Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, 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: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 94 of 120
Found at i:12615534 original size:20 final size:21
Alignment explanation
Indices: 12615509--12615548 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
12615499 AACAAAATTC
12615509 TAAAATAATAT-TTTTAAAAT
1 TAAAATAATATCTTTTAAAAT
* *
12615529 TAAAATGATTTCTTTTAAAA
1 TAAAATAATATCTTTTAAAA
12615549 ACAAAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (21 bp):
TAAAATAATATCTTTTAAAAT
Found at i:12615555 original size:27 final size:26
Alignment explanation
Indices: 12615524--12615574 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
12615514 TAATATTTTT
* *
12615524 AAAATTAAAATGATTTCTTTTAAAAAC
1 AAAATTAAAAT-AATTATTTTAAAAAC
*
12615551 AAAATTACAATAATTATTTTAAAA
1 AAAATTAAAATAATTATTTTAAAA
12615575 TTCCTTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 11 0.52
27 10 0.48
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (26 bp):
AAAATTAAAATAATTATTTTAAAAAC
Found at i:12615905 original size:37 final size:37
Alignment explanation
Indices: 12615855--12615925 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
12615845 TTGAAATTAG
* *
12615855 TTAACCAATTGTTTTCGATATATTCATAGTTAGGTAT
1 TTAACCAATTGTTTTCAATATATTCATAATTAGGTAT
12615892 TTAACCAATTGTTTTCAATATATTCATAATTAGG
1 TTAACCAATTGTTTTCAATATATTCATAATTAGG
12615926 GACCATTATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.45
Consensus pattern (37 bp):
TTAACCAATTGTTTTCAATATATTCATAATTAGGTAT
Found at i:12620894 original size:6 final size:6
Alignment explanation
Indices: 12620876--12620905 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
12620866 GAATTCCCCT
*
12620876 CCTCCC CCACCC CCTCCC CCTCCC CCTCCC
1 CCTCCC CCTCCC CCTCCC CCTCCC CCTCCC
12620906 TCATAAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.03, C:0.83, G:0.00, T:0.13
Consensus pattern (6 bp):
CCTCCC
Found at i:12623436 original size:7 final size:7
Alignment explanation
Indices: 12623424--12623453 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
12623414 TTCATATACG
12623424 AAGTAAA
1 AAGTAAA
*
12623431 AAGTAAC
1 AAGTAAA
12623438 AAGTAAA
1 AAGTAAA
12623445 AAGTAAA
1 AAGTAAA
12623452 AA
1 AA
12623454 TATATATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.70, C:0.03, G:0.13, T:0.13
Consensus pattern (7 bp):
AAGTAAA
Found at i:12623561 original size:10 final size:10
Alignment explanation
Indices: 12623546--12623572 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
12623536 AACCGAAATC
12623546 GTGTGTGACT
1 GTGTGTGACT
12623556 GTGTGTGACT
1 GTGTGTGACT
12623566 GTGTGTG
1 GTGTGTG
12623573 GTGGACGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.07, C:0.07, G:0.44, T:0.41
Consensus pattern (10 bp):
GTGTGTGACT
Found at i:12625532 original size:20 final size:20
Alignment explanation
Indices: 12625507--12625554 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
12625497 ATATATATTA
12625507 TATTATTTAATAA-ATAAAAT
1 TATTATTTAATAATAT-AAAT
*
12625527 TATTATTAAATAATATAAAT
1 TATTATTTAATAATATAAAT
12625547 TATTATTT
1 TATTATTT
12625555 TATATTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TATTATTTAATAATATAAAT
Found at i:12625557 original size:25 final size:22
Alignment explanation
Indices: 12625501--12625554 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 22
12625491 ATGTATATAT
*
12625501 ATATTATATTATTTAATAAATAA
1 ATATTAT-TTATTAAATAAATAA
12625524 A-ATTA-TTATTAAATAATATAA
1 ATATTATTTATTAAATAA-ATAA
12625545 ATTATTATTT
1 A-TATTATTT
12625555 TATATTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 10 0.38
21 5 0.19
22 4 0.15
23 5 0.19
24 2 0.08
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATATTATTTATTAAATAAATAA
Found at i:12625559 original size:50 final size:52
Alignment explanation
Indices: 12625497--12625607 Score: 140
Period size: 50 Copynumber: 2.2 Consensus size: 52
12625487 TTCTATGTAT
*
12625497 ATATATATTATATTATTTAATAAATAA-A-ATTATTATTAAATAATATAAATT-
1 ATATATTTTATATTATTTAA-AAATAATATATTATTATTAAA-AATATAAATTA
* * *
12625548 AT-TATTTTATATTATTTAAAATTAATATATTTTTATTAAAAATATATATTA
1 ATATATTTTATATTATTTAAAAATAATATATTATTATTAAAAATATAAATTA
12625599 ATATATTTT
1 ATATATTTT
12625608 TATAAAAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
49 5 0.10
50 26 0.50
51 15 0.29
52 6 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (52 bp):
ATATATTTTATATTATTTAAAAATAATATATTATTATTAAAAATATAAATTA
Found at i:12627251 original size:22 final size:21
Alignment explanation
Indices: 12627220--12627260 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
12627210 GATATTTTAT
*
12627220 TAAATTAAAATATTTAAAAAA
1 TAAATTAAAATAATTAAAAAA
12627241 TAAATATAAAATAATTAAAA
1 TAAAT-TAAAATAATTAAAA
12627261 TTTAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
TAAATTAAAATAATTAAAAAA
Found at i:12627266 original size:22 final size:21
Alignment explanation
Indices: 12627218--12627266 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
12627208 TTGATATTTT
*
12627218 ATTAAATTAAAATATTTAAAA
1 ATTAAATTAAAATAATTAAAA
*
12627239 AATAAATATAAAATAATTAAAA
1 ATTAAAT-TAAAATAATTAAAA
*
12627261 TTTAAA
1 ATTAAA
12627267 AATATATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
ATTAAATTAAAATAATTAAAA
Found at i:12627268 original size:29 final size:30
Alignment explanation
Indices: 12627222--12627291 Score: 99
Period size: 30 Copynumber: 2.3 Consensus size: 30
12627212 TATTTTATTA
12627222 AATTAAAATATTTAAAAA-ATAAATATAAAAT
1 AATT-AAA-ATTTAAAAATATAAATATAAAAT
*
12627253 AATTAAAATTTAAAAATATATATATAAAAT
1 AATTAAAATTTAAAAATATAAATATAAAAT
12627283 AA-TAAAATT
1 AATTAAAATT
12627292 ATTTTATTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
29 16 0.43
30 17 0.46
31 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (30 bp):
AATTAAAATTTAAAAATATAAATATAAAAT
Found at i:12628361 original size:2 final size:2
Alignment explanation
Indices: 12628354--12628386 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
12628344 GTCAGGAGAC
12628354 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
12628387 AATGAGCAGC
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:12629469 original size:10 final size:10
Alignment explanation
Indices: 12629454--12629504 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
12629444 ATATATGAAA
*
12629454 TTAATTTATT
1 TTAATTAATT
12629464 TTAATTAATT
1 TTAATTAATT
12629474 GATTAATT-A-T
1 --TTAATTAATT
*
12629484 TAAATTAATT
1 TTAATTAATT
12629494 TTAATTAATT
1 TTAATTAATT
12629504 T
1 T
12629505 AAAAAAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
8 5 0.15
9 1 0.03
10 21 0.62
11 1 0.03
12 6 0.18
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (10 bp):
TTAATTAATT
Found at i:12629499 original size:18 final size:18
Alignment explanation
Indices: 12629441--12629500 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
12629431 TTTAATTGAA
*
12629441 TTAATATATGAAATTAA-T
1 TTAAT-TATTAAATTAATT
12629459 TT-ATT-TT-AATTAATT
1 TTAATTATTAAATTAATT
12629474 GATTAATTATTAAATTAATT
1 --TTAATTATTAAATTAATT
12629494 TTAATTA
1 TTAATTA
12629501 ATTTAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
14 6 0.17
15 2 0.06
16 1 0.03
17 4 0.11
18 12 0.34
19 2 0.06
20 8 0.23
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
TTAATTATTAAATTAATT
Found at i:12629502 original size:34 final size:35
Alignment explanation
Indices: 12629422--12629503 Score: 100
Period size: 34 Copynumber: 2.4 Consensus size: 35
12629412 AGTACGTTCA
12629422 TAATTTAATT--TTAATTGAATTAATATATGAAAT
1 TAATTTAATTAATTAATTGAATTAATATATGAAAT
* *
12629455 TAATTTATTTTAATTAATTG-ATTAAT-TATTAAAT
1 TAATTTA-ATTAATTAATTGAATTAATATATGAAAT
12629489 TAATTTTAATTAATT
1 TAA-TTTAATTAATT
12629504 TAAAAAAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
33 7 0.17
34 18 0.43
35 10 0.24
36 7 0.17
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (35 bp):
TAATTTAATTAATTAATTGAATTAATATATGAAAT
Found at i:12629582 original size:22 final size:22
Alignment explanation
Indices: 12629537--12629580 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
12629527 GTAACTTTTG
* *
12629537 ATTAATTTAATTTTTGAATCAA
1 ATTAATTAAAATTTTGAATCAA
12629559 ATTAATTAAAATTTT-AATCAA
1 ATTAATTAAAATTTTGAATCAA
12629580 A
1 A
12629581 ATATAACAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (22 bp):
ATTAATTAAAATTTTGAATCAA
Found at i:12632461 original size:16 final size:17
Alignment explanation
Indices: 12632428--12632465 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
12632418 TTAGTGATGG
**
12632428 AAAAATTTGTCAGTAAA
1 AAAAATTTGTCAAAAAA
12632445 AAAAATTTG-CAAAAAA
1 AAAAATTTGTCAAAAAA
12632461 AAAAA
1 AAAAA
12632466 ACTTTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.66, C:0.05, G:0.08, T:0.21
Consensus pattern (17 bp):
AAAAATTTGTCAAAAAA
Found at i:12635701 original size:245 final size:249
Alignment explanation
Indices: 12635295--12635791 Score: 759
Period size: 245 Copynumber: 2.0 Consensus size: 249
12635285 TATTTTGCAT
* *
12635295 TGTGATAATGGTTGTGTATTTTGATTATTGATGAACAATAGATGTTAAATAATATATTGCGATAA
1 TGTGATAATGGTTGTGTATTGTGATTATTGATGAACAATAGATGTTAAATAATATATTGCGACAA
* * * *
12635360 CTATTTATTTGTAAAAGATTTTTACGTTTTATCTAGATAAGATAACATTTGTGGAAGGTGACAAT
66 CTATTTATTTGTAAAAGAGTTTTACGTATTATCTAGATAAGATAACATTTGTGAAAGGTGAAAAT
* *
12635425 TATTGCATATTTTCGTTTGTGATTCTATTTGTGTATTGTGATTGTTGAT-AAAGTATACAGCGAA
131 TACTGCATAATTTCGTTTGTGATTCTATTTGTGTATTGTGATTGTTGATGAAAGTATACAGCGAA
* * *
12635489 GTAATTGAAAGCAAAGATATTGTAAGAGAT-CTGTATTGAACTAGATAGTTTGG
196 GTAATTGAAAACAAAGATATTGTAAGAAATCCCGTATTGAACTAGATAGTTTGG
* * * * *
12635542 TGTGATAATGGTTGTGTATTGTGATTATTGATGAACTATATATGTT-AATAGTATATTGTGGCAA
1 TGTGATAATGGTTGTGTATTGTGATTATTGATGAACAATAGATGTTAAATAATATATTGCGACAA
* * * *
12635606 CTATTTATTTGTGAAAG-GTTTTATGTATTATTTAGATGAGATAACATTTGTGAAAGGTGAAAAT
66 CTATTTATTTGTAAAAGAGTTTTACGTATTATCTAGATAAGATAACATTTGTGAAAGGTGAAAAT
* * *
12635670 TACTGCATAATTTCGTTTGTGATTTTATTTGTGTATTGTGATTGTTGATGAAAGTATATAGTGAA
131 TACTGCATAATTTCGTTTGTGATTCTATTTGTGTATTGTGATTGTTGATGAAAGTATACAGCGAA
12635735 GTAATTGAAAACAAAGATATTGTAAGAAATCCCGTATTGAACTAGATAGTTTGG
196 GTAATTGAAAACAAAGATATTGTAAGAAATCCCGTATTGAACTAGATAGTTTGG
12635789 TGT
1 TGT
12635792 ATACTAAAAT
Statistics
Matches: 225, Mismatches: 23, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
245 86 0.38
246 71 0.32
247 68 0.30
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.41
Consensus pattern (249 bp):
TGTGATAATGGTTGTGTATTGTGATTATTGATGAACAATAGATGTTAAATAATATATTGCGACAA
CTATTTATTTGTAAAAGAGTTTTACGTATTATCTAGATAAGATAACATTTGTGAAAGGTGAAAAT
TACTGCATAATTTCGTTTGTGATTCTATTTGTGTATTGTGATTGTTGATGAAAGTATACAGCGAA
GTAATTGAAAACAAAGATATTGTAAGAAATCCCGTATTGAACTAGATAGTTTGG
Found at i:12637933 original size:17 final size:17
Alignment explanation
Indices: 12637911--12637960 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 17
12637901 AAGAAAAATA
12637911 AAAAAAATTATTTTTAT
1 AAAAAAATTATTTTTAT
*
12637928 -AAAAAA-TATTTTCAT
1 AAAAAAATTATTTTTAT
* *
12637943 AAAATAATTATATTTAT
1 AAAAAAATTATTTTTAT
12637960 A
1 A
12637961 TTTTTATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
15 8 0.30
16 11 0.41
17 8 0.30
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAAAAATTATTTTTAT
Found at i:12637937 original size:15 final size:16
Alignment explanation
Indices: 12637912--12637960 Score: 64
Period size: 15 Copynumber: 3.1 Consensus size: 16
12637902 AGAAAAATAA
12637912 AAAAAATTATTTTTAT
1 AAAAAATTATTTTTAT
*
12637928 AAAAAA-TATTTTCAT
1 AAAAAATTATTTTTAT
*
12637943 AAAATAATTATATTTAT
1 AAAA-AATTATTTTTAT
12637960 A
1 A
12637961 TTTTTATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 12 0.43
16 8 0.29
17 8 0.29
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
AAAAAATTATTTTTAT
Found at i:12647050 original size:28 final size:28
Alignment explanation
Indices: 12647018--12647072 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
12647008 TTACATTTAA
12647018 CTATTTTACAATCTTCAAGTAATTCAAT
1 CTATTTTACAATCTTCAAGTAATTCAAT
12647046 CTATTTTACAATCTTCAAGTAATTCAA
1 CTATTTTACAATCTTCAAGTAATTCAA
12647073 CAAGATTCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.18, G:0.04, T:0.42
Consensus pattern (28 bp):
CTATTTTACAATCTTCAAGTAATTCAAT
Found at i:12650436 original size:25 final size:24
Alignment explanation
Indices: 12650407--12650477 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 24
12650397 TTAATATAAC
12650407 TATTAAAATATTAAAAGTTATTTAT
1 TATTAAAATATTAAAA-TTATTTAT
*
12650432 TATTAAAATATATTGAAATTATTTAT
1 TATT-AAA-ATATTAAAATTATTTAT
*
12650458 TATTAAAATTATTAATATTA
1 TATTAAAA-TATTAAAATTA
12650478 AAAAATAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
24 1 0.03
25 16 0.40
26 15 0.38
27 8 0.20
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (24 bp):
TATTAAAATATTAAAATTATTTAT
Found at i:12650445 original size:10 final size:9
Alignment explanation
Indices: 12650407--12650477 Score: 53
Period size: 9 Copynumber: 8.2 Consensus size: 9
12650397 TTAATATAAC
12650407 TATTAAAA-
1 TATTAAAAT
12650415 TATTAAAAGT
1 TATTAAAA-T
*
12650425 TATT--TAT
1 TATTAAAAT
12650432 TATTAAAAT
1 TATTAAAAT
*
12650441 ATATTGAAAT
1 -TATTAAAAT
*
12650451 TATT--TAT
1 TATTAAAAT
12650458 TATTAAAAT
1 TATTAAAAT
*
12650467 TATTAATAT
1 TATTAAAAT
12650476 TA
1 TA
12650478 AAAAATAATT
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
7 11 0.22
8 9 0.18
9 18 0.36
10 12 0.24
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (9 bp):
TATTAAAAT
Found at i:12650460 original size:26 final size:27
Alignment explanation
Indices: 12650407--12650472 Score: 95
Period size: 26 Copynumber: 2.6 Consensus size: 27
12650397 TTAATATAAC
12650407 TATT-AAA-ATATTAAAAGTTATTTAT
1 TATTAAAATATATTAAAAGTTATTTAT
*
12650432 TATTAAAATATATTGAAA-TTATTTAT
1 TATTAAAATATATTAAAAGTTATTTAT
12650458 TATTAAAAT-TATTAA
1 TATTAAAATATATTAA
12650473 TATTAAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
25 9 0.24
26 20 0.54
27 8 0.22
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (27 bp):
TATTAAAATATATTAAAAGTTATTTAT
Found at i:12650478 original size:15 final size:16
Alignment explanation
Indices: 12650441--12650537 Score: 61
Period size: 16 Copynumber: 5.6 Consensus size: 16
12650431 TTATTAAAAT
*
12650441 ATATTGAAATTATTTA
1 ATATTAAAATTATTTA
*
12650457 TTATTAAAATTA-TTA
1 ATATTAAAATTATTTA
* *
12650472 ATATTAAAAAATAATTA
1 ATATT-AAAATTATTTA
*
12650489 TATTTTAATAATAATATTTA
1 -ATATTAA-AAT--TATTTA
12650509 ATATTAAAATATTATGTTA
1 ATATT-AAA-ATTAT-TTA
*
12650528 ATATAAAAAT
1 ATATTAAAAT
12650538 ACTTAAAATA
Statistics
Matches: 63, Mismatches: 9, Indels: 17
0.71 0.10 0.19
Matches are distributed among these distances:
15 7 0.11
16 16 0.25
17 7 0.11
18 12 0.19
19 12 0.19
20 9 0.14
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (16 bp):
ATATTAAAATTATTTA
Found at i:12650584 original size:15 final size:15
Alignment explanation
Indices: 12650566--12650700 Score: 78
Period size: 15 Copynumber: 8.6 Consensus size: 15
12650556 TATTATTCTT
12650566 TATATTATTTATTAATA
1 TATATTATTTATT-A-A
*
12650583 TAATATTATTTATGAA
1 T-ATATTATTTATTAA
*
12650599 TATATTATAATATT-A
1 TATATTAT-TTATTAA
* * **
12650614 TTTATGAACATATT-A
1 TATAT-TATTTATTAA
12650629 TAATATTATTTATTAA
1 T-ATATTATTTATTAA
* *
12650645 TATATTATTTAATAG
1 TATATTATTTATTAA
*
12650660 TATATT-TGTATTTATA
1 TATATTATTTA-TTA-A
12650676 TAATATTATTTATTAA
1 T-ATATTATTTATTAA
*
12650692 TATAATATT
1 TATATTATT
12650701 ATTTATAAGT
Statistics
Matches: 92, Mismatches: 17, Indels: 20
0.71 0.13 0.16
Matches are distributed among these distances:
14 3 0.03
15 51 0.55
16 14 0.15
17 10 0.11
18 14 0.15
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (15 bp):
TATATTATTTATTAA
Found at i:12650590 original size:18 final size:18
Alignment explanation
Indices: 12650567--12650706 Score: 110
Period size: 18 Copynumber: 7.6 Consensus size: 18
12650557 ATTATTCTTT
12650567 ATATTATTTATTAATATA
1 ATATTATTTATTAATATA
12650585 ATATTATTTATGAATATATTATA
1 ATATTATTTAT---TA-A-TATA
* *
12650608 ATATTATTTATGAACATA
1 ATATTATTTATTAATATA
* * *
12650626 TTATAATATTATTTAT-TA
1 ATATTAT-TTATTAATATA
12650644 ATA-TA-TTATTTAATAGT-
1 ATATTATTTA-TTAATA-TA
* *
12650661 ATATT-TGTATTTATATA
1 ATATTATTTATTAATATA
12650678 ATATTATTTATTAATATA
1 ATATTATTTATTAATATA
12650696 ATATTATTTAT
1 ATATTATTTAT
12650707 AAGTAAAATT
Statistics
Matches: 95, Mismatches: 14, Indels: 26
0.70 0.10 0.19
Matches are distributed among these distances:
15 3 0.03
16 5 0.05
17 14 0.15
18 48 0.51
19 6 0.06
20 1 0.01
21 2 0.02
22 1 0.01
23 15 0.16
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (18 bp):
ATATTATTTATTAATATA
Found at i:12650591 original size:23 final size:23
Alignment explanation
Indices: 12650570--12650699 Score: 115
Period size: 23 Copynumber: 5.7 Consensus size: 23
12650560 ATTCTTTATA
*
12650570 TTATTTAT-TAATATAATATTAT
1 TTATTAATATAATATAATATTAT
* *
12650592 TTATGAATATATTATAATATTAT
1 TTATTAATATAATATAATATTAT
* * *
12650615 TTATGAACATATTATAATATTAT
1 TTATTAATATAATATAATATTAT
*
12650638 TTATTAATATATTATTTAATAGTATAT
1 TTATTAATATA--ATATAATA-T-TAT
* *
12650665 TT-GT-AT-TTATATAATATTAT
1 TTATTAATATAATATAATATTAT
12650685 TTATTAATATAATAT
1 TTATTAATATAATAT
12650700 TATTTATAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
20 5 0.06
21 2 0.02
22 15 0.17
23 49 0.56
24 1 0.01
25 8 0.09
26 2 0.02
27 5 0.06
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.55
Consensus pattern (23 bp):
TTATTAATATAATATAATATTAT
Found at i:12658454 original size:28 final size:29
Alignment explanation
Indices: 12658423--12658478 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
12658413 TAGTAATAAA
12658423 AGTTATTATAATTGAGATT-AAAAAAAAT
1 AGTTATTATAATTGAGATTGAAAAAAAAT
* * *
12658451 AGTTATTGTAGTTGTGATTGAAAAAAAA
1 AGTTATTATAATTGAGATTGAAAAAAAA
12658479 AATTTAATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (29 bp):
AGTTATTATAATTGAGATTGAAAAAAAAT
Found at i:12666600 original size:21 final size:21
Alignment explanation
Indices: 12666574--12666619 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
12666564 CGTGTATTTT
*
12666574 TAAAATAT-AGATTTTA-ATA
1 TAAAAAATCAGATTTTAGATA
*
12666593 TAAAAAATCAGATTTTAGATT
1 TAAAAAATCAGATTTTAGATA
12666614 TAAAAA
1 TAAAAA
12666620 TGCGGTTACG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 7 0.30
20 8 0.35
21 8 0.35
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (21 bp):
TAAAAAATCAGATTTTAGATA
Found at i:12668811 original size:33 final size:33
Alignment explanation
Indices: 12668774--12668849 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 33
12668764 TTGAATTATG
*
12668774 CAAAAAATGAGGTAATTTGGA-TGAATCACAAAT
1 CAAAAAATGAGATAATTTGGATTGAATCA-AAAT
* * * *
12668807 CAAAAAATTAAATGATTTGGATTGAATCAAAGT
1 CAAAAAATGAGATAATTTGGATTGAATCAAAAT
12668840 -AAAAAATGAG
1 CAAAAAATGAG
12668850 TGACTGAGAT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
32 8 0.23
33 20 0.57
34 7 0.20
ACGTcount: A:0.51, C:0.07, G:0.17, T:0.25
Consensus pattern (33 bp):
CAAAAAATGAGATAATTTGGATTGAATCAAAAT
Found at i:12668888 original size:34 final size:34
Alignment explanation
Indices: 12668795--12668894 Score: 100
Period size: 34 Copynumber: 3.0 Consensus size: 34
12668785 GTAATTTGGA
* * * *
12668795 TGAATCACAAATCAAAAAATTAAATGATTTG-GAT
1 TGAATCACAAGTTAAAAAAATAAATGA-CTGAGAT
* *
12668829 TGAATCA-AAG-T-AAAAAATGAGTGACTGAGAT
1 TGAATCACAAGTTAAAAAAATAAATGACTGAGAT
*
12668860 TGAATCACAAGTTAAAAAAATAAATGACTTAGAT
1 TGAATCACAAGTTAAAAAAATAAATGACTGAGAT
12668894 T
1 T
12668895 AAAACAATGT
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
30 2 0.04
31 20 0.38
32 3 0.06
33 3 0.06
34 25 0.47
ACGTcount: A:0.50, C:0.08, G:0.15, T:0.27
Consensus pattern (34 bp):
TGAATCACAAGTTAAAAAAATAAATGACTGAGAT
Found at i:12668910 original size:65 final size:65
Alignment explanation
Indices: 12668795--12668929 Score: 153
Period size: 65 Copynumber: 2.1 Consensus size: 65
12668785 GTAATTTGGA
* * * * * * * * *
12668795 TGAATCACAAATCAAAAAATTAAATGATTTGGATTGAATCAAAGTAAAAAATGAGTGACTGAGAT
1 TGAATCACAAATCAAAAAAATAAATGACTTAGATTAAAACAAAGTAAAAAATAAATGACTAAGAC
* * * *
12668860 TGAATCACAAGTTAAAAAAATAAATGACTTAGATTAAAACAATGTCAAAAATAAATGACTAAGAC
1 TGAATCACAAATCAAAAAAATAAATGACTTAGATTAAAACAAAGTAAAAAATAAATGACTAAGAC
12668925 TGAAT
1 TGAAT
12668930 TGTGAAGTCA
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
65 57 1.00
ACGTcount: A:0.52, C:0.09, G:0.14, T:0.25
Consensus pattern (65 bp):
TGAATCACAAATCAAAAAAATAAATGACTTAGATTAAAACAAAGTAAAAAATAAATGACTAAGAC
Found at i:12669025 original size:34 final size:32
Alignment explanation
Indices: 12668906--12669028 Score: 99
Period size: 34 Copynumber: 3.7 Consensus size: 32
12668896 AAACAATGTC
* *
12668906 AAAAATAAATGAC-TAAGACTGAATTGTGAAGTCA
1 AAAAATAAATGACTTGA-ACTGAA--CTGAAGTCA
* *
12668940 GAAAAATAAATGATTTGGAA-TGAGCTGAAGT-A
1 -AAAAATAAATGACTT-GAACTGAACTGAAGTCA
* * *
12668972 AAAAATAAGTGACTAGAACTGAACTTTAAGTCA
1 AAAAATAAATGACTTGAACTGAAC-TGAAGTCA
12669005 AAAATATAAATGACTTGAACTGAA
1 AAAA-ATAAATGACTTGAACTGAA
12669029 TCGAGGTAAA
Statistics
Matches: 71, Mismatches: 11, Indels: 13
0.75 0.12 0.14
Matches are distributed among these distances:
30 3 0.04
31 16 0.23
32 6 0.08
33 11 0.15
34 17 0.24
35 15 0.21
36 2 0.03
37 1 0.01
ACGTcount: A:0.50, C:0.08, G:0.18, T:0.24
Consensus pattern (32 bp):
AAAAATAAATGACTTGAACTGAACTGAAGTCA
Found at i:12669040 original size:32 final size:32
Alignment explanation
Indices: 12668906--12669042 Score: 93
Period size: 31 Copynumber: 4.2 Consensus size: 32
12668896 AAACAATGTC
* *
12668906 AAAAATAAATGACTA-AGACTGAATTGTGAAGTCA
1 AAAAATAAATGACTAGA-ACTGAACT-CGAAGT-A
* * *
12668940 GAAAAATAAATGATTTGGAA-TGAGCT-GAAGTA
1 -AAAAATAAATGA-CTAGAACTGAACTCGAAGTA
* **
12668972 AAAAATAAGTGACTAGAACTGAACTTTAAGTCA
1 AAAAATAAATGACTAGAACTGAACTCGAAGT-A
* *
12669005 AAAATATAAATGACTTGAACTGAA-TCGAGGTA
1 AAAA-ATAAATGACTAGAACTGAACTCGAAGTA
12669037 AAAAAT
1 AAAAAT
12669043 GACAAGGTCT
Statistics
Matches: 82, Mismatches: 14, Indels: 16
0.73 0.12 0.14
Matches are distributed among these distances:
30 4 0.05
31 18 0.22
32 10 0.12
33 14 0.17
34 17 0.21
35 16 0.20
36 2 0.02
37 1 0.01
ACGTcount: A:0.50, C:0.08, G:0.18, T:0.24
Consensus pattern (32 bp):
AAAAATAAATGACTAGAACTGAACTCGAAGTA
Found at i:12669646 original size:17 final size:17
Alignment explanation
Indices: 12669600--12669648 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
12669590 TCATAAGACT
*
12669600 TTTAGATTCACAA-AAT
1 TTTAGATTCACAAGAAC
* *
12669616 TTTAAAATTTACAAGAAC
1 TTT-AGATTCACAAGAAC
12669634 TTTAGATTCACAAGA
1 TTTAGATTCACAAGA
12669649 GTTTCAAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
16 3 0.12
17 18 0.69
18 5 0.19
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (17 bp):
TTTAGATTCACAAGAAC
Found at i:12669840 original size:17 final size:17
Alignment explanation
Indices: 12669695--12669859 Score: 73
Period size: 17 Copynumber: 9.7 Consensus size: 17
12669685 TTCAAGTTCA
* *
12669695 TAAGAGTTTAAGATTTGG
1 TAAGAGTTTTAGA-TTCG
* *
12669713 TACGAGTTTTAGATTAG
1 TAAGAGTTTTAGATTCG
* * *
12669730 AAAGACTTTTAAATTCG
1 TAAGAGTTTTAGATTCG
* * * *
12669747 CAAGAGTTTCAG-GTCTA
1 TAAGAGTTTTAGATTC-G
* * *
12669764 TAAAAATTTAAGATTCG
1 TAAGAGTTTTAGATTCG
* * * *
12669781 CAAGAATTTAAGATTCA
1 TAAGAGTTTTAGATTCG
** * *
12669798 TAA-AACTTCAGATTTG
1 TAAGAGTTTTAGATTCG
* *
12669814 CAAGAATTTTAGATTCG
1 TAAGAGTTTTAGATTCG
*
12669831 TAAGAGTTTTAGGTTCG
1 TAAGAGTTTTAGATTCG
12669848 TAAGAGTTTTAG
1 TAAGAGTTTTAG
12669860 GTTCACAAAA
Statistics
Matches: 109, Mismatches: 35, Indels: 7
0.72 0.23 0.05
Matches are distributed among these distances:
16 13 0.12
17 83 0.76
18 13 0.12
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.36
Consensus pattern (17 bp):
TAAGAGTTTTAGATTCG
Found at i:12669860 original size:17 final size:17
Alignment explanation
Indices: 12669815--12669863 Score: 80
Period size: 17 Copynumber: 2.9 Consensus size: 17
12669805 TCAGATTTGC
* *
12669815 AAGAATTTTAGATTCGT
1 AAGAGTTTTAGGTTCGT
12669832 AAGAGTTTTAGGTTCGT
1 AAGAGTTTTAGGTTCGT
12669849 AAGAGTTTTAGGTTC
1 AAGAGTTTTAGGTTC
12669864 ACAAAAATCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (17 bp):
AAGAGTTTTAGGTTCGT
Found at i:12669870 original size:101 final size:99
Alignment explanation
Indices: 12669719--12669938 Score: 228
Period size: 101 Copynumber: 2.2 Consensus size: 99
12669709 TTGGTACGAG
* * * * *
12669719 TTTTAGATTAGAAAGACTTTTAAATTCGCAAGAGTTTCAGGTCTATAAAAAT-TTAAGATTCGCA
1 TTTTAGATTCGTAAGAGTTTTAAATTCGCAAGAGTTTCAGGTCTACAAAAATCTT-AGATTCACA
* * *
12669783 AGAATTTAAGATTCATAAAACTTCAGATTTGCAAGAA
65 AAAATTTAAAATGC--AAAACTTCAGATTTGCAAGAA
** * * * *
12669820 TTTTAGATTCGTAAGAGTTTTAGGTTCGTAAGAGTTTTAGGT-TCACAAAAATCTTAGGTTCATA
1 TTTTAGATTCGTAAGAGTTTTAAATTCGCAAGAGTTTCAGGTCT-ACAAAAATCTTAGATTCACA
*
12669884 AAAATTTAAAATGCACAACTTCAGATTTGCAAGAA
65 AAAATTTAAAATGCAAAACTTCAGATTTGCAAGAA
* * *
12669919 CTTCAGGTTCGTAAGAGTTT
1 TTTTAGATTCGTAAGAGTTT
12669939 CCTTTTCGCA
Statistics
Matches: 99, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
99 37 0.37
100 1 0.01
101 59 0.60
102 2 0.02
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (99 bp):
TTTTAGATTCGTAAGAGTTTTAAATTCGCAAGAGTTTCAGGTCTACAAAAATCTTAGATTCACAA
AAATTTAAAATGCAAAACTTCAGATTTGCAAGAA
Found at i:12669876 original size:17 final size:17
Alignment explanation
Indices: 12669856--12669888 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12669846 CGTAAGAGTT
12669856 TTAGGTTCACAAAAATC
1 TTAGGTTCACAAAAATC
*
12669873 TTAGGTTCATAAAAAT
1 TTAGGTTCACAAAAAT
12669889 TTAAAATGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (17 bp):
TTAGGTTCACAAAAATC
Found at i:12670351 original size:23 final size:22
Alignment explanation
Indices: 12670325--12670374 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
12670315 ATTCTTATCG
* *
12670325 AAAAATTTCAAGGTTTCACATTC
1 AAAAATTTAAAGATTT-ACATTC
*
12670348 AAAATTTTAAAGATTTACATTC
1 AAAAATTTAAAGATTTACATTC
12670370 AAAAA
1 AAAAA
12670375 ATTTTAGGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.34
Consensus pattern (22 bp):
AAAAATTTAAAGATTTACATTC
Found at i:12670354 original size:22 final size:22
Alignment explanation
Indices: 12670342--12670504 Score: 78
Period size: 22 Copynumber: 7.2 Consensus size: 22
12670332 TCAAGGTTTC
12670342 ACATTCAAAATTTTAAAGATTT
1 ACATTCAAAATTTTAAAGATTT
* *
12670364 ACATTCAAAAAATTTT-AGGAATT
1 ACATTC--AAAATTTTAAAGATTT
* ** * *
12670387 CCTAACCAAAATTTCAAAGATTC
1 AC-ATTCAAAATTTTAAAGATTT
* * * *
12670410 ACCTTTGAAAATTTTTAGAGATTC
1 A-CATTCAAAA-TTTTAAAGATTT
* * *
12670434 ACATCCAAAGTTTTAAAGACTT
1 ACATTCAAAATTTTAAAGATTT
* * *
12670456 ACATTTGAAAA-ATTAAAGATTC
1 ACA-TTCAAAATTTTAAAGATTT
* *
12670478 ACATTCAAAGTTTCAAAGATTT
1 ACATTCAAAATTTTAAAGATTT
*
12670500 GCATT
1 ACATT
12670505 TGAAAAATTA
Statistics
Matches: 98, Mismatches: 35, Indels: 16
0.66 0.23 0.11
Matches are distributed among these distances:
21 5 0.05
22 48 0.49
23 23 0.23
24 22 0.22
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (22 bp):
ACATTCAAAATTTTAAAGATTT
Found at i:12670397 original size:46 final size:46
Alignment explanation
Indices: 12670347--12670522 Score: 157
Period size: 46 Copynumber: 3.9 Consensus size: 46
12670337 GTTTCACATT
**
12670347 CAAAATTTTAAAGATTTACATTCAAAAAATTTTAG-GAATTC-CTAAC
1 CAAAATTTTAAAGATTTACATTTGAAAAATTTTAGAG-ATTCAC-AAC
* * * * *
12670393 CAAAATTTCAAAGATTCACCTTTGAAAATTTTTAGAGATTCACATC
1 CAAAATTTTAAAGATTTACATTTGAAAAATTTTAGAGATTCACAAC
* * * **
12670439 CAAAGTTTTAAAGACTTACATTTGAAAAA--TTAAAGATTCACATT
1 CAAAATTTTAAAGATTTACATTTGAAAAATTTTAGAGATTCACAAC
* * *
12670483 CAAAGTTTCAAAGATTTGCATTTGAAAAA--TTAGAGATTCA
1 CAAAATTTTAAAGATTTACATTTGAAAAATTTTAGAGATTCA
12670523 TATTTGAAAA
Statistics
Matches: 109, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
44 49 0.45
46 58 0.53
47 2 0.02
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (46 bp):
CAAAATTTTAAAGATTTACATTTGAAAAATTTTAGAGATTCACAAC
Found at i:12670488 original size:44 final size:44
Alignment explanation
Indices: 12670392--12670522 Score: 147
Period size: 44 Copynumber: 2.9 Consensus size: 44
12670382 GAATTCCTAA
* * * *
12670392 CCAAAATTTCAAAGA-TTCACCTTTGAAAATTTTTAGAGATTCACAT
1 CCAAAGTTTCAAAGACTT-ACATTTGAAAA--ATTAAAGATTCACAT
*
12670438 CCAAAGTTTTAAAGACTTACATTTGAAAAATTAAAGATTCACAT
1 CCAAAGTTTCAAAGACTTACATTTGAAAAATTAAAGATTCACAT
* * * *
12670482 TCAAAGTTTCAAAGATTTGCATTTGAAAAATTAGAGATTCA
1 CCAAAGTTTCAAAGACTTACATTTGAAAAATTAAAGATTCA
12670523 TATTTGAAAA
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
44 49 0.66
46 23 0.31
47 2 0.03
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.34
Consensus pattern (44 bp):
CCAAAGTTTCAAAGACTTACATTTGAAAAATTAAAGATTCACAT
Found at i:12670519 original size:22 final size:22
Alignment explanation
Indices: 12670456--12670546 Score: 94
Period size: 22 Copynumber: 4.1 Consensus size: 22
12670446 TTAAAGACTT
*
12670456 ACATTTGAAAAATTAAAGATTC
1 ACATTTGAAAAATTAGAGATTC
* ** * *
12670478 ACA-TTCAAAGTTTCAAAGATTT
1 ACATTTGAAAAATT-AGAGATTC
*
12670500 GCATTTGAAAAATTAGAGATTC
1 ACATTTGAAAAATTAGAGATTC
*
12670522 ATATTTGAAAAATTAGAGATTC
1 ACATTTGAAAAATTAGAGATTC
12670544 ACA
1 ACA
12670547 GTCAAAATTT
Statistics
Matches: 54, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
21 7 0.13
22 40 0.74
23 7 0.13
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (22 bp):
ACATTTGAAAAATTAGAGATTC
Found at i:12671260 original size:17 final size:17
Alignment explanation
Indices: 12671238--12671272 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
12671228 TCTTCCTTTT
*
12671238 ACCAAAAATAAAATAAA
1 ACCAAAAACAAAATAAA
*
12671255 ACCAAAAACAAATTAAA
1 ACCAAAAACAAAATAAA
12671272 A
1 A
12671273 TTAAAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.14, G:0.00, T:0.11
Consensus pattern (17 bp):
ACCAAAAACAAAATAAA
Found at i:12671273 original size:6 final size:6
Alignment explanation
Indices: 12671264--12671295 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
12671254 AACCAAAAAC
12671264 AAATTA AAATTA AAATTA AAATTA AAATTA AA
1 AAATTA AAATTA AAATTA AAATTA AAATTA AA
12671296 TCAAAAACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAATTA
Found at i:12673270 original size:79 final size:79
Alignment explanation
Indices: 12673137--12673285 Score: 235
Period size: 79 Copynumber: 1.9 Consensus size: 79
12673127 AGCCTATGAG
* * **
12673137 TAGTGGTTAGTAATTCTACTAGTCCTATAAAATTAAAATTCAATGATGTTAGAGATGAATTCTTG
1 TAGTGGTTAGCAATTCTACTAGTCCTATAAAATTAAAATTCAATGATGTCAGAGACAAATTCTTG
12673202 CTAAACCATGTGTA
66 CTAAACCATGTGTA
* **
12673216 TAGTGGTTAGCAATTTTACTAGTTTTATAAAATTAAAATTCAATGATGTCAGAGACAAATTCTTG
1 TAGTGGTTAGCAATTCTACTAGTCCTATAAAATTAAAATTCAATGATGTCAGAGACAAATTCTTG
12673281 CTAAA
66 CTAAA
12673286 AAAATTTACA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 63 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (79 bp):
TAGTGGTTAGCAATTCTACTAGTCCTATAAAATTAAAATTCAATGATGTCAGAGACAAATTCTTG
CTAAACCATGTGTA
Found at i:12679264 original size:20 final size:20
Alignment explanation
Indices: 12679207--12679265 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
12679197 CATATTTATA
*
12679207 TTATATAAAATATTA-A-AAT
1 TTATATAAAA-ATTATATATT
**
12679226 TTATATAATTA-TATCATATT
1 TTATATAAAAATTAT-ATATT
12679246 TTATATAAAAATTATATATT
1 TTATATAAAAATTATATATT
12679266 ATAATTTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
17 2 0.06
18 1 0.03
19 9 0.29
20 16 0.52
21 3 0.10
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TTATATAAAAATTATATATT
Found at i:12679284 original size:31 final size:31
Alignment explanation
Indices: 12679220--12679327 Score: 94
Period size: 31 Copynumber: 3.5 Consensus size: 31
12679210 TATAAAATAT
* * **
12679220 TAAAATTTATATAAT-TATATCATATTTTATA
1 TAAAAATTATATAATATAAATTGTATTTT-TA
* * *
12679251 TAAAAATTATATATTATAATTTTTATTTTTA
1 TAAAAATTATATAATATAAATTGTATTTTTA
* *
12679282 TAAAAA-TATAAAATATAAATTGTAATTTTA
1 TAAAAATTATATAATATAAATTGTATTTTTA
* *
12679312 TTAAATTTATATAATA
1 TAAAAATTATATAATA
12679328 ATTATTAAAA
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
30 23 0.38
31 29 0.48
32 9 0.15
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (31 bp):
TAAAAATTATATAATATAAATTGTATTTTTA
Found at i:12679311 original size:30 final size:31
Alignment explanation
Indices: 12679249--12679327 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 31
12679239 TCATATTTTA
* * * * *
12679249 TATAAAAATTATATATTATAATTTTTATTTT
1 TATAAAAATTATAAAATATAAATTGTAATTT
12679280 TATAAAAA-TATAAAATATAAATTGTAATTT
1 TATAAAAATTATAAAATATAAATTGTAATTT
* * *
12679310 TATTAAATTTATATAATA
1 TATAAAAATTATAAAATA
12679328 ATTATTAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
30 23 0.59
31 16 0.41
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (31 bp):
TATAAAAATTATAAAATATAAATTGTAATTT
Found at i:12679359 original size:38 final size:36
Alignment explanation
Indices: 12679207--12679361 Score: 97
Period size: 38 Copynumber: 4.2 Consensus size: 36
12679197 CATATTTATA
*
12679207 TTATATAAAA-TATTAAAATTTATATAATTATATCATATT
1 TTATATAAAATTATTAAAA-TT-T-TAATTATATTAT-TT
* *
12679246 TTATATAAAA--ATTATATATTATAATT-T-TTATTT
1 TTATATAAAATTATTA-AAATTTTAATTATATTATTT
* * * **
12679279 TTATA-AAAATATAAAATATAAATTGTAATTTTATTAAAT
1 TTATATAAAAT-T--ATTA-AAATTTTAATTATATTATTT
12679318 TTATATAATAATTATTAAAATTTTAAATTATATTATTT
1 TTATATAA-AATTATTAAAATTTT-AATTATATTATTT
12679356 TTATAT
1 TTATAT
12679362 TTTTTATATT
Statistics
Matches: 92, Mismatches: 13, Indels: 23
0.72 0.10 0.18
Matches are distributed among these distances:
32 4 0.04
33 7 0.08
34 3 0.03
35 1 0.01
36 5 0.05
37 19 0.21
38 26 0.28
39 21 0.23
40 3 0.03
41 3 0.03
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.52
Consensus pattern (36 bp):
TTATATAAAATTATTAAAATTTTAATTATATTATTT
Found at i:12691787 original size:23 final size:24
Alignment explanation
Indices: 12691757--12691813 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
12691747 CTGTTTCCCA
*
12691757 GAAATCCTCTAT-CCTGCCACCTT
1 GAAATCCTCCATCCCTGCCACCTT
12691780 GAAATCCTCCATCCCTGCCACCTT
1 GAAATCCTCCATCCCTGCCACCTT
12691804 GAAATCCTCC
1 GAAATCCTCC
12691814 CTGAAATCCT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 11 0.34
24 21 0.66
ACGTcount: A:0.23, C:0.42, G:0.09, T:0.26
Consensus pattern (24 bp):
GAAATCCTCCATCCCTGCCACCTT
Found at i:12697914 original size:20 final size:20
Alignment explanation
Indices: 12697886--12697923 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
12697876 AATCATTTTA
12697886 ATTTTTATA-AAATAAAAAT
1 ATTTTTATATAAATAAAAAT
12697905 ATTTTATATATAAATAAAA
1 ATTTT-TATATAAATAAAA
12697924 TAATTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 4 0.24
21 8 0.47
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTTTTATATAAATAAAAAT
Found at i:12706603 original size:305 final size:306
Alignment explanation
Indices: 12706051--12706661 Score: 1152
Period size: 305 Copynumber: 2.0 Consensus size: 306
12706041 AATCCAATAT
12706051 TTTGTAAACATATCACATAATTGTTGACTGTAATGAAAAATATTATCATAATTGATAAAATGAAG
1 TTTGTAAACATATCACATAATTGTTGACTGTAATGAAAAATATTATCATAATTGATAAAATGAAG
12706116 GTTGGTGAGAAAATTTGTATATTTCATTTGGTGGTTTTGAGGATAATTACTACTTTTTAAATTTA
66 GTTGGTGAGAAAATTTGTATATTTCATTTGGTGGTTTTGAGGATAATTACTACTTTTTAAATTTA
*
12706181 TGATATAATTTAAAATTTGAATTAATGCCAAATTATCAAATGAAATTGTATTTTCTCTTATACCA
131 TGATATAATTTAAAATTTGAATTAATACCAAATTATCAAATGAAATTGTATTTTCTCTTATACCA
*
12706246 TTTATGATTTTCTATAATTATGAAATATTTTTATTTCTAAAAATAAAAACTAGCTAAGTAGTTAT
196 TTTATGATTTTCTATAATTATGAAATATTTTTATTTCTAAAAATAAAAACTAGATAAGTAGTTAT
*
12706311 CATTGAACATCATAACACATGTCCCATAAAAAAGATGAAGAAAAAA
261 CATTGAACATCATAACACATGTCCCAGAAAAAAGATGAAGAAAAAA
*
12706357 TTTGTAAACATATCGCATAATTGTTGACTGTAATGAAAAATATTATCATAATTGATAAAATGAAG
1 TTTGTAAACATATCACATAATTGTTGACTGTAATGAAAAATATTATCATAATTGATAAAATGAAG
12706422 GTTGGTGAGAAAATTTGTATATTTCATTTGGTGGTTTTGAGGATAATTACTAC-TTTTAAATTTA
66 GTTGGTGAGAAAATTTGTATATTTCATTTGGTGGTTTTGAGGATAATTACTACTTTTTAAATTTA
* *
12706486 TGATATAATTTAAATTTTGAATTAATACCAAATTATCAAATGAAATTGTTTTTTCTCTTATACCA
131 TGATATAATTTAAAATTTGAATTAATACCAAATTATCAAATGAAATTGTATTTTCTCTTATACCA
12706551 TTTATGATTTTCTATAATTATGAAATATTTTTATTTCTAAAAATAAAAACTAGATAAGTAGTTAT
196 TTTATGATTTTCTATAATTATGAAATATTTTTATTTCTAAAAATAAAAACTAGATAAGTAGTTAT
*
12706616 CATTGAACATCATAACATATGTCCCAGAAAAAAGATGAAGAAAAAA
261 CATTGAACATCATAACACATGTCCCAGAAAAAAGATGAAGAAAAAA
12706662 AAGCACATTC
Statistics
Matches: 298, Mismatches: 7, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
305 181 0.61
306 117 0.39
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.39
Consensus pattern (306 bp):
TTTGTAAACATATCACATAATTGTTGACTGTAATGAAAAATATTATCATAATTGATAAAATGAAG
GTTGGTGAGAAAATTTGTATATTTCATTTGGTGGTTTTGAGGATAATTACTACTTTTTAAATTTA
TGATATAATTTAAAATTTGAATTAATACCAAATTATCAAATGAAATTGTATTTTCTCTTATACCA
TTTATGATTTTCTATAATTATGAAATATTTTTATTTCTAAAAATAAAAACTAGATAAGTAGTTAT
CATTGAACATCATAACACATGTCCCAGAAAAAAGATGAAGAAAAAA
Found at i:12714113 original size:160 final size:161
Alignment explanation
Indices: 12713374--12714927 Score: 1314
Period size: 160 Copynumber: 9.6 Consensus size: 161
12713364 ATTTTTATCC
* * *
12713374 GTTTAGCA-TTTTTGTGCCGTT-AAAGAGCAAAAATGTAAATTTATAGTTATTATTCTATTTTAA
1 GTTTAGCACTTTTTGTGCTGTTAAAAG-GCAAAAATGTAAATTTGTATTTATTATTCTATTTTAA
* * * * * * *
12713437 TAGTTTGGATAGCTTTAATACATGATATTAAACTTGCCCAAATGATTAAACTTGGTTTACACGGT
65 CAGTTTAGATAGCTTCAATACATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTACACGAT
**
12713502 TGATATGTGTGAAAAAGTTACTGTTTATGTCT
130 TGATATGTGTGAAAAAGTTACCATTTATGTCT
* * * ** * ** * *
12713534 GTTAAGCAATTTTTTTATGCCATTAAAAGGCCAAAATACAAATTTGCATTTATTATTTTATTTTA
1 GTTTAGC-A-CTTTTTGTGCTGTTAAAAGGCAAAAATGTAAATTTGTATTTATTATTCTATTTTA
** * * * * * *
12713599 GTAGTTTAGATAGTTTCTATACATGATATCAAACTTGTTCGAATAATTGAATTTGGTTTACAC-A
64 ACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTACACGA
*
12713663 GTTGATATGTGTGAAAAAAGTTACCATTTATGTTT
129 -TTGATATGTGTG-AAAAAGTTACCATTTATGTCT
* * * * * *
12713698 GTTTATG-ACTTTTTTGTG-TCATTAAAAGGCCAAAATGCAAATTTATGTTTGTTATTCTATTTT
1 GTTTA-GCAC-TTTTTGTGCT-GTTAAAAGGCAAAAATGTAAATTTGTATTTATTATTCTATTTT
* * * * * * *
12713761 AACAATTTAGATAGCTTTAACACATGATATT-AACTTGTCCGAATGATTAAATTTAGATTT-TAC
63 AACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTCCGAATGATTGAACTT-GGTTTACAC
* * * *
12713824 TATTGATATGTGTGAAAACGTTACCGTTTATATCT
127 GATTGATATGTGTGAAAAAGTTACCATTTATGTCT
* * * *
12713859 TTTTAGGACTTTATTGTGTTGTTAAAAGGCAAAAAT-AAAATTTTGTATTTA-TATT-TATGTTA
1 GTTTAGCACTTT-TTGTGCTGTTAAAAGGCAAAAATGTAAA-TTTGTATTTATTATTCTAT-TT-
* * * *
12713921 TAATAGTTTAGATAGGTTAAATACATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTACAC
62 TAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTACAC
* *
12713986 GATTGATATATGTGAAAAAGTTATCATTTATGTCT
127 GATTGATATGTGTGAAAAAGTTACCATTTATGTCT
* * * ** * *
12714021 ATTTAGCA-TTTTTGTGCTGTTAAAAGTCCAAAATAAAAATTTGCATTTATTAATCTATTTTAAC
1 GTTTAGCACTTTTTGTGCTGTTAAAAGGCAAAAATGTAAATTTGTATTTATTATTCTATTTTAAC
* * * ** * *
12714085 AATTTAGATAGCTCCAATACAGGATATTAAACTTGTCTAAATGATTGAACTTGGTTTCCACGGTT
66 AGTTTAGATAGCTTCAATACATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTACACGATT
***
12714150 GATATGTGTGAAAAAGTTAATGTTTATGTCT
131 GATATGTGTGAAAAAGTTACCATTTATGTCT
* ** * * * * *
12714181 ATTTAATACTTTTTATGCTATTAAAAGGTAAAAATGTAAATTTGCATTTATTATTATATTTTAAC
1 GTTTAGCACTTTTTGTGCTGTTAAAAGGCAAAAATGTAAATTTGTATTTATTATTCTATTTTAAC
* * * * * * * * * *
12714246 AGTTTAGATAGCTTTAATATATGATACTAAACTTTTTCGAATAATTGAACATAGTTTCCA-TAGT
66 AGTTTAGATAGCTTCAATACATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTACACGA-T
* *
12714310 TGATATGTGTGAAAAAGTTACCA-TTATCTAT
130 TGATATGTGTGAAAAAGTTACCATTTATGTCT
** * * * *
12714341 GTTTAGCACTTTTTGTG-TCGTTAAAAGATAAAAATGTAATTTTGCAATTA-TATTTATATTTTA
1 GTTTAGCACTTTTTGTGCT-GTTAAAAGGCAAAAATGTAAATTTGTATTTATTA-TTCTATTTTA
* * * * * * **
12714404 ATAGTTTAGATAGCTTCAATACATGATATTAAACTTATCTGAATGATTAAAATTGGTTTCCATAA
64 ACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTACACGA
* * *
12714469 TTGATATGTGTAAAAAAATTATCATTTATGTCT
129 TTGATATGTGTGAAAAAGTTACCATTTATGTCT
* * * *
12714502 GTTTAGCAC-TTTTATGCTGTTAAAAGGTAAAAATGTAAATTTGTATTTATTATTCTGTTTAAAC
1 GTTTAGCACTTTTTGTGCTGTTAAAAGGCAAAAATGTAAATTTGTATTTATTATTCTATTTTAAC
* * * * * *
12714566 AGTTTAGATATCTTCAATACATGATATTAAA-TTATTCGAATGATTAAACTTGGTTTTCACAATT
66 AGTTTAGATAGCTTCAATACATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTACACGATT
*
12714630 GATATGTATGAAAAAGTTACCATTTTTATGTCT
131 GATATGTGTGAAAAAGTTACCA--TTTATGTCT
* * ** * * * * * *
12714663 TTTTATG-ACTTTGTTATATTGTTAAAGGGCAAAAATATAATTTTGTACTTA-TATTATGTTTTA
1 GTTTA-GCACTTT-TTGTGCTGTTAAAAGGCAAAAATGTAAATTTGTATTTATTATTCTATTTTA
* * * * * * * * *
12714726 ACAATTTAAATAACTTAAATTCATGATATTAAACTTGTTCAAATGATTGAACTTGGTTTTCATGA
64 ACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTACACGA
* * * * *
12714791 TTTGATATGTATGAATAAGTTACAATTGATGTTT
129 -TTGATATGTGTGAAAAAGTTACCATTTATGTCT
* * * * * * * *
12714825 GTTTAGAAATTTTTGTAAC-GTCAAAAGGCAAAAATGCAAATTTGTAGTTATTATTTTGTTTTAA
1 GTTTAGCACTTTTTGT-GCTGTTAAAAGGCAAAAATGTAAATTTGTATTTATTATTCTATTTTAA
* * * *
12714889 TAGTTTAAATAGC-TCATATCACTTGATATTAAATTTGTC
65 CAGTTTAGATAGCTTCA-AT-ACATGATATTAAACTTGTC
12714928 TAAATATTTA
Statistics
Matches: 1137, Mismatches: 215, Indels: 81
0.79 0.15 0.06
Matches are distributed among these distances:
159 52 0.05
160 339 0.30
161 273 0.24
162 176 0.15
163 248 0.22
164 48 0.04
165 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (161 bp):
GTTTAGCACTTTTTGTGCTGTTAAAAGGCAAAAATGTAAATTTGTATTTATTATTCTATTTTAAC
AGTTTAGATAGCTTCAATACATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTACACGATT
GATATGTGTGAAAAAGTTACCATTTATGTCT
Found at i:12714252 original size:321 final size:318
Alignment explanation
Indices: 12713374--12714926 Score: 1306
Period size: 321 Copynumber: 4.8 Consensus size: 318
12713364 ATTTTTATCC
* * * *
12713374 GTTTAGCATTTTTGTGCCGTT-AAAGAGCAAAAATGTAAATTTATAGTTATTATTCTATTTTAAT
1 GTTTAGCATTTTTGTG-TGTTAAAAG-GCAAAAATGTAAATTTGTATTTATTATTCTATTTTAAC
* * * * * * *
12713438 AGTTTGGATAGCTTTAATACATGATATTAAACTTGCCCAAATGATTAAACTTGGTTTACACGGTT
64 AATTTAGATAGCTTCAATACATGATATTAAACTTGTCTAAATGATTAAACTTGGTTTCCACGATT
* * * * *
12713503 GATATGTGTGAAAAAGTTACTGTTTATGTCTGTTAAGCAATTTTTTTATGCCATTAAAAGGCCAA
129 GATATGTGTGAAAAAGTTAATGTTTATGTCTTTTAA--AA-CTTTTTATGCTATTAAAAGGCAAA
** ** * * *
12713568 AATACAAATTTGCATTTATTATTTTATTTTAGTAGTTTAGATAGTTTCTATACATGATATCAAAC
191 AATGTAAATTTGCATTTATTA-TTTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAAC
* *
12713633 TTGTTCGAATAATTGAATTTGGTTTACACAGTTGATATGTGTGAAAAAAGTTACCATTTATGTTT
255 TTGTTCGAATAATTGAACTTGGTTTACACAGTTGATATGTGTG-AAAAAGTTACCATTTATGTCT
* * * * * * *
12713698 GTTTATGACTTTTTTGTGTCATTAAAAGGCCAAAATGCAAATTTATGTTTGTTATTCTATTTTAA
1 GTTTA-G-CATTTTTGTGT-GTTAAAAGGCAAAAATGTAAATTTGTATTTATTATTCTATTTTAA
* * ** * * * *
12713763 CAATTTAGATAGCTTTAACACATGATATT-AACTTGTCCGAATGATTAAATTTAGATTT-TACTA
63 CAATTTAGATAGCTTCAATACATGATATTAAACTTGTCTAAATGATTAAACTT-GGTTTCCACGA
* ** * ** * * *
12713826 TTGATATGTGTGAAAACGTTACCGTTTATATCTTTTTAGGACTTTATTGTGTTGTTAAAAGGCAA
127 TTGATATGTGTGAAAAAGTTAATGTTTATGTC-TTTTAAAACTTT-TTATGCTATTAAAAGGCAA
* * * * *
12713891 AAAT-AAAATTTTGTATTTA-TATTTATGTTATAATAGTTTAGATAGGTTAAATACATGATATTA
190 AAATGTAAA-TTTGCATTTATTATTTAT-TT-TAACAGTTTAGATAGCTTCAATACATGATATTA
* * * * *
12713954 AACTTGTCCAAATGATTGAACTTGGTTTACAC-GATTGATATATGTGAAAAAGTTATCATTTATG
252 AACTTGTTCGAATAATTGAACTTGGTTTACACAG-TTGATATGTGTGAAAAAGTTACCATTTATG
12714018 TCT
316 TCT
* * * ** * *
12714021 ATTTAGCATTTTTGTGCTGTTAAAAGTCCAAAATAAAAATTTGCATTTATTAATCTATTTTAACA
1 GTTTAGCATTTTTGTG-TGTTAAAAGGCAAAAATGTAAATTTGTATTTATTATTCTATTTTAACA
* * * *
12714086 ATTTAGATAGCTCCAATACAGGATATTAAACTTGTCTAAATGATTGAACTTGGTTTCCACGGTTG
65 ATTTAGATAGCTTCAATACATGATATTAAACTTGTCTAAATGATTAAACTTGGTTTCCACGATTG
* *
12714151 ATATGTGTGAAAAAGTTAATGTTTATGTCTATTTAATACTTTTTATGCTATTAAAAGGTAAAAAT
130 ATATGTGTGAAAAAGTTAATGTTTATGTCT-TTTAAAACTTTTTATGCTATTAAAAGGCAAAAAT
* * * *
12714216 GTAAATTTGCATTTATTATTATATTTTAACAGTTTAGATAGCTTTAATATATGATACTAAACTTT
194 GTAAATTTGCATTTATTATT-TATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTG
* * * * * *
12714281 TTCGAATAATTGAACATAGTTTCCATAGTTGATATGTGTGAAAAAGTTACCA-TTATCTAT
258 TTCGAATAATTGAACTTGGTTTACACAGTTGATATGTGTGAAAAAGTTACCATTTATGTCT
** * * * *
12714341 GTTTAGCACTTTTTGTGTCGTTAAAAGATAAAAATGTAATTTTGCAATTA-TATTTATATTTTAA
1 GTTTAGCA-TTTTTGTGT-GTTAAAAGGCAAAAATGTAAATTTGTATTTATTA-TTCTATTTTAA
* * * * * **
12714405 TAGTTTAGATAGCTTCAATACATGATATTAAACTTATCTGAATGATTAAAATTGGTTTCCATAAT
63 CAATTTAGATAGCTTCAATACATGATATTAAACTTGTCTAAATGATTAAACTTGGTTTCCACGAT
* * * ** * *
12714470 TGATATGTGTAAAAAAATT-ATCATTTATGTCTGTTTAGCAC-TTTTATGCTGTTAAAAGGTAAA
128 TGATATGTGTGAAAAAGTTAAT-GTTTATGTCT-TTTAAAACTTTTTATGCTATTAAAAGGCAAA
* * * *
12714533 AATGTAAATTTGTATTTATTATTCTGTTTAAACAGTTTAGATATCTTCAATACATGATATTAAA-
191 AATGTAAATTTGCATTTATTATT-TATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAAC
* * * * * *
12714597 TTATTCGAATGATTAAACTTGGTTTTCACAATTGATATGTATGAAAAAGTTACCATTTTTATGTC
255 TTGTTCGAATAATTGAACTTGGTTTACACAGTTGATATGTGTGAAAAAGTTACCA--TTTATGTC
12714662 T
318 T
* * * * * * * * *
12714663 TTTTATG-ACTTTGTTATATTGTTAAAGGGCAAAAATATAATTTTGTACTTA-TATTATGTTTTA
1 GTTTA-GCA-TTT-TTGT-GTGTTAAAAGGCAAAAATGTAAATTTGTATTTATTATTCTATTTTA
* * * * * * *
12714726 ACAATTTAAATAACTTAAATTCATGATATTAAACTTGT-TCAAATGATTGAACTTGGTTTTCATG
62 ACAATTTAGATAGCTTCAATACATGATATTAAACTTGTCT-AAATGATTAAACTTGGTTTCCACG
* * * * * * * * *
12714790 ATTTGATATGTATGAATAAGTTACA-ATTGATGTTTGTTTAGAAA-TTTTTGTAAC-GTCAAAAG
126 A-TTGATATGTGTGAAAAAGTTA-ATGTTTATGTCT-TTTA-AAACTTTTTAT-GCTATTAAAAG
* * * * * * *
12714852 GCAAAAATGCAAATTTGTAGTTATTATTTTGTTTTAATAGTTTAAATAGC-TCATATCACTTGAT
186 GCAAAAATGTAAATTTGCATTTATTA-TTTATTTTAACAGTTTAGATAGCTTCA-AT-ACATGAT
*
12714916 ATTAAATTTGT
248 ATTAAACTTGT
12714927 CTAAATATTT
Statistics
Matches: 1003, Mismatches: 186, Indels: 78
0.79 0.15 0.06
Matches are distributed among these distances:
319 46 0.05
320 95 0.09
321 305 0.30
322 150 0.15
323 100 0.10
324 156 0.16
325 68 0.07
326 79 0.08
327 4 0.00
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (318 bp):
GTTTAGCATTTTTGTGTGTTAAAAGGCAAAAATGTAAATTTGTATTTATTATTCTATTTTAACAA
TTTAGATAGCTTCAATACATGATATTAAACTTGTCTAAATGATTAAACTTGGTTTCCACGATTGA
TATGTGTGAAAAAGTTAATGTTTATGTCTTTTAAAACTTTTTATGCTATTAAAAGGCAAAAATGT
AAATTTGCATTTATTATTTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTC
GAATAATTGAACTTGGTTTACACAGTTGATATGTGTGAAAAAGTTACCATTTATGTCT
Found at i:12721729 original size:43 final size:43
Alignment explanation
Indices: 12721681--12721764 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
12721671 TATTAGTTTT
*
12721681 TATTATATAT-AATTAATTATTAAT-AA-TATCATATTAATAATAA
1 TATTAT-TATCAATT-A-TATTAATCAATTATAATATTAATAATAA
12721724 TATTATTATCAATTATATTAATCAATTATAATATTAATAAT
1 TATTATTATCAATTATATTAATCAATTATAATATTAATAAT
12721765 TTAAATTAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
41 7 0.19
42 6 0.16
43 24 0.65
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.48
Consensus pattern (43 bp):
TATTATTATCAATTATATTAATCAATTATAATATTAATAATAA
Found at i:12722327 original size:10 final size:10
Alignment explanation
Indices: 12722300--12722365 Score: 55
Period size: 10 Copynumber: 6.5 Consensus size: 10
12722290 CATTAAAAAG
12722300 AAAAATTC-A
1 AAAAATTCTA
12722309 GAAACAATT-TA
1 -AAA-AATTCTA
12722320 ACAAAATTCTA
1 A-AAAATTCTA
*
12722331 AAAAATTGTA
1 AAAAATTCTA
* * *
12722341 AAATATTTTT
1 AAAAATTCTA
12722351 AAAAATTCTA
1 AAAAATTCTA
12722361 AAAAA
1 AAAAA
12722366 AATTGTAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
10 35 0.78
11 10 0.22
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.30
Consensus pattern (10 bp):
AAAAATTCTA
Found at i:12722366 original size:32 final size:29
Alignment explanation
Indices: 12722322--12722386 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 29
12722312 ACAATTTAAC
12722322 AAAATTCTAAAAAATTGTAAAATAT-TTTTA
1 AAAATTCTAAAAAATTGT-AAAT-TGTTTTA
12722352 AAAATTCTAAAAAAAATTGTAAATTGTTTTA
1 AAAATTCT--AAAAAATTGTAAATTGTTTTA
12722383 AAAA
1 AAAA
12722387 AAAGTCAACA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
30 9 0.28
31 13 0.41
32 10 0.31
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (29 bp):
AAAATTCTAAAAAATTGTAAATTGTTTTA
Found at i:12722387 original size:32 final size:30
Alignment explanation
Indices: 12722316--12722387 Score: 90
Period size: 32 Copynumber: 2.3 Consensus size: 30
12722306 TCAGAAACAA
12722316 TTTAACAAAATTCTAAAAAATTGTAAAATAT
1 TTTAA-AAAATTCTAAAAAATTGTAAAATAT
* * *
12722347 TTTTAAAAATTCTAAAAAAAATTGTAAATTGT
1 TTTAAAAAATTCT--AAAAAATTGTAAAATAT
12722379 TTTAAAAAA
1 TTTAAAAAA
12722388 AAGTCAACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 8 0.23
31 4 0.11
32 23 0.66
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (30 bp):
TTTAAAAAATTCTAAAAAATTGTAAAATAT
Found at i:12722619 original size:8 final size:9
Alignment explanation
Indices: 12722598--12722629 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
12722588 TTTTAATTTA
12722598 AAAAATTCT
1 AAAAATTCT
12722607 AAAAATTCT
1 AAAAATTCT
*
12722616 AAAAATTCC
1 AAAAATTCT
12722625 AAAAA
1 AAAAA
12722630 AATTCAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.25
Consensus pattern (9 bp):
AAAAATTCT
Found at i:12722638 original size:9 final size:9
Alignment explanation
Indices: 12722592--12722640 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
12722582 AATACGTTTT
*
12722592 AATTTAAAA
1 AATTCAAAA
*
12722601 AATTCTAAA
1 AATTCAAAA
*
12722610 AATTCTAAA
1 AATTCAAAA
12722619 AATTCCAAAAA
1 AATT-C-AAAA
12722630 AATTCAAAA
1 AATTCAAAA
12722639 AA
1 AA
12722641 ACTGTAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 26 0.74
10 2 0.06
11 7 0.20
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (9 bp):
AATTCAAAA
Found at i:12722641 original size:30 final size:29
Alignment explanation
Indices: 12722597--12722663 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 29
12722587 GTTTTAATTT
* *
12722597 AAAAAATTCTAAAAATTCTAAAAATTCCA
1 AAAAAATTCAAAAAACTCTAAAAATTCCA
* * *
12722626 AAAAAATTCAAAAAAACTGTAAAATTTCTA
1 AAAAAATTC-AAAAAACTCTAAAAATTCCA
12722656 AAAAAATT
1 AAAAAATT
12722664 GTGAAAATTC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 9 0.28
30 23 0.72
ACGTcount: A:0.61, C:0.10, G:0.01, T:0.27
Consensus pattern (29 bp):
AAAAAATTCAAAAAACTCTAAAAATTCCA
Found at i:12722649 original size:20 final size:19
Alignment explanation
Indices: 12722627--12722689 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
12722617 AAAATTCCAA
12722627 AAAAATTCAAAAAAACTGT
1 AAAAATTCAAAAAAACTGT
* *
12722646 AAAATTTCTAAAAAAATTGT
1 AAAAATTC-AAAAAAACTGT
* * *
12722666 GAAAATTCAAAACAACTAT
1 AAAAATTCAAAAAAACTGT
12722685 AAAAA
1 AAAAA
12722690 ATTGTAAACA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
19 19 0.54
20 16 0.46
ACGTcount: A:0.62, C:0.10, G:0.05, T:0.24
Consensus pattern (19 bp):
AAAAATTCAAAAAAACTGT
Found at i:12723224 original size:44 final size:45
Alignment explanation
Indices: 12723176--12723260 Score: 102
Period size: 44 Copynumber: 1.9 Consensus size: 45
12723166 TTTGTTAAAA
12723176 TTTTTT-TTATTTTATAAAACTTTAAATTTTTTT-AAAGTTGTCAT
1 TTTTTTATTATTTTA-AAAACTTTAAATTTTTTTAAAAGTTGTCAT
* ** **
12723220 TTTTTTATTCTTTTAAAAGTTTTGGATTTTTTTAAAAGTTG
1 TTTTTTATTATTTTAAAAACTTTAAATTTTTTTAAAAGTTG
12723261 AAACCCTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
44 20 0.59
45 14 0.41
ACGTcount: A:0.27, C:0.04, G:0.08, T:0.61
Consensus pattern (45 bp):
TTTTTTATTATTTTAAAAACTTTAAATTTTTTTAAAAGTTGTCAT
Found at i:12723371 original size:12 final size:11
Alignment explanation
Indices: 12723317--12723373 Score: 59
Period size: 9 Copynumber: 5.5 Consensus size: 11
12723307 ATCTTTCAAA
*
12723317 TTTTTTAAAAT
1 TTTTTTAGAAT
12723328 TTTTTTAGAA-
1 TTTTTTAGAAT
*
12723338 -TTTGTAGAAT
1 TTTTTTAGAAT
12723348 TTTTTT--AAT
1 TTTTTTAGAAT
12723357 TTTTCTTAGAAT
1 TTTT-TTAGAAT
12723369 TTTTT
1 TTTTT
12723374 AAAATGTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
9 15 0.39
10 2 0.05
11 14 0.37
12 7 0.18
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.65
Consensus pattern (11 bp):
TTTTTTAGAAT
Found at i:12723510 original size:20 final size:20
Alignment explanation
Indices: 12723428--12723511 Score: 89
Period size: 20 Copynumber: 4.2 Consensus size: 20
12723418 AATTTTTTAA
*
12723428 TTTAAAATTTTTTTGAATTT
1 TTTAAAATTTTTTAGAATTT
* *
12723448 TTTGAAATTATTTTAGAGTTT
1 TTTAAAATT-TTTTAGAATTT
* * *
12723469 TTGAAAATTTGTTAGAAATT
1 TTTAAAATTTTTTAGAATTT
*
12723489 TTTAAAATTTTTTA-CATTT
1 TTTAAAATTTTTTAGAATTT
12723508 TTTA
1 TTTA
12723512 TGTGAACTTT
Statistics
Matches: 51, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
19 7 0.14
20 28 0.55
21 16 0.31
ACGTcount: A:0.32, C:0.01, G:0.08, T:0.58
Consensus pattern (20 bp):
TTTAAAATTTTTTAGAATTT
Found at i:12724412 original size:29 final size:29
Alignment explanation
Indices: 12724363--12724443 Score: 94
Period size: 29 Copynumber: 2.8 Consensus size: 29
12724353 AAAATTCAAA
*
12724363 AAAATA-TTTAAAAATTCTAAACAAAA-ACT
1 AAAATATTTTTAAAATT-TAAA-AAAATACT
* *
12724392 AAAATTTTTTTAAAATTTAAAAAAATTCT
1 AAAATATTTTTAAAATTTAAAAAAATACT
*
12724421 AAAATATTTTTAAAATTTTAAAA
1 AAAATATTTTTAAAATTTAAAAA
12724444 TTTTCTTCAA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
28 4 0.09
29 32 0.71
30 9 0.20
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (29 bp):
AAAATATTTTTAAAATTTAAAAAAATACT
Found at i:12724449 original size:29 final size:28
Alignment explanation
Indices: 12724427--12724643 Score: 50
Period size: 29 Copynumber: 7.5 Consensus size: 28
12724417 TTCTAAAATA
** **
12724427 TTTTTAAAATTTTAAAATTTTCTTCAAT
1 TTTTTAAAATTTTAAAAAATTCTAAAAT
*
12724455 TTTTTCAAAATTTTTAAAAATTCAATAAAA-
1 TTTTT-AAAATTTTAAAAAATTC--TAAAAT
* ** * * *
12724485 -CTTCCAAACTTCATAAAAATTTTAAACAT
1 TTTTTAAAATTTTA-AAAAATTCTAAA-AT
* *
12724514 TTTTACAAAAATTTTAAAATAATTGTAAAAT
1 TTTT--TAAAATTTTAAAA-AATTCTAAAAT
* * * *
12724545 ATTTTGAAAAATATT-AAAAGTTTTAAAA-
1 -TTTT-TAAAATTTTAAAAAATTCTAAAAT
*
12724573 TTCTTAAAATTTTTAAAAAA-TC-AAAAT
1 TTTTTAAAA-TTTTAAAAAATTCTAAAAT
* * * *
12724600 ATTTCTAAAAGGATTTAATAAATTCTAAAAA
1 -TTTTTAAAA--TTTTAAAAAATTCTAAAAT
* *
12724631 ATTATAAAATTTT
1 TTTTTAAAATTTT
12724644 TTGAATAGTT
Statistics
Matches: 135, Mismatches: 36, Indels: 36
0.65 0.17 0.17
Matches are distributed among these distances:
26 8 0.06
27 11 0.08
28 25 0.19
29 39 0.29
30 14 0.10
31 20 0.15
32 18 0.13
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.42
Consensus pattern (28 bp):
TTTTTAAAATTTTAAAAAATTCTAAAAT
Found at i:12724468 original size:10 final size:9
Alignment explanation
Indices: 12724398--12724590 Score: 64
Period size: 9 Copynumber: 20.0 Consensus size: 9
12724388 AACTAAAATT
12724398 TTTTTAAAA
1 TTTTTAAAA
**
12724407 TTTAAAAAAA
1 TTT-TTAAAA
* *
12724417 TTCTAAAATA
1 TTTTTAAA-A
12724427 TTTTTAAAA
1 TTTTTAAAA
12724436 -TTTTAAAA
1 TTTTTAAAA
* *
12724444 TTTTCTTCAAT
1 -TTT-TTAAAA
12724455 TTTTTCAAAA
1 TTTTT-AAAA
12724465 TTTTTAAAAA
1 TTTTT-AAAA
**
12724475 TTCAATAAAA
1 TT-TTTAAAA
* ** *
12724485 CTTCCAAAC
1 TTTTTAAAA
**
12724494 TTCATAAAA
1 TTTTTAAAA
*
12724503 ATTTTAAACA
1 TTTTTAAA-A
12724513 TTTTTACAAAA
1 TTTTT--AAAA
*
12724524 ATTTTAAAA
1 TTTTTAAAA
*
12724533 TAATTGTAAAA
1 T--TTTTAAAA
12724544 TATTTTGAAAA
1 T-TTTT-AAAA
* *
12724555 ATATTAAAA
1 TTTTTAAAA
*
12724564 GTTTTAAAA
1 TTTTTAAAA
*
12724573 TTCTTAAAA
1 TTTTTAAAA
12724582 TTTTTAAAA
1 TTTTTAAAA
12724591 AATCAAAATA
Statistics
Matches: 133, Mismatches: 38, Indels: 26
0.68 0.19 0.13
Matches are distributed among these distances:
8 8 0.06
9 52 0.39
10 48 0.36
11 22 0.17
12 3 0.02
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.44
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:12724515 original size:9 final size:9
Alignment explanation
Indices: 12724498--12724591 Score: 64
Period size: 10 Copynumber: 9.7 Consensus size: 9
12724488 CCAAACTTCA
12724498 TAAAAATTT
1 TAAAAATTT
*
12724507 TAAACATTTT
1 TAAA-AATTT
12724517 TACAAAAATTT
1 T--AAAAATTT
*
12724528 TAAAATAATTG
1 T-AAA-AATTT
12724539 TAAAATATTT
1 TAAAA-ATTT
*
12724549 TGAAAAATAT
1 T-AAAAATTT
*
12724559 TAAAAGTTT
1 TAAAAATTT
12724568 T-AAAATTCT
1 TAAAAATT-T
*
12724577 TAAAATTTT
1 TAAAAATTT
12724586 TAAAAA
1 TAAAAA
12724592 ATCAAAATAT
Statistics
Matches: 66, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
8 5 0.08
9 20 0.30
10 24 0.36
11 14 0.21
12 3 0.05
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.41
Consensus pattern (9 bp):
TAAAAATTT
Found at i:12725178 original size:18 final size:16
Alignment explanation
Indices: 12725155--12725188 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 16
12725145 TCTTTCAAAA
12725155 AAATTTTCATATTTTTTT
1 AAATTTT-A-ATTTTTTT
12725173 AAATTTTAATTTTTTT
1 AAATTTTAATTTTTTT
12725189 TTTTTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 1 0.06
18 7 0.44
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (16 bp):
AAATTTTAATTTTTTT
Found at i:12725190 original size:18 final size:18
Alignment explanation
Indices: 12725155--12725189 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
12725145 TCTTTCAAAA
*
12725155 AAATTTTCATATTTTTTT
1 AAATTTTAATATTTTTTT
12725173 AAATTTTAAT-TTTTTTT
1 AAATTTTAATATTTTTTT
12725190 TTTTTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
AAATTTTAATATTTTTTT
Found at i:12725202 original size:23 final size:23
Alignment explanation
Indices: 12725166--12725210 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
12725156 AATTTTCATA
*
12725166 TTTTTTTAAATTTTAATTTTTTT
1 TTTTTTTAAATTTTAAGTTTTTT
* *
12725189 TTTTTTTTATTTTTAAGTTTTT
1 TTTTTTTAAATTTTAAGTTTTT
12725211 GAATATTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (23 bp):
TTTTTTTAAATTTTAAGTTTTTT
Found at i:12725436 original size:10 final size:10
Alignment explanation
Indices: 12725361--12725539 Score: 105
Period size: 10 Copynumber: 17.7 Consensus size: 10
12725351 TCTTTTTTTT
*
12725361 AATTTTTTATA
1 AATTTTTTA-G
*
12725372 AATTGTTT-G
1 AATTTTTTAG
12725381 AATTTTTTA-
1 AATTTTTTAG
**
12725390 AACATTTT-G
1 AATTTTTTAG
* *
12725399 AAATTTATTAC
1 -AATTTTTTAG
* *
12725410 AACTTTTTAA
1 AATTTTTTAG
*
12725420 AACTTTTTAG
1 AATTTTTTAG
12725430 AATTTTTTTAG
1 AA-TTTTTTAG
12725441 AATGTTTTT-G
1 AAT-TTTTTAG
* *
12725451 AATATTTTAA
1 AATTTTTTAG
*
12725461 AATTTGTTAG
1 AATTTTTTAG
*
12725471 AACTTTTTAG
1 AATTTTTTAG
* * *
12725481 AAATATTTAA
1 AATTTTTTAG
12725491 AATTCTTTTAG
1 AATT-TTTTAG
*
12725502 AATGTTTTAG
1 AATTTTTTAG
*
12725512 AATGTTTTAG
1 AATTTTTTAG
*
12725522 AAAATTTTTAG
1 -AATTTTTTAG
12725533 AATTTTT
1 AATTTTT
12725540 ATTTTTTAAA
Statistics
Matches: 128, Mismatches: 31, Indels: 19
0.72 0.17 0.11
Matches are distributed among these distances:
9 17 0.13
10 75 0.59
11 36 0.28
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.53
Consensus pattern (10 bp):
AATTTTTTAG
Found at i:12725459 original size:31 final size:30
Alignment explanation
Indices: 12725365--12725540 Score: 132
Period size: 31 Copynumber: 5.8 Consensus size: 30
12725355 TTTTTTAATT
* * *
12725365 TTTTATAAATTGTTT-GAATTTTTTA-AACA
1 TTTTAGAAATTTTTTAGAA-TTTTTAGAATA
* * *
12725394 TTTT-GAAATTTATTACAACTTTTTAAAACT-
1 TTTTAGAAATTTTTTAGAA-TTTTTAGAA-TA
* *
12725424 TTTTAGAATTTTTTTAGAATGTTTTTGAATA
1 TTTTAGAAATTTTTTAGAAT-TTTTAGAATA
*
12725455 TTTTA-AAATTTGTTAGAACTTTTTAGAA-A
1 TTTTAGAAATTTTTTAGAA-TTTTTAGAATA
*
12725484 TATTTA-AAATTCTTTTAGAATGTTTTAGAATG
1 T-TTTAGAAATT-TTTTAGAAT-TTTTAGAATA
*
12725516 TTTTAGAAAATTTTTAGAATTTTTA
1 TTTTAGAAATTTTTTAGAATTTTTA
12725541 TTTTTTAAAA
Statistics
Matches: 118, Mismatches: 17, Indels: 23
0.75 0.11 0.15
Matches are distributed among these distances:
28 7 0.06
29 14 0.12
30 41 0.35
31 51 0.43
32 5 0.04
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.53
Consensus pattern (30 bp):
TTTTAGAAATTTTTTAGAATTTTTAGAATA
Found at i:12725464 original size:61 final size:61
Alignment explanation
Indices: 12725380--12725520 Score: 169
Period size: 61 Copynumber: 2.3 Consensus size: 61
12725370 TAAATTGTTT
* * * * * *
12725380 GAAT-TTTTTAAACATTTTGAAATTTATTACAACTTTTTA-AAACTTTTTAGAATTTTTTTA
1 GAATGTTTTTGAATATTTTAAAATTTATTACAACTTTTTAGAAA-TATTTAAAATTCTTTTA
* *
12725440 GAATGTTTTTGAATATTTTAAAATTTGTTAGAACTTTTTAGAAATATTTAAAATTCTTTTA
1 GAATGTTTTTGAATATTTTAAAATTTATTACAACTTTTTAGAAATATTTAAAATTCTTTTA
* *
12725501 GAATGTTTTAGAATGTTTTA
1 GAATGTTTTTGAATATTTTA
12725521 GAAAATTTTT
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
60 4 0.06
61 62 0.90
62 3 0.04
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.52
Consensus pattern (61 bp):
GAATGTTTTTGAATATTTTAAAATTTATTACAACTTTTTAGAAATATTTAAAATTCTTTTA
Found at i:12725475 original size:51 final size:53
Alignment explanation
Indices: 12725414--12725539 Score: 138
Period size: 51 Copynumber: 2.5 Consensus size: 53
12725404 TATTACAACT
*
12725414 TTTTA-AAACTTTTTAGAATTTTTTTAGAATGT-TTTT-GAATATTTTAAAAT-
1 TTTTAGAAACTTTTTAGAATTTTTTTAAAAT-TCTTTTAGAATATTTTAAAATG
* * * *
12725464 TTGTTAG-AACTTTTTAGAA-ATATTTAAAATTCTTTTAGAATGTTTTAGAATG
1 TT-TTAGAAACTTTTTAGAATTTTTTTAAAATTCTTTTAGAATATTTTAAAATG
*
12725516 TTTTAGAAAATTTTTAGAATTTTT
1 TTTTAGAAACTTTTTAGAATTTTT
12725540 ATTTTTTAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
49 1 0.02
50 14 0.23
51 31 0.51
52 13 0.21
53 2 0.03
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.53
Consensus pattern (53 bp):
TTTTAGAAACTTTTTAGAATTTTTTTAAAATTCTTTTAGAATATTTTAAAATG
Found at i:12726553 original size:15 final size:15
Alignment explanation
Indices: 12726533--12726567 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
12726523 TCTACATTTA
12726533 AATAACAACAACAAC
1 AATAACAACAACAAC
12726548 AATAACAACAACAAC
1 AATAACAACAACAAC
12726563 AATAA
1 AATAA
12726568 TAATAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.69, C:0.23, G:0.00, T:0.09
Consensus pattern (15 bp):
AATAACAACAACAAC
Found at i:12729889 original size:3 final size:3
Alignment explanation
Indices: 12729881--12729933 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
12729871 ATTCTCATAG
12729881 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
12729929 TAA TA
1 TAA TA
12729934 TCAAAATTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:12741765 original size:26 final size:26
Alignment explanation
Indices: 12741732--12741823 Score: 103
Period size: 30 Copynumber: 3.3 Consensus size: 26
12741722 TTTTATTCCC
*
12741732 TAATTAAACTTTTAAATTGTTTTTTT
1 TAATTAAACTTTTAAATTATTTTTTT
*
12741758 TAATTAAACTCTTAAAGTGTAATTTTTGTT
1 TAATTAAACTTTTAAA-T-T-ATTTTT-TT
* *
12741788 TAATTAAACATTTAAAATATTATTTTT
1 TAATTAAACTTTTAAATTATT-TTTTT
12741815 TAATTAAAC
1 TAATTAAAC
12741824 ATCTATTTTA
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
26 15 0.27
27 15 0.27
28 5 0.09
29 5 0.09
30 16 0.29
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.52
Consensus pattern (26 bp):
TAATTAAACTTTTAAATTATTTTTTT
Found at i:12742837 original size:16 final size:19
Alignment explanation
Indices: 12742796--12742839 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
12742786 ATATAATTAA
12742796 ATAATAAATATATTTATTG
1 ATAATAAATATATTTATTG
12742815 ATAAATAAAT-TATTT-TT-
1 AT-AATAAATATATTTATTG
12742832 ATAATAAA
1 ATAATAAA
12742840 AATTATGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 6 0.25
17 2 0.08
18 2 0.08
19 7 0.29
20 7 0.29
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAATAAATATATTTATTG
Found at i:12749947 original size:2 final size:2
Alignment explanation
Indices: 12749888--12749933 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
12749878 ATGGAATGAA
12749888 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
12749930 AG AG
1 AG AG
12749934 CACCTGCAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:12750279 original size:10 final size:10
Alignment explanation
Indices: 12750264--12750310 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
12750254 GAAGTAGGGA
12750264 TAATTAATTT
1 TAATTAATTT
12750274 TAATTAATTT
1 TAATTAATTT
* *
12750284 AAAATAATATT
1 TAATTAAT-TT
12750295 TATATT-ATTT
1 TA-ATTAATTT
12750305 TAATTA
1 TAATTA
12750311 TTTATTAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
9 3 0.10
10 20 0.67
11 5 0.17
12 2 0.07
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (10 bp):
TAATTAATTT
Found at i:12750301 original size:22 final size:20
Alignment explanation
Indices: 12750268--12750307 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
12750258 TAGGGATAAT
12750268 TAATTTTAATTAATTTAAAA
1 TAATTTTAATTAATTTAAAA
*
12750288 TAATATTTATATTATTTTAA
1 TAAT-TTTA-ATTAATTTAA
12750308 TTATTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 4 0.24
22 9 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TAATTTTAATTAATTTAAAA
Found at i:12758279 original size:4 final size:4
Alignment explanation
Indices: 12758270--12758318 Score: 62
Period size: 4 Copynumber: 12.2 Consensus size: 4
12758260 TTTATTTTCC
* * **
12758270 TTAT TTAT TTAT TTAT TTAT CTAT TTAT TTTT TTGC TTAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
12758318 T
1 T
12758319 GGTTAAATTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:12758512 original size:58 final size:56
Alignment explanation
Indices: 12758411--12758518 Score: 146
Period size: 56 Copynumber: 1.9 Consensus size: 56
12758401 AAATATTTTC
* * * *
12758411 TAGGAAAAATTGAAGGTATTAATTTTTCTTGAAAACAAAAATTTCAAAAATGTTTG
1 TAGGAAAAATTGAAAGTATCAATTTTTCTTAAAAAAAAAAATTTCAAAAATGTTTG
12758467 TAGGAAAAATTGAAAGTATCAATTTTT-TTAAAAAAATAAAAAATTTCAAAAA
1 TAGGAAAAATTGAAAGTATCAATTTTTCTT--AAAAA-AAAAAATTTCAAAAA
12758519 ATATTTTAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
55 2 0.04
56 25 0.56
57 4 0.09
58 14 0.31
ACGTcount: A:0.51, C:0.05, G:0.11, T:0.33
Consensus pattern (56 bp):
TAGGAAAAATTGAAAGTATCAATTTTTCTTAAAAAAAAAAATTTCAAAAATGTTTG
Found at i:12758757 original size:60 final size:58
Alignment explanation
Indices: 12758638--12758910 Score: 211
Period size: 59 Copynumber: 4.7 Consensus size: 58
12758628 AAAAAATAAA
* * **
12758638 AAAAAATCATTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAGATGAAATTTTC
1 AAAAAATCATTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTAAAAAATGAAAAATTC
** *
12758696 AAAAAAT-ATTTTTCGAAGAAAGATTGAAAGTATCAATTTTT-TAAAATAAATTAAAAATTC
1 AAAAAATCATTTTAAGAA-AAAG-TTGAAAGTATCAATTTTTCT-AAA-AAATGAAAAATTC
* * * ** * * *
12758756 AAAAAA-CACTTTAACG-AAAAGTTGAAAGTATCAGTCTTTCTTGAAAGT-AATATTTC
1 AAAAAATCATTTTAA-GAAAAAGTTGAAAGTATCAATTTTTCTAAAAAATGAAAAATTC
* *
12758812 AAAGAAAACATTTTAA-AGAAAAGTT-AAAGGTATCAATTTTCCTAAAAAAAT-AAAAATTTC
1 AAA-AAATCATTTTAAGA-AAAAGTTGAAA-GTATCAATTTTTCT-AAAAAATGAAAAA-TTC
* ** *
12758872 AAAAGATGTTTTTGAGAAAAAGTTGAAAGTATCAATTTT
1 AAAAAATCATTTTAAGAAAAAGTTGAAAGTATCAATTTT
12758911 CCTTGAATAA
Statistics
Matches: 168, Mismatches: 31, Indels: 31
0.73 0.13 0.13
Matches are distributed among these distances:
56 9 0.05
57 17 0.10
58 54 0.32
59 57 0.34
60 30 0.18
61 1 0.01
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.33
Consensus pattern (58 bp):
AAAAAATCATTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTAAAAAATGAAAAATTC
Found at i:12769152 original size:15 final size:15
Alignment explanation
Indices: 12769132--12769167 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
12769122 TTGTAGGGAT
12769132 TTTTATTCATTTTTA
1 TTTTATTCATTTTTA
*
12769147 TTTTATTTATTTTTA
1 TTTTATTCATTTTTA
12769162 TTTTAT
1 TTTTAT
12769168 ATTTATCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTATTCATTTTTA
Found at i:12770388 original size:21 final size:21
Alignment explanation
Indices: 12770346--12770389 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
12770336 ATTAAAATTA
*
12770346 TTTTTTAAATAAAATGACTAAT
1 TTTTTTAAATAAAA-GAATAAT
12770368 TTTTCTTAAATAAAA-AATAAT
1 TTTT-TTAAATAAAAGAATAAT
12770389 T
1 T
12770390 CTCATAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
22 4 0.20
23 10 0.50
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (21 bp):
TTTTTTAAATAAAAGAATAAT
Found at i:12770646 original size:56 final size:56
Alignment explanation
Indices: 12770397--12770660 Score: 309
Period size: 56 Copynumber: 4.7 Consensus size: 56
12770387 ATTCTCATAA
* * * *
12770397 AAAAATATTTTTAAGGAAAAATTGAAAGTATCACTTTTTCTTGAAAATAAAATTTT
1 AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTT
* * ** **
12770453 AAAAAATATTTTTGAGTAAAAGTTAAAAGTATCAATTTTT-AAAAAAATAAAATTAA
1 -AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTT
* * * *
12770509 AAAAATATATTTT-AGGAAATGTTGAAAGTATCAATTTTCCTTAAAGATGAAATTTT
1 AAAAATAT-TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTT
*
12770565 CAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATATTTT
1 --AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-ATTTT
* *
12770624 CAAAAT-GTTTTGAGGAAAAGTTGAAAGTATCAATTTT
1 AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
12770661 CCTTGTATAA
Statistics
Matches: 173, Mismatches: 28, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
55 30 0.17
56 54 0.31
57 43 0.25
58 41 0.24
59 5 0.03
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.38
Consensus pattern (56 bp):
AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTT
Found at i:12774202 original size:13 final size:13
Alignment explanation
Indices: 12774180--12774223 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
12774170 TAAAAGTCTC
*
12774180 AAAGATAGAAAGA
1 AAAGAAAGAAAGA
12774193 AAAGAAAGAAAGA
1 AAAGAAAGAAAGA
*
12774206 AAAGCAAAACAAAGA
1 AAAG--AAAGAAAGA
12774221 AAA
1 AAA
12774224 AGATAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 16 0.59
15 11 0.41
ACGTcount: A:0.75, C:0.05, G:0.18, T:0.02
Consensus pattern (13 bp):
AAAGAAAGAAAGA
Found at i:12774634 original size:24 final size:23
Alignment explanation
Indices: 12774607--12774663 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
12774597 AGATGAAAAA
12774607 AAAAGAAAAAGAAAA-AAAAAGATG
1 AAAA-AAAAAGAAAATAAAAAGA-G
*
12774631 AAAAATGAAAGAAAATAAAAAGAG
1 AAAAA-AAAAGAAAATAAAAAGAG
*
12774655 AAAATAAAA
1 AAAAAAAAA
12774664 TTAAAATGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 4 0.14
24 17 0.61
25 7 0.25
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (23 bp):
AAAAAAAAAGAAAATAAAAAGAG
Found at i:12774658 original size:13 final size:13
Alignment explanation
Indices: 12774593--12774663 Score: 51
Period size: 13 Copynumber: 5.3 Consensus size: 13
12774583 ACAATGGATG
12774593 AAAAAGATGAAAA-
1 AAAAAGA-GAAAAT
*
12774606 AAAAAGA-AAAAG
1 AAAAAGAGAAAAT
12774618 AAAAA-A-AAAGAT
1 AAAAAGAGAAA-AT
12774630 GAAAAATGAAAGAAAAT
1 -AAAAA-G--AGAAAAT
12774647 AAAAAGAGAAAAT
1 AAAAAGAGAAAAT
12774660 AAAA
1 AAAA
12774664 TTAAAATGAA
Statistics
Matches: 49, Mismatches: 1, Indels: 16
0.74 0.02 0.24
Matches are distributed among these distances:
11 8 0.16
12 6 0.12
13 23 0.47
15 1 0.02
16 5 0.10
17 3 0.06
18 3 0.06
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (13 bp):
AAAAAGAGAAAAT
Found at i:12775992 original size:21 final size:21
Alignment explanation
Indices: 12775941--12776323 Score: 194
Period size: 21 Copynumber: 18.7 Consensus size: 21
12775931 CTAATTTCTT
12775941 AAATGAGAATCTTTAAGAAATCTTC
1 AAATGAGAATCTTT--G-AAT-TTC
* *
12775966 AAATGATAATCTTTGAATTTT
1 AAATGAGAATCTTTGAATTTC
*
12775987 AAATGAGAATCTTT-AAGTATC
1 AAATGAGAATCTTTGAA-TTTC
* * *
12776008 AAATGAGAATCTTTGAGGTGTG
1 AAATGAGAATCTTTGA-ATTTC
* *
12776030 AAACTCA-AA-ATTT--A-TT-
1 AAA-TGAGAATCTTTGAATTTC
* * *
12776046 GAATGTGAATTTTTGAAT-TC
1 AAATGAGAATCTTTGAATTTC
* *
12776066 AAATGAGAATTTTTAAATTTC
1 AAATGAGAATCTTTGAATTTC
*
12776087 AAATGAGAATATTTGAATTTC
1 AAATGAGAATCTTTGAATTTC
* * * *
12776108 AAAAGAGAATTTTTAAATCTC
1 AAATGAGAATCTTTGAATTTC
* *
12776129 AAATAAGAATCTTT-AAGTGTC
1 AAATGAGAATCTTTGAA-TTTC
* * *
12776150 GAATGTGAATCTTTGAA-GTC
1 AAATGAGAATCTTTGAATTTC
* * **
12776170 AAATGTGAATC-TTCAAAGTC
1 AAATGAGAATCTTTGAATTTC
*
12776190 AAATGAGAAT-TTTTAATTTC
1 AAATGAGAATCTTTGAATTTC
12776210 AAATGAGAATCTTTGAATTTC
1 AAATGAGAATCTTTGAATTTC
* * *
12776231 AAATGAGAATATTT-AAGGTGTG
1 AAATGAGAATCTTTGAA--TTTC
* *
12776253 AAACTCA-AA-ATTT--A--TC
1 AAA-TGAGAATCTTTGAATTTC
* * *
12776269 GAATGTGAATCTTTGAA-CTC
1 AAATGAGAATCTTTGAATTTC
*
12776289 AAATTAGAATCTTTGAATTTC
1 AAATGAGAATCTTTGAATTTC
12776310 AAATGAGAATCTTT
1 AAATGAGAATCTTT
12776324 TAGGTATGAA
Statistics
Matches: 280, Mismatches: 53, Indels: 54
0.72 0.14 0.14
Matches are distributed among these distances:
15 2 0.01
16 9 0.03
17 7 0.03
19 7 0.03
20 79 0.28
21 138 0.49
22 20 0.07
23 5 0.02
25 13 0.05
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.37
Consensus pattern (21 bp):
AAATGAGAATCTTTGAATTTC
Found at i:12776298 original size:79 final size:79
Alignment explanation
Indices: 12776208--12776533 Score: 436
Period size: 79 Copynumber: 4.0 Consensus size: 79
12776198 ATTTTTAATT
* *
12776208 TCAAATGAGAATCTTTGAATTTCAAATGAGAATATTTAAGGTGTGAAACTCAAAATTTATCGAAT
1 TCAAATGAGAATCTTTGAATTTCAAATGAGAATCTTTAAGGTGTGAAACCCAAAATTTATCGAAT
*
12776273 GTGAATCTTTGAAC
66 GTGAATCTTCGAAC
* * * *
12776287 TCAAATTAGAATCTTTGAATTTCAAATGAGAATCTTTTAGGTATGAAACCCAAAATTTGTCGAAT
1 TCAAATGAGAATCTTTGAATTTCAAATGAGAATCTTTAAGGTGTGAAACCCAAAATTTATCGAAT
* *
12776352 GTGAATCTTCAAAT
66 GTGAATCTTCGAAC
* *
12776366 TCAAATGAGAATCTTTGAATTTCGAATGAGAATCTTTAAGGTGTGAAACCTAAAATTTTTAAAAT
1 TCAAATGAGAATCTTTGAATTTCAAATGAGAATCTTTAAGGTGTGAAACCCAAAA--TTT---A-
12776431 TTCTCGAATGTGAATCTTCGAAC
60 ---TCGAATGTGAATCTTCGAAC
* * *
12776454 TCAAATGAGAATCTTTGAATTTCAAATAAGAATCTTTAAGGTGTTAAACCCAAAATTTATCGGAT
1 TCAAATGAGAATCTTTGAATTTCAAATGAGAATCTTTAAGGTGTGAAACCCAAAATTTATCGAAT
*
12776519 GTGAATCTTTGAAC
66 GTGAATCTTCGAAC
12776533 T
1 T
12776534 AGAATAAAAA
Statistics
Matches: 215, Mismatches: 23, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
79 139 0.65
81 3 0.01
83 1 0.00
86 3 0.01
88 69 0.32
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (79 bp):
TCAAATGAGAATCTTTGAATTTCAAATGAGAATCTTTAAGGTGTGAAACCCAAAATTTATCGAAT
GTGAATCTTCGAAC
Found at i:12776395 original size:21 final size:21
Alignment explanation
Indices: 12776346--12776402 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
12776336 CCAAAATTTG
*
12776346 TCGAATGTGAATC-TTCAAAT
1 TCGAATGAGAATCTTTCAAAT
* * *
12776366 TCAAATGAGAATCTTTGAATT
1 TCGAATGAGAATCTTTCAAAT
12776387 TCGAATGAGAATCTTT
1 TCGAATGAGAATCTTT
12776403 AAGGTGTGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
20 11 0.35
21 20 0.65
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (21 bp):
TCGAATGAGAATCTTTCAAAT
Found at i:12776465 original size:20 final size:21
Alignment explanation
Indices: 12776432--12776489 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
12776422 TTTTAAAATT
* *
12776432 TCTCGAATGTGAATCTTCGAA
1 TCTCAAATGAGAATCTTCGAA
*
12776453 -CTCAAATGAGAATCTTTGAA
1 TCTCAAATGAGAATCTTCGAA
* *
12776473 TTTCAAATAAGAATCTT
1 TCTCAAATGAGAATCTT
12776490 TAAGGTGTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 17 0.55
21 14 0.45
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (21 bp):
TCTCAAATGAGAATCTTCGAA
Found at i:12776480 original size:21 final size:20
Alignment explanation
Indices: 12776437--12776490 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
12776427 AAATTTCTCG
* *
12776437 AATGTGAATCTTCGAACTCA
1 AATGAGAATCTTTGAACTCA
*
12776457 AATGAGAATCTTTGAATTTCA
1 AATGAGAATCTTTGAA-CTCA
*
12776478 AATAAGAATCTTT
1 AATGAGAATCTTT
12776491 AAGGTGTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGAGAATCTTTGAACTCA
Found at i:12776487 original size:88 final size:88
Alignment explanation
Indices: 12776338--12776511 Score: 285
Period size: 88 Copynumber: 2.0 Consensus size: 88
12776328 TATGAAACCC
* * * *
12776338 AAAATTTGTCGAATGTGAATCTTCAAATTCAAATGAGAATCTTTGAATTTCGAATGAGAATCTTT
1 AAAATTTCTCGAATGTGAATCTTCAAACTCAAATGAGAATCTTTGAATTTCAAATAAGAATCTTT
*
12776403 AAGGTGTGAAACCTAAAATTTTT
66 AAGGTGTGAAACCCAAAATTTTT
*
12776426 AAAATTTCTCGAATGTGAATCTTCGAACTCAAATGAGAATCTTTGAATTTCAAATAAGAATCTTT
1 AAAATTTCTCGAATGTGAATCTTCAAACTCAAATGAGAATCTTTGAATTTCAAATAAGAATCTTT
*
12776491 AAGGTGTTAAACCCAAAATTT
66 AAGGTGTGAAACCCAAAATTT
12776512 ATCGGATGTG
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 79 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (88 bp):
AAAATTTCTCGAATGTGAATCTTCAAACTCAAATGAGAATCTTTGAATTTCAAATAAGAATCTTT
AAGGTGTGAAACCCAAAATTTTT
Found at i:12776488 original size:167 final size:158
Alignment explanation
Indices: 12776207--12776527 Score: 455
Period size: 167 Copynumber: 2.0 Consensus size: 158
12776197 AATTTTTAAT
12776207 TTCAAATGAGAATCTTTGAATTTCAAATGAGAATATTTAAGGTGTGAAACTCAAAATTTATCGAA
1 TTCAAATGAGAATCTTTGAATTTCAAATGAGAATATTTAAGGTGTGAAACTCAAAATTTATCGAA
* * * *
12776272 TGTGAATCTTTGAACTCAAATTAGAATCTTTGAATTTCAAATGAGAATCTTTTAGGTATGAAACC
66 TGTGAATCTTCGAACTCAAATGAGAATCTTTGAATTTCAAATAAGAATCTTTAAGGTATGAAACC
*
12776337 CAAAATTTGTCGAATGTGAATCTTCAAA
131 CAAAATTTATCGAATGTGAATCTTCAAA
* *
12776365 TTCAAATGAGAATCTTTGAATTTCGAATGAGAATCTTTAAGGTGTGAAAC-CTAAAATTTTTAAA
1 TTCAAATGAGAATCTTTGAATTTCAAATGAGAATATTTAAGGTGTGAAACTC-AAAA--TTT---
12776429 ATTTCTCGAATGTGAATCTTCGAACTCAAATGAGAATCTTTGAATTTCAAATAAGAATCTTTAAG
60 A----TCGAATGTGAATCTTCGAACTCAAATGAGAATCTTTGAATTTCAAATAAGAATCTTTAAG
* * *
12776494 GTGTTAAACCCAAAATTTATCGGATGTGAATCTT
121 GTATGAAACCCAAAATTTATCGAATGTGAATCTT
12776528 TGAACTAGAA
Statistics
Matches: 143, Mismatches: 10, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
157 1 0.01
158 52 0.36
160 3 0.02
163 1 0.01
167 86 0.60
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (158 bp):
TTCAAATGAGAATCTTTGAATTTCAAATGAGAATATTTAAGGTGTGAAACTCAAAATTTATCGAA
TGTGAATCTTCGAACTCAAATGAGAATCTTTGAATTTCAAATAAGAATCTTTAAGGTATGAAACC
CAAAATTTATCGAATGTGAATCTTCAAA
Found at i:12777026 original size:22 final size:23
Alignment explanation
Indices: 12776986--12777029 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
12776976 ATTAGAGGAG
12776986 CTTTATTTATTTTTCCAAAGTCA
1 CTTTATTTATTTTTCCAAAGTCA
*
12777009 CTTTGTTTATTTTT-CAAAGTC
1 CTTTATTTATTTTTCCAAAGTC
12777030 GTTGAGCCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.23, C:0.16, G:0.07, T:0.55
Consensus pattern (23 bp):
CTTTATTTATTTTTCCAAAGTCA
Found at i:12777116 original size:41 final size:41
Alignment explanation
Indices: 12777014--12777145 Score: 146
Period size: 38 Copynumber: 3.3 Consensus size: 41
12777004 AGTCACTTTG
** * *
12777014 TTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAACCT
1 TTTATTTTTTTAAGTCATTGAGCCTCTGTTTAGAGGAGCCT
* *
12777055 TTTA---TTTTAAGTCGTTGAGCCTCCGTTTAGAGGAGCCT
1 TTTATTTTTTTAAGTCATTGAGCCTCTGTTTAGAGGAGCCT
* ** *
12777093 TTTATTTTTTTAAGTTATTGAGCCTCTACTTAGGGGAGCC-
1 TTTATTTTTTTAAGTCATTGAGCCTCTGTTTAGAGGAGCCT
12777133 TTTATTTTTTTAA
1 TTTATTTTTTTAA
12777146 AAGTTGACAG
Statistics
Matches: 78, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
38 34 0.44
40 13 0.17
41 31 0.40
ACGTcount: A:0.20, C:0.15, G:0.19, T:0.45
Consensus pattern (41 bp):
TTTATTTTTTTAAGTCATTGAGCCTCTGTTTAGAGGAGCCT
Found at i:12777420 original size:28 final size:29
Alignment explanation
Indices: 12777388--12777449 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 29
12777378 TTTCATTTCA
* *
12777388 TATTTTTATTTTGTA-TTTATCATATT-TT
1 TATTTTTATTTTATAGTCTATC-TATTGTT
12777416 TA-TTTTATTTTATAGTCTATCTATTGTT
1 TATTTTTATTTTATAGTCTATCTATTGTT
12777444 TATTTT
1 TATTTT
12777450 CTTTTTCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
27 15 0.52
28 11 0.38
29 3 0.10
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (29 bp):
TATTTTTATTTTATAGTCTATCTATTGTT
Found at i:12777421 original size:27 final size:28
Alignment explanation
Indices: 12777391--12777454 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
12777381 CATTTCATAT
* *
12777391 TTTTATTTTGTA-TTTATCATATT-TTTA
1 TTTTATTTTATAGTCTATC-TATTGTTTA
12777418 TTTTATTTTATAGTCTATCTATTGTTTA
1 TTTTATTTTATAGTCTATCTATTGTTTA
*
12777446 TTTTCTTTT
1 TTTTATTTT
12777455 TCTTTCTTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 15 0.47
28 17 0.53
ACGTcount: A:0.19, C:0.06, G:0.05, T:0.70
Consensus pattern (28 bp):
TTTTATTTTATAGTCTATCTATTGTTTA
Found at i:12778723 original size:58 final size:59
Alignment explanation
Indices: 12778627--12778786 Score: 238
Period size: 58 Copynumber: 2.8 Consensus size: 59
12778617 ATAATTCTCA
* * *
12778627 TAAAAAACATTTTTAAGGAAAAA-TT-AAAGTATCAATTTTCCTTGAAA-ATAAAGTTTT
1 TAAAAAATATTTTTGA-GAAAAAGTTGAAAGTATCAATTTTCCTTGAAAGATAAAATTTT
*
12778684 TAAAAAATATTTTTGAGAAAAAGTTGAAAGTCTCAATTTTCCTT-AAAGATAAAATTTT
1 TAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAGATAAAATTTT
*
12778742 CAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTG
1 TAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTG
12778787 TATAAAAGCA
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
56 6 0.06
57 19 0.20
58 68 0.73
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (59 bp):
TAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAGATAAAATTTT
Found at i:12779888 original size:62 final size:64
Alignment explanation
Indices: 12779735--12779911 Score: 189
Period size: 65 Copynumber: 2.8 Consensus size: 64
12779725 AGTTTTTTAA
* * * * * * * *
12779735 AAAAAAAAAAAAGAGTTCAAATGGAAAACCAATAAAGGGCGGCTTGAGTTTAAAAAAATAAAAAT
1 AAAACAAAAAAA-AGCTCAAATTGAAAACCCATAAAGGACAGTTTGAGTTTAAAAAAAAAAAAAT
*
12779800 AAAAGCAAAAAAAAGCTCAAATTGAAAACCCGT-AAGGACAGTTTGAGTTTAAAAAAAGAAAAAA
1 AAAA-CAAAAAAAAGCTCAAATTGAAAACCCATAAAGGACAGTTTGAGTTTAAAAAAA-AAAAAA
12779864 T
64 T
* * * *
12779865 -AAA-TAAATAAAGCTTAAATTGAAAACCCATAAAGGGCAGTTTGAGTT
1 AAAACAAAAAAAAGCTCAAATTGAAAACCCATAAAGGACAGTTTGAGTT
12779912 AGGAAATGAT
Statistics
Matches: 95, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
62 23 0.24
63 15 0.16
64 24 0.25
65 26 0.27
66 7 0.07
ACGTcount: A:0.55, C:0.10, G:0.16, T:0.19
Consensus pattern (64 bp):
AAAACAAAAAAAAGCTCAAATTGAAAACCCATAAAGGACAGTTTGAGTTTAAAAAAAAAAAAAT
Found at i:12780851 original size:83 final size:84
Alignment explanation
Indices: 12780711--12780925 Score: 240
Period size: 83 Copynumber: 2.6 Consensus size: 84
12780701 AGACTTCAGT
* * *
12780711 TTCATCTAGGTCATTTTATTTTGGATTTAAACCTATGCCAGATCCATTATTACGTCAATCCC-GA
1 TTCATCTAGGTCATTTTGTTTTGGATTTCAACCTATGCCAGATCCATTATGACGTCAATCCCAG-
*
12780775 TTACTTATCTTAAACTT-GA
65 TTACTTAACTTAAACTTCGA
* * * * * *
12780794 TTCATCCAGGTCATTTTGTTTTAGATTTCGACCTATTCCAGATCTA-TACTCGA-GTCAATCTCA
1 TTCATCTAGGTCATTTTGTTTTGGATTTCAACCTATGCCAGATCCATTA-T-GACGTCAATCCCA
* * *
12780857 GTTACTTAACTTAGATTTCGG
64 GTTACTTAACTTAAACTTCGA
*
12780878 TTCCATCTAGGTCATTTTGTTTTGGATTTCAACCTATGCCAAATCCAT
1 TT-CATCTAGGTCATTTTGTTTTGGATTTCAACCTATGCCAGATCCAT
12780926 CCACAGTCAG
Statistics
Matches: 107, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
82 2 0.02
83 62 0.58
84 5 0.05
85 38 0.36
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.41
Consensus pattern (84 bp):
TTCATCTAGGTCATTTTGTTTTGGATTTCAACCTATGCCAGATCCATTATGACGTCAATCCCAGT
TACTTAACTTAAACTTCGA
Found at i:12780985 original size:84 final size:86
Alignment explanation
Indices: 12780882--12781093 Score: 268
Period size: 86 Copynumber: 2.5 Consensus size: 86
12780872 TTTCGGTTCC
* *
12780882 ATCTAGGTCATTTTGTTTTGGATTTCAACCTATGCCAAATCCATCCAC-AGTCAGTCC-AAGTTA
1 ATCTAGGTCATTTTGTTTTGGATTTCAGCCTATGCCAAATCCATCCACGAGTCAGTCCAAAATTA
* * *
12780945 CTTATTTCATACTTCGATTTG
66 CTTATTTCAGACTTCCATTTA
* * * * ** *
12780966 GT-TCAGGTCATTTTATTTTGGGTTTCAGCCTATGCCAAATCCTTCTTCGATTCAGTCCAAAATT
1 ATCT-AGGTCATTTTGTTTTGGATTTCAGCCTATGCCAAATCCATCCACGAGTCAGTCCAAAATT
*
12781030 ATTTATTTCAGACTTCCATTTA
65 ACTTATTTCAGACTTCCATTTA
*
12781052 ATCTAGGTCATTTTGTTTTGGATTTCAGCCAATGCCAAATCC
1 ATCTAGGTCATTTTGTTTTGGATTTCAGCCTATGCCAAATCC
12781094 TTCTTTGGTT
Statistics
Matches: 107, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
83 1 0.01
84 39 0.36
85 8 0.07
86 58 0.54
87 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.41
Consensus pattern (86 bp):
ATCTAGGTCATTTTGTTTTGGATTTCAGCCTATGCCAAATCCATCCACGAGTCAGTCCAAAATTA
CTTATTTCAGACTTCCATTTA
Found at i:12781161 original size:85 final size:85
Alignment explanation
Indices: 12780873--12781471 Score: 444
Period size: 85 Copynumber: 7.0 Consensus size: 85
12780863 TAACTTAGAT
* * * **** *
12780873 TTCGGTTCCA-TCTAGGTCATTTTGTTTTGGATTTCAACCTATGCCAAATCCATCCACAG-TCAG
1 TTCGGTT-CAGTCTAGGTCATTTTGTTTTAGATTTCAGCCTATGCCAAATCCTTCTTTGGTTTAG
* *
12780936 TCCAAGTTACTTATTTCATAC
65 TCCAAGTTATTTATTTCAAAC
* ** * * * * * *
12780957 TTCGATTTGGT-TCAGGTCATTTTATTTTGGGTTTCAGCCTATGCCAAATCCTTCTTCGATTCAG
1 TTCGGTTCAGTCT-AGGTCATTTTGTTTTAGATTTCAGCCTATGCCAAATCCTTCTTTGGTTTAG
* *
12781021 TCCAAAATTATTTATTTCAGAC
65 TCC-AAGTTATTTATTTCAAAC
** * * * *
12781043 TTCCATTTAATCTAGGTCATTTTGTTTTGGATTTCAGCCAATGCCAAATCCTTCTTTGGTTTAGT
1 TTCGGTTCAGTCTAGGTCATTTTGTTTTAGATTTCAGCCTATGCCAAATCCTTCTTTGGTTTAGT
* *
12781108 CCAAATTATTTATTTAAAAC
66 CCAAGTTATTTATTTCAAAC
* * * *
12781128 TTCGGTTCAGTCTAGATCATTTTGTTTTAGATTTC-GACCTATGCCAGATCCTT-TTTCAGTTCA
1 TTCGGTTCAGTCTAGGTCATTTTGTTTTAGATTTCAG-CCTATGCCAAATCCTTCTTT-GGTTTA
*
12781191 ATCCAAGTTATTTATTTCAAAC
64 GTCCAAGTTATTTATTTCAAAC
* * * **** *
12781213 TTTGGTTCAGT-TCAGGTCATTTTGTTTTAGATTTTAGCTTATGATTGATCCTTTTTTGGTTTAG
1 TTCGGTTCAGTCT-AGGTCATTTTGTTTTAGATTTCAGCCTATGCCAAATCCTTCTTTGGTTTAG
* * *
12781277 TCCAAGTTATTCATTTTAGAC
65 TCCAAGTTATTTATTTCAAAC
* * *
12781298 TTCGGTTTCA-TCTAGGTCATTTTGTTTTAGATTTC-GACCTATGCCACATCATTTTTTGGTTT-
1 TTCGG-TTCAGTCTAGGTCATTTTGTTTTAGATTTCAG-CCTATGCCAAATCCTTCTTTGGTTTA
**
12781360 GATTTAAGTTATTTATTTCAAAC
64 G-TCCAAGTTATTTATTTCAAAC
* * * * * * * * ** * * * *
12781383 TTTGATTCAGTCCAAGTCATTTTATTTTGGATTT-TGACTTATATCAGATCTTTTTTTGGTTCAG
1 TTCGGTTCAGTCTAGGTCATTTTGTTTTAGATTTCAG-CCTATGCCAAATCCTTCTTTGGTTTAG
* *
12781447 TCTAAGTTATTTATTTCAGAC
65 TCCAAGTTATTTATTTCAAAC
12781468 TTCG
1 TTCG
12781472 ATTTTATCTA
Statistics
Matches: 419, Mismatches: 79, Indels: 33
0.79 0.15 0.06
Matches are distributed among these distances:
83 1 0.00
84 56 0.13
85 280 0.67
86 81 0.19
87 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.14, T:0.46
Consensus pattern (85 bp):
TTCGGTTCAGTCTAGGTCATTTTGTTTTAGATTTCAGCCTATGCCAAATCCTTCTTTGGTTTAGT
CCAAGTTATTTATTTCAAAC
Found at i:12781170 original size:255 final size:255
Alignment explanation
Indices: 12780873--12781416 Score: 585
Period size: 255 Copynumber: 2.1 Consensus size: 255
12780863 TAACTTAGAT
* *
12780873 TTCGGTTCCA-TCTAGGTCATTTTGTTTTGGATTTCAACCTATGCCAAATCCATCCACAG-TCAG
1 TTCGGTT-CAGTCTAGATCATTTTGTTTTGGATTTCAACCTATGCCAAATCCATCCACAGTTCAA
* ** * * *
12780936 TCCAAGTTACTTATTTCATACTTCGATTTGGTTCAGGTCATTTTATTTTGGGTTTCAGCCTATGC
65 TCCAAGTTACTTATTTCAAACTTCGATTCAGTTCAGGTCATTTTATTTTAGATTTCAGCCTATGA
*
12781001 CAAATCCTTCTTCGATTCAGTCCAAAATTATTTATTTCAGACTTCCATTTAATCTAGGTCATTTT
130 CAAATCCTTCTTCGATTCAGTCC-AAATTATTCATTTCAGACTTCCATTTAATCTAGGTCATTTT
* *
12781066 GTTTTGGATTTC-AGCCAATGCCAAATCCTTCTTTGGTTT-AGTCCAAATTATTTATTTAAAAC
194 GTTTTAGATTTCGA-CCAATGCCAAATCATTCTTTGGTTTGA-TCCAAATTATTTATTTAAAAC
* * * * ***
12781128 TTCGGTTCAGTCTAGATCATTTTGTTTTAGATTTCGACCTATGCCAGATCCTTTTTCAGTTCAAT
1 TTCGGTTCAGTCTAGATCATTTTGTTTTGGATTTCAACCTATGCCAAATCCATCCACAGTTCAAT
* * * * * * *
12781193 CCAAGTTATTTATTTCAAACTTTGGTTCAGTTCAGGTCATTTTGTTTTAGATTTTAGCTTATGAT
66 CCAAGTTACTTATTTCAAACTTCGATTCAGTTCAGGTCATTTTATTTTAGATTTCAGCCTATGAC
** * * * * * * ** *
12781258 TGATCCTTTTTTGGTTTAGTCCAAGTTATTCATTTTAGACTTCGGTTTCATCTAGGTCATTTTGT
131 AAATCCTTCTTCGATTCAGTCCAAATTATTCATTTCAGACTTCCATTTAATCTAGGTCATTTTGT
* * * ** * *
12781323 TTTAGATTTCGACCTATGCCACATCATTTTTTGGTTTGATTTAAGTTATTTATTTCAAAC
196 TTTAGATTTCGACCAATGCCAAATCATTCTTTGGTTTGATCCAAATTATTTATTTAAAAC
* * * *
12781383 TTTGATTCAGTCCA-AGTCATTTTATTTTGGATTT
1 TTCGGTTCAGTCTAGA-TCATTTTGTTTTGGATTT
12781417 TGACTTATAT
Statistics
Matches: 236, Mismatches: 48, Indels: 10
0.80 0.16 0.03
Matches are distributed among these distances:
254 3 0.01
255 159 0.67
256 74 0.31
ACGTcount: A:0.22, C:0.18, G:0.14, T:0.46
Consensus pattern (255 bp):
TTCGGTTCAGTCTAGATCATTTTGTTTTGGATTTCAACCTATGCCAAATCCATCCACAGTTCAAT
CCAAGTTACTTATTTCAAACTTCGATTCAGTTCAGGTCATTTTATTTTAGATTTCAGCCTATGAC
AAATCCTTCTTCGATTCAGTCCAAATTATTCATTTCAGACTTCCATTTAATCTAGGTCATTTTGT
TTTAGATTTCGACCAATGCCAAATCATTCTTTGGTTTGATCCAAATTATTTATTTAAAAC
Found at i:12781204 original size:170 final size:167
Alignment explanation
Indices: 12780684--12781416 Score: 525
Period size: 170 Copynumber: 4.3 Consensus size: 167
12780674 TTTGGCTTAG
* * * *
12780684 TCCAAGTTATTCATTTCAGACTTCAGTTTC-ATCTAGGTCATTTTATTTTGGATTTAAACCTATG
1 TCCAAGTTATTTATTTCAGACTTC-GATTCAATCTAGGTCATTTTGTTTTGGATTTCAACCTATG
* * ** * ** *
12780748 CCAGATCCATTATTACGTCAATCCCGATTACTTATCTTAAACTT-GATTCATCCAGGTCATTTTG
65 CCAAATCC-TTCTTTGGTCAGTCCAAATTACTTAT-TTAAACTTCGATTCATCTAGGTCATTTTG
* **
12780812 TTTTAGATTTCGACCTATTCCAGAT-CTATACTCGAG-TCAA
128 TTTTAGATTTCGACCTATGCCAGATCCT-TTTTC-AGTTCAA
* * * * *
12780852 TCTC-AGTTACTTAACTT-AGATTTCGGTTCCATCTAGGTCATTTTGTTTTGGATTTCAACCTAT
1 TC-CAAGTTA-TTTATTTCAGACTTCGATTCAATCTAGGTCATTTTGTTTTGGATTTCAACCTAT
* **** * * **
12780915 GCCAAATCCATCCACAGTCAGTCCAAGTTACTTATTTCATACTTCGATTTGGT-TCAGGTCATTT
64 GCCAAATCCTTCTTTGGTCAGTCCAAATTACTTATTT-AAACTTCGA-TTCATCT-AGGTCATTT
* * * * * *
12780979 TATTTTGGGTTTC-AGCCTATGCCAAATCCTTCTTC-GATTCAG
126 TGTTTTAGATTTCGA-CCTATGCCAGATCCTTTTTCAG-TTCAA
* * * * *
12781021 TCCAAAATTATTTATTTCAGACTTCCATTTAATCTAGGTCATTTTGTTTTGGATTTCAGCCAATG
1 TCC-AAGTTATTTATTTCAGACTTCGATTCAATCTAGGTCATTTTGTTTTGGATTTCAACCTATG
* * * *
12781086 CCAAATCCTTCTTTGGTTTAGTCCAAATTATTTATTTAAAACTTCGGTTCAGTCTAGATCATTTT
65 CCAAATCCTTCTTTGG-TCAGTCCAAATTACTTATTT-AAACTTCGATTCA-TCTAGGTCATTTT
12781151 GTTTTAGATTTCGACCTATGCCAGATCCTTTTTCAGTTCAA
127 GTTTTAGATTTCGACCTATGCCAGATCCTTTTTCAGTTCAA
* * * * * * * *
12781192 TCCAAGTTATTTATTTCAAACTTTGGTTCAGT-TCAGGTCATTTTGTTTTAGATTTTAGCTTATG
1 TCCAAGTTATTTATTTCAGACTTCGATTCAATCT-AGGTCATTTTGTTTTGGATTTCAACCTATG
**** * * * * *
12781256 ATTGATCCTTTTTTGGTTTAGTCCAAGTTA-TTCATTTTAGACTTCGGTTTCATCTAGGTCATTT
65 CCAAATCCTTCTTTGG-TCAGTCCAAATTACTT-A-TTTAAACTTC-GATTCATCTAGGTCATTT
* * ** **
12781320 TGTTTTAGATTTCGACCTATGCCACATCATTTTTTGGTTTGA
126 TGTTTTAGATTTCGACCTATGCCAGATCCTTTTTCAGTTCAA
** * * * * * *
12781362 TTTAAGTTATTTATTTCAAACTTTGATTCAGTCCAAGTCATTTTATTTTGGATTT
1 TCCAAGTTATTTATTTCAGACTTCGATTCAATCTAGGTCATTTTGTTTTGGATTT
12781417 TGACTTATAT
Statistics
Matches: 449, Mismatches: 92, Indels: 46
0.76 0.16 0.08
Matches are distributed among these distances:
166 2 0.00
167 26 0.06
168 56 0.12
169 54 0.12
170 232 0.52
171 76 0.17
172 3 0.01
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.44
Consensus pattern (167 bp):
TCCAAGTTATTTATTTCAGACTTCGATTCAATCTAGGTCATTTTGTTTTGGATTTCAACCTATGC
CAAATCCTTCTTTGGTCAGTCCAAATTACTTATTTAAACTTCGATTCATCTAGGTCATTTTGTTT
TAGATTTCGACCTATGCCAGATCCTTTTTCAGTTCAA
Found at i:12781440 original size:170 final size:170
Alignment explanation
Indices: 12781090--12781488 Score: 507
Period size: 170 Copynumber: 2.3 Consensus size: 170
12781080 CCAATGCCAA
* * * *
12781090 ATCCTTCTTTGGTTTAGTCCAAATTATTTATTTAAAACTTCGG-TTCAGTCTAGATCATTTTGTT
1 ATCCTTTTTTGGTTTAGTCCAAGTTATTTATTTAAGACTTCGGTTTCA-TCTAGGTCATTTTGTT
* * *
12781154 TTAGATTTCGACCTATGCCAGATCCTTTTTCAGTTCAATCCAAGTTATTTATTTCAAACTTTGGT
65 TTAGATTTCGACCTATGCCACATCATTTTTCAGTTCAATCCAAGTTATTTATTTCAAACTTTGAT
* * * *
12781219 TCAGTTCAGGTCATTTTGTTTTAGATTTTAGCTTATGATTG
130 TCAGTCCAAGTCATTTTATTTTAGATTTTAGCTTATGATAG
* *
12781260 ATCCTTTTTTGGTTTAGTCCAAGTTATTCATTTTAGACTTCGGTTTCATCTAGGTCATTTTGTTT
1 ATCCTTTTTTGGTTTAGTCCAAGTTATTTATTTAAGACTTCGGTTTCATCTAGGTCATTTTGTTT
** ** **
12781325 TAGATTTCGACCTATGCCACATCATTTTTTGGTTTGATTTAAGTTATTTATTTCAAACTTTGATT
66 TAGATTTCGACCTATGCCACATCATTTTTCAGTTCAATCCAAGTTATTTATTTCAAACTTTGATT
*
12781390 CAGTCCAAGTCATTTTATTTTGGATTTT-GACTTAT-ATCAG
131 CAGTCCAAGTCATTTTATTTTAGATTTTAG-CTTATGAT-AG
* * * * * * *
12781430 ATCTTTTTTTGGTTCAGTCTAAGTTATTTATTTCAGACTTCGATTTTATCTAAGTCATT
1 ATCCTTTTTTGGTTTAGTCCAAGTTATTTATTTAAGACTTCGGTTTCATCTAGGTCATT
12781489 ACGTTTTTGA
Statistics
Matches: 198, Mismatches: 28, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
169 3 0.02
170 191 0.96
171 4 0.02
ACGTcount: A:0.22, C:0.15, G:0.14, T:0.49
Consensus pattern (170 bp):
ATCCTTTTTTGGTTTAGTCCAAGTTATTTATTTAAGACTTCGGTTTCATCTAGGTCATTTTGTTT
TAGATTTCGACCTATGCCACATCATTTTTCAGTTCAATCCAAGTTATTTATTTCAAACTTTGATT
CAGTCCAAGTCATTTTATTTTAGATTTTAGCTTATGATAG
Found at i:12782585 original size:22 final size:23
Alignment explanation
Indices: 12782550--12782595 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
12782540 TTTTTGCTTA
12782550 TTTATTTTAATTATCTTTTTATT
1 TTTATTTTAATTATCTTTTTATT
*
12782573 TTTA-TTTATTTATCTTTTTATT
1 TTTATTTTAATTATCTTTTTATT
12782595 T
1 T
12782596 ATTGGTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTATTTTAATTATCTTTTTATT
Found at i:12782594 original size:12 final size:12
Alignment explanation
Indices: 12782554--12782597 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
12782544 TGCTTATTTA
*
12782554 TTTTAATTATCT
1 TTTTATTTATCT
12782566 TTTTATTT-T-T
1 TTTTATTTATCT
*
12782576 ATTTATTTATCT
1 TTTTATTTATCT
12782588 TTTTATTTAT
1 TTTTATTTAT
12782598 TGGTTAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
10 8 0.30
11 2 0.07
12 17 0.63
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTTATTTATCT
Found at i:12782798 original size:59 final size:57
Alignment explanation
Indices: 12782679--12783242 Score: 349
Period size: 59 Copynumber: 9.7 Consensus size: 57
12782669 AATGACACAA
* * * * * * * *
12782679 AAAAATATTTTTAAAAAAAATTGAAAATATCAATTGTTATTGAAAA-CAAAAATTTC
1 AAAAATGTTTTTAAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAAATTTC
* * *
12782735 AAAAATGTTTTTAGGAAAAATTAAAAGTATCAATTTTTCTTAAAAATAAAAAAAATTTC
1 AAAAATGTTTTTAAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT--AAAAAATTTC
* * * * * * * *
12782794 AAAAAAT-ATTTTAAGGAAGAGTTAAAAATATCAATCTTCCTTAAAAGT--AATATTTC
1 -AAAAATGTTTTTAA-GAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAAATTTC
**** * * * * *
12782850 AAAGAAAAAATTTACGAAAAAGTTAAAAATATTAATTTTTCTTAAAAA-ATAAAATTTC
1 AAA-AATGTTTTTAAG-AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAAATTTC
* * *
12782908 AAAAAGGTGTTTTAGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAATTTTA
1 AAAAATGT-TTTTA-AGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAAATTTC
* * * * ** *
12782967 AAAAAGGTATTTTAAGGAATAGTTGAAAGTATCAATTTTTCTTAAAGATGAAATTTTTGA
1 AAAAATGT-TTTTAA-GAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAAATTT-C
* * *
12783027 AAAACAT-TTTTTGAAG-AAAGATTGAGAGTATCAATTTTT-TTAAAAAAAATAAAAATTC
1 AAAA-ATGTTTTT-AAGAAAAG-TTGAAAGTATCAATTTTTCTTAAAAATAA-AAAATTTC
* * * ** * * * * * *
12783085 AAAAAATATGTTAAAGATGAGTTGAAAATATCAATCTTCCTTAAGAGT--AATATTTC
1 -AAAAATGTTTTTAAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAAATTTC
*** *
12783141 AAAGAAAACATTTTAAGAAAAAGTTGAAAGTATCAATTTTTC-TAAAAAAATAAAAATTTC
1 -AA-AAATGTTTTTAAG-AAAAGTTGAAAGTATCAATTTTTCTTAAAAATA-AAAAATTTC
*
12783201 AAAAGATGTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTT
1 AAAA-ATGTTTTTAAGAAAAGTTGAAAGTATCAATTTTTCTT
12783243 GAATAAAGGC
Statistics
Matches: 394, Mismatches: 84, Indels: 57
0.74 0.16 0.11
Matches are distributed among these distances:
55 3 0.01
56 57 0.14
57 45 0.11
58 117 0.30
59 123 0.31
60 48 0.12
61 1 0.00
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.35
Consensus pattern (57 bp):
AAAAATGTTTTTAAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAAATTTC
Found at i:12782945 original size:58 final size:57
Alignment explanation
Indices: 12782678--12783242 Score: 370
Period size: 58 Copynumber: 9.7 Consensus size: 57
12782668 AAATGACACA
* * * * * *
12782678 AAAAAATATTTTTA-AAAAAAATTGAAAATATCAATTGTTATTGAAAACA-AAAATTTC
1 AAAAAATA-TTTTAGAGAAAAGTTGAAAGTATCAATTTTTCTT-AAAAAATAAAATTTC
* * * *
12782735 -AAAAATGTTTTTAG-GAAAAATTAAAAGTATCAATTTTTCTTAAAAATAAAAAAAATTTC
1 AAAAAAT-ATTTTAGAGAAAAGTTGAAAGTATCAATTTTTCTT--AAA-AAATAAAATTTC
* * * * * * *
12782794 AAAAAATATTTTA-AGGAAGAGTTAAAAATATCAATCTTCCTT-AAAAGTAATATTTC
1 AAAAAATATTTTAGA-GAAAAGTTGAAAGTATCAATTTTTCTTAAAAAATAAAATTTC
* * * * *
12782850 AAAGAAAAAATTTACGA-AAAAGTTAAAAATATTAATTTTTCTTAAAAAATAAAATTTC
1 AAA-AAATATTTTA-GAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAATAAAATTTC
* * *
12782908 AAAAAGGTGTTTTAGAGAAAAGTTGAAAGTATCAATTTTTCTT-AAAAATAAAAATTTT
1 AAAAA-ATATTTTAGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAAT-AAAATTTC
* * * *
12782966 AAAAAAGGTATTTTA-AGGAATAGTTGAAAGTATCAATTTTTCTT-AAAGATGAAATTTTTG
1 AAAAAA--TATTTTAGA-GAAAAGTTGAAAGTATCAATTTTTCTTAAAAAAT-AAA-ATTTC
* * *
12783026 AAAAACAT-TTTTTGA-AGAAAGATTGAGAGTATCAATTTTT-TTAAAAAAAATAAAAATTC
1 AAAAA-ATATTTTAGAGA-AAAG-TTGAAAGTATCAATTTTTCTT--AAAAAATAAAATTTC
* * ** * * * * * *
12783085 AAAAAATATGTTAAAGATGAGTTGAAAATATCAATCTTCCTT-AAGAGTAATATTTC
1 AAAAAATATTTTAGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAATAAAATTTC
* *
12783141 AAAGAAAACATTTTA-AGAAAAAGTTGAAAGTATCAATTTTTCTAAAAAAATAAAAATTTC
1 -AA-AAAATATTTTAGAG-AAAAGTTGAAAGTATCAATTTTTCTTAAAAAAT-AAAATTTC
* *
12783201 AAAAGATGTTTT-GAAGAAAAGTTGAAAGTATCAATTTTTCTT
1 AAAAAATATTTTAG-AGAAAAGTTGAAAGTATCAATTTTTCTT
12783243 GAATAAAGGC
Statistics
Matches: 397, Mismatches: 75, Indels: 71
0.73 0.14 0.13
Matches are distributed among these distances:
56 55 0.14
57 50 0.13
58 143 0.36
59 96 0.24
60 47 0.12
61 6 0.02
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.35
Consensus pattern (57 bp):
AAAAAATATTTTAGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAATAAAATTTC
Found at i:12785974 original size:22 final size:22
Alignment explanation
Indices: 12785946--12785993 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
12785936 AGAGTCCAAA
12785946 TTCTGGGAAAACAGGATCTGCC
1 TTCTGGGAAAACAGGATCTGCC
*
12785968 TTCTGGGAAAACATGATCTGCC
1 TTCTGGGAAAACAGGATCTGCC
12785990 TTCT
1 TTCT
12785994 TTAAATGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (22 bp):
TTCTGGGAAAACAGGATCTGCC
Done.