGCAGTCCACCCAAGTCCCCTTGTGGGACTAGCATGATGTTGGGTGTCA
1 GGTGTGCTGCAGCTGGGGCAGCCCACCCAAATCCCCTTGCGGGACTAGCATGATGTTGGGTGTCA
4536385 ATCATGCGTGCGGGCGGC
66 ATCATGCGTGCGGGCGGC
4536403 CGATACTGAT
Statistics
Matches: 77, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
83 3 0.04
84 73 0.95
85 1 0.01
ACGTcount: A:0.14, C:0.26, G:0.37, T:0.23
Consensus pattern (84 bp):
GGTGTGCTGCAGCTGGGGCAGCCCACCCAAATCCCCTTGCGGGACTAGCATGATGTTGGGTGTCA
ATCATGCGTGCGGGCGGCT
Found at i:4544678 original size:2 final size:2
Alignment explanation
Indices: 4544671--4544709 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4544661 TTCGAATTAG
4544671 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4544710 AACCACTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4547691 original size:30 final size:30
Alignment explanation
Indices: 4547624--4547692 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
4547614 TTTATCATAT
* *
4547624 TCAAATAAATATTTTAACTCTAATTTATAT
1 TCAAATAAATATTTTAAATCTAATTTATAC
** *
4547654 TTTAATAAATA-TTTAATATTTAATTTATAC
1 TCAAATAAATATTTTAA-ATCTAATTTATAC
4547684 TCAAATAAA
1 TCAAATAAA
4547693 CTTTTGACTT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
29 5 0.16
30 26 0.84
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (30 bp):
TCAAATAAATATTTTAAATCTAATTTATAC
Found at i:4550973 original size:10 final size:10
Alignment explanation
Indices: 4550958--4550991 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
4550948 GCTGCAGCAA
*
4550958 CCCACCCCAC
1 CCCACCCCCC
4550968 CCCACCCCCC
1 CCCACCCCCC
*
4550978 CCCCCCCCCC
1 CCCACCCCCC
4550988 CCCA
1 CCCA
4550992 ATAAAAGCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.12, C:0.88, G:0.00, T:0.00
Consensus pattern (10 bp):
CCCACCCCCC
Found at i:4554314 original size:18 final size:19
Alignment explanation
Indices: 4554291--4554334 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
4554281 TATATTTTAT
4554291 ATTTTTATAT-AATATATA
1 ATTTTTATATAAATATATA
4554309 ATTTTTATATAAATATATA
1 ATTTTTATATAAATATATA
*
4554328 AATTTTA
1 ATTTTTA
4554335 ATATTTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTTTATATAAATATATA
Found at i:4554325 original size:26 final size:26
Alignment explanation
Indices: 4554296--4554349 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
4554286 TTTATATTTT
4554296 TATAT-AATATATAAT-TTTTATATAAA
1 TATATAAAT-TATAATATTTTATA-AAA
*
4554322 TATATAAATTTTAATATTTTATAAAA
1 TATATAAATTATAATATTTTATAAAA
4554348 TA
1 TA
4554350 CCAATCTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
TATATAAATTATAATATTTTATAAAA
Found at i:4554893 original size:16 final size:16
Alignment explanation
Indices: 4554872--4554909 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
4554862 AAATTATATG
*
4554872 TATTAAATTTTAAATT
1 TATTAAATATTAAATT
*
4554888 TATTAAATATTATATT
1 TATTAAATATTAAATT
4554904 T-TTAAA
1 TATTAAA
4554910 ATGATTTTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATTAAATATTAAATT
Found at i:4568978 original size:32 final size:32
Alignment explanation
Indices: 4568942--4569002 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
4568932 TCAGATAGTG
*
4568942 ATTTTTTAAAATCAACATGCACACAGAAATAA
1 ATTTTTGAAAATCAACATGCACACAGAAATAA
*
4568974 ATTTTTGAAAATCAATATGCACACAGAAA
1 ATTTTTGAAAATCAACATGCACACAGAAA
4569003 ATTTATTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.49, C:0.15, G:0.08, T:0.28
Consensus pattern (32 bp):
ATTTTTGAAAATCAACATGCACACAGAAATAA
Found at i:4579878 original size:30 final size:30
Alignment explanation
Indices: 4579825--4579910 Score: 109
Period size: 30 Copynumber: 2.9 Consensus size: 30
4579815 GCAAGTCTTT
* * * *
4579825 CTCAATGTCAAAAGCAGCTGATCCATGACC
1 CTCAATATCAACAGCATCAGATCCATGACC
*
4579855 CTCAATATCAACAGCATCAGATCCATTACC
1 CTCAATATCAACAGCATCAGATCCATGACC
* *
4579885 TTCAATATCAACTGCATCAGATCCAT
1 CTCAATATCAACAGCATCAGATCCAT
4579911 CACCATCTTG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.35, C:0.30, G:0.10, T:0.24
Consensus pattern (30 bp):
CTCAATATCAACAGCATCAGATCCATGACC
Found at i:4580209 original size:18 final size:18
Alignment explanation
Indices: 4580186--4580226 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
4580176 ATCACTGCTG
*
4580186 TCACTGTCACTATCACTA
1 TCACTGCCACTATCACTA
*
4580204 TCACTGCCACTGTCACTA
1 TCACTGCCACTATCACTA
*
4580222 ACACT
1 TCACT
4580227 ATTTGCTGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.27, C:0.37, G:0.07, T:0.29
Consensus pattern (18 bp):
TCACTGCCACTATCACTA
Found at i:4580541 original size:2 final size:2
Alignment explanation
Indices: 4580534--4580568 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4580524 GTTCACTAGA
4580534 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4580569 CACACACACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4587273 original size:2 final size:2
Alignment explanation
Indices: 4587266--4587303 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4587256 TAGAAGTTTT
4587266 TA 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 TA
4587304 CTTGCTTGTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4587928 original size:29 final size:29
Alignment explanation
Indices: 4587881--4587957 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 29
4587871 TTAAAATAAT
* * * * *
4587881 AAAAAAAATCTTTAAATTTTCATTTTATT
1 AAAATAAATTTTTATATTTTCATTGTATC
* *
4587910 TAAATAAATTTTTATATTTTTATTGTATC
1 AAAATAAATTTTTATATTTTCATTGTATC
4587939 AAAATAAATTTTT-TATTTT
1 AAAATAAATTTTTATATTTT
4587958 TAATTTACAT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (29 bp):
AAAATAAATTTTTATATTTTCATTGTATC
Found at i:4587973 original size:30 final size:29
Alignment explanation
Indices: 4587911--4587994 Score: 82
Period size: 30 Copynumber: 2.9 Consensus size: 29
4587901 CATTTTATTT
*
4587911 AAATAAATTTTTATATTTTT-ATTGT-ATCA
1 AAATAAATTTTT-TATTTTTAATT-TAATAA
4587940 AAATAAATTTTTTATTTTTAATTTACATAA
1 AAATAAATTTTTTATTTTTAATTTA-ATAA
*** *
4587970 AAATAAGCATTTAATTTTTAATTTA
1 AAATAAATTTTTTATTTTTAATTTA
4587995 TATTTAAATA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
28 8 0.17
29 15 0.32
30 24 0.51
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (29 bp):
AAATAAATTTTTTATTTTTAATTTAATAA
Found at i:4597930 original size:23 final size:22
Alignment explanation
Indices: 4597871--4597931 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 22
4597861 GATATTTTTA
4597871 AATA-TTTA-AATTTAAAAAAT
1 AATATTTTATAATTTAAAAAAT
*
4597891 AATATTTTATATTTTTAAAAAAT
1 AATATTTTATA-ATTTAAAAAAT
4597914 AATATTTTATTAATTTAA
1 AATATTTTA-TAATTTAA
4597932 GTTCGGATCA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 4 0.11
21 4 0.11
22 1 0.03
23 24 0.69
24 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AATATTTTATAATTTAAAAAAT
Found at i:4598959 original size:16 final size:18
Alignment explanation
Indices: 4598927--4598959 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
4598917 CCACTTTTAA
4598927 TTTAATAATGAGATAATT
1 TTTAATAATGAGATAATT
4598945 TTTAA-AATGAG-TAAT
1 TTTAATAATGAGATAAT
4598960 AGACTATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 6 0.40
18 5 0.33
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTTAATAATGAGATAATT
Found at i:4600664 original size:18 final size:18
Alignment explanation
Indices: 4600631--4600665 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4600621 AACTGAATTA
**
4600631 TATATTTTAATTTTTATT
1 TATATTTTAAAATTTATT
4600649 TATATTTTAAAATTTAT
1 TATATTTTAAAATTTAT
4600666 AAAATAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TATATTTTAAAATTTATT
Found at i:4606936 original size:2 final size:2
Alignment explanation
Indices: 4606929--4606954 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4606919 AGGAAACATA
4606929 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
4606955 TCAGTATACC
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4611530 original size:1 final size:1
Alignment explanation
Indices: 4611524--4611550 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
4611514 CTGACTTTAA
4611524 CCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCC
4611551 AAGATCATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:4612231 original size:18 final size:18
Alignment explanation
Indices: 4612208--4612246 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
4612198 CCTCCGTTCA
4612208 TTTCTCTCT-CTCTCTCTC
1 TTTCTCTCTCCT-TCTCTC
4612226 TTTCTCTCTCCTTCTCTC
1 TTTCTCTCTCCTTCTCTC
4612244 TTT
1 TTT
4612247 TTGGTTTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTCTCTCTCCTTCTCTC
Found at i:4623306 original size:214 final size:213
Alignment explanation
Indices: 4622922--4623338 Score: 649
Period size: 214 Copynumber: 2.0 Consensus size: 213
4622912 GGTTGACTGA
* * *
4622922 CAAGCAATTGACAAGATGGGCTTCTATTTACCTGTCAATATTAAATGCTCCTCCTGTTTATATTT
1 CAAGCAATTGAAAAGATGGGCTTCTATTTACCTGTCAATAGTAAATGCTCCTCCTATTTATATTT
* * * *
4622987 TCTTAAATTCAGTGTATAATCAGCCATTGTCCGGACAGCATTTGTCAAGAAATTTACTAGTGGCA
66 TCGTAAATTCAGTGCATAATCAGCCATTGTCCGGACAGCATTTGTCAAGAAATTGAATAGTGGCA
* * * *
4623052 ATTAGATAGCCATCTTTGTCTGCTCAAAATATTGTACAAGGCTGCATTCACCTTAATCAGTAACC
131 ATTAGATAACCACCTTTGTCTGCTCAAAATATTGTACAAGGCTGCATTCACCTCAATCAGCAACC
4623117 AAATTCAGATAAAATATT
196 AAATTCAGATAAAATATT
* * *
4623135 CAAGCAGTTGAAAAGTTGGGCTTGTATTTACCTGTCAATAGTAAATGCTCCTCCTATTTATATTT
1 CAAGCAATTGAAAAGATGGGCTTCTATTTACCTGTCAATAGTAAATGCTCCTCCTATTTATATTT
* *
4623200 AT-GTAAATTTAGTGCATTAATCAGCCATTGTCAC-TACAGCATTTGTCAAGAAATTGAATAGTG
66 -TCGTAAATTCAGTGCA-TAATCAGCCATTGTC-CGGACAGCATTTGTCAAGAAATTGAATAGTG
4623263 GCAATTAGATAACCACCTTTGTCTGCTCAAAATATTGTACAAGGCTGCATTCACCTCAATCAGCA
128 GCAATTAGATAACCACCTTTGTCTGCTCAAAATATTGTACAAGGCTGCATTCACCTCAATCAGCA
4623328 ACCAAATTCAG
193 ACCAAATTCAG
4623339 TGCATTAATC
Statistics
Matches: 185, Mismatches: 16, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
213 70 0.38
214 114 0.62
215 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.33
Consensus pattern (213 bp):
CAAGCAATTGAAAAGATGGGCTTCTATTTACCTGTCAATAGTAAATGCTCCTCCTATTTATATTT
TCGTAAATTCAGTGCATAATCAGCCATTGTCCGGACAGCATTTGTCAAGAAATTGAATAGTGGCA
ATTAGATAACCACCTTTGTCTGCTCAAAATATTGTACAAGGCTGCATTCACCTCAATCAGCAACC
AAATTCAGATAAAATATT
Found at i:4623430 original size:127 final size:127
Alignment explanation
Indices: 4623204--4623462 Score: 509
Period size: 127 Copynumber: 2.0 Consensus size: 127
4623194 ATATTTATGT
*
4623204 AAATTTAGTGCATTAATCAGCCATTGTCACTACAGCATTTGTCAAGAAATTGAATAGTGGCAATT
1 AAATTCAGTGCATTAATCAGCCATTGTCACTACAGCATTTGTCAAGAAATTGAATAGTGGCAATT
4623269 AGATAACCACCTTTGTCTGCTCAAAATATTGTACAAGGCTGCATTCACCTCAATCAGCAACC
66 AGATAACCACCTTTGTCTGCTCAAAATATTGTACAAGGCTGCATTCACCTCAATCAGCAACC
4623331 AAATTCAGTGCATTAATCAGCCATTGTCACTACAGCATTTGTCAAGAAATTGAATAGTGGCAATT
1 AAATTCAGTGCATTAATCAGCCATTGTCACTACAGCATTTGTCAAGAAATTGAATAGTGGCAATT
4623396 AGATAACCACCTTTGTCTGCTCAAAATATTGTACAAGGCTGCATTCACCTCAATCAGCAACC
66 AGATAACCACCTTTGTCTGCTCAAAATATTGTACAAGGCTGCATTCACCTCAATCAGCAACC
4623458 AAATT
1 AAATT
4623463 TATATAAAAT
Statistics
Matches: 131, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
127 131 1.00
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (127 bp):
AAATTCAGTGCATTAATCAGCCATTGTCACTACAGCATTTGTCAAGAAATTGAATAGTGGCAATT
AGATAACCACCTTTGTCTGCTCAAAATATTGTACAAGGCTGCATTCACCTCAATCAGCAACC
Found at i:4623615 original size:22 final size:22
Alignment explanation
Indices: 4623589--4623636 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
4623579 TTTAGTCCAA
4623589 ATGATTAATGAAATAACAAATC
1 ATGATTAATGAAATAACAAATC
4623611 ATGATTAATGAAATAACAAATC
1 ATGATTAATGAAATAACAAATC
4623633 ATGA
1 ATGA
4623637 AGAGAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.54, C:0.08, G:0.10, T:0.27
Consensus pattern (22 bp):
ATGATTAATGAAATAACAAATC
Found at i:4626939 original size:30 final size:30
Alignment explanation
Indices: 4626899--4626966 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
4626889 ATTTTTTAAT
* * *
4626899 TAAT-TTTTTAATTATATATATTTATATAA
1 TAATATTTTTAAATATATATATTTAAAAAA
*
4626928 TAATATTTTTAAATATTTATATTTAAAAAA
1 TAATATTTTTAAATATATATATTTAAAAAA
4626958 TAATATTTT
1 TAATATTTT
4626967 ATATTTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 4 0.12
30 30 0.88
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (30 bp):
TAATATTTTTAAATATATATATTTAAAAAA
Found at i:4626969 original size:21 final size:22
Alignment explanation
Indices: 4626939--4626990 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
4626929 AATATTTTTA
4626939 AATA-TTTATA-TTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
4626959 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
4626981 AATATTTTAT
1 AATATTTTAT
4626991 TAATTTCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 20 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:4627768 original size:8 final size:8
Alignment explanation
Indices: 4627755--4627792 Score: 67
Period size: 8 Copynumber: 4.8 Consensus size: 8
4627745 AAGATTTTAC
*
4627755 ATATATAT
1 ATATATTT
4627763 ATATATTT
1 ATATATTT
4627771 ATATATTT
1 ATATATTT
4627779 ATATATTT
1 ATATATTT
4627787 ATATAT
1 ATATAT
4627793 GCATACCCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
ATATATTT
Found at i:4628695 original size:47 final size:47
Alignment explanation
Indices: 4628626--4628716 Score: 155
Period size: 47 Copynumber: 1.9 Consensus size: 47
4628616 CTTTACGTTG
4628626 AAATTTGTCATTCTCAATGAATAATCCTTCCACTAATAAGAACTAAC
1 AAATTTGTCATTCTCAATGAATAATCCTTCCACTAATAAGAACTAAC
* * *
4628673 AAATTTGTCATTCTCAGTGAATAATGCTTCCACTGATAAGAACT
1 AAATTTGTCATTCTCAATGAATAATCCTTCCACTAATAAGAACT
4628717 TACAGAACTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (47 bp):
AAATTTGTCATTCTCAATGAATAATCCTTCCACTAATAAGAACTAAC
Found at i:4631553 original size:2 final size:2
Alignment explanation
Indices: 4631546--4631581 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
4631536 TAATGTTTCA
4631546 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
4631582 CAAATAAGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4631695 original size:2 final size:2
Alignment explanation
Indices: 4631688--4631720 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
4631678 AAGTTGTCAA
4631688 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4631721 TCAACAATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:4633576 original size:2 final size:2
Alignment explanation
Indices: 4633569--4633597 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4633559 TGTATACAGA
4633569 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4633598 ACGCTACTTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4635722 original size:22 final size:22
Alignment explanation
Indices: 4635697--4635749 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
4635687 ATCGAAATTA
4635697 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
*
4635719 ATAAAATATTATTTTTTTAAAT
1 ATAAAATATTATTTTTTAAAAT
4635741 AT-AAATATT
1 ATAAAATATT
4635750 TAAAAATATC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 7 0.23
22 23 0.77
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:4639178 original size:2 final size:2
Alignment explanation
Indices: 4639171--4639203 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4639161 TGCATACAGG
4639171 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4639204 ACGCTACTTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4640729 original size:2 final size:2
Alignment explanation
Indices: 4640722--4640755 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
4640712 CACTTCGAGA
*
4640722 AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4640756 GGTGGAAGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:4641232 original size:3 final size:3
Alignment explanation
Indices: 4641224--4641256 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
4641214 TGGAACAATT
4641224 TTC TTC TTC TTC TTC TTC TTC TTC TTC TGTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T-TC TT
4641257 TTTCCCTGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.00, C:0.30, G:0.03, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:4642928 original size:2 final size:2
Alignment explanation
Indices: 4642921--4642945 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4642911 GAATTTCAAC
4642921 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 T
4642946 GGGTTTTTTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4645876 original size:29 final size:29
Alignment explanation
Indices: 4645811--4645876 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
4645801 CTAAAATCTT
*
4645811 TAAAAATTAATATTATAAGGACTAAATTTT
1 TAAAAA-TAATATTATAAGGACTAAATTTA
**
4645841 TTTAAATAATATTA-AAGGGACTAAATTTA
1 TAAAAATAATATTATAA-GGACTAAATTTA
4645870 TAAAAAT
1 TAAAAAT
4645877 CGAAGAGTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 2 0.07
29 24 0.80
30 4 0.13
ACGTcount: A:0.52, C:0.03, G:0.08, T:0.38
Consensus pattern (29 bp):
TAAAAATAATATTATAAGGACTAAATTTA
Found at i:4648846 original size:13 final size:13
Alignment explanation
Indices: 4648827--4648860 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
4648817 TGCAATATGC
4648827 AACAAATATTTTA
1 AACAAATATTTTA
*
4648840 TACAAATATTTTA
1 AACAAATATTTTA
4648853 AACAAATA
1 AACAAATA
4648861 AAAAAAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (13 bp):
AACAAATATTTTA
Found at i:4649552 original size:2 final size:2
Alignment explanation
Indices: 4649545--4649569 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4649535 TGAATAAGAT
4649545 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 T
4649570 CCATTCTATG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4657578 original size:19 final size:19
Alignment explanation
Indices: 4657533--4657584 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
4657523 GTTTTAGTTA
4657533 TATTATTTTCAATGAATTTT
1 TATTATTTT-AATGAATTTT
*
4657553 TACTTATTTTAATGTATTTT
1 TA-TTATTTTAATGAATTTT
*
4657573 TATTATGTTAAT
1 TATTATTTTAAT
4657585 TTCATATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 9 0.31
20 13 0.45
21 7 0.24
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.62
Consensus pattern (19 bp):
TATTATTTTAATGAATTTT
Found at i:4661556 original size:19 final size:19
Alignment explanation
Indices: 4661515--4661556 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
4661505 CTTTTTAGTC
* * *
4661515 CAAATGATTAATGAAATAC
1 CAAATCATTAATGAAAAAA
4661534 CAAATCATTAATGAAAAAA
1 CAAATCATTAATGAAAAAA
4661553 CAAA
1 CAAA
4661557 ACTTTTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.60, C:0.12, G:0.07, T:0.21
Consensus pattern (19 bp):
CAAATCATTAATGAAAAAA
Found at i:4663277 original size:2 final size:2
Alignment explanation
Indices: 4663270--4663294 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4663260 TGTATACAGG
4663270 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
4663295 ACGTTACTTA
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:4667641 original size:2 final size:2
Alignment explanation
Indices: 4667634--4667664 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
4667624 TTCCTTCAAT
4667634 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4667665 ACTAACAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4684697 original size:21 final size:22
Alignment explanation
Indices: 4684647--4684691 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
4684637 TAATCTTAAA
* *
4684647 AATAATTTTATTTTTATTGATC
1 AATAAATTAATTTTTATTGATC
4684669 AATAAATTAATTTTTATTG-TC
1 AATAAATTAATTTTTATTGATC
4684690 AA
1 AA
4684692 CTAATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (22 bp):
AATAAATTAATTTTTATTGATC
Found at i:4688270 original size:31 final size:31
Alignment explanation
Indices: 4688233--4688292 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
4688223 CTTTTATTAC
*
4688233 ATTCAAATAAGTTATT-AACTTTTTAATTTAT
1 ATTCAAATAAATTATTAAAC-TTTTAATTTAT
*
4688264 ATTCAAATAAATTCTTAAACTTTTAATTT
1 ATTCAAATAAATTATTAAACTTTTAATTT
4688293 GCACCTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 23 0.88
32 3 0.12
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (31 bp):
ATTCAAATAAATTATTAAACTTTTAATTTAT
Found at i:4689760 original size:32 final size:27
Alignment explanation
Indices: 4689721--4689791 Score: 88
Period size: 32 Copynumber: 2.4 Consensus size: 27
4689711 TAAATAATTT
4689721 TTTAAATATTATATTGATTAATATATTCATAA
1 TTTAAATATTATATT-A-TAA-AT-TTCA-AA
*
4689753 TTTAAATATTATATTATAAATTTTAAA
1 TTTAAATATTATATTATAAATTTCAAA
4689780 TTTAAATATTAT
1 TTTAAATATTAT
4689792 TAAACATTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
27 14 0.37
28 3 0.08
29 2 0.05
30 3 0.08
31 1 0.03
32 15 0.39
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (27 bp):
TTTAAATATTATATTATAAATTTCAAA
Found at i:4689791 original size:22 final size:23
Alignment explanation
Indices: 4689750--4689812 Score: 67
Period size: 27 Copynumber: 2.6 Consensus size: 23
4689740 AATATATTCA
4689750 TAATTTAAATATTATATTATAA-ATTT
1 TAATTTAAATA-T-TATTA-AACA-TT
4689776 TAAATTTAAATATTATTAAACATT
1 T-AATTTAAATATTATTAAACATT
4689800 TAATTTAAA-ATTA
1 TAATTTAAATATTA
4689813 ATTGATAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
22 4 0.11
23 8 0.23
24 5 0.14
25 6 0.17
26 2 0.06
27 10 0.29
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
TAATTTAAATATTATTAAACATT
Found at i:4692421 original size:21 final size:22
Alignment explanation
Indices: 4692383--4692424 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
4692373 TATCATATAA
* *
4692383 ATTAATTTAAAAATTAACCAAT
1 ATTAAATTAAAAAGTAACCAAT
4692405 ATTAAATT-AAAAGTAACCAA
1 ATTAAATTAAAAAGTAACCAA
4692425 AGGTTTTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (22 bp):
ATTAAATTAAAAAGTAACCAAT
Found at i:4693878 original size:46 final size:49
Alignment explanation
Indices: 4693822--4693922 Score: 120
Period size: 49 Copynumber: 2.1 Consensus size: 49
4693812 TTTTTTAAAT
* * *
4693822 TAAAAAAATTTA-AA-TA-TTCACATACATAAAATTTTTTATTAAT-TTA
1 TAAAAAAATTTATAATTATTTAAAATAAATAAAATTTTTTA-TAATATTA
* *
4693868 TAAATAAATTTATAATTATTTAAAATAAATAATATTTTTTATAATATTA
1 TAAAAAAATTTATAATTATTTAAAATAAATAAAATTTTTTATAATATTA
4693917 TAAAAA
1 TAAAAA
4693923 TTTTGTAAGA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
46 11 0.24
47 2 0.04
48 6 0.13
49 26 0.58
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (49 bp):
TAAAAAAATTTATAATTATTTAAAATAAATAAAATTTTTTATAATATTA
Found at i:4703911 original size:29 final size:29
Alignment explanation
Indices: 4703862--4703957 Score: 111
Period size: 29 Copynumber: 3.1 Consensus size: 29
4703852 CAACAGCTTC
4703862 TAAATTATAATAAAATATTTAATATGATATT
1 TAAATTAT-A-AAAATATTTAATATGATATT
* *
4703893 TAAATTTTAAAAATCTTTAATATGATATT
1 TAAATTATAAAAATATTTAATATGATATT
**
4703922 TAAATTATAAATTTATTAATCAATATGATATT
1 TAAATTATAAAAATATT--T-AATATGATATT
4703954 TAAA
1 TAAA
4703958 AAAATTTTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
29 32 0.57
30 1 0.02
31 8 0.14
32 15 0.27
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (29 bp):
TAAATTATAAAAATATTTAATATGATATT
Found at i:4709629 original size:21 final size:21
Alignment explanation
Indices: 4709605--4709661 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
4709595 AAATAAAAAG
*
4709605 AAATATATATAAA-TTTATTTT
1 AAATATATATAAATTTTA-TTA
*
4709626 AAATATATTAAAAATTTTATTA
1 AAATATA-TATAAATTTTATTA
4709648 AAATTATATATAAA
1 AAA-TATATATAAA
4709662 AAACAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 7 0.23
22 15 0.50
23 8 0.27
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AAATATATATAAATTTTATTA
Found at i:4709735 original size:22 final size:21
Alignment explanation
Indices: 4709710--4709756 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
4709700 TAAATAAAGT
*
4709710 TTAATTCAAATCAATTTCAAAA
1 TTAATTCAAATCAAATTC-AAA
* *
4709732 TTAATTTAACTCAAATTCAAA
1 TTAATTCAAATCAAATTCAAA
4709753 TTAA
1 TTAA
4709757 ATTTTAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (21 bp):
TTAATTCAAATCAAATTCAAA
Found at i:4709769 original size:7 final size:7
Alignment explanation
Indices: 4709753--4709783 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
4709743 CAAATTCAAA
*
4709753 TTAAATT
1 TTAAAAT
4709760 TTAAAAT
1 TTAAAAT
4709767 TTAAAAT
1 TTAAAAT
4709774 TTAAAAT
1 TTAAAAT
4709781 TTA
1 TTA
4709784 TAATATTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (7 bp):
TTAAAAT
Found at i:4712839 original size:3 final size:3
Alignment explanation
Indices: 4712833--4712895 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
4712823 GCCATCATCG
4712833 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4712881 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
4712896 GTATTATTAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4717681 original size:28 final size:31
Alignment explanation
Indices: 4717629--4717702 Score: 93
Period size: 29 Copynumber: 2.5 Consensus size: 31
4717619 AAAGATTTTA
*
4717629 ATTTTCTTTTT-TCTAATTTTCATATA-A-AT
1 ATTTCCTTTTTAT-TAATTTTCATATATAGAT
4717658 ATTTCCTTTTTATTAATTTT-ATATATAGAT
1 ATTTCCTTTTTATTAATTTTCATATATAGAT
*
4717688 ATTTCTTTTTTATTA
1 ATTTCCTTTTTATTA
4717703 GATAAAGATA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
28 5 0.12
29 18 0.45
30 17 0.43
ACGTcount: A:0.27, C:0.08, G:0.01, T:0.64
Consensus pattern (31 bp):
ATTTCCTTTTTATTAATTTTCATATATAGAT
Found at i:4721623 original size:19 final size:20
Alignment explanation
Indices: 4721599--4721643 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
4721589 TTCAATAATC
4721599 ATAATTTAATTATGA-TATA
1 ATAATTTAATTATGATTATA
*
4721618 ATAA-TTAATTATGATTTTA
1 ATAATTTAATTATGATTATA
4721637 ATAATTT
1 ATAATTT
4721644 TAAAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 10 0.43
19 11 0.48
20 2 0.09
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (20 bp):
ATAATTTAATTATGATTATA
Found at i:4721627 original size:18 final size:19
Alignment explanation
Indices: 4721559--4721642 Score: 64
Period size: 19 Copynumber: 4.3 Consensus size: 19
4721549 ATTTGATTGT
*
4721559 ATAATTATATTATAATT-TA
1 ATAATTA-ATTATGATTATA
* * * *
4721578 TTAATTAATTATTCAATAATC
1 ATAATTAATTA-T-GATTATA
4721599 ATAATTTAATTATGA-TATA
1 ATAA-TTAATTATGATTATA
*
4721618 ATAATTAATTATGATTTTA
1 ATAATTAATTATGATTATA
4721637 ATAATT
1 ATAATT
4721643 TTAAAAAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
18 14 0.27
19 22 0.42
20 4 0.08
21 5 0.10
22 7 0.13
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (19 bp):
ATAATTAATTATGATTATA
Found at i:4729933 original size:6 final size:6
Alignment explanation
Indices: 4729922--4729960 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
4729912 TTCCAGGTGA
4729922 TTTTAT TTTTAT TTTTAT TTTTAT TATTT-T TTTT-T TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT T-TTTAT TTTTAT TTTT
4729961 GGGGGTAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 8 0.25
6 21 0.66
7 3 0.09
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (6 bp):
TTTTAT
Found at i:4731060 original size:23 final size:23
Alignment explanation
Indices: 4731029--4731074 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
4731019 TTTAGTTAAT
* * *
4731029 TTATATAATTATTTATAAAAATA
1 TTATATAATAAATTAAAAAAATA
*
4731052 TTATTTAATAAATTAAAAAAATA
1 TTATATAATAAATTAAAAAAATA
4731075 AAAACTTTTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TTATATAATAAATTAAAAAAATA
Found at i:4731114 original size:20 final size:21
Alignment explanation
Indices: 4731091--4731129 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4731081 TTTGTAATAT
*
4731091 TTAAAGTT-AAATTTTAATCA
1 TTAAAATTAAAATTTTAATCA
4731111 TTAAAATTAAAATTTTAAT
1 TTAAAATTAAAATTTTAAT
4731130 ATTGTATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (21 bp):
TTAAAATTAAAATTTTAATCA
Found at i:4737783 original size:17 final size:18
Alignment explanation
Indices: 4737761--4737794 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
4737751 ATATTTTTAA
*
4737761 ATTTTTATATT-ATATTC
1 ATTTTTAAATTCATATTC
4737778 ATTTTTAAATTCATATT
1 ATTTTTAAATTCATATT
4737795 TAATAAGTAT
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:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTTAAATTCATATTC
Found at i:4738019 original size:22 final size:22
Alignment explanation
Indices: 4737986--4738048 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 22
4737976 ATATATTACT
4737986 TTTA-ATTAATTTAAAATAATAA
1 TTTATATT-ATTTAAAATAATAA
*
4738008 TTTATATTATTT--AATAAAAA
1 TTTATATTATTTAAAATAATAA
4738028 TTTAT-TTA-TTAAAATATATAA
1 TTTATATTATTTAAAATA-ATAA
4738049 ATATATATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
18 2 0.06
19 3 0.09
20 16 0.46
21 3 0.09
22 8 0.23
23 3 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TTTATATTATTTAAAATAATAA
Found at i:4738050 original size:22 final size:22
Alignment explanation
Indices: 4737996--4738056 Score: 67
Period size: 20 Copynumber: 2.9 Consensus size: 22
4737986 TTTAATTAAT
4737996 TTAAAATAAT-AATTTATATTA
1 TTAAAATAATAAATTTATATTA
*
4738017 TT-TAATAA-AAATTTAT-TTA
1 TTAAAATAATAAATTTATATTA
*
4738036 TTAAAATATATAAATATATAT
1 TTAAAATA-ATAAATTTATAT
4738057 GTAGAATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
19 5 0.16
20 16 0.50
21 3 0.09
22 7 0.22
23 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TTAAAATAATAAATTTATATTA
Found at i:4744970 original size:10 final size:10
Alignment explanation
Indices: 4744942--4744978 Score: 65
Period size: 10 Copynumber: 3.6 Consensus size: 10
4744932 AGAATTAGCA
4744942 AACAACATAT
1 AACAACATAT
4744952 AACCAACATAT
1 AA-CAACATAT
4744963 AACAACATAT
1 AACAACATAT
4744973 AACAAC
1 AACAAC
4744979 GAAAAATGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 16 0.62
11 10 0.38
ACGTcount: A:0.59, C:0.24, G:0.00, T:0.16
Consensus pattern (10 bp):
AACAACATAT
Found at i:4745248 original size:335 final size:333
Alignment explanation
Indices: 4744638--4745608 Score: 1746
Period size: 314 Copynumber: 3.0 Consensus size: 333
4744628 ATTAGAAAGA
4744638 AACAACGAAAAATGTTAATAGCGGATGTACCATGTTTTAATATTTTACTAGGTGAACCTGTCTGT
1 AACAACGAAAAATGTTAATAGCGGATGTACCATGTTTTAATATTTTACTAGGTGAACCTGTCTGT
4744703 ATAATGCAGCCTTTTATTAACTGTTAAAATACCACTTTTCTTGAGGGTATGTTTGCTAATTCAAA
66 ATAATGCAGCCTTTTATTAACTGTTAAAATACCACTTTTCTTGAGGGTATGTTTGCTAATTCAAA
4744768 AGCATTTTCCAATGCTAATCAGAATGTTTAACATACACACACACGAATTTGGATGCTTGGTGATT
131 AGCATTTTCCAATGCTAATCAGAATGTTTAACATACACACACACGAATTTGGATGCTTGGTGATT
4744833 TTATCACCTCTACTTAAGTTGCCAATCCTTAGCACATTGTGGCTATCCCTCATTGAAATTTTACC
196 TTATCACCTCTACTTAAGTTGCCAATCCTTAGCACATTGTGGCTATCCCTCATTGAAATTTTACC
4744898 ATTCTTGTTGCACAACGAGTGACAATCAAACGCAAGAATTAGCAAACAACATATAACCAACATAT
261 ATTCTTGTTGCACAACGAGTGACAATCAAACGCAAGAATTAGCAAACAACATATAACCAACA-A-
4744963 AACAACATAT
324 AACAACATAT
4744973 AACAACGAAAAATGTTAATAGCGGATGTACCATGTTTTAATATTTTACTAGGTGAACCTGTCTGT
1 AACAACGAAAAATGTTAATAGCGGATGTACCATGTTTTAATATTTTACTAGGTGAACCTGTCTGT
*
4745038 ATAATACAGCCTTTTATTAACTGTTAAAATACCACTTTTCTTGAGGGTATGTTTGCTAATTCAAA
66 ATAATGCAGCCTTTTATTAACTGTTAAAATACCACTTTTCTTGAGGGTATGTTTGCTAATTCAAA
4745103 AGCATTTTCCAATGCTAATCAGAATGTTTAACATACACACACACGAATTTGGATGCTTGGTGATT
131 AGCATTTTCCAATGCTAATCAGAATGTTTAACATACACACACACGAATTTGGATGCTTGGTGATT
*
4745168 TTATCACCTCTACTTAAGTTGCCAATCCTTAGCACATTGTGGCTGTCCCTCATTGAAATTTTACC
196 TTATCACCTCTACTTAAGTTGCCAATCCTTAGCACATTGTGGCTATCCCTCATTGAAATTTTACC
4745233 ATTCTTGTTGCACAACGAGTGACAATCAAACGCAAGAATTAG------------------C-AAA
261 ATTCTTGTTGCACAACGAGTGACAATCAAACGCAAGAATTAGCAAACAACATATAACCAACAAAA
4745279 CAACATAT
326 CAACATAT
4745287 AACAACGAAAAATGTTAATAGCGGATGTACCATGTTTTAATATTTTACTAGGTGAACCTGTCTGT
1 AACAACGAAAAATGTTAATAGCGGATGTACCATGTTTTAATATTTTACTAGGTGAACCTGTCTGT
* *
4745352 ATAATGCAGCCTTTTATTAACTGTTAAAATACCACTTTTCTTGAGGGTATGTTGGATAATTCAAA
66 ATAATGCAGCCTTTTATTAACTGTTAAAATACCACTTTTCTTGAGGGTATGTTTGCTAATTCAAA
4745417 AGCATTTTCCAATGCTAATCAGAATGTTTAACATACACACACACGAATTTGGATGCTTGGTGATT
131 AGCATTTTCCAATGCTAATCAGAATGTTTAACATACACACACACGAATTTGGATGCTTGGTGATT
*
4745482 TTATCACCTCTACTTAAGTTGCCAATCCTTAGCACATCGTGGCTATCCCTCATTGAAATTTTACC
196 TTATCACCTCTACTTAAGTTGCCAATCCTTAGCACATTGTGGCTATCCCTCATTGAAATTTTACC
4745547 ATTCTTGTTGCACAACGAGTGACAATCAAACGCAAGAATTAGCAAACAACATATAACCAACA
261 ATTCTTGTTGCACAACGAGTGACAATCAAACGCAAGAATTAGCAAACAACATATAACCAACA
4745609 GAAGCCAATA
Statistics
Matches: 610, Mismatches: 7, Indels: 40
0.93 0.01 0.06
Matches are distributed among these distances:
314 307 0.50
315 1 0.00
317 1 0.00
332 1 0.00
335 300 0.49
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (333 bp):
AACAACGAAAAATGTTAATAGCGGATGTACCATGTTTTAATATTTTACTAGGTGAACCTGTCTGT
ATAATGCAGCCTTTTATTAACTGTTAAAATACCACTTTTCTTGAGGGTATGTTTGCTAATTCAAA
AGCATTTTCCAATGCTAATCAGAATGTTTAACATACACACACACGAATTTGGATGCTTGGTGATT
TTATCACCTCTACTTAAGTTGCCAATCCTTAGCACATTGTGGCTATCCCTCATTGAAATTTTACC
ATTCTTGTTGCACAACGAGTGACAATCAAACGCAAGAATTAGCAAACAACATATAACCAACAAAA
CAACATAT
Found at i:4746708 original size:22 final size:23
Alignment explanation
Indices: 4746682--4746728 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
4746672 TTTTTATGTA
4746682 TTATTAAT-T-TTAATATTAAATT
1 TTATTAATCTATTAAT-TTAAATT
*
4746704 TTATTAATCTATTGATTTAAATT
1 TTATTAATCTATTAATTTAAATT
4746727 TT
1 TT
4746729 TTATTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 10 0.45
24 4 0.18
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
TTATTAATCTATTAATTTAAATT
Found at i:4757231 original size:44 final size:46
Alignment explanation
Indices: 4757148--4757239 Score: 152
Period size: 44 Copynumber: 2.0 Consensus size: 46
4757138 AAAACAGCTG
* *
4757148 TTTGTTCTCTCAAGCTTATATGTGTTTATCTCTCGATAATGTTGCT
1 TTTGTTCTCTCAAGCTTATACGTGTTTATCTCTCAATAATGTTGCT
4757194 TTTGTTCTCTCAAGC-T-TACGTGTTTATCTCTCAATAATGTTGCT
1 TTTGTTCTCTCAAGCTTATACGTGTTTATCTCTCAATAATGTTGCT
4757238 TT
1 TT
4757240 CTCTCAACAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 28 0.64
45 1 0.02
46 15 0.34
ACGTcount: A:0.17, C:0.18, G:0.14, T:0.50
Consensus pattern (46 bp):
TTTGTTCTCTCAAGCTTATACGTGTTTATCTCTCAATAATGTTGCT
Found at i:4758911 original size:17 final size:18
Alignment explanation
Indices: 4758879--4758912 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4758869 TCATATTATA
4758879 TATAATAAAAACATAATT
1 TATAATAAAAACATAATT
*
4758897 TATATTAAAAA-ATAAT
1 TATAATAAAAACATAAT
4758913 ATTCATTCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (18 bp):
TATAATAAAAACATAATT
Found at i:4760141 original size:3 final size:3
Alignment explanation
Indices: 4760133--4760163 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
4760123 CTCGAGAAAA
4760133 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4760164 TTTGCTTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4761279 original size:20 final size:21
Alignment explanation
Indices: 4761237--4761282 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
4761227 TCCAAAATTA
4761237 ATAAAATATTATTTTTTACAT
1 ATAAAATATTATTTTTTACAT
4761258 ATAAAATATTATTTTTTA-AT
1 ATAAAATATTATTTTTTACAT
4761278 ATAAA
1 ATAAA
4761283 TATAAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATATTATTTTTTACAT
Found at i:4761283 original size:19 final size:19
Alignment explanation
Indices: 4761234--4761285 Score: 79
Period size: 21 Copynumber: 2.7 Consensus size: 19
4761224 CGATCCAAAA
4761234 TTAATA-AAATATTATTTT
1 TTAATATAAATATTATTTT
4761252 TTACATATAAAATATTATTTT
1 TTA-ATAT-AAATATTATTTT
4761273 TTAATATAAATAT
1 TTAATATAAATAT
4761286 AAAATTAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.10
19 9 0.29
20 4 0.13
21 15 0.48
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TTAATATAAATATTATTTT
Found at i:4761308 original size:25 final size:27
Alignment explanation
Indices: 4761256--4761322 Score: 86
Period size: 26 Copynumber: 2.6 Consensus size: 27
4761246 TATTTTTTAC
* *
4761256 ATATAAAA-TATTATTTTTTAATATAA
1 ATATAAAATTAATATTTTTTAATACAA
4761282 ATATAAAATTAAT-TTTTTTAA-ACAA
1 ATATAAAATTAATATTTTTTAATACAA
4761307 ATATAAAATTATATAT
1 ATATAAAATTA-ATAT
4761323 AATTAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
25 14 0.39
26 18 0.50
27 4 0.11
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (27 bp):
ATATAAAATTAATATTTTTTAATACAA
Found at i:4761333 original size:25 final size:25
Alignment explanation
Indices: 4761280--4761334 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
4761270 TTTTTAATAT
* **
4761280 AAATATAAAATTAATTTTTTTAAAC
1 AAATATAAAATTAATATAATTAAAC
4761305 AAATATAAAATTATATATAATTAAA-
1 AAATATAAAATTA-ATATAATTAAAC
4761330 AAATA
1 AAATA
4761335 ATTATATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 18 0.69
26 8 0.31
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (25 bp):
AAATATAAAATTAATATAATTAAAC
Found at i:4764557 original size:21 final size:21
Alignment explanation
Indices: 4764533--4764591 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
4764523 TGTGTAACTT
4764533 AATTAATATTTAATATTATTA
1 AATTAATATTTAATATTATTA
*
4764554 AATTAGCT-TTTAATATTATTA
1 AATTA-ATATTTAATATTATTA
* *
4764575 AACTAACATTTAATATT
1 AATTAATATTTAATATT
4764592 GGCGTATTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 31 0.97
22 1 0.03
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (21 bp):
AATTAATATTTAATATTATTA
Found at i:4768309 original size:41 final size:41
Alignment explanation
Indices: 4768264--4768345 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
4768254 AGATCAAGTA
4768264 AACCATTTGGCTATGATAACGAAGGCATTAGATTAGACCTT
1 AACCATTTGGCTATGATAACGAAGGCATTAGATTAGACCTT
4768305 AACCATTTGGCTATGATAACGAAGGCATTAGATTAGACCTT
1 AACCATTTGGCTATGATAACGAAGGCATTAGATTAGACCTT
4768346 TTAATTTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (41 bp):
AACCATTTGGCTATGATAACGAAGGCATTAGATTAGACCTT
Found at i:4774448 original size:21 final size:20
Alignment explanation
Indices: 4774414--4774463 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
4774404 CTCAAAATTA
4774414 ATAAAATA-TTTTTTAAAAT
1 ATAAAATATTTTTTTAAAAT
*
4774433 ATAAAATATTATTTTTTAAAT
1 ATAAAATATT-TTTTTAAAAT
4774454 AT-AAATATTT
1 ATAAAATATTT
4774464 AAAAATATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 9 0.32
20 8 0.29
21 11 0.39
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATAAAATATTTTTTTAAAAT
Found at i:4774448 original size:22 final size:20
Alignment explanation
Indices: 4774420--4774462 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 20
4774410 ATTAATAAAA
4774420 TATTTTTTAAAATATAAAATAT
1 TATTTTTT-AAATAT-AAATAT
4774442 TATTTTTTAAATATAAATAT
1 TATTTTTTAAATATAAATAT
4774462 T
1 T
4774463 TAAAAATATC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.33
21 6 0.29
22 8 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TATTTTTTAAATATAAATAT
Found at i:4774470 original size:30 final size:30
Alignment explanation
Indices: 4774435--4774491 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
4774425 TTTAAAATAT
* * *
4774435 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATCATTATATAAATATAAATATTTA
*
4774465 AAAATATCATTATATAAATATATATAT
1 AAAATATCATTATATAAATATAAATAT
4774492 AAATAATTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (30 bp):
AAAATATCATTATATAAATATAAATATTTA
Found at i:4776634 original size:63 final size:62
Alignment explanation
Indices: 4776404--4776641 Score: 209
Period size: 63 Copynumber: 3.8 Consensus size: 62
4776394 TTACAAAAAT
* * * **** *
4776404 ATTATTTAAGGTATTTCTGTACAAAAAA--CTTTAAATAATTTTTTTTTATTTTTATAAATAA
1 ATTATTTAAAGTATTT-TGTACAAAAAATGCCTTAAATAATTTTTTTATAAAAATATAAATAG
* * * *
4776465 ATTATTTAAAATATTTTAGTACAAAAAATACCTTAAAT-ATTCATGTGT-TAAAAATAT-AATAT
1 ATTATTTAAAGTATTTT-GTACAAAAAATGCCTTAAATAATT--TTTTTATAAAAATATAAATA-
4776527 G
62 G
* * *
4776528 ATTATTT-AAGATATTTTCTATACAAAAATGTCTTAAATAATTTTTTTATAAAAATATAAATAG
1 ATTATTTAAAG-TATTTTGTACA-AAAAATGCCTTAAATAATTTTTTTATAAAAATATAAATAG
**
4776591 ATTATTTAAAGTATTTGTGTACAAAAAATGTTTTAAATAATTTTTTTATAA
1 ATTATTTAAAGTATTT-TGTACAAAAAATGCCTTAAATAATTTTTTTATAA
4776642 TTTAAGGTTT
Statistics
Matches: 144, Mismatches: 20, Indels: 24
0.77 0.11 0.13
Matches are distributed among these distances:
60 1 0.01
61 24 0.17
62 15 0.10
63 87 0.60
64 17 0.12
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.46
Consensus pattern (62 bp):
ATTATTTAAAGTATTTTGTACAAAAAATGCCTTAAATAATTTTTTTATAAAAATATAAATAG
Found at i:4779839 original size:21 final size:20
Alignment explanation
Indices: 4779815--4779853 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
4779805 TTATAATTAA
4779815 AAAATTTAAATTTTGATCATC
1 AAAATTTAAATTTT-ATCATC
4779836 AAAATTTAAATTTTATCA
1 AAAATTTAAATTTTATCA
4779854 ATGTATTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.44
Consensus pattern (20 bp):
AAAATTTAAATTTTATCATC
Found at i:4781751 original size:16 final size:16
Alignment explanation
Indices: 4781730--4781760 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4781720 ATTTTGTGTT
4781730 AAAAAAAAAACAAAAA
1 AAAAAAAAAACAAAAA
*
4781746 AAAAAAAAAATAAAA
1 AAAAAAAAAACAAAA
4781761 TAAAGTGTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.94, C:0.03, G:0.00, T:0.03
Consensus pattern (16 bp):
AAAAAAAAAACAAAAA
Found at i:4788798 original size:28 final size:27
Alignment explanation
Indices: 4788767--4788826 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 27
4788757 TAACTTTCTT
4788767 TATTCAATATGATCACTGATGATTTTTA
1 TATTCAATAT-ATCACTGATGATTTTTA
* *
4788795 TATTTTAATCTATCACTGATGATTTTTA
1 TA-TTCAATATATCACTGATGATTTTTA
4788823 TATT
1 TATT
4788827 TTAATCTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 2 0.07
28 21 0.72
29 6 0.21
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (27 bp):
TATTCAATATATCACTGATGATTTTTA
Found at i:4788827 original size:28 final size:28
Alignment explanation
Indices: 4788778--4788834 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
4788768 ATTCAATATG
4788778 ATCACTGATGATTTTTATATTTTAATCT
1 ATCACTGATGATTTTTATATTTTAATCT
4788806 ATCACTGATGATTTTTATATTTTAATCT
1 ATCACTGATGATTTTTATATTTTAATCT
4788834 A
1 A
4788835 ACTTTTGCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.53
Consensus pattern (28 bp):
ATCACTGATGATTTTTATATTTTAATCT
Found at i:4788955 original size:2 final size:2
Alignment explanation
Indices: 4788948--4788975 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4788938 CTGGTTAAGA
4788948 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
4788976 TTATCATTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4795383 original size:1 final size:1
Alignment explanation
Indices: 4795350--4795376 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
4795340 CATAACTTGC
4795350 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
4795377 AATTTTTAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:4799556 original size:6 final size:6
Alignment explanation
Indices: 4799545--4799584 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
4799535 ATTCTTGTCT
* * *
4799545 TCTCTG TCTCTG TCTCTG TGTCTG TCTCTC TCTCTC TCTC
1 TCTCTG TCTCTG TCTCTG TCTCTG TCTCTG TCTCTG TCTC
4799585 ATACACACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.00, C:0.38, G:0.12, T:0.50
Consensus pattern (6 bp):
TCTCTG
Found at i:4808930 original size:14 final size:14
Alignment explanation
Indices: 4808911--4808971 Score: 70
Period size: 14 Copynumber: 4.2 Consensus size: 14
4808901 AATGATCCAC
4808911 AAGAGTGAACAAAA
1 AAGAGTGAACAAAA
4808925 AAGAGTGAACAAAA
1 AAGAGTGAACAAAA
* *
4808939 AAGGAGAAT-AGCACAA
1 AA-GAG--TGAACAAAA
4808955 AAGAGTGAACAAAA
1 AAGAGTGAACAAAA
4808969 AAG
1 AAG
4808972 CAATGCCATA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
13 1 0.03
14 24 0.62
15 6 0.15
16 7 0.18
17 1 0.03
ACGTcount: A:0.62, C:0.08, G:0.23, T:0.07
Consensus pattern (14 bp):
AAGAGTGAACAAAA
Found at i:4809769 original size:125 final size:125
Alignment explanation
Indices: 4809606--4809833 Score: 269
Period size: 125 Copynumber: 1.8 Consensus size: 125
4809596 ATAAAATAAA
* * * * * *
4809606 ATATAGTAATATAAATTATCAAACAAATACTACGTCGTTTGTGAAAATAGAAACACCGTATTTGA
1 ATATAGAAATAAAAATTA-CAAACAAATACTACATCGTTTCTGAAAAGAGAAACACCGTAATTGA
*
4809671 TATAGAACAAAAAAAGTAAAACAATTATTACGTCGTTTCTAAAAACAGAAACGCCATAATTG
65 TATAGAA-AAAAAAAGTAAAACAATTATTACGTCATTTCTAAAAACAGAAACGCCATAATTG
* * * ****
4809733 ATATAGAAATAAAAATTA-AAACAATTAGTACATCGTTTCTGAATAGAGAAATGTTGTAATTGAT
1 ATATAGAAATAAAAATTACAAACAAATACTACATCGTTTCTGAAAAGAGAAACACCGTAATTGAT
*** *
4809797 ATAGAAAAAAATTTTAAAACAATTATTATGTCATTTC
66 ATAGAAAAAAAAAGTAAAACAATTATTACGTCATTTC
4809834 AGAATAGAGA
Statistics
Matches: 83, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
124 26 0.31
125 41 0.49
127 16 0.19
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.31
Consensus pattern (125 bp):
ATATAGAAATAAAAATTACAAACAAATACTACATCGTTTCTGAAAAGAGAAACACCGTAATTGAT
ATAGAAAAAAAAAGTAAAACAATTATTACGTCATTTCTAAAAACAGAAACGCCATAATTG
Found at i:4809771 original size:62 final size:62
Alignment explanation
Indices: 4809606--4809873 Score: 214
Period size: 62 Copynumber: 4.3 Consensus size: 62
4809596 ATAAAATAAA
* * * * * * *
4809606 ATATAGTAATATAAATTATCAAACAAATACTACGTCGTTTGTGAAAATAGAAACACCGTATTTG
1 ATATAGAAATAAAAATTA--AAACAATTACTACGTCGTTTCTGAAAACAGAAACGCCGTAATTG
* * * * *
4809670 ATATAGAACAAAAAAAGTAAAACAATTATTACGTCGTTTCTAAAAACAGAAACGCCATAATTG
1 ATATAGAA-ATAAAAATTAAAACAATTACTACGTCGTTTCTGAAAACAGAAACGCCGTAATTG
* * * * * **
4809733 ATATAGAAATAAAAATTAAAACAATTAGTACATCGTTTCTGAATAGAGAAATGTTGTAATTG
1 ATATAGAAATAAAAATTAAAACAATTACTACGTCGTTTCTGAAAACAGAAACGCCGTAATTG
* * * * * * * **
4809795 ATATAGAAA-AAAATTTTAAAACAATTATTATGTCATTTCAGAATAGAGAAACATCGTAATTG
1 ATATAGAAATAAAA-ATTAAAACAATTACTACGTCGTTTCTGAAAACAGAAACGCCGTAATTG
* *
4809857 ACATAGGAAAAAAAAAT
1 ATATA-GAAATAAAAAT
4809874 CAAATACTAC
Statistics
Matches: 166, Mismatches: 34, Indels: 9
0.79 0.16 0.04
Matches are distributed among these distances:
61 4 0.02
62 95 0.57
63 49 0.30
64 11 0.07
65 7 0.04
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (62 bp):
ATATAGAAATAAAAATTAAAACAATTACTACGTCGTTTCTGAAAACAGAAACGCCGTAATTG
Found at i:4809971 original size:61 final size:61
Alignment explanation
Indices: 4809787--4809990 Score: 167
Period size: 58 Copynumber: 3.4 Consensus size: 61
4809777 AGAGAAATGT
* * * * * *
4809787 TGTAATTGATATAGAAAAAAATTTTAAAACAATTATTATGTCATTTCAGAATAGAGAAAC-A
1 TGTAATTGATATAGAAAAAAATTTTTAATCAAATACTATGTCATTTCAG-ATATAGAAACGC
* ** *
4809848 TCGTAATTGACATAGGAAAAAAA-----AATCAAATACTACATC-TTTTAG-TATAGAATA-GC
1 T-GTAATTGATATA-GAAAAAAATTTTTAATCAAATACTATGTCATTTCAGATATAGAA-ACGC
**
4809904 CATAATTGATA-AGAAAAAAATTTTTAATCAAATACTATGTCATTTCAGTATATAGAAACGC
1 TGTAATTGATATAGAAAAAAATTTTTAATCAAATACTATGTCATTTCAG-ATATAGAAACGC
* *
4809965 TGTAATTGCTATAGAAAAAATTTTTT
1 TGTAATTGATATAGAAAAAAATTTTT
4809991 TTAAACAATT
Statistics
Matches: 110, Mismatches: 19, Indels: 27
0.71 0.12 0.17
Matches are distributed among these distances:
53 8 0.07
54 1 0.01
55 14 0.13
56 1 0.01
57 5 0.05
58 25 0.23
59 5 0.05
60 1 0.01
61 18 0.16
62 24 0.22
63 8 0.07
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.33
Consensus pattern (61 bp):
TGTAATTGATATAGAAAAAAATTTTTAATCAAATACTATGTCATTTCAGATATAGAAACGC
Found at i:4816153 original size:21 final size:21
Alignment explanation
Indices: 4816129--4816173 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
4816119 ATATTCAAGT
*
4816129 TTAAATT-ATTTAAAATTTAAA
1 TTAAATTAATTT-AAATTCAAA
4816150 TTAAATTAATTTAAATTCAAA
1 TTAAATTAATTTAAATTCAAA
4816171 TTA
1 TTA
4816174 TTTTGAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
TTAAATTAATTTAAATTCAAA
Found at i:4816182 original size:16 final size:15
Alignment explanation
Indices: 4816142--4816184 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
4816132 AATTATTTAA
4816142 AATTTAAATTAAATT
1 AATTTAAATTAAATT
4816157 AATTTAAATTCAAATT
1 AATTTAAATT-AAATT
* *
4816173 ATTTTGAATTAA
1 AATTTAAATTAA
4816185 TTTCATAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATTTAAATTAAATT
Found at i:4821210 original size:37 final size:37
Alignment explanation
Indices: 4821100--4821202 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
4821090 TATGAGTTTG
*
4821100 TTTGGTTTTATAAGAAGAATACTGCCTCACATATTCA
1 TTTGGTTTTATAAGAAGAATACTGTCTCACATATTCA
*
4821137 TTTGGTTTTATAAGAAGAATACTGTCTAACATATTCA
1 TTTGGTTTTATAAGAAGAATACTGTCTCACATATTCA
*
4821174 TTTGGTTTTACAAGAAGAATACTGTCTCA
1 TTTGGTTTTATAAGAAGAATACTGTCTCA
4821203 GACATTCAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.39
Consensus pattern (37 bp):
TTTGGTTTTATAAGAAGAATACTGTCTCACATATTCA
Found at i:4822880 original size:6 final size:6
Alignment explanation
Indices: 4822869--4822912 Score: 63
Period size: 6 Copynumber: 7.3 Consensus size: 6
4822859 CGAAAATGGT
*
4822869 GATGAG GATGAG GATGAA GATGAG GATGAG GATG-G AGATGAG GA
1 GATGAG GATGAG GATGAG GATGAG GATGAG GATGAG -GATGAG GA
4822913 AGAAAAAGGC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 1 0.03
6 32 0.94
7 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.48, T:0.16
Consensus pattern (6 bp):
GATGAG
Found at i:4822892 original size:18 final size:18
Alignment explanation
Indices: 4822869--4822912 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
4822859 CGAAAATGGT
4822869 GATGAGGATGAGGATGAA
1 GATGAGGATGAGGATGAA
*
4822887 GATGAGGATGAGGATGGA
1 GATGAGGATGAGGATGAA
4822905 GATGAGGA
1 GATGAGGA
4822913 AGAAAAAGGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.48, T:0.16
Consensus pattern (18 bp):
GATGAGGATGAGGATGAA
Done.