Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168049.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_30, 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: 11202444
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 44000 characters in sequence are not A, C, G, or T
File 58 of 64
Found at i:9513026 original size:23 final size:23
Alignment explanation
Indices: 9512996--9513040 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
9512986 AACAAGATAC
9512996 AAAGAGGATAGCAGTTGACTCCT
1 AAAGAGGATAGCAGTTGACTCCT
9513019 AAAGAGGATAGCAGTTGACTCC
1 AAAGAGGATAGCAGTTGACTCC
9513041 CACATAAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.20
Consensus pattern (23 bp):
AAAGAGGATAGCAGTTGACTCCT
Found at i:9516710 original size:13 final size:14
Alignment explanation
Indices: 9516680--9516712 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
9516670 TGTAAATGAT
*
9516680 TAAAATTTAAAATT
1 TAAAATTTAAAATG
9516694 TAAAATTT-AAATG
1 TAAAATTTAAAATG
9516707 TAAAAT
1 TAAAAT
9516713 ATTTAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (14 bp):
TAAAATTTAAAATG
Found at i:9516722 original size:6 final size:7
Alignment explanation
Indices: 9516679--9516722 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
9516669 TTGTAAATGA
9516679 TTAAAAT
1 TTAAAAT
9516686 TTAAAAT
1 TTAAAAT
9516693 TTAAAAT
1 TTAAAAT
9516700 TT-AAAT
1 TTAAAAT
*
9516706 GTAAAAT
1 TTAAAAT
*
9516713 ATTTAAAT
1 -TTAAAAT
9516721 TT
1 TT
9516723 GAATTTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
6 5 0.16
7 22 0.69
8 5 0.16
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (7 bp):
TTAAAAT
Found at i:9517341 original size:21 final size:22
Alignment explanation
Indices: 9517316--9517358 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
9517306 TGTTCGTTTA
9517316 TTTTAT-GTTCATAAAAAATTT
1 TTTTATGGTTCATAAAAAATTT
**
9517337 TTTTATGGTTCATTTAAAATTT
1 TTTTATGGTTCATAAAAAATTT
9517359 ATCTGTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.56
Consensus pattern (22 bp):
TTTTATGGTTCATAAAAAATTT
Found at i:9517459 original size:12 final size:10
Alignment explanation
Indices: 9517432--9517501 Score: 54
Period size: 10 Copynumber: 6.7 Consensus size: 10
9517422 ATTTTTATCT
9517432 TTTATTTTAA
1 TTTATTTTAA
9517442 TCTTATTTTAA
1 T-TTATTTTAA
9517453 GGTTTA-TTTATA
1 --TTTATTTTA-A
*
9517465 TTTATTTAAA
1 TTTATTTTAA
*
9517475 TTCA-TTTATA
1 TTTATTTTA-A
*
9517485 TTTATTTAAA
1 TTTATTTTAA
9517495 TTTATTT
1 TTTATTT
9517502 ATTATTTATG
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
9 3 0.06
10 21 0.44
11 19 0.40
12 4 0.08
13 1 0.02
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (10 bp):
TTTATTTTAA
Found at i:9517470 original size:10 final size:10
Alignment explanation
Indices: 9517455--9517532 Score: 84
Period size: 10 Copynumber: 7.6 Consensus size: 10
9517445 TATTTTAAGG
9517455 TTTATTTATA
1 TTTATTTATA
*
9517465 TTTATTTAAA
1 TTTATTTATA
*
9517475 TTCATTTATA
1 TTTATTTATA
*
9517485 TTTATTTAAA
1 TTTATTTATA
9517495 TTTATTTATTA
1 TTTATTTA-TA
**
9517506 TTTATGAATTA
1 TTTATTTA-TA
9517517 TTTATTTATA
1 TTTATTTATA
*
9517527 TATATT
1 TTTATT
9517533 CATAAACACA
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
10 40 0.71
11 16 0.29
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (10 bp):
TTTATTTATA
Found at i:9518541 original size:15 final size:14
Alignment explanation
Indices: 9518517--9518568 Score: 61
Period size: 15 Copynumber: 3.6 Consensus size: 14
9518507 TGTTTGTTTA
*
9518517 TATTTTTTTAAGATT
1 TATTTATTTAA-ATT
9518532 TATTTATTTAAATT
1 TATTTATTTAAATT
9518546 TATTTGA-TTATAATT
1 TATTT-ATTTA-AATT
9518561 TATTTATT
1 TATTTATT
9518569 ATTCATGAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
14 12 0.36
15 21 0.64
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (14 bp):
TATTTATTTAAATT
Found at i:9518569 original size:14 final size:15
Alignment explanation
Indices: 9518529--9518570 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
9518519 TTTTTTTAAG
9518529 ATTTATTTATT-TAA
1 ATTTATTTATTATAA
9518543 ATTTATTTGATTAT-A
1 ATTTATTT-ATTATAA
9518558 ATTTATTTATTAT
1 ATTTATTTATTAT
9518571 TCATGAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 13 0.50
15 12 0.46
16 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (15 bp):
ATTTATTTATTATAA
Found at i:9518604 original size:27 final size:27
Alignment explanation
Indices: 9518558--9518621 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
9518548 TTTGATTATA
*
9518558 ATTTATTTATTATTCATGAAT-TATTT
1 ATTTATATATTATTCATGAATATATTT
*
9518584 ATTTATATATATATTCGTGAATATATTT
1 ATTTATATAT-TATTCATGAATATATTT
9518612 ATTTA-ATATT
1 ATTTATATATT
9518622 TATAAATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 10 0.29
27 14 0.41
28 10 0.29
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (27 bp):
ATTTATATATTATTCATGAATATATTT
Found at i:9519002 original size:24 final size:23
Alignment explanation
Indices: 9518944--9518989 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
9518934 TCTGAAATTA
9518944 ATAAAATATTATTTTTAAAATAT
1 ATAAAATATTATTTTTAAAATAT
9518967 ATAAAATATTATTTTT-AAATAT
1 ATAAAATATTATTTTTAAAATAT
9518989 A
1 A
9518990 AATATATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
ATAAAATATTATTTTTAAAATAT
Found at i:9520949 original size:27 final size:28
Alignment explanation
Indices: 9520908--9520967 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
9520898 ATTAAAATTT
* * *
9520908 TTTTTTAATTGTAATTATAGTAA-AAAA
1 TTTTTCAATTATAATTATAATAATAAAA
*
9520935 TTTTTCAATTATAATTATAATAATAATA
1 TTTTTCAATTATAATTATAATAATAAAA
9520963 TTTTT
1 TTTTT
9520968 TTTTTTTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 20 0.71
28 8 0.29
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (28 bp):
TTTTTCAATTATAATTATAATAATAAAA
Found at i:9525015 original size:16 final size:18
Alignment explanation
Indices: 9524996--9525043 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
9524986 TATTTAGTTT
*
9524996 TATATTTATATTTAAATA
1 TATATTTATATTAAAATA
9525014 TATATTTATATTAAAATA
1 TATATTTATATTAAAATA
9525032 -ATATTT-TATTAA
1 TATATTTATATTAA
9525044 TTTTTAATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 6 0.21
17 6 0.21
18 17 0.59
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TATATTTATATTAAAATA
Found at i:9528260 original size:19 final size:19
Alignment explanation
Indices: 9528236--9528273 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
9528226 AAATATGACT
9528236 GTATGAACTAACTGAAATA
1 GTATGAACTAACTGAAATA
*
9528255 GTATGAACTAATTGAAATA
1 GTATGAACTAACTGAAATA
9528274 AGCTGTTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.08, G:0.16, T:0.29
Consensus pattern (19 bp):
GTATGAACTAACTGAAATA
Found at i:9530613 original size:2 final size:2
Alignment explanation
Indices: 9530606--9530634 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9530596 GGTTTTTCTT
9530606 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9530635 GGATAAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9531345 original size:33 final size:33
Alignment explanation
Indices: 9531272--9531335 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
9531262 TGCAACAGTT
* *
9531272 AAAT-TTAATAATTTATATATTTATGTAATATA
1 AAATATTAATAATTTATATATTCATATAATATA
*
9531304 AAATATTAATAATTTATATATTCATATTATAT
1 AAATATTAATAATTTATATATTCATATAATAT
9531336 TTGATATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 4 0.14
33 24 0.86
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (33 bp):
AAATATTAATAATTTATATATTCATATAATATA
Found at i:9531490 original size:24 final size:25
Alignment explanation
Indices: 9531446--9531496 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
9531436 TCGTATTATC
* *
9531446 TTTATATATTTTATTCTTATTA-AT
1 TTTATATATGTTATTCATATTATAT
9531470 TTTATATTATGTTATT-ATATTATAT
1 TTTATA-TATGTTATTCATATTATAT
9531495 TT
1 TT
9531497 AAGATTATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (25 bp):
TTTATATATGTTATTCATATTATAT
Found at i:9531497 original size:24 final size:24
Alignment explanation
Indices: 9531439--9531497 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
9531429 TTTTACATCG
* * *
9531439 TATTATCTTTATATATTTTATTCT
1 TATTATATTTATATATGTTATTCA
9531463 TATTA-ATTTTATATTATGTTATT-A
1 TATTATA-TTTATA-TATGTTATTCA
9531487 TATTATATTTA
1 TATTATATTTA
9531498 AGATTATCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
24 20 0.69
25 9 0.31
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (24 bp):
TATTATATTTATATATGTTATTCA
Found at i:9532365 original size:21 final size:22
Alignment explanation
Indices: 9532341--9532384 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
9532331 AAAATTAATT
* *
9532341 AATTTTTTGAATTA-ATTTTTA
1 AATTTTTTAAATAACATTTTTA
9532362 AATTTTTTAAATAACATTTTTA
1 AATTTTTTAAATAACATTTTTA
9532384 A
1 A
9532385 TTAAAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
AATTTTTTAAATAACATTTTTA
Found at i:9532535 original size:25 final size:25
Alignment explanation
Indices: 9532507--9532555 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
9532497 TCACTGTTTT
*
9532507 TTTTAATTTAATATTTT-ATATATTA
1 TTTTAATATAAT-TTTTAATATATTA
9532532 TTTTAATATAATTTTTAATATATT
1 TTTTAATATAATTTTTAATATATT
9532556 TAAATAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (25 bp):
TTTTAATATAATTTTTAATATATTA
Found at i:9532561 original size:22 final size:24
Alignment explanation
Indices: 9532515--9532566 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 24
9532505 TTTTTTAATT
*
9532515 TAATATTTTATATATTATTTTAATA
1 TAAT-TTTTATATATTATTTAAATA
9532540 TAATTTTTA-ATA-TATTTAAATA
1 TAATTTTTATATATTATTTAAATA
*
9532562 AAATT
1 TAATT
9532567 ATGTATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 13 0.52
23 3 0.12
24 5 0.20
25 4 0.16
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
TAATTTTTATATATTATTTAAATA
Found at i:9538952 original size:2 final size:2
Alignment explanation
Indices: 9538945--9538969 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9538935 ACAAATATGA
9538945 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
9538970 AACTTGACTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9542320 original size:19 final size:21
Alignment explanation
Indices: 9542283--9542323 Score: 68
Period size: 19 Copynumber: 2.0 Consensus size: 21
9542273 TAATTTTATA
9542283 TTTATATTTAAAAATTAATAT
1 TTTATATTTAAAAATTAATAT
9542304 TTTATA-TTAAAAA-TAATAT
1 TTTATATTTAAAAATTAATAT
9542323 T
1 T
9542324 AAATAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 7 0.35
20 7 0.35
21 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTATATTTAAAAATTAATAT
Found at i:9542333 original size:49 final size:50
Alignment explanation
Indices: 9542280--9542375 Score: 144
Period size: 49 Copynumber: 1.9 Consensus size: 50
9542270 ATTTAATTTT
*
9542280 ATATTTATATTTAAAA-ATTAATATTTTATA-TT-AAAAATAATATTAAATA
1 ATATTTATA-TTAAAATACTAATATTTTATATTTAAAAAATAA-ATTAAATA
9542329 ATATTTATATTAAAATACTAATATTTTATATTTAAAAAATAAATTAA
1 ATATTTATATTAAAATACTAATATTTTATATTTAAAAAATAAATTAA
9542376 TTTTAAGTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
48 6 0.14
49 22 0.51
50 7 0.16
51 8 0.19
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (50 bp):
ATATTTATATTAAAATACTAATATTTTATATTTAAAAAATAAATTAAATA
Found at i:9542340 original size:16 final size:16
Alignment explanation
Indices: 9542262--9542342 Score: 55
Period size: 16 Copynumber: 5.0 Consensus size: 16
9542252 TATATATATT
*
9542262 TAATATTTAT-TTAATT
1 TAATATTTATATTAA-A
*
9542278 TTATATTTATATTTAAAAA
1 TAATATTTATA-TT--AAA
9542297 TTAATATTTTATATTAAA
1 -TAATA-TTTATATTAAA
9542315 -AATA---ATATTAAA
1 TAATATTTATATTAAA
9542327 TAATATTTATATTAAA
1 TAATATTTATATTAAA
9542343 ATACTAATAT
Statistics
Matches: 52, Mismatches: 3, Indels: 20
0.69 0.04 0.27
Matches are distributed among these distances:
12 8 0.15
13 4 0.08
16 21 0.40
18 5 0.10
20 8 0.15
21 6 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATATTTATATTAAA
Found at i:9542359 original size:27 final size:26
Alignment explanation
Indices: 9542298--9542362 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 26
9542288 ATTTAAAAAT
9542298 TAATATTTTATATTAAAAATAATATTAAA
1 TAATA-TTTATATTAAAAATAATATT--A
9542327 TAATATTTATATTAAAATACTAATATT-
1 TAATATTTATATTAAAA-A-TAATATTA
*
9542354 TTATATTTA
1 TAATATTTA
9542363 AAAAATAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
27 8 0.24
28 12 0.36
29 6 0.18
30 7 0.21
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (26 bp):
TAATATTTATATTAAAAATAATATTA
Found at i:9544928 original size:13 final size:12
Alignment explanation
Indices: 9544910--9544954 Score: 56
Period size: 13 Copynumber: 3.7 Consensus size: 12
9544900 GATAATTTAA
9544910 AATATAATAAGAT
1 AATATAATAA-AT
*
9544923 AATATAATATAAA
1 AATATAATA-AAT
9544936 AATATAA-AAAT
1 AATATAATAAAT
9544947 AATATAAT
1 AATATAAT
9544955 TTAAAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 9 0.32
12 1 0.04
13 17 0.61
14 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (12 bp):
AATATAATAAAT
Found at i:9544953 original size:24 final size:26
Alignment explanation
Indices: 9544908--9544960 Score: 83
Period size: 24 Copynumber: 2.1 Consensus size: 26
9544898 TTGATAATTT
9544908 AAAATATAATAAGATAATATAATATA
1 AAAATATAATAAGATAATATAATATA
*
9544934 AAAATATAA-AA-ATAATATAATTTA
1 AAAATATAATAAGATAATATAATATA
9544958 AAA
1 AAA
9544961 TTTTTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 15 0.58
25 2 0.08
26 9 0.35
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (26 bp):
AAAATATAATAAGATAATATAATATA
Found at i:9546332 original size:27 final size:26
Alignment explanation
Indices: 9546298--9546359 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
9546288 TTACCTTACC
* * *
9546298 AAAA-AAAATGTTCAATTACTTTTTTA
1 AAAATAAAATGCTCAATTA-TTATATA
9546324 AAAATAAAATGCTCAATTATTATATA
1 AAAATAAAATGCTCAATTATTATATA
9546350 AACAATAAAA
1 AA-AATAAAA
9546360 AGTTTTCCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 11 0.35
27 20 0.65
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (26 bp):
AAAATAAAATGCTCAATTATTATATA
Found at i:9548459 original size:20 final size:21
Alignment explanation
Indices: 9548434--9548472 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
9548424 TATAGTTTTT
9548434 TATATAAAATA-TAATATTAA
1 TATATAAAATATTAATATTAA
*
9548454 TATATAAATTATTAATATT
1 TATATAAAATATTAATATT
9548473 TTAAAATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TATATAAAATATTAATATTAA
Found at i:9548468 original size:15 final size:15
Alignment explanation
Indices: 9548448--9548499 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
9548438 TAAAATATAA
9548448 TATTAATATATAAAT
1 TATTAATATATAAAT
* *
9548463 TATTAATATTTTAAAA
1 TATTAATA-TATAAAT
* *
9548479 TATGAATACATAAAT
1 TATTAATATATAAAT
9548494 TATTAA
1 TATTAA
9548500 ATTTAATTTA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
15 17 0.59
16 12 0.41
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (15 bp):
TATTAATATATAAAT
Found at i:9548481 original size:31 final size:30
Alignment explanation
Indices: 9548446--9548503 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 30
9548436 TATAAAATAT
* *
9548446 AATATTAATATATAAATTATTAATATTTTAA
1 AATATGAATACATAAATTATTAA-ATTTTAA
9548477 AATATGAATACATAAATTATTAAATTT
1 AATATGAATACATAAATTATTAAATTT
9548504 AATTTATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 4 0.16
31 21 0.84
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (30 bp):
AATATGAATACATAAATTATTAAATTTTAA
Found at i:9551167 original size:21 final size:21
Alignment explanation
Indices: 9551141--9551197 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
9551131 ACTGGGAATC
9551141 AGAATAGAGAATGAAAAAAAT
1 AGAATAGAGAATGAAAAAAAT
*
9551162 AGAATAAAAGAAT-AAAAAAAT
1 AGAAT-AGAGAATGAAAAAAAT
**
9551183 A-AGGAGAGAATGAAA
1 AGAATAGAGAATGAAA
9551198 CAGAGTATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
19 6 0.20
20 4 0.13
21 14 0.47
22 6 0.20
ACGTcount: A:0.68, C:0.00, G:0.19, T:0.12
Consensus pattern (21 bp):
AGAATAGAGAATGAAAAAAAT
Found at i:9551789 original size:19 final size:21
Alignment explanation
Indices: 9551765--9551814 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 21
9551755 TGGTATCTTG
9551765 AATTTTATTTTTTTTTC-AA-
1 AATTTTATTTTTTTTTCTAAT
**
9551784 AATTTTATTAATTTTTCTAAT
1 AATTTTATTTTTTTTTCTAAT
9551805 AATTTT-TTTT
1 AATTTTATTTT
9551815 GGTCGTTTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 15 0.60
20 4 0.16
21 6 0.24
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (21 bp):
AATTTTATTTTTTTTTCTAAT
Found at i:9554114 original size:17 final size:17
Alignment explanation
Indices: 9554094--9554141 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
9554084 AATATTATTT
*
9554094 TTAATATAAATATAAAA
1 TTAATATAAATAAAAAA
9554111 TTAATATAAATTAAAAAAA
1 TTAATATAAA-T-AAAAAA
9554130 TTAA-ATAAATAA
1 TTAATATAAATAA
9554142 TTAAAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 2 0.07
17 11 0.39
18 6 0.21
19 9 0.32
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TTAATATAAATAAAAAA
Found at i:9554131 original size:19 final size:19
Alignment explanation
Indices: 9554094--9554159 Score: 64
Period size: 21 Copynumber: 3.4 Consensus size: 19
9554084 AATATTATTT
*
9554094 TTAATATAAA-T-ATAAAA
1 TTAATATAAATTAAAAAAA
9554111 TTAATATAAATTAAAAAAA
1 TTAATATAAATTAAAAAAA
*
9554130 TTAAATAAATAATTAAAAATAA
1 TT-AATATA-AATTAAAAA-AA
*
9554152 TTTATATA
1 TTAATATA
9554160 TTAAATCAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
17 10 0.25
18 1 0.03
19 7 0.17
20 5 0.12
21 13 0.32
22 4 0.10
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TTAATATAAATTAAAAAAA
Found at i:9555201 original size:20 final size:20
Alignment explanation
Indices: 9555176--9555215 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
9555166 TACAAAAATT
*
9555176 ATATATAATAATTTATATTA
1 ATATATAATAAATTATATTA
**
9555196 ATATATTTTAAATTATATTA
1 ATATATAATAAATTATATTA
9555216 TTTTTATATC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATATAATAAATTATATTA
Found at i:9556326 original size:30 final size:28
Alignment explanation
Indices: 9556292--9556350 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
9556282 TTCATATTAA
9556292 TATTAAAATATAAAATATAATTTTTTATTT
1 TATT-AAAT-TAAAATATAATTTTTTATTT
* **
9556322 TATTAAATTTATTTATAATTTTTTATTT
1 TATTAAATTAAAATATAATTTTTTATTT
9556350 T
1 T
9556351 TTATTCATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 18 0.69
29 4 0.15
30 4 0.15
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (28 bp):
TATTAAATTAAAATATAATTTTTTATTT
Found at i:9568277 original size:21 final size:20
Alignment explanation
Indices: 9568243--9568299 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
9568233 TAATGTATTT
*
9568243 ATTATTTGATTAATTAAAAA
1 ATTAATTGATTAATTAAAAA
9568263 ATTAATTGAATTAATT--AAA
1 ATTAATTG-ATTAATTAAAAA
*
9568282 TTTAATTCGATTAATTAA
1 ATTAATT-GATTAATTAA
9568300 TTTTTAAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
19 16 0.52
20 8 0.26
21 7 0.23
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (20 bp):
ATTAATTGATTAATTAAAAA
Found at i:9573156 original size:21 final size:19
Alignment explanation
Indices: 9573130--9573190 Score: 50
Period size: 21 Copynumber: 2.9 Consensus size: 19
9573120 TAATATAAAC
9573130 ATATAAAGATTATTTTAATT
1 ATATAAA-ATTATTTTAATT
*
9573150 ATGATAATTAATTATTTAATATT
1 AT-ATAA--AATTATTTTA-ATT
*
9573173 ATATAAAAACTATTTTAA
1 ATAT-AAAATTATTTTAA
9573191 ATATTTAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
20 3 0.09
21 12 0.36
22 10 0.30
23 8 0.24
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (19 bp):
ATATAAAATTATTTTAATT
Found at i:9576148 original size:16 final size:16
Alignment explanation
Indices: 9576127--9576165 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
9576117 TTTATATTTT
* *
9576127 TTATATTATTTTTATG
1 TTATATTATTGTTATA
9576143 TTATATTATTGTTATA
1 TTATATTATTGTTATA
9576159 TTATATT
1 TTATATT
9576166 TTAAATTGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (16 bp):
TTATATTATTGTTATA
Found at i:9576160 original size:27 final size:26
Alignment explanation
Indices: 9576118--9576168 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 26
9576108 TATATCATTT
9576118 TTATATTTTTTATATTAT-TTTTATG
1 TTATATTTTTTATATTATATTTTATG
9576143 TTATATTATTGTTATATTATATTTTA
1 TTATATT-TT-TTATATTATATTTTA
9576169 AATTGCTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 7 0.30
26 2 0.09
27 9 0.39
28 5 0.22
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (26 bp):
TTATATTTTTTATATTATATTTTATG
Found at i:9586275 original size:18 final size:20
Alignment explanation
Indices: 9586237--9586275 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
9586227 CATAAACGAA
*
9586237 TCGATTAAAATTAATTTAAT
1 TCGATTAAAATTAATTAAAT
9586257 TCGATT-AAA-TAATTAAAT
1 TCGATTAAAATTAATTAAAT
9586275 T
1 T
9586276 TTTTATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 3 0.17
20 6 0.33
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (20 bp):
TCGATTAAAATTAATTAAAT
Found at i:9586521 original size:16 final size:15
Alignment explanation
Indices: 9586502--9586549 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
9586492 ATCAATTTAA
*
9586502 AAAATTAATTATAATC
1 AAAATTAAATA-AATC
9586518 AAAATTAAATAAATC
1 AAAATTAAATAAATC
* *
9586533 -AAATCAAATTAATC
1 AAAATTAAATAAATC
9586547 AAA
1 AAA
9586550 TGTACTTGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 12 0.43
15 6 0.21
16 10 0.36
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAATTAAATAAATC
Found at i:9589339 original size:28 final size:27
Alignment explanation
Indices: 9589308--9589360 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
9589298 ACATTTCATA
9589308 AATTCATAAATAAATGTCAAAACATGTC
1 AATTCATAAATAAATG-CAAAACATGTC
* *
9589336 AATTCATAAATTATTGCAAAACATG
1 AATTCATAAATAAATGCAAAACATG
9589361 CTACCATTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.49, C:0.13, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTCATAAATAAATGCAAAACATGTC
Found at i:9591925 original size:2 final size:2
Alignment explanation
Indices: 9591907--9591944 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
9591897 CCTTGCCTCA
*
9591907 AT AT AA AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9591945 AACAATAGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:9594638 original size:23 final size:24
Alignment explanation
Indices: 9594612--9594698 Score: 76
Period size: 23 Copynumber: 3.8 Consensus size: 24
9594602 AAAAATTTTC
9594612 AAATAATATTAATA-TAATTATTA
1 AAATAATATTAATATTAATTATTA
* * *
9594635 AAATATTA-AAATATTTATTATTA
1 AAATAATATTAATATTAATTATTA
*
9594658 AAAT-ATATTGAA-ATTATTTATTA
1 AAATAATATT-AATATTAATTATTA
*
9594681 TTAA-AATATTAATATTAA
1 -AAATAATATTAATATTAA
9594699 AAATAATTAT
Statistics
Matches: 49, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
22 6 0.12
23 30 0.61
24 13 0.27
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (24 bp):
AAATAATATTAATATTAATTATTA
Found at i:9594658 original size:15 final size:15
Alignment explanation
Indices: 9594638--9594740 Score: 65
Period size: 15 Copynumber: 6.8 Consensus size: 15
9594628 ATTATTAAAA
9594638 TATTAAAATATTTAT
1 TATTAAAATATTTAT
9594653 TATTAAAATA--TA-
1 TATTAAAATATTTAT
* *
9594665 T-TGAAATTATTTAT
1 TATTAAAATATTTAT
*
9594679 TATTAAAATA-TTAA
1 TATTAAAATATTTAT
9594693 TATTAAAAATAATTATAT
1 TATT-AAAAT-ATT-TAT
*
9594711 T-TTAATGATAATATTTAA
1 TATT-A--A-AATATTTAT
9594729 TATTAAAATATT
1 TATTAAAATATT
9594741 ATGTTAATAT
Statistics
Matches: 69, Mismatches: 7, Indels: 24
0.69 0.07 0.24
Matches are distributed among these distances:
11 6 0.09
12 1 0.01
13 4 0.06
14 8 0.12
15 27 0.39
16 2 0.03
17 5 0.07
18 7 0.10
19 6 0.09
20 3 0.04
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
TATTAAAATATTTAT
Found at i:9594707 original size:34 final size:35
Alignment explanation
Indices: 9594669--9594762 Score: 88
Period size: 34 Copynumber: 2.7 Consensus size: 35
9594659 AATATATTGA
*
9594669 AATTAT-TTATTATTAAAATA-TTAATATTAAAAAT
1 AATTATATTATTATAAAAATACTTAATATT-AAAAT
* * *
9594703 AATTATATT-TTAATGATAATATTTAATATTAAAAT
1 AATTATATTATT-ATAAAAATACTTAATATTAAAAT
* *
9594738 -ATTATGTTAATATAAAAATACTTAA
1 AATTATATTATTATAAAAATACTTAA
9594763 AATAAAACTA
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
34 26 0.53
35 15 0.31
36 8 0.16
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (35 bp):
AATTATATTATTATAAAAATACTTAATATTAAAAT
Found at i:9594812 original size:23 final size:26
Alignment explanation
Indices: 9594786--9595028 Score: 148
Period size: 23 Copynumber: 9.8 Consensus size: 26
9594776 ATTATTCTTT
*
9594786 ATATTGTTTATTAAT-ATA-TTA-TA
1 ATATTATTTATTAATAATATTTATTA
9594809 ATATTATTTATTAATAATATTTATTA
1 ATATTATTTATTAATAATATTTATTA
*
9594835 ATA-TATTATATTAATAGTATATTATTTA
1 ATATTATT-TATTAATAATAT-TTA-TTA
* * **
9594863 TTAATATATTATT-ATAATATTTGCT-
1 ATATTAT-TTATTAATAATATTTATTA
*
9594888 A-ATTA--AATTAATAATATTTATT-
1 ATATTATTTATTAATAATATTTATTA
*
9594910 ATAGTATTTATTAAT-ATA---A-TA
1 ATATTATTTATTAATAATATTTATTA
* *
9594931 TTATTATTTATTAA-AATA-TTA-AA
1 ATATTATTTATTAATAATATTTATTA
9594954 ATATTATTTATTAAT-ATATTATATTA
1 ATATTATTTATTAATAATATT-TATTA
* *
9594980 ATAGTATATTAGTTATTAATATATTA-TA
1 ATATTAT-TTA-TTAATAATAT-TTATTA
*
9595008 ATATTAGTTATTAATATATAT
1 ATATTATTTATTAATA-ATAT
9595029 GATTTATTAA
Statistics
Matches: 172, Mismatches: 23, Indels: 46
0.71 0.10 0.19
Matches are distributed among these distances:
20 1 0.01
21 19 0.11
22 11 0.06
23 35 0.20
24 10 0.06
25 15 0.09
26 29 0.17
27 15 0.09
28 22 0.13
29 13 0.08
30 2 0.01
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (26 bp):
ATATTATTTATTAATAATATTTATTA
Found at i:9594864 original size:18 final size:19
Alignment explanation
Indices: 9594793--9595068 Score: 109
Period size: 18 Copynumber: 14.4 Consensus size: 19
9594783 TTTATATTGT
*
9594793 TTATTAATATATT-ATAATA
1 TTATTATTATATTAAT-ATA
9594812 TTATTTATTA-A-TAATATTTA
1 TTA-TTATTATATTAATA--TA
9594832 TTAATATATTATATTAATAGTA
1 TT-AT-TATTATATTAATA-TA
9594854 -TATTATT-TATTAATATA
1 TTATTATTATATTAATATA
* **
9594871 TTATTATAATATTTGCTA-A
1 TTATTATTATA-TTAATATA
*
9594890 TTA-AATTA-A-TAATAT-
1 TTATTATTATATTAATATA
9594905 TTATTATAGTATTTATTAATATA
1 TTATTAT--TA--TATTAATATA
* * *
9594928 ATATTATTAT-TTATTAAA
1 TTATTATTATATTAATATA
* ** *
9594946 ATATTAAAATATT-ATTTA
1 TTATTATTATATTAATATA
9594964 TTAATATATTATATTAATAGTA
1 TT-AT-TATTATATTAATA-TA
*
9594986 -TATTAGT-TATTAATATA
1 TTATTATTATATTAATATA
9595003 TTATAATATTAGTTATTAATATA
1 TTAT--TATTA--TATTAATATA
*
9595026 -TATGATT-TATTAATATA
1 TTATTATTATATTAATATA
* *
9595043 ATGTTATT-TATTAATATA
1 TTATTATTATATTAATATA
*
9595061 ATATTATT
1 TTATTATT
9595069 TATAAGTAAA
Statistics
Matches: 197, Mismatches: 28, Indels: 65
0.68 0.10 0.22
Matches are distributed among these distances:
15 6 0.03
16 2 0.01
17 15 0.08
18 71 0.36
19 24 0.12
20 31 0.16
21 13 0.07
22 14 0.07
23 21 0.11
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
TTATTATTATATTAATATA
Found at i:9594864 original size:31 final size:31
Alignment explanation
Indices: 9594826--9595060 Score: 159
Period size: 31 Copynumber: 7.5 Consensus size: 31
9594816 TTATTAATAA
9594826 TATTTATTAATATATTATATTAATAGTATAT
1 TATTTATTAATATATTATATTAATAGTATAT
* *
9594857 TATTTATTAATATATTAT-TATAATA-TTTGCT
1 TATTTATTAATATATTATAT-TAATAGTAT-AT
* *
9594888 AATTAAATTAATAATATT-TATT-ATAGTAT-T
1 TATT-TATTAAT-ATATTATATTAATAGTATAT
* *
9594918 TATTAATATAATATTATTATTTATTAAAATATTAAAATAT
1 TATTTAT-TAATA-TATTA--TATT--AATAGT---ATAT
9594958 TATTTATTAATATATTATATTAATAGTATAT
1 TATTTATTAATATATTATATTAATAGTATAT
* * *
9594989 TAGTTATTAATATATTATAATATTAGT-TAT
1 TATTTATTAATATATTATATTAATAGTATAT
* *
9595019 TA-ATA-T-ATATGATT-TATTAATA-TAATGT
1 TATTTATTAATAT-ATTATATTAATAGT-ATAT
9595047 TATTTATTAATATA
1 TATTTATTAATATA
9595061 ATATTATTTA
Statistics
Matches: 163, Mismatches: 17, Indels: 49
0.71 0.07 0.21
Matches are distributed among these distances:
26 1 0.01
27 10 0.06
28 8 0.05
29 8 0.05
30 22 0.13
31 62 0.38
32 10 0.06
33 10 0.06
34 5 0.03
36 8 0.05
38 5 0.03
39 7 0.04
40 7 0.04
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (31 bp):
TATTTATTAATATATTATATTAATAGTATAT
Found at i:9594881 original size:132 final size:131
Alignment explanation
Indices: 9594729--9595006 Score: 298
Period size: 132 Copynumber: 2.1 Consensus size: 131
9594719 TAATATTTAA
* * * *
9594729 TATTAAAATATTATGTTAATATAAAAATACTTAAAATAA-AACTATTTATTAT-TCTTTA-TATT
1 TATTAATATATTATGTTAATAT-AAAATAATTAAAATAATAA-TATTTATTATATATTTATTAAT
* * * *
9594791 GT-TTATTAATATATTA-TAATATTATTTATTAATAATATTTATTAATATATTATATTAATAGTA
64 ATAATATTAATAT-TTATTAA-AATA-TTA-AAATAATATTTATTAATATATTATATTAATAGTA
*
9594854 TATTATT
125 TATTAGT
**** *
9594861 TATTAATATATTAT-TATAATATTTGCTAATTAAATTAATAATATTTATTATAGTATTTATTAAT
1 TATTAATATATTATGT-TAATATAAAATAATTAAAATAATAATATTTATTATA-TATTTATTAAT
* *
9594925 ATAATATTATTATTTATTAAAATATTAAAATATTATTTATTAATATATTATATTAATAGTATATT
64 ATAATATTAATATTTATTAAAATATTAAAATAATATTTATTAATATATTATATTAATAGTATATT
9594990 AGT
129 AGT
9594993 TATTAATATATTAT
1 TATTAATATATTAT
9595007 AATATTAGTT
Statistics
Matches: 123, Mismatches: 16, Indels: 14
0.80 0.10 0.09
Matches are distributed among these distances:
131 21 0.17
132 73 0.59
133 8 0.07
134 10 0.08
135 11 0.09
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (131 bp):
TATTAATATATTATGTTAATATAAAATAATTAAAATAATAATATTTATTATATATTTATTAATAT
AATATTAATATTTATTAAAATATTAAAATAATATTTATTAATATATTATATTAATAGTATATTAG
T
Found at i:9594957 original size:75 final size:76
Alignment explanation
Indices: 9594818--9594958 Score: 193
Period size: 76 Copynumber: 1.9 Consensus size: 76
9594808 AATATTATTT
* *
9594818 ATTAATAATATTTATTAATATATTATATTAATAGTATATTATTTATTAATATATTATTATAATAT
1 ATTAATAATATTTATTAATATATTATATTAATAATATATTATTTATTAATATATTATTAAAATAT
9594883 TTGCTAATTAA
66 TTGCTAATTAA
9594894 ATTAATAATATTTATT-ATAGTATT-TATTAATATAATATTATTATTTATTAA-A-A-TATTAAA
1 ATTAATAATATTTATTAATA-TATTATATT-A-ATAATA-TATTATTTATTAATATATTATTAAA
9594954 ATATT
62 ATATT
9594959 ATTTATTAAT
Statistics
Matches: 59, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
75 18 0.31
76 22 0.37
77 6 0.10
78 13 0.22
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (76 bp):
ATTAATAATATTTATTAATATATTATATTAATAATATATTATTTATTAATATATTATTAAAATAT
TTGCTAATTAA
Found at i:9595044 original size:35 final size:36
Alignment explanation
Indices: 9595004--9595071 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 36
9594994 ATTAATATAT
9595004 TATAATATTAGTTATTAATAT-ATATGATTTATTAA
1 TATAATATTAGTTATTAATATAATATGATTTATTAA
* * *
9595039 TATAATGTTATTTATTAATATAATATTATTTAT
1 TATAATATTAGTTATTAATATAATATGATTTAT
9595072 AAGTAAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 19 0.66
36 10 0.34
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (36 bp):
TATAATATTAGTTATTAATATAATATGATTTATTAA
Found at i:9595049 original size:54 final size:54
Alignment explanation
Indices: 9594896--9595071 Score: 164
Period size: 54 Copynumber: 3.2 Consensus size: 54
9594886 CTAATTAAAT
* * * *
9594896 TAATAATATTTATT-ATAGTATT-TATTAATATAATATTATTATTTATTAAAATATTA
1 TAATATTATTTATTAATA-TATTATATT-A-ATAATA-TAATAGTTATTAATATATTA
* * *
9594952 AAATATTATTTATTAATATATTATATTAATAGTATATTAGTTATTAATATATTA
1 TAATATTATTTATTAATATATTATATTAATAATATAATAGTTATTAATATATTA
* * * *
9595006 TAATATTAGTTATTAATATA-TATGATTTATTAATATAAT-GTTATTTAT-TAATA
1 TAATATTATTTATTAATATATTAT-A-TTAATAATATAATAGTTATTAATATATTA
9595059 TAATATTATTTAT
1 TAATATTATTTAT
9595072 AAGTAAAATT
Statistics
Matches: 103, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
53 19 0.18
54 45 0.44
55 15 0.15
56 17 0.17
57 7 0.07
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (54 bp):
TAATATTATTTATTAATATATTATATTAATAATATAATAGTTATTAATATATTA
Found at i:9596773 original size:32 final size:33
Alignment explanation
Indices: 9596734--9596800 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
9596724 GGTTTTTAAT
*
9596734 TTTTAATAT-TTT-AATATTATTTTAATATAAAA
1 TTTTAATATATTTAAATA-AATTTTAATATAAAA
*
9596766 TTTTAATATATTTAAATAAATTTTGATATAAAA
1 TTTTAATATATTTAAATAAATTTTAATATAAAA
9596799 TT
1 TT
9596801 ATTATTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
32 9 0.29
33 18 0.58
34 4 0.13
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (33 bp):
TTTTAATATATTTAAATAAATTTTAATATAAAA
Found at i:9596839 original size:20 final size:20
Alignment explanation
Indices: 9596814--9596855 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
9596804 ATTTTTATTT
*
9596814 TATA-AAATTAA-AAATATA
1 TATATAAATTAAGAAAAATA
9596832 TATATAAATTAAGAAAAATA
1 TATATAAATTAAGAAAAATA
9596852 TATA
1 TATA
9596856 ATTCAATTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.19
19 7 0.33
20 10 0.48
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
TATATAAATTAAGAAAAATA
Found at i:9597282 original size:20 final size:21
Alignment explanation
Indices: 9597231--9597282 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
9597221 ATTTTGAGAA
*
9597231 TTTGGGATTCGATTTGAAGTT
1 TTTGGGATTAGATTTGAAGTT
** * *
9597252 TCAGGGTTTAGATTTG-GGTT
1 TTTGGGATTAGATTTGAAGTT
9597272 TTTGGGATTAG
1 TTTGGGATTAG
9597283 GTTTATGTTT
Statistics
Matches: 23, Mismatches: 8, Indels: 1
0.72 0.25 0.03
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.17, C:0.04, G:0.33, T:0.46
Consensus pattern (21 bp):
TTTGGGATTAGATTTGAAGTT
Found at i:9597692 original size:12 final size:11
Alignment explanation
Indices: 9597673--9597742 Score: 50
Period size: 11 Copynumber: 5.8 Consensus size: 11
9597663 CGCATGTTTT
9597673 TTTTATTTTAA
1 TTTTATTTTAA
*
9597684 TTTTAATTTTTGA
1 TTTT-A-TTTTAA
*
9597697 TTTTATTTTAT
1 TTTTATTTTAA
*
9597708 TTTTGATTTTTTA
1 TTTT-A-TTTTAA
*
9597721 TATTTATTTTAT
1 T-TTTATTTTAA
9597733 TTTTAGTTTT
1 TTTTA-TTTT
9597743 TTATTATCTT
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
11 16 0.35
12 12 0.26
13 15 0.33
14 3 0.07
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (11 bp):
TTTTATTTTAA
Found at i:9597726 original size:6 final size:5
Alignment explanation
Indices: 9597669--9597735 Score: 50
Period size: 5 Copynumber: 12.8 Consensus size: 5
9597659 CAATCGCATG
*
9597669 TTTT- TTTTA TTTTAA TTTTAA TTTTTGA TTTTA TTTTA TTTT- TGATT-
1 TTTTA TTTTA TTTT-A TTTT-A -TTTT-A TTTTA TTTTA TTTTA T-TTTA
9597716 TTTTA TATTTA TTTTA TTTT
1 TTTTA T-TTTA TTTTA TTTT
9597736 TAGTTTTTTA
Statistics
Matches: 54, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
4 7 0.13
5 26 0.48
6 16 0.30
7 5 0.09
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:9597736 original size:6 final size:6
Alignment explanation
Indices: 9597672--9597743 Score: 60
Period size: 6 Copynumber: 11.8 Consensus size: 6
9597662 TCGCATGTTT
* *
9597672 TTTTTA TTTTAA TTTTAA TTTTTGA -TTTTA -TTTTA TTTTTGA TTTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTT-A TTTTTA TTTTTA TTTTT-A -TTTTTA
*
9597721 TATTTA -TTTTA TTTTTA GTTTTT
1 TTTTTA TTTTTA TTTTTA -TTTTT
9597744 TATTATCTTA
Statistics
Matches: 56, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
5 10 0.18
6 33 0.59
7 8 0.14
8 5 0.09
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:9597744 original size:25 final size:24
Alignment explanation
Indices: 9597669--9597747 Score: 99
Period size: 24 Copynumber: 3.3 Consensus size: 24
9597659 CAATCGCATG
* *
9597669 TTTT-TTTTATTTTAATTTTAATT
1 TTTTATTTTATTTTATTTTTAGTT
*
9597692 TTTGATTTTATTTTATTTTT-GATT
1 TTTTATTTTATTTTATTTTTAG-TT
9597716 TTTTATATTTATTTTATTTTTAGTT
1 TTTTAT-TTTATTTTATTTTTAGTT
9597741 TTTTATT
1 TTTTATT
9597748 ATCTTACTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
23 3 0.06
24 22 0.46
25 22 0.46
26 1 0.02
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (24 bp):
TTTTATTTTATTTTATTTTTAGTT
Found at i:9597745 original size:19 final size:18
Alignment explanation
Indices: 9597671--9597747 Score: 58
Period size: 17 Copynumber: 4.5 Consensus size: 18
9597661 ATCGCATGTT
*
9597671 TTTTTTATTTTAATTTTAA
1 TTTTTTATTTT-ATTTTTA
*
9597690 TTTTTGATTTTA-TTTTA
1 TTTTTTATTTTATTTTTA
*
9597707 TTTTTGA---T-TTTTTA
1 TTTTTTATTTTATTTTTA
*
9597721 -TATTTATTTTATTTTTA
1 TTTTTTATTTTATTTTTA
9597738 GTTTTTTATT
1 -TTTTTTATT
9597748 ATCTTACTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 14
0.71 0.08 0.22
Matches are distributed among these distances:
13 4 0.09
14 6 0.13
16 1 0.02
17 17 0.37
18 1 0.02
19 17 0.37
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (18 bp):
TTTTTTATTTTATTTTTA
Found at i:9597857 original size:6 final size:6
Alignment explanation
Indices: 9597841--9597884 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
9597831 AAAAAATAGA
* *
9597841 AAAATAT AAAAAT AAAATT AAAAAGT AAAATT AAAAAT AAAAAT
1 AAAA-AT AAAAAT AAAAAT AAAAA-T AAAAAT AAAAAT AAAAAT
9597885 TTTTACAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
6 23 0.72
7 9 0.28
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (6 bp):
AAAAAT
Found at i:9597869 original size:19 final size:19
Alignment explanation
Indices: 9597847--9597883 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9597837 TAGAAAAATA
*
9597847 TAAAAATAAAATTAAAAAG
1 TAAAAATAAAAATAAAAAG
*
9597866 TAAAATTAAAAATAAAAA
1 TAAAAATAAAAATAAAAA
9597884 TTTTTACAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (19 bp):
TAAAAATAAAAATAAAAAG
Found at i:9597885 original size:13 final size:12
Alignment explanation
Indices: 9597841--9597882 Score: 66
Period size: 13 Copynumber: 3.3 Consensus size: 12
9597831 AAAAAATAGA
9597841 AAAATATAAAAAT
1 AAAAT-TAAAAAT
9597854 AAAATTAAAAAGT
1 AAAATTAAAAA-T
9597867 AAAATTAAAAAT
1 AAAATTAAAAAT
9597879 AAAA
1 AAAA
9597883 ATTTTTACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.39
13 17 0.61
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (12 bp):
AAAATTAAAAAT
Found at i:9602106 original size:10 final size:11
Alignment explanation
Indices: 9602083--9602108 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9602073 ATAAAGACCC
9602083 TTTTTCTTATT
1 TTTTTCTTATT
9602094 TTTTTCTTATT
1 TTTTTCTTATT
9602105 TTTT
1 TTTT
9602109 ACCAAATGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTCTTATT
Found at i:9602668 original size:54 final size:54
Alignment explanation
Indices: 9602543--9602669 Score: 143
Period size: 54 Copynumber: 2.4 Consensus size: 54
9602533 TATTTATTAC
* *
9602543 TTAT-ATTCGATCTTGGCTCAATTCAGATAATTTTTTTGACTTGTGATTTCATT
1 TTATCATTCGATCTTGGCTCAATTCAGATAATTTTTTAGACTTGTGATTTCATA
* ** *
9602596 TTGGTCATTTAATCTTGGCTC-A-TCTAGATCATTTTTTAGACTTGTGATTTCATCA
1 TT-ATCATTCGATCTTGGCTCAATTC-AGATAATTTTTTAGACTTGTGATTTCAT-A
*
9602651 TTATCATTCGATATTGGCT
1 TTATCATTCGATCTTGGCT
9602670 TAATCCATAT
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
53 4 0.07
54 41 0.68
55 15 0.25
ACGTcount: A:0.22, C:0.15, G:0.14, T:0.49
Consensus pattern (54 bp):
TTATCATTCGATCTTGGCTCAATTCAGATAATTTTTTAGACTTGTGATTTCATA
Found at i:9602896 original size:55 final size:53
Alignment explanation
Indices: 9602742--9602906 Score: 161
Period size: 55 Copynumber: 3.0 Consensus size: 53
9602732 AATCATTTTA
* *
9602742 TGGTTCTATCTTGATCATCTGATC-TTGACTCAGTCTAGATCATTTTTTTAGACTTG
1 TGGTTTTATC-TGATCATCCGATCTTTG-CTCAGTCTAGATCA--TTTTTAGACTTG
** * * *
9602798 TGGTTTCGTCATGATCATTCGATCTTAGCTTAGTCTAGATCATTTCTTAGACTTG
1 TGGTTTTATC-TGATCATCCGATCTTTGCTCAGTCTAGATCATTT-TTAGACTTG
* * *
9602853 TGGTTTTATCTCGATCATCCGATCTTTGCTCAATTTAGTTCATTTTTCAGACTT
1 TGGTTTTATCT-GATCATCCGATCTTTGCTCAGTCTAGATCATTTTT-AGACTT
9602907 ATGATTTTGT
Statistics
Matches: 89, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
54 6 0.07
55 50 0.56
56 31 0.35
57 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.46
Consensus pattern (53 bp):
TGGTTTTATCTGATCATCCGATCTTTGCTCAGTCTAGATCATTTTTAGACTTG
Found at i:9603144 original size:123 final size:123
Alignment explanation
Indices: 9603017--9603270 Score: 287
Period size: 123 Copynumber: 2.1 Consensus size: 123
9603007 AAATCATTTT
* * * *
9603017 ATTTTTTTGATTCACGATTCAGTTTCGA-TTATATATTTGATATTGGCTCAGTATAGATCATTTT
1 ATTTTTCTCATTCACGATTCAGTTT-GAGTTATATATTTGATATTGGCTCAGTATAGATCATCTC
* * * * *
9603081 ATTTTTCTAACTTGTAGCTCA-ACCTCGGTCACCTATTTGATCTTGGTTTAGTCCAGATC
65 ATTTTCCTAACTTGTAGCTCAGACCT-GGTCACCTATTTAATATTGGCTTAGTCCAAATC
* * * * * * * *
9603140 ATTTTTCTCATTTATGGTTCAGTTTTAGTTATCTGTTTGATCTTGGCTCAGTCTAGATCATCTCA
1 ATTTTTCTCATTCACGATTCAGTTTGAGTTATATATTTGATATTGGCTCAGTATAGATCATCTCA
* * * *
9603205 TTTTCCTGACTTGTAGCTTAGTCCTGGTCACCTATTTAATATTGGCTTAGTCCAAATT
66 TTTTCCTAACTTGTAGCTCAGACCTGGTCACCTATTTAATATTGGCTTAGTCCAAATC
9603263 ATTTTTCT
1 ATTTTTCT
9603271 AACTTACGGC
Statistics
Matches: 108, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
122 1 0.01
123 104 0.96
124 3 0.03
ACGTcount: A:0.21, C:0.18, G:0.15, T:0.47
Consensus pattern (123 bp):
ATTTTTCTCATTCACGATTCAGTTTGAGTTATATATTTGATATTGGCTCAGTATAGATCATCTCA
TTTTCCTAACTTGTAGCTCAGACCTGGTCACCTATTTAATATTGGCTTAGTCCAAATC
Found at i:9603289 original size:123 final size:123
Alignment explanation
Indices: 9603052--9603311 Score: 317
Period size: 123 Copynumber: 2.1 Consensus size: 123
9603042 CGATTATATA
* * * *
9603052 TTTGATATTGGCTCAGTATAGATCATTTTATTTTTCTAACTTGTAGCTCAACCTCGGTCACCTAT
1 TTTGATCTTGGCTCAGTATAGATCATCTCATTTTCCTAACTTGTAGCTCAACCTCGGTCACCTAT
* * * * * * * * *
9603117 TTGATCTTGGTTTAGTCCAGATCATTTTTCTCATTTATGGTTCAGTTTTAGTTA-TCTG
66 TTAATATTGGCTTAGTCCAAATCATTTTTCTAACTTACGGCTCAATTTTAGTTACT-TG
* * * *
9603175 TTTGATCTTGGCTCAGTCTAGATCATCTCATTTTCCTGACTTGTAGCTTAGTCCT-GGTCACCTA
1 TTTGATCTTGGCTCAGTATAGATCATCTCATTTTCCTAACTTGTAGCTCA-ACCTCGGTCACCTA
*
9603239 TTTAATATTGGCTTAGTCCAAATTATTTTTCTAACTTACGGCTCAATTTTAGTTACTTG
65 TTTAATATTGGCTTAGTCCAAATCATTTTTCTAACTTACGGCTCAATTTTAGTTACTTG
*
9603298 TTTGATCTAGGCTC
1 TTTGATCTTGGCTC
9603312 TATTCAGATC
Statistics
Matches: 116, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
123 112 0.97
124 4 0.03
ACGTcount: A:0.20, C:0.19, G:0.15, T:0.45
Consensus pattern (123 bp):
TTTGATCTTGGCTCAGTATAGATCATCTCATTTTCCTAACTTGTAGCTCAACCTCGGTCACCTAT
TTAATATTGGCTTAGTCCAAATCATTTTTCTAACTTACGGCTCAATTTTAGTTACTTG
Found at i:9603788 original size:68 final size:68
Alignment explanation
Indices: 9603667--9603871 Score: 221
Period size: 68 Copynumber: 3.0 Consensus size: 68
9603657 TGCAAATTTG
* * * * * * **
9603667 GAACATTTACAAAACTTGAAATCTTGCGAATATTTCATTCTTAAGAATCTGAAAGTCATTATGAA
1 GAACCTTTGCAAAACTTAAAATCTTACGAATCTTTCATTCTTGAGAATCTGAAAGTCATTACAAA
9603732 CCT
66 CCT
* * * * *
9603735 GAACCTTTGCAAAACTTAAAATCTTATGAATCTTTCATTCTTGCGAATTTGAAAGTCCTTGCAAA
1 GAACCTTTGCAAAACTTAAAATCTTACGAATCTTTCATTCTTGAGAATCTGAAAGTCATTACAAA
*
9603800 TCT
66 CCT
* * * * * *
9603803 GAACCTTTGCGAAACTTAAAATCTTACGAATCTTTTTATTCTTGTGAATCTAAAAATCTTTACAA
1 GAACCTTTGCAAAACTTAAAATCTTACGAATC-TTTCATTCTTGAGAATCTGAAAGTCATTACAA
9603868 ACCT
65 ACCT
9603872 CAAACCTTGC
Statistics
Matches: 112, Mismatches: 24, Indels: 1
0.82 0.18 0.01
Matches are distributed among these distances:
68 84 0.75
69 28 0.25
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (68 bp):
GAACCTTTGCAAAACTTAAAATCTTACGAATCTTTCATTCTTGAGAATCTGAAAGTCATTACAAA
CCT
Found at i:9603920 original size:34 final size:34
Alignment explanation
Indices: 9603842--9603921 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 34
9603832 ATCTTTTTAT
9603842 TCTTGTGAATCTAAAAATCTTTACAAACCTCAAA
1 TCTTGTGAATCTAAAAATCTTTACAAACCTCAAA
* * * * * *
9603876 CCTTGCGAATCT-AGAATCTTTGCGAAACTTGAAA
1 TCTTGTGAATCTAAAAATCTTTAC-AAACCTCAAA
9603910 TCTTGTGAATCT
1 TCTTGTGAATCT
9603922 TTCATTCTTA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
33 9 0.24
34 28 0.76
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (34 bp):
TCTTGTGAATCTAAAAATCTTTACAAACCTCAAA
Found at i:9603944 original size:85 final size:85
Alignment explanation
Indices: 9603791--9603948 Score: 219
Period size: 85 Copynumber: 1.9 Consensus size: 85
9603781 ATTTGAAAGT
* ***
9603791 CCTTGCAAATCTGAACCTTTGCGAAACTTAAAATCTTACGAATCTTTTTATTCTTGTGAATCTAA
1 CCTTGCAAATCTGAACCTTTGCGAAACTTAAAATCTTACGAATCTTTTCATTCTTACAAATCTAA
9603856 AAATCTTTACAAACCTCAAA
66 AAATCTTTACAAACCTCAAA
* * * **
9603876 CCTTGCGAATCTAGAATCTTTGCGAAACTTGAAATCTTGTGAATC-TTTCATTCTTACAAATCTA
1 CCTTGCAAATCT-GAACCTTTGCGAAACTTAAAATCTTACGAATCTTTTCATTCTTACAAATCTA
9603940 AAAATCTTT
65 AAAATCTTT
9603949 GTATCTTGAA
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
85 35 0.56
86 28 0.44
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.37
Consensus pattern (85 bp):
CCTTGCAAATCTGAACCTTTGCGAAACTTAAAATCTTACGAATCTTTTCATTCTTACAAATCTAA
AAATCTTTACAAACCTCAAA
Found at i:9605172 original size:7 final size:7
Alignment explanation
Indices: 9605129--9605205 Score: 81
Period size: 7 Copynumber: 11.4 Consensus size: 7
9605119 GCAGGTTTTT
*
9605129 TTTTCTA
1 TTTTATA
9605136 TTTTA-A
1 TTTTATA
9605142 TTTTA-A
1 TTTTATA
9605148 TTTT-TGA
1 TTTTAT-A
* *
9605155 TTTGATT
1 TTTTATA
9605162 TTTTATA
1 TTTTATA
9605169 TTTTATA
1 TTTTATA
9605176 TTTTATA
1 TTTTATA
*
9605183 TTTT-GA
1 TTTTATA
9605189 TTTTATA
1 TTTTATA
9605196 TTTTATA
1 TTTTATA
9605203 TTT
1 TTT
9605206 AGTTTTTTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
6 16 0.27
7 42 0.71
8 1 0.02
ACGTcount: A:0.23, C:0.01, G:0.04, T:0.71
Consensus pattern (7 bp):
TTTTATA
Found at i:9605179 original size:27 final size:27
Alignment explanation
Indices: 9605135--9605205 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
9605125 TTTTTTTTCT
*
9605135 ATTTTA-ATTTTA-ATTTTTGA-TTTG
1 ATTTTATATTTTATATTTTAGATTTTG
*
9605159 ATTTTTTATATTTTATATTTTATATTTTG
1 A--TTTTATATTTTATATTTTAGATTTTG
9605188 ATTTTATATTTTATATTT
1 ATTTTATATTTTATATTT
9605206 AGTTTTTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
24 1 0.03
26 5 0.12
27 23 0.57
28 6 0.15
29 5 0.12
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.70
Consensus pattern (27 bp):
ATTTTATATTTTATATTTTAGATTTTG
Found at i:9605179 original size:34 final size:33
Alignment explanation
Indices: 9605127--9605205 Score: 106
Period size: 34 Copynumber: 2.4 Consensus size: 33
9605117 TCGCAGGTTT
*
9605127 TTTTTTCTATTTTAATTTTA-ATTTTTGATTTGA
1 TTTTTTATATTTTAATTTTATA-TTTTGATTTGA
*
9605160 TTTTTTATATTTTATATTTTATATTTTGATTTTA
1 TTTTTTATATTTTA-ATTTTATATTTTGATTTGA
*
9605194 TATTTTATATTT
1 TTTTTTATATTT
9605206 AGTTTTTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
33 13 0.32
34 27 0.66
35 1 0.02
ACGTcount: A:0.23, C:0.01, G:0.04, T:0.72
Consensus pattern (33 bp):
TTTTTTATATTTTAATTTTATATTTTGATTTGA
Found at i:9605191 original size:20 final size:20
Alignment explanation
Indices: 9605129--9605205 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
9605119 GCAGGTTTTT
*
9605129 TTTTCTATTTTA-ATTTTAA
1 TTTTATATTTTATATTTTAA
* *
9605148 TTTT-TGATTTGATTTTTTATA
1 TTTTAT-ATTTTATATTTTA-A
*
9605169 TTTTATATTTTATATTTTGA
1 TTTTATATTTTATATTTTAA
9605189 TTTTATATTTTATATTT
1 TTTTATATTTTATATTT
9605206 AGTTTTTTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
18 1 0.02
19 9 0.18
20 23 0.47
21 15 0.31
22 1 0.02
ACGTcount: A:0.23, C:0.01, G:0.04, T:0.71
Consensus pattern (20 bp):
TTTTATATTTTATATTTTAA
Found at i:9605212 original size:20 final size:20
Alignment explanation
Indices: 9605163--9605211 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
9605153 GATTTGATTT
*
9605163 TTTATATTTTATATTTTATA
1 TTTAGATTTTATATTTTATA
*
9605183 TTTTGATTTTATATTTTATA
1 TTTAGATTTTATATTTTATA
9605203 TTTAG-TTTT
1 TTTAGATTTT
9605212 TTTTTATCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 4 0.15
20 22 0.85
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (20 bp):
TTTAGATTTTATATTTTATA
Found at i:9605358 original size:23 final size:23
Alignment explanation
Indices: 9605307--9605358 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
9605297 TTTTATTTCC
9605307 ATAAAACAAAAAAATATTAAAAA
1 ATAAAACAAAAAAATATTAAAAA
* *
9605330 ATTAAAA-ATAAAAATATTTACAAA
1 A-TAAAACAAAAAAATA-TTAAAAA
9605354 ATAAA
1 ATAAA
9605359 TTCATGAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (23 bp):
ATAAAACAAAAAAATATTAAAAA
Found at i:9606531 original size:40 final size:40
Alignment explanation
Indices: 9606487--9606562 Score: 152
Period size: 40 Copynumber: 1.9 Consensus size: 40
9606477 ATACATGTAC
9606487 ACAAGCCTGTATTTACCAAATTAAGACAAGACAACCGTAT
1 ACAAGCCTGTATTTACCAAATTAAGACAAGACAACCGTAT
9606527 ACAAGCCTGTATTTACCAAATTAAGACAAGACAACC
1 ACAAGCCTGTATTTACCAAATTAAGACAAGACAACC
9606563 TTAGAATTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.43, C:0.24, G:0.12, T:0.21
Consensus pattern (40 bp):
ACAAGCCTGTATTTACCAAATTAAGACAAGACAACCGTAT
Found at i:9610982 original size:29 final size:30
Alignment explanation
Indices: 9610932--9610991 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 30
9610922 GTAAAGATTT
9610932 AATTGAATTGAATTAAAATAAAAAATTTAAA
1 AATTGAATTGAATTAAAATAAAAAA-TTAAA
* * *
9610963 AATT-AATT-AATTATAGTAAAATATTAAA
1 AATTGAATTGAATTAAAATAAAAAATTAAA
9610991 A
1 A
9610992 TTTTAAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 6 0.23
29 12 0.46
30 4 0.15
31 4 0.15
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (30 bp):
AATTGAATTGAATTAAAATAAAAAATTAAA
Found at i:9611012 original size:37 final size:34
Alignment explanation
Indices: 9610945--9611012 Score: 82
Period size: 37 Copynumber: 1.9 Consensus size: 34
9610935 TGAATTGAAT
*
9610945 TAAAATAAAAAATTTAAAAATTAATTAATTATAG
1 TAAAATAAAAAATTTAAAAATTAATAAATTATAG
* *
9610979 TAAAATATTAAAATTTTAAATAATTAGTAAATTA
1 TAAAATA--AAAAATTTAAA-AATTAATAAATTA
9611013 CAATTTAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 7 0.25
36 10 0.36
37 11 0.39
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (34 bp):
TAAAATAAAAAATTTAAAAATTAATAAATTATAG
Found at i:9628555 original size:13 final size:13
Alignment explanation
Indices: 9628537--9628566 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
9628527 TGAGAAAATG
*
9628537 TTTTTTGTTTTTA
1 TTTTTTATTTTTA
9628550 TTTTTTATTTTTA
1 TTTTTTATTTTTA
9628563 TTTT
1 TTTT
9628567 CTAAAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.87
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:9628587 original size:34 final size:34
Alignment explanation
Indices: 9628543--9628609 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
9628533 AATGTTTTTT
*
9628543 GTTTTTATTTTTTATTTTTATTTTCTAAAAAATA
1 GTTTTCATTTTTTATTTTTATTTTCTAAAAAATA
*
9628577 GTTTTCATTTTTTATTTTTGTTTTCTAAAAAAT
1 GTTTTCATTTTTTATTTTTATTTTCTAAAAAAT
9628610 GTATTTGGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.64
Consensus pattern (34 bp):
GTTTTCATTTTTTATTTTTATTTTCTAAAAAATA
Found at i:9632183 original size:19 final size:20
Alignment explanation
Indices: 9632148--9632187 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
9632138 GATTGATTTT
9632148 TTTTAATTTATCGATTTTAA
1 TTTTAATTTATCGATTTTAA
9632168 TTTT-ATTTACTC-ATTTTAA
1 TTTTAATTTA-TCGATTTTAA
9632187 T
1 T
9632188 AAAAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTTAATTTATCGATTTTAA
Found at i:9638601 original size:566 final size:564
Alignment explanation
Indices: 9637529--9638647 Score: 1386
Period size: 566 Copynumber: 2.0 Consensus size: 564
9637519 ATATCAATTA
* *
9637529 AAATATTATTTTATAAAAAATCATATGTGTTAAAAGGTATTTGGTGATAAAAAAATACAATTATA
1 AAATATTATTTTATAAAAAATCAAATGTATTAAAAGGTATTTGGTGATAAAAAAATACAATTATA
* * * *
9637594 TTTTTTTCCTTTTAAAAGCCTTCAGCAAACAATTAAGAATATTTTTATTATTTATATCAATCTGA
66 TTTTTTTCCTTTTAAAAACCTTCAACAAACAATTAAGAATATTTCTATCATTTATATCAATCTGA
* * * * * *
9637659 CATGTCAAATTAATCTAATATATTTTGTGTCACATTAGTTTGACACTGTCTTTATTATCCTCTGA
131 CATGTCAAATTAATCTAACATAATTAGTGCCACATAAATTTGACACTGTCTTTATTATCCTCTGA
* * * *
9637724 TAGTCTCCTATTGCTCAACTGTAAATATGAAGATTTCAGCACCACTAAAGTAAGTTAATCATAAT
196 TAGTCT-CTATTGCTCAACTATAAATATGAAGATTCCAACACCACTAAAATAAGTTAATCATAAT
* ** * *
9637789 CTCATTTCCTCATTCCTACTTTTTTTTTTTATCTCATTCTGTTTTATTTGCGCGTCATGATACAA
260 CTCATTTCCTCATTCCTACTTTTTTTTTTTACCTCATTCTACTTGATTTGCGCGTCAGGATACAA
* * * * *
9637854 ACGTAAAAAATATATCCTTTATTTACCTTTTATTTTCATTATTTTCTATTTTTTCAATAATGCCA
325 ACGTAAAAAATACATCCTTTATTTACCTTTGACTATCATTATTTTCTATTTTTTCAATAACGCCA
* ** * *
9637919 TGAGGTGAGAGTTCGGTACAAACAATATGAATTATTTTCATTAAATTAAAAAAATAATGCATTAT
390 TGAGGTGAGAGCTCGACACAAACAATATGAATTATTTTCATTAAATT-AAAAAATAATACATTAA
9637984 TTATTTTTTAATATTACTTTAATTAATATCACAGAACATGATTAATATTTCTCTAATTACAAAAG
454 TTATTTTTTAATATTACTTTAATTAATATCACAGAACATGATTAATATTTCTCTAATTACAAAAG
*
9638049 TATTGAGAAACAATCAATATTATGATTGAATTTTATGAAAAATCAC
519 TATTGAGAAACAATCAAAATTATGATTGAATTTTATGAAAAATCAC
** *
9638095 AAATATTATTTTATAAAAAATCAAATGTATTAAAAGGTATTTGGTGATCAAAATGATATAA-TA-
1 AAATATTATTTTATAAAAAATCAAATGTATTAAAAGGTATTTGGTGAT-AAAAAAATACAATTAT
* *
9638158 ATTTTTTTCCCTTTTAAAAACCTTCAACAAACAATTATAG-ATATTTCTATCATTTATATCATTT
65 ATTTTTTT-CCTTTTAAAAACCTTCAACAAACAATTA-AGAATATTTCTATCATTTATATCAATC
**** * * * *
9638222 TGACATGTTGGGTCT-GTCTGACATAATTAGTGCCACATAAATTT-AGTATTGTCTTTATTATCC
128 TGACATGTCAAAT-TAATCTAACATAATTAGTGCCACATAAATTTGA-CACTGTCTTTATTATCC
*
9638285 TTCGATGATA-TCT-TATTGCTC-ACTTATAAATATGAA-AGTTCCAACACCATTAAAATAAGTT
191 -TC--TGATAGTCTCTATTGCTCAAC-TATAAATATGAAGA-TTCCAACACCACTAAAATAAGTT
* * * ***
9638346 TATCATAGTCTCATTTCCTCATTCTTACTTTTTTTTTTTACCTCATTCTACTTGATTTGTTTGTC
251 AATCATAATCTCATTTCCTCATTCCTACTTTTTTTTTTTACCTCATTCTACTTGATTTGCGCGTC
** * * * *
9638411 -GGATTTTAAACGTAAAGAATACAT-CTTATATTTGCCTTTGACTATCATTTTTTTTTTATTTTT
316 AGGA-TACAAACGTAAAAAATACATCCTT-TATTTACCTTTGACTATCA-TTATTTTCTA-TTTT
* * * *
9638474 TTCAGA-GACGTCATGAGGTTGA-AGCTCGACACAAATAATAT-ATATTATTTTTATTAAATT-A
377 TTCA-ATAACGCCATGAGG-TGAGAGCTCGACACAAACAATATGA-ATTATTTTCATTAAATTAA
* *
9638535 AAAATAATACATTAATTATTTTTTAATATTATTTTAATTAATATCACCGAACATGATTAATATTT
439 AAAATAATACATTAATTATTTTTTAATATTACTTTAATTAATATCACAGAACATGATTAATATTT
9638600 CTCTAATTACAAAAGTATTGAGAAACAATCAAAATTATGATTGAATTT
504 CTCTAATTACAAAAGTATTGAGAAACAATCAAAATTATGATTGAATTT
9638648 GAAGGCACAA
Statistics
Matches: 472, Mismatches: 64, Indels: 34
0.83 0.11 0.06
Matches are distributed among these distances:
565 17 0.04
566 372 0.79
567 23 0.05
568 51 0.11
569 9 0.02
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (564 bp):
AAATATTATTTTATAAAAAATCAAATGTATTAAAAGGTATTTGGTGATAAAAAAATACAATTATA
TTTTTTTCCTTTTAAAAACCTTCAACAAACAATTAAGAATATTTCTATCATTTATATCAATCTGA
CATGTCAAATTAATCTAACATAATTAGTGCCACATAAATTTGACACTGTCTTTATTATCCTCTGA
TAGTCTCTATTGCTCAACTATAAATATGAAGATTCCAACACCACTAAAATAAGTTAATCATAATC
TCATTTCCTCATTCCTACTTTTTTTTTTTACCTCATTCTACTTGATTTGCGCGTCAGGATACAAA
CGTAAAAAATACATCCTTTATTTACCTTTGACTATCATTATTTTCTATTTTTTCAATAACGCCAT
GAGGTGAGAGCTCGACACAAACAATATGAATTATTTTCATTAAATTAAAAAATAATACATTAATT
ATTTTTTAATATTACTTTAATTAATATCACAGAACATGATTAATATTTCTCTAATTACAAAAGTA
TTGAGAAACAATCAAAATTATGATTGAATTTTATGAAAAATCAC
Found at i:9643889 original size:31 final size:32
Alignment explanation
Indices: 9643854--9643938 Score: 77
Period size: 36 Copynumber: 2.6 Consensus size: 32
9643844 ATTTAATTAT
9643854 TTTTATTTGTTTTTATATAA-TTCAAATTGAA
1 TTTTATTTGTTTTTATATAATTTCAAATTGAA
* * *
9643885 TTTTAATTT-TTTGTTTTATCAATTTTTTAAATTTAA
1 TTTT-ATTTGTTT-TTATAT-AA--TTTCAAATTGAA
9643921 TTTT-TTTGTTTTTATATA
1 TTTTATTTGTTTTTATATA
9643939 TTATTTTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
31 7 0.16
32 9 0.21
33 3 0.07
34 8 0.19
35 3 0.07
36 13 0.30
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (32 bp):
TTTTATTTGTTTTTATATAATTTCAAATTGAA
Found at i:9644071 original size:24 final size:24
Alignment explanation
Indices: 9644044--9644093 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
9644034 TTTTACTTTT
* *
9644044 TATTTAAATTCAATATATATTTAA
1 TATTTAAATTCAATATAAATTAAA
*
9644068 TATTTAAATTTAATATAAATTAAA
1 TATTTAAATTCAATATAAATTAAA
9644092 TA
1 TA
9644094 AAAAAGTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
TATTTAAATTCAATATAAATTAAA
Found at i:9649692 original size:3 final size:3
Alignment explanation
Indices: 9649684--9649717 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
9649674 ATTTCTTTCT
9649684 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
9649718 TATTATTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:9658793 original size:29 final size:30
Alignment explanation
Indices: 9658756--9658820 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
9658746 ACAGTCAACT
* *
9658756 ATTAAAAAAATTAATTTTA-AAATTTTAAA
1 ATTAAAAAAAATAATTATACAAATTTTAAA
* *
9658785 ATTATAAAAAATAATTATACTTAATTTTAAA
1 ATTAAAAAAAATAATTATAC-AAATTTTAAA
9658816 ATTAA
1 ATTAA
9658821 TTCTTTTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
29 16 0.55
31 13 0.45
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (30 bp):
ATTAAAAAAAATAATTATACAAATTTTAAA
Found at i:9666092 original size:14 final size:15
Alignment explanation
Indices: 9666060--9666092 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
9666050 ATTGATTAAT
9666060 TAAAAAATTATAACA
1 TAAAAAATTATAACA
9666075 -AAAAAATTATAA-A
1 TAAAAAATTATAACA
9666088 TAAAA
1 TAAAA
9666093 CCATAATTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 1 0.06
14 16 0.94
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (15 bp):
TAAAAAATTATAACA
Found at i:9670027 original size:2 final size:2
Alignment explanation
Indices: 9670022--9670046 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9670012 GTCACATATA
9670022 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
9670047 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:9671248 original size:2 final size:2
Alignment explanation
Indices: 9671241--9671277 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
9671231 ATACAACAGC
9671241 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9671278 AAACTATCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9671637 original size:2 final size:2
Alignment explanation
Indices: 9671630--9671660 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9671620 TATATTATTT
9671630 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9671661 GAAAACAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9672936 original size:24 final size:24
Alignment explanation
Indices: 9672877--9672947 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 24
9672867 TGAGAATTAA
* *
9672877 AATAA-TAATAAATATTATTATAGT
1 AATAATTAA-AAAAATTATTATAAT
*
9672901 AATGATTAAAAAAATTATTATAAT
1 AATAATTAAAAAAATTATTATAAT
* *
9672925 TATAATTTAAAAAAAAT-TTATAA
1 AATAA-TTAAAAAAATTATTATAA
9672948 ATAAATTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
24 26 0.67
25 13 0.33
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (24 bp):
AATAATTAAAAAAATTATTATAAT
Found at i:9672954 original size:23 final size:25
Alignment explanation
Indices: 9672906--9672956 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
9672896 ATAGTAATGA
* *
9672906 TTAAAAAAATTATTATAATTATAAT
1 TTAAAAAAAATATTATAAATATAAT
9672931 TTAAAAAAAAT-TTATAAATA-AAT
1 TTAAAAAAAATATTATAAATATAAT
9672954 TTA
1 TTA
9672957 TACTGATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 6 0.25
24 8 0.33
25 10 0.42
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
TTAAAAAAAATATTATAAATATAAT
Found at i:9685550 original size:29 final size:28
Alignment explanation
Indices: 9685502--9685564 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 28
9685492 GATATTTTGA
**
9685502 ATAAA-AA-TATTGATAGAATTTTTATT
1 ATAAATAAGTATTGATAGAATTTAAATT
9685528 ATTAAATAAGTATTGATTA-AATTTAAATT
1 A-TAAATAAGTATTGA-TAGAATTTAAATT
9685557 ATAAATAA
1 ATAAATAA
9685565 AATTTTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
26 1 0.03
27 4 0.13
28 9 0.29
29 15 0.48
30 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (28 bp):
ATAAATAAGTATTGATAGAATTTAAATT
Found at i:9689013 original size:1 final size:1
Alignment explanation
Indices: 9689007--9689031 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
9688997 AAATGATATG
9689007 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
9689032 ACTTTAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:9689562 original size:15 final size:15
Alignment explanation
Indices: 9689544--9689574 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
9689534 TTCAAAAGAG
9689544 AGTGTGAAAAAATAA
1 AGTGTGAAAAAATAA
9689559 AGTGTGAAAAAATAA
1 AGTGTGAAAAAATAA
9689574 A
1 A
9689575 AATAATTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.19, T:0.19
Consensus pattern (15 bp):
AGTGTGAAAAAATAA
Found at i:9692520 original size:17 final size:18
Alignment explanation
Indices: 9692486--9692524 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
9692476 ATCAGTCTAT
*
9692486 TTTTGTATTATATTCATA
1 TTTTGTATCATATTCATA
9692504 TTTTGTATCAT-TTCATA
1 TTTTGTATCATATTCATA
9692521 TTTT
1 TTTT
9692525 AGATTTTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.23, C:0.08, G:0.05, T:0.64
Consensus pattern (18 bp):
TTTTGTATCATATTCATA
Found at i:9694606 original size:15 final size:16
Alignment explanation
Indices: 9694586--9694620 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
9694576 AACAAGGCAA
9694586 TTTTTTTTTCTT-TTT
1 TTTTTTTTTCTTCTTT
*
9694601 TTTTTTTTTGTTCTTT
1 TTTTTTTTTCTTCTTT
9694617 TTTT
1 TTTT
9694621 AATACTAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.00, C:0.06, G:0.03, T:0.91
Consensus pattern (16 bp):
TTTTTTTTTCTTCTTT
Found at i:9694609 original size:18 final size:18
Alignment explanation
Indices: 9694586--9694620 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
9694576 AACAAGGCAA
9694586 TTTTTTT-TTCTTTTTTT
1 TTTTTTTGTTCTTTTTTT
9694603 TTTTTTTGTTCTTTTTTT
1 TTTTTTTGTTCTTTTTTT
9694621 AATACTAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.00, C:0.06, G:0.03, T:0.91
Consensus pattern (18 bp):
TTTTTTTGTTCTTTTTTT
Found at i:9699649 original size:19 final size:18
Alignment explanation
Indices: 9699621--9699661 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
9699611 AAAATTGATT
9699621 AAATAAAAATTAAAATCA
1 AAATAAAAATTAAAATCA
*
9699639 AAATCAAAAATTAAAATTA
1 AAAT-AAAAATTAAAATCA
9699658 AAAT
1 AAAT
9699662 TTATAAATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (18 bp):
AAATAAAAATTAAAATCA
Found at i:9699839 original size:19 final size:18
Alignment explanation
Indices: 9699811--9699846 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
9699801 ATTATAAATT
*
9699811 ATATTTTTAATATTTTTAC
1 ATATTATTAAT-TTTTTAC
9699830 ATATTATTAATTTTTTA
1 ATATTATTAATTTTTTA
9699847 TTAAACTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (18 bp):
ATATTATTAATTTTTTAC
Found at i:9700763 original size:6 final size:6
Alignment explanation
Indices: 9700752--9700776 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9700742 GAATTGTGAG
9700752 TCGAGC TCGAGC TCGAGC TCGAGC T
1 TCGAGC TCGAGC TCGAGC TCGAGC T
9700777 TCTCACTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.32, G:0.32, T:0.20
Consensus pattern (6 bp):
TCGAGC
Found at i:9701257 original size:476 final size:471
Alignment explanation
Indices: 9700336--9701277 Score: 1395
Period size: 476 Copynumber: 2.0 Consensus size: 471
9700326 GAAAGAGTGG
* *
9700336 AGCGTGATTAGAGATGTAAATAATACATTAGAACTCATAAGTTATTCGGGTTCGATTCGAAGAAA
1 AGCGTGATTAGAGATGTAAATAATACATTAGAACTCATAAGTTACTCGGATTCGATTCGAAGAAA
* * * * *
9700401 ATTTGAATTCGATTCGATTATTATCGAGTCGAGTTCGAGCTCGAGTAGCTCGATTTATCGATCAA
66 ACTCGAATTCGATTCGATTATTATCGAGTCGAGCTCGAGCTCGAGTAACTCGACTTATCGATCAA
* *
9700466 GCCGAATTCGAGTATTCTTATATCCGACTCGAGTAGCTCGCGAGCTTAATCGAGCTTTTATATTT
131 GCCGAATTCGAGTATTCTTATATCCGACTCGAGTAGCTCACGAGCCTAATCGAGCTTTTATATTT
* *
9700531 AAATATATTTTTATTATTTTAATTAATAAAATATTTTGAATTCGAGTTCGAGTATGAATAATCGA
196 AAATATATTTTTATTATTTTAATTAATAAAATATTTCGAATCCGAGTTCGAGTATGAATAATCGA
* * * * * *
9700596 ACTTTTATCGAATATACGAATCGAGTTTATTTTTATGTATTAATCGAGCTTAATCGAGCGAGCTC
261 ACTCTTATCGAATATACAAATCGAGCTTATTTTTATATATTAATCGAACTTAATCGAGCAAGCTC
* *
9700661 GAGTAGCTCGAATTCGATCACGAATCAAGCTCGAGTTTGAAAAATAAAACTCGATCGAGCTCGAG
326 GAGTAGCTCGAATTCGATCACGAATCAAGCTCGAGCTTGAAAAATAAAACTCGATCCAGCTCGAG
* * * *
9700726 TCGAGTATCGAGCCCTGAATTGTGAGTCGAGCTCGAGCTCGAGCTCGAGCTTCTCACTATTCGGC
391 TCGAATATCGAGCCCTGAATTGTGAGTCGA---C-AGCTCGAACTCGAACTTCTCACTATTCAGC
*
9700791 TCGACTCGATTACACCTCTA
452 TCAACTCGATTACACCTCTA
* * * * *
9700811 AGCGTGATGTAGGGGTGTAAATGATACATTAGTACTCGTAAGTTACTCGGATTCGATTCGAAGAA
1 AGCGTGAT-TAGAGATGTAAATAATACATTAGAACTCATAAGTTACTCGGATTCGATTCGAAGAA
* *
9700876 AACTCGAATTC-AGTTCGATTATTATCGAGTCGAGCTCTAGCTCGAGTAACTCGACTTATTGATC
65 AACTCGAATTCGA-TTCGATTATTATCGAGTCGAGCTCGAGCTCGAGTAACTCGACTTATCGATC
* * *
9700940 GAGCCGAATTCGAGTATTTTTATATCCGATTCGAGTAGCTCACGAGCCTAATCGAGCTTTTATAT
129 AAGCCGAATTCGAGTATTCTTATATCCGACTCGAGTAGCTCACGAGCCTAATCGAGCTTTTATAT
9701005 TTAAATATATTTTTATTATTTTAATTAATAAAATATTTCGAATCCGAGTTCGAGTTCGCGCATGA
194 TTAAATATATTTTTATTATTTTAATTAATAAAATATTTCGAATCCGAGTTCGAG-T-----ATGA
* * *
9701070 ATAATCGAACTCTTGTCGAGTATATAAATCGAGCTTATTTTTATATATTAATCGAACTTAATCGA
253 ATAATCGAACTCTTATCGAATATACAAATCGAGCTTATTTTTATATATTAATCGAACTTAATCGA
* *
9701135 GCAAGTTCGAGTAGCTCGAATTCGATCACGAATCGAGCTCGAGCTTGAAAAATAAAACTCGATCC
318 GCAAGCTCGAGTAGCTCGAATTCGATCACGAATCAAGCTCGAGCTTGAAAAATAAAACTCGATCC
*
9701200 AGCTCGAGTCGAATATCGAGCTCTGAATTGTGAGTCGA-A-CTCGAACTCGAACTTCTCACTATT
383 AGCTCGAGTCGAATATCGAGCCCTGAATTGTGAGTCGACAGCTCGAACTCGAACTTCTCACTATT
9701263 CAGCTCAACTCGATT
448 CAGCTCAACTCGATT
9701278 CAATTACACC
Statistics
Matches: 419, Mismatches: 40, Indels: 15
0.88 0.08 0.03
Matches are distributed among these distances:
475 9 0.02
476 251 0.60
477 2 0.00
482 157 0.37
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (471 bp):
AGCGTGATTAGAGATGTAAATAATACATTAGAACTCATAAGTTACTCGGATTCGATTCGAAGAAA
ACTCGAATTCGATTCGATTATTATCGAGTCGAGCTCGAGCTCGAGTAACTCGACTTATCGATCAA
GCCGAATTCGAGTATTCTTATATCCGACTCGAGTAGCTCACGAGCCTAATCGAGCTTTTATATTT
AAATATATTTTTATTATTTTAATTAATAAAATATTTCGAATCCGAGTTCGAGTATGAATAATCGA
ACTCTTATCGAATATACAAATCGAGCTTATTTTTATATATTAATCGAACTTAATCGAGCAAGCTC
GAGTAGCTCGAATTCGATCACGAATCAAGCTCGAGCTTGAAAAATAAAACTCGATCCAGCTCGAG
TCGAATATCGAGCCCTGAATTGTGAGTCGACAGCTCGAACTCGAACTTCTCACTATTCAGCTCAA
CTCGATTACACCTCTA
Found at i:9702269 original size:18 final size:17
Alignment explanation
Indices: 9702246--9702286 Score: 66
Period size: 16 Copynumber: 2.4 Consensus size: 17
9702236 CTTAAAATTT
9702246 CATCAAGATATCTGAAGG
1 CATCAA-ATATCTGAAGG
9702264 CATC-AATATCTGAAGG
1 CATCAAATATCTGAAGG
9702280 CATCAAA
1 CATCAAA
9702287 ACTTCATCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 15 0.68
17 3 0.14
18 4 0.18
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (17 bp):
CATCAAATATCTGAAGG
Found at i:9705252 original size:16 final size:16
Alignment explanation
Indices: 9705216--9705262 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
9705206 AAAAAATGAT
9705216 TAATAAAAA-TAT-TA
1 TAATAAAAATTATATA
*
9705230 AAATAAAAATTATATA
1 TAATAAAAATTATATA
*
9705246 TAATAAAAATTTTATA
1 TAATAAAAATTATATA
9705262 T
1 T
9705263 GATTTAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 8 0.29
15 3 0.11
16 17 0.61
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TAATAAAAATTATATA
Found at i:9707593 original size:48 final size:48
Alignment explanation
Indices: 9707535--9707640 Score: 131
Period size: 48 Copynumber: 2.2 Consensus size: 48
9707525 AACAACATTG
* ** * *
9707535 ACTAAATTTGAAATTTTTGTTGAAACTGGAATGAAAACTGGATCTGAA
1 ACTAGATTTGAAATTTGAGTTAAAACTGGAATGAAAACTAGATCTGAA
* * *
9707583 ACTAGATTTGAAGTTTGAGTTAAAACTGGAATGGAAACTAGATTTGAA
1 ACTAGATTTGAAATTTGAGTTAAAACTGGAATGAAAACTAGATCTGAA
*
9707631 ACTGGATTTG
1 ACTAGATTTG
9707641 TTGAAGCTAA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.33
Consensus pattern (48 bp):
ACTAGATTTGAAATTTGAGTTAAAACTGGAATGAAAACTAGATCTGAA
Found at i:9707594 original size:12 final size:12
Alignment explanation
Indices: 9707569--9707666 Score: 52
Period size: 12 Copynumber: 7.9 Consensus size: 12
9707559 ACTGGAATGA
* *
9707569 AAACTGGATCTG
1 AAACTAGATTTG
9707581 AAACTAGATTTG
1 AAACTAGATTTG
** * * *
9707593 AAGTTTGAGTTA
1 AAACTAGATTTG
* * *
9707605 AAACTGGAATGG
1 AAACTAGATTTG
9707617 AAACTAGATTTG
1 AAACTAGATTTG
*
9707629 AAACTGGATTTGTTG
1 AAACTAGA--T-TTG
* *
9707644 AAGCTAAATTTG
1 AAACTAGATTTG
9707656 AAACTAGATTT
1 AAACTAGATTT
9707667 AGGGTTTGTG
Statistics
Matches: 61, Mismatches: 22, Indels: 6
0.69 0.25 0.07
Matches are distributed among these distances:
12 51 0.84
13 1 0.02
14 1 0.02
15 8 0.13
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (12 bp):
AAACTAGATTTG
Found at i:9707594 original size:36 final size:36
Alignment explanation
Indices: 9707554--9707636 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 36
9707544 GAAATTTTTG
*
9707554 TTGAAACTGGAATGAAAACTGG-ATCTGAAACTAGAT
1 TTGAAACTGGAATGAAAACTGGAAT-GGAAACTAGAT
** * * *
9707590 TTGAAGTTTGAGTTAAAACTGGAATGGAAACTAGAT
1 TTGAAACTGGAATGAAAACTGGAATGGAAACTAGAT
9707626 TTGAAACTGGA
1 TTGAAACTGGA
9707637 TTTGTTGAAG
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
36 35 0.95
37 2 0.05
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (36 bp):
TTGAAACTGGAATGAAAACTGGAATGGAAACTAGAT
Found at i:9708677 original size:11 final size:11
Alignment explanation
Indices: 9708661--9708686 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9708651 TTTCCTTACA
9708661 TCTAGCAATGT
1 TCTAGCAATGT
9708672 TCTAGCAATGT
1 TCTAGCAATGT
9708683 TCTA
1 TCTA
9708687 TTGAATGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.38
Consensus pattern (11 bp):
TCTAGCAATGT
Found at i:9710379 original size:42 final size:42
Alignment explanation
Indices: 9710332--9710421 Score: 110
Period size: 42 Copynumber: 2.1 Consensus size: 42
9710322 TCTATCATTC
* * * * *
9710332 CATTCCTTACTGCCTC-ATATACATGTTGATTTTCTACTCTTT
1 CATTCCTTACTACATCAAT-TACATGTAGATGTTCTACCCTTT
*
9710374 CATTCCTTATTACATCAATTACATGTAGATGTTCTACCCTTT
1 CATTCCTTACTACATCAATTACATGTAGATGTTCTACCCTTT
9710416 CATTCC
1 CATTCC
9710422 CTAATACCTC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 39 0.95
43 2 0.05
ACGTcount: A:0.22, C:0.27, G:0.07, T:0.44
Consensus pattern (42 bp):
CATTCCTTACTACATCAATTACATGTAGATGTTCTACCCTTT
Found at i:9710439 original size:42 final size:42
Alignment explanation
Indices: 9710351--9710439 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 42
9710341 CTGCCTCATA
* * * * * *
9710351 TACATGTTGATTTTCTACTCTTTCATTCCTTATTACATCAAT
1 TACATGTAGATGTTCTACCCTTTCATTCCCTAATACATCAAC
* *
9710393 TACATGTAGATGTTCTACCCTTTCATTCCCTAATACCTCAGC
1 TACATGTAGATGTTCTACCCTTTCATTCCCTAATACATCAAC
9710435 TACAT
1 TACAT
9710440 CTTTCACTTC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.25, C:0.26, G:0.07, T:0.43
Consensus pattern (42 bp):
TACATGTAGATGTTCTACCCTTTCATTCCCTAATACATCAAC
Found at i:9711769 original size:42 final size:42
Alignment explanation
Indices: 9711703--9711864 Score: 136
Period size: 42 Copynumber: 3.9 Consensus size: 42
9711693 TAAACAACAA
* * *
9711703 AAAATCCTAACTCT-ATATTGGAGCAATTAAGAACAATAGTAG
1 AAAATCCTAACTATAAT-TTCGAGCAATTAAGAACAATAGCAG
* * *
9711745 -AAATCCCTAATTATAATTTCGAGCAATTAAAAATAATAGCAG
1 AAAAT-CCTAACTATAATTTCGAGCAATTAAGAACAATAGCAG
* * * * *
9711787 AAAATCCTAACTATAATTTTGACCAATTAAGATCAACAACAG
1 AAAATCCTAACTATAATTTCGAGCAATTAAGAACAATAGCAG
*
9711829 AAAA-CCTTATA-TATAAATTT-GAGCAATTAAAAACAA
1 AAAATCC-TA-ACTAT-AATTTCGAGCAATTAAGAACAA
9711865 CGACAGAAAA
Statistics
Matches: 97, Mismatches: 17, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
41 6 0.06
42 79 0.81
43 12 0.12
ACGTcount: A:0.49, C:0.15, G:0.09, T:0.27
Consensus pattern (42 bp):
AAAATCCTAACTATAATTTCGAGCAATTAAGAACAATAGCAG
Found at i:9711871 original size:42 final size:41
Alignment explanation
Indices: 9711695--9711876 Score: 134
Period size: 42 Copynumber: 4.3 Consensus size: 41
9711685 AATATGCCTA
* * * * *
9711695 AACAACAAAAAATCCTAACTCTATATTGGAGCAATTAAGAAC
1 AACAACAGAAAA-CCTAACTATAAATTTGAGCAATTAAAAAC
* ** * * *
9711737 AATAGTAGAAATCCCTAATTAT-AATTTCGAGCAATTAAAAAT
1 AACAACAGAAA-ACCTAACTATAAATTT-GAGCAATTAAAAAC
* * * * * *
9711779 AATAGCAGAAAATCCTAACTATAATTTTGACCAATTAAGATC
1 AACAACAGAAAA-CCTAACTATAAATTTGAGCAATTAAAAAC
9711821 AACAACAGAAAACCTTATA-TATAAATTTGAGCAATTAAAAAC
1 AACAACAGAAAACC-TA-ACTATAAATTTGAGCAATTAAAAAC
*
9711863 AACGACAGAAAACC
1 AACAACAGAAAACC
9711877 ATAAATCAGA
Statistics
Matches: 108, Mismatches: 26, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
41 5 0.05
42 98 0.91
43 5 0.05
ACGTcount: A:0.50, C:0.16, G:0.09, T:0.24
Consensus pattern (41 bp):
AACAACAGAAAACCTAACTATAAATTTGAGCAATTAAAAAC
Found at i:9711948 original size:42 final size:41
Alignment explanation
Indices: 9711884--9711965 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 41
9711874 ACCATAAATC
*
9711884 AGAATATGCCTAAGAATAAAGAACTACAAAAAATCCTAAACT
1 AGAATATGCCTAAGAATAAAGAACAACAAAAAAT-CTAAACT
*** *
9711926 AGAATATGCCTAATTTTGAAGAACAACAAAAAATCTAAAC
1 AGAATATGCCTAAGAATAAAGAACAACAAAAAATCTAAAC
9711966 CATAAAATGG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
41 6 0.17
42 29 0.83
ACGTcount: A:0.54, C:0.16, G:0.10, T:0.21
Consensus pattern (41 bp):
AGAATATGCCTAAGAATAAAGAACAACAAAAAATCTAAACT
Found at i:9711992 original size:41 final size:42
Alignment explanation
Indices: 9711878--9711997 Score: 109
Period size: 41 Copynumber: 2.9 Consensus size: 42
9711868 CAGAAAACCA
* * ** *
9711878 TAAATCAGAATATGCCTAAGAAT-AAAGAACTACAAAAAATCC
1 TAAACCAGAAAATGCCTAACTATGAAA-AACAACAAAAAATCC
* * * * *
9711920 TAAACTAGAATATGCCTAATTTTGAAGAACAACAAAAAAT-C
1 TAAACCAGAAAATGCCTAACTATGAAAAACAACAAAAAATCC
* *
9711961 TAAACCATAAAATGGCTAACTATGAAAAACAACAAAA
1 TAAACCAGAAAATGCCTAACTATGAAAAACAACAAAA
9711998 CCCAAAATAT
Statistics
Matches: 63, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
41 31 0.49
42 30 0.48
43 2 0.03
ACGTcount: A:0.55, C:0.16, G:0.09, T:0.20
Consensus pattern (42 bp):
TAAACCAGAAAATGCCTAACTATGAAAAACAACAAAAAATCC
Found at i:9712273 original size:22 final size:22
Alignment explanation
Indices: 9712248--9712290 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
9712238 GTGATTAGGA
9712248 TTAAGGACAATCTGCTTTGGGG
1 TTAAGGACAATCTGCTTTGGGG
9712270 TTAAGGACAATCTGCTTTGGG
1 TTAAGGACAATCTGCTTTGGG
9712291 TTTGAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.14, G:0.30, T:0.33
Consensus pattern (22 bp):
TTAAGGACAATCTGCTTTGGGG
Done.