Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, 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: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 82 of 117
Found at i:14891084 original size:44 final size:42
Alignment explanation
Indices: 14890839--14891125 Score: 253
Period size: 42 Copynumber: 6.7 Consensus size: 42
14890829 TTACTTTCTA
* * *
14890839 AAAGTTATTGAGCCTTTGATTAGAAGAGCTT-TAGTTATTTTT-
1 AAAGTTGTTGAGCCTCTGATTAGAGGAGCTTGT--TTATTTTTC
* * * **
14890881 AAAGTTGTTGAACCTTTGATTAGAGGAGC-TATTTGCTTTTC
1 AAAGTTGTTGAGCCTCTGATTAGAGGAGCTTGTTTATTTTTC
* **
14890922 AAAGTTGTTGAGCCTCTGATTAGAAGAGC-CATTTATTTTTC
1 AAAGTTGTTGAGCCTCTGATTAGAGGAGCTTGTTTATTTTTC
**
14890963 TAAAGTTGTTGAGCCTCTGATTAGAGGAGC-CATTTATTTTTTC
1 -AAAGTTGTTGAGCCTCTGATTAGAGGAGCTTGTTTA-TTTTTC
* ** *
14891006 AAAATCATTGAGCCTCTGATTAGAAGAGCCTTGTTTATTTTTC
1 AAAGTTGTTGAGCCTCTGATTAGAGGAG-CTTGTTTATTTTTC
*
14891049 AAAAGTCT-TTGAGTCTCTGATTAGAGGAGCTTTGTTTATATTTCTC
1 -AAAGT-TGTTGAGCCTCTGATTAGAGGAGC-TTGTTTAT-TTT-TC
* * *
14891095 AAAGTTGTTAACCCTCTGCTTAGAGGAGCTT
1 AAAGTTGTTGAGCCTCTGATTAGAGGAGCTT
14891126 TGATCAAAAT
Statistics
Matches: 207, Mismatches: 26, Indels: 22
0.81 0.10 0.09
Matches are distributed among these distances:
40 6 0.03
41 36 0.17
42 85 0.41
43 14 0.07
44 38 0.18
45 26 0.13
46 2 0.01
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.41
Consensus pattern (42 bp):
AAAGTTGTTGAGCCTCTGATTAGAGGAGCTTGTTTATTTTTC
Found at i:14891160 original size:5 final size:5
Alignment explanation
Indices: 14891142--14891188 Score: 53
Period size: 5 Copynumber: 9.6 Consensus size: 5
14891132 AAATTTTAAT
* *
14891142 AAACA AAA-A AAACA AAACA AAACA AAA-A AAATA AAATAA AAACA AAA
1 AAACA AAACA AAACA AAACA AAACA AAACA AAACA AAA-CA AAACA AAA
14891189 AAAGTGTCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
4 8 0.22
5 25 0.68
6 4 0.11
ACGTcount: A:0.85, C:0.11, G:0.00, T:0.04
Consensus pattern (5 bp):
AAACA
Found at i:14891161 original size:14 final size:13
Alignment explanation
Indices: 14891142--14891191 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
14891132 AAATTTTAAT
14891142 AAACAAAAAAAACA
1 AAACAAAAAAAA-A
*
14891156 AAACAAAACAAAA
1 AAACAAAAAAAAA
* *
14891169 AAA-ATAAAATAA
1 AAACAAAAAAAAA
14891181 AAACAAAAAAA
1 AAACAAAAAAA
14891192 GTGTCAAGTT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
12 9 0.31
13 9 0.31
14 11 0.38
ACGTcount: A:0.86, C:0.10, G:0.00, T:0.04
Consensus pattern (13 bp):
AAACAAAAAAAAA
Found at i:14891164 original size:19 final size:20
Alignment explanation
Indices: 14891142--14891191 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
14891132 AAATTTTAAT
*
14891142 AAACAAAAAAAACAAAA-CA
1 AAACAAAAAAAACAAAATAA
*
14891161 AAACAAAAAAAATAAAATAA
1 AAACAAAAAAAACAAAATAA
14891181 AAACAAAAAAA
1 AAACAAAAAAA
14891192 GTGTCAAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.86, C:0.10, G:0.00, T:0.04
Consensus pattern (20 bp):
AAACAAAAAAAACAAAATAA
Found at i:14891434 original size:16 final size:17
Alignment explanation
Indices: 14891413--14891509 Score: 73
Period size: 17 Copynumber: 5.9 Consensus size: 17
14891403 TTAATATATA
14891413 TATTTTTATT-TTTATT
1 TATTTTTATTATTTATT
*
14891429 TATTTTT-TTATCTATT
1 TATTTTTATTATTTATT
*
14891445 AATATTTTTATTATTTATC
1 --TATTTTTATTATTTATT
**
14891464 TGCTTTTATTATTTA-T
1 TATTTTTATTATTTATT
*
14891480 TA---TTATTATTTATC
1 TATTTTTATTATTTATT
14891494 TATTTCTT-TTATTTAT
1 TATTT-TTATTATTTAT
14891510 CTAATTATTC
Statistics
Matches: 64, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
13 10 0.16
14 2 0.03
15 2 0.03
16 13 0.20
17 21 0.33
18 9 0.14
19 7 0.11
ACGTcount: A:0.23, C:0.05, G:0.01, T:0.71
Consensus pattern (17 bp):
TATTTTTATTATTTATT
Found at i:14891444 original size:28 final size:28
Alignment explanation
Indices: 14891385--14891461 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 28
14891375 AATAAGCATT
*
14891385 TATTTTTATTTTCATTATTTAATATATA
1 TATTTTTATTTTTATTATTTAATATATA
* * *
14891413 TATTTTTATTTTTATTTATTT-TTTTATC
1 TATTTTTATTTTTA-TTATTTAATATATA
**
14891441 TATTAATATTTTTATTATTTA
1 TATTTTTATTTTTATTATTTA
14891462 TCTGCTTTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
27 6 0.15
28 29 0.71
29 6 0.15
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (28 bp):
TATTTTTATTTTTATTATTTAATATATA
Found at i:14891503 original size:33 final size:34
Alignment explanation
Indices: 14891402--14891506 Score: 105
Period size: 33 Copynumber: 3.2 Consensus size: 34
14891392 ATTTTCATTA
* *
14891402 TTTAATATATATATTTTTATT-TTTATTTATTT-T
1 TTTATTAT-TATATTTTTATTATTTATCTATTTCT
*
14891435 TTTATCTATTAATATTTTTATTATTTATC---TGCT
1 TTTAT-TATT-ATATTTTTATTATTTATCTATTTCT
*
14891468 TTTATTATT-TATTATTATTATTTATCTATTTCT
1 TTTATTATTATATTTTTATTATTTATCTATTTCT
14891501 TTTATT
1 TTTATT
14891507 TATCTAATTA
Statistics
Matches: 60, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
30 16 0.27
32 5 0.08
33 20 0.33
34 14 0.23
35 5 0.08
ACGTcount: A:0.25, C:0.05, G:0.01, T:0.70
Consensus pattern (34 bp):
TTTATTATTATATTTTTATTATTTATCTATTTCT
Found at i:14891506 original size:30 final size:30
Alignment explanation
Indices: 14891447--14891518 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 30
14891437 TATCTATTAA
* *
14891447 TATTTTTATTATTTATCTGCTTTTATTATT
1 TATTATTATTATTTATCTGATTTTATTATT
*
14891477 TATTATTATTATTTATCT-ATTTCTTTTATT
1 TATTATTATTATTTATCTGATTT-TATTATT
14891507 TATCTAATTATT
1 TAT-T-ATTATT
14891519 CTTTCTTTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 3 0.08
30 26 0.72
31 1 0.03
32 6 0.17
ACGTcount: A:0.24, C:0.07, G:0.01, T:0.68
Consensus pattern (30 bp):
TATTATTATTATTTATCTGATTTTATTATT
Found at i:14892377 original size:22 final size:22
Alignment explanation
Indices: 14892350--14892393 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
14892340 TTTTTTCATT
14892350 TTTATTATATATATATTTATTA
1 TTTATTATATATATATTTATTA
* *
14892372 TTTATTATTTATTTATTTATTA
1 TTTATTATATATATATTTATTA
14892394 GATTAGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTATTATATATATATTTATTA
Found at i:14892387 original size:15 final size:15
Alignment explanation
Indices: 14892350--14892438 Score: 58
Period size: 15 Copynumber: 5.7 Consensus size: 15
14892340 TTTTTTCATT
*
14892350 TTTA-TTATATATATA
1 TTTATTTATTTAT-TA
14892365 TTTA-TTATTTATTA
1 TTTATTTATTTATTA
14892379 TTTATTTATTTATTAGA
1 TTTATTTATTTATT--A
* * *
14892396 TTAGATTTGTTTAATA
1 TT-TATTTATTTATTA
*
14892412 TTTGTTTATTTCTATT-
1 TTTATTTA-TT-TATTA
14892428 TTTATTTATTT
1 TTTATTTATTT
14892439 TCCTTTATTT
Statistics
Matches: 59, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
14 7 0.12
15 25 0.42
16 12 0.20
17 6 0.10
18 9 0.15
ACGTcount: A:0.27, C:0.01, G:0.04, T:0.67
Consensus pattern (15 bp):
TTTATTTATTTATTA
Found at i:14892433 original size:6 final size:6
Alignment explanation
Indices: 14892416--14892486 Score: 63
Period size: 6 Copynumber: 11.3 Consensus size: 6
14892406 TTAATATTTG
* * *
14892416 TTTATT TCTATT TTTATT TATT-TT CCTTTATT TTTATT TTCATT TTCATT
1 TTTATT TTTATT TTTATT T-TTATT --TTTATT TTTATT TTTATT TTTATT
*
14892466 TTTATT TTTTTAT TTTATT TT
1 TTTATT TTTAT-T TTTATT TT
14892487 CTTTAAATAA
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
6 42 0.78
7 9 0.17
8 3 0.06
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:14892447 original size:20 final size:20
Alignment explanation
Indices: 14892424--14892485 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
14892414 TGTTTATTTC
*
14892424 TATTTTTATTTATTTTCCTT
1 TATTTTTATTTATTTTCATT
14892444 TATTTTTATTTTCATTTTCATT
1 TATTTTTA-TTT-ATTTTCATT
*
14892466 T-TTATTTTTTTATTTT-ATT
1 TATT-TTTATTTATTTTCATT
14892485 T
1 T
14892486 TCTTTAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 4 0.11
20 13 0.35
21 8 0.22
22 12 0.32
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.77
Consensus pattern (20 bp):
TATTTTTATTTATTTTCATT
Found at i:14892461 original size:32 final size:31
Alignment explanation
Indices: 14892416--14892488 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 31
14892406 TTAATATTTG
14892416 TTTA-TTTCTATTTT-TATTTATTTTCCTTTATT
1 TTTATTTTCTATTTTATATTTATTTT--TTTA-T
*
14892448 TTTATTTTC-ATTTTCATTTTTATTTTTTTAT
1 TTTATTTTCTATTTT-ATATTTATTTTTTTAT
14892479 TTTATTTTCT
1 TTTATTTTCT
14892489 TTAAATAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
31 10 0.28
32 13 0.36
33 4 0.11
34 9 0.25
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (31 bp):
TTTATTTTCTATTTTATATTTATTTTTTTAT
Found at i:14892567 original size:58 final size:60
Alignment explanation
Indices: 14892504--14892721 Score: 288
Period size: 58 Copynumber: 3.7 Consensus size: 60
14892494 TAAAATTCAA
*
14892504 AAAAAATAT-TTTTGAGG-AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTTTT
1 AAAAAATATATTTTGAGGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTTAT
**
14892562 AAAAAATAT-TTTTG-GGAAAAAGTTGAAAGTATCAA-TTTTCTTTGAAAATAAGCTTCCT
1 AAAAAATATATTTTGAGGAAAAAGTTGAAAGTATCAATTTTTC-TTGAAAATAAGCTTTAT
* *
14892620 AAAAAA-ATATTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCCAA
1 AAAAAATATATTTTGAGGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTT--AT
**
14892680 AAAAAATATATTTTTTGGAAAAAAGTTGAAAGTATCAATTTT
1 AAAAAATATATTTTGAGG-AAAAAGTTGAAAGTATCAATTTT
14892722 CCTCAAAATT
Statistics
Matches: 142, Mismatches: 8, Indels: 15
0.86 0.05 0.09
Matches are distributed among these distances:
57 9 0.06
58 90 0.63
59 6 0.04
60 6 0.04
61 9 0.06
63 22 0.15
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (60 bp):
AAAAAATATATTTTGAGGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTTAT
Found at i:14892633 original size:116 final size:120
Alignment explanation
Indices: 14892503--14892722 Score: 358
Period size: 116 Copynumber: 1.9 Consensus size: 120
14892493 ATAAAATTCA
* **
14892503 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTT-TTAAAAA
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCAAAAAAA
*
14892567 -ATA-TTTTTGGGAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGCTTCCT
66 TATATTTTTTGGAAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGCTTCCT
14892620 AAAAAAATA-TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCCAAAAAA
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTT-C-AAAAA
14892684 AATATATTTTTTGGAAAAAAGTTGAAAGTATCAATTTTC
64 AATATATTTTTTGGAAAAAAGTTGAAAGTATCAATTTTC
14892723 CTCAAAATTA
Statistics
Matches: 94, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
116 46 0.49
117 9 0.10
119 5 0.05
120 3 0.03
121 31 0.33
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (120 bp):
AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCAAAAAAA
TATATTTTTTGGAAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGCTTCCT
Found at i:14893556 original size:26 final size:22
Alignment explanation
Indices: 14893494--14893771 Score: 110
Period size: 22 Copynumber: 12.7 Consensus size: 22
14893484 TTATACATTA
* *
14893494 ATTTACTATTAAGTTATGAATG
1 ATTTACTATTAAATTATCAATG
14893516 ATTTACTATTAAATTATCAATG
1 ATTTACTATTAAATTATCAATG
* *
14893538 ATTTAC---TAAGTTATCAATT
1 ATTTACTATTAAATTATCAATG
* ** * *
14893557 ATTTATTACAAAATTATCGATA
1 ATTTACTATTAAATTATCAATG
* * *
14893579 ATTTATTGTTAAATTAAT-ATTG
1 ATTTACTATTAAATT-ATCAATG
* * *
14893601 ATTTACTATTAAGTTATCATTA
1 ATTTACTATTAAATTATCAATG
* *
14893623 ATTTACTGTT--A-TA--ACTG
1 ATTTACTATTAAATTATCAATG
* **
14893640 ATTTAGC-ATTAAGTTATTGATG
1 ATTTA-CTATTAAATTATCAATG
* *
14893662 ATTTATCACTAAGTTAACACTTATCATTA
1 A-TT-T-ACT-A-TTAA-A-TTATCAATG
* * *
14893691 ATTTACTATTAAGTTATAAATA
1 ATTTACTATTAAATTATCAATG
* *
14893713 ATTTACTATTAATTTATC-ATA
1 ATTTACTATTAAATTATCAATG
* * * *
14893734 ATTTACCACTAAATTAACCATG
1 ATTTACTATTAAATTATCAATG
*
14893756 ATTTATTATTAAATTA
1 ATTTACTATTAAATTA
14893772 ACATTAATTT
Statistics
Matches: 191, Mismatches: 45, Indels: 40
0.69 0.16 0.14
Matches are distributed among these distances:
17 9 0.05
18 1 0.01
19 18 0.09
20 2 0.01
21 19 0.10
22 113 0.59
23 4 0.02
24 6 0.03
25 2 0.01
26 4 0.02
27 5 0.03
28 2 0.01
29 6 0.03
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.46
Consensus pattern (22 bp):
ATTTACTATTAAATTATCAATG
Found at i:14893571 original size:41 final size:41
Alignment explanation
Indices: 14893503--14893583 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 41
14893493 AATTTACTAT
* ** *
14893503 TAAGTTATGAATGATTTACTATTAAATTATCAATGATTTAC
1 TAAGTTATCAATGATTTACTACAAAATTATCAATAATTTAC
* * *
14893544 TAAGTTATCAATTATTTATTACAAAATTATCGATAATTTA
1 TAAGTTATCAATGATTTACTACAAAATTATCAATAATTTA
14893584 TTGTTAAATT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (41 bp):
TAAGTTATCAATGATTTACTACAAAATTATCAATAATTTAC
Found at i:14893626 original size:22 final size:22
Alignment explanation
Indices: 14893472--14893803 Score: 105
Period size: 22 Copynumber: 15.1 Consensus size: 22
14893462 TAGATAACAT
*
14893472 TTTATTATTAAGTTATACATTAA
1 TTTACTATTAAGTTAT-CATTAA
* * *
14893495 TTTACTATTAAGTTATGAATGA
1 TTTACTATTAAGTTATCATTAA
* * *
14893517 TTTACTATTAAATTATCAATGA
1 TTTACTATTAAGTTATCATTAA
14893539 TTTAC---TAAGTTATCAATT-A
1 TTTACTATTAAGTTATC-ATTAA
* ** *
14893558 TTTATTACAAAATTATCGA-TAA
1 TTTACTATTAAGTTATC-ATTAA
* * * *
14893580 TTTATTGTTAAATTAAT-ATTGA
1 TTTACTATTAAGTT-ATCATTAA
14893602 TTTACTATTAAGTTATCATTAA
1 TTTACTATTAAGTTATCATTAA
* *
14893624 TTTACTGTTATAACTGATTTAGCATTAA
1 TTTACT-AT-TAA--G--TTATCATTAA
* * * * *
14893652 GTTATTGA-TGATTTATCACTAA
1 TTTACT-ATTAAGTTATCATTAA
* * *
14893674 GTTA--A--CACTTATCATTAA
1 TTTACTATTAAGTTATCATTAA
* *
14893692 TTTACTATTAAGTTATAAATAA
1 TTTACTATTAAGTTATCATTAA
*
14893714 TTTACTATTAATTTATCA-TAA
1 TTTACTATTAAGTTATCATTAA
* * * * *
14893735 TTTACCACTAAATTAACCA-TGA
1 TTTACTATTAAGTT-ATCATTAA
* * *
14893757 TTTATTATTAAATTAACATTAA
1 TTTACTATTAAGTTATCATTAA
* * **
14893779 TTTAATACTAAGTTATTGTTAA
1 TTTACTATTAAGTTATCATTAA
14893801 TTT
1 TTT
14893804 TTGTTATCAC
Statistics
Matches: 234, Mismatches: 55, Indels: 41
0.71 0.17 0.12
Matches are distributed among these distances:
18 13 0.06
19 14 0.06
20 3 0.01
21 21 0.09
22 145 0.62
23 18 0.08
24 3 0.01
26 3 0.01
28 14 0.06
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.47
Consensus pattern (22 bp):
TTTACTATTAAGTTATCATTAA
Found at i:14893701 original size:11 final size:11
Alignment explanation
Indices: 14893687--14893728 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
14893677 AACACTTATC
14893687 ATTAATTTACT
1 ATTAATTTACT
*
14893698 ATTAAGTTA-T
1 ATTAATTTACT
*
14893708 AAATAATTTACT
1 -ATTAATTTACT
14893720 ATTAATTTA
1 ATTAATTTA
14893729 TCATAATTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
10 1 0.04
11 23 0.92
12 1 0.04
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (11 bp):
ATTAATTTACT
Found at i:14894456 original size:10 final size:10
Alignment explanation
Indices: 14894432--14894519 Score: 70
Period size: 10 Copynumber: 8.4 Consensus size: 10
14894422 AAGACTAATT
*
14894432 AATTATATCAT
1 AATT-TATCAA
14894443 AATTTATCAA
1 AATTTATCAA
*
14894453 AATTTATTAA
1 AATTTATCAA
14894463 AATTTA-CTAA
1 AATTTATC-AA
14894473 AATTATATCAA
1 AATT-TATCAA
*
14894484 TATATTATCAA
1 AAT-TTATCAA
*
14894495 AATTTTGTCAA
1 AA-TTTATCAA
* *
14894506 AAGTTACCAA
1 AATTTATCAA
14894516 AATT
1 AATT
14894520 GTATTAATTA
Statistics
Matches: 62, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
10 34 0.55
11 25 0.40
12 3 0.05
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (10 bp):
AATTTATCAA
Found at i:14894586 original size:21 final size:21
Alignment explanation
Indices: 14894562--14894632 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
14894552 TACTAGAATA
14894562 ATATCAAAGATTGTCAAAATT
1 ATATCAAAGATTGTCAAAATT
**
14894583 ATATTTAAGATTGTCAAAATT
1 ATATCAAAGATTGTCAAAATT
* ** *
14894604 TTATCAAAG-TTACCAAAATC
1 ATATCAAAGATTGTCAAAATT
14894624 ATATCAAAG
1 ATATCAAAG
14894633 GTTACTAAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
20 16 0.39
21 25 0.61
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.34
Consensus pattern (21 bp):
ATATCAAAGATTGTCAAAATT
Found at i:14894642 original size:21 final size:21
Alignment explanation
Indices: 14894605--14894696 Score: 73
Period size: 21 Copynumber: 4.4 Consensus size: 21
14894595 GTCAAAATTT
14894605 TATCAAA-GTTACCAAAATCA
1 TATCAAAGGTTACCAAAATCA
* *
14894625 TATCAAAGGTTACTAAAATTA
1 TATCAAAGGTTACCAAAATCA
* *
14894646 TAACATAA-GTTA-CAGAAATTA
1 TATCA-AAGGTTACCA-AAATCA
* * *
14894667 TATCAATGATTACCAAAATCG
1 TATCAAAGGTTACCAAAATCA
*
14894688 TATCTAAGG
1 TATCAAAGG
14894697 ATATTAACAA
Statistics
Matches: 55, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
20 9 0.16
21 42 0.76
22 4 0.07
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.29
Consensus pattern (21 bp):
TATCAAAGGTTACCAAAATCA
Found at i:14894684 original size:104 final size:105
Alignment explanation
Indices: 14894491--14894685 Score: 232
Period size: 104 Copynumber: 1.9 Consensus size: 105
14894481 CAATATATTA
* ** * ** * * * *
14894491 TCAAAATTTTGTCAAAAGTTACCAAAATTGTATTAATTATTATTAATATTATATCATTAGTTACT
1 TCAAAATTTTATCAAAAGTTACCAAAATCATATCAAAGATTACTAAAATTATAACATAAGTTACT
**
14894556 AGAATAATATCAAAGATTGTCAAAATTATATTTAAGATTG
66 AGAATAATATCAAAGATTACCAAAATTATATTTAAGATTG
*
14894596 TCAAAATTTTATC-AAAGTTACCAAAATCATATCAAAGGTTACTAAAATTATAACATAAGTTAC-
1 TCAAAATTTTATCAAAAGTTACCAAAATCATATCAAAGATTACTAAAATTATAACATAAGTTACT
* *
14894659 AGAAATTATATCAATGATTACCAAAAT
66 AG-AATAATATCAAAGATTACCAAAAT
14894686 CGTATCTAAG
Statistics
Matches: 74, Mismatches: 15, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
103 2 0.03
104 60 0.81
105 12 0.16
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.36
Consensus pattern (105 bp):
TCAAAATTTTATCAAAAGTTACCAAAATCATATCAAAGATTACTAAAATTATAACATAAGTTACT
AGAATAATATCAAAGATTACCAAAATTATATTTAAGATTG
Found at i:14894685 original size:42 final size:41
Alignment explanation
Indices: 14894597--14894685 Score: 99
Period size: 42 Copynumber: 2.1 Consensus size: 41
14894587 TTAAGATTGT
* * *
14894597 CAAAATTTTATCAAAGTTACCAAAATCATATCAAAGGTTAC
1 CAAAATTATAACAAAGTTACCAAAATCATATCAAAGATTAC
* * *
14894638 TAAAATTATAACATAAGTTA-CAGAAATTATATCAATGATTAC
1 CAAAATTATAACA-AAGTTACCA-AAATCATATCAAAGATTAC
14894680 CAAAAT
1 CAAAAT
14894686 CGTATCTAAG
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
41 12 0.31
42 27 0.69
ACGTcount: A:0.49, C:0.13, G:0.07, T:0.30
Consensus pattern (41 bp):
CAAAATTATAACAAAGTTACCAAAATCATATCAAAGATTAC
Found at i:14894719 original size:30 final size:30
Alignment explanation
Indices: 14894683--14894744 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
14894673 TGATTACCAA
14894683 AATCGTATCTAAGGATATTAACAATTTATC
1 AATCGTATCTAAGGATATTAACAATTTATC
14894713 AATCGTATCTAAGGATATTAACAATTTATC
1 AATCGTATCTAAGGATATTAACAATTTATC
14894743 AA
1 AA
14894745 AGGTTATTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (30 bp):
AATCGTATCTAAGGATATTAACAATTTATC
Found at i:14894815 original size:48 final size:46
Alignment explanation
Indices: 14894763--14894881 Score: 150
Period size: 46 Copynumber: 2.5 Consensus size: 46
14894753 AAATTTCTAA
14894763 CAAAGATTATCAAATTATATCAAAGTTTTATCAAAATTA-AAATTATAT
1 CAAAGATTATCAAATTATATCAAAG-TTTATCAAAA--ACAAATTATAT
* * * *
14894811 CAAAGGTTATCAACTTATATAAAAGTTTATCAAAAACAAATTATGT
1 CAAAGATTATCAAATTATATCAAAGTTTATCAAAAACAAATTATAT
* *
14894857 AAAAAATTATCAAATTATATCAAAG
1 CAAAGATTATCAAATTATATCAAAG
14894882 GTTACTAAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
45 1 0.02
46 28 0.46
47 10 0.16
48 22 0.36
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (46 bp):
CAAAGATTATCAAATTATATCAAAGTTTATCAAAAACAAATTATAT
Found at i:14894830 original size:20 final size:20
Alignment explanation
Indices: 14894805--14894843 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14894795 AAAATTAAAA
*
14894805 TTATATCAAAGGTTATCAAC
1 TTATATAAAAGGTTATCAAC
*
14894825 TTATATAAAAGTTTATCAA
1 TTATATAAAAGGTTATCAA
14894844 AAACAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (20 bp):
TTATATAAAAGGTTATCAAC
Found at i:14894894 original size:21 final size:21
Alignment explanation
Indices: 14894868--14895004 Score: 84
Period size: 21 Copynumber: 6.6 Consensus size: 21
14894858 AAAAATTATC
14894868 AAATTATATCAAAGGTTACTA
1 AAATTATATCAAAGGTTACTA
*
14894889 AAATTATATCAAAAGTTA-TCA
1 AAATTATATCAAAGGTTACT-A
*** * *** *
14894910 AAAGGGTTTCTTTGGTTAC-C
1 AAATTATATCAAAGGTTACTA
*
14894930 AAATTATATCGAAGGTTACTA
1 AAATTATATCAAAGGTTACTA
* *
14894951 AAATTGTATCAAAAGTTA-TCA
1 AAATTATATCAAAGGTTACT-A
* * *
14894972 AAACTATATCTAAGATTACT-
1 AAATTATATCAAAGGTTACTA
*
14894992 AAATTATGTCAAA
1 AAATTATATCAAA
14895005 CTCTATCAAA
Statistics
Matches: 82, Mismatches: 29, Indels: 11
0.67 0.24 0.09
Matches are distributed among these distances:
20 24 0.29
21 57 0.70
22 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (21 bp):
AAATTATATCAAAGGTTACTA
Found at i:14894996 original size:62 final size:62
Alignment explanation
Indices: 14894802--14895004 Score: 185
Period size: 62 Copynumber: 3.2 Consensus size: 62
14894792 ATCAAAATTA
* * * * *
14894802 AAATTATATCAAAGGTTA-TCAACTTATAT-AAAAGTTTATCAAAAACAAATTATGTAAAAAATT
1 AAATTATATCAAAGGTTACTAAAATTATATCAAAAG-TTATC-AAAAC-GA-TATCT--AAGATT
*
14894865 ATC
60 ACC
* * * ** *
14894868 AAATTATATCAAAGGTTACTAAAATTATATCAAAAGTTATCAAAAGGGTTTCTTTGGTTACC
1 AAATTATATCAAAGGTTACTAAAATTATATCAAAAGTTATCAAAACGATATCTAAGATTACC
* * * *
14894930 AAATTATATCGAAGGTTACTAAAATTGTATCAAAAGTTATCAAAACTATATCTAAGATTACT
1 AAATTATATCAAAGGTTACTAAAATTATATCAAAAGTTATCAAAACGATATCTAAGATTACC
*
14894992 AAATTATGTCAAA
1 AAATTATATCAAA
14895005 CTCTATCAAA
Statistics
Matches: 111, Mismatches: 24, Indels: 8
0.78 0.17 0.06
Matches are distributed among these distances:
62 67 0.60
64 3 0.03
66 22 0.20
67 14 0.13
68 5 0.05
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.34
Consensus pattern (62 bp):
AAATTATATCAAAGGTTACTAAAATTATATCAAAAGTTATCAAAACGATATCTAAGATTACC
Found at i:14895023 original size:27 final size:27
Alignment explanation
Indices: 14894992--14895043 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
14894982 TAAGATTACT
*
14894992 AAATTATGTCAAACTCTATCAAAATAA
1 AAATTATATCAAACTCTATCAAAATAA
* *
14895019 AAATTATATCAAAGTTTATCAAAAT
1 AAATTATATCAAACTCTATCAAAAT
14895044 TGTATCAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.52, C:0.12, G:0.04, T:0.33
Consensus pattern (27 bp):
AAATTATATCAAACTCTATCAAAATAA
Found at i:14895044 original size:21 final size:21
Alignment explanation
Indices: 14895018--14895240 Score: 89
Period size: 21 Copynumber: 10.6 Consensus size: 21
14895008 TATCAAAATA
* *
14895018 AAAATTATATCAAAGTTTATC
1 AAAATTATATCAAAGATTACC
* **
14895039 AAAATTGTATCAAA-AGTTTTC
1 AAAATTATATCAAAGA-TTACC
* * *
14895060 AAAACTATACCCAATG-TTACC
1 AAAATTATA-TCAAAGATTACC
** *
14895081 AAAATGCTATAAAAGATTACC
1 AAAATTATATCAAAGATTACC
* *
14895102 AAAATTGTATCAATGATTACC
1 AAAATTATATCAAAGATTACC
* **
14895123 AAAAGTATAT-AATA-ACTTATT
1 AAAATTATATCAA-AGA-TTACC
* * *
14895144 AAAATTGTATGAAAGGTTACC
1 AAAATTATATCAAAGATTACC
* *
14895165 AAAATTACATCAATAGATTATC
1 AAAATTATATCAA-AGATTACC
** *
14895187 AATGTTTTATCAAA-AGTTACC
1 AAAATTATATCAAAGA-TTACC
* * *
14895208 AAAATTGTATTAATAG-TTACT
1 AAAATTATATCAA-AGATTACC
*
14895229 AAAACTATATCA
1 AAAATTATATCA
14895241 TATTATCAAA
Statistics
Matches: 143, Mismatches: 47, Indels: 24
0.67 0.22 0.11
Matches are distributed among these distances:
20 7 0.05
21 115 0.80
22 21 0.15
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (21 bp):
AAAATTATATCAAAGATTACC
Found at i:14895383 original size:21 final size:21
Alignment explanation
Indices: 14895354--14895425 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
14895344 GGTTACTAGA
*
14895354 ATCAAAATTGTATCAAAAGTT
1 ATCAAAATTGTATCAAAACTT
* * *
14895375 ATTAAAATTATATAAAAACTT
1 ATCAAAATTGTATCAAAACTT
*
14895396 ATCAAATTTGTATCAAAGA-TT
1 ATCAAAATTGTATCAAA-ACTT
*
14895417 ACCAAAATT
1 ATCAAAATT
14895426 ATATAAATAG
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
21 39 0.98
22 1 0.03
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.35
Consensus pattern (21 bp):
ATCAAAATTGTATCAAAACTT
Found at i:14895452 original size:42 final size:42
Alignment explanation
Indices: 14895356--14895551 Score: 130
Period size: 42 Copynumber: 4.7 Consensus size: 42
14895346 TTACTAGAAT
* ** * * *
14895356 CAAAATTGTATCAAA-AGTTATTAAAATTATATAAAAACTTAT
1 CAAAATTATATCAAAGA-TTACCAAAATTATATAAATAGTTAC
* * *
14895398 CAAATTTGTATCAAAGATTACCAAAATTATATAAATAGTGAC
1 CAAAATTATATCAAAGATTACCAAAATTATATAAATAGTTAC
* * *
14895440 CCAAATTATATCATAAG-TTA-CAAAATAAAAGTAAA-ATGTTAC
1 CAAAATTATATCA-AAGATTACCAAAATTATA-TAAATA-GTTAC
* * ** * ** *
14895482 CAAAATTGTATTAAAGATTACTGAAATTTTAGGAATTGTTAC
1 CAAAATTATATCAAAGATTACCAAAATTATATAAATAGTTAC
**
14895524 CAAAATGCTATCAAAGATTACCAAAATT
1 CAAAATTATATCAAAGATTACCAAAATT
14895552 GTATCAATGA
Statistics
Matches: 118, Mismatches: 29, Indels: 14
0.73 0.18 0.09
Matches are distributed among these distances:
41 12 0.10
42 97 0.82
43 9 0.08
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.32
Consensus pattern (42 bp):
CAAAATTATATCAAAGATTACCAAAATTATATAAATAGTTAC
Found at i:14895544 original size:21 final size:21
Alignment explanation
Indices: 14895520--14895659 Score: 74
Period size: 21 Copynumber: 6.6 Consensus size: 21
14895510 TTAGGAATTG
14895520 TTACCAAAA-TGCTATCAAAGA
1 TTACCAAAATTG-TATCAAAGA
*
14895541 TTACCAAAATTGTATCAATGA
1 TTACCAAAATTGTATCAAAGA
* * *
14895562 TTGCTAAAA--GTATCTAATAAA
1 TTACCAAAATTGTATC-AA-AGA
* * *
14895583 TTATCAAATTTGTATGAAAG-
1 TTACCAAAATTGTATCAAAGA
* **
14895603 TTCACTAAAATTACATCAATAGA
1 TT-ACCAAAATTGTATCAA-AGA
* * *
14895626 TTATCAATATTTTATCAAA-A
1 TTACCAAAATTGTATCAAAGA
14895646 GTTACCAAAATTGT
1 -TTACCAAAATTGT
14895660 GTTAATAGTT
Statistics
Matches: 85, Mismatches: 25, Indels: 18
0.66 0.20 0.14
Matches are distributed among these distances:
19 5 0.06
20 5 0.06
21 52 0.61
22 17 0.20
23 6 0.07
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.34
Consensus pattern (21 bp):
TTACCAAAATTGTATCAAAGA
Found at i:14895827 original size:21 final size:21
Alignment explanation
Indices: 14895801--14895852 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
14895791 TACCAGAATC
*
14895801 AAAATTGTATAAAAAGTTACT
1 AAAATTGTATAAAAACTTACT
* * *
14895822 AAAATTATATCAAAACTTATT
1 AAAATTGTATAAAAACTTACT
14895843 AAAATTGTAT
1 AAAATTGTAT
14895853 TTAAGATTAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.37
Consensus pattern (21 bp):
AAAATTGTATAAAAACTTACT
Found at i:14895867 original size:21 final size:21
Alignment explanation
Indices: 14895843--14895890 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
14895833 AAAACTTATT
*
14895843 AAAATTGTATTTAAGATTACC
1 AAAATTGTATTCAAGATTACC
* *
14895864 AAAATTGTATTCAAGGTTGCC
1 AAAATTGTATTCAAGATTACC
14895885 AAAATT
1 AAAATT
14895891 TTATGAAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.35
Consensus pattern (21 bp):
AAAATTGTATTCAAGATTACC
Found at i:14896126 original size:20 final size:20
Alignment explanation
Indices: 14896101--14896140 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
14896091 TACTAAAAAA
14896101 GTATTAAATGTTACCAAATT
1 GTATTAAATGTTACCAAATT
* *
14896121 GTATTAACTGTTATCAAATT
1 GTATTAAATGTTACCAAATT
14896141 TCTAACAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (20 bp):
GTATTAAATGTTACCAAATT
Found at i:14896228 original size:21 final size:21
Alignment explanation
Indices: 14896204--14896353 Score: 74
Period size: 21 Copynumber: 7.2 Consensus size: 21
14896194 AAAGGTTATC
*
14896204 AATTATATCAAAACTTACTAA
1 AATTATATCAAAACTTACCAA
* **
14896225 AATTATATCTAAGGTTACCAA
1 AATTATATCAAAACTTACCAA
* *** * *
14896246 AATTGTATCAATGGTTATCAC
1 AATTATATCAAAACTTACCAA
*
14896267 AATTATATCATAAGC-TACCAA
1 AATTATATCA-AAACTTACCAA
** * * *
14896288 AATCGTATTAAAGGC-TATCAA
1 AATTATATCAAA-ACTTACCAA
*
14896309 AATTATATC-AAACTTACTAAA
1 AATTATATCAAAACTTAC-CAA
* *
14896330 AATT-TATTAAAAATTACCAA
1 AATTATATCAAAACTTACCAA
14896350 AATT
1 AATT
14896354 GTCTTAATGA
Statistics
Matches: 97, Mismatches: 27, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 1 0.01
20 15 0.15
21 79 0.81
22 2 0.02
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (21 bp):
AATTATATCAAAACTTACCAA
Found at i:14896249 original size:129 final size:130
Alignment explanation
Indices: 14896029--14896270 Score: 325
Period size: 129 Copynumber: 1.9 Consensus size: 130
14896019 AAAGTTGCCA
* * * * *
14896029 CAATATATGAAAGGTTATCAAAATCAAAATTATATAAATGGTTATCAAGTTATATCAAAGATTAC
1 CAATATATAAAAAGTTAACAAAATCAAAATAATATAAAAGGTTATCAAGTTATATCAAAGATTAC
* *
14896094 TAAAAAAGTATTAAATGTTACCAAATTGTATTAACT-GTTATCA-AATTTCTAACAAAGATCATC
66 TAAAAAAGTATTAAAGGTTACCAAATTGTATCAA-TGGTTATCACAATTTCTAACAAAGATCATC
14896157 C
130 C
14896158 CAATATATAAAAAGTTAACAAAATCAAAATAATATAAAAGGTTATCAA-TTATATCAAA-ACTTA
1 CAATATATAAAAAGTTAACAAAATCAAAATAATATAAAAGGTTATCAAGTTATATCAAAGA-TTA
*
14896221 CTAAAATTA-TATCT-AAGGTTACCAAAATTGTATCAATGGTTATCACAATT
65 CTAAAA-AAGTAT-TAAAGGTTACC-AAATTGTATCAATGGTTATCACAATT
14896271 ATATCATAAG
Statistics
Matches: 99, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
127 1 0.01
128 31 0.31
129 63 0.64
130 4 0.04
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.33
Consensus pattern (130 bp):
CAATATATAAAAAGTTAACAAAATCAAAATAATATAAAAGGTTATCAAGTTATATCAAAGATTAC
TAAAAAAGTATTAAAGGTTACCAAATTGTATCAATGGTTATCACAATTTCTAACAAAGATCATCC
Found at i:14896271 original size:42 final size:42
Alignment explanation
Indices: 14896223--14896318 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
14896213 AAAACTTACT
* * * *
14896223 AAAATTATATC-TAAGGTTACCAAAATTGTATCAATGGTTATC
1 AAAATTATATCATAA-GCTACCAAAATCGTATCAAAGGCTATC
* *
14896265 ACAATTATATCATAAGCTACCAAAATCGTATTAAAGGCTATC
1 AAAATTATATCATAAGCTACCAAAATCGTATCAAAGGCTATC
14896307 AAAATTATATCA
1 AAAATTATATCA
14896319 AACTTACTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
42 43 0.93
43 3 0.07
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (42 bp):
AAAATTATATCATAAGCTACCAAAATCGTATCAAAGGCTATC
Found at i:14896332 original size:42 final size:41
Alignment explanation
Indices: 14896223--14896340 Score: 98
Period size: 42 Copynumber: 2.8 Consensus size: 41
14896213 AAAACTTACT
* * * * *
14896223 AAAATTATATC-TAAGGTTACCAAAATTGTATCAATGGTTATC
1 AAAATTATATCATAA-GCTA-CAAAAATGTATTAAAGGCTATC
* *
14896265 ACAATTATATCATAAGCTACCAAAATCGTATTAAAGGCTATC
1 AAAATTATATCATAAGCTACAAAAAT-GTATTAAAGGCTATC
*
14896307 AAAATTATATCA-AA-CTTACTAAAAATTTATTAAA
1 AAAATTATATCATAAGC-TAC-AAAAATGTATTAAA
14896341 AATTACCAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
40 1 0.02
41 17 0.27
42 41 0.66
43 3 0.05
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.33
Consensus pattern (41 bp):
AAAATTATATCATAAGCTACAAAAATGTATTAAAGGCTATC
Found at i:14896432 original size:21 final size:21
Alignment explanation
Indices: 14896385--14896432 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
14896375 ATAAGCTACC
* *
14896385 AAAATAATATTAAAGGTTACA
1 AAAATTATATTAAAGATTACA
14896406 AAAATTATATTAAAGATTACA
1 AAAATTATATTAAAGATTACA
*
14896427 AGAATT
1 AAAATT
14896433 TTATCAAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.31
Consensus pattern (21 bp):
AAAATTATATTAAAGATTACA
Found at i:14897285 original size:22 final size:22
Alignment explanation
Indices: 14897251--14897293 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
14897241 AAAAATTTAC
*
14897251 TGATTAACAATTAGGTTATCAT
1 TGATTAACAATTAAGTTATCAT
* *
14897273 TGATTTACTATTAAGTTATCA
1 TGATTAACAATTAAGTTATCA
14897294 AAAGGTTTAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (22 bp):
TGATTAACAATTAAGTTATCAT
Found at i:14897324 original size:11 final size:11
Alignment explanation
Indices: 14897310--14897346 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
14897300 TTACTACTAA
14897310 ATTACTCATTT
1 ATTACTCATTT
* *
14897321 ATTACTAAATT
1 ATTACTCATTT
14897332 ATTACTCATTT
1 ATTACTCATTT
14897343 ATTA
1 ATTA
14897347 TTAAGTTATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.35, C:0.14, G:0.00, T:0.51
Consensus pattern (11 bp):
ATTACTCATTT
Found at i:14897335 original size:22 final size:22
Alignment explanation
Indices: 14897310--14897355 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
14897300 TTACTACTAA
14897310 ATTACTCATTTATTACTAAATT
1 ATTACTCATTTATTACTAAATT
* *
14897332 ATTACTCATTTATTATTAAGTT
1 ATTACTCATTTATTACTAAATT
14897354 AT
1 AT
14897356 GAATGATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.35, C:0.11, G:0.02, T:0.52
Consensus pattern (22 bp):
ATTACTCATTTATTACTAAATT
Found at i:14897439 original size:22 final size:23
Alignment explanation
Indices: 14897414--14897475 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 23
14897404 GATTTAAAAA
14897414 AAAATTAATAATGATTTATTA-T
1 AAAATTAATAATGATTTATTAGT
*
14897436 AAAATT-ATCATTGATTTATTAGT
1 AAAATTAAT-AATGATTTATTAGT
* *
14897459 -AAATTAACAATAATTTA
1 AAAATTAATAATGATTTA
14897476 CTACAAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 2 0.06
22 29 0.88
23 2 0.06
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (23 bp):
AAAATTAATAATGATTTATTAGT
Found at i:14897463 original size:44 final size:44
Alignment explanation
Indices: 14897415--14897500 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 44
14897405 ATTTAAAAAA
* * * * * *
14897415 AAATTAATAATGATTTATTATAAAATTATCATTGATTTATTAGT
1 AAATTAACAATAATTTACTACAAAATTATCAATGATTAATTAGT
*
14897459 AAATTAACAATAATTTACTACAAATTTATCAATGATTAATTA
1 AAATTAACAATAATTTACTACAAAATTATCAATGATTAATTA
14897501 ATTTACTATT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.43
Consensus pattern (44 bp):
AAATTAACAATAATTTACTACAAAATTATCAATGATTAATTAGT
Found at i:14897569 original size:22 final size:22
Alignment explanation
Indices: 14897508--14897570 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 22
14897498 TTAATTTACT
* * *
14897508 ATTAAATTATCATTGATCTATA
1 ATTAAATTATCAATGATTTAAA
*
14897530 ATTAAATTATCACTGATTTAAA
1 ATTAAATTATCAATGATTTAAA
*
14897552 ATTAAGTTATCAATGATTT
1 ATTAAATTATCAATGATTT
14897571 TGCTATTAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.44
Consensus pattern (22 bp):
ATTAAATTATCAATGATTTAAA
Found at i:14897597 original size:11 final size:11
Alignment explanation
Indices: 14897581--14897637 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
14897571 TGCTATTAAG
*
14897581 TTATTAGTAAT
1 TTATTAATAAT
* *
14897592 TTATTACTAAA
1 TTATTAATAAT
14897603 TTATTAATAAT
1 TTATTAATAAT
** *
14897614 TTATTGCTAAA
1 TTATTAATAAT
*
14897625 TTATTAATGAT
1 TTATTAATAAT
14897636 TT
1 TT
14897638 TGTATTATGC
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 35 1.00
ACGTcount: A:0.39, C:0.04, G:0.05, T:0.53
Consensus pattern (11 bp):
TTATTAATAAT
Found at i:14897613 original size:22 final size:22
Alignment explanation
Indices: 14897581--14897637 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
14897571 TGCTATTAAG
*
14897581 TTATTAGTAATTTATTACTAAA
1 TTATTAATAATTTATTACTAAA
*
14897603 TTATTAATAATTTATTGCTAAA
1 TTATTAATAATTTATTACTAAA
*
14897625 TTATTAATGATTT
1 TTATTAATAATTT
14897638 TGTATTATGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.39, C:0.04, G:0.05, T:0.53
Consensus pattern (22 bp):
TTATTAATAATTTATTACTAAA
Found at i:14897703 original size:21 final size:22
Alignment explanation
Indices: 14897677--14897733 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
14897667 TTTATCATTG
* *
14897677 ATTTACTACTAAATT-TTAATT
1 ATTTACTACTAAATTCTCAATA
* *
14897698 ATTTACTACAAAATTCTCACTA
1 ATTTACTACTAAATTCTCAATA
14897720 ATTTACTACTAAAT
1 ATTTACTACTAAAT
14897734 CATCCATGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 14 0.47
22 16 0.53
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTTACTACTAAATTCTCAATA
Found at i:14897805 original size:22 final size:22
Alignment explanation
Indices: 14897780--14898082 Score: 123
Period size: 22 Copynumber: 13.8 Consensus size: 22
14897770 CTTATTATTG
* *
14897780 ATTTACTATTTAGTTATCCATA
1 ATTTACTATTAAGTTATCAATA
* *
14897802 ATTTACTATTAAGCTATCAATG
1 ATTTACTATTAAGTTATCAATA
* *
14897824 ATTTACTATTAAATTAT-ACTA
1 ATTTACTATTAAGTTATCAATA
* *
14897845 ATTTACTTTTAAGTTTTCAATA
1 ATTTACTATTAAGTTATCAATA
* * * * *
14897867 ATTAATTATTAAATCAT-AGATT
1 ATTTACTATTAAGTTATCA-ATA
* * * ** *
14897889 ATTTCCTACTAAATTATCTCTT
1 ATTTACTATTAAGTTATCAATA
* * * **
14897911 ATTTACAACTAAATTATTTATA
1 ATTTACTATTAAGTTATCAATA
* * * * *
14897933 ATTTACTGCTAAATTTATCATTTG
1 ATTTACT-ATTAAGTTATCA-ATA
*
14897957 A-TTACTATTAAATTGA--AACTA
1 ATTTACTATTAAGTT-ATCAA-TA
* * *
14897978 ATTTATTATTAACTTATCACTA
1 ATTTACTATTAAGTTATCAATA
* * * *
14898000 ATTTACTACTAAATTATCATTG
1 ATTTACTATTAAGTTATCAATA
*
14898022 ATTTA-TAATTAAATTATCAATA
1 ATTTACT-ATTAAGTTATCAATA
* * *
14898044 ATTAACTATTAAGTTATCACTT
1 ATTTACTATTAAGTTATCAATA
**
14898066 ATTTTTTATTAAGTTAT
1 ATTTACTATTAAGTTAT
14898083 ACTCGATTTA
Statistics
Matches: 206, Mismatches: 63, Indels: 24
0.70 0.22 0.08
Matches are distributed among these distances:
21 22 0.11
22 168 0.82
23 14 0.07
24 2 0.01
ACGTcount: A:0.38, C:0.11, G:0.04, T:0.48
Consensus pattern (22 bp):
ATTTACTATTAAGTTATCAATA
Found at i:14898026 original size:44 final size:43
Alignment explanation
Indices: 14897978--14898118 Score: 133
Period size: 44 Copynumber: 3.3 Consensus size: 43
14897968 ATTGAAACTA
*
14897978 ATTTATTATTAACTTATCACTAATTTACTACTAAATTATCATT
1 ATTTATTATTAAATTATCACTAATTTACTACTAAATTATCATT
* * * * *
14898021 GATTTATAATTAAATTATCAATAATTAACTATTAAGTTATCACTT
1 -ATTTATTATTAAATTATCACTAATTTACTACTAAATTATCA-TT
* * * * * *
14898066 ATTTTTTATTAAGTTAT-ACTCGATTTAATACTATATTATTATT
1 ATTTATTATTAAATTATCACT-AATTTACTACTAAATTATCATT
14898109 A-TTATTATTA
1 ATTTATTATTA
14898119 CTATTATACA
Statistics
Matches: 77, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
42 8 0.10
43 5 0.06
44 62 0.81
45 2 0.03
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (43 bp):
ATTTATTATTAAATTATCACTAATTTACTACTAAATTATCATT
Found at i:14898046 original size:66 final size:67
Alignment explanation
Indices: 14897931--14898069 Score: 162
Period size: 66 Copynumber: 2.1 Consensus size: 67
14897921 AAATTATTTA
* * *
14897931 TAATTTACTGCTAAATTTATCATTTGATTACTATTAAATTGAAACTAATTTATTATTAACTTATC
1 TAATTTACTACTAAATTTATCATTTGATTACTATTAAATTGAAACTAATTAACTATTAACTTATC
14897996 AC
66 AC
*
14897998 TAATTTACTACTAAA-TTATCA-TTGATTTA-TAATTAAATT-ATCAA-TAATTAACTATTAAGT
1 TAATTTACTACTAAATTTATCATTTGA-TTACT-ATTAAATTGA--AACTAATTAACTATTAACT
14898058 TATCAC
62 TATCAC
*
14898064 TTATTT
1 TAATTT
14898070 TTTATTAAGT
Statistics
Matches: 63, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
65 6 0.10
66 41 0.65
67 16 0.25
ACGTcount: A:0.39, C:0.11, G:0.04, T:0.47
Consensus pattern (67 bp):
TAATTTACTACTAAATTTATCATTTGATTACTATTAAATTGAAACTAATTAACTATTAACTTATC
AC
Found at i:14898223 original size:22 final size:22
Alignment explanation
Indices: 14898172--14898283 Score: 118
Period size: 22 Copynumber: 5.1 Consensus size: 22
14898162 ATTATTATAC
* * *
14898172 ATTTGTTATTATGTTATCACTG
1 ATTTATTATTAAGTTATCAATG
*
14898194 A-TTATTATTAAGTTATCAATT
1 ATTTATTATTAAGTTATCAATG
* * *
14898215 ATTTATTATTAAATTATCATTC
1 ATTTATTATTAAGTTATCAATG
* *
14898237 ATTTACTATTAAGTTATCAGTG
1 ATTTATTATTAAGTTATCAATG
* *
14898259 ATTAATTATTAAGTTATCGATG
1 ATTTATTATTAAGTTATCAATG
14898281 ATT
1 ATT
14898284 GTAACTTATT
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
21 17 0.23
22 57 0.77
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.51
Consensus pattern (22 bp):
ATTTATTATTAAGTTATCAATG
Found at i:14898228 original size:65 final size:67
Alignment explanation
Indices: 14898145--14898276 Score: 178
Period size: 65 Copynumber: 2.0 Consensus size: 67
14898135 ACTACGATGT
* ** *
14898145 AATTAATTTACTACTAAATTATTATACATTTGTTATTATGTTATCACTGATT-ATTATTAAGTTA
1 AATTAATTTACTACTAAATTATCATACATTTACTATTAAGTTATCACTGATTAATTATTAAGTTA
14898209 TC
66 TC
* * * *
14898211 AATT-ATTTATTATTAAATTATCATTCATTTACTATTAAGTTATCAGTGATTAATTATTAAGTTA
1 AATTAATTTACTACTAAATTATCATACATTTACTATTAAGTTATCACTGATTAATTATTAAGTTA
14898275 TC
66 TC
14898277 GATGATTGTA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
65 39 0.68
66 18 0.32
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (67 bp):
AATTAATTTACTACTAAATTATCATACATTTACTATTAAGTTATCACTGATTAATTATTAAGTTA
TC
Found at i:14898658 original size:16 final size:17
Alignment explanation
Indices: 14898633--14898667 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
14898623 AGAAATCAAC
14898633 TAAGAATGTCAATA-AA
1 TAAGAATGTCAATATAA
*
14898649 TAAGAGTGTCAATATAA
1 TAAGAATGTCAATATAA
14898666 TA
1 TA
14898668 TTTTCTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (17 bp):
TAAGAATGTCAATATAA
Found at i:14899452 original size:15 final size:15
Alignment explanation
Indices: 14899434--14899463 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14899424 TATTTATTTT
*
14899434 AAAAAAATTTCAAAG
1 AAAAAAATTTAAAAG
14899449 AAAAAAATTTAAAAG
1 AAAAAAATTTAAAAG
14899464 TTCTATAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (15 bp):
AAAAAAATTTAAAAG
Found at i:14900727 original size:191 final size:189
Alignment explanation
Indices: 14900403--14900783 Score: 690
Period size: 191 Copynumber: 2.0 Consensus size: 189
14900393 AAAAAAGAAC
*
14900403 TTTGGCCCTTGGATGAGATTTGATGCAAGGGCTTATACTCACAAAGAAAAAGATATATTTTTGAA
1 TTTGGCCCTTGGATGAGATTTGATCCAAGGGCTTATACTCACAAAGAAAAAGATATATTTTTGAA
14900468 GGTCTTCTTCTTTACAAGAGGGAGGGTTTTCTACAATTTTAGAAAAAGGGAAGGCAATTGGGAAA
66 GGTCTTCTTCTTTACAAGAGGGAGGGTTTTCTACAATTTTAGAAAAAGGGAAGGCAATTGGGAAA
14900533 AAGAGAAAAAATTAAAAAAAAAAAGGAAAGAAAGTTATGAAAAGCTTGGAGTATGTAAAAT
131 AAGAGAAAAAA-TAAAAAAAAAAA-GAAAGAAAGTTATGAAAAGCTTGGAGTATGTAAAAT
*
14900594 TTTGGCCTTTGGATGAGATTTGATCCAAGGGCTTATACTCACAAAGAAAAAGATATATTTTTGAA
1 TTTGGCCCTTGGATGAGATTTGATCCAAGGGCTTATACTCACAAAGAAAAAGATATATTTTTGAA
* * *
14900659 GGTCTTTTTCTTTGCAAGAGGGAGGGTTTTCTACAATTTTAGGAAAAGGGAAGGCAATTGGGAAA
66 GGTCTTCTTCTTTACAAGAGGGAGGGTTTTCTACAATTTTAGAAAAAGGGAAGGCAATTGGGAAA
*
14900724 AAGAGAAAAAATAAAAAAAAAAAGAAAGAAAGTTATGAAAAGCTTGGAGTATGTAGAAT
131 AAGAGAAAAAATAAAAAAAAAAAGAAAGAAAGTTATGAAAAGCTTGGAGTATGTAAAAT
14900783 T
1 T
14900784 CTTCTTTTTT
Statistics
Matches: 184, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
189 36 0.20
190 12 0.07
191 136 0.74
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.27
Consensus pattern (189 bp):
TTTGGCCCTTGGATGAGATTTGATCCAAGGGCTTATACTCACAAAGAAAAAGATATATTTTTGAA
GGTCTTCTTCTTTACAAGAGGGAGGGTTTTCTACAATTTTAGAAAAAGGGAAGGCAATTGGGAAA
AAGAGAAAAAATAAAAAAAAAAAGAAAGAAAGTTATGAAAAGCTTGGAGTATGTAAAAT
Found at i:14905364 original size:2 final size:2
Alignment explanation
Indices: 14905357--14905391 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
14905347 AGCAGCATTT
*
14905357 TA TA TA TA CA 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 TA TA T
14905392 TACAAGTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:14906014 original size:2 final size:2
Alignment explanation
Indices: 14906007--14906034 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14905997 CTCTTTTGTA
14906007 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14906035 GCAGATGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14909403 original size:30 final size:32
Alignment explanation
Indices: 14909369--14909439 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
14909359 ATATTACAAC
14909369 ATTTGAATTTAAAAATTT-TT-TTAATATAAT
1 ATTTGAATTTAAAAATTTATTATTAATATAAT
*
14909399 ATTTGAA-TTATAAATTTATTAATTAATATAAT
1 ATTTGAATTTAAAAATTTATT-ATTAATATAAT
*
14909431 ATTTAAATT
1 ATTTGAATT
14909440 ATTTTTTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 9 0.26
30 9 0.26
32 16 0.46
33 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (32 bp):
ATTTGAATTTAAAAATTTATTATTAATATAAT
Found at i:14912251 original size:22 final size:22
Alignment explanation
Indices: 14912224--14912270 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
14912214 TTAATTTTTT
14912224 TATTTA-AAAATATATTA-ATAAA
1 TATTTATAAAA-A-ATTACATAAA
14912246 TATTTATAAAAAATTACATAAA
1 TATTTATAAAAAATTACATAAA
14912268 TAT
1 TAT
14912271 ACAAGATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.17
22 15 0.65
23 4 0.17
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
TATTTATAAAAAATTACATAAA
Found at i:14916812 original size:19 final size:19
Alignment explanation
Indices: 14916772--14916812 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
14916762 AAAGGATTTT
**
14916772 TTTATTTATTTATTTATCA
1 TTTATTTATTTATTTAGAA
*
14916791 TTTATTTATTTTTTTAGAA
1 TTTATTTATTTATTTAGAA
14916810 TTT
1 TTT
14916813 TTTTTATTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTATTTATTTATTTAGAA
Found at i:14916953 original size:24 final size:24
Alignment explanation
Indices: 14916907--14916954 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
14916897 AAATAAGTTA
*
14916907 AAAAATAAAATCAAATCAAAAAAT
1 AAAAATAAAATCAAAACAAAAAAT
*
14916931 AAAAATAAAATGAAAACAGAAAAA
1 AAAAATAAAATCAAAACA-AAAAA
14916955 CCTGCAATCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.77, C:0.06, G:0.04, T:0.12
Consensus pattern (24 bp):
AAAAATAAAATCAAAACAAAAAAT
Found at i:14917364 original size:21 final size:20
Alignment explanation
Indices: 14917335--14917373 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
14917325 ACCCAGTAAA
14917335 CTCAAATTTCTTCGAATTTTT
1 CTCAAATTTCTTC-AATTTTT
* *
14917356 CTCATATTTTTTCAATTT
1 CTCAAATTTCTTCAATTT
14917374 CGCCCAGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.23, C:0.18, G:0.03, T:0.56
Consensus pattern (20 bp):
CTCAAATTTCTTCAATTTTT
Found at i:14917813 original size:3 final size:3
Alignment explanation
Indices: 14917805--14917840 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
14917795 AAAAGAAATT
14917805 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
14917841 ACAAGCTATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:14918216 original size:26 final size:26
Alignment explanation
Indices: 14918153--14918207 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
14918143 TTTTTATTAT
14918153 TTAATTTATTCAATTATTTTTTAATC
1 TTAATTTATTCAATTATTTTTTAATC
14918179 TTAATTTATTCAATTATTTTTTAATC
1 TTAATTTATTCAATTATTTTTTAATC
14918205 TTA
1 TTA
14918208 CTCTTTTCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (26 bp):
TTAATTTATTCAATTATTTTTTAATC
Found at i:14918270 original size:21 final size:21
Alignment explanation
Indices: 14918245--14918287 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
14918235 AATTTAATTT
*
14918245 ATAAACAA-AATTAAAAATTAA
1 ATAAACAATAAAT-AAAATTAA
*
14918266 ATAAATAATAAATAAAATTAA
1 ATAAACAATAAATAAAATTAA
14918287 A
1 A
14918288 AAATGGATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (21 bp):
ATAAACAATAAATAAAATTAA
Found at i:14919554 original size:2 final size:2
Alignment explanation
Indices: 14919547--14919573 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14919537 GATGTTCAAA
14919547 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 A
14919574 ATTTTGAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14954551 original size:37 final size:35
Alignment explanation
Indices: 14954470--14954572 Score: 116
Period size: 37 Copynumber: 2.9 Consensus size: 35
14954460 ATGCACATCA
* * *
14954470 CAATAGGATAATACATTCATTCCATCTCATCTACTT
1 CAATA-GATAATACATGCATTCCATTTCATGTACTT
**
14954506 CAATAGATAATACATGCATTTTATTTCATGTACATAT
1 CAATAGATAATACATGCATTCCATTTCATGTAC-T-T
* *
14954543 CAATAGATAGTACATGTATTCCATTTCATG
1 CAATAGATAATACATGCATTCCATTTCATG
14954573 CATATAGGTA
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
35 23 0.41
36 6 0.11
37 27 0.48
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (35 bp):
CAATAGATAATACATGCATTCCATTTCATGTACTT
Found at i:14954603 original size:31 final size:31
Alignment explanation
Indices: 14954545--14954605 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
14954535 GTACATATCA
* * *
14954545 ATAGATAGTACATGTATTCCATTTCATGCAT
1 ATAGATAGTACATGCATTACATCTCATGCAT
* *
14954576 ATAGGTAGTACATGCATTATATCTCATGCA
1 ATAGATAGTACATGCATTACATCTCATGCA
14954606 CATCTTAATG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (31 bp):
ATAGATAGTACATGCATTACATCTCATGCAT
Found at i:14957171 original size:16 final size:16
Alignment explanation
Indices: 14957150--14957182 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
14957140 GAAAGAAAAT
14957150 AAAATAAAAAAAATAA
1 AAAATAAAAAAAATAA
*
14957166 AAAATAAACAAAATAA
1 AAAATAAAAAAAATAA
14957182 A
1 A
14957183 GAAAAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (16 bp):
AAAATAAAAAAAATAA
Found at i:14957648 original size:12 final size:12
Alignment explanation
Indices: 14957633--14957733 Score: 61
Period size: 12 Copynumber: 8.6 Consensus size: 12
14957623 ATAAAAGTAA
14957633 AAAAAAAGAAAG
1 AAAAAAAGAAAG
14957645 -AAAAAA-AAAG
1 AAAAAAAGAAAG
14957655 AACAAAAA-AAAG
1 AA-AAAAAGAAAG
* * *
14957667 GAAAGAATAAA-
1 AAAAAAAGAAAG
14957678 AAAAAGAAGAAA-
1 AAAAA-AAGAAAG
*
14957690 AAAAAAGGAAA-
1 AAAAAAAGAAAG
14957701 AAGAAAAAGAAAG
1 AA-AAAAAGAAAG
** *
14957714 GGAAAAATATAAG
1 AAAAAAAGA-AAG
14957727 AAAAAAA
1 AAAAAAA
14957734 TGATGAATGA
Statistics
Matches: 70, Mismatches: 12, Indels: 13
0.74 0.13 0.14
Matches are distributed among these distances:
10 4 0.06
11 21 0.30
12 37 0.53
13 8 0.11
ACGTcount: A:0.80, C:0.01, G:0.16, T:0.03
Consensus pattern (12 bp):
AAAAAAAGAAAG
Found at i:14957653 original size:17 final size:17
Alignment explanation
Indices: 14957645--14957706 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
14957635 AAAAAGAAAG
*
14957645 AAAAAA-AAAGAACAAA
1 AAAAAAGAAAGAAAAAA
*
14957661 AAAAAGGAAAGAATAAAA
1 AAAAAAGAAAGAA-AAAA
14957679 AAAAGAAGAAA-AAAAAA
1 AAAA-AAGAAAGAAAAAA
*
14957696 GGAAAAAGAAA
1 -AAAAAAGAAA
14957707 AAGAAAGGGA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
16 5 0.13
17 16 0.42
18 12 0.32
19 5 0.13
ACGTcount: A:0.82, C:0.02, G:0.15, T:0.02
Consensus pattern (17 bp):
AAAAAAGAAAGAAAAAA
Found at i:14957679 original size:30 final size:30
Alignment explanation
Indices: 14957641--14957713 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
14957631 AAAAAAAAAG
*
14957641 AAAGAAAAAAAAAGAA-CAAAAAAAAGGAA
1 AAAGAAAAAAAAAGAAGAAAAAAAAAGGAA
*
14957670 AGAA-TAAAAAAAAGAAGAAAAAAAAAGGAA
1 A-AAGAAAAAAAAAGAAGAAAAAAAAAGGAA
*
14957700 AAAGAAAAAGAAAG
1 AAAGAAAAAAAAAG
14957714 GGAAAAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 14 0.38
30 23 0.62
ACGTcount: A:0.81, C:0.01, G:0.16, T:0.01
Consensus pattern (30 bp):
AAAGAAAAAAAAAGAAGAAAAAAAAAGGAA
Found at i:14957690 original size:42 final size:43
Alignment explanation
Indices: 14957632--14957713 Score: 125
Period size: 42 Copynumber: 1.9 Consensus size: 43
14957622 AATAAAAGTA
14957632 AAAAAAAAGAAAGAAAAAAAAA-GAACAAA-AAAAAGGAAAGAAT
1 AAAAAAAAGAAAGAAAAAAAAAGGAA-AAAGAAAAA-GAAAGAAT
14957675 AAAAAAAAG-AAGAAAAAAAAAGGAAAAAGAAAAAGAAAG
1 AAAAAAAAGAAAGAAAAAAAAAGGAAAAAGAAAAAGAAAG
14957714 GGAAAAATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
42 20 0.54
43 17 0.46
ACGTcount: A:0.82, C:0.01, G:0.16, T:0.01
Consensus pattern (43 bp):
AAAAAAAAGAAAGAAAAAAAAAGGAAAAAGAAAAAGAAAGAAT
Found at i:14957707 original size:17 final size:17
Alignment explanation
Indices: 14957658--14957720 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 17
14957648 AAAAAAGAAC
14957658 AAAAAAAAGG--AAAGA
1 AAAAAAAAGGAAAAAGA
* *
14957673 ATAAAAAA--AAGAAGA
1 AAAAAAAAGGAAAAAGA
14957688 AAAAAAAAGGAAAAAGA
1 AAAAAAAAGGAAAAAGA
*
14957705 AAAAGAAAGGGAAAAA
1 AAAA-AAAAGGAAAAA
14957721 TATAAGAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
15 18 0.47
17 10 0.26
18 10 0.26
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (17 bp):
AAAAAAAAGGAAAAAGA
Found at i:14958110 original size:17 final size:17
Alignment explanation
Indices: 14958090--14958127 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
14958080 AAAAAGAAAG
*
14958090 AAAAAGAGAAAAATAATA
1 AAAAAG-GAAAAAAAATA
14958108 AAAAAGGAAAAAAAATA
1 AAAAAGGAAAAAAAATA
14958125 AAA
1 AAA
14958128 GAAAGATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.08
Consensus pattern (17 bp):
AAAAAGGAAAAAAAATA
Found at i:14959281 original size:17 final size:17
Alignment explanation
Indices: 14959231--14959281 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 17
14959221 TTAACCTTTC
* *
14959231 TTGCAAAAATTTGAAAT
1 TTGCAAATATTTGAAAA
* * *
14959248 TTACAAATCTTTAAAAA
1 TTGCAAATATTTGAAAA
14959265 TTGCAAATATTTGAAAA
1 TTGCAAATATTTGAAAA
14959282 CTGTGAATTA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (17 bp):
TTGCAAATATTTGAAAA
Found at i:14959485 original size:41 final size:42
Alignment explanation
Indices: 14959369--14959544 Score: 150
Period size: 41 Copynumber: 4.3 Consensus size: 42
14959359 TGAATTGTTG
* * *
14959369 CTTTAATATGAAACCTA-AGTCTTTC-AACTATAAATCATTTC
1 CTTTATTATGAATCC-AGAGTCTTTCAAACTATAAATCATTTA
* * * * *
14959410 CTCTGTTGTGAATCTAGAGTC-TACAAACTATAAATCATTTA
1 CTTTATTATGAATCCAGAGTCTTTCAAACTATAAATCATTTA
* *
14959451 CTTTATTATGAATCCAGAGTCTTTC-AATTGTAAATCA-TTA
1 CTTTATTATGAATCCAGAGTCTTTCAAACTATAAATCATTTA
* * * *
14959491 CTTTAATGA-GAATCCATAGTCTTCCAAACTATGAATCATTT-
1 CTTT-ATTATGAATCCAGAGTCTTTCAAACTATAAATCATTTA
*
14959532 CTTTATTGTGAAT
1 CTTTATTATGAAT
14959545 TAATCCAAAT
Statistics
Matches: 105, Mismatches: 23, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
40 26 0.25
41 75 0.71
42 4 0.04
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.40
Consensus pattern (42 bp):
CTTTATTATGAATCCAGAGTCTTTCAAACTATAAATCATTTA
Found at i:14959898 original size:22 final size:22
Alignment explanation
Indices: 14959853--14959899 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
14959843 CTTTTAAAAA
*
14959853 TTTTTGGTATGAATCCCAACCC
1 TTTTTGGTATGAATCCCAAACC
14959875 TTTTT-GTATGAATCCCAAAACC
1 TTTTTGGTATGAATCCC-AAACC
14959897 TTT
1 TTT
14959900 GAAAATTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (22 bp):
TTTTTGGTATGAATCCCAAACC
Found at i:14960250 original size:20 final size:20
Alignment explanation
Indices: 14960225--14960274 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
14960215 TGGCTCTTCT
14960225 AAGAAAAAAAGAGAGAAAAA
1 AAGAAAAAAAGAGAGAAAAA
*
14960245 AAGAAAAGAAGAGAGAAAAA
1 AAGAAAAAAAGAGAGAAAAA
*
14960265 GAGAAAAAAA
1 AAGAAAAAAA
14960275 TGTAAAAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (20 bp):
AAGAAAAAAAGAGAGAAAAA
Found at i:14960274 original size:10 final size:10
Alignment explanation
Indices: 14960226--14960274 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
14960216 GGCTCTTCTA
14960226 AGAAAAAAAG
1 AGAAAAAAAG
14960236 AGAGAAAAAA-
1 AGA-AAAAAAG
*
14960246 AGAAAAGAAG
1 AGAAAAAAAG
*
14960256 AGAGAAAAAG
1 AGAAAAAAAG
14960266 AGAAAAAAA
1 AGAAAAAAA
14960275 TGTAAAAGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 5 0.15
10 22 0.67
11 6 0.18
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAG
Found at i:14960499 original size:30 final size:30
Alignment explanation
Indices: 14960465--14960536 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
14960455 TGACACCAAC
*
14960465 AATTAAGCCCATTCGAGCTAGCATAAAGAG
1 AATTAAGCCCATTCGAACTAGCATAAAGAG
* * *
14960495 AATTAAGCCCAGTCTAACTGGCATAAAGAG
1 AATTAAGCCCATTCGAACTAGCATAAAGAG
14960525 AATTAA-CCCATT
1 AATTAAGCCCATT
14960537 TTAGTTGGCA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 5 0.14
30 32 0.86
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.22
Consensus pattern (30 bp):
AATTAAGCCCATTCGAACTAGCATAAAGAG
Found at i:14960575 original size:31 final size:31
Alignment explanation
Indices: 14960537--14960633 Score: 124
Period size: 31 Copynumber: 3.1 Consensus size: 31
14960527 TTAACCCATT
* * *
14960537 TTAGTTGGCATCGAGAAGAATTAAACCTTGA
1 TTAGTTGGCATCGAAAAGAATTAAGCCCTGA
14960568 TTAGTTGGCATC-AAAGAGAATTAAGCCCTGA
1 TTAGTTGGCATCGAAA-AGAATTAAGCCCTGA
* * *
14960599 TTAGCTGACACCGAAAAGAATTAAGCCCTGA
1 TTAGTTGGCATCGAAAAGAATTAAGCCCTGA
14960630 TTAG
1 TTAG
14960634 CTAGCAGTAG
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
30 2 0.03
31 53 0.91
32 3 0.05
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (31 bp):
TTAGTTGGCATCGAAAAGAATTAAGCCCTGA
Found at i:14960631 original size:62 final size:60
Alignment explanation
Indices: 14960513--14960633 Score: 145
Period size: 62 Copynumber: 2.0 Consensus size: 60
14960503 CCAGTCTAAC
* * * * * *
14960513 TGGCATAAAGAGAATTAACCCATTTTAGTTGGCATCGAGAAGAATTAAACCTTGATTAGT
1 TGGCATAAAGAGAATTAACCCATATTAGCTGACACCGAAAAGAATTAAACCCTGATTAGT
*
14960573 TGGCATCAAAGAGAATTAAGCCC-TGATTAGCTGACACCGAAAAGAATTAAGCCCTGATTAG
1 TGGCAT-AAAGAGAATTAA-CCCAT-ATTAGCTGACACCGAAAAGAATTAAACCCTGATTAG
14960634 CTAGCAGTAG
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
60 6 0.12
61 13 0.25
62 32 0.63
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.26
Consensus pattern (60 bp):
TGGCATAAAGAGAATTAACCCATATTAGCTGACACCGAAAAGAATTAAACCCTGATTAGT
Found at i:14960813 original size:46 final size:46
Alignment explanation
Indices: 14960641--14961160 Score: 285
Period size: 46 Copynumber: 11.1 Consensus size: 46
14960631 TAGCTAGCAG
* * * * *
14960641 TAGATAGA-TTTTAAACTTTGATACCTATGTTCT-AGAAGCCCTTTC
1 TAGATAGATTTTTAAAGTTTGATGCCTATTTTATAAG-AGCTCTTTC
* * * * *
14960686 TAGATAGATATTTTTTAAAAGTTTAATGCCTATTTCAT-GGAACTTCCTTC
1 TAGATAG--A-TTTTT-AAAGTTTGATGCCTATTTTATAAGAGC-TCTTTC
* ***
14960736 CAGATAGATTTTTTAAAGTTTGATAATTATTTTATAAGAGCTCTTTC
1 TAGATAGA-TTTTTAAAGTTTGATGCCTATTTTATAAGAGCTCTTTC
* * *
14960783 TAGATAGATTTTTAAAATTTGATGCCTATTTTATATGAGCCCTTTC
1 TAGATAGATTTTTAAAGTTTGATGCCTATTTTATAAGAGCTCTTTC
* * * * *
14960829 TAAATAGTTTTTTTTTTTTTTCAA-TTTGATACCTATTTTATATGAG-TCATTTC
1 TAGATAG--------ATTTTTAAAGTTTGATGCCTATTTTATAAGAGCTC-TTTC
* * * *
14960882 CAAACATATTTTTAAAGTTTGATGCCTATTTTAT-AGAAGGC-CTTTC
1 TAGATAGATTTTTAAAGTTTGATGCCTATTTTATAAG-A-GCTCTTTC
* * * *
14960928 TAGATAAAATTTTCAAGTTTGATGCCTATTTTAT-AGAAGCTATTTC
1 TAGATAGATTTTTAAAGTTTGATGCCTATTTTATAAG-AGCTCTTTC
* * *
14960974 TAGATAGATTTTTAAAGTTTAATGCCTATTTTAT-GGAGCT-TTTT
1 TAGATAGATTTTTAAAGTTTGATGCCTATTTTATAAGAGCTCTTTC
* * * ** * *
14961018 TCATATAGATTTTTAAGGTTTAATGTTTATTTTATAGGA-ATCATTT-
1 T-AGATAGATTTTTAAAGTTTGATGCCTATTTTATAAGAGCTC-TTTC
* * *
14961064 TAGACAGATTTTTCAAGTTTGATGCCTATTTTATAAGAG-TCATTTT
1 TAGATAGATTTTTAAAGTTTGATGCCTATTTTATAAGAGCTC-TTTC
* * * * * *
14961110 TAGACAGTTTTTTTAAAGTTTGTTGTCTATGTTCATAGGAGC-CTTTC
1 TAGATAG-ATTTTTAAAGTTTGATGCCTAT-TTTATAAGAGCTCTTTC
14961157 TAGA
1 TAGA
14961161 CAAATATTTT
Statistics
Matches: 374, Mismatches: 71, Indels: 58
0.74 0.14 0.12
Matches are distributed among these distances:
44 4 0.01
45 86 0.23
46 137 0.37
47 59 0.16
48 19 0.05
49 6 0.02
50 26 0.07
52 1 0.00
53 29 0.08
54 7 0.02
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.47
Consensus pattern (46 bp):
TAGATAGATTTTTAAAGTTTGATGCCTATTTTATAAGAGCTCTTTC
Found at i:14960870 original size:99 final size:92
Alignment explanation
Indices: 14960657--14961007 Score: 257
Period size: 99 Copynumber: 3.7 Consensus size: 92
14960647 GATTTTAAAC
* * * *
14960657 TTTGATACCTATGTTCT-AGAAGCCCTTTCTAGATAGATATTTTTTAAAAGTTTAATGCCTATTT
1 TTTGATACCTATTTTATAAG-AGCTCTTTCTAGATAG--A-TTTTT-AAAGTTTGATGCCTATTT
* * * * *
14960721 CATGGAA-CTTCC-TTCCAGATAGATTTTTTAAAG
61 TATAGAAGC--CCTTTCTAAATA-ATTTTTTCAAG
** *
14960754 TTTGATAATTATTTTATAAGAGCTCTTTCTAGATAGATTTTTAAAATTTGATGCCTATTTTATAT
1 TTTGATACCTATTTTATAAGAGCTCTTTCTAGATAGATTTTTAAAGTTTGATGCCTATTTTATA-
*
14960819 G-AGCCCTTTCTAAATAGTTTTTTTTTTTTTTCAA-
65 GAAGCCCTTTCTAAATA--------ATTTTTTCAAG
* * * * *
14960853 TTTGATACCTATTTTATATGAG-TCATTTCCAAACATATTTTTAAAGTTTGATGCCTATTTTATA
1 TTTGATACCTATTTTATAAGAGCTC-TTTCTAGATAGATTTTTAAAGTTTGATGCCTATTTTATA
* * **
14960917 GAAGGCCTTTCTAGATAAAATTTTCAAG
65 GAAGCCCTTTCTAAATAATTTTTTCAAG
* * *
14960945 TTTGATGCCTATTTTAT-AGAAGCTATTTCTAGATAGATTTTTAAAGTTTAATGCCTATTTTAT
1 TTTGATACCTATTTTATAAG-AGCTCTTTCTAGATAGATTTTTAAAGTTTGATGCCTATTTTAT
14961008 GGAGCTTTTT
Statistics
Matches: 203, Mismatches: 35, Indels: 37
0.74 0.13 0.13
Matches are distributed among these distances:
91 8 0.04
92 53 0.26
93 27 0.13
94 7 0.03
95 1 0.00
97 28 0.14
98 5 0.02
99 66 0.33
100 8 0.04
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (92 bp):
TTTGATACCTATTTTATAAGAGCTCTTTCTAGATAGATTTTTAAAGTTTGATGCCTATTTTATAG
AAGCCCTTTCTAAATAATTTTTTCAAG
Found at i:14961221 original size:50 final size:50
Alignment explanation
Indices: 14961166--14961327 Score: 146
Period size: 50 Copynumber: 3.2 Consensus size: 50
14961156 CTAGACAAAT
* *
14961166 ATTTTTTTAAAAATTCGTTGCTTATGTTAATAAGAGCCCTTTCCAAACAG
1 ATTTTTTTAAAAGTTCATTGCTTATGTTAATAAGAGCCCTTTCCAAACAG
* ** ** * *
14961216 TTTTTTTTTTTAAGTTCATTATTTATGTTAAATAAGAGCCCTTTCTAGACA-
1 -ATTTTTTTAAAAGTTCATTGCTTATGTT-AATAAGAGCCCTTTCCAAACAG
* * * * ** *
14961267 AATTTTTGAAAAGTTCATTGCCTATATTAATAAGAGTTCTTTCCAAATAG
1 ATTTTTTTAAAAGTTCATTGCTTATGTTAATAAGAGCCCTTTCCAAACAG
*
14961317 ATGTTTTTAAA
1 ATTTTTTTAAA
14961328 GTTTGTTGCC
Statistics
Matches: 83, Mismatches: 26, Indels: 5
0.73 0.23 0.04
Matches are distributed among these distances:
49 16 0.19
50 27 0.33
51 21 0.25
52 19 0.23
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.44
Consensus pattern (50 bp):
ATTTTTTTAAAAGTTCATTGCTTATGTTAATAAGAGCCCTTTCCAAACAG
Found at i:14961273 original size:52 final size:51
Alignment explanation
Indices: 14961137--14961273 Score: 141
Period size: 52 Copynumber: 2.7 Consensus size: 51
14961127 GTTTGTTGTC
* * * *
14961137 TATGTTCATAGGAG-CCTTTCTAGACAAATATTTTTTTAAAAATTCGTTGCT
1 TATGTTAATAAGAGCCCTTTCTAGACAAAT-TTTTTTTAAAAATTCATTACT
* * ** ** * *
14961188 TATGTTAATAAGAGCCCTTTCCAAACAGTTTTTTTTTTTAAGTTCATTATT
1 TATGTTAATAAGAGCCCTTTCTAGACAAATTTTTTTTAAAAATTCATTACT
14961239 TATGTTAAATAAGAGCCCTTTCTAGACAAATTTTT
1 TATGTT-AATAAGAGCCCTTTCTAGACAAATTTTT
14961274 GAAAAGTTCA
Statistics
Matches: 68, Mismatches: 16, Indels: 3
0.78 0.18 0.03
Matches are distributed among these distances:
51 33 0.49
52 35 0.51
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.45
Consensus pattern (51 bp):
TATGTTAATAAGAGCCCTTTCTAGACAAATTTTTTTTAAAAATTCATTACT
Found at i:14961363 original size:49 final size:47
Alignment explanation
Indices: 14961284--14961377 Score: 118
Period size: 49 Copynumber: 2.0 Consensus size: 47
14961274 GAAAAGTTCA
*
14961284 TTGCCTATATTAATAAGAGTTCTTTCCAAATAGATGTTTTTAAAGTTTG
1 TTGCCTATATTAATAAGACTTCTTTCCAAATAGA--TTTTTAAAGTTTG
* * *
14961333 TTGCCTATATTAATAGGAACTT-TTTTCAAATTGATTTTTAAAGTT
1 TTGCCTATATTAATAAG-ACTTCTTTCCAAATAGATTTTTAAAGTT
14961378 ATCTGCCTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
47 11 0.28
49 26 0.65
50 3 0.08
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.47
Consensus pattern (47 bp):
TTGCCTATATTAATAAGACTTCTTTCCAAATAGATTTTTAAAGTTTG
Found at i:14961780 original size:20 final size:20
Alignment explanation
Indices: 14961743--14961783 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
14961733 GATCAAAGAA
*
14961743 AGTCAAAATTAATTAAACTT
1 AGTCAAAATTAATCAAACTT
**
14961763 AGTCAAAATTGGTCAAACTT
1 AGTCAAAATTAATCAAACTT
14961783 A
1 A
14961784 ATAAACGGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.32
Consensus pattern (20 bp):
AGTCAAAATTAATCAAACTT
Found at i:14963994 original size:13 final size:13
Alignment explanation
Indices: 14963939--14963994 Score: 62
Period size: 13 Copynumber: 4.4 Consensus size: 13
14963929 ATCCTAGCCT
*
14963939 TAAACCCAAACCC
1 TAAATCCAAACCC
14963952 TAAATCCAAACCC
1 TAAATCCAAACCC
* *
14963965 T-AGTCCAAACTC
1 TAAATCCAAACCC
14963977 TAAATCCCAAA-CC
1 TAAAT-CCAAACCC
14963990 TAAAT
1 TAAAT
14963995 GCTAAATCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
12 10 0.28
13 21 0.58
14 5 0.14
ACGTcount: A:0.45, C:0.36, G:0.02, T:0.18
Consensus pattern (13 bp):
TAAATCCAAACCC
Found at i:14964024 original size:17 final size:19
Alignment explanation
Indices: 14964003--14964061 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 19
14963993 ATGCTAAATC
*
14964003 AAACCCT-AGCTTAAACCT
1 AAACCCTAAACTTAAACCT
14964021 -AA-CCTAAACTTAAACCT
1 AAACCCTAAACTTAAACCT
14964038 AAACCCTTAAACCTTAAACACT
1 AAACCC-TAAA-CTTAAAC-CT
14964060 AA
1 AA
14964062 CTTAGACCCA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
16 3 0.09
17 12 0.35
18 2 0.06
19 2 0.06
20 4 0.12
21 7 0.21
22 4 0.12
ACGTcount: A:0.46, C:0.31, G:0.02, T:0.22
Consensus pattern (19 bp):
AAACCCTAAACTTAAACCT
Found at i:14964467 original size:20 final size:19
Alignment explanation
Indices: 14964442--14964501 Score: 77
Period size: 19 Copynumber: 3.1 Consensus size: 19
14964432 TTGTTTCAAA
14964442 AAAAAAAAGGAAAGAAAAGG
1 AAAAAAAA-GAAAGAAAAGG
* *
14964462 AAAAAAAAGAAAAAAAAAG
1 AAAAAAAAGAAAGAAAAGG
14964481 AAAAAAAA-AGAAGAAAAGG
1 AAAAAAAAGA-AAGAAAAGG
14964500 AA
1 AA
14964502 TTAATTTTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 1 0.03
19 26 0.74
20 8 0.23
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (19 bp):
AAAAAAAAGAAAGAAAAGG
Found at i:14964497 original size:9 final size:10
Alignment explanation
Indices: 14964441--14964497 Score: 78
Period size: 10 Copynumber: 5.6 Consensus size: 10
14964431 TTTGTTTCAA
14964441 AAAAAAAAAG
1 AAAAAAAAAG
* *
14964451 GAAAGAAAAG
1 AAAAAAAAAG
*
14964461 GAAAAAAAAG
1 AAAAAAAAAG
14964471 AAAAAAAAAG
1 AAAAAAAAAG
14964481 AAAAAAAAAG
1 AAAAAAAAAG
14964491 AAGAAAA
1 AA-AAAA
14964498 GGAATTAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
10 38 0.90
11 4 0.10
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:14971238 original size:179 final size:181
Alignment explanation
Indices: 14970938--14971297 Score: 571
Period size: 179 Copynumber: 2.0 Consensus size: 181
14970928 GGTGGTACAC
14970938 CTTTTGTAGCTGCATTGAACCTAGAACCATAGACCACCATTATCCATGTCTGCAGTATATGGAGT
1 CTTTTGTAGCTGCATTGAACCTAGAACCATAGACCACCATTATCCATGTCTGCAGTATATGGAGT
*
14971003 TTAAAATTGCTTAGAAATGTTCAATGATTGCCATCGATGTACCTTTAATATCATGGGTTTGCGAT
66 TTAAAATTGCTTAGAAATGTTCAATGATTGCCATCGATGTACCTTTAATATCATGGGTTTGCAAT
* *
14971068 A-TGTCTTGTGTTGCTGTGGTGTTGTGTCCAGCC-AAAAATGGATAGCCTT
131 ATTGTCTTGTGCTGCTGTGGTGTTGTGTACAGCCAAAAAATGGATAGCCTT
** * *
14971117 CTTTTGTAGCTGTGTTGAACCTAGAACCATAGACCACTATTATCCTTGTCTGCAGTATATGGAGT
1 CTTTTGTAGCTGCATTGAACCTAGAACCATAGACCACCATTATCCATGTCTGCAGTATATGGAGT
* ** * *
14971182 TTAAAATTGCTTAGAAATGTTCAATTATTTTCATCGATTTACCTTTAGTATCATGGGTTTGCAAT
66 TTAAAATTGCTTAGAAATGTTCAATGATTGCCATCGATGTACCTTTAATATCATGGGTTTGCAAT
* *
14971247 ATTTGTCTTTTGCTGCTGTGGTGTTGTGTACAGCCAAAAAATGGATGGCCT
131 A-TTGTCTTGTGCTGCTGTGGTGTTGTGTACAGCCAAAAAATGGATAGCCT
14971298 CCTTGACATG
Statistics
Matches: 164, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
179 121 0.74
181 29 0.18
182 14 0.09
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (181 bp):
CTTTTGTAGCTGCATTGAACCTAGAACCATAGACCACCATTATCCATGTCTGCAGTATATGGAGT
TTAAAATTGCTTAGAAATGTTCAATGATTGCCATCGATGTACCTTTAATATCATGGGTTTGCAAT
ATTGTCTTGTGCTGCTGTGGTGTTGTGTACAGCCAAAAAATGGATAGCCTT
Found at i:14973250 original size:2 final size:2
Alignment explanation
Indices: 14973243--14973272 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14973233 TCAGCTGGCA
14973243 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14973273 TGACCCCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14977208 original size:22 final size:22
Alignment explanation
Indices: 14977180--14977223 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
14977170 CTAAATCTTC
*
14977180 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
14977202 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
14977224 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:14981559 original size:23 final size:23
Alignment explanation
Indices: 14981533--14981592 Score: 111
Period size: 23 Copynumber: 2.6 Consensus size: 23
14981523 TTGAAAGGGT
14981533 TCGGCAATGAAGGCCTAAAAAAG
1 TCGGCAATGAAGGCCTAAAAAAG
14981556 TCGGCAATGAAGGCCTAAAAAAG
1 TCGGCAATGAAGGCCTAAAAAAG
*
14981579 TCAGCAATGAAGGC
1 TCGGCAATGAAGGC
14981593 TGAAAATTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.42, C:0.18, G:0.27, T:0.13
Consensus pattern (23 bp):
TCGGCAATGAAGGCCTAAAAAAG
Found at i:14981769 original size:22 final size:22
Alignment explanation
Indices: 14981741--14981784 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
14981731 CTAAATCTTC
*
14981741 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
14981763 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
14981785 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:14997044 original size:130 final size:129
Alignment explanation
Indices: 14996808--14997071 Score: 393
Period size: 130 Copynumber: 2.0 Consensus size: 129
14996798 ATAATTTAGT
* *
14996808 TGACTCCTTATTCAAATTGGCATATAAGATCATGTTAGATAGCTTGACCAATATGCTAATTAAAG
1 TGACTCATTATCCAAATTGGCATATAAGATCATGTTAGATAGCTTGACCAATATGCTAATTAAAG
* * * * * ** *
14996873 ATTTATTTGAGAAAAACACAAATGAAAAATAGGTTAGACAAATTGAGGAGGAGAAGGAATCATAG
66 ATTTATTTAAGAAAAACACAAATGAAAAACAGGTCAAACAAATTGAAGAGGA-AAAAAATCATAA
* * *
14996938 TGACTCATTATCCAAATTGGTATATGAGATCATGTTAGATAGCTTGATCAATATGCTAATTAAAG
1 TGACTCATTATCCAAATTGGCATATAAGATCATGTTAGATAGCTTGACCAATATGCTAATTAAAG
*
14997003 ATTTATTTAAGAAAAGCACAAATGAAAAACAGGTCAAACAAATTGAAGAGGAAAAAAATCATAA
66 ATTTATTTAAGAAAAACACAAATGAAAAACAGGTCAAACAAATTGAAGAGGAAAAAAATCATAA
14997067 TGACT
1 TGACT
14997072 ATAATCTAGA
Statistics
Matches: 120, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
129 14 0.12
130 106 0.88
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (129 bp):
TGACTCATTATCCAAATTGGCATATAAGATCATGTTAGATAGCTTGACCAATATGCTAATTAAAG
ATTTATTTAAGAAAAACACAAATGAAAAACAGGTCAAACAAATTGAAGAGGAAAAAAATCATAA
Found at i:15002438 original size:15 final size:15
Alignment explanation
Indices: 15002396--15002439 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
15002386 GAGGCAACCA
**
15002396 AAGTTTTACATTCCC
1 AAGTTTTACATTTTC
*
15002411 AAGTTTTGCATTTTC
1 AAGTTTTACATTTTC
*
15002426 AAGTGTTACATTTT
1 AAGTTTTACATTTT
15002440 TTTTGTTATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.25, C:0.16, G:0.11, T:0.48
Consensus pattern (15 bp):
AAGTTTTACATTTTC
Found at i:15005658 original size:33 final size:33
Alignment explanation
Indices: 15005603--15005668 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
15005593 ATTCAAAAGG
* *
15005603 GGATTAAAGAGTAAGAGTTGTGGTATGCTCTTA
1 GGATTAAAGAGCAAGAGTTGTGGTATCCTCTTA
*
15005636 GGATTAGAGAGCAAGA-TGTGTGGTATCCTCTTA
1 GGATTAAAGAGCAAGAGT-TGTGGTATCCTCTTA
15005669 AGAGCTTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 1 0.03
33 28 0.97
ACGTcount: A:0.29, C:0.09, G:0.30, T:0.32
Consensus pattern (33 bp):
GGATTAAAGAGCAAGAGTTGTGGTATCCTCTTA
Found at i:15007976 original size:22 final size:23
Alignment explanation
Indices: 15007957--15008005 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 23
15007947 TGGCTTTTGC
15007957 TTTT-GCTTTTTT-TTTTTTTTA
1 TTTTGGCTTTTTTCTTTTTTTTA
*
15007978 TTTTGGCTTTTTTGCTTTTTTTTT
1 TTTTGGCTTTTTT-CTTTTTTTTA
15008002 TTTT
1 TTTT
15008006 CTTTCTTGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 4 0.17
22 8 0.33
24 12 0.50
ACGTcount: A:0.02, C:0.06, G:0.08, T:0.84
Consensus pattern (23 bp):
TTTTGGCTTTTTTCTTTTTTTTA
Found at i:15008009 original size:22 final size:24
Alignment explanation
Indices: 15007957--15008014 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 24
15007947 TGGCTTTTGC
15007957 TTTTGCTTT-TT--TTTTTTTTTA
1 TTTTGCTTTCTTGCTTTTTTTTTA
*
15007978 TTTTGGCTTTTTTGCTTTTTTTTT-
1 TTTT-GCTTTCTTGCTTTTTTTTTA
15008002 TTTT-CTTTCTTGC
1 TTTTGCTTTCTTGC
15008015 ACCTCCTTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
21 4 0.12
22 13 0.41
23 2 0.06
24 4 0.12
25 9 0.28
ACGTcount: A:0.02, C:0.10, G:0.09, T:0.79
Consensus pattern (24 bp):
TTTTGCTTTCTTGCTTTTTTTTTA
Found at i:15015490 original size:16 final size:16
Alignment explanation
Indices: 15015471--15015504 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
15015461 AAGAAAATTC
15015471 AAAAAGAAAAAAAAAT
1 AAAAAGAAAAAAAAAT
*
15015487 AAAATGAAAAAAAAAT
1 AAAAAGAAAAAAAAAT
15015503 AA
1 AA
15015505 TGATTCAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.85, C:0.00, G:0.06, T:0.09
Consensus pattern (16 bp):
AAAAAGAAAAAAAAAT
Found at i:15015699 original size:46 final size:46
Alignment explanation
Indices: 15015606--15015700 Score: 136
Period size: 47 Copynumber: 2.0 Consensus size: 46
15015596 TGAGTTTCTA
* * *
15015606 TTTTAAGAAAAATTGATACTTTCAACTTTTCTTTAAAATATTTTTT
1 TTTTAAGAAAAATTGATACTTCCAACTTTTCCTCAAAATATTTTTT
* *
15015652 TTTTAAAGGAAAATTGGTACTTCCAACTTTTCCTCAAAATATTTTTT
1 TTTT-AAGAAAAATTGATACTTCCAACTTTTCCTCAAAATATTTTTT
15015699 TT
1 TT
15015701 GAAACTTTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
46 4 0.09
47 39 0.91
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.49
Consensus pattern (46 bp):
TTTTAAGAAAAATTGATACTTCCAACTTTTCCTCAAAATATTTTTT
Found at i:15015723 original size:58 final size:59
Alignment explanation
Indices: 15015652--15015955 Score: 282
Period size: 58 Copynumber: 5.2 Consensus size: 59
15015642 AATATTTTTT
* * * *
15015652 TTTTAAAGGAAAATTGGTACTTCCAACTTTTCCTC-AAAATATTTTTTTTGAAACTTTA
1 TTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTTA
* * * * *
15015710 ATTTCGAGAAAAATTGATACTTTCAACTTTTCTTCAAAAACAATTTTTTT-AAACAATTTA
1 TTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAC--TTTA
* * * * *
15015770 TTTTTAAGAAAAATTGACACTTTCAATTTTTCCTCAAAAATA-TTTTTTAGAAA-ATTA
1 TTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTTA
** * * *
15015827 TTTTCAA-AGAAAATTGATACTTTCAACTTTTTTTCGAAAATA-TCTTTTAGAAAAC-TTA
1 TTTTCAAGA-AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTG-AAACTTTA
* * * * *
15015885 TTTTCAAGGAAAATTGATATTTTCAACTTTTTCTCAAAAATATATTTTTTTGGAATTTTA
1 TTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTTTGAAACTTTA
*
15015945 -TTTAAAGAAAA
1 TTTTCAAGAAAA
15015956 TCATTTTAAA
Statistics
Matches: 200, Mismatches: 35, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
56 1 0.00
57 44 0.22
58 75 0.38
59 29 0.14
60 51 0.25
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.44
Consensus pattern (59 bp):
TTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTTA
Found at i:15015982 original size:11 final size:11
Alignment explanation
Indices: 15015963--15015997 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
15015953 AAATCATTTT
15015963 AAAATAAAAT-
1 AAAATAAAATA
15015973 AAAATAAAAATA
1 AAAAT-AAAATA
15015985 AAAATAAAATA
1 AAAATAAAATA
15015996 AA
1 AA
15015998 GAGTGCTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 5 0.22
11 13 0.57
12 5 0.22
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:15015984 original size:6 final size:5
Alignment explanation
Indices: 15015962--15015997 Score: 54
Period size: 5 Copynumber: 6.8 Consensus size: 5
15015952 AAAATCATTT
15015962 TAAAA TAAAA TAAAA TAAAAA TAAAAA TAAAA TAAA
1 TAAAA TAAAA TAAAA T-AAAA T-AAAA TAAAA TAAA
15015998 GAGTGCTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 19 0.63
6 11 0.37
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:15016036 original size:3 final size:3
Alignment explanation
Indices: 15016028--15016101 Score: 123
Period size: 3 Copynumber: 24.7 Consensus size: 3
15016018 CTAATTAACA
15016028 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
15016076 AAT AA- AAGA AAT AAT AAT AAT AAT AA
1 AAT AAT AA-T AAT AAT AAT AAT AAT AA
15016102 ATAAGAAAAA
Statistics
Matches: 68, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
2 2 0.03
3 64 0.94
4 2 0.03
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:15016942 original size:3 final size:3
Alignment explanation
Indices: 15016934--15017004 Score: 72
Period size: 3 Copynumber: 23.7 Consensus size: 3
15016924 TTAATAGATA
* * * * *
15016934 AAT AAT AAT AAT AAT AAT AAT AAT TAT TAT TAT TAT AAT AAT AAT CAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
15016982 AAT AAT GAAA AAT AAT AA- AAT AA
1 AAT AAT -AAT AAT AAT AAT AAT AA
15017005 AAAATTAAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
2 2 0.03
3 56 0.93
4 2 0.03
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:15017210 original size:21 final size:21
Alignment explanation
Indices: 15017185--15017225 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15017175 AACTCGACAC
15017185 TTTTTGCTTTT-TTTTATTTTT
1 TTTTTG-TTTTATTTTATTTTT
*
15017206 TTTTTGTTTTATTTTCTTTT
1 TTTTTGTTTTATTTTATTTT
15017226 GTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.05, C:0.05, G:0.05, T:0.85
Consensus pattern (21 bp):
TTTTTGTTTTATTTTATTTTT
Found at i:15017215 original size:16 final size:16
Alignment explanation
Indices: 15017192--15017225 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
15017182 CACTTTTTGC
15017192 TTTTTTTTATTTT-TT
1 TTTTTTTTATTTTCTT
15017207 TTTTGTTTTATTTTCTT
1 TTTT-TTTTATTTTCTT
15017224 TT
1 TT
15017226 GTTAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 9 0.53
17 4 0.24
ACGTcount: A:0.06, C:0.03, G:0.03, T:0.88
Consensus pattern (16 bp):
TTTTTTTTATTTTCTT
Found at i:15017226 original size:15 final size:16
Alignment explanation
Indices: 15017185--15017228 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
15017175 AACTCGACAC
15017185 TTTTTGCTTTT-TTTTA
1 TTTTT-CTTTTGTTTTA
*
15017201 TTTTTTTTTTGTTTTA
1 TTTTTCTTTTGTTTTA
15017217 -TTTTCTTTTGTT
1 TTTTTCTTTTGTT
15017229 AAAATTTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 15 0.60
16 10 0.40
ACGTcount: A:0.05, C:0.05, G:0.07, T:0.84
Consensus pattern (16 bp):
TTTTTCTTTTGTTTTA
Found at i:15017314 original size:41 final size:41
Alignment explanation
Indices: 15017256--15017670 Score: 195
Period size: 41 Copynumber: 9.9 Consensus size: 41
15017246 TTCTCTAAGC
* * * *
15017256 AGAGGCTCAATGGCTTTGAGAAATAAATGGCTCCTTTAATA
1 AGAGGCTCAACGACTTTGAAAAATAAATGGCTCCTCTAATA
* * * * *
15017297 AGAGGCTCAATGACTTTGGAAAATGAATGGCTCCTTTAATC
1 AGAGGCTCAACGACTTTGAAAAATAAATGGCTCCTCTAATA
* *
15017338 ATAGGCTCAACGACTTTGAAAAATAAATAAAGCTCCTCTAA-A
1 AGAGGCTCAACGACTTTGAAAAATAAAT--GGCTCCTCTAATA
* *
15017380 CAGAGGTTTAACGACTTTGAAAAATAGAA-GGCTCGC-CTAATA
1 -AGAGGCTCAACGACTTTGAAAAATA-AATGGCTC-CTCTAATA
** *
15017422 AGAGGCTCAACGACTTTTG-AAAATAAATAAAACTCCTCTAATC
1 AGAGGCTCAACGAC-TTTGAAAAATAAAT--GGCTCCTCTAATA
* * * ** ** *
15017465 AGAAGCTTAATGAC-TTGAAAGAAAATAAAAAAAGCTTTTCTAATC
1 AGAGGCTCAACGACTTTG--A-AAAAT--AAATGGCTCCTCTAATA
** * * *
15017510 AGAGGCTCAGTGACTTTGGGAACAATAAATTGCTCCTATAA-A
1 AGAGGCTCAACGACTTT--GAAAAATAAATGGCTCCTCTAATA
* * * *
15017552 CAGAGGCAACCACGACTTTTGAAAAATAAATTGTTCCTCTAAATA
1 -AGAGGC-TCAACGAC-TTTGAAAAATAAATGGCTCCTCT-AATA
* * * * *
15017597 A-AGGCACCACAACTTTGGAAAAGTAAATTGCTCCTCTAA-A
1 AGAGGCTCAACGACTTT-GAAAAATAAATGGCTCCTCTAATA
* *
15017637 CAGAGGCATC-ACAACTTTG-AAAGTAAAT-GCTCCT
1 -AGAGGC-TCAACGACTTTGAAAAATAAATGGCTCCT
15017671 TGACAATCAT
Statistics
Matches: 296, Mismatches: 49, Indels: 60
0.73 0.12 0.15
Matches are distributed among these distances:
39 6 0.02
40 12 0.04
41 96 0.32
42 44 0.15
43 88 0.30
44 9 0.03
45 34 0.11
46 3 0.01
47 3 0.01
48 1 0.00
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (41 bp):
AGAGGCTCAACGACTTTGAAAAATAAATGGCTCCTCTAATA
Found at i:15017524 original size:45 final size:45
Alignment explanation
Indices: 15017440--15017525 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
15017430 AACGACTTTT
*
15017440 GAAAATAAATAAAACTCCTCTAATCAGAAGCTTAATGACTTGAAA
1 GAAAATAAATAAAACTCCTCTAATCAGAAGCTCAATGACTTGAAA
** * *
15017485 GAAAATAAA-AAAAGCTTTTCTAATCAGAGGCTCAGTGACTT
1 GAAAATAAATAAAA-CTCCTCTAATCAGAAGCTCAATGACTT
15017526 TGGGAACAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 4 0.11
45 31 0.89
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.26
Consensus pattern (45 bp):
GAAAATAAATAAAACTCCTCTAATCAGAAGCTCAATGACTTGAAA
Found at i:15017618 original size:42 final size:42
Alignment explanation
Indices: 15017522--15017670 Score: 169
Period size: 42 Copynumber: 3.6 Consensus size: 42
15017512 AGGCTCAGTG
* * *
15017522 ACTTTGGGAACAATAAATTGCTCCTATAAACAGAGGCAACCACG
1 ACTTT-GGAAAAATAAATTGCTCCTCTAAACAGAGGC-ACCACA
* * * *
15017566 ACTTTTGAAAAATAAATTGTTCCTCTAAATAAAGGCACCACA
1 ACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACA
* *
15017608 ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCATCACA
1 ACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACA
*
15017650 ACTTT-G-AAAGTAAA-TGCTCCT
1 ACTTTGGAAAAATAAATTGCTCCT
15017671 TGACAATCAT
Statistics
Matches: 92, Mismatches: 13, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
39 7 0.08
40 8 0.09
41 1 0.01
42 46 0.50
43 25 0.27
44 5 0.05
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.26
Consensus pattern (42 bp):
ACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACA
Done.