Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold66
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: 4623749
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 850 characters in sequence are not A, C, G, or T
File 4 of 26
Found at i:656781 original size:32 final size:33
Alignment explanation
Indices: 656706--656794 Score: 103
Period size: 32 Copynumber: 2.7 Consensus size: 33
656696 ATAATATAAA
* *
656706 AAATA-ATTAAAATATAATATAATATTAATATAT
1 AAATATATTAAAAT-TTATATAATATTAAAATAT
*
656739 AAAT-TTTTAAAATTTATATAATA-TAAAATAT
1 AAATATATTAAAATTTATATAATATTAAAATAT
*
656770 TAATATATTAAAATTTAATATAATA
1 AAATATATTAAAATTT-ATATAATA
656795 ATAATACTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
31 10 0.21
32 19 0.40
33 19 0.40
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (33 bp):
AAATATATTAAAATTTATATAATATTAAAATAT
Found at i:656787 original size:15 final size:15
Alignment explanation
Indices: 656745--656791 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 15
656735 ATATAAATTT
656745 TTAAAATTT-ATATAA
1 TTAAAATTTAATAT-A
656760 TATAAAATATTAATATA
1 T-TAAAAT-TTAATATA
656777 TTAAAATTTAATATA
1 TTAAAATTTAATATA
656792 ATAATAATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 9 0.31
16 12 0.41
17 4 0.14
18 4 0.14
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAAAATTTAATATA
Found at i:656851 original size:19 final size:19
Alignment explanation
Indices: 656809--656846 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
656799 TACTAAAAAA
*
656809 ATATATAAATATTAAGTAG
1 ATATATAAATATTAAATAG
656828 ATATATAAATTATTAAATA
1 ATATATAAA-TATTAAATA
656847 TTATAGTCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (19 bp):
ATATATAAATATTAAATAG
Found at i:657255 original size:20 final size:19
Alignment explanation
Indices: 657226--657263 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
657216 TAAAATTGGA
657226 TAAATTTAAATCAAAATTT
1 TAAATTTAAATCAAAATTT
*
657245 TAAATTTTAAATTAAAATT
1 TAAA-TTTAAATCAAAATT
657264 AACTCAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAATTTAAATCAAAATTT
Found at i:657631 original size:18 final size:19
Alignment explanation
Indices: 657617--657652 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
657607 GATTTAATTA
657617 TTTATTTAA-ATTTAAAAT
1 TTTATTTAATATTTAAAAT
657635 TTTATTTAATATTTAAAA
1 TTTATTTAATATTTAAAA
657653 AATTTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTATTTAATATTTAAAAT
Found at i:660044 original size:14 final size:15
Alignment explanation
Indices: 660025--660053 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
660015 TTTTAAATTT
660025 AAAAATTA-TATTAA
1 AAAAATTATTATTAA
660039 AAAAATTATTATTAA
1 AAAAATTATTATTAA
660054 TTAGGCGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAAATTATTATTAA
Found at i:660159 original size:25 final size:26
Alignment explanation
Indices: 660121--660170 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
660111 ATTAAAAATT
* *
660121 TTAAATATATATTTTA-TAATTAAAA
1 TTAAATAAAAATTTTATTAATTAAAA
660146 TTAAATAAAAATTTTATTAATTAAA
1 TTAAATAAAAATTTTATTAATTAAA
660171 TAATAATCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
TTAAATAAAAATTTTATTAATTAAAA
Found at i:673110 original size:25 final size:25
Alignment explanation
Indices: 673056--673110 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
673046 TTTATATGAT
673056 AAAAATTACATAACTTATATAAATA
1 AAAAATTACATAACTTATATAAATA
* * *
673081 TAAAATTA-ATATATTTATATAATTA
1 AAAAATTACATA-ACTTATATAAATA
673106 AAAAA
1 AAAAA
673111 AAGTTTCATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 3 0.12
25 22 0.88
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (25 bp):
AAAAATTACATAACTTATATAAATA
Found at i:673976 original size:3 final size:3
Alignment explanation
Indices: 673970--674016 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
673960 ATAATATTCG
673970 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
674017 ATTTAAAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:675717 original size:44 final size:44
Alignment explanation
Indices: 675629--675718 Score: 112
Period size: 44 Copynumber: 2.0 Consensus size: 44
675619 TTGTTTATCG
* *
675629 ATTTAAATTTATTTAAATTAATATTTAATAATTAAAAATATTTTT
1 ATTTAAATTTAATTAAA-TAATATATAATAATTAAAAATATTTTT
*
675674 ATTTAAATTTAATTATAA-AATATATATTAA-TAAAAATAATTTTT
1 ATTTAAATTTAATTA-AATAATATATAATAATTAAAAAT-ATTTTT
675718 A
1 A
675719 AAATTTTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
43 7 0.17
44 17 0.43
45 14 0.35
46 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (44 bp):
ATTTAAATTTAATTAAATAATATATAATAATTAAAAATATTTTT
Found at i:675910 original size:14 final size:14
Alignment explanation
Indices: 675891--675918 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
675881 TTTTAAAAAA
675891 ATTTAAATATTTAT
1 ATTTAAATATTTAT
675905 ATTTAAATATTTAT
1 ATTTAAATATTTAT
675919 CTAAAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTTAAATATTTAT
Found at i:677558 original size:21 final size:22
Alignment explanation
Indices: 677519--677576 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 22
677509 AAACCAGAAT
*
677519 TAAAAAATATAAATTTTTTTAAAAA
1 TAAAAAATA-AAA--TTTTAAAAAA
*
677544 T-AATAATAAAATTTTAAAAAA
1 TAAAAAATAAAATTTTAAAAAA
677565 TAAAAAATAAAA
1 TAAAAAATAAAA
677577 GGAAATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 10 0.34
22 9 0.31
23 3 0.10
24 6 0.21
25 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAAAATAAAATTTTAAAAAA
Found at i:678454 original size:20 final size:22
Alignment explanation
Indices: 678417--678464 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
678407 AGATATAATT
*
678417 ATTTTTATAAATATATTTTT-A
1 ATTTTTATAAATAAATTTTTAA
*
678438 ATTTTTAT-TATAAATTTTTAA
1 ATTTTTATAAATAAATTTTTAA
678459 ATTTTT
1 ATTTTT
678465 TTAATTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
ATTTTTATAAATAAATTTTTAA
Found at i:678779 original size:5 final size:5
Alignment explanation
Indices: 678769--678857 Score: 55
Period size: 5 Copynumber: 18.8 Consensus size: 5
678759 TAATTTAAAT
* **
678769 TTATA TTATA TT-TA -TATA TTATA TTATA TTATAA TAATA TT-TA AAATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTAT-A TTATA TTATA TTATA
* * ** *
678817 TTTTA TTA-A TTTTA AAATA TTA-A TAAT- TTATA TTATA TTAT
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTAT
678858 TTTAAAATAT
Statistics
Matches: 61, Mismatches: 16, Indels: 14
0.67 0.18 0.15
Matches are distributed among these distances:
3 1 0.02
4 15 0.25
5 41 0.67
6 4 0.07
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (5 bp):
TTATA
Found at i:678845 original size:17 final size:18
Alignment explanation
Indices: 678794--678845 Score: 61
Period size: 17 Copynumber: 2.8 Consensus size: 18
678784 ATATTATATT
678794 ATATTATAATAATATTTAAA
1 ATATT-TAATAAT-TTTAAA
*
678814 ATATTTTATTAATTTTAAA
1 ATA-TTTAATAATTTTAAA
678833 ATA-TTAATAATTT
1 ATATTTAATAATTT
678846 ATATTATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 9 0.31
19 9 0.31
20 9 0.31
21 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATATTTAATAATTTTAAA
Found at i:678856 original size:18 final size:18
Alignment explanation
Indices: 678766--678856 Score: 60
Period size: 18 Copynumber: 4.9 Consensus size: 18
678756 GACTAATTTA
*
678766 AATTTATATTATATTTAT
1 AATTTATATTATATTAAT
678784 -ATATTATATTATATTATAAT
1 AAT-TTATATTATA-T-TAAT
* * * *
678804 AATATTTAAAATATTTTATT
1 -A-ATTTATATTATATTAAT
**
678824 AATTT-TAAAATATTAAT
1 AATTTATATTATATTAAT
678841 AATTTATATTATATTA
1 AATTTATATTATATTA
678857 TTTTAAAATA
Statistics
Matches: 55, Mismatches: 11, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
17 15 0.27
18 22 0.40
19 2 0.04
20 6 0.11
21 1 0.02
22 7 0.13
23 2 0.04
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
AATTTATATTATATTAAT
Found at i:678885 original size:30 final size:29
Alignment explanation
Indices: 678775--678885 Score: 93
Period size: 30 Copynumber: 3.7 Consensus size: 29
678765 AAATTTATAT
* *
678775 TATAT-TTATATATTATATTATATTATAA
1 TATATATTATATATTATATTATTTTAAAA
* *
678803 TA-ATATTTAAAATATTTTATTAATTTTAAAA
1 TATATA-TT-ATATATTATATT-ATTTTAAAA
678834 TATTAATAATT-TATATTATATTATTTTAAAA
1 TA-T-AT-ATTATATATTATATTATTTTAAAA
*
678865 TATATATTCATATATCATATT
1 TATATATT-ATATATTATATT
678886 TAATTATTTT
Statistics
Matches: 66, Mismatches: 7, Indels: 18
0.73 0.08 0.20
Matches are distributed among these distances:
27 2 0.03
28 5 0.08
29 4 0.06
30 21 0.32
31 20 0.30
32 9 0.14
34 4 0.06
35 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (29 bp):
TATATATTATATATTATATTATTTTAAAA
Found at i:678885 original size:35 final size:30
Alignment explanation
Indices: 678818--678896 Score: 77
Period size: 35 Copynumber: 2.4 Consensus size: 30
678808 TTTAAAATAT
*
678818 TTTATTAATTTTAAAATATTAATAATTTATA
1 TTTATT-ATTTTAAAATATTAATAATTCATA
*
678849 TTATATTATTTTAAAATATATATTCATATATCATA
1 TT-TATTATTTTAAAATAT-TAAT-A-AT-TCATA
678884 TTTAATTATTTTA
1 TTT-ATTATTTTA
678897 TATACGTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
31 14 0.35
32 7 0.17
33 1 0.03
34 3 0.08
35 15 0.38
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (30 bp):
TTTATTATTTTAAAATATTAATAATTCATA
Found at i:679591 original size:160 final size:156
Alignment explanation
Indices: 679208--679675 Score: 653
Period size: 160 Copynumber: 3.0 Consensus size: 156
679198 AGTTACCTTT
* * *
679208 ATTGAGGATAGTGATACAAAGGAGTATTCAAAATGTTATTTTTAAACTATTTAAAT--A-G--AT
1 ATTGAGGATAGAGATACAAAGGAGTATTCAAAATGTTATTTTCAAACCATTTAAATGGATGTTAT
* * * * *
679268 TAATATTTTAAAATACTAGGTTAATGATTATAAATATTTATTAAGGATTTTTTTAAAAATATTAT
66 TAATATTTTAAAATAATCGGTTAATGATTATAAATATTTGTTGAGGA-TTTTTTAAAAAAATTAT
679333 ATTTAATTAATTATTTTTATAAAATTG
130 ATTTAATTAATTATTTTTATAAAATTG
* *
679360 ATTGAGGATAGAGATACAAAGGAGAATTCAAAATGTTATTTTCAAACCGTTTAAA-GGATGTTAT
1 ATTGAGGATAGAGATACAAAGGAGTATTCAAAATGTTATTTTCAAACCATTTAAATGGATGTTAT
*
679424 TAATATTTCAAAATAATCGGTTAATGATTATAAATATTTGTTGAGGATTTTCTTAAAACAAATTA
66 TAATATTTTAAAATAATCGGTTAATGATTATAAATATTTGTTGAGGATTTT-TTAAAA-AAATTA
679489 TATTTAATTAATTATTATTATTATAAAATTG
129 TATTTAATTAATTA-T-TT-TTATAAAATTG
* * *
679520 ATTGAGGATAGAGATACAGAGGAGTATTAAAAATGCTA-TTTCAAACCATTTAAATGGATGTTAT
1 ATTGAGGATAGAGATACAAAGGAGTATTCAAAATGTTATTTTCAAACCATTTAAATGGATGTTAT
** * *
679584 TAATATTTTAAAATGGTCGGTTAACGGTTATAAATATTTGTTGAGGATTTTTTAAAAAATATATA
66 TAATATTTTAAAATAATCGGTTAATGATTATAAATATTTGTTGAGGATTTTTTAAAAAA-AT-TA
679649 TATTTAATTAATTATTTTTATAAAATT
129 TATTTAATTAATTATTTTTATAAAATT
679676 TTAAAAATAA
Statistics
Matches: 282, Mismatches: 21, Indels: 21
0.87 0.06 0.06
Matches are distributed among these distances:
152 50 0.18
153 1 0.00
154 1 0.00
155 4 0.01
156 50 0.18
157 29 0.10
158 5 0.02
159 26 0.09
160 116 0.41
ACGTcount: A:0.41, C:0.04, G:0.13, T:0.42
Consensus pattern (156 bp):
ATTGAGGATAGAGATACAAAGGAGTATTCAAAATGTTATTTTCAAACCATTTAAATGGATGTTAT
TAATATTTTAAAATAATCGGTTAATGATTATAAATATTTGTTGAGGATTTTTTAAAAAAATTATA
TTTAATTAATTATTTTTATAAAATTG
Found at i:680677 original size:17 final size:17
Alignment explanation
Indices: 680657--680698 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
680647 TGATATAAGA
680657 ATTATTAAAT-TATATTT
1 ATTATTAAATGT-TATTT
*
680674 ATTATTAAGTGTTATTT
1 ATTATTAAATGTTATTT
680691 ATT-TTAAA
1 ATTATTAAA
680699 ATTTATTGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 4 0.18
17 17 0.77
18 1 0.05
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (17 bp):
ATTATTAAATGTTATTT
Found at i:681617 original size:18 final size:18
Alignment explanation
Indices: 681582--681617 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
681572 AATTTTGATT
681582 AAAAATTTTTTATCAATA
1 AAAAATTTTTTATCAATA
681600 AAAATATTTTTTAT-AATA
1 AAAA-ATTTTTTATCAATA
681618 TATAAAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
AAAAATTTTTTATCAATA
Found at i:684591 original size:22 final size:22
Alignment explanation
Indices: 684547--684609 Score: 54
Period size: 25 Copynumber: 2.6 Consensus size: 22
684537 CATTACGATT
*
684547 ATAAATATAATATATATATTATTATA
1 ATAAAT-TAA-ATAAATATTA--ATA
* *
684573 ATTAATTATAATAAATATTAATC
1 ATAAATTA-AATAAATATTAATA
684596 ATAAATTAAATAAA
1 ATAAATTAAATAAA
684610 AAATAAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
22 6 0.19
23 9 0.28
25 11 0.34
26 6 0.19
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
ATAAATTAAATAAATATTAATA
Found at i:688041 original size:2 final size:2
Alignment explanation
Indices: 688034--688059 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
688024 GCCTGCCAAC
688034 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
688060 GTTGGAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:692063 original size:23 final size:23
Alignment explanation
Indices: 692028--692071 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
692018 TATTAATATT
692028 TATTTTATAATTTATTAATAAAA
1 TATTTTATAATTTATTAATAAAA
692051 TATTATTAT-ATTTATTAATAA
1 TATT-TTATAATTTATTAATAA
692072 TGTATAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TATTTTATAATTTATTAATAAAA
Found at i:692144 original size:2 final size:2
Alignment explanation
Indices: 692137--692162 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
692127 TTCAAGAATC
692137 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
692163 TCTAATCCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:695716 original size:26 final size:26
Alignment explanation
Indices: 695686--695743 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
695676 ATTTTCCCAC
695686 GATTGTGGGGTTGCCAAATGCCTAAG
1 GATTGTGGGGTTGCCAAATGCCTAAG
695712 GATTGTGGGGTTGCCAAATGCCTAAG
1 GATTGTGGGGTTGCCAAATGCCTAAG
695738 GATTGT
1 GATTGT
695744 TTTCCCACGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.22, C:0.14, G:0.34, T:0.29
Consensus pattern (26 bp):
GATTGTGGGGTTGCCAAATGCCTAAG
Found at i:703247 original size:18 final size:18
Alignment explanation
Indices: 703204--703247 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
703194 AATTTGTTTC
703204 ATAAAATTAAATTTGAATA
1 ATAAAA-TAAATTTGAATA
703223 A-AAAATAATATTT-AATA
1 ATAAAATAA-ATTTGAATA
703240 ATAAAATA
1 ATAAAATA
703248 TTTATACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 8 0.35
18 14 0.61
19 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
ATAAAATAAATTTGAATA
Found at i:703284 original size:7 final size:6
Alignment explanation
Indices: 703263--703330 Score: 52
Period size: 6 Copynumber: 11.2 Consensus size: 6
703253 ACAAATCAAA
* * *
703263 TTAAAT TTAAAT TTATAAT TTAATT TTAAAA TT-AAT TAATTAAT TTAAAT
1 TTAAAT TTAAAT TTA-AAT TTAAAT TTAAAT TTAAAT T--TAAAT TTAAAT
703313 TT-AA- TTAAAT TTACAAT T
1 TTAAAT TTAAAT TTA-AAT T
703331 AATATATAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
4 2 0.04
5 7 0.14
6 26 0.52
7 11 0.22
8 4 0.08
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (6 bp):
TTAAAT
Found at i:703290 original size:19 final size:18
Alignment explanation
Indices: 703261--703320 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 18
703251 ATACAAATCA
703261 AATTAAATTTAAATTTA-T
1 AATT-AATTTAAATTTATT
*
703279 AATTTAATTTTAAAATTAATT
1 AA-TTAA-TTT-AAATTTATT
703300 AATTAATTTAAATTTAATT
1 AATTAATTTAAATTT-ATT
703319 AA
1 AA
703321 ATTTACAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
18 9 0.26
19 13 0.37
20 10 0.29
21 3 0.09
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AATTAATTTAAATTTATT
Found at i:703297 original size:12 final size:12
Alignment explanation
Indices: 703263--703318 Score: 50
Period size: 13 Copynumber: 5.0 Consensus size: 12
703253 ACAAATCAAA
*
703263 TTAAATTTAAAT
1 TTAAATTTAATT
703275 TTATAATTTAATT
1 TTA-AATTTAATT
*
703288 TTAAAATTAA--
1 TTAAATTTAATT
703298 TT-AA-TTAA-T
1 TTAAATTTAATT
703307 TTAAATTTAATT
1 TTAAATTTAATT
703319 AAATTTACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
8 4 0.11
9 4 0.11
10 4 0.11
11 4 0.11
12 10 0.27
13 11 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
TTAAATTTAATT
Found at i:703297 original size:25 final size:25
Alignment explanation
Indices: 703263--703330 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
703253 ACAAATCAAA
* *
703263 TTAAATTTAAATTTATAATTTAATT
1 TTAAAATTAAATTTATAATTTAAAT
*
703288 TTAAAATT-AATTAATTAATTTAAAT
1 TTAAAATTAAATTTA-TAATTTAAAT
*
703313 TT--AATTAAATTTACAATT
1 TTAAAATTAAATTTATAATT
703331 AATATATAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
23 8 0.22
24 10 0.28
25 18 0.50
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (25 bp):
TTAAAATTAAATTTATAATTTAAAT
Found at i:703369 original size:23 final size:22
Alignment explanation
Indices: 703308--703373 Score: 62
Period size: 23 Copynumber: 3.0 Consensus size: 22
703298 TTAATTAATT
* * *
703308 TAAATTTAATTAAATTTACAAT
1 TAAATTTAATCAAATTTATAAA
* *
703330 TAATATATAATCTAATTTATAAA
1 TAA-ATTTAATCAAATTTATAAA
703353 TAAATTTAGATCAAA-TTATAA
1 TAAATTTA-ATCAAATTTATAA
703374 TTATCAAGAA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
22 13 0.37
23 22 0.63
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (22 bp):
TAAATTTAATCAAATTTATAAA
Found at i:706344 original size:25 final size:24
Alignment explanation
Indices: 706314--706396 Score: 71
Period size: 25 Copynumber: 3.5 Consensus size: 24
706304 TATTAAATTA
706314 AAATTAAATAAAATTTTTATATATT
1 AAATTAAATAAAATTTTTATATA-T
* * * *
706339 AAATTAATTTAAATTATTATTTAT
1 AAATTAAATAAAATTTTTATATAT
* *
706363 ATAATAAAATAATATTTTTAT-T-T
1 A-AATTAAATAAAATTTTTATATAT
*
706386 AAATTTAATAA
1 AAATTAAATAA
706397 TAAATATTAA
Statistics
Matches: 46, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
22 8 0.17
23 2 0.04
24 3 0.07
25 33 0.72
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
AAATTAAATAAAATTTTTATATAT
Found at i:706361 original size:29 final size:29
Alignment explanation
Indices: 706292--706375 Score: 80
Period size: 29 Copynumber: 2.8 Consensus size: 29
706282 TTGATTCGAT
*
706292 AATTTTTATTTATATTAAATTAAAATTAAATAA
1 AATTTTTA--TATATTAAATT-AATTTAAAT-A
706325 AATTTTTATATATTAAATTAATTTAAAT-
1 AATTTTTATATATTAAATTAATTTAAATA
* * *
706353 TATTATTTATATAATAAAATAAT
1 AATT-TTTATATATTAAATTAAT
706376 ATTTTTATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
28 3 0.07
29 16 0.35
30 8 0.17
31 11 0.24
33 8 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (29 bp):
AATTTTTATATATTAAATTAATTTAAATA
Found at i:714693 original size:17 final size:17
Alignment explanation
Indices: 714671--714705 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
714661 TTATTTTGTG
714671 TTAAATACAAGTAAATA
1 TTAAATACAAGTAAATA
* *
714688 TTAAATATAAGTAGATA
1 TTAAATACAAGTAAATA
714705 T
1 T
714706 ATTTATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.09, T:0.34
Consensus pattern (17 bp):
TTAAATACAAGTAAATA
Found at i:719093 original size:228 final size:228
Alignment explanation
Indices: 718648--719331 Score: 629
Period size: 228 Copynumber: 3.0 Consensus size: 228
718638 GAGCTTAGAA
* * * * * * *
718648 ACCACCACGAAGACGCAAGA-CAAGATGAAGAGTGGATTCCTTCTGAATGTTGTAATCAGCCAAA
1 ACCACCACGGAGACGCAAAACCAA-ATGAAGGGTTGACTCCTTCTGAATATTGTAATCGGCCAAA
* ** * * ** * * * * * *
718712 GTCCTTCCATCTTCCAATTGTTTGCCAGCAAAAATCAA-CCTTTGCTGATCAGGGGGGATCCCTT
65 GTTCGACCATCCTCGAGCTGCTTCCCAGCAAAGAT-AAGCCTTTGCTGGTCTGGTGGGATCCCTT
* * * * * * * * *
718776 CTTTGTCCTGAATCTTCGCCTTAACATTATCGATGGTATCAGAACTCTCCACCTCC-AGAGTTAT
129 CCTTGTCTTGGATCTTCGCCTTAACGTTGTCGATCGTGTCAGAACTCTCGACTTCCAAG-GTTAT
* * *
718840 CGTCTTCCCAGTCAGAGTCTTGACGAAGATCTGCAT
193 CGTCTTGCCGGTCAGGGTCTTGACGAAGATCTGCAT
* * *
718876 ACCACCACGGAGCCTCAAAACCAAATGAAGGGTTGACTCCTTTTGAATATTGTAATCGGCCAAAG
1 ACCACCACGGAGACGCAAAACCAAATGAAGGGTTGACTCCTTCTGAATATTGTAATCGGCCAAAG
* * * *
718941 TTCGACCGTCCTCGAGTTGCTTCCCAGCAAAGATAAGCCTTTGCTGGTCTGGTGGAATTCCTTCC
66 TTCGACCATCCTCGAGCTGCTTCCCAGCAAAGATAAGCCTTTGCTGGTCTGGTGGGATCCCTTCC
* * *
719006 TTGTCTTGGATCTTCGCCTTGACGTTGTCGATTGTGTCAGAACTCTCGACTTCCAAGGTTATGGT
131 TTGTCTTGGATCTTCGCCTTAACGTTGTCGATCGTGTCAGAACTCTCGACTTCCAAGGTTATCGT
* * * *
719071 TTTGCCGGTTAGGGTTTTGACGAAGATTTGCAT
196 CTTGCCGGTCAGGGTCTTGACGAAGATCTGCAT
* * * ** * ** * * * *
719104 ACCGCCACGTAGACGGAGGACGAGGTGGAGGGTTGACTCCTTCTGGATGTTGTAATCGGCCAAGG
1 ACCACCACGGAGACGCAAAACCAAATGAAGGGTTGACTCCTTCTGAATATTGTAATCGGCCAAAG
* * * * * * * ** *
719169 TTCGGCCATCTTCGAGCTGTTTCCCGGCGAAGATCAGACGCTGTTGGTCTGGTGGGATCCCTTCC
66 TTCGACCATCCTCGAGCTGCTTCCCAGCAAAGATAAGCCTTTGCTGGTCTGGTGGGATCCCTTCC
* * * * *
719234 TTATCTTGGATTTTCGCCTTAACGTTGTCGATCGTGTCGGAACTCTCGACTT-CAAGGGTGATTG
131 TTGTCTTGGATCTTCGCCTTAACGTTGTCGATCGTGTCAGAACTCTCGACTTCCAA-GGTTATCG
* *
719298 TCTTGCCGGTCAGGGTCTTAACAAAGATCTGCAT
195 TCTTGCCGGTCAGGGTCTTGACGAAGATCTGCAT
719332 CTTGTTTGGC
Statistics
Matches: 367, Mismatches: 85, Indels: 8
0.80 0.18 0.02
Matches are distributed among these distances:
227 5 0.01
228 357 0.97
229 5 0.01
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (228 bp):
ACCACCACGGAGACGCAAAACCAAATGAAGGGTTGACTCCTTCTGAATATTGTAATCGGCCAAAG
TTCGACCATCCTCGAGCTGCTTCCCAGCAAAGATAAGCCTTTGCTGGTCTGGTGGGATCCCTTCC
TTGTCTTGGATCTTCGCCTTAACGTTGTCGATCGTGTCAGAACTCTCGACTTCCAAGGTTATCGT
CTTGCCGGTCAGGGTCTTGACGAAGATCTGCAT
Found at i:721354 original size:2 final size:2
Alignment explanation
Indices: 721347--721375 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
721337 GAGCAAGAAC
721347 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
721376 TTGGAGCCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:721926 original size:29 final size:27
Alignment explanation
Indices: 721872--721930 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 27
721862 TTATAATTAA
721872 ATTTTTTATTTAAAAATATTAATAAATT
1 ATTTTTTATTTAAAAATATT-ATAAATT
721900 ATTTTATTATTTAAATAATAATT-TAAATT
1 ATTTT-TTATTTAAA-AAT-ATTATAAATT
721929 AT
1 AT
721931 ATGTACTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
28 5 0.18
29 17 0.61
30 3 0.11
31 3 0.11
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (27 bp):
ATTTTTTATTTAAAAATATTATAAATT
Found at i:725588 original size:2 final size:2
Alignment explanation
Indices: 725581--725622 Score: 66
Period size: 2 Copynumber: 20.5 Consensus size: 2
725571 GAGTATCAAT
*
725581 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA TA AA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA T
725623 TTAATTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:731579 original size:21 final size:20
Alignment explanation
Indices: 731547--731585 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
731537 GATTTATATA
*
731547 AATATTTTTAAAATTAAAAT
1 AATATTTATAAAATTAAAAT
*
731567 AATATTTAATAAATTTAAA
1 AATATTT-ATAAAATTAAA
731586 TTTTAAAGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AATATTTATAAAATTAAAAT
Found at i:732280 original size:2 final size:2
Alignment explanation
Indices: 732273--732308 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
732263 TGTTTATTTG
732273 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
732309 TCTCTGATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:733766 original size:13 final size:13
Alignment explanation
Indices: 733733--733758 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
733723 AAAAATGATC
733733 CAACTAACGTATA
1 CAACTAACGTATA
733746 CAACTAACGTATA
1 CAACTAACGTATA
733759 TAATTAACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (13 bp):
CAACTAACGTATA
Found at i:745480 original size:2 final size:2
Alignment explanation
Indices: 745473--745510 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
745463 GAAGTCAAGC
745473 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
745511 ATGAAATCAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:745797 original size:17 final size:17
Alignment explanation
Indices: 745775--745808 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
745765 TAAGATCACG
745775 GTTAAAATAAAATTAAA
1 GTTAAAATAAAATTAAA
745792 GTTAAAATAAAATTAAA
1 GTTAAAATAAAATTAAA
745809 AAAAATAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (17 bp):
GTTAAAATAAAATTAAA
Found at i:746292 original size:10 final size:10
Alignment explanation
Indices: 746259--746299 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
746249 TTATTTAATT
*
746259 TTTTAAAATT
1 TTTTAAAATA
*
746269 TTTTAATATA
1 TTTTAAAATA
746279 -TTTAAAATA
1 TTTTAAAATA
746288 TTTTAAAA-A
1 TTTTAAAATA
746297 TTT
1 TTT
746300 ATATATTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
9 12 0.44
10 15 0.56
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TTTTAAAATA
Found at i:748862 original size:21 final size:22
Alignment explanation
Indices: 748833--748893 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 22
748823 GTTTTTAGTA
* *
748833 TAAAATTATATCAAAA-GTTGT
1 TAAAATTATATCAAAATATTCT
*
748854 TAAACTTATAT-AAAATATTCT
1 TAAAATTATATCAAAATATTCT
748875 TAAAATTATATC-AAATATT
1 TAAAATTATATCAAAATATT
748894 TATTATGTGG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 4 0.12
21 30 0.88
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (22 bp):
TAAAATTATATCAAAATATTCT
Found at i:749030 original size:16 final size:16
Alignment explanation
Indices: 748987--749048 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
748977 TATTGGTTTA
*
748987 ATTTAATTTATATATAT
1 ATTTTATTTA-ATATAT
*
749004 ATATATATTTAATAT-T
1 AT-TTTATTTAATATAT
*
749020 AATTTTATTTATTATAT
1 -ATTTTATTTAATATAT
*
749037 ATTTTGTTTAAT
1 ATTTTATTTAAT
749049 TTCTTTTATA
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
16 21 0.58
17 9 0.25
18 6 0.17
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (16 bp):
ATTTTATTTAATATAT
Found at i:749060 original size:25 final size:26
Alignment explanation
Indices: 748983--749063 Score: 78
Period size: 26 Copynumber: 3.0 Consensus size: 26
748973 ATTTTATTGG
748983 TTTAAT-TTAATTTATATATATATATATA
1 TTTAATATTAATTT-TAT-T-TATATATA
749011 TTTAATATTAATTTTATTTATTATATA
1 TTTAATATTAATTTTATTTA-TATATA
**
749038 TTTTGT-TTAATTTCT-TTTATATATA
1 TTTAATATTAATTT-TATTTATATATA
749063 T
1 T
749064 ATTATATACA
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
25 7 0.15
26 13 0.27
27 12 0.25
28 9 0.19
29 7 0.15
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (26 bp):
TTTAATATTAATTTTATTTATATATA
Found at i:749137 original size:21 final size:21
Alignment explanation
Indices: 749111--749241 Score: 83
Period size: 21 Copynumber: 6.3 Consensus size: 21
749101 AATTCACCTA
*
749111 AAAATTATATTAAATGTTATT
1 AAAATTATATTAAAAGTTATT
* *
749132 AAAATTA-AGTAAAAAATTATT
1 AAAATTATA-TTAAAAGTTATT
749153 AAAATTA-ATT-AAAGTTGA-T
1 AAAATTATATTAAAAGTT-ATT
* * * * *
749172 CAATTTTTATTAAACA-TCATC
1 AAAATTATATTAAA-AGTTATT
*
749193 AAAATTATATTAAAAGTTACT
1 AAAATTATATTAAAAGTTATT
* * *
749214 AAAATGATATGAAAAGCTTATC
1 AAAATTATATTAAAAG-TTATT
749236 AAAATT
1 AAAATT
749242 GGATCAAAGT
Statistics
Matches: 81, Mismatches: 21, Indels: 15
0.69 0.18 0.13
Matches are distributed among these distances:
19 10 0.12
20 8 0.10
21 54 0.67
22 9 0.11
ACGTcount: A:0.51, C:0.05, G:0.06, T:0.37
Consensus pattern (21 bp):
AAAATTATATTAAAAGTTATT
Found at i:749388 original size:19 final size:19
Alignment explanation
Indices: 749364--749404 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
749354 AATGATTTTA
749364 CCAAGATAAGGCTTAGAGC
1 CCAAGATAAGGCTTAGAGC
749383 CCAAGATAAGGCTTAGAGC
1 CCAAGATAAGGCTTAGAGC
749402 CCA
1 CCA
749405 TATCGTGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
CCAAGATAAGGCTTAGAGC
Found at i:752380 original size:15 final size:15
Alignment explanation
Indices: 752350--752379 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
752340 TTCATATCTC
752350 TAAACATTATTATTT
1 TAAACATTATTATTT
752365 TAAACA-TATTATTT
1 TAAACATTATTATTT
752379 T
1 T
752380 TTTACGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (15 bp):
TAAACATTATTATTT
Found at i:752795 original size:14 final size:14
Alignment explanation
Indices: 752744--752809 Score: 51
Period size: 14 Copynumber: 4.6 Consensus size: 14
752734 TTTCAAATAC
* *
752744 TATAATTTAATATA
1 TATAATATAATAAA
* *
752758 TTTAATAAATATAAA
1 TATAATATA-ATAAA
* *
752773 AATACTATAATAAA
1 TATAATATAATAAA
*
752787 TATAATATAATATA
1 TATAATATAATAAA
*
752801 TTTAATATA
1 TATAATATA
752810 TATTATATTT
Statistics
Matches: 39, Mismatches: 12, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
14 30 0.77
15 9 0.23
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (14 bp):
TATAATATAATAAA
Found at i:753404 original size:23 final size:24
Alignment explanation
Indices: 753354--753404 Score: 56
Period size: 23 Copynumber: 2.2 Consensus size: 24
753344 GAATATATGA
753354 ATAT-ATTAAAATATAGATAAATT
1 ATATAATTAAAATATAGATAAATT
*
753377 A-ATAATTAACATATA-A-AAATTT
1 ATATAATTAAAATATAGATAAA-TT
753399 ATATAA
1 ATATAA
753405 ATTTATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
21 3 0.12
22 6 0.25
23 15 0.62
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (24 bp):
ATATAATTAAAATATAGATAAATT
Found at i:753798 original size:16 final size:17
Alignment explanation
Indices: 753779--753811 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
753769 ATAATTAATG
753779 ATATTTTTAATT-TTTT
1 ATATTTTTAATTATTTT
753795 ATATTTTTAATTATTTT
1 ATATTTTTAATTATTTT
753812 TAATAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
ATATTTTTAATTATTTT
Found at i:753809 original size:10 final size:9
Alignment explanation
Indices: 753779--753816 Score: 53
Period size: 8 Copynumber: 4.3 Consensus size: 9
753769 ATAATTAATG
753779 ATATTTTTA
1 ATATTTTTA
753788 AT-TTTTT-
1 ATATTTTTA
753795 ATATTTTTA
1 ATATTTTTA
753804 ATTATTTTTA
1 A-TATTTTTA
753814 ATA
1 ATA
753817 AAAATTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
7 2 0.08
8 10 0.38
9 5 0.19
10 9 0.35
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
ATATTTTTA
Found at i:754031 original size:18 final size:20
Alignment explanation
Indices: 754008--754045 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
753998 ATACTACTTT
754008 AAATAT-ACA-AAAAAATAA
1 AAATATGACATAAAAAATAA
*
754026 AAATATGACATGAAAAATAA
1 AAATATGACATAAAAAATAA
754046 TTAAAACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 3 0.18
20 8 0.47
ACGTcount: A:0.71, C:0.05, G:0.05, T:0.18
Consensus pattern (20 bp):
AAATATGACATAAAAAATAA
Found at i:754559 original size:12 final size:12
Alignment explanation
Indices: 754510--754607 Score: 74
Period size: 12 Copynumber: 8.1 Consensus size: 12
754500 TTAAAACTTA
754510 ATATAAAAATGAT
1 ATATAAAAAT-AT
*
754523 ATATACATAATAT
1 ATATA-AAAATAT
* * *
754536 AAATATACATAT
1 ATATAAAAATAT
*
754548 GTATAAAAATAT
1 ATATAAAAATAT
754560 ATATAAAAA-AT
1 ATATAAAAATAT
* **
754571 AAATTATTAATAT
1 ATA-TAAAAATAT
*
754584 ATA-AAAAATTT
1 ATATAAAAATAT
754595 ATATAAAAATAT
1 ATATAAAAATAT
754607 A
1 A
754608 ATATTTTAAA
Statistics
Matches: 63, Mismatches: 18, Indels: 9
0.70 0.20 0.10
Matches are distributed among these distances:
11 12 0.19
12 32 0.51
13 15 0.24
14 4 0.06
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (12 bp):
ATATAAAAATAT
Found at i:754573 original size:35 final size:36
Alignment explanation
Indices: 754510--754616 Score: 105
Period size: 35 Copynumber: 2.9 Consensus size: 36
754500 TTAAAACTTA
*
754510 ATATAAAAATGATATATACATAATATAAA-TA-TACATAT
1 ATATAAAAAT-ATATATA-A-AAAATAAATTATTA-ATAT
*
754548 GTATAAAAATATATATAAAAAATAAATTATTAATAT
1 ATATAAAAATATATATAAAAAATAAATTATTAATAT
*
754584 ATA-AAAAATTTATATAAAAATATAATATT-TTAA
1 ATATAAAAATATATATAAAAA-ATAA-ATTATTAA
754617 ATAAAAAATA
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
35 23 0.38
36 17 0.28
37 12 0.20
38 9 0.15
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (36 bp):
ATATAAAAATATATATAAAAAATAAATTATTAATAT
Found at i:754606 original size:21 final size:22
Alignment explanation
Indices: 754582--754630 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
754572 AATTATTAAT
*
754582 ATATAAAAAATTTATAT-AAAA
1 ATATAAAAAATTTAAATAAAAA
* *
754603 ATAT-AATATTTTAAATAAAAA
1 ATATAAAAAATTTAAATAAAAA
754624 ATATAAA
1 ATATAAA
754631 TAGAAAGACA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 9 0.39
21 12 0.52
22 2 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
ATATAAAAAATTTAAATAAAAA
Found at i:754692 original size:34 final size:32
Alignment explanation
Indices: 754644--754734 Score: 83
Period size: 35 Copynumber: 2.7 Consensus size: 32
754634 AAAGACATAA
*
754644 TTTTTTTTTCCTTTTTTTCTTTTTTTGTCTCCTTC
1 TTTTTCTTT-CTTTTTTTCTTTTTTTGTCTCC--C
* *
754679 TTTTTCTTTCTTTTTTTTTTTGTTTTTTTCTCCC
1 TTTTTCTTTC-TTTTTTTCTT-TTTTTGTCTCCC
** *
754713 CCTTTCTTTCTTTTTCTCTTTT
1 TTTTTCTTTCTTTTTTTCTTTT
754735 CCCTCCCGAA
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
32 2 0.04
33 8 0.17
34 10 0.21
35 17 0.36
36 10 0.21
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (32 bp):
TTTTTCTTTCTTTTTTTCTTTTTTTGTCTCCC
Found at i:754704 original size:12 final size:12
Alignment explanation
Indices: 754644--754709 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 12
754634 AAAGACATAA
*
754644 TTTTTTT-TTCC
1 TTTTTTTCTTTC
754655 TTTTTTTC-TT-
1 TTTTTTTCTTTC
* *
754665 TTTTTGTC-TCC
1 TTTTTTTCTTTC
754676 TTCTTTTTCTTTC
1 TT-TTTTTCTTTC
* *
754689 TTTTTTTTTTTG
1 TTTTTTTCTTTC
754701 TTTTTTTCT
1 TTTTTTTCT
754710 CCCCCTTTCT
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
10 8 0.19
11 10 0.23
12 21 0.49
13 4 0.09
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (12 bp):
TTTTTTTCTTTC
Found at i:754862 original size:12 final size:12
Alignment explanation
Indices: 754840--754869 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
754830 ATAGATATAA
754840 AATATTAAAATAT
1 AATA-TAAAATAT
754853 AATATAAAATAT
1 AATATAAAATAT
754865 AATAT
1 AATAT
754870 TAATACGGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AATATAAAATAT
Found at i:754987 original size:24 final size:26
Alignment explanation
Indices: 754960--755008 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
754950 TATTTTAAAC
754960 ATAAAAAATA-T-AAATATAATATTT
1 ATAAAAAATATTAAAATATAATATTT
754984 ATAAAAAATATTTAAAATATAATAT
1 ATAAAAAATA-TTAAAATATAATAT
755009 AAAAATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.45
26 1 0.05
27 11 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (26 bp):
ATAAAAAATATTAAAATATAATATTT
Found at i:755009 original size:5 final size:5
Alignment explanation
Indices: 754999--755125 Score: 56
Period size: 5 Copynumber: 26.4 Consensus size: 5
754989 AAATATTTAA
* * *
754999 AATAT AATAT AAAAAT AATAT -ATGT -ATAT AATAT AA-AT ATATGT ATATAT
1 AATAT AATAT -AATAT AATAT AATAT AATAT AATAT AATAT A-ATAT A-ATAT
* * * * *
755049 AA-A- AATAT AA-AT AAAAT AAAAT AAAAT AATAT -AT-T AATAT -GTAA
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
* **
755093 AATAT ATATAA AATAT AATAT TTTAT AATAT AA
1 AATAT A-ATAT AATAT AATAT AATAT AATAT AA
755126 ATATCAACAT
Statistics
Matches: 94, Mismatches: 17, Indels: 22
0.71 0.13 0.17
Matches are distributed among these distances:
3 3 0.03
4 21 0.22
5 55 0.59
6 15 0.16
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (5 bp):
AATAT
Found at i:755029 original size:19 final size:19
Alignment explanation
Indices: 755005--755057 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
754995 TTAAAATATA
755005 ATATAAAAATAATATATGT
1 ATATAAAAATAATATATGT
*
755024 ATAT-AATATAAATATATGT
1 ATATAAAAAT-AATATATGT
*
755043 ATATATAAA-AATATA
1 ATATAAAAATAATATA
755058 AATAAAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 10 0.34
19 17 0.59
20 2 0.07
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (19 bp):
ATATAAAAATAATATATGT
Found at i:755101 original size:61 final size:63
Alignment explanation
Indices: 754966--755082 Score: 143
Period size: 62 Copynumber: 1.9 Consensus size: 63
754956 AAACATAAAA
* * * **
754966 AATATAAATATA-ATATTTATAAAAAATATTTAAAATATAATATAAAAATAATATATGTATAT
1 AATAAAAATATATGTATATATAAAAAATAAATAAAATATAATATAAAAATAATATATGTATAT
*
755028 AATATAAATATATGTATATATAAAAATATAAATAAAATA-AA-AT-AAAATAATATAT
1 AATAAAAATATATGTATATATAAAAA-ATAAATAAAATATAATATAAAAATAATATAT
755083 TAATATGTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
61 12 0.24
62 14 0.29
63 13 0.27
64 10 0.20
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (63 bp):
AATAAAAATATATGTATATATAAAAAATAAATAAAATATAATATAAAAATAATATATGTATAT
Found at i:755152 original size:4 final size:4
Alignment explanation
Indices: 755143--755188 Score: 51
Period size: 4 Copynumber: 11.8 Consensus size: 4
755133 CATAAATTTT
* *
755143 TTTC TTTC TTTT TTTC -TCC TTTC TTTC TTT- TTTAC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT-C TTTC TTTC TTT
755189 TTCAGCAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
3 5 0.14
4 27 0.77
5 3 0.09
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:755180 original size:16 final size:16
Alignment explanation
Indices: 755139--755190 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
755129 TCAACATAAA
*
755139 TTTTTTTCTTTCTTT-
1 TTTTTTACTTTCTTTC
* *
755154 TTTTCTCCTTTCTTTC
1 TTTTTTACTTTCTTTC
755170 TTTTTTACTTTCTTTC
1 TTTTTTACTTTCTTTC
755186 TTTTT
1 TTTTT
755191 CAGCAAAATG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
15 13 0.41
16 19 0.59
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTTACTTTCTTTC
Found at i:756104 original size:16 final size:18
Alignment explanation
Indices: 756080--756120 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
756070 TTTTATATTA
756080 AAAATAT-AAT-TATTTT
1 AAAATATAAATATATTTT
*
756096 AACATATAAATATATTTT
1 AAAATATAAATATATTTT
756114 AAAATAT
1 AAAATAT
756121 TTAAATACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 6 0.29
17 3 0.14
18 12 0.57
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAATATAAATATATTTT
Found at i:761471 original size:18 final size:18
Alignment explanation
Indices: 761448--761482 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
761438 TTGGAATGGG
*
761448 GAATTTTAAAATTTTAGA
1 GAATTTTAAAATGTTAGA
761466 GAATTTTAAAATGTTAG
1 GAATTTTAAAATGTTAG
761483 CTTTTAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (18 bp):
GAATTTTAAAATGTTAGA
Found at i:765746 original size:14 final size:15
Alignment explanation
Indices: 765729--765757 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
765719 AAATATATCA
765729 ATAT-ATAAAAATTT
1 ATATAATAAAAATTT
765743 ATATAATAAAAATTT
1 ATATAATAAAAATTT
765758 TAAAACTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATATAATAAAAATTT
Found at i:766165 original size:22 final size:22
Alignment explanation
Indices: 766120--766165 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
766110 ATACATCTCA
* *
766120 TAAAAATTAAATTTCAATTGAT
1 TAAAAATGAAATTTCAATTAAT
**
766142 TAAAAATGAAATTTCTTTTAAT
1 TAAAAATGAAATTTCAATTAAT
766164 TA
1 TA
766166 CAACTAAGAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.43
Consensus pattern (22 bp):
TAAAAATGAAATTTCAATTAAT
Found at i:773943 original size:28 final size:28
Alignment explanation
Indices: 773911--773984 Score: 130
Period size: 28 Copynumber: 2.6 Consensus size: 28
773901 TGATTTGATA
*
773911 AAAAAAGATATTTAAAAAAGTTTTTAAAT
1 AAAAATGA-ATTTAAAAAAGTTTTTAAAT
773940 AAAAATGAATTTAAAAAAGTTTTTAAAT
1 AAAAATGAATTTAAAAAAGTTTTTAAAT
773968 AAAAATGAATTTAAAAA
1 AAAAATGAATTTAAAAA
773985 TATAGATAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
28 37 0.84
29 7 0.16
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (28 bp):
AAAAATGAATTTAAAAAAGTTTTTAAAT
Found at i:773980 original size:16 final size:16
Alignment explanation
Indices: 773933--773982 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
773923 TAAAAAAGTT
773933 TTTAAATAAAAATGAA
1 TTTAAATAAAAATGAA
**
773949 TTT--A-AAAAA-GTT
1 TTTAAATAAAAATGAA
773961 TTTAAATAAAAATGAA
1 TTTAAATAAAAATGAA
773977 TTTAAA
1 TTTAAA
773983 AATATAGATA
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
12 4 0.15
13 5 0.19
14 2 0.08
15 5 0.19
16 10 0.38
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (16 bp):
TTTAAATAAAAATGAA
Found at i:773994 original size:28 final size:28
Alignment explanation
Indices: 773911--773996 Score: 84
Period size: 28 Copynumber: 3.0 Consensus size: 28
773901 TGATTTGATA
* ***
773911 AAAAAAGATATTTAAAAAAGTTTTTAAAT
1 AAAAATGA-ATTTAAAAAAGTAGATAAAT
***
773940 AAAAATGAATTTAAAAAAGTTTTTAAAT
1 AAAAATGAATTTAAAAAAGTAGATAAAT
773968 AAAAATGAATTTAAAAATA-TAGATAAAT
1 AAAAATGAATTTAAAAA-AGTAGATAAAT
773996 A
1 A
773997 TTTAAATAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
28 44 0.85
29 8 0.15
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (28 bp):
AAAAATGAATTTAAAAAAGTAGATAAAT
Found at i:774477 original size:22 final size:22
Alignment explanation
Indices: 774451--774503 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
774441 TAATAAAAAA
774451 TTTTATATTAAAATTT-ATATAT
1 TTTTATATTAAAATTTAAT-TAT
774473 TTTTATAATT-AAATTTAATTAT
1 TTTTAT-ATTAAAATTTAATTAT
774495 TTTT-TATTA
1 TTTTATATTA
774504 TTAAACAGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
20 3 0.11
21 1 0.04
22 19 0.68
23 5 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTTATATTAAAATTTAATTAT
Found at i:774506 original size:23 final size:22
Alignment explanation
Indices: 774451--774508 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
774441 TAATAAAAAA
774451 TTTTA-TATTAAAATTTATATAT
1 TTTTATTATT-AAATTTATATAT
*
774473 TTTTATAATTAAATTTA-ATTATT
1 TTTTATTATTAAATTTATA-TA-T
774496 TTTTATTATTAAA
1 TTTTATTATTAAA
774509 CAGTAATACT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 1 0.03
22 14 0.45
23 16 0.52
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTTATTATTAAATTTATATAT
Found at i:775942 original size:32 final size:33
Alignment explanation
Indices: 775879--775944 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
775869 AAAATTATTT
*
775879 TAAAAATAAAATTTTAAATGTGTTAATTTAAAA
1 TAAAAATAAAATTTTAAATATGTTAATTTAAAA
* *
775912 TAAAAATATATTTTTAAATCAT-TTAA-TTAAAA
1 TAAAAATAAAATTTTAAAT-ATGTTAATTTAAAA
775944 T
1 T
775945 TTAAAATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 7 0.24
33 21 0.72
34 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (33 bp):
TAAAAATAAAATTTTAAATATGTTAATTTAAAA
Found at i:775950 original size:7 final size:7
Alignment explanation
Indices: 775938--775967 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
775928 AATCATTTAA
775938 TTAAAAT
1 TTAAAAT
775945 TTAAAAT
1 TTAAAAT
775952 TTAAAAT
1 TTAAAAT
775959 TTAAAAT
1 TTAAAAT
775966 TT
1 TT
775968 CAAGCAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TTAAAAT
Found at i:787257 original size:16 final size:17
Alignment explanation
Indices: 787233--787265 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
787223 TTTTTTTATT
787233 ATTTAATTTTTTAAAAA
1 ATTTAATTTTTTAAAAA
787250 ATTT-ATTTTTTAAAAA
1 ATTTAATTTTTTAAAAA
787266 TAATAGTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTAATTTTTTAAAAA
Found at i:787470 original size:21 final size:21
Alignment explanation
Indices: 787433--787498 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
787423 TAAAGAATTA
*
787433 ATTAT-ATAAATATTTTAAAAT
1 ATTATAATAATTA-TTTAAAAT
* *
787454 ATTATAATAATTATTTATACT
1 ATTATAATAATTATTTAAAAT
*
787475 AATATAATAATTA-TTAAAAT
1 ATTATAATAATTATTTAAAAT
787495 ATTA
1 ATTA
787499 CTTTACGATT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
20 8 0.22
21 23 0.62
22 6 0.16
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTATAATAATTATTTAAAAT
Found at i:787600 original size:22 final size:21
Alignment explanation
Indices: 787567--787614 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 21
787557 CATTAAACTA
787567 TTAAT-TTTTAATAATAAAAT
1 TTAATGTTTTAATAATAAAAT
*
787587 TGTAATGTTTTAATAATAACAT
1 T-TAATGTTTTAATAATAAAAT
787609 TTAATG
1 TTAATG
787615 ATAAATATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 1 0.04
21 9 0.36
22 15 0.60
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (21 bp):
TTAATGTTTTAATAATAAAAT
Found at i:788451 original size:15 final size:15
Alignment explanation
Indices: 788415--788453 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
788405 TTAATTTATA
*
788415 TAATTTATAAATAAT
1 TAATTTTTAAATAAT
* *
788430 TAATTTTTACATATT
1 TAATTTTTAAATAAT
788445 TAATTTTTA
1 TAATTTTTA
788454 TAATTAGCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (15 bp):
TAATTTTTAAATAAT
Found at i:789956 original size:25 final size:26
Alignment explanation
Indices: 789926--789975 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
789916 CATAGCCATT
*
789926 TATTTTTGTAATTCT-TTTTCTTTTA
1 TATTTTTCTAATTCTCTTTTCTTTTA
* *
789951 TATTTTTCTTATTTTCTTTTCTTTT
1 TATTTTTCTAATTCTCTTTTCTTTT
789976 TTTTAATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.76
Consensus pattern (26 bp):
TATTTTTCTAATTCTCTTTTCTTTTA
Found at i:790112 original size:2 final size:2
Alignment explanation
Indices: 790105--790138 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
790095 GTCACAACTA
790105 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
790139 TTTGAGATTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:792630 original size:3 final size:3
Alignment explanation
Indices: 792624--792655 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
792614 TTATTATGCA
792624 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
792656 GATGGAGTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:795251 original size:17 final size:17
Alignment explanation
Indices: 795201--795241 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
795191 GTTAATTTAA
* *
795201 TTAATTTAATTAAAAAT
1 TTAATTTATTTAAAATT
795218 TTAATTTATTTAAAATT
1 TTAATTTATTTAAAATT
795235 TTAATTT
1 TTAATTT
795242 TTATTAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAATTTATTTAAAATT
Found at i:795458 original size:4 final size:4
Alignment explanation
Indices: 795449--795489 Score: 55
Period size: 4 Copynumber: 9.5 Consensus size: 4
795439 AATCTTTTTA
795449 AATT AATT AATT AATT ATATT AATT AAATT AATT AAATT AA
1 AATT AATT AATT AATT A-ATT AATT -AATT AATT -AATT AA
795490 AATTAAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 22 0.65
5 12 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (4 bp):
AATT
Found at i:795458 original size:9 final size:9
Alignment explanation
Indices: 795446--795489 Score: 72
Period size: 9 Copynumber: 5.0 Consensus size: 9
795436 AAAAATCTTT
795446 TTAAATTAA
1 TTAAATTAA
795455 TT-AATTAA
1 TTAAATTAA
*
795463 TTATATTAA
1 TTAAATTAA
795472 TTAAATTAA
1 TTAAATTAA
795481 TTAAATTAA
1 TTAAATTAA
795490 AATTAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
8 8 0.25
9 24 0.75
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
TTAAATTAA
Found at i:795470 original size:13 final size:12
Alignment explanation
Indices: 795449--795489 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
795439 AATCTTTTTA
795449 AATTAATTAATT
1 AATTAATTAATT
795461 AATTATATTAATT
1 AATTA-ATTAATT
795474 AAATTAATTAAATT
1 -AATTAATT-AATT
795488 AA
1 AA
795490 AATTAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 5 0.19
13 12 0.46
14 9 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
AATTAATTAATT
Found at i:809693 original size:14 final size:14
Alignment explanation
Indices: 809676--809715 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
809666 TTATATTATT
*
809676 ATATTTATATTTGA
1 ATATTAATATTTGA
809690 ATA-TAATATATTGA
1 ATATTAATAT-TTGA
809704 ATATTAATATTT
1 ATATTAATATTT
809716 TTAAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 5 0.22
14 12 0.52
15 6 0.26
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (14 bp):
ATATTAATATTTGA
Found at i:809735 original size:15 final size:17
Alignment explanation
Indices: 809715--809751 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
809705 TATTAATATT
809715 TTTAAAA-AA-ATAAAA
1 TTTAAAATAAGATAAAA
*
809730 TTTAAAATAAGATAATA
1 TTTAAAATAAGATAAAA
809747 TTTAA
1 TTTAA
809752 GTACAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 7 0.37
16 2 0.11
17 10 0.53
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (17 bp):
TTTAAAATAAGATAAAA
Found at i:810359 original size:21 final size:20
Alignment explanation
Indices: 810335--810374 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
810325 TTTCCTTAAT
810335 TGTTACAGAATTTTCCAGTTG
1 TGTT-CAGAATTTTCCAGTTG
*
810356 TGTTTAGAATTTTCCAGTT
1 TGTTCAGAATTTTCCAGTT
810375 AATTAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.23, C:0.12, G:0.17, T:0.47
Consensus pattern (20 bp):
TGTTCAGAATTTTCCAGTTG
Found at i:827557 original size:11 final size:11
Alignment explanation
Indices: 827543--827573 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
827533 AAATAATGAT
827543 TAAAAATATAA
1 TAAAAATATAA
*
827554 TAAAAAAATAA
1 TAAAAATATAA
827565 TAAAAATAT
1 TAAAAATAT
827574 TTTAATCCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
TAAAAATATAA
Found at i:828110 original size:20 final size:19
Alignment explanation
Indices: 828087--828159 Score: 58
Period size: 19 Copynumber: 3.7 Consensus size: 19
828077 ATATATAATT
828087 TATATAAATAAATAATAAAA
1 TATATAAATAAATAA-AAAA
*
828107 TATAATAATTAAATTAAATAAA
1 TAT-ATAAATAAA-TAAA-AAA
* * *
828129 TATA-AATTAGATAAAAAT
1 TATATAAATAAATAAAAAA
*
828147 TATAAAAATAAAT
1 TATATAAATAAAT
828160 TATTTTTAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
18 6 0.14
19 10 0.23
20 9 0.20
21 10 0.23
22 9 0.20
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (19 bp):
TATATAAATAAATAAAAAA
Found at i:828312 original size:2 final size:2
Alignment explanation
Indices: 828305--828348 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
828295 AAATACTTTA
*
828305 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
828346 AT A
1 AT A
828349 AATTTTGGAC
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:828529 original size:11 final size:11
Alignment explanation
Indices: 828513--828542 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
828503 CTCTCTTTGG
828513 CTTTTTCTTTC
1 CTTTTTCTTTC
828524 CTTTTTCTTTC
1 CTTTTTCTTTC
*
828535 CCTTTTCT
1 CTTTTTCT
828543 GTTCTTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (11 bp):
CTTTTTCTTTC
Found at i:831372 original size:27 final size:27
Alignment explanation
Indices: 831334--831386 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
831324 TGCAACTTTC
* *
831334 ACTGTTTCAAATTTAATTTCATAATTT
1 ACTGTTTCAAATTGAATTTCAAAATTT
831361 ACTGTTTCAAATTGAATTTCAAAATT
1 ACTGTTTCAAATTGAATTTCAAAATT
831387 GGCGGCACAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.36, C:0.11, G:0.06, T:0.47
Consensus pattern (27 bp):
ACTGTTTCAAATTGAATTTCAAAATTT
Found at i:831601 original size:41 final size:37
Alignment explanation
Indices: 831518--831619 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
831508 TCCAGACTCA
*
831518 TGAAAGAAAGAAAGAAAATTGGGGTGGCGGCCCCATG
1 TGAAAGAAAGAAAGAAAATTAGGGTGGCGGCCCCATG
*
831555 TGAAAGAAAGAAAGAAAATTAGGGTGGCGGCCTCATG
1 TGAAAGAAAGAAAGAAAATTAGGGTGGCGGCCCCATG
831592 TGAAAGAAAGAAAGAAAATT-GGGTGGCG
1 TGAAAGAAAGAAAGAAAATTAGGGTGGCG
831620 CAGCCTTTGT
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
36 8 0.13
37 55 0.87
ACGTcount: A:0.41, C:0.10, G:0.34, T:0.15
Consensus pattern (37 bp):
TGAAAGAAAGAAAGAAAATTAGGGTGGCGGCCCCATG
Found at i:831743 original size:37 final size:37
Alignment explanation
Indices: 831699--831797 Score: 180
Period size: 37 Copynumber: 2.7 Consensus size: 37
831689 TCCAGCCCCA
831699 TGAAAGAAAGAAAGAAAATTGGGGTGACGGCCCCATG
1 TGAAAGAAAGAAAGAAAATTGGGGTGACGGCCCCATG
* *
831736 TGAAAGAAAGAAAGAAAATTAGGGTGGCGGCCCCATG
1 TGAAAGAAAGAAAGAAAATTGGGGTGACGGCCCCATG
831773 TGAAAGAAAGAAAGAAAATTGGGGT
1 TGAAAGAAAGAAAGAAAATTGGGGT
831798 TTTTAACAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.43, C:0.10, G:0.32, T:0.14
Consensus pattern (37 bp):
TGAAAGAAAGAAAGAAAATTGGGGTGACGGCCCCATG
Found at i:832291 original size:2 final size:2
Alignment explanation
Indices: 832284--832309 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
832274 TTTCTAAACA
832284 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
832310 GTTGTTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:835793 original size:2 final size:2
Alignment explanation
Indices: 835786--835822 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
835776 AAAGGGAAAT
835786 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
835823 GTGAATAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:837295 original size:23 final size:19
Alignment explanation
Indices: 837269--837315 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 19
837259 CTTTTACTAC
837269 TAATTAAATCAAATAAATTGAA
1 TAATTAAAT-AAA-AAATT-AA
837291 TTAATTAAATAAAAAATTAA
1 -TAATTAAATAAAAAATTAA
837311 TAATT
1 TAATT
837316 TATTTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.21
20 2 0.08
21 5 0.21
22 3 0.12
23 9 0.38
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (19 bp):
TAATTAAATAAAAAATTAA
Found at i:837345 original size:18 final size:17
Alignment explanation
Indices: 837303--837345 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
837293 AATTAAATAA
*
837303 AAAATTAATAATTTATT
1 AAAATTAATAATATATT
* *
837320 TAATTTAATAAATATATT
1 AAAATTAAT-AATATATT
837338 AAAATTAA
1 AAAATTAA
837346 AATTTGATTG
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAATTAATAATATATT
Found at i:841091 original size:24 final size:24
Alignment explanation
Indices: 841058--841105 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
841048 ATAAAAATTT
841058 TTATCCAATTTCAAAATTTAAAAA
1 TTATCCAATTTCAAAATTTAAAAA
* **
841082 TTATCTAATTTTTAAATTTAAAAA
1 TTATCCAATTTCAAAATTTAAAAA
841106 AAAATATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (24 bp):
TTATCCAATTTCAAAATTTAAAAA
Found at i:851577 original size:17 final size:16
Alignment explanation
Indices: 851557--851588 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
851547 TTATATATAT
851557 AAATTTTAAATTAATTA
1 AAATTTT-AATTAATTA
851574 AAATTTTAATTAATT
1 AAATTTTAATTAATT
851589 GATAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AAATTTTAATTAATTA
Found at i:851663 original size:19 final size:19
Alignment explanation
Indices: 851639--851690 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
851629 AATTTTTTTT
*
851639 ATATTTAATAAATATTTAA
1 ATATTTAATATATATTTAA
* *
851658 ATATTTATTATTTATTTAA
1 ATATTTAATATATATTTAA
851677 A-ATTTAATATATAT
1 ATATTTAATATATAT
851691 GATTTATATG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 11 0.39
19 17 0.61
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATATTTAATATATATTTAA
Found at i:851685 original size:25 final size:27
Alignment explanation
Indices: 851647--851697 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
851637 TTATATTTAA
* *
851647 TAAATATTTAAATATTTATTATTTATT
1 TAAATATTTAAATATATATGATTTATT
851674 TAAA-ATTT-AATATATATGATTTAT
1 TAAATATTTAAATATATATGATTTAT
851698 ATGAATAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 14 0.64
26 4 0.18
27 4 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (27 bp):
TAAATATTTAAATATATATGATTTATT
Found at i:853265 original size:2 final size:2
Alignment explanation
Indices: 853258--853290 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
853248 AGGAAAATTT
853258 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
853291 GAATAAAGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:855106 original size:29 final size:30
Alignment explanation
Indices: 855058--855114 Score: 107
Period size: 29 Copynumber: 1.9 Consensus size: 30
855048 ATCTGAATTG
855058 GATATAATTAATATAAATAAAAATATATTA
1 GATATAATTAATATAAATAAAAATATATTA
855088 GATATAATT-ATATAAATAAAAATATAT
1 GATATAATTAATATAAATAAAAATATAT
855115 AATTTATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
29 18 0.67
30 9 0.33
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (30 bp):
GATATAATTAATATAAATAAAAATATATTA
Found at i:855115 original size:14 final size:14
Alignment explanation
Indices: 855068--855116 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
855058 GATATAATTA
855068 ATATAAATAAAAAT
1 ATATAAATAAAAAT
* * *
855082 ATATTAGATATAATT
1 ATA-TAAATAAAAAT
855097 ATATAAATAAAAAT
1 ATATAAATAAAAAT
855111 ATATAA
1 ATATAA
855117 TTTATTTATT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
14 17 0.61
15 11 0.39
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (14 bp):
ATATAAATAAAAAT
Found at i:855629 original size:29 final size:29
Alignment explanation
Indices: 855596--855666 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 29
855586 AATCATCGAA
855596 TTAATTAAATAAATCA-ATTAATAATT-T-AT
1 TTAATT-AATAAAT-ATATTAA-AATTATAAT
855625 TTAATGTAATAAATATATTAAAATTATAAT
1 TTAAT-TAATAAATATATTAAAATTATAAT
*
855655 TTAATTGATAAA
1 TTAATTAATAAA
855667 AAATTAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
28 5 0.14
29 24 0.65
30 8 0.22
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (29 bp):
TTAATTAATAAATATATTAAAATTATAAT
Found at i:861356 original size:31 final size:31
Alignment explanation
Indices: 861294--861356 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
861284 TTAAATTATT
* *
861294 ATTTAATAATAAATATAATATTTTATTTAAA
1 ATTTAATAATAAATATAATATATTATATAAA
*
861325 ATTTAATTATAAATATTAATA-ATTATATAAA
1 ATTTAATAATAAATA-TAATATATTATATAAA
861356 A
1 A
861357 ATAATATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 23 0.82
32 5 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (31 bp):
ATTTAATAATAAATATAATATATTATATAAA
Found at i:861364 original size:23 final size:24
Alignment explanation
Indices: 861336--861391 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 24
861326 TTTAATTATA
861336 AATATTAATAATTATAT-AAAAAT
1 AATATTAATAATTATATGAAAAAT
* * *
861359 AATATT-TTACTTATATGATAAAT
1 AATATTAATAATTATATGAAAAAT
861382 AATA-TAATAA
1 AATATTAATAA
861392 ATTTTTAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (24 bp):
AATATTAATAATTATATGAAAAAT
Found at i:867546 original size:28 final size:26
Alignment explanation
Indices: 867507--867602 Score: 106
Period size: 26 Copynumber: 3.7 Consensus size: 26
867497 CAAAAATCAC
* *
867507 TCTTTTTGTTTGTAAAAAATAGTGATT
1 TCTTTTTGTTTGTCAAAAATAATGA-T
*
867534 TCTTTTTTGTTTGTCAAAAATAATTAT
1 TC-TTTTTGTTTGTCAAAAATAATGAT
**
867561 TCTTTTTGTTTGTCAAAAATGTTGA-
1 TCTTTTTGTTTGTCAAAAATAATGAT
*
867586 -CTTATTGTTTGTCAAAA
1 TCTTTTTGTTTGTCAAAA
867603 TTGATGACTA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
24 16 0.26
26 20 0.33
27 5 0.08
28 20 0.33
ACGTcount: A:0.28, C:0.07, G:0.12, T:0.52
Consensus pattern (26 bp):
TCTTTTTGTTTGTCAAAAATAATGAT
Found at i:867573 original size:26 final size:27
Alignment explanation
Indices: 867507--867580 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 27
867497 CAAAAATCAC
* *
867507 TCTTTTTGTTTGTAAAAAATAGTGATT
1 TCTTTTTGTTTGTCAAAAATAATGATT
*
867534 TCTTTTTTGTTTGTCAAAAATAATTA-T
1 TC-TTTTTGTTTGTCAAAAATAATGATT
867561 TCTTTTTGTTTGTCAAAAAT
1 TCTTTTTGTTTGTCAAAAAT
867581 GTTGACTTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 18 0.42
27 5 0.12
28 20 0.47
ACGTcount: A:0.28, C:0.07, G:0.11, T:0.54
Consensus pattern (27 bp):
TCTTTTTGTTTGTCAAAAATAATGATT
Found at i:867598 original size:24 final size:24
Alignment explanation
Indices: 867540--867611 Score: 74
Period size: 24 Copynumber: 2.9 Consensus size: 24
867530 GATTTCTTTT
* *
867540 TTGTTTGTCAAAAATAATT-ATTCTTT
1 TTGTTTGTCAAAAAT-GTTGA--CTTA
867566 TTGTTTGTCAAAAATGTTGACTTA
1 TTGTTTGTCAAAAATGTTGACTTA
* *
867590 TTGTTTGTCAAAATTGATGACT
1 TTGTTTGTCAAAAATGTTGACT
867612 AATTTTATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
24 23 0.56
25 2 0.05
26 16 0.39
ACGTcount: A:0.29, C:0.08, G:0.14, T:0.49
Consensus pattern (24 bp):
TTGTTTGTCAAAAATGTTGACTTA
Found at i:872066 original size:27 final size:26
Alignment explanation
Indices: 872036--872114 Score: 79
Period size: 28 Copynumber: 2.9 Consensus size: 26
872026 CAAAAGCCAC
*
872036 CCTTTTTGTTTATAAAAAATAGTTGTT
1 CCTTTTTGTTTAT-AAAAATAGTGGTT
*
872063 CCTTTTTTGTTTGATAAAAATTGTGGTT
1 CC-TTTTTGTTT-ATAAAAATAGTGGTT
* *
872091 -CTTTTTGTTTGTCAAAAATGGTGG
1 CCTTTTTGTTTAT-AAAAATAGTGG
872115 CTTGTTGTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
25 1 0.02
26 19 0.42
27 3 0.07
28 20 0.44
29 2 0.04
ACGTcount: A:0.24, C:0.08, G:0.18, T:0.51
Consensus pattern (26 bp):
CCTTTTTGTTTATAAAAATAGTGGTT
Found at i:872107 original size:26 final size:26
Alignment explanation
Indices: 872037--872131 Score: 88
Period size: 26 Copynumber: 3.7 Consensus size: 26
872027 AAAAGCCACC
* * *
872037 CTTTTTGTTTATAAAAAATAGTTGTT
1 CTTTTTGTTTGTCAAAAATAGTGGTT
*
872063 CCTTTTTTGTTTGAT-AAAAATTGTGGTT
1 -C-TTTTTGTTTG-TCAAAAATAGTGGTT
*
872091 CTTTTTGTTTGTCAAAAATGGTGG--
1 CTTTTTGTTTGTCAAAAATAGTGGTT
*
872115 CTTGTTGTTTGTCAAAA
1 CTTTTTGTTTGTCAAAA
872132 TTGGTGGCTA
Statistics
Matches: 60, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
24 16 0.27
25 1 0.02
26 20 0.33
27 2 0.03
28 20 0.33
29 1 0.02
ACGTcount: A:0.24, C:0.07, G:0.18, T:0.51
Consensus pattern (26 bp):
CTTTTTGTTTGTCAAAAATAGTGGTT
Found at i:872127 original size:24 final size:24
Alignment explanation
Indices: 872069--872140 Score: 83
Period size: 24 Copynumber: 2.9 Consensus size: 24
872059 TGTTCCTTTT
* *
872069 TTGTTTGAT-AAAAATTGTGGTTCTTT
1 TTGTTTG-TCAAAAATGGTGG--CTTG
872095 TTGTTTGTCAAAAATGGTGGCTTG
1 TTGTTTGTCAAAAATGGTGGCTTG
*
872119 TTGTTTGTCAAAATTGGTGGCT
1 TTGTTTGTCAAAAATGGTGGCT
872141 AATTTTTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
24 24 0.57
25 1 0.02
26 17 0.40
ACGTcount: A:0.21, C:0.07, G:0.25, T:0.47
Consensus pattern (24 bp):
TTGTTTGTCAAAAATGGTGGCTTG
Done.