Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 14 of 130
Found at i:3872850 original size:54 final size:54
Alignment explanation
Indices: 3872789--3872891 Score: 156
Period size: 54 Copynumber: 1.9 Consensus size: 54
3872779 CTATTTTTAA
*
3872789 ATTTTTAAAAATATATAATTTAAA-AT-TATCTCTAACAATCTAGATATATGATCT
1 ATTTTTAAAAATATATAATTTAAATATATAT-T-TAACAATCTAAATATATGATCT
*
3872843 ATTTTTAAATATATATAATTTAAATATATATTTAACAATCTAAATATAT
1 ATTTTTAAAAATATATAATTTAAATATATATTTAACAATCTAAATATAT
3872892 CTCTTTTAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
54 39 0.87
55 3 0.07
56 3 0.07
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.45
Consensus pattern (54 bp):
ATTTTTAAAAATATATAATTTAAATATATATTTAACAATCTAAATATATGATCT
Found at i:3873592 original size:13 final size:13
Alignment explanation
Indices: 3873553--3873595 Score: 50
Period size: 15 Copynumber: 3.1 Consensus size: 13
3873543 CTAGATATGT
3873553 TATCTATTTTTAAA
1 TATCTA-TTTTAAA
*
3873567 TATATATAATTTAAA
1 TATCTAT--TTTAAA
3873582 TATCTATTTTAAA
1 TATCTATTTTAAA
3873595 T
1 T
3873596 TTAAAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
13 8 0.32
14 5 0.20
15 12 0.48
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (13 bp):
TATCTATTTTAAA
Found at i:3873607 original size:28 final size:29
Alignment explanation
Indices: 3873553--3873612 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
3873543 CTAGATATGT
*
3873553 TATCTATTTTTAAATATATATAATTTAAA
1 TATCTATTTTTAAATATATAAAATTTAAA
*
3873582 TATCTA-TTTTAAATTTA-AAAATTTTAAA
1 TATCTATTTTTAAATATATAAAA-TTTAAA
3873610 TAT
1 TAT
3873613 AAATTTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 3 0.11
28 19 0.68
29 6 0.21
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (29 bp):
TATCTATTTTTAAATATATAAAATTTAAA
Found at i:3873618 original size:28 final size:28
Alignment explanation
Indices: 3873576--3873648 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 28
3873566 ATATATATAA
**
3873576 TTTAAATATCTATTTTAAATTTAAAAAT
1 TTTAAATATAAATTTTAAATTTAAAAAT
** *
3873604 TTTAAATATAAA-TTTATTTTTATAAAT
1 TTTAAATATAAATTTTAAATTTAAAAAT
**
3873631 TTTTTA-ATAAATTTTAAA
1 TTTAAATATAAATTTTAAA
3873649 AAATCAAATA
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
26 5 0.14
27 20 0.57
28 10 0.29
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.53
Consensus pattern (28 bp):
TTTAAATATAAATTTTAAATTTAAAAAT
Found at i:3875617 original size:14 final size:15
Alignment explanation
Indices: 3875590--3875619 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3875580 ACTTTGAAAT
3875590 TGAATTTTTCAAAAA
1 TGAATTTTTCAAAAA
3875605 TGAATTTTT-AAAAA
1 TGAATTTTTCAAAAA
3875619 T
1 T
3875620 TTTAAAGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (15 bp):
TGAATTTTTCAAAAA
Found at i:3876534 original size:72 final size:73
Alignment explanation
Indices: 3876404--3876547 Score: 281
Period size: 73 Copynumber: 2.0 Consensus size: 73
3876394 ATTTTCAACT
3876404 TTTTTTTTTTTTTACTTTTTTGTTTCTGGCTTTCAAAATTCTGCTTCATTCCCTTTTTTTTTTTC
1 TTTTTTTTTTTTTACTTTTTTGTTTCTGGCTTTCAAAATTCTGCTTCATTCCCTTTTTTTTTTTC
3876469 CTGTAAAC
66 CTGTAAAC
3876477 TTTTTTTTTTTTTACTTTTTTGTTTCTGGCTTTCAAAATTCTGCTTCATT-CCTTTTTTTTTTTC
1 TTTTTTTTTTTTTACTTTTTTGTTTCTGGCTTTCAAAATTCTGCTTCATTCCCTTTTTTTTTTTC
3876541 CTGTAAA
66 CTGTAAA
3876548 TTTAGGGTAA
Statistics
Matches: 71, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
72 21 0.30
73 50 0.70
ACGTcount: A:0.12, C:0.17, G:0.07, T:0.64
Consensus pattern (73 bp):
TTTTTTTTTTTTTACTTTTTTGTTTCTGGCTTTCAAAATTCTGCTTCATTCCCTTTTTTTTTTTC
CTGTAAAC
Found at i:3883583 original size:3 final size:3
Alignment explanation
Indices: 3883575--3883629 Score: 92
Period size: 3 Copynumber: 18.3 Consensus size: 3
3883565 GCATTTCAAC
* *
3883575 TAA TAA TAA TAA TAA CAA TAA TAA CAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3883623 TAA TAA T
1 TAA TAA T
3883630 TATTATTATT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:3883908 original size:21 final size:21
Alignment explanation
Indices: 3883884--3883934 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
3883874 CGCGAAATTA
3883884 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
3883905 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
3883926 AT-AAATATT
1 ATAAAATATT
3883935 TAAAAATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 7 0.23
21 23 0.77
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:3883943 original size:30 final size:30
Alignment explanation
Indices: 3883903--3883972 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 30
3883893 TATTTTTTAA
* * *
3883903 ATAT-AAAATATTATTTTTTAAATATAAAT
1 ATATAAAAATATCATTATATAAATATAAAT
* *
3883932 ATTTAAAAATATCATTATATAAATATATAT
1 ATATAAAAATATCATTATATAAATATAAAT
*
3883962 ATATATAAATA
1 ATATAAAAATA
3883973 AAAAAATAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
29 3 0.09
30 30 0.91
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (30 bp):
ATATAAAAATATCATTATATAAATATAAAT
Found at i:3883958 original size:8 final size:8
Alignment explanation
Indices: 3883924--3883972 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 8
3883914 TATTTTTTAA
3883924 ATATAAAT
1 ATATAAAT
* *
3883932 ATTTAAAA
1 ATATAAAT
* *
3883940 ATATCATT
1 ATATAAAT
3883948 ATATAAAT
1 ATATAAAT
*
3883956 ATATATAT
1 ATATAAAT
3883964 ATATAAAT
1 ATATAAAT
3883972 A
1 A
3883973 AAAAAATAAA
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (8 bp):
ATATAAAT
Found at i:3885913 original size:10 final size:10
Alignment explanation
Indices: 3885898--3885932 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
3885888 ACCTTACATA
3885898 TATATATTTT
1 TATATATTTT
*
3885908 TATATATTTAC
1 TATATATTT-T
3885919 TATATATTTT
1 TATATATTTT
3885929 TATA
1 TATA
3885933 AATAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATATTTT
Found at i:3886022 original size:23 final size:23
Alignment explanation
Indices: 3885996--3886043 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
3885986 AAATATTGAT
* *
3885996 ATATATCA-ATAAAATTTATCTAA
1 ATATATAAGATAAAAATT-TCTAA
3886019 ATATATAAGATAAAAATTTCTAA
1 ATATATAAGATAAAAATTTCTAA
3886042 AT
1 AT
3886044 TTTAATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (23 bp):
ATATATAAGATAAAAATTTCTAA
Found at i:3899219 original size:110 final size:110
Alignment explanation
Indices: 3899026--3899246 Score: 415
Period size: 110 Copynumber: 2.0 Consensus size: 110
3899016 TTAGCCTCCT
*
3899026 AAAGAGGATGTACTTTATTTGCTAGGGGAGTGTTTCAATTACCTTATTTCCCAACATTTCCCTTT
1 AAAGAGGATGTAATTTATTTGCTAGGGGAGTGTTTCAATTACCTTATTTCCCAACATTTCCCTTT
3899091 CTTCAGGAGTCCAATCAGCTGTCATGTCTAGAATATTCTGGAGTG
66 CTTCAGGAGTCCAATCAGCTGTCATGTCTAGAATATTCTGGAGTG
* *
3899136 AAAGAGGATGTAATTTATTTGCTAGGGGAGTGTTTCAATTACCTTATTTCTCAACATTTCTCTTT
1 AAAGAGGATGTAATTTATTTGCTAGGGGAGTGTTTCAATTACCTTATTTCCCAACATTTCCCTTT
3899201 CTTCAGGAGTCCAATCAGCTGTCATGTCTAGAATATTCTGGAGTG
66 CTTCAGGAGTCCAATCAGCTGTCATGTCTAGAATATTCTGGAGTG
3899246 A
1 A
3899247 GACCTCATCA
Statistics
Matches: 108, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
110 108 1.00
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (110 bp):
AAAGAGGATGTAATTTATTTGCTAGGGGAGTGTTTCAATTACCTTATTTCCCAACATTTCCCTTT
CTTCAGGAGTCCAATCAGCTGTCATGTCTAGAATATTCTGGAGTG
Found at i:3899432 original size:99 final size:99
Alignment explanation
Indices: 3899258--3899453 Score: 338
Period size: 99 Copynumber: 2.0 Consensus size: 99
3899248 ACCTCATCAT
3899258 ATAATAGACCTACCTGAAAACAGATATAAACTTAAAATGAGCAACTTTTGCAGTAATTAGACAGT
1 ATAATAGACCTACCTGAAAACAGATATAAACTTAAAATGAGCAACTTTTGCAGTAATTAGACAGT
* * *
3899323 TAATATTGTAATTTCAACGAGCACGAAAGCAAGA
66 TAATAATGTAATTTCAACAAGCAAGAAAGCAAGA
* *
3899357 ATAATAGACCTACCTGAAAACATATATAAACTTAAAATGAGCAACTTTTGCAGTAATTAGACATT
1 ATAATAGACCTACCTGAAAACAGATATAAACTTAAAATGAGCAACTTTTGCAGTAATTAGACAGT
*
3899422 TAATAATGTAATTTCAACAAGCAAGAATGCAA
66 TAATAATGTAATTTCAACAAGCAAGAAAGCAA
3899454 AAATTTTGGA
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
99 91 1.00
ACGTcount: A:0.45, C:0.15, G:0.13, T:0.27
Consensus pattern (99 bp):
ATAATAGACCTACCTGAAAACAGATATAAACTTAAAATGAGCAACTTTTGCAGTAATTAGACAGT
TAATAATGTAATTTCAACAAGCAAGAAAGCAAGA
Found at i:3904382 original size:26 final size:25
Alignment explanation
Indices: 3904353--3904406 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
3904343 TATAATTGTG
3904353 ATTAAAAAAATTAATAAAAAATTAAT
1 ATTAAAAAAATTAAT-AAAAATTAAT
* * *
3904379 ATTAAATAAATTTATTAAAATTAAT
1 ATTAAAAAAATTAATAAAAATTAAT
3904404 ATT
1 ATT
3904407 TAAATTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (25 bp):
ATTAAAAAAATTAATAAAAATTAAT
Found at i:3916918 original size:22 final size:21
Alignment explanation
Indices: 3916868--3916919 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
3916858 AATATTAATT
3916868 TTAATATAAATTATATTTTAA
1 TTAATATAAATTATATTTTAA
3916889 TT-ATATAAATATCATATTTT-A
1 TTAATATAAAT-T-ATATTTTAA
*
3916910 TTAAAATAAA
1 TTAATATAAA
3916920 GTAATAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 8 0.30
21 6 0.22
22 13 0.48
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
TTAATATAAATTATATTTTAA
Found at i:3917223 original size:22 final size:22
Alignment explanation
Indices: 3917180--3917224 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
3917170 AAAGTAAAAC
**
3917180 AAAAGAAAAAAAAAGTGGCTAA
1 AAAAGAAAAAAAAAGAAGCTAA
* *
3917202 AAAAGAAAAAAAATGAATCTAA
1 AAAAGAAAAAAAAAGAAGCTAA
3917224 A
1 A
3917225 TGTAGGTGAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.71, C:0.04, G:0.13, T:0.11
Consensus pattern (22 bp):
AAAAGAAAAAAAAAGAAGCTAA
Found at i:3917490 original size:26 final size:24
Alignment explanation
Indices: 3917461--3917513 Score: 56
Period size: 25 Copynumber: 2.2 Consensus size: 24
3917451 TTAATTTGAC
3917461 ATTAAGTTA-TTATATTTATATATTTT
1 ATTAAGTTATTTA-ATTT-TATA-TTT
*
3917487 ATT-ATTTATTTAATTTTATATTT
1 ATTAAGTTATTTAATTTTATATTT
3917510 ATTA
1 ATTA
3917514 TATTAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
23 6 0.25
24 4 0.17
25 8 0.33
26 6 0.25
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (24 bp):
ATTAAGTTATTTAATTTTATATTT
Found at i:3917494 original size:16 final size:15
Alignment explanation
Indices: 3917470--3917517 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 15
3917460 CATTAAGTTA
3917470 TTATATTTATATATT
1 TTATATTTATATATT
*
3917485 TTATTATTTATTTAATT
1 TTA-TATTTATAT-ATT
3917502 TTATATTTATTATATT
1 TTATATTTA-TATATT
3917518 AATAAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 3 0.11
16 17 0.61
17 8 0.29
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTATATTTATATATT
Found at i:3918111 original size:12 final size:12
Alignment explanation
Indices: 3918075--3918112 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
3918065 TATATAAAAG
3918075 TATATATTTTAT
1 TATATATTTTAT
3918087 TAT-TAATTTTAT
1 TATAT-ATTTTAT
*
3918099 TATATATTATAT
1 TATATATTTTAT
3918111 TA
1 TA
3918113 ATAAAATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
11 1 0.04
12 21 0.91
13 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TATATATTTTAT
Found at i:3918122 original size:24 final size:24
Alignment explanation
Indices: 3918075--3918125 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
3918065 TATATAAAAG
* * **
3918075 TATATATTTTATTATTAATTTTAT
1 TATATATTATATTAATAAAATTAT
3918099 TATATATTATATTAATAAAATTAT
1 TATATATTATATTAATAAAATTAT
3918123 TAT
1 TAT
3918126 TTAATATCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TATATATTATATTAATAAAATTAT
Found at i:3918132 original size:29 final size:28
Alignment explanation
Indices: 3918100--3918155 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
3918090 TAATTTTATT
*
3918100 ATATATTATATTAATAAAATTATTATTTA
1 ATATATTA-ATTAATAAAATTAATATTTA
* *
3918129 ATATCTTAATTTATAAAATTAATATTT
1 ATATATTAATTAATAAAATTAATATTT
3918156 TAAACTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (28 bp):
ATATATTAATTAATAAAATTAATATTTA
Found at i:3918487 original size:11 final size:11
Alignment explanation
Indices: 3918471--3918528 Score: 53
Period size: 11 Copynumber: 4.8 Consensus size: 11
3918461 TTTTTTATTT
3918471 AATTTAAATTA
1 AATTTAAATTA
3918482 AATTTAGATATTA
1 AATTTA-A-ATTA
* *
3918495 AATGAATATATTA
1 AAT--TTAAATTA
3918508 AATTTAAATTA
1 AATTTAAATTA
3918519 AATTTTAAAT
1 AA-TTTAAAT
3918529 CAAAAAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
11 14 0.37
12 8 0.21
13 14 0.37
15 2 0.05
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (11 bp):
AATTTAAATTA
Found at i:3918600 original size:20 final size:18
Alignment explanation
Indices: 3918563--3918598 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
3918553 TGAATTAAAT
*
3918563 TATATATTTTTTAATTTA
1 TATATATTTTTAAATTTA
3918581 TATATATATTTTAAATTT
1 TATATAT-TTTTAAATTT
3918599 TAATAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TATATATTTTTAAATTTA
Found at i:3918632 original size:13 final size:13
Alignment explanation
Indices: 3918616--3918695 Score: 55
Period size: 13 Copynumber: 6.5 Consensus size: 13
3918606 TAAAAATAAT
3918616 AATTTTATATTAA
1 AATTTTATATTAA
3918629 AA-TTTAT-TT-A
1 AATTTTATATTAA
*
3918639 AA---TAAATTAA
1 AATTTTATATTAA
3918649 AATTTTATATTAA
1 AATTTTATATTAA
** *
3918662 AATAATATATAAA
1 AATTTTATATTAA
* *
3918675 AATTTAAAATTTAA
1 AATTTTATA-TTAA
3918689 AATTTTA
1 AATTTTA
3918696 AAATTAATAA
Statistics
Matches: 50, Mismatches: 11, Indels: 11
0.69 0.15 0.15
Matches are distributed among these distances:
8 2 0.04
9 2 0.04
10 6 0.12
11 2 0.04
12 5 0.10
13 24 0.48
14 9 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AATTTTATATTAA
Found at i:3918633 original size:35 final size:34
Alignment explanation
Indices: 3918593--3918674 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 34
3918583 TATATATTTT
3918593 AAATTTTA-ATAAATAAAAATAATAATTTTATATTA
1 AAATTTTATATAAAT-AAAATAA-AATTTTATATTA
* *
3918628 AAA-TTTATTTAAATAAATTAAAATTTTATATTA
1 AAATTTTATATAAATAAAATAAAATTTTATATTA
**
3918661 AAATAATATATAAA
1 AAATTTTATATAAA
3918675 AATTTAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
33 15 0.38
34 17 0.43
35 8 0.20
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (34 bp):
AAATTTTATATAAATAAAATAAAATTTTATATTA
Found at i:3918658 original size:33 final size:34
Alignment explanation
Indices: 3918601--3918686 Score: 104
Period size: 33 Copynumber: 2.5 Consensus size: 34
3918591 TTAAATTTTA
* *
3918601 ATAAATAAAAATAATAATTTTATATTAAAAT-TTAT
1 ATAAAT-AAATTAA-AATTTTATATTAAAATAATAT
*
3918636 TTAAATAAATTAAAATTTTATATTAAAATAATAT
1 ATAAATAAATTAAAATTTTATATTAAAATAATAT
*
3918670 ATAAA-AATTTAAAATTT
1 ATAAATAAATTAAAATTT
3918687 AAAATTTTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
33 27 0.60
34 13 0.29
35 5 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (34 bp):
ATAAATAAATTAAAATTTTATATTAAAATAATAT
Found at i:3918689 original size:15 final size:15
Alignment explanation
Indices: 3918671--3918700 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3918661 AAATAATATA
3918671 TAAAAATTTAAAATT
1 TAAAAATTTAAAATT
*
3918686 TAAAATTTTAAAATT
1 TAAAAATTTAAAATT
3918701 AATAAATCGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TAAAAATTTAAAATT
Found at i:3923261 original size:46 final size:46
Alignment explanation
Indices: 3923194--3923284 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
3923184 AGATGCCAAT
* *
3923194 TATGATTAAACTCTAAGGATGAGTGTTATGACTGGAATTTCTAGTG
1 TATGATTAAACTCTAAGGATGAGTATTATGACTGGAATTCCTAGTG
*
3923240 TATGATTTAACT-TCAAGGATGAGTATTATGACTGGAATTCCTAGT
1 TATGATTAAACTCT-AAGGATGAGTATTATGACTGGAATTCCTAGT
3923285 AATTATTGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 1 0.02
46 40 0.98
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (46 bp):
TATGATTAAACTCTAAGGATGAGTATTATGACTGGAATTCCTAGTG
Found at i:3934379 original size:32 final size:33
Alignment explanation
Indices: 3934343--3934409 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 33
3934333 CAACTCAAAG
3934343 TTCATACATATATAATAAATCTTTGATT-TTTT
1 TTCATACATATATAATAAATCTTTGATTCTTTT
*
3934375 TTCATACATATATAGTAAATCTTTGATTCTTTT
1 TTCATACATATATAATAAATCTTTGATTCTTTT
3934408 TT
1 TT
3934410 TCTCAAACAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 27 0.82
33 6 0.18
ACGTcount: A:0.31, C:0.10, G:0.04, T:0.54
Consensus pattern (33 bp):
TTCATACATATATAATAAATCTTTGATTCTTTT
Found at i:3934420 original size:36 final size:32
Alignment explanation
Indices: 3934343--3934425 Score: 103
Period size: 32 Copynumber: 2.5 Consensus size: 32
3934333 CAACTCAAAG
*
3934343 TTCATACATATATAATAAATCTTTGATTTTTT
1 TTCAAACATATATAATAAATCTTTGATTTTTT
* *
3934375 TTCATACATATATAGTAAATCTTTGATTCTTTTTT
1 TTCAAACATATATAATAAATCTTTGA---TTTTTT
3934410 TCTCAAACATATATAA
1 T-TCAAACATATATAA
3934426 AATATTTGGT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
32 25 0.57
35 7 0.16
36 12 0.27
ACGTcount: A:0.35, C:0.12, G:0.04, T:0.49
Consensus pattern (32 bp):
TTCAAACATATATAATAAATCTTTGATTTTTT
Found at i:3935635 original size:220 final size:215
Alignment explanation
Indices: 3935223--3935652 Score: 770
Period size: 220 Copynumber: 2.0 Consensus size: 215
3935213 ATAAATTAAA
3935223 ATTAAAACACATCTTATTTTCATATGCTTTAAAACCCCAAAACCCTTTCATGATCAAAACTTCAA
1 ATTAAAACACATCTTATTTTCATATGCTTTAAAACCCCAAAACCCTTTCATGATCAAAACTTCAA
3935288 AAACTAAAAAAACCTATAGTATTTAAAGAGAAAAGAAACCCAAAAAAAAAGCGTAGAAACATGAG
66 AAACTAAAAAAACCTATAGTATTTAAAGAGAAAAGAAACCCAAAAAAAAAGCGTAGAAACATGAG
3935353 CATCATCCACCTGTTACAGAACCAACCATTCACTGTCTTTATTGATCCGAACAACAGAATCCAGC
131 CATCATCCACCTGTTACAGAACCAACCATTCACTGTCTTTATTGATCCGAACAACAGAATCCAGC
3935418 CGTTTCTCAGGAACCCAAGC
196 CGTTTCTCAGGAACCCAAGC
*
3935438 ATTAAAACACATCTTATTTTCATATGCCTTTAAAACCCCAAAACCCTTTCATGATCGAAACTTCA
1 ATTAAAACACATCTTATTTTCATATG-CTTTAAAACCCCAAAACCCTTTCATGATCAAAACTTCA
* *
3935503 AAAACTGAACAAACCTATAGTATTTAAAGAGAAAAGAAACCCAAAAAAAAAAACAGCGTAGAAAC
65 AAAACTAAAAAAACCTATAGTATTTAAAGAGAAAAGAAACCC---AAAAAAAA-AGCGTAGAAAC
* *
3935568 ATTAGCATCATCCACTTGTTACAGAACCAACCATTCACTGTCTTTATTGATCCGAACAACAGAAT
126 ATGAGCATCATCCACCTGTTACAGAACCAACCATTCACTGTCTTTATTGATCCGAACAACAGAAT
3935633 CCAGCCGTTTCTCAGGAACC
191 CCAGCCGTTTCTCAGGAACC
3935653 AAATGTAAAC
Statistics
Matches: 205, Mismatches: 5, Indels: 5
0.95 0.02 0.02
Matches are distributed among these distances:
215 26 0.13
216 77 0.38
219 8 0.04
220 94 0.46
ACGTcount: A:0.42, C:0.24, G:0.10, T:0.24
Consensus pattern (215 bp):
ATTAAAACACATCTTATTTTCATATGCTTTAAAACCCCAAAACCCTTTCATGATCAAAACTTCAA
AAACTAAAAAAACCTATAGTATTTAAAGAGAAAAGAAACCCAAAAAAAAAGCGTAGAAACATGAG
CATCATCCACCTGTTACAGAACCAACCATTCACTGTCTTTATTGATCCGAACAACAGAATCCAGC
CGTTTCTCAGGAACCCAAGC
Found at i:3936683 original size:6 final size:7
Alignment explanation
Indices: 3936668--3936692 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
3936658 ACGTTTATGA
3936668 TTTTCTT
1 TTTTCTT
3936675 TTTTCTT
1 TTTTCTT
3936682 TTTTCTT
1 TTTTCTT
3936689 TTTT
1 TTTT
3936693 AGAAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTCTT
Found at i:3937204 original size:42 final size:43
Alignment explanation
Indices: 3937138--3937220 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 43
3937128 CTTTTAAGAA
3937138 AGTATTAAAAAATAAAAATATTTATCAAACATAATTTTAATTT
1 AGTATTAAAAAATAAAAATATTTATCAAACATAATTTTAATTT
3937181 AGTATTAAAAAAT-AAAATATTTATCAAACATAATTTTAAT
1 AGTATTAAAAAATAAAAATATTTATCAAACATAATTTTAAT
3937221 ATCTAAAAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 27 0.68
43 13 0.32
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (43 bp):
AGTATTAAAAAATAAAAATATTTATCAAACATAATTTTAATTT
Found at i:3948806 original size:227 final size:227
Alignment explanation
Indices: 3948368--3948823 Score: 646
Period size: 227 Copynumber: 2.0 Consensus size: 227
3948358 CACCTCTAAT
* * ***
3948368 CAGATAGGGGTTTGGTTCTATAATCAAATAATCAGACCCATCATTTAAAAGAATTTCACTCCAAC
1 CAGATAGAGGTTTGGTTCCATAATCAAATAATCAGACCCATCATTTAAAAGAAAACCACTCCAAC
* * * *
3948433 CAGTAACCATTCTAAAATTGAGATCAAAAGGTTTGAAATAGGAGGTTTAAATGCCAAGATACTCA
66 CAGTAACCATTCCAAAATTGAGATCAAAAGGCTTGAAATAGGAAGTTTAAATGCCAAGACACT-A
*
3948498 TACTTTTCACTGAGATAAACACATAACTAAACAGAATAATACCAAAGTTCACTTTAATTAGGAAC
130 TAATTTTCACTGAGATAAACACATAACTAAACAGAATAATACCAAAGTTCACTTTAATTAGGAAC
* *
3948563 ATACCAAAACTATACACCCAGAACTGAGCCAAC
195 ATACCAAAACTATACACCCAAAACTAAGCCAAC
* * *
3948596 CAGATAGAGGTTTGGTTCCATGATCAAATGATCAGATCCATCATTTTAAAA-ACAAACCACTCCA
1 CAGATAGAGGTTTGGTTCCATAATCAAATAATCAGACCCATCA-TTTAAAAGA-AAACCACTCCA
* *
3948660 ACCAGTAACCATTCCATAATTTAGATCAAAAGGCTTGAAATAGGAAGTTTAAATGCCAAGACACT
64 ACCAGTAACCATTCCAAAATTGAGATCAAAAGGCTTGAAATAGGAAGTTTAAATGCCAAGACACT
* * * * * *
3948725 -TAATTTTCACTGAGATAGACATATAACTAAAGAGAATAATACTACAGTTCACTTTAGTTAGGAA
129 ATAATTTTCACTGAGATAAACACATAACTAAACAGAATAATACCAAAGTTCACTTTAATTAGGAA
* *
3948789 TATACCAAAATTATACACCCAAAACTAAGCCAAC
194 CATACCAAAACTATACACCCAAAACTAAGCCAAC
3948823 C
1 C
3948824 TTAGTTTAAC
Statistics
Matches: 201, Mismatches: 25, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
227 88 0.44
228 39 0.19
229 74 0.37
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.26
Consensus pattern (227 bp):
CAGATAGAGGTTTGGTTCCATAATCAAATAATCAGACCCATCATTTAAAAGAAAACCACTCCAAC
CAGTAACCATTCCAAAATTGAGATCAAAAGGCTTGAAATAGGAAGTTTAAATGCCAAGACACTAT
AATTTTCACTGAGATAAACACATAACTAAACAGAATAATACCAAAGTTCACTTTAATTAGGAACA
TACCAAAACTATACACCCAAAACTAAGCCAAC
Found at i:3948905 original size:33 final size:34
Alignment explanation
Indices: 3948846--3948914 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 34
3948836 TGCACAAGCT
3948846 AAGATCAATGAGTCAGCAAAATGCTTTCAGTTTC
1 AAGATCAATGAGTCAGCAAAATGCTTTCAGTTTC
*
3948880 AAGATCAATGAGT-AGGAAAATGCTTTCAGTTTC
1 AAGATCAATGAGTCAGCAAAATGCTTTCAGTTTC
3948913 AA
1 AA
3948915 CCAACTTTAC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 21 0.62
34 13 0.38
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (34 bp):
AAGATCAATGAGTCAGCAAAATGCTTTCAGTTTC
Found at i:3950530 original size:7 final size:7
Alignment explanation
Indices: 3950518--3950544 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
3950508 TTTGTTGCGT
3950518 TGGAAAA
1 TGGAAAA
3950525 TGGAAAA
1 TGGAAAA
3950532 TGGAAAA
1 TGGAAAA
3950539 TGGAAA
1 TGGAAA
3950545 GCGAGTGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.30, T:0.15
Consensus pattern (7 bp):
TGGAAAA
Found at i:3958049 original size:19 final size:19
Alignment explanation
Indices: 3957997--3958049 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 19
3957987 ATATATATAT
3957997 ATATTATTACCATAAATTA
1 ATATTATTACCATAAATTA
* * *
3958016 GT-TT-GT--CAAAAATTA
1 ATATTATTACCATAAATTA
3958031 ATATTATTACCATAAATTA
1 ATATTATTACCATAAATTA
3958050 TTAGTACATT
Statistics
Matches: 24, Mismatches: 6, Indels: 8
0.63 0.16 0.21
Matches are distributed among these distances:
15 9 0.38
16 2 0.08
17 2 0.08
18 2 0.08
19 9 0.38
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (19 bp):
ATATTATTACCATAAATTA
Found at i:3971576 original size:41 final size:41
Alignment explanation
Indices: 3971500--3971579 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
3971490 TGTTGTTTTT
* * * *
3971500 AATTTAAATTTAATTTAAAAATTAAATATATATTAAATTCA
1 AATTAAAATTTAATTTAAAAAATAAATAAAAATTAAATTCA
3971541 AATTAAAATTTAATTGTAAAAAATAAA-AAAAATTAAATT
1 AATTAAAATTTAATT-TAAAAAATAAATAAAAATTAAATT
3971580 GAACTAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 24 0.71
42 10 0.29
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (41 bp):
AATTAAAATTTAATTTAAAAAATAAATAAAAATTAAATTCA
Found at i:3971663 original size:12 final size:12
Alignment explanation
Indices: 3971648--3971693 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
3971638 AAATAATTAT
*
3971648 TTTATATATAAA
1 TTTATATAAAAA
*
3971660 TTTATTTAAAAA
1 TTTATATAAAAA
3971672 TTTA-ATAAAAA
1 TTTATATAAAAA
*
3971683 -TAATATAAAAA
1 TTTATATAAAAA
3971694 ATAAAATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
10 2 0.07
11 13 0.45
12 14 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TTTATATAAAAA
Found at i:3974094 original size:12 final size:12
Alignment explanation
Indices: 3974077--3974101 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3974067 GTCGACCCCA
3974077 TCTAATTACTAT
1 TCTAATTACTAT
3974089 TCTAATTACTAT
1 TCTAATTACTAT
3974101 T
1 T
3974102 ATCAATCTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (12 bp):
TCTAATTACTAT
Found at i:3981484 original size:25 final size:25
Alignment explanation
Indices: 3981450--3981500 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
3981440 AGACCTTACA
*
3981450 CATCTGGTAACTCATGCTAAGAAAT
1 CATCTAGTAACTCATGCTAAGAAAT
*
3981475 CATCTAGTAACTCATGTTAAGAAAT
1 CATCTAGTAACTCATGCTAAGAAAT
3981500 C
1 C
3981501 CTGCTAGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (25 bp):
CATCTAGTAACTCATGCTAAGAAAT
Found at i:3985248 original size:2 final size:2
Alignment explanation
Indices: 3985243--3985270 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3985233 TTAATAACCA
3985243 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3985271 TGCCAGCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3988809 original size:23 final size:22
Alignment explanation
Indices: 3988766--3988813 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
3988756 AAAAAAGTAA
*
3988766 ATTTATTTATTTTAGATTATTAC
1 ATTTATTTATTTTAGAATATT-C
*
3988789 ATTTATTTTCTTTTA-AATATTC
1 ATTTA-TTTATTTTAGAATATTC
3988811 ATT
1 ATT
3988814 ACTTTTACCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 4 0.18
23 10 0.45
24 8 0.36
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.62
Consensus pattern (22 bp):
ATTTATTTATTTTAGAATATTC
Found at i:3991143 original size:33 final size:34
Alignment explanation
Indices: 3991106--3991170 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
3991096 ATATTGAAAG
*
3991106 AAATACAATATTAACATA-TAAATTTAGTTAAAA
1 AAATACAATATTAACATATTAAATTTAATTAAAA
* *
3991139 AAATATAATATTATCATATTAAATTTAATTAA
1 AAATACAATATTAACATATTAAATTTAATTAA
3991171 TTAAAATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 16 0.57
34 12 0.43
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (34 bp):
AAATACAATATTAACATATTAAATTTAATTAAAA
Found at i:4002152 original size:7 final size:7
Alignment explanation
Indices: 4002142--4002166 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4002132 AAAATAATAA
4002142 AATATTT
1 AATATTT
4002149 AATATTT
1 AATATTT
4002156 AATATTT
1 AATATTT
4002163 AATA
1 AATA
4002167 AATACATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
AATATTT
Found at i:4013181 original size:16 final size:17
Alignment explanation
Indices: 4013160--4013198 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
4013150 TAAACCAAAG
4013160 TAAAAACAAAAAAAAT-
1 TAAAAACAAAAAAAATA
**
4013176 TAAAAATTAAAAAAATA
1 TAAAAACAAAAAAAATA
4013193 TAAAAA
1 TAAAAA
4013199 AGTATAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (17 bp):
TAAAAACAAAAAAAATA
Found at i:4013198 original size:18 final size:18
Alignment explanation
Indices: 4013167--4013209 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
4013157 AAGTAAAAAC
* *
4013167 AAAAAAA-ATTAAAAATT
1 AAAAAAATATAAAAAAGT
4013184 AAAAAAATATAAAAAAGT
1 AAAAAAATATAAAAAAGT
*
4013202 ATAAAAAT
1 AAAAAAAT
4013210 TTTTAGAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (18 bp):
AAAAAAATATAAAAAAGT
Found at i:4015966 original size:25 final size:27
Alignment explanation
Indices: 4015937--4015989 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
4015927 TAATTTTTTT
*
4015937 TTTAA-ATTTTGAAGT-AAATAAGATA
1 TTTAATATTTTAAAGTAAAATAAGATA
* *
4015962 TTTAATTTTTTAAATTAAAATAAGATA
1 TTTAATATTTTAAAGTAAAATAAGATA
4015989 T
1 T
4015990 ATCATATCTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.22
26 7 0.30
27 11 0.48
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (27 bp):
TTTAATATTTTAAAGTAAAATAAGATA
Found at i:4016908 original size:14 final size:14
Alignment explanation
Indices: 4016889--4016929 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
4016879 CATAAGTTGA
4016889 AATTTTTATATTAT
1 AATTTTTATATTAT
* *
4016903 AATTTTTAGATTTT
1 AATTTTTATATTAT
4016917 AATTTTT-TATTAT
1 AATTTTTATATTAT
4016930 CAATAAAACT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (14 bp):
AATTTTTATATTAT
Found at i:4017977 original size:68 final size:68
Alignment explanation
Indices: 4017868--4018000 Score: 248
Period size: 68 Copynumber: 2.0 Consensus size: 68
4017858 ATGGTAATGG
*
4017868 TAAGCATTTAAATTTTGTTTCTTTTTCTTTCCCTCCTTTAAGGACTAGAAGAAATTGAATTTGGA
1 TAAGCATTTAAATTTTGTTTCTTTTTCTATCCCTCCTTTAAGGACTAGAAGAAATTGAATTTGGA
4017933 TGT
66 TGT
*
4017936 TAAGCATTTAAGTTTTGTTTCTTTTTCTATCCCTCCTTTAAGGACTAGAAGAAATTGAATTTGGA
1 TAAGCATTTAAATTTTGTTTCTTTTTCTATCCCTCCTTTAAGGACTAGAAGAAATTGAATTTGGA
4018001 GGTCTTGAAG
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 63 1.00
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (68 bp):
TAAGCATTTAAATTTTGTTTCTTTTTCTATCCCTCCTTTAAGGACTAGAAGAAATTGAATTTGGA
TGT
Found at i:4025678 original size:25 final size:24
Alignment explanation
Indices: 4025656--4025705 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
4025646 ATCAAATTTG
4025656 AATCAAATTTTAAATATTAAATTTAA
1 AATCAAA-TTTAAAT-TTAAATTTAA
*
4025682 AATTAAATTTAAATTTAAATTTAA
1 AATCAAATTTAAATTTAAATTTAA
4025706 TACTATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.43
25 7 0.30
26 6 0.26
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
AATCAAATTTAAATTTAAATTTAA
Found at i:4025724 original size:6 final size:6
Alignment explanation
Indices: 4025664--4025705 Score: 66
Period size: 6 Copynumber: 6.8 Consensus size: 6
4025654 TGAATCAAAT
*
4025664 TTTAAA TATTAAA TTTAAA ATTAAA TTTAAA TTTAAA TTTAA
1 TTTAAA T-TTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
4025706 TACTATATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
6 27 0.82
7 6 0.18
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:4036207 original size:2 final size:2
Alignment explanation
Indices: 4036200--4036234 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4036190 CATCCATGTT
4036200 AG AG AG 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 AG AG AG A
4036235 CCTGGATCCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4043344 original size:49 final size:50
Alignment explanation
Indices: 4043291--4043395 Score: 160
Period size: 50 Copynumber: 2.1 Consensus size: 50
4043281 GCACATTCAA
*
4043291 ATTTGATGATAAAGTT-AACAAGGACTAAT-CCAACCTCAAACACATTGTG
1 ATTTGATGATAAAGTTAAACAAGGACTAATCCCAACC-CAAACACATTATG
* *
4043340 ATTTGATGATAAAGTTAAACAAGGATTAATCCCAACCCAGACACATTATG
1 ATTTGATGATAAAGTTAAACAAGGACTAATCCCAACCCAAACACATTATG
4043390 ATTTGA
1 ATTTGA
4043396 AAAATAGCTT
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
49 16 0.31
50 29 0.57
51 6 0.12
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (50 bp):
ATTTGATGATAAAGTTAAACAAGGACTAATCCCAACCCAAACACATTATG
Found at i:4046306 original size:28 final size:28
Alignment explanation
Indices: 4046253--4046308 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
4046243 TTAAATTAAA
* *
4046253 AAGCTCTTTAGAGAGAGTAAATGAGAGC
1 AAGCTCCTTAGAGAGAGTAAAGGAGAGC
4046281 AAGCTCCTTAGAGAGAG-AAAGGGAGAGC
1 AAGCTCCTTAGAGAGAGTAAA-GGAGAGC
4046309 GATTTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.12
28 22 0.88
ACGTcount: A:0.39, C:0.12, G:0.32, T:0.16
Consensus pattern (28 bp):
AAGCTCCTTAGAGAGAGTAAAGGAGAGC
Found at i:4047610 original size:2 final size:2
Alignment explanation
Indices: 4047603--4047628 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4047593 TTTGAAACAA
4047603 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4047629 TTGGTCATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4051463 original size:2 final size:2
Alignment explanation
Indices: 4051456--4051496 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
4051446 ATAACCGCCT
* *
4051456 TA TA TA TA TA TA CA TA TA CA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4051497 CCTCGACAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:4052568 original size:20 final size:20
Alignment explanation
Indices: 4052543--4052614 Score: 55
Period size: 20 Copynumber: 3.7 Consensus size: 20
4052533 AAGATGATAA
4052543 TATTTTATTAATAATTAAAT
1 TATTTTATTAATAATTAAAT
* * *
4052563 TATTTTAATTTATAAAT-ATT
1 TATTTT-ATTAATAATTAAAT
4052583 TATTTTA--AA-AATTGATAAT
1 TATTTTATTAATAATT-A-AAT
4052602 TA-TTTATTAATAA
1 TATTTTATTAATAA
4052615 ATTATCATCA
Statistics
Matches: 39, Mismatches: 6, Indels: 13
0.67 0.10 0.22
Matches are distributed among these distances:
16 3 0.08
17 1 0.03
18 4 0.10
19 5 0.13
20 16 0.41
21 10 0.26
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (20 bp):
TATTTTATTAATAATTAAAT
Found at i:4068121 original size:2 final size:2
Alignment explanation
Indices: 4068114--4068148 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
4068104 CTATGCCCAT
*
4068114 TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4068149 GTAAGTATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4068632 original size:20 final size:20
Alignment explanation
Indices: 4068594--4068632 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4068584 AGCTTTCTTT
* *
4068594 ATATTAAAAATATTATTTAA
1 ATATTAAAAAGAATATTTAA
*
4068614 ATATTAAAAAGAATCTTTA
1 ATATTAAAAAGAATATTTA
4068633 TGTTAATTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (20 bp):
ATATTAAAAAGAATATTTAA
Found at i:4069374 original size:4 final size:4
Alignment explanation
Indices: 4069367--4069391 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
4069357 CATATATATA
4069367 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
4069392 TTCAATCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:4072971 original size:17 final size:17
Alignment explanation
Indices: 4072945--4072979 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4072935 TTAAGTAATG
4072945 TAATAATAAAATAAAAT
1 TAATAATAAAATAAAAT
* *
4072962 TAATAGTAAAATATAAT
1 TAATAATAAAATAAAAT
4072979 T
1 T
4072980 TTGAACGTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
TAATAATAAAATAAAAT
Found at i:4073154 original size:10 final size:10
Alignment explanation
Indices: 4073139--4073172 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
4073129 AAATTTAGTT
*
4073139 TTTATTTTTA
1 TTTATTATTA
4073149 TTTATTATTA
1 TTTATTATTA
4073159 TTTATTAATTA
1 TTTATT-ATTA
4073170 TTT
1 TTT
4073173 TTGTTATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 15 0.68
11 7 0.32
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTATTATTA
Found at i:4074658 original size:27 final size:29
Alignment explanation
Indices: 4074628--4074690 Score: 85
Period size: 27 Copynumber: 2.2 Consensus size: 29
4074618 TTTATTTAAG
*
4074628 ATATTTTAAAATTATATTTTAT-TT-TTT
1 ATATTTTAAAATAATATTTTATGTTCTTT
*
4074655 ATATTTTAAAATAATTTTTTATGTTCTTT
1 ATATTTTAAAATAATATTTTATGTTCTTT
*
4074684 TTATTTT
1 ATATTTT
4074691 TGATATTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 20 0.65
28 2 0.06
29 9 0.29
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (29 bp):
ATATTTTAAAATAATATTTTATGTTCTTT
Found at i:4089076 original size:2 final size:2
Alignment explanation
Indices: 4089071--4089096 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4089061 GAAAAAAAAA
4089071 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4089097 CCTTATTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4091898 original size:24 final size:26
Alignment explanation
Indices: 4091848--4091899 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
4091838 CAAATTGTTT
* **
4091848 AAATATAAAATTTTTATCTTATATTA
1 AAATATAAAATTTTAATCAAATATTA
4091874 AAATATAAAA-TTTAATCAAAT-TTA
1 AAATATAAAATTTTAATCAAATATTA
4091898 AA
1 AA
4091900 TTTTAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 5 0.22
25 8 0.35
26 10 0.43
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (26 bp):
AAATATAAAATTTTAATCAAATATTA
Found at i:4092274 original size:37 final size:37
Alignment explanation
Indices: 4092224--4092297 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
4092214 ATAAGAGATT
4092224 TGATGCTTGAGTGAGCATCGTCAGATTCATCCCCCCC
1 TGATGCTTGAGTGAGCATCGTCAGATTCATCCCCCCC
4092261 TGATGCTTGAGTGAGCATCGTCAGATTCATCCCCCCC
1 TGATGCTTGAGTGAGCATCGTCAGATTCATCCCCCCC
4092298 CGCACGCTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.19, C:0.32, G:0.22, T:0.27
Consensus pattern (37 bp):
TGATGCTTGAGTGAGCATCGTCAGATTCATCCCCCCC
Found at i:4093009 original size:103 final size:103
Alignment explanation
Indices: 4092896--4093091 Score: 331
Period size: 103 Copynumber: 1.9 Consensus size: 103
4092886 CAATACAATA
* *
4092896 TTTTTTATTACAAATCGTTTTTGACAACAATTATTTGTTATTGTAATAATTACCTTAATAATTAC
1 TTTTTTATTACAAATCGTCTTTGACAACAATTATTTGTTATTGCAATAATTACCTTAATAATTAC
*
4092961 AATAATCATTG-CCAAAGTTTCTTACAAAATGCAATATT
66 AATAATCATTGTCAAAAG-TTCTTACAAAATGCAATATT
* *
4092999 TTTTTTATTACAAATCGTCTTTGACAACGATTATTTGTTATTGCAATAATTACTTTAATAATTAC
1 TTTTTTATTACAAATCGTCTTTGACAACAATTATTTGTTATTGCAATAATTACCTTAATAATTAC
4093064 AATAATCATTGTCAAAAGTTCTTACAAA
66 AATAATCATTGTCAAAAGTTCTTACAAA
4093092 CTATAATTTA
Statistics
Matches: 87, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
103 82 0.94
104 5 0.06
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (103 bp):
TTTTTTATTACAAATCGTCTTTGACAACAATTATTTGTTATTGCAATAATTACCTTAATAATTAC
AATAATCATTGTCAAAAGTTCTTACAAAATGCAATATT
Found at i:4094087 original size:16 final size:16
Alignment explanation
Indices: 4094066--4094109 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
4094056 ATTATTTTTT
*
4094066 AAATATAAATATTTAA
1 AAATATAAATATATAA
*
4094082 AAATATCAATATATAA
1 AAATATAAATATATAA
4094098 ATATATATAAAT
1 A-A-ATATAAAT
4094110 TAAATAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 15 0.65
17 1 0.04
18 7 0.30
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (16 bp):
AAATATAAATATATAA
Found at i:4094342 original size:7 final size:7
Alignment explanation
Indices: 4094330--4094363 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
4094320 GCGTCGGGGA
4094330 GAGAAAT
1 GAGAAAT
4094337 GAGAAAT
1 GAGAAAT
4094344 GAGAAAT
1 GAGAAAT
4094351 GAGAAAT
1 GAGAAAT
4094358 GAGAAA
1 GAGAAA
4094364 GAAGGGATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.29, T:0.12
Consensus pattern (7 bp):
GAGAAAT
Found at i:4097030 original size:224 final size:224
Alignment explanation
Indices: 4096641--4097063 Score: 686
Period size: 224 Copynumber: 1.9 Consensus size: 224
4096631 ATAAAAAATT
* * *
4096641 ATATATTTATTAGATGTGTAATAACACTACTTCAACAGACATCCATCATTGTAGGCAAAAATAAA
1 ATATATTTATTAGATGTGCAATAACACCACTTCAACAGACATCCATCATTGTAAGCAAAAATAAA
* * *
4096706 AAAAATCTATCAAATGACAGACTTAGAAAAAGTAATAGAAAAAAATTTTAACTCTGATATCATGT
66 AAAAATCTATCAAATGACAGACTTAGAAAAAGCAATAAAAAAAAATTATAACTCTGATATCATGT
*
4096771 TAAGTATCCAACCTAAAACCAATTGACAGTAAGTAT-AAAACTCAACCTAAATATAAGATTATAA
131 TAAGCATCCAACCTAAAACCAATTGACAGTAAGTATAAAAACTCAACCTAAATATAAGATTATAA
4096835 AAAAAATCTATCACATGACAGACTTAGAA
196 AAAAAATCTATCACATGACAGACTTAGAA
* *
4096864 ATATATTTATTAGATGTGCAATAACACCACTTCAACAGGCATCCATCATGTGTAAGTAAAAATAA
1 ATATATTTATTAGATGTGCAATAACACCACTTCAACAGACATCCATCAT-TGTAAGCAAAAATAA
* * * * * *
4096929 AAAAAATTTATCACATGATAGACTTAGAAAAGGCAATAAAAAAAAATTATAACTTTGGTATCATG
65 AAAAAATCTATCAAATGACAGACTTAGAAAAAGCAATAAAAAAAAATTATAACTCTGATATCATG
*
4096994 TTAAGCATCCAACCTAAAATCAATTGACAGTAAGTATAAAAACTCAACCTAAATATAAGATTATA
130 TTAAGCATCCAACCTAAAACCAATTGACAGTAAGTATAAAAACTCAACCTAAATATAAGATTATA
4097059 AAAAA
195 AAAAA
4097064 TTAGATATTT
Statistics
Matches: 182, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
223 46 0.25
224 104 0.57
225 32 0.18
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.27
Consensus pattern (224 bp):
ATATATTTATTAGATGTGCAATAACACCACTTCAACAGACATCCATCATTGTAAGCAAAAATAAA
AAAAATCTATCAAATGACAGACTTAGAAAAAGCAATAAAAAAAAATTATAACTCTGATATCATGT
TAAGCATCCAACCTAAAACCAATTGACAGTAAGTATAAAAACTCAACCTAAATATAAGATTATAA
AAAAAATCTATCACATGACAGACTTAGAA
Found at i:4097167 original size:2 final size:2
Alignment explanation
Indices: 4097162--4097199 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4097152 GAAAAAACCA
4097162 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4097200 CATAATATTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4101633 original size:18 final size:18
Alignment explanation
Indices: 4101610--4101661 Score: 50
Period size: 21 Copynumber: 2.7 Consensus size: 18
4101600 TAGATGATTT
4101610 TAATAAAATTAAAAATAA
1 TAATAAAATTAAAAATAA
* **
4101628 TAATAATAATATTTATTATAA
1 TAAT-A-AA-ATTAAAAATAA
4101649 TAATAAAATTAAA
1 TAATAAAATTAAA
4101662 TATTGTAGAG
Statistics
Matches: 26, Mismatches: 5, Indels: 6
0.70 0.14 0.16
Matches are distributed among these distances:
18 8 0.31
19 3 0.12
20 3 0.12
21 12 0.46
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TAATAAAATTAAAAATAA
Found at i:4101665 original size:21 final size:21
Alignment explanation
Indices: 4101610--4101665 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 21
4101600 TAGATGATTT
* *
4101610 TAATAAAATTAAAAATAATAA
1 TAATAAAATTAAATATTATAA
*
4101631 TAATAATATT---TATTATAA
1 TAATAAAATTAAATATTATAA
4101649 TAATAAAATTAAATATT
1 TAATAAAATTAAATATT
4101666 GTAGAGGTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
18 15 0.54
21 13 0.46
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
TAATAAAATTAAATATTATAA
Found at i:4101871 original size:27 final size:26
Alignment explanation
Indices: 4101812--4101872 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
4101802 TAATACAGAC
* * *
4101812 TTTAAATTATTTAATATTTTTAAATT
1 TTTAAATTATTAAAAATTTTAAAATT
*
4101838 TAATAAATTATTAAAAATTTTAAAATAT
1 T-TTAAATTATTAAAAATTTTAAAAT-T
4101866 TTTAAAT
1 TTTAAAT
4101873 AAATTAATAG
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 1 0.04
27 25 0.89
28 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
TTTAAATTATTAAAAATTTTAAAATT
Found at i:4105792 original size:110 final size:111
Alignment explanation
Indices: 4105677--4105875 Score: 278
Period size: 111 Copynumber: 1.8 Consensus size: 111
4105667 ATTTTTTTAT
* * *
4105677 CATAATTATGAAAATAT-TTTTATATTA-TATTTGACTAAAATTAATATAATACTC-TTTAACTA
1 CATAATTATGAAAATATATTTCATATTATTA-TTGACTAAAATTAATAAAATA-TCATTTAACAA
*
4105739 TAATTATAAAAATATCCTTTCAATTACTTCGTATAATACTTTTTCCAA
64 TAATTACAAAAATATCCTTTCAATTACTTCGTATAATACTTTTTCCAA
* * *
4105787 CATAATTATGAAAATATATTTCATATTATTATTGGCTAAAATTATTAAAATATCATTTAAGAATA
1 CATAATTATGAAAATATATTTCATATTATTATTGACTAAAATTAATAAAATATCATTTAACAATA
* *
4105852 ATTACAAAAATATCTTTTTAATTA
66 ATTACAAAAATATCCTTTCAATTA
4105876 TAATTACTTA
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
110 19 0.25
111 56 0.73
112 2 0.03
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.44
Consensus pattern (111 bp):
CATAATTATGAAAATATATTTCATATTATTATTGACTAAAATTAATAAAATATCATTTAACAATA
ATTACAAAAATATCCTTTCAATTACTTCGTATAATACTTTTTCCAA
Found at i:4106174 original size:61 final size:59
Alignment explanation
Indices: 4106103--4106240 Score: 154
Period size: 61 Copynumber: 2.3 Consensus size: 59
4106093 CTCCTACAAC
* *
4106103 CATAGTTACAAAAATACCATC-CA-ACCATCATTTGTCAAAATTATTATAATACCTTTCTTAT
1 CATAATTACAAAAATACC-TCTCATACCAT-ATTTATCAAAATTATTATAATACC-TT-TTAT
* ** *
4106164 CATAATTACAAAAATACCTCTTATATTATATTTATCAAAATTATTATAATATCTTTTAT
1 CATAATTACAAAAATACCTCTCATACCATATTTATCAAAATTATTATAATACCTTTTAT
**
4106223 CATAATTATGAAAATACC
1 CATAATTACAAAAATACC
4106241 CTATTACAAT
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
59 20 0.30
60 4 0.06
61 40 0.60
62 3 0.04
ACGTcount: A:0.42, C:0.17, G:0.02, T:0.39
Consensus pattern (59 bp):
CATAATTACAAAAATACCTCTCATACCATATTTATCAAAATTATTATAATACCTTTTAT
Found at i:4109179 original size:4 final size:4
Alignment explanation
Indices: 4109172--4109211 Score: 80
Period size: 4 Copynumber: 10.0 Consensus size: 4
4109162 TATATATATA
4109172 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
4109212 CGAGAAGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:4119750 original size:20 final size:20
Alignment explanation
Indices: 4119712--4119750 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
4119702 GAATAATGAG
*
4119712 AATTTAAATTGAGTTAATTT
1 AATTTAAATTGAGTAAATTT
4119732 AATTTAAATT-AGATAAATT
1 AATTTAAATTGAG-TAAATT
4119751 AAAAAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (20 bp):
AATTTAAATTGAGTAAATTT
Found at i:4124159 original size:160 final size:160
Alignment explanation
Indices: 4123872--4124197 Score: 571
Period size: 160 Copynumber: 2.0 Consensus size: 160
4123862 CAAATACAGA
*
4123872 AAAATAGATTTCAAATTTTAAACACTAAAATGTGCACTCTTTTGCAACGCAAAACCTTTAAAAGT
1 AAAATAGATTTCAAATTTTAAACACTAAAATATGCACTCTTTTGCAACGCAAAACCTTTAAAAGT
*
4123937 TCCTATCCTGTTTCTTTTCATCATTTTCTCAGCAAGCAAACATATCAATTTCAGCCTTTTAAGTT
66 TCCCATCCTGTTTCTTTTCATCATTTTCTCAGCAAGCAAACATATCAATTTCAGCCTTTTAAGTT
*
4124002 ATAACAACAAAATATTCATGATTTTCCATT
131 ATAACAACAAAATATCCATGATTTTCCATT
* * * *
4124032 GAAATATATTTCAGATTTTCAACACTAAAATATGCACTCTTTTGCAACGCAAAACCTTTAAAAGT
1 AAAATAGATTTCAAATTTTAAACACTAAAATATGCACTCTTTTGCAACGCAAAACCTTTAAAAGT
*
4124097 TCCCATCCTGTTTCTTTTCATCATTTTCTCAGCAAGCAAACATATCAATTTCAGCGTTTTAAGTT
66 TCCCATCCTGTTTCTTTTCATCATTTTCTCAGCAAGCAAACATATCAATTTCAGCCTTTTAAGTT
*
4124162 ATAACAATAAAATATCCATGATTTTCCATT
131 ATAACAACAAAATATCCATGATTTTCCATT
4124192 AAAATA
1 AAAATA
4124198 ACATAAAATT
Statistics
Matches: 156, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
160 156 1.00
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.37
Consensus pattern (160 bp):
AAAATAGATTTCAAATTTTAAACACTAAAATATGCACTCTTTTGCAACGCAAAACCTTTAAAAGT
TCCCATCCTGTTTCTTTTCATCATTTTCTCAGCAAGCAAACATATCAATTTCAGCCTTTTAAGTT
ATAACAACAAAATATCCATGATTTTCCATT
Found at i:4125018 original size:3 final size:3
Alignment explanation
Indices: 4125012--4125044 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
4125002 TATGTTTTTT
4125012 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4125045 CTAGCAAGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4126373 original size:20 final size:21
Alignment explanation
Indices: 4126337--4126384 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
4126327 CCCGAAATTA
4126337 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA-TTTTTAAAAT
4126359 ATAAAATATTA-TTTTAAAAT
1 ATAAAATATTATTTTTAAAAT
4126379 ATAAAA
1 ATAAAA
4126385 AAATATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 15 0.58
22 11 0.42
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:4126386 original size:22 final size:22
Alignment explanation
Indices: 4126331--4126422 Score: 68
Period size: 22 Copynumber: 4.0 Consensus size: 22
4126321 ATCCGACCCG
4126331 AAAT-TAATAAAATATTATTTTTTA
1 AAATATAA-AAAATATTA--TTTTA
4126355 AAATAT--AAAATATTATTTTA
1 AAATATAAAAAATATTATTTTA
4126375 AAATATAAAAAAATATATATATATTA
1 AAATAT-AAAAAATAT-TAT-T-TTA
4126401 AAA-ATTAAAAAATAATT-TTTTA
1 AAATA-TAAAAAAT-ATTATTTTA
4126423 TATAATATCG
Statistics
Matches: 59, Mismatches: 0, Indels: 20
0.75 0.00 0.25
Matches are distributed among these distances:
20 11 0.19
22 12 0.20
23 8 0.14
24 8 0.14
25 11 0.19
26 9 0.15
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AAATATAAAAAATATTATTTTA
Found at i:4126392 original size:25 final size:24
Alignment explanation
Indices: 4126364--4126422 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
4126354 AAAATATAAA
4126364 ATATTATTTTAAAATATAAAAAAAT
1 ATATTATTTTAAAA-ATAAAAAAAT
* *
4126389 ATATATATATTAAAAATTAAAAAAT
1 ATAT-TATTTTAAAAATAAAAAAAT
4126414 A-ATT-TTTTA
1 ATATTATTTTA
4126423 TATAATATCG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 4 0.13
23 1 0.03
24 2 0.07
25 14 0.47
26 9 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
ATATTATTTTAAAAATAAAAAAAT
Found at i:4130372 original size:13 final size:15
Alignment explanation
Indices: 4130344--4130377 Score: 54
Period size: 13 Copynumber: 2.4 Consensus size: 15
4130334 ACAGCCTAAA
4130344 AAAAATAAAGAAGCT
1 AAAAATAAAGAAGCT
4130359 AAAAA-AAA-AAGCT
1 AAAAATAAAGAAGCT
4130372 AAAAAT
1 AAAAAT
4130378 TTTTTATTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 10 0.56
14 3 0.17
15 5 0.28
ACGTcount: A:0.74, C:0.06, G:0.09, T:0.12
Consensus pattern (15 bp):
AAAAATAAAGAAGCT
Found at i:4137508 original size:15 final size:15
Alignment explanation
Indices: 4137488--4137517 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4137478 ATGTTCGAAT
*
4137488 AAATGAATTTTAAAA
1 AAATGAATTTGAAAA
4137503 AAATGAATTTGAAAA
1 AAATGAATTTGAAAA
4137518 TTCATTTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (15 bp):
AAATGAATTTGAAAA
Found at i:4152213 original size:30 final size:29
Alignment explanation
Indices: 4152151--4152213 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
4152141 ACTATTTTAC
* *
4152151 TTAAATAAATTTTTATATTTTTATTGTAT
1 TTAAATAAATTTTTATATTTTAATTATAT
4152180 TTAAATAAATTTTTAT-TCTTTAATTTATAT
1 TTAAATAAATTTTTATAT-TTTAA-TTATAT
4152210 TTAA
1 TTAA
4152214 TTAAGTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 1 0.03
29 20 0.67
30 9 0.30
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (29 bp):
TTAAATAAATTTTTATATTTTAATTATAT
Found at i:4152289 original size:30 final size:30
Alignment explanation
Indices: 4152248--4152327 Score: 117
Period size: 30 Copynumber: 2.7 Consensus size: 30
4152238 TGATTATATT
*
4152248 AAAGGTTTATTTGAATATAAATTAAAAGT-
1 AAAGATTTATTTGAATATAAATTAAAAGTA
*
4152277 TAAGAATTTATTTGAATATAAATTAAAAGTA
1 AAAG-ATTTATTTGAATATAAATTAAAAGTA
*
4152308 AAAGATTTATTTGAAAATAA
1 AAAGATTTATTTGAATATAA
4152328 TAAAAATATA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
29 3 0.07
30 39 0.87
31 3 0.07
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (30 bp):
AAAGATTTATTTGAATATAAATTAAAAGTA
Found at i:4152471 original size:21 final size:21
Alignment explanation
Indices: 4152442--4152481 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4152432 AAATATTAAT
*
4152442 AAAGTAAAAAAAAAGAAAAGG
1 AAAGGAAAAAAAAAGAAAAGG
*
4152463 AAAGGAAAAAAATAGAAAA
1 AAAGGAAAAAAAAAGAAAA
4152482 TAAAGTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (21 bp):
AAAGGAAAAAAAAAGAAAAGG
Found at i:4154252 original size:19 final size:19
Alignment explanation
Indices: 4154228--4154269 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
4154218 ACAAATGTAT
4154228 TGGTTTCTAATTGATTTAA
1 TGGTTTCTAATTGATTTAA
**
4154247 TGGTTTCTAATTTTTTTAA
1 TGGTTTCTAATTGATTTAA
4154266 TGGT
1 TGGT
4154270 CTCCTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.21, C:0.05, G:0.17, T:0.57
Consensus pattern (19 bp):
TGGTTTCTAATTGATTTAA
Found at i:4154278 original size:19 final size:19
Alignment explanation
Indices: 4154228--4154279 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
4154218 ACAAATGTAT
* **
4154228 TGGTTTCTAATTGATTTAA
1 TGGTTCCTAATTTTTTTAA
*
4154247 TGGTTTCTAATTTTTTTAA
1 TGGTTCCTAATTTTTTTAA
4154266 TGGTCTCCT-ATTTT
1 TGGT-TCCTAATTTT
4154280 CAATTTTCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 26 0.90
20 3 0.10
ACGTcount: A:0.19, C:0.10, G:0.13, T:0.58
Consensus pattern (19 bp):
TGGTTCCTAATTTTTTTAA
Found at i:4157264 original size:87 final size:87
Alignment explanation
Indices: 4157105--4157272 Score: 248
Period size: 87 Copynumber: 1.9 Consensus size: 87
4157095 GGAATTTTCC
* *
4157105 AATAAAGCAAAAAAGTTTGGAATTGTGAAAAATCATACCCATACTTAATAAAAGCATAATGCACC
1 AATAAAGCAAAAAAGTTTGGAATTGTGAAAAATCATACCCATACTTAATAAAAGCATAAAGCACA
*
4157170 TCGTTGATTAGGGTTTGCTAAG
66 TCCTTGATTAGGGTTTGCTAAG
* * * * *
4157192 AATAACGCAAGAAAGTTTGGAATTGTGGAAAATCATACCCATCCTCT-ATAGAAGCATAAAGCAC
1 AATAAAGCAAAAAAGTTTGGAATTGTGAAAAATCATACCCATACT-TAATAAAAGCATAAAGCAC
4157256 ATCCTTGATTAGGGTTT
65 ATCCTTGATTAGGGTTT
4157273 ACTGGTTAGA
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
87 71 0.99
88 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.27
Consensus pattern (87 bp):
AATAAAGCAAAAAAGTTTGGAATTGTGAAAAATCATACCCATACTTAATAAAAGCATAAAGCACA
TCCTTGATTAGGGTTTGCTAAG
Found at i:4158963 original size:66 final size:63
Alignment explanation
Indices: 4158869--4158999 Score: 208
Period size: 66 Copynumber: 2.0 Consensus size: 63
4158859 TGTTTAAAAG
*
4158869 AATTGAAATTCATCAAAATTATAATTTTACATCTAAAATATAAATTATTATAAATTATAATTT
1 AATTGAAATTCATCAAAATTATAATTTTACATCTAAAATAGAAATTATTATAAATTATAATTT
* *
4158932 AATTGAAATTCATTGAATTAATTATAATTTTACATCTAAAATAGAAATTTTTATAAATTATAATT
1 AATTGAAATTCA-TCAA--AATTATAATTTTACATCTAAAATAGAAATTATTATAAATTATAATT
4158997 T
63 T
4158998 AA
1 AA
4159000 CTAAACTTAA
Statistics
Matches: 62, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
63 12 0.19
64 3 0.05
66 47 0.76
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (63 bp):
AATTGAAATTCATCAAAATTATAATTTTACATCTAAAATAGAAATTATTATAAATTATAATTT
Found at i:4162769 original size:31 final size:31
Alignment explanation
Indices: 4162719--4162797 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 31
4162709 CCTAAAAATA
*
4162719 AAACCCT-AAATCTCAAAATCTTGAAACTT-C
1 AAACCCTAAAATCTCAAAATCCTG-AACTTCC
** *
4162749 AAACCCTAAAATCTTGAAATCCTGAAGTTCC
1 AAACCCTAAAATCTCAAAATCCTGAACTTCC
*
4162780 AAACCTTAAAATC-CAAAA
1 AAACCCTAAAATCTCAAAA
4162798 ACTCAAAACC
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
30 14 0.35
31 26 0.65
ACGTcount: A:0.46, C:0.25, G:0.05, T:0.24
Consensus pattern (31 bp):
AAACCCTAAAATCTCAAAATCCTGAACTTCC
Found at i:4162820 original size:8 final size:8
Alignment explanation
Indices: 4162809--4162890 Score: 57
Period size: 8 Copynumber: 10.6 Consensus size: 8
4162799 CTCAAAACCT
4162809 TAAAATCC
1 TAAAATCC
4162817 TAAAATCC
1 TAAAATCC
4162825 TAAAATCC
1 TAAAATCC
*
4162833 -AAAATTC
1 TAAAATCC
*
4162840 T-AAATCT
1 TAAAATCC
*
4162847 TAAAACCC
1 TAAAATCC
**
4162855 TGCAATCC
1 TAAAATCC
4162863 -AAAA-CC
1 TAAAATCC
*
4162869 TTAAAA-CT
1 -TAAAATCC
4162877 TCAAAATCC
1 T-AAAATCC
4162886 TAAAA
1 TAAAA
4162891 ATAAAACTCT
Statistics
Matches: 56, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
6 2 0.04
7 14 0.25
8 38 0.68
9 2 0.04
ACGTcount: A:0.50, C:0.24, G:0.01, T:0.24
Consensus pattern (8 bp):
TAAAATCC
Found at i:4162836 original size:23 final size:23
Alignment explanation
Indices: 4162810--4162890 Score: 60
Period size: 23 Copynumber: 3.5 Consensus size: 23
4162800 TCAAAACCTT
4162810 AAAATCCTAAAATCCTAAAATCC
1 AAAATCCTAAAATCCTAAAATCC
* * *
4162833 AAAATTCT-AAATCTTAAAACCC
1 AAAATCCTAAAATCCTAAAATCC
** *
4162855 TGCAATCC-AAAA-CCTTAAAACTTC
1 -AAAATCCTAAAATCC-TAAAA-TCC
4162879 AAAATCCTAAAA
1 AAAATCCTAAAA
4162891 ATAAAACTCT
Statistics
Matches: 42, Mismatches: 11, Indels: 9
0.68 0.18 0.15
Matches are distributed among these distances:
22 13 0.31
23 24 0.57
24 5 0.12
ACGTcount: A:0.51, C:0.25, G:0.01, T:0.23
Consensus pattern (23 bp):
AAAATCCTAAAATCCTAAAATCC
Found at i:4162851 original size:30 final size:29
Alignment explanation
Indices: 4162784--4162913 Score: 86
Period size: 30 Copynumber: 4.3 Consensus size: 29
4162774 AGTTCCAAAC
* *
4162784 CTTAAAATCC-AAAAACTCAAAACCTTAAAAT
1 CTTAAAATCCTAAAATC-CAAAATC-TAAA-T
*
4162815 CCTAAAATCCTAAAATCCAAAATTCTAAAT
1 CTTAAAATCCTAAAATCCAAAA-TCTAAAT
* ** * *
4162845 CTTAAAACCCTGCAATCCAAAACCTTAAAA
1 CTTAAAATCCTAAAATCCAAAATC-TAAAT
4162875 CTTCAAAATCCTAAAAAT--AAAACTCTAAAT
1 CTT-AAAATCCT-AAAATCCAAAA-TCTAAAT
*
4162905 CTCAAAATC
1 CTTAAAATC
4162914 TTGAAACTCC
Statistics
Matches: 78, Mismatches: 15, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
29 7 0.09
30 36 0.46
31 26 0.33
32 9 0.12
ACGTcount: A:0.51, C:0.25, G:0.01, T:0.24
Consensus pattern (29 bp):
CTTAAAATCCTAAAATCCAAAATCTAAAT
Found at i:4162957 original size:45 final size:45
Alignment explanation
Indices: 4162900--4162987 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
4162890 AATAAAACTC
*
4162900 TAAATCTCAAAATCTTGAAACTCCAAACCTTAAAATCCAAAACCT
1 TAAATCTCAAAATCCTGAAACTCCAAACCTTAAAATCCAAAACCT
* * *
4162945 TAAATCTCAAAATCCTGAAATTTCAAACCTTTAAATCCAAAAC
1 TAAATCTCAAAATCCTGAAACTCCAAACCTTAAAATCCAAAAC
4162988 TTCGAAACCC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.47, C:0.25, G:0.02, T:0.26
Consensus pattern (45 bp):
TAAATCTCAAAATCCTGAAACTCCAAACCTTAAAATCCAAAACCT
Found at i:4163018 original size:23 final size:23
Alignment explanation
Indices: 4162924--4163019 Score: 70
Period size: 23 Copynumber: 4.2 Consensus size: 23
4162914 TTGAAACTCC
* *
4162924 AAACCTTAAAATCCAAAACCTTA
1 AAACCCTAAAATCCAAAACTTTA
* * * *
4162947 AATCTC-AAAATCCTGAAA-TTTC
1 AAACCCTAAAATCC-AAAACTTTA
* * **
4162969 AAACCTTTAAATCCAAAACTTCG
1 AAACCCTAAAATCCAAAACTTTA
*
4162992 AAACCCTAAAATCCAAAATTTTA
1 AAACCCTAAAATCCAAAACTTTA
4163015 AAACC
1 AAACC
4163020 AAAAAAATCT
Statistics
Matches: 52, Mismatches: 18, Indels: 6
0.68 0.24 0.08
Matches are distributed among these distances:
22 15 0.29
23 37 0.71
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.25
Consensus pattern (23 bp):
AAACCCTAAAATCCAAAACTTTA
Found at i:4163032 original size:17 final size:18
Alignment explanation
Indices: 4163006--4163042 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
4162996 CCTAAAATCC
*
4163006 AAAATTTTAAAACC-AAA
1 AAAATCTTAAAACCTAAA
4163023 AAAATCTTAAAACCTAAA
1 AAAATCTTAAAACCTAAA
4163041 AA
1 AA
4163043 TATAACCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.65, C:0.14, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAATCTTAAAACCTAAA
Found at i:4163083 original size:14 final size:14
Alignment explanation
Indices: 4163022--4163099 Score: 66
Period size: 14 Copynumber: 5.3 Consensus size: 14
4163012 TTAAAACCAA
*
4163022 AAAAATCTTAAAACCT
1 AAAAATC-T-AAACTT
* *
4163038 AAAAATATAACCTT
1 AAAAATCTAAACTT
** *
4163052 AAATCTCAAAATCTT
1 AAAAATCTAAA-CTT
4163067 AAAAATCTAAACTT
1 AAAAATCTAAACTT
4163081 AAAAATCTAAACCTT
1 AAAAATCTAAA-CTT
4163096 AAAA
1 AAAA
4163100 TCCAAAGCCT
Statistics
Matches: 49, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
14 24 0.49
15 19 0.39
16 6 0.12
ACGTcount: A:0.56, C:0.17, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAAATCTAAACTT
Found at i:4163096 original size:29 final size:29
Alignment explanation
Indices: 4163022--4163099 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 29
4163012 TTAAAACCAA
*
4163022 AAAAATCTTAAAACC-TAAAAATATAACCTT
1 AAAAATC-T-AAACCTTAAAAATATAAACTT
** * * *
4163052 AAATCTCAAAATCTTAAAAATCTAAACTT
1 AAAAATCTAAACCTTAAAAATATAAACTT
4163081 AAAAATCTAAACCTTAAAA
1 AAAAATCTAAACCTTAAAA
4163100 TCCAAAGCCT
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
28 4 0.11
29 28 0.76
30 5 0.14
ACGTcount: A:0.56, C:0.17, G:0.00, T:0.27
Consensus pattern (29 bp):
AAAAATCTAAACCTTAAAAATATAAACTT
Found at i:4163100 original size:14 final size:15
Alignment explanation
Indices: 4162802--4163177 Score: 117
Period size: 15 Copynumber: 24.8 Consensus size: 15
4162792 CCAAAAACTC
4162802 AAAACCTTAAAATCCT
1 AAAACCTTAAAAT-CT
*
4162818 AAAATCC-TAAAATCC
1 AAAA-CCTTAAAATCT
*
4162833 AAAA--TTCTAAATCTT
1 AAAACCTT-AAAATC-T
* ** *
4162848 AAAACCCTGCAATCC
1 AAAACCTTAAAATCT
4162863 AAAACCTTAAAA-CTT
1 AAAACCTTAAAATC-T
*
4162878 CAAAATCC-TAAAA-AT
1 -AAAA-CCTTAAAATCT
4162893 AAAA-CTCT-AAATCT
1 AAAACCT-TAAAATCT
* *
4162907 CAAAATCTTGAAA-CT
1 -AAAACCTTAAAATCT
* *
4162922 CCAAACCTTAAAATCC
1 -AAAACCTTAAAATCT
4162938 AAAACCTT-AAATCT
1 AAAACCTTAAAATCT
* *
4162952 CAAAATCC-TGAAATTT
1 -AAAA-CCTTAAAATCT
* * *
4162968 CAAACCTTTAAATCC
1 AAAACCTTAAAATCT
**
4162983 AAAA-CTTCGAAACCCT
1 AAAACCTT--AAAATCT
*
4162999 AAAATCC--AAAATTTT
1 AAAA-CCTTAAAA-TCT
**
4163014 AAAACCAAAAAAATCTT
1 AAAACC-TTAAAATC-T
*
4163031 AAAACC-TAAAA-AT
1 AAAACCTTAAAATCT
*
4163044 ATAACCTT-AAATCT
1 AAAACCTTAAAATCT
*
4163058 CAAAATCTTAAAAATCT
1 -AAAACCTT-AAAATCT
4163075 -AAA-CTTAAAAATCT
1 AAAACCTT-AAAATCT
*
4163089 -AAACCTTAAAATCC
1 AAAACCTTAAAATCT
* *
4163103 AAAGCCTTCAAAACCT
1 AAAACCTT-AAAATCT
* **
4163119 CAGAACCCCAAAATCT
1 -AAAACCTTAAAATCT
4163135 CAAAACCTTAAAATCT
1 -AAAACCTTAAAATCT
*
4163151 AAAACCCTAAAATCT
1 AAAACCTTAAAATCT
4163166 AAAACCTTAAAA
1 AAAACCTTAAAA
4163178 CCTGAAAAAT
Statistics
Matches: 269, Mismatches: 53, Indels: 77
0.67 0.13 0.19
Matches are distributed among these distances:
12 1 0.00
13 13 0.05
14 49 0.18
15 111 0.41
16 68 0.25
17 26 0.10
18 1 0.00
ACGTcount: A:0.51, C:0.24, G:0.02, T:0.24
Consensus pattern (15 bp):
AAAACCTTAAAATCT
Found at i:4163116 original size:24 final size:23
Alignment explanation
Indices: 4163089--4163156 Score: 64
Period size: 24 Copynumber: 2.9 Consensus size: 23
4163079 TTAAAAATCT
*
4163089 AAACCTTAAAATCCAAAGCCTTCA
1 AAACCTTAAAATCCAAAACC-TCA
* ** *
4163113 AAACCTCAGAACCCCAAAATCTCA
1 AAACCTTA-AAATCCAAAACCTCA
*
4163137 AAACCTTAAAATCTAAAACC
1 AAACCTTAAAATCCAAAACC
4163157 CTAAAATCTA
Statistics
Matches: 33, Mismatches: 10, Indels: 3
0.72 0.22 0.07
Matches are distributed among these distances:
23 8 0.24
24 17 0.52
25 8 0.24
ACGTcount: A:0.49, C:0.31, G:0.03, T:0.18
Consensus pattern (23 bp):
AAACCTTAAAATCCAAAACCTCA
Found at i:4163194 original size:63 final size:62
Alignment explanation
Indices: 4163082--4163203 Score: 147
Period size: 63 Copynumber: 2.0 Consensus size: 62
4163072 TCTAAACTTA
* * * *
4163082 AAAATCTAAACCTTAAAATCCAAAGCCTTCAAAACCTCAGAACCCCAAAATCTCAAAACCTT
1 AAAATCTAAACCCTAAAATCCAAAACCTTCAAAACCTAAAAACCCCAAAATCTCAAAACCTT
* * * *
4163144 AAAATCTAAAACCCTAAAATCTAAAACCTT-AAAACCTGAAAAATCTCAAAATCTTAAAAC
1 AAAATCT-AAACCCTAAAATCCAAAACCTTCAAAACCT-AAAAACCCCAAAATCTCAAAAC
4163204 TTTGAAACCC
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
62 14 0.28
63 36 0.72
ACGTcount: A:0.51, C:0.26, G:0.02, T:0.20
Consensus pattern (62 bp):
AAAATCTAAACCCTAAAATCCAAAACCTTCAAAACCTAAAAACCCCAAAATCTCAAAACCTT
Found at i:4166065 original size:19 final size:19
Alignment explanation
Indices: 4166041--4166079 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
4166031 ATGATAACAT
4166041 ATTAGTAGA-TAATTAATAA
1 ATTAGTA-ATTAATTAATAA
*
4166060 ATTAGTAATTAATTATTAA
1 ATTAGTAATTAATTAATAA
4166079 A
1 A
4166080 AATTTAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (19 bp):
ATTAGTAATTAATTAATAA
Found at i:4166178 original size:22 final size:22
Alignment explanation
Indices: 4166118--4166179 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
4166108 AGTAATCATC
* * *
4166118 GATAACTTAACAGTAAATTAGT
1 GATAACTTAATAGTAAATGAAT
* *
4166140 GATAACTTAGTAATAAATGAAT
1 GATAACTTAATAGTAAATGAAT
*
4166162 GATAATTTAATAGTAAAT
1 GATAACTTAATAGTAAAT
4166180 AATTAATAAC
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.48, C:0.05, G:0.13, T:0.34
Consensus pattern (22 bp):
GATAACTTAATAGTAAATGAAT
Found at i:4166188 original size:22 final size:22
Alignment explanation
Indices: 4166163--4166255 Score: 57
Period size: 22 Copynumber: 4.2 Consensus size: 22
4166153 TAAATGAATG
4166163 ATAATTTAATAGTAAATAATTA
1 ATAATTTAATAGTAAATAATTA
* * * *
4166185 ATAACTTT-TTAGCAAATTAGTA
1 ATAA-TTTAATAGTAAATAATTA
* * *
4166207 ATAATATAATAATATATACA-TA
1 ATAATTTAATAGTAAATA-ATTA
* *
4166229 ATAACTTAATGGTAAATCAATT-
1 ATAATTTAATAGTAAAT-AATTA
4166251 ATAAT
1 ATAAT
4166256 GTAGTTGTAA
Statistics
Matches: 50, Mismatches: 16, Indels: 10
0.66 0.21 0.13
Matches are distributed among these distances:
21 2 0.04
22 42 0.84
23 6 0.12
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.39
Consensus pattern (22 bp):
ATAATTTAATAGTAAATAATTA
Found at i:4166362 original size:11 final size:11
Alignment explanation
Indices: 4166348--4166398 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
4166338 ATAATTTAGC
*
4166348 AATAAATCAAT
1 AATAAATTAAT
*
4166359 AATAATTTAAT
1 AATAAATTAAT
*
4166370 AATAAATTAGT
1 AATAAATTAAT
*
4166381 AATAATTTAAT
1 AATAAATTAAT
*
4166392 AGTAAAT
1 AATAAAT
4166399 CAGTTTTAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (11 bp):
AATAAATTAAT
Found at i:4166364 original size:22 final size:22
Alignment explanation
Indices: 4166338--4166400 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 22
4166328 TTAATTATTG
*
4166338 ATAATTTAGCAATAAATCAATA
1 ATAATTTAACAATAAATCAATA
* * *
4166360 ATAATTTAATAATAAATTAGTA
1 ATAATTTAACAATAAATCAATA
* *
4166382 ATAATTTAATAGTAAATCA
1 ATAATTTAACAATAAATCA
4166401 GTTTTAGTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.37
Consensus pattern (22 bp):
ATAATTTAACAATAAATCAATA
Found at i:4166398 original size:44 final size:43
Alignment explanation
Indices: 4166350--4166809 Score: 143
Period size: 44 Copynumber: 10.7 Consensus size: 43
4166340 AATTTAGCAA
4166350 TAAATCAATAATAATTTAATAATAAATTAGTAATAATTTAATAG
1 TAAATCAATAATAATTTAATAATAAATTA-TAATAATTTAATAG
* ** * * * * **
4166394 TAAATCAGTTTTAGTTTAATAAT-AATTA-AGTGA--CAGCAG
1 TAAATCAATAATAATTTAATAATAAATTATAATAATTTAATAG
* * * *
4166433 TAAATC-ATAAATAATTTAATAATAAATCAATGATAAGTTAGTAG
1 TAAATCAAT-AATAATTTAATAATAAAT-TATAATAATTTAATAG
* ** * * *
4166477 TAAAT-AATTAAAAATTTAATTGTAAATCAATGATAAATTAATAG
1 TAAATCAA-TAATAATTTAATAATAAAT-TATAATAATTTAATAG
* *** * * * *
4166521 TAAAT-AATTGAA-AA-TTAGTAGCCAATCATAGAAAACTTAAAAG
1 TAAATCAA-T-AATAATTTAATAATAAATTATA-ATAATTTAATAG
* * * * **
4166564 TAAATCAGT-ATAATTTAGTAGTAAATTATCGATAACATAATAG
1 TAAATCAATAATAATTTAATAATAAATTAT-AATAATTTAATAG
* * * *
4166607 TTAATCAATGATAACTTAATAATAAATTATGCATAATTTAAT-G
1 TAAATCAATAATAATTTAATAATAAATTAT-AATAATTTAATAG
*** * ** * * * *
4166650 TAAATTTGTAATAACTTGGTAATGAATTAGAGATAATTTAGTGG
1 TAAATCAATAATAATTTAATAATAAATTATA-ATAATTTAATAG
** * ** * * *
4166694 TAAATCGGTGATAATTTTGTAATAAATAATAAAAAATTAAGTAG
1 TAAATCAATAATAATTTAATAATAAATTATAATAATTTAA-TAG
* * * * *
4166738 TAAATCAATGATAGTATAATAGTAAA-TATATATAATATAATAG
1 TAAATCAATAATAATTTAATAATAAATTATA-ATAATTTAATAG
* * * *
4166781 TAAATCATTGATAATTTAGTAGTAAATTA
1 TAAATCAATAATAATTTAATAATAAATTA
4166810 ATAACTTAGC
Statistics
Matches: 308, Mismatches: 88, Indels: 40
0.71 0.20 0.09
Matches are distributed among these distances:
38 1 0.00
39 20 0.06
40 3 0.01
41 5 0.02
42 6 0.02
43 121 0.39
44 149 0.48
45 3 0.01
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.36
Consensus pattern (43 bp):
TAAATCAATAATAATTTAATAATAAATTATAATAATTTAATAG
Found at i:4166468 original size:22 final size:22
Alignment explanation
Indices: 4166443--4166807 Score: 142
Period size: 22 Copynumber: 16.8 Consensus size: 22
4166433 TAAATCATAA
*
4166443 ATAATTTAATAATAAATCAATG
1 ATAATTTAATAGTAAATCAATG
* * *
4166465 ATAAGTTAGTAGTAAAT-AATTA
1 ATAATTTAATAGTAAATCAA-TG
* *
4166487 AAAATTTAATTGTAAATCAATG
1 ATAATTTAATAGTAAATCAATG
*
4166509 ATAAATTAATAGTAAAT-AATTG
1 ATAATTTAATAGTAAATCAA-TG
* * **
4166531 A-AAATTAGTAGCCAATC-ATAG
1 ATAATTTAATAGTAAATCAAT-G
* * * *
4166552 AAAACTTAAAAGTAAATCAGT-
1 ATAATTTAATAGTAAATCAATG
* *
4166573 ATAATTTAGTAGTAAAT-TATCG
1 ATAATTTAATAGTAAATCAAT-G
** *
4166595 ATAACATAATAGTTAATCAATG
1 ATAATTTAATAGTAAATCAATG
* * *
4166617 ATAACTTAATAATAAAT-TATG
1 ATAATTTAATAGTAAATCAATG
*** *
4166638 CATAATTTAAT-GTAAATTTGTA
1 -ATAATTTAATAGTAAATCAATG
* ** * * *
4166660 ATAACTTGGTAATGAATTAGA-G
1 ATAATTTAATAGTAAATCA-ATG
* * **
4166682 ATAATTTAGTGGTAAATCGGTG
1 ATAATTTAATAGTAAATCAATG
** * *
4166704 ATAATTTTGTAATAAAT-AATA
1 ATAATTTAATAGTAAATCAATG
* *
4166725 AAAAATTAAGTAGTAAATCAATG
1 ATAATTTAA-TAGTAAATCAATG
* *
4166748 ATAGTATAATAGTAAAT-ATAT-
1 ATAATTTAATAGTAAATCA-ATG
* *
4166769 ATAATATAATAGTAAATCATTG
1 ATAATTTAATAGTAAATCAATG
*
4166791 ATAATTTAGTAGTAAAT
1 ATAATTTAATAGTAAAT
4166808 TAATAACTTA
Statistics
Matches: 247, Mismatches: 76, Indels: 40
0.68 0.21 0.11
Matches are distributed among these distances:
20 2 0.01
21 71 0.29
22 161 0.65
23 13 0.05
ACGTcount: A:0.49, C:0.04, G:0.12, T:0.35
Consensus pattern (22 bp):
ATAATTTAATAGTAAATCAATG
Found at i:4167062 original size:44 final size:44
Alignment explanation
Indices: 4166987--4167133 Score: 129
Period size: 44 Copynumber: 3.4 Consensus size: 44
4166977 TCACTAACAA
* **
4166987 TTAATAG-AAATTATTCATAACTTAATGATAAATCAA-T-CATAAT
1 TTAATAGTAAATCATTCATAACTTAAAAATAAAT-AATTGC-TAAT
* *
4167030 TTAATGGTAAATCATTCATAAATTAAAAATAAATAATTGCTAAT
1 TTAATAGTAAATCATTCATAACTTAAAAATAAATAATTGCTAAT
* * * * * * *
4167074 TTAGTAGTAAATCATTAATAACTTAATAGTAAATAACTGATAAC
1 TTAATAGTAAATCATTCATAACTTAAAAATAAATAATTGCTAAT
* *
4167118 TTAATTGTCAATCATT
1 TTAATAGTAAATCATT
4167134 GAAAACTTTT
Statistics
Matches: 84, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
43 8 0.10
44 75 0.89
45 1 0.01
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.37
Consensus pattern (44 bp):
TTAATAGTAAATCATTCATAACTTAAAAATAAATAATTGCTAAT
Found at i:4167063 original size:22 final size:22
Alignment explanation
Indices: 4166910--4167055 Score: 90
Period size: 22 Copynumber: 6.8 Consensus size: 22
4166900 ACTTTTAGTG
* *
4166910 AATCA-TCAATAAATTAGTAATA
1 AATCATTC-ATAAATTAATGATA
* *
4166932 AATTAATT-ATAAATTTATGAT-
1 AA-TCATTCATAAATTAATGATA
* *
4166953 AATCA-TCAGTAACTTAGTGATA
1 AATCATTCA-TAAATTAATGATA
* *
4166975 AATCACT-A-ACAATTAAT-AGA
1 AATCATTCATA-AATTAATGATA
* *
4166995 AATTATTCATAACTTAATGATA
1 AATCATTCATAAATTAATGATA
* * *
4167017 AATCAATCATAATTTAATGGTA
1 AATCATTCATAAATTAATGATA
4167039 AATCATTCATAAATTAA
1 AATCATTCATAAATTAA
4167056 AAATAAATAA
Statistics
Matches: 93, Mismatches: 21, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
19 1 0.01
20 11 0.12
21 23 0.25
22 54 0.58
23 3 0.03
24 1 0.01
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.36
Consensus pattern (22 bp):
AATCATTCATAAATTAATGATA
Found at i:4167084 original size:22 final size:22
Alignment explanation
Indices: 4166987--4167122 Score: 80
Period size: 22 Copynumber: 6.2 Consensus size: 22
4166977 TCACTAACAA
* *
4166987 TTAATAG-AAATTATTCATAAC
1 TTAATAGTAAATAATTAATAAC
* *
4167008 TTAAT-GATAAATCAA-TCATAAT
1 TTAATAG-TAAAT-AATTAATAAC
* * * *
4167030 TTAATGGTAAATCATTCATAAA
1 TTAATAGTAAATAATTAATAAC
* * ** *
4167052 TTAAAAATAAATAATTGCTAAT
1 TTAATAGTAAATAATTAATAAC
* *
4167074 TTAGTAGTAAATCATTAATAAC
1 TTAATAGTAAATAATTAATAAC
* *
4167096 TTAATAGTAAATAACTGATAAC
1 TTAATAGTAAATAATTAATAAC
4167118 TTAAT
1 TTAAT
4167123 TGTCAATCAT
Statistics
Matches: 88, Mismatches: 22, Indels: 9
0.74 0.18 0.08
Matches are distributed among these distances:
20 1 0.01
21 6 0.07
22 79 0.90
23 2 0.02
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.37
Consensus pattern (22 bp):
TTAATAGTAAATAATTAATAAC
Found at i:4167140 original size:22 final size:22
Alignment explanation
Indices: 4167078--4167141 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
4167068 GCTAATTTAG
4167078 TAGTAAATCATT-AATAACTTAA
1 TAGTAAATCATTGAA-AACTTAA
* * *
4167100 TAGTAAATAACTGATAACTTAA
1 TAGTAAATCATTGAAAACTTAA
* *
4167122 TTGTCAATCATTGAAAACTT
1 TAGTAAATCATTGAAAACTT
4167142 TTTATACTTG
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
22 32 0.97
23 1 0.03
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.36
Consensus pattern (22 bp):
TAGTAAATCATTGAAAACTTAA
Found at i:4167443 original size:8 final size:7
Alignment explanation
Indices: 4167420--4167467 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
4167410 GATAACTTAG
4167420 TAATTAA
1 TAATTAA
*
4167427 TCATTAA
1 TAATTAA
4167434 TAATTTAA
1 TAA-TTAA
4167442 TAATTAA
1 TAATTAA
* *
4167449 TTATTGA
1 TAATTAA
4167456 TAACTTAA
1 TAA-TTAA
4167464 TAAT
1 TAAT
4167468 AAATTAGTGA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
7 20 0.61
8 13 0.39
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (7 bp):
TAATTAA
Found at i:4167472 original size:22 final size:22
Alignment explanation
Indices: 4167409--4167495 Score: 93
Period size: 22 Copynumber: 4.0 Consensus size: 22
4167399 TAAAAACAAG
* * *
4167409 TGATAACTTAGTAATTAATCAT
1 TGATAACTTAATAATAAATTAT
* * *
4167431 TAATAATTTAATAATTAATTAT
1 TGATAACTTAATAATAAATTAT
*
4167453 TGATAACTTAATAATAAATTAG
1 TGATAACTTAATAATAAATTAT
* *
4167475 TGATAATTTAATAGTAAATTA
1 TGATAACTTAATAATAAATTA
4167496 GTTTTAGTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 55 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (22 bp):
TGATAACTTAATAATAAATTAT
Found at i:4167495 original size:44 final size:44
Alignment explanation
Indices: 4167409--4167495 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 44
4167399 TAAAAACAAG
* * * *
4167409 TGATAACTTAGTAATTAATCATTAATAATTTAATAATTAATTAT
1 TGATAACTTAATAATAAATCAGTAATAATTTAATAATAAATTAT
* * *
4167453 TGATAACTTAATAATAAATTAGTGATAATTTAATAGTAAATTA
1 TGATAACTTAATAATAAATCAGTAATAATTTAATAATAAATTA
4167496 GTTTTAGTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (44 bp):
TGATAACTTAATAATAAATCAGTAATAATTTAATAATAAATTAT
Done.