Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold415
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: 1242643
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 5 of 8
Found at i:714398 original size:17 final size:16
Alignment explanation
Indices: 714356--714400 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
714346 AATCTTTAAG
714356 TAAA-TAAATTAAAAT
1 TAAATTAAATTAAAAT
*
714371 TAATTTAAAATTAAAAT
1 TAAATT-AAATTAAAAT
714388 TAAAATTAAATTA
1 T-AAATTAAATTA
714401 TTATAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 3 0.12
16 1 0.04
17 17 0.68
18 4 0.16
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TAAATTAAATTAAAAT
Found at i:719868 original size:26 final size:25
Alignment explanation
Indices: 719820--719884 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 25
719810 TTGCAGCTTG
***
719820 AATTTAATTTAAAATATTTAAATTT
1 AATTTAATTTAAAATAAAAAAATTT
*
719845 AAATTTAATTTAAATTAAAAAAATTT
1 -AATTTAATTTAAAATAAAAAAATTT
* *
719871 GATTTGATTTAAAA
1 AATTTAATTTAAAA
719885 ACTTAAATTA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
25 11 0.34
26 21 0.66
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (25 bp):
AATTTAATTTAAAATAAAAAAATTT
Found at i:719870 original size:20 final size:20
Alignment explanation
Indices: 719845--719885 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
719835 ATTTAAATTT
719845 AAATTTAATTTAAATTAAAA
1 AAATTTAATTTAAATTAAAA
* * *
719865 AAATTTGATTTGATTTAAAA
1 AAATTTAATTTAAATTAAAA
719885 A
1 A
719886 CTTAAATTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (20 bp):
AAATTTAATTTAAATTAAAA
Found at i:731530 original size:20 final size:21
Alignment explanation
Indices: 731507--731553 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
731497 ATTAAATTTA
*
731507 ATAATTTAAAATA-ATATGAT
1 ATAATTTAAAATAGATATAAT
*
731527 ATAAATTAAAATATGATATAAT
1 ATAATTTAAAATA-GATATAAT
731549 ATAAT
1 ATAAT
731554 AAAAAATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 12 0.55
22 10 0.45
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (21 bp):
ATAATTTAAAATAGATATAAT
Found at i:731575 original size:11 final size:11
Alignment explanation
Indices: 731546--731588 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
731536 AATATGATAT
731546 AATATAATAAA
1 AATATAATAAA
731557 AA-ATTAATAAA
1 AATA-TAATAAA
*
731568 AATATAATATA
1 AATATAATAAA
731579 AATAT-ATAAA
1 AATATAATAAA
731589 TATGTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
10 5 0.18
11 22 0.79
12 1 0.04
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AATATAATAAA
Found at i:731582 original size:17 final size:17
Alignment explanation
Indices: 731519--731582 Score: 55
Period size: 17 Copynumber: 3.9 Consensus size: 17
731509 AATTTAAAAT
* *
731519 AATATGATATAAATTAA
1 AATATAATATAAATAAA
*
731536 AATATGATATAATATAATA
1 AATATAATATAA-ATAA-A
731555 AA-A-AAT-T-AATAAA
1 AATATAATATAAATAAA
731568 AATATAATATAAATA
1 AATATAATATAAATA
731583 TATAAATATG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
13 3 0.08
14 5 0.13
15 4 0.10
16 2 0.05
17 18 0.46
18 4 0.10
19 3 0.08
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
AATATAATATAAATAAA
Found at i:731629 original size:32 final size:33
Alignment explanation
Indices: 731572--731839 Score: 120
Period size: 32 Copynumber: 7.8 Consensus size: 33
731562 AATAAAAATA
*
731572 TAATATAAATATATAAATATGTTAAAATTTATT
1 TAATATAAATATATAAATATATTAAAATTTATT
* * *
731605 TAATATTAAT-TATTAATATATTAAAATTTAAATAAA
1 TAATATAAATATATAAATATATTAAAATTT--AT--T
* * * * * **
731641 TATATATTAATTTAATTTAATAAATTAAAA-TAACA
1 TA-ATATAAATAT-A-TAAATATATTAAAATTTATT
* * *
731676 TAAT-TAAATAATATAAATAAAATAAAAATTATT
1 TAATATAAAT-ATATAAATATATTAAAATTTATT
* * * *
731709 AAATTATAATATAATATAAA-AAATTATAAAATTA-C
1 TAA-TATAA-AT-ATATAAATATATTA-AAATTTATT
*
731744 TAA-ACAAATATATATTAATATATT-AAATTTATT
1 TAATATAAATATATA--AATATATTAAAATTTATT
* *
731777 TAATATAAAT-TATTAATATATTAAAATTTAAAT
1 TAATATAAATATATAAATATATTAAAATTT-ATT
*
731810 AAATATATAATAATATAAATATAATTAAAA
1 TAATATA-AAT-ATATAAATAT-ATTAAAA
731840 ATTAATAAAC
Statistics
Matches: 183, Mismatches: 27, Indels: 46
0.71 0.11 0.18
Matches are distributed among these distances:
31 13 0.07
32 43 0.23
33 37 0.20
34 18 0.10
35 13 0.07
36 27 0.15
37 16 0.09
38 1 0.01
39 2 0.01
40 13 0.07
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (33 bp):
TAATATAAATATATAAATATATTAAAATTTATT
Found at i:731679 original size:18 final size:19
Alignment explanation
Indices: 731658--731712 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 19
731648 TAATTTAATT
*
731658 TAATAAATTA-AAATAACA
1 TAATAAATTATAAATAAAA
731676 TAATTAAATAATATAAATAAAA
1 TAA-TAAAT--TATAAATAAAA
731698 TAA-AAATTATTAAAT
1 TAATAAATTA-TAAAT
731713 TATAATATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
18 5 0.16
19 10 0.32
20 4 0.13
21 2 0.06
22 10 0.32
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
TAATAAATTATAAATAAAA
Found at i:731680 original size:14 final size:14
Alignment explanation
Indices: 731663--731700 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
731653 TAATTTAATA
731663 AATTAAAATAACAT
1 AATTAAAATAACAT
*
731677 AATT-AAATAATAT
1 AATTAAAATAACAT
*
731690 AAATAAAATAA
1 AATTAAAATAA
731701 AAATTATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (14 bp):
AATTAAAATAACAT
Found at i:731709 original size:28 final size:26
Alignment explanation
Indices: 731660--731747 Score: 79
Period size: 28 Copynumber: 3.2 Consensus size: 26
731650 ATTTAATTTA
* *
731660 ATAAATTAAAAT-AACATAATTAAATAAT
1 ATAAA-TAAAATAAAAATTATTAAAT--T
731688 ATAAATAAAATAAAAATTATTAAATT
1 ATAAATAAAATAAAAATTATTAAATT
* *
731714 ATAATATAATATAAAAAATTATAAAATT
1 ATAA-ATAAAAT-AAAAATTATTAAATT
731742 ACTAAA
1 A-TAAA
731748 CAAATATATA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
26 5 0.10
27 12 0.23
28 32 0.62
29 3 0.06
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (26 bp):
ATAAATAAAATAAAAATTATTAAATT
Found at i:731757 original size:36 final size:36
Alignment explanation
Indices: 731683--731765 Score: 87
Period size: 36 Copynumber: 2.2 Consensus size: 36
731673 ACATAATTAA
* **
731683 ATAATATAAATAAAATAAAAATTATTAAATTATAAT
1 ATAATATAAATAAAATAAAAATTACTAAAAAATAAT
*
731719 ATAATATAAA-AAATTATAAAATTACTAAACAAATATAT
1 ATAATATAAATAAAATA-AAAATTACTAAA-AAATA-AT
731757 ATTAATATA
1 A-TAATATA
731766 TTAAATTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
35 5 0.13
36 21 0.54
37 3 0.08
38 3 0.08
39 7 0.18
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (36 bp):
ATAATATAAATAAAATAAAAATTACTAAAAAATAAT
Found at i:731772 original size:31 final size:31
Alignment explanation
Indices: 731735--731826 Score: 100
Period size: 31 Copynumber: 3.0 Consensus size: 31
731725 TAAAAAATTA
*
731735 TAAAATTACTAAACAAATATATATTAATATAT
1 TAAAATTA-TAAATAAATATATATTAATATAT
* *
731767 TAAATTTATTTAATATAA-AT-TATTAATATAT
1 TAAAATTA-TAAATA-AATATATATTAATATAT
*
731798 TAAAATT-TAAATAAATATATAATAATATA
1 TAAAATTATAAATAAATATATATTAATATA
731827 AATATAATTA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
28 2 0.04
29 7 0.14
30 9 0.18
31 17 0.34
32 13 0.26
33 2 0.04
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.42
Consensus pattern (31 bp):
TAAAATTATAAATAAATATATATTAATATAT
Found at i:731779 original size:18 final size:17
Alignment explanation
Indices: 731756--731806 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
731746 AACAAATATA
731756 TATTAATATATTAAATT
1 TATTAATATATTAAATT
*
731773 TATTTA-ATA-TAAA-T
1 TATTAATATATTAAATT
731787 TATTAATATATTAAAATT
1 TATTAATATATT-AAATT
731805 TA
1 TA
731807 AATAAATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
14 6 0.21
15 7 0.25
16 4 0.14
17 8 0.29
18 3 0.11
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATTAATATATTAAATT
Found at i:731847 original size:20 final size:19
Alignment explanation
Indices: 731791--731848 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
731781 ATAAATTATT
*
731791 AATATATTAAAATTTAAATA
1 AATATATTAAAAATT-AATA
*
731811 AATATA-TAATAA-T-ATA
1 AATATATTAAAAATTAATA
731827 AATATAATTAAAAATTAATA
1 AATAT-ATTAAAAATTAATA
731847 AA
1 AA
731849 CACCAATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
16 8 0.26
17 1 0.03
18 6 0.19
19 5 0.16
20 11 0.35
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AATATATTAAAAATTAATA
Found at i:736683 original size:32 final size:32
Alignment explanation
Indices: 736647--736709 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
736637 CTTTTACTGT
*
736647 ATATTTGGCTCACTAAAATGGAATAAAGCTGA
1 ATATTTGGCTCACTAAAATAGAATAAAGCTGA
*
736679 ATATTTGGTTCACTAAAATAGAATAAAGCTG
1 ATATTTGGCTCACTAAAATAGAATAAAGCTG
736710 TAGGAGAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.30
Consensus pattern (32 bp):
ATATTTGGCTCACTAAAATAGAATAAAGCTGA
Found at i:737397 original size:25 final size:25
Alignment explanation
Indices: 737368--737418 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
737358 TCTATTCTTA
*
737368 TCTTTAAGTTACTGAATTTTGTATT
1 TCTTTAAGTTACTAAATTTTGTATT
*
737393 TCTTTAAGTTATTAAATTTTGTATT
1 TCTTTAAGTTACTAAATTTTGTATT
737418 T
1 T
737419 AAATTGAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.25, C:0.06, G:0.10, T:0.59
Consensus pattern (25 bp):
TCTTTAAGTTACTAAATTTTGTATT
Found at i:737929 original size:6 final size:6
Alignment explanation
Indices: 737913--737958 Score: 58
Period size: 6 Copynumber: 7.5 Consensus size: 6
737903 AGAACATTTT
*
737913 AAAAT- AAAATA AAAATA AAAATA AAAACTTA AATATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAA--TA AAAATA AAAATA AAA
737959 TATTTAATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
5 5 0.14
6 26 0.72
8 5 0.14
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:738515 original size:16 final size:17
Alignment explanation
Indices: 738494--738525 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
738484 TTAAATTATA
738494 AAAATATAAT-TAAAAT
1 AAAATATAATATAAAAT
738510 AAAATATAATATAAAA
1 AAAATATAATATAAAA
738526 AATTAACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAATATAATATAAAAT
Found at i:738570 original size:33 final size:33
Alignment explanation
Indices: 738544--738649 Score: 90
Period size: 32 Copynumber: 3.1 Consensus size: 33
738534 TAAATATGTA
*
738544 AATACATTAAAATTTAT-ATAATATAAATTATT
1 AATACATTAAAATATATAATAATATAAATTATT
* * *
738576 AATATATTAAAATATATAATAATTTACATATAATT
1 AATACATTAAAATATATAATAATATA-A-ATTATT
* *
738611 AAAATATATAATAATATATAA-ATATATAAATTACTT
1 AATACAT-TAA-AATATATAATA-ATATAAATTA-TT
738647 AAT
1 AAT
738650 TTAAATTTAT
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
32 15 0.25
33 7 0.12
34 1 0.02
35 14 0.24
36 9 0.15
37 13 0.22
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (33 bp):
AATACATTAAAATATATAATAATATAAATTATT
Found at i:738589 original size:42 final size:44
Alignment explanation
Indices: 738469--738632 Score: 112
Period size: 46 Copynumber: 3.7 Consensus size: 44
738459 TACGATATAA
*
738469 TTATATAATAT-AAAT-TTAA-ATTATA-AAAATATAATTAAAAT
1 TTATATAATATAAAATATTAATAATATATAAAATA-AATTAAAAT
** * * *
738510 AAAATATAATATAAAAAATTAACATAA-ATATGTAAATACATTAAAAT
1 -TTATATAATATAAAATATT-A-ATAATATAT-AAAATAAATTAAAAT
* *
738557 TTATATAATATAAATTATTAAT-ATAT-TAAAATATA-TAATAAT
1 TTATATAATATAAAATATTAATAATATATAAAATAAATTAA-AAT
738599 TTACATATAAT-TAAAATATATAATAATATATAAA
1 TT--ATATAATATAAAATAT-TAATAATATATAAA
738633 TATATAAATT
Statistics
Matches: 95, Mismatches: 13, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
41 3 0.03
42 20 0.21
43 12 0.13
44 17 0.18
45 6 0.06
46 23 0.24
47 9 0.09
48 5 0.05
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (44 bp):
TTATATAATATAAAATATTAATAATATATAAAATAAATTAAAAT
Found at i:740063 original size:6 final size:6
Alignment explanation
Indices: 740054--740084 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
740044 TCAACAACAC
740054 CCATCT CCATCT CCATCT CCATCT CCATCT C
1 CCATCT CCATCT CCATCT CCATCT CCATCT C
740085 ACCTTAATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.52, G:0.00, T:0.32
Consensus pattern (6 bp):
CCATCT
Found at i:741684 original size:25 final size:23
Alignment explanation
Indices: 741642--741694 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 23
741632 TCATATTGCA
741642 TATTTTTTTATTTCTATTATTAT
1 TATTTTTTTATTTCTATTATTAT
* *
741665 TATTATTTTTATATTGTATTATTTT
1 TATT-TTTTTAT-TTCTATTATTAT
741690 TATTT
1 TATTT
741695 AATCAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 4 0.15
24 8 0.31
25 14 0.54
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.74
Consensus pattern (23 bp):
TATTTTTTTATTTCTATTATTAT
Found at i:741918 original size:5 final size:5
Alignment explanation
Indices: 741910--741940 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
741900 AGATCGGATC
*
741910 ATAAT ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
741941 AGAAAAGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
ATAAA
Found at i:742461 original size:2 final size:2
Alignment explanation
Indices: 742454--742484 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
742444 TAAATATTAG
742454 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 A
742485 ATTTTTTATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:744791 original size:64 final size:63
Alignment explanation
Indices: 744711--744829 Score: 159
Period size: 63 Copynumber: 1.9 Consensus size: 63
744701 AAACAAAAAG
*
744711 AAAAATGACATTATGTTTTTAACT-TTTCATGATTTCTCGACATGGAACATAGTATGTCTGAAAC
1 AAAAATGACATTATG-TTTTAACTCTAT-ATGATTTCTCGACATGGAACATAGTATGTCTGAAAC
* * * * *
744775 AAAAATGACGTTATGTTTTGAGTCTATATGATTTCTTGACATGTAACATAGTATG
1 AAAAATGACATTATGTTTTAACTCTATATGATTTCTCGACATGGAACATAGTATG
744830 GGCATATTGC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
63 32 0.67
64 16 0.33
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.39
Consensus pattern (63 bp):
AAAAATGACATTATGTTTTAACTCTATATGATTTCTCGACATGGAACATAGTATGTCTGAAAC
Found at i:746936 original size:2 final size:2
Alignment explanation
Indices: 746929--746968 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
746919 TTAAGGCAGA
746929 AT 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 AT
746969 TCATCAGACC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:749156 original size:21 final size:20
Alignment explanation
Indices: 749107--749156 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 20
749097 ATTGAGTTTT
749107 ATTTATTTTATTAAAATTAA
1 ATTTATTTTATTAAAATTAA
749127 ATTTAATTTTATATAAAAATTAA
1 ATTT-ATTTTAT-T-AAAATTAA
749150 A-TTATTT
1 ATTTATTT
749157 GAATTTCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 4 0.15
21 11 0.41
22 3 0.11
23 9 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTTATTTTATTAAAATTAA
Found at i:749259 original size:27 final size:26
Alignment explanation
Indices: 749215--749266 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
749205 TATAATTGAT
* *
749215 TTTAAATTTAATTATTTAATTTTAAG
1 TTTAAATTAAATTATTTAATATTAAG
*
749241 TTTAAATTAAAATTTTTTAATATTAA
1 TTTAAATT-AAATTATTTAATATTAA
749267 TTAAAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (26 bp):
TTTAAATTAAATTATTTAATATTAAG
Found at i:750468 original size:17 final size:17
Alignment explanation
Indices: 750446--750480 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
750436 AATATATTAT
750446 ATTATGTTAATTATAAA
1 ATTATGTTAATTATAAA
750463 ATTATGTTAATTATAAA
1 ATTATGTTAATTATAAA
750480 A
1 A
750481 ATTAAAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (17 bp):
ATTATGTTAATTATAAA
Found at i:755166 original size:15 final size:15
Alignment explanation
Indices: 755146--755192 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 15
755136 AAATATGTTT
755146 TTAAAATTTATATAA
1 TTAAAATTTATATAA
755161 TTAAAA-TTATTAATATA
1 TTAAAATTTA-T-ATA-A
755178 TTAAAATTTATATAA
1 TTAAAATTTATATAA
755193 ATATAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 3 0.11
15 8 0.29
16 6 0.21
17 8 0.29
18 3 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTAAAATTTATATAA
Found at i:755188 original size:18 final size:18
Alignment explanation
Indices: 755146--755201 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 18
755136 AAATATGTTT
755146 TTAAAATTTA-T-ATA-A
1 TTAAAATTTATTAATATA
755161 TTAAAA-TTATTAATATA
1 TTAAAATTTATTAATATA
755178 TTAAAATTTATATAA-ATA
1 TTAAAATTTAT-TAATATA
755196 -TAAAAT
1 TTAAAAT
755202 ATTTTAAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 3 0.08
15 7 0.19
16 3 0.08
17 13 0.36
18 7 0.19
19 3 0.08
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TTAAAATTTATTAATATA
Found at i:755195 original size:20 final size:21
Alignment explanation
Indices: 755172--755254 Score: 76
Period size: 18 Copynumber: 4.3 Consensus size: 21
755162 TAAAATTATT
755172 AATATATTAAAAT-TTATAT-
1 AATATATTAAAATATTATATA
755191 AA-ATA-TAAAATATT-T-TA
1 AATATATTAAAATATTATATA
*
755208 AATATAATTATAATATTATA-A
1 AATAT-ATTAAAATATTATATA
*
755229 AATATA-T-AAATATAATATA
1 AATATATTAAAATATTATATA
755248 AATATAT
1 AATATAT
755255 AAATTATACC
Statistics
Matches: 52, Mismatches: 3, Indels: 17
0.72 0.04 0.24
Matches are distributed among these distances:
16 1 0.02
17 9 0.17
18 15 0.29
19 11 0.21
20 9 0.17
21 7 0.13
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AATATATTAAAATATTATATA
Found at i:755197 original size:8 final size:8
Alignment explanation
Indices: 755186--755262 Score: 50
Period size: 8 Copynumber: 8.8 Consensus size: 8
755176 TATTAAAATT
755186 TATATAAA
1 TATATAAA
755194 TATA-AAA
1 TATATAAA
*
755201 TATTTTAAA
1 TA-TATAAA
755210 TATAATTATAA
1 TAT-A-TA-AA
755221 TATTATAAAA
1 TA-TAT-AAA
755231 TATATAAATA
1 TATAT-AA-A
755241 TAATATAAA
1 T-ATATAAA
755250 TATATAAA
1 TATATAAA
755258 T-TATA
1 TATATA
755263 CCGACTATAA
Statistics
Matches: 58, Mismatches: 2, Indels: 19
0.73 0.03 0.24
Matches are distributed among these distances:
7 9 0.16
8 14 0.24
9 13 0.22
10 11 0.19
11 10 0.17
12 1 0.02
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
TATATAAA
Found at i:755248 original size:11 final size:11
Alignment explanation
Indices: 755187--755253 Score: 56
Period size: 11 Copynumber: 6.5 Consensus size: 11
755177 ATTAAAATTT
755187 ATATAAATATAA
1 ATAT-AATATAA
* *
755199 A-ATATTTTAA
1 ATATAATATAA
755209 ATATAAT-TATA
1 ATATAATATA-A
755220 ATAT--TATAA
1 ATATAATATAA
755229 A-AT-ATATAA
1 ATATAATATAA
755238 ATATAATATAA
1 ATATAATATAA
755249 ATATA
1 ATATA
755254 TAAATTATAC
Statistics
Matches: 46, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
8 2 0.04
9 9 0.20
10 12 0.26
11 22 0.48
12 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
ATATAATATAA
Found at i:755262 original size:20 final size:19
Alignment explanation
Indices: 755187--755258 Score: 71
Period size: 19 Copynumber: 3.8 Consensus size: 19
755177 ATTAAAATTT
755187 ATATAAATATA-AAATAT-
1 ATATAAATATATAAATATA
* *
755204 -TTTAAATATAATTATAATATT
1 ATATAAATAT-A-TA-AATATA
755225 ATA-AAATATATAAATATA
1 ATATAAATATATAAATATA
755243 ATATAAATATATAAAT
1 ATATAAATATATAAAT
755259 TATACCGACT
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
16 8 0.18
17 1 0.02
18 8 0.18
19 15 0.33
20 6 0.13
21 6 0.13
22 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
ATATAAATATATAAATATA
Found at i:755262 original size:28 final size:27
Alignment explanation
Indices: 755187--755262 Score: 86
Period size: 29 Copynumber: 2.8 Consensus size: 27
755177 ATTAAAATTT
*
755187 ATATAAATATA-AAATATTTTAAATATA
1 ATATAAATATATAAATA-TATAAATATA
755214 AT-TATAATATTATAAAATATATAAATATA
1 ATATA-AATA-TAT-AAATATATAAATATA
755243 ATATAAATATATAAAT-TATA
1 ATATAAATATATAAATATATA
755263 CCGACTATAA
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
26 6 0.14
27 10 0.23
28 5 0.12
29 15 0.35
30 7 0.16
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (27 bp):
ATATAAATATATAAATATATAAATATA
Found at i:755434 original size:21 final size:21
Alignment explanation
Indices: 755410--755451 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
755400 ATTTTTTTTA
755410 ATTTGAGTT-AATTTAATATAT
1 ATTTGAGTTAAATTTAA-ATAT
* *
755431 ATTTTATTTAAATTTAAATAT
1 ATTTGAGTTAAATTTAAATAT
755452 TTTATTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (21 bp):
ATTTGAGTTAAATTTAAATAT
Found at i:755681 original size:35 final size:30
Alignment explanation
Indices: 755578--755661 Score: 102
Period size: 30 Copynumber: 2.8 Consensus size: 30
755568 TATATTTCTA
*
755578 TTATTATTTTAGTATAAATATAATATT-AA--
1 TTATTA-TTTAATATAAATATAAT-TTAAATT
* *
755607 TTATTATTTAAAATGAATATAATTTAAATT
1 TTATTATTTAATATAAATATAATTTAAATT
755637 TTATTATTTAATATAAATATAATTT
1 TTATTATTTAATATAAATATAATTT
755662 TAATAATATT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
27 2 0.04
28 16 0.34
29 6 0.13
30 23 0.49
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (30 bp):
TTATTATTTAATATAAATATAATTTAAATT
Found at i:756180 original size:69 final size:69
Alignment explanation
Indices: 756091--756230 Score: 237
Period size: 69 Copynumber: 2.0 Consensus size: 69
756081 CTTAAAATTA
* *
756091 ATTAAAAGTAAAATTTGATTTAATTCAA-ATATTATGATATTTTGATTTATAAAATAAAAATTAA
1 ATTAAAAATAAAATTTGATTTAATTCAATA-ATTATGATATTTTAATTTATAAAATAAAAATTAA
756155 TTTAC
65 TTTAC
*
756160 ATTAAAAATAAACTTTGATTTAATTCAATAATTATGATATTTTAATTTATAAAATAAAAATTAAT
1 ATTAAAAATAAAATTTGATTTAATTCAATAATTATGATATTTTAATTTATAAAATAAAAATTAAT
756225 TTAC
66 TTAC
756229 AT
1 AT
756231 ATATTTAATT
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
69 66 0.99
70 1 0.01
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (69 bp):
ATTAAAAATAAAATTTGATTTAATTCAATAATTATGATATTTTAATTTATAAAATAAAAATTAAT
TTAC
Found at i:756334 original size:16 final size:16
Alignment explanation
Indices: 756313--756348 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
756303 CTATTTGAAA
756313 CAATTTATAATTTTCT
1 CAATTTATAATTTTCT
756329 CAATTTATAATTTTCT
1 CAATTTATAATTTTCT
756345 -AATT
1 CAATT
756349 AAGTATTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (16 bp):
CAATTTATAATTTTCT
Found at i:757161 original size:24 final size:22
Alignment explanation
Indices: 757110--757179 Score: 70
Period size: 24 Copynumber: 3.0 Consensus size: 22
757100 TTCAAACAGA
* *
757110 TTTAAAATAATTTAAATTATTAT
1 TTTAAAATAAATTAAATT-TAAT
757133 TTTAATAATAAATTAAATTTAAT
1 TTTAA-AATAAATTAAATTTAAT
757156 TATTAAAA-AAATATAAATATTAAT
1 T-TTAAAATAAAT-TAAAT-TTAAT
757180 ATAAAAAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
22 4 0.10
23 16 0.39
24 21 0.51
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TTTAAAATAAATTAAATTTAAT
Found at i:757184 original size:22 final size:22
Alignment explanation
Indices: 757111--757187 Score: 61
Period size: 24 Copynumber: 3.4 Consensus size: 22
757101 TCAAACAGAT
* *
757111 TTAAAATAATTTAAATTATTATT-
1 TTAAAA-AAATTAAATT-TAATTA
757134 TTAATAATAAATTAAATTTAATTA
1 TTAA-AA-AAATTAAATTTAATTA
757158 TTAAAAAAATATAAATATTAA-TA
1 TTAAAAAAAT-TAAAT-TTAATTA
757181 -TAAAAAA
1 TTAAAAAA
757188 TAATATTTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
22 11 0.23
23 17 0.35
24 20 0.42
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAAAAAAATTAAATTTAATTA
Found at i:757185 original size:20 final size:20
Alignment explanation
Indices: 757161--757201 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
757151 TTAATTATTA
*
757161 AAAAAATATAAATATTAATAT
1 AAAAAATA-ATATATTAATAT
*
757182 AAAAAATAATATTTTAATAT
1 AAAAAATAATATATTAATAT
757202 TATTATAAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAAAATAATATATTAATAT
Found at i:757800 original size:160 final size:155
Alignment explanation
Indices: 757611--757901 Score: 422
Period size: 158 Copynumber: 1.8 Consensus size: 155
757601 AATCAACGGC
*
757611 GATAAAAACATTGTAAGCGAAAATCGATTTCAATTTCTTGCATAATTTTTTATATAATTATATTA
1 GATAAAAACATTGTAAGCGAAAATCGATTTCAATTTCTTGCATAA-TTTTT-TATAATTATATGA
** *
757676 ATTTATTTGTTGAATTGAGAATT-TTTTTTACTGCTTGATTTACTATCTGTTTATATTTTAAAAT
64 ACCTATTTGTTGAATTGAGAATTATTTTTT-CTGCTTGATTTACGATCTGTTTA-ATTTT-AAAT
757740 TTGAATTTAATTACTGGTATTTGGATCTGGT
126 TT-AATTTAATTACTGGTATTTGGATCTGGT
* * * * * *
757771 GATAACAACATTTTAAGCGAAATTCGATTTCCATTTTTTGCATAATTTTTTATAATTGTATGAAC
1 GATAAAAACATTGTAAGCGAAAATCGATTTCAATTTCTTGCATAATTTTTTATAATTATATGAAC
*
757836 CTATTTGTTGAATTGGGAATTATTTTTTCTGCTTGATTTACGATCTGTTTAATTTTAAATTTAAT
66 CTATTTGTTGAATTGAGAATTATTTTTTCTGCTTGATTTACGATCTGTTTAATTTTAAATTTAAT
757901 T
131 T
757902 CGTGGCGTTT
Statistics
Matches: 119, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
155 4 0.03
156 6 0.05
157 5 0.04
158 53 0.45
159 11 0.09
160 40 0.34
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.49
Consensus pattern (155 bp):
GATAAAAACATTGTAAGCGAAAATCGATTTCAATTTCTTGCATAATTTTTTATAATTATATGAAC
CTATTTGTTGAATTGAGAATTATTTTTTCTGCTTGATTTACGATCTGTTTAATTTTAAATTTAAT
TTAATTACTGGTATTTGGATCTGGT
Found at i:757868 original size:158 final size:155
Alignment explanation
Indices: 757611--758050 Score: 466
Period size: 150 Copynumber: 2.8 Consensus size: 155
757601 AATCAACGGC
* * * * *
757611 GATAAAAACATTGTAAGCGAAAATCGATTTCAATTTCTTGCATAATTTTTTATATAATTATATTA
1 GATAACAACATTTTAAGCGAAATTCGATTTCCATTTTTTGCATAA-TTTTT-TATAATTATATTA
** *
757676 ATTTATTTGTTGAATTGAGAATTTTTTTTACTGCTTGATTTACTATCTGTTTATATTTTAAAATT
64 ACCTATTTGTTGAATTGGGAATTTTTTTT-CTGCTTGATTTACTATCTGTTTA-ATTTT-AAATT
*
757741 TGAATTTAATTAC-TGGTATTTGGA-TCTGGT
126 TGAATTTAATT-CGTGGCATTTGGATTC-GGT
* *
757771 GATAACAACATTTTAAGCGAAATTCGATTTCCATTTTTTGCATAATTTTTTATAATTGTATGAAC
1 GATAACAACATTTTAAGCGAAATTCGATTTCCATTTTTTGCATAATTTTTTATAATTATATTAAC
*
757836 CTATTTGTTGAATTGGGAATTATTTTTTCTGCTTGATTTACGATCTGTTTAATTTT--A----AA
66 CTATTTGTTGAATTGGGAATT-TTTTTTCTGCTTGATTTACTATCTGTTTAATTTTAAATTTGAA
* *
757895 TTTAATTCGTGGCGTTTGGCTTCGGT
130 TTTAATTCGTGGCATTTGGATTCGGT
* * * * * * * * *
757921 GATGACAACATTGTT-TGAGAAATTTGATTTCCGTATTTTGCATAATTATTCATAATTATGTTAA
1 GATAACAACATT-TTAAGCGAAATTCGATTTCCATTTTTTGCATAATTTTTTATAATTATATTAA
* * * * *
757985 CCTATTTGTTGAGTTGGGAATTTTTTTACTGCATGATTTAATACTCTTTTTAAATTTTAAATTTG
65 CCTATTTGTTGAATTGGGAATTTTTTTTCTGCTTGATTTACTA-TCTGTTT-AATTTTAAATTTG
758050 A
128 A
758051 TCCATGGTGT
Statistics
Matches: 237, Mismatches: 31, Indels: 27
0.80 0.11 0.09
Matches are distributed among these distances:
149 18 0.08
150 97 0.41
151 10 0.04
153 1 0.00
154 1 0.00
157 6 0.03
158 53 0.22
159 11 0.05
160 40 0.17
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.48
Consensus pattern (155 bp):
GATAACAACATTTTAAGCGAAATTCGATTTCCATTTTTTGCATAATTTTTTATAATTATATTAAC
CTATTTGTTGAATTGGGAATTTTTTTTCTGCTTGATTTACTATCTGTTTAATTTTAAATTTGAAT
TTAATTCGTGGCATTTGGATTCGGT
Found at i:762890 original size:13 final size:13
Alignment explanation
Indices: 762872--762896 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
762862 AATAAATATT
762872 TATTATTTTAAAA
1 TATTATTTTAAAA
762885 TATTATTTTAAA
1 TATTATTTTAAA
762897 TAATAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATTATTTTAAAA
Found at i:763603 original size:21 final size:21
Alignment explanation
Indices: 763577--763633 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
763567 AAATTATCCA
763577 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
763598 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
*
763619 AATGTATTGATACAT
1 AATGTATCGATACAT
763634 CCTACAAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:763713 original size:19 final size:19
Alignment explanation
Indices: 763689--763756 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
763679 AATTCAACAA
763689 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
763708 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
*
763723 --TGTATTGATACATAAGT
1 TTTGTATCGATACATAAGT
*
763740 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
763757 TTAGCTACTG
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
13 10 0.24
15 2 0.05
17 2 0.05
19 27 0.66
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:763733 original size:32 final size:32
Alignment explanation
Indices: 763691--763753 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
763681 TTCAACAATT
*
763691 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
*
763723 TGTATTGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
763754 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:763814 original size:13 final size:13
Alignment explanation
Indices: 763796--763821 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
763786 CATTTTTCTG
763796 TGTATCGATACAT
1 TGTATCGATACAT
763809 TGTATCGATACAT
1 TGTATCGATACAT
763822 GGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:763818 original size:33 final size:33
Alignment explanation
Indices: 763776--763842 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
763766 GTCAAGGAAA
***
763776 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
763809 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
763842 T
1 T
763843 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:766363 original size:28 final size:27
Alignment explanation
Indices: 766293--766367 Score: 100
Period size: 27 Copynumber: 2.7 Consensus size: 27
766283 TTTCTTCACA
766293 ATCGGGGATACTCCAACCCCGTTGATC
1 ATCGGGGATACTCCAACCCCGTTGATC
766320 ATCGGGGATACTCCAACCCCGTT-AT-
1 ATCGGGGATACTCCAACCCCGTTGATC
*
766345 TTCCGAGGGGATACTCCAACCCC
1 AT-C--GGGGATACTCCAACCCC
766368 AACTTTATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
25 1 0.02
26 3 0.07
27 23 0.52
28 17 0.39
ACGTcount: A:0.23, C:0.35, G:0.21, T:0.21
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTGATC
Found at i:766477 original size:52 final size:50
Alignment explanation
Indices: 766184--766572 Score: 205
Period size: 52 Copynumber: 7.4 Consensus size: 50
766174 CTCAATTCTC
* * * * *
766184 CACAATCGGGGATATTCCAACTCCAATTTTATTTTCAAAACACTAA-TTTT
1 CACAATCGGGGATACTCCAACCCCGATTTTATTCT-AAAACACCAATTTTT
* * *
766234 CTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTT
1 C-ACAATCGGGGATACTCCAACCCCGATTTTA-TT-C-TAAAACACCAATTT-TT
* ** **
766289 CACAATCGGGGATACTCCAACCCCG-TTGATCATCGGGGATACTCCAAC-CCCGTTATTT
1 CACAATCGGGGATACTCCAACCCCGATT--T--T-----ATTCTAAAACACCAATT-TTT
* * * * * ***
766347 C-CGA--GGGGATACTCCAACCCCAACTTTATTTCCAAAATATTGATTTTT
1 CACAATCGGGGATACTCCAACCCCGATTTTA-TTCTAAAACACCAATTTTT
* * *
766395 CATAATCGGGGATATTCCAACCCCGATTTTATTGCTAAAACACTAATTTTT
1 CACAATCGGGGATACTCCAACCCCGATTTTATT-CTAAAACACCAATTTTT
* * * *
766446 CCACAATCGGGGATACTCCAACCCCGTTTTTATTTTCGAAACACCAATTTTC
1 -CACAATCGGGGATACTCCAACCCCGATTTTATTCT-AAAACACCAATTTTT
** * * * *
766498 CTTTAATCGGGGATACTCCGACTCCGATTTTATTTCCAAAAATACCAATTTTT
1 C-ACAATCGGGGATACTCCAACCCCGATTTTA-TT-CTAAAACACCAATTTTT
* *
766551 CACAGTCGAGGATACTCCAACC
1 CACAATCGGGGATACTCCAACC
766573 TTGTTATTTC
Statistics
Matches: 253, Mismatches: 58, Indels: 54
0.69 0.16 0.15
Matches are distributed among these distances:
47 1 0.00
48 8 0.03
49 3 0.01
50 3 0.01
51 63 0.25
52 85 0.34
53 26 0.10
54 25 0.10
55 21 0.08
56 1 0.00
57 3 0.01
58 7 0.03
59 4 0.02
60 1 0.00
61 1 0.00
62 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (50 bp):
CACAATCGGGGATACTCCAACCCCGATTTTATTCTAAAACACCAATTTTT
Found at i:766592 original size:28 final size:28
Alignment explanation
Indices: 766560--766630 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
766550 TCACAGTCGA
** * **
766560 GGATACTCCAACCTTGTTATTTCATCGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
*
766588 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
766616 GGATACTCCAACCCC
1 GGATACTCCAACCCC
766631 AGCTTTATTC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.25
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCAGAGG
Found at i:766649 original size:263 final size:263
Alignment explanation
Indices: 766182--766682 Score: 776
Period size: 263 Copynumber: 1.9 Consensus size: 263
766172 TTCTCAATTC
* * *
766182 TCCACAATCGGGGATATTCCAACTCCAATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGGATACTCCAACCCCAATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
*
766247 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
*
766312 CGTTGATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAACTTTATT
131 CGTTGATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCAACTTTATT
* *
766377 TCCAAAATATTGATTTTTCATAATCGGGGATATTCCAACCCCGATTTTATTGCTAAAACACTAAT
196 TCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAAT
766442 TTT
261 TTT
** * *
766445 TCCACAATCGGGGATACTCCAACCCCGTTTTTATTTTCGAAACACCAATTTTCCTTTAATCGGGG
1 TCCACAATCGGGGATACTCCAACCCCAATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGG
* * *
766510 ATACTCCGACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAGTCGAGGATACTCCAACC
65 ATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACC
** *
766573 TTGTT-ATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCAGCTTT
130 CCGTTGA--TCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCAACTTT
*
766637 A-TTCGCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCCG
193 ATTTC-CAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCG
766683 TTATTTTCGA
Statistics
Matches: 216, Mismatches: 18, Indels: 8
0.89 0.07 0.03
Matches are distributed among these distances:
261 1 0.00
262 28 0.13
263 152 0.70
264 35 0.16
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.31
Consensus pattern (263 bp):
TCCACAATCGGGGATACTCCAACCCCAATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTGATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCAACTTTATT
TCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAAT
TTT
Found at i:766764 original size:78 final size:78
Alignment explanation
Indices: 766585--766788 Score: 239
Period size: 78 Copynumber: 2.6 Consensus size: 78
766575 GTTATTTCAT
* * *
766585 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCAGCTTTATTCGCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCC-GATTTATTCGCAAAATAT
* * *
766650 TGATTTCTCATAAT
65 CGATTTCTCACAAC
* * * ** *
766664 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTC-TAATCAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTATTCGCAAAAT-AT
766728 CGATTTCTCACAAC
65 CGATTTCTCACAAC
* * * *
766742 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
766789 TTATTATCTC
Statistics
Matches: 106, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
77 3 0.03
78 61 0.58
79 42 0.40
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTATTCGCAAAATATC
GATTTCTCACAAC
Found at i:767794 original size:2 final size:2
Alignment explanation
Indices: 767787--767814 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
767777 ACATACATAC
767787 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
767815 GTTCAGCCAC
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:768100 original size:32 final size:34
Alignment explanation
Indices: 768042--768113 Score: 112
Period size: 32 Copynumber: 2.2 Consensus size: 34
768032 ATATAACCAC
*
768042 AATATAAATATATGAATATATTAAAATTTATAT-
1 AATATAAATATATGAATATATAAAAATTTATATA
*
768075 AATATAAAT-TATTAATATATAAAAATTTATATA
1 AATATAAATATATGAATATATAAAAATTTATATA
768108 AATATA
1 AATATA
768114 TTAAAAAGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 21 0.58
33 15 0.42
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (34 bp):
AATATAAATATATGAATATATAAAAATTTATATA
Found at i:768111 original size:20 final size:19
Alignment explanation
Indices: 768050--768120 Score: 64
Period size: 20 Copynumber: 3.9 Consensus size: 19
768040 ACAATATAAA
*
768050 TATATGAATATATTAAAATT
1 TATAT-AATATATAAAAATT
768070 TATAT-A-ATAT--AAA-T
1 TATATAATATATAAAAATT
768084 TAT-TAATATATAAAAATT
1 TATATAATATATAAAAATT
768102 TATATAAATATATTAAAAA
1 TATAT-AATATA-TAAAAA
768121 GATAAAAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 15
0.74 0.00 0.26
Matches are distributed among these distances:
13 1 0.02
14 5 0.12
15 7 0.16
17 7 0.16
18 5 0.12
19 1 0.02
20 11 0.26
21 6 0.14
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.42
Consensus pattern (19 bp):
TATATAATATATAAAAATT
Found at i:768134 original size:32 final size:31
Alignment explanation
Indices: 768064--768149 Score: 79
Period size: 31 Copynumber: 2.8 Consensus size: 31
768054 TGAATATATT
* ** * *
768064 AAAATTTATATAATATAAATTATTAATATATA
1 AAAATTTATATAA-ATATATTAAAAAGATAAA
768096 AAAATTTATATAAATATATTAAAAAGATAAA
1 AAAATTTATATAAATATATTAAAAAGATAAA
768127 AATAA-TT-T-TAAATCATATTAAAA
1 AA-AATTTATATAAAT-ATATTAAAA
768150 TATTATTTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
29 5 0.11
30 10 0.21
31 17 0.36
32 15 0.32
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (31 bp):
AAAATTTATATAAATATATTAAAAAGATAAA
Found at i:769132 original size:2 final size:2
Alignment explanation
Indices: 769125--769149 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
769115 TTACCTTTAC
769125 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 T
769150 TAAATTGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:771264 original size:6 final size:6
Alignment explanation
Indices: 771253--771281 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
771243 AGGAACTGAA
771253 AGTGGC AGTGGC AGTGGC AGTGGC AGTGG
1 AGTGGC AGTGGC AGTGGC AGTGGC AGTGG
771282 TTGGGGCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.14, G:0.52, T:0.17
Consensus pattern (6 bp):
AGTGGC
Found at i:773273 original size:2 final size:2
Alignment explanation
Indices: 773266--773299 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
773256 CAGGTACTGG
773266 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
773300 TATTTAGTTG
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:773650 original size:18 final size:17
Alignment explanation
Indices: 773624--773667 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
773614 ATAAGGAAAA
*
773624 AAAAGAAAAGAAAAAGAT
1 AAAATAAAAGAAAAAG-T
*
773642 AAAATAAAAAGAAATAGT
1 AAAAT-AAAAGAAAAAGT
773660 AAAATAAA
1 AAAATAAA
773668 TCAATAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 3 0.13
18 10 0.43
19 10 0.43
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (17 bp):
AAAATAAAAGAAAAAGT
Found at i:776329 original size:4 final size:4
Alignment explanation
Indices: 776320--776349 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
776310 CAAATTAGTT
*
776320 ATAC ATAC ATAC ATAC ATAC ATCC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
776350 GTATATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:776358 original size:2 final size:2
Alignment explanation
Indices: 776351--776391 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
776341 TCCATACATG
*
776351 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
776392 TCAGTGTTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:777279 original size:41 final size:41
Alignment explanation
Indices: 777234--777317 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
777224 CAGTTTTATT
777234 TTTATTTTGAATCATGGTTAAACTTTAAAAGTAAAACTTGA
1 TTTATTTTGAATCATGGTTAAACTTTAAAAGTAAAACTTGA
*
777275 TTTATTTTGAATCATGGTTAAACTTTAAAATTAAAACTTGA
1 TTTATTTTGAATCATGGTTAAACTTTAAAAGTAAAACTTGA
777316 TT
1 TT
777318 GAGCTCAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.38, C:0.07, G:0.11, T:0.44
Consensus pattern (41 bp):
TTTATTTTGAATCATGGTTAAACTTTAAAAGTAAAACTTGA
Found at i:779204 original size:32 final size:33
Alignment explanation
Indices: 779143--779208 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
779133 TAATAAAAAC
779143 ATAATATAAAGATACGAATATGTTAAAATTTAT
1 ATAATATAAAGATACGAATATGTTAAAATTTAT
** *
779176 ATAATATAAA-ATATTAATGTGTTAAAATTTAT
1 ATAATATAAAGATACGAATATGTTAAAATTTAT
779208 A
1 A
779209 CAAAATATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 20 0.67
33 10 0.33
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.39
Consensus pattern (33 bp):
ATAATATAAAGATACGAATATGTTAAAATTTAT
Found at i:779855 original size:20 final size:20
Alignment explanation
Indices: 779825--779904 Score: 97
Period size: 20 Copynumber: 4.0 Consensus size: 20
779815 CACATTTTTA
779825 TTCAGATGTATCGATACATTT
1 TTCA-ATGTATCGATACATTT
*
779846 TTCAATGTATCGATACATGT
1 TTCAATGTATCGATACATTT
* * *
779866 ATGAATGTATCGATACATTC
1 TTCAATGTATCGATACATTT
* *
779886 TTCCATGTATCAATACATT
1 TTCAATGTATCGATACATT
779905 CTGTCTTTTT
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
20 46 0.92
21 4 0.08
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.40
Consensus pattern (20 bp):
TTCAATGTATCGATACATTT
Found at i:783753 original size:2 final size:2
Alignment explanation
Indices: 783746--783771 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
783736 AGTTATTGGT
783746 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
783772 AATGAGGAAG
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):
TA
Found at i:787682 original size:20 final size:20
Alignment explanation
Indices: 787606--787683 Score: 84
Period size: 20 Copynumber: 3.8 Consensus size: 20
787596 AAAAACCCAA
* *
787606 AATGTATCGATACAATGAGT
1 AATGTATCGATACATTGAAT
*
787626 AATGTATCGATACAATTGTAAG
1 AATGTATCGATAC-ATTG-AAT
* * *
787648 CATGTATTGATACATTGACT
1 AATGTATCGATACATTGAAT
787668 AATGTATCGATACATT
1 AATGTATCGATACATT
787684 TCCTTGGTAG
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 28 0.60
21 7 0.15
22 12 0.26
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTGAAT
Found at i:794651 original size:19 final size:19
Alignment explanation
Indices: 794629--794676 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
794619 ACATTATATT
794629 GATACATGATC-ATTGTATC
1 GATACATGA-CAATTGTATC
794648 GATACATGGACAATTGTATC
1 GATACAT-GACAATTGTATC
794668 GATACATGA
1 GATACATGA
794677 AACTGGCAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 10 0.37
20 17 0.63
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (19 bp):
GATACATGACAATTGTATC
Found at i:794738 original size:13 final size:13
Alignment explanation
Indices: 794720--794750 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
794710 CGATACATGG
794720 TACATTGTATCGA
1 TACATTGTATCGA
794733 TACATTGTATCGA
1 TACATTGTATCGA
*
794746 CACAT
1 TACAT
794751 GAAGAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:794751 original size:33 final size:32
Alignment explanation
Indices: 794704--794772 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 32
794694 TTACCACTGT
*
794704 TTGTATCGATACATG-GTACATTGTATCGATACA
1 TTGTATCGACACATGAG-A-ATTGTATCGATACA
794737 TTGTATCGACACATGAAGAATTGTATCGATACA
1 TTGTATCGACACATG-AGAATTGTATCGATACA
794770 TTG
1 TTG
794773 CTTGTAACGA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
33 31 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (32 bp):
TTGTATCGACACATGAGAATTGTATCGATACA
Found at i:796364 original size:3 final size:3
Alignment explanation
Indices: 796356--796391 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
796346 TCAACCATCA
* *
796356 ATG ATG ATG AAG ATG ATA ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
796392 GTGACTTGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.31
Consensus pattern (3 bp):
ATG
Found at i:801177 original size:22 final size:20
Alignment explanation
Indices: 801133--801177 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
801123 GCAGCCACCT
* *
801133 CCAGGTTGCGATCGGCACTC
1 CCAGGTTGCAACCGGCACTC
801153 CCAGGTTGCAACCGGGCAACTC
1 CCAGGTTGCAACC-GGC-ACTC
801175 CCA
1 CCA
801178 CACCCACTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
21 3 0.14
22 7 0.33
ACGTcount: A:0.20, C:0.38, G:0.27, T:0.16
Consensus pattern (20 bp):
CCAGGTTGCAACCGGCACTC
Found at i:803254 original size:20 final size:20
Alignment explanation
Indices: 803229--803266 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
803219 GTATCAATAC
803229 ATTGTATCGATACATGAAGA
1 ATTGTATCGATACATGAAGA
803249 ATTGTATCGATACATGAA
1 ATTGTATCGATACATGAA
803267 ACTGGCAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (20 bp):
ATTGTATCGATACATGAAGA
Found at i:803327 original size:13 final size:13
Alignment explanation
Indices: 803309--803361 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
803299 CAATACATGG
803309 TACATTGTATCGA
1 TACATTGTATCGA
803322 TACATTGTATCGA
1 TACATTGTATCGA
803335 TACA-TG-AT-G-
1 TACATTGTATCGA
803344 -A-ATTGTATCGA
1 TACATTGTATCGA
803355 TACATTG
1 TACATTG
803362 CTTGTAACGG
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 21 0.62
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:803338 original size:33 final size:33
Alignment explanation
Indices: 803293--803361 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
803283 TTACCATTAT
*
803293 TTGTATCAATACATGGT-ACATTGTATCGATACA
1 TTGTATCAATACATGATGA-ATTGTATCGATACA
*
803326 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCAATACATGATGAATTGTATCGATACA
803359 TTG
1 TTG
803362 CTTGTAACGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (33 bp):
TTGTATCAATACATGATGAATTGTATCGATACA
Found at i:805938 original size:9 final size:9
Alignment explanation
Indices: 805924--805951 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
805914 AAAGAACTAT
805924 AGAAATAAA
1 AGAAATAAA
805933 AGAAATAAA
1 AGAAATAAA
805942 AGAAATAAA
1 AGAAATAAA
805951 A
1 A
805952 AAAGAAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (9 bp):
AGAAATAAA
Found at i:807221 original size:17 final size:17
Alignment explanation
Indices: 807185--807222 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
807175 TTAACTTGTT
*
807185 TTTTTTCTTATTTTATC
1 TTTTTTCTTATTTTACC
807202 TTTTTTCTTATCTTT-CC
1 TTTTTTCTTAT-TTTACC
807219 TTTT
1 TTTT
807223 CTTTTTTCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTTCTTATTTTACC
Found at i:814296 original size:3 final size:3
Alignment explanation
Indices: 814288--814344 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
814278 TTTTTAGCCA
814288 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
814336 ATT ATT ATT
1 ATT ATT ATT
814345 TCAGTGTCAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:816322 original size:2 final size:2
Alignment explanation
Indices: 816310--816347 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
816300 AGGCTACAGC
816310 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
816348 AAAGATTTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:817697 original size:40 final size:40
Alignment explanation
Indices: 817651--817729 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
817641 TATTAGCTAA
* **
817651 AAAGATTATCTTCATTTAATATATACAAAAAGATAAAAGT
1 AAAGATTAACTTCATCAAATATATACAAAAAGATAAAAGT
* *
817691 AAAGATTAACTTTATCAAATATATACAAAGAGATAAAAG
1 AAAGATTAACTTCATCAAATATATACAAAAAGATAAAAG
817730 GTAACTACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.54, C:0.08, G:0.09, T:0.29
Consensus pattern (40 bp):
AAAGATTAACTTCATCAAATATATACAAAAAGATAAAAGT
Found at i:823101 original size:2 final size:2
Alignment explanation
Indices: 823094--823120 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
823084 CTCAATACAA
823094 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
823121 GATAACCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:825211 original size:13 final size:13
Alignment explanation
Indices: 825162--825212 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
825152 TTTAAATAAA
825162 AATATTTAT-ATT
1 AATATTTATAATT
*
825174 TATA-TT-TAATT
1 AATATTTATAATT
* *
825185 AATATTTTTTATT
1 AATATTTATAATT
825198 AATATTTATAATT
1 AATATTTATAATT
825211 AA
1 AA
825213 ATATAAATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
10 1 0.03
11 8 0.26
12 5 0.16
13 17 0.55
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
AATATTTATAATT
Found at i:825427 original size:19 final size:19
Alignment explanation
Indices: 825403--825465 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
825393 GTTCGGCTTA
825403 ATTTAAATTAATATTTAAT
1 ATTTAAATTAATATTTAAT
* *
825422 ATTTAAA-AAATATTT-TT
1 ATTTAAATTAATATTTAAT
*
825439 ATTTAAATTTAAT-TATAAT
1 ATTTAAA-TTAATATTTAAT
*
825458 ATATAAAT
1 ATTTAAAT
825466 ATTAATATCA
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
17 8 0.23
18 10 0.29
19 17 0.49
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTAAATTAATATTTAAT
Found at i:825435 original size:18 final size:17
Alignment explanation
Indices: 825412--825445 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
825402 AATTTAAATT
825412 AATATTTAATATTTAAAA
1 AATATTT-ATATTTAAAA
*
825430 AATATTTTTATTTAAA
1 AATATTTATATTTAAA
825446 TTTAATTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AATATTTATATTTAAAA
Found at i:829357 original size:21 final size:22
Alignment explanation
Indices: 829310--829357 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
829300 TTTTTAATTC
* **
829310 TAATTAAGAATAATAAATTTAT
1 TAATTAAAAATAATAAATAAAT
829332 T-ATTAAAAATAATAAA-AAAT
1 TAATTAAAAATAATAAATAAAT
829352 TAATTA
1 TAATTA
829358 GATTTATGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 3 0.14
21 18 0.82
22 1 0.05
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
TAATTAAAAATAATAAATAAAT
Found at i:830624 original size:23 final size:24
Alignment explanation
Indices: 830598--830684 Score: 70
Period size: 23 Copynumber: 3.6 Consensus size: 24
830588 TATATATTTA
*
830598 TATAAAAATATAA-ATTTTAAAAT
1 TATAAAAATATAATATTTAAAAAT
* *
830621 TATAAATATTTAATATTTAAAAAT
1 TATAAAAATATAATATTTAAAAAT
* * * * *
830645 T-TAAATATCTAATAAATAAAATAAA
1 TATAAAAATATAAT-ATTTAAA-AAT
830670 TATAAAAATATAATA
1 TATAAAAATATAATA
830685 AAATATTTTT
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
23 22 0.43
24 15 0.29
25 4 0.08
26 10 0.20
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (24 bp):
TATAAAAATATAATATTTAAAAAT
Found at i:830641 original size:15 final size:16
Alignment explanation
Indices: 830600--830649 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 16
830590 TATATTTATA
*
830600 TAAAAATATAAAT-TT
1 TAAAATTATAAATATT
830615 TAAAATTATAAATATT
1 TAAAATTATAAATATT
* *
830631 TAATATT-TAAAAATT
1 TAAAATTATAAATATT
830646 TAAA
1 TAAA
830650 TATCTAATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
15 22 0.73
16 8 0.27
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAAATTATAAATATT
Found at i:830651 original size:16 final size:17
Alignment explanation
Indices: 830613--830652 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
830603 AAATATAAAT
*
830613 TTTAAA-ATTATAAATA
1 TTTAAATATTATAAAAA
830629 TTT-AATATT-TAAAAA
1 TTTAAATATTATAAAAA
830644 TTTAAATAT
1 TTTAAATAT
830653 CTAATAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTAAATATTATAAAAA
Found at i:830669 original size:9 final size:9
Alignment explanation
Indices: 830654--830686 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
830644 TTTAAATATC
830654 TAATAAATA
1 TAATAAATA
*
830663 AAATAAATA
1 TAATAAATA
830672 TAA-AAATA
1 TAATAAATA
830680 TAATAAA
1 TAATAAA
830687 ATATTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (9 bp):
TAATAAATA
Found at i:830808 original size:27 final size:27
Alignment explanation
Indices: 830752--830837 Score: 79
Period size: 27 Copynumber: 3.2 Consensus size: 27
830742 TATAATTTTA
* *
830752 AAAAATAAGATTAAAAAATTAAAAATT
1 AAAAATAAGATTAAAAAATCAAAAAGT
830779 AAAAATAA-A-TATAAAAATCAAATAAGT
1 AAAAATAAGATTA-AAAAATCAAA-AAGT
*** *
830806 AAAAAT-TTTTTAAAAAATAAAAAAGT
1 AAAAATAAGATTAAAAAATCAAAAAGT
830832 AAAAAT
1 AAAAAT
830838 CTTGTTACTA
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
25 2 0.04
26 20 0.40
27 26 0.52
28 2 0.04
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.26
Consensus pattern (27 bp):
AAAAATAAGATTAAAAAATCAAAAAGT
Found at i:834775 original size:20 final size:20
Alignment explanation
Indices: 834746--834822 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 20
834736 GTAAAAAGAC
834746 AGAATGTATCAATACATTGA
1 AGAATGTATCAATACATTGA
* * *
834766 AGAATATATCGATACATTCA
1 AGAATGTATCAATACATTGA
* *
834786 TA-CATGTATCGATACATTGA
1 -AGAATGTATCAATACATTGA
*
834806 AAAATGTATCAATACAT
1 AGAATGTATCAATACAT
834823 CTAGGTAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
19 1 0.02
20 45 0.96
21 1 0.02
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.31
Consensus pattern (20 bp):
AGAATGTATCAATACATTGA
Found at i:835960 original size:32 final size:32
Alignment explanation
Indices: 835391--835968 Score: 539
Period size: 32 Copynumber: 18.9 Consensus size: 32
835381 GGTGCCACTA
* * *
835391 ACTTGTGTGGACTTTGAAAAGAGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* * * * *
835423 ACTCGTGTAGGG-TTTGAAAAGAGTTACCA-CT
1 ACTTGTGT-GGGCTTTGAAATGGGTTGCCACCG
* * * *
835454 AGC-T-TATGGGCTTTGAAAAGAG-TGCCACTG
1 A-CTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* *
835484 AC-T-TATGGGCTTTGAAA-GGG-TGCCACTG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* * **
835512 AC-T-TGTGGGCTTTGAAAAGAG-TGCCACTA
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
*
835541 AC-T-TGTGGGCTTTGAAA-GGG-TGCCACTG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* *
835569 ACTTGCGTGGGCTTTGAAA-GGG-TGCCACTG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* *
835599 AC-T-TGTGGGCTTTGAAA-GAG-TGCCACTG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* *
835627 AC-T-TGTGGGCTTTGAAA--AGATGCCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
*
835655 AC-T-TGTGGGCTTTGAAATGGGTTGTCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* *
835685 ACTTGTGTAGGCTTTAAAATGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* * **
835717 ACTTGTGTGGGCTTTCAAATGAGTTGCCACTA
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
*
835749 ACTTGTGTGGGCTTTGAAATGGGTTGCCACTG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
*
835781 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCA
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* *
835813 ACTTGTGTGGGCTTTCAAATGAGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* * *
835845 ACTTATGTGGGTTTTGAAATGGGTTGCCACCA
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
* * *
835877 ACTTGTGTGAGCTTTCAAATGAGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
*
835909 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCA
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
*
835941 ACTTTTGTGGGCTTTGAAATGGG-TGCCA
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCA
835969 TTCAGTGGTG
Statistics
Matches: 480, Mismatches: 54, Indels: 25
0.86 0.10 0.04
Matches are distributed among these distances:
27 2 0.00
28 101 0.21
29 51 0.11
30 50 0.10
31 8 0.02
32 266 0.55
33 2 0.00
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.30
Consensus pattern (32 bp):
ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
Found at i:836169 original size:82 final size:83
Alignment explanation
Indices: 835976--836466 Score: 602
Period size: 82 Copynumber: 5.9 Consensus size: 83
835966 CCATTCAGTG
* * * *
835976 GTGGACTTTAAAA-GAGTGCCACGGAGTTGTGGACTT-AAAAGAGTGCCACAGAGTTATGGACTT
1 GTGGACTTGAAAAGGA-TGCCACAGAGTTGTGGACTTAAAAAG-GTGCCACGGAGTTGTGGACTT
*
836039 TAAAAGAACGCCACAGAGTT
64 TAAAAGAATGCCACAGAGTT
* *
836059 GTGGACTTGAAACGGATGCCACAGAGTTGTGGACTTAAAAAGGTTCCACGGAGTTGTGGAC-TTA
1 GTGGACTTGAAAAGGATGCCACAGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTTA
836123 AAAGAATGCCA-AGAAGTT
66 AAAGAATGCCACAG-AGTT
* * * *
836141 GTGGACTTTAAAAGGATGTCACAAAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTA
1 GTGGACTTGAAAAGGATGCCACAGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTTA
836206 AAAGAATGCCACAGAGTT
66 AAAGAATGCCACAGAGTT
* * * *
836224 ATGGACTTGAAACGGATGCCATAGAGTTATGGACTTAAAAAGGTGCCACGGAGTTGTGGAC-TTA
1 GTGGACTTGAAAAGGATGCCACAGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTTA
*
836288 AAAGAACGCCACAGAGTT
66 AAAGAATGCCACAGAGTT
* * * * * * *
836306 GTGAACTTGAAATGGATGCCACGGAGTTGTGGACTTAAAAGGGTACCACGGAGTTGTAGAC-TCA
1 GTGGACTTGAAAAGGATGCCACAGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTTA
*
836370 AAAGGATGCCAC-GAAGTT
66 AAAGAATGCCACAG-AGTT
* * * * *
836388 GTAGACTTTAAAAGGATGCCACGGAGTTGTGAACTT-AAAAGGATGCCACAGAGTTGTGGACTTT
1 GTGGACTTGAAAAGGATGCCACAGAGTTGTGGACTTAAAAAGG-TGCCACGGAGTTGTGGACTTT
836452 GAAAAGAAATGCCAC
65 -AAAAG-AATGCCAC
836467 TGAATCATGG
Statistics
Matches: 353, Mismatches: 45, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
81 8 0.02
82 206 0.58
83 118 0.33
84 14 0.04
85 7 0.02
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (83 bp):
GTGGACTTGAAAAGGATGCCACAGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTTA
AAAGAATGCCACAGAGTT
Found at i:836259 original size:165 final size:165
Alignment explanation
Indices: 835976--836466 Score: 659
Period size: 165 Copynumber: 3.0 Consensus size: 165
835966 CCATTCAGTG
* * *
835976 GTGGACTTTAAAA-GAGTGCCACGGAGTTGTGGACTTAAAAGAGTGCCACAGAGTTATGGACTTT
1 GTGGACTTTAAAAGGA-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTT
* *
836040 AAAAGAACGCCACAGAGTTGTGGACTTGAAACGGATGCCACAGAGTTGTGGACTTAAAAAGGTTC
65 AAAAGAATGCCACAGAGTTGTGGACTTGAAACGGATGCCACAGAGTTGTGGACTTAAAAAGGTGC
836105 CACGGAGTTGTGGACTTAAAAGAATGCCA-AGAAGTT
130 CACGGAGTTGTGGACTTAAAAGAATGCCACAG-AGTT
* **
836141 GTGGACTTTAAAAGGATGTCACAAAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTA
1 GTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTA
* * *
836206 AAAGAATGCCACAGAGTTATGGACTTGAAACGGATGCCATAGAGTTATGGACTTAAAAAGGTGCC
66 AAAGAATGCCACAGAGTTGTGGACTTGAAACGGATGCCACAGAGTTGTGGACTTAAAAAGGTGCC
*
836271 ACGGAGTTGTGGACTTAAAAGAACGCCACAGAGTT
131 ACGGAGTTGTGGACTTAAAAGAATGCCACAGAGTT
* * * * * *
836306 GTGAACTTGAAATGGATGCCACGGAGTTGTGGACTTAAAAGGGTACCACGGAGTTGTAGAC-TCA
1 GTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTA
* * * * * *
836370 AAAGGATGCCAC-GAAGTTGTAGACTTTAAAAGGATGCCACGGAGTTGTGAACTT-AAAAGGATG
66 AAAGAATGCCACAG-AGTTGTGGACTTGAAACGGATGCCACAGAGTTGTGGACTTAAAAAGG-TG
*
836433 CCACAGAGTTGTGGACTTTGAAAAGAAATGCCAC
129 CCACGGAGTTGTGGAC-TT-AAAAG-AATGCCAC
836467 TGAATCATGG
Statistics
Matches: 287, Mismatches: 32, Indels: 12
0.87 0.10 0.04
Matches are distributed among these distances:
163 7 0.02
164 62 0.22
165 202 0.70
166 9 0.03
167 7 0.02
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (165 bp):
GTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTA
AAAGAATGCCACAGAGTTGTGGACTTGAAACGGATGCCACAGAGTTGTGGACTTAAAAAGGTGCC
ACGGAGTTGTGGACTTAAAAGAATGCCACAGAGTT
Found at i:836451 original size:55 final size:54
Alignment explanation
Indices: 835976--836450 Score: 503
Period size: 55 Copynumber: 8.6 Consensus size: 54
835966 CCATTCAGTG
*
835976 GTGGACTTTAAAA-GAGTGCCACGGAGTTGTGGACTTAAAA-GAGTGCCACAGAGTT
1 GTGGAC-TTAAAAGGA-TGCCACAGAGTTGTGGACTTAAAAGGA-TGCCACAGAGTT
* * * *
836031 ATGGACTTTAAAAGAACGCCACAGAGTTGTGGACTTGAAACGGATGCCACAGAGTT
1 GTGGAC-TTAAAAGGATGCCACAGAGTTGTGGACTT-AAAAGGATGCCACAGAGTT
* * *
836087 GTGGACTTAAAAAGG-TTCCACGGAGTTGTGGACTTAAAAGAATGCCA-AGAAGTT
1 GTGGACTT-AAAAGGATGCCACAGAGTTGTGGACTTAAAAGGATGCCACAG-AGTT
* * * *
836141 GTGGACTTTAAAAGGATGTCACAAAGTTGTGGACTTAAAAGGGTGCCACGGAGTT
1 GTGGAC-TTAAAAGGATGCCACAGAGTTGTGGACTTAAAAGGATGCCACAGAGTT
* * * *
836196 GTGGACTTTAAAAGAATGCCACAGAGTTATGGACTTGAAACGGATGCCATAGAGTT
1 GTGGAC-TTAAAAGGATGCCACAGAGTTGTGGACTT-AAAAGGATGCCACAGAGTT
* * * *
836252 ATGGACTTAAAAAGG-TGCCACGGAGTTGTGGACTTAAAAGAACGCCACAGAGTT
1 GTGGACTT-AAAAGGATGCCACAGAGTTGTGGACTTAAAAGGATGCCACAGAGTT
* * * * * *
836306 GTGAACTTGAAATGGATGCCACGGAGTTGTGGACTTAAAAGGGTACCACGGAGTT
1 GTGGACTT-AAAAGGATGCCACAGAGTTGTGGACTTAAAAGGATGCCACAGAGTT
* * * *
836361 GTAGACTCAAAAGGATGCCAC-GAAGTTGTAGACTTTAAAAGGATGCCACGGAGTT
1 GTGGACTTAAAAGGATGCCACAG-AGTTGTGGAC-TTAAAAGGATGCCACAGAGTT
*
836416 GTGAACTTAAAAGGATGCCACAGAGTTGTGGACTT
1 GTGGACTTAAAAGGATGCCACAGAGTTGTGGACTT
836451 TGAAAAGAAA
Statistics
Matches: 351, Mismatches: 55, Indels: 29
0.81 0.13 0.07
Matches are distributed among these distances:
53 3 0.01
54 75 0.21
55 218 0.62
56 53 0.15
57 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (54 bp):
GTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTAAAAGGATGCCACAGAGTT
Found at i:843909 original size:22 final size:23
Alignment explanation
Indices: 843863--843909 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
843853 TGGAAAATAT
*
843863 GATAATCATACAATGAAGTGATG
1 GATAATCATACAATGAAATGATG
* *
843886 GATAA-CATTCAATGAAATGCTG
1 GATAATCATACAATGAAATGATG
843908 GA
1 GA
843910 CATATTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.26
Consensus pattern (23 bp):
GATAATCATACAATGAAATGATG
Found at i:844758 original size:119 final size:119
Alignment explanation
Indices: 844619--844857 Score: 478
Period size: 119 Copynumber: 2.0 Consensus size: 119
844609 AAGAGAATAC
844619 AATGATAAAAATATAATAATTTATTCTTTTTGACTTGTCTTCACATTGGATTCCAATTTGTTTTG
1 AATGATAAAAATATAATAATTTATTCTTTTTGACTTGTCTTCACATTGGATTCCAATTTGTTTTG
844684 GGGCTTGAGCTTGTGATGTTTGGCATGTATTGTGATGACTTGGAGTATGGAAAT
66 GGGCTTGAGCTTGTGATGTTTGGCATGTATTGTGATGACTTGGAGTATGGAAAT
844738 AATGATAAAAATATAATAATTTATTCTTTTTGACTTGTCTTCACATTGGATTCCAATTTGTTTTG
1 AATGATAAAAATATAATAATTTATTCTTTTTGACTTGTCTTCACATTGGATTCCAATTTGTTTTG
844803 GGGCTTGAGCTTGTGATGTTTGGCATGTATTGTGATGACTTGGAGTATGGAAAT
66 GGGCTTGAGCTTGTGATGTTTGGCATGTATTGTGATGACTTGGAGTATGGAAAT
844857 A
1 A
844858 CGTATCCATA
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
119 120 1.00
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.43
Consensus pattern (119 bp):
AATGATAAAAATATAATAATTTATTCTTTTTGACTTGTCTTCACATTGGATTCCAATTTGTTTTG
GGGCTTGAGCTTGTGATGTTTGGCATGTATTGTGATGACTTGGAGTATGGAAAT
Found at i:845006 original size:20 final size:20
Alignment explanation
Indices: 844977--845050 Score: 87
Period size: 20 Copynumber: 3.7 Consensus size: 20
844967 GTAAAAAGAC
*
844977 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTAA
* *
844997 AGAATATATCGATACATTCAT
1 AGAATGTATCGATACATT-AA
*
845018 A-CATGTATCGATACATTAA
1 AGAATGTATCGATACATTAA
*
845037 AAAATGTATCGATA
1 AGAATGTATCGATA
845051 ATTTGAGTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
19 2 0.04
20 42 0.93
21 1 0.02
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (20 bp):
AGAATGTATCGATACATTAA
Found at i:845577 original size:20 final size:20
Alignment explanation
Indices: 845528--845578 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
845518 AAACATAATC
*
845528 AATATGAATAAAATATAAAA
1 AATATGAATTAAATATAAAA
*
845548 TATAAT-AATTAAAT-TAAATA
1 AAT-ATGAATTAAATATAAA-A
845568 AATATGAATTA
1 AATATGAATTA
845579 TATAATAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
19 6 0.24
20 17 0.68
21 2 0.08
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (20 bp):
AATATGAATTAAATATAAAA
Found at i:846335 original size:26 final size:26
Alignment explanation
Indices: 846299--846349 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
846289 ATTTTAAGTC
846299 AACCCGTAAGTTATAGTATGATCGTT
1 AACCCGTAAGTTATAGTATGATCGTT
846325 AACCCGTAAGTTATAGTATGATCGT
1 AACCCGTAAGTTATAGTATGATCGT
846350 CAACTCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (26 bp):
AACCCGTAAGTTATAGTATGATCGTT
Found at i:846513 original size:7 final size:7
Alignment explanation
Indices: 846501--846543 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
846491 ATTTTAAAAT
846501 AAAATTA
1 AAAATTA
846508 AAAATT-
1 AAAATTA
846514 AAAATT-
1 AAAATTA
846520 AAAATCTA
1 AAAAT-TA
*
846528 AAAACTA
1 AAAATTA
846535 AAAATTA
1 AAAATTA
846542 AA
1 AA
846544 TTAAAAAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 11 0.34
7 17 0.53
8 4 0.12
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAATTA
Found at i:846518 original size:13 final size:13
Alignment explanation
Indices: 846496--846550 Score: 62
Period size: 12 Copynumber: 4.3 Consensus size: 13
846486 ATATTATTTT
846496 AAAA-TAAAATTA
1 AAAATTAAAATTA
846508 AAAATTAAAATT-
1 AAAATTAAAATTA
*
846520 AAAATCTAAAAACTA
1 AAAAT-T-AAAATTA
846535 AAAATT-AAATTA
1 AAAATTAAAATTA
846547 AAAA
1 AAAA
846551 ATCTAAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
12 18 0.49
13 8 0.22
14 6 0.16
15 5 0.14
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (13 bp):
AAAATTAAAATTA
Found at i:846531 original size:27 final size:27
Alignment explanation
Indices: 846501--846559 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 27
846491 ATTTTAAAAT
*
846501 AAAATTAAAAATTAAAATT-AAAATCTA
1 AAAACTAAAAATT-AAATTAAAAATCTA
846528 AAAACTAAAAATTAAATTAAAAAATCTA
1 AAAACTAAAAATTAAATT-AAAAATCTA
846556 AAAA
1 AAAA
846560 AATAATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 5 0.17
27 12 0.41
28 12 0.41
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.25
Consensus pattern (27 bp):
AAAACTAAAAATTAAATTAAAAATCTA
Found at i:846558 original size:7 final size:6
Alignment explanation
Indices: 846494--846549 Score: 53
Period size: 6 Copynumber: 9.0 Consensus size: 6
846484 ATATATTATT
*
846494 TTAAAA -TAAAA TTAAAAA TTAAAA TTAAAA TCTAAAAA CTAAAAA TT-AAA
1 TTAAAA TTAAAA TT-AAAA TTAAAA TTAAAA T-T-AAAA -TTAAAA TTAAAA
846544 TTAAAA
1 TTAAAA
846550 AATCTAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
5 10 0.24
6 16 0.38
7 11 0.26
8 4 0.10
9 1 0.02
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.29
Consensus pattern (6 bp):
TTAAAA
Found at i:847003 original size:27 final size:27
Alignment explanation
Indices: 846937--847004 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
846927 AAATACTATA
*
846937 AATAATAAATTTTATAATTTTATAAAT
1 AATAATTAATTTTATAATTTTATAAAT
* *
846964 TATAGA-TATTTTTATAATTTT-TAATAT
1 AATA-ATTAATTTTATAATTTTATAA-AT
846991 AATAATTAATTTTA
1 AATAATTAATTTTA
847005 ATTTTAACAT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
26 4 0.12
27 28 0.85
28 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (27 bp):
AATAATTAATTTTATAATTTTATAAAT
Found at i:848054 original size:156 final size:152
Alignment explanation
Indices: 847614--848235 Score: 493
Period size: 156 Copynumber: 4.0 Consensus size: 152
847604 CAATCACTTT
** * * *
847614 AAGGACATAAAAATGATAAGTAAAAGGACAATCCTATCTTAAATGTACACCTCTGGCATAAAA-C
1 AAGGACACGAAAATGATAAGTAAAAGGACAAACCTATCTTAAATGCACACCTTTGGCATAAAAGC
* * * * * ** * *
847678 GACTTAGTGACTACTTAAGACTTGGTATTAAAAAAATTACAAAAATGGCCTTGGGATATACCTTC
66 GACTTAGTAACTACTTAAGACTTGATTTTAAGAGAATTA-TGAAATCG-CTTTGGATATACCTTC
* ** * *
847743 GACATGAAAGTATCCCGGTATCCTTA
129 GATATGAAAGTATTTC-GAAACC-TA
* * * * * * *
847769 GAGGACATGAAAAATGATAAGTAAAATGATAAACTTATCTTAAATGCACACTTTTGACATAAAAG
1 AAGGACACG-AAAATGATAAGTAAAAGGACAAACCTATCTTAAATGCACACCTTTGGCATAAAAG
* ** * * * * *
847834 TGACCCACTAATTACTCAAGACTTGGTTTTAAGAGAATTATGAAAATACGCTTAGGATATACCTT
65 CGACTTAGTAACTACTTAAGACTTGATTTTAAGAGAATTATG-AAAT-CGCTTTGGATATACCTT
847899 CGATATGAAAGTATTTCAGCAAACCTA
128 CGATATGAAAGTATTTC-G-AAACCTA
* *
847926 AAGAACACGAAAATGATAAGTAAAAGGACAAACCTATCATAAATGCACACCTTTGGCATAAAAGC
1 AAGGACACGAAAATGATAAGTAAAAGGACAAACCTATCTTAAATGCACACCTTTGGCATAAAAGC
* * * * *
847991 GACTTGGTGACTACTTAAGACTTGATTTTAGGAGAATTATGAAATTGCTATTGAGATACACCTTC
66 GACTTAGTAACTACTTAAGACTTGATTTTAAGAGAATTATGAAATCGCT-TTG-GATATACCTTC
* *
848056 G-T-T--ATGTATCTCGATAACCCTA
129 GATATGAAAGTATTTCGA-AA-CCTA
* * * ** * * * *
848078 AAGGAGACAAAAATAATAAGTAAAAACACAAACCTATCCTAAATGCACATCTTTGGTATAAAAGG
1 AAGGACACGAAAATGATAAGTAAAAGGACAAACCTATCTTAAATGCACACCTTTGGCATAAAAGC
* * * * *
848143 GACTTGGTAACTACTTAAGACTCGATTTTTAA-AAAAATATGAAAATAC-CTTTAGGATATATCT
66 GACTTAGTAACTACTTAAGACTTGA-TTTTAAGAGAATTATG-AAAT-CGCTTT-GGATATACCT
* *
848206 TCGATATAAAAGTATCTCGATAACCCTA
127 TCGATATGAAAGTATTTCGA-AA-CCTA
848234 AA
1 AA
848236 AGATTCGACA
Statistics
Matches: 377, Mismatches: 73, Indels: 33
0.78 0.15 0.07
Matches are distributed among these distances:
150 1 0.00
151 3 0.01
152 108 0.29
153 13 0.03
154 5 0.01
155 14 0.04
156 158 0.42
157 71 0.19
158 4 0.01
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.27
Consensus pattern (152 bp):
AAGGACACGAAAATGATAAGTAAAAGGACAAACCTATCTTAAATGCACACCTTTGGCATAAAAGC
GACTTAGTAACTACTTAAGACTTGATTTTAAGAGAATTATGAAATCGCTTTGGATATACCTTCGA
TATGAAAGTATTTCGAAACCTA
Found at i:848199 original size:308 final size:310
Alignment explanation
Indices: 847623--848220 Score: 670
Period size: 308 Copynumber: 1.9 Consensus size: 310
847613 TAAGGACATA
* * *
847623 AAAATGATAAGTAAAAGGACAATCCTATCTTAAATGTACACCTCTGGCATAAAACGACTTAGTGA
1 AAAATGATAAGTAAAAGGACAAACCTATCATAAATGCACACCTCTGGCATAAAACGACTTAGTGA
* * * *
847688 CTACTTAAGACTTGGTATTAAAAAAATTACAAAAATGGCCTTGGGATATACCTTCGACATGAAAG
66 CTACTTAAGACTTGATATTAAAAAAATTACAAAAATGGCATTGAGATACACCTTCG--ATGAAAG
* * * * * * ** * * *
847753 TATCCCGGTATCCTTAGAGGACATGAAAAATGATAAGTAAAATGATAAACTTATCTTAAATGCAC
129 TATCCCGATAACCCTAAAGGACATCAAAAATAATAAGTAAAAACACAAACCTATCCTAAATGCAC
* * * * *
847818 ACTTTTGACATAAAAGTGACCCACTAATTACTCAAGACTTGGTTTTAAGAGAATTATGAAAATAC
194 ACTTTTGACATAAAAGGGACCCACTAACTACTCAAGACTCGGTTTTAAGAAAAATATGAAAATAC
*
847883 GCTTAGGATATACCTTCGATATGAAAGTATTTCAGCAAACCTAAAGAACACG
259 GCTTAGGATATACCTTCGATATAAAAGTATTTCAGCAAACCTAAAGAACACG
* *
847935 AAAATGATAAGTAAAAGGACAAACCTATCATAAATGCACACCTTTGGCATAAAAGCGACTTGGTG
1 AAAATGATAAGTAAAAGGACAAACCTATCATAAATGCACACCTCTGGCATAAAA-CGACTTAGTG
* ** * ** * * *
848000 ACTACTTAAGACTTGATTTTAGGAGAATTA-TGAAATTGCTATTGAGATACACCTTCG-T-TATG
65 ACTACTTAAGACTTGATATTAAAAAAATTACAAAAATGGC-ATTGAGATACACCTTCGATGAAAG
* *
848062 TATCTCGATAACCCTAAAGGAGA-CAAAAATAATAAGTAAAAACACAAACCTATCCTAAATGCAC
129 TATCCCGATAACCCTAAAGGACATCAAAAATAATAAGTAAAAACACAAACCTATCCTAAATGCAC
** **** * *
848126 A-TCTTTGGTATAAAAGGGACTTGGTAACTACTTAAGACTCGATTTTTAA-AAAAATATGAAAAT
194 ACT-TTTGACATAAAAGGGACCCACTAACTACTCAAGACTCG-GTTTTAAGAAAAATATGAAAAT
*
848189 AC-CTTTAGGATATATCTTCGATATAAAAGTAT
257 ACGC-TTAGGATATACCTTCGATATAAAAGTAT
848221 CTCGATAACC
Statistics
Matches: 235, Mismatches: 46, Indels: 14
0.80 0.16 0.05
Matches are distributed among these distances:
307 2 0.01
308 103 0.44
309 25 0.11
310 1 0.00
312 56 0.24
313 48 0.20
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (310 bp):
AAAATGATAAGTAAAAGGACAAACCTATCATAAATGCACACCTCTGGCATAAAACGACTTAGTGA
CTACTTAAGACTTGATATTAAAAAAATTACAAAAATGGCATTGAGATACACCTTCGATGAAAGTA
TCCCGATAACCCTAAAGGACATCAAAAATAATAAGTAAAAACACAAACCTATCCTAAATGCACAC
TTTTGACATAAAAGGGACCCACTAACTACTCAAGACTCGGTTTTAAGAAAAATATGAAAATACGC
TTAGGATATACCTTCGATATAAAAGTATTTCAGCAAACCTAAAGAACACG
Found at i:848530 original size:28 final size:28
Alignment explanation
Indices: 848334--848531 Score: 112
Period size: 29 Copynumber: 7.0 Consensus size: 28
848324 CTACAAAGTT
* ***
848334 CCTAAACTTTTCAAATTATGTTTTGATC
1 CCTAAACTTTTTAAATTACACTTTGATC
* * * * *
848362 CTTAAACTTTTCAAAATCATATTTTGATC
1 CCTAAACTTTT-TAAATTACACTTTGATC
* * * * *
848391 CCAAAACTTCTTGAAATTGCACTTAGACC
1 CCTAAACTT-TTTAAATTACACTTTGATC
* * * *
848420 CCTAGACTTTTTAAAATTGCACATTGACC
1 CCTAAACTTTTT-AAATTACACTTTGATC
* * * *
848449 CCTAAACTTTTCAAAATCAGACTTTG-TT
1 CCTAAACTTTT-TAAATTACACTTTGATC
* * * *
848477 CTTAAGCTTTTT-AATTATACTCTGATC
1 CCTAAACTTTTTAAATTACACTTTGATC
848504 CCTAAACTTTTTAAATTACACTTTGATC
1 CCTAAACTTTTTAAATTACACTTTGATC
848532 TCAAAATGAC
Statistics
Matches: 127, Mismatches: 37, Indels: 12
0.72 0.21 0.07
Matches are distributed among these distances:
26 9 0.07
27 11 0.09
28 34 0.27
29 71 0.56
30 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.40
Consensus pattern (28 bp):
CCTAAACTTTTTAAATTACACTTTGATC
Found at i:850682 original size:17 final size:15
Alignment explanation
Indices: 850662--850712 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 15
850652 TTAGGTAAAA
850662 AAGAAAGAAAGAAGATG
1 AAGAAAGAAAGAA-A-G
850679 AAG-AAGAAAGAAAG
1 AAGAAAGAAAGAAAG
* *
850693 AA-AAAGAAAAAAAA
1 AAGAAAGAAAGAAAG
850707 AAGAAA
1 AAGAAA
850713 AAAATATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
14 14 0.47
15 4 0.13
16 9 0.30
17 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (15 bp):
AAGAAAGAAAGAAAG
Found at i:850713 original size:17 final size:17
Alignment explanation
Indices: 850659--850714 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
850649 GAGTTAGGTA
* *
850659 AAAAAGAAAGAAAGAAG
1 AAAAAGAAAAAAAAAAG
** * *
850676 ATGAAGAAGAAAGAAAG
1 AAAAAGAAAAAAAAAAG
850693 AAAAAGAAAAAAAAAAG
1 AAAAAGAAAAAAAAAAG
850710 AAAAA
1 AAAAA
850715 AATATAAAAT
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.02
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAAG
Found at i:858515 original size:27 final size:27
Alignment explanation
Indices: 858478--859296 Score: 1269
Period size: 27 Copynumber: 30.0 Consensus size: 27
858468 ACTGTGACCT
* **
858478 CTTTAAAGTCCACAACTCCGTGGCATT
1 CTTTTAAGTCCACAACTCCGTGGCACC
**
858505 CTTTTAAGTCCACAACTCCGTGGCATT
1 CTTTTAAGTCCACAACTCCGTGGCACC
858532 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
858559 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
858586 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
858613 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
858640 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
858668 CTTTTAAGTCCACAACTCCATGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
858695 CTTTTAAGTCCATAACTCCATGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
858723 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
858750 CTTTTTAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
858777 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
858804 CTTTTAAGTCCACAACTTCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
**
858831 CTTTTAAAGTCCACAACTCCGTGGCATT
1 CTTTT-AAGTCCACAACTCCGTGGCACC
858859 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
858886 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
858913 TTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
858940 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
858967 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
858995 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
859022 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
859050 CTTTTTAGTCCACAACTCCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
859077 CTTTTAAGTCTACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
859104 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
859131 CTTTTAAGTCCACAACTCCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
859158 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
859185 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
859213 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
859240 CTTTTAAAATCCACAACTCTGTGGCACT
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* * *
859268 TTTTTAAAATCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
859296 C
1 C
859297 ATTTCAAAGC
Statistics
Matches: 738, Mismatches: 47, Indels: 13
0.92 0.06 0.02
Matches are distributed among these distances:
27 543 0.74
28 195 0.26
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:858890 original size:218 final size:219
Alignment explanation
Indices: 858478--859293 Score: 1295
Period size: 218 Copynumber: 3.7 Consensus size: 219
858468 ACTGTGACCT
* **
858478 CTTTAAAGTCCACAACTCCGTGGCAT-TCTTTTAAGTCCACAACTCCGTGGCATTCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCATCTCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
858542 CACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCC
66 CACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCC
*
858605 GTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCT
131 GTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCA-CCCT
*
858670 TTTAAGTCCACAACTCCATGGCACC
195 TTTAAGTCCACAACTCCGTGGCACC
* * *
858695 CTTTTAAGTCCATAACTCCATGGCATCTCTTTTAAGTCCACAACTCCGTGGCACCCTTTTTAGTC
1 CTTTTAAGTCCACAACTCCGTGGCATCTCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
*
858760 CACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTTC
66 CACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCC
* *
858823 GTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATTCTTTTAAGTCCACAACTCCGTGGCACCCT
131 GTGGCACCCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCT
858888 TTTAAGTCCACAACTCCGTGGCACC
195 TTTAAGTCCACAACTCCGTGGCACC
* * *
858913 TTTTTAAGTCCACAACTCTGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCATCTCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
* * *
858977 CATAACTCCGTGGCATCTCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCC
66 CACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCC
* *
859042 GTGGCACCCTTTTTAGTCCACAACTCCGTGGCATCCTTTTAAGTCTACAACTCCGTGGCACCCTT
131 GTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTT
859107 TTAAGTCCACAACTCCGTGGCACC
196 TTAAGTCCACAACTCCGTGGCACC
*
859131 CTTTTAAGTCCACAACTCCGTGGCATC-CTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCATCTCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
* * * * *
859195 CATAACTCCGTGGCATCTCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAATCCACAACTCT
66 CACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCC
** * *
859260 GTGGCACTTTTTTAAAATCCACAACTCTGTGGCA
131 GTGGCACCCTTTT-AAGTCCACAACTCCGTGGCA
859294 CCCATTTCAA
Statistics
Matches: 558, Mismatches: 35, Indels: 10
0.93 0.06 0.02
Matches are distributed among these distances:
217 74 0.13
218 396 0.71
219 88 0.16
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.29
Consensus pattern (219 bp):
CTTTTAAGTCCACAACTCCGTGGCATCTCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
CACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCC
GTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTT
TTAAGTCCACAACTCCGTGGCACC
Found at i:859329 original size:32 final size:32
Alignment explanation
Indices: 859279--859560 Score: 431
Period size: 32 Copynumber: 8.8 Consensus size: 32
859269 TTTTAAAATC
* *
859279 CACAACTCTGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
859310 CACAAGTCGGTAGCAACCCATTTCAAAGACCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
859342 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
859374 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
859406 CACAAGTCAGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
859438 CATAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
859470 CACAAGTCGATGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
859502 CACAAGTCGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** * *
859534 TGCAAGTCAGTGGCAACCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAA
859561 TCACCATTTT
Statistics
Matches: 228, Mismatches: 22, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
31 11 0.05
32 217 0.95
ACGTcount: A:0.32, C:0.33, G:0.17, T:0.17
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:860830 original size:17 final size:17
Alignment explanation
Indices: 860790--860845 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
860780 GAGTTAGGTA
*
860790 AAAAAGAAAAAAAGAAG
1 AAAAAGAAAAAAAAAAG
** * * *
860807 ATGAAGAAGAAAGAAAT
1 AAAAAGAAAAAAAAAAG
860824 AAAAAGAAAAAAAAAAG
1 AAAAAGAAAAAAAAAAG
860841 AAAAA
1 AAAAA
860846 AATATGAAAT
Statistics
Matches: 28, Mismatches: 11, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAAG
Found at i:860854 original size:11 final size:11
Alignment explanation
Indices: 860789--860847 Score: 57
Period size: 11 Copynumber: 5.3 Consensus size: 11
860779 AGAGTTAGGT
860789 AAAAAAGAAAA
1 AAAAAAGAAAA
* *
860800 AAAGAAGATGAAG
1 AAAAAAGA--AAA
*
860813 AAGAAAG-AAA
1 AAAAAAGAAAA
*
860823 TAAAAAGAAAA
1 AAAAAAGAAAA
860834 AAAAAAGAAAA
1 AAAAAAGAAAA
860845 AAA
1 AAA
860848 TATGAAATGG
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
10 7 0.19
11 23 0.62
13 7 0.19
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.03
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:861398 original size:27 final size:29
Alignment explanation
Indices: 861368--861421 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 29
861358 AAAGTTCAAA
* *
861368 ATTTATGTTT-TTTTCAAAAA-AAAAATG
1 ATTTATATTTGTTTTAAAAAATAAAAATG
*
861395 ATTTTTATTTGTTTTAAAAAATAAAAA
1 ATTTATATTTGTTTTAAAAAATAAAAA
861422 ATATTTGTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 8 0.36
28 9 0.41
29 5 0.23
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (29 bp):
ATTTATATTTGTTTTAAAAAATAAAAATG
Done.