Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold968
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: 88356
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Found at i:427 original size:13 final size:14
Alignment explanation
Indices: 404--441 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
394 ATTGACATCT
*
404 TAATAAAAATTTAA
1 TAATAATAATTTAA
418 -AATAATAATTTAA
1 TAATAATAATTTAA
431 TATATAATAAT
1 TA-ATAATAAT
442 ATATTATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 12 0.57
14 1 0.05
15 8 0.38
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATAATAATTTAA
Found at i:520 original size:13 final size:12
Alignment explanation
Indices: 486--767 Score: 99
Period size: 11 Copynumber: 24.1 Consensus size: 12
476 AATCTGTTTA
486 AATAATATA-TT
1 AATAATATATTT
497 AA-AATAT-TTT
1 AATAATATATTT
507 AATAATACTATTT
1 AATAATA-TATTT
520 AATAATATA--T
1 AATAATATATTT
* *
530 -A-CA-ATATTA
1 AATAATATATTT
*
539 AATAATATA-GT
1 AATAATATATTT
*
550 AAAAATAT-TTT
1 AATAATATATTT
*
561 CATAATAGTA-TT
1 AATAATA-TATTT
* *
573 AA-AA-AAAATT
1 AATAATATATTT
583 AA-AATAT-TTT
1 AATAATATATTT
*
593 AAATAATAATAGTT
1 -AATAAT-ATATTT
*
607 AATAAAATA-TT
1 AATAATATATTT
* *
618 AATATTATTTTT
1 AATAATATATTT
630 AATAATATA--T
1 AATAATATATTT
*
640 AATAA-AT-GTT
1 AATAATATATTT
650 AA-AATATATTT
1 AATAATATATTT
*
661 AATAGTATATTT
1 AATAATATATTT
*
673 AAAAATATAAATATTT
1 ---AATA-ATATATTT
689 AAATAATAT-TTT
1 -AATAATATATTT
701 AATAA-ATATTT
1 AATAATATATTT
712 AAATAATAATATTTT
1 -AATAAT-ATA-TTT
*
727 AATAAATGTATTT
1 AAT-AATATATTT
*
740 GAAAATAAAATATTTT
1 ---AATAATATA-TTT
756 AATAAT-TATTT
1 AATAATATATTT
767 A
1 A
768 TTATTTTAAT
Statistics
Matches: 204, Mismatches: 29, Indels: 76
0.66 0.09 0.25
Matches are distributed among these distances:
7 3 0.01
8 1 0.00
9 6 0.03
10 33 0.16
11 49 0.24
12 43 0.21
13 28 0.14
14 15 0.07
15 14 0.07
16 12 0.06
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.43
Consensus pattern (12 bp):
AATAATATATTT
Found at i:599 original size:33 final size:31
Alignment explanation
Indices: 533--716 Score: 140
Period size: 32 Copynumber: 5.7 Consensus size: 31
523 AATATATACA
* *
533 ATATTAAATAATATAGTAAAAATATTTTCATAAT
1 ATATTAAA-AA-ATA-TTAAAATATTTTAATAAT
*
567 AGTATTAAAAAAAATTAAAATATTTTAAATAAT
1 A-TATTAAAAAATATTAAAATATTTT-AATAAT
*
600 AATAGTTAATAAAATATTAATATTATTTTTAATAAT
1 -ATA-TTAA-AAAATATTAA-AATA-TTTTAATAAT
* * *
636 ATA-TAATAAATGTTAAAATATATTTAATAGT
1 ATATTAAAAAATATTAAAATAT-TTTAATAAT
* *
667 ATATTTAAAAATA-T-AAATATTTAAATAAT
1 ATATTAAAAAATATTAAAATATTTTAATAAT
* * *
696 ATTTTAATAAATATTTAAATA
1 ATATTAAAAAATATTAAAATA
717 ATAATATTTT
Statistics
Matches: 122, Mismatches: 17, Indels: 25
0.74 0.10 0.15
Matches are distributed among these distances:
29 17 0.14
30 8 0.07
31 20 0.16
32 25 0.20
33 12 0.10
34 8 0.07
35 19 0.16
36 9 0.07
37 4 0.03
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (31 bp):
ATATTAAAAAATATTAAAATATTTTAATAAT
Found at i:642 original size:43 final size:43
Alignment explanation
Indices: 595--719 Score: 111
Period size: 43 Copynumber: 3.0 Consensus size: 43
585 AATATTTTAA
* * *
595 ATAAT-AATAGTTAATAAAATA-TTAATATTATTTTTAATAATAT
1 ATAATAAAT-GTTAA-AAAATATTTAATAGTATATTTAAAAATAT
*
638 ATAATAAATGTTAAAATATATTTAATAGTATATTTAAAAATAT
1 ATAATAAATGTTAAAAAATATTTAATAGTATATTTAAAAATAT
* *
681 A-AAT--AT-TTAAATAATATTTTAATA-AATATTTAAATAATA
1 ATAATAAATGTTAAAAAATA-TTTAATAGTATATTTAAA-AATA
720 ATATTTTAAT
Statistics
Matches: 71, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
39 17 0.24
40 13 0.18
42 8 0.11
43 30 0.42
44 3 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (43 bp):
ATAATAAATGTTAAAAAATATTTAATAGTATATTTAAAAATAT
Found at i:681 original size:12 final size:12
Alignment explanation
Indices: 650--746 Score: 54
Period size: 12 Copynumber: 7.5 Consensus size: 12
640 AATAAATGTT
650 AAAATATATTTA
1 AAAATATATTTA
* *
662 ATAGTATATTTAA
1 AAAATATATTT-A
675 AAATATAAATATTTA
1 AAA-AT--ATATTTA
690 AATAATAT-TTTA
1 AA-AATATATTTA
*
702 ATAA-ATATTTA
1 AAAATATATTTA
713 AATAATAATATTTTA
1 AA-AAT-ATA-TTTA
* *
728 ATAAATGTATTTG
1 A-AAATATATTTA
741 AAAATA
1 AAAATA
747 AAATATTTTA
Statistics
Matches: 65, Mismatches: 9, Indels: 22
0.68 0.09 0.23
Matches are distributed among these distances:
10 2 0.03
11 7 0.11
12 20 0.31
13 9 0.14
14 6 0.09
15 13 0.20
16 8 0.12
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (12 bp):
AAAATATATTTA
Found at i:686 original size:28 final size:29
Alignment explanation
Indices: 655--733 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 29
645 ATGTTAAAAT
*
655 ATATTT-AATAGTATATTTAA-AAATATAA
1 ATATTTAAATAATAT-TTTAATAAATATAA
*
683 ATATTTAAATAATATTTTAATAAATATTTA
1 ATATTTAAATAATATTTTAATAAATA-TAA
713 A-A--T-AATAATATTTTAATAAAT
1 ATATTTAAATAATATTTTAATAAAT
734 GTATTTGAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
26 18 0.39
27 1 0.02
28 11 0.24
29 13 0.28
30 3 0.07
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (29 bp):
ATATTTAAATAATATTTTAATAAATATAA
Found at i:708 original size:15 final size:15
Alignment explanation
Indices: 688--760 Score: 59
Period size: 14 Copynumber: 5.2 Consensus size: 15
678 TATAAATATT
688 TAAATAATATTTTAA
1 TAAATAATATTTTAA
*
703 T--A-AATATTTAAA
1 TAAATAATATTTTAA
715 T-AATAATATTTTAA
1 TAAATAATATTTTAA
* *
729 TAAAT-GTATTTGAA
1 TAAATAATATTTTAA
*
743 -AATAAAATATTTTAA
1 TAA-ATAATATTTTAA
758 TAA
1 TAA
761 TTATTTATTA
Statistics
Matches: 45, Mismatches: 7, Indels: 11
0.71 0.11 0.17
Matches are distributed among these distances:
12 10 0.22
13 4 0.09
14 18 0.40
15 11 0.24
16 2 0.04
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (15 bp):
TAAATAATATTTTAA
Found at i:725 original size:37 final size:41
Alignment explanation
Indices: 652--731 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 41
642 TAAATGTTAA
*
652 AATATATTTAATAGTATATTTAAAAATATAAATATTTAAAT
1 AATATATTTAATAGAATATTTAAAAATATAAATATTTAAAT
* *
693 AATAT-TTTAATA-AATATTTAAATA-AT-AATATTTTAAT
1 AATATATTTAATAGAATATTTAAAAATATAAATATTTAAAT
730 AA
1 AA
732 ATGTATTTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 12 0.33
38 2 0.06
39 10 0.28
40 7 0.19
41 5 0.14
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (41 bp):
AATATATTTAATAGAATATTTAAAAATATAAATATTTAAAT
Found at i:759 original size:29 final size:26
Alignment explanation
Indices: 679--767 Score: 105
Period size: 26 Copynumber: 3.4 Consensus size: 26
669 ATTTAAAAAT
679 ATAAATATTT--A-AATAATATTTTA
1 ATAAATATTTAAATAATAATATTTTA
702 ATAAATATTTAAATAATAATATTTTA
1 ATAAATATTTAAATAATAATATTTTA
728 ATAAATGTATTTGAAAATAA-AATATTTTA
1 ATAAA--TATTT--AAATAATAATATTTTA
*
757 ATAATTATTTA
1 ATAAATATTTA
768 TTATTTTAAT
Statistics
Matches: 58, Mismatches: 1, Indels: 12
0.82 0.01 0.17
Matches are distributed among these distances:
23 10 0.17
25 2 0.03
26 17 0.29
27 5 0.09
28 5 0.09
29 13 0.22
30 6 0.10
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (26 bp):
ATAAATATTTAAATAATAATATTTTA
Found at i:783 original size:18 final size:19
Alignment explanation
Indices: 750--812 Score: 76
Period size: 18 Copynumber: 3.4 Consensus size: 19
740 GAAAATAAAA
*
750 TATTTTAATAATTATTTAT
1 TATTTTAATAATTATTAAT
769 TATTTTAAT-ATTATTAAT
1 TATTTTAATAATTATTAAT
* * *
787 TATTATAATTA-TATTAAA
1 TATTTTAATAATTATTAAT
805 TATTTTAA
1 TATTTTAA
813 ATGTACTTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
18 29 0.74
19 10 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTTTAATAATTATTAAT
Found at i:3896 original size:22 final size:21
Alignment explanation
Indices: 3871--3923 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 21
3861 ACCTTTTCGC
3871 AAGAAAATTTCATGAAAA-TTTG
1 AAGAAAATTT--TGAAAATTTTG
3893 AAGAAAAATGTTTGAAAATTTTG
1 AAG-AAAAT-TTTGAAAATTTTG
3916 AA-AAAATT
1 AAGAAAATT
3924 ATCTAGCGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
20 1 0.04
21 5 0.18
22 9 0.32
23 11 0.39
24 2 0.07
ACGTcount: A:0.53, C:0.02, G:0.13, T:0.32
Consensus pattern (21 bp):
AAGAAAATTTTGAAAATTTTG
Found at i:5968 original size:20 final size:21
Alignment explanation
Indices: 5943--5996 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
5933 CATTTCAAAC
5943 ATGTATCGATACATGCACTT-
1 ATGTATCGATACATGCACTTG
*
5963 ATGTATCGATACATTCACTTG
1 ATGTATCGATACATGCACTTG
*
5984 TTGTATCGATACA
1 ATGTATCGATACA
5997 AATTGTAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 19 0.61
21 12 0.39
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.37
Consensus pattern (21 bp):
ATGTATCGATACATGCACTTG
Found at i:9811 original size:24 final size:25
Alignment explanation
Indices: 9776--9822 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
9766 TTTGATTGTC
9776 CAAACTTAAAGAAGAAAGGCATGAG
1 CAAACTTAAAGAAGAAAGGCATGAG
*
9801 CAAAC-TAAAGAAGAAAGTCATG
1 CAAACTTAAAGAAGAAAGGCATG
9823 GTGGCTACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.53, C:0.13, G:0.21, T:0.13
Consensus pattern (25 bp):
CAAACTTAAAGAAGAAAGGCATGAG
Found at i:10544 original size:34 final size:35
Alignment explanation
Indices: 10506--10572 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
10496 CCTTACAACA
10506 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
10540 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
10573 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:12827 original size:13 final size:13
Alignment explanation
Indices: 12809--12833 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12799 ACTGAAGCAA
12809 TGTATCGATACAT
1 TGTATCGATACAT
12822 TGTATCGATACA
1 TGTATCGATACA
12834 ATCTGGAAAA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:13433 original size:23 final size:24
Alignment explanation
Indices: 13388--13434 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
13378 CAAAGAATTG
*
13388 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
13412 AACACAAA-TCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
13435 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:15763 original size:32 final size:33
Alignment explanation
Indices: 15708--15776 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 33
15698 TTCAACGATT
*
15708 TGTATCGATACATAAAATGTTGTAT-TATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
15740 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
15773 TGTA
1 TGTA
15777 AGCTACTGCA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
32 21 0.68
33 10 0.32
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:15834 original size:13 final size:13
Alignment explanation
Indices: 15816--15840 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15806 ATTACTCACA
15816 TGTATCGATACAT
1 TGTATCGATACAT
15829 TGTATCGATACA
1 TGTATCGATACA
15841 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:15905 original size:52 final size:52
Alignment explanation
Indices: 15849--15964 Score: 214
Period size: 52 Copynumber: 2.2 Consensus size: 52
15839 CACTGATCTT
*
15849 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
15901 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
15953 TGTATCGATACA
1 TGTATCGATACA
15965 CTATTAAATG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 62 1.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:15957 original size:20 final size:20
Alignment explanation
Indices: 15932--15984 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
15922 ATTTGCCCAG
15932 ATGTATCGATACACTATTAA
1 ATGTATCGATACACTATTAA
15952 ATGTATCGATACACTATTAA
1 ATGTATCGATACACTATTAA
15972 ATGTATCGATACA
1 ATGTATCGATACA
15985 TGCAGATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACACTATTAA
Found at i:21873 original size:13 final size:13
Alignment explanation
Indices: 21855--21892 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
21845 CAGCATTCTC
*
21855 TGTATCGATACAT
1 TGTATCGATACAG
21868 TGTATCGATACAG
1 TGTATCGATACAG
*
21881 TGTATCAATACA
1 TGTATCGATACA
21893 AAGGGTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:24179 original size:204 final size:204
Alignment explanation
Indices: 23829--24223 Score: 790
Period size: 204 Copynumber: 1.9 Consensus size: 204
23819 GTTTTTTGAA
23829 GCTATGGAAATCAGATCACAGGTTAAGCAATATGTTGATACGAGGAGAATGACTGTACACGAGCT
1 GCTATGGAAATCAGATCACAGGTTAAGCAATATGTTGATACGAGGAGAATGACTGTACACGAGCT
23894 TGAACAAATCGGGAAGATCATAAAATGCTACCCGAAAATATACATTTGAAAATTATGCAAACAAA
66 TGAACAAATCGGGAAGATCATAAAATGCTACCCGAAAATATACATTTGAAAATTATGCAAACAAA
23959 AGGGATTAGAGTCAACCAAAATTTATTTTCTAAGTTTTGTTATATCAAAAAGGGGGAGATTAGAG
131 AGGGATTAGAGTCAACCAAAATTTATTTTCTAAGTTTTGTTATATCAAAAAGGGGGAGATTAGAG
24024 TCATAAAAT
196 TCATAAAAT
24033 GCTATGGAAATCAGATCACAGGTTAAGCAATATGTTGATACGAGGAGAATGACTGTACACGAGCT
1 GCTATGGAAATCAGATCACAGGTTAAGCAATATGTTGATACGAGGAGAATGACTGTACACGAGCT
24098 TGAACAAATCGGGAAGATCATAAAATGCTACCCGAAAATATACATTTGAAAATTATGCAAACAAA
66 TGAACAAATCGGGAAGATCATAAAATGCTACCCGAAAATATACATTTGAAAATTATGCAAACAAA
24163 AGGGATTAGAGTCAACCAAAATTTATTTTCTAAGTTTTGTTATATCAAAAAGGGGGAGATT
131 AGGGATTAGAGTCAACCAAAATTTATTTTCTAAGTTTTGTTATATCAAAAAGGGGGAGATT
24224 GTTAGGATCT
Statistics
Matches: 191, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
204 191 1.00
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (204 bp):
GCTATGGAAATCAGATCACAGGTTAAGCAATATGTTGATACGAGGAGAATGACTGTACACGAGCT
TGAACAAATCGGGAAGATCATAAAATGCTACCCGAAAATATACATTTGAAAATTATGCAAACAAA
AGGGATTAGAGTCAACCAAAATTTATTTTCTAAGTTTTGTTATATCAAAAAGGGGGAGATTAGAG
TCATAAAAT
Found at i:24553 original size:13 final size:13
Alignment explanation
Indices: 24535--24559 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24525 ATAATGCACA
24535 GTATCGATACATT
1 GTATCGATACATT
24548 GTATCGATACAT
1 GTATCGATACAT
24560 GACCACTGTA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:24556 original size:33 final size:32
Alignment explanation
Indices: 24514--24576 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
24504 CACCTTCAGA
*
24514 TGTATCGATACATAATGCACAGTATCGATACAT
1 TGTATCGATACATAA-CCACAGTATCGATACAT
* *
24547 TGTATCGATACATGACCACTGTATCGATAC
1 TGTATCGATACATAACCACAGTATCGATAC
24577 TTGCAAAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (32 bp):
TGTATCGATACATAACCACAGTATCGATACAT
Found at i:29324 original size:13 final size:13
Alignment explanation
Indices: 29306--29335 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
29296 ACTTTTTACC
29306 ATGTATCGATACA
1 ATGTATCGATACA
29319 ATGTATCGATACA
1 ATGTATCGATACA
29332 ATGT
1 ATGT
29336 GCCATGCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:29341 original size:33 final size:33
Alignment explanation
Indices: 29283--29351 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
29273 GCCATTGGGC
** * *
29283 ACAATGTATCGATACTTTTTACCATGTATCGAT
1 ACAATGTATCGATACAATGTACCATGCATCGAT
*
29316 ACAATGTATCGATACAATGTGCCATGCATCGAT
1 ACAATGTATCGATACAATGTACCATGCATCGAT
29349 ACA
1 ACA
29352 TTTAGCTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.32
Consensus pattern (33 bp):
ACAATGTATCGATACAATGTACCATGCATCGAT
Found at i:36770 original size:20 final size:20
Alignment explanation
Indices: 36745--36798 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
36735 GGAAAGAAAA
*
36745 TGTATCAATATATTTTTCAT
1 TGTATCAATACATTTTTCAT
*
36765 TGTATCGATACATTTTTCAT
1 TGTATCAATACATTTTTCAT
* *
36785 TATATCGATACATT
1 TGTATCAATACATT
36799 CTAGGTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (20 bp):
TGTATCAATACATTTTTCAT
Found at i:39303 original size:51 final size:52
Alignment explanation
Indices: 39242--39378 Score: 172
Period size: 51 Copynumber: 2.7 Consensus size: 52
39232 CGTTCTCATC
* * **
39242 ATAATCAAAATTTTCACCATCAGGGATACTCCAACCCCGTTTTTA-TTTTAAA
1 ATAATCAAAATTTTCATC-TCAGGGATACTCCAACCCCATTTTTACTTCCAAA
**
39294 ATAAT-AAAATTTTCATCTTTGGGATACTCCAACCCCATTTTTACTTCCAAA
1 ATAATCAAAATTTTCATCTCAGGGATACTCCAACCCCATTTTTACTTCCAAA
* *
39345 AT-ATGAAAATTTTCATCTCGGGGATACTCCAACC
1 ATAATCAAAATTTTCATCTCAGGGATACTCCAACC
39379 TTGTTACTTT
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
50 25 0.33
51 45 0.60
52 5 0.07
ACGTcount: A:0.34, C:0.23, G:0.09, T:0.34
Consensus pattern (52 bp):
ATAATCAAAATTTTCATCTCAGGGATACTCCAACCCCATTTTTACTTCCAAA
Found at i:39478 original size:79 final size:78
Alignment explanation
Indices: 39314--39691 Score: 332
Period size: 79 Copynumber: 4.8 Consensus size: 78
39304 TTTCATCTTT
* * * *
39314 GGGATACTCCAACCCCATTTTTACTTCCAAAATATGAAAATTTTCATCTCGGGGATACTCCAACC
1 GGGATACTCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTCATCTCGAGGATACTCCAACC
**
39379 TTGTTACTT-TCGAG
66 -CATTACTTCT-GAG
** * ** * *
39393 AAGATACTTCAACCCCGCTTTTATTTCCAAAATATTAAAATTTTCATCTCGAAGATACTCCAATC
1 GGGATACTCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTCATCTCGAGGATACTCCAA-C
* *
39458 CCATTATTTTTGAG
65 CCATTACTTCTGAG
* * * * * *
39472 GGGATACTCCAATCCCATTTTTATTTCGAAAATA-TCAATTTTTCACCATCCG-GGATTCTCTAA
1 GGGATACTCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTCATC-T-CGAGGATACTCCAA
* * *
39535 CCCTGTTATTTCTAAG
64 CCC-ATTACTTCTGAG
* * * *
39551 GGGATAGTCCAACCCCGTTTTTATTTCCAAAATA-TCAATTTTTCACCATCGAGGATACTCCAAC
1 GGGATACTCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTCATC-TCGAGGATACTCCAA-
*
39615 CCCATCACTTCTGAG
64 CCCATTACTTCTGAG
* ** * * * *
39630 GAGATACTCCAACCTTATTTTCACTTCCAAAATATTAAATTTTTTATCTCGGGGATACTCCA
1 GGGATACTCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTCATCTCGAGGATACTCCA
39692 CCCCGATTTT
Statistics
Matches: 242, Mismatches: 49, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
78 15 0.06
79 209 0.86
80 18 0.07
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (78 bp):
GGGATACTCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTCATCTCGAGGATACTCCAACC
CATTACTTCTGAG
Found at i:39608 original size:158 final size:158
Alignment explanation
Indices: 39314--39691 Score: 411
Period size: 158 Copynumber: 2.4 Consensus size: 158
39304 TTTCATCTTT
* *
39314 GGGATACTCCAACCCCATTTTTACTTCCAAAATATGAAAATTTTCATCTCGGGGATACTCCAACC
1 GGGATACTCCAACCCCATTTTTACTTCCAAAATATGAAAATTTTCACCTCCGGGATACTCCAACC
* * * *
39379 TTGTTACTTTCGAGAAGATACTTCAACCCCGCTTTTATTTCCAAAATATTAAAATTTTCATCTCG
66 CTGTTACTTTCAAGAAGATACTCCAACCCCGCTTTTATTTCCAAAATATTAAAATTTTCACCTCG
* * * *
39444 AAGATACTCCAATCCCATTATTTTTGAG
131 AAGATACTCCAACCCCATCACTTCTGAG
* * * * * * *
39472 GGGATACTCCAATCCCATTTTTATTTCGAAAATAT-CAATTTTTCACCATCCGGGATTCTCTAAC
1 GGGATACTCCAACCCCATTTTTACTTCCAAAATATGAAAATTTTCACC-TCCGGGATACTCCAAC
** * * * *
39536 CCTGTTA-TTTCTAAGGGGATAGTCCAACCCCGTTTTTATTTCCAAAATA-TCAATTTTTCACCA
65 CCTGTTACTTTC-AAGAAGATACTCCAACCCCGCTTTTATTTCCAAAATATTAAAATTTTCACC-
*
39599 TCGAGGATACTCCAACCCCATCACTTCTGAG
128 TCGAAGATACTCCAACCCCATCACTTCTGAG
* ** * * * * * *
39630 GAGATACTCCAACCTTATTTTCACTTCCAAAATATTAAATTTTTTATCTCGGGGATACTCCA
1 GGGATACTCCAACCCCATTTTTACTTCCAAAATATGAAAATTTTCACCTCCGGGATACTCCA
39692 CCCCGATTTT
Statistics
Matches: 179, Mismatches: 37, Indels: 8
0.80 0.17 0.04
Matches are distributed among these distances:
157 23 0.13
158 147 0.82
159 9 0.05
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (158 bp):
GGGATACTCCAACCCCATTTTTACTTCCAAAATATGAAAATTTTCACCTCCGGGATACTCCAACC
CTGTTACTTTCAAGAAGATACTCCAACCCCGCTTTTATTTCCAAAATATTAAAATTTTCACCTCG
AAGATACTCCAACCCCATCACTTCTGAG
Found at i:44269 original size:96 final size:98
Alignment explanation
Indices: 44052--44291 Score: 319
Period size: 96 Copynumber: 2.5 Consensus size: 98
44042 TTTTTGGTTG
* * * * * *
44052 AAAAACAGGGTTGGAGTATCCCTTCAAAGGAATAGGGTTGGAGTGT-CCTCGATAATGACAATTT
1 AAAAATAGGGTTGGAGTATCCCCTCAAAAGAATAGGGTTGGAATATCCCTCGATAATAACAATTT
*
44116 AGGCGAAAATAAGATTTAAATCTTGATAAGTTT
66 AAGCGAAAATAAGATTTAAATCTTGATAAGTTT
* *
44149 AAAAATAGGGTTGGAGTATTCCCTCAAAAGAATAAGGTTGGAATATCCCT-GATAATAACAATTT
1 AAAAATAGGGTTGGAGTATCCCCTCAAAAGAATAGGGTTGGAATATCCCTCGATAATAACAATTT
44213 AAGC-AAAATAAGATTTAAATCTTG-TCAAGTTT
66 AAGCGAAAATAAGATTTAAATCTTGAT-AAGTTT
* * *
44245 AAAAAT-GAGGTTGGAGAATCCCCTCAGAAGAATGGGGTTGGAATATC
1 AAAAATAG-GGTTGGAGTATCCCCTCAAAAGAATAGGGTTGGAATATC
44292 TCCGTAAATA
Statistics
Matches: 126, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
95 2 0.02
96 66 0.52
97 55 0.44
98 3 0.02
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (98 bp):
AAAAATAGGGTTGGAGTATCCCCTCAAAAGAATAGGGTTGGAATATCCCTCGATAATAACAATTT
AAGCGAAAATAAGATTTAAATCTTGATAAGTTT
Found at i:46789 original size:20 final size:21
Alignment explanation
Indices: 46766--46818 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
46756 GCATGTTTCG
*
46766 ATACATTCACTTA-TGTATCA
1 ATACATTAACTTATTGTATCA
*
46786 ATACATTAACTTATTGTATCG
1 ATACATTAACTTATTGTATCA
46807 ATACATTAACTT
1 ATACATTAACTT
46819 GTATCTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 12 0.40
21 18 0.60
ACGTcount: A:0.36, C:0.17, G:0.06, T:0.42
Consensus pattern (21 bp):
ATACATTAACTTATTGTATCA
Found at i:48681 original size:13 final size:13
Alignment explanation
Indices: 48663--48687 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48653 CATAAAGTGT
48663 TGTATCGATACAA
1 TGTATCGATACAA
48676 TGTATCGATACA
1 TGTATCGATACA
48688 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:48685 original size:33 final size:33
Alignment explanation
Indices: 48643--48709 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
48633 TTCAACGATT
48643 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
48676 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
48709 T
1 T
48710 TTAAGCTACT
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:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:48768 original size:13 final size:13
Alignment explanation
Indices: 48750--48774 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48740 ATCACTTAAA
48750 TGTATCGATACAT
1 TGTATCGATACAT
48763 TGTATCGATACA
1 TGTATCGATACA
48775 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:48839 original size:52 final size:52
Alignment explanation
Indices: 48783--48963 Score: 326
Period size: 52 Copynumber: 3.5 Consensus size: 52
48773 CACTGATCTT
*
48783 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
48835 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
48887 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
48939 TGTATCGATACATGCAAGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
48964 TCATATTTCG
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 125 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:53103 original size:10 final size:10
Alignment explanation
Indices: 53088--53114 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
53078 TGCTAACTAA
53088 GTTTTTGTTT
1 GTTTTTGTTT
53098 GTTTTTGTTT
1 GTTTTTGTTT
53108 GTTTTTG
1 GTTTTTG
53115 CTTGATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (10 bp):
GTTTTTGTTT
Found at i:62813 original size:1 final size:1
Alignment explanation
Indices: 62807--62908 Score: 78
Period size: 1 Copynumber: 102.0 Consensus size: 1
62797 GGCGTCCTCC
* * ** ** * *
62807 AAAAAAAAAAAAAACAAAACAAAAAAAAACGAAAAAAATGAAAAAACAAAAAAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * *
62872 AACAAAAACAATAAAAAAACAAACAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
62909 GGGGGTCCGG
Statistics
Matches: 75, Mismatches: 26, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 75 1.00
ACGTcount: A:0.86, C:0.10, G:0.02, T:0.02
Consensus pattern (1 bp):
A
Found at i:62832 original size:17 final size:17
Alignment explanation
Indices: 62810--62907 Score: 87
Period size: 17 Copynumber: 5.6 Consensus size: 17
62800 GTCCTCCAAA
62810 AAAAAAAAAAACAAAAC
1 AAAAAAAAAAACAAAAC
* *
62827 AAAAAAAAACGAAAAAAATG
1 AAAAAAAAA--AACAAAA-C
62847 AAAAAACAAAAA-AAAAC
1 AAAAAA-AAAAACAAAAC
62864 -AAAAAAAAAACAAAA-
1 AAAAAAAAAAACAAAAC
*
62879 ACAATAAAAAAAC-AAAC
1 A-AAAAAAAAAACAAAAC
62896 AAAAACAAAAAA
1 AAAAA-AAAAAA
62908 AGGGGGTCCG
Statistics
Matches: 67, Mismatches: 5, Indels: 18
0.74 0.06 0.20
Matches are distributed among these distances:
15 5 0.07
16 15 0.22
17 26 0.39
18 4 0.06
19 8 0.12
20 6 0.09
21 3 0.04
ACGTcount: A:0.86, C:0.10, G:0.02, T:0.02
Consensus pattern (17 bp):
AAAAAAAAAAACAAAAC
Found at i:62833 original size:21 final size:21
Alignment explanation
Indices: 62807--62908 Score: 91
Period size: 21 Copynumber: 4.7 Consensus size: 21
62797 GGCGTCCTCC
62807 AAAAAAAAAAAAAACAAAACA
1 AAAAAAAAAAAAAACAAAACA
** **
62828 AAAAAAAACGAAAA-AAATGA
1 AAAAAAAAAAAAAACAAAACA
62848 AAAAACAAAAAAAAACAAAA-A
1 AAAAA-AAAAAAAAACAAAACA
*
62869 AAAAACAAAAACAATAAAAAAACA
1 AAAAA-AAAAA-AA-AACAAAACA
62893 AACAAAAACAAAAAAA
1 AA-AAAAA-AAAAAAA
62909 GGGGGTCCGG
Statistics
Matches: 66, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
20 9 0.14
21 31 0.47
22 5 0.08
23 8 0.12
24 7 0.11
25 6 0.09
ACGTcount: A:0.86, C:0.10, G:0.02, T:0.02
Consensus pattern (21 bp):
AAAAAAAAAAAAAACAAAACA
Found at i:62841 original size:27 final size:26
Alignment explanation
Indices: 62807--62905 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
62797 GGCGTCCTCC
62807 AAAA-AAAAAAAAAACAAAACAAAAA
1 AAAACAAAAAAAAAACAAAACAAAAA
*
62832 AAAACGAAAAAAATGAA-AAAACAAAAA
1 AAAAC-AAAAAAA-AAACAAAACAAAAA
62859 AAAACAAAAAAAAAACAAAAACAATAAA
1 AAAACAAAAAAAAAAC-AAAACAA-AAA
*
62887 AAAAC-AAACAAAAACAAAA
1 AAAACAAAAAAAAAACAAAA
62906 AAAGGGGGTC
Statistics
Matches: 65, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
25 6 0.09
26 11 0.17
27 38 0.58
28 10 0.15
ACGTcount: A:0.86, C:0.10, G:0.02, T:0.02
Consensus pattern (26 bp):
AAAACAAAAAAAAAACAAAACAAAAA
Found at i:62858 original size:38 final size:37
Alignment explanation
Indices: 62808--62908 Score: 141
Period size: 38 Copynumber: 2.7 Consensus size: 37
62798 GCGTCCTCCA
*
62808 AAAAAAAAAAAAACAAAACAAAAAAAAACGAAAAA-AAT
1 AAAAAAACAAAAA-AAAACAAAAAAAAAC-AAAAACAAT
*
62846 GAAAAAACAAAAAAAAACAAAAAAAAAACAAAAACAAT
1 AAAAAAACAAAAAAAAAC-AAAAAAAAACAAAAACAAT
*
62884 AAAAAAACAAACAAAAACAAAAAAA
1 AAAAAAACAAAAAAAAACAAAAAAA
62909 GGGGGTCCGG
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
37 17 0.30
38 40 0.70
ACGTcount: A:0.86, C:0.10, G:0.02, T:0.02
Consensus pattern (37 bp):
AAAAAAACAAAAAAAAACAAAAAAAAACAAAAACAAT
Found at i:64418 original size:30 final size:29
Alignment explanation
Indices: 64349--64672 Score: 331
Period size: 30 Copynumber: 11.1 Consensus size: 29
64339 TTTATCACCC
*
64349 TTCAAAAGTCCACAAGTCAGTGGCATATTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-ATTT
*
64379 TTC-AAAGCCCACAAGTCAGTGGCATTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-ATTT
**
64408 TTCAAAAGCCCACAAGTCAGTGGCAA-CC
1 TTCAAAAGCCCACAAGTCAGTGGCAATTT
* *
64436 TTC-AAAGCCCACAAATCAGTGGCACCCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCA--ATTT
**
64466 TTCAAAAGCCCACAAGTCAGTGGCAACCT
1 TTCAAAAGCCCACAAGTCAGTGGCAATTT
* **
64495 TT-AAAAGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-ATTT
64524 TTCAAAAGCCCACAAGTCAGTGGCATATTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-ATTT
**
64554 TTCAAAAGCCCACAAGTCAGTGGCAACCT
1 TTCAAAAGCCCACAAGTCAGTGGCAATTT
**
64583 TT-AAAAGCCCACAAGTCAGTGGCAA-CC
1 TTCAAAAGCCCACAAGTCAGTGGCAATTT
* *
64610 TTC-AAAGCCCACAAATCAGTGGCACCCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCA--ATTT
* * *
64640 TTC-GAAGCCCACAAGTCGGTGGCACCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-ATTT
64669 TTCA
1 TTCA
64673 TCTTTAAGTC
Statistics
Matches: 252, Mismatches: 30, Indels: 24
0.82 0.10 0.08
Matches are distributed among these distances:
27 43 0.17
28 47 0.19
29 46 0.18
30 96 0.38
31 20 0.08
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (29 bp):
TTCAAAAGCCCACAAGTCAGTGGCAATTT
Found at i:64485 original size:58 final size:58
Alignment explanation
Indices: 64349--64667 Score: 409
Period size: 58 Copynumber: 5.5 Consensus size: 58
64339 TTTATCACCC
* ** **
64349 TTCAAAAGTCCACAAGTCAGTGGCATATTTTTCAAAGCCCACAAGTCAGTGGCA-TTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-A-CCTTCAAAGCCCACAAGTCAGTGGCACCCTTT
*
64408 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAGTCAGTGGCACCCTTT
* *
64466 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGTGGCACCC-TT
1 TTCAAAAGCCCACAAGTCAGTGGCAACC-TTCAAAGCCCACAAGTCAGTGGCACCCTTT
** *
64524 TTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACC--T
1 TTCAAAAGCCCACAAGTCAGTGGCA-A-CCTTC-AAAGCCCACAAGTCAGTGGCACCCTTT
*
64583 TT-AAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAGTCAGTGGCACCCTTT
* *
64640 TTC-GAAGCCCACAAGTCGGTGGC-ACCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
64668 TTTCATCTTT
Statistics
Matches: 232, Mismatches: 20, Indels: 19
0.86 0.07 0.07
Matches are distributed among these distances:
55 22 0.09
56 8 0.03
57 45 0.19
58 81 0.35
59 54 0.23
60 22 0.09
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (58 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAGTCAGTGGCACCCTTT
Found at i:64555 original size:88 final size:85
Alignment explanation
Indices: 64347--64668 Score: 425
Period size: 88 Copynumber: 3.7 Consensus size: 85
64337 CATTTATCAC
* * * ***
64347 CCTTCAAAAGTCCACAAGTCAGTGGCA-TATTTTTCAAAGCCCACAAGTCAGTGGCATTTTTTTC
1 CCTTC-AAAGCCCACAAATCAGTGGCACCATTTTTCAAAGCCCACAAGTCAGTGGCA-ACCTTT-
64411 AAAAGCCCACAAGTCAGTGGCAA
63 AAAAGCCCACAAGTCAGTGGCAA
*
64434 CCTTCAAAGCCCACAAATCAGTGGCACCCTTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAA
1 CCTTCAAAGCCCACAAATCAGTGGCACCATTTTTC-AAAGCCCACAAGTCAGTGGCAACCTTTAA
* *
64499 AAGCCCACAAGTTAGTGGCAC
65 AAGCCCACAAGTCAGTGGCAA
* *
64520 CCTTTTCAAAAGCCCACAAGTCAGTGGCA-TATTTTTCAAAAGCCCACAAGTCAGTGGCAACCTT
1 CC--TTC-AAAGCCCACAAATCAGTGGCACCATTTTTC-AAAGCCCACAAGTCAGTGGCAACCTT
64584 TAAAAGCCCACAAGTCAGTGGCAA
62 TAAAAGCCCACAAGTCAGTGGCAA
* * *
64608 CCTTCAAAGCCCACAAATCAGTGGCACCCTTTTTCGAAGCCCACAAGTCGGTGGC-ACCTTT
1 CCTTCAAAGCCCACAAATCAGTGGCACCATTTTTCAAAGCCCACAAGTCAGTGGCAACCTTT
64669 TTCATCTTTA
Statistics
Matches: 210, Mismatches: 19, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
84 6 0.03
85 38 0.18
86 51 0.24
87 14 0.07
88 81 0.39
89 20 0.10
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.22
Consensus pattern (85 bp):
CCTTCAAAGCCCACAAATCAGTGGCACCATTTTTCAAAGCCCACAAGTCAGTGGCAACCTTTAAA
AGCCCACAAGTCAGTGGCAA
Found at i:64716 original size:52 final size:52
Alignment explanation
Indices: 64659--64819 Score: 196
Period size: 52 Copynumber: 3.2 Consensus size: 52
64649 CACAAGTCGG
*
64659 TGGCACCTTTTTCATCTTTAAGTCCAATGTAGCTGACCTTGAATCAGCACAT
1 TGGCACCTTTTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
* *
64711 TGGCA-------C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
1 TGGCACCTTTTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
* *
64754 TGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACAT
1 TGGCACCTTTTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
*
64806 TGACATCCTTTTTC
1 TGGCA-CCTTTTTC
64820 TCAGCGTTAA
Statistics
Matches: 91, Mismatches: 8, Indels: 19
0.77 0.07 0.16
Matches are distributed among these distances:
43 39 0.43
45 1 0.01
50 1 0.01
52 43 0.47
53 7 0.08
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (52 bp):
TGGCACCTTTTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
Found at i:64735 original size:43 final size:43
Alignment explanation
Indices: 64674--64763 Score: 153
Period size: 43 Copynumber: 2.1 Consensus size: 43
64664 CCTTTTTCAT
*
64674 CTTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCAC
* *
64717 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCAC
64760 CTTT
1 CTTT
64764 TCCATCTTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCAC
Found at i:65559 original size:13 final size:13
Alignment explanation
Indices: 65541--65565 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65531 CATAAAGTGT
65541 TGTATCGATACAA
1 TGTATCGATACAA
65554 TGTATCGATACA
1 TGTATCGATACA
65566 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:65563 original size:33 final size:33
Alignment explanation
Indices: 65521--65587 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
65511 TTCAACGATT
65521 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
65554 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
65587 T
1 T
65588 TTAAGCTACT
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:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:65646 original size:13 final size:13
Alignment explanation
Indices: 65628--65652 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65618 ATCACTTAAA
65628 TGTATCGATACAT
1 TGTATCGATACAT
65641 TGTATCGATACA
1 TGTATCGATACA
65653 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:65717 original size:52 final size:52
Alignment explanation
Indices: 65661--65841 Score: 317
Period size: 52 Copynumber: 3.5 Consensus size: 52
65651 CACTGATCTT
*
65661 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
65713 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* **
65765 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
65817 TGTATCGATACATGCAAGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
65842 TCATATTTCG
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 124 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:71302 original size:20 final size:20
Alignment explanation
Indices: 71277--71328 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
71267 TATGGTCCAG
*
71277 TATCGATACATTCACTTCTA
1 TATCGATACATTCACTTATA
*
71297 TATCGATACATTCACTTATG
1 TATCGATACATTCACTTATA
*
71317 TTTCGATACATT
1 TATCGATACATT
71329 TTCTTATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (20 bp):
TATCGATACATTCACTTATA
Found at i:76130 original size:13 final size:13
Alignment explanation
Indices: 76112--76141 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
76102 ACAATTCTTC
76112 ATGTATCAATACA
1 ATGTATCAATACA
*
76125 ATGTATCGATACA
1 ATGTATCAATACA
76138 ATGT
1 ATGT
76142 TCCATGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (13 bp):
ATGTATCAATACA
Found at i:76133 original size:33 final size:33
Alignment explanation
Indices: 76091--76157 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
76081 CGTTGGGCAT
*
76091 AATGTATCGATACAAT-TCTTCATGTATCAATAC
1 AATGTATCGATACAATGT-TCCATGTATCAATAC
*
76124 AATGTATCGATACAATGTTCCATGTATCGATAC
1 AATGTATCGATACAATGTTCCATGTATCAATAC
76157 A
1 A
76158 TTTCACTTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (33 bp):
AATGTATCGATACAATGTTCCATGTATCAATAC
Found at i:76215 original size:20 final size:19
Alignment explanation
Indices: 76190--76277 Score: 81
Period size: 20 Copynumber: 4.5 Consensus size: 19
76180 CAGTTTCATA
76190 TATCGATACAATTGAGTATG
1 TATCGATACAA-TGAGTATG
*
76210 TATCGATACAATGAGCATG
1 TATCGATACAATGAGTATG
* *
76229 TATTGATACAAAGCA-TAATG
1 TATCGATACAATG-AGT-ATG
*
76249 TATCGATACATCTG-GATATG
1 TATCGATACA-ATGAG-TATG
76269 TATCGATAC
1 TATCGATAC
76278 TTTTTAGGGT
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
19 18 0.32
20 36 0.64
21 2 0.04
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (19 bp):
TATCGATACAATGAGTATG
Found at i:81079 original size:18 final size:19
Alignment explanation
Indices: 81058--81098 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
81048 AATTGTCAAA
81058 ACAC-TTAAAAGTATCGAT
1 ACACATTAAAAGTATCGAT
*
81076 ACACAATTCAAAGTATCGAT
1 ACAC-ATTAAAAGTATCGAT
81096 ACA
1 ACA
81099 TGTTGCAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
20 16 0.80
ACGTcount: A:0.46, C:0.20, G:0.10, T:0.24
Consensus pattern (19 bp):
ACACATTAAAAGTATCGAT
Found at i:81183 original size:19 final size:19
Alignment explanation
Indices: 81161--81223 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
81151 TAGCCAAACT
81161 TGTATCGATACACCAAGTA
1 TGTATCGATACACCAAGTA
81180 TGTATCGAT--A-C-A--A
1 TGTATCGATACACCAAGTA
81193 TGTATCGATACACCAAGTA
1 TGTATCGATACACCAAGTA
81212 TGTATCGATACA
1 TGTATCGATACA
81224 ATGTATCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 10 0.26
15 2 0.05
16 2 0.05
17 2 0.05
19 22 0.58
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.29
Consensus pattern (19 bp):
TGTATCGATACACCAAGTA
Found at i:81197 original size:13 final size:13
Alignment explanation
Indices: 81179--81236 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
81169 TACACCAAGT
81179 ATGTATCGATACA
1 ATGTATCGATACA
81192 ATGTATCGATACACCAA
1 ATGTATCGAT--A-C-A
81209 GTATGTATCGATACA
1 --ATGTATCGATACA
81224 ATGTATCGATACA
1 ATGTATCGATACA
81237 CCAAAAATTG
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.59
15 2 0.05
16 2 0.05
17 2 0.05
19 10 0.26
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:81202 original size:32 final size:32
Alignment explanation
Indices: 81161--81256 Score: 165
Period size: 32 Copynumber: 3.0 Consensus size: 32
81151 TAGCCAAACT
81161 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAGTATGTATCGATACAA
81193 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAGTATGTATCGATACAA
**
81225 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAGTA-TGTATCGATACA
81257 TTGGCTTGTA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 49 0.80
33 12 0.20
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACCAAGTATGTATCGATACAA
Found at i:84443 original size:52 final size:51
Alignment explanation
Indices: 84358--84481 Score: 212
Period size: 52 Copynumber: 2.4 Consensus size: 51
84348 ATATGAAAAG
* *
84358 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
*
84409 TTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
84461 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
84482 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 21 0.30
52 48 0.70
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
Found at i:84494 original size:51 final size:51
Alignment explanation
Indices: 84358--84501 Score: 202
Period size: 52 Copynumber: 2.8 Consensus size: 51
84348 ATATGAAAAG
*
84358 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
84410 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA-
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
84461 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
84502 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
50 2 0.02
51 34 0.40
52 48 0.57
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:84508 original size:13 final size:13
Alignment explanation
Indices: 84490--84514 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
84480 CAAAGATCAG
84490 TGTATCGATACAA
1 TGTATCGATACAA
84503 TGTATCGATACA
1 TGTATCGATACA
84515 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:84592 original size:33 final size:33
Alignment explanation
Indices: 84555--84621 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
84545 AGTAGCTTAA
84555 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
84588 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
84621 A
1 A
84622 AATCGTTGAA
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:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:84595 original size:13 final size:13
Alignment explanation
Indices: 84577--84601 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
84567 CAAAAAAATA
84577 TGTATCGATACAT
1 TGTATCGATACAT
84590 TGTATCGATACA
1 TGTATCGATACA
84602 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:85748 original size:1 final size:1
Alignment explanation
Indices: 85742--85864 Score: 84
Period size: 1 Copynumber: 123.0 Consensus size: 1
85732 CGGCGTCTCC
* * * * * *
85742 AAAAAAAAAAAAAAAAAACAAAAAACAAAAAAAAAAAAACAAAAAAAAACAAAGAAAAAAAACAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * ** * * * * * * *
85807 AAACACAACAAAAACCACAAACAAAACAAAACAAAAAACAAACAAAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
85865 GGGGGTCCGG
Statistics
Matches: 88, Mismatches: 34, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 88 1.00
ACGTcount: A:0.85, C:0.14, G:0.01, T:0.00
Consensus pattern (1 bp):
A
Found at i:85771 original size:21 final size:21
Alignment explanation
Indices: 85742--85864 Score: 128
Period size: 21 Copynumber: 5.7 Consensus size: 21
85732 CGGCGTCTCC
85742 AAAAA-AAAAAAAAAAAAACA
1 AAAAACAAAAAAAAAAAAACA
85762 AAAAACAAAAAAAAAAAAACA
1 AAAAACAAAAAAAAAAAAACA
*
85783 AAAAAAAACAAAGAAAAAAAACA
1 AAAAACAA-AAA-AAAAAAAACA
* *
85806 AAAACACAACAAAAACCACAAAC-
1 AAAA-ACAA-AAAAA-AAAAAACA
85829 -AAAACAAAACAAAAAACAAAC-
1 AAAAACAAAA-AAAAAA-AAACA
85850 AAAAACAAAAAAAAA
1 AAAAACAAAAAAAAA
85865 GGGGGTCCGG
Statistics
Matches: 89, Mismatches: 6, Indels: 15
0.81 0.05 0.14
Matches are distributed among these distances:
20 8 0.09
21 38 0.43
22 15 0.17
23 16 0.18
24 12 0.13
ACGTcount: A:0.85, C:0.14, G:0.01, T:0.00
Consensus pattern (21 bp):
AAAAACAAAAAAAAAAAAACA
Found at i:87440 original size:85 final size:86
Alignment explanation
Indices: 87282--87732 Score: 268
Period size: 85 Copynumber: 5.2 Consensus size: 86
87272 ACATCATCAC
* ** * *
87282 CCTTCAAAAGTCCACAAGTCAGTGGCATTTTTTTCAAAGCCCACAAGTCGGTGGCATTTTTTCCA
1 CCTTCAAAAGCCCACAAGTCAGTGGCACCTTTTCCAAAGCCCACAAGTCGGTGGCATCTTTTCCA
*
87347 AAGCCCACAAGTCAGTGGCAA
66 AAGCCCACAACTCAGTGGCAA
*
87368 CCTTC-AAAGCCCACAA-TCAGTGGCACCCTTTTCCGAAGCCCACAAGTCGGTGGCATCTTTTCC
1 CCTTCAAAAGCCCACAAGTCAGTGGCA-CCTTTTCCAAAGCCCACAAGTCGGTGGCATCTTTTCC
* *
87431 AAAGTCCACAACTCCGTGGC-A
65 AAAGCCCACAACTCAGTGGCAA
** * * * ** *
87452 CTCTTTTTCTTTGTAAGCTCACAACTCTA-TAGCACTCTTTT-C--AGCCCACAAGTTAGTGGCC
1 C-C---TTC---AAAAGCCCACAAGTC-AGTGGCAC-CTTTTCCAAAGCCCACAAGTCGGTGGCA
* *
87513 CCTTTT-CAAGAGCCCACAAGTCAGTGGCATA
57 TCTTTTCCAA-AGCCCACAACTCAGTGGCA-A
** * ** * *
87544 TTTTTCAAAAGCCC-CACAGTCAGTGGCAACC-TTT-AAAAGCCCACAAGTTAGTGGCACCCTGT
1 -CCTTCAAAAGCCCACA-AGTCAGTGGC-ACCTTTTCCAAAGCCCACAAGTCGGTGGCA-TCTTT
* *
87606 TCAAAAGCCCACAAGTCAGTGGCATA
62 TCCAAAGCCCACAACTCAGTGGCA-A
** * * *
87632 TTTTTCAAAAGCCCACAAGTCAGTGGCAACC-TTT--AAAGCCCACAAGTCAGTGGCAAC-CTT-
1 -CCTTCAAAAGCCCACAAGTCAGTGGC-ACCTTTTCCAAAGCCCACAAGTCGGTGGCATCTTTTC
* * *
87692 CAAAGCCCACAAATTAGTGGCAC
64 CAAAGCCCACAACTCAGTGGCAA
*
87715 CCTTTTCCAAAGCCCACA
1 CC--TTCAAAAGCCCACA
87733 CAGTTGGTGG
Statistics
Matches: 299, Mismatches: 40, Indels: 54
0.76 0.10 0.14
Matches are distributed among these distances:
84 43 0.14
85 68 0.23
86 18 0.06
87 40 0.13
88 60 0.20
89 10 0.03
90 36 0.12
92 12 0.04
93 11 0.04
94 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (86 bp):
CCTTCAAAAGCCCACAAGTCAGTGGCACCTTTTCCAAAGCCCACAAGTCGGTGGCATCTTTTCCA
AAGCCCACAACTCAGTGGCAA
Found at i:87551 original size:30 final size:29
Alignment explanation
Indices: 87288--87732 Score: 312
Period size: 29 Copynumber: 15.3 Consensus size: 29
87278 TCACCCTTCA
* **
87288 AAAGTCCACAAGTCAGTGGCATTTTTTTC
1 AAAGCCCACAAGTCAGTGGCATACTTTTC
* *
87317 AAAGCCCACAAGTCGGTGGCAT-TTTTTCC
1 AAAGCCCACAAGTCAGTGGCATACTTTT-C
*
87346 AAAGCCCACAAGTCAGTGGCA-AC-CTTC
1 AAAGCCCACAAGTCAGTGGCATACTTTTC
**
87373 AAAGCCCACAA-TCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATACTTTT-C
* *
87402 GAAGCCCACAAGTCGGTGGCAT-CTTTTCC
1 AAAGCCCACAAGTCAGTGGCATACTTTT-C
* * *
87431 AAAGTCCACAACTCCGTGGCACT-CTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TAC-TTTTC
* * * *
87461 TTTGTAAGCTCACAACTCTA-TAGCACT-CTTTTC
1 ----AAAGCCCACAAGTC-AGTGGCA-TACTTTTC
* **
87494 --AGCCCACAAGTTAGTGGC-CCCTTTTC
1 AAAGCCCACAAGTCAGTGGCATACTTTTC
*
87520 AAGAGCCCACAAGTCAGTGGCATATTTTTC
1 AA-AGCCCACAAGTCAGTGGCATACTTTTC
* *
87550 AAAAGCCC-CACAGTCAGTGGCA-ACCTTTA
1 -AAAGCCCACA-AGTCAGTGGCATACTTTTC
* ** *
87579 AAAGCCCACAAGTTAGTGGCACCCTGTTC
1 AAAGCCCACAAGTCAGTGGCATACTTTTC
*
87608 AAAAGCCCACAAGTCAGTGGCATATTTTTC
1 -AAAGCCCACAAGTCAGTGGCATACTTTTC
*
87638 AAAAGCCCACAAGTCAGTGGCA-ACCTTT-
1 -AAAGCCCACAAGTCAGTGGCATACTTTTC
*
87666 AAAGCCCACAAGTCAGTGGCA-AC-CTTC
1 AAAGCCCACAAGTCAGTGGCATACTTTTC
* * **
87693 AAAGCCCACAAATTAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATACTTTT-C
87723 AAAGCCCACA
1 AAAGCCCACA
87733 CAGTTGGTGG
Statistics
Matches: 340, Mismatches: 48, Indels: 55
0.77 0.11 0.12
Matches are distributed among these distances:
26 18 0.05
27 67 0.20
28 27 0.08
29 110 0.32
30 89 0.26
31 6 0.02
33 5 0.01
34 18 0.05
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCATACTTTTC
Found at i:87623 original size:88 final size:86
Alignment explanation
Indices: 87494--87747 Score: 336
Period size: 88 Copynumber: 2.9 Consensus size: 86
87484 CACTCTTTTC
*
87494 AGCCCACAAGTTAGTGGC-CCCTTTTCAAGAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
1 AGCCCACAAGTTAGTGGCACCC-TTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
87558 CACAGTCAGTGGCAACCTTTAAA
65 CACAGTCAGTGGCAACCTTT-AA
87581 AGCCCACAAGTTAGTGGCACCCTGTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAG-CC
1 AGCCCACAAGTTAGTGGCACCCT-TTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
87645 CACAAGTCAGTGGCAACCTTTAA
65 CAC-AGTCAGTGGCAACCTTTAA
* * * * *** *
87668 AGCCCACAAGTCAGTGGCAACC-TTC-AAAGCCCACAAATTAGTGGCACCCTTTTCCAAAGCCCA
1 AGCCCACAAGTTAGTGGCACCCTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC-
**
87731 CACAGTTGGTGGCAACC
65 CACAGTCAGTGGCAACC
87748 CTTCTAAGCC
Statistics
Matches: 151, Mismatches: 11, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
84 28 0.19
85 17 0.11
86 3 0.02
87 46 0.30
88 57 0.38
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.21
Consensus pattern (86 bp):
AGCCCACAAGTTAGTGGCACCCTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCC
ACAGTCAGTGGCAACCTTTAA
Found at i:87814 original size:49 final size:49
Alignment explanation
Indices: 87752--88134 Score: 386
Period size: 49 Copynumber: 8.0 Consensus size: 49
87742 GCAACCCTTC
* *
87752 TAAGCCCAATATAGCTGGCCTTGAATCACCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * *
87801 TAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
*
87850 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * *
87893 TAAGTCC-ATATAGCTAGCCTTGAATCAGCATATTGGCACCTTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
*
87941 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C-----C-T
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
87983 TAAGTCCAAT-TAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT--ATCTT
* * * *
88034 T-AGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC---TT-T-ATCTT
* * * * *
88088 TAAGCCCAATATCGTTGGCCGTGAATC-GACATATTGGCATCTTTATC
1 TAAGTCCAATATAGCTGGCCTTGAATCAG-CATATTGGCACCTTTATC
88135 ACTTTTCTCA
Statistics
Matches: 286, Mismatches: 24, Indels: 48
0.80 0.07 0.13
Matches are distributed among these distances:
41 27 0.09
42 41 0.14
43 12 0.04
48 12 0.04
49 113 0.40
50 9 0.03
51 30 0.10
52 2 0.01
54 12 0.04
55 28 0.10
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
Found at i:87892 original size:21 final size:21
Alignment explanation
Indices: 87868--87934 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
87858 ATATAGCTGG
*
87868 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCATATTGGCA
* *
87889 CCTTTAAGTC--CATA-TAGCTA
1 CCTTGAA-TCAGCATATTGGC-A
87909 GCCTTGAATCAGCATATTGGCA
1 -CCTTGAATCAGCATATTGGCA
87931 CCTT
1 CCTT
87935 CACCTTTAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 12
0.67 0.10 0.23
Matches are distributed among these distances:
19 3 0.09
20 6 0.17
21 16 0.46
22 7 0.20
23 3 0.09
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (21 bp):
CCTTGAATCAGCATATTGGCA
Found at i:87912 original size:91 final size:91
Alignment explanation
Indices: 87798--88077 Score: 440
Period size: 91 Copynumber: 3.0 Consensus size: 91
87788 GCACCTTTAT
87798 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTCACCTTTAAGTCCAATATA
1 CTTTAAGTCC-ATATAGCTAGCCTTGAATCAGCATATTGGCACCTTCACCTTTAAGTCCAATATA
87863 GCTGGCCTTGAATCAGCACATTGGCAC
65 GCTGGCCTTGAATCAGCACATTGGCAC
87890 CTTTAAGTCCATATAGCTAGCCTTGAATCAGCATATTGGCACCTTCACCTTTAAGTCCAATATAG
1 CTTTAAGTCCATATAGCTAGCCTTGAATCAGCATATTGGCACCTTCACCTTTAAGTCCAATATAG
87955 CTGGCCTTGAATCAGCACATTGGCAC
66 CTGGCCTTGAATCAGCACATTGGCAC
* * *
87981 C-TTAAGTCCA-ATTAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTT-AGTTCAAT
1 CTTTAAGTCCATA-TAGCTAGCCTTGAATCAGCATATTGGCACC--TT-CACCTTTAAGTCCAAT
* *
88043 GTAGCTGGCCTTGAATCAGCACATTGACATC
62 ATAGCTGGCCTTGAATCAGCACATTGGCA-C
88074 CTTT
1 CTTT
88078 TTCTCATCTT
Statistics
Matches: 177, Mismatches: 5, Indels: 10
0.92 0.03 0.05
Matches are distributed among these distances:
89 1 0.01
90 38 0.21
91 82 0.46
92 46 0.26
93 8 0.05
94 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.31
Consensus pattern (91 bp):
CTTTAAGTCCATATAGCTAGCCTTGAATCAGCATATTGGCACCTTCACCTTTAAGTCCAATATAG
CTGGCCTTGAATCAGCACATTGGCAC
Found at i:87914 original size:42 final size:43
Alignment explanation
Indices: 87844--88025 Score: 262
Period size: 42 Copynumber: 4.2 Consensus size: 43
87834 TTGGCACCTT
87844 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
* *
87887 CACCTTTAAGTCC-ATATAGCTAGCCTTGAATCAGCATATTGG
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
87929 CACCTTCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
1 ------CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
*
87978 CACC-TTAAGTCCAAT-TAGCTGGCCTTGAATCAGCATATTGG
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
88019 CACCTTT
1 CACCTTT
88026 TCCATCTTTA
Statistics
Matches: 126, Mismatches: 5, Indels: 17
0.85 0.03 0.11
Matches are distributed among these distances:
41 29 0.23
42 40 0.32
43 17 0.13
48 13 0.10
49 27 0.21
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (43 bp):
CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
Found at i:87924 original size:22 final size:22
Alignment explanation
Indices: 87858--87925 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 22
87848 TTTAAGTCCA
*
87858 ATATAGCTGGCCTTGAATCAGC
1 ATATAGCTAGCCTTGAATCAGC
* * *
87880 ACATTGGC-A-CCTTTAAGTC--C
1 ATA-TAGCTAGCCTTGAA-TCAGC
87900 ATATAGCTAGCCTTGAATCAGC
1 ATATAGCTAGCCTTGAATCAGC
87922 ATAT
1 ATAT
87926 TGGCACCTTC
Statistics
Matches: 33, Mismatches: 7, Indels: 12
0.63 0.13 0.23
Matches are distributed among these distances:
19 3 0.09
20 6 0.18
21 12 0.36
22 9 0.27
23 3 0.09
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (22 bp):
ATATAGCTAGCCTTGAATCAGC
Found at i:88114 original size:55 final size:51
Alignment explanation
Indices: 87988--88114 Score: 139
Period size: 51 Copynumber: 2.4 Consensus size: 51
87978 CACCTTAAGT
* * *
87988 CCAAT-TAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAGT
1 CCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTCCATCTTTAGC
* *
88038 TCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGC
1 CCAATATAGCTGGCCTTGAATCAGCACATTGACA-CC-TTTTC-CATCTTT-AGC
* * *
88093 CCAATATCGTTGGCCGTGAATC
1 CCAATATAGCTGGCCTTGAATC
88115 GACATATTGG
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
50 4 0.06
51 26 0.41
52 2 0.03
53 5 0.08
54 7 0.11
55 19 0.30
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.35
Consensus pattern (51 bp):
CCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTCCATCTTTAGC
Done.