Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, 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: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 82 of 120
Found at i:10522841 original size:20 final size:20
Alignment explanation
Indices: 10522742--10522833 Score: 94
Period size: 20 Copynumber: 4.4 Consensus size: 20
10522732 ATTAAACGTT
*
10522742 TAAATGAAACCCTAAAACCC
1 TAAATGAAATCCTAAAACCC
* * * *
10522762 CAATTGAAATCCTAAGACCT
1 TAAATGAAATCCTAAAACCC
*
10522782 TAAATGAAACTCTAAGTAAAACCC
1 TAAATGAAA-TC---CTAAAACCC
10522806 TAAATGAAATCCTAAAACCC
1 TAAATGAAATCCTAAAACCC
10522826 TAAATGAA
1 TAAATGAA
10522834 GTCTTAAACC
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
20 38 0.67
21 2 0.04
23 2 0.04
24 15 0.26
ACGTcount: A:0.49, C:0.23, G:0.08, T:0.21
Consensus pattern (20 bp):
TAAATGAAATCCTAAAACCC
Found at i:10526842 original size:3 final size:3
Alignment explanation
Indices: 10526834--10526878 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
10526824 AAAAGCAAAT
10526834 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
10526879 CAGACTTATC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:10527518 original size:36 final size:36
Alignment explanation
Indices: 10527436--10527520 Score: 97
Period size: 35 Copynumber: 2.4 Consensus size: 36
10527426 ATTTATCTCG
*
10527436 GTCATT-TTTATTTTTTGACTTATGATTTAATTCTC
1 GTCATTCTTTATTTTTTGACTTATGATTTAATCCTC
*
10527471 GTCATTC-TTATTTTTTGACTTGT-AGTTTAATCC-C
1 GTCATTCTTTATTTTTTGACTTATGA-TTTAATCCTC
*
10527505 TGTGATTCTTTATTTT
1 -GTCATTCTTTATTTT
10527521 CTCTTGACTT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
34 2 0.05
35 34 0.79
36 7 0.16
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.59
Consensus pattern (36 bp):
GTCATTCTTTATTTTTTGACTTATGATTTAATCCTC
Found at i:10527789 original size:71 final size:71
Alignment explanation
Indices: 10527660--10527825 Score: 162
Period size: 71 Copynumber: 2.3 Consensus size: 71
10527650 TAATCATTAT
* * * * * *
10527660 TTATTTTTTGATTTGTAGCTTAGTCTCTATCGTTCTTTACTTTTAGACTTGAGACTCAGT-CTCG
1 TTATTTTTTGACTTGTAGCTTAGTCTCCATCATTCTTTACTCTCAAACTTGAGACTCAGTCCT-G
10527724 ATCATTC
65 ATCATTC
* * * *
10527731 TTATTTTTTTACTTGTAGCTTAGTC-CCAGTCATTCTTTACTCTCAAATTTGTGGCTCAGTCCTG
1 TTATTTTTTGACTTGTAGCTTAGTCTCCA-TCATTCTTTACTCTCAAACTTGAGACTCAGTCCTG
10527795 ATCA-TC
65 ATCATTC
10527801 TT-TGTTTATTGACTTGT-GACTTAGT
1 TTAT-TTT-TTGACTTGTAG-CTTAGT
10527826 TTCGGTCATC
Statistics
Matches: 79, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
69 1 0.01
70 10 0.13
71 66 0.84
72 2 0.03
ACGTcount: A:0.18, C:0.19, G:0.14, T:0.49
Consensus pattern (71 bp):
TTATTTTTTGACTTGTAGCTTAGTCTCCATCATTCTTTACTCTCAAACTTGAGACTCAGTCCTGA
TCATTC
Found at i:10528382 original size:21 final size:21
Alignment explanation
Indices: 10528358--10528436 Score: 72
Period size: 21 Copynumber: 3.7 Consensus size: 21
10528348 ATTAAACAAA
10528358 AAAAAACAAATAAAAATATAT
1 AAAAAACAAATAAAAATATAT
*
10528379 AAAAACCAAA-ACAAAATATA-
1 AAAAAACAAATA-AAAATATAT
* *
10528399 AAAAATCAAAATAATAATATAAT
1 AAAAAAC-AAATAAAAATAT-AT
* *
10528422 AATAAATAAATAAAA
1 AAAAAACAAATAAAA
10528437 TAAAATAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
20 7 0.15
21 26 0.57
22 9 0.20
23 4 0.09
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (21 bp):
AAAAAACAAATAAAAATATAT
Found at i:10528431 original size:4 final size:5
Alignment explanation
Indices: 10528386--10528451 Score: 55
Period size: 5 Copynumber: 12.8 Consensus size: 5
10528376 TATAAAAACC
* * *
10528386 AAAAC AAAAT ATAA- AAAAT CAAAAT AATAAT ATAAT AATAA- ATAAAT
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AA-AAT AAAAT AA-AAT A-AAAT
10528433 AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAA
10528452 ATACAAAGCA
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
4 3 0.06
5 34 0.68
6 13 0.26
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:10528439 original size:19 final size:19
Alignment explanation
Indices: 10528400--10528450 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
10528390 CAAAATATAA
*
10528400 AAAATCAAAAT-AATAATAT
1 AAAAT-AAAATAAATAAAAT
10528419 AATAAT-AAATAAATAAAAT
1 AA-AATAAAATAAATAAAAT
10528438 AAAATAAAATAAA
1 AAAATAAAATAAA
10528451 AATACAAAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 7 0.25
19 18 0.64
20 3 0.11
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAATAAAATAAATAAAAT
Found at i:10530014 original size:18 final size:16
Alignment explanation
Indices: 10529993--10530036 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
10529983 TCCATGCTGT
10529993 TTGAATTTTTATGTTTAC
1 TTGAATTTTTATG--TAC
*
10530011 TTGAATTTTCATGTAC
1 TTGAATTTTTATGTAC
*
10530027 TTCAATTTTT
1 TTGAATTTTT
10530037 CATGGTTTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 11 0.48
18 12 0.52
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.59
Consensus pattern (16 bp):
TTGAATTTTTATGTAC
Found at i:10530138 original size:18 final size:17
Alignment explanation
Indices: 10530105--10530140 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10530095 AGTTTTTTAA
*
10530105 AAAATAAAAATGATAAT
1 AAAATAAAAATAATAAT
10530122 AAAATAAAAAGTAATAAT
1 AAAATAAAAA-TAATAAT
10530140 A
1 A
10530141 TTAATAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (17 bp):
AAAATAAAAATAATAAT
Found at i:10530484 original size:12 final size:12
Alignment explanation
Indices: 10530467--10530514 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
10530457 TAAATTCCTA
10530467 AAACCCTAAATG
1 AAACCCTAAATG
* *
10530479 AAACCCCAAGATTA
1 AAACCCTAA-A-TG
*
10530493 AAACCTTAAATG
1 AAACCCTAAATG
10530505 AAACCCTAAA
1 AAACCCTAAA
10530515 ACCTCAATTA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
12 18 0.64
13 2 0.07
14 8 0.29
ACGTcount: A:0.52, C:0.25, G:0.06, T:0.17
Consensus pattern (12 bp):
AAACCCTAAATG
Found at i:10530516 original size:20 final size:19
Alignment explanation
Indices: 10530491--10530592 Score: 62
Period size: 20 Copynumber: 5.2 Consensus size: 19
10530481 ACCCCAAGAT
*
10530491 TAAAACCTTAAATGAAACCC
1 TAAAACC-TAAATGAAACAC
* * *
10530511 TAAAACCTCAATTAAA-AT
1 TAAAACCTAAATGAAACAC
* *
10530529 TAAAATCTTAAATGAAACTC
1 TAAAA-CCTAAATGAAACAC
* * *
10530549 TAAATCCCAAATTGAAATAC
1 TAAAACCTAAA-TGAAACAC
* *
10530569 TAAGACCCTAAATGAAACCC
1 TAA-AACCTAAATGAAACAC
10530589 TAAA
1 TAAA
10530593 TGAAATCCTA
Statistics
Matches: 60, Mismatches: 18, Indels: 9
0.69 0.21 0.10
Matches are distributed among these distances:
18 5 0.08
19 20 0.33
20 29 0.48
21 6 0.10
ACGTcount: A:0.51, C:0.21, G:0.05, T:0.24
Consensus pattern (19 bp):
TAAAACCTAAATGAAACAC
Found at i:10530531 original size:38 final size:40
Alignment explanation
Indices: 10530489--10530592 Score: 124
Period size: 38 Copynumber: 2.6 Consensus size: 40
10530479 AAACCCCAAG
10530489 ATTAAAACCTTAAATGAAACCCTAAAACCTC-AATT-AAA-
1 ATTAAAACCTTAAATGAAACCCTAAAACC-CAAATTGAAAT
* * *
10530527 ATTAAAATCTTAAATGAAACTCTAAATCCCAAATTGAAAT
1 ATTAAAACCTTAAATGAAACCCTAAAACCCAAATTGAAAT
* * *
10530567 ACTAAGACCCTAAATGAAACCCTAAA
1 ATTAAAACCTTAAATGAAACCCTAAA
10530593 TGAAATCCTA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
37 1 0.02
38 30 0.55
39 3 0.05
40 21 0.38
ACGTcount: A:0.51, C:0.20, G:0.05, T:0.24
Consensus pattern (40 bp):
ATTAAAACCTTAAATGAAACCCTAAAACCCAAATTGAAAT
Found at i:10530590 original size:12 final size:12
Alignment explanation
Indices: 10530573--10530604 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
10530563 AAATACTAAG
10530573 ACCCTAAATGAA
1 ACCCTAAATGAA
10530585 ACCCTAAATGAA
1 ACCCTAAATGAA
*
10530597 ATCCTAAA
1 ACCCTAAA
10530605 ATCCTAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (12 bp):
ACCCTAAATGAA
Found at i:10532483 original size:6 final size:6
Alignment explanation
Indices: 10532472--10532499 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
10532462 TATGTAATAT
10532472 AAATTA AAATTA AAATTA AAATTA AAAT
1 AAATTA AAATTA AAATTA AAATTA AAAT
10532500 ATATATTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAATTA
Found at i:10532675 original size:10 final size:10
Alignment explanation
Indices: 10532662--10532706 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
10532652 TTCATATTAG
10532662 TTGTGTCTAT
1 TTGTGTCTAT
*
10532672 TTGTGTGTAT
1 TTGTGTCTAT
* *
10532682 TCGTGT-TAA
1 TTGTGTCTAT
10532691 TTGTGTCTAT
1 TTGTGTCTAT
10532701 TTGTGT
1 TTGTGT
10532707 ATATCTGTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
9 7 0.24
10 22 0.76
ACGTcount: A:0.11, C:0.07, G:0.24, T:0.58
Consensus pattern (10 bp):
TTGTGTCTAT
Found at i:10532682 original size:29 final size:29
Alignment explanation
Indices: 10532650--10532706 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
10532640 TTCTTATATA
*
10532650 TATTCATATTAGTTGTGTCTATTTGTGTG
1 TATTCATATTAATTGTGTCTATTTGTGTG
* *
10532679 TATTCGTGTTAATTGTGTCTATTTGTGT
1 TATTCATATTAATTGTGTCTATTTGTGT
10532707 ATATCTGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.16, C:0.07, G:0.21, T:0.56
Consensus pattern (29 bp):
TATTCATATTAATTGTGTCTATTTGTGTG
Found at i:10538926 original size:2 final size:2
Alignment explanation
Indices: 10538919--10538945 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10538909 TCTTTCAATA
10538919 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
10538946 AAAGAGGGAT
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:10540927 original size:17 final size:17
Alignment explanation
Indices: 10540902--10540955 Score: 69
Period size: 17 Copynumber: 3.4 Consensus size: 17
10540892 ATTATGTATT
*
10540902 TAAATATTTTTATATAA
1 TAAAAATTTTTATATAA
*
10540919 TAAAAATTTATATATAA
1 TAAAAATTTTTATATAA
10540936 T-AAAATTTTTA-A-AA
1 TAAAAATTTTTATATAA
10540950 TAAAAA
1 TAAAAA
10540956 AAATTAACCT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 3 0.09
15 5 0.15
16 9 0.27
17 16 0.48
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAAAATTTTTATATAA
Found at i:10547839 original size:18 final size:18
Alignment explanation
Indices: 10547814--10547944 Score: 151
Period size: 18 Copynumber: 7.4 Consensus size: 18
10547804 GGATTTTAAA
*
10547814 ATTCACAAGAATTTAAAG
1 ATTCACAAGAATTCAAAG
*
10547832 ATTAACAAGAATTCAAAG
1 ATTCACAAGAATTCAAAG
* *
10547850 ATTCACAAG-ACTCAGAG
1 ATTCACAAGAATTCAAAG
10547867 ATTCACAAGAATTCAAAG
1 ATTCACAAGAATTCAAAG
* *
10547885 ATTCGCAAGAATTTAAAG
1 ATTCACAAGAATTCAAAG
* *
10547903 ATTCGCAAG-GTTCAAAG
1 ATTCACAAGAATTCAAAG
* *
10547920 ATTCGCTAG-ATTCAAAG
1 ATTCACAAGAATTCAAAG
10547937 ATTCACAA
1 ATTCACAA
10547945 TTGTTATTTT
Statistics
Matches: 97, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
17 42 0.43
18 55 0.57
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (18 bp):
ATTCACAAGAATTCAAAG
Found at i:10547841 original size:9 final size:9
Alignment explanation
Indices: 10547814--10547944 Score: 87
Period size: 9 Copynumber: 14.9 Consensus size: 9
10547804 GGATTTTAAA
10547814 ATTCACAAG
1 ATTCACAAG
*
10547823 AATTTA-AAG
1 -ATTCACAAG
*
10547832 ATTAACAAG
1 ATTCACAAG
10547841 AATTCA-AAG
1 -ATTCACAAG
10547850 ATTCACAAG
1 ATTCACAAG
* *
10547859 ACTCA-GAG
1 ATTCACAAG
10547867 ATTCACAAG
1 ATTCACAAG
10547876 AATTCA-AAG
1 -ATTCACAAG
*
10547885 ATTCGCAAG
1 ATTCACAAG
*
10547894 AATTTA-AAG
1 -ATTCACAAG
*
10547903 ATTCGCAAG
1 ATTCACAAG
*
10547912 GTTCA-AAG
1 ATTCACAAG
* *
10547920 ATTCGCTAG
1 ATTCACAAG
10547929 ATTCA-AAG
1 ATTCACAAG
10547937 ATTCACAA
1 ATTCACAA
10547945 TTGTTATTTT
Statistics
Matches: 92, Mismatches: 19, Indels: 21
0.70 0.14 0.16
Matches are distributed among these distances:
8 35 0.38
9 41 0.45
10 16 0.17
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (9 bp):
ATTCACAAG
Found at i:10547875 original size:35 final size:35
Alignment explanation
Indices: 10547814--10547944 Score: 147
Period size: 35 Copynumber: 3.7 Consensus size: 35
10547804 GGATTTTAAA
* * *
10547814 ATTCACAAGAATTTAAAGATTAACAAGAATTCAAAG
1 ATTCGCAAG-ATTCAAAGATTCACAAGAATTCAAAG
* * *
10547850 ATTCACAAGACTCAGAGATTCACAAGAATTCAAAG
1 ATTCGCAAGATTCAAAGATTCACAAGAATTCAAAG
* * *
10547885 ATTCGCAAGAATTTAAAGATTCGCAAG-GTTCAAAG
1 ATTCGCAAG-ATTCAAAGATTCACAAGAATTCAAAG
*
10547920 ATTCGCTAGATTCAAAGATTCACAA
1 ATTCGCAAGATTCAAAGATTCACAA
10547945 TTGTTATTTT
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
34 14 0.17
35 45 0.56
36 22 0.27
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (35 bp):
ATTCGCAAGATTCAAAGATTCACAAGAATTCAAAG
Found at i:10547922 original size:53 final size:53
Alignment explanation
Indices: 10547814--10547944 Score: 165
Period size: 53 Copynumber: 2.5 Consensus size: 53
10547804 GGATTTTAAA
* * *
10547814 ATTCACAAGAATTTAAAGATTAACAAGAATTCAAAGATTCACAAGACTCAGAG
1 ATTCACAAGAATTCAAAGATTCACAAGAATTCAAAGATTCACAAGACTCAAAG
* * * **
10547867 ATTCACAAGAATTCAAAGATTCGCAAGAATTTAAAGATTCGCAAGGTTCAAAG
1 ATTCACAAGAATTCAAAGATTCACAAGAATTCAAAGATTCACAAGACTCAAAG
* *
10547920 ATTCGCTAG-ATTCAAAGATTCACAA
1 ATTCACAAGAATTCAAAGATTCACAA
10547945 TTGTTATTTT
Statistics
Matches: 67, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
52 15 0.22
53 52 0.78
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (53 bp):
ATTCACAAGAATTCAAAGATTCACAAGAATTCAAAGATTCACAAGACTCAAAG
Found at i:10548182 original size:91 final size:90
Alignment explanation
Indices: 10548042--10548207 Score: 233
Period size: 91 Copynumber: 1.8 Consensus size: 90
10548032 TTTTCATATG
* * * ** *
10548042 AAATTTTAAAGCTTCATATCTAAAATTCAAAAATTCATATTTGAAAAATTTTTTAGATTCATATC
1 AAATTTTAAAGATTCACATCTAAAATTCAAAAATTCACATTTGAAAAATTTTAAAGATTCATATA
*
10548107 CAAAATTTCAAAGACCATATTTGAA
66 AAAAATTTCAAAGACCATATTTGAA
* * *
10548132 AAATTTTAAGGATTCACATCTAAAATTTCAAATATTCACATTTGAGAAATTTTAAAGATTCATAT
1 AAATTTTAAAGATTCACATCTAAAA-TTCAAAAATTCACATTTGAAAAATTTTAAAGATTCATAT
10548197 AAAAAATTTCA
65 AAAAAATTTCA
10548208 CATTTACAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
90 22 0.34
91 43 0.66
ACGTcount: A:0.45, C:0.11, G:0.06, T:0.37
Consensus pattern (90 bp):
AAATTTTAAAGATTCACATCTAAAATTCAAAAATTCACATTTGAAAAATTTTAAAGATTCATATA
AAAAATTTCAAAGACCATATTTGAA
Found at i:10548192 original size:24 final size:23
Alignment explanation
Indices: 10548042--10548193 Score: 80
Period size: 22 Copynumber: 6.7 Consensus size: 23
10548032 TTTTCATATG
* * *
10548042 AAATTTTAAAGCTTCATATCT-A
1 AAATTTTAAAGATTCACATTTGA
* * *
10548064 AAA-TTCAAAAATTCATATTTGAA
1 AAATTTTAAAGATTCACATTTG-A
** * **
10548087 AAATTTTTTAGATTCATA-TCCA
1 AAATTTTAAAGATTCACATTTGA
* * *
10548109 AAATTTCAAAGA-CCATATTTGAA
1 AAATTTTAAAGATTCACATTTG-A
* *
10548132 AAATTTTAAGGATTCACATCT-A
1 AAATTTTAAAGATTCACATTTGA
* *
10548154 AAATTTCAAATATTCACATTTGA
1 AAATTTTAAAGATTCACATTTGA
10548177 GAAATTTTAAAGATTCA
1 -AAATTTTAAAGATTCA
10548194 TATAAAAAAT
Statistics
Matches: 95, Mismatches: 27, Indels: 14
0.70 0.20 0.10
Matches are distributed among these distances:
21 17 0.18
22 32 0.34
23 17 0.18
24 29 0.31
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.38
Consensus pattern (23 bp):
AAATTTTAAAGATTCACATTTGA
Found at i:10548192 original size:46 final size:46
Alignment explanation
Indices: 10548042--10548207 Score: 201
Period size: 45 Copynumber: 3.7 Consensus size: 46
10548032 TTTTCATATG
*
10548042 AAATTTTAAAGCTTCATATCTAAAA-TTCAAAAATTCATATTTGAA
1 AAATTTTAAAGATTCATATCTAAAATTTCAAAAATTCATATTTGAA
** * * *
10548087 AAATTTTTTAGATTCATATCCAAAATTTCAAAGA-CCATATTTGAA
1 AAATTTTAAAGATTCATATCTAAAATTTCAAAAATTCATATTTGAA
* * * * *
10548132 AAATTTTAAGGATTCACATCTAAAATTTCAAATATTCACATTTGAG
1 AAATTTTAAAGATTCATATCTAAAATTTCAAAAATTCATATTTGAA
**
10548178 AAATTTTAAAGATTCATATAAAAAATTTCA
1 AAATTTTAAAGATTCATATCTAAAATTTCA
10548208 CATTTACAAA
Statistics
Matches: 100, Mismatches: 19, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
45 59 0.59
46 41 0.41
ACGTcount: A:0.45, C:0.11, G:0.06, T:0.37
Consensus pattern (46 bp):
AAATTTTAAAGATTCATATCTAAAATTTCAAAAATTCATATTTGAA
Found at i:10550059 original size:12 final size:12
Alignment explanation
Indices: 10550016--10550062 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
10550006 CATTTTATCT
*
10550016 TTTCATTTTTTTC
1 TTTC-TTTTTCTC
10550029 TTT-TTTGTTCTC
1 TTTCTTT-TTCTC
10550041 ATTTCTTTTTCTC
1 -TTTCTTTTTCTC
10550054 TTTCTTTTT
1 TTTCTTTTT
10550063 TCATTACATG
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
11 3 0.10
12 13 0.43
13 11 0.37
14 3 0.10
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.77
Consensus pattern (12 bp):
TTTCTTTTTCTC
Found at i:10550062 original size:13 final size:13
Alignment explanation
Indices: 10550016--10550064 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
10550006 CATTTTATCT
10550016 TTTCATTTTTT-TC
1 TTTC-TTTTTTCTC
*
10550029 TTT-TTTGTTCTC
1 TTTCTTTTTTCTC
10550041 ATTTC-TTTTTCTC
1 -TTTCTTTTTTCTC
10550054 TTTCTTTTTTC
1 TTTCTTTTTTC
10550065 ATTACATGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
11 5 0.17
12 6 0.20
13 19 0.63
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.76
Consensus pattern (13 bp):
TTTCTTTTTTCTC
Found at i:10560431 original size:15 final size:16
Alignment explanation
Indices: 10560411--10560444 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
10560401 GATATATGTC
*
10560411 ATATAATTTTTA-ATG
1 ATATAAATTTTATATG
10560426 ATATAAATTTTATATG
1 ATATAAATTTTATATG
10560442 ATA
1 ATA
10560445 ATTTGTAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (16 bp):
ATATAAATTTTATATG
Found at i:10565189 original size:16 final size:18
Alignment explanation
Indices: 10565154--10565195 Score: 61
Period size: 16 Copynumber: 2.4 Consensus size: 18
10565144 AAAAATATAA
*
10565154 ATAAATAAACAAACAAAG
1 ATAAATAAACAAAAAAAG
10565172 ATAAA-AAA-AAAAAAAG
1 ATAAATAAACAAAAAAAG
10565188 ATAAATAA
1 ATAAATAA
10565196 TAAATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 12 0.55
17 5 0.23
18 5 0.23
ACGTcount: A:0.79, C:0.05, G:0.05, T:0.12
Consensus pattern (18 bp):
ATAAATAAACAAAAAAAG
Found at i:10566086 original size:22 final size:20
Alignment explanation
Indices: 10566043--10566108 Score: 60
Period size: 22 Copynumber: 3.1 Consensus size: 20
10566033 AAATTTAAAT
* *
10566043 GTAATTAGTATAATTTAGTA
1 GTAATTAGTATAACTTAATA
10566063 GTAACTTAGTGATAACTTAATA
1 GTAA-TTAGT-ATAACTTAATA
* *
10566085 GTAAATAGATAATAATTTAATA
1 GTAATTAG-T-ATAACTTAATA
10566107 GT
1 GT
10566109 TAATAATTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
20 4 0.11
21 8 0.21
22 26 0.68
ACGTcount: A:0.44, C:0.03, G:0.14, T:0.39
Consensus pattern (20 bp):
GTAATTAGTATAACTTAATA
Found at i:10566150 original size:3 final size:3
Alignment explanation
Indices: 10566138--10566180 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
10566128 AACAAATTAG
10566138 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
10566181 CCTTAATGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:10566302 original size:22 final size:22
Alignment explanation
Indices: 10566227--10566669 Score: 166
Period size: 22 Copynumber: 20.5 Consensus size: 22
10566217 CATAACAATG
* * *
10566227 TAATACTAAATCAATAATAACT
1 TAATAGTAAATCAATGATAATT
* ** * * *
10566249 TAACAAAAAATAAATAATAACT
1 TAATAGTAAATCAATGATAATT
* * *
10566271 TAGTAATAAATCAATGATAACT
1 TAATAGTAAATCAATGATAATT
* *
10566293 TAATAGTAAATTAGTGATAATT
1 TAATAGTAAATCAATGATAATT
* ** **
10566315 TATTAGTAAATCAATTTTAGCT
1 TAATAGTAAATCAATGATAATT
* *
10566337 TAATAGT-AATTAAT--T-A-G
1 TAATAGTAAATCAATGATAATT
* * *
10566354 TAATAGTAAAT-TATAAAAAATT
1 TAATAGTAAATCAAT-GATAATT
* *
10566376 TAGTAGTAAATCAATGATAATC
1 TAATAGTAAATCAATGATAATT
* *
10566398 TAGTAGTAAAT-AACT-AAAATT
1 TAATAGTAAATCAA-TGATAATT
* * * * *
10566419 TAGT-GATTAATCATTAAAAATT
1 TAATAG-TAAATCAATGATAATT
*
10566441 TAAAAGTAAATCAAT-ATAATT
1 TAATAGTAAATCAATGATAATT
* * ** *
10566462 TAATAATAAATTAGCGATAACT
1 TAATAGTAAATCAATGATAATT
*
10566484 TAATAGTTAATCAA-GCATAATT
1 TAATAGTAAATCAATG-ATAATT
*
10566506 TAAT-GTAAATCAATAATAATT
1 TAATAGTAAATCAATGATAATT
* *
10566527 TGATAGTAAAT-TATAGATAATT
1 TAATAGTAAATCAAT-GATAATT
* **
10566549 TAGT-GATAAATCGGTGATAATT
1 TAATAG-TAAATCAATGATAATT
** * *
10566571 TTGTAGTAAAT-AATCCA-AAAT
1 TAATAGTAAATCAAT-GATAATT
* *
10566592 TAAGTAATAAATCAATGATAATA
1 TAA-TAGTAAATCAATGATAATT
* * * *
10566615 TATTAGTAAAT-ATATAAAAATA
1 TAATAGTAAATCA-ATGATAATT
10566637 TAATAGTAAAT-AACTGATAATT
1 TAATAGTAAATCAA-TGATAATT
10566659 TAATAGTAAAT
1 TAATAGTAAAT
10566670 TGATAACTTA
Statistics
Matches: 314, Mismatches: 81, Indels: 52
0.70 0.18 0.12
Matches are distributed among these distances:
17 9 0.03
18 3 0.01
19 1 0.00
20 1 0.00
21 65 0.21
22 223 0.71
23 12 0.04
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.35
Consensus pattern (22 bp):
TAATAGTAAATCAATGATAATT
Found at i:10566463 original size:21 final size:21
Alignment explanation
Indices: 10566437--10566537 Score: 62
Period size: 21 Copynumber: 4.7 Consensus size: 21
10566427 AATCATTAAA
10566437 AATTTAAAAGTAAATCAATAT
1 AATTTAAAAGTAAATCAATAT
* **
10566458 AATTTAATAA-TAAATTAGCGAT
1 AATTTAA-AAGTAAATCA-ATAT
* * * *
10566480 AACTTAATAGTTAATCAAGCAT
1 AATTTAAAAGTAAATCAA-TAT
*
10566502 AATTT-AATGTAAATCAATAAT
1 AATTTAAAAGTAAATCAAT-AT
* *
10566523 AATTTGATAGTAAAT
1 AATTTAAAAGTAAAT
10566538 TATAGATAAT
Statistics
Matches: 58, Mismatches: 16, Indels: 11
0.68 0.19 0.13
Matches are distributed among these distances:
21 30 0.52
22 28 0.48
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (21 bp):
AATTTAAAAGTAAATCAATAT
Found at i:10566675 original size:19 final size:19
Alignment explanation
Indices: 10566637--10566689 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 19
10566627 TATAAAAATA
*
10566637 TAATAGTAAATAACTGATAATT
1 TAATAGTAAAT---TGATAACT
10566659 TAATAGTAAATTGATAACT
1 TAATAGTAAATTGATAACT
*
10566678 TAGTAGTAAATT
1 TAATAGTAAATT
10566690 CCTAATGATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 18 0.62
22 11 0.38
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (19 bp):
TAATAGTAAATTGATAACT
Found at i:10566802 original size:22 final size:22
Alignment explanation
Indices: 10566780--10566937 Score: 81
Period size: 22 Copynumber: 7.2 Consensus size: 22
10566770 AATCTTTTAG
*
10566780 TAAATCATCAATAAATTAGTAG
1 TAAATCATCAATAAATTAGTAA
*
10566802 TAAATCAAT-TATAAATTTA-TAA
1 TAAATC-ATCAATAAA-TTAGTAA
* *
10566824 TAAATTATCAATAATTTAGTAA
1 TAAATCATCAATAAATTAGTAA
* * * *
10566846 TAAATCACCAACAATTTAAT-A
1 TAAATCATCAATAAATTAGTAA
* ** * * *
10566867 GAAATCATTTATAACTTAATAG
1 TAAATCATCAATAAATTAGTAA
* *
10566889 CAAATTATGC-ATAAATTAGTAA
1 TAAATCAT-CAATAAATTAGTAA
* ** *
10566911 TAACTCATTGATAATTTAGTAA
1 TAAATCATCAATAAATTAGTAA
10566933 TAAAT
1 TAAAT
10566938 TATTGATAAC
Statistics
Matches: 101, Mismatches: 28, Indels: 14
0.71 0.20 0.10
Matches are distributed among these distances:
21 20 0.20
22 76 0.75
23 5 0.05
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.36
Consensus pattern (22 bp):
TAAATCATCAATAAATTAGTAA
Found at i:10566831 original size:18 final size:21
Alignment explanation
Indices: 10566799--10566850 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 21
10566789 AATAAATTAG
*
10566799 TAGTAAATCAATTAT-A-AATT
1 TAGT-AATAAATTATAATAATT
10566819 TA-TAATAAATTATCAATAATT
1 TAGTAATAAATTAT-AATAATT
10566840 TAGTAATAAAT
1 TAGTAATAAAT
10566851 CACCAACAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 9 0.33
19 1 0.04
20 3 0.11
21 6 0.22
22 8 0.30
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (21 bp):
TAGTAATAAATTATAATAATT
Found at i:10566942 original size:22 final size:22
Alignment explanation
Indices: 10566815--10566962 Score: 77
Period size: 22 Copynumber: 6.8 Consensus size: 22
10566805 ATCAATTATA
**
10566815 AATTTA-TAATAAATTATCAAT
1 AATTTAGTAATAAATTATTGAT
* *** *
10566836 AATTTAGTAATAAATCACCAAC
1 AATTTAGTAATAAATTATTGAT
* * * *
10566858 AATTTAAT-AGAAATCATTTAT
1 AATTTAGTAATAAATTATTGAT
* * **
10566879 AACTTAATAGCAAATTA-TGCAT
1 AATTTAGTAATAAATTATTG-AT
* * *
10566901 AAATTAGTAATAACTCATTGAT
1 AATTTAGTAATAAATTATTGAT
10566923 AATTTAGTAATAAATTATTGAT
1 AATTTAGTAATAAATTATTGAT
* **
10566945 AACTTAGTTGTAAATTAT
1 AATTTAGTAATAAATTAT
10566963 GACAACTTAA
Statistics
Matches: 97, Mismatches: 26, Indels: 7
0.75 0.20 0.05
Matches are distributed among these distances:
21 22 0.23
22 73 0.75
23 2 0.02
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.39
Consensus pattern (22 bp):
AATTTAGTAATAAATTATTGAT
Found at i:10566971 original size:21 final size:22
Alignment explanation
Indices: 10566933--10566976 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
10566923 AATTTAGTAA
* *
10566933 TAAATTATTGATAACTTAGTTG
1 TAAATTATTGACAACTTAATTG
10566955 TAAATTA-TGACAACTTAATTG
1 TAAATTATTGACAACTTAATTG
10566976 T
1 T
10566977 CAATCCTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (22 bp):
TAAATTATTGACAACTTAATTG
Found at i:10566992 original size:22 final size:20
Alignment explanation
Indices: 10566940--10566992 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
10566930 TAATAAATTA
*
10566940 TTGATAACTTAGTTGTAAAT
1 TTGATAACTTAATTGTAAAT
* *
10566960 TATGACAACTTAATTGTCAAT
1 T-TGATAACTTAATTGTAAAT
10566981 CCTTGATAACTT
1 --TTGATAACTT
10566993 TTTTATACTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 1 0.04
21 16 0.62
22 8 0.31
23 1 0.04
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (20 bp):
TTGATAACTTAATTGTAAAT
Found at i:10567305 original size:22 final size:22
Alignment explanation
Indices: 10567226--10567401 Score: 67
Period size: 22 Copynumber: 8.0 Consensus size: 22
10567216 TAACATATTT
* **
10567226 ATAAATCAATGATAGGTTAATA
1 ATAAATTAATGATAACTTAATA
*
10567248 A-AAA-AAAGTGATAACTTAATA
1 ATAAATTAA-TGATAACTTAATA
* * * *
10567269 GTTAA-TAATTAATAACTTACTA
1 ATAAATTAA-TGATAACTTAATA
*
10567291 AT-AATTCAATGATAATTTAATA
1 ATAAATT-AATGATAACTTAATA
* *
10567313 GTAAATTAATGATAAGTTAATA
1 ATAAATTAATGATAACTTAATA
* * * *
10567335 GT-AATTAATTAATGAACTTAGTC
1 ATAAATTAA-TGAT-AACTTAATA
** *
10567358 AT-ACGTCATGAATAACTTAATA
1 ATAAATTAATG-ATAACTTAATA
* * *
10567380 GTAAATTGATGATAATTTAATA
1 ATAAATTAATGATAACTTAATA
10567402 GTTAATAGTT
Statistics
Matches: 114, Mismatches: 31, Indels: 18
0.70 0.19 0.11
Matches are distributed among these distances:
20 2 0.02
21 22 0.19
22 67 0.59
23 23 0.20
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (22 bp):
ATAAATTAATGATAACTTAATA
Found at i:10567340 original size:44 final size:44
Alignment explanation
Indices: 10567256--10567340 Score: 100
Period size: 44 Copynumber: 1.9 Consensus size: 44
10567246 TAAAAAAAAG
* *
10567256 TGATAACTTAATAGTTAATAATTAATAACTTACTAATAATTCAA
1 TGATAACTTAATAGTAAATAATTAATAACTTAATAATAATTCAA
* * * *
10567300 TGATAATTTAATAGTAAATTAA-TGATAAGTTAATAGTAATT
1 TGATAACTTAATAGTAAA-TAATTAATAACTTAATAATAATT
10567341 AATTAATGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
44 31 0.91
45 3 0.09
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.40
Consensus pattern (44 bp):
TGATAACTTAATAGTAAATAATTAATAACTTAATAATAATTCAA
Found at i:10567392 original size:67 final size:65
Alignment explanation
Indices: 10567256--10567408 Score: 182
Period size: 67 Copynumber: 2.3 Consensus size: 65
10567246 TAAAAAAAAG
* *
10567256 TGATAACTTAATAGTTAATAATTAATAACTTACTAATAATTCAATGATAATTTAATAGTAAATTA
1 TGATAACTTAATAG-TAATAATTAATAACTTACTAATAAGTCAATGATAACTTAATAGTAAATTA
10567321 A
65 A
* * * *
10567322 TGATAAGTTAATAGTAATTAATTAATGAACTTAGTCATACGTC-ATGAATAACTTAATAGTAAAT
1 TGATAACTTAATAGTAA-TAATTAAT-AACTTACTAATAAGTCAATG-ATAACTTAATAGTAAAT
*
10567386 TGA
63 TAA
*
10567389 TGATAATTTAATAGTTAATA
1 TGATAACTTAATAG-TAATA
10567409 GTTGAAAACT
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
65 3 0.04
66 24 0.32
67 45 0.60
68 3 0.04
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.39
Consensus pattern (65 bp):
TGATAACTTAATAGTAATAATTAATAACTTACTAATAAGTCAATGATAACTTAATAGTAAATTAA
Found at i:10567421 original size:22 final size:22
Alignment explanation
Indices: 10567365--10567427 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
10567355 GTCATACGTC
*
10567365 ATGAATAACTTAATAGTAAATTG
1 ATGAA-AACTTAATAGTAAATAG
* * *
10567388 ATGATAATTTAATAGTTAATAG
1 ATGAAAACTTAATAGTAAATAG
* *
10567410 TTGAAAACTTAAAAGTAA
1 ATGAAAACTTAATAGTAA
10567428 GTAGTAGTAA
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
22 27 0.87
23 4 0.13
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.35
Consensus pattern (22 bp):
ATGAAAACTTAATAGTAAATAG
Found at i:10567454 original size:22 final size:22
Alignment explanation
Indices: 10567429--10567710 Score: 80
Period size: 22 Copynumber: 12.9 Consensus size: 22
10567419 TAAAAGTAAG
10567429 TAGTAGTAAATC-ATCAATAACT
1 TAGTAGTAAATCAAT-AATAACT
*
10567451 TAGTAGTTAATCAATAATAACT
1 TAGTAGTAAATCAATAATAACT
* * * * *
10567473 TAATAATAAAT-TATGTATAATT
1 TAGTAGTAAATCAAT-AATAACT
* * * *
10567495 TAATA-TAAATTAGTGATAACT
1 TAGTAGTAAATCAATAATAACT
* * *
10567516 T-GATAATGAATC-ATAATTAATT
1 TAG-TAGTAAATCAATAA-TAACT
* * *
10567538 TAGCTA-T-AATCTATGATAATT
1 TAG-TAGTAAATCAATAATAACT
* * *
10567559 TTGTGGTAAAT-AATAAAAAACT
1 TAGTAGTAAATCAAT-AATAACT
* * * *
10567581 AAGTAGCAAATCAATGATAACA
1 TAGTAGTAAATCAATAATAACT
* *
10567603 TAGTAATAAATGAATAATAA-T
1 TAGTAGTAAATCAATAATAACT
* * *
10567624 ATAGTAGTAAATTATTAATAATT
1 -TAGTAGTAAATCAATAATAACT
* * *
10567647 TAG-ATGTAAATTATTGATAACT
1 TAGTA-GTAAATCAATAATAACT
* * * *
10567669 TATTAGTAAATTAGTAACAACT
1 TAGTAGTAAATCAATAATAACT
* * *
10567691 TAGTTGCAAATCAATGATAA
1 TAGTAGTAAATCAATAATAA
10567711 TTTAATTGTA
Statistics
Matches: 190, Mismatches: 54, Indels: 32
0.69 0.20 0.12
Matches are distributed among these distances:
20 1 0.01
21 32 0.17
22 147 0.77
23 10 0.05
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.36
Consensus pattern (22 bp):
TAGTAGTAAATCAATAATAACT
Found at i:10567513 original size:21 final size:22
Alignment explanation
Indices: 10567467--10567522 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
10567457 TTAATCAATA
10567467 ATAACTTAATAATAAATTATGT
1 ATAACTTAATAATAAATTATGT
*
10567489 ATAATTTAAT-ATAAATTA-GT
1 ATAACTTAATAATAAATTATGT
*
10567509 GATAACTTGATAAT
1 -ATAACTTAATAAT
10567523 GAATCATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 2 0.07
21 16 0.55
22 11 0.38
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (22 bp):
ATAACTTAATAATAAATTATGT
Found at i:10567677 original size:44 final size:45
Alignment explanation
Indices: 10567628--10567735 Score: 121
Period size: 44 Copynumber: 2.4 Consensus size: 45
10567618 AATAATATAG
* * * *
10567628 TAGTAAATTATTAATAATTTAGATGTAAATTATTGATAACTT-AT
1 TAGTAAATTAGTAATAATTTAGATGCAAATCAATGATAACTTAAT
* * * *
10567672 TAGTAAATTAGTAACAACTTAGTTGCAAATCAATGATAATTTAAT
1 TAGTAAATTAGTAATAATTTAGATGCAAATCAATGATAACTTAAT
*
10567717 T-GTAAATTAGTGATAATTT
1 TAGTAAATTAGTAATAATTT
10567736 TGTAGTAAAT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
44 49 0.94
45 3 0.06
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.42
Consensus pattern (45 bp):
TAGTAAATTAGTAATAATTTAGATGCAAATCAATGATAACTTAAT
Found at i:10567730 original size:22 final size:22
Alignment explanation
Indices: 10567630--10567749 Score: 82
Period size: 22 Copynumber: 5.5 Consensus size: 22
10567620 TAATATAGTA
* *
10567630 GTAAATTATTAATAATTTAGA-T
1 GTAAATTAGTGATAATTTA-ATT
* *
10567652 GTAAATTATTGATAACTT-ATT
1 GTAAATTAGTGATAATTTAATT
* * * *
10567673 AGTAAATTAGTAACAACTTAGTT
1 -GTAAATTAGTGATAATTTAATT
* * *
10567696 GCAAATCAATGATAATTTAATT
1 GTAAATTAGTGATAATTTAATT
** *
10567718 GTAAATTAGTGATAATTTTGTA
1 GTAAATTAGTGATAATTTAATT
10567740 GTAAATTAGT
1 GTAAATTAGT
10567750 TTTCATTGAT
Statistics
Matches: 76, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
20 1 0.01
21 1 0.01
22 72 0.95
23 2 0.03
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.42
Consensus pattern (22 bp):
GTAAATTAGTGATAATTTAATT
Found at i:10567794 original size:11 final size:11
Alignment explanation
Indices: 10567770--10567896 Score: 69
Period size: 11 Copynumber: 11.6 Consensus size: 11
10567760 AATTTTGTAG
**
10567770 TAAATTATCGA
1 TAAATTATTAA
10567781 TAAATTATTAA
1 TAAATTATTAA
*
10567792 TAATTTAGTT-A
1 TAAATTA-TTAA
*
10567803 TAATTTA-TAA
1 TAAATTATTAA
* *
10567813 TAAATAATTAG
1 TAAATTATTAA
* * *
10567824 TAACTTAATAG
1 TAAATTATTAA
*
10567835 TAAATTATCAA
1 TAAATTATTAA
* *
10567846 TAATTTATTAG
1 TAAATTATTAA
* *
10567857 TAAATCATTCA
1 TAAATTATTAA
* * *
10567868 TAACTTAGTAG
1 TAAATTATTAA
*
10567879 TAAATCATTAA
1 TAAATTATTAA
10567890 TAAATTA
1 TAAATTA
10567897 GTAGTACTTT
Statistics
Matches: 83, Mismatches: 30, Indels: 6
0.70 0.25 0.05
Matches are distributed among these distances:
9 1 0.01
10 6 0.07
11 74 0.89
12 2 0.02
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (11 bp):
TAAATTATTAA
Found at i:10567857 original size:22 final size:22
Alignment explanation
Indices: 10567758--10567902 Score: 73
Period size: 22 Copynumber: 6.6 Consensus size: 22
10567748 GTTTTCATTG
*
10567758 ATAATTT-TGTAGTAAATTATCG
1 ATAATTTAT-TAGTAAATTATCA
* * * *
10567780 ATAAATTATTAATAATTTAGT-T
1 ATAATTTATTAGTAAATTA-TCA
* * *
10567802 ATAATTTA-TAATAAATAATTA
1 ATAATTTATTAGTAAATTATCA
* * *
10567823 GTAACTTAATAGTAAATTATCA
1 ATAATTTATTAGTAAATTATCA
*
10567845 ATAATTTATTAGTAAATCATTC-
1 ATAATTTATTAGTAAATTA-TCA
* * * *
10567867 ATAACTTAGTAGTAAATCATTA
1 ATAATTTATTAGTAAATTATCA
* *
10567889 ATAAATTAGTAGTA
1 ATAATTTATTAGTA
10567903 CTTTTTATTG
Statistics
Matches: 96, Mismatches: 21, Indels: 12
0.74 0.16 0.09
Matches are distributed among these distances:
20 1 0.01
21 15 0.16
22 76 0.79
23 4 0.04
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.42
Consensus pattern (22 bp):
ATAATTTATTAGTAAATTATCA
Found at i:10567872 original size:44 final size:43
Alignment explanation
Indices: 10567802--10567902 Score: 114
Period size: 44 Copynumber: 2.3 Consensus size: 43
10567792 TAATTTAGTT
* *
10567802 ATAATTTATAATAAATAATTAGTAACTTAATAGTAAATTATCA
1 ATAATTTATAGTAAATAATTAGTAACTTAATAGTAAATCATCA
* * *
10567845 ATAATTTATTAGTAAATCATTCA-TAACTTAGTAGTAAATCATTA
1 ATAATTTA-TAGTAAATAATT-AGTAACTTAATAGTAAATCATCA
*
10567889 ATAAATTAGTAGTA
1 ATAATTTA-TAGTA
10567903 CTTTTTATTG
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
43 8 0.16
44 40 0.82
45 1 0.02
ACGTcount: A:0.48, C:0.06, G:0.07, T:0.40
Consensus pattern (43 bp):
ATAATTTATAGTAAATAATTAGTAACTTAATAGTAAATCATCA
Found at i:10568927 original size:16 final size:17
Alignment explanation
Indices: 10568898--10568929 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
10568888 TCCTAAAAAC
10568898 ATGCAACAAAATCTAAG
1 ATGCAACAAAATCTAAG
10568915 ATGCAAC-AAATCTAA
1 ATGCAACAAAATCTAA
10568930 TCGAAATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.53, C:0.19, G:0.09, T:0.19
Consensus pattern (17 bp):
ATGCAACAAAATCTAAG
Found at i:10570610 original size:22 final size:22
Alignment explanation
Indices: 10570582--10570650 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
10570572 ACTTCAATGC
10570582 TAATTTAGTAGTAAATAATTGA
1 TAATTTAGTAGTAAATAATTGA
* ** *
10570604 TAATTTAGTAGCATGTTATTGA
1 TAATTTAGTAGTAAATAATTGA
* * *
10570626 TAATTTAGTAATAAATCATTAA
1 TAATTTAGTAGTAAATAATTGA
10570648 TAA
1 TAA
10570651 AATAATATGA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.43, C:0.03, G:0.12, T:0.42
Consensus pattern (22 bp):
TAATTTAGTAGTAAATAATTGA
Found at i:10571030 original size:20 final size:21
Alignment explanation
Indices: 10570955--10571081 Score: 95
Period size: 21 Copynumber: 6.0 Consensus size: 21
10570945 AATAATTACT
*
10570955 AAAAGTATATCATA-AGTTATC
1 AAAATTATATCA-AGAGTTATC
* *
10570976 AAAAGATTAAATCAAGAGATTATT
1 -AAA-ATTATATCAAGAG-TTATC
10571000 AAAATTATATCAAGAGTTATC
1 AAAATTATATCAAGAGTTATC
10571021 AAAA-TATATCACA-AGTTA-C
1 AAAATTATATCA-AGAGTTATC
*
10571040 CAAATTAATATC-AGAGGTTATC
1 AAAATT-ATATCAAGA-GTTATC
*
10571062 AAAATTGTATCGAA-AGTTAT
1 AAAATTATATC-AAGAGTTAT
10571082 TAGAATTTTA
Statistics
Matches: 86, Mismatches: 8, Indels: 23
0.74 0.07 0.20
Matches are distributed among these distances:
19 5 0.06
20 14 0.16
21 27 0.31
22 23 0.27
23 13 0.15
24 4 0.05
ACGTcount: A:0.48, C:0.09, G:0.11, T:0.31
Consensus pattern (21 bp):
AAAATTATATCAAGAGTTATC
Found at i:10571124 original size:27 final size:26
Alignment explanation
Indices: 10571080--10571135 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
10571070 ATCGAAAGTT
* * *
10571080 ATTAGAATTTTATTAAAAGTTATGTAA
1 ATTAAAATTATATCAAAAGTTAT-TAA
10571107 ATTAAAATTATATCAAAAGTTATTAA
1 ATTAAAATTATATCAAAAGTTATTAA
10571133 ATT
1 ATT
10571136 TTACTTACAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 6 0.23
27 20 0.77
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (26 bp):
ATTAAAATTATATCAAAAGTTATTAA
Found at i:10571131 original size:21 final size:21
Alignment explanation
Indices: 10570954--10571133 Score: 94
Period size: 21 Copynumber: 8.2 Consensus size: 21
10570944 TAATAATTAC
* *
10570954 TAAAAGTATATCATAAGTTAT
1 TAAAATTATATCAAAAGTTAT
* * *
10570975 CAAAAGATTAAATCAAGAGATTAT
1 -TAAA-ATTATATCAAAAG-TTAT
*
10570999 TAAAATTATATCAAGAGTTAT
1 TAAAATTATATCAAAAGTTAT
* *
10571020 CAAAA-TATATCACAAGTTA-
1 TAAAATTATATCAAAAGTTAT
** * *
10571039 CCAAATTAATATCAGAGGTTAT
1 TAAAATT-ATATCAAAAGTTAT
* * *
10571061 CAAAATTGTATCGAAAGTTAT
1 TAAAATTATATCAAAAGTTAT
* * *
10571082 TAGAATTTTATTAAAAGTTATGTAAAT
1 TAAAATTATATCAAAAG---T-T--AT
10571109 TAAAATTATATCAAAAGTTAT
1 TAAAATTATATCAAAAGTTAT
10571130 TAAA
1 TAAA
10571134 TTTTACTTAC
Statistics
Matches: 121, Mismatches: 26, Indels: 23
0.71 0.15 0.14
Matches are distributed among these distances:
19 4 0.03
20 13 0.11
21 47 0.39
22 21 0.17
23 13 0.11
24 6 0.05
25 1 0.01
27 16 0.13
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.34
Consensus pattern (21 bp):
TAAAATTATATCAAAAGTTAT
Found at i:10571250 original size:27 final size:28
Alignment explanation
Indices: 10571197--10571250 Score: 65
Period size: 27 Copynumber: 1.9 Consensus size: 28
10571187 TTCAAAAGTA
*
10571197 TATAAAAAATTATCAAAATTTACTTATAT
1 TATAAAAAA-TATCAAAATTAACTTATAT
* *
10571226 TATAAAAAA-ATTAAAATTAAGTTAT
1 TATAAAAAATATCAAAATTAACTTAT
10571251 TAATATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 13 0.59
29 9 0.41
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.39
Consensus pattern (28 bp):
TATAAAAAATATCAAAATTAACTTATAT
Found at i:10571641 original size:21 final size:21
Alignment explanation
Indices: 10571581--10571630 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 21
10571571 ATTGAATTTT
* *
10571581 TTAAAAATTACAATTAT-T-A
1 TTAAATATTACATTTATATAA
10571600 TTAAATATTACATTTATATAA
1 TTAAATATTACATTTATATAA
*
10571621 TTAATTATTA
1 TTAAATATTA
10571631 TATTGTAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 15 0.58
20 1 0.04
21 10 0.38
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (21 bp):
TTAAATATTACATTTATATAA
Found at i:10580460 original size:19 final size:19
Alignment explanation
Indices: 10580411--10580467 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
10580401 AGGTTTTCAA
*
10580411 AATTTATTATGTGAAGTT-T
1 AATTTATTA-GTTAAGTTAT
10580430 AATTGT-TTAGTTAAGTTAT
1 AATT-TATTAGTTAAGTTAT
10580449 AATTTATTAGTTAA-TTAT
1 AATTTATTAGTTAAGTTAT
10580467 A
1 A
10580468 TGAATATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
18 13 0.38
19 20 0.59
20 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (19 bp):
AATTTATTAGTTAAGTTAT
Found at i:10584207 original size:19 final size:19
Alignment explanation
Indices: 10584183--10584221 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
10584173 TGATGGATGG
10584183 ATACAAAATGTATAAACAA
1 ATACAAAATGTATAAACAA
10584202 ATACAAAATGTATAAACAA
1 ATACAAAATGTATAAACAA
10584221 A
1 A
10584222 GCCAGGACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.64, C:0.10, G:0.05, T:0.21
Consensus pattern (19 bp):
ATACAAAATGTATAAACAA
Found at i:10591550 original size:164 final size:165
Alignment explanation
Indices: 10591278--10591599 Score: 493
Period size: 164 Copynumber: 2.0 Consensus size: 165
10591268 AAACTTATGC
** *** * * *
10591278 ATTTTTCATTTTAACAGCCTGTAAAAAGTAATTTTTTTTTACTGTAAGAAACAAAAATATCTTTA
1 ATTTTTCATTTTAACAGCCTACAAAAAGTAATTTTTTACAACTATAAAAAACAAAAATATCTTCA
* * *
10591343 TATACGAAAAGCAACAATGTTTTTGTGTAATCATTGATTAACTCTTTGATGGCTATTTATGATGG
66 TATACAAAAAGCAACAATGCTTTTGTGTAATCATTGATTAACTCTTTGATGGATATTTATGATGG
10591408 TCACTTTGTTATTGTTCACAATAAAATTCTTGTGT
131 TCACTTTGTTATTGTTCACAATAAAATTCTTGTGT
* *
10591443 ATTTTTCATTTTAACAGCCTACAAAAAGTCA-TTTTTACAAGTATAAAAAACAAAAATATCTTCA
1 ATTTTTCATTTTAACAGCCTACAAAAAGTAATTTTTTACAACTATAAAAAACAAAAATATCTTCA
* * *
10591507 TATGCAAAAAGCAACAATGCTTTTGTGTAATCATTGATTAACTCTTTGATGGATGTTTATGATTG
66 TATACAAAAAGCAACAATGCTTTTGTGTAATCATTGATTAACTCTTTGATGGATATTTATGATGG
10591572 TCACTTTGTTATTGTTCACAATAAAATT
131 TCACTTTGTTATTGTTCACAATAAAATT
10591600 TTATTTTGTA
Statistics
Matches: 141, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
164 113 0.80
165 28 0.20
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (165 bp):
ATTTTTCATTTTAACAGCCTACAAAAAGTAATTTTTTACAACTATAAAAAACAAAAATATCTTCA
TATACAAAAAGCAACAATGCTTTTGTGTAATCATTGATTAACTCTTTGATGGATATTTATGATGG
TCACTTTGTTATTGTTCACAATAAAATTCTTGTGT
Found at i:10594016 original size:18 final size:18
Alignment explanation
Indices: 10593990--10594114 Score: 73
Period size: 18 Copynumber: 6.9 Consensus size: 18
10593980 CTTTGTTCTT
10593990 GATACATTTGAGGTGGAA
1 GATACATTTGAGGTGGAA
* * *
10594008 GATATATTT-A--AGGAT
1 GATACATTTGAGGTGGAA
* *
10594023 GATACATTTGTGGTGGAG
1 GATACATTTGAGGTGGAA
* *
10594041 GGTACATTTGTGGT--AA
1 GATACATTTGAGGTGGAA
10594057 TTGATACATTTGAGGT-GAA
1 --GATACATTTGAGGTGGAA
* *
10594076 TGATATATTTGAGAAGGTGGAG
1 -GATACATTT--G-AGGTGGAA
10594098 GATACATTTGAGGTGGA
1 GATACATTTGAGGTGGA
10594115 TAATAACCAT
Statistics
Matches: 83, Mismatches: 14, Indels: 20
0.71 0.12 0.17
Matches are distributed among these distances:
15 11 0.13
16 1 0.01
17 1 0.01
18 52 0.63
19 3 0.04
20 1 0.01
21 12 0.14
22 2 0.02
ACGTcount: A:0.30, C:0.04, G:0.32, T:0.34
Consensus pattern (18 bp):
GATACATTTGAGGTGGAA
Found at i:10594031 original size:33 final size:35
Alignment explanation
Indices: 10593988--10594085 Score: 103
Period size: 33 Copynumber: 2.8 Consensus size: 35
10593978 ACCTTTGTTC
10593988 TTGATACATTTGAGGTGGAAGATATATTTAAGG-A
1 TTGATACATTTGAGGTGGAAGATATATTTAAGGAA
* * * * **
10594022 -TGATACATTTGTGGTGGAGGGTACATTTGTGGTAA
1 TTGATACATTTGAGGTGGAAGATATATTTAAGG-AA
10594057 TTGATACATTTGAGGT-GAATGATATATTT
1 TTGATACATTTGAGGTGGAA-GATATATTT
10594086 GAGAAGGTGG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
33 26 0.52
35 3 0.06
36 21 0.42
ACGTcount: A:0.30, C:0.04, G:0.28, T:0.39
Consensus pattern (35 bp):
TTGATACATTTGAGGTGGAAGATATATTTAAGGAA
Found at i:10594469 original size:6 final size:6
Alignment explanation
Indices: 10594458--10594494 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
10594448 CCAAAATTCG
* *
10594458 CACCAT CACCAT CACCAT CTCCAT CACCAT CATCAT C
1 CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT C
10594495 TGGACTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.30, C:0.49, G:0.00, T:0.22
Consensus pattern (6 bp):
CACCAT
Found at i:10594481 original size:18 final size:18
Alignment explanation
Indices: 10594460--10594495 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
10594450 AAAATTCGCA
10594460 CCATCACCATCACCATCT
1 CCATCACCATCACCATCT
*
10594478 CCATCACCATCATCATCT
1 CCATCACCATCACCATCT
10594496 GGACTTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.47, G:0.00, T:0.25
Consensus pattern (18 bp):
CCATCACCATCACCATCT
Found at i:10597956 original size:26 final size:26
Alignment explanation
Indices: 10597907--10597955 Score: 91
Period size: 25 Copynumber: 1.9 Consensus size: 26
10597897 TTTCAAAAAT
10597907 TAAAAGTTTTCAAACTTATATTTTAA
1 TAAAAGTTTTCAAACTTATATTTTAA
10597933 TAAAA-TTTTCAAACTTATATTTT
1 TAAAAGTTTTCAAACTTATATTTT
10597956 TTATTTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (26 bp):
TAAAAGTTTTCAAACTTATATTTTAA
Found at i:10598204 original size:19 final size:20
Alignment explanation
Indices: 10598180--10598217 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10598170 ACAATAAAAA
*
10598180 AAAATTA-AAATTCATATAC
1 AAAATTATAAATTAATATAC
10598199 AAAATTATAAATTAATATA
1 AAAATTATAAATTAATATA
10598218 TAACATAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATTATAAATTAATATAC
Found at i:10598494 original size:39 final size:39
Alignment explanation
Indices: 10598451--10598542 Score: 132
Period size: 39 Copynumber: 2.4 Consensus size: 39
10598441 CCACCCCCAT
* *
10598451 CAATCCCTCTCCACCTTCCCCCCAACATCCCACCACACC
1 CAATCCCTCCCCACCTTCCCCCCAACACCCCACCACACC
* *
10598490 CAATCCCTCCCCACCTTCCCCTCAACGCCCCACCACACC
1 CAATCCCTCCCCACCTTCCCCCCAACACCCCACCACACC
*
10598529 CAAT-CCTGCCCACC
1 CAATCCCTCCCCACC
10598543 CCATCCAATC
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
38 9 0.19
39 39 0.81
ACGTcount: A:0.22, C:0.62, G:0.02, T:0.14
Consensus pattern (39 bp):
CAATCCCTCCCCACCTTCCCCCCAACACCCCACCACACC
Found at i:10598504 original size:20 final size:20
Alignment explanation
Indices: 10598423--10598504 Score: 57
Period size: 20 Copynumber: 4.2 Consensus size: 20
10598413 CAAACACCCT
10598423 ACCACACCCAATCCCTCCCC
1 ACCACACCCAATCCCTCCCC
*
10598443 ACC-C-CCATCAATCCCTCTCC
1 ACCACACC--CAATCCCTCCCC
* * *
10598463 ACCTTCCCCCCAA--CAT-CCC
1 ACC--ACACCCAATCCCTCCCC
10598482 ACCACACCCAATCCCTCCCC
1 ACCACACCCAATCCCTCCCC
10598502 ACC
1 ACC
10598505 TTCCCCTCAA
Statistics
Matches: 47, Mismatches: 6, Indels: 18
0.66 0.08 0.25
Matches are distributed among these distances:
17 6 0.13
18 2 0.04
19 8 0.17
20 25 0.53
22 3 0.06
23 1 0.02
24 2 0.04
ACGTcount: A:0.23, C:0.63, G:0.00, T:0.13
Consensus pattern (20 bp):
ACCACACCCAATCCCTCCCC
Found at i:10601691 original size:32 final size:32
Alignment explanation
Indices: 10601643--10601705 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
10601633 TTAAACTTTT
* *
10601643 TGTGAAATGGTGTCCAACCCAACTAGGGTTCC
1 TGTGAAATGGTATCCAACCCAACTAGCGTTCC
*
10601675 TGTGCAATGGTATCCAACCCAACTAGCGTTC
1 TGTGAAATGGTATCCAACCCAACTAGCGTTC
10601706 ATACTTTCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (32 bp):
TGTGAAATGGTATCCAACCCAACTAGCGTTCC
Found at i:10602283 original size:11 final size:10
Alignment explanation
Indices: 10602267--10602316 Score: 50
Period size: 11 Copynumber: 5.0 Consensus size: 10
10602257 CTGGTGGGAG
10602267 AAGGAAAAAGA
1 AAGGAAAAA-A
10602278 AAGG-AAAAA
1 AAGGAAAAAA
*
10602287 AA-GAAAGAA
1 AAGGAAAAAA
10602296 AAGGAAAAATA
1 AAGGAAAAA-A
*
10602307 GAGGAAAAAA
1 AAGGAAAAAA
10602317 TTATATGCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
8 1 0.03
9 9 0.27
10 10 0.30
11 13 0.39
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (10 bp):
AAGGAAAAAA
Found at i:10602406 original size:18 final size:19
Alignment explanation
Indices: 10602383--10602423 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
10602373 AAATAAAAAC
10602383 AAAATC-ATT-TACTTTTTT
1 AAAATCAATTATA-TTTTTT
10602401 AAAATCAATTATATTTTTT
1 AAAATCAATTATATTTTTT
10602420 AAAA
1 AAAA
10602424 AATTAAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.29
19 13 0.62
20 2 0.10
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (19 bp):
AAAATCAATTATATTTTTT
Found at i:10602427 original size:17 final size:17
Alignment explanation
Indices: 10602395--10602438 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
10602385 AATCATTTAC
10602395 TTTTTTAAAATCAATTATA
1 TTTTTTAAAA-CAATTA-A
10602414 TTTTTTAAAA-AATTAA
1 TTTTTTAAAACAATTAA
*
10602430 GTTTTTAAA
1 TTTTTTAAA
10602439 GAAAAAAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 9 0.38
17 5 0.21
19 10 0.42
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (17 bp):
TTTTTTAAAACAATTAA
Found at i:10602727 original size:27 final size:27
Alignment explanation
Indices: 10602664--10602727 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
10602654 ACAAGATAAA
*
10602664 ATAATTTTATTTAATCTAATTCTATTT
1 ATAATTTTATTTAATCTAATTCTATCT
*
10602691 A-AATTCTTATTTTATC-ATATTCTATCT
1 ATAATT-TTATTTAATCTA-ATTCTATCT
10602718 ATAATTTTAT
1 ATAATTTTAT
10602728 ATATCAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 5 0.16
27 23 0.72
28 4 0.12
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (27 bp):
ATAATTTTATTTAATCTAATTCTATCT
Found at i:10603623 original size:16 final size:15
Alignment explanation
Indices: 10603602--10603641 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
10603592 TTTAATTTTG
10603602 TATAATTATTATAAAA
1 TATAATTATTAT-AAA
* *
10603618 TATAATAATTATAAT
1 TATAATTATTATAAA
10603633 TATAATTAT
1 TATAATTAT
10603642 AAAATTTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATAATTATTATAAA
Found at i:10603772 original size:24 final size:23
Alignment explanation
Indices: 10603720--10603773 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
10603710 AATTATTCAT
10603720 AATTTTATTTAGATTACAATACA
1 AATTTTATTTAGATTACAATACA
10603743 ACATTTATATTT-GATTTAGCAATA-A
1 A-ATTT-TATTTAGA-TTA-CAATACA
10603768 AATTTT
1 AATTTT
10603774 TACTTGAGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
23 2 0.07
24 10 0.37
25 10 0.37
26 5 0.19
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.46
Consensus pattern (23 bp):
AATTTTATTTAGATTACAATACA
Found at i:10607324 original size:149 final size:149
Alignment explanation
Indices: 10607054--10607334 Score: 447
Period size: 149 Copynumber: 1.9 Consensus size: 149
10607044 ATCCATTACA
* * * * *
10607054 TCTTGAAAATACATGAATAAAATCTATCAAAACTTTTACAATAACGTTTTTTAAAATTATTTATT
1 TCTTGAAAATACATGAATAAAATCCATCAAAACCTTTAAAATAACATTTTTTAAAAATATTTATT
* **
10607119 ATCCAAATAAATTTAAATAAATATATTTATAAATTATATTATCCGCTTAAAAAGATTGTAACAAA
66 ATCCAAATAAATTTAAATAAATATATTTATAAATTATATCATCCAATTAAAAAGATTGTAACAAA
10607184 ATGTTAAAATCTTACATTG
131 ATGTTAAAATCTTACATTG
*
10607203 TCTTGAAAATATATGAATAAAATCCATCAAAACCTTTAAAATAACATTTTTTAAAAAATATTT-T
1 TCTTGAAAATACATGAATAAAATCCATCAAAACCTTTAAAATAACATTTTTT-AAAAATATTTAT
* *
10607267 TATCCAAATAAATTTAAATAAATATTTTTATAAATTATATCATCCAATTAAAAAGATTTTAACAA
65 TATCCAAATAAATTTAAATAAATATATTTATAAATTATATCATCCAATTAAAAAGATTGTAACAA
10607332 AAT
130 AAT
10607335 TGAATATTTT
Statistics
Matches: 120, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
149 111 0.93
150 9 0.08
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (149 bp):
TCTTGAAAATACATGAATAAAATCCATCAAAACCTTTAAAATAACATTTTTTAAAAATATTTATT
ATCCAAATAAATTTAAATAAATATATTTATAAATTATATCATCCAATTAAAAAGATTGTAACAAA
ATGTTAAAATCTTACATTG
Found at i:10610749 original size:41 final size:43
Alignment explanation
Indices: 10610686--10610765 Score: 128
Period size: 41 Copynumber: 1.9 Consensus size: 43
10610676 GGCCTACTTA
* *
10610686 TCACATGACTGTGAATGTTCCCATAGTTAGAGTTGCCAATGAC
1 TCACATGACTGTGAATATTCCCATAGTTAGAGTCGCCAATGAC
10610729 TCACAT-A-TGTGAATATTCCCATAGTTAGAGTCGCCAA
1 TCACATGACTGTGAATATTCCCATAGTTAGAGTCGCCAA
10610766 CTTATCAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 28 0.80
42 1 0.03
43 6 0.17
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (43 bp):
TCACATGACTGTGAATATTCCCATAGTTAGAGTCGCCAATGAC
Found at i:10611463 original size:27 final size:27
Alignment explanation
Indices: 10611433--10611524 Score: 67
Period size: 27 Copynumber: 3.3 Consensus size: 27
10611423 TTGTGCAGGG
10611433 AAAATTGATACTTTCAACTTTTCATCA
1 AAAATTGATACTTTCAACTTTTCATCA
* ** * * * **
10611460 AAAATTTATTTTTTTGAAAATTTATTAAGA
1 AAAATTGA-TACTTT-CAACTTT-TCATCA
*
10611490 AAAATTGATACTTTCAACTTTTCCTCA
1 AAAATTGATACTTTCAACTTTTCATCA
*
10611517 AAAGTTGA
1 AAAATTGA
10611525 ATTTTTTGAA
Statistics
Matches: 44, Mismatches: 18, Indels: 6
0.65 0.26 0.09
Matches are distributed among these distances:
27 16 0.36
28 9 0.20
29 9 0.20
30 10 0.23
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.42
Consensus pattern (27 bp):
AAAATTGATACTTTCAACTTTTCATCA
Found at i:10611569 original size:60 final size:57
Alignment explanation
Indices: 10611431--10611581 Score: 230
Period size: 57 Copynumber: 2.6 Consensus size: 57
10611421 TTTTGTGCAG
* * *
10611431 GGAAAATTGATACTTTCAACTTTTCATCAAAAATTTATTTTTTTGAAAATTTATTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTGAATTTTTTGAAAATTTATTAA
* *
10611488 GAAAAATTGATACTTTCAACTTTTCCTCAAAAGTTGAATTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTGAATTTTTTGAAAATTTA---TTAA
10611548 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT
10611582 ATTTTTTGGT
Statistics
Matches: 84, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
57 48 0.57
60 36 0.43
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTGAATTTTTTGAAAATTTATTAA
Found at i:10611597 original size:30 final size:30
Alignment explanation
Indices: 10611561--10611620 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
10611551 AAATTGATAC
10611561 TTTCAACTTTTCCTCAAAAATATTTTTTGG
1 TTTCAACTTTTCCTCAAAAATATTTTTTGG
10611591 TTTCAACTTTTCCTCAAAAATATTTTTTGG
1 TTTCAACTTTTCCTCAAAAATATTTTTTGG
10611621 AAAATTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.17, G:0.07, T:0.50
Consensus pattern (30 bp):
TTTCAACTTTTCCTCAAAAATATTTTTTGG
Found at i:10611642 original size:88 final size:89
Alignment explanation
Indices: 10611501--10611678 Score: 288
Period size: 88 Copynumber: 2.0 Consensus size: 89
10611491 AAATTGATAC
* *
10611501 TTTCAACTTTTCCTCAAAAGTTGAATTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCA
1 TTTCAACTTTTCCTCAAAAGAT-AATTTTTTGAAAATTTATTTTTAAGAAAAATTGATACTTTCA
10611566 ACTTTTCCTCAAAAATATTTTTTGG
65 ACTTTTCCTCAAAAATATTTTTTGG
*
10611591 TTTCAACTTTTCCTCAAAA-AT-ATTTTTTGGAAAATTTATTTTTAAGAAAAATTGATATTTTCA
1 TTTCAACTTTTCCTCAAAAGATAATTTTTT-GAAAATTTATTTTTAAGAAAAATTGATACTTTCA
*
10611654 ACTTTTTCTCAAAAATATTTTTTGG
65 ACTTTTCCTCAAAAATATTTTTTGG
10611679 AAACCTTGAT
Statistics
Matches: 83, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
87 7 0.08
88 56 0.67
89 1 0.01
90 19 0.23
ACGTcount: A:0.33, C:0.11, G:0.08, T:0.48
Consensus pattern (89 bp):
TTTCAACTTTTCCTCAAAAGATAATTTTTTGAAAATTTATTTTTAAGAAAAATTGATACTTTCAA
CTTTTCCTCAAAAATATTTTTTGG
Found at i:10611701 original size:59 final size:58
Alignment explanation
Indices: 10611591--10611967 Score: 490
Period size: 59 Copynumber: 6.5 Consensus size: 58
10611581 TATTTTTTGG
* * * *
10611591 TTTCAACTTTTCCTCAAAAATATTTTTTGGAAAATTTATTTTTAAGAAAAATTGATAT
1 TTTCAACTTTTCCTCAAAAATATTTTTTGGAAAATTGATTTTCAAGGAAAATTGATAC
* *
10611649 TTTCAACTTTTTCTCAAAAATATTTTTTGGAAACCTTGATTTTCAAGGAAAATTGATAC
1 TTTCAACTTTTCCTCAAAAATATTTTTTGGAAA-ATTGATTTTCAAGGAAAATTGATAC
* * *
10611708 TTTCAACTTTTCCTCAAAAAT-TTTTTT-GAAAATTTATTTTTAAGGAAAATTGATAT
1 TTTCAACTTTTCCTCAAAAATATTTTTTGGAAAATTGATTTTCAAGGAAAATTGATAC
* *
10611764 TTTCAACTTTTTCTCAAAAATATTTTTTGGAAACCTTGATTTTCAAGGAAAATTGATAC
1 TTTCAACTTTTCCTCAAAAATATTTTTTGGAAA-ATTGATTTTCAAGGAAAATTGATAC
** * * * * *
10611823 TTTCAACTTTTCCTCAAAAACCTTTTTTTGAAAATTTATTTTTAAGAAAAATTAATAC
1 TTTCAACTTTTCCTCAAAAATATTTTTTGGAAAATTGATTTTCAAGGAAAATTGATAC
* * * *
10611881 TTTCAACTTTTCC-CAAAAAAAAATCTTTGGAAACTTTGATTTTCAAGGAAAATTGATAC
1 TTTCAACTTTTCCTC-AAAAATATTTTTTGGAAA-ATTGATTTTCAAGGAAAATTGATAC
*
10611940 TTTCAACTTTTCCCCAAAAATATTTTTT
1 TTTCAACTTTTCCTCAAAAATATTTTTT
10611968 TTGATTTTTA
Statistics
Matches: 274, Mismatches: 38, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
56 41 0.15
57 11 0.04
58 88 0.32
59 133 0.49
60 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (58 bp):
TTTCAACTTTTCCTCAAAAATATTTTTTGGAAAATTGATTTTCAAGGAAAATTGATAC
Found at i:10611701 original size:147 final size:144
Alignment explanation
Indices: 10611444--10611735 Score: 419
Period size: 147 Copynumber: 2.0 Consensus size: 144
10611434 AAATTGATAC
*
10611444 TTTCAACTTTTCATCAAAAATTTATTTTTTTGAAAATTTATTAAGAAAAATTGATACTTTCAACT
1 TTTCAACTTTTCATCAAAAA-TTATTTTTTGGAAAATTTATTAAGAAAAATTGATACTTTCAACT
* * *
10611509 TTTCCTCAAAAGTTGAATTTTTTGAAAATTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCC
65 TTTCCTCAAAAGAT-AATTTTTTGAAAATTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCC
10611574 TCAAAAATATTTTTTGG
129 TCAAAAAT-TTTTTTGG
* *
10611591 TTTCAACTTTTCCTCAAAAA-TATTTTTTGGAAAATTTATTTTTAAGAAAAATTGATATTTTCAA
1 TTTCAACTTTTCATCAAAAATTATTTTTTGGAAAATTTA---TTAAGAAAAATTGATACTTTCAA
* *
10611655 CTTTTTCTCAAAA-AT-ATTTTTTGGAAACCTTGATTTTCAAGGAAAATTGATACTTTCAACTTT
63 CTTTTCCTCAAAAGATAATTTTTT-GAAA-ATTGATTTTCAAGGAAAATTGATACTTTCAACTTT
10611718 TCCTCAAAAATTTTTTTG
126 TCCTCAAAAATTTTTTTG
10611736 AAAATTTATT
Statistics
Matches: 132, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
145 24 0.18
146 11 0.08
147 63 0.48
148 34 0.26
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.46
Consensus pattern (144 bp):
TTTCAACTTTTCATCAAAAATTATTTTTTGGAAAATTTATTAAGAAAAATTGATACTTTCAACTT
TTCCTCAAAAGATAATTTTTTGAAAATTGATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTC
AAAAATTTTTTTGG
Found at i:10611968 original size:117 final size:117
Alignment explanation
Indices: 10611591--10611968 Score: 618
Period size: 117 Copynumber: 3.2 Consensus size: 117
10611581 TATTTTTTGG
*
10611591 TTTCAACTTTTCCTCAAAAATATTTTTTGGAAAATTTATTTTTAAGAAAAATTGATATTTTCAAC
1 TTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAAGAAAAATTGATATTTTCAAC
10611656 TTTTTCTCAAAAATATTTTTTGGAAACCTTGATTTTCAAGGAAAATTGATAC
66 TTTTTCTCAAAAATATTTTTTGGAAACCTTGATTTTCAAGGAAAATTGATAC
*
10611708 TTTCAACTTTTCCTC-AAAA-ATTTTTTTGAAAATTTATTTTTAAGGAAAATTGATATTTTCAAC
1 TTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAAGAAAAATTGATATTTTCAAC
10611771 TTTTTCTCAAAAATATTTTTTGGAAACCTTGATTTTCAAGGAAAATTGATAC
66 TTTTTCTCAAAAATATTTTTTGGAAACCTTGATTTTCAAGGAAAATTGATAC
** * *
10611823 TTTCAACTTTTCCTCAAAAACCTTTTTTTGAAAATTTATTTTTAAGAAAAATTAATACTTTCAAC
1 TTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAAGAAAAATTGATATTTTCAAC
* * * * *
10611888 -TTTTCCCAAAAAAAAATCTTTGGAAACTTTGATTTTCAAGGAAAATTGATAC
66 TTTTTCTC-AAAAATATTTTTTGGAAACCTTGATTTTCAAGGAAAATTGATAC
*
10611940 TTTCAACTTTTCCCCAAAAATATTTTTTT
1 TTTCAACTTTTCCTCAAAAATATTTTTTT
10611969 TGATTTTTAT
Statistics
Matches: 244, Mismatches: 14, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
115 109 0.45
116 14 0.06
117 121 0.50
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (117 bp):
TTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAAGAAAAATTGATATTTTCAAC
TTTTTCTCAAAAATATTTTTTGGAAACCTTGATTTTCAAGGAAAATTGATAC
Found at i:10612031 original size:6 final size:6
Alignment explanation
Indices: 10612003--10612094 Score: 61
Period size: 6 Copynumber: 15.7 Consensus size: 6
10611993 ATAATAAAAC
* *
10612003 AAAATA AAAGTC AAAAT- -AAATA AAAATA AAAA-A TAAAAT- AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA -AAAATA AAAATA
* * *
10612048 AAGAAAA GAAAAGT- AAAACA AAAATA AAAAT- AAAATA AAGATA AAAA
1 AA-AATA -AAAA-TA AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
10612095 GAATATTAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
4 4 0.06
5 11 0.16
6 45 0.67
7 5 0.07
8 2 0.03
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:10612040 original size:5 final size:5
Alignment explanation
Indices: 10611995--10612093 Score: 71
Period size: 5 Copynumber: 19.4 Consensus size: 5
10611985 AAAATAGAAT
* *
10611995 AATAA AACAA AATAA AAGTCAA AAT-A AATAA AA-AT AA-AA AATAA AATAA
1 AATAA AATAA AATAA AA-T-AA AATAA AATAA AATAA AATAA AATAA AATAA
* * *
10612044 AAT-A AAGAA AAGAA AAGTAA AACAAA AATAAA AATAA AATAA AGATAA
1 AATAA AATAA AATAA AA-TAA AA-TAA AAT-AA AATAA AATAA A-ATAA
10612092 AA
1 AA
10612094 AGAATATTAA
Statistics
Matches: 77, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
4 13 0.17
5 40 0.52
6 20 0.26
7 4 0.05
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.14
Consensus pattern (5 bp):
AATAA
Found at i:10612093 original size:22 final size:21
Alignment explanation
Indices: 10611995--10612093 Score: 78
Period size: 22 Copynumber: 4.6 Consensus size: 21
10611985 AAAATAGAAT
* *
10611995 AATAAAACAAAATAAAAGTCAA
1 AATAAAATAAAATAAAAAT-AA
10612017 AAT-AAATAAAAATAAAAAATAA
1 AATAAAAT-AAAAT-AAAAATAA
*
10612039 AATAAAATAAAGA-AAAGA-AA
1 AATAAAATAAA-ATAAAAATAA
* *
10612059 AGTAAAACAAAAATAAAAATAA
1 AATAAAA-TAAAATAAAAATAA
10612081 AATAAAGATAAAA
1 AATAAA-ATAAAA
10612094 AGAATATTAA
Statistics
Matches: 61, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
20 9 0.15
21 14 0.23
22 27 0.44
23 11 0.18
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.14
Consensus pattern (21 bp):
AATAAAATAAAATAAAAATAA
Found at i:10612094 original size:17 final size:16
Alignment explanation
Indices: 10611985--10612171 Score: 84
Period size: 17 Copynumber: 11.3 Consensus size: 16
10611975 TTATTTAAAG
*
10611985 AAAATAGAATAATAAAAC
1 AAAATA-AA-AATAAAAT
*
10612003 AAAATAAAAGTCAAAAT
1 AAAATAAAAAT-AAAAT
10612020 -AAATAAAAATAAAAAAT
1 AAAATAAAAAT--AAAAT
*
10612037 AAAAT-AAAAT-AAAG
1 AAAATAAAAATAAAAT
* * *
10612051 AAAAGAAAAGTAAAACA
1 AAAATAAAAATAAAA-T
10612068 AAAATAAAAATAAAAT
1 AAAATAAAAATAAAAT
* *
10612084 AAAGATAAAAAGAATAT
1 AAA-ATAAAAATAAAAT
* **
10612101 TAAATAAACCTAATCTAAT
1 AAAATAAA---AATAAAAT
10612120 -AAATAAAAAT-AAAT
1 AAAATAAAAATAAAAT
10612134 -AAATAAATAA-ACAAAT
1 AAAATAAA-AATA-AAAT
*
10612150 AAACA-AATAAATAAAAA
1 AAA-ATAA-AAATAAAAT
10612167 AAAAT
1 AAAAT
10612172 TTGGAGCGGC
Statistics
Matches: 131, Mismatches: 20, Indels: 37
0.70 0.11 0.20
Matches are distributed among these distances:
14 17 0.13
15 9 0.07
16 27 0.21
17 54 0.41
18 20 0.15
19 4 0.03
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.18
Consensus pattern (16 bp):
AAAATAAAAATAAAAT
Found at i:10612124 original size:4 final size:4
Alignment explanation
Indices: 10612117--10612164 Score: 64
Period size: 4 Copynumber: 12.5 Consensus size: 4
10612107 AACCTAATCT
* *
10612117 AATA AAT- AA-A AATA AATA AATA AATA AACA AATA AACA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
10612163 AA
1 AA
10612165 AAAAAATTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
3 4 0.11
4 34 0.89
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (4 bp):
AATA
Found at i:10612945 original size:9 final size:9
Alignment explanation
Indices: 10612928--10612962 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
10612918 TTCAGCCAGT
*
10612928 AAATCAAAA
1 AAATAAAAA
10612937 AAATAAAAA
1 AAATAAAAA
*
10612946 AAAAAAAAA
1 AAATAAAAA
10612955 AAATAAAA
1 AAATAAAA
10612963 TAAGATAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.89, C:0.03, G:0.00, T:0.09
Consensus pattern (9 bp):
AAATAAAAA
Found at i:10612963 original size:5 final size:5
Alignment explanation
Indices: 10612936--10613182 Score: 74
Period size: 5 Copynumber: 48.2 Consensus size: 5
10612926 GTAAATCAAA
* * * *
10612936 AAAAT AAAA- AAAA- AAAAA AAAAT AAAAT AAGAT -AAAT TAAA- AAATT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
* * * *
10612982 AACAGAT AAATT AAAAAT AGATAAT -ACAT AAATATT AACAG AAAA- AAAAT
1 AA-A-AT AAAAT -AAAAT A-A-AAT AAAAT AAA-A-T AAAAT AAAAT AAAAT
** *
10613032 -AAAT AAAAT ATATAAT ATTAT AATAT ATAAAT ATAAAT AAAA- AATAAT
1 AAAAT AAAAT A-A-AAT AAAAT AAAAT A-AAAT A-AAAT AAAAT AA-AAT
* *
10613080 AATAAT AAAAT AAAA- AAAAT ATACAT -ATAT AAAA- AATAAT AAAAAT
1 AA-AAT AAAAT AAAAT AAAAT A-AAAT AAAAT AAAAT AA-AAT -AAAAT
*
10613126 AAAAT AAAATGT AAAAT ACAAAAA AAAAT AAAAAT AAAA- AAAA- AAAA-
1 AAAAT AAAA--T AAAAT --AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT
10613173 AAAA- AAAAT A
1 AAAAT AAAAT A
10613183 GACTTACCCA
Statistics
Matches: 190, Mismatches: 22, Indels: 60
0.70 0.08 0.22
Matches are distributed among these distances:
4 50 0.26
5 77 0.41
6 39 0.21
7 24 0.13
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:10613036 original size:36 final size:35
Alignment explanation
Indices: 10612950--10613051 Score: 81
Period size: 36 Copynumber: 2.9 Consensus size: 35
10612940 TAAAAAAAAA
10612950 AAAAAAAATAAAATAAGATAAATTAA-AAA-ATTAACAG
1 AAAAAAAAT-AAAT-AGAT-AA-TAATAAATATTAACAG
**
10612987 ATAAATTAA-AAATAGATAATACATAAATATTAACAG
1 A-AAAAAAATAAATAGATAATA-ATAAATATTAACAG
10613023 AAAAAAAATAAATA-A-AAT-ATATAATATTA
1 AAAAAAAATAAATAGATAATAATA-AATATTA
10613052 TAATATATAA
Statistics
Matches: 55, Mismatches: 4, Indels: 16
0.73 0.05 0.21
Matches are distributed among these distances:
32 3 0.05
33 9 0.16
34 6 0.11
35 13 0.24
36 18 0.33
37 1 0.02
38 5 0.09
ACGTcount: A:0.69, C:0.03, G:0.04, T:0.25
Consensus pattern (35 bp):
AAAAAAAATAAATAGATAATAATAAATATTAACAG
Found at i:10613046 original size:13 final size:12
Alignment explanation
Indices: 10613024--10613164 Score: 62
Period size: 12 Copynumber: 11.3 Consensus size: 12
10613014 TATTAACAGA
*
10613024 AAAAAAATAAAT
1 AAAATAATAAAT
10613036 AAAATATATAATATT
1 AAAATA-ATAA-A-T
*
10613051 ATAATATATAAAT
1 AAAATA-ATAAAT
*
10613064 ATAAATAAAAAAT
1 A-AAATAATAAAT
10613077 AATAATAATAAA-
1 AA-AATAATAAAT
10613089 ATAAA-AA-AAAT
1 A-AAATAATAAAT
* *
10613100 ATACATATATAAAA
1 A-AAATA-ATAAAT
10613114 AATAATAA-AAAT
1 AA-AATAATAAAT
*
10613126 AAAATAA-AATGT
1 AAAATAATAA-AT
*
10613138 AAAATACA-AAAA
1 AAAATA-ATAAAT
10613150 AAAATAA-AAAT
1 AAAATAATAAAT
10613161 AAAA
1 AAAA
10613165 AAAAAAAAAA
Statistics
Matches: 103, Mismatches: 13, Indels: 27
0.72 0.09 0.19
Matches are distributed among these distances:
10 3 0.03
11 21 0.20
12 28 0.27
13 27 0.26
14 13 0.13
15 11 0.11
ACGTcount: A:0.74, C:0.01, G:0.01, T:0.24
Consensus pattern (12 bp):
AAAATAATAAAT
Found at i:10613068 original size:77 final size:75
Alignment explanation
Indices: 10612946--10613088 Score: 182
Period size: 77 Copynumber: 1.9 Consensus size: 75
10612936 AAAATAAAAA
*
10612946 AAAAAAAAAAAATAAAATAAGATAAATTAAAAAATTAACAGATAAATTAAAAATAGATAATACAT
1 AAAAAAAAAAAATAAAATAAGATAAATTAAAAAATTAACAGATAAATAAAAAATA-ATAATA-AT
10613011 AAATATTAACAG
64 AAATATTAACAG
* * * * *
10613023 AAAAAAAATAAATAAAAT-ATATAATATTATAATATATAA-ATATAAATAAAAAATAATAATAAT
1 AAAAAAAAAAAATAAAATAAGATAA-ATTAAAAAAT-TAACAGATAAATAAAAAATAATAATAAT
10613086 AAA
64 AAA
10613089 ATAAAAAAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
75 5 0.09
76 11 0.19
77 39 0.67
78 3 0.05
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (75 bp):
AAAAAAAAAAAATAAAATAAGATAAATTAAAAAATTAACAGATAAATAAAAAATAATAATAATAA
ATATTAACAG
Found at i:10613078 original size:17 final size:17
Alignment explanation
Indices: 10613009--10613182 Score: 69
Period size: 17 Copynumber: 10.2 Consensus size: 17
10612999 TAGATAATAC
* * *
10613009 ATAAATATTAACAGAAA
1 ATAAATATAAATAAAAA
*
10613026 A-AAA-ATAAATAAAAT
1 ATAAATATAAATAAAAA
* * *
10613041 ATATAATAT-TATAATAT
1 ATA-AATATAAATAAAAA
10613058 ATAAATATAAATAAAAA
1 ATAAATATAAATAAAAA
10613075 ATAATAATAATAAAATAAAAA
1 AT-A-AAT-AT-AAATAAAAA
*
10613096 A-AATATACATATATAAAAA
1 ATAA-AT--ATAAATAAAAA
* *
10613115 AT-AATAAAAATAAAAT
1 ATAAATATAAATAAAAA
*
10613131 A-AAATGTAAAATACAAAA
1 ATAAATAT-AAATA-AAAA
* *
10613149 AAAAATAAAAATAAAAA
1 ATAAATATAAATAAAAA
*
10613166 A-AAA-A-AAAAAAAAA
1 ATAAATATAAATAAAAA
10613180 ATA
1 ATA
10613183 GACTTACCCA
Statistics
Matches: 121, Mismatches: 20, Indels: 34
0.69 0.11 0.19
Matches are distributed among these distances:
14 9 0.07
15 10 0.08
16 24 0.20
17 29 0.24
18 15 0.12
19 20 0.17
20 4 0.03
21 10 0.08
ACGTcount: A:0.75, C:0.02, G:0.01, T:0.22
Consensus pattern (17 bp):
ATAAATATAAATAAAAA
Found at i:10613123 original size:34 final size:34
Alignment explanation
Indices: 10613060--10613182 Score: 121
Period size: 35 Copynumber: 3.6 Consensus size: 34
10613050 TATAATATAT
*
10613060 AAATAT-AAATAAAAAATAATAATAATAAAATAAAAA
1 AAATATAAAATACAAAA-AATAAT-A-AAAATAAAAA
* *
10613096 AAATATACATATATAAAAAATAATAAAAATAAAATA
1 AAATATA-AAATACAAAAAATAATAAAAATAAAA-A
* *
10613132 AAATGTAAAATACAAAAAAAAATAAAAATAAAAA
1 AAATATAAAATACAAAAAATAATAAAAATAAAAA
10613166 AAA-A-AAAA-A-AAAAAATA
1 AAATATAAAATACAAAAAATA
10613183 GACTTACCCA
Statistics
Matches: 76, Mismatches: 8, Indels: 12
0.79 0.08 0.12
Matches are distributed among these distances:
30 7 0.09
31 1 0.01
32 4 0.05
34 4 0.05
35 32 0.42
36 14 0.18
37 6 0.08
38 8 0.11
ACGTcount: A:0.79, C:0.02, G:0.01, T:0.19
Consensus pattern (34 bp):
AAATATAAAATACAAAAAATAATAAAAATAAAAA
Found at i:10613151 original size:1 final size:1
Alignment explanation
Indices: 10613145--10613180 Score: 54
Period size: 1 Copynumber: 36.0 Consensus size: 1
10613135 TGTAAAATAC
* *
10613145 AAAAAAAAATAAAAATAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
10613181 TAGACTTACC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.94, C:0.00, G:0.00, T:0.06
Consensus pattern (1 bp):
A
Found at i:10613160 original size:6 final size:6
Alignment explanation
Indices: 10613060--10613182 Score: 73
Period size: 6 Copynumber: 20.8 Consensus size: 6
10613050 TATAATATAT
* * * * *
10613060 AAATAT AAATAAA AAATAA TAATAATA AAATAA AAA-AA ATATAC ATATATA
1 AAATAA AAAT-AA AAATAA AAAT-A-A AAATAA AAATAA AAATAA AAATA-A
* *
10613111 AAA-AA TAATAA AAAT-A AAAT-A AAATGTA AAATACA AAA-AA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAAT-AA AAATA-A AAATAA AAATAA
10613157 AAATAA AAA-AA AAA-AA AAA-AA AAATA
1 AAATAA AAATAA AAATAA AAATAA AAATA
10613183 GACTTACCCA
Statistics
Matches: 96, Mismatches: 10, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
5 36 0.38
6 38 0.40
7 18 0.19
8 4 0.04
ACGTcount: A:0.79, C:0.02, G:0.01, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:10613333 original size:1 final size:1
Alignment explanation
Indices: 10613327--10613367 Score: 64
Period size: 1 Copynumber: 41.0 Consensus size: 1
10613317 GACCTTTTAC
* *
10613327 TTTTTTTGTTTTTTTTTTTTTTTTTTTTTTTTTTTTGTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
10613368 GAATCAAAGC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.05, T:0.95
Consensus pattern (1 bp):
T
Found at i:10613467 original size:40 final size:40
Alignment explanation
Indices: 10613376--10613586 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
10613366 TTGAATCAAA
* * *
10613376 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAATG
1 GCTCCTCTAAACAGAGGCACCACGACTTT--GAAA-ATAAATT
** * *
10613419 GCTCCTCTAATTAGAGGCTCAACGACTTTGAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAATAAATT
*
10613459 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAATAAATT
10613500 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAATAAATT
10613540 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAA-TAAATT
10613581 GCTCCT
1 GCTCCT
10613587 TGACAATCAT
Statistics
Matches: 157, Mismatches: 9, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
40 75 0.48
41 55 0.35
43 27 0.17
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (40 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAATAAATT
Found at i:10613526 original size:81 final size:81
Alignment explanation
Indices: 10613376--10613586 Score: 323
Period size: 81 Copynumber: 2.6 Consensus size: 81
10613366 TTGAATCAAA
* * * * ** *
10613376 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAATGGCTCCTCTAATTAGAGGCTCAA
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-GAAA-GTAAATTGCTCCTCTAAACAGAGGCACAA
10613441 CGACTTTGAAAATAAATT
64 CGACTTTGAAAATAAATT
*
10613459 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACAACG
10613524 ACTTTGAAAATAAATT
66 ACTTTGAAAATAAATT
*
10613540 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCT
10613587 TGACAATCAT
Statistics
Matches: 119, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
81 87 0.73
82 4 0.03
83 28 0.24
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (81 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACAACG
ACTTTGAAAATAAATT
Found at i:10614605 original size:9 final size:9
Alignment explanation
Indices: 10614593--10614625 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
10614583 TTTTCACTTT
10614593 TTTTTTTCA
1 TTTTTTTCA
*
10614602 TTTTTTCCA
1 TTTTTTTCA
10614611 -TTTTTTCA
1 TTTTTTTCA
10614619 TTTTTTT
1 TTTTTTT
10614626 AATCATAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:10614624 original size:8 final size:8
Alignment explanation
Indices: 10614594--10614624 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
10614584 TTTCACTTTT
10614594 TTTTTTCA
1 TTTTTTCA
10614602 TTTTTTCCA
1 TTTTTT-CA
10614611 TTTTTTCA
1 TTTTTTCA
10614619 TTTTTT
1 TTTTTT
10614625 TAATCATAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTTCA
Found at i:10619124 original size:22 final size:21
Alignment explanation
Indices: 10619096--10619138 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
10619086 AAAACCAAAC
10619096 GAAAAATAAATCAGATAAATTA
1 GAAAAATAAA-CAGATAAATTA
*
10619118 GAAAAATTAACAGATAAATTA
1 GAAAAATAAACAGATAAATTA
10619139 AAATCAGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.63, C:0.05, G:0.09, T:0.23
Consensus pattern (21 bp):
GAAAAATAAACAGATAAATTA
Found at i:10619291 original size:5 final size:5
Alignment explanation
Indices: 10619224--10619344 Score: 84
Period size: 5 Copynumber: 22.0 Consensus size: 5
10619214 CTAAGATAAA
* * *
10619224 AAAAT AATAAT AACAAT AAAAG AAAAG AAAA- AAATAT ACATATAT AAAAC
1 AAAAT AA-AAT AA-AAT AAAAT AAAAT AAAAT AAA-AT A-A-A-AT AAAAT
10619274 AATAAT AAAAAT AAAAT AAAAATGT AAAAT ACAAA- AAAAT AAAAT AAAAT
1 AA-AAT -AAAAT AAAAT -AAAA--T AAAAT A-AAAT AAAAT AAAAT AAAAT
10619324 AAAAT AAAAT AAAAAT AAAAT
1 AAAAT AAAAT -AAAAT AAAAT
10619345 GAAGAAAAAG
Statistics
Matches: 99, Mismatches: 4, Indels: 26
0.77 0.03 0.20
Matches are distributed among these distances:
4 6 0.06
5 50 0.51
6 29 0.29
7 8 0.08
8 6 0.06
ACGTcount: A:0.75, C:0.03, G:0.02, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:10619309 original size:7 final size:6
Alignment explanation
Indices: 10619223--10619343 Score: 62
Period size: 6 Copynumber: 20.7 Consensus size: 6
10619213 CCTAAGATAA
* * * *
10619223 AAAAAT AATAAT AACAAT AAAAGA- AAAGAA- AAAAAT ATACATAT ATAAAAC
1 AAAAAT AAAAAT AAAAAT AAAA-AT AAA-AAT AAAAAT A-A-AAAT A-AAAAT
* * *
10619274 AATAAT AAAAAT -AAAAT AAAAAT GTAAAAT -ACAA- AAAAAT -AAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT -AAAAAT AAAAAT AAAAAT AAAAAT
10619319 -AAAAT -AAAAT -AAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
10619344 TGAAGAAAAA
Statistics
Matches: 93, Mismatches: 12, Indels: 20
0.74 0.10 0.16
Matches are distributed among these distances:
5 33 0.35
6 43 0.46
7 11 0.12
8 6 0.06
ACGTcount: A:0.76, C:0.03, G:0.02, T:0.18
Consensus pattern (6 bp):
AAAAAT
Found at i:10619363 original size:26 final size:25
Alignment explanation
Indices: 10619216--10619369 Score: 98
Period size: 28 Copynumber: 5.8 Consensus size: 25
10619206 ATAAATACCT
*
10619216 AAGATAAAAAAATAATAATAACAATAA
1 AAGAAAAAAAAATAA-AATAA-AATAA
*
10619243 AAGAAAAGAAAAA-AATATACATATATAA
1 AAGAAAA-AAAAATAAAATA-A-A-ATAA
*
10619271 AACAATAATAAAAATAAAATAAAAATGTAA
1 AAGAA-AA-AAAAATAAAAT-AAAA--TAA
* *
10619301 AATACAAAAAAATAAAATAAAATAA
1 AAGAAAAAAAAATAAAATAAAATAA
* *
10619326 AATAAAATAAAAATAAAATGAAGA-AA
1 AAGAAAA-AAAAATAAAAT-AAAATAA
*
10619352 AAGAAAGAAAAA-AAAATA
1 AAGAAAAAAAAATAAAATA
10619370 TAGACTTACC
Statistics
Matches: 105, Mismatches: 12, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
23 1 0.01
24 5 0.05
25 14 0.13
26 21 0.20
27 17 0.16
28 25 0.24
29 10 0.10
30 11 0.10
31 1 0.01
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (25 bp):
AAGAAAAAAAAATAAAATAAAATAA
Found at i:10623031 original size:171 final size:171
Alignment explanation
Indices: 10622738--10623079 Score: 535
Period size: 171 Copynumber: 2.0 Consensus size: 171
10622728 TGCTAAATCT
* *
10622738 TAATATACATGCGTTATCCAATTATATGCGTCAGCATTTATTGAAAGGATTGTTCATTAACATTA
1 TAATATACATGCGTTATCCAATTATATGCGTCAGCATTTATTAAAAGGATTGGTCATTAACATTA
* * *
10622803 ACCTTTATGATGGACTATTTAATTATCCCTTGACGTCATGGATTGGGCAGAAGGAGATTCTTAAA
66 ACCTCTATGATGGACTATTTAATTATCCCTTGACATCATGGATTGGGAAGAAGGAGATTCTTAAA
* *
10622868 TTTTGTGAGATGAAA-AGGATATTAGTTACTGAAATAATGGC
131 TTTTATGAGATGAAAGA-GATATTAGTTACTAAAATAATGGC
* * *
10622909 TAATATGCATGCGTTATCCAATTATGTGCGTCAGCATTTATTAAAAGGATTGGTCATTAACATTG
1 TAATATACATGCGTTATCCAATTATATGCGTCAGCATTTATTAAAAGGATTGGTCATTAACATTA
* *
10622974 ACCTCTATGATGGACTATTTGATTATCCCTTGACATCATGGATTAGGTAAG-AGGAGATTCTTAA
66 ACCTCTATGATGGACTATTTAATTATCCCTTGACATCATGGATT-GGGAAGAAGGAGATTCTTAA
*
10623038 ATTTTATGAGATGAAAGAGATATTAGTTACTAAAATAGTGGC
130 ATTTTATGAGATGAAAGAGATATTAGTTACTAAAATAATGGC
10623080 GTACACAAGG
Statistics
Matches: 156, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
171 151 0.97
172 5 0.03
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (171 bp):
TAATATACATGCGTTATCCAATTATATGCGTCAGCATTTATTAAAAGGATTGGTCATTAACATTA
ACCTCTATGATGGACTATTTAATTATCCCTTGACATCATGGATTGGGAAGAAGGAGATTCTTAAA
TTTTATGAGATGAAAGAGATATTAGTTACTAAAATAATGGC
Found at i:10623650 original size:23 final size:23
Alignment explanation
Indices: 10623603--10623648 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
10623593 TCATATGATT
10623603 TTATATATTTTTATTAATACAAA
1 TTATATATTTTTATTAATACAAA
*
10623626 TTATA-ATTGTTTCATTTATACAA
1 TTATATATT-TTT-ATTAATACAA
10623649 TTGACAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 3 0.15
23 8 0.40
24 9 0.45
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (23 bp):
TTATATATTTTTATTAATACAAA
Found at i:10626765 original size:11 final size:11
Alignment explanation
Indices: 10626749--10626774 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10626739 ATAATGGATC
10626749 TAAATGAGATT
1 TAAATGAGATT
10626760 TAAATGAGATT
1 TAAATGAGATT
10626771 TAAA
1 TAAA
10626775 CAAATAACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (11 bp):
TAAATGAGATT
Found at i:10630507 original size:20 final size:21
Alignment explanation
Indices: 10630482--10630580 Score: 92
Period size: 19 Copynumber: 5.1 Consensus size: 21
10630472 TTGCATTATT
*
10630482 TATTAATTGTATGATTA-TAA
1 TATTAATTGCATGATTATTAA
10630502 TATTAATTGCATGATTATTAA
1 TATTAATTGCATGATTATTAA
10630523 TATGT--TTG--T-ATTATT--
1 TAT-TAATTGCATGATTATTAA
10630538 TATTAATTGCATGATTATT--
1 TATTAATTGCATGATTATTAA
* *
10630557 TATTATTTGCATGATTGTTAA
1 TATTAATTGCATGATTATTAA
10630578 TAT
1 TAT
10630581 ATTTGAATTA
Statistics
Matches: 67, Mismatches: 3, Indels: 17
0.77 0.03 0.20
Matches are distributed among these distances:
14 1 0.01
15 3 0.04
16 3 0.04
17 6 0.09
18 2 0.03
19 23 0.34
20 19 0.28
21 9 0.13
22 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.54
Consensus pattern (21 bp):
TATTAATTGCATGATTATTAA
Found at i:10630539 original size:56 final size:55
Alignment explanation
Indices: 10630469--10630590 Score: 172
Period size: 55 Copynumber: 2.2 Consensus size: 55
10630459 TGAATAATTT
* *
10630469 TATTTGCATTATTTATTAATTGTATGATTATAATATTAATTGCATGATTATTAATA
1 TATTTGAATTATTTATTAATTGCATGATTAT-ATATTAATTGCATGATTATTAATA
* * * * *
10630525 TGTTTGTATTATTTATTAATTGCATGATTATTTATTATTTGCATGATTGTTAATA
1 TATTTGAATTATTTATTAATTGCATGATTATATATTAATTGCATGATTATTAATA
10630580 TATTTGAATTA
1 TATTTGAATTA
10630591 CTATTTATTT
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
55 30 0.52
56 28 0.48
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.54
Consensus pattern (55 bp):
TATTTGAATTATTTATTAATTGCATGATTATATATTAATTGCATGATTATTAATA
Found at i:10630542 original size:36 final size:35
Alignment explanation
Indices: 10630462--10630556 Score: 111
Period size: 36 Copynumber: 2.7 Consensus size: 35
10630452 TTTTGCATGA
* * *
10630462 ATAATTTTATTTGCATTATTTATTAATTGTATGATT
1 ATAATATTAATTGCATGA-TTATTAATTGTATGATT
*
10630498 ATAATATTAATTGCATGATTATTAATATGTTTGTATT
1 ATAATATTAATTGCATGATTATTAAT-TGTATG-ATT
*
10630535 AT-TTATTAATTGCATGATTATT
1 ATAATATTAATTGCATGATTATT
10630557 TATTATTTGC
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
35 8 0.15
36 39 0.75
37 5 0.10
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.55
Consensus pattern (35 bp):
ATAATATTAATTGCATGATTATTAATTGTATGATT
Found at i:10630755 original size:18 final size:18
Alignment explanation
Indices: 10630716--10630765 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
10630706 GAATGATTTA
10630716 ATATATTATTGC---ATT
1 ATATATTATTGCATGATT
*
10630731 ATATATTTTTGCATGATT
1 ATATATTATTGCATGATT
*
10630749 ATTTATTATTGCATGAT
1 ATATATTATTGCATGAT
10630766 AACTTTTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
15 11 0.38
18 18 0.62
ACGTcount: A:0.30, C:0.06, G:0.10, T:0.54
Consensus pattern (18 bp):
ATATATTATTGCATGATT
Found at i:10630837 original size:34 final size:34
Alignment explanation
Indices: 10630708--10630869 Score: 148
Period size: 34 Copynumber: 4.6 Consensus size: 34
10630698 ACATATTTGA
* * *
10630708 ATGATTTAATATATTATTGCATTATATATTTTTGC
1 ATGATATAATATATTATTGCATGATA-ATTTTTAC
*
10630743 ATGAT-T-ATTTATTATTGCATGATAACTTTTGTAC
1 ATGATATAATATATTATTGCATGATAA-TTTT-TAC
* * * *
10630777 GAATCATTATAATACACTATTCCATGATAATTTTTAC
1 --ATGA-TATAATATATTATTGCATGATAATTTTTAC
* *
10630814 ATGATATAACATATTATTGCATGATAATTTTTGC
1 ATGATATAATATATTATTGCATGATAATTTTTAC
**
10630848 ATGATATTTTATATTATTGCAT
1 ATGATATAATATATTATTGCAT
10630870 TATAGTTCTT
Statistics
Matches: 103, Mismatches: 17, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
32 1 0.01
33 20 0.19
34 47 0.46
35 8 0.08
36 3 0.03
37 4 0.04
38 5 0.05
39 15 0.15
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.48
Consensus pattern (34 bp):
ATGATATAATATATTATTGCATGATAATTTTTAC
Found at i:10630849 original size:14 final size:13
Alignment explanation
Indices: 10630824--10630857 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
10630814 ATGATATAAC
*
10630824 ATATTATTGCATG
1 ATATTTTTGCATG
10630837 ATAATTTTTGCATG
1 AT-ATTTTTGCATG
10630851 ATATTTT
1 ATATTTT
10630858 ATATTATTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.53
Consensus pattern (13 bp):
ATATTTTTGCATG
Found at i:10630882 original size:34 final size:32
Alignment explanation
Indices: 10630824--10630938 Score: 108
Period size: 34 Copynumber: 3.5 Consensus size: 32
10630814 ATGATATAAC
10630824 ATATTATTGCATGATAATTTTTGCATGATATTTT
1 ATATTATTGCATGAT-A-TTTTGCATGATATTTT
* * *
10630858 ATATTATTGCATTATAGTTCTTGCAAGGT-TTTT
1 ATATTATTGCATGATA-TT-TTGCATGATATTTT
* *
10630891 AT-TTATTGCATGATATATTGGCATGATATTTA
1 ATATTATTGCATGATAT-TTTGCATGATATTTT
*
10630923 ATATAACTTGCATGAT
1 ATATTA-TTGCATGAT
10630939 TGTATGATTT
Statistics
Matches: 66, Mismatches: 10, Indels: 10
0.77 0.12 0.12
Matches are distributed among these distances:
31 7 0.11
32 18 0.27
33 11 0.17
34 30 0.45
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (32 bp):
ATATTATTGCATGATATTTTGCATGATATTTT
Found at i:10631752 original size:35 final size:35
Alignment explanation
Indices: 10631706--10631775 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
10631696 TTTGAGAGCC
10631706 TTTAGATTGTCAAAACCTTTGAACTCAGCAAGTAA
1 TTTAGATTGTCAAAACCTTTGAACTCAGCAAGTAA
10631741 TTTAGATTGTCAAAACCTTTGAACTCAGCAAGTAA
1 TTTAGATTGTCAAAACCTTTGAACTCAGCAAGTAA
10631776 ATAAACCTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.31
Consensus pattern (35 bp):
TTTAGATTGTCAAAACCTTTGAACTCAGCAAGTAA
Found at i:10633833 original size:22 final size:23
Alignment explanation
Indices: 10633783--10633835 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
10633773 AATACAAATT
**
10633783 GAAAAATGAAAGAAAAAATGTGAA
1 GAAAAA-GAAAGAAAAAATGAAAA
10633807 G-AAAAGAAAGAAAAAA-GAAAA
1 GAAAAAGAAAGAAAAAATGAAAA
10633828 GAAAAAGA
1 GAAAAAGA
10633836 GAGCATTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 4 0.15
22 17 0.65
23 4 0.15
24 1 0.04
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.06
Consensus pattern (23 bp):
GAAAAAGAAAGAAAAAATGAAAA
Found at i:10635303 original size:38 final size:38
Alignment explanation
Indices: 10635251--10635542 Score: 148
Period size: 38 Copynumber: 7.8 Consensus size: 38
10635241 AATCTTAAAC
* *
10635251 AAGTACTTTATTTTTCAAAAGTTGGAGCTTTGGTGGAA
1 AAGTACTTTATTTTTCAAAAGTTGAAGCCTTGGTGGAA
* * * * **
10635289 GAGTACTTTATTTTTTATAAGTTGAAACCTCAGTGGAA
1 AAGTACTTTATTTTTCAAAAGTTGAAGCCTTGGTGGAA
* * **
10635327 AAGTAATTTACTTTTCAAAAGTCAAAGCCTTGGTGGAA
1 AAGTACTTTATTTTTCAAAAGTTGAAGCCTTGGTGGAA
* * ** * * * *
10635365 AAATACTTTATTTTTC----TTTGGTGGC--GGAGTACTT
1 AAGTACTTTATTTTTCAAAAGTTGAAGCCTTGGTGGA--A
* * ** * *
10635399 TA-TACTTTATTTTTCAAAAGTTGAAGTCTCAGTAGAT
1 AAGTACTTTATTTTTCAAAAGTTGAAGCCTTGGTGGAA
* * *** *
10635436 AAGTACTTTATTTTTCAAGAGTTGAAACCTCAATGGAG
1 AAGTACTTTATTTTTCAAAAGTTGAAGCCTTGGTGGAA
* * ** *
10635474 CAGTATTTTATTTTTCAAAAGTTGAAGCCTTGAAGGAT
1 AAGTACTTTATTTTTCAAAAGTTGAAGCCTTGGTGGAA
* * *
10635512 GAGTATTTTATTTTTCAAAAGCTTTAAGCCT
1 AAGTACTTTATTTTTCAAAAG-TTGAAGCCT
10635543 CAATTATGGG
Statistics
Matches: 188, Mismatches: 56, Indels: 19
0.71 0.21 0.07
Matches are distributed among these distances:
32 4 0.02
33 13 0.07
34 4 0.02
37 7 0.04
38 150 0.80
39 10 0.05
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (38 bp):
AAGTACTTTATTTTTCAAAAGTTGAAGCCTTGGTGGAA
Done.