Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168071.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_32, 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: 761692
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.42
Warning! 1000 characters in sequence are not A, C, G, or T
File 12 of 17
Found at i:462865 original size:30 final size:30
Alignment explanation
Indices: 462831--462895 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
462821 ATAATAATTT
*
462831 ATAATACTATTA-ATAATATATTATAAAAAA
1 ATAATACTATAATATAATA-ATTATAAAAAA
* **
462861 ATAATATTATAATATAATAATTATATTAAA
1 ATAATACTATAATATAATAATTATAAAAAA
462891 ATAAT
1 ATAAT
462896 TTAAAACTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 24 0.80
31 6 0.20
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (30 bp):
ATAATACTATAATATAATAATTATAAAAAA
Found at i:462879 original size:16 final size:16
Alignment explanation
Indices: 462842--462895 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
462832 TAATACTATT
462842 AATAAT-ATATTATAA
1 AATAATAATATTATAA
*
462857 AAAAATAATATTATAA
1 AATAATAATATTATAA
*
462873 TATAATAAT-TATATTAA
1 AATAATAATAT-TA-TAA
462890 AATAAT
1 AATAAT
462896 TTAAAACTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 6 0.19
16 18 0.56
17 8 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAATATTATAA
Found at i:462888 original size:19 final size:19
Alignment explanation
Indices: 462821--462893 Score: 66
Period size: 19 Copynumber: 4.1 Consensus size: 19
462811 TAATTTGTTA
* *
462821 ATAATAATT-TATAATACT
1 ATAATAATTATATTATAAT
462839 ATTAATAA-TATATTATAA-
1 A-TAATAATTATATTATAAT
*
462857 A-AA-AATAATATTATAAT
1 ATAATAATTATATTATAAT
*
462874 ATAATAATTATATTAAAAT
1 ATAATAATTATATTATAAT
462893 A
1 A
462894 ATTTAAAACT
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
15 2 0.05
16 11 0.25
17 1 0.02
18 5 0.11
19 25 0.57
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (19 bp):
ATAATAATTATATTATAAT
Found at i:463029 original size:19 final size:18
Alignment explanation
Indices: 462997--463038 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
462987 ATTTATTTAG
*
462997 TATA-TATTATTTAAAAT
1 TATATTATTAATTAAAAT
*
463014 TAATATTATTAATTAATAT
1 T-ATATTATTAATTAAAAT
463033 TATATT
1 TATATT
463039 TAAATTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 1 0.05
18 8 0.38
19 12 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TATATTATTAATTAAAAT
Found at i:463041 original size:16 final size:13
Alignment explanation
Indices: 463011--463035 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
463001 TATTATTTAA
463011 AATTAATATTATT
1 AATTAATATTATT
463024 AATTAATATTAT
1 AATTAATATTAT
463036 ATTTAAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTAATATTATT
Found at i:463970 original size:26 final size:25
Alignment explanation
Indices: 463920--463973 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
463910 ATATTATAAC
*
463920 ATTAATAATTATTAGTAAATAATAT
1 ATTAATAATTATTAATAAATAATAT
*
463945 ATTAATATATTATTTAAT-AATTATAT
1 ATTAATA-ATTA-TTAATAAATAATAT
463971 ATT
1 ATT
463974 TTAAATTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 7 0.28
26 14 0.56
27 4 0.16
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (25 bp):
ATTAATAATTATTAATAAATAATAT
Found at i:464998 original size:21 final size:21
Alignment explanation
Indices: 464937--465000 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
464927 TATTTTAACA
* *
464937 AATAATAATTATTAGATTATT
1 AATAATAATAATTAGCTTATT
* *
464958 AAT-ACAGTAATCTA-CTTTATT
1 AATAATAATAAT-TAGC-TTATT
464979 AATAATAATAATTAGCTTATT
1 AATAATAATAATTAGCTTATT
465000 A
1 A
465001 TTATAATTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
20 5 0.15
21 21 0.64
22 7 0.21
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.44
Consensus pattern (21 bp):
AATAATAATAATTAGCTTATT
Found at i:465668 original size:12 final size:12
Alignment explanation
Indices: 465646--465675 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
465636 ATTATTAACA
465646 ATATT-TAATAT
1 ATATTATAATAT
465657 ATATTATAATAT
1 ATATTATAATAT
465669 ATATTAT
1 ATATTAT
465676 TACTATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.28
12 13 0.72
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
ATATTATAATAT
Found at i:465708 original size:26 final size:27
Alignment explanation
Indices: 465679--465733 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
465669 ATATTATTAC
* *
465679 TATTTTATTTA-TAATATTTAATAAAT
1 TATTTTATTAATTAATAATTAATAAAT
465705 TA-TTTATTAATTAATAATTAATAAAT
1 TATTTTATTAATTAATAATTAATAAAT
465731 TAT
1 TAT
465734 ATAATAACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
TATTTTATTAATTAATAATTAATAAAT
Found at i:465967 original size:28 final size:28
Alignment explanation
Indices: 465897--465992 Score: 77
Period size: 28 Copynumber: 3.1 Consensus size: 28
465887 ATATAACTTG
*
465897 ATTAACTAATATTAATAATTATATAATTTAATT
1 ATTAA-TAAT-TTAATAATTAT-T--TTTAGTT
*
465930 ATGTAATAATTGTTTATAACTTATTTGTTA-TT
1 AT-TAATAA-T-TTAATAA-TTATTT-TTAGTT
465962 ATTAATAATTTAATAATTATTTTTAGTT
1 ATTAATAATTTAATAATTATTTTTAGTT
465990 ATT
1 ATT
465993 TGATAATTAT
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
27 3 0.05
28 11 0.20
29 6 0.11
30 1 0.02
31 6 0.11
32 5 0.09
33 8 0.15
34 11 0.20
35 4 0.07
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (28 bp):
ATTAATAATTTAATAATTATTTTTAGTT
Found at i:465981 original size:21 final size:21
Alignment explanation
Indices: 465957--466003 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
465947 AACTTATTTG
465957 TTATTATTAATAATTTAATAA
1 TTATTATTAATAATTTAATAA
* * * *
465978 TTATTTTTAGTTATTTGATAA
1 TTATTATTAATAATTTAATAA
465999 TTATT
1 TTATT
466004 CAAATATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (21 bp):
TTATTATTAATAATTTAATAA
Found at i:466431 original size:23 final size:22
Alignment explanation
Indices: 466405--466470 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 22
466395 TTTTTTAAAT
466405 ATTAATAAAATAATATTATAATA
1 ATTAATAAAATAA-ATTATAATA
* * *
466428 ATTATTATAATAAATTAGTAATT
1 ATTAATAAAATAAATTA-TAATA
*
466451 ATT-ATAATATAAATT-TAATA
1 ATTAATAAAATAAATTATAATA
466471 TAATTGCTTC
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
20 4 0.11
22 13 0.37
23 18 0.51
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
ATTAATAAAATAAATTATAATA
Found at i:466439 original size:20 final size:21
Alignment explanation
Indices: 466414--466462 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
466404 TATTAATAAA
*
466414 ATAATATTA-TAATAATTATT
1 ATAATATAATTAATAATTATT
*
466434 ATAATA-AATTAGTAATTATT
1 ATAATATAATTAATAATTATT
466454 ATAATATAA
1 ATAATATAA
466463 ATTTAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 1 0.04
20 22 0.88
21 2 0.08
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
ATAATATAATTAATAATTATT
Found at i:466558 original size:13 final size:13
Alignment explanation
Indices: 466536--466580 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
466526 TCTATATTAG
466536 TAAT-ATATTAAA
1 TAATAATATTAAA
*
466548 TAATAATATTAAT
1 TAATAATATTAAA
466561 TATATAAT-TTAAA
1 TA-ATAATATTAAA
466574 T-ATAATA
1 TAATAATA
466581 CTATAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 5 0.18
12 4 0.14
13 14 0.50
14 5 0.18
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TAATAATATTAAA
Found at i:466701 original size:13 final size:13
Alignment explanation
Indices: 466683--466723 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
466673 ATATTTATAA
466683 ATTATACTAATAT
1 ATTATACTAATAT
466696 ATTATACT-ATAT
1 ATTATACTAATAT
466708 AATTATA-TAATAT
1 -ATTATACTAATAT
466721 ATT
1 ATT
466724 TATTATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 8 0.31
13 18 0.69
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (13 bp):
ATTATACTAATAT
Found at i:466726 original size:13 final size:13
Alignment explanation
Indices: 466684--466747 Score: 53
Period size: 13 Copynumber: 4.8 Consensus size: 13
466674 TATTTATAAA
466684 TTATACTAATATA-
1 TTATA-TAATATAT
*
466697 TTATACT-ATATAA
1 TTATA-TAATATAT
466710 TTATATAATATAT
1 TTATATAATATAT
*
466723 TTAT-TATTTATTAT
1 TTATATA-ATA-TAT
466737 TTATATAATAT
1 TTATATAATAT
466748 TAATAATTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
12 8 0.19
13 24 0.56
14 9 0.21
15 2 0.05
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (13 bp):
TTATATAATATAT
Found at i:466730 original size:7 final size:7
Alignment explanation
Indices: 466720--466800 Score: 53
Period size: 7 Copynumber: 11.6 Consensus size: 7
466710 TTATATAATA
466720 TATTTAT
1 TATTTAT
466727 TATTTAT
1 TATTTAT
466734 TATTTA-
1 TATTTAT
*
466740 TATAATAT
1 TAT-TTAT
* *
466748 TAATAAT
1 TATTTAT
466755 TA-TTAT
1 TATTTAT
466761 ATATTTAAGT
1 -TATTT-A-T
466771 TATTTA-
1 TATTTAT
*
466777 TAATTAT
1 TATTTAT
*
466784 TA-TAAT
1 TATTTAT
466790 TATTTAT
1 TATTTAT
466797 TATT
1 TATT
466801 ATTTTAATGA
Statistics
Matches: 58, Mismatches: 8, Indels: 16
0.71 0.10 0.20
Matches are distributed among these distances:
6 16 0.28
7 30 0.52
8 5 0.09
9 6 0.10
10 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (7 bp):
TATTTAT
Found at i:466733 original size:20 final size:20
Alignment explanation
Indices: 466667--466733 Score: 53
Period size: 25 Copynumber: 3.0 Consensus size: 20
466657 ATAATCTAAT
* * *
466667 TATAACATATTTATAAATTA
1 TATAATATATTTATTATTTA
466687 TACTAATATATTATACTATATAATTA
1 TA-TAATATATT-TA-T-TAT--TTA
466713 TATAATATATTTATTATTTA
1 TATAATATATTTATTATTTA
466733 T
1 T
466734 TATTTATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 12
0.72 0.06 0.23
Matches are distributed among these distances:
20 6 0.16
21 8 0.21
22 5 0.13
23 2 0.05
24 3 0.08
25 9 0.24
26 5 0.13
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (20 bp):
TATAATATATTTATTATTTA
Found at i:466742 original size:35 final size:36
Alignment explanation
Indices: 466703--466800 Score: 102
Period size: 35 Copynumber: 2.8 Consensus size: 36
466693 TATATTATAC
466703 TATATAATTATATAATATATTTATTATTT-A-TTATT
1 TATATAATTATATAATATATTTATTATTTAAGTTA-T
466738 TATATAA-TAT-TAATA-ATTATTATATATTTAAGTTAT
1 TATATAATTATATAATATA-T-TTAT-TATTTAAGTTAT
466774 T-TATAATTATTATAAT-TATTTATTATT
1 TATATAATTA-TATAATATATTTATTATT
466801 ATTTTAATGA
Statistics
Matches: 54, Mismatches: 0, Indels: 18
0.75 0.00 0.25
Matches are distributed among these distances:
32 1 0.02
33 6 0.11
34 7 0.13
35 21 0.39
36 9 0.17
37 5 0.09
38 5 0.09
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (36 bp):
TATATAATTATATAATATATTTATTATTTAAGTTAT
Found at i:466760 original size:27 final size:28
Alignment explanation
Indices: 466703--466767 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 28
466693 TATATTATAC
* * *
466703 TATATAATTATATAATATATTTATTATT
1 TATATATTTATATAATATAATAATTATT
466731 TAT-TATTTATATAATATTAATAATTA-T
1 TATATATTTATATAATA-TAATAATTATT
466758 TATATATTTA
1 TATATATTTA
466768 AGTTATTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 16 0.50
28 16 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
TATATATTTATATAATATAATAATTATT
Found at i:466776 original size:9 final size:8
Alignment explanation
Indices: 466707--466815 Score: 51
Period size: 9 Copynumber: 12.4 Consensus size: 8
466697 TTATACTATA
*
466707 TAATTATA
1 TAATTATT
466715 TAATATATT
1 TAAT-TATT
466724 T-ATTATT
1 TAATTATT
466731 T-ATTATT
1 TAATTATT
*
466738 TATATAATAT
1 TA-ATTAT-T
*
466748 TAATAATT
1 TAATTATT
*
466756 ATTATATATT
1 -TAAT-TATT
466766 TAAGTTATTT
1 TAA-TTA-TT
466776 ATAATTATT
1 -TAATTATT
466785 ATAATTATT
1 -TAATTATT
466794 TATTATTATTT
1 TA--ATTA-TT
*
466805 TAATGATT
1 TAATTATT
466813 TAA
1 TAA
466816 AATACATCAT
Statistics
Matches: 83, Mismatches: 6, Indels: 24
0.73 0.05 0.21
Matches are distributed among these distances:
7 12 0.14
8 14 0.17
9 34 0.41
10 16 0.19
11 7 0.08
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (8 bp):
TAATTATT
Found at i:467316 original size:13 final size:13
Alignment explanation
Indices: 467275--467344 Score: 58
Period size: 13 Copynumber: 5.4 Consensus size: 13
467265 TATAACCTTT
467275 TATTA-ATTAAT-
1 TATTATATTAATA
*
467286 TATTCAAATTAATA
1 TATT-ATATTAATA
467300 -ATTATATTAATA
1 TATTATATTAATA
467312 TATTATAATT-ATAA
1 TATTAT-ATTAAT-A
*
467326 TATAATATTAAATA
1 TATTATATT-AATA
467340 TATTA
1 TATTA
467345 ATAAAATATT
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
11 4 0.08
12 9 0.19
13 19 0.40
14 14 0.29
15 2 0.04
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (13 bp):
TATTATATTAATA
Found at i:467321 original size:19 final size:19
Alignment explanation
Indices: 467297--467361 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
467287 ATTCAAATTA
467297 ATAATTATATTAATATATT
1 ATAATTATATTAATATATT
*
467316 ATAATTATAAT-ATAATATT
1 ATAATTATATTAAT-ATATT
* *
467335 A-AA-TATATTAATAAAAT
1 ATAATTATATTAATATATT
467352 ATTAATTATA
1 A-TAATTATA
467362 ATTTATCATA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
17 9 0.24
18 6 0.16
19 18 0.49
20 4 0.11
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATAATTATATTAATATATT
Found at i:467383 original size:28 final size:30
Alignment explanation
Indices: 467293--467424 Score: 84
Period size: 31 Copynumber: 4.5 Consensus size: 30
467283 AATTATTCAA
* *
467293 ATTAA-TAATTATATTAAT-ATATTATAAT
1 ATTAATTAATAATATTAATCATATAATAAT
467321 -TATAA-T-ATAATATTAAAT-ATATTAATAAAAT
1 AT-TAATTAATAATATT-AATCATA-TAAT--AAT
467352 ATTAATT-ATAAT-TT-ATCATATAATTAAT
1 ATTAATTAATAATATTAATCATATAA-TAAT
* * * *
467380 ATTATTTGATAATAATTAATTATATTATAAT
1 ATTAATTAATAAT-ATTAATCATATAATAAT
467411 ATTAATTAATAATA
1 ATTAATTAATAATA
467425 ATTATAATCT
Statistics
Matches: 84, Mismatches: 7, Indels: 24
0.73 0.06 0.21
Matches are distributed among these distances:
27 8 0.10
28 19 0.23
29 13 0.15
30 5 0.06
31 25 0.30
32 14 0.17
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.48
Consensus pattern (30 bp):
ATTAATTAATAATATTAATCATATAATAAT
Found at i:467559 original size:9 final size:9
Alignment explanation
Indices: 467538--467639 Score: 54
Period size: 9 Copynumber: 11.4 Consensus size: 9
467528 TATGGTACTA
*
467538 ATTATAACT
1 ATTATAATT
* *
467547 ATTATTATA
1 ATTATAATT
*
467556 ATTA-ATTT
1 ATTATAATT
*
467564 ATAATAATT
1 ATTATAATT
467573 ATTATAATT
1 ATTATAATT
467582 ATTATTAATAT
1 ATTA-TAAT-T
467593 ATT-TAATAT
1 ATTATAAT-T
467602 ATTAT--TT
1 ATTATAATT
*
467609 GA-TAAATATT
1 -ATTATA-ATT
467619 ATTAT-ATT
1 ATTATAATT
*
467627 ATTATATTT
1 ATTATAATT
467636 ATTA
1 ATTA
467640 ATATTAATAA
Statistics
Matches: 71, Mismatches: 12, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
7 3 0.04
8 14 0.20
9 41 0.58
10 9 0.13
11 4 0.06
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (9 bp):
ATTATAATT
Found at i:467566 original size:23 final size:23
Alignment explanation
Indices: 467539--467706 Score: 79
Period size: 23 Copynumber: 7.3 Consensus size: 23
467529 ATGGTACTAA
467539 TTATAACT-ATTATTATAATTAAT
1 TTATAA-TAATTATTATAATTAAT
467562 TTATAATAATTATTATAATT-A-
1 TTATAATAATTATTATAATTAAT
*
467583 TTATTAATATATT-TAATATATT-AT
1 TTA-TAATA-ATTATTATA-ATTAAT
467607 TTGATAA-ATATTATTATATTATTATAT
1 TT-ATAATA-ATTATTATA--ATTA-AT
* * *
467634 TTATTAAT-ATTAATAAAAAT-AT
1 TTA-TAATAATTATTATAATTAAT
* **
467656 TAATGCTAATTTATTATAATTAAT
1 TTATAATAA-TTATTATAATTAAT
* *
467680 TAATTATAATTA-T-T-ATTAAT
1 TTATAATAATTATTATAATTAAT
467700 TTATAAT
1 TTATAAT
467707 TATAAATTAA
Statistics
Matches: 115, Mismatches: 15, Indels: 33
0.71 0.09 0.20
Matches are distributed among these distances:
20 11 0.10
21 6 0.05
22 17 0.15
23 41 0.36
24 20 0.17
25 5 0.04
26 8 0.07
27 7 0.06
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (23 bp):
TTATAATAATTATTATAATTAAT
Found at i:467679 original size:14 final size:14
Alignment explanation
Indices: 467662--467708 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 14
467652 ATATTAATGC
*
467662 TAATTTATTATAAT
1 TAATTAATTATAAT
467676 TAATTAATTATAAT
1 TAATTAATTATAAT
467690 TATTATTAATTTATAAT
1 TA--ATTAA-TTATAAT
467707 TA
1 TA
467709 TAAATTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 15 0.52
16 5 0.17
17 9 0.31
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TAATTAATTATAAT
Found at i:467806 original size:59 final size:59
Alignment explanation
Indices: 467743--467862 Score: 138
Period size: 59 Copynumber: 2.0 Consensus size: 59
467733 ATATATGAAA
*
467743 TATAAT-ATATTTAATTATAATATTATA-TAG-TTATTAAAAAATTAATAATTATGACTATT
1 TATAATAATAGTT-ATTATAATATTATATTAGCTTATT-AAAAATTAATAATTAT-ACTATT
* * * * *
467802 TATAATAATAGTTATTATATTCTTATATTAGCTTATTTAATATTAATAATTATATTATT
1 TATAATAATAGTTATTATAATATTATATTAGCTTATTAAAAATTAATAATTATACTATT
467861 TA
1 TA
467863 ATTAATTAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
59 25 0.48
60 22 0.42
61 5 0.10
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (59 bp):
TATAATAATAGTTATTATAATATTATATTAGCTTATTAAAAATTAATAATTATACTATT
Found at i:468066 original size:18 final size:19
Alignment explanation
Indices: 468040--468090 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
468030 TTTGTTACTG
*
468040 TAAATTTATATAAATA-AT
1 TAAAATTATATAAATATAT
*
468058 TAAAATTAT-TAATTATAT
1 TAAAATTATATAAATATAT
*
468076 TAATATTA-ATAAATA
1 TAAAATTATATAAATA
468091 GTATAATTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 5 0.19
18 22 0.81
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAAATTATATAAATATAT
Found at i:469003 original size:18 final size:18
Alignment explanation
Indices: 468966--469008 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
468956 AAAATAATAT
468966 TAATATATTAACTTATAA
1 TAATATATTAACTTATAA
* *
468984 TATTATATTACATTTA-AA
1 TAATATATTA-ACTTATAA
469002 TAATATA
1 TAATATA
469009 ATGTTTAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TAATATATTAACTTATAA
Found at i:469084 original size:44 final size:42
Alignment explanation
Indices: 469003--469084 Score: 112
Period size: 44 Copynumber: 1.9 Consensus size: 42
468993 ACATTTAAAT
*
469003 AATATAATGTTTAAATTATTTATTATAATATTATAATAATAC
1 AATATAATGTTTAAATTATTAATTATAATATTATAATAATAC
*
469045 AATATAATTTATTAAATTATTAAATTATAACT-TTATAATA
1 AATATAATGT-TTAAATTATT-AATTATAA-TATTATAATA
469085 TATTAGTCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
42 9 0.26
43 10 0.29
44 15 0.43
45 1 0.03
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (42 bp):
AATATAATGTTTAAATTATTAATTATAATATTATAATAATAC
Found at i:470605 original size:181 final size:180
Alignment explanation
Indices: 469644--472528 Score: 1749
Period size: 180 Copynumber: 16.2 Consensus size: 180
469634 ATTTATATTA
* * * * * * *
469644 AAATAGTTATGACTATTTGAACAATTGTATATGTCAAATCATTATAACCTTTTATTATGTCATAA
1 AAATAGTTATGACTATTTGAATAATTATCTATTTCAAAT-ATTATGACCTTTTGTTTTGTCATAA
* * ** * * * * * *
469709 AATAATTATTTTTGTTTATACAAGCTTATTCAAAATAAAACAATACTAATCTAATAATATTCCAA
65 AACAATTGTTTCAGTTCATATAAGCTTATTCAAAATAAAATAATACTAATTTATTAATAATCCAA
* ** * * * *
469774 AAATTAATAACTAAGGGATTTAAAAAATAAATTTTTTTGCCGAACCAA-TTC
130 AAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACC-AAACAAGTTC
* * * * * * *
469825 AAATAGTTAAGACTATATGAACAATTATTTATTTCAAATCGTTATGACATTTTGTCTTGTCATAA
1 AAATAGTTATGACTATTTGAATAATTATCTATTTCAAAT-ATTATGACCTTTTGTTTTGTCATAA
* * * * * *
469890 AACAATT-TTCTCAATTCAAACT-AGCTTATT-TAAATAAAATAA-AATGAATTTATTAATATTT
65 AACAATTGTT-TCAGTTCATA-TAAGCTTATTCAAAATAAAATAATACT-AATTTATTAATAATC
* * * * * *
469951 CAAAAAATAATAGGTAAAAGATTTAAAAAATAATTTTGTTTACCTAACTAGTTC
127 CAAAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCAAACAAGTTC
* * * ** * * * * *
470005 AAAAAATTAT-ACTATTTGAACAATTATAGATTGCAAATCAATATTACTTTTTGTTTTGTCATAC
1 AAATAGTTATGACTATTTGAATAATTATCTATTTCAAAT-ATTATGACCTTTTGTTTTGTCATAA
* ** * *** * * * *
470069 AACAAATGTTTTTGTTCATATAAGTTTATTTGGAATAAAGTAATACTAATCTATTAATATTTC-A
65 AACAATTGTTTCAGTTCATATAAGCTTATTCAAAATAAAATAATACTAATTTATTAATAATCCAA
** * * *** * *
470133 AAATTAATAAGT---A-ATTTGGACAATAAATCTACGTATCAAACTAGTTC
130 AAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCAAACAAGTTC
** * * * **
470180 AAATAGTTATGACTATTTGAGCAATTATTTATTTCAAATCAATATGACATTTTGTTTTGTTGTAA
1 AAATAGTTATGACTATTTGAATAATTATCTATTTCAAAT-ATTATGACCTTTTGTTTTGTCATAA
** *** * * ***
470245 AACAATTGTTTCTA-TTCATGCAAGCTTATTTGCATTAAAATAATACTAATTTATTAATATTTTG
65 AACAATTGTTTC-AGTTCATATAAGCTTATTCAAAATAAAATAATACTAATTTATTAATAATCCA
* * * ** * * *
470309 ACAATTAGTAAGTAAAAAATTT---TTA-AAATATGTTTACCACACTAGATC
129 AAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCAAACAAGTTC
* * * * *
470357 AAATAATCATGACAATTTGAATAATTATTTATTTCAAATCATTATGACCTTTTGATTTGTCATAA
1 AAATAGTTATGACTATTTGAATAATTATCTATTTCAAAT-ATTATGACCTTTTGTTTTGTCATAA
* * * *
470422 AAGAGTTGTTTCAGCTCATATAAGCTTATTCAAAATAAAATAAGACTAATTTATTAATAATCCAA
65 AACAATTGTTTCAGTTCATATAAGCTTATTCAAAATAAAATAATACTAATTTATTAATAATCCAA
* * * * * *
470487 AAATTAATAA-TAAAGAGATTTAAAAAATGACTTTGTTTACTAAACAAATTT
130 AAATTAATAAGTAAA-AGATTTAAAAAATAAATATGTTTACCAAACAAGTTC
* * * * * * * *
470538 AAATAATTAGGATTGTTTGAATAATTATCTATTTGAAATAGCTATAACCTTTTGTTTTGTAATAA
1 AAATAGTTATGACTATTTGAATAATTATCTATTTCAAATA-TTATGACCTTTTGTTTTGTCATAA
* * * * *** * *
470603 AAGAATTTTTTCTGTTCATCTAAGCTTATTTTGAATAAAATAATACAAATTTATTAAT-AT-TAA
65 AACAATTGTTTCAGTTCATATAAGCTTATTCAAAATAAAATAATACTAATTTATTAATAATCCAA
*
470666 GACAATTAATGAGTAAAAGATTT-AAAAATAAATATGTTTACCAAACAAGTTC
130 -A-AATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCAAACAAGTTC
* * ** * * *
470718 TAATCA-TTATGGCTATTTGAGCAATTATTTATTTCAACATGA-TATGATCTTTTGTTTTCTCAT
1 AAAT-AGTTATGACTATTTGAATAATTATCTATTTCAA-AT-ATTATGACCTTTTGTTTTGTCAT
* * * * ** * * * * *
470781 AAAATAATTATTTCTA-TTCATACAAGTTTATTTGAATTAAAATAATATTAATTAATTAATATTT
63 AAAACAATTGTTTC-AGTTCATATAAGCTTATTCAAAATAAAATAATACTAATTTATTAATAATC
** * *
470845 TGACAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTACCAAACAAGTTC
127 CAAAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCAAACAAGTTC
* * * * * * *
470899 AAATAGTCATTAATATTTCAATAATTATCTATTTCAAATCATTATGACCTTTTCTTTTCTAATAA
1 AAATAGTTATGACTATTTGAATAATTATCTATTTCAAAT-ATTATGACCTTTTGTTTTGTCATAA
* * ** * * *
470964 AACACTTGTTTCAATTCATATAAGCTTATTTGAAGTAAGATAATACTAATTTATTAATATTCCAA
65 AACAATTGTTTCAGTTCATATAAGCTTATTCAAAATAAAATAATACTAATTTATTAATAATCCAA
* * * * ** *
471029 AAATTAATGAGTGAGAGCA-TTAAAAAA-AGAACATGTTTACGGAATAAGTTC
130 AAATTAATAAGTAAAAG-ATTTAAAAAATA-AATATGTTTACCAAACAAGTTC
* * *
471080 AAATAGTTATGACTATCTGAACAATTATCTATTTCAAAACATTATGACCTTTTGTTTTGTCATAA
1 AAATAGTTATGACTATTTGAATAATTATCTATTTC-AAATATTATGACCTTTTGTTTTGTCATAA
** * * *
471145 AACAATTGGCTTT--GTTCATGCAAGCTTATTTC-GAATAAAATAAT-TTAAATTTATTAATATT
65 AACAATT-G-TTTCAGTTCATATAAGCTTA-TTCAAAATAAAATAATACT-AATTTATTAATAAT
* ** * *
471206 CCAAAAATTAATAAGTAAAA-TTTTAAAAAATAAATATGTTTTTCGAACATGTTC
126 CCAAAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCAAACAAGTTC
* * * *
471260 AAATAGTTATGACTATTTGAAAAATTATCTATTTCAAATCGTTATGACCTTTTATTTGGTCATAA
1 AAATAGTTATGACTATTTGAATAATTATCTATTTCAAAT-ATTATGACCTTTTGTTTTGTCATAA
* * * **
471325 ACCAATTGTTTCTAG-TCATAAAAGCTTTTTCAAAATAAAATAGCACTAATTTATTAA-AATTCC
65 AACAATTGTTTC-AGTTCATATAAGCTTATTCAAAATAAAATAATACTAATTTATTAATAA-TCC
* * * * *
471388 AAAAATTAATAAGTAAAAGATTTAAAAAATAAATCTATTTATCGAGCAAGTTC
128 AAAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCAAACAAGTTC
* * * *
471441 AAATAGTTAT--TTATTTGAATAATTATTTATTTCAAATCGTTATGATCTTTTGTTTTGTCATAA
1 AAATAGTTATGACTATTTGAATAATTATCTATTTCAAAT-ATTATGACCTTTTGTTTTGTCATAA
* * * * ** * ** ** ** ***
471504 AATAATTTTTTTCTGTTCATACAAAATTATTCAAAATAAAACAATTTTGTTTTATTAATCTTTTG
65 AACAA-TTGTTTCAGTTCATATAAGCTTATTCAAAATAAAATAATACTAATTTATTAATAATCCA
* *
471569 AAAATTAATAAG----AGATTTAAAAACTAAATA-----A-C---C-AGTTT
129 AAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCAAACAAGTTC
* * * * * * *
471607 AAATAGTTATGACTATTTGAACAATTATCTATCTCAAATCATAATAATC-TTTATTTTGTCATAC
1 AAATAGTTATGACTATTTGAATAATTATCTATTTCAAAT-ATTATGACCTTTTGTTTTGTCATAA
** * ** * * * * * *
471671 AACAATTGTTTCCTTTCATACAAGCTTATTCGGATTAAAATGATAGTAATTTAATAATATTTCAA
65 AACAATTGTTTCAGTTCATATAAGCTTATTCAAAATAAAATAATACTAATTTATTAATAATCCAA
*
471736 AAATTAATAAG----AGATTTAAAAAATAAATATG-TTAGCCAAACTAGTTC
130 AAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTA-CCAAACAAGTTC
* ** *
471783 AAATAGTTAAGACTATCAGAATAATTATCTATTTC----------A---TTTGTTTAGTCATAAA
1 AAATAGTTATGACTATTTGAATAATTATCTATTTCAAATATTATGACCTTTTGTTTTGTCATAAA
* * * *** * *
471835 ATAATTATTTCAGTTCATACAAGCTTATTTGGAATAAAATAATACTAATTTATTAATATTCAAAA
66 ACAATTGTTTCAGTTCATATAAGCTTATTCAAAATAAAATAATACTAATTTATTAATAATCCAAA
* * **** * ** * * *
471900 AATT-A-AAGCAAGAGATTTTTTTTTAA-AAATCTGTTTACTGAATAATTTT
131 AATTAATAAGTAAAAGA--TTTAAAAAATAAATATGTTTACCAAACAAGTTC
* * * * * * * * *
471949 AAATAGATATGACTACTTAAACAATTATCTGTTTTAAATTATTTTGTCATTTTGTTTTGTCATAA
1 AAATAGTTATGACTATTTGAATAATTATCTATTTCAAA-TATTATGACCTTTTGTTTTGTCATAA
* * * * * * *
472014 AACAATTGTTTC-GATTAATAAAAACTTATAT-GAAATAAAATAATACTACTTTATTAATATTTC
65 AACAATTGTTTCAG-TTCATATAAGCTTAT-TCAAAATAAAATAATACTAATTTATTAATAATCC
* * * * *
472077 AAAAATTATTAAGCAAGAGATTTAAAAACTAAAGCTAT-TTT-TCAAAGC-AGTTC
128 AAAAATTAATAAGTAAAAGATTTAAAAAATAAA--TATGTTTACCAAA-CAAGTTC
* * * * *
472130 TAATAGTTATGACTATTTGAACAAATAT-TAATCTCAAATCATTATGATC-TTTGTTTTGTCATA
1 AAATAGTTATGACTATTTGAATAATTATCT-ATTTCAAAT-ATTATGACCTTTTGTTTTGTCATA
* * ** * * * * * *
472193 AAATAATTATTT-TTTATCATATAAGCTAATTC-AGATAAAAATAATAGTAATTTAATAATATTT
64 AAACAATTGTTTCAGT-TCATATAAGCTTATTCAAAAT-AAAATAATACTAATTTATTAATAATC
** * * * * **
472256 TGAAAATTAATAAGTAAGAGATTTAAAAAAATAAATGTGTTTGCC-GATTAGTTC
127 CAAAAATTAATAAGTAAAAGATTT-AAAAAATAAATATGTTTACCAAACAAGTTC
* * * * * **
472310 AAATAGTTAAGATTATTAGAATAATTATCTATTTCAAATCATTATAACATTTTGTTTAATCATAA
1 AAATAGTTATGACTATTTGAATAATTATCTATTTCAAAT-ATTATGACCTTTTGTTTTGTCATAA
* * * * * ***
472375 AATAATTGTTTCAGTTCATACAATCTTATTCGAAAGAAAATAATACTAATTTATTAAT--TTTGA
65 AACAATTGTTTCAGTTCATATAAGCTTATTCAAAATAAAATAATACTAATTTATTAATAATCCAA
* ** * * * * *
472438 AAGTTAATAAGTAGGATATTTGAAAAACTAAATTTGTTTATCGAACAAGTTC
130 AAATTAATAAGTAAAAGATTT-AAAAAATAAATATGTTTACCAAACAAGTTC
* *
472490 AAATAGTTATGACTATTTGAACAATTATCTATTTAAAAT
1 AAATAGTTATGACTATTTGAATAATTATCTATTTCAAAT
472529 CATTGTGAAT
Statistics
Matches: 2116, Mismatches: 477, Indels: 223
0.75 0.17 0.08
Matches are distributed among these distances:
161 3 0.00
162 1 0.00
163 71 0.03
165 4 0.00
166 122 0.06
167 26 0.01
168 30 0.01
170 2 0.00
171 1 0.00
172 1 0.00
175 33 0.02
176 152 0.07
177 144 0.07
178 5 0.00
179 187 0.09
180 666 0.31
181 633 0.30
182 30 0.01
183 5 0.00
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.40
Consensus pattern (180 bp):
AAATAGTTATGACTATTTGAATAATTATCTATTTCAAATATTATGACCTTTTGTTTTGTCATAAA
ACAATTGTTTCAGTTCATATAAGCTTATTCAAAATAAAATAATACTAATTTATTAATAATCCAAA
AATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCAAACAAGTTC
Found at i:470924 original size:361 final size:356
Alignment explanation
Indices: 469644--472528 Score: 1815
Period size: 361 Copynumber: 8.1 Consensus size: 356
469634 ATTTATATTA
* * * * * * *
469644 AAATAGTTATGACTATTTGAACAATTGTATATGTCAAATCATTATAACCTTTTATTATGTCATAA
1 AAATA-TTATGACTATTTGAACAATTATTTATTTCAAATGA-TATGACCTTTTGTTTTGTCATAA
* * * ** *
469709 AATAATTATTTTTGTTTATACAAGCTTATTCAAAATAAAACAATACTAATCTAA-TAATATTCCA
64 AATAATTGTTTCTGTTCATACAAGCTTATT-TGAATAAAATAATACTAAT-TAATTAATATTCCA
* ** * * * * *
469773 AAAATTAATAACTAAGGGATTTAAAAAATAAATTTTTTTGCCGAACCAA-TTCAAATAGTTAAGA
127 AAAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTACC-AAACAAGTTCAAATAGTTATGA
* * * * * *
469837 CTATATGAACAATTATTTATTTCAAATCGTTATGACATTTTGTCTTGTCATAAAACAATT-TTCT
191 CTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTAATAAAACAATTGTT-T
* * * * * *
469901 CAATTCAAACT-AGCTTATTTAAATAAAATAA-AATGAATTTATTAATATTTCAAAAAATAATAG
255 CTATTC-ATCTAAGCTTATTTGAATAAAATAATACT-AATTTATTAATA-TTCAAAAATTAATAA
* * * *
469964 GTAAAAGATTTAAAAAATAATTTTGTTTACCTAACTAGTTC
317 GTAAAAGATTT-AAAAATAAATATGTTTACCAAACAAGTTC
* ** * * * * *
470005 AAAAAATTAT-ACTATTTGAACAATTATAGATTGCAAATCAATATTACTTTTTGTTTTGTCATAC
1 -AAATATTATGACTATTTGAACAATTATTTATTTCAAAT-GATATGACCTTTTGTTTTGTCATAA
* * * * * * *
470069 AACAAATGTTTTTGTTCATATAAGTTTATTTGGAATAAAGTAATACTAATCT-ATTAATATTTC-
64 AATAATTGTTTCTGTTCATACAAGCTTATTT-GAATAAAATAATACTAAT-TAATTAATATTCCA
** * * ** * *
470132 AAAATTAATAAGT---A-ATTTGGACAATAAATCTACGTATCAAACTAGTTCAAATAGTTATGAC
127 AAAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTACCAAACAAGTTCAAATAGTTATGAC
* * * * **
470193 TATTTGAGCAATTATTTATTTCAAATCA-ATATGACATTTTGTTTTGTTGTAAAACAATTGTTTC
192 TATTTGAACAATTATCTATTTCAAAT-AGTTATGACCTTTTGTTTTGTAATAAAACAATTGTTTC
* ** * *
470257 TATTCATGC-AAGCTTATTTGCATTAAAATAATACTAATTTATTAATATTTTGACAATTAGTAAG
256 TATTCAT-CTAAGCTTATTTG-AATAAAATAATACTAATTTATTAATA-TTCAAAAATTAATAAG
* ** * * *
470321 TAAAAAATTT--TTA-AAATATGTTTACCACACTAGATC
318 TAAAAGATTTAAAAATAAATATGTTTACCAAACAAGTTC
* * * * *
470357 AAATAATCATGACAATTTGAATAATTATTTATTTCAAATCATTATGACCTTTTGATTTGTCATAA
1 AAAT-ATTATGACTATTTGAACAATTATTTATTTCAAATGA-TATGACCTTTTGTTTTGTCATAA
* * * * * ** * * *
470422 AAGAGTTGTTTCAGCTCATATAAGCTTATTCAAAATAAAATAAGACTAATTTATTAATAATCCAA
64 AATAATTGTTTCTGTTCATACAAGCTTATT-TGAATAAAATAATACTAATTAATTAATATTCCAA
* * * * * * * * * *
470487 AAATTAATAA-TAAAGAGATTTAAAAAATGACTTTGTTTACTAAACAAATTTAAATAATTAGGAT
128 AAATTAATAAGTAAA-AGATTTAAAAAATAAATATATTTACCAAACAAGTTCAAATAGTTATGAC
* * * * * * *
470551 TGTTTGAATAATTATCTATTTGAAATAGCTATAACCTTTTGTTTTGTAATAAAAGAATTTTTTCT
192 TATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTAATAAAACAATTGTTTCT
* * *
470616 GTTCATCTAAGCTTATTTTGAATAAAATAATACAAATTTATTAATATT-AAGACAATTAATGAGT
257 ATTCATCTAAGCTTA-TTTGAATAAAATAATACTAATTTATTAATATTCAA-A-AATTAATAAGT
470680 AAAAGATTTAAAAATAAATATGTTTACCAAACAAGTTC
319 AAAAGATTTAAAAATAAATATGTTTACCAAACAAGTTC
* * * * *
470718 TAATCATTATGGCTATTTGAGCAATTATTTATTTCAACATGATATGATCTTTTGTTTTCTCATAA
1 AAAT-ATTATGACTATTTGAACAATTATTTATTTCAA-ATGATATGACCTTTTGTTTTGTCATAA
* * * * ***
470783 AATAATTATTTCTATTCATACAAGTTTATTTGAATTAAAATAATATTAATTAATTAATATTTTGA
64 AATAATTGTTTCTGTTCATACAAGCTTATTTGAA-TAAAATAATACTAATTAATTAATATTCCAA
* * * *
470848 CAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTACCAAACAAGTTCAAATAGTCATTAAT
128 AAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTACCAAACAAGTTCAAATAGTTATGACT
* * * * * *
470913 ATTTCAATAATTATCTATTTCAAATCA-TTATGACCTTTTCTTTTCTAATAAAACACTTGTTTCA
193 ATTTGAACAATTATCTATTTCAAAT-AGTTATGACCTTTTGTTTTGTAATAAAACAATTGTTTCT
* * * *
470977 ATTCATATAAGCTTATTTGAAGTAAGATAATACTAATTTATTAATATTCCAAAAATTAATGAGTG
257 ATTCATCTAAGCTTATTTGAA-TAAAATAATACTAATTTATTAATATT-CAAAAATTAATAAGTA
* * * ** *
471042 AGAGCA-TTAAAAAAAGAACATGTTTACGGAATAAGTTC
320 AAAG-ATTTAAAAATA-AATATGTTTACCAAACAAGTTC
* * **
471080 AAATAGTTATGACTATCTGAACAATTATCTATTTCAAAACATTATGACCTTTTGTTTTGTCATAA
1 AAATA-TTATGACTATTTGAACAATTATTTATTTCAAATGA-TATGACCTTTTGTTTTGTCATAA
* * * * *
471145 AACAATTGGCTT-TGTTCATGCAAGCTTATTTCGAATAAAATAAT-TTAAATTTATTAATATTCC
64 AATAATT-GTTTCTGTTCATACAAGCTTATTT-GAATAAAATAATACT-AATTAATTAATATTCC
* * ** * *
471208 AAAAATTAATAAGTAAAA-TTTTAAAAAATAAATATGTTTTTCGAACATGTTCAAATAGTTATGA
126 AAAAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTACCAAACAAGTTCAAATAGTTATGA
* * * * * *
471272 CTATTTGAAAAATTATCTATTTCAAATCGTTATGACCTTTTATTTGGTCATAAACCAATTGTTTC
191 CTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTAATAAAACAATTGTTTC
* ** * ** *
471337 TAGTCATAAAAGCTT-TTTCAAAATAAAATAGCACTAATTTATTAAAATTCCAAAAATTAATAAG
256 TATTCATCTAAGCTTATTT--GAATAAAATAATACTAATTTATTAATATT-CAAAAATTAATAAG
* * * * *
471401 TAAAAGATTTAAAAAATAAATCTATTTATCGAGCAAGTTC
318 TAAAAGATTT-AAAAATAAATATGTTTACCAAACAAGTTC
* * * *
471441 AAATAGTTAT--TTATTTGAATAATTATTTATTTCAAATCGTTATGATCTTTTGTTTTGTCATAA
1 AAATA-TTATGACTATTTGAACAATTATTTATTTCAAAT-GATATGACCTTTTGTTTTGTCATAA
* ** ** * ** ** * * ***
471504 AATAATTTTTTTCTGTTCATACAAAATTATTCAAAATAAAACAATTTTGTTTTATTAATCTTTTG
64 AATAA-TTGTTTCTGTTCATACAAGCTTATT-TGAATAAAATAATACTAATTAATTAATATTCCA
* *
471569 AAAATTAATAAG----AGATTTAAAAACT-AA-ATA---A-C---C-AGTTTAAATAGTTATGAC
127 AAAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTACCAAACAAGTTCAAATAGTTATGAC
* * * * * * *
471620 TATTTGAACAATTATCTATCTCAAATCA-TAATAATC-TTTATTTTGTCATACAACAATTGTTTC
192 TATTTGAACAATTATCTATTTCAAAT-AGTTATGACCTTTTGTTTTGTAATAAAACAATTGTTT-
* * * * *
471683 CT-TTCATAC-AAGCTTATTCGGATTAAAATGATAGTAATTTAATAATATTTCAAAAATTAATAA
255 CTATTCAT-CTAAGCTTATT-TGAATAAAATAATACTAATTTATTAATA-TTCAAAAATTAATAA
*
471746 G----AGATTTAAAAAATAAATATG-TTAGCCAAACTAGTTC
317 GTAAAAGATTT-AAAAATAAATATGTTTA-CCAAACAAGTTC
* ** * * *
471783 AAATAGTTAAGACTATCAGAATAATTATCTATTTC----------A---TTTGTTTAGTCATAAA
1 AAATA-TTATGACTATTTGAACAATTATTTATTTCAAATGATATGACCTTTTGTTTTGTCATAAA
* * * *
471835 ATAATTATTTCAGTTCATACAAGCTTATTTGGAATAAAATAATACTAATTTATTAATATTCAAAA
65 ATAATTGTTTCTGTTCATACAAGCTTATTT-GAATAAAATAATACTAATTAATTAATATTCCAAA
* * **** * * ** * * * *
471900 AATT-A-AAGCAAGAGATTTTTTTTTAA-AAATCTGTTTACTGAATAATTTTAAATAGATATGAC
129 AATTAATAAGTAAAAGA--TTTAAAAAATAAATATATTTACCAAACAAGTTCAAATAGTTATGAC
* * * * * * * *
471962 TACTTAAACAATTATCTGTTTTAAATTA-TTTTGTCATTTTGTTTTGTCATAAAACAATTGTTTC
192 TATTTGAACAATTATCTATTTCAAA-TAGTTATGACCTTTTGTTTTGTAATAAAACAATTGTTTC
* * ** * * * * *
472026 GATTAATAAAAACTTATATGAAATAAAATAATACTACTTTATTAATATTTCAAAAATTATTAAGC
256 TATTCATCTAAGCTTATTTG-AATAAAATAATACTAATTTATTAATA-TTCAAAAATTAATAAGT
* *
472091 AAGAGATTTAAAAACTAAAGCTAT-TTT-TCAAAGC-AGTTC
319 AAAAGATTTAAAAA-TAAA--TATGTTTACCAAA-CAAGTTC
* * * * * *
472130 TAATAGTTATGACTATTTGAACAAATATTAATCTCAAATCATTATGATC-TTTGTTTTGTCATAA
1 AAATA-TTATGACTATTTGAACAATTATTTATTTCAAATGA-TATGACCTTTTGTTTTGTCATAA
* * * * * * *
472194 AATAATTATTT-TTTATCATATAAGC-TAATTCAGATAAAAATAATAGTAATTTAA-TAATATTT
64 AATAATTGTTTCTGT-TCATACAAGCTTATTTGA-AT-AAAATAATACTAA-TTAATTAATATTC
** * * * * * ** *
472256 TGAAAATTAATAAGTAAGAGATTTAAAAAAATAAATGTGTTTGCC-GATTAGTTCAAATAGTTAA
125 CAAAAATTAATAAGTAAAAGATTT-AAAAAATAAATATATTTACCAAACAAGTTCAAATAGTTAT
* * * * * ** * *
472320 GATTATTAGAATAATTATCTATTTCAAATCA-TTATAACATTTTGTTTAATCATAAAATAATTGT
189 GACTATTTGAACAATTATCTATTTCAAAT-AGTTATGACCTTTTGTTTTGTAATAAAACAATTGT
* * * ** *
472384 TTC-AGTTCATAC-AATCTTATTCGAAAGAAAATAATACTAATTTATTAAT-TTTGAAAGTTAAT
253 TTCTA-TTCAT-CTAAGCTTATTTG-AATAAAATAATACTAATTTATTAATATTCAAAAATTAAT
** * * * *
472446 AAGTAGGATATTTGAAAAACTAAATTTGTTTATCGAACAAGTTC
315 AAGTAAAAGATTT-AAAAA-TAAATATGTTTACCAAACAAGTTC
* *
472490 AAATAGTTATGACTATTTGAACAATTATCTATTTAAAAT
1 AAATA-TTATGACTATTTGAACAATTATTTATTTCAAAT
472529 CATTGTGAAT
Statistics
Matches: 1970, Mismatches: 431, Indels: 246
0.74 0.16 0.09
Matches are distributed among these distances:
327 3 0.00
328 1 0.00
329 49 0.02
330 19 0.01
331 3 0.00
333 7 0.00
334 1 0.00
337 1 0.00
341 3 0.00
342 76 0.04
343 73 0.04
344 19 0.01
346 71 0.04
347 96 0.05
348 2 0.00
349 5 0.00
351 4 0.00
352 24 0.01
353 91 0.05
354 16 0.01
355 99 0.05
356 47 0.02
357 16 0.01
358 138 0.07
359 97 0.05
360 270 0.14
361 562 0.29
362 170 0.09
363 7 0.00
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.40
Consensus pattern (356 bp):
AAATATTATGACTATTTGAACAATTATTTATTTCAAATGATATGACCTTTTGTTTTGTCATAAAA
TAATTGTTTCTGTTCATACAAGCTTATTTGAATAAAATAATACTAATTAATTAATATTCCAAAAA
TTAATAAGTAAAAGATTTAAAAAATAAATATATTTACCAAACAAGTTCAAATAGTTATGACTATT
TGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTAATAAAACAATTGTTTCTATTC
ATCTAAGCTTATTTGAATAAAATAATACTAATTTATTAATATTCAAAAATTAATAAGTAAAAGAT
TTAAAAATAAATATGTTTACCAAACAAGTTC
Found at i:471172 original size:542 final size:533
Alignment explanation
Indices: 469644--472532 Score: 1847
Period size: 542 Copynumber: 5.4 Consensus size: 533
469634 ATTTATATTA
* * * * * * *
469644 AAATAGTTATGACTATTTGAACAATTGTATATGTCAAATC-ATTATAACCTTTTATTATGTCATA
1 AAATAGTTATGACTATTTGAGCAATTATTTATTTCAAATCGA-TATGA-CTTTTGTTTTGTCATA
* * * * *
469708 AAATAATTATTTTTGTTTATACAAGCTTATTCAAAATAAAACAATACTAATCTAA-TAATATTCC
64 AAACAATTATTTCTATTCATACAAGCTTATTCAAAATAAAATAATACTAAT-TAATTAATATTCC
* ** * * * * * *
469772 AAAAATTAATAACTAAGGGATTTAAAAAATAAATTTTTTTGCCGAACCAA-TTCAAATAGTTAAG
128 AAAAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTACC-AAACAAGTTCAAATAGTCATG
* * * * * *
469836 ACTATATGAACAATTATTTATTTCAAATCGTTATGACATTTTGTCTTGTCATAAAACAATT-TTC
192 AATATTTGAATAATTATTTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTGTT-
* * * *
469900 TCAATTCAAACT-AGCTTATTTAAATAAAATAAAATGAATTTATTAATATTTCAAAAAATAATAG
256 TCAATTCATA-TAAGCTTATTTAAATAAAATAAACT-AATTTATTAATATTCCAAAAATTAATA-
* * * * * *
469964 GTAAAAGATTTAAAAAATAATTTTGTTTACCTAACT-AGTTCAAAAAATTAT-ACTATTTGAACA
318 GTAAGAGATTAAAAAAAGAA-CTTGTTTACC-AAATAAGTTCAAATAATTATGACTATTTGAACA
** * * * * * * *
470027 ATTATAGATTGCAAATCAATATTACTTTTTGTTTTGTCATACAACAAATGTTTTTGTTCATATAA
381 ATTATCTATTTCAAAAC-ATATAACCTTTTGTTTTGTCATAAAACAATTGTTTTTGTTCAT-CAA
* * * * * * ** *
470092 GTTTATTTGGAATAAAGTAATACTAATCTATTAATATTTCAAAATTAATAAGT---AATTTGGAC
444 GCTTATTTCGAATAAAATAATACAAATTTATTAATA-TTAAAAATTAATAAGTAAAAATTTAAAA
* *** *
470154 AATAAATCTACGTATCAAACTAGTTC
508 AATAAATATGTTTATCAAACAAGTTC
* **
470180 AAATAGTTATGACTATTTGAGCAATTATTTATTTCAAATCAATATGACATTTTGTTTTGTTGTAA
1 AAATAGTTATGACTATTTGAGCAATTATTTATTTCAAATCGATATGAC-TTTTGTTTTGTCATAA
* * *** * * ***
470245 AACAATTGTTTCTATTCATGCAAGCTTATTTGCATTAAAATAATACTAATTTATTAATATTTTGA
65 AACAATTATTTCTATTCATACAAGCTTATTCAAAATAAAATAATACTAATTAATTAATATTCCAA
* * * ** * * * * *
470310 CAATTAGTAAGTAAAAAATTT---TTA-AAATATGTTTACCACACTAGATCAAATAATCATGACA
130 AAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTACCAAACAAGTTCAAATAGTCATGA-A
* * *
470371 -ATTTGAATAATTATTTATTTCAAATCATTATGACCTTTTGATTTGTCATAAAAGAGTTGTTTCA
194 TATTTGAATAATTATTTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCA
** * * *
470435 GCTCATATAAGCTTATTCAAAATAAAATAAGACTAATTTATTAATAATCCAAAAATTAATAATAA
259 ATTCATATAAGCTTATT-TAAATAAAATAA-ACTAATTTATTAATATTCCAAAAATTAATAGT-A
* * * * * * * * *
470500 AGAGATTTAAAAAATG-ACTTTGTTTACTAAACAAATTTAAATAATTAGGATTGTTTGAATAATT
321 AGAGA-TTAAAAAAAGAAC-TTGTTTACCAAATAAGTTCAAATAATTATGACTATTTGAACAATT
* * *
470564 ATCTATTTGAAATAGC-TATAACCTTTTGTTTTGTAATAAAAGAATT-TTTTCTGTTCATCTAAG
384 ATCTATTTCAAA-A-CATATAACCTTTTGTTTTGTCATAAAACAATTGTTTT-TGTTCATC-AAG
* *
470627 CTTATTTTGAATAAAATAATACAAATTTATTAATATTAAGACAATTAATGAGTAAAAGATTT-AA
445 CTTATTTCGAATAAAATAATACAAATTTATTAATATTAA-A-AATTAATAAGTAAAA-ATTTAAA
*
470691 AAATAAATATGTTTACCAAACAAGTTC
507 AAATAAATATGTTTATCAAACAAGTTC
* * *
470718 TAATCA-TTATGGCTATTTGAGCAATTATTTATTTCAACAT-GATATGATCTTTTGTTTTCTCAT
1 AAAT-AGTTATGACTATTTGAGCAATTATTTATTTCAA-ATCGATATGA-CTTTTGTTTTGTCAT
* * ** * * **
470781 AAAATAATTATTTCTATTCATACAAGTTTATTTGAATTAAAATAATATTAATTAATTAATATTTT
63 AAAACAATTATTTCTATTCATACAAGCTTATTCAAAATAAAATAATACTAATTAATTAATATTCC
* * *
470846 GACAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTACCAAACAAGTTCAAATAGTCATTA
128 AAAAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTACCAAACAAGTTCAAATAGTCATGA
* * * * * *
470911 ATATTTCAATAATTATCTATTTCAAATCATTATGACCTTTTCTTTTCTAATAAAACACTTGTTTC
193 ATATTTGAATAATTATTTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTGTTTC
* *
470976 AATTCATATAAGCTTATTTGAAGTAAGATAATACTAATTTATTAATATTCCAAAAATTAATGAGT
258 AATTCATATAAGCTTATTT-AAATAAAATAA-ACTAATTTATTAATATTCCAAAAATTAAT-AGT
* * ** * *
471041 GAGAGCATTAAAAAAAGAACATGTTTACGGAATAAGTTCAAATAGTTATGACTATCTGAACAATT
320 AAGAG-ATTAAAAAAAGAACTTGTTTACCAAATAAGTTCAAATAATTATGACTATTTGAACAATT
* **
471106 ATCTATTTCAAAACATTATGACCTTTTGTTTTGTCATAAAACAATTGGCTTTGTTCATGCAAGCT
384 ATCTATTTCAAAACA-TATAACCTTTTGTTTTGTCATAAAACAATTGTTTTTGTTCAT-CAAGCT
** *
471171 TATTTCGAATAAAATAATTTAAATTTATTAATATTCCAAAAATTAATAAGTAAAATTTTAAAAAA
447 TATTTCGAATAAAATAATACAAATTTATTAATATT--AAAAATTAATAAGTAAAAATTTAAAAAA
* * *
471236 TAAATATGTTTTTCGAACATGTTC
510 TAAATATGTTTATCAAACAAGTTC
** * * * *
471260 AAATAGTTATGACTATTTGAAAAATTATCTATTTCAAATCGTTATGACCTTTTATTTGGTCATAA
1 AAATAGTTATGACTATTTGAGCAATTATTTATTTCAAATCGATATGA-CTTTTGTTTTGTCATAA
* * * * * ** * *
471325 ACCAATTGTTTCTAGTCATAAAAGCTTTTTCAAAATAAAATAGCACTAATTTATTAAAATTCCAA
65 AACAATTATTTCTATTCATACAAGCTTATTCAAAATAAAATAATACTAATTAATTAATATTCCAA
* * * * * *
471390 AAATTAATAAGTAAAAGATTTAAAAAATAAATCTATTTATCGAGCAAGTTCAAATAGTTAT--TT
130 AAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTACCAAACAAGTTCAAATAGTCATGAAT
* * * * *
471453 ATTTGAATAATTATTTATTTCAAATCGTTATGATCTTTTGTTTTGTCATAAAATAATTTTTTTCT
195 ATTTGAATAATTATTTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAA-TTGTTTCA
* * ** * * ** ** * ***
471518 GTTCATACAAAATTATTCAAAATAAAACAATTTTGTTTTATTAATCTTTTGAAAATT-A-A-TAA
259 ATTCATATAAGCTTATT-TAAATAAAATAA-ACTAATTTATTAATATTCCAAAAATTAATAGTAA
* *** * * *
471580 GAGATT---TAAA-AACTAAATAACC-----AGTTTAAATAGTTATGACTATTTGAACAATTATC
322 GAGATTAAAAAAAGAACTTGTTTACCAAATAAGTTCAAATAATTATGACTATTTGAACAATTATC
* * * * * *
471636 TATCTCAAATCATAATAATC-TTTATTTTGTCATACAACAATTGTTTCCT-TTCATACAAGCTTA
387 TATTTCAAAACAT-ATAACCTTTTGTTTTGTCATAAAACAATTGTTT-TTGTTCAT-CAAGCTTA
* * ** * *
471699 -TTCGGATTAAAATGATAGTAATTTAATAATATTTCAAAAATTAATAAG---AGATTTAAAAAAT
449 TTTC-GAATAAAATAATACAAATTTATTAATA-TT-AAAAATTAATAAGTAAAAATTTAAAAAAT
* *
471760 AAATATG-TTAGCCAAACTAGTTC
511 AAATATGTTTA-TCAAACAAGTTC
* * ** * *
471783 AAATAGTTAAGACTA--TCAG-AA-TA---A-TT---ATC--TATTTCATTTGTTTAGTCATAAA
1 AAATAGTTATGACTATTTGAGCAATTATTTATTTCAAATCGATATGACTTTTGTTTTGTCATAAA
* *** * *
471835 ATAATTATTTC-AGTTCATACAAGCTTATTTGGAATAAAATAATACTAATTTATTAATATTCAAA
66 ACAATTATTTCTA-TTCATACAAGCTTATTCAAAATAAAATAATACTAATTAATTAATATTCCAA
* * **** * * ** * * *
471899 AAATT-A-AAGCAAGAGATTTTTTTTTAA-AAATCTGTTTACTGAATAATTTTAAATAGAT-ATG
130 AAATTAATAAGTAAAAGA--TTTAAAAAATAAATATATTTACCAAACAAGTTCAAATAG-TCATG
* * * * * * * * * * *
471960 ACTACTTAAACAATTATCTGTTTTAAATTATTTTGTCATTTTGTTTTGTCATAAAACAATTGTTT
192 AATATTTGAATAATTATTTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTGTTT
* * * * * * * *
472025 CGATTAATAAAAACTTATATGAAATAAAATAATACTACTTTATTAATATTTCAAAAATTATTAAG
257 CAATTCATATAAGCTTAT-TTAAATAAAATAA-ACTAATTTATTAATATTCCAAAAATTAAT-AG
* * * ** * *
472090 CAAGAGATTTAAAAACTAA-AGCTAT-TTT-TCAAAGCAGTTCTAATAGTTATGACTATTTGAAC
319 TAAGAGA-TTAAAAA--AAGAACT-TGTTTACCAAATAAGTTCAAATAATTATGACTATTTGAAC
* * * * * * *
472152 AAATAT-TAATCTCAAATCATTATGATC-TTTGTTTTGTCATAAAATAATTATTTTT-TATCATA
380 AATTATCT-ATTTCAAAACA-TATAACCTTTTGTTTTGTCATAAAACAATTGTTTTTGT-TCAT-
* * ** * * *
472214 TAAGC-TAATTC-AGATAAAAATAATAGTAATTTAATAATATTTTGAAAATTAATAAGTAAGAGA
441 CAAGCTTATTTCGA-AT-AAAATAATACAAATTTATTAATA--TTAAAAATTAATAAGTAA-AAA
* * ** **
472277 TTTAAAAAAATAAATGTGTTT-GCCGATTAGTTC
501 TTT-AAAAAATAAATATGTTTATCAAACAAGTTC
* * * ** * * **
472310 AAATAGTTAAGATTATTAGAATAATTATCTATTTCAAATC-ATTATAACATTTTGTTTAATCATA
1 AAATAGTTATGACTATTTGAGCAATTATTTATTTCAAATCGA-TATGAC-TTTTGTTTTGTCATA
* * * * * * *
472374 AAATAATTGTTTC-AGTTCATACAATCTTATTCGAAAGAAAATAATACTAATTTATTAAT-TT-T
64 AAACAATTATTTCTA-TTCATACAAGCTTATTCAAAATAAAATAATACTAATTAATTAATATTCC
* * ** * * * * * * *
472436 GAAAGTTAATAAGTAGGATATTTGAAAAACTAAATTTGTTTATCGAACAAGTTCAAATAGTTATG
128 AAAAATTAATAAGTAAAAGATTT-AAAAAATAAATATATTTACCAAACAAGTTCAAATAGTCATG
* * * *
472501 ACTATTTGAACAATTATCTATTTAAAATCATT
192 AATATTTGAATAATTATTTATTTCAAATCATT
472533 GTGAATTTAA
Statistics
Matches: 1857, Mismatches: 389, Indels: 209
0.76 0.16 0.09
Matches are distributed among these distances:
507 8 0.00
508 26 0.01
509 123 0.07
510 48 0.03
512 4 0.00
513 6 0.00
514 2 0.00
515 2 0.00
516 1 0.00
517 1 0.00
518 1 0.00
519 8 0.00
520 2 0.00
521 3 0.00
522 8 0.00
523 154 0.08
524 4 0.00
525 3 0.00
526 71 0.04
527 77 0.04
528 13 0.01
529 3 0.00
530 2 0.00
531 6 0.00
532 95 0.05
533 73 0.04
534 95 0.05
535 15 0.01
536 118 0.06
537 6 0.00
538 155 0.08
539 16 0.01
540 59 0.03
541 182 0.10
542 456 0.25
543 9 0.00
544 2 0.00
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.40
Consensus pattern (533 bp):
AAATAGTTATGACTATTTGAGCAATTATTTATTTCAAATCGATATGACTTTTGTTTTGTCATAAA
ACAATTATTTCTATTCATACAAGCTTATTCAAAATAAAATAATACTAATTAATTAATATTCCAAA
AATTAATAAGTAAAAGATTTAAAAAATAAATATATTTACCAAACAAGTTCAAATAGTCATGAATA
TTTGAATAATTATTTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCAAT
TCATATAAGCTTATTTAAATAAAATAAACTAATTTATTAATATTCCAAAAATTAATAGTAAGAGA
TTAAAAAAAGAACTTGTTTACCAAATAAGTTCAAATAATTATGACTATTTGAACAATTATCTATT
TCAAAACATATAACCTTTTGTTTTGTCATAAAACAATTGTTTTTGTTCATCAAGCTTATTTCGAA
TAAAATAATACAAATTTATTAATATTAAAAATTAATAAGTAAAAATTTAAAAAATAAATATGTTT
ATCAAACAAGTTC
Found at i:471466 original size:16 final size:16
Alignment explanation
Indices: 471442--471472 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
471432 AGCAAGTTCA
*
471442 AATAGTTATTTATTTG
1 AATAATTATTTATTTG
471458 AATAATTATTTATTT
1 AATAATTATTTATTT
471473 CAAATCGTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (16 bp):
AATAATTATTTATTTG
Found at i:472702 original size:22 final size:22
Alignment explanation
Indices: 472675--472737 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 22
472665 TTAATTATTG
472675 TTATTAATTAATATTAGTTAAT-
1 TTATTAATTAATATTAG-TAATA
*
472697 TTATTAATTAGTAAATTAGTAATA
1 TTATTAATTA--ATATTAGTAATA
472721 TATAATTAATTAATATT
1 T-T-ATTAATTAATATT
472738 TAATTTAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
22 10 0.29
23 4 0.12
24 11 0.32
25 1 0.03
26 8 0.24
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (22 bp):
TTATTAATTAATATTAGTAATA
Found at i:472734 original size:15 final size:16
Alignment explanation
Indices: 472677--472736 Score: 54
Period size: 15 Copynumber: 3.8 Consensus size: 16
472667 AATTATTGTT
472677 ATTAATTAATATTAGTTA
1 ATTAATTAATA-TAG-TA
*
472695 ATTTATTAAT-TAGTAA
1 ATTAATTAATATAGT-A
*
472711 ATT-AGTAATATA-TA
1 ATTAATTAATATAGTA
472725 ATTAATTAATAT
1 ATTAATTAATAT
472737 TTAATTTAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
14 4 0.11
15 14 0.39
16 9 0.25
18 9 0.25
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (16 bp):
ATTAATTAATATAGTA
Found at i:472956 original size:13 final size:13
Alignment explanation
Indices: 472919--472962 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
472909 GATTAATAAT
*
472919 ATAATTTCATATTCC
1 ATAATTT-ATATT-A
*
472934 ATAATATATATTA
1 ATAATTTATATTA
472947 ATAATTTATATTA
1 ATAATTTATATTA
472960 ATA
1 ATA
472963 TATAGATTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 15 0.58
14 5 0.19
15 6 0.23
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (13 bp):
ATAATTTATATTA
Found at i:472965 original size:25 final size:28
Alignment explanation
Indices: 472919--472971 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 28
472909 GATTAATAAT
* *
472919 ATAATTTCATATTCCATAATATATATTA
1 ATAATTTCATATTCAATAATATAGATTA
472947 ATAATTT-ATATT-AAT-ATATAGATTA
1 ATAATTTCATATTCAATAATATAGATTA
472972 GTACGAGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 9 0.39
26 2 0.09
27 5 0.22
28 7 0.30
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (28 bp):
ATAATTTCATATTCAATAATATAGATTA
Found at i:473247 original size:19 final size:20
Alignment explanation
Indices: 473211--473248 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
473201 AAAAATTGTT
*
473211 AAATAATTAATATAATAATA
1 AAATAATTAAAATAATAATA
*
473231 AAAT-ATTAAAATTATAAT
1 AAATAATTAAAATAATAAT
473249 TAATTATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AAATAATTAAAATAATAATA
Found at i:473454 original size:17 final size:17
Alignment explanation
Indices: 473432--473475 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
473422 TATACATTAT
473432 ATTAATAATAACAAATA
1 ATTAATAATAACAAATA
* * *
473449 ATTAATTATAATATATA
1 ATTAATAATAACAAATA
473466 ATT-ATAATAA
1 ATTAATAATAA
473476 TAATTATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (17 bp):
ATTAATAATAACAAATA
Found at i:473461 original size:13 final size:13
Alignment explanation
Indices: 473445--473486 Score: 61
Period size: 12 Copynumber: 3.3 Consensus size: 13
473435 AATAATAACA
473445 AATAATTAATTAT
1 AATAATTAATTAT
473458 AAT-ATATAATTAT
1 AATAAT-TAATTAT
473471 AATAA-TAATTAT
1 AATAATTAATTAT
473483 AATA
1 AATA
473487 TTGGTTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 13 0.48
13 13 0.48
14 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AATAATTAATTAT
Found at i:473779 original size:38 final size:36
Alignment explanation
Indices: 473736--473820 Score: 95
Period size: 38 Copynumber: 2.3 Consensus size: 36
473726 ATTTGAAATA
473736 AATAAATTATTAA-TTAGTTAAA-TAATATTTATTATATT
1 AATAAATTATTAACTTA---AAATTAATATTTATTAT-TT
473774 AATAAATTAGTTAACTTAAAATTAATATTTATTATTT
1 AATAAATTA-TTAACTTAAAATTAATATTTATTATTT
*
473811 -ATAAAATATT
1 AATAAATTATT
473821 TAATAAATTA
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
35 2 0.05
36 7 0.16
37 5 0.12
38 22 0.51
39 4 0.09
40 3 0.07
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.48
Consensus pattern (36 bp):
AATAAATTATTAACTTAAAATTAATATTTATTATTT
Found at i:474398 original size:31 final size:31
Alignment explanation
Indices: 474337--474398 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
474327 TTTTTAACTT
**
474337 TATTAATCTATTAAATCAATTTTATTTATTA
1 TATTAATCTATTAAATCAATTTTACATATTA
474368 TATTAATCTA-TAAAT-AATATTATACATATTA
1 TATTAATCTATTAAATCAAT-TT-TACATATTA
474399 CAATAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 3 0.11
30 7 0.26
31 17 0.63
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (31 bp):
TATTAATCTATTAAATCAATTTTACATATTA
Found at i:474639 original size:20 final size:20
Alignment explanation
Indices: 474616--474653 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
474606 AATATTAATA
474616 AATA-TATGAGATTATTAACT
1 AATAGTATGA-ATTATTAACT
*
474636 AATAGTATTAATTATTAA
1 AATAGTATGAATTATTAA
474654 AGTAATTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (20 bp):
AATAGTATGAATTATTAACT
Found at i:475096 original size:27 final size:26
Alignment explanation
Indices: 475066--475118 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
475056 GTAAACACAT
475066 TATTA-ACAATATTTATATTATAATATA
1 TATTATACAAT-TTTAT-TTATAATATA
*
475093 TATTATTACTATTTTATTTATAATAT
1 TATTA-TACAATTTTATTTATAATAT
475119 TTAATAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 14 0.61
28 5 0.22
29 4 0.17
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (26 bp):
TATTATACAATTTTATTTATAATATA
Found at i:475131 original size:26 final size:27
Alignment explanation
Indices: 475102--475156 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
475092 ATATTATTAC
* *
475102 TATTTTATTTA-TAATATTTAATAAAT
1 TATTTTATTAATTAATAATTAATAAAT
475128 TA-TTTATTAATTAATAATTAATAAAT
1 TATTTTATTAATTAATAATTAATAAAT
475154 TAT
1 TAT
475157 ATAATAACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
TATTTTATTAATTAATAATTAATAAAT
Found at i:475390 original size:28 final size:28
Alignment explanation
Indices: 475320--475415 Score: 77
Period size: 28 Copynumber: 3.1 Consensus size: 28
475310 ATATAACTTG
*
475320 ATTAACTAATATTAATAATTATATAATTTAATT
1 ATTAA-TAAT-TTAATAATTAT-T--TTTAGTT
*
475353 ATGTAATAATTGTTTATAACTTATTTGTTA-TT
1 AT-TAATAA-T-TTAATAA-TTATTT-TTAGTT
475385 ATTAATAATTTAATAATTATTTTTAGTT
1 ATTAATAATTTAATAATTATTTTTAGTT
475413 ATT
1 ATT
475416 TGATAATTAT
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
27 3 0.05
28 11 0.20
29 6 0.11
30 1 0.02
31 6 0.11
32 5 0.09
33 8 0.15
34 11 0.20
35 4 0.07
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (28 bp):
ATTAATAATTTAATAATTATTTTTAGTT
Found at i:475404 original size:21 final size:21
Alignment explanation
Indices: 475380--475426 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
475370 AACTTATTTG
475380 TTATTATTAATAATTTAATAA
1 TTATTATTAATAATTTAATAA
* * * *
475401 TTATTTTTAGTTATTTGATAA
1 TTATTATTAATAATTTAATAA
475422 TTATT
1 TTATT
475427 CAAATATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (21 bp):
TTATTATTAATAATTTAATAA
Found at i:475721 original size:20 final size:20
Alignment explanation
Indices: 475688--475726 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
475678 AATTATTAAT
** *
475688 ATTATAATTTATATTATTAC
1 ATTATAATAAATATAATTAC
475708 ATTATAATAAATATAATTA
1 ATTATAATAAATATAATTA
475727 TGTTATATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTATAATAAATATAATTAC
Found at i:475739 original size:15 final size:15
Alignment explanation
Indices: 475708--475786 Score: 65
Period size: 15 Copynumber: 5.3 Consensus size: 15
475698 ATATTATTAC
* *
475708 ATTATAATAAATATA
1 ATTATAATATATTTA
**
475723 ATTATGTTATATTTA
1 ATTATAATATATTTA
475738 ATTATAATATATTTA
1 ATTATAATATATTTA
*
475753 A-TATAAATATAATTA
1 ATTAT-AATATATTTA
*
475768 A-TATTAATAT-TTCA
1 ATTA-TAATATATTTA
475782 ATTAT
1 ATTAT
475787 TTGACTATTA
Statistics
Matches: 52, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
14 7 0.13
15 44 0.85
16 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (15 bp):
ATTATAATATATTTA
Found at i:475879 original size:20 final size:21
Alignment explanation
Indices: 475854--475902 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
475844 TATTAATAAA
*
475854 ATAATATTA-TAATAATTATT
1 ATAATATAATTAATAATTATT
*
475874 ATAATA-AATTAGTAATTATT
1 ATAATATAATTAATAATTATT
475894 ATAATATAA
1 ATAATATAA
475903 ATTTAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 1 0.04
20 22 0.88
21 2 0.08
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
ATAATATAATTAATAATTATT
Found at i:475998 original size:13 final size:13
Alignment explanation
Indices: 475976--476020 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
475966 TCTATATTAG
475976 TAAT-ATATTAAA
1 TAATAATATTAAA
*
475988 TAATAATATTAAT
1 TAATAATATTAAA
476001 TATATAAT-TTAAA
1 TA-ATAATATTAAA
476014 T-ATAATA
1 TAATAATA
476021 CTATAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 5 0.18
12 4 0.14
13 14 0.50
14 5 0.18
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TAATAATATTAAA
Found at i:476141 original size:13 final size:13
Alignment explanation
Indices: 476123--476163 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
476113 ATATTTATAA
476123 ATTATACTAATAT
1 ATTATACTAATAT
476136 ATTATACT-ATAT
1 ATTATACTAATAT
476148 AATTATA-TAATAT
1 -ATTATACTAATAT
476161 ATT
1 ATT
476164 TATTATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 8 0.31
13 18 0.69
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (13 bp):
ATTATACTAATAT
Found at i:476166 original size:13 final size:13
Alignment explanation
Indices: 476124--476187 Score: 53
Period size: 13 Copynumber: 4.8 Consensus size: 13
476114 TATTTATAAA
476124 TTATACTAATATA-
1 TTATA-TAATATAT
*
476137 TTATACT-ATATAA
1 TTATA-TAATATAT
476150 TTATATAATATAT
1 TTATATAATATAT
*
476163 TTAT-TATTTATTAT
1 TTATATA-ATA-TAT
476177 TTATATAATAT
1 TTATATAATAT
476188 TAATAATTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
12 8 0.19
13 24 0.56
14 9 0.21
15 2 0.05
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (13 bp):
TTATATAATATAT
Found at i:476170 original size:7 final size:7
Alignment explanation
Indices: 476160--476240 Score: 53
Period size: 7 Copynumber: 11.6 Consensus size: 7
476150 TTATATAATA
476160 TATTTAT
1 TATTTAT
476167 TATTTAT
1 TATTTAT
476174 TATTTA-
1 TATTTAT
*
476180 TATAATAT
1 TAT-TTAT
* *
476188 TAATAAT
1 TATTTAT
476195 TA-TTAT
1 TATTTAT
476201 ATATTTAAGT
1 -TATTT-A-T
476211 TATTTA-
1 TATTTAT
*
476217 TAATTAT
1 TATTTAT
*
476224 TA-TAAT
1 TATTTAT
476230 TATTTAT
1 TATTTAT
476237 TATT
1 TATT
476241 ATTTTAATGA
Statistics
Matches: 58, Mismatches: 8, Indels: 16
0.71 0.10 0.20
Matches are distributed among these distances:
6 16 0.28
7 30 0.52
8 5 0.09
9 6 0.10
10 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (7 bp):
TATTTAT
Found at i:476173 original size:20 final size:20
Alignment explanation
Indices: 476107--476173 Score: 53
Period size: 25 Copynumber: 3.0 Consensus size: 20
476097 ATAATCTAAT
* * *
476107 TATAACATATTTATAAATTA
1 TATAATATATTTATTATTTA
476127 TACTAATATATTATACTATATAATTA
1 TA-TAATATATT-TA-T-TAT--TTA
476153 TATAATATATTTATTATTTA
1 TATAATATATTTATTATTTA
476173 T
1 T
476174 TATTTATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 12
0.72 0.06 0.23
Matches are distributed among these distances:
20 6 0.16
21 8 0.21
22 5 0.13
23 2 0.05
24 3 0.08
25 9 0.24
26 5 0.13
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (20 bp):
TATAATATATTTATTATTTA
Found at i:476182 original size:35 final size:36
Alignment explanation
Indices: 476143--476240 Score: 102
Period size: 35 Copynumber: 2.8 Consensus size: 36
476133 TATATTATAC
476143 TATATAATTATATAATATATTTATTATTT-A-TTATT
1 TATATAATTATATAATATATTTATTATTTAAGTTA-T
476178 TATATAA-TAT-TAATA-ATTATTATATATTTAAGTTAT
1 TATATAATTATATAATATA-T-TTAT-TATTTAAGTTAT
476214 T-TATAATTATTATAAT-TATTTATTATT
1 TATATAATTA-TATAATATATTTATTATT
476241 ATTTTAATGA
Statistics
Matches: 54, Mismatches: 0, Indels: 18
0.75 0.00 0.25
Matches are distributed among these distances:
32 1 0.02
33 6 0.11
34 7 0.13
35 21 0.39
36 9 0.17
37 5 0.09
38 5 0.09
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (36 bp):
TATATAATTATATAATATATTTATTATTTAAGTTAT
Found at i:476200 original size:27 final size:28
Alignment explanation
Indices: 476143--476207 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 28
476133 TATATTATAC
* * *
476143 TATATAATTATATAATATATTTATTATT
1 TATATATTTATATAATATAATAATTATT
476171 TAT-TATTTATATAATATTAATAATTA-T
1 TATATATTTATATAATA-TAATAATTATT
476198 TATATATTTA
1 TATATATTTA
476208 AGTTATTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 16 0.50
28 16 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
TATATATTTATATAATATAATAATTATT
Found at i:476216 original size:9 final size:8
Alignment explanation
Indices: 476147--476255 Score: 51
Period size: 9 Copynumber: 12.4 Consensus size: 8
476137 TTATACTATA
*
476147 TAATTATA
1 TAATTATT
476155 TAATATATT
1 TAAT-TATT
476164 T-ATTATT
1 TAATTATT
476171 T-ATTATT
1 TAATTATT
*
476178 TATATAATAT
1 TA-ATTAT-T
*
476188 TAATAATT
1 TAATTATT
*
476196 ATTATATATT
1 -TAAT-TATT
476206 TAAGTTATTT
1 TAA-TTA-TT
476216 ATAATTATT
1 -TAATTATT
476225 ATAATTATT
1 -TAATTATT
476234 TATTATTATTT
1 TA--ATTA-TT
*
476245 TAATGATT
1 TAATTATT
476253 TAA
1 TAA
476256 AATACATCAT
Statistics
Matches: 83, Mismatches: 6, Indels: 24
0.73 0.05 0.21
Matches are distributed among these distances:
7 12 0.14
8 14 0.17
9 34 0.41
10 16 0.19
11 7 0.08
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (8 bp):
TAATTATT
Found at i:476756 original size:13 final size:13
Alignment explanation
Indices: 476715--476784 Score: 58
Period size: 13 Copynumber: 5.4 Consensus size: 13
476705 TATAACCTTT
476715 TATTA-ATTAAT-
1 TATTATATTAATA
*
476726 TATTCAAATTAATA
1 TATT-ATATTAATA
476740 -ATTATATTAATA
1 TATTATATTAATA
476752 TATTATAATT-ATAA
1 TATTAT-ATTAAT-A
*
476766 TATAATATTAAATA
1 TATTATATT-AATA
476780 TATTA
1 TATTA
476785 ATAAAATATT
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
11 4 0.08
12 9 0.19
13 19 0.40
14 14 0.29
15 2 0.04
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (13 bp):
TATTATATTAATA
Found at i:476761 original size:19 final size:19
Alignment explanation
Indices: 476737--476801 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
476727 ATTCAAATTA
476737 ATAATTATATTAATATATT
1 ATAATTATATTAATATATT
*
476756 ATAATTATAAT-ATAATATT
1 ATAATTATATTAAT-ATATT
* *
476775 A-AA-TATATTAATAAAAT
1 ATAATTATATTAATATATT
476792 ATTAATTATA
1 A-TAATTATA
476802 ATTTATCATA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
17 9 0.24
18 6 0.16
19 18 0.49
20 4 0.11
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATAATTATATTAATATATT
Found at i:476862 original size:13 final size:13
Alignment explanation
Indices: 476715--476864 Score: 52
Period size: 13 Copynumber: 11.2 Consensus size: 13
476705 TATAACCTTT
476715 TATTAATTAAT--
1 TATTAATTAATAA
476726 TATTCAAATTAAT-A
1 TATT--AATTAATAA
476740 -ATTATATTAAT-A
1 TATTA-ATTAATAA
476752 TATTATAATT-ATAA
1 TA-T-TAATTAATAA
*
476766 TATAATATTAA-ATA
1 TATTA-ATTAATA-A
476780 TATTAA-TAA-AA
1 TATTAATTAATAA
476791 TATTAATT-ATAA
1 TATTAATTAATAA
476803 T-TTATCATATAATTAA
1 TATTA--AT-TAA-TAA
* *
476819 TATTATTTGATAA
1 TATTAATTAATAA
476832 TAATTAATTATACTATAA
1 T-ATTAA-T-TA--ATAA
476850 TATTAATTAATAA
1 TATTAATTAATAA
476863 TA
1 TA
476865 ATTATAATCT
Statistics
Matches: 109, Mismatches: 6, Indels: 46
0.68 0.04 0.29
Matches are distributed among these distances:
11 16 0.15
12 16 0.15
13 31 0.28
14 20 0.18
15 7 0.06
16 6 0.06
17 8 0.07
18 5 0.05
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (13 bp):
TATTAATTAATAA
Found at i:476994 original size:3 final size:3
Alignment explanation
Indices: 476986--477079 Score: 56
Period size: 3 Copynumber: 32.7 Consensus size: 3
476976 TAATTATAAC
* * *
476986 TAT TAT TAT AAT TATT TAT AAT TAT TA- TAT TAT TAT TAA TA- TAT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
477030 TAA TA- TAT TAT T-T GAT AAA TAT TAT TA- TAT TAT TA- TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
*
477072 TAA TAT TA
1 TAT TAT TA
477080 ATAAAAATAT
Statistics
Matches: 70, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
2 11 0.16
3 54 0.77
4 5 0.07
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:477005 original size:22 final size:20
Alignment explanation
Indices: 476979--477079 Score: 86
Period size: 22 Copynumber: 5.0 Consensus size: 20
476969 ATGGTACTAA
476979 TTATAACTATTATTATAATTAT
1 TTATAA-TATTATTAT-ATTAT
477001 TTATAATTATTA-TATTATTAT
1 TTATAA-TATTATTA-TATTAT
* *
477022 TAAT-ATATTAATATATTAT
1 TTATAATATTATTATATTAT
477041 TTGATAAATATTATTATATTA-
1 TT-AT-AATATTATTATATTAT
477062 TTAT-AT-TTATTAATATTA
1 TTATAATATTATT-ATATTA
477080 ATAAAAATAT
Statistics
Matches: 69, Mismatches: 4, Indels: 16
0.78 0.04 0.18
Matches are distributed among these distances:
17 5 0.07
18 8 0.12
19 12 0.17
20 7 0.10
21 12 0.17
22 25 0.36
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (20 bp):
TTATAATATTATTATATTAT
Found at i:477022 original size:30 final size:31
Alignment explanation
Indices: 476986--477079 Score: 81
Period size: 30 Copynumber: 3.1 Consensus size: 31
476976 TAATTATAAC
476986 TATTATTATAATTATTTATAATTATT-ATAT
1 TATTATTATAATTATTTATAATTATTAATAT
* * *
477016 TATTA-T-TAATATATTAATATATTATTTGATAAA
1 TATTATTATAAT-TATTTATA-ATTA-TTAAT-AT
*
477049 TATTATTAT-ATTA-TTATATTTATTAATAT
1 TATTATTATAATTATTTATAATTATTAATAT
477078 TA
1 TA
477080 ATAAAAATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
28 4 0.08
29 11 0.22
30 13 0.25
31 5 0.10
32 6 0.12
33 8 0.16
34 3 0.06
35 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (31 bp):
TATTATTATAATTATTTATAATTATTAATAT
Found at i:477113 original size:14 final size:14
Alignment explanation
Indices: 477096--477142 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 14
477086 ATATTAATGC
*
477096 TAATTTATTATAAT
1 TAATTAATTATAAT
477110 TAATTAATTATAAT
1 TAATTAATTATAAT
477124 TATTATTAATTTATAAT
1 TA--ATTAA-TTATAAT
477141 TA
1 TA
477143 TAAATTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 15 0.52
16 5 0.17
17 9 0.31
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TAATTAATTATAAT
Found at i:477240 original size:59 final size:59
Alignment explanation
Indices: 477177--477296 Score: 138
Period size: 59 Copynumber: 2.0 Consensus size: 59
477167 ATATATGAAA
*
477177 TATAAT-ATATTTAATTATAATATTATA-TAG-TTATTAAAAAATTAATAATTATGACTATT
1 TATAATAATAGTT-ATTATAATATTATATTAGCTTATT-AAAAATTAATAATTAT-ACTATT
* * * * *
477236 TATAATAATAGTTATTATATTCTTATATTAGCTTATTTAATATTAATAATTATATTATT
1 TATAATAATAGTTATTATAATATTATATTAGCTTATTAAAAATTAATAATTATACTATT
477295 TA
1 TA
477297 ATTAATTAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
59 25 0.48
60 22 0.42
61 5 0.10
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (59 bp):
TATAATAATAGTTATTATAATATTATATTAGCTTATTAAAAATTAATAATTATACTATT
Found at i:477500 original size:18 final size:19
Alignment explanation
Indices: 477474--477524 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
477464 TTTGTTACTG
*
477474 TAAATTTATATAAATA-AT
1 TAAAATTATATAAATATAT
*
477492 TAAAATTAT-TAATTATAT
1 TAAAATTATATAAATATAT
*
477510 TAATATTA-ATAAATA
1 TAAAATTATATAAATA
477525 GTATAATTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 5 0.19
18 22 0.81
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAAATTATATAAATATAT
Found at i:478513 original size:44 final size:42
Alignment explanation
Indices: 478434--478515 Score: 112
Period size: 44 Copynumber: 1.9 Consensus size: 42
478424 CTATTTAAAT
*
478434 AATATAATGTTTAAATTATTTATTATAATATTATAATAATAC
1 AATATAATGTTTAAATTATTAATTATAATATTATAATAATAC
*
478476 AATATAATTTATTAAATTATTAAATTATAACT-TTATAATA
1 AATATAATGT-TTAAATTATT-AATTATAA-TATTATAATA
478516 TATTAGTCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
42 9 0.26
43 10 0.29
44 15 0.43
45 1 0.03
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (42 bp):
AATATAATGTTTAAATTATTAATTATAATATTATAATAATAC
Found at i:480358 original size:361 final size:356
Alignment explanation
Indices: 479077--481962 Score: 1808
Period size: 361 Copynumber: 8.1 Consensus size: 356
479067 ATTTATATTA
* * * * * ** *
479077 AAATAGTTATGACTATTTGAACAATTGTATATGTCAAATCATTATAACCTTTAATTATGTCATAA
1 AAATA-TTATGACTATTTGAACAATTATTTATTTCAAATGA-TATGACCTTTTGTTTTGTCATAA
* * * ** *
479142 AATAATTATTTTTGTTTATACAAGCTTATTCAAAATAAAACAATACTAATCTAA-TAATATTCCA
64 AATAATTGTTTCTGTTCATACAAGCTTATT-TGAATAAAATAATACTAAT-TAATTAATATTCCA
* ** * * * * *
479206 AAAATTAATAACTAAGGGATTTAAAAAATAAATTTTTTTGCCGAACCAA-TTCAAATAGTTAAGA
127 AAAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTACC-AAACAAGTTCAAATAGTTATGA
* * * * *
479270 CTATATGAACAATTATTTATTTCAAATCGTTATGACATTTT-TTCTTGTCATAAAACAATT-TTC
191 CTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTT-TTGTAATAAAACAATTGTT-
* * * * *
479333 TCAATTCAAACT-AGCTTATTTAAATAAAATAA-AATGAATTTATTAATATTTCAAAAAATAATA
254 TCTATTC-ATCTAAGCTTATTTGAATAAAATAATACT-AATTTATTAATA-TTCAAAAATTAATA
* * * * *
479396 GGTAAAAGATTTAAAAAATAATTTTGTTTACCTAACTAGTTC
316 AGTAAAAGATTT-AAAAATAAATATGTTTACCAAACAAGTTC
* ** * * * * *
479438 AAAAAATTAT-ACTATTTGAACAATTATAGATTGCAAATCAATATTACTTTTTGTTTTGTCATAC
1 -AAATATTATGACTATTTGAACAATTATTTATTTCAAAT-GATATGACCTTTTGTTTTGTCATAA
* * * * * * *
479502 AACAAATGTTTTTGTTCATATAAGTTTATTTGGAATAAAGTAATACTAATCT-ATTAATATTTCA
64 AATAATTGTTTCTGTTCATACAAGCTTATTT-GAATAAAATAATACTAAT-TAATTAATATTCCA
** * * ** * *
479566 AAAATTAATAAGT---A-ATTTGGACAATAAATCTACGTATCAAACTAGTTCAAATAGTTATGAC
127 AAAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTACCAAACAAGTTCAAATAGTTATGAC
* * * * **
479627 TATTTGAGCAATTATTTATTTCAAATCA-ATATGACATTTTGTTTTGTTGTAAAACAATTGTTTC
192 TATTTGAACAATTATCTATTTCAAAT-AGTTATGACCTTTTGTTTTGTAATAAAACAATTGTTTC
* ** * *
479691 TATTCATGC-AAGCTTATTTGCATTAAAATAATACTAATTTATTAATATTTTGACAATTAGTAAG
256 TATTCAT-CTAAGCTTATTTG-AATAAAATAATACTAATTTATTAATA-TTCAAAAATTAATAAG
* ** * * *
479755 TAAAAAATTT--TTA-AAATATGTTTACCACACTAGATC
318 TAAAAGATTTAAAAATAAATATGTTTACCAAACAAGTTC
* * * * *
479791 AAATAATCATGACAATTTGAATAATTATTTATTTCAAATCATTATGACCTTTTGATTTGTCATAA
1 AAAT-ATTATGACTATTTGAACAATTATTTATTTCAAATGA-TATGACCTTTTGTTTTGTCATAA
* * * * * ** * * *
479856 AAGAGTTGTTTCAGCTCATATAAGCTTATTCAAAATAAAATAAGACTAATTTATTAATAATCCAA
64 AATAATTGTTTCTGTTCATACAAGCTTATT-TGAATAAAATAATACTAATTAATTAATATTCCAA
* * * * * * * * * *
479921 AAATTAATAA-TAAAGAGATTTAAAAAATGACTTTGTTTACTAAACAAATTTAAATAATTAGGAT
128 AAATTAATAAGTAAA-AGATTTAAAAAATAAATATATTTACCAAACAAGTTCAAATAGTTATGAC
* * * * * * *
479985 TGTTTGAATAATTATCTATTTGAAATAGCTATAACCTTTTGTTTTGTAATAAAAGAATTTTTTCT
192 TATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTAATAAAACAATTGTTTCT
* * *
480050 GTTCATCTAAGCTTATTTTGAATAAAATAATACAAATTTATTAATATT-AAGACAATTAATGAGT
257 ATTCATCTAAGCTTA-TTTGAATAAAATAATACTAATTTATTAATATTCAA-A-AATTAATAAGT
480114 AAAAGATTTAAAAATAAATATGTTTACCAAACAAGTTC
319 AAAAGATTTAAAAATAAATATGTTTACCAAACAAGTTC
* * * * *
480152 TAATCATTATGGCTATTTGAGCAATTATTTATTTCAACATGATATGATCTTTTGTTTTCTCATAA
1 AAAT-ATTATGACTATTTGAACAATTATTTATTTCAA-ATGATATGACCTTTTGTTTTGTCATAA
* * * * ***
480217 AATAATTATTTCTATTCATACAAGTTTATTTGAATTAAAATAATATTAATTAATTAATATTTTGA
64 AATAATTGTTTCTGTTCATACAAGCTTATTTGAA-TAAAATAATACTAATTAATTAATATTCCAA
* * * *
480282 CAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTACCAAACAAGTTCAAATAGTCATTAAT
128 AAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTACCAAACAAGTTCAAATAGTTATGACT
* * * * * *
480347 ATTTCAATAATTATCTATTTCAAATCA-TTATGACCTTTTCTTTTCTAATAAAACACTTGTTTCA
193 ATTTGAACAATTATCTATTTCAAAT-AGTTATGACCTTTTGTTTTGTAATAAAACAATTGTTTCT
* * * *
480411 ATTCATATAAGCTTATTTGAAGTAAGATAATACTAATTTATTAATATTCCAAAAATTAATGAGTG
257 ATTCATCTAAGCTTATTTGAA-TAAAATAATACTAATTTATTAATATT-CAAAAATTAATAAGTA
* * * ** *
480476 AGAGCA-TTAAAAAAAGAACATGTTTACGGAATAAGTTC
320 AAAG-ATTTAAAAATA-AATATGTTTACCAAACAAGTTC
* * **
480514 AAATAGTTATGACTATCTGAACAATTATCTATTTCAAAACATTATGACCTTTTGTTTTGTCATAA
1 AAATA-TTATGACTATTTGAACAATTATTTATTTCAAATGA-TATGACCTTTTGTTTTGTCATAA
* * * * *
480579 AACAATTGGCTT-TGTTCATGCAAGCTTATTTCGAATAAAATAAT-TTAAATTTATTAATATTCC
64 AATAATT-GTTTCTGTTCATACAAGCTTATTT-GAATAAAATAATACT-AATTAATTAATATTCC
* * ** * *
480642 AAAAATTAATAAGTAAAA-TTTTAAAAAATAAATATGTTTTTCGAACATGTTCAAATAGTTATGA
126 AAAAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTACCAAACAAGTTCAAATAGTTATGA
* * * * * *
480706 CTATTTGAAAAATTATCTATTTCAAATCGTTATGACCTTTTATTTGGTCATAAACCAATTGTTTC
191 CTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTAATAAAACAATTGTTTC
* ** * ** *
480771 TAGTCATAAAAGCTT-TTTCAAAATAAAATAGCACTAATTTATTAAAATTCCAAAAATTAATAAG
256 TATTCATCTAAGCTTATTT--GAATAAAATAATACTAATTTATTAATATT-CAAAAATTAATAAG
* * * * *
480835 TAAAAGATTTAAAAAATAAATCTATTTATCGAGCAAGTTC
318 TAAAAGATTT-AAAAATAAATATGTTTACCAAACAAGTTC
* * * *
480875 AAATAGTTAT--TTATTTGAATAATTATTTATTTCAAATCGTTATGATCTTTTGTTTTGTCATAA
1 AAATA-TTATGACTATTTGAACAATTATTTATTTCAAAT-GATATGACCTTTTGTTTTGTCATAA
* ** ** * ** ** * * ***
480938 AATAATTTTTTTCTGTTCATACAAAATTATTCAAAATAAAACAATTTTGTTTTATTAATCTTTTG
64 AATAA-TTGTTTCTGTTCATACAAGCTTATT-TGAATAAAATAATACTAATTAATTAATATTCCA
* *
481003 AAAATTAATAAG----AGATTTAAAAACT-AA-ATA---A-C---C-AGTTTAAATAGTTATGAC
127 AAAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTACCAAACAAGTTCAAATAGTTATGAC
* * * * * * *
481054 TATTTGAACAATTATCTATCTCAAATCA-TAATAATC-TTTATTTTGTCATACAACAATTGTTTC
192 TATTTGAACAATTATCTATTTCAAAT-AGTTATGACCTTTTGTTTTGTAATAAAACAATTGTTT-
* * * * *
481117 CT-TTCATAC-AAGCTTATTCGGATTAAAATGATAGTAATTTAATAATATTTCAAAAATTAATAA
255 CTATTCAT-CTAAGCTTATT-TGAATAAAATAATACTAATTTATTAATA-TTCAAAAATTAATAA
*
481180 G----AGATTTAAAAAATAAATATG-TTAGCCAAACTAGTTC
317 GTAAAAGATTT-AAAAATAAATATGTTTA-CCAAACAAGTTC
* ** * * *
481217 AAATAGTTAAGACTATCAGAATAATTATCTATTTC----------A---TTTGTTTAGTCATAAA
1 AAATA-TTATGACTATTTGAACAATTATTTATTTCAAATGATATGACCTTTTGTTTTGTCATAAA
* * * *
481269 ATAATTATTTCAGTTCATACAAGCTTATTTGGAATAAAATAATACTAATTTATTAATATTCAAAA
65 ATAATTGTTTCTGTTCATACAAGCTTATTT-GAATAAAATAATACTAATTAATTAATATTCCAAA
* * **** * * ** * * * *
481334 AATT-A-AAGCAAGAGATTTTTTTTTAA-AAATCTGTTTACTGAATAATTTTAAATAGATATGAC
129 AATTAATAAGTAAAAGA--TTTAAAAAATAAATATATTTACCAAACAAGTTCAAATAGTTATGAC
* * * * * * * *
481396 TACTTAAACAATTATCTGTTTTAAATTA-TTTTGTCATTTTGTTTTGTCATAAAACAATTGTTTC
192 TATTTGAACAATTATCTATTTCAAA-TAGTTATGACCTTTTGTTTTGTAATAAAACAATTGTTTC
* * ** * * * * *
481460 GATTAATAAAAACTTATATGAAATAAAATAATACTACTTTATTAATATTTCAAAAATTATTAAGC
256 TATTCATCTAAGCTTATTTG-AATAAAATAATACTAATTTATTAATA-TTCAAAAATTAATAAGT
* *
481525 AAGAGATTTAAAAACTAAAGCTAT-TTT-TCAAAGC-AGTTC
319 AAAAGATTTAAAAA-TAAA--TATGTTTACCAAA-CAAGTTC
* * * * * *
481564 TAATAGTTATGACTATTTGAACAAATATTAATCTCAAATCATTATGATC-TTTGTTTTGTCATAA
1 AAATA-TTATGACTATTTGAACAATTATTTATTTCAAATGA-TATGACCTTTTGTTTTGTCATAA
* * * * * * *
481628 AATAATTATTT-TTTATCATATAAGC-TAATTCAGATAAAAATAATAGTAATTTAA-TAATATTT
64 AATAATTGTTTCTGT-TCATACAAGCTTATTTGA-AT-AAAATAATACTAA-TTAATTAATATTC
** * * * * * ** *
481690 TGAAAATTAATAAGTAAGAGATTTAAAAAAATAAATGTGTTTGCC-GATTAGTTCAAATAGTTAA
125 CAAAAATTAATAAGTAAAAGATTT-AAAAAATAAATATATTTACCAAACAAGTTCAAATAGTTAT
* * * * * ** * *
481754 GATTATTAGAATAATTATCTATTTCAAATCA-TTATAACATTTTGTTTAATCATAAAATAATTGT
189 GACTATTTGAACAATTATCTATTTCAAAT-AGTTATGACCTTTTGTTTTGTAATAAAACAATTGT
* * * ** *
481818 TTC-AGTTCATAC-AATCTTATTCGAAAGAAAATAATACTAATTTATTAAT-TTTGAAAGTTAAT
253 TTCTA-TTCAT-CTAAGCTTATTTG-AATAAAATAATACTAATTTATTAATATTCAAAAATTAAT
** * * * *
481880 AAGTAGGATATTTGAAAAACTAAATTTGTTTATCGAACAAGTTC
315 AAGTAAAAGATTT-AAAAA-TAAATATGTTTACCAAACAAGTTC
* *
481924 AAATAGTTATGACTATTTGAACAATTATCTATTTAAAAT
1 AAATA-TTATGACTATTTGAACAATTATTTATTTCAAAT
481963 CATTGTGAAT
Statistics
Matches: 1971, Mismatches: 431, Indels: 246
0.74 0.16 0.09
Matches are distributed among these distances:
327 3 0.00
328 1 0.00
329 49 0.02
330 19 0.01
331 3 0.00
333 7 0.00
334 1 0.00
337 1 0.00
341 3 0.00
342 76 0.04
343 73 0.04
344 19 0.01
346 71 0.04
347 96 0.05
348 2 0.00
349 5 0.00
351 1 0.00
352 3 0.00
353 25 0.01
354 102 0.05
355 7 0.00
356 99 0.05
357 59 0.03
358 140 0.07
359 85 0.04
360 282 0.14
361 562 0.29
362 170 0.09
363 7 0.00
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.40
Consensus pattern (356 bp):
AAATATTATGACTATTTGAACAATTATTTATTTCAAATGATATGACCTTTTGTTTTGTCATAAAA
TAATTGTTTCTGTTCATACAAGCTTATTTGAATAAAATAATACTAATTAATTAATATTCCAAAAA
TTAATAAGTAAAAGATTTAAAAAATAAATATATTTACCAAACAAGTTCAAATAGTTATGACTATT
TGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTAATAAAACAATTGTTTCTATTC
ATCTAAGCTTATTTGAATAAAATAATACTAATTTATTAATATTCAAAAATTAATAAGTAAAAGAT
TTAAAAATAAATATGTTTACCAAACAAGTTC
Found at i:480502 original size:542 final size:539
Alignment explanation
Indices: 479077--481966 Score: 1631
Period size: 542 Copynumber: 5.4 Consensus size: 539
479067 ATTTATATTA
* * * * * ** *
479077 AAATAGTTATGACTATTTGAACAATTGTATATGTCAAATC-ATTATAACCTTTAATTATGTCATA
1 AAATAGTTATGACTATTTGAGCAATTATTTATTTCAAATCGA-TATGA-CTTTTGTTTTGTCATA
* * * * * * ** * * * * ***
479141 AAATAATTATTTTTGTTTATACAAGCTTATTCAAAATAAAACAATACTAATCTAATAATATTCCA
64 AAACAATTGTTTCTATTCATACAAGTTTATTTGAATTAAAATAATACTAATTTATTAATATTTTG
* * ** * * * * * **
479206 AAAATTAATAACTAAGGGATTTAAAAAATAAATTTTTTTGCCGAACCAA-TTCAAATAGTTAAGA
129 ACAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTACC-AAACAAGTTCAAATAGTCATTA
* * * * * *
479270 CTATATGAACAATTATTTATTTCAAATCGTTATGACATTTT-TTCTTGTCATAAAACAATT-TTC
193 ATATTTGAATAATTATTTATTTCAAATCATTATGACCTTTTGTT-TTGTCATAAAACACTTGTT-
* * * * * * *
479333 TCAATTCAAACT-AGCTTATT-TAAATAAAATAA-AATGAATTTATTAATATTTCAAAAAATAAT
256 TCAACTCATA-TAAGCTTATTCAAAATAAAATAAGACT-AATTTATTAATAATCCAAAAATTAAT
* * * ** * * * * *
479395 AGGTAAA-AGATTTAAAAAATA-ATTTTGTTTACCTAACTAGTTCAAAAAATTA-TACTATTTGA
319 A-ATAAAGAGATTTAAAAAA-AGACTATGTTTACGAAACAAATTCAAATAATTAGGACTATCTGA
** * * * * * * * ** *
479457 ACAATTATAGATTGCAAATCAATATTACTTTTTGTTTTGTCATACAACAAATGTTTTTGTTCATA
382 ACAATTATCTATTTCAAAAC-ATATAACCTTTTGTTTTGTAATAAAACAATTGGCTTTGTTCATG
* * * * * *
479522 TAAGTTTATTTGGAATAAAGTAATACTAATCTATTAATATTTCAAAAATTAATAAGT---AATTT
446 CAAGCTTATTTCGAATAAAATAATACAAATTTATTAATA-TTCAAAAATTAATAAGTAAAAATTT
** * * *** * *
479584 GGACAATAAATCTACGTATCAAACTAGTTC
510 AAAAAATAAATATGTTTACCAAACAAGTTC
* **
479614 AAATAGTTATGACTATTTGAGCAATTATTTATTTCAAATCAATATGACATTTTGTTTTGTTGTAA
1 AAATAGTTATGACTATTTGAGCAATTATTTATTTCAAATCGATATGAC-TTTTGTTTTGTCATAA
* * *
479679 AACAATTGTTTCTATTCATGCAAGCTTATTTGCATTAAAATAATACTAATTTATTAATATTTTGA
65 AACAATTGTTTCTATTCATACAAGTTTATTTGAATTAAAATAATACTAATTTATTAATATTTTGA
* * ** * * * * * *
479744 CAATTAGTAAGTAAAAAATTT---TTA-AAATATGTTTACCACACTAGATCAAATAATCATGACA
130 CAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTACCAAACAAGTTCAAATAGTCATTA-A
* * *
479805 -ATTTGAATAATTATTTATTTCAAATCATTATGACCTTTTGATTTGTCATAAAAGAGTTGTTTCA
194 TATTTGAATAATTATTTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACACTTGTTTCA
*
479869 GCTCATATAAGCTTATTCAAAATAAAATAAGACTAATTTATTAATAATCCAAAAATTAATAATAA
259 ACTCATATAAGCTTATTCAAAATAAAATAAGACTAATTTATTAATAATCCAAAAATTAATAATAA
* * * * * * * *
479934 AGAGATTTAAAAAATGACTTTGTTTACTAAACAAATTTAAATAATTAGGATTGTTTGAATAATTA
324 AGAGATTTAAAAAAAGACTATGTTTACGAAACAAATTCAAATAATTAGGACTATCTGAACAATTA
* * **
479999 TCTATTTGAAATAGC-TATAACCTTTTGTTTTGTAATAAAAGAATT-TTTTCTGTTCAT-CTAAG
389 TCTATTTCAAA-A-CATATAACCTTTTGTTTTGTAATAAAACAATTGGCTT-TGTTCATGC-AAG
* *
480061 CTTATTTTGAATAAAATAATACAAATTTATTAATATT-AAGACAATTAATGAGTAAAAGATTT-A
450 CTTATTTCGAATAAAATAATACAAATTTATTAATATTCAA-A-AATTAATAAGTAAAA-ATTTAA
480124 AAAATAAATATGTTTACCAAACAAGTTC
512 AAAATAAATATGTTTACCAAACAAGTTC
* * *
480152 TAATCA-TTATGGCTATTTGAGCAATTATTTATTTCAACAT-GATATGATCTTTTGTTTTCTCAT
1 AAAT-AGTTATGACTATTTGAGCAATTATTTATTTCAA-ATCGATATGA-CTTTTGTTTTGTCAT
* * * *
480215 AAAATAATTATTTCTATTCATACAAGTTTATTTGAATTAAAATAATATTAATTAATTAATATTTT
63 AAAACAATTGTTTCTATTCATACAAGTTTATTTGAATTAAAATAATACTAATTTATTAATATTTT
480280 GACAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTACCAAACAAGTTCAAATAGTCATTA
128 GACAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTACCAAACAAGTTCAAATAGTCATTA
* * * * *
480345 ATATTTCAATAATTATCTATTTCAAATCATTATGACCTTTTCTTTTCTAATAAAACACTTGTTTC
193 ATATTTGAATAATTATTTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACACTTGTTTC
* ** * * * * *
480410 AATTCATATAAGCTTATTTGAAGTAAGATAATACTAATTTATTAATATTCCAAAAATTAATGAGT
258 AACTCATATAAGCTTATTCAAAATAAAATAAGACTAATTTATTAATAATCCAAAAATTAAT-AAT
* * * * * *
480475 -GAGAGCA-TTAAAAAAAGAAC-ATGTTTACGGAATAAGTTCAAATAGTTATGACTATCTGAACA
322 AAAGAG-ATTTAAAAAAAG-ACTATGTTTACGAAACAAATTCAAATAATTAGGACTATCTGAACA
* *
480537 ATTATCTATTTCAAAACATTATGACCTTTTGTTTTGTCATAAAACAATTGGCTTTGTTCATGCAA
385 ATTATCTATTTCAAAACA-TATAACCTTTTGTTTTGTAATAAAACAATTGGCTTTGTTCATGCAA
** *
480602 GCTTATTTCGAATAAAATAATTTAAATTTATTAATATTCCAAAAATTAATAAGTAAAATTTTAAA
449 GCTTATTTCGAATAAAATAATACAAATTTATTAATATT-CAAAAATTAATAAGTAAAAATTTAAA
** * *
480667 AAATAAATATGTTTTTCGAACATGTTC
513 AAATAAATATGTTTACCAAACAAGTTC
** * * * *
480694 AAATAGTTATGACTATTTGAAAAATTATCTATTTCAAATCGTTATGACCTTTTATTTGGTCATAA
1 AAATAGTTATGACTATTTGAGCAATTATTTATTTCAAATCGATATGA-CTTTTGTTTTGTCATAA
* * * ** * ** * ***
480759 ACCAATTGTTTCTAGTCATAAAAGCTTT-TTCAAAATAAAATAGCACTAATTTATTAAAATTCCA
65 AACAATTGTTTCTATTCATACAAG-TTTATTTGAATTAAAATAATACTAATTTATTAATATTTTG
* * * * * *
480823 AAAATTAATAAGTAAAAGATTTAAAAAATAAATCTATTTATCGAGCAAGTTCAAATAGTTATT--
129 ACAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTACCAAACAAGTTCAAATAGTCATTAA
* * * * *
480886 TATTTGAATAATTATTTATTTCAAATCGTTATGATCTTTTGTTTTGTCATAAAATAATTTTTTTC
194 TATTTGAATAATTATTTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAA-CACTTGTTTC
*** * ** * *** ** ** ***
480951 TGTTCATACAAAATTATTCAAAATAAAACAATTTTGTTTTATTAATCTTTTGAAAA-T--TAAT-
258 AACTCATATAAGCTTATTCAAAATAAAATAAGACTAATTTATTAATAATCCAAAAATTAATAATA
* * * * * *
481012 AAGAGATTT---AAAA-ACTA-----A--ATAACCAGTTTAAATAGTTATGACTATTTGAACAAT
323 AAGAGATTTAAAAAAAGACTATGTTTACGA-AACAAATTCAAATAATTAGGACTATCTGAACAAT
* * * * * * * *
481066 TATCTATCTCAAATCATAATAATC-TTTATTTTGTCATACAACAATT-G-TTTCCTTTCATACAA
387 TATCTATTTCAAAACAT-ATAACCTTTTGTTTTGTAATAAAACAATTGGCTTT--GTTCATGCAA
* * ** * *
481128 GCTTA-TTCGGATTAAAATGATAGTAATTTAATAATATTTCAAAAATTAATAAG---AGATTTAA
449 GCTTATTTC-GAATAAAATAATACAAATTTATTAATA-TTCAAAAATTAATAAGTAAAAATTTAA
*
481189 AAAATAAATATG-TTAGCCAAACTAGTTC
512 AAAATAAATATGTTTA-CCAAACAAGTTC
* * ** * *
481217 AAATAGTTAAGACTA--TCAG-AA-TA---A-TT---ATC--TATTTCATTTGTTTAGTCATAAA
1 AAATAGTTATGACTATTTGAGCAATTATTTATTTCAAATCGATATGACTTTTGTTTTGTCATAAA
* * * ***
481269 ATAATTATTTC-AGTTCATACAAGCTTATTTGGAA-TAAAATAATACTAATTTATTAATATTCAA
66 ACAATTGTTTCTA-TTCATACAAGTTTATTT-GAATTAAAATAATACTAATTTATTAATATTTTG
* * * **** * * ** * * *
481332 AAAATT-A-AAGCAAGAGATTTTTTTTTAA-AAATCTGTTTACTGAATAATTTTAAATAGAT-AT
129 ACAATTAATAAGTAAAAGA--TTTAAAAAATAAATATATTTACCAAACAAGTTCAAATAG-TCAT
* * * * * * * * * * * * *
481393 GACTACTTAAACAATTATCTGTTTTAAATTATTTTGTCATTTTGTTTTGTCATAAAACAATTGTT
191 TAATATTTGAATAATTATTTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACACTTGTT
* * * * * * * * * * *
481458 TCGATTAATAAAAACTTATAT-GAAATAAAATAATACTACTTTATTAATATTTCAAAAATTATTA
256 TCAACTCATATAAGCTTAT-TCAAAATAAAATAAGACTAATTTATTAATAATCCAAAAATTAATA
** * * * * * *
481522 AGCAAGAGATTTAAAAACTAA-AGCTAT-TTTTC-AAAGC-AGTTCTAATAGTTATGACTATTTG
320 ATAAAGAGATTTAAAAA--AAGA-CTATGTTTACGAAA-CAAATTCAAATAATTAGGACTATCTG
* * * * * * * ** *
481583 AACAAATAT-TAATCTCAAATCATTATGATC-TTTGTTTTGTCATAAAATAATT-ATTTTTTATC
381 AACAATTATCT-ATTTCAAAACA-TATAACCTTTTGTTTTGTAATAAAACAATTGGCTTTGT-TC
** * ** * **
481645 ATATAAGC-TAATTC-AGATAAAAATAATAGTAATTTAATAATATTTTGAAAATTAATAAGTAAG
443 ATGCAAGCTTATTTCGA-AT-AAAATAATACAAATTTATTAATA-TTCAAAAATTAATAAGTAA-
* * * * **
481708 AGATTTAAAAAAATAAATGTGTTTGCC-GATTAGTTC
504 AAATTT-AAAAAATAAATATGTTTACCAAACAAGTTC
* * * ** * * **
481744 AAATAGTTAAGATTATTAGAATAATTATCTATTTCAAATC-ATTATAACATTTTGTTTAATCATA
1 AAATAGTTATGACTATTTGAGCAATTATTTATTTCAAATCGA-TATGAC-TTTTGTTTTGTCATA
* * **
481808 AAATAATTGTTTC-AGTTCATACAA-TCTTATTCGAAAGAAAATAATACTAATTTATT-A-ATTT
64 AAACAATTGTTTCTA-TTCATACAAGT-TTATTTGAATTAAAATAATACTAATTTATTAATATTT
** * * * * * * *
481869 TGA-AAGTTAATAAGTAGGATATTTGAAAAACTAAATTTGTTTATCGAACAAGTTCAAATAGTTA
127 TGACAA-TTAATAAGTAAAAGATTT-AAAAAATAAATATATTTACCAAACAAGTTCAAATAGTCA
* * * * *
481933 TGACTATTTGAACAATTATCTATTTAAAATCATT
190 TTAATATTTGAATAATTATTTATTTCAAATCATT
481967 GTGAATTTAA
Statistics
Matches: 1868, Mismatches: 372, Indels: 222
0.76 0.15 0.09
Matches are distributed among these distances:
507 8 0.00
508 28 0.01
509 117 0.06
510 49 0.03
512 6 0.00
513 9 0.00
515 2 0.00
516 3 0.00
518 3 0.00
519 5 0.00
520 2 0.00
521 3 0.00
522 8 0.00
523 156 0.08
524 9 0.00
525 4 0.00
526 69 0.04
527 77 0.04
528 16 0.01
529 3 0.00
530 2 0.00
531 2 0.00
532 6 0.00
533 92 0.05
534 87 0.05
535 98 0.05
536 2 0.00
537 124 0.07
538 158 0.08
539 17 0.01
540 60 0.03
541 174 0.09
542 455 0.24
543 12 0.01
544 2 0.00
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.40
Consensus pattern (539 bp):
AAATAGTTATGACTATTTGAGCAATTATTTATTTCAAATCGATATGACTTTTGTTTTGTCATAAA
ACAATTGTTTCTATTCATACAAGTTTATTTGAATTAAAATAATACTAATTTATTAATATTTTGAC
AATTAATAAGTAAAAGATTTAAAAAATAAATATATTTACCAAACAAGTTCAAATAGTCATTAATA
TTTGAATAATTATTTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACACTTGTTTCAAC
TCATATAAGCTTATTCAAAATAAAATAAGACTAATTTATTAATAATCCAAAAATTAATAATAAAG
AGATTTAAAAAAAGACTATGTTTACGAAACAAATTCAAATAATTAGGACTATCTGAACAATTATC
TATTTCAAAACATATAACCTTTTGTTTTGTAATAAAACAATTGGCTTTGTTCATGCAAGCTTATT
TCGAATAAAATAATACAAATTTATTAATATTCAAAAATTAATAAGTAAAAATTTAAAAAATAAAT
ATGTTTACCAAACAAGTTC
Found at i:480900 original size:16 final size:16
Alignment explanation
Indices: 480876--480906 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
480866 AGCAAGTTCA
*
480876 AATAGTTATTTATTTG
1 AATAATTATTTATTTG
480892 AATAATTATTTATTT
1 AATAATTATTTATTT
480907 CAAATCGTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (16 bp):
AATAATTATTTATTTG
Found at i:480973 original size:180 final size:180
Alignment explanation
Indices: 479077--481966 Score: 1913
Period size: 180 Copynumber: 16.2 Consensus size: 180
479067 ATTTATATTA
* * * * ** *
479077 AAATAGTTATGACTATTTGAACAATTGTATATGTCAAATCATTATAACCTTTAATTATGTCATAA
1 AAATAGTTATG-CTATTTGAACAATTATTTATTTCAAATCATTATGACCTTTTGTTTTGTCATAA
* * * * * * *
479142 AATAATTATTTTTGTTTATACAAGCTTATTCAAAATAAAACAATACTAATCTAATAATATTCCAA
65 AACAATTGTTTCTGTTCATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTCCAA
* ** * * * *
479207 AAATTAATAACTAAGGGATTTAAAAAATAAATTTTTTTGCCGAACCAA-TTC
130 AAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACC-AAACAAGTTC
* * * *
479258 AAATAGTTAAGACTATATGAACAATTATTTATTTCAAATCGTTATGACATTTT-TTCTTGTCATA
1 AAATAGTTATG-CTATTTGAACAATTATTTATTTCAAATCATTATGACCTTTTGTT-TTGTCATA
** * * * * *
479322 AAACAATT-TTCTCAATTCAAACTAGCTTATT-TAAATAAAATAA-AATGAATTTATTAATATTT
64 AAACAATTGTT-TCTGTTCATACAAGCTTATTCAAAATAAAATAATACT-AATTTATTAATATTC
* * * * * *
479384 CAAAAAATAATAGGTAAAAGATTTAAAAAATAATTTTGTTTACCTAACTAGTTC
127 CAAAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCAAACAAGTTC
* * * ** * * * * *
479438 AAAAAATTATACTATTTGAACAATTATAGATTGCAAATCAATATTACTTTTTGTTTTGTCATACA
1 AAATAGTTATGCTATTTGAACAATTATTTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAA
* * * * *** * * *
479503 ACAAATGTTTTTGTTCATATAAGTTTATTTGGAATAAAGTAATACTAATCTATTAATATTTCAAA
66 ACAATTGTTTCTGTTCATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTCCAAA
** * * *** * *
479568 AATTAATAAGT---A-ATTTGGACAATAAATCTACGTATCAAACTAGTTC
131 AATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCAAACAAGTTC
* * * **
479614 AAATAGTTATGACTATTTGAGCAATTATTTATTTCAAATCAATATGACATTTTGTTTTGTTGTAA
1 AAATAGTTATG-CTATTTGAACAATTATTTATTTCAAATCATTATGACCTTTTGTTTTGTCATAA
* * *** * ***
479679 AACAATTGTTTCTATTCATGCAAGCTTATTTGCATTAAAATAATACTAATTTATTAATATTTTGA
65 AACAATTGTTTCTGTTCATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTCCAA
* * * ** * * *
479744 CAATTAGTAAGTAAAAAATTT---TTA-AAATATGTTTACCACACTAGATC
130 AAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCAAACAAGTTC
* * * * *
479791 AAATAATCATGACAATTTGAATAATTATTTATTTCAAATCATTATGACCTTTTGATTTGTCATAA
1 AAATAGTTATG-CTATTTGAACAATTATTTATTTCAAATCATTATGACCTTTTGTTTTGTCATAA
* * * * * * *
479856 AAGAGTTGTTTCAGCTCATATAAGCTTATTCAAAATAAAATAAGACTAATTTATTAATAATCCAA
65 AACAATTGTTTCTGTTCATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTCCAA
* * * * * *
479921 AAATTAATAA-TAAAGAGATTTAAAAAATGACTTTGTTTACTAAACAAATTT
130 AAATTAATAAGTAAA-AGATTTAAAAAATAAATATGTTTACCAAACAAGTTC
* * * * * * * * * *
479972 AAATAATTAGGATTGTTTGAATAATTATCTATTTGAAAT-AGCTATAACCTTTTGTTTTGTAATA
1 AAATAGTTATG-CTATTTGAACAATTATTTATTTCAAATCA-TTATGACCTTTTGTTTTGTCATA
* * *** *
480036 AAAGAATTTTTTCTGTTCAT-CTAAGCTTATTTTGAATAAAATAATACAAATTTATTAATATT--
64 AAACAATTGTTTCTGTTCATAC-AAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTCC
*
480098 AAGACAATTAATGAGTAAAAGATTT-AAAAATAAATATGTTTACCAAACAAGTTC
128 AA-A-AATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCAAACAAGTTC
* * * * *
480152 TAATCA-TTATGGCTATTTGAGCAATTATTTATTTCAACATGA-TATGATCTTTTGTTTTCTCAT
1 AAAT-AGTTAT-GCTATTTGAACAATTATTTATTTCAA-ATCATTATGACCTTTTGTTTTGTCAT
* * * * ** * * * **
480215 AAAATAATTATTTCTATTCATACAAGTTTATTTGAATTAAAATAATATTAATTAATTAATATTTT
63 AAAACAATTGTTTCTGTTCATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTCC
* * *
480280 GACAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTACCAAACAAGTTC
128 AAAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCAAACAAGTTC
* ** * * * * * *
480333 AAATAGTCATTAATATTTCAATAATTATCTATTTCAAATCATTATGACCTTTTCTTTTCTAATAA
1 AAATAGTTA-TGCTATTTGAACAATTATTTATTTCAAATCATTATGACCTTTTGTTTTGTCATAA
* ** * ** * *
480398 AACACTTGTTTCAATTCATATAAGCTTATTTGAAGTAAGATAATACTAATTTATTAATATTCCAA
65 AACAATTGTTTCTGTTCATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTCCAA
* * * * ** *
480463 AAATTAATGAGTGAGAGCA-TTAAAAAA-AGAACATGTTTACGGAATAAGTTC
130 AAATTAATAAGTAAAAG-ATTTAAAAAATA-AATATGTTTACCAAACAAGTTC
* * *
480514 AAATAGTTATGACTATCTGAACAATTATCTATTTCAAAACATTATGACCTTTTGTTTTGTCATAA
1 AAATAGTTATG-CTATTTGAACAATTATTTATTTCAAATCATTATGACCTTTTGTTTTGTCATAA
* * * *
480579 AACAATTGGCTT-TGTTCATGCAAGCTTATTTC-GAATAAAATAAT-TTAAATTTATTAATATTC
65 AACAATT-GTTTCTGTTCATACAAGCTTA-TTCAAAATAAAATAATACT-AATTTATTAATATTC
* ** * *
480641 CAAAAATTAATAAGTAAAA-TTTTAAAAAATAAATATGTTTTTCGAACATGTTC
127 CAAAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCAAACAAGTTC
* * * * *
480694 AAATAGTTATGACTATTTGAAAAATTATCTATTTCAAATCGTTATGACCTTTTATTTGGTCATAA
1 AAATAGTTATG-CTATTTGAACAATTATTTATTTCAAATCATTATGACCTTTTGTTTTGTCATAA
* * * ** *
480759 ACCAATTGTTTCTAG-TCATAAAAGCTTTTTCAAAATAAAATAGCACTAATTTATTAAAATTCCA
65 AACAATTGTTTCT-GTTCATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTCCA
* * * * *
480823 AAAATTAATAAGTAAAAGATTTAAAAAATAAATCTATTTATCGAGCAAGTTC
129 AAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCAAACAAGTTC
* * * *
480875 AAATAGTTAT-TTATTTGAATAATTATTTATTTCAAATCGTTATGATCTTTTGTTTTGTCATAAA
1 AAATAGTTATGCTATTTGAACAATTATTTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAA
* * ** * ** ** * ***
480939 ATAATTTTTTTCTGTTCATACAAAATTATTCAAAATAAAACAATTTTGTTTTATTAATCTTTTGA
66 ACAA-TTGTTTCTGTTCATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTCCAA
* *
481004 AAATTAATAAG----AGATTTAAAAACTAAATA-----A-C---C-AGTTT
130 AAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCAAACAAGTTC
* * * * * * *
481041 AAATAGTTATGACTATTTGAACAATTATCTATCTCAAATCATAATAATC-TTTATTTTGTCATAC
1 AAATAGTTATG-CTATTTGAACAATTATTTATTTCAAATCATTATGACCTTTTGTTTTGTCATAA
** * * * * *
481105 AACAATTGTTTCCT-TTCATACAAGCTTATTCGGATTAAAATGATAGTAATTTAATAATATTTCA
65 AACAATTGTTT-CTGTTCATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTCCA
*
481169 AAAATTAATAAG----AGATTTAAAAAATAAATATG-TTAGCCAAACTAGTTC
129 AAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTA-CCAAACAAGTTC
* * * * * *
481217 AAATAGTTAAGACTA--T-CAGAA-TAATTA--TC---T-ATT-T---CATTTGTTTAGTCATAA
1 AAATAGTTATG-CTATTTGAACAATTATTTATTTCAAATCATTATGACCTTTTGTTTTGTCATAA
* * * *** *
481268 AATAATTATTTCAGTTCATACAAGCTTATTTGGAATAAAATAATACTAATTTATTAATATTCAAA
65 AACAATTGTTTCTGTTCATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTCCAA
* * **** * ** * * *
481333 AAATT-A-AAGCAAGAGATTTTTTTTTAA-AAATCTGTTTACTGAATAATTTT
130 AAATTAATAAGTAAAAGA--TTTAAAAAATAAATATGTTTACCAAACAAGTTC
* * * * * * * * * *
481383 AAATAGATATGACTACTTAAACAATTATCTGTTTTAAATTATTTTGTCATTTTGTTTTGTCATAA
1 AAATAGTTATG-CTATTTGAACAATTATTTATTTCAAATCATTATGACCTTTTGTTTTGTCATAA
* * * * * *
481448 AACAATTGTTTC-GATTAATAAAAACTTATAT-GAAATAAAATAATACTACTTTATTAATATTTC
65 AACAATTGTTTCTG-TTCATACAAGCTTAT-TCAAAATAAAATAATACTAATTTATTAATATTCC
* * * * *
481511 AAAAATTATTAAGCAAGAGATTTAAAAACTAAAGCTAT-TTT-TCAAAGC-AGTTC
128 AAAAATTAATAAGTAAAAGATTTAAAAAATAAA--TATGTTTACCAAA-CAAGTTC
* * * * *
481564 TAATAGTTATGACTATTTGAACAAATATTAATCTCAAATCATTATGATC-TTTGTTTTGTCATAA
1 AAATAGTTATG-CTATTTGAACAATTATTTATTTCAAATCATTATGACCTTTTGTTTTGTCATAA
* * * * * * * * **
481628 AATAATTATTT-TTTATCATATAAGCTAATTC-AGATAAAAATAATAGTAATTTAATAATATTTT
65 AACAATTGTTTCTGT-TCATACAAGCTTATTCAAAAT-AAAATAATACTAATTTATTAATATTCC
* * * * * **
481691 GAAAATTAATAAGTAAGAGATTTAAAAAAATAAATGTGTTTGCC-GATTAGTTC
128 AAAAATTAATAAGTAAAAGATTT-AAAAAATAAATATGTTTACCAAACAAGTTC
* * * * * * * **
481744 AAATAGTTAAGATTATTAGAATAATTATCTATTTCAAATCATTATAACATTTTGTTTAATCATAA
1 AAATAGTTATG-CTATTTGAACAATTATTTATTTCAAATCATTATGACCTTTTGTTTTGTCATAA
* * * * * **
481809 AATAATTGTTTCAGTTCATACAATCTTATTCGAAAGAAAATAATACTAATTTATTAAT-TT-TGA
65 AACAATTGTTTCTGTTCATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTCCAA
* ** * * * * *
481872 AAGTTAATAAGTAGGATATTTGAAAAACTAAATTTGTTTATCGAACAAGTTC
130 AAATTAATAAGTAAAAGATTT-AAAAAATAAATATGTTTACCAAACAAGTTC
* *
481924 AAATAGTTATGACTATTTGAACAATTATCTATTTAAAATCATT
1 AAATAGTTATG-CTATTTGAACAATTATTTATTTCAAATCATT
481967 GTGAATTTAA
Statistics
Matches: 2121, Mismatches: 483, Indels: 211
0.75 0.17 0.07
Matches are distributed among these distances:
161 3 0.00
162 3 0.00
163 70 0.03
165 4 0.00
166 110 0.05
167 29 0.01
168 31 0.01
169 3 0.00
170 7 0.00
171 1 0.00
172 6 0.00
173 3 0.00
174 1 0.00
175 2 0.00
176 73 0.03
177 242 0.11
178 1 0.00
179 169 0.08
180 696 0.33
181 636 0.30
182 29 0.01
183 2 0.00
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.40
Consensus pattern (180 bp):
AAATAGTTATGCTATTTGAACAATTATTTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAA
ACAATTGTTTCTGTTCATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTCCAAA
AATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTACCAAACAAGTTC
Found at i:482136 original size:22 final size:22
Alignment explanation
Indices: 482109--482171 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 22
482099 TTAATTATTG
482109 TTATTAATTAATATTAGTTAAT-
1 TTATTAATTAATATTAG-TAATA
*
482131 TTATTAATTAGTAAATTAGTAATA
1 TTATTAATTA--ATATTAGTAATA
482155 TATAATTAATTAATATT
1 T-T-ATTAATTAATATT
482172 TAATTTAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
22 10 0.29
23 4 0.12
24 11 0.32
25 1 0.03
26 8 0.24
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (22 bp):
TTATTAATTAATATTAGTAATA
Found at i:482168 original size:15 final size:16
Alignment explanation
Indices: 482111--482170 Score: 54
Period size: 15 Copynumber: 3.8 Consensus size: 16
482101 AATTATTGTT
482111 ATTAATTAATATTAGTTA
1 ATTAATTAATA-TAG-TA
*
482129 ATTTATTAAT-TAGTAA
1 ATTAATTAATATAGT-A
*
482145 ATT-AGTAATATA-TA
1 ATTAATTAATATAGTA
482159 ATTAATTAATAT
1 ATTAATTAATAT
482171 TTAATTTAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
14 4 0.11
15 14 0.39
16 9 0.25
18 9 0.25
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (16 bp):
ATTAATTAATATAGTA
Found at i:482175 original size:15 final size:16
Alignment explanation
Indices: 482150--482211 Score: 54
Period size: 18 Copynumber: 3.7 Consensus size: 16
482140 AGTAAATTAG
*
482150 TAATATATAATTAAT-
1 TAATATTTAATTAATA
482165 TAATATTTAATTTAATA
1 TAATATTTAA-TTAATA
*
482182 TAATAATTTTAATTAAAA
1 TAAT-A-TTTAATTAATA
*
482200 AAATAATTTAAT
1 TAAT-ATTTAAT
482212 AAATTAGTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
15 9 0.22
16 5 0.12
17 10 0.25
18 11 0.28
19 5 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TAATATTTAATTAATA
Found at i:482197 original size:18 final size:18
Alignment explanation
Indices: 482157--482208 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
482147 TAGTAATATA
482157 TAATTAAT-TAAT-A-TT
1 TAATTAATATAATAATTT
482172 TAATTTAATATAATAATTT
1 TAA-TTAATATAATAATTT
* *
482191 TAATTAAAAAAATAATTT
1 TAATTAATATAATAATTT
482209 AATAAATTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 3 0.10
16 5 0.16
17 4 0.13
18 14 0.45
19 5 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TAATTAATATAATAATTT
Found at i:482391 original size:13 final size:13
Alignment explanation
Indices: 482354--482397 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
482344 GATTAATAAT
*
482354 ATAATTTCATATTCC
1 ATAATTT-ATATT-A
*
482369 ATAATATATATTA
1 ATAATTTATATTA
482382 ATAATTTATATTA
1 ATAATTTATATTA
482395 ATA
1 ATA
482398 TATAGATTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 15 0.58
14 5 0.19
15 6 0.23
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (13 bp):
ATAATTTATATTA
Found at i:482400 original size:25 final size:28
Alignment explanation
Indices: 482354--482406 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 28
482344 GATTAATAAT
* *
482354 ATAATTTCATATTCCATAATATATATTA
1 ATAATTTCATATTCAATAATATAGATTA
482382 ATAATTT-ATATT-AAT-ATATAGATTA
1 ATAATTTCATATTCAATAATATAGATTA
482407 GTACGAGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 9 0.39
26 2 0.09
27 5 0.22
28 7 0.30
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (28 bp):
ATAATTTCATATTCAATAATATAGATTA
Found at i:482748 original size:26 final size:25
Alignment explanation
Indices: 482719--482788 Score: 65
Period size: 26 Copynumber: 2.8 Consensus size: 25
482709 GTTAACATAT
*
482719 TTAATAACTTTATATAATTAGTAATA
1 TTAATAACTTTATATAATTA-TAACA
*
482745 TTAATATA-TTTATATCATTATAACA
1 TTAATA-ACTTTATATAATTATAACA
482770 -T-ATAACTATTAGTATAATT
1 TTAATAACT-TTA-TATAATT
482789 TTTTCTATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
22 1 0.03
23 4 0.11
24 4 0.11
25 10 0.27
26 17 0.46
27 1 0.03
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (25 bp):
TTAATAACTTTATATAATTATAACA
Found at i:482883 original size:17 final size:17
Alignment explanation
Indices: 482861--482904 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
482851 TATACATTAT
482861 ATTAATAATAACAAATA
1 ATTAATAATAACAAATA
* * *
482878 ATTAATTATAATATATA
1 ATTAATAATAACAAATA
482895 ATT-ATAATAA
1 ATTAATAATAA
482905 TAATTATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (17 bp):
ATTAATAATAACAAATA
Found at i:482890 original size:13 final size:13
Alignment explanation
Indices: 482874--482915 Score: 61
Period size: 12 Copynumber: 3.3 Consensus size: 13
482864 AATAATAACA
482874 AATAATTAATTAT
1 AATAATTAATTAT
482887 AAT-ATATAATTAT
1 AATAAT-TAATTAT
482900 AATAA-TAATTAT
1 AATAATTAATTAT
482912 AATA
1 AATA
482916 TTGGTTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 13 0.48
13 13 0.48
14 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AATAATTAATTAT
Found at i:482913 original size:25 final size:25
Alignment explanation
Indices: 482874--482957 Score: 79
Period size: 25 Copynumber: 3.4 Consensus size: 25
482864 AATAATAACA
482874 AATAATTAATTATAATATATAATTAT
1 AATAA-TAATTATAATATATAATTAT
**
482900 AATAATAATTATAATAT-TGGTTAT
1 AATAATAATTATAATATATAATTAT
*
482924 -AT-TTAA-TATAA-ATTATAAGTTAT
1 AATAATAATTATAATA-TATAA-TTAT
482947 AATAATAATTA
1 AATAATAATTA
482958 ATAGTTTTAC
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
20 1 0.02
21 6 0.13
22 4 0.09
23 6 0.13
24 7 0.15
25 15 0.33
26 7 0.15
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (25 bp):
AATAATAATTATAATATATAATTAT
Found at i:482981 original size:47 final size:46
Alignment explanation
Indices: 482882--482989 Score: 121
Period size: 47 Copynumber: 2.3 Consensus size: 46
482872 CAAATAATTA
** *
482882 ATTAT-AATATATAATTATAATAATAATTATAATATTGGTTATATTT
1 ATTATAAAT-TATAATTATAATAATAATTATAATATTGACTATAGTT
* * *
482928 AATATAAATTATAAGTTATAATAATAATTAATAGT-TTTACTATAGTT
1 ATTATAAATTATAA-TTATAATAATAATT-ATAATATTGACTATAGTT
482975 ATTATAAATTATAAT
1 ATTATAAATTATAAT
482990 AATTTATTGT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
46 10 0.19
47 38 0.73
48 4 0.08
ACGTcount: A:0.47, C:0.01, G:0.05, T:0.47
Consensus pattern (46 bp):
ATTATAAATTATAATTATAATAATAATTATAATATTGACTATAGTT
Found at i:483147 original size:25 final size:25
Alignment explanation
Indices: 483111--483172 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
483101 AAATTATTAG
483111 TTAATT-TATAATAATAT-AATATAAA
1 TTAATTAT-TAATAATATGAA-ATAAA
* *
483136 TTAATTATTAATGATTTGAAATAAA
1 TTAATTATTAATAATATGAAATAAA
*
483161 TAAATTATTAAT
1 TTAATTATTAAT
483173 TATTAAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 29 0.91
26 3 0.09
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (25 bp):
TTAATTATTAATAATATGAAATAAA
Found at i:483181 original size:19 final size:18
Alignment explanation
Indices: 483157--483209 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 18
483147 TGATTTGAAA
483157 TAAATAAATTATTAATTAT
1 TAAATAAATTATTAA-TAT
483176 TAAATAATATTTATT-ATAT
1 TAAATAA-A-TTATTAATAT
483195 T-AATAAATTAGTTAA
1 TAAATAAATTA-TTAA
483210 CTTAAAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
16 3 0.10
17 3 0.10
18 6 0.20
19 11 0.37
20 2 0.07
21 5 0.17
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TAAATAAATTATTAATAT
Found at i:483202 original size:37 final size:37
Alignment explanation
Indices: 483159--483243 Score: 97
Period size: 37 Copynumber: 2.3 Consensus size: 37
483149 ATTTGAAATA
483159 AATAAATTATTAA-TTATTAAA-TAATATT-TATTATATT
1 AATAAATTATTAACTTA--AAATTAATATTATATTAT-TT
483196 AATAAATTAGTTAACTTAAAATTAATATTATATTATTT
1 AATAAATTA-TTAACTTAAAATTAATATTATATTATTT
*
483234 -ATAAAATATT
1 AATAAATTATT
483244 TAATAAATTA
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
36 2 0.05
37 19 0.44
38 13 0.30
39 9 0.21
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (37 bp):
AATAAATTATTAACTTAAAATTAATATTATATTATTT
Found at i:483817 original size:31 final size:31
Alignment explanation
Indices: 483756--483817 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
483746 TTTTTAACTT
**
483756 TATTAATCTATTAAATCAATTTTATTTATTA
1 TATTAATCTATTAAATCAATTTTACATATTA
483787 TATTAATCTA-TAAAT-AATATTATACATATTA
1 TATTAATCTATTAAATCAAT-TT-TACATATTA
483818 CAATAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 3 0.11
30 7 0.26
31 17 0.63
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (31 bp):
TATTAATCTATTAAATCAATTTTACATATTA
Found at i:484387 original size:23 final size:21
Alignment explanation
Indices: 484367--484410 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
484357 ATTTAATTGT
484367 TATAAATTATTAATATAAATTTA
1 TATAAATTA-TAAT-TAAATTTA
*
484390 TTTAAATTATAATTAAATTTA
1 TATAAATTATAATTAAATTTA
484411 ATTATTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 4 0.20
23 8 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TATAAATTATAATTAAATTTA
Found at i:484412 original size:10 final size:10
Alignment explanation
Indices: 484376--484414 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
484366 TTATAAATTA
484376 TTAATATAAAT
1 TTAAT-TAAAT
*
484387 TTATTTAAAT
1 TTAATTAAAT
484397 TATAATTAAAT
1 T-TAATTAAAT
484408 TTAATTA
1 TTAATTA
484415 TTATAACTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 12 0.48
11 13 0.52
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (10 bp):
TTAATTAAAT
Found at i:485210 original size:214 final size:214
Alignment explanation
Indices: 484948--485362 Score: 670
Period size: 214 Copynumber: 1.9 Consensus size: 214
484938 GTTATTAAGC
* * * *
484948 CTTATTTGGATTAAACTTATACTAATTTATTAATATATCGACAATTAATAAGTAAAAGATTTTAA
1 CTTATTTGGATTAAACTAATACTAATTTACTAATATATCGACAATTAATAAGTAAAAAATTTAAA
* *
485013 AAATAAATATATTTACCAAACTAGATCAAATAATCAT-AGCTATTTGATTAATTATCTATTTTAA
66 AAATAAATATATTTACCAAACTAGATCAAATAATCATGA-CTATTTGAATAATTATCTATTTCAA
* * *
485077 ATCATTATGACCTTTTGTTTTATCATAAAAGAATTGTTTTAGTTCATATAAGCTTATTCAAAATA
130 ATCATTATGACCTTATGTTTTATCATAAAAGAATTGTTTCAATTCATATAAGCTTATTCAAAATA
485142 AAATAATCTATTCATACAAG
195 AAATAATCTATTCATACAAG
*
485162 CTTATTTGGATTAAACTAATACTAATTTACTAATATATTGACAATTAATAAGTAAAAAATTTAAA
1 CTTATTTGGATTAAACTAATACTAATTTACTAATATATCGACAATTAATAAGTAAAAAATTTAAA
* *
485227 AAATAAATATGTTTACTAAACTAGATCAAATAATCATGACTATTTGAATAATTATCTATTTCAAA
66 AAATAAATATATTTACCAAACTAGATCAAATAATCATGACTATTTGAATAATTATCTATTTCAAA
** *
485292 TTGTTATGACCTTATGTTTTGTCATAAAAGAATTGTTTCAATTCATATAAGCTTATTCAAAATAA
131 TCATTATGACCTTATGTTTTATCATAAAAGAATTGTTTCAATTCATATAAGCTTATTCAAAATAA
*
485357 ATTAAT
196 AATAAT
485363 ACTAATTTAC
Statistics
Matches: 184, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
214 183 0.99
215 1 0.01
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (214 bp):
CTTATTTGGATTAAACTAATACTAATTTACTAATATATCGACAATTAATAAGTAAAAAATTTAAA
AAATAAATATATTTACCAAACTAGATCAAATAATCATGACTATTTGAATAATTATCTATTTCAAA
TCATTATGACCTTATGTTTTATCATAAAAGAATTGTTTCAATTCATATAAGCTTATTCAAAATAA
AATAATCTATTCATACAAG
Found at i:485736 original size:29 final size:27
Alignment explanation
Indices: 485693--485748 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 27
485683 ATATTATCAA
* *
485693 TTAAATTATATTAATTATTTATATATAAT
1 TTAAATTAAAATAA-TATTTATA-ATAAT
*
485722 TTAAATTAAAATAATATTTTTAATAAT
1 TTAAATTAAAATAATATTTATAATAAT
485749 CATGACTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 5 0.21
28 7 0.29
29 12 0.50
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
TTAAATTAAAATAATATTTATAATAAT
Found at i:485859 original size:3 final size:3
Alignment explanation
Indices: 485842--485930 Score: 69
Period size: 3 Copynumber: 30.0 Consensus size: 3
485832 ATAATTACTA
*
485842 AAT AAA AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * * * *
485889 AAT TAT ATT AATT AGT AA- AAT -AT AAT TAT AAT CCAT AAT AAT
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
485931 TCAAATTACA
Statistics
Matches: 67, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
2 8 0.12
3 53 0.79
4 6 0.09
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:486207 original size:17 final size:17
Alignment explanation
Indices: 486185--486232 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 17
486175 CCTCATAATA
486185 TTACAATATAATTATAT
1 TTACAATATAATTATAT
486202 TTACAAGTTATAATTATAT
1 TTACAA--TATAATTATAT
486221 TTA-AATAATAAT
1 TTACAAT-ATAAT
486233 AATAAAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 1 0.04
17 11 0.39
18 2 0.07
19 14 0.50
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (17 bp):
TTACAATATAATTATAT
Found at i:486853 original size:12 final size:11
Alignment explanation
Indices: 486836--486897 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
486826 AGATTTAGTT
486836 ATATAATTTATA
1 ATATAA-TTATA
486848 ATATAATTATA
1 ATATAATTATA
** *
486859 GCATTATTAT-
1 ATATAATTATA
*
486869 ATTTAATATATA
1 ATATAAT-TATA
486881 ATATAATTATAA
1 ATATAATTAT-A
486893 ATATA
1 ATATA
486898 TCTATATATT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
10 3 0.08
11 18 0.46
12 18 0.46
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (11 bp):
ATATAATTATA
Found at i:486897 original size:28 final size:28
Alignment explanation
Indices: 486839--486943 Score: 70
Period size: 33 Copynumber: 3.5 Consensus size: 28
486829 TTTAGTTATA
*
486839 TAATTTATAATATAATTATAGCATTATTATATT
1 TAATATATAATATAATTATA--A--A-TATATT
*
486872 TAATATATAATATAATTATAAATATATC
1 TAATATATAATATAATTATAAATATATT
* *
486900 T-ATATATTATATATATGTAT-ATTATATT
1 TAATATATAATATA-AT-TATAAATATATT
* *
486928 TATTTATAAAATATAA
1 TA-ATATATAATATAA
486944 CAATATATAT
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
27 11 0.18
28 15 0.25
29 5 0.08
30 9 0.15
31 1 0.02
33 19 0.32
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (28 bp):
TAATATATAATATAATTATAAATATATT
Found at i:486903 original size:12 final size:13
Alignment explanation
Indices: 486836--486910 Score: 51
Period size: 12 Copynumber: 6.4 Consensus size: 13
486826 AGATTTAGTT
486836 ATATAATT-TATA
1 ATATAATTATATA
**
486848 ATATAATTATAGC
1 ATATAATTATATA
486861 AT-T-ATTATAT-
1 ATATAATTATATA
486871 -T-TAA-TATATA
1 ATATAATTATATA
486881 ATATAATTATA-A
1 ATATAATTATATA
486893 ATAT-ATCTATATA
1 ATATAAT-TATATA
*
486906 TTATA
1 ATATA
486911 TATATGTATA
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
9 7 0.14
10 1 0.02
11 9 0.18
12 21 0.42
13 12 0.24
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (13 bp):
ATATAATTATATA
Found at i:486913 original size:15 final size:15
Alignment explanation
Indices: 486863--486926 Score: 55
Period size: 15 Copynumber: 4.5 Consensus size: 15
486853 ATTATAGCAT
*
486863 TATTATATTTA-ATA
1 TATTATATATATATA
*
486877 TATAATATA-AT-TA
1 TATTATATATATATA
* *
486890 TA-AATATATCTATA
1 TATTATATATATATA
*
486904 TATTATATATATGTA
1 TATTATATATATATA
486919 TATTATAT
1 TATTATAT
486927 TTATTTATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
12 6 0.15
13 6 0.15
14 11 0.28
15 17 0.43
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (15 bp):
TATTATATATATATA
Found at i:488258 original size:305 final size:304
Alignment explanation
Indices: 487688--488263 Score: 638
Period size: 305 Copynumber: 1.9 Consensus size: 304
487678 TTTATAAGAA
* * * *
487688 AACAAAAAGTAATAATAATTTGAAATATATAATTGTTCAAATAGTATAATTTTTTGAACTGGATA
1 AACAAAAAGTAATAATAATTTGAAATATAGAATTATTCAAATAGTATAACTATTTGAACTGGATA
* *
487753 GGTAACAGAATTATTTTTTAAATCTCTTATTATTTTTTGAAATATTAATAAATTCATTTTATGTT
66 GGTAACAGAATTATTTTTTAAATCTCTTATTAATTTTTGAAAGATTAATAAATTCATTTTATGTT
* ** * * * * *
487818 ATTTCGAATAAGCTAGTATGAATTGAGAAATTTGTTTTATGAGAAGGCAAAAGGTCATAATGATT
131 ATTTCAAATAAGCTAGTATGAATAAAAAAAATTGTTATATGACAAGGCAAAAGGTCATAACGATT
* ** ** * * * *
487883 TGAAATATAGTCTTAACTATTTGAATTGGTTCAGTAATCAAATTTATTTTTTAAATCCCTTATTT
196 TGAAATATAGTCTTAACTAATACAATTGCATCAGTAATCAAATTTATATATAAAAT-CATTATTT
487948 ATTAAT-TTTTGGAATATTATTAGATTACTATTGTTTTATGACAT
260 ATTAATATTTTGGAATATTATTAGATTACTATTGTTTTATGACAT
* * *
487992 AACAAAAGGTTATAATGATTTGAAATATAGAATTATTCAAATAGTCATAACTATTTGAACT-GAT
1 AACAAAAAGTAATAATAATTTGAAATATAGAATTATTCAAATAGT-ATAACTATTTGAACTGGA-
* *
488056 TCGGTAAACAGATTTATTTTTTAAATCTCTTATTAATTTTTGAAAGATTAATAAATT-ATTATTA
64 TAGGT-AACAGAATTATTTTTTAAATCTCTTATTAATTTTTGAAAGATTAATAAATTCATT-TTA
* *
488120 T-TTATTTCAAATAATC-ATGTATG-ATAAAAAACAATTGTTATATGACCAA-GCAAAAGGTGAT
127 TGTTATTTCAAATAAGCTA-GTATGAATAAAAAA-AATTGTTATATGA-CAAGGCAAAAGGTCAT
* *
488181 AACGATTTGAAATAATA-TCTT-ACTAATACAA-TGCAT-ATTATAT-ATATTTTAAATATATAA
189 AACGATTTGAAAT-ATAGTCTTAACTAATACAATTGCATCAGTA-ATCA-AATTT--ATATATAA
488241 AAT-ATATATTATATTAATATTTT
249 AATCAT-TATT-TATTAATATTTT
488264 AATCCGGAAG
Statistics
Matches: 225, Mismatches: 32, Indels: 28
0.79 0.11 0.10
Matches are distributed among these distances:
302 4 0.02
303 10 0.04
304 59 0.26
305 91 0.40
306 61 0.27
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (304 bp):
AACAAAAAGTAATAATAATTTGAAATATAGAATTATTCAAATAGTATAACTATTTGAACTGGATA
GGTAACAGAATTATTTTTTAAATCTCTTATTAATTTTTGAAAGATTAATAAATTCATTTTATGTT
ATTTCAAATAAGCTAGTATGAATAAAAAAAATTGTTATATGACAAGGCAAAAGGTCATAACGATT
TGAAATATAGTCTTAACTAATACAATTGCATCAGTAATCAAATTTATATATAAAATCATTATTTA
TTAATATTTTGGAATATTATTAGATTACTATTGTTTTATGACAT
Found at i:488496 original size:25 final size:26
Alignment explanation
Indices: 488453--488502 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
488443 ATTTGATTAT
*
488453 AATTTATTATTAAAGCTTAT-AATAA
1 AATTTATTAATAAAGCTTATGAATAA
**
488478 AATTTATTAATAATTCTTATGAATA
1 AATTTATTAATAAAGCTTATGAATA
488503 TTAATAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (26 bp):
AATTTATTAATAAAGCTTATGAATAA
Found at i:490629 original size:177 final size:181
Alignment explanation
Indices: 489886--490852 Score: 757
Period size: 181 Copynumber: 5.4 Consensus size: 181
489876 TTTAAATCTC
* * * * * * * * *
489886 TTAATTTTTAAAAATATTAAGAAAGGTAGTATTATTTTATTTTGGATAAACTTTTGTGAACTAAA
1 TTAATTTTT-CAAATATTAATAAA-TTAGTATTATTTTATTTCGAATAAGCTTGTATGAACTGAA
* * * * * * *
489951 ACAATTGTTTTATGACAAAACAAAAATTCACAATGATTTTAAATAGATAATTGTTCAAATAGTCA
64 ACAATTGTTTTATGATAAAAC-AAAAGTCAAAATGATTTGAAATAAATAATTATTTAAATAGTCA
* * *
490016 TAACTATTTGAACTTGTTCGGTAAACA-AATTTAGTTTTTCAAATATCTTGCTTA
128 TAACTATTTGAAATTGTTCGGTAAACACAGTTTAGTTTTT-AAATCTCTTGCTTA
* *
490070 TTAATCTTTCAAA-AGTTAATAAATTAGTATTATTTT-TTTCGAATAAACTTGTATGAACTGAAA
1 TTAATTTTTCAAATA-TTAATAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAACTGAAA
* * * ** * * * *
490133 CAATTATTTTGTGATTAAACAAAAGGTCTGAACGATTTGAAATAGATAATTATTCT-AATAATCT
65 CAATTGTTTTATGATAAAACAAAA-GTCAAAATGATTTGAAATAAATAATTATT-TAAATAGTCA
* * * * *
490197 TAACTATTT-AAACTGTTCGGCAAACACATTTTATTTTTTAAATCTCTTACTTA
128 TAACTATTTGAAATTGTTCGGTAAACACAGTTTAGTTTTTAAATCTCTTGCTTA
* * * ***
490250 TTAA-TTTTCAAAATATTATTAAATTAGTATTATTTTTATTT-GAATTAGCTTATATGATAAAAA
1 TTAATTTTTC-AAATATTAATAAATTAGTATTA-TTTTATTTCGAATAAGCTTGTATG--AACTG
* * *
490313 AAACAATTGTTTTATGATAAAAC-AAAGATCATAATGATTTGAGATTAAT-ATTCATTTAAATAG
62 AAACAATTGTTTTATGATAAAACAAAAG-TCAAAATGATTTGAAATAAATAATT-ATTTAAATAG
* * ** * * *
490376 TCATAACTATTAGAACTACTT-TG-AAAAATAGCTTTAGTTTTTAAATCTCTTGCTTA
125 TCATAACTATTTGAAATTGTTCGGTAAACACAG-TTTAGTTTTTAAATCTCTTGCTTA
* * * * * * * *
490432 ATAA-TTTTGAAACATTAATAAAGTAGTATTATTTTATTTCAAATAAGTTTTTATTAACTGAAAC
1 TTAATTTTTCAAATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAACTGAAAC
* * * * * *
490496 AATTGTTTTAGGATAAAAC-AAA-TCAAAATAATTTTAAACAAATAATTGTTTAAATAGTCATAT
66 AATTGTTTTATGATAAAACAAAAGTCAAAATGATTTGAAATAAATAATTATTTAAATAGTCATAA
* * *
490559 CTATTTGAAATTGTTCAGTAAACA-AGTTTATTTTTTAAAATCTCTTTC-T-
131 CTATTTGAAATTGTTCGGTAAACACAGTTTAGTTTTT-AAATCTCTTGCTTA
* * * * * *
490608 TTAATTTTTCGAATGTTAATAAATTAATATTATTTTATTTCAAATAAGCTTGTATGAATTGAAAT
1 TTAATTTTTCAAATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAACTGAAAC
* * * *
490673 AATTGTTTTATGACTAAAA-AAAAGGAT-AGAATGATTTAAAATAGATAATTATTCT-GATAGTC
66 AATTGTTTTATGA-TAAAACAAAA-G-TCAAAATGATTTGAAATAAATAATTATT-TAAATAGTC
* *** *
490735 TTAACTATTTGAACCAGTTCGGCT-AACATA-TTTA-TTTTTAAA--TC-T-CTTA
127 ATAACTATTTGAAATTGTTCGG-TAAACACAGTTTAGTTTTTAAATCTCTTGCTTA
* * * **
490784 TTAATTTTTGAAATATTATTAAATTAGTATCATTTTAATTT-GAATAAGCTTGTATGAAAGGAAA
1 TTAATTTTTCAAATATTAATAAATTAGTATTATTTT-ATTTCGAATAAGCTTGTATGAACTGAAA
490848 CAATT
65 CAATT
490853 TTGCATGAAA
Statistics
Matches: 626, Mismatches: 125, Indels: 72
0.76 0.15 0.09
Matches are distributed among these distances:
174 1 0.00
175 2 0.00
176 59 0.09
177 115 0.18
178 27 0.04
179 40 0.06
180 111 0.18
181 146 0.23
182 81 0.13
183 36 0.06
184 8 0.01
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (181 bp):
TTAATTTTTCAAATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAACTGAAAC
AATTGTTTTATGATAAAACAAAAGTCAAAATGATTTGAAATAAATAATTATTTAAATAGTCATAA
CTATTTGAAATTGTTCGGTAAACACAGTTTAGTTTTTAAATCTCTTGCTTA
Found at i:490948 original size:24 final size:24
Alignment explanation
Indices: 490885--490948 Score: 60
Period size: 28 Copynumber: 2.5 Consensus size: 24
490875 TTATGATTTG
490885 ATTATAA-TTATAATAAATATATTA
1 ATTATAATTTA-AATAAATATATTA
490909 ATTTATTTAATATTAAATAAATA-ATATA
1 A-TTA--TAAT-TTAAATAAATATAT-TA
490937 ATTATAATTTAA
1 ATTATAATTTAA
490949 TCTTATAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
24 5 0.15
25 7 0.21
27 8 0.24
28 11 0.32
29 3 0.09
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
ATTATAATTTAAATAAATATATTA
Found at i:491373 original size:20 final size:21
Alignment explanation
Indices: 491337--491380 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
491327 TTTAATATAG
*
491337 TTTAATTAATATTATAA-TTA
1 TTTAATTAATATAATAACTTA
491357 TTTAATTAA-ATAAATAACTTA
1 TTTAATTAATAT-AATAACTTA
491378 TTT
1 TTT
491381 TTGTTTAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 13 0.62
21 6 0.29
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTAATTAATATAATAACTTA
Found at i:491486 original size:12 final size:14
Alignment explanation
Indices: 491469--491500 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
491459 GATAATTATT
491469 TGATTATA-ATTAA
1 TGATTATAGATTAA
491482 T-ATTATAGATTAA
1 TGATTATAGATTAA
491495 TGATTA
1 TGATTA
491501 AACTATTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 6 0.35
13 7 0.41
14 4 0.24
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (14 bp):
TGATTATAGATTAA
Found at i:491834 original size:18 final size:17
Alignment explanation
Indices: 491813--491852 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
491803 TCATAATCAG
491813 TATTATTAAATTAATAAT
1 TATTATTAAATT-ATAAT
* *
491831 TATTATTACATTATATT
1 TATTATTAAATTATAAT
491848 TATTA
1 TATTA
491853 ATCAAATGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTATTAAATTATAAT
Found at i:492099 original size:25 final size:23
Alignment explanation
Indices: 492055--492100 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
492045 ATTAAGTAAG
492055 ATAAATTTAATCTAATAATATTT
1 ATAAATTTAATCTAATAATATTT
*
492078 ATAAATTATAATTTAAATAATAT
1 ATAAATT-TAATCT-AATAATAT
492101 ACTTATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 5 0.25
25 8 0.40
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
ATAAATTTAATCTAATAATATTT
Found at i:492337 original size:20 final size:18
Alignment explanation
Indices: 492299--492343 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
492289 ATCTCTTATT
492299 ATATAATTTATAATAATA
1 ATATAATTTATAATAATA
* *
492317 ATTTAATTTTTAATTATATA
1 ATATAATTTATAA-TA-ATA
492337 ATATAAT
1 ATATAAT
492344 AATTTTAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 11 0.50
19 2 0.09
20 9 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATAATTTATAATAATA
Found at i:492346 original size:23 final size:24
Alignment explanation
Indices: 492302--492349 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
492292 TCTTATTATA
492302 TAATTTATAATAATAATTTAATTTT
1 TAATTTATAATAATAA-TTAATTTT
492327 TAATTATATAAT-ATAA-TAATTTT
1 TAATT-TATAATAATAATTAATTTT
492350 AATAAGTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 7 0.32
25 9 0.41
26 6 0.27
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TAATTTATAATAATAATTAATTTT
Found at i:493079 original size:27 final size:28
Alignment explanation
Indices: 493049--493105 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
493039 TAGTTTAACA
493049 ATAA-AATAATTATTGTTATTAA-TAATT
1 ATAACAATAATT-TTGTTATTAATTAATT
*
493076 ATAACAATACTTTTGTTATTAATTAATT
1 ATAACAATAATTTTGTTATTAATTAATT
493104 AT
1 AT
493106 TATAATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 14 0.52
28 13 0.48
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.49
Consensus pattern (28 bp):
ATAACAATAATTTTGTTATTAATTAATT
Found at i:493118 original size:16 final size:16
Alignment explanation
Indices: 493097--493129 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
493087 TTTGTTATTA
493097 ATTAATT-ATTATAATT
1 ATTAATTAATT-TAATT
493113 ATTAATTAATTTAATT
1 ATTAATTAATTTAATT
493129 A
1 A
493130 ATTATTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTAATTAATTTAATT
Found at i:493131 original size:20 final size:20
Alignment explanation
Indices: 493091--493135 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
493081 AATACTTTTG
*
493091 TTATTAATTAATTATTATAA
1 TTATTAATTAATTAATATAA
493111 TTATTAATTAATTTAAT-TAA
1 TTATTAATTAA-TTAATATAA
493131 TTATT
1 TTATT
493136 TTCAAAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TTATTAATTAATTAATATAA
Found at i:493240 original size:16 final size:16
Alignment explanation
Indices: 493215--493263 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
493205 CATATTTTAA
493215 TATTAATAATAAAATT
1 TATTAATAATAAAATT
* *
493231 TATTATTAATAATATT
1 TATTAATAATAAAATT
* *
493247 TATAAGATAGTAAAATT
1 TATTA-ATAATAAAATT
493264 AATATTATTA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 18 0.69
17 8 0.31
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (16 bp):
TATTAATAATAAAATT
Found at i:493325 original size:19 final size:20
Alignment explanation
Indices: 493292--493331 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
493282 TGTTATATAA
493292 TTAATTATATAATACTAATT
1 TTAATTATATAATACTAATT
493312 TTAATTAT-TAATACTAATT
1 TTAATTATATAATACTAATT
493331 T
1 T
493332 ATTAATCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
TTAATTATATAATACTAATT
Found at i:494517 original size:16 final size:16
Alignment explanation
Indices: 494496--494530 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
494486 TACTATTGTT
* *
494496 TAAATTATTATTAATA
1 TAAATTATAACTAATA
494512 TAAATTATAACTAATA
1 TAAATTATAACTAATA
494528 TAA
1 TAA
494531 TAATTTATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (16 bp):
TAAATTATAACTAATA
Found at i:494593 original size:24 final size:25
Alignment explanation
Indices: 494566--494619 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
494556 AATTAATATA
*
494566 ATTAATTTTATA-T-ATTAGTTTATT
1 ATTAATTTTAAACTAATTA-TTTATT
494590 ATT-ATTTTAAACTAATTATTTATT
1 ATTAATTTTAAACTAATTATTTATT
494614 A-TAATT
1 ATTAATT
494620 ATAATTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 8 0.31
24 14 0.54
25 4 0.15
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (25 bp):
ATTAATTTTAAACTAATTATTTATT
Found at i:494831 original size:27 final size:27
Alignment explanation
Indices: 494800--494855 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
494790 ACATATTTAA
494800 TTAATATTAAAT-TTATGAA-TATTGATT
1 TTAAT-TTAAATATT-TGAATTATTGATT
*
494827 TTAATTTAAATATTTTAATTATTGATT
1 TTAATTTAAATATTTGAATTATTGATT
494854 TT
1 TT
494856 TATTAATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (27 bp):
TTAATTTAAATATTTGAATTATTGATT
Found at i:495139 original size:142 final size:142
Alignment explanation
Indices: 494883--495148 Score: 351
Period size: 142 Copynumber: 1.9 Consensus size: 142
494873 CTAAAAAGAT
* * *
494883 TTATTTTTTAGATCTATTATTAATTTTTAAAATATTAATAAAGTAGTATTAATTTATTTTGAACA
1 TTATTTGTTAAATCTATTATTAATTTTTAAAATATTAATAAAGTAGTATTAATTTATTCTGAACA
* *
494948 AACTTATATGGACAAAAACATTTGTTTTATGACAAAACAAAAGGTCATAATTATTTAAACTAGTT
66 AACTTATATGAACAAAAACATTTGTTTTATGACAAAACAAAAGGTCATAATGATTTAAACTAGTT
495013 AGGTAAGCAAAA
131 AGGTAAGCAAAA
* * * * * *
495025 TTATTTGTTAAATCTCTTATTAATTTTTGAAATATTAATAAATTCA-TTTTATTTTATTCTGAAT
1 TTATTTGTTAAATCTATTATTAATTTTTAAAATATTAATAAAGT-AGTATTAATTTATTCTGAAC
* *
495089 AAGC-TAGTATGAATTGAAAAA-A-TTGTTTTATGACAAAACAAAAGGTCATAATGATTTAAA
65 AAACTTA-TATGAA--CAAAAACATTTGTTTTATGACAAAACAAAAGGTCATAATGATTTAAA
495149 ATAGATAATT
Statistics
Matches: 107, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
141 2 0.02
142 98 0.92
143 2 0.02
144 5 0.05
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.42
Consensus pattern (142 bp):
TTATTTGTTAAATCTATTATTAATTTTTAAAATATTAATAAAGTAGTATTAATTTATTCTGAACA
AACTTATATGAACAAAAACATTTGTTTTATGACAAAACAAAAGGTCATAATGATTTAAACTAGTT
AGGTAAGCAAAA
Found at i:495700 original size:177 final size:179
Alignment explanation
Indices: 494991--495903 Score: 840
Period size: 181 Copynumber: 5.1 Consensus size: 179
494981 AAAACAAAAG
* * * *
494991 GTCATAATTATTTAAACTAGTT-AGGTAAGCAAAATTATTTGTTAAA-TCT-CTTATTAATTTTT
1 GTCATAACTATTTAAACTAGTTCA-GTAAACAAATTTATTTTTTAAATTCTACTTATTAATTTTT
* * * *
495053 GAAATATTAATAAATTCA-TTTTATTTTA-TTCTGAATAAGCTAGTATGAATTGAAAAAATTGTT
65 GAAATATTAATAAATT-AGTATTATTTTATTTC-GAATAAGCTTGTATGAACTGAAACAATTGTT
* *
495116 TTATGACAAAACAAAAGGTCATAATGATTTAAAATAGATAATTGTTCATATA
128 TTATGACAAAACAAAAGGTCATAATGATTTTAAATAGATAATTGTTCAAATA
* * * *
495168 GTCTTAACTATTTAAACTAGTTCAGCAAACAAATTTATTGTTTAAATCTCTTAGTTATTAA-TTT
1 GTCATAACTATTTAAACTAGTTCAGTAAACAAATTTATTTTTTAAAT-TC-TACTTATTAATTTT
* * * * * * *
495232 TCAGAGTATTATTATATTAGTATTATTTTATTTCAAATAAGCTTGTATGAACATG-AATAATTAT
64 TGA-AATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAAC-TGAAACAATTGT
* ** * * * *
495296 TTTATGACAGAACAAATTATTTTTTAAATAATTGA-TTTAAACTATACATTTGTTCAAATA
127 TTTATGACAAAACAAA--A---GGT-CATAA-TGATTTTAAA-TAGATAATTGTTCAAATA
** * *
495356 GTCATAACTATTTAAACGGGTTC-GATAAATAAATTTATTTTTTAAATTTCTTACTTATTAACTT
1 GTCATAACTATTTAAACTAGTTCAG-TAAACAAATTTATTTTTTAAA-TTC-TACTTATTAATTT
* * *
495420 TTGAAAGATTAATAAATTAGTATTATTTTATTTTG---AAGCTTGTATG-A-TAAAACAATTGTT
63 TTGAAATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAACTGAAACAATTGTT
* * * ** * * * *
495480 ATATTACCAAACAAAAGGGAAT-CTCGATTTCAAATAGATAATTGTTGAAACA
128 TTATGACAAAACAAAAGGTCATAAT-GATTTTAAATAGATAATTGTTCAAATA
* * * * ** *
495532 GCCATAATTATTTGAACTAATTTTGTAAACAGAA-TCATTTTTTAAA-TC-ACTTATTAATTTTT
1 GTCATAACTATTTAAACTAGTTCAGTAAACA-AATTTATTTTTTAAATTCTACTTATTAATTTTT
* *
495594 GGAATATTAATAAATTACTATTATTTTATTTCGAATAAGCTTGTATGAACTGAAACAATTGTTTT
65 GAAATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAACTGAAACAATTGTTTT
495659 ATGACAAAACAAAAGGTCATAATGATTTTAAATAGATAATTGTTCAAATA
130 ATGACAAAACAAAAGGTCATAATGATTTTAAATAGATAATTGTTCAAATA
* * * * * *
495709 GTCATAACTATTTGAATTTGTTCAGTAAACAAATTAATTTTTTTAAACTCTTGCTTATTAATTTT
1 GTCATAACTATTTAAACTAGTTCAGTAAACAAATTTA-TTTTTTAAATTC-TACTTATTAATTTT
* * * * *
495774 TGAAATATTAAGAAATTAGTATTATTTTATTT-TAGATAAGCTTTTATGAATTGAAACAATTTTT
64 TGAAATATTAATAAATTAGTATTATTTTATTTCGA-ATAAGCTTGTATGAACTGAAACAA--TTG
* * * * *
495838 TTTTTTGCCAAAACAAAAGGTCATAATGA-TTTAAATAAATAATTATTCAAACA
126 TTTTATGACAAAACAAAAGGTCATAATGATTTTAAATAGATAATTGTTCAAATA
495891 GTCATAACTATTT
1 GTCATAACTATTT
495904 GAATTTAATT
Statistics
Matches: 594, Mismatches: 103, Indels: 73
0.77 0.13 0.09
Matches are distributed among these distances:
172 42 0.07
174 2 0.00
175 12 0.02
176 50 0.08
177 127 0.21
178 11 0.02
179 4 0.01
180 8 0.01
181 128 0.22
182 40 0.07
183 49 0.08
184 1 0.00
185 11 0.02
186 1 0.00
187 10 0.02
188 92 0.15
189 6 0.01
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (179 bp):
GTCATAACTATTTAAACTAGTTCAGTAAACAAATTTATTTTTTAAATTCTACTTATTAATTTTTG
AAATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAACTGAAACAATTGTTTTA
TGACAAAACAAAAGGTCATAATGATTTTAAATAGATAATTGTTCAAATA
Found at i:495982 original size:23 final size:24
Alignment explanation
Indices: 495954--495998 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
495944 CTTATTAATT
495954 TTTTAAATGTT-AATAATTAAAAA
1 TTTTAAATGTTAAATAATTAAAAA
* *
495977 TTTTAAATTTTAAATATTTAAA
1 TTTTAAATGTTAAATAATTAAA
495999 TTAAAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
TTTTAAATGTTAAATAATTAAAAA
Done.