Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold21
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: 2821038
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.33
Warning! 98422 characters in sequence are not A, C, G, or T
File 7 of 15
Found at i:887946 original size:48 final size:48
Alignment explanation
Indices: 887835--887931 Score: 117
Period size: 48 Copynumber: 2.0 Consensus size: 48
887825 TTCATATTTT
** * *
887835 TATAATTAAAATAAAAATAAAAATATTTTTATATTAATAATAATATTTA
1 TATAATT-AAATTTAAATAAAAATATTTTTATATAAATAATAATATTAA
887884 TATAATTAAATTTAAATAAAAATAAATTTTTAT-TAAATAATAAT-TTAA
1 TATAATTAAATTTAAATAAAAAT--ATTTTTATATAAATAATAATATTAA
887932 ATTAAATTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
48 17 0.40
49 17 0.40
50 8 0.19
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (48 bp):
TATAATTAAATTTAAATAAAAATATTTTTATATAAATAATAATATTAA
Found at i:888234 original size:18 final size:18
Alignment explanation
Indices: 888209--888263 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
888199 TTAATTATTT
888209 TTAA-AAATTTATATAT-
1 TTAATAAATTTATATATA
888225 TTATATAAA-TTATAATATA
1 TTA-ATAAATTTAT-ATATA
888244 TTAAT-AATTTATATTATA
1 TTAATAAATTTATA-TATA
888262 TT
1 TT
888264 TATTTTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
16 3 0.09
17 8 0.24
18 19 0.58
19 3 0.09
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTAATAAATTTATATATA
Found at i:888242 original size:20 final size:20
Alignment explanation
Indices: 888219--888266 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
888209 TTAAAAATTT
888219 ATATATTTATATAAATTATA
1 ATATATTTATATAAATTATA
*
888239 ATATA-TTA-ATAATTTATA
1 ATATATTTATATAAATTATA
*
888257 TTATATTTAT
1 ATATATTTAT
888267 TTTATTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 13 0.54
19 6 0.25
20 5 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATATATTTATATAAATTATA
Found at i:888264 original size:11 final size:11
Alignment explanation
Indices: 888240--888294 Score: 58
Period size: 11 Copynumber: 4.9 Consensus size: 11
888230 TAAATTATAA
888240 TATATTAATAATT
1 TATATT-AT-ATT
888253 TATATTATATT
1 TATATTATATT
*
888264 TATTTTAT-TT
1 TATATTATATT
* *
888274 TTTATTATTTT
1 TATATTATATT
888285 TATATTATAT
1 TATATTATAT
888295 AATTGTATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
10 8 0.22
11 20 0.56
12 2 0.06
13 6 0.17
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TATATTATATT
Found at i:888886 original size:20 final size:18
Alignment explanation
Indices: 888847--888913 Score: 61
Period size: 16 Copynumber: 3.9 Consensus size: 18
888837 TTTTAATTAA
888847 TAATTATATATAAATTTT
1 TAATTATATATAAATTTT
*
888865 TAATTATATTTAAAATTTT
1 TAATTATATAT-AAATTTT
* *
888884 TTATTA-A-ATTAATTTT
1 TAATTATATATAAATTTT
*
888900 T-ATTTTAT-TAAATT
1 TAATTATATATAAATT
888914 ATTATTTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
15 3 0.08
16 13 0.32
17 1 0.03
18 11 0.28
19 12 0.30
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TAATTATATATAAATTTT
Found at i:888909 original size:15 final size:16
Alignment explanation
Indices: 888857--888947 Score: 71
Period size: 15 Copynumber: 5.6 Consensus size: 16
888847 TAATTATATA
*
888857 TAAATTTTTAATTATATT
1 TAAATTTTT-ATT-TAAT
*
888875 TAAAATTTTTTATTAAAT
1 T-AAA-TTTTTATTTAAT
*
888893 T-AATTTTTATTTTAT
1 TAAATTTTTATTTAAT
*
888908 TAAATTATTATTTTAA-
1 TAAATTTTTA-TTTAAT
*
888924 -AAATTTATATTTAAT
1 TAAATTTTTATTTAAT
888939 TAAATTTTT
1 TAAATTTTT
888948 TAATTTCAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
14 5 0.09
15 18 0.31
16 16 0.28
17 4 0.07
18 4 0.07
19 6 0.10
20 5 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TAAATTTTTATTTAAT
Found at i:888960 original size:47 final size:45
Alignment explanation
Indices: 888867--888965 Score: 103
Period size: 46 Copynumber: 2.1 Consensus size: 45
888857 TAAATTTTTA
* * *
888867 ATTATATTTAAAATTTTTTATTAAATTAATTTTTATTTTATTAAATT
1 ATTAT-TTTAAAAATTTATATTAAATTAATTTTTATTTCA-TAAATT
*
888914 ATTATTTTAAAAATTTATATTTAATTAAATTTTTTAATTTCA-AAATT
1 ATTATTTTAAAAATTTATATTAAATT-AA-TTTTT-ATTTCATAAATT
888961 -TTATT
1 ATTATT
888966 ACATATTATG
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
46 23 0.51
47 12 0.27
48 5 0.11
49 5 0.11
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (45 bp):
ATTATTTTAAAAATTTATATTAAATTAATTTTTATTTCATAAATT
Found at i:889317 original size:21 final size:22
Alignment explanation
Indices: 889275--889317 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
889265 CAATAATAAA
889275 AAAATTTATAAATATTAAAATT
1 AAAATTTATAAATATTAAAATT
* *
889297 AAAATTT-TAAATTTTATAATT
1 AAAATTTATAAATATTAAAATT
889318 TAATGATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AAAATTTATAAATATTAAAATT
Found at i:889538 original size:3 final size:3
Alignment explanation
Indices: 889498--889522 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
889488 CCACTACAAC
889498 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
889523 TTTATTTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:891015 original size:30 final size:30
Alignment explanation
Indices: 890979--891041 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
890969 ATTAAAGAGA
890979 AATAAATTTGAAGAAGGTGAATATGTAGAC
1 AATAAATTTGAAGAAGGTGAATATGTAGAC
* *
891009 AATAAATTTGAAGAAGGTGACTATGTTGAC
1 AATAAATTTGAAGAAGGTGAATATGTAGAC
891039 AAT
1 AAT
891042 GACAAAGAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.44, C:0.05, G:0.22, T:0.29
Consensus pattern (30 bp):
AATAAATTTGAAGAAGGTGAATATGTAGAC
Found at i:891460 original size:2 final size:2
Alignment explanation
Indices: 891453--891516 Score: 76
Period size: 2 Copynumber: 32.0 Consensus size: 2
891443 GGTAAGCATA
* * * *
891453 AT AT AT AT AC AT AT AT TT AT AT AT -T GAT AT AT AC AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT
891495 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
891517 GTGTGTGTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
1 1 0.02
2 50 0.96
3 1 0.02
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:896648 original size:21 final size:21
Alignment explanation
Indices: 896624--896673 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
896614 TTAAGATTAG
**
896624 ATTATTTTAAATAAT-TAAGTT
1 ATTATTTTAAA-AATATAAAAT
896645 ATTA-TTTAAAAATATAAAAT
1 ATTATTTTAAAAATATAAAAT
896665 ATTATTTTA
1 ATTATTTTA
896674 TATTAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 3 0.12
20 14 0.56
21 8 0.32
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
ATTATTTTAAAAATATAAAAT
Found at i:903817 original size:11 final size:11
Alignment explanation
Indices: 903796--903834 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
903786 ATAATGTAAA
903796 ATAATAAATAAT
1 ATAA-AAATAAT
903808 ATAAAAATAAT
1 ATAAAAATAAT
**
903819 ATAAGCATAAT
1 ATAAAAATAAT
903830 ATAAA
1 ATAAA
903835 TATATGAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 20 0.83
12 4 0.17
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (11 bp):
ATAAAAATAAT
Found at i:904299 original size:16 final size:16
Alignment explanation
Indices: 904278--904310 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
904268 TTTGATAAAG
904278 TAAAGTAGTATAATTC
1 TAAAGTAGTATAATTC
904294 TAAAGTAGTATAATTC
1 TAAAGTAGTATAATTC
904310 T
1 T
904311 TTCAAGACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.39
Consensus pattern (16 bp):
TAAAGTAGTATAATTC
Found at i:911669 original size:2 final size:2
Alignment explanation
Indices: 911664--911690 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
911654 CACACAGATT
911664 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 T
911691 TTAATCCTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:911722 original size:14 final size:14
Alignment explanation
Indices: 911703--911736 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
911693 AATCCTCAGT
911703 TCCTTATATGATTC
1 TCCTTATATGATTC
*
911717 TCCTTATATGCTTC
1 TCCTTATATGATTC
911731 TCCTTA
1 TCCTTA
911737 GATTCTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.26, G:0.06, T:0.50
Consensus pattern (14 bp):
TCCTTATATGATTC
Found at i:913614 original size:2 final size:2
Alignment explanation
Indices: 913607--913632 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
913597 TTTCTTAATG
913607 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
913633 GTGTGTACCT
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:923166 original size:6 final size:6
Alignment explanation
Indices: 923155--923185 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
923145 ATTTATTATA
923155 AAAATT AAAATT AAAATT AAAATT ATAAATT
1 AAAATT AAAATT AAAATT AAAATT A-AAATT
923186 TAATATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.79
7 5 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
AAAATT
Found at i:924817 original size:20 final size:20
Alignment explanation
Indices: 924794--924837 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
924784 AATCATGAAT
924794 AAATAAATATATTATAAAAC
1 AAATAAATATATTATAAAAC
924814 AAATAAATATATTATAAAAC
1 AAATAAATATATTATAAAAC
924834 AAAT
1 AAAT
924838 GTAAAACTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (20 bp):
AAATAAATATATTATAAAAC
Found at i:925950 original size:2 final size:2
Alignment explanation
Indices: 925937--925967 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
925927 TGTAAAGAGT
925937 TA TA TCA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA
925968 GAGAGAGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:925972 original size:2 final size:2
Alignment explanation
Indices: 925967--926002 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
925957 ATATATATAT
925967 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
926003 GAAGTGTTTA
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:927590 original size:6 final size:5
Alignment explanation
Indices: 927568--927713 Score: 55
Period size: 5 Copynumber: 30.6 Consensus size: 5
927558 TTGATCATTT
* * *
927568 TAATT TAATA -AAAA TAATTA TAATA TAATA TAAATA TAA-A -AATA TATTA
1 TAATA TAATA TAATA TAA-TA TAATA TAATA T-AATA TAATA TAATA TAATA
* * * * * *
927617 T-AT- TTATA TAATA TAA-A TTAT- TAATA TATTAA AAATT TTATA TAA-A
1 TAATA TAATA TAATA TAATA TAATA TAATA TAAT-A TAATA TAATA TAATA
** *
927663 T-ATA TAATA TTTTA -AATA TAATTA TAATA T-ATA -AAAA TAATA TAAATA
1 TAATA TAATA TAATA TAATA TAA-TA TAATA TAATA TAATA TAATA T-AATA
927711 TAA
1 TAA
927714 AAATTATTAA
Statistics
Matches: 102, Mismatches: 22, Indels: 34
0.65 0.14 0.22
Matches are distributed among these distances:
3 4 0.04
4 25 0.25
5 51 0.50
6 22 0.22
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAATA
Found at i:927603 original size:11 final size:11
Alignment explanation
Indices: 927575--927713 Score: 57
Period size: 11 Copynumber: 12.9 Consensus size: 11
927565 TTTTAATTTA
*
927575 ATAAAAATAAT
1 ATAAATATAAT
927586 -TATAATATAAT
1 ATA-AATATAAT
927597 ATAAATATAA-
1 ATAAATATAAT
*
927607 A-AATATATTAT
1 ATAA-ATATAAT
**
927618 ATTTATATAAT
1 ATAAATATAAT
927629 ATAAAT-T-AT
1 ATAAATATAAT
*
927638 -T-AATATATT
1 ATAAATATAAT
* * *
927647 AAAAATTTTAT
1 ATAAATATAAT
927658 ATAAATATATAAT
1 AT-AA-ATATAAT
927671 ATTTTAAATATAAT
1 A---TAAATATAAT
927685 -TATAATAT-AT
1 ATA-AATATAAT
927695 A-AAA-ATAAT
1 ATAAATATAAT
927704 ATAAATATAA
1 ATAAATATAA
927714 AAATTATTAA
Statistics
Matches: 94, Mismatches: 15, Indels: 38
0.64 0.10 0.26
Matches are distributed among these distances:
7 3 0.03
8 4 0.04
9 10 0.11
10 17 0.18
11 40 0.43
12 4 0.04
13 6 0.06
14 7 0.07
15 2 0.02
16 1 0.01
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
ATAAATATAAT
Found at i:927631 original size:18 final size:18
Alignment explanation
Indices: 927608--927688 Score: 50
Period size: 18 Copynumber: 4.6 Consensus size: 18
927598 TAAATATAAA
927608 AATATATTATATTTATAT
1 AATATATTATATTTATAT
927626 AATATA--A-A-TTAT-T
1 AATATATTATATTTATAT
*
927639 AATATATTAAAAATTTTATAT
1 AATATATT--ATA-TTTATAT
*
927660 AAATATATAATATTT-TA-
1 -AATATATTATATTTATAT
927677 AATATAATTATA
1 AATAT-ATTATA
927689 ATATATAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 21
0.68 0.04 0.28
Matches are distributed among these distances:
13 7 0.14
14 4 0.08
15 1 0.02
16 6 0.12
17 6 0.12
18 9 0.18
19 3 0.06
20 6 0.12
21 1 0.02
22 7 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
AATATATTATATTTATAT
Found at i:927679 original size:27 final size:29
Alignment explanation
Indices: 927589--927696 Score: 89
Period size: 29 Copynumber: 3.7 Consensus size: 29
927579 AAATAATTAT
* *
927589 AATATAATATAAATATAAAAATATATTATATT
1 AATATAATATAAATAT-ATAATATATTA-A-A
*
927621 TATATAATATAAAT-TATTAATATATTAAA
1 AATATAATATAAATATA-TAATATATTAAA
* * *
927650 AATTTTATATAAATATATAATAT-TT-TA
1 AATATAATATAAATATATAATATATTAAA
927677 AATATAAT-TATAATATATAA
1 AATATAATATA-AATATATAA
927697 AAATAATATA
Statistics
Matches: 64, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.03
27 16 0.25
28 2 0.03
29 17 0.27
30 4 0.06
31 10 0.16
32 13 0.20
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
AATATAATATAAATATATAATATATTAAA
Found at i:928634 original size:19 final size:18
Alignment explanation
Indices: 928594--928634 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
928584 ATATTTATTT
928594 TTAAATATATATGAGATA
1 TTAAATATATATGAGATA
928612 -TAAATATGAATATGA-ATA
1 TTAAATAT--ATATGAGATA
928630 TTAAA
1 TTAAA
928635 AAAATAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
17 7 0.35
18 3 0.15
19 10 0.50
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.37
Consensus pattern (18 bp):
TTAAATATATATGAGATA
Found at i:929715 original size:17 final size:17
Alignment explanation
Indices: 929693--929767 Score: 64
Period size: 17 Copynumber: 4.3 Consensus size: 17
929683 ATTTAATATT
929693 TAAATTTTTATATAATA
1 TAAATTTTTATATAATA
* * *
929710 TAAATTAATAATATATTA
1 TAAATT-TTTATATAATA
*
929728 -AAATTTATATAT-ATA
1 TAAATTTTTATATAATA
929743 TAATATTTTATATATAATTA
1 TAA-ATTTT-TATATAA-TA
929763 TAAAT
1 TAAAT
929768 AAAAAATAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
15 2 0.05
16 6 0.14
17 15 0.34
18 13 0.30
19 3 0.07
20 5 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAAATTTTTATATAATA
Found at i:929741 original size:18 final size:17
Alignment explanation
Indices: 929678--929758 Score: 59
Period size: 18 Copynumber: 5.0 Consensus size: 17
929668 GGTAATTTTT
929678 TTAAAA-TTTA-ATAT-
1 TTAAAATTTTATATATA
929692 TT-AAATTTT-TATATA
1 TTAAAATTTTATATATA
* *
929707 ATATAAA-TTAATAATATA
1 TTA-AAATTTTAT-ATATA
929725 TTAAAA-TTTATATATA
1 TTAAAATTTTATATATA
*
929741 TATAATATTTTATATATA
1 T-TAAAATTTTATATATA
929759 ATTATAAATA
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
13 3 0.06
14 9 0.17
15 1 0.02
16 8 0.15
17 15 0.28
18 17 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTAAAATTTTATATATA
Found at i:929756 original size:32 final size:32
Alignment explanation
Indices: 929679--929757 Score: 81
Period size: 34 Copynumber: 2.4 Consensus size: 32
929669 GTAATTTTTT
* * *
929679 TAAAATTTA-ATATTTAAATTTTTATATAATA
1 TAAATTTTATATATTAAAATTTATATATAATA
*
929710 TAAATTAATAATATATTAAAATTTATATAT-ATA
1 TAAATT--TTATATATTAAAATTTATATATAATA
929743 TAATATTTTATATAT
1 TAA-ATTTTATATAT
929758 AATTATAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
31 5 0.13
32 7 0.18
33 8 0.21
34 19 0.49
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (32 bp):
TAAATTTTATATATTAAAATTTATATATAATA
Found at i:929758 original size:16 final size:15
Alignment explanation
Indices: 929679--929758 Score: 56
Period size: 16 Copynumber: 5.0 Consensus size: 15
929669 GTAATTTTTT
* *
929679 TAAAATTTA-ATATT
1 TAAATTTTATATATA
929693 TAAATTTTTATATAATA
1 TAAA-TTTTATAT-ATA
*
929710 TAAA-TTAATAATATA
1 TAAATTTTAT-ATATA
929725 TTAAAATTTATATATATA
1 -T-AAATTT-TATATATA
929743 TAATATTTTATATATA
1 TAA-ATTTTATATATA
929759 ATTATAAATA
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
14 4 0.08
15 11 0.21
16 15 0.28
17 14 0.26
18 7 0.13
19 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TAAATTTTATATATA
Found at i:931012 original size:3 final size:3
Alignment explanation
Indices: 931004--931050 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
930994 TCTTCAATAT
931004 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
931051 GATTTGAACA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:931690 original size:13 final size:13
Alignment explanation
Indices: 931672--931712 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
931662 AAAAAATTAT
931672 TAAATTTAAAAAA
1 TAAATTTAAAAAA
931685 TAAATTTAAAAAAA
1 TAAATTT-AAAAAA
*
931699 TTAA-TTAAAAAA
1 TAAATTTAAAAAA
931711 TA
1 TA
931713 GATCAAATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.28
13 9 0.36
14 9 0.36
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAATTTAAAAAA
Found at i:932604 original size:2 final size:2
Alignment explanation
Indices: 932597--932629 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
932587 TTTATTAAAC
932597 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
932630 ACCCAATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:933360 original size:36 final size:36
Alignment explanation
Indices: 933292--933360 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
933282 ATTCGAATCA
*
933292 ATTTAATTTAAATTATTATTTAATAATAAAAATTTT
1 ATTTAATTTAAATTATAATTTAATAATAAAAATTTT
*
933328 ATTTTATTTAAATT-TAATTATAA-AATATAAAAT
1 ATTTAATTTAAATTATAATT-TAATAATA-AAAAT
933361 ATTAATATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 8 0.28
36 21 0.72
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (36 bp):
ATTTAATTTAAATTATAATTTAATAATAAAAATTTT
Found at i:933365 original size:21 final size:20
Alignment explanation
Indices: 933337--933376 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
933327 TATTTTATTT
933337 AAATTTAATTATAA-AATATA
1 AAATTTAA-TATAAGAATATA
933357 AAATATTAATATAAGAATAT
1 AAAT-TTAATATAAGAATAT
933377 TTTTAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (20 bp):
AAATTTAATATAAGAATATA
Found at i:933944 original size:3 final size:3
Alignment explanation
Indices: 933938--933967 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
933928 AAAGCTTTTT
933938 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
933968 AACAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:935116 original size:21 final size:18
Alignment explanation
Indices: 935077--935123 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 18
935067 TTTAATATAA
935077 ATATATTT-AAAATTTTT
1 ATATATTTAAAAATTTTT
935094 ATATATTTAAAAAATTATATT
1 ATATATTT-AAAAATT-T-TT
935115 ATATATTTA
1 ATATATTTA
935124 TATTTAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 8 0.31
19 6 0.23
20 2 0.08
21 10 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATATATTTAAAAATTTTT
Found at i:935622 original size:11 final size:11
Alignment explanation
Indices: 935586--935649 Score: 62
Period size: 11 Copynumber: 6.0 Consensus size: 11
935576 CCAACATCTC
935586 ATATTTA-ATT
1 ATATTTATATT
*
935596 AGATTT-TA-T
1 ATATTTATATT
935605 ATAATTTATATT
1 AT-ATTTATATT
935617 ATATTTATATT
1 ATATTTATATT
* *
935628 ATTTTTATATA
1 ATATTTATATT
*
935639 ATAATTATATT
1 ATATTTATATT
935650 TAAAATAATA
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 10 0.23
11 28 0.65
12 3 0.07
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (11 bp):
ATATTTATATT
Found at i:935634 original size:31 final size:28
Alignment explanation
Indices: 935586--935652 Score: 82
Period size: 31 Copynumber: 2.3 Consensus size: 28
935576 CCAACATCTC
935586 ATATTTAATTAGATTTTATATAATTTATATT
1 ATATTTAATTAGATTTTATATAA--TA-ATT
*
935617 ATATTTATATTA-TTTTTATATAATAATT
1 ATATTTA-ATTAGATTTTATATAATAATT
935645 ATATTTAA
1 ATATTTAA
935653 AATAATATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
27 1 0.03
28 10 0.29
29 2 0.06
31 17 0.50
32 4 0.12
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (28 bp):
ATATTTAATTAGATTTTATATAATAATT
Found at i:935645 original size:17 final size:15
Alignment explanation
Indices: 935625--935676 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 15
935615 TTATATTTAT
935625 ATTATTTTTATATAATA
1 ATTATTTTTA-A-AATA
*
935642 ATTATATTTAAAATA
1 ATTATTTTTAAAATA
935657 ATATATATTTTAAAAATA
1 AT-TAT-TTTT-AAAATA
935675 AT
1 AT
935677 ATATCAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
15 6 0.20
16 4 0.13
17 12 0.40
18 8 0.27
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTATTTTTAAAATA
Found at i:935659 original size:18 final size:17
Alignment explanation
Indices: 935636--935680 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
935626 TTATTTTTAT
935636 ATAATAATTATATTTAAA
1 ATAATAA-TATATTTAAA
*
935654 ATAAT-ATATATTTTAA
1 ATAATAATATATTTAAA
935670 A-AATAATATAT
1 ATAATAATATAT
935681 CAATAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 3 0.12
16 16 0.64
17 1 0.04
18 5 0.20
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATAATAATATATTTAAA
Found at i:935665 original size:16 final size:18
Alignment explanation
Indices: 935638--935680 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
935628 ATTTTTATAT
935638 AATAAT-TATA-TTT-AA
1 AATAATATATATTTTAAA
935653 AATAATATATATTTTAAA
1 AATAATATATATTTTAAA
935671 AATAATATAT
1 AATAATATAT
935681 CAATAATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.24
16 4 0.16
17 3 0.12
18 12 0.48
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AATAATATATATTTTAAA
Found at i:935729 original size:25 final size:25
Alignment explanation
Indices: 935701--935753 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
935691 AATTATATAA
* *
935701 ATTTTGATATATT-TATTATATTTAT
1 ATTTTAAT-TATTATATTATAATTAT
*
935726 ATTTTAATTCTTATATTATAATTAT
1 ATTTTAATTATTATATTATAATTAT
935751 ATT
1 ATT
935754 CATCACCATC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 3 0.12
25 21 0.88
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (25 bp):
ATTTTAATTATTATATTATAATTAT
Found at i:937630 original size:3 final size:3
Alignment explanation
Indices: 937622--937659 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
937612 ATAGTTATAC
937622 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
937660 GATGATGATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:940217 original size:2 final size:2
Alignment explanation
Indices: 940210--940247 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
940200 CAAGAATCCC
940210 AT 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 AT
940248 GTAATAATGT
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):
AT
Found at i:943272 original size:14 final size:14
Alignment explanation
Indices: 943255--943336 Score: 59
Period size: 14 Copynumber: 6.1 Consensus size: 14
943245 TGTATTTATA
*
943255 TTATATTTAAATTT
1 TTATATATAAATTT
943269 TTAT-TAT-AA---
1 TTATATATAAATTT
* * *
943278 TTATATTTAAAATA
1 TTATATATAAATTT
943292 TTATATATAAATTT
1 TTATATATAAATTT
943306 TTATATAAATAATATTT
1 TTATAT--ATAA-ATTT
943323 TT-TATATAAATTT
1 TTATATATAAATTT
943336 T
1 T
943337 AATAAATTTA
Statistics
Matches: 55, Mismatches: 5, Indels: 17
0.71 0.06 0.22
Matches are distributed among these distances:
9 4 0.07
10 2 0.04
11 2 0.04
12 2 0.04
13 7 0.13
14 25 0.45
16 7 0.13
17 6 0.11
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTATATATAAATTT
Found at i:943273 original size:17 final size:17
Alignment explanation
Indices: 943248--943305 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
943238 TAATTAATGT
943248 ATTTATATTATATTTAA
1 ATTTATATTATATTTAA
* * *
943265 ATTTTTATTATAATTAT
1 ATTTATATTATATTTAA
*
943282 ATTTAAAATATTATATATAA
1 ATTT---ATATTATATTTAA
943302 ATTT
1 ATTT
943306 TTATATAAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
17 18 0.58
20 13 0.42
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTATATTATATTTAA
Found at i:943279 original size:37 final size:35
Alignment explanation
Indices: 943237--943318 Score: 92
Period size: 37 Copynumber: 2.3 Consensus size: 35
943227 TAAATAAATA
** *
943237 ATAATTAATGTATTTATATTATATTTAAATTTTTATT
1 ATAATTAATGTA-AAATATTATATATAAATTTTTA-T
*
943274 ATAATTATATTTAAAATATTATATATAAATTTTTAT
1 ATAATTA-ATGTAAAATATTATATATAAATTTTTAT
*
943310 ATAAATAAT
1 ATAATTAAT
943319 ATTTTTTATA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
35 2 0.05
36 7 0.18
37 26 0.67
38 4 0.10
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (35 bp):
ATAATTAATGTAAAATATTATATATAAATTTTTAT
Found at i:943295 original size:23 final size:23
Alignment explanation
Indices: 943250--943301 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
943240 ATTAATGTAT
* *
943250 TTAT-ATTATATTTAAATTTTTA
1 TTATAATTATATTTAAAATATTA
943272 TTATAATTATATTTAAAATATTA
1 TTATAATTATATTTAAAATATTA
943295 TATATAA
1 T-TATAA
943302 ATTTTTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 4 0.15
23 17 0.65
24 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TTATAATTATATTTAAAATATTA
Found at i:943312 original size:16 final size:16
Alignment explanation
Indices: 943292--943330 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
943282 ATTTAAAATA
943292 TTATATATAA-ATTTT
1 TTATATATAATATTTT
*
943307 TATATAAATAATATTTT
1 T-TATATATAATATTTT
943324 TTATATA
1 TTATATA
943331 AATTTTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 1 0.05
16 13 0.65
17 6 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTATATATAATATTTT
Found at i:943319 original size:28 final size:27
Alignment explanation
Indices: 943288--943343 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
943278 TTATATTTAA
943288 AATA-TTATATATAAATTTTTATATAAAT
1 AATATTTATATATAAA-TTTTA-ATAAAT
*
943316 AATATTTTTTATATAAATTTTAATAAAT
1 AATA-TTTATATATAAATTTTAATAAAT
943344 TTATATGTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 10 0.40
29 5 0.20
30 10 0.40
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
AATATTTATATATAAATTTTAATAAAT
Found at i:943321 original size:37 final size:37
Alignment explanation
Indices: 943252--943322 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
943242 TAATGTATTT
* *
943252 ATATTATATTTAAATTTTTATTATAATTATATTTAAA
1 ATATTATATATAAATTTTTATTATAATAATATTTAAA
943289 ATATTATATATAAATTTTTA-TATAAATAATATTT
1 ATATTATATATAAATTTTTATTAT-AATAATATTT
943323 TTTATATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 3 0.10
37 28 0.90
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (37 bp):
ATATTATATATAAATTTTTATTATAATAATATTTAAA
Found at i:951687 original size:9 final size:9
Alignment explanation
Indices: 951658--951700 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
951648 ATTAAACATT
951658 AATATCAAAA
1 AATAT-AAAA
**
951668 AATATTTAA
1 AATATAAAA
951677 AATATAAAA
1 AATATAAAA
*
951686 AATATAAAT
1 AATATAAAA
951695 AATATA
1 AATATA
951701 TATCAAACTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
9 23 0.82
10 5 0.18
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (9 bp):
AATATAAAA
Found at i:951698 original size:18 final size:19
Alignment explanation
Indices: 951657--951700 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
951647 TATTAAACAT
*
951657 TAATATCAAAAAATATTTAA
1 TAATAT-AAAAAATATTAAA
951677 -AATATAAAAAATA-TAAA
1 TAATATAAAAAATATTAAA
951694 TAATATA
1 TAATATA
951701 TATCAAACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 3 0.14
18 14 0.64
19 5 0.23
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
TAATATAAAAAATATTAAA
Found at i:955001 original size:1 final size:1
Alignment explanation
Indices: 954995--955024 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
954985 ATTTAGCCAA
*
954995 CCCCCCCCCCCCCCCCCCCCCCCGCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
955025 AACCCCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.97, G:0.03, T:0.00
Consensus pattern (1 bp):
C
Found at i:963889 original size:13 final size:14
Alignment explanation
Indices: 963871--963903 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
963861 GTATAGGACG
963871 TTTAAAAA-AAACT
1 TTTAAAAATAAACT
*
963884 TTTAAAAATAAAGT
1 TTTAAAAATAAACT
963898 TTTAAA
1 TTTAAA
963904 TTTAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (14 bp):
TTTAAAAATAAACT
Found at i:964249 original size:16 final size:14
Alignment explanation
Indices: 964230--964279 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 14
964220 AATTCACGAG
964230 TTAAATTGAATTAAAT
1 TTAAATTG-ATT-AAT
964246 TTAAATTTGATTAAT
1 TTAAA-TTGATTAAT
964261 TTAAATT-ATT-AT
1 TTAAATTGATTAAT
964273 TTAAATT
1 TTAAATT
964280 ATTTAAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
12 9 0.27
13 3 0.09
14 2 0.06
15 8 0.24
16 8 0.24
17 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (14 bp):
TTAAATTGATTAAT
Found at i:964343 original size:17 final size:18
Alignment explanation
Indices: 964321--964371 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
964311 ATATTTTTAT
964321 AATTATATTTAAAT-AAA
1 AATTATATTTAAATAAAA
*
964338 AATTATTATTT-TATAAAA
1 AATTA-TATTTAAATAAAA
964356 AATTAATAATTTAAAT
1 AATT-AT-ATTTAAAT
964372 CAATATGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
17 7 0.26
18 13 0.48
19 5 0.19
20 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AATTATATTTAAATAAAA
Found at i:964943 original size:26 final size:28
Alignment explanation
Indices: 964898--964951 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
964888 ATAAAATGAA
*
964898 AAATAATATTTAATATA-TTTTAAAATT
1 AAATAATATTAAATATATTTTTAAAATT
*
964925 AAATATTATTAAAT-TATTTTTAAAATT
1 AAATAATATTAAATATATTTTTAAAATT
964952 TTTTTTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 2 0.08
27 22 0.92
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (28 bp):
AAATAATATTAAATATATTTTTAAAATT
Found at i:965611 original size:20 final size:17
Alignment explanation
Indices: 965579--965631 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 17
965569 GAAAATAAAA
965579 ATTAAATTATAAATATTGAT
1 ATTAAA-TATAAATATT--T
965599 ATATAAATATAAA-ATTT
1 AT-TAAATATAAATATTT
*
965616 ATTAAATTTAAATATT
1 ATTAAATATAAATATT
965632 ATCCCTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 9 0.30
17 6 0.20
19 3 0.10
20 8 0.27
21 4 0.13
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
ATTAAATATAAATATTT
Found at i:965819 original size:14 final size:14
Alignment explanation
Indices: 965796--965831 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
965786 ACTTAACTCC
965796 AAAAAAAAAAA-GA
1 AAAAAAAAAAAGGA
965809 AAAAAACAAAAAGGA
1 AAAAAA-AAAAAGGA
965824 AAAAAAAA
1 AAAAAAAA
965832 GTGAGAATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.29
14 7 0.33
15 8 0.38
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAGGA
Found at i:968262 original size:23 final size:23
Alignment explanation
Indices: 968218--968263 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
968208 CGAATAATTT
**
968218 TTTTATTTATAAAATATTTTAAA
1 TTTTATTTATAAAATAAATTAAA
968241 TTTTA-TTATAAAAATAAATTAAA
1 TTTTATTTAT-AAAATAAATTAAA
968264 AAATTATCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TTTTATTTATAAAATAAATTAAA
Found at i:968297 original size:17 final size:17
Alignment explanation
Indices: 968275--968321 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
968265 AATTATCATA
968275 TAATTTATTTTTTAATT
1 TAATTTATTTTTTAATT
*
968292 TAATTTATTTTAT-ATT
1 TAATTTATTTTTTAATT
*
968308 T-ATTAATTTTTTAA
1 TAATTTATTTTTTAA
968322 AAAAAATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 9 0.35
16 5 0.19
17 12 0.46
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TAATTTATTTTTTAATT
Found at i:969133 original size:5 final size:5
Alignment explanation
Indices: 969118--969148 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
969108 AAAAATTATT
969118 ATAATA ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAA-A ATAAA ATAAA ATAAA ATAAA ATAAA
969149 TATATTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 21 0.84
6 4 0.16
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
ATAAA
Found at i:970414 original size:27 final size:27
Alignment explanation
Indices: 970384--970446 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
970374 TAGATCAAAT
*
970384 TATATATATTTATTTATTAT-TTAAAAA
1 TATATAAATTTATTT-TTATATTAAAAA
*
970411 TATA-AAATTTATTTTTATATTAATAA
1 TATATAAATTTATTTTTATATTAAAAA
970437 T-TATAAATTT
1 TATATAAATTT
970447 TATTAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 6 0.19
26 22 0.69
27 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
TATATAAATTTATTTTTATATTAAAAA
Found at i:970448 original size:27 final size:26
Alignment explanation
Indices: 970380--970450 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 26
970370 AAATTAGATC
*
970380 AAATTATATATATTTATTTATTATTTA
1 AAATTATAAAT-TTTATTTATTATTTA
* *
970407 AAAATATAAAATTTATTT-TTATATTA
1 AAATTATAAATTTTATTTATTAT-TTA
970433 ATAATTATAAATTTTATT
1 A-AATTATAAATTTTATT
970451 AAAAAAATCA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 4 0.11
26 11 0.30
27 22 0.59
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
AAATTATAAATTTTATTTATTATTTA
Found at i:972340 original size:51 final size:51
Alignment explanation
Indices: 972264--972362 Score: 171
Period size: 51 Copynumber: 1.9 Consensus size: 51
972254 AACTCCTGCT
* * *
972264 ACTGCTCCCGCTACAGCTCCTGTGAGTAGACCTAAAACTCCAGCTCCAGCC
1 ACTGCACCCGCTACAGCTCCTGTGAGTAAACATAAAACTCCAGCTCCAGCC
972315 ACTGCACCCGCTACAGCTCCTGTGAGTAAACATAAAACTCCAGCTCCA
1 ACTGCACCCGCTACAGCTCCTGTGAGTAAACATAAAACTCCAGCTCCA
972363 ACCGCTGCTC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.27, C:0.37, G:0.16, T:0.19
Consensus pattern (51 bp):
ACTGCACCCGCTACAGCTCCTGTGAGTAAACATAAAACTCCAGCTCCAGCC
Found at i:980388 original size:2 final size:2
Alignment explanation
Indices: 980381--980414 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
980371 GTGATGTCTG
* *
980381 TA TA TA TA TA TA TA TA TA TG TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
980415 AACTAAGGTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
TA
Found at i:982006 original size:20 final size:20
Alignment explanation
Indices: 981981--982024 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
981971 TTATTTATGA
981981 ATTAAATA-AATAAATGATTT
1 ATTAAATATAA-AAATGATTT
982001 ATTAAATATAAAAATGATTT
1 ATTAAATATAAAAATGATTT
982021 ATTA
1 ATTA
982025 TAAACTTGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (20 bp):
ATTAAATATAAAAATGATTT
Found at i:982094 original size:31 final size:33
Alignment explanation
Indices: 982059--982126 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
982049 AATATCATTA
*
982059 ATAATAATATT-AT-TATTTCTGTTTT-TTATTT
1 ATAATAA-ATTAATATATTTATGTTTTATTATTT
982090 ATAATAAATTAATAATATTTATGTTTTATTATTT
1 ATAATAAATTAAT-ATATTTATGTTTTATTATTT
982124 ATA
1 ATA
982127 TTTAAAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
30 3 0.09
31 9 0.28
33 11 0.34
34 9 0.28
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (33 bp):
ATAATAAATTAATATATTTATGTTTTATTATTT
Found at i:982140 original size:34 final size:33
Alignment explanation
Indices: 982059--982140 Score: 82
Period size: 33 Copynumber: 2.5 Consensus size: 33
982049 AATATCATTA
* *
982059 ATAAT-AAT-ATTATTATTTCTGTTTTTTATTT
1 ATAATAAATAATTAATATTTATGTTTTTTATTT
982090 ATAATAAATTAA-TAATATTTATGTTTTATTATTT
1 ATAATAAA-TAATTAATATTTATGTTTT-TTATTT
*
982124 ATATTTAAA-AATTAATA
1 ATA-ATAAATAATTAATA
982141 AATAAATATA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
31 5 0.12
32 2 0.05
33 16 0.38
34 15 0.36
35 4 0.10
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.56
Consensus pattern (33 bp):
ATAATAAATAATTAATATTTATGTTTTTTATTT
Found at i:982206 original size:22 final size:23
Alignment explanation
Indices: 982171--982247 Score: 72
Period size: 22 Copynumber: 3.3 Consensus size: 23
982161 TATTTAAATT
*
982171 TATTTATTTATTATTCA-TAACTA
1 TATTTATTAATTATTCAGTAA-TA
982194 TATTT-TTAATTATTCAGTAATA
1 TATTTATTAATTATTCAGTAATA
*
982216 TATTTAATT-ATATATTTA-TGAATA
1 TATTT-ATTAAT-TATTCAGT-AATA
982240 TATTTATT
1 TATTTATT
982248 TGTTATTAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
22 17 0.36
23 14 0.30
24 16 0.34
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (23 bp):
TATTTATTAATTATTCAGTAATA
Found at i:982240 original size:12 final size:11
Alignment explanation
Indices: 982161--982246 Score: 52
Period size: 12 Copynumber: 7.6 Consensus size: 11
982151 TTTATTTGTT
*
982161 TATTTA-AATT
1 TATTTATAATA
*
982171 TATTTAT-TTA
1 TATTTATAATA
*
982181 TTATTCATAACTA
1 -TATTTATAA-TA
*
982194 TATTTTTAAT-
1 TATTTATAATA
*
982204 TATTCAGTAATA
1 TATTTA-TAATA
*
982216 TATTTAATTATA
1 TATTT-ATAATA
982228 TATTTATGAATA
1 TATTTAT-AATA
982240 TATTTAT
1 TATTTAT
982247 TTGTTATTAA
Statistics
Matches: 57, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
10 11 0.19
11 13 0.23
12 30 0.53
13 3 0.05
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.57
Consensus pattern (11 bp):
TATTTATAATA
Found at i:982271 original size:23 final size:23
Alignment explanation
Indices: 982228--982271 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
982218 TTTAATTATA
* *
982228 TATTTATGAATATATTTATTTGT
1 TATTAATGAATATATTCATTTGT
982251 TATTAATGAATA-AGTTCATTT
1 TATTAATGAATATA-TTCATTT
982272 AATTTAAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 1 0.06
23 17 0.94
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (23 bp):
TATTAATGAATATATTCATTTGT
Found at i:982618 original size:16 final size:16
Alignment explanation
Indices: 982599--982629 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
982589 TCAATATTTT
*
982599 TAATTAATATATATTA
1 TAATTAATAAATATTA
982615 TAATTAATAAATATT
1 TAATTAATAAATATT
982630 TATTTTATTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TAATTAATAAATATTA
Found at i:985816 original size:8 final size:8
Alignment explanation
Indices: 985803--985836 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
985793 TAAGCAAAGC
985803 AAGGATAA
1 AAGGATAA
*
985811 AAGGATCA
1 AAGGATAA
985819 AAGGATAA
1 AAGGATAA
985827 AA-GATAA
1 AAGGATAA
985834 AAG
1 AAG
985837 AAGACAAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.62, C:0.03, G:0.24, T:0.12
Consensus pattern (8 bp):
AAGGATAA
Found at i:988162 original size:2 final size:2
Alignment explanation
Indices: 988155--988196 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
988145 GGATTTTATC
988155 TA TA 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 TA TA
988197 ACACATTCAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:988695 original size:2 final size:2
Alignment explanation
Indices: 988688--988716 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
988678 AAGGAATTAA
988688 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
988717 AATTATAGTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:988876 original size:18 final size:19
Alignment explanation
Indices: 988853--988903 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
988843 AAAAAAATTG
988853 TTAAAATATATAAAT-ATA
1 TTAAAATATATAAATAATA
*
988871 TTAAAAAAATATAAAATAATA
1 TT-AAAATATAT-AAATAATA
*
988892 TAAAAATA-ATAA
1 TTAAAATATATAA
988904 TACATATTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
18 4 0.15
19 10 0.37
20 9 0.33
21 4 0.15
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
TTAAAATATATAAATAATA
Found at i:988881 original size:21 final size:22
Alignment explanation
Indices: 988855--988910 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
988845 AAAAATTGTT
988855 AAAATATATAAATATAT-TAAA
1 AAAATATATAAATATATATAAA
988876 AAAATATA-AAATA-ATATAAA
1 AAAATATATAAATATATATAAA
*
988896 AATAATA-ATACATAT
1 AA-AATATATAAATAT
988911 TGTCAAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
19 2 0.07
20 12 0.40
21 16 0.53
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (22 bp):
AAAATATATAAATATATATAAA
Found at i:988897 original size:11 final size:11
Alignment explanation
Indices: 988857--988902 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
988847 AAATTGTTAA
*
988857 AATATATAAAT
1 AATATAAAAAT
988868 -ATATTAAAAA-
1 AATA-TAAAAAT
988878 AATAT-AAAAT
1 AATATAAAAAT
988888 AATATAAAAAT
1 AATATAAAAAT
988899 AATA
1 AATA
988903 ATACATATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
9 4 0.13
10 9 0.30
11 17 0.57
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AATATAAAAAT
Found at i:988903 original size:19 final size:20
Alignment explanation
Indices: 988855--988903 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
988845 AAAAATTGTT
*
988855 AAAATATATAAATATATTAAA
1 AAAATA-ATAAATATAATAAA
*
988876 AAAAT-ATAAA-ATAATATA
1 AAAATAATAAATATAATAAA
988894 AAAATAATAA
1 AAAATAATAA
988904 TACATATTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 11 0.44
19 9 0.36
21 5 0.20
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAATAATAAATATAATAAA
Found at i:989360 original size:3 final size:3
Alignment explanation
Indices: 989352--989399 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
989342 ATAGCTTAAA
989352 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
989400 ATATGTATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:989756 original size:2 final size:2
Alignment explanation
Indices: 989744--989782 Score: 69
Period size: 2 Copynumber: 19.0 Consensus size: 2
989734 CTACAAATTA
989744 AT AT AT CAT 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 AT
989783 TTCTATCTAC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:991259 original size:21 final size:21
Alignment explanation
Indices: 991218--991259 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
991208 CTCAACTTCT
* *
991218 GCATTTTTTTCAGCTTGTTCA
1 GCATTTTCTTCAACTTGTTCA
991239 GCATTCTTCTTCAACTT-TTCA
1 GCATT-TTCTTCAACTTGTTCA
991260 AGGGCAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.17, C:0.24, G:0.10, T:0.50
Consensus pattern (21 bp):
GCATTTTCTTCAACTTGTTCA
Found at i:997499 original size:10 final size:9
Alignment explanation
Indices: 997479--997503 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
997469 ACCAGACTTG
997479 TTTTTTATT
1 TTTTTTATT
997488 TTTTTTATT
1 TTTTTTATT
997497 TTTTTTA
1 TTTTTTA
997504 ATGATTAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTATT
Found at i:998210 original size:2 final size:2
Alignment explanation
Indices: 998205--998234 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
998195 TATATATATA
998205 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
998235 AGGGAAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:1002864 original size:20 final size:21
Alignment explanation
Indices: 1002841--1002879 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1002831 ATAGGAAAGG
1002841 AAAGAAAGGGT-AAAGAAACA
1 AAAGAAAGGGTGAAAGAAACA
*
1002861 AAAGAAATGGTGAAAGAAA
1 AAAGAAAGGGTGAAAGAAA
1002880 ATTATGCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.64, C:0.03, G:0.26, T:0.08
Consensus pattern (21 bp):
AAAGAAAGGGTGAAAGAAACA
Found at i:1005926 original size:15 final size:15
Alignment explanation
Indices: 1005908--1005953 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
1005898 TATAAATAAT
1005908 AAAAAATTTGAGAAA
1 AAAAAATTTGAGAAA
*
1005923 AAAAAGTTT-A-AAA
1 AAAAAATTTGAGAAA
1005936 GTAAAAAATTTGAGAAA
1 --AAAAAATTTGAGAAA
1005953 A
1 A
1005954 TATGTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
13 3 0.12
14 1 0.04
15 17 0.68
16 1 0.04
17 3 0.12
ACGTcount: A:0.65, C:0.00, G:0.13, T:0.22
Consensus pattern (15 bp):
AAAAAATTTGAGAAA
Found at i:1006390 original size:14 final size:14
Alignment explanation
Indices: 1006366--1006402 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1006356 GATCCGAAAC
*
1006366 AATTCAAATTAAAA
1 AATTTAAATTAAAA
*
1006380 ATTTTAAATTAAAA
1 AATTTAAATTAAAA
1006394 AATTTAAAT
1 AATTTAAAT
1006403 CGAATTTGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (14 bp):
AATTTAAATTAAAA
Found at i:1014151 original size:2 final size:2
Alignment explanation
Indices: 1014136--1014169 Score: 52
Period size: 2 Copynumber: 17.0 Consensus size: 2
1014126 TTCAGAGATC
1014136 AT AT AT CAT A- 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
1014170 TCTAGTGAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 27 0.90
3 2 0.07
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1014807 original size:6 final size:6
Alignment explanation
Indices: 1014796--1014835 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
1014786 AGAGGATTGC
*
1014796 TTTTGG TTTTGG TTTTGG TTTTGG TTTTGG TTGTGG TTTT
1 TTTTGG TTTTGG TTTTGG TTTTGG TTTTGG TTTTGG TTTT
1014836 AGCGACGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.68
Consensus pattern (6 bp):
TTTTGG
Found at i:1015225 original size:25 final size:25
Alignment explanation
Indices: 1015199--1015247 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
1015189 ATGCTAGTTA
* *
1015199 AAAATTTTT-TATTTATTATTTTAT
1 AAAATTTTTATATTTAATATATTAT
1015223 AAAATTTTTATATTTAATATATTAT
1 AAAATTTTTATATTTAATATATTAT
1015248 TTTATAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (25 bp):
AAAATTTTTATATTTAATATATTAT
Found at i:1015281 original size:37 final size:37
Alignment explanation
Indices: 1015218--1015289 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 37
1015208 TATTTATTAT
* *
1015218 TTTATAAAATTTTTATATTTAATATATTATTTTATAAA
1 TTTAAAAAATATTTATATTTAATATATT-TTTTATAAA
1015256 TTTAAAAAATATTT-TA-TTAATTATATTTTTTATA
1 TTTAAAAAATATTTATATTTAA-TATATTTTTTATA
1015290 TATCACTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 11 0.35
37 8 0.26
38 12 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (37 bp):
TTTAAAAAATATTTATATTTAATATATTTTTTATAAA
Found at i:1015835 original size:50 final size:51
Alignment explanation
Indices: 1015715--1015836 Score: 162
Period size: 50 Copynumber: 2.4 Consensus size: 51
1015705 AAATTTAAAT
* *
1015715 TTAATATAGTATATTAA-TTT-ACTAATAAATTTTTATCTCATTCATTGTA
1 TTAATATAATATATTAATTTTAACTAATAAATTTTTATCTCATTCATTATA
* *
1015764 TTAAATATAATATATTAATTTTAAC-AATTAA-TTTTATCTCATTTATTATA
1 TT-AATATAATATATTAATTTTAACTAATAAATTTTTATCTCATTCATTATA
1015814 TGTAATATAATATATTAATTTTA
1 T-TAATATAATATATTAATTTTA
1015837 TTCATTATTT
Statistics
Matches: 65, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
49 2 0.03
50 52 0.80
51 9 0.14
52 2 0.03
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (51 bp):
TTAATATAATATATTAATTTTAACTAATAAATTTTTATCTCATTCATTATA
Found at i:1016076 original size:20 final size:18
Alignment explanation
Indices: 1016042--1016080 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 18
1016032 TTTTTTATTA
1016042 TTAAATGATAATTTAAAT
1 TTAAATGATAATTTAAAT
1016060 TTAAATAGATCAATTTAAAT
1 TTAAAT-GAT-AATTTAAAT
1016080 T
1 T
1016081 AAAAATTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.32
19 3 0.16
20 10 0.53
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.44
Consensus pattern (18 bp):
TTAAATGATAATTTAAAT
Found at i:1019154 original size:18 final size:19
Alignment explanation
Indices: 1019119--1019156 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
1019109 TTGAATGTTT
* *
1019119 AAATCAATAAATATTAAAA
1 AAATCAATAAAAAATAAAA
1019138 AAAT-AATAAAAAATAAAA
1 AAATCAATAAAAAATAAAA
1019156 A
1 A
1019157 TTATTGAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (19 bp):
AAATCAATAAAAAATAAAA
Found at i:1028823 original size:18 final size:18
Alignment explanation
Indices: 1028775--1028823 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
1028765 AATTAACTAA
1028775 TAAAATTTAAA---ATTT
1 TAAAATTTAAATTTATTT
*
1028790 TAAAATAT-AATATTATTT
1 TAAAATTTAAAT-TTATTT
1028808 TAAAATTTAAATTTAT
1 TAAAATTTAAATTTAT
1028824 ACAAACTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
14 2 0.07
15 7 0.26
18 15 0.56
19 3 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TAAAATTTAAATTTATTT
Found at i:1030035 original size:19 final size:19
Alignment explanation
Indices: 1030011--1030048 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
1030001 TATAAATTAA
*
1030011 TTAAATTAAAATTTTAATT
1 TTAAATTAAAATTTAAATT
*
1030030 TTAAATTTAAATTTAAATT
1 TTAAATTAAAATTTAAATT
1030049 ATTATAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTAAATTAAAATTTAAATT
Found at i:1030922 original size:14 final size:15
Alignment explanation
Indices: 1030902--1030943 Score: 59
Period size: 14 Copynumber: 2.8 Consensus size: 15
1030892 TAATAAGATA
1030902 TTATAAATATTAAAT
1 TTATAAATATTAAAT
*
1030917 TT-TAAATTTTAAAT
1 TTATAAATATTAAAT
1030931 TTATAAAATATTA
1 TTAT-AAATATTA
1030944 TTTTTTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 13 0.57
15 3 0.13
16 7 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTATAAATATTAAAT
Found at i:1033380 original size:2 final size:2
Alignment explanation
Indices: 1033373--1033406 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
1033363 AAACGTACTG
*
1033373 GA GA GA GA GA GA GA GA GA GA CA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1033407 AACTACTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1035232 original size:44 final size:44
Alignment explanation
Indices: 1035182--1035271 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
1035172 TAGCCCTTTA
1035182 GAATAAAACTAAAAGAATCAACTAAGAAAGTTATGAAACTGCTG
1 GAATAAAACTAAAAGAATCAACTAAGAAAGTTATGAAACTGCTG
* *
1035226 GAATAAAACTAAAAGAATCAACTAAGAAAGTTATTAAACTGTTG
1 GAATAAAACTAAAAGAATCAACTAAGAAAGTTATGAAACTGCTG
1035270 GA
1 GA
1035272 CAATTAAGAC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.52, C:0.10, G:0.16, T:0.22
Consensus pattern (44 bp):
GAATAAAACTAAAAGAATCAACTAAGAAAGTTATGAAACTGCTG
Found at i:1037535 original size:66 final size:67
Alignment explanation
Indices: 1037464--1037602 Score: 172
Period size: 71 Copynumber: 2.0 Consensus size: 67
1037454 GGGTTAATTT
* *** * *
1037464 AGTTATT-AAGAAAAGGAAAGAAAATCAAATTATTTGTTGAATATGAATAAAAATTGTTAATAAC
1 AGTTATTAAAAAAAAGGAAAGAAAATCAAATTATGCATTGAACATAAATAAAAATTGTTAATAAC
1037528 AA
66 AA
1037530 AGTTATTAAAAAAAAAAAAGGAAAGAAAATCAAATTATGCATTGAACATAAATAAAAATTGTTAA
1 AGTTATT----AAAAAAAAGGAAAGAAAATCAAATTATGCATTGAACATAAATAAAAATTGTTAA
*
1037595 TAATAA
62 TAACAA
1037601 AG
1 AG
1037603 CATGACATAT
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
66 7 0.11
71 54 0.89
ACGTcount: A:0.57, C:0.04, G:0.12, T:0.27
Consensus pattern (67 bp):
AGTTATTAAAAAAAAGGAAAGAAAATCAAATTATGCATTGAACATAAATAAAAATTGTTAATAAC
AA
Found at i:1040748 original size:34 final size:30
Alignment explanation
Indices: 1040677--1040748 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 30
1040667 AAAATTTAAA
* * *
1040677 ATATATATATAATTAAAAATTATAAAAATT
1 ATATTTATATAAATAAAAAATATAAAAATT
*
1040707 ATTTTTATATAAATAATAAAATATAAATAAAGTT
1 ATATTTATATAAATAA-AAAATAT-AA-AAA-TT
1040741 ATATTTAT
1 ATATTTAT
1040749 GTTGAATAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
30 13 0.39
31 6 0.18
32 2 0.06
33 3 0.09
34 9 0.27
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (30 bp):
ATATTTATATAAATAAAAAATATAAAAATT
Found at i:1041582 original size:2 final size:2
Alignment explanation
Indices: 1041575--1041602 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1041565 TTGCAGATAA
1041575 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
1041603 TCTTTTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1043677 original size:21 final size:21
Alignment explanation
Indices: 1043653--1043697 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
1043643 TATATTTCAA
1043653 AATTATCTAAAATT-AAATTTT
1 AATTAT-TAAAATTAAAATTTT
*
1043674 AATTATTAATATTAAAATTTT
1 AATTATTAAAATTAAAATTTT
1043695 AAT
1 AAT
1043698 ATTTTATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
AATTATTAAAATTAAAATTTT
Found at i:1043808 original size:23 final size:23
Alignment explanation
Indices: 1043775--1043824 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
1043765 TTTTTCATCA
1043775 TTATATATAAT-TAATT-TATAAAT
1 TTATATATAATAT-ATTAT-TAAAT
*
1043798 TTATATTTAATATATTATTAAAT
1 TTATATATAATATATTATTAAAT
1043821 TTAT
1 TTAT
1043825 GGATATAGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 22 0.92
24 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TTATATATAATATATTATTAAAT
Found at i:1046943 original size:18 final size:19
Alignment explanation
Indices: 1046917--1046955 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
1046907 AACAAACGCG
*
1046917 ATAAATATAATTTAA-AAA
1 ATAAATATAATATAATAAA
*
1046935 ATAATTATAATATAATAAA
1 ATAAATATAATATAATAAA
1046954 AT
1 AT
1046956 TATGATATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
ATAAATATAATATAATAAA
Found at i:1052486 original size:2 final size:2
Alignment explanation
Indices: 1052479--1052514 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
1052469 TATTAGGTTT
*
1052479 TA TA TA TA TA TA TA TA TA TA TA AA TA -A 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
1052515 TAGGCAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1052764 original size:21 final size:20
Alignment explanation
Indices: 1052726--1052764 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
1052716 AAAATATAAA
* *
1052726 TTTTAAATATATTGAATATT
1 TTTTAAAAATATTAAATATT
1052746 TTTTAAAAAATATTAAATA
1 TTTT-AAAAATATTAAATA
1052765 AAAAATTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TTTTAAAAATATTAAATATT
Found at i:1053036 original size:9 final size:9
Alignment explanation
Indices: 1053022--1053061 Score: 71
Period size: 9 Copynumber: 4.4 Consensus size: 9
1053012 ATCAAACAAT
1053022 TTAATTTAA
1 TTAATTTAA
1053031 TTAATTTAA
1 TTAATTTAA
1053040 TTAATTTAA
1 TTAATTTAA
*
1053049 TTAATTAAA
1 TTAATTTAA
1053058 TTAA
1 TTAA
1053062 AAATAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
TTAATTTAA
Found at i:1053062 original size:5 final size:5
Alignment explanation
Indices: 1053019--1053059 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
1053009 TATATCAAAC
*
1053019 AATTT AATTT AA-TT AATTT AA-TT AATTT AA-TT AATTA AATT
1 AATTT AATTT AATTT AATTT AATTT AATTT AATTT AATTT AATT
1053060 AAAAATAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
4 12 0.38
5 20 0.62
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (5 bp):
AATTT
Found at i:1058873 original size:17 final size:19
Alignment explanation
Indices: 1058839--1058873 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
1058829 TATTTTAATA
1058839 TTAATTTTTATATAAATTT
1 TTAATTTTTATATAAATTT
1058858 TTAA-TTTTAT-TAAATT
1 TTAATTTTTATATAAATT
1058874 ATATTATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 6 0.38
19 4 0.25
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTAATTTTTATATAAATTT
Found at i:1058894 original size:14 final size:14
Alignment explanation
Indices: 1058831--1058898 Score: 63
Period size: 13 Copynumber: 4.9 Consensus size: 14
1058821 AATTTATTTA
*
1058831 TTTTAATATT-AAT
1 TTTTATTATTAAAT
1058844 TTTTA-TA-TAAAT
1 TTTTATTATTAAAT
1058856 TTTTAATTTTATTAAA-
1 TTTT-A--TTATTAAAT
*
1058872 TTATATTATTAAAT
1 TTTTATTATTAAAT
1058886 TTTTATTATTAAA
1 TTTTATTATTAAA
1058899 AAAATTAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
11 1 0.02
12 9 0.20
13 14 0.30
14 12 0.26
15 1 0.02
16 5 0.11
17 4 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTATTATTAAAT
Found at i:1061943 original size:14 final size:15
Alignment explanation
Indices: 1061914--1061950 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
1061904 ATAATAATTA
1061914 ATAATTTTAAATTTT
1 ATAATTTTAAATTTT
1061929 A-AATTTT-AATATTT
1 ATAATTTTAAAT-TTT
1061943 ATAATTTT
1 ATAATTTT
1061951 TTATTAACCG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 3 0.15
14 10 0.50
15 7 0.35
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATAATTTTAAATTTT
Found at i:1062638 original size:13 final size:13
Alignment explanation
Indices: 1062614--1062647 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
1062604 AATTCAAAAT
*
1062614 TTAATTTAATTAA
1 TTAATATAATTAA
*
1062627 TTTATATAATTAA
1 TTAATATAATTAA
1062640 TTAATATA
1 TTAATATA
1062648 TAATAGATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTAATATAATTAA
Found at i:1062658 original size:15 final size:15
Alignment explanation
Indices: 1062620--1062651 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
1062610 AAATTTAATT
1062620 TAATTAATT--TATA
1 TAATTAATTAATATA
1062633 TAATTAATTAATATA
1 TAATTAATTAATATA
1062648 TAAT
1 TAAT
1062652 AGATTAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
15 8 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTAATTAATATA
Found at i:1063489 original size:2 final size:2
Alignment explanation
Indices: 1063452--1063481 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1063442 GGTCATTTCC
*
1063452 CT CT CT CT CT CT CT CT CT CT GT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1063482 TTTCTCTCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.47, G:0.03, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1067672 original size:16 final size:16
Alignment explanation
Indices: 1067635--1067671 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1067625 TATCATTACA
1067635 AATTTTAAATATTTAT
1 AATTTTAAATATTTAT
1067651 AATTTTGAAAT-TTTAT
1 AATTTT-AAATATTTAT
1067667 -ATTTT
1 AATTTT
1067672 TTTATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 5 0.25
16 11 0.55
17 4 0.20
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
AATTTTAAATATTTAT
Found at i:1074682 original size:2 final size:2
Alignment explanation
Indices: 1074677--1074706 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1074667 ATTTCTTACG
1074677 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
1074707 CATGCCCTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.