Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 29 of 130
Found at i:7490379 original size:5 final size:5
Alignment explanation
Indices: 7490359--7490403 Score: 51
Period size: 5 Copynumber: 9.6 Consensus size: 5
7490349 TTTCATTCAC
* *
7490359 TTTAT TTT-T ATT-T TTTAT TTTAT TTTAT TTTAT TTT-T TTCAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
7490404 TTTAAGCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
4 9 0.26
5 25 0.74
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:7490386 original size:10 final size:9
Alignment explanation
Indices: 7490359--7490406 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
7490349 TTTCATTCAC
7490359 TTTATTTTT
1 TTTATTTTT
*
7490368 ATTT-TTTAT
1 -TTTATTTTT
7490377 TTTATTTTAT
1 TTTATTTT-T
7490387 TTTATTTTT
1 TTTATTTTT
*
7490396 TTCATTTTT
1 TTTATTTTT
7490405 TT
1 TT
7490407 AAGCATAGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
8 3 0.09
9 18 0.55
10 12 0.36
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTATTTTT
Found at i:7490397 original size:23 final size:24
Alignment explanation
Indices: 7490359--7490403 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
7490349 TTTCATTCAC
7490359 TTTATTTTTATTTTTT-ATTTTAT
1 TTTATTTTTATTTTTTCATTTTAT
7490382 TTTA-TTTTATTTTTTTCATTTT
1 TTTATTTTTA-TTTTTTCATTTT
7490404 TTTAAGCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 10 0.50
24 5 0.25
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (24 bp):
TTTATTTTTATTTTTTCATTTTAT
Found at i:7498098 original size:15 final size:15
Alignment explanation
Indices: 7498078--7498108 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7498068 TGTTAAGTGT
*
7498078 AATGAATGAGAATGC
1 AATGAATGAAAATGC
7498093 AATGAATGAAAATGC
1 AATGAATGAAAATGC
7498108 A
1 A
7498109 TGTATGCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.23, T:0.19
Consensus pattern (15 bp):
AATGAATGAAAATGC
Found at i:7501486 original size:58 final size:58
Alignment explanation
Indices: 7501258--7501526 Score: 307
Period size: 58 Copynumber: 4.6 Consensus size: 58
7501248 TGCTTTTGTA
** *
7501258 CAAGAAAAATTGATACTTTCAACTTTTTTTC-AAAAT-ATTTTTTAGAAACTTTAATTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATCATTTTTGA-AAACTTTAATTT
7501315 CGAA-AAAAATTGATACTTTCAACTTTTCCTCAAAAATCCATTTTTGAAAACTTTAATTT
1 C-AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAT-CATTTTTGAAAACTTTAATTT
* * *
7501374 CGAGAAAAATTGATATTTTCAACTTTTCCTCAAAAATCCATTTTTGAAAAC-TTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAT-CATTTTTGAAAACTTTAATTT
* * * * * *
7501432 CAAGGAAAATTGATACTTTCAATTTTTTCTCAAAAGT-ATTTTTTAGAAAGC-TTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATCA-TTTTT-GAAAACTTTAATTT
* * *
7501490 CAAGAAAATTTGATACTTTTAACTTTTCCTTAAAAAT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAT
7501527 ATATTTTTTG
Statistics
Matches: 185, Mismatches: 20, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
56 1 0.01
57 31 0.17
58 87 0.47
59 59 0.32
60 7 0.04
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.42
Consensus pattern (58 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATCATTTTTGAAAACTTTAATTT
Found at i:7501589 original size:21 final size:19
Alignment explanation
Indices: 7501542--7501589 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
7501532 TTTTGAATTT
*
7501542 TATTTAAAATAAATAAAAA
1 TATTAAAAATAAATAAAAA
*
7501561 TAAATAAAAATAAAATAAAAA
1 T-ATTAAAAAT-AAATAAAAA
7501582 GTATTAAA
1 -TATTAAA
7501590 CAATTCTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 1 0.04
20 7 0.30
21 14 0.61
22 1 0.04
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (19 bp):
TATTAAAAATAAATAAAAA
Found at i:7501618 original size:3 final size:3
Alignment explanation
Indices: 7501610--7501657 Score: 60
Period size: 3 Copynumber: 14.7 Consensus size: 3
7501600 CTAATCAATA
7501610 AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAAT AAAT AAT AAAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT -AAT AAT -AAT AAT AA
7501658 AAAAATGAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
3 29 0.67
4 14 0.33
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:7501630 original size:15 final size:16
Alignment explanation
Indices: 7501601--7501657 Score: 71
Period size: 15 Copynumber: 3.4 Consensus size: 16
7501591 AATTCTAATC
7501601 TAATCAATAAATAATAA
1 TAAT-AATAAATAATAA
7501618 TAATAAT-AATAATAA
1 TAATAATAAATAATAA
7501633 TAAATAAATAAATAATAAA
1 T-AAT-AATAAATAAT-AA
7501652 TAATAA
1 TAATAA
7501658 AAAAATGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
15 9 0.25
16 6 0.17
17 9 0.25
18 9 0.25
19 3 0.08
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (16 bp):
TAATAATAAATAATAA
Found at i:7501633 original size:18 final size:21
Alignment explanation
Indices: 7501606--7501658 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
7501596 TAATCTAATC
7501606 AATAAATAAT-AATAATAAT-
1 AATAAATAATAAATAATAATA
7501625 AAT-AATAATAAATAAATAA-A
1 AATAAATAATAAAT-AATAATA
7501645 TAATAAATAATAAA
1 -AATAAATAATAAA
7501659 AAAATGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
18 6 0.21
19 6 0.21
20 5 0.17
21 3 0.10
22 9 0.31
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (21 bp):
AATAAATAATAAATAATAATA
Found at i:7501663 original size:18 final size:18
Alignment explanation
Indices: 7501606--7501663 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 18
7501596 TAATCTAATC
*
7501606 AATAAATAATAATAATAAT
1 AATAAATAATAA-AAAAAT
*
7501625 AATAATAATAAATAAATAAAT
1 AAT-A-AAT-AATAAAAAAAT
7501646 AATAAATAATAAAAAAAT
1 AATAAATAATAAAAAAAT
7501664 GAAAAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
18 10 0.30
19 6 0.18
20 2 0.06
21 10 0.30
22 5 0.15
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
AATAAATAATAAAAAAAT
Found at i:7502502 original size:3 final size:3
Alignment explanation
Indices: 7502494--7502595 Score: 51
Period size: 3 Copynumber: 29.7 Consensus size: 3
7502484 TAAATAGATA
*
7502494 AAT AAT AAT AAT AAT AGAT AAAT AAT AAT ATAT AAT AGAT ATAT AAAC
1 AAT AAT AAT AAT AAT A-AT -AAT AAT AAT A-AT AAT A-AT A-AT -AAT
* * *
7502542 AGAT AAA AAT ACAT ATAT ATT AAT AAAT AGT AAT AAT AGAT AAAT AAAT
1 A-AT AAT AAT A-AT A-AT AAT AAT -AAT AAT AAT AAT A-AT -AAT -AAT
7502591 AAT AA
1 AAT AA
7502596 ATAAATAAAT
Statistics
Matches: 79, Mismatches: 10, Indels: 20
0.72 0.09 0.18
Matches are distributed among these distances:
3 44 0.56
4 32 0.41
5 3 0.04
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:7502514 original size:7 final size:7
Alignment explanation
Indices: 7502463--7502534 Score: 55
Period size: 7 Copynumber: 10.3 Consensus size: 7
7502453 AAATATATAT
7502463 TAATAGA
1 TAATAGA
7502470 TAA-ATGA
1 TAATA-GA
7502477 TAATATG-
1 TAATA-GA
7502484 TAAATAGA
1 T-AATAGA
7502492 TAAATA-A
1 T-AATAGA
7502499 TAATA-A
1 TAATAGA
7502505 TAATAGA
1 TAATAGA
7502512 TAAATA-A
1 T-AATAGA
*
7502519 TAATATA
1 TAATAGA
7502526 TAATAGA
1 TAATAGA
7502533 TA
1 TA
7502535 TATAAACAGA
Statistics
Matches: 57, Mismatches: 1, Indels: 14
0.79 0.01 0.19
Matches are distributed among these distances:
6 15 0.26
7 25 0.44
8 17 0.30
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (7 bp):
TAATAGA
Found at i:7502514 original size:42 final size:42
Alignment explanation
Indices: 7502454--7502614 Score: 125
Period size: 42 Copynumber: 3.8 Consensus size: 42
7502444 AAAATAAAAA
* * *
7502454 AATATATATTAATAGATAAATGATAATATGTAAATAGATAAAT
1 AATATATAATAATAGATAAATAATAATATAT-AATAGATAAAT
*
7502497 AATA-ATAATAATAGATAAATAATAATATATAATAGATATAT
1 AATATATAATAATAGATAAATAATAATATATAATAGATAAAT
* * * * *
7502538 AAACAGATAAAAATACATATATATTAATAA-ATAGTAATA-ATAGAT
1 -AATATATAATAATAGATA-A-A-TAATAATATA-TAATAGATAAAT
* *
7502583 AA-ATA-AATAATAAATAAATAAATAAAATATAA
1 AATATATAATAATAGATAAAT-AATAATATATAA
7502615 AAAATTAAAA
Statistics
Matches: 99, Mismatches: 11, Indels: 19
0.77 0.09 0.15
Matches are distributed among these distances:
39 1 0.01
40 9 0.09
41 14 0.14
42 35 0.35
43 17 0.17
44 3 0.03
45 9 0.09
46 11 0.11
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (42 bp):
AATATATAATAATAGATAAATAATAATATATAATAGATAAAT
Found at i:7502570 original size:4 final size:4
Alignment explanation
Indices: 7502563--7502608 Score: 51
Period size: 4 Copynumber: 11.5 Consensus size: 4
7502553 CATATATATT
*
7502563 AATA AATA GTAAT- AATA GATA AATA AAT- AATA AATA AATA AATA AA
1 AATA AATA --AATA AATA AATA AATA AATA AATA AATA AATA AATA AA
7502609 ATATAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
3 6 0.17
4 27 0.75
6 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:7502613 original size:53 final size:52
Alignment explanation
Indices: 7502484--7502625 Score: 95
Period size: 53 Copynumber: 2.8 Consensus size: 52
7502474 TGATAATATG
* *
7502484 TAAATAGATAAAT-AATAATA-ATAATAGATAAATAATAATATATA-ATAGATATA
1 TAAATAGATAAATAAATAATATAT-ATAAATAAATAA-AATA-ATAGATAAATA-A
* * *
7502537 TAAACAGAT-AA-AAATACATATATATTAATAAATAGTAATAATAGATAAATAA
1 TAAATAGATAAATAAATA-ATATATATAAATAAATA-AAATAATAGATAAATAA
*
7502589 -ATAATAAATAAATAAATAA-A-ATATAAA-AAATTAAAAT
1 TA-AATAGATAAATAAATAATATATATAAATAAA-TAAAAT
7502626 TAAAATAAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 21
0.70 0.09 0.21
Matches are distributed among these distances:
50 6 0.08
51 9 0.13
52 16 0.23
53 33 0.46
54 7 0.10
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (52 bp):
TAAATAGATAAATAAATAATATATATAAATAAATAAAATAATAGATAAATAA
Found at i:7502614 original size:15 final size:15
Alignment explanation
Indices: 7502581--7502640 Score: 63
Period size: 15 Copynumber: 3.9 Consensus size: 15
7502571 GTAATAATAG
7502581 ATAAATAAATAATAA-
1 ATAAATAAATAA-AAT
7502596 ATAAATAAATAAAAT
1 ATAAATAAATAAAAT
7502611 ATAAA-AAATTAAAAT
1 ATAAATAAA-TAAAAT
7502626 -TAAAATAAAATAAAA
1 AT-AAAT-AAATAAAA
7502641 CAAAACAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.15
15 26 0.65
16 5 0.12
17 3 0.08
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (15 bp):
ATAAATAAATAAAAT
Found at i:7502614 original size:19 final size:19
Alignment explanation
Indices: 7502576--7502639 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 19
7502566 AAATAGTAAT
*
7502576 AATAGATAAAT-AAATAATA
1 AATAAATAAATAAAAT-ATA
7502595 AATAAATAAATAAAATATA
1 AATAAATAAATAAAATATA
7502614 AA-AAATTAAAATTAAAATA-A
1 AATAAA-T-AAA-TAAAATATA
7502634 AATAAA
1 AATAAA
7502640 ACAAAACAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
18 3 0.08
19 16 0.41
20 10 0.26
21 10 0.26
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (19 bp):
AATAAATAAATAAAATATA
Found at i:7502636 original size:5 final size:5
Alignment explanation
Indices: 7502594--7502656 Score: 60
Period size: 5 Copynumber: 12.8 Consensus size: 5
7502584 AATAAATAAT
* *
7502594 AAAT- AAAT- AAATA AAATA TAAA-A AATTA AAATTA AAATA AAATA AAACA
1 AAATA AAATA AAATA AAATA -AAATA AAATA AAA-TA AAATA AAATA AAATA
*
7502643 AAACA AAATA AAAT
1 AAATA AAATA AAAT
7502657 GGATTTACTT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
4 10 0.20
5 33 0.65
6 8 0.16
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (5 bp):
AAATA
Found at i:7502650 original size:26 final size:25
Alignment explanation
Indices: 7502598--7502656 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
7502588 AATAATAAAT
**
7502598 AAAT-AAATAAAATATAAAAAATTA
1 AAATAAAATAAAATATAAAAAAACA
7502622 AAATTAAAATAAAATA-AAACAAAACA
1 AAA-TAAAATAAAATATAAA-AAAACA
7502648 AAATAAAAT
1 AAATAAAAT
7502657 GGATTTACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 3 0.10
25 10 0.33
26 17 0.57
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.20
Consensus pattern (25 bp):
AAATAAAATAAAATATAAAAAAACA
Found at i:7505163 original size:28 final size:29
Alignment explanation
Indices: 7505123--7505187 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
7505113 ATAATATATA
* *
7505123 AAAATATTATTT-ATAATTAAAATTTAATT
1 AAAAT-TTATTTAATAATAAAAATTTAATC
*
7505152 AAAATTTATTTAATAATAAAAATTTTATC
1 AAAATTTATTTAATAATAAAAATTTAATC
7505181 AAAATTT
1 AAAATTT
7505188 TTGAATTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 6 0.19
29 26 0.81
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (29 bp):
AAAATTTATTTAATAATAAAAATTTAATC
Found at i:7505765 original size:17 final size:17
Alignment explanation
Indices: 7505735--7505771 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
7505725 ATTTGAATAA
*
7505735 TTTTGGATTCAAATTAT
1 TTTTGAATTCAAATTAT
*
7505752 TTTTGAATTTAAATTAT
1 TTTTGAATTCAAATTAT
7505769 TTT
1 TTT
7505772 CAATTTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.59
Consensus pattern (17 bp):
TTTTGAATTCAAATTAT
Found at i:7505771 original size:16 final size:16
Alignment explanation
Indices: 7505724--7505783 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
7505714 AAATCATTTA
* *
7505724 AATTTGAATAATTTTG
1 AATTTAAATTATTTTG
* *
7505740 GATTCAAATTATTTTTG
1 AATTTAAATTA-TTTTG
*
7505757 AATTTAAATTATTTTC
1 AATTTAAATTATTTTG
*
7505773 AATTTATATTA
1 AATTTAAATTA
7505784 ATTAAATTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
16 21 0.60
17 14 0.40
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.53
Consensus pattern (16 bp):
AATTTAAATTATTTTG
Found at i:7506213 original size:29 final size:29
Alignment explanation
Indices: 7506110--7506261 Score: 90
Period size: 29 Copynumber: 5.2 Consensus size: 29
7506100 TAAATATAAT
* * * *
7506110 AAGAATAAATACGAATAATACGGATATAC
1 AAGAATAGACACGACTAATACGAATATAC
* * ** *
7506139 ACGAACAGACATAACTAATATGAATATAC
1 AAGAATAGACACGACTAATACGAATATAC
* *
7506168 AAAAATAGACAAC-ACTAATACGAATATAT
1 AAGAATAGAC-ACGACTAATACGAATATAC
* * **
7506197 ATGAATAGACACGACTAACATTAATATAC
1 AAGAATAGACACGACTAATACGAATATAC
* * * * *
7506226 ACGAATAAATACGACTAACACCAACATATAC
1 AAGAATAGACACGACTAATA-CGA-ATATAC
7506257 AAGAA
1 AAGAA
7506262 CACGACTAAA
Statistics
Matches: 92, Mismatches: 27, Indels: 6
0.74 0.22 0.05
Matches are distributed among these distances:
28 2 0.02
29 78 0.85
30 2 0.02
31 10 0.11
ACGTcount: A:0.54, C:0.16, G:0.10, T:0.20
Consensus pattern (29 bp):
AAGAATAGACACGACTAATACGAATATAC
Found at i:7506243 original size:58 final size:58
Alignment explanation
Indices: 7506110--7506243 Score: 137
Period size: 58 Copynumber: 2.3 Consensus size: 58
7506100 TAAATATAAT
* * * *
7506110 AAGAATAAATACGAATAATACGGATATACACGAACAGACATAACTAATATGAATATAC
1 AAGAATAAATACGACTAATACGAATATACACGAACAGACACAACTAACATGAATATAC
* * * * * *
7506168 AAAAATAGACA-AC-ACTAATACGAATATATATGAATAGACACGACTAACATTAATATAC
1 AAGAATA-A-ATACGACTAATACGAATATACACGAACAGACACAACTAACATGAATATAC
*
7506226 ACGAATAAATACGACTAA
1 AAGAATAAATACGACTAA
7506244 CACCAACATA
Statistics
Matches: 60, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
56 1 0.02
57 3 0.05
58 52 0.87
59 3 0.05
60 1 0.02
ACGTcount: A:0.54, C:0.15, G:0.10, T:0.21
Consensus pattern (58 bp):
AAGAATAAATACGACTAATACGAATATACACGAACAGACACAACTAACATGAATATAC
Found at i:7506877 original size:11 final size:11
Alignment explanation
Indices: 7506857--7506886 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
7506847 TTTTCAAATA
*
7506857 TATATAATTTT
1 TATATTATTTT
7506868 TATATTATTTT
1 TATATTATTTT
7506879 TATATTAT
1 TATATTAT
7506887 ATCATTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TATATTATTTT
Found at i:7515945 original size:18 final size:18
Alignment explanation
Indices: 7515924--7515961 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
7515914 TACGAACAGG
*
7515924 AATATGAATAAAAGTATA
1 AATACGAATAAAAGTATA
7515942 AATACGAATAAAAGTATA
1 AATACGAATAAAAGTATA
7515960 AA
1 AA
7515962 GGAACAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.63, C:0.03, G:0.11, T:0.24
Consensus pattern (18 bp):
AATACGAATAAAAGTATA
Found at i:7516107 original size:21 final size:20
Alignment explanation
Indices: 7516076--7516117 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
7516066 TATTTTTTAT
*
7516076 TTTTATTAAATTATATATAA
1 TTTTATTAAATTATAAATAA
*
7516096 TTTTATTAAAATTTTAAATAA
1 TTTTATT-AAATTATAAATAA
7516117 T
1 T
7516118 ATCCTTTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTATTAAATTATAAATAA
Found at i:7518396 original size:62 final size:62
Alignment explanation
Indices: 7518268--7518419 Score: 139
Period size: 62 Copynumber: 2.5 Consensus size: 62
7518258 ATGGAAGGGC
* * * ** * ** *
7518268 ATTATTGAAGGCATTTTTGGCTAAAAATGCCTTCAATAATCCTATTTAAAAAATTTGAGGGG
1 ATTATTCAAAGCATTTTTGGCCAAAAACACCTTCAATAATCCTATATAAAAAATTTGAAAGA
*
7518330 ATTA-TCAAAAGCATTTTTGGCCAAAAACACCTTTAATAATCCTATCAT-AAAAA-TTGAAAAGA
1 ATTATTC-AAAGCATTTTTGGCCAAAAACACCTTCAATAATCCTAT-ATAAAAAATTTG-AAAGA
* * *
7518392 ATTATTCAAGGCATTTTTTGCCATAAAC
1 ATTATTCAAAGCATTTTTGGCCAAAAAC
7518420 GGCTTGACTA
Statistics
Matches: 73, Mismatches: 13, Indels: 8
0.78 0.14 0.09
Matches are distributed among these distances:
61 4 0.05
62 66 0.90
63 3 0.04
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.34
Consensus pattern (62 bp):
ATTATTCAAAGCATTTTTGGCCAAAAACACCTTCAATAATCCTATATAAAAAATTTGAAAGA
Found at i:7520347 original size:21 final size:21
Alignment explanation
Indices: 7520309--7520353 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
7520299 ATAATGAAAT
* *
7520309 ATAAATATTAAAACCAAATTA
1 ATAAATATTAAAAACAAATAA
7520330 ATAAATA-TAATAAACAAATAA
1 ATAAATATTAA-AAACAAATAA
7520351 ATA
1 ATA
7520354 TTAAGTGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (21 bp):
ATAAATATTAAAAACAAATAA
Found at i:7520880 original size:19 final size:19
Alignment explanation
Indices: 7520853--7520897 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
7520843 ATCATACATG
*
7520853 ATATAATGAATAGTTATAC
1 ATATAATGAACAGTTATAC
*
7520872 ATGTAATGAACAGTTATAC
1 ATATAATGAACAGTTATAC
7520891 ATATAAT
1 ATATAAT
7520898 TTTTTTGGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.36
Consensus pattern (19 bp):
ATATAATGAACAGTTATAC
Found at i:7523865 original size:31 final size:31
Alignment explanation
Indices: 7523830--7523893 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
7523820 ATAGAAGAAG
7523830 AAAAGTATTTTGTTCACATTACCTTATTGAA
1 AAAAGTATTTTGTTCACATTACCTTATTGAA
7523861 AAAAGTATTTTGTTCACATTACCTTATTGAA
1 AAAAGTATTTTGTTCACATTACCTTATTGAA
7523892 AA
1 AA
7523894 CATTTTTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (31 bp):
AAAAGTATTTTGTTCACATTACCTTATTGAA
Found at i:7527442 original size:222 final size:220
Alignment explanation
Indices: 7527044--7527489 Score: 723
Period size: 222 Copynumber: 2.0 Consensus size: 220
7527034 ATTGTAGACT
* * *
7527044 TGAATGTTATAGTAAAATATTTATTTACTGATAGTTCTGTTGACTAAAATAATCTTGGTTAGTTT
1 TGAACGTTATAGTAAAATATTTATTTAATGATAGTTCTGTTAACTAAAATAATCTTGGTTAGTTT
* * *
7527109 CATTAAGTTATTATTTGAAATTAAACTAAAATAATAAGGACATTACATATGCAAATCAGGTTATT
66 CATTAAGTCATTATTTGAAATTAAACTAAAAGAATAAGGACATTACACATGCAAATCAGGTTATT
* *
7527174 TCTTATTCATTCATGTATTACACTAATGAATAGGATATTTATAAAATTATTTGTGCTGGTATATA
131 TCTTATTCATTCATGCATTACACTAATGAATAGGATATTTATAAAATTATTTGTACTGGTATATA
*
7527239 AATGGATGATTACCTTTTGTATATA
196 AATGGATGATTACCTTCTGTATATA
7527264 TGAACGTTATAGTGAAAATATTTATTTAATGATAGTTCTGTTAACTAAAATAATCTTAGGTTAGT
1 TGAACGTTATAGT-AAAATATTTATTTAATGATAGTTCTGTTAACTAAAATAATCTT-GGTTAGT
* * *
7527329 TTTATTAAGTCATTATTT-AGAATTACACTAAAAGAATAAGGACATTACACATGCAAATTAGGTT
64 TTCATTAAGTCATTATTTGA-AATTAAACTAAAAGAATAAGGACATTACACATGCAAATCAGGTT
* *
7527393 ATTTCTTGTTCATTCATGCATTACACTAATGAATAGGATATTTATAAAATTATTTTTACTGGTAT
128 ATTTCTTATTCATTCATGCATTACACTAATGAATAGGATATTTATAAAATTATTTGTACTGGTAT
*
7527458 ATAAATGGATGATTATCTTCTGTATATA
193 ATAAATGGATGATTACCTTCTGTATATA
7527486 TGAA
1 TGAA
7527490 TGAATAAGAT
Statistics
Matches: 208, Mismatches: 15, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
220 12 0.06
221 42 0.20
222 154 0.74
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.41
Consensus pattern (220 bp):
TGAACGTTATAGTAAAATATTTATTTAATGATAGTTCTGTTAACTAAAATAATCTTGGTTAGTTT
CATTAAGTCATTATTTGAAATTAAACTAAAAGAATAAGGACATTACACATGCAAATCAGGTTATT
TCTTATTCATTCATGCATTACACTAATGAATAGGATATTTATAAAATTATTTGTACTGGTATATA
AATGGATGATTACCTTCTGTATATA
Found at i:7528092 original size:15 final size:15
Alignment explanation
Indices: 7528072--7528106 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
7528062 GGTGTAACTC
* *
7528072 TTTATCTATGTTTGT
1 TTTATCGATATTTGT
7528087 TTTATCGATATTTGT
1 TTTATCGATATTTGT
7528102 TTTAT
1 TTTAT
7528107 TAGAATTGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.17, C:0.06, G:0.11, T:0.66
Consensus pattern (15 bp):
TTTATCGATATTTGT
Found at i:7528273 original size:24 final size:24
Alignment explanation
Indices: 7528239--7528285 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
7528229 AAAACATATT
*
7528239 ATATTATAATTATAAATA-AATTA
1 ATATTATAATTAAAAATATAATTA
7528262 ATATTAATAATTAAAAATATAATT
1 ATATT-ATAATTAAAAATATAATT
7528286 TAAAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 12 0.57
25 4 0.19
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
ATATTATAATTAAAAATATAATTA
Found at i:7530905 original size:7 final size:7
Alignment explanation
Indices: 7530893--7530917 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
7530883 TATCTCTATA
7530893 CATTATC
1 CATTATC
7530900 CATTATC
1 CATTATC
7530907 CATTATC
1 CATTATC
7530914 CATT
1 CATT
7530918 TTTAGGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.44
Consensus pattern (7 bp):
CATTATC
Found at i:7533504 original size:22 final size:23
Alignment explanation
Indices: 7533473--7533515 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
7533463 CAAAATACAA
* *
7533473 TTATATAAAAATTTAGTAATATT
1 TTATATAAAAAATTACTAATATT
7533496 TTATA-AAAAAATTACTAATA
1 TTATATAAAAAATTACTAATA
7533516 AAAATATGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TTATATAAAAAATTACTAATATT
Found at i:7540459 original size:17 final size:18
Alignment explanation
Indices: 7540431--7540469 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
7540421 AAGTCGTTAT
7540431 CAATATTTTTTTTAGTTG
1 CAATATTTTTTTTAGTTG
7540449 CAATA-TTTTTTTAGTTG
1 CAATATTTTTTTTAGTTG
7540466 CAAT
1 CAAT
7540470 TGGTCACCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.26, C:0.08, G:0.10, T:0.56
Consensus pattern (18 bp):
CAATATTTTTTTTAGTTG
Found at i:7541109 original size:19 final size:19
Alignment explanation
Indices: 7541065--7541110 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
7541055 TTTTCATCTT
*
7541065 TATTATTATTATTTTATATA
1 TATT-TTATTATTTTATACA
*
7541085 TATTTTATTTTTTTATACA
1 TATTTTATTATTTTATACA
*
7541104 TTTTTTA
1 TATTTTA
7541111 CCTATATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (19 bp):
TATTTTATTATTTTATACA
Found at i:7541266 original size:9 final size:9
Alignment explanation
Indices: 7541226--7541258 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
7541216 TAAATAACTT
7541226 GAAAA-TAA
1 GAAAATTAA
7541234 -AAAATTAA
1 GAAAATTAA
7541242 GAAAATTAA
1 GAAAATTAA
7541251 GAAAATTA
1 GAAAATTA
7541259 CAAAAATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 4 0.17
8 3 0.13
9 16 0.70
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (9 bp):
GAAAATTAA
Found at i:7543055 original size:21 final size:21
Alignment explanation
Indices: 7543016--7543055 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
7543006 TTTGAGGATT
* * *
7543016 TTTTTAAAGTTTTTTTTTTAA
1 TTTTTAAACTTTGTCTTTTAA
7543037 TTTTTAAACTTTGTCTTTT
1 TTTTTAAACTTTGTCTTTT
7543056 GTTTTTATTT
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:0.20, C:0.05, G:0.05, T:0.70
Consensus pattern (21 bp):
TTTTTAAACTTTGTCTTTTAA
Found at i:7543661 original size:84 final size:84
Alignment explanation
Indices: 7543547--7543717 Score: 218
Period size: 84 Copynumber: 2.0 Consensus size: 84
7543537 CTCGAAGGGC
* ** * *
7543547 TTAGAGATTATGTTCAAAGGTCTTATAAATCTCAACA-TCAAAATAGATTCAACTCGAAAGACTT
1 TTAGAGACTATGCCCAAAGGTCTTACAAATCTCAACACT-AAAATAAATTCAACTCGAAAGACTT
* *
7543611 ACAAATCTTGCTCAGAGGAT
65 ACAAATCTTACCCAGAGGAT
* * **
7543631 TTAGAGACTATGCCCAAAGGTCTTACAAATCTTAACACTAAAATAAATTCAGCTCGAAAGGTTTA
1 TTAGAGACTATGCCCAAAGGTCTTACAAATCTCAACACTAAAATAAATTCAACTCGAAAGACTTA
*
7543696 CAAATCTTACCCATAGGAT
66 CAAATCTTACCCAGAGGAT
7543715 TTA
1 TTA
7543718 AATACTACGC
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
84 73 0.99
85 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.29
Consensus pattern (84 bp):
TTAGAGACTATGCCCAAAGGTCTTACAAATCTCAACACTAAAATAAATTCAACTCGAAAGACTTA
CAAATCTTACCCAGAGGAT
Found at i:7545089 original size:16 final size:16
Alignment explanation
Indices: 7545068--7545104 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
7545058 AATTTATTAT
*
7545068 TATTTAAGTCTTCCAA
1 TATTTAAGTCCTCCAA
7545084 TATTTAAGTCCTCCAA
1 TATTTAAGTCCTCCAA
7545100 TATTT
1 TATTT
7545105 TGGTAAGACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.30, C:0.19, G:0.05, T:0.46
Consensus pattern (16 bp):
TATTTAAGTCCTCCAA
Found at i:7545109 original size:100 final size:102
Alignment explanation
Indices: 7544995--7545274 Score: 343
Period size: 100 Copynumber: 2.8 Consensus size: 102
7544985 CATTAAACTT
* * *
7544995 TCCAATAGTTTGGTAAGAGTTAATTCAATATTTAAATCCTTCAATAGTTTGGTAGGATTAAAAAA
1 TCCAATAGTTTGGTAAGACTTAATTCAATATTTAAATCCTTCAATAGTTTGGTAAGATTAAAAAT
**
7545060 TTTATTATTATTTAAGTCTT-CCAATAT-TTAAGTCC
66 TTTATTATTATTTAAGTCTTAAAAATATATTAAGTCC
* * *
7545095 TCCAATATTTTGGTAAGACTTAATTTAAGATTTAAATCC-TCTAATAGTTTGGTAAGATTAAAAA
1 TCCAATAGTTTGGTAAGACTTAATTCAATATTTAAATCCTTC-AATAGTTTGGTAAGATTAAAAA
** * * *
7545159 TTTTATTATTA-TTATTTTTTAAAAAATTTATTAAGTTC
65 TTTTATTATTATTTAAGTCTT-AAAAATATATTAAGTCC
* * * * *
7545197 TCTAATAGTTTAGTAAGACTTAATTCAATATTTAAATCTTTCCAATAGTTTAGTAAGATTGAAAA
1 TCCAATAGTTTGGTAAGACTTAATTCAATATTTAAATCCTT-CAATAGTTTGGTAAGATTAAAAA
7545262 TTTTATTATTATT
65 TTTTATTATTATT
7545275 AAAAAAATTA
Statistics
Matches: 152, Mismatches: 21, Indels: 10
0.83 0.11 0.05
Matches are distributed among these distances:
99 8 0.05
100 66 0.43
101 4 0.03
102 40 0.26
103 32 0.21
104 2 0.01
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.45
Consensus pattern (102 bp):
TCCAATAGTTTGGTAAGACTTAATTCAATATTTAAATCCTTCAATAGTTTGGTAAGATTAAAAAT
TTTATTATTATTTAAGTCTTAAAAATATATTAAGTCC
Found at i:7546721 original size:84 final size:83
Alignment explanation
Indices: 7546568--7546808 Score: 230
Period size: 84 Copynumber: 2.9 Consensus size: 83
7546558 ATATCATGCC
* * * * * * * * * *
7546568 TAAAAGACTTAAAGACTATGCTTGAATGTCTTATAAATCTCGACTCTAAAATAGGTTCAACTTGA
1 TAAAAGACTTAGAGATTATGCTTAAAGGTTTTACAAATCTAGACTCTAAAATAGATTCAGCTCGA
*
7546633 AAGACTTTCAAATATTGCT
66 AAGACTTACAAATATTG-T
** * * *
7546652 TAAAAGACTTAGAGATTATGCTTTTAGGTTTTACAAATTTTGACTCTAAAATAGATTCAGCTCGT
1 TAAAAGACTTAGAGATTATGCTTAAAGGTTTTACAAATCTAGACTCTAAAATAGATTCAGCTCGA
* *
7546717 AAGACTTACGAATCTTGT
66 AAGACTTACAAATATTGT
* * * * * * *
7546735 TCAGAGGACTTAGAGATTAAGCCTAGAGGTTTTACAAATCTAGACTCTAAAATAGATTTAGCTCA
1 T-AAAAGACTTAGAGATTATGCTTAAAGGTTTTACAAATCTAGACTCTAAAATAGATTCAGCTCG
*
7546800 AAAAACTTA
65 AAAGACTTA
7546809 TGAATCTTAC
Statistics
Matches: 128, Mismatches: 28, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
83 2 0.02
84 126 0.98
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (83 bp):
TAAAAGACTTAGAGATTATGCTTAAAGGTTTTACAAATCTAGACTCTAAAATAGATTCAGCTCGA
AAGACTTACAAATATTGT
Found at i:7546814 original size:84 final size:84
Alignment explanation
Indices: 7546657--7546837 Score: 229
Period size: 84 Copynumber: 2.2 Consensus size: 84
7546647 TTGCTTAAAA
* * ** * * ** *
7546657 GACTTAGAGATTATGCTTTTAGGTTTTACAAATTTTGACTCTAAAATAGATTCAGCTCGTAAGAC
1 GACTTAGAGATTAAGCCTAGAGGTTTTACAAATCTAGACTCTAAAATAGATTCAGCTCAAAAAAC
**
7546722 TTACGAATCTT-GTTCAGAG
66 TTACGAATCTTACCT-AGAG
*
7546741 GACTTAGAGATTAAGCCTAGAGGTTTTACAAATCTAGACTCTAAAATAGATTTAGCTCAAAAAAC
1 GACTTAGAGATTAAGCCTAGAGGTTTTACAAATCTAGACTCTAAAATAGATTCAGCTCAAAAAAC
*
7546806 TTATGAATCTTACCTAGAG
66 TTACGAATCTTACCTAGAG
7546825 GACTTAGAGATTA
1 GACTTAGAGATTA
7546838 TGTCCGAAGG
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
84 82 0.99
85 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.33
Consensus pattern (84 bp):
GACTTAGAGATTAAGCCTAGAGGTTTTACAAATCTAGACTCTAAAATAGATTCAGCTCAAAAAAC
TTACGAATCTTACCTAGAG
Found at i:7546854 original size:84 final size:84
Alignment explanation
Indices: 7546677--7546856 Score: 220
Period size: 84 Copynumber: 2.1 Consensus size: 84
7546667 TTATGCTTTT
* * ** * **
7546677 AGGTTTTACAAATTTTGACTCTAAAATAGATTCAGCTCGTAAGACTTACGAATCTTGTTCAGAGG
1 AGGTTTTACAAATCTAGACTCTAAAATAGATTCAGCTCAAAAAACTTACGAATCTTCCTCAGAGG
*
7546742 ACTTAGAGATTAAGCCTAG
66 ACTTAGAGATTAAGCCGAG
* *
7546761 AGGTTTTACAAATCTAGACTCTAAAATAGATTTAGCTCAAAAAACTTATGAATCTTACCT-AGAG
1 AGGTTTTACAAATCTAGACTCTAAAATAGATTCAGCTCAAAAAACTTACGAATCTT-CCTCAGAG
*
7546825 GACTTAGAGATTATGTCCGA-
65 GACTTAGAGATTAAG-CCGAG
*
7546845 AGGTCTTACAAA
1 AGGTTTTACAAA
7546857 CCAAACTTCG
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
84 78 0.95
85 4 0.05
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (84 bp):
AGGTTTTACAAATCTAGACTCTAAAATAGATTCAGCTCAAAAAACTTACGAATCTTCCTCAGAGG
ACTTAGAGATTAAGCCGAG
Found at i:7547116 original size:18 final size:20
Alignment explanation
Indices: 7547082--7547120 Score: 64
Period size: 18 Copynumber: 2.0 Consensus size: 20
7547072 ATCCTGAGGT
7547082 AAAATTTTGTTTGATCAAAA
1 AAAATTTTGTTTGATCAAAA
7547102 AAAATTTT-TTT-ATCAAAA
1 AAAATTTTGTTTGATCAAAA
7547120 A
1 A
7547121 TTTAAGTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.42
19 3 0.16
20 8 0.42
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (20 bp):
AAAATTTTGTTTGATCAAAA
Found at i:7550203 original size:3 final size:3
Alignment explanation
Indices: 7550195--7550261 Score: 100
Period size: 3 Copynumber: 21.7 Consensus size: 3
7550185 AACATATATG
7550195 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7550243 ATAT AAAT AAAT AA- AAT AA
1 A-AT -AAT -AAT AAT AAT AA
7550262 ATAAAACACA
Statistics
Matches: 61, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.03
3 50 0.82
4 8 0.13
5 1 0.02
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7551057 original size:102 final size:102
Alignment explanation
Indices: 7550917--7551223 Score: 401
Period size: 102 Copynumber: 3.0 Consensus size: 102
7550907 TGTATGAAAT
* * * *
7550917 TTATTTT-TAAAAAATTTATTAAA-CTTTTCAATAGTTTGGTAAGA-TCTAATTCAATATTTAAA
1 TTATTTTCAAAAAAATTCATTAAATC-CTTCAATAATTTGGTAAGACT-TAATTCAATATTTAAA
*
7550979 TCCTTCAATAGTTTGGTAGGATTGAAAATTTTATTATTA
64 TCATTCAATAGTTTGGTAGGATTGAAAATTTTATTATTA
* *
7551018 TT-TTTTACAAAAAAATTCATTAAGTCC-TCAAATATTTTGGTAAGACTTAATTCAATATTTAAA
1 TTATTTT-CAAAAAAATTCATTAAATCCTTC-AATAATTTGGTAAGACTTAATTCAATATTTAAA
* * *
7551081 TCTTTTAATAGTTTGGTAGGATTAAAAATTTTATTATTA
64 TCATTCAATAGTTTGGTAGGATTGAAAATTTTATTATTA
** * *
7551120 TTATTTTTTAAAAAATTCATTAAATCCTTCAATAATTTGGTAAAACTTAATTTAATATTTAAATC
1 TTATTTTCAAAAAAATTCATTAAATCCTTCAATAATTTGGTAAGACTTAATTCAATATTTAAATC
*
7551185 ATTCAATAGTTTGGTAGGATTGAAAA-TTTATTGTTA
66 ATTCAATAGTTTGGTAGGATTGAAAATTTTATTATTA
7551221 TTA
1 TTA
7551224 AAAAAATTAT
Statistics
Matches: 181, Mismatches: 18, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
100 4 0.02
101 16 0.09
102 153 0.85
103 8 0.04
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.46
Consensus pattern (102 bp):
TTATTTTCAAAAAAATTCATTAAATCCTTCAATAATTTGGTAAGACTTAATTCAATATTTAAATC
ATTCAATAGTTTGGTAGGATTGAAAATTTTATTATTA
Found at i:7552081 original size:18 final size:19
Alignment explanation
Indices: 7552041--7552081 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
7552031 TTAAATCTAG
*
7552041 ATAAAGAAAAGACTAAAAC
1 ATAAAGAAAAGACTAAAAA
7552060 ATAAA-AAAAGA-TAAATAA
1 ATAAAGAAAAGACTAAA-AA
7552078 ATAA
1 ATAA
7552082 GACAAACAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 4 0.20
18 11 0.55
19 5 0.25
ACGTcount: A:0.73, C:0.05, G:0.07, T:0.15
Consensus pattern (19 bp):
ATAAAGAAAAGACTAAAAA
Found at i:7552369 original size:19 final size:20
Alignment explanation
Indices: 7552345--7552382 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
7552335 ACTTCTTTAT
*
7552345 CTATTTTTGCTTT-TTTTTG
1 CTATTTTTCCTTTCTTTTTG
7552364 CTATTTTTCCTTTCTTTTT
1 CTATTTTTCCTTTCTTTTT
7552383 TTTTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.05, C:0.16, G:0.05, T:0.74
Consensus pattern (20 bp):
CTATTTTTCCTTTCTTTTTG
Found at i:7552485 original size:14 final size:16
Alignment explanation
Indices: 7552462--7552494 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
7552452 AATAATTTCC
7552462 TTTTGTCTTTT-TTTT
1 TTTTGTCTTTTATTTT
7552477 TTTTG-CTTTTATTTT
1 TTTTGTCTTTTATTTT
7552492 TTT
1 TTT
7552495 CAAAACTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.03, C:0.06, G:0.06, T:0.85
Consensus pattern (16 bp):
TTTTGTCTTTTATTTT
Found at i:7554476 original size:14 final size:14
Alignment explanation
Indices: 7554456--7554486 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
7554446 GCCATTCAAT
7554456 CTTTTTTTT-TTTA
1 CTTTTTTTTGTTTA
7554469 CTTTTTTTTGTTTA
1 CTTTTTTTTGTTTA
7554483 CTTT
1 CTTT
7554487 ACTTTGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.06, C:0.10, G:0.03, T:0.81
Consensus pattern (14 bp):
CTTTTTTTTGTTTA
Found at i:7557460 original size:19 final size:19
Alignment explanation
Indices: 7557405--7557477 Score: 80
Period size: 19 Copynumber: 3.9 Consensus size: 19
7557395 TTAATCATGC
*
7557405 AAAAATACTAAAAAAATAA
1 AAAAATACCAAAAAAATAA
* *
7557424 ACACATA--AAAATAAAT-A
1 AAAAATACCAAAA-AAATAA
7557441 AAAAATACCAAAGAAAATAA
1 AAAAATACCAAA-AAAATAA
7557461 AAAAATACCAAAAAAAT
1 AAAAATACCAAAAAAAT
7557478 GAAACGGCTC
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
17 10 0.22
18 4 0.09
19 17 0.38
20 14 0.31
ACGTcount: A:0.75, C:0.10, G:0.01, T:0.14
Consensus pattern (19 bp):
AAAAATACCAAAAAAATAA
Found at i:7558390 original size:41 final size:41
Alignment explanation
Indices: 7558329--7558636 Score: 169
Period size: 41 Copynumber: 7.4 Consensus size: 41
7558319 AAAAGTAAAC
* * ** *
7558329 AAAA-CTCCTTTAAATAGAGGCTTAATGACTTTCGAAAATA
1 AAAAGCTCCTCTAAACAGAGGCACAACGACTTTCGAAAATA
*
7558369 AAAAGCTCCTCTAAACAGAGGCACAACGACTTTTGAAAATA
1 AAAAGCTCCTCTAAACAGAGGCACAACGACTTTCGAAAATA
* * *
7558410 AAAGGCTCCTCTAAACAAAGGCACAACAACTTT-GAAAA-A
1 AAAAGCTCCTCTAAACAGAGGCACAACGACTTTCGAAAATA
* * * * * *
7558449 TAAATGCTCTTCCAAACAAAGGCATC-ACAACTTTTGAAAAAAATA
1 -AAAAGCTCCTCTAAACAGAGGCA-CAACGACTTTCG---AAAATA
* * * ** *
7558494 AAATGCTCCTCTAAATAGAGGCACTATAACTTTTGAAAAAATA
1 AAAAGCTCCTCTAAACAGAGGCACAACGACTTTCG--AAAATA
* * * *
7558537 AAATGCTCCTTTAAACAGAGGCACCAA-AACTTTTGAAAAATA
1 AAAAGCTCCTCTAAACAGAGGCA-CAACGACTTTCG-AAAATA
* * * * * * *
7558579 AAATGCTTCTTTAAATAGAGGCCCCACAACTTT-GAAACATA
1 AAAAGCTCCTCTAAACAGAGGCACAACGACTTTCGAAA-ATA
** *
7558620 AATTGCTCCTTTAAACA
1 AAAAGCTCCTCTAAACA
7558637 AAGACACCAT
Statistics
Matches: 229, Mismatches: 27, Indels: 23
0.82 0.10 0.08
Matches are distributed among these distances:
39 1 0.00
40 40 0.17
41 82 0.36
42 33 0.14
43 38 0.17
44 34 0.15
45 1 0.00
ACGTcount: A:0.44, C:0.20, G:0.12, T:0.25
Consensus pattern (41 bp):
AAAAGCTCCTCTAAACAGAGGCACAACGACTTTCGAAAATA
Found at i:7558651 original size:41 final size:42
Alignment explanation
Indices: 7558363--7558668 Score: 300
Period size: 41 Copynumber: 7.3 Consensus size: 42
7558353 ATGACTTTCG
* * * * *
7558363 AAAATAAAAAGCTCCTCTAAACAGAGGCACAACGACTTTTG-
1 AAAATAAAATGCTCCTTTAAACAAAGGCACCACAACTTTTGA
* * *
7558404 AAAATAAAAGGCTCCTCTAAACAAAGGCACAACAAC-TTTGA
1 AAAATAAAATGCTCCTTTAAACAAAGGCACCACAACTTTTGA
* *
7558445 AAAAT-AAATGCT-CTTCCAAACAAAGGCATCACAACTTTTGAAA
1 AAAATAAAATGCTCCTT-TAAACAAAGGCACCACAACTTTTG--A
* * * * *
7558488 AAAATAAAATGCTCCTCTAAATAGAGGCACTATAACTTTTGAA
1 AAAATAAAATGCTCCTTTAAACAAAGGCACCACAACTTTTG-A
* *
7558531 AAAATAAAATGCTCCTTTAAACAGAGGCACCAAAACTTTTGA
1 AAAATAAAATGCTCCTTTAAACAAAGGCACCACAACTTTTGA
* * * *
7558573 AAAATAAAATGCTTCTTTAAATAGAGGCCCCACAAC-TTTGA
1 AAAATAAAATGCTCCTTTAAACAAAGGCACCACAACTTTTGA
* * * *
7558614 AACATAAATTGCTCCTTTAAACAAAGACACCATAAC-TTTGA
1 AAAATAAAATGCTCCTTTAAACAAAGGCACCACAACTTTTGA
*
7558655 AAAATAAATTGCTC
1 AAAATAAAATGCTC
7558669 ATCGACAATC
Statistics
Matches: 226, Mismatches: 32, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
39 2 0.01
40 26 0.12
41 93 0.41
42 33 0.15
43 45 0.20
44 25 0.11
45 2 0.01
ACGTcount: A:0.45, C:0.20, G:0.11, T:0.24
Consensus pattern (42 bp):
AAAATAAAATGCTCCTTTAAACAAAGGCACCACAACTTTTGA
Found at i:7559673 original size:14 final size:14
Alignment explanation
Indices: 7559663--7559709 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
7559653 TTTTTTTATT
7559663 TTTTTCATTTTTCA
1 TTTTTCATTTTTCA
7559677 TTTTTCATTTTTC-
1 TTTTTCATTTTTCA
7559690 TCTTTT-ATCTTTTCA
1 T-TTTTCAT-TTTTCA
7559705 TTTTT
1 TTTTT
7559710 TTTCTTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 3 0.10
14 26 0.87
15 1 0.03
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTCATTTTTCA
Found at i:7559681 original size:8 final size:8
Alignment explanation
Indices: 7559646--7559710 Score: 52
Period size: 7 Copynumber: 8.8 Consensus size: 8
7559636 TTAAGTCCTC
7559646 TTTTTT-A
1 TTTTTTCA
*
7559653 TTTTTTTA
1 TTTTTTCA
7559661 TTTTTTTCA
1 -TTTTTTCA
7559670 -TTTTTCA
1 TTTTTTCA
7559677 -TTTTTCA
1 TTTTTTCA
7559684 -TTTTTC-
1 TTTTTTCA
*
7559690 TCTTTT-A
1 TTTTTTCA
*
7559697 TCTTTTCA
1 TTTTTTCA
7559705 TTTTTT
1 TTTTTT
7559711 TTCTTTTTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
7 36 0.72
8 7 0.14
9 7 0.14
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTTCA
Found at i:7570565 original size:26 final size:25
Alignment explanation
Indices: 7570511--7570565 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
7570501 CTCATCTAAG
*
7570511 AATTTTATAAAAATTTAGCATTTGA
1 AATTTTATAAAAATTTAGCATTGGA
* *
7570536 AATTTT-TATAAATTTCATCATTGGA
1 AATTTTATAAAAATTT-AGCATTGGA
7570561 TAATT
1 -AATT
7570566 AGTATTCACT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 8 0.32
25 13 0.52
26 4 0.16
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (25 bp):
AATTTTATAAAAATTTAGCATTGGA
Found at i:7571881 original size:29 final size:29
Alignment explanation
Indices: 7571848--7571909 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
7571838 ATAAGTAATT
*
7571848 GTATGTAAAGGAATGATGAAACATACTTA
1 GTATGCAAAGGAATGATGAAACATACTTA
*
7571877 GTATGCAAATGAATGATGAAACATACTTA
1 GTATGCAAAGGAATGATGAAACATACTTA
7571906 -TATG
1 GTATG
7571910 AAATACGCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 4 0.13
29 27 0.87
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.29
Consensus pattern (29 bp):
GTATGCAAAGGAATGATGAAACATACTTA
Found at i:7572893 original size:3 final size:3
Alignment explanation
Indices: 7572887--7572915 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7572877 AATTACCTTT
7572887 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
7572916 TAAAACATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:7573867 original size:20 final size:21
Alignment explanation
Indices: 7573796--7573868 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 21
7573786 CTAAAAATGA
*
7573796 TTCATTTTTCATTCATCATTTCT
1 TTCATTTTTCATT-ATTA-TTCT
7573819 ATT-ATTTTTCATTATTATTCT
1 -TTCATTTTTCATTATTATTCT
**
7573840 TTTGTTTTT-ATTATTATT-T
1 TTCATTTTTCATTATTATTCT
7573859 TTACATTTTT
1 TT-CATTTTT
7573869 TTAAAAATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
19 3 0.07
20 16 0.37
21 9 0.21
22 3 0.07
23 10 0.23
24 2 0.05
ACGTcount: A:0.19, C:0.11, G:0.01, T:0.68
Consensus pattern (21 bp):
TTCATTTTTCATTATTATTCT
Found at i:7574028 original size:3 final size:3
Alignment explanation
Indices: 7574016--7574049 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
7574006 GGGGATTTTC
7574016 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
7574050 GTTATTAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:7574197 original size:9 final size:9
Alignment explanation
Indices: 7574180--7574223 Score: 72
Period size: 9 Copynumber: 5.0 Consensus size: 9
7574170 CATACATAAA
*
7574180 TAAATAATT
1 TAAAAAATT
7574189 TAAAAAATT
1 TAAAAAATT
7574198 TAAAAAATT
1 TAAAAAATT
7574207 T-AAAAATT
1 TAAAAAATT
7574215 TAAAAAATT
1 TAAAAAATT
7574224 ATCAAAAATG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
8 8 0.24
9 25 0.76
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
TAAAAAATT
Found at i:7574213 original size:17 final size:18
Alignment explanation
Indices: 7574180--7574223 Score: 72
Period size: 17 Copynumber: 2.5 Consensus size: 18
7574170 CATACATAAA
*
7574180 TAAATAATTTAAAAAATT
1 TAAAAAATTTAAAAAATT
7574198 TAAAAAATTT-AAAAATT
1 TAAAAAATTTAAAAAATT
7574215 TAAAAAATT
1 TAAAAAATT
7574224 ATCAAAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 16 0.64
18 9 0.36
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TAAAAAATTTAAAAAATT
Found at i:7576504 original size:6 final size:6
Alignment explanation
Indices: 7576493--7576522 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
7576483 TCTAATATTA
7576493 AATTTT AATTTT AATTTT AATTTT AATTTT
1 AATTTT AATTTT AATTTT AATTTT AATTTT
7576523 TAAGAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
AATTTT
Found at i:7576506 original size:13 final size:13
Alignment explanation
Indices: 7576485--7576525 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
7576475 ACCAATATTC
*
7576485 TAATATTAAATTT
1 TAATTTTAAATTT
7576498 TAATTTT-AATTT
1 TAATTTTAAATTT
*
7576510 TAATTTTAATTTT
1 TAATTTTAAATTT
7576523 TAA
1 TAA
7576526 GAATAAAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 12 0.48
13 13 0.52
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TAATTTTAAATTT
Found at i:7577622 original size:17 final size:16
Alignment explanation
Indices: 7577588--7577618 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7577578 AAATTATATA
7577588 AATTTTAAAAAATAAT
1 AATTTTAAAAAATAAT
*
7577604 AATTTTAACAAATAA
1 AATTTTAAAAAATAA
7577619 ATAAATTATT
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:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (16 bp):
AATTTTAAAAAATAAT
Found at i:7582762 original size:20 final size:20
Alignment explanation
Indices: 7582724--7582762 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
7582714 GGCTGGGTTA
*
7582724 AATTTATATTTTGTATTAAT
1 AATTTATATTTTATATTAAT
7582744 AATTTATATGTTTAT-TTAA
1 AATTTATAT-TTTATATTAA
7582763 GTCTAGTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
AATTTATATTTTATATTAAT
Found at i:7589168 original size:16 final size:16
Alignment explanation
Indices: 7589142--7589174 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7589132 TTCAGATAAA
7589142 AGTTTATAAAA-ATTT
1 AGTTTATAAAACATTT
7589157 AGTTTGATAAAACATTT
1 AGTTT-ATAAAACATTT
7589174 A
1 A
7589175 AAATATCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 6 0.38
17 5 0.31
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.42
Consensus pattern (16 bp):
AGTTTATAAAACATTT
Found at i:7589822 original size:2 final size:2
Alignment explanation
Indices: 7589817--7589850 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7589807 GGGTCATACG
7589817 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
7589851 GATAGAGAGA
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):
TA
Found at i:7589859 original size:2 final size:2
Alignment explanation
Indices: 7589854--7589893 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
7589844 ATATATAGAT
7589854 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
7589894 TAGTTCCAGA
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7592691 original size:3 final size:3
Alignment explanation
Indices: 7592683--7592709 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
7592673 TAATCTAAAT
7592683 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
7592710 TTATTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:7592714 original size:3 final size:3
Alignment explanation
Indices: 7592708--7592980 Score: 213
Period size: 3 Copynumber: 91.0 Consensus size: 3
7592698 ATAATAATAA
* *
7592708 TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAA TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
7592756 TAT TAT TAT TAT TAT TAT TCT TAT TAT TGT TGT TAT TGT TGT TGT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * * * *
7592804 TGT TGT TAT TGT TGT TAT TAT TAT TGT TGT TAT TGT TGT TAT TGT TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* ** ** * * ** * * *
7592852 TGT TAT GGT TGC TAT TGT TGT TAT GGT TGT TAT TGT TGT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
7592900 TAT TAT TAT TAT TAT TAT TGT TGT TGT TGT TGT TAT TAT TGT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
7592948 TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7592981 CATTTTTTTA
Statistics
Matches: 230, Mismatches: 40, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 230 1.00
ACGTcount: A:0.22, C:0.01, G:0.12, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:7593393 original size:16 final size:17
Alignment explanation
Indices: 7593361--7593393 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
7593351 GATAGCAAAA
7593361 AAAAAAAAATTCAGAAAC
1 AAAAAAAAATT-AGAAAC
7593379 AAAAAAAAATT-GAAA
1 AAAAAAAAATTAGAAA
7593394 ATGAAGAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
18 11 0.73
ACGTcount: A:0.76, C:0.06, G:0.06, T:0.12
Consensus pattern (17 bp):
AAAAAAAAATTAGAAAC
Found at i:7603224 original size:36 final size:35
Alignment explanation
Indices: 7603176--7603425 Score: 168
Period size: 36 Copynumber: 6.9 Consensus size: 35
7603166 AAAAAGCTAC
*
7603176 TTAAAGTTTCATAGCCTATTGTTAGATGAGCCTTT-T
1 TTAAAGTTTCATAGCCT-TTGTTAGAAGAG-CTTTCT
* * * *
7603212 TTAAAGTCTCATAACCTTTGATTAGAGGAGTTTTCT
1 TTAAAGTTTCATAGCCTTTG-TTAGAAGAGCTTTCT
* * *
7603248 TTAAAGTATCATAGCCTCTGGTTAGAAAAGTCTTT-T
1 TTAAAGTTTCATAGCCT-TTGTTAGAAGAG-CTTTCT
*
7603284 TTAAAGTTTCATAGCCTTTGGTCAGAAGAGCTTTCT
1 TTAAAGTTTCATAGCCTTT-GTTAGAAGAGCTTTCT
* * * * **
7603320 TTAAAGTGTCATAGCCTCTAGTCAGAGGATTTTTCT
1 TTAAAGTTTCATAGCCT-TTGTTAGAAGAGCTTTCT
* * * *
7603356 TTGAAGTGTCATAGCCTTTAGTCA-AAGGAACTCTT-T
1 TTAAAGTTTCATAGCCTTT-GTTAGAA-GAGCT-TTCT
* *
7603392 TTAAAGTTTAATAGCCTCTAGTTA-AATGAGCTTT
1 TTAAAGTTTCATAGCCT-TTGTTAGAA-GAGCTTT
7603426 TAATTTTAAA
Statistics
Matches: 172, Mismatches: 31, Indels: 23
0.76 0.14 0.10
Matches are distributed among these distances:
35 15 0.09
36 148 0.86
37 9 0.05
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.40
Consensus pattern (35 bp):
TTAAAGTTTCATAGCCTTTGTTAGAAGAGCTTTCT
Found at i:7603332 original size:108 final size:108
Alignment explanation
Indices: 7603176--7603372 Score: 265
Period size: 108 Copynumber: 1.8 Consensus size: 108
7603166 AAAAAGCTAC
* * * *
7603176 TTAAAGTTTCATAGCCTATTGTTAGATGAGCCTTTTTTAAAGTCTCATAACCT-TTGATTAGAGG
1 TTAAAGTTTCATAGCCTATTGTCAGAAGAGCCTTTTTTAAAGTCTCATAACCTCTAG-TCAGAGG
7603240 AGTTTTCTTTAAAGTATCATAGCCTCTGGTTAGAAAAGTCTTTT
65 AGTTTTCTTTAAAGTATCATAGCCTCTGGTTAGAAAAGTCTTTT
* *
7603284 TTAAAGTTTCATAGCCT-TTGGTCAGAAGAG-CTTTCTTTAAAGTGTCATAGCCTCTAGTCAGAG
1 TTAAAGTTTCATAGCCTATT-GTCAGAAGAGCCTTT-TTTAAAGTCTCATAACCTCTAGTCAGAG
* * *
7603347 GATTTTTCTTTGAAGTGTCATAGCCT
64 GAGTTTTCTTTAAAGTATCATAGCCT
7603373 TTAGTCAAAG
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
107 6 0.08
108 69 0.90
109 2 0.03
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.40
Consensus pattern (108 bp):
TTAAAGTTTCATAGCCTATTGTCAGAAGAGCCTTTTTTAAAGTCTCATAACCTCTAGTCAGAGGA
GTTTTCTTTAAAGTATCATAGCCTCTGGTTAGAAAAGTCTTTT
Found at i:7603337 original size:72 final size:72
Alignment explanation
Indices: 7603141--7603338 Score: 211
Period size: 72 Copynumber: 2.8 Consensus size: 72
7603131 AAATTTTTAA
* ** * * * * * * **
7603141 TTTAAAGTTTCATTGCCTAGGGTCAAAAAAGC-TAC-TTAAAGTTTCATAGCCTATTGTTAGATG
1 TTTAAAGTTTCATAGCCTTTGGTCAGAAGAGCTTTCTTTAAAGTATCATAGCCTCTGGTTAGAAA
7603204 AGCCTTT
66 AGCCTTT
* * * * * *
7603211 TTTAAAGTCTCATAACCTTTGATTAGAGGAGTTTTCTTTAAAGTATCATAGCCTCTGGTTAGAAA
1 TTTAAAGTTTCATAGCCTTTGGTCAGAAGAGCTTTCTTTAAAGTATCATAGCCTCTGGTTAGAAA
*
7603276 AGTCTTT
66 AGCCTTT
*
7603283 TTTAAAGTTTCATAGCCTTTGGTCAGAAGAGCTTTCTTTAAAGTGTCATAGCCTCT
1 TTTAAAGTTTCATAGCCTTTGGTCAGAAGAGCTTTCTTTAAAGTATCATAGCCTCT
7603339 AGTCAGAGGA
Statistics
Matches: 101, Mismatches: 25, Indels: 2
0.79 0.20 0.02
Matches are distributed among these distances:
70 21 0.21
71 2 0.02
72 78 0.77
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (72 bp):
TTTAAAGTTTCATAGCCTTTGGTCAGAAGAGCTTTCTTTAAAGTATCATAGCCTCTGGTTAGAAA
AGCCTTT
Found at i:7603368 original size:72 final size:72
Alignment explanation
Indices: 7603207--7603413 Score: 204
Period size: 72 Copynumber: 2.9 Consensus size: 72
7603197 TTAGATGAGC
* * * * * * *
7603207 CTTTTTTAAAGTCTCATAACCTTTGATTAGAGGAGTTTTCTTTAAAGTATCATAGCCTCTGGTTA
1 CTTTTTTAAAGTCTCATAGCCTTTGGTCAGAAGAGCTTTCTTTAAAGTATCATAGCCTCTAGTCA
7603272 GAAAAGT
66 GAAAAGT
* *
7603279 CTTTTTTAAAGTTTCATAGCCTTTGGTCAGAAGAGCTTTCTTTAAAGTGTCATAGCCTCTAGTCA
1 CTTTTTTAAAGTCTCATAGCCTTTGGTCAGAAGAGCTTTCTTTAAAGTATCATAGCCTCTAGTCA
**
7603344 GAGGA-T
66 GAAAAGT
* * * * * * *
7603350 TTTTCTTTGAAGTGTCATAGCCTTTAGTCA-AAGGAACTCTT-TTTAAAGTTTAATAGCCTCTAG
1 CTTT-TTTAAAGTCTCATAGCCTTTGGTCAGAA-GAGCT-TTCTTTAAAGTATCATAGCCTCTAG
7603413 T
63 T
7603414 TAAATGAGCT
Statistics
Matches: 114, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
71 6 0.05
72 106 0.93
73 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.40
Consensus pattern (72 bp):
CTTTTTTAAAGTCTCATAGCCTTTGGTCAGAAGAGCTTTCTTTAAAGTATCATAGCCTCTAGTCA
GAAAAGT
Found at i:7603393 original size:108 final size:108
Alignment explanation
Indices: 7603176--7603408 Score: 260
Period size: 108 Copynumber: 2.2 Consensus size: 108
7603166 AAAAAGCTAC
* * * *
7603176 TTAAAGTTTCATAGCCTATTGTTAGATGAGCCTTTTTTAAAGTCTCATAACCTTTGATTAGAGGA
1 TTAAAGTTTCATAGCCTATTGTCAGAAGAGCCTTTTTTAAAGTCTCATAACCTTAGATCAGAGGA
* * *
7603241 GTTTTCTTTAAAGTATCATAGCCTCTGGTTAGAAAAGTCTTTT
66 GTTTTCTTTAAAGTATCATAGCCTCTAGTCAGAAAACTCTTTT
* *
7603284 TTAAAGTTTCATAGCCT-TTGGTCAGAAGAG-CTTTCTTTAAAGTGTCATAGCCTCTAG-TCAGA
1 TTAAAGTTTCATAGCCTATT-GTCAGAAGAGCCTTT-TTTAAAGTCTCATAACCT-TAGATCAGA
* * * *
7603346 GGATTTTTCTTTGAAGTGTCATAGCCTTTAGTCA-AAGGAACTC-TTT
63 GGAGTTTTCTTTAAAGTATCATAGCCTCTAGTCAGAA--AACTCTTTT
*
7603392 TTAAAGTTTAATAGCCT
1 TTAAAGTTTCATAGCCT
7603409 CTAGTTAAAT
Statistics
Matches: 106, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
107 8 0.08
108 92 0.87
109 6 0.06
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (108 bp):
TTAAAGTTTCATAGCCTATTGTCAGAAGAGCCTTTTTTAAAGTCTCATAACCTTAGATCAGAGGA
GTTTTCTTTAAAGTATCATAGCCTCTAGTCAGAAAACTCTTTT
Found at i:7603575 original size:34 final size:35
Alignment explanation
Indices: 7603523--7603605 Score: 91
Period size: 34 Copynumber: 2.4 Consensus size: 35
7603513 TTTTTTCCAT
*
7603523 AGTTTCA-TGGCTTCTGGTTAGAAGAGC-CATTTAA
1 AGTTTCATTGCCTTCTGGTTAGAAGAGCTC-TTTAA
*
7603557 AGTTTCATTGCCTT-TGGTTATAAGAGCTTTCTTTAA
1 AGTTTCATTGCCTTCTGGTTAGAAGAGC--TCTTTAA
*
7603593 AGTTTCATAGCCT
1 AGTTTCATTGCCT
7603606 CTACTTAGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
34 19 0.45
35 5 0.12
36 17 0.40
37 1 0.02
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (35 bp):
AGTTTCATTGCCTTCTGGTTAGAAGAGCTCTTTAA
Found at i:7609476 original size:3 final size:3
Alignment explanation
Indices: 7609470--7609506 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
7609460 AATAATAATA
*
7609470 ATT ATT ATT ATT ATT ATT ATT ATT ACT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
7609507 CACTTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:7610009 original size:20 final size:21
Alignment explanation
Indices: 7609970--7610012 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
7609960 AGAATATAGT
7609970 TTGAGAAAAGTGTTTAAAAAA
1 TTGAGAAAAGTGTTTAAAAAA
* *
7609991 TTGAGAAGA-TGTTTCAAAAA
1 TTGAGAAAAGTGTTTAAAAAA
7610011 TT
1 TT
7610013 TTTGGGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.47, C:0.02, G:0.19, T:0.33
Consensus pattern (21 bp):
TTGAGAAAAGTGTTTAAAAAA
Found at i:7610393 original size:19 final size:19
Alignment explanation
Indices: 7610369--7610412 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
7610359 TAAGTTATTC
** *
7610369 TTTTTTCATTTTATTTTTA
1 TTTTTTCATTCCATTTTGA
*
7610388 TTTTTTGATTCCATTTTGA
1 TTTTTTCATTCCATTTTGA
7610407 TTTTTT
1 TTTTTT
7610413 TTTTGCTAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.14, C:0.07, G:0.05, T:0.75
Consensus pattern (19 bp):
TTTTTTCATTCCATTTTGA
Found at i:7610711 original size:3 final size:3
Alignment explanation
Indices: 7610703--7610744 Score: 75
Period size: 3 Copynumber: 13.7 Consensus size: 3
7610693 AAATATAAAT
7610703 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TT
7610745 TGAATAAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7610888 original size:20 final size:20
Alignment explanation
Indices: 7610861--7610908 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
7610851 TCAGGATAAT
*
7610861 ATAAAAAATTATTT-TTT-A
1 ATAAAAAAATATTTGTTTCA
7610879 ACTAAAAAAATATTTGTTTCA
1 A-TAAAAAAATATTTGTTTCA
7610900 ATAAAAAAA
1 ATAAAAAAA
7610909 GTAATAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 1 0.04
19 12 0.46
20 11 0.42
21 2 0.08
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (20 bp):
ATAAAAAAATATTTGTTTCA
Found at i:7614585 original size:2 final size:2
Alignment explanation
Indices: 7614578--7614603 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7614568 ACATACATAC
7614578 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
7614604 CAGTCATTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7616007 original size:19 final size:20
Alignment explanation
Indices: 7615971--7616018 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
7615961 TTATATCTTT
* *
7615971 TTTATTTTTCTGATA-TTTC
1 TTTATTTTTCTCAAATTTTC
* *
7615990 TTTATTTTTTTCAAATTTTT
1 TTTATTTTTCTCAAATTTTC
7616010 TTTATTTTT
1 TTTATTTTT
7616019 AAAAATTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.75
Consensus pattern (20 bp):
TTTATTTTTCTCAAATTTTC
Found at i:7617395 original size:24 final size:24
Alignment explanation
Indices: 7617368--7617413 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
7617358 GAGGTGTTTT
7617368 CTAGTTCCGGAAACCACAATGTTC
1 CTAGTTCCGGAAACCACAATGTTC
*
7617392 CTAGTTCCGGAAACCACGATGT
1 CTAGTTCCGGAAACCACAATGT
7617414 AGGTAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (24 bp):
CTAGTTCCGGAAACCACAATGTTC
Found at i:7617569 original size:39 final size:40
Alignment explanation
Indices: 7617525--7617613 Score: 137
Period size: 39 Copynumber: 2.3 Consensus size: 40
7617515 TACCAAGTGG
7617525 TAAGAATATTTACAGTAAATGACTAAACAACTAATTATGC
1 TAAGAATATTTACAGTAAATGACTAAACAACTAATTATGC
* * *
7617565 -AAGAATAGTTATATTAAATGACTAAACAACTAATTATGC
1 TAAGAATATTTACAGTAAATGACTAAACAACTAATTATGC
7617604 TAAGAA-ATTT
1 TAAGAATATTT
7617614 GCATATCAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
39 39 0.89
40 5 0.11
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.31
Consensus pattern (40 bp):
TAAGAATATTTACAGTAAATGACTAAACAACTAATTATGC
Found at i:7623156 original size:8 final size:8
Alignment explanation
Indices: 7623139--7623178 Score: 64
Period size: 8 Copynumber: 5.1 Consensus size: 8
7623129 TAACCAAAAA
7623139 TTTTTA-T
1 TTTTTATT
7623146 TTTTTATT
1 TTTTTATT
*
7623154 TTTTTAAT
1 TTTTTATT
7623162 TTTTTATT
1 TTTTTATT
7623170 TTTTTATT
1 TTTTTATT
7623178 T
1 T
7623179 GAAAATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
7 6 0.20
8 24 0.80
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTATT
Found at i:7623158 original size:16 final size:15
Alignment explanation
Indices: 7623139--7623178 Score: 71
Period size: 16 Copynumber: 2.6 Consensus size: 15
7623129 TAACCAAAAA
7623139 TTTTTATTTTTTATT
1 TTTTTATTTTTTATT
7623154 TTTTTAATTTTTTATT
1 TTTTT-ATTTTTTATT
7623170 TTTTTATTT
1 TTTTTATTT
7623179 GAAAATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTTTATTTTTTATT
Found at i:7623278 original size:26 final size:25
Alignment explanation
Indices: 7623249--7623313 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 25
7623239 AAATTTAGAC
*
7623249 AAAATTTTTCACTTAGGAATTT-TATA
1 AAAATTTTTCA-TTAGAAATTTCTA-A
* *
7623275 AAAATTTATCATTTGAAATTTCTAA
1 AAAATTTTTCATTAGAAATTTCTAA
7623300 AAAATTTTATCATT
1 AAAATTTT-TCATT
7623314 GAATAATTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 16 0.48
26 17 0.52
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.46
Consensus pattern (25 bp):
AAAATTTTTCATTAGAAATTTCTAA
Found at i:7623315 original size:25 final size:26
Alignment explanation
Indices: 7623249--7623316 Score: 72
Period size: 25 Copynumber: 2.7 Consensus size: 26
7623239 AAATTTAGAC
*
7623249 AAAATTTT-TCACTTAGGAATTTTATA
1 AAAATTTTATCACTT-GAAATTTTATA
*
7623275 AAAA-TTTATCATTTGAAATTTCTA-A
1 AAAATTTTATCACTTGAAATTT-TATA
7623300 AAAATTTTATCA-TTGAA
1 AAAATTTTATCACTTGAA
7623317 TAATTATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
25 19 0.51
26 18 0.49
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.44
Consensus pattern (26 bp):
AAAATTTTATCACTTGAAATTTTATA
Found at i:7623747 original size:16 final size:15
Alignment explanation
Indices: 7623714--7623743 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7623704 CTAGATTTCC
7623714 TCTTCCCCTTCTCTT
1 TCTTCCCCTTCTCTT
7623729 TCTTCCCCTT-TCTT
1 TCTTCCCCTTCTCTT
7623743 T
1 T
7623744 TTCTCTATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (15 bp):
TCTTCCCCTTCTCTT
Found at i:7623927 original size:31 final size:31
Alignment explanation
Indices: 7623892--7623958 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
7623882 AAACATGCCA
* *
7623892 AAAAATTCAACCAATGCTGAAAAACTTGTCG
1 AAAAATTCAACCAATGCCGAAAAACTTATCG
* *
7623923 AAAAATTCAATCAATGCCGAAAAATTTATCG
1 AAAAATTCAACCAATGCCGAAAAACTTATCG
7623954 AAAAA
1 AAAAA
7623959 CTGGAAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.51, C:0.16, G:0.10, T:0.22
Consensus pattern (31 bp):
AAAAATTCAACCAATGCCGAAAAACTTATCG
Found at i:7624316 original size:8 final size:8
Alignment explanation
Indices: 7624294--7624343 Score: 75
Period size: 8 Copynumber: 6.2 Consensus size: 8
7624284 CACATTTTTT
7624294 TTTTATT-
1 TTTTATTA
*
7624301 TTTCATTA
1 TTTTATTA
7624309 TTTTATTA
1 TTTTATTA
7624317 TTTTATTA
1 TTTTATTA
7624325 TTTTATTA
1 TTTTATTA
7624333 TTTTAATTA
1 TTTT-ATTA
7624342 TT
1 TT
7624344 ATTTTTAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
7 6 0.15
8 27 0.69
9 6 0.15
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTTATTA
Found at i:7624841 original size:44 final size:42
Alignment explanation
Indices: 7624506--7625062 Score: 393
Period size: 44 Copynumber: 13.1 Consensus size: 42
7624496 TGAATAACAT
* *
7624506 AAAAA-CTCCTCTAAACAGAGGCTTC-ACAACTTTTAAAAATA
1 AAAAAGCTCCTCTAAACAGAGGC-TCAATAACTTTGAAAAATA
* *
7624547 AACAAAGCTCCTCTAAACAGAGGCTTAACAACTTTGAAAAA-A
1 AA-AAAGCTCCTCTAAACAGAGGCTCAATAACTTTGAAAAATA
** *
7624589 TTAATGCTCCTCTAAACAGAGGCTCAATAACTTTGAAAAATA
1 AAAAAGCTCCTCTAAACAGAGGCTCAATAACTTTGAAAAATA
** * * *
7624631 AACAAAGCTCCTCTAAGTAAAGGTTCAATGACTTTTGAAAAATA
1 AA-AAAGCTCCTCTAAACAGAGGCTCAATAAC-TTTGAAAAATA
* ** * * *
7624675 AACAAAACTTATCTAAACAGAGGCTCAACAA-TTTAAAAAAAAA
1 AA-AAAGCTCCTCTAAACAGAGGCTCAATAACTTT-GAAAAATA
* *
7624718 AAACATGATGCCCCTCTAAACAAAGGCTCAACT-ACTTT-AAAAA-A
1 AAA-A--A-GCTCCTCTAAACAGAGGCTCAA-TAACTTTGAAAAATA
* * ** *
7624762 AATAAAGGCTCTTATAAGTAGAGGCTCAATGACTTTGAAAAATA
1 AA-AAA-GCTCCTCTAAACAGAGGCTCAATAACTTTGAAAAATA
* *
7624806 AAATAAGACTCCTCTAAACAAAGGCTCAATTACTTTGAAAAAT-
1 AAA-AAG-CTCCTCTAAACAGAGGCTCAATAACTTTGAAAAATA
* * * * *
7624849 AAAAAGCTTCTCTAAACGGAAGCTTAACAACTTTGAAAAAT-
1 AAAAAGCTCCTCTAAACAGAGGCTCAATAACTTTGAAAAATA
* * * * *
7624890 -AAAGGCTCTTCTAAACAAAGGTTCAACAACTTTGAAAAAT-
1 AAAAAGCTCCTCTAAACAGAGGCTCAATAACTTTGAAAAATA
* * *
7624930 -AAAAGCTCAT-TAATACAGAGGCTTAATGACTTTAGAAAAACTA
1 AAAAAGCTCCTCTAA-ACAGAGGCTCAATAACTTT-GAAAAA-TA
* * * *
7624973 AAAAAGGCTTCTCTAAACAGAGGCTTAATAACTTTAAAAAAAA
1 AAAAA-GCTCCTCTAAACAGAGGCTCAATAACTTTGAAAAATA
* ** * *
7625016 ATAAAATGCTCCTCTAAACAAAGGCTCAACGACCTTAAAAAATA
1 A-AAAA-GCTCCTCTAAACAGAGGCTCAATAACTTTGAAAAATA
7625060 AAA
1 AAA
7625063 GGTTCATTCA
Statistics
Matches: 409, Mismatches: 80, Indels: 52
0.76 0.15 0.10
Matches are distributed among these distances:
39 3 0.01
40 54 0.13
41 72 0.18
42 36 0.09
43 76 0.19
44 115 0.28
45 29 0.07
46 21 0.05
47 3 0.01
ACGTcount: A:0.47, C:0.18, G:0.11, T:0.24
Consensus pattern (42 bp):
AAAAAGCTCCTCTAAACAGAGGCTCAATAACTTTGAAAAATA
Found at i:7624918 original size:40 final size:40
Alignment explanation
Indices: 7624515--7625102 Score: 184
Period size: 41 Copynumber: 13.8 Consensus size: 40
7624505 TAAAAACTCC
* * * *
7624515 TCTAAACAGAGGCTTC-ACAACTTTTAAAAATAAACAAAGCTCC
1 TCTAAACAAAGGC-TCAACAACTTTGAAAAAT--A-AAGGCTCT
* * * * *
7624558 TCTAAACAGAGGCTTAACAACTTTGAAAAAATTAATGCTCC
1 TCTAAACAAAGGCTCAACAACTTTG-AAAAATAAAGGCTCT
* * * *
7624599 TCTAAACAGAGGCTCAATAACTTTGAAAAATAAACAAAGCTCC
1 TCTAAACAAAGGCTCAACAACTTTGAAAAAT--A-AAGGCTCT
** * ** **
7624642 TCTAAGTAAAGGTTCAATGACTTTTGAAAAATAAACAAAACT-T
1 TCTAAACAAAGGCTCAACAAC-TTTGAAAAAT--A-AAGGCTCT
* * * * *
7624685 ATCTAAACAGAGGCTCAACAA-TTTAAAAAAAAAAAACATGATGCCCC
1 -TCTAAACAAAGGCTCAACAACTTT---GAAAAATAA-A-G--GCTCT
* *
7624732 TCTAAACAAAGGCTCAACTACTTTAAAAAAAATAAAGGCTCT
1 TCTAAACAAAGGCTCAACAACTTT--GAAAAATAAAGGCTCT
* ** * ** * *
7624774 TATAAGTAGAGGCTCAATGACTTTGAAAAATAAAATAAGACTCC
1 TCTAAACAAAGGCTCAACAACTTTGAAAAAT---A-AAGGCTCT
** *
7624818 TCTAAACAAAGGCTCAATTACTTTGAAAAATAAAAAGCT-T
1 TCTAAACAAAGGCTCAACAACTTTGAAAAAT-AAAGGCTCT
* *
7624858 CTCTAAACGGAA-GCTTAACAACTTTGAAAAATAAAGGCTCT
1 -TCTAAAC-AAAGGCTCAACAACTTTGAAAAATAAAGGCTCT
* * *
7624899 TCTAAACAAAGGTTCAACAACTTTGAAAAATAAAAGCTCA
1 TCTAAACAAAGGCTCAACAACTTTGAAAAATAAAGGCTCT
* * **
7624939 T-TAATACAGAGGCTTAATGACTTTAGAAAAACTAAAAAAGGCT-T
1 TCTAA-ACAAAGGCTCAACAACTTT-GAAAAA-T---AAAGGCTCT
* * * * * *
7624983 CTCTAAACAGAGGCTTAATAACTTTAAAAAAAAATAAAATGCTCC
1 -TCTAAACAAAGGCTCAACAACTTT---GAAAAAT-AAAGGCTCT
* * * *
7625028 TCTAAACAAAGGCTCAACGACCTTAAAAAATAAAAGGTTCAT
1 TCTAAACAAAGGCTCAACAACTTTGAAAAAT-AAAGGCTC-T
** * * *
7625070 TC-AAGTATAGGCTCAACGACTTCGAAAAATAAA
1 TCTAAACAAAGGCTCAACAACTTTGAAAAATAAA
7625103 AGGTTCCATG
Statistics
Matches: 425, Mismatches: 84, Indels: 75
0.73 0.14 0.13
Matches are distributed among these distances:
39 5 0.01
40 68 0.16
41 101 0.24
42 33 0.08
43 47 0.11
44 98 0.23
45 31 0.07
46 33 0.08
47 9 0.02
ACGTcount: A:0.46, C:0.18, G:0.12, T:0.24
Consensus pattern (40 bp):
TCTAAACAAAGGCTCAACAACTTTGAAAAATAAAGGCTCT
Found at i:7624929 original size:125 final size:128
Alignment explanation
Indices: 7624731--7625062 Score: 340
Period size: 125 Copynumber: 2.6 Consensus size: 128
7624721 CATGATGCCC
* * * ** * *
7624731 CTCTAAACA-AAGGCTCAACTACTTTAAAAAAAATAAAGGCTCTTATAAGTAGAGGCTCAATGAC
1 CTCTAAACAGAA-GCTTAACAACTTT-AAAAAAATAAAGGCTCTTCTAAACAAAGGCTCAACGAC
* *
7624795 TTTGAAAAATAAAATAAGACTCCTCTAA-ACAAAGGCTCAATTACTTT-GAAAAA-T-AAAAA-G
64 TTTGAAAAATAAAA-AAG-CTCAT-TAATACAAAGGCTCAATGACTTTAGAAAAACTAAAAAAGG
7624855 CTT
126 CTT
* * * *
7624858 CTCTAAACGGAAGCTTAACAACTTT-GAAAAATAAAGGCTCTTCTAAACAAAGGTTCAACAACTT
1 CTCTAAACAGAAGCTTAACAACTTTAAAAAAATAAAGGCTCTTCTAAACAAAGGCTCAACGACTT
* *
7624922 TGAAAAAT--AAAAGCTCATTAATACAGAGGCTTAATGACTTTAGAAAAACTAAAAAAGGCTT
66 TGAAAAATAAAAAAGCTCATTAATACAAAGGCTCAATGACTTTAGAAAAACTAAAAAAGGCTT
* * * *
7624983 CTCTAAACAGAGGCTTAATAACTTTAAAAAAAAATAAAATGCTCCTCTAAACAAAGGCTCAACGA
1 CTCTAAACAGAAGCTTAACAACTTT--AAAAAAAT-AAAGGCTCTTCTAAACAAAGGCTCAACGA
* *
7625048 CCTTAAAAAATAAAA
63 CTTTGAAAAATAAAA
7625063 GGTTCATTCA
Statistics
Matches: 168, Mismatches: 25, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
120 3 0.02
121 20 0.12
122 9 0.05
123 3 0.02
124 5 0.03
125 65 0.39
127 19 0.11
128 8 0.05
129 34 0.20
131 2 0.01
ACGTcount: A:0.47, C:0.17, G:0.12, T:0.24
Consensus pattern (128 bp):
CTCTAAACAGAAGCTTAACAACTTTAAAAAAATAAAGGCTCTTCTAAACAAAGGCTCAACGACTT
TGAAAAATAAAAAAGCTCATTAATACAAAGGCTCAATGACTTTAGAAAAACTAAAAAAGGCTT
Found at i:7624968 original size:81 final size:79
Alignment explanation
Indices: 7624730--7624974 Score: 233
Period size: 81 Copynumber: 2.9 Consensus size: 79
7624720 ACATGATGCC
* * * *
7624730 CCTCTAAACAAAGGCTCAACTACTTTAAAAAAAATAAAGGCTCTT-ATAAGTAGAGGCTCAATGA
1 CCTCTAAACAAAGGCTCAACTACTTT--GAAAAATAAAAGCTCTTAAT-A-CAGAGGCTTAATGA
7624794 CTTTGAAAAATAAAATAAGACT
62 CTTTGAAAAAT---A-AAGACT
* * * **
7624816 CCTCTAAACAAAGGCTCAATTACTTTGAAAAATAAAAAGCTTCTCTAA-ACGGAAGCTTAACAAC
1 CCTCTAAACAAAGGCTCAACTACTTTGAAAAAT-AAAAGC-TCT-TAATACAGAGGCTTAATGAC
*
7624880 TTTGAAAAATAAAGGCT
63 TTTGAAAAATAAAGACT
* * *
7624897 CTTCTAAACAAAGGTTCAACAACTTTGAAAAATAAAAGCTCATTAATACAGAGGCTTAATGACTT
1 CCTCTAAACAAAGGCTCAACTACTTTGAAAAATAAAAGCTC-TTAATACAGAGGCTTAATGACTT
7624962 TAGAAAAACTAAA
65 T-GAAAAA-TAAA
7624975 AAAGGCTTCT
Statistics
Matches: 133, Mismatches: 18, Indels: 20
0.78 0.11 0.12
Matches are distributed among these distances:
79 5 0.04
80 22 0.17
81 40 0.30
82 5 0.04
84 6 0.05
85 24 0.18
86 29 0.22
87 1 0.01
88 1 0.01
ACGTcount: A:0.46, C:0.17, G:0.12, T:0.25
Consensus pattern (79 bp):
CCTCTAAACAAAGGCTCAACTACTTTGAAAAATAAAAGCTCTTAATACAGAGGCTTAATGACTTT
GAAAAATAAAGACT
Found at i:7625013 original size:85 final size:84
Alignment explanation
Indices: 7624495--7625062 Score: 326
Period size: 85 Copynumber: 6.6 Consensus size: 84
7624485 CTCAAACTCC
* * ** * *
7624495 TTGAATAACATAAAAA-CTCCTCTAAACAGAGGCTTCACAACTTTTAAAAATAAACAAA-GCTCC
1 TTGAA-AA-ATAAAAAGCTTCTCTAAACAGAGGCTTAATGACTTTGAAAAATAAA-AAAGGCTTC
* *
7624558 TCTAAACAGAGGCTTAACAACT
63 TCTAAACAAAGGCTTAATAACT
* * * * * *
7624580 TTGAAAAA-ATTAATGCTCCTCTAAACAGAGGCTCAATAACTTTGAAAAATAAACAAA-GCTCCT
1 TTGAAAAATA-AAAAGCTTCTCTAAACAGAGGCTTAATGACTTTGAAAAATAAA-AAAGGCTTCT
** *
7624643 CTAAGTAAAGG-TTCAATGACTT
64 CTAAACAAAGGCTT-AATAAC-T
* * * * * * *
7624665 TTGAAAAATAAACAAAACTTATCTAAACAGAGGCTCAA-CAATTTAAAAAAAAAAAACATGATGC
1 TTGAAAAAT-AA-AAAGCTTCTCTAAACAGAGGCTTAATGACTTTGAAAAATAAAAA-A-G--GC
** *
7624729 CCCTCTAAACAAAGGCTCAACT-ACT
60 TTCTCTAAACAAAGGCTTAA-TAACT
* * * *
7624754 TT-AAAAAAAATAAAGGC-TCT-TATAAGTAGAGGCTCAATGACTTTGAAAAATAAAATAAGACT
1 TTGAAAAATAA-AAA-GCTTCTCTA-AA-CAGAGGCTTAATGACTTTGAAAAATAAAA-AAGGCT
* * *
7624816 CCTCTAAACAAAGGCTCAATTACT
61 TCTCTAAACAAAGGCTTAATAACT
* * **
7624840 TTGAAAAATAAAAAGCTTCTCTAAACGGAAGCTTAACAACTTTGAAAAAT---AAAGGC-TCTTC
1 TTGAAAAATAAAAAGCTTCTCTAAACAGAGGCTTAATGACTTTGAAAAATAAAAAAGGCTTC-TC
*
7624901 TAAACAAAGG-TTCAACAACT
65 TAAACAAAGGCTT-AATAACT
7624921 TTGAAAAAT-AAAAGC-TCAT-TAATACAGAGGCTTAATGACTTTAGAAAAACTAAAAAAGGCTT
1 TTGAAAAATAAAAAGCTTC-TCTAA-ACAGAGGCTTAATGACTTT-GAAAAA-TAAAAAAGGCTT
*
7624983 CTCTAAACAGAGGCTTAATAACT
62 CTCTAAACAAAGGCTTAATAACT
* * * * * * * *
7625006 TTAAAAAAAAATAAAATGCTCCTCTAAACAAAGGCTCAACGACCTTAAAAAATAAAA
1 TT---GAAAAATAAAAAGCTTCTCTAAACAGAGGCTTAATGACTTTGAAAAATAAAA
7625063 GGTTCATTCA
Statistics
Matches: 382, Mismatches: 61, Indels: 78
0.73 0.12 0.15
Matches are distributed among these distances:
79 5 0.01
80 24 0.06
81 36 0.09
82 3 0.01
83 5 0.01
84 58 0.15
85 63 0.16
86 52 0.14
87 45 0.12
88 28 0.07
89 38 0.10
90 23 0.06
91 2 0.01
ACGTcount: A:0.47, C:0.18, G:0.11, T:0.24
Consensus pattern (84 bp):
TTGAAAAATAAAAAGCTTCTCTAAACAGAGGCTTAATGACTTTGAAAAATAAAAAAGGCTTCTCT
AAACAAAGGCTTAATAACT
Found at i:7625059 original size:129 final size:121
Alignment explanation
Indices: 7624827--7625103 Score: 297
Period size: 129 Copynumber: 2.2 Consensus size: 121
7624817 CTCTAAACAA
* * *
7624827 AGGCTCAATTACTTTGAAAAATAAAAAGCTTCTCTAAACGGAAGCTTAACAACTTTGAAAAATAA
1 AGGCTCAATGACTTTGAAAAATAAAAAGCTTCTCTAAACAGAAGCTTAACAACTTTAAAAAATAA
* * * *
7624892 AGGCTCTTCTAAACAAAGGTTCAACAACTTTGAAAAATAAAAGCTCATTAATACAG
66 AGGCTCCTCTAAACAAAGGCTCAACAACCTTAAAAAATAAAAGCTCATTAATACAG
* * *
7624948 AGGCTTAATGACTTTAGAAAAACTAAAAAAGGCTTCTCTAAACAGAGGCTTAATAACTTTAAAAA
1 AGGCTCAATGACTTT-GAAAAA-T-AAAAA-GCTTCTCTAAACAGAAGCTTAACAACTTT---AA
* * *
7625013 AAAATAAAATGCTCCTCTAAACAAAGGCTCAACGACCTTAAAAAATAAAAGGTTCATTCAAGT--
59 AAAAT-AAAGGCTCCTCTAAACAAAGGCTCAACAACCTTAAAAAATAAAA-GCTCATT-AA-TAC
*
7625076 AT
120 AG
* *
7625078 AGGCTCAACGACTTCGAAAAATAAAA
1 AGGCTCAATGACTTTGAAAAATAAAA
7625104 GGTTCCATGA
Statistics
Matches: 128, Mismatches: 17, Indels: 16
0.80 0.11 0.10
Matches are distributed among these distances:
121 13 0.10
122 6 0.05
123 1 0.01
124 5 0.04
125 26 0.20
127 4 0.03
128 7 0.05
129 44 0.34
130 19 0.15
131 2 0.02
132 1 0.01
ACGTcount: A:0.47, C:0.17, G:0.13, T:0.24
Consensus pattern (121 bp):
AGGCTCAATGACTTTGAAAAATAAAAAGCTTCTCTAAACAGAAGCTTAACAACTTTAAAAAATAA
AGGCTCCTCTAAACAAAGGCTCAACAACCTTAAAAAATAAAAGCTCATTAATACAG
Found at i:7625425 original size:21 final size:21
Alignment explanation
Indices: 7625401--7625459 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
7625391 ACATACAATA
7625401 TTTAAAGATTCTCATTCAAAT
1 TTTAAAGATTCTCATTCAAAT
*
7625422 TTTAAAGATTCAT-ATCCAAAT
1 TTTAAAGATTC-TCATTCAAAT
7625443 TTTCAAA-ACTTCTCATT
1 TTT-AAAGA-TTCTCATT
7625460 TGAGTTCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
21 23 0.72
22 9 0.28
ACGTcount: A:0.37, C:0.17, G:0.03, T:0.42
Consensus pattern (21 bp):
TTTAAAGATTCTCATTCAAAT
Found at i:7625577 original size:22 final size:22
Alignment explanation
Indices: 7625550--7625601 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
7625540 TGAGAACTTA
* *
7625550 AAAATTCAAAGATTCTTATTTT
1 AAAATTCAAAGATTCTCATTTG
7625572 AAAATTCAAAGATTCTCATTTG
1 AAAATTCAAAGATTCTCATTTG
*
7625594 AAGATTCA
1 AAAATTCA
7625602 CAATCTTGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (22 bp):
AAAATTCAAAGATTCTCATTTG
Found at i:7626736 original size:6 final size:6
Alignment explanation
Indices: 7626717--7626754 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
7626707 ATTTTTTCCA
*
7626717 TTCTTT TGCTTT TTCTTT TTCTCTT TT-TTT TTCTTT TT
1 TTCTTT TTCTTT TTCTTT TTCT-TT TTCTTT TTCTTT TT
7626755 TTCTCATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 4 0.14
6 20 0.71
7 4 0.14
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.82
Consensus pattern (6 bp):
TTCTTT
Found at i:7626764 original size:18 final size:18
Alignment explanation
Indices: 7626726--7626766 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
7626716 ATTCTTTTGC
**
7626726 TTTTTCTTTTTCTCTTTT
1 TTTTTCTTTTTCTCTCAT
*
7626744 TTTTTCTTTTTTTCTCAT
1 TTTTTCTTTTTCTCTCAT
7626762 TTTTT
1 TTTTT
7626767 TATCCATCAA
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:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTCTTTTTCTCTCAT
Found at i:7627146 original size:8 final size:8
Alignment explanation
Indices: 7627133--7627172 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
7627123 TTCACTTTTC
7627133 TTTTCTTT
1 TTTTCTTT
7627141 TTTTCTTT
1 TTTTCTTT
7627149 TTTT-TTT
1 TTTTCTTT
*
7627156 TTTGCTTTT
1 TTTTC-TTT
7627165 TTTTCTTT
1 TTTTCTTT
7627173 AAGACCTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 6 0.21
8 15 0.54
9 7 0.25
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.88
Consensus pattern (8 bp):
TTTTCTTT
Found at i:7627146 original size:13 final size:12
Alignment explanation
Indices: 7627128--7627172 Score: 56
Period size: 12 Copynumber: 3.7 Consensus size: 12
7627118 TGGCATTCAC
7627128 TTTTCTTTTCTTT
1 TTTTCTTTT-TTT
7627141 TTTTCTTTTTTT
1 TTTTCTTTTTTT
*
7627153 TTTT-TTGCTTTT
1 TTTTCTT-TTTTT
7627165 TTTTCTTT
1 TTTTCTTT
7627173 AAGACCTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 2 0.07
12 15 0.54
13 11 0.39
ACGTcount: A:0.00, C:0.11, G:0.02, T:0.87
Consensus pattern (12 bp):
TTTTCTTTTTTT
Found at i:7627155 original size:14 final size:14
Alignment explanation
Indices: 7627128--7627168 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
7627118 TGGCATTCAC
*
7627128 TTTTC-TTTTCTTT
1 TTTTCTTTTTTTTT
7627141 TTTTCTTTTTTTTT
1 TTTTCTTTTTTTTT
7627155 TTTTGCTTTTTTTT
1 TTTT-CTTTTTTTT
7627169 CTTTAAGACC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 5 0.20
14 11 0.44
15 9 0.36
ACGTcount: A:0.00, C:0.10, G:0.02, T:0.88
Consensus pattern (14 bp):
TTTTCTTTTTTTTT
Found at i:7627567 original size:16 final size:15
Alignment explanation
Indices: 7627537--7627570 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
7627527 TCGGGCCTAA
*
7627537 TTAGGCCCATTTTGG
1 TTAGGCCCATCTTGG
7627552 TTAGGTCCCATCTTGG
1 TTAGG-CCCATCTTGG
7627568 TTA
1 TTA
7627571 ATGCCCATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.15, C:0.21, G:0.24, T:0.41
Consensus pattern (15 bp):
TTAGGCCCATCTTGG
Found at i:7627615 original size:3 final size:3
Alignment explanation
Indices: 7627607--7627639 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
7627597 AATTAGATGC
*
7627607 TAT TAT TAT TAT TAT TAT TAT TA- TAT TTT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
7627640 TTTTGTTTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:7627665 original size:17 final size:17
Alignment explanation
Indices: 7627649--7627681 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7627639 TTTTTGTTTC
7627649 CTTTT-CTGTTCTTTTT
1 CTTTTGCTGTTCTTTTT
*
7627665 CTTTTGCTTTTCTTTTT
1 CTTTTGCTGTTCTTTTT
7627682 TATTCAACCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.00, C:0.18, G:0.06, T:0.76
Consensus pattern (17 bp):
CTTTTGCTGTTCTTTTT
Found at i:7628545 original size:5 final size:5
Alignment explanation
Indices: 7628532--7628591 Score: 77
Period size: 5 Copynumber: 11.8 Consensus size: 5
7628522 AGTTTTTCTT
**
7628532 TTTTCA TTTTA TTTTTA TTTT- TTGAA TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTT-A TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
7628583 TTTTA TTTT
1 TTTTA TTTT
7628592 TAACCTTTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
4 2 0.04
5 37 0.77
6 9 0.19
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:7638789 original size:18 final size:20
Alignment explanation
Indices: 7638766--7638816 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 20
7638756 CTTGATTCAA
7638766 AAAAAATAAAA-AAA-AAAC
1 AAAAAATAAAATAAATAAAC
*
7638784 AAAAAATAAAGATAAATAAAT
1 AAAAAATAAA-ATAAATAAAC
7638805 AAATAAATAAAA
1 AAA-AAATAAAA
7638817 CTCGAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 10 0.36
19 1 0.04
20 3 0.11
21 7 0.25
22 7 0.25
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.14
Consensus pattern (20 bp):
AAAAAATAAAATAAATAAAC
Found at i:7639322 original size:9 final size:9
Alignment explanation
Indices: 7639308--7639333 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
7639298 ATGCTTCTAA
7639308 AAAAAAAAG
1 AAAAAAAAG
7639317 AAAAAAAAG
1 AAAAAAAAG
7639326 AAAAAAAA
1 AAAAAAAA
7639334 ATGATTTCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:7639986 original size:118 final size:118
Alignment explanation
Indices: 7639706--7640040 Score: 345
Period size: 117 Copynumber: 2.8 Consensus size: 118
7639696 ATTATCCACC
* * * *
7639706 CACTTGATCTTGGCTCAATCTAGATTATTTTTTATGATTTGTGGTTTTACCCTGATCATTTATTT
1 CACTTGATCTTGGTTCAATCTAGATCATTTTTTATGATTCGTGATTTTACCCTGATCATTTATTT
* * ** * * * * *
7639771 TTTATCTTGACTCGGTCCTGGTCACCTTATTTGACCCGTGGTTTCGTGCCTGT
66 TTAACCTCAACTCGATCCTAGTCACCTTATTTGACCCGTGATTTCATGCCCGT
* * * * * *
7639824 CACTT-ATTTTGGTTCAATCTAGATCATTTCTTATGATTCATGATTTCATCTTGATCATTTATTT
1 CACTTGATCTTGGTTCAATCTAGATCATTTTTTATGATTCGTGATTTTACCCTGATCATTTATTT
* * ** *
7639888 TTAACCTCAACTCGATCTTAGTCA-TTTCATTTGACTTGTGATTTTAT-CCCGAT
66 TTAACCTCAACTCGATCCTAGTCACCTT-ATTTGACCCGTGATTTCATGCCCG-T
*
7639941 CACTTGATCTTGGTTCAATCTAGATCATTTTTTATGATTCGTGATTTTACCCTAATCATTTATTT
1 CACTTGATCTTGGTTCAATCTAGATCATTTTTTATGATTCGTGATTTTACCCTGATCATTTATTT
* * * * *
7640006 TCAACTTCAACTTGGTCCTGGT-AGCCTTATTTGAC
66 TTAACCTCAACTCGATCCTAGTCA-CCTTATTTGAC
7640041 TCATAGTTTC
Statistics
Matches: 174, Mismatches: 38, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
116 5 0.03
117 87 0.50
118 80 0.46
119 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.47
Consensus pattern (118 bp):
CACTTGATCTTGGTTCAATCTAGATCATTTTTTATGATTCGTGATTTTACCCTGATCATTTATTT
TTAACCTCAACTCGATCCTAGTCACCTTATTTGACCCGTGATTTCATGCCCGT
Found at i:7640041 original size:118 final size:118
Alignment explanation
Indices: 7639706--7640097 Score: 356
Period size: 118 Copynumber: 3.3 Consensus size: 118
7639696 ATTATCCACC
* * * *
7639706 CACTTGATCTTGGCTCAATCTAGATTATTTTTTATGATTTGTGGTTTTACCCTGATCATTTATTT
1 CACTTGATCTTGGTTCAATCTAGATCATTTTTTATGATTCGTGATTTTACCCTGATCATTTA-TT
* * * * * *
7639771 TTTATCTT-GACTCGGTCCTGGTCA-CCTTATTTGACCCGTGGTTTCGTGCCTGT
65 TTTAACTTCAACTCGGTCCTGGT-AGCCTTATTTGACTCGTGATTTCATGCCCGT
* * * * * *
7639824 CACTT-ATTTTGGTTCAATCTAGATCATTTCTTATGATTCATGATTTCATCTTGATCATTTATTT
1 CACTTGATCTTGGTTCAATCTAGATCATTTTTTATGATTCGTGATTTTACCCTGATCATTTATTT
* * * * *
7639888 TTAACCTCAACTCGAT-CT--TAGTCATTTCATTTGACTTGTGATTTTAT-CCCGAT
66 TTAACTTCAACTCGGTCCTGGTAG-C-CTT-ATTTGACTCGTGATTTCATGCCCG-T
*
7639941 CACTTGATCTTGGTTCAATCTAGATCATTTTTTATGATTCGTGATTTTACCCTAATCATTTATTT
1 CACTTGATCTTGGTTCAATCTAGATCATTTTTTATGATTCGTGATTTTACCCTGATCATTTATTT
* * * *
7640006 TCAACTTCAACTTGGTCCTGGTAGCCTTATTTGACTCAT-AGTTTCAT-CTTAC-T
66 TTAACTTCAACTCGGTCCTGGTAGCCTTATTTGACTCGTGA-TTTCATGC--CCGT
* * *
7640059 CACTTGATCTTGACTT-AGTCCAGATCATTTTTTATGATT
1 CACTTGATCTTG-GTTCAATCTAGATCATTTTTTATGATT
7640098 TATGGTTTCA
Statistics
Matches: 220, Mismatches: 40, Indels: 28
0.76 0.14 0.10
Matches are distributed among these distances:
113 1 0.00
114 1 0.00
115 1 0.00
116 15 0.07
117 73 0.33
118 118 0.54
119 6 0.03
120 2 0.01
121 3 0.01
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (118 bp):
CACTTGATCTTGGTTCAATCTAGATCATTTTTTATGATTCGTGATTTTACCCTGATCATTTATTT
TTAACTTCAACTCGGTCCTGGTAGCCTTATTTGACTCGTGATTTCATGCCCGT
Found at i:7640161 original size:118 final size:116
Alignment explanation
Indices: 7639940--7640172 Score: 258
Period size: 118 Copynumber: 2.0 Consensus size: 116
7639930 TTTATCCCGA
* * * *
7639940 TCACTTGATCTTGGTTCAATCTAGATCATTTTTTATGATTCGTGATTTTACCCTAATCATTTATT
1 TCACTTGATCTTGCTTCAATCCAGATCATTTTTTATGATTCATGATTTCACCCTAATCATTTATT
* * *
7640005 TTCAACTTCAACTTGGTCCTGGTAGCCTTATTTGACTCATAGTTTCATCTTAC
66 TTCAACTTCAACTTAGTCCTGGTA-CCTTATTTAACTCAT-GTTTAATCTTAC
* * * *
7640058 TCACTTGATCTTGACTT-AGTCCAGATCATTTTTTATGATTTATGGTTTCA-TCTCAATCATTTA
1 TCACTTGATCTTG-CTTCAATCCAGATCATTTTTTATGATTCATGATTTCACCCT-AATCATTTA
* *
7640121 TTTTTAACCTT-GACTTAGTCCTGGT-CACTTCATTTAACTCATGTTTAATCTT
64 TTTTCAA-CTTCAACTTAGTCCTGGTAC-CTT-ATTTAACTCATGTTTAATCTT
7640173 GGTTACCCTA
Statistics
Matches: 97, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
116 1 0.01
117 14 0.14
118 77 0.79
119 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (116 bp):
TCACTTGATCTTGCTTCAATCCAGATCATTTTTTATGATTCATGATTTCACCCTAATCATTTATT
TTCAACTTCAACTTAGTCCTGGTACCTTATTTAACTCATGTTTAATCTTAC
Found at i:7640394 original size:10 final size:10
Alignment explanation
Indices: 7640381--7640412 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
7640371 CAATTAGATG
7640381 TTTTTATTAT
1 TTTTTATTAT
7640391 TTTTTATTA-
1 TTTTTATTAT
7640400 -TTTTATTAT
1 TTTTTATTAT
7640409 TTTT
1 TTTT
7640413 CATTTCCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
8 8 0.40
10 12 0.60
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTATTAT
Done.