Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 6 of 91
Found at i:801526 original size:1 final size:1
Alignment explanation
Indices: 801520--801544 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
801510 GTTGTTGTTG
801520 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
801545 AGAGATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:806470 original size:27 final size:27
Alignment explanation
Indices: 806423--806479 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
806413 GTAATATAAA
**
806423 AGCCAGCTCTAAACCACTGATGGCATG
1 AGCCAGCTCTAAACCACTGATCACATG
**
806450 AGCCAGCTCTAAACCGTTGATCACATG
1 AGCCAGCTCTAAACCACTGATCACATG
806477 AGC
1 AGC
806480 TTGGCACGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (27 bp):
AGCCAGCTCTAAACCACTGATCACATG
Found at i:806631 original size:32 final size:32
Alignment explanation
Indices: 806573--806636 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
806563 TTTCGGCACA
* **
806573 CCAAGCACCTCGAGTGGATGTTAGGGTCCTAG
1 CCAAGCACCTCAAGTGGATGCCAGGGTCCTAG
*
806605 CCAAGCACCTCAAGTGGATGCCAGGGTTCTAG
1 CCAAGCACCTCAAGTGGATGCCAGGGTCCTAG
806637 AGCCGCACGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.23, C:0.27, G:0.30, T:0.20
Consensus pattern (32 bp):
CCAAGCACCTCAAGTGGATGCCAGGGTCCTAG
Found at i:807836 original size:80 final size:80
Alignment explanation
Indices: 807699--807855 Score: 224
Period size: 80 Copynumber: 2.0 Consensus size: 80
807689 TCAGAGTCAG
* * * *
807699 CTCTAAACCGTTGATTTGAAATATCAGATGAGTGGATGCCAGGGTCTTAAAGCCGTACGAGCCTG
1 CTCTAAACCGTTGATCTAAAATATCAGATGAGTGGATGCCAGGATCCTAAAGCCGTACGAGCCTG
807764 AAACTTAAGTTTTGA
66 AAACTTAAGTTTTGA
* * * * *
807779 CTCTAAATCGTTGATCTAAAATATCATATGAGTGGATGTCAGGATCCTAGAGTCGTACGAGCCTG
1 CTCTAAACCGTTGATCTAAAATATCAGATGAGTGGATGCCAGGATCCTAAAGCCGTACGAGCCTG
*
807844 GAACTTAAGTTT
66 AAACTTAAGTTT
807856 CAGCTTTAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
80 67 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (80 bp):
CTCTAAACCGTTGATCTAAAATATCAGATGAGTGGATGCCAGGATCCTAAAGCCGTACGAGCCTG
AAACTTAAGTTTTGA
Found at i:808627 original size:14 final size:14
Alignment explanation
Indices: 808608--808645 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
808598 TCGGGAGATT
*
808608 ATTATAAATATATA
1 ATTATAAATATAAA
808622 ATTATAAATATAAA
1 ATTATAAATATAAA
808636 ATATATAAAT
1 AT-TATAAAT
808646 TCAATAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 15 0.68
15 7 0.32
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
ATTATAAATATAAA
Found at i:808639 original size:7 final size:8
Alignment explanation
Indices: 808610--808645 Score: 51
Period size: 7 Copynumber: 4.9 Consensus size: 8
808600 GGGAGATTAT
808610 TATAAATA
1 TATAAATA
808618 TAT-AAT-
1 TATAAATA
808624 TATAAATA
1 TATAAATA
808632 TA-AAATA
1 TATAAATA
808639 TATAAAT
1 TATAAAT
808646 TCAATAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
6 3 0.12
7 13 0.52
8 9 0.36
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
TATAAATA
Found at i:808655 original size:21 final size:21
Alignment explanation
Indices: 808613--808725 Score: 72
Period size: 21 Copynumber: 5.1 Consensus size: 21
808603 AGATTATTAT
* *
808613 AAATATATAATTATAAAT-ATA
1 AAATATATAAAT-TCAATAATA
808634 AAATATATAAATTCAATAATA
1 AAATATATAAATTCAATAATA
*
808655 AGTCAATAGTCAATAATAATCAATAATA
1 A---AATA-T--ATAA-ATTCAATAATA
* *
808683 AGATA-ATAAAAT-AATAA-A
1 AAATATATAAATTCAATAATA
808701 AAATAATATAAATTCAATAATA
1 AAAT-ATATAAATTCAATAATA
808723 AAA
1 AAA
808726 AATAAGAAAG
Statistics
Matches: 74, Mismatches: 6, Indels: 23
0.72 0.06 0.22
Matches are distributed among these distances:
18 4 0.05
19 6 0.08
20 13 0.18
21 24 0.32
22 4 0.05
24 4 0.05
25 4 0.05
27 4 0.05
28 11 0.15
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.30
Consensus pattern (21 bp):
AAATATATAAATTCAATAATA
Found at i:808688 original size:18 final size:17
Alignment explanation
Indices: 808648--808707 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
808638 ATATAAATTC
* *
808648 AATAATAAGTCAATAGTC
1 AATAATAA-TCAATAATA
808666 AATAATAATCAATAATA
1 AATAATAATCAATAATA
808683 AGATAATAA--AATAATA
1 A-ATAATAATCAATAATA
*
808699 AAAAATAAT
1 AATAATAAT
808708 ATAAATTCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
15 6 0.16
16 8 0.22
17 8 0.22
18 15 0.41
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (17 bp):
AATAATAATCAATAATA
Found at i:808690 original size:8 final size:8
Alignment explanation
Indices: 808666--808749 Score: 57
Period size: 8 Copynumber: 10.2 Consensus size: 8
808656 GTCAATAGTC
808666 AATAATAA
1 AATAATAA
808674 TCAATAATAA
1 --AATAATAA
*
808684 GATAATAA
1 AATAATAA
808692 AATAATAA
1 AATAATAA
808700 AA-AATAA
1 AATAATAA
* **
808707 TATAAATTC
1 AAT-AATAA
808716 AATAATAA
1 AATAATAA
808724 AA-AATAAGA
1 AATAAT-A-A
*
808733 AAGAATAA
1 AATAATAA
808741 AA-AATAA
1 AATAATAA
808748 AA
1 AA
808750 AATTTACTCT
Statistics
Matches: 61, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
7 16 0.26
8 25 0.41
9 9 0.15
10 11 0.18
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (8 bp):
AATAATAA
Found at i:808705 original size:10 final size:10
Alignment explanation
Indices: 808685--808751 Score: 57
Period size: 10 Copynumber: 6.6 Consensus size: 10
808675 CAATAATAAG
808685 ATAATAAAATA
1 ATAA-AAAATA
808696 ATAAAAAATA
1 ATAAAAAATA
* *
808706 ATATAAATTCA
1 ATAAAAAAT-A
808717 ATAATAAAA-A
1 ATAA-AAAATA
* *
808727 ATAAGAAAGA
1 ATAAAAAATA
808737 ATAAAAAATA
1 ATAAAAAATA
808747 A-AAAA
1 ATAAAA
808752 TTTACTCTTG
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
9 7 0.15
10 28 0.61
11 8 0.17
12 3 0.07
ACGTcount: A:0.75, C:0.01, G:0.03, T:0.21
Consensus pattern (10 bp):
ATAAAAAATA
Found at i:808746 original size:7 final size:7
Alignment explanation
Indices: 808687--808752 Score: 51
Period size: 7 Copynumber: 8.4 Consensus size: 7
808677 ATAATAAGAT
808687 AATAAAA
1 AATAAAA
808694 TAATAAAA
1 -AATAAAA
808702 AATAATATA
1 AATAA-A-A
* *
808711 AATTCAAT
1 AA-TAAAA
808719 AATAAAA
1 AATAAAA
808726 AATAAGAAA
1 AAT-A-AAA
808735 GAATAAAA
1 -AATAAAA
808743 AATAAAA
1 AATAAAA
808750 AAT
1 AAT
808753 TTACTCTTGA
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
7 21 0.44
8 14 0.29
9 8 0.17
10 5 0.10
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.21
Consensus pattern (7 bp):
AATAAAA
Found at i:808746 original size:24 final size:24
Alignment explanation
Indices: 808679--808752 Score: 73
Period size: 24 Copynumber: 3.1 Consensus size: 24
808669 AATAATCAAT
808679 AATAAGAT--AATAAAATAATAAAA
1 AATAAGATAAAATAAAA-AATAAAA
* * * *
808702 AATAATATAAATTCAATAATAAAA
1 AATAAGATAAAATAAAAAATAAAA
808726 AATAAGA-AAGAATAAAAAATAAAA
1 AATAAGATAA-AATAAAAAATAAAA
808750 AAT
1 AAT
808753 TTACTCTTGA
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
23 9 0.22
24 27 0.68
25 4 0.10
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.22
Consensus pattern (24 bp):
AATAAGATAAAATAAAAAATAAAA
Found at i:809564 original size:40 final size:40
Alignment explanation
Indices: 809501--809588 Score: 151
Period size: 40 Copynumber: 2.2 Consensus size: 40
809491 TGCCAAGGTT
*
809501 TGGA-GCTCTCTAAACCGCTGATCTGAAATGTGAGATGAG
1 TGGATGCTATCTAAACCGCTGATCTGAAATGTGAGATGAG
*
809540 TGGATGCTATCTAAACCGTTGATCTGAAATGTGAGATGAG
1 TGGATGCTATCTAAACCGCTGATCTGAAATGTGAGATGAG
809580 TGGATGCTA
1 TGGATGCTA
809589 AGGTCCTGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
39 4 0.09
40 42 0.91
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (40 bp):
TGGATGCTATCTAAACCGCTGATCTGAAATGTGAGATGAG
Found at i:809682 original size:80 final size:80
Alignment explanation
Indices: 809549--809705 Score: 226
Period size: 80 Copynumber: 2.0 Consensus size: 80
809539 GTGGATGCTA
* * * **
809549 TCTAAACCGTTGATCTGAAATGTGAGATGAGTGGATGCTAAGGTCCTGGAGCTGCACGAGCCTAG
1 TCTAAACCATTGATATGAAATGTCAGATGAGTACATGCTAAGGTCCTGGAGCTGCACGAGCCTAG
809614 AACTTAAGTTTCAGC
66 AACTTAAGTTTCAGC
*
809629 TCTAAACCATTGATATGAAATGTCAGATGAGTACATG-TCAGGGTCCTGGAGCTGCACGAGCCTA
1 TCTAAACCATTGATATGAAATGTCAGATGAGTACATGCT-AAGGTCCTGGAGCTGCACGAGCCTA
* *
809693 TAGCTTAAGTTTC
65 GAACTTAAGTTTC
809706 GACACGTGAC
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
79 1 0.01
80 67 0.99
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (80 bp):
TCTAAACCATTGATATGAAATGTCAGATGAGTACATGCTAAGGTCCTGGAGCTGCACGAGCCTAG
AACTTAAGTTTCAGC
Found at i:818863 original size:21 final size:20
Alignment explanation
Indices: 818817--818870 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
818807 ATGTTTAAAA
*
818817 ATAAATATTTTTAACATATT
1 ATAAATATTTTTAACAAATT
818837 ATAAATATTTTTAACTAAATT
1 ATAAATATTTTTAAC-AAATT
818858 -TGAAAT-TTTTTAA
1 AT-AAATATTTTTAA
818871 TTTTATTTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 23 0.74
21 8 0.26
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (20 bp):
ATAAATATTTTTAACAAATT
Found at i:819493 original size:19 final size:18
Alignment explanation
Indices: 819460--819498 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
819450 GCTTAAAATT
819460 TTTAAAAAATATAAATAAA
1 TTTAAAAAATATAAA-AAA
819479 TTTAATAAAAT-TAAAAAA
1 TTTAA-AAAATATAAAAAA
819497 TT
1 TT
819499 ATATTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 9 0.47
20 5 0.26
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TTTAAAAAATATAAAAAA
Found at i:824637 original size:21 final size:21
Alignment explanation
Indices: 824568--824638 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
824558 GTCGTCGTCG
* * *
824568 TCGTCGTCATCGTCACCATCT
1 TCGTCGTCGTCTTCACCATCC
* * * *
824589 TCGCCGTCGCCTTCACCGTCG
1 TCGTCGTCGTCTTCACCATCC
* *
824610 TCCTCGTCGTCTTCATCATCC
1 TCGTCGTCGTCTTCACCATCC
824631 TCGTCGTC
1 TCGTCGTC
824639 ATCGACTGAC
Statistics
Matches: 37, Mismatches: 13, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.08, C:0.42, G:0.17, T:0.32
Consensus pattern (21 bp):
TCGTCGTCGTCTTCACCATCC
Found at i:824756 original size:15 final size:15
Alignment explanation
Indices: 824734--824776 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
824724 TCTTCATCGT
824734 CGTCGTCATCTTCAC
1 CGTCGTCATCTTCAC
* *
824749 CGTTGTCATCTTCAT
1 CGTCGTCATCTTCAC
*
824764 CGTCGTCCTCTTC
1 CGTCGTCATCTTC
824777 GCCGCCTTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.09, C:0.37, G:0.14, T:0.40
Consensus pattern (15 bp):
CGTCGTCATCTTCAC
Found at i:836975 original size:47 final size:47
Alignment explanation
Indices: 836882--836976 Score: 147
Period size: 47 Copynumber: 2.0 Consensus size: 47
836872 ATCCCTCTAC
* **
836882 GCTCTTCCACTCCAAATCAATCAAACCGAAACAGAACAAATTGTGAA
1 GCTCCTCCACTCCAAATCAATCAAACCGAAACAGAACAAACCGTGAA
836929 GCTCCTCCACTCCAAA-CAAATCAAACCGAAACAGAACAAACCGTGAA
1 GCTCCTCCACTCCAAATC-AATCAAACCGAAACAGAACAAACCGTGAA
836976 G
1 G
836977 GACTGTGCCT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
46 1 0.02
47 43 0.98
ACGTcount: A:0.43, C:0.31, G:0.12, T:0.15
Consensus pattern (47 bp):
GCTCCTCCACTCCAAATCAATCAAACCGAAACAGAACAAACCGTGAA
Found at i:837650 original size:23 final size:23
Alignment explanation
Indices: 837602--837660 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 23
837592 GCTTATTAAT
*
837602 TTATCTTATAATAATTAAAATTAA
1 TTATATTATAATAATTAAAA-TAA
837626 TT-TATTATAATAAATTAATAA-AA
1 TTATATTATAAT-AATTAA-AATAA
*
837649 TTATTTTATAAT
1 TTATATTATAAT
837661 GTTTAAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
23 12 0.40
24 16 0.53
25 2 0.07
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
TTATATTATAATAATTAAAATAA
Found at i:838071 original size:21 final size:21
Alignment explanation
Indices: 838019--838080 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
838009 AGGAAAATTA
*
838019 ACAAATAAAATTTTATATATATT
1 ACAAATAAAATTTT-TA-ATTTT
**
838042 A-TGATAAAATTTTTAATTTT
1 ACAAATAAAATTTTTAATTTT
838062 ACAAATAAAATTTTTAATT
1 ACAAATAAAATTTTTAATT
838081 GATATTTGGA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
20 5 0.15
21 17 0.52
22 10 0.30
23 1 0.03
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (21 bp):
ACAAATAAAATTTTTAATTTT
Found at i:839774 original size:15 final size:16
Alignment explanation
Indices: 839747--839776 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
839737 TTAAATGATC
839747 ATTGAGTTTAAATTTT
1 ATTGAGTTTAAATTTT
839763 ATTGAG-TTAAATTT
1 ATTGAGTTTAAATTT
839777 GTAATTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (16 bp):
ATTGAGTTTAAATTTT
Found at i:839916 original size:31 final size:32
Alignment explanation
Indices: 839862--839921 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
839852 ATGATTTTGA
839862 TTGATTCGATTATAATTAATTATTTAAATATTT
1 TTGATTCGATTATAATTAATTA-TTAAATATTT
*
839895 TTGA-TCGATT-TAATTATTTATTAAATA
1 TTGATTCGATTATAATTAATTATTAAATA
839922 AAAATTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 7 0.27
31 9 0.35
32 6 0.23
33 4 0.15
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.53
Consensus pattern (32 bp):
TTGATTCGATTATAATTAATTATTAAATATTT
Found at i:840540 original size:35 final size:37
Alignment explanation
Indices: 840469--840542 Score: 100
Period size: 37 Copynumber: 2.1 Consensus size: 37
840459 TCCCAAAATA
*
840469 TTTCTCACTTTTCGTTATAAGAAAAAGATTCCTAGTC
1 TTTCTCACTTTTCGTTATAAGAAAAAGATTCATAGTC
*
840506 TTTCTCACTTTT-GTTAATAA-AAAAA-TTTCATAGTC
1 TTTCTCACTTTTCGTT-ATAAGAAAAAGATTCATAGTC
840541 TT
1 TT
840543 ATCAAATTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
35 10 0.29
36 8 0.24
37 16 0.47
ACGTcount: A:0.31, C:0.16, G:0.08, T:0.45
Consensus pattern (37 bp):
TTTCTCACTTTTCGTTATAAGAAAAAGATTCATAGTC
Found at i:841229 original size:77 final size:77
Alignment explanation
Indices: 841148--841380 Score: 376
Period size: 77 Copynumber: 3.0 Consensus size: 77
841138 ATGTTATGTT
*
841148 ATTTATCATGTTTTTTAAATTATTAGGTTTATAAATTTGATAATTTAAATAATGATATGATTACA
1 ATTTATCATGTTTTTTAAATTATTAGGTTTATAAAATTGATAATTTAAATAATGATATGATTACA
841213 CCATACAAAAAA
66 CCATACAAAAAA
* * *
841225 ATTTATCTTGTTTTTTAAATTGTTAGGTTTATAAAATTGATTATTTAAATAATGATATGATTACA
1 ATTTATCATGTTTTTTAAATTATTAGGTTTATAAAATTGATAATTTAAATAATGATATGATTACA
*
841290 CCGTACAAAAAAA
66 CCATAC-AAAAAA
* * * *
841303 AATTATCGTGTTTTTTAAATTATTAGGTTTATAAAATTAATAATTTAAATCATGATATGATTACA
1 ATTTATCATGTTTTTTAAATTATTAGGTTTATAAAATTGATAATTTAAATAATGATATGATTACA
841368 CCATACAAAAAA
66 CCATACAAAAAA
841380 A
1 A
841381 AAAGTGGTAT
Statistics
Matches: 143, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
77 73 0.51
78 70 0.49
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (77 bp):
ATTTATCATGTTTTTTAAATTATTAGGTTTATAAAATTGATAATTTAAATAATGATATGATTACA
CCATACAAAAAA
Found at i:841316 original size:78 final size:78
Alignment explanation
Indices: 841150--841382 Score: 378
Period size: 78 Copynumber: 3.0 Consensus size: 78
841140 GTTATGTTAT
*
841150 TTATCATGTTTTTTAAATTATTAGGTTTATAAATTTGATAATTTAAATAATGATATGATTACACC
1 TTATCATGTTTTTTAAATTATTAGGTTTATAAAATTGATAATTTAAATAATGATATGATTACACC
*
841215 ATAC-AAAAAAAT
66 ATACAAAAAAAAA
* * *
841227 TTATCTTGTTTTTTAAATTGTTAGGTTTATAAAATTGATTATTTAAATAATGATATGATTACACC
1 TTATCATGTTTTTTAAATTATTAGGTTTATAAAATTGATAATTTAAATAATGATATGATTACACC
*
841292 GTACAAAAAAAAA
66 ATACAAAAAAAAA
* * *
841305 TTATCGTGTTTTTTAAATTATTAGGTTTATAAAATTAATAATTTAAATCATGATATGATTACACC
1 TTATCATGTTTTTTAAATTATTAGGTTTATAAAATTGATAATTTAAATAATGATATGATTACACC
841370 ATACAAAAAAAAA
66 ATACAAAAAAAAA
841383 AGTGGTATAG
Statistics
Matches: 143, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
77 64 0.45
78 79 0.55
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.42
Consensus pattern (78 bp):
TTATCATGTTTTTTAAATTATTAGGTTTATAAAATTGATAATTTAAATAATGATATGATTACACC
ATACAAAAAAAAA
Found at i:844248 original size:2 final size:2
Alignment explanation
Indices: 844241--844267 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
844231 TATTGTATCT
844241 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
844268 CAGGATGTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:845704 original size:5 final size:5
Alignment explanation
Indices: 845694--845722 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
845684 GATTCTCCAC
845694 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
845723 CAGCTATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:848047 original size:27 final size:27
Alignment explanation
Indices: 848009--848061 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
847999 TGTTTATGTA
848009 TATAAATGAAATGGTTTTACATTCTCT
1 TATAAATGAAATGGTTTTACATTCTCT
* * *
848036 TATAACTGAAATTGTTTTACTTTCTC
1 TATAAATGAAATGGTTTTACATTCTC
848062 ATTCACATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.47
Consensus pattern (27 bp):
TATAAATGAAATGGTTTTACATTCTCT
Found at i:861383 original size:18 final size:19
Alignment explanation
Indices: 861357--861392 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
861347 AATATTTAAA
861357 TTAAATTAAT-TAAAATAC
1 TTAAATTAATATAAAATAC
*
861375 TTAATTTAATATAAAATA
1 TTAAATTAATATAAAATA
861393 AATAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
TTAAATTAATATAAAATAC
Found at i:866113 original size:13 final size:13
Alignment explanation
Indices: 866070--866102 Score: 52
Period size: 11 Copynumber: 2.7 Consensus size: 13
866060 TCAATTTAAA
866070 ATTTAATATA-A-
1 ATTTAATATATAC
866081 ATTTAATATATAC
1 ATTTAATATATAC
866094 ATTTAATAT
1 ATTTAATAT
866103 TTAATCTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.50
12 1 0.05
13 9 0.45
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTAATATATAC
Found at i:872461 original size:18 final size:18
Alignment explanation
Indices: 872422--872466 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
872412 TTTATATGAA
872422 TATAATATTTGATTATAAT
1 TATAAT-TTTGATTATAAT
*
872441 TATAATTTTTATTA-AACT
1 TATAATTTTGATTATAA-T
872459 TATAATTT
1 TATAATTT
872467 CATTAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 2 0.08
18 16 0.67
19 6 0.25
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (18 bp):
TATAATTTTGATTATAAT
Found at i:872473 original size:17 final size:18
Alignment explanation
Indices: 872422--872473 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
872412 TTTATATGAA
*
872422 TATAATATTTGATTATAA-T
1 TATAAT-TTTCATTA-AACT
*
872441 TATAATTTTTATTAAACT
1 TATAATTTTCATTAAACT
872459 TATAA-TTTCATTAAA
1 TATAATTTTCATTAAA
872474 AAAAGTTTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 11 0.37
18 13 0.43
19 6 0.20
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (18 bp):
TATAATTTTCATTAAACT
Found at i:874681 original size:138 final size:138
Alignment explanation
Indices: 874477--874897 Score: 619
Period size: 138 Copynumber: 3.0 Consensus size: 138
874467 GCCCGGACCC
* * * *
874477 TAAGCCCTTAAGTAATCAGCAGGCAACTACCAGCAGTCTGGATCGAAAAGCTGACGTTGAAGCTA
1 TAAGCTCTTAAGTGATCAGCAGGCAACTACCAGCGGTCTGGGTCGAAAAGCTGACGTTGAAGCTA
* * *
874542 GAGAAGCAAAAGATTCAACTGCAAACGCTGCAACTGATGCAAGCCTTGCTGTTGCTGCTTACCAG
66 GAGAAGCTAAAGATTCAACTGCAAACGCTGCAACTGCTGCAAGCCTTGCTGTTGCTGCTTCCCAG
874607 GAAGATGG
131 GAAGATGG
874615 TAAGCTCTTAAGTGATCAGCAGGCAACTACCAGCGGTCTGGGTCGAAAAGCTGACGTTGAAGCTA
1 TAAGCTCTTAAGTGATCAGCAGGCAACTACCAGCGGTCTGGGTCGAAAAGCTGACGTTGAAGCTA
* ** *
874680 GAGAAGCTAAAGATTCAACTGCGAACGCTGCAACTGCTGCAAGCCTCACTGTTGCCGCTTCCCAG
66 GAGAAGCTAAAGATTCAACTGCAAACGCTGCAACTGCTGCAAGCCTTGCTGTTGCTGCTTCCCAG
*
874745 GAAGATCG
131 GAAGATGG
* *
874753 TAAGCTCTTAAGTGATCAGCTGGCAACTACCAG-GAATCTGGGTCGAAAAGCTGACGTTGGAGCT
1 TAAGCTCTTAAGTGATCAGCAGGCAACTACCAGCG-GTCTGGGTCGAAAAGCTGACGTT-GA---
* * *
874817 AGAGTCAGAGAAGCTAAAGATTCAACTGAAAACGCTGCAACTGCTGAAAGCCTTGCTGTTGCTGC
61 AG-CT-AGAGAAGCTAAAGATTCAACTGCAAACGCTGCAACTGCTGCAAGCCTTGCTGTTGCTGC
874882 TTCCCAGGAAGATGG
124 TTCCCAGGAAGATGG
874897 T
1 T
874898 GATACTAACC
Statistics
Matches: 254, Mismatches: 22, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
137 1 0.00
138 180 0.71
139 2 0.01
142 2 0.01
143 1 0.00
144 68 0.27
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (138 bp):
TAAGCTCTTAAGTGATCAGCAGGCAACTACCAGCGGTCTGGGTCGAAAAGCTGACGTTGAAGCTA
GAGAAGCTAAAGATTCAACTGCAAACGCTGCAACTGCTGCAAGCCTTGCTGTTGCTGCTTCCCAG
GAAGATGG
Found at i:878479 original size:59 final size:58
Alignment explanation
Indices: 878350--878739 Score: 419
Period size: 58 Copynumber: 6.7 Consensus size: 58
878340 TTGTACAAGA
* * ** ** * *
878350 AAAATTGATACTTTTAATTTTTTTTCAAAAATA-TTTTTATGAAATTTTAATTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTA-GAAAAATTATTTTCAAAG
* * *
878408 AAAATTGATACTTTCAACTTCTCCTCAAAAACTCATTTTTTA-AAAAATTATTTTTAAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-T-ATTTTTTAGAAAAATTATTTTCAAAG
* *
878467 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTA-AAAAACTTA-TTTAAGAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAAA-TTATTTTCA-AAG
* * * *
878525 AAAAATGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAAATTATTTTCAAAG
* * * * * *
878583 AAAATTGATATTTTTAACTTTTTCACAAAAATATTTTTTATAAAAACTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAAA-TTATTTTCAAAG
* * * * *
878642 AAATTTGATACTTTTAATTTTTCTTCAAAAATATTTTTTAGAAAACTTATTTTCAAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAAATTATTTTCAAAG
* *
878700 AAAATTGATATTTTCAACTTATCCTCAAAAATATATTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTT
878740 TAAAATTTTT
Statistics
Matches: 282, Mismatches: 41, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
57 17 0.06
58 154 0.55
59 104 0.37
60 1 0.00
61 6 0.02
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.44
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAAATTATTTTCAAAG
Found at i:878497 original size:117 final size:115
Alignment explanation
Indices: 878349--878762 Score: 447
Period size: 117 Copynumber: 3.5 Consensus size: 115
878339 TTTGTACAAG
* * ** * **
878349 AAAAATTGATACTTTTAATTTTTTTTCAAAAATATTTTTATGAAATTTTAATTTCAAGGAAAATT
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTATAAAAACTTAATTT-AAGGAAAATT
* *
878414 GATACTTTCAACTTCTCCTCAAAAACTCATTTTTTA-AAAAATTATTTTTAAA
65 GATACTTTCAACTTTTCCTCAAAAA-T-ATTTTTTAGAAAACTTATTTTTAAA
*
878466 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTT-TAAAAAACTT-ATTTAAGAAAAAAA
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTAT-AAAAACTTAATTTAAG--GAAAA
* *
878529 ATGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTTAAG
63 TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTTAAA
* * * * * * *
878582 GAAAATTGATATTTTTAACTTTTTCACAAAAATATTTTTTATAAAAACTTATTTTCAAGGAAATT
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTATAAAAACTTAATTT-AAGGAAAAT
* * * *
878647 TGATACTTTTAATTTTTCTTCAAAAATATTTTTTAGAAAACTTATTTTCAAA
64 TGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTTAAA
* * * * ** * *
878699 GAAAATTGATATTTTCAACTTATCCTCAAAAATATATTTTTTAAAATTTTTATTTAAAGAAAAT
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTATAAAAACTTAATTTAAGGAAAAT
878763 CAAAAACTAA
Statistics
Matches: 251, Mismatches: 37, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
115 11 0.04
116 57 0.23
117 176 0.70
118 4 0.02
119 3 0.01
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (115 bp):
AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTATAAAAACTTAATTTAAGGAAAATTG
ATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTTAAA
Found at i:878636 original size:175 final size:176
Alignment explanation
Indices: 878349--878739 Score: 477
Period size: 175 Copynumber: 2.2 Consensus size: 176
878339 TTTGTACAAG
* * ** **
878349 AAAAATTGATACTTTTAATTTTTTTTCAAAAATA-TTTTTATGAAATTTTAATTTCAAGGAAAAT
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTATGAAAACTTAATTTCAAGGAAAAT
* *
878413 TGATACTTTCAACTTCTCCTCAAAAACTCATTTTTTAAAAAATTATTTTTAAAAAAAATTGATAC
66 TGATACTTTCAACTTCTCCACAAAAACTCATTTTTTAAAAAATTATTTTCAAAAAAAATTGATAC
878478 TTTCAACTTTTCCTCAAAAATATTTTTTAAAAAACTTA-TTTAAGAA
131 TTTCAACTTTTCCTCAAAAATATTTTTTAAAAAACTTATTTTAA-AA
* * *
878524 AAAAAATGATACTTTCAACTTTTCCTCAAAAATATTTTTTA-GAAAACTTATTTTTAAGGAAAAT
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTATGAAAACTTAATTTCAAGGAAAAT
* * * * ** *
878588 TGATATTTTTAACTTTTTCACAAAAA-T-ATTTTTTATAAAAACTTATTTTCAAGGAAATTTGAT
66 TGATACTTTCAACTTCTCCACAAAAACTCATTTTTTA-AAAAA-TTATTTTCAAAAAAAATTGAT
* * * * *
878651 ACTTTTAATTTTTCTTCAAAAATATTTTTTAGAAAACTTATTTTCAAA
129 ACTTTCAACTTTTCCTCAAAAATATTTTTTAAAAAACTTATTTTAAAA
* * *
878699 GAAAATTGATATTTTCAACTTATCCTCAAAAATATATTTTT
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTT
878740 TAAAATTTTT
Statistics
Matches: 184, Mismatches: 27, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
173 8 0.04
174 6 0.03
175 155 0.84
176 15 0.08
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (176 bp):
AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTATGAAAACTTAATTTCAAGGAAAAT
TGATACTTTCAACTTCTCCACAAAAACTCATTTTTTAAAAAATTATTTTCAAAAAAAATTGATAC
TTTCAACTTTTCCTCAAAAATATTTTTTAAAAAACTTATTTTAAAA
Found at i:878796 original size:11 final size:11
Alignment explanation
Indices: 878758--878795 Score: 51
Period size: 10 Copynumber: 3.4 Consensus size: 11
878748 TTATTTAAAG
878758 AAAATCAAAAACT
1 AAAAT-AAAAA-T
878771 AAAATAAAAAT
1 AAAATAAAAAT
878782 AAAAT-AAAAT
1 AAAATAAAAAT
878792 AAAA
1 AAAA
878796 AATACTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 9 0.36
11 6 0.24
12 5 0.20
13 5 0.20
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:878833 original size:3 final size:3
Alignment explanation
Indices: 878825--878850 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
878815 TTAATCAATA
878825 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
878851 ATAAATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:878871 original size:15 final size:16
Alignment explanation
Indices: 878843--878884 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
878833 TAATAATAAT
* *
878843 AATAATAAATAAAT-A
1 AATAAAAAACAAATGA
878858 AATAAAAAACAAATGA
1 AATAAAAAACAAATGA
*
878874 AAAAAAAAACA
1 AATAAAAAACA
878885 TTGGAACGGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.79, C:0.05, G:0.02, T:0.14
Consensus pattern (16 bp):
AATAAAAAACAAATGA
Found at i:879729 original size:22 final size:22
Alignment explanation
Indices: 879704--879745 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
879694 AATAAAATAA
*
879704 AATATATTAATAGATAAATAGT
1 AATATATGAATAGATAAATAGT
879726 AATATATGAATAGATAAATA
1 AATATATGAATAGATAAATA
879746 ATATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (22 bp):
AATATATGAATAGATAAATAGT
Found at i:879752 original size:31 final size:32
Alignment explanation
Indices: 879717--879785 Score: 90
Period size: 31 Copynumber: 2.2 Consensus size: 32
879707 ATATTAATAG
* *
879717 ATAAATAGTA-ATATATGAATAGATAAATAAT
1 ATAAATAATATATATATGAACAGATAAATAAT
*
879748 ATAAA-AATATATATATTAACAGATAAATAAT
1 ATAAATAATATATATATGAACAGATAAATAAT
879779 A-AAATAA
1 ATAAATAA
879786 GTTGATAGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 6 0.18
31 27 0.82
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.30
Consensus pattern (32 bp):
ATAAATAATATATATATGAACAGATAAATAAT
Found at i:879766 original size:53 final size:54
Alignment explanation
Indices: 879688--879802 Score: 137
Period size: 53 Copynumber: 2.1 Consensus size: 54
879678 TCAATAAAAA
* * * *
879688 AAATAAAATAAAATAAAATATATTAATAGATAAATAGTAATAT-A-TGAATAGAT
1 AAATAATATAAAATAAAATATATTAACAGATAAATAATAAAATAAGTG-ATAGAT
*
879741 AAATAATATAAAA-ATATATATATTAACAGATAAATAATAAAATAAGTTGATAGAT
1 AAATAATATAAAATA-AAATATATTAACAGATAAATAATAAAATAAG-TGATAGAT
879796 AAATAAT
1 AAATAAT
879803 TGAGAAAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
52 1 0.02
53 36 0.68
54 1 0.02
55 13 0.25
56 2 0.04
ACGTcount: A:0.62, C:0.01, G:0.07, T:0.30
Consensus pattern (54 bp):
AAATAATATAAAATAAAATATATTAACAGATAAATAATAAAATAAGTGATAGAT
Found at i:879828 original size:15 final size:15
Alignment explanation
Indices: 879810--879934 Score: 53
Period size: 15 Copynumber: 8.0 Consensus size: 15
879800 AATTGAGAAA
879810 AAAATAAAATAAAAT
1 AAAATAAAATAAAAT
* *
879825 AAAATAAAATTATAT
1 AAAATAAAATAAAAT
* *
879840 ATTAATAATAATAATAGT
1 A-AAATAA-AATAA-AAT
879858 AATAAT-AAAT-AAAT
1 AA-AATAAAATAAAAT
* *
879872 AAATACATAAATAAGAT
1 AAA-ATA-AAATAAAAT
*
879889 ACAA-AAAATAAAAAT
1 AAAATAAAAT-AAAAT
*
879904 ACAAAATACAAA-ATAA-
1 --AAAATA-AAATAAAAT
879920 AAAATAAAATAAAAT
1 AAAATAAAATAAAAT
879935 GGGCTTACCC
Statistics
Matches: 80, Mismatches: 15, Indels: 30
0.64 0.12 0.24
Matches are distributed among these distances:
13 4 0.05
14 18 0.22
15 20 0.25
16 13 0.16
17 16 0.20
18 6 0.08
19 3 0.04
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (15 bp):
AAAATAAAATAAAAT
Found at i:879903 original size:6 final size:6
Alignment explanation
Indices: 879892--879933 Score: 50
Period size: 6 Copynumber: 6.7 Consensus size: 6
879882 ATAAGATACA
879892 AAAAAT AAAAAT ACAAAAT ACAAAAT AAAAA- ATAAAAT AAAA
1 AAAAAT AAAAAT A-AAAAT A-AAAAT AAAAAT A-AAAAT AAAA
879934 TGGGCTTACC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 1 0.03
6 18 0.55
7 14 0.42
ACGTcount: A:0.81, C:0.05, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:879916 original size:14 final size:13
Alignment explanation
Indices: 879891--879933 Score: 61
Period size: 14 Copynumber: 3.3 Consensus size: 13
879881 AATAAGATAC
879891 AAAAAATAAAAAT
1 AAAAAATAAAAAT
*
879904 ACAAAATACAAAAT
1 AAAAAATA-AAAAT
879918 AAAAAAT-AAAAT
1 AAAAAATAAAAAT
879930 AAAA
1 AAAA
879934 TGGGCTTACC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 9 0.33
13 7 0.26
14 11 0.41
ACGTcount: A:0.81, C:0.05, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:879926 original size:7 final size:7
Alignment explanation
Indices: 879858--879928 Score: 54
Period size: 7 Copynumber: 10.0 Consensus size: 7
879848 TAATAATAGT
*
879858 AATAATA
1 AATAAAA
879865 AATAAATA
1 AATAAA-A
*
879873 AATACATA
1 AATA-AAA
*
879881 AATAAGA
1 AATAAAA
* *
879888 TACAAAA
1 AATAAAA
879895 AAT-AAA
1 AATAAAA
*
879901 AATACAA
1 AATAAAA
*
879908 AATACAA
1 AATAAAA
879915 AATAAAA
1 AATAAAA
879922 AATAAAA
1 AATAAAA
879929 TAAAATGGGC
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
6 6 0.12
7 34 0.67
8 10 0.20
9 1 0.02
ACGTcount: A:0.75, C:0.06, G:0.01, T:0.18
Consensus pattern (7 bp):
AATAAAA
Found at i:880637 original size:39 final size:39
Alignment explanation
Indices: 880594--880671 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
880584 TATTTAAAGT
880594 ATGTATAATAAATAAATAAATATCTTTGAAGTTTGTTAA
1 ATGTATAATAAATAAATAAATATCTTTGAAGTTTGTTAA
*
880633 ATGTATAATAAATAAATAAATATCTTTTAAGTTTGTTAA
1 ATGTATAATAAATAAATAAATATCTTTGAAGTTTGTTAA
880672 GAAATCTCAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.46, C:0.03, G:0.09, T:0.42
Consensus pattern (39 bp):
ATGTATAATAAATAAATAAATATCTTTGAAGTTTGTTAA
Found at i:881045 original size:2 final size:2
Alignment explanation
Indices: 881038--881065 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
881028 ACCGTAGGGG
881038 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
881066 TGGCGTCGGG
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:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:883024 original size:2 final size:2
Alignment explanation
Indices: 883019--883043 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
883009 TAATATATTT
883019 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
883044 TCAACTTTTA
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:885465 original size:25 final size:24
Alignment explanation
Indices: 885424--885474 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
885414 AAATATTAAA
* *
885424 ATATTAAAATTTATATTATATTTT
1 ATATAAAAATTTATATTATAATTT
*
885448 ATATAAAAATTATGTATTATAATTT
1 ATATAAAAATT-TATATTATAATTT
885473 AT
1 AT
885475 TTTAATATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 10 0.43
25 13 0.57
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
ATATAAAAATTTATATTATAATTT
Found at i:886692 original size:20 final size:19
Alignment explanation
Indices: 886667--886711 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
886657 CTGAACCAAA
886667 TTATATAT-TTTTATTAATTT
1 TTATATATATTTTA--AATTT
886687 TTATATATAATTTTAAATTT
1 TTATATAT-ATTTTAAATTT
886707 TTATA
1 TTATA
886712 AAATAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 18 0.78
22 5 0.22
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATATATATTTTAAATTT
Found at i:886700 original size:22 final size:20
Alignment explanation
Indices: 886668--886711 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 20
886658 TGAACCAAAT
*
886668 TATATATTTTTATTAATTTTTA
1 TATATAATTTTA--AATTTTTA
886690 TATATAATTTTAAATTTTTA
1 TATATAATTTTAAATTTTTA
886710 TA
1 TA
886712 AAATAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.48
22 11 0.52
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TATATAATTTTAAATTTTTA
Found at i:889268 original size:4 final size:4
Alignment explanation
Indices: 889259--889284 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
889249 GGAAAGGACT
889259 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
889285 AACCACACGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:893170 original size:22 final size:22
Alignment explanation
Indices: 893144--893187 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
893134 TGTATATTTA
*
893144 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
893166 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
893188 GATAGAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:896714 original size:28 final size:28
Alignment explanation
Indices: 896678--896762 Score: 170
Period size: 28 Copynumber: 3.0 Consensus size: 28
896668 ATACAGATGT
896678 AGATTATGCAGGTTCAATAACTGATAGA
1 AGATTATGCAGGTTCAATAACTGATAGA
896706 AGATTATGCAGGTTCAATAACTGATAGA
1 AGATTATGCAGGTTCAATAACTGATAGA
896734 AGATTATGCAGGTTCAATAACTGATAGA
1 AGATTATGCAGGTTCAATAACTGATAGA
896762 A
1 A
896763 CCAAGGGTCA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.28
Consensus pattern (28 bp):
AGATTATGCAGGTTCAATAACTGATAGA
Found at i:896953 original size:22 final size:22
Alignment explanation
Indices: 896927--896970 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
896917 TGTATATTTA
*
896927 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
896949 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
896971 GACAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:898743 original size:119 final size:119
Alignment explanation
Indices: 898532--898814 Score: 460
Period size: 119 Copynumber: 2.4 Consensus size: 119
898522 TCAATAAAAC
* * *
898532 TAACCTAACAGTCACTACATCTTCAAATTTCTAGAGATTTCTTGAACAGAATTCAAAATTTTAAT
1 TAACCTAACAGTCACTGCATCTTCAAGTTTCTAGAGATTTCTAGAACAGAATTCAAAATTTTAAT
*
898597 TACATTTTAGCAGAGACCAACTATGTAGCTCAAACTCAGTCATTTCGAGTCCTA
66 TACATTTTAGCAGAGACCAACTATGTAGCTCAAACTCAGTCATTTCAAGTCCTA
* * * *
898651 TAACCTAACAGTCACTGCAACTTCGAGTTTCTAGAGATTTCTAGAA-TGCAATTCAAATTTTTAA
1 TAACCTAACAGTCACTGCATCTTCAAGTTTCTAGAGATTTCTAGAACAG-AATTCAAAATTTTAA
*
898715 TTACATTTTAGCAGAGATCAACTATGTAGCTCAAACTCAGTCATTTCAAGTCCTA
65 TTACATTTTAGCAGAGACCAACTATGTAGCTCAAACTCAGTCATTTCAAGTCCTA
*
898770 TAACCTAACAGTCACTGCATCTTCAAGTTTCTAGAGGTTTCTAGA
1 TAACCTAACAGTCACTGCATCTTCAAGTTTCTAGAGATTTCTAGA
898815 GATTTCTAGA
Statistics
Matches: 151, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
118 1 0.01
119 150 0.99
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (119 bp):
TAACCTAACAGTCACTGCATCTTCAAGTTTCTAGAGATTTCTAGAACAGAATTCAAAATTTTAAT
TACATTTTAGCAGAGACCAACTATGTAGCTCAAACTCAGTCATTTCAAGTCCTA
Found at i:903880 original size:10 final size:11
Alignment explanation
Indices: 903865--903913 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 11
903855 TGCTTTATGT
903865 TGTTTCAT-TA
1 TGTTTCATCTA
*
903875 TGTTTCATCAA
1 TGTTTCATCTA
903886 TGTTTCATCTGA
1 TGTTTCATCT-A
903898 TG--TCAT-TA
1 TGTTTCATCTA
903906 TGTTTCAT
1 TGTTTCAT
903914 AAATGCGTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
8 3 0.09
9 1 0.03
10 16 0.48
11 10 0.30
12 3 0.09
ACGTcount: A:0.20, C:0.14, G:0.12, T:0.53
Consensus pattern (11 bp):
TGTTTCATCTA
Found at i:911762 original size:2 final size:2
Alignment explanation
Indices: 911755--911792 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
911745 GATTCATCAA
* *
911755 CT CT CT CT CT CT CT CT CT CT CT CT CT CT GT CT TT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
911793 AGAAGCTCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.45, G:0.03, T:0.53
Consensus pattern (2 bp):
CT
Found at i:911877 original size:21 final size:20
Alignment explanation
Indices: 911838--911877 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
911828 CTCTCTTAAC
**
911838 TTTTTCTTTCTCTTTTTTTT
1 TTTTTCTTTCTCTGCTTTTT
911858 TTTTTCGTTTCTCTGCTTTT
1 TTTTTC-TTTCTCTGCTTTT
911878 CTCTCGGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.00, C:0.17, G:0.05, T:0.78
Consensus pattern (20 bp):
TTTTTCTTTCTCTGCTTTTT
Found at i:928015 original size:2 final size:2
Alignment explanation
Indices: 928005--928034 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
927995 GATTCTCTCA
*
928005 AT AT TT 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
928035 TATTAGTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:930778 original size:31 final size:31
Alignment explanation
Indices: 930743--930803 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
930733 TTTGATAAAA
930743 TATAATATAAATATATAAATT-TTAATATTTT
1 TATAATATAAATATATAAATTATTAA-ATTTT
*
930774 TATAATATAAATATATGAATTATTAAATTT
1 TATAATATAAATATATAAATTATTAAATTT
930804 AATTTTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 24 0.86
32 4 0.14
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (31 bp):
TATAATATAAATATATAAATTATTAAATTTT
Found at i:932141 original size:42 final size:44
Alignment explanation
Indices: 932086--932172 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
932076 TAATTTTATT
*
932086 TAAAATTAAT-AAAATAT-TATTTATATATAATATATAATTAAA
1 TAAAATTAATAAAAATATATATTTATATATAATATAGAATTAAA
* * *
932128 TAAAA-TAATTAAAAATATATTTTTATATATCATATCGAATTAAA
1 TAAAATTAA-TAAAAATATATATTTATATATAATATAGAATTAAA
932172 T
1 T
932173 TTATTTAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
41 3 0.08
42 6 0.16
43 7 0.18
44 22 0.58
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (44 bp):
TAAAATTAATAAAAATATATATTTATATATAATATAGAATTAAA
Found at i:932805 original size:33 final size:32
Alignment explanation
Indices: 932764--932827 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
932754 TTTATATAAA
932764 ATATAATATAAATACACAAACTATTAATATTTT
1 ATATAATATAAATACACAAACTATT-ATATTTT
* * *
932797 ATATAATATAAATATATAAATTATTATATTT
1 ATATAATATAAATACACAAACTATTATATTT
932828 ACATACAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 6 0.21
33 22 0.79
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.44
Consensus pattern (32 bp):
ATATAATATAAATACACAAACTATTATATTTT
Found at i:933122 original size:19 final size:19
Alignment explanation
Indices: 933082--933125 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
933072 TCTAAAATTA
933082 ATAAAATATTATTTTTAAAT
1 ATAAAATATTATTTTT-AAT
933102 ATAAAATATTATTTTGT-AT
1 ATAAAATATTATTTT-TAAT
933121 ATAAA
1 ATAAA
933126 TATAAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.30
20 15 0.65
21 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
ATAAAATATTATTTTTAAT
Found at i:933148 original size:14 final size:13
Alignment explanation
Indices: 933122--933170 Score: 66
Period size: 12 Copynumber: 3.8 Consensus size: 13
933112 ATTTTGTATA
933122 TAAATATAA-AAT
1 TAAATATAATAAT
933134 TAAATATATATAAT
1 TAAATATA-ATAAT
933148 TAAATA-AATAAT
1 TAAATATAATAAT
*
933160 TAAAAATAATA
1 TAAATATAATA
933171 TATATCAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
12 18 0.55
13 6 0.18
14 9 0.27
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
TAAATATAATAAT
Found at i:933160 original size:26 final size:27
Alignment explanation
Indices: 933122--933172 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
933112 ATTTTGTATA
*
933122 TAAATATAAAATTAAATAT-ATATAAT
1 TAAATATAAAATTAAAAATAATATAAT
933148 TAAATA-AATAATTAAAAATAATATA
1 TAAATATAA-AATTAAAAATAATATA
933173 TATCAAGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 2 0.09
26 15 0.68
27 5 0.23
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (27 bp):
TAAATATAAAATTAAAAATAATATAAT
Found at i:934281 original size:25 final size:25
Alignment explanation
Indices: 934223--934281 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
934213 GAATACTCAT
934223 TATTATTTATTAAAATTTAAACAAA
1 TATTATTTATTAAAATTTAAACAAA
* * *
934248 T-TCAATTATTGAATATTTAAA-AAA
1 TATTATTTATT-AAAATTTAAACAAA
934272 TATTATTTAT
1 TATTATTTAT
934282 ATTTTATCTG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
24 11 0.41
25 16 0.59
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.47
Consensus pattern (25 bp):
TATTATTTATTAAAATTTAAACAAA
Found at i:956887 original size:19 final size:18
Alignment explanation
Indices: 956863--956898 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
956853 TATCGTATAA
956863 AATATTAAATTTATATATT
1 AATATTAAATTT-TATATT
*
956882 AATATTATATTTTATAT
1 AATATTAAATTTTATAT
956899 AAAAATTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
AATATTAAATTTTATATT
Found at i:959149 original size:20 final size:20
Alignment explanation
Indices: 959117--959154 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
959107 CTTCATCAAA
959117 GATACAAAGCTGACCGGCAT
1 GATACAAAGCTGACCGGCAT
959137 GATACTAAA-CTGACCGGC
1 GATAC-AAAGCTGACCGGC
959155 CTTTCAAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.34, C:0.26, G:0.24, T:0.16
Consensus pattern (20 bp):
GATACAAAGCTGACCGGCAT
Found at i:970911 original size:2 final size:2
Alignment explanation
Indices: 970904--970930 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
970894 ACCAAAAGAG
970904 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
970931 AAGCGAGCAC
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:971809 original size:28 final size:28
Alignment explanation
Indices: 971778--971854 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 28
971768 ATGTCAAGTT
*
971778 AAATAATTAATGTGATATTTAAATTATA
1 AAATAATTAATATGATATTTAAATTATA
** * *
971806 AAATTTTTAATATAATATTTGAATTATA
1 AAATAATTAATATGATATTTAAATTATA
*
971834 AATTTAATTAATATGATATTT
1 AA-ATAATTAATATGATATTT
971855 TTTAATTGGG
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
28 25 0.64
29 14 0.36
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (28 bp):
AAATAATTAATATGATATTTAAATTATA
Found at i:979805 original size:26 final size:26
Alignment explanation
Indices: 979741--979805 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 26
979731 ATGTTGACAA
*
979741 TAAAATATAATTTAGATATATCTTTCTT
1 TAAAAT-T-ATTTAGATATATCTCTCTT
* *
979769 TAAGATAATTTAGATATATCTCT-TT
1 TAAAATTATTTAGATATATCTCTCTT
979794 TAAAATGTATTT
1 TAAAAT-TATTT
979806 TTCAATAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
25 7 0.23
26 19 0.61
28 5 0.16
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.49
Consensus pattern (26 bp):
TAAAATTATTTAGATATATCTCTCTT
Found at i:980384 original size:16 final size:17
Alignment explanation
Indices: 980333--980385 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
980323 ACTATTTTTA
*
980333 TATATTAAAAATTTAAG
1 TATAATAAAAATTTAAG
980350 TATAATAAAATATTTTAAG
1 TATAATAAAA-A-TTTAAG
980369 TA-AA-AGAAAATTTAAG
1 TATAATA-AAAATTTAAG
980385 T
1 T
980386 TTTCAATTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
16 7 0.22
17 11 0.34
18 6 0.19
19 8 0.25
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.38
Consensus pattern (17 bp):
TATAATAAAAATTTAAG
Found at i:981043 original size:26 final size:26
Alignment explanation
Indices: 980985--981037 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
980975 ACAATTCAAT
* * *
980985 ATAATTTAGATATATCTTTTTTTAAG
1 ATAATTTAAATATATCTTCTTTTAAA
981011 ATAATTTAAATATATC-TCTTTTAAA
1 ATAATTTAAATATATCTTCTTTTAAA
981036 AT
1 AT
981038 GTATTTTTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.51
Consensus pattern (26 bp):
ATAATTTAAATATATCTTCTTTTAAA
Found at i:981819 original size:17 final size:17
Alignment explanation
Indices: 981794--981858 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
981784 AATTTATGTG
*
981794 AGGTAAACTTATTATTA
1 AGGTGAACTTATTATTA
* *
981811 AGGTGAACTTATCATCGA
1 AGGTGAACTTATTAT-TA
*
981829 A-GTGATCTTATTATTA
1 AGGTGAACTTATTATTA
* *
981845 AGATGAAATTATTA
1 AGGTGAACTTATTA
981859 CTCGTAATTT
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
16 2 0.05
17 33 0.89
18 2 0.05
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (17 bp):
AGGTGAACTTATTATTA
Found at i:983515 original size:52 final size:52
Alignment explanation
Indices: 983454--983558 Score: 165
Period size: 52 Copynumber: 2.0 Consensus size: 52
983444 ATTTAAATGC
983454 ATTTAAATATTATAAACATTAAACAGATTCAAAAACAAATATCTAAAAAGTA
1 ATTTAAATATTATAAACATTAAACAGATTCAAAAACAAATATCTAAAAAGTA
* * * * *
983506 ATTTAAATATTATAAATATTAAACGGATTCAAAATCAGATATTTAAAAAGTA
1 ATTTAAATATTATAAACATTAAACAGATTCAAAAACAAATATCTAAAAAGTA
983558 A
1 A
983559 CCAATATTCG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.55, C:0.08, G:0.06, T:0.31
Consensus pattern (52 bp):
ATTTAAATATTATAAACATTAAACAGATTCAAAAACAAATATCTAAAAAGTA
Found at i:985739 original size:15 final size:15
Alignment explanation
Indices: 985715--985747 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
985705 TATGAAAAAT
*
985715 AAACCTTAAACCCTA
1 AAACCCTAAACCCTA
985730 AAACCCTAAACCCTA
1 AAACCCTAAACCCTA
985745 AAA
1 AAA
985748 GGCAAAGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (15 bp):
AAACCCTAAACCCTA
Found at i:986255 original size:12 final size:12
Alignment explanation
Indices: 986238--986294 Score: 53
Period size: 12 Copynumber: 4.6 Consensus size: 12
986228 TCTATTTAAC
986238 ATTAAAAATTTT
1 ATTAAAAATTTT
*
986250 ATT-AAAATTAGT
1 ATTAAAAATT-TT
*
986262 AATAAAAATATTT
1 ATTAAAAAT-TTT
*
986275 ATCTAAAAATTAT
1 AT-TAAAAATTTT
986288 ATTAAAA
1 ATTAAAA
986295 TTTATTTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
11 6 0.17
12 11 0.31
13 11 0.31
14 8 0.22
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (12 bp):
ATTAAAAATTTT
Found at i:986293 original size:26 final size:24
Alignment explanation
Indices: 986238--986309 Score: 74
Period size: 24 Copynumber: 2.9 Consensus size: 24
986228 TCTATTTAAC
986238 ATTAAAAATTTTATTAAAATTAGT
1 ATTAAAAATTTTATTAAAATTAGT
*
986262 AATAAAAATATTTATCTAAAAATTA-T
1 ATTAAAAAT-TTTAT-T-AAAATTAGT
* *
986288 ATTAAAATTTATTTTTAAAATT
1 ATTAAAAATT-TTATTAAAATT
986310 TATACATTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
24 14 0.35
25 7 0.17
26 12 0.30
27 7 0.17
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (24 bp):
ATTAAAAATTTTATTAAAATTAGT
Found at i:986299 original size:12 final size:12
Alignment explanation
Indices: 986242--986313 Score: 51
Period size: 13 Copynumber: 5.8 Consensus size: 12
986232 TTTAACATTA
986242 AAAATTT-TATT
1 AAAATTTATATT
*
986253 AAAA-TTAGTAATA
1 AAAATTTA-T-ATT
986266 AAAATATT-TATCT
1 AAAAT-TTATAT-T
*
986279 AAAAATTATATT
1 AAAATTTATATT
*
986291 AAAATTTATTTTT
1 AAAATTTA-TATT
986304 AAAATTTATA
1 AAAATTTATA
986314 CATTTAATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 15
0.69 0.09 0.22
Matches are distributed among these distances:
10 2 0.04
11 4 0.09
12 14 0.30
13 25 0.53
15 2 0.04
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (12 bp):
AAAATTTATATT
Found at i:989741 original size:23 final size:23
Alignment explanation
Indices: 989711--989757 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
989701 TTATGACTAT
989711 TCATCCAAGCCAAACTAATAAAC
1 TCATCCAAGCCAAACTAATAAAC
989734 TCATCCAAGCCAAACTAATAAAC
1 TCATCCAAGCCAAACTAATAAAC
989757 T
1 T
989758 ATCAGGTCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.30, G:0.04, T:0.19
Consensus pattern (23 bp):
TCATCCAAGCCAAACTAATAAAC
Found at i:1004061 original size:29 final size:29
Alignment explanation
Indices: 1004029--1004120 Score: 87
Period size: 29 Copynumber: 3.2 Consensus size: 29
1004019 AATACAACAT
1004029 GAATAAATATAAATAATATAAATATATAC
1 GAATAAATATAAATAATATAAATATATAC
* * * *
1004058 GAATAAATATGACTAATATAGATATATAT
1 GAATAAATATAAATAATATAAATATATAC
* * * * * *
1004087 AAATAGACACAATTAATACAAATATATAC
1 GAATAAATATAAATAATATAAATATATAC
1004116 -AATAA
1 GAATAA
1004121 CACAACTAAA
Statistics
Matches: 49, Mismatches: 14, Indels: 1
0.77 0.22 0.02
Matches are distributed among these distances:
28 4 0.08
29 45 0.92
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.29
Consensus pattern (29 bp):
GAATAAATATAAATAATATAAATATATAC
Found at i:1004062 original size:19 final size:18
Alignment explanation
Indices: 1004035--1004120 Score: 59
Period size: 19 Copynumber: 4.6 Consensus size: 18
1004025 ACATGAATAA
1004035 ATATA-AATAATATAAAT
1 ATATACAATAATATAAAT
* *
1004052 ATATACGAATAAATATGACT
1 ATATAC-AAT-AATATAAAT
*
1004072 AATATA-GATATATATAAAT
1 -ATATACAATA-ATATAAAT
* * *
1004091 AGACACAATTAATACAAAT
1 ATATACAA-TAATATAAAT
1004110 ATATACAATAA
1 ATATACAATAA
1004121 CACAACTAAA
Statistics
Matches: 51, Mismatches: 11, Indels: 13
0.68 0.15 0.17
Matches are distributed among these distances:
17 5 0.10
18 7 0.14
19 25 0.49
20 9 0.18
21 5 0.10
ACGTcount: A:0.58, C:0.07, G:0.05, T:0.30
Consensus pattern (18 bp):
ATATACAATAATATAAAT
Found at i:1005047 original size:12 final size:12
Alignment explanation
Indices: 1005016--1005054 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
1005006 TTTTAAAATT
*
1005016 TAAATTTTTATA
1 TAAATTTTAATA
*
1005028 TATTATTTTAATA
1 TA-AATTTTAATA
1005041 TAAATTTTAATA
1 TAAATTTTAATA
1005053 TA
1 TA
1005055 TTTAAATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TAAATTTTAATA
Found at i:1007248 original size:19 final size:20
Alignment explanation
Indices: 1007196--1007250 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 20
1007186 ATATATATAT
*
1007196 ATAATAATTTAATTAAAATA
1 ATAAAAATTTAATTAAAATA
*
1007216 ATAAAAATGT-ATTAAAAT-
1 ATAAAAATTTAATTAAAATA
*
1007234 TTAAAAATTTAATTAAA
1 ATAAAAATTTAATTAAA
1007251 TTCATAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 8 0.27
19 14 0.47
20 8 0.27
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
ATAAAAATTTAATTAAAATA
Found at i:1007353 original size:6 final size:5
Alignment explanation
Indices: 1007302--1007354 Score: 54
Period size: 5 Copynumber: 10.2 Consensus size: 5
1007292 ATTCATTTAA
* *
1007302 TAAAT TAAAT T-AAT TAAATT TAAAT TTAAT AATAAT TAAAT TAAAT TCAAAT
1 TAAAT TAAAT TAAAT TAAA-T TAAAT TAAAT TA-AAT TAAAT TAAAT T-AAAT
1007354 T
1 T
1007355 TTATTCAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
4 4 0.10
5 22 0.55
6 14 0.35
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (5 bp):
TAAAT
Found at i:1007354 original size:16 final size:14
Alignment explanation
Indices: 1007298--1007345 Score: 53
Period size: 16 Copynumber: 3.3 Consensus size: 14
1007288 TTTAATTCAT
1007298 TTAA-TAAATTAAA
1 TTAATTAAATTAAA
1007311 TTAATTAAATTTAAA
1 TTAATTAAA-TTAAA
*
1007326 TTTAATAATAATTAAA
1 -TTAATTA-AATTAAA
1007342 TTAA
1 TTAA
1007346 ATTCAAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
13 4 0.13
14 4 0.13
15 9 0.30
16 11 0.37
17 2 0.07
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTAATTAAATTAAA
Found at i:1014667 original size:11 final size:11
Alignment explanation
Indices: 1014644--1014721 Score: 50
Period size: 11 Copynumber: 6.8 Consensus size: 11
1014634 AAATCGTGAT
*
1014644 ATTT-AATTTA
1 ATTTAAATTAA
1014654 ATTTAAATTAA
1 ATTTAAATTAA
** *
1014665 ATTTTTTTATTCA
1 A--TTTAAATTAA
1014678 ATTTAAATTAA
1 ATTTAAATTAA
1014689 ATTTAAATATTAA
1 ATTT-AA-ATTAA
* *
1014702 ATATATATTAA
1 ATTTAAATTAA
*
1014713 ATTCAAATT
1 ATTTAAATT
1014722 TTAAATTAAA
Statistics
Matches: 51, Mismatches: 12, Indels: 9
0.71 0.17 0.12
Matches are distributed among these distances:
10 4 0.08
11 28 0.55
12 3 0.06
13 16 0.31
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (11 bp):
ATTTAAATTAA
Found at i:1014699 original size:24 final size:24
Alignment explanation
Indices: 1014653--1014728 Score: 80
Period size: 24 Copynumber: 3.2 Consensus size: 24
1014643 TATTTAATTT
*** *
1014653 AATTTAAATTAAATTTTTTTATTC
1 AATTTAAATTAAATTTAAATATTA
1014677 AATTTAAATTAAATTTAAATATTA
1 AATTTAAATTAAATTTAAATATTA
* * * *
1014701 AATATATATTAAATTCAAATTTTA
1 AATTTAAATTAAATTTAAATATTA
1014725 AATT
1 AATT
1014729 AAAAAAATTA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (24 bp):
AATTTAAATTAAATTTAAATATTA
Found at i:1014932 original size:26 final size:27
Alignment explanation
Indices: 1014895--1014945 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
1014885 AATTAAATGG
*
1014895 ATAAAATGTAATTTAAA-TTAAATTAT
1 ATAAAATGTAATTGAAATTTAAATTAT
*
1014921 ATAAAATTTAATTGAAATTTAAATT
1 ATAAAATGTAATTGAAATTTAAATT
1014946 TCATTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (27 bp):
ATAAAATGTAATTGAAATTTAAATTAT
Found at i:1023502 original size:2 final size:2
Alignment explanation
Indices: 1023497--1023525 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1023487 CACAGCAACA
1023497 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1023526 TTCGTGATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1024644 original size:31 final size:32
Alignment explanation
Indices: 1024583--1024644 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
1024573 GTTTGCTATT
*
1024583 TGAATAGAAAGCAAAAGGCAAAAAACAAAAGA
1 TGAATAGAAAGCAAAAGACAAAAAACAAAAGA
* *
1024615 TGAATAGAAA-CAATAGACAAACAACAAAAG
1 TGAATAGAAAGCAAAAGACAAAAAACAAAAG
1024645 CATCAACCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 17 0.63
32 10 0.37
ACGTcount: A:0.65, C:0.11, G:0.16, T:0.08
Consensus pattern (32 bp):
TGAATAGAAAGCAAAAGACAAAAAACAAAAGA
Found at i:1026219 original size:11 final size:11
Alignment explanation
Indices: 1026203--1026257 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
1026193 TTGTTACTTA
1026203 AAATTTAATTT
1 AAATTTAATTT
*
1026214 AAATTTAATTG
1 AAATTTAATTT
*
1026225 AATTTTAATTT
1 AAATTTAATTT
* *
1026236 ---TTAAAATT
1 AAATTTAATTT
1026244 AAATTTAATTT
1 AAATTTAATTT
1026255 AAA
1 AAA
1026258 ATAAAAATAA
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
8 6 0.18
11 28 0.82
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (11 bp):
AAATTTAATTT
Found at i:1026284 original size:26 final size:27
Alignment explanation
Indices: 1026237--1026288 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
1026227 TTTTAATTTT
**
1026237 TAAAATTAAATTTAATTTAAAATAAAAA
1 TAAAATT-AATTTAATAAAAAATAAAAA
1026265 TAAAATT-ATTTAATAAAAAATAAA
1 TAAAATTAATTTAATAAAAAATAAA
1026289 CTTAAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 15 0.68
28 7 0.32
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (27 bp):
TAAAATTAATTTAATAAAAAATAAAAA
Found at i:1026294 original size:26 final size:27
Alignment explanation
Indices: 1026236--1026294 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
1026226 ATTTTAATTT
**
1026236 TTAAAATTAAATTTAATTTAAAATAAAA
1 TTAAAATT-AATTTAATAAAAAATAAAA
* *
1026264 ATAAAATT-ATTTAATAAAAAATAAAC
1 TTAAAATTAATTTAATAAAAAATAAAA
1026290 TTAAA
1 TTAAA
1026295 TTTTTATTTG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 19 0.73
28 7 0.27
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.36
Consensus pattern (27 bp):
TTAAAATTAATTTAATAAAAAATAAAA
Found at i:1026382 original size:21 final size:21
Alignment explanation
Indices: 1026357--1026404 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
1026347 AATATATATA
*
1026357 ATATAAGTAAAATAATAATTT
1 ATATAAGTAAAATAATAAATT
* *
1026378 TTATAATTAAAATAATAAATT
1 ATATAAGTAAAATAATAAATT
1026399 ATATAA
1 ATATAA
1026405 AAATTTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
ATATAAGTAAAATAATAAATT
Found at i:1027622 original size:20 final size:19
Alignment explanation
Indices: 1027577--1027619 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
1027567 TATTCATATA
*
1027577 TATTTAATAAGTTAATTTT
1 TATTTAATAAGTTAAATTT
1027596 TATTTAATAA-TATAAATTT
1 TATTTAATAAGT-TAAATTT
1027615 TATTT
1 TATTT
1027620 TAAATTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 1 0.05
19 21 0.95
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
TATTTAATAAGTTAAATTT
Found at i:1028583 original size:24 final size:23
Alignment explanation
Indices: 1028556--1028617 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
1028546 ATAATTTTTT
1028556 TTATTTTATTAAATTTATAT-ATAA
1 TTATTTTA-TAAATTTATATGAT-A
*
1028580 TTATTGTTATAATTTTATATGATA
1 TTATT-TTATAAATTTATATGATA
*
1028604 TTATATT-TAAATTT
1 TTATTTTATAAATTT
1028618 TATTTTTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
22 6 0.18
23 2 0.06
24 20 0.61
25 5 0.15
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (23 bp):
TTATTTTATAAATTTATATGATA
Found at i:1029807 original size:12 final size:12
Alignment explanation
Indices: 1029766--1029811 Score: 53
Period size: 11 Copynumber: 4.1 Consensus size: 12
1029756 TGGATGAATA
1029766 ATATA-ATATTT
1 ATATATATATTT
*
1029777 ATAT-TGTATTT
1 ATATATATATTT
*
1029788 -TATGTATATTT
1 ATATATATATTT
1029799 ATATATATATTT
1 ATATATATATTT
1029811 A
1 A
1029812 ATAAATTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
10 3 0.10
11 15 0.52
12 11 0.38
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (12 bp):
ATATATATATTT
Found at i:1029846 original size:47 final size:51
Alignment explanation
Indices: 1029792--1029898 Score: 127
Period size: 47 Copynumber: 2.2 Consensus size: 51
1029782 GTATTTTATG
*
1029792 TATATTTATATATATATTTAAT-AAATTAAT-T-TTT-TATGTAATAATATA
1 TATATTTATATATAAATTTAATAAAATTAATATATTTGTATGTAA-AATATA
* * *
1029840 TA-ATTTAT-TTTAAATTTATTAAAATTAATATATTTGTATTTAAAATATA
1 TATATTTATATATAAATTTAATAAAATTAATATATTTGTATGTAAAATATA
1029889 TATATTTATA
1 TATATTTATA
1029899 AAAAATTACT
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
46 9 0.18
47 14 0.29
48 3 0.06
49 11 0.22
50 12 0.24
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (51 bp):
TATATTTATATATAAATTTAATAAAATTAATATATTTGTATGTAAAATATA
Found at i:1030034 original size:16 final size:17
Alignment explanation
Indices: 1030001--1030051 Score: 61
Period size: 15 Copynumber: 3.1 Consensus size: 17
1029991 TTAAATATTT
*
1030001 ATAAATATAAAAATAAAA
1 ATAAATAT-AATATAAAA
*
1030019 ATAAAT-TTATAT-AAA
1 ATAAATATAATATAAAA
1030034 ATAAATATAATATAAAA
1 ATAAATATAATATAAAA
1030051 A
1 A
1030052 ATCGAGAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 9 0.32
16 8 0.29
17 5 0.18
18 6 0.21
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAAATATAATATAAAA
Found at i:1030036 original size:15 final size:16
Alignment explanation
Indices: 1030001--1030050 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
1029991 TTAAATATTT
*
1030001 ATAAATATAAAAATAAAA
1 ATAAATAT-AATAT-AAA
*
1030019 ATAAAT-TTATATAAA
1 ATAAATATAATATAAA
1030034 ATAAATATAATATAAA
1 ATAAATATAATATAAA
1030050 A
1 A
1030051 AATCGAGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 9 0.32
16 12 0.43
17 1 0.04
18 6 0.21
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATAAATATAATATAAA
Found at i:1030052 original size:18 final size:18
Alignment explanation
Indices: 1030001--1030053 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
1029991 TTAAATATTT
*
1030001 ATAAATATAA-AAATAAAA
1 ATAAATATAATATA-AAAA
*
1030019 ATAAAT-T--TATATAAA
1 ATAAATATAATATAAAAA
1030034 ATAAATATAATATAAAAA
1 ATAAATATAATATAAAAA
1030052 AT
1 AT
1030054 CGAGAATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
15 9 0.32
16 3 0.11
17 1 0.04
18 15 0.54
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
ATAAATATAATATAAAAA
Found at i:1030854 original size:15 final size:15
Alignment explanation
Indices: 1030815--1030869 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 15
1030805 ATTATTATAA
*
1030815 TTATAATTAAAAACAT
1 TTAT-ATTAAAAAAAT
*
1030831 TTTTA-TAAAAAAAT
1 TTATATTAAAAAAAT
**
1030845 TTATATTAAATTAAT
1 TTATATTAAAAAAAT
1030860 TT-TATTAAAA
1 TTATATTAAAA
1030870 TAATATTTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
14 19 0.59
15 10 0.31
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
TTATATTAAAAAAAT
Found at i:1033497 original size:2 final size:2
Alignment explanation
Indices: 1033490--1033516 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1033480 AAAACTTGGA
1033490 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
1033517 AATAATTTGC
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:1034551 original size:23 final size:23
Alignment explanation
Indices: 1034525--1034593 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 23
1034515 GTTTGATCGT
* * *
1034525 TTAATTATATT-ATAATTTATTAG
1 TTAATTAT-TTAATAATATAATAA
1034548 TTAATTATTTAATAATATAATAA
1 TTAATTATTTAATAATATAATAA
1034571 TTAATTATTAGATAATAATATAA
1 TTAATTATT---TAATAATATAA
1034594 ATGTAATATT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
22 2 0.05
23 26 0.67
26 11 0.28
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (23 bp):
TTAATTATTTAATAATATAATAA
Found at i:1035813 original size:34 final size:34
Alignment explanation
Indices: 1035752--1035821 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 34
1035742 GATATAAAAT
* *
1035752 TTTGGTAAATTATATAACCTATCAAAAATTCATA
1 TTTGCTAAATTATATAACCTATCAAAAATACATA
* ** *
1035786 TTTGCTAAGTTATATAATTTATTAAAAATACATA
1 TTTGCTAAATTATATAACCTATCAAAAATACATA
1035820 TT
1 TT
1035822 AAGAAATTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.43
Consensus pattern (34 bp):
TTTGCTAAATTATATAACCTATCAAAAATACATA
Found at i:1040346 original size:14 final size:14
Alignment explanation
Indices: 1040317--1040357 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
1040307 TTATCAATTC
1040317 ATAATATGATAAAAAT
1 ATAATAT-A-AAAAAT
1040333 ATAATATAAAAAAT
1 ATAATATAAAAAAT
1040347 A-AATATAAAAA
1 ATAATATAAAAA
1040358 TAATATGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 10 0.40
14 7 0.28
15 1 0.04
16 7 0.28
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (14 bp):
ATAATATAAAAAAT
Found at i:1041402 original size:13 final size:13
Alignment explanation
Indices: 1041367--1041405 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
1041357 ATGAAATTCA
1041367 ATCCAAATTTAAT
1 ATCCAAATTTAAT
** *
1041380 ATATACATTTAAT
1 ATCCAAATTTAAT
1041393 ATCCAAATTTAAT
1 ATCCAAATTTAAT
1041406 CTAAAACAAA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (13 bp):
ATCCAAATTTAAT
Found at i:1049460 original size:41 final size:41
Alignment explanation
Indices: 1049414--1049534 Score: 199
Period size: 43 Copynumber: 2.9 Consensus size: 41
1049404 TAAGGATACC
*
1049414 TTAGGGTCCTATAATTTCAAGAAAAATAATAAAAAAAAAAG
1 TTAGGGTCCCATAATTTCAAGAAAAATAATAAAAAAAAAAG
1049455 TTAGGGTCCCATAATTTCAAGAAGAAA-AATAATAATAAAAAAG
1 TTAGGGTCCCATAATTTCAAGAA-AAATAATAA-AA-AAAAAAG
1049498 TTAGGGTCCCATAATTTCAAGAAAAATAATAAAAAAA
1 TTAGGGTCCCATAATTTCAAGAAAAATAATAAAAAAA
1049535 GGTAAGGTCC
Statistics
Matches: 75, Mismatches: 1, Indels: 8
0.89 0.01 0.10
Matches are distributed among these distances:
41 30 0.40
42 10 0.13
43 35 0.47
ACGTcount: A:0.55, C:0.09, G:0.12, T:0.24
Consensus pattern (41 bp):
TTAGGGTCCCATAATTTCAAGAAAAATAATAAAAAAAAAAG
Found at i:1049509 original size:43 final size:42
Alignment explanation
Indices: 1049414--1049548 Score: 183
Period size: 41 Copynumber: 3.3 Consensus size: 42
1049404 TAAGGATACC
*
1049414 TTAGGGTCCTATAATTTCAAGAA-AAATAATAA-AAAAAAAAG
1 TTAGGGTCCCATAATTTCAAGAAGAAA-AATAATAAAAAAAAG
1049455 TTAGGGTCCCATAATTTCAAGAAGAAAAATAATAATAAAAAAG
1 TTAGGGTCCCATAATTTCAAGAAGAAAAATAATAA-AAAAAAG
1049498 TTAGGGTCCCATAATTTC---AAGAAAAATAAT-AAAAAAAG
1 TTAGGGTCCCATAATTTCAAGAAGAAAAATAATAAAAAAAAG
* *
1049536 GTAAGGTCCCATA
1 TTAGGGTCCCATA
1049549 CTTAAAAGTA
Statistics
Matches: 88, Mismatches: 3, Indels: 9
0.88 0.03 0.09
Matches are distributed among these distances:
38 18 0.20
39 1 0.01
40 12 0.14
41 27 0.31
42 5 0.06
43 25 0.28
ACGTcount: A:0.52, C:0.10, G:0.14, T:0.24
Consensus pattern (42 bp):
TTAGGGTCCCATAATTTCAAGAAGAAAAATAATAAAAAAAAG
Found at i:1050801 original size:12 final size:12
Alignment explanation
Indices: 1050784--1050809 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1050774 ACCCCATTAT
1050784 ATACCATTGAAG
1 ATACCATTGAAG
1050796 ATACCATTGAAG
1 ATACCATTGAAG
1050808 AT
1 AT
1050810 TGACGTGACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (12 bp):
ATACCATTGAAG
Found at i:1054635 original size:16 final size:16
Alignment explanation
Indices: 1054616--1054654 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1054606 TACATTTAAT
*
1054616 TATATATATTTTTATA
1 TATATATAATTTTATA
*
1054632 TATATTTAATTTTATA
1 TATATATAATTTTATA
*
1054648 TTTATAT
1 TATATAT
1054655 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATATAATTTTATA
Found at i:1054647 original size:12 final size:13
Alignment explanation
Indices: 1054609--1054657 Score: 50
Period size: 12 Copynumber: 3.8 Consensus size: 13
1054599 TAAATTTTAC
1054609 ATTTAATTATATAT
1 ATTTAATT-TATAT
1054623 ATTT--TTATATAT
1 ATTTAATT-TATAT
1054635 ATTTAATTT-TAT
1 ATTTAATTTATAT
1054647 ATTTATATTTA
1 ATTTA-ATTTA
1054658 AAATAATATT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 20 0.65
13 5 0.16
14 6 0.19
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
ATTTAATTTATAT
Found at i:1054655 original size:18 final size:17
Alignment explanation
Indices: 1054623--1054658 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
1054613 AATTATATAT
1054623 ATTTTTATATATATTTA
1 ATTTTTATATATATTTA
*
1054640 ATTTTATATTTATATTTA
1 ATTTT-TATATATATTTA
1054658 A
1 A
1054659 AATAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTTTTATATATATTTA
Found at i:1057321 original size:17 final size:18
Alignment explanation
Indices: 1057296--1057329 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1057286 TTTATTTTTA
*
1057296 AATTTTTATA-TTATATC
1 AATTCTTATATTTATATC
1057313 AATTCTTATATTTATAT
1 AATTCTTATATTTATAT
1057330 TTAATGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (18 bp):
AATTCTTATATTTATATC
Found at i:1057509 original size:33 final size:32
Alignment explanation
Indices: 1057472--1057540 Score: 79
Period size: 33 Copynumber: 2.1 Consensus size: 32
1057462 TATAAATATA
*
1057472 TTAATATATATTTTAAATAA-AA-ATATATTAGTT
1 TTAAT-TA-ATTTAAAATAACAATATATATTA-TT
*
1057505 TTAATTAATTTAAAATAACAATTTATATTATT
1 TTAATTAATTTAAAATAACAATATATATTATT
1057537 TTAA
1 TTAA
1057541 AAAATTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
31 10 0.31
32 10 0.31
33 12 0.38
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (32 bp):
TTAATTAATTTAAAATAACAATATATATTATT
Found at i:1057681 original size:20 final size:20
Alignment explanation
Indices: 1057658--1057701 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1057648 ATTCTTATTC
*
1057658 TCATCCTCATAATGTAATAT
1 TCATCCTCATAATATAATAT
* *
1057678 TCATCCTTATAATATGATAT
1 TCATCCTCATAATATAATAT
1057698 TCAT
1 TCAT
1057702 TTTTATTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.18, G:0.05, T:0.43
Consensus pattern (20 bp):
TCATCCTCATAATATAATAT
Done.