Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 272 of 310
Found at i:89937703 original size:25 final size:25
Alignment explanation
Indices: 89937636--89937704 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
89937626 TCATGTATAT
* *
89937636 ATATTTTTAATAACTATATTATGTAT
1 ATATTTTTAAT-ACTATGTTATGTAC
* * *
89937662 GTATTTTTAACATTATGTTATGTAC
1 ATATTTTTAATACTATGTTATGTAC
89937687 ATATTTTTAATACTATGT
1 ATATTTTTAATACTATGT
89937705 ATATACCTGT
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
25 26 0.74
26 9 0.26
ACGTcount: A:0.33, C:0.06, G:0.07, T:0.54
Consensus pattern (25 bp):
ATATTTTTAATACTATGTTATGTAC
Found at i:89940043 original size:88 final size:87
Alignment explanation
Indices: 89939878--89940036 Score: 236
Period size: 84 Copynumber: 1.9 Consensus size: 87
89939868 CGACCAATTC
* * *
89939878 TTTATTGATTTAGTTAGTTTTTTATTAATTTAATTCTTCTTCAATTTTATATACTAGTTAGACTA
1 TTTATCGATTTAATTAGTTTTTTACTAATTTAA-TCTTCTTCAATTTTATATACTAGTTAGACTA
89939943 TCAATTTCTAATTCGACTAACTT
65 TCAATTTCTAATTCGACTAACTT
*
89939966 TTTATCGATTTAATTAGTTTTTTACT-ATTT-A-CTTCTTCGATTTTATATACTAGTT-GAACTA
1 TTTATCGATTTAATTAGTTTTTTACTAATTTAATCTTCTTCAATTTTATATACTAGTTAG-ACTA
89940027 TCAATTTCTA
65 TCAATTTCTA
89940037 GCTAATTGGA
Statistics
Matches: 66, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
83 1 0.02
84 37 0.56
86 1 0.02
87 4 0.06
88 23 0.35
ACGTcount: A:0.28, C:0.12, G:0.07, T:0.53
Consensus pattern (87 bp):
TTTATCGATTTAATTAGTTTTTTACTAATTTAATCTTCTTCAATTTTATATACTAGTTAGACTAT
CAATTTCTAATTCGACTAACTT
Found at i:89940928 original size:24 final size:25
Alignment explanation
Indices: 89940901--89940949 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
89940891 CTTTTTTTAT
*
89940901 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
89940925 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
89940950 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:89940942 original size:25 final size:23
Alignment explanation
Indices: 89940913--89940977 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
89940903 AATAAAAAAC
*
89940913 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
89940938 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
*
89940959 -TTAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAACAAATA
89940978 AATAAATAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 1 0.03
23 5 0.14
24 3 0.08
25 11 0.30
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:89940976 original size:19 final size:20
Alignment explanation
Indices: 89940939--89940977 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
89940929 TCAAATACAT
89940939 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
89940959 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAACAAATA
89940978 AATAAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:89940983 original size:20 final size:20
Alignment explanation
Indices: 89940940--89940983 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
89940930 CAAATACATT
*
89940940 TAAAACATAAAAACAAATAT
1 TAAAACATAAAAACAAATAA
*
89940960 TAAAACA-AAAAATAAATAAA
1 TAAAACATAAAAACAAAT-AA
89940980 TAAA
1 TAAA
89940984 TAATGGGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (20 bp):
TAAAACATAAAAACAAATAA
Found at i:89947430 original size:16 final size:16
Alignment explanation
Indices: 89947405--89947435 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
89947395 CACCACTTGG
*
89947405 ATTGTTTGCCATTAAA
1 ATTGTCTGCCATTAAA
89947421 ATTGTCTGCCATTAA
1 ATTGTCTGCCATTAA
89947436 TCATAATGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (16 bp):
ATTGTCTGCCATTAAA
Found at i:89949835 original size:29 final size:30
Alignment explanation
Indices: 89949782--89949892 Score: 104
Period size: 31 Copynumber: 3.7 Consensus size: 30
89949772 TATTAAAATT
* *
89949782 ATACATG-AACTTTGATCTAATGTGCAATTTG
1 ATACATGAAACTTTGAT-T-TTGTGCAATATG
89949813 ATACATGAAA-TTTGATTTTGTGCAATATG
1 ATACATGAAACTTTGATTTTGTGCAATATG
* * *
89949842 -CACATTAAACTTTGATTTTGGTTCAA-ATG
1 ATACATGAAACTTTGATTTT-GTGCAATATG
*
89949871 TATACATAAAACTTTGATTTTG
1 -ATACATGAAACTTTGATTTTG
89949893 ATTCAATTGT
Statistics
Matches: 68, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
28 7 0.10
29 22 0.32
30 7 0.10
31 30 0.44
32 2 0.03
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.41
Consensus pattern (30 bp):
ATACATGAAACTTTGATTTTGTGCAATATG
Found at i:89949886 original size:31 final size:31
Alignment explanation
Indices: 89949843--89949908 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
89949833 TGCAATATGC
* *
89949843 ACATTAAACTTTGATTTTGGTTCAAATGTAT
1 ACATAAAACTTTGATTTTGATTCAAATGTAT
*
89949874 ACATAAAACTTTGATTTTGATTCAATTGTAT
1 ACATAAAACTTTGATTTTGATTCAAATGTAT
89949905 ACAT
1 ACAT
89949909 TTAAAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.44
Consensus pattern (31 bp):
ACATAAAACTTTGATTTTGATTCAAATGTAT
Found at i:89950439 original size:86 final size:87
Alignment explanation
Indices: 89950324--89950579 Score: 333
Period size: 87 Copynumber: 3.0 Consensus size: 87
89950314 CCTTTTGTCT
* * *
89950324 TTTTTTTTGCACTCATTTAAGCAATTGAACTTT-TAAATGCATCAAAAAGACCCTCAAACTTCTT
1 TTTTTTTTGCACTCAATTAAGCACTTGAACTTTCAAAATGCATCAAAAAGACCCTCAAACTTCTT
*
89950388 CAAAAAAAGCAATTAGGCCCCC
66 CAAAAAAAGCAATTAAGCCCCC
* * *
89950410 TTTTTTTTGCACTCAAATAAGCACTTGAACTTTCAAAATACTTCAAAAAGACCCTCAAACTTCTT
1 TTTTTTTTGCACTCAATTAAGCACTTGAACTTTCAAAATGCATCAAAAAGACCCTCAAACTTCTT
89950475 CAAAAAAAGCAATTAAG-CCCC
66 CAAAAAAAGCAATTAAGCCCCC
** * * * * * *
89950496 -TTTTTTT-CACTCAATTGTGTACTTGAACTTTCAAAAATGTATAAAAAAGATCCTCAAAATTTT
1 TTTTTTTTGCACTCAATTAAGCACTTGAACTTTC-AAAATGCATCAAAAAGACCCTCAAACTTCT
89950559 TC-AAAAAAGCAATTAAGCCCC
65 TCAAAAAAAGCAATTAAGCCCC
89950580 TACTTTATTA
Statistics
Matches: 149, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
84 36 0.24
85 35 0.23
86 34 0.23
87 44 0.30
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (87 bp):
TTTTTTTTGCACTCAATTAAGCACTTGAACTTTCAAAATGCATCAAAAAGACCCTCAAACTTCTT
CAAAAAAAGCAATTAAGCCCCC
Found at i:89950815 original size:10 final size:10
Alignment explanation
Indices: 89950800--89950947 Score: 62
Period size: 10 Copynumber: 15.4 Consensus size: 10
89950790 GGTACAGTAA
89950800 TTTTTATAAT
1 TTTTTATAAT
* *
89950810 TTTTTACGAAA
1 TTTTTA-TAAT
*
89950821 TTTATAT-A-
1 TTTTTATAAT
*
89950829 TTTTTA-CAT
1 TTTTTATAAT
*
89950838 TTTATATAAT
1 TTTTTATAAT
*
89950848 TTTCTTATGA-
1 TTT-TTATAAT
* *
89950858 -CTTTATAAA
1 TTTTTATAAT
*
89950867 ATTTTATAAT
1 TTTTTATAAT
89950877 TTTTTAT-A-
1 TTTTTATAAT
*
89950885 TTTCTAT-AT
1 TTTTTATAAT
*
89950894 ATTTTATAAT
1 TTTTTATAAT
**
89950904 TTTTTACGA-
1 TTTTTATAAT
*
89950913 TTTTTATAAA
1 TTTTTATAAT
* *
89950923 ATTTTACAAT
1 TTTTTATAAT
89950933 TTTTTATATAT
1 TTTTTATA-AT
89950944 TTTT
1 TTTT
89950948 ATGATTTATA
Statistics
Matches: 100, Mismatches: 27, Indels: 21
0.68 0.18 0.14
Matches are distributed among these distances:
8 18 0.18
9 20 0.20
10 45 0.45
11 17 0.17
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:89950845 original size:19 final size:19
Alignment explanation
Indices: 89950823--89950963 Score: 66
Period size: 19 Copynumber: 7.4 Consensus size: 19
89950813 TTACGAAATT
89950823 TATATATTTTTACATTTTA
1 TATATATTTTTACATTTTA
* *
89950842 TATA-ATTTTCTTATGACTTTA
1 TATATA-TTT-TTA-CATTTTA
*
89950863 TA-AAATTTTATA-ATTTT-
1 TATATATTTT-TACATTTTA
*
89950880 T-TATATTTCTATATATTTTA
1 TATATATTT-T-TACATTTTA
89950900 TA-AT-TTTTTACGATTTT-
1 TATATATTTTTAC-ATTTTA
* * *
89950917 TATAAAATTTTACAATTTTT
1 TATATATTTTTAC-ATTTTA
*
89950937 TATATATTTTTATGA-TTTA
1 TATATATTTTTA-CATTTTA
89950956 TATATATT
1 TATATATT
89950964 CTAATTTTAA
Statistics
Matches: 95, Mismatches: 12, Indels: 30
0.69 0.09 0.22
Matches are distributed among these distances:
17 10 0.11
18 16 0.17
19 38 0.40
20 23 0.24
21 8 0.08
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (19 bp):
TATATATTTTTACATTTTA
Found at i:89950948 original size:10 final size:10
Alignment explanation
Indices: 89950821--89950963 Score: 65
Period size: 10 Copynumber: 15.0 Consensus size: 10
89950811 TTTTACGAAA
89950821 TTTATATATT
1 TTTATATATT
*
89950831 TTTACAT-TT
1 TTTATATATT
*
89950840 TATATA-ATT
1 TTTATATATT
*
89950849 TTCT-TATGA-C
1 TT-TATAT-ATT
* *
89950859 TTTATAAAAT
1 TTTATATATT
89950869 TTTATA-ATT
1 TTTATATATT
89950878 TTT-TATATT
1 TTTATATATT
*
89950887 TCTATATA-T
1 TTTATATATT
89950896 TTTATA-ATT
1 TTTATATATT
*
89950905 TTT-TACGATT
1 TTTATA-TATT
* *
89950915 TTTATAAAAT
1 TTTATATATT
*
89950925 TTTACA-ATTT
1 TTTATATA-TT
89950935 TTTATATATT
1 TTTATATATT
*
89950945 TTTAT-GATT
1 TTTATATATT
*
89950954 TATATATATT
1 TTTATATATT
89950964 CTAATTTTAA
Statistics
Matches: 100, Mismatches: 18, Indels: 30
0.68 0.12 0.20
Matches are distributed among these distances:
8 5 0.05
9 41 0.41
10 50 0.50
11 4 0.04
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (10 bp):
TTTATATATT
Found at i:89950957 original size:56 final size:56
Alignment explanation
Indices: 89950802--89950941 Score: 158
Period size: 56 Copynumber: 2.5 Consensus size: 56
89950792 TACAGTAATT
** * * * * *
89950802 TTTATAATTTTTTACGAAATTTATATATTTTTACAT-TTTATATAATTTTCTTATGAC
1 TTTATAAAATTTTAC-AATTTTTTATATTTCTATATATTT-TATAATTTTCTTACGAC
* *
89950859 TTTATAAAATTTTATAATTTTTTATATTTCTATATATTTTATAATTTT-TTACGATT
1 TTTATAAAATTTTACAATTTTTTATATTTCTATATATTTTATAATTTTCTTACGA-C
89950915 TTTATAAAATTTTACAATTTTTTATAT
1 TTTATAAAATTTTACAATTTTTTATAT
89950942 ATTTTTATGA
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
55 5 0.07
56 51 0.72
57 15 0.21
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (56 bp):
TTTATAAAATTTTACAATTTTTTATATTTCTATATATTTTATAATTTTCTTACGAC
Found at i:89950978 original size:56 final size:55
Alignment explanation
Indices: 89950862--89950978 Score: 123
Period size: 56 Copynumber: 2.1 Consensus size: 55
89950852 TTATGACTTT
* * * *
89950862 ATAAAATTTTATAATTTTTTATATTTCTATATATTTTATAATTTTTTACGATTTTT
1 ATAAAATTTTACAATTTTTTATATTTCTATATATTTTATAATATTCTAC-ATTTTA
*
89950918 ATAAAATTTTACAATTTTTTATATATT-TTTATGA-TTTATATATATTCTA-ATTTTAA
1 ATAAAATTTTACAATTTTTTATAT-TTCTATAT-ATTTTATA-ATATTCTACATTTT-A
89950974 ATAAA
1 ATAAA
89950979 TTGTTAATAT
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
55 5 0.10
56 38 0.73
57 9 0.17
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (55 bp):
ATAAAATTTTACAATTTTTTATATTTCTATATATTTTATAATATTCTACATTTTA
Found at i:89951218 original size:90 final size:87
Alignment explanation
Indices: 89951050--89951276 Score: 300
Period size: 90 Copynumber: 2.6 Consensus size: 87
89951040 AATTTTTAAT
* * *
89951050 AAAAGCAAGGGCTTAATT-TTTTTTT-TAAAGTTTGAAGGTCTTTTTGATGCATTTTGAAAGTTC
1 AAAAGTAAGGGCTTAATTGTTTTTTTGAAAAGTTTG-AGGGCTTTTTGATGCATTTTGAAAGTTC
89951113 AAATACCAAATTGAGTG-AAAAA
65 AAATACCAAATTGAGTGCAAAAA
89951135 AAAAGGTAAGGGCTTAATTGCTTTTTTTGAAAAGGTTTGAGGGCATTTTTGATGCATTTTGAAAG
1 AAAA-GTAAGGGCTTAATTG-TTTTTTTGAAAA-GTTTGAGGGC-TTTTTGATGCATTTTGAAAG
*
89951200 TTCAAGTACCCAAA-TGAGTGCAAAAA
62 TTCAAATA-CCAAATTGAGTGCAAAAA
*
89951226 AAAAGTACGGGCTTAATTGTTTTTTTTTGAAAAAGTTTGAGGGCTTTTTGA
1 AAAAGTAAGGGCTTAATTG--TTTTTTTG-AAAAGTTTGAGGGCTTTTTGA
89951277 ACCCTTAAGC
Statistics
Matches: 126, Mismatches: 6, Indels: 15
0.86 0.04 0.10
Matches are distributed among these distances:
85 4 0.03
86 13 0.10
88 7 0.06
89 7 0.06
90 59 0.47
91 32 0.25
92 4 0.03
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.37
Consensus pattern (87 bp):
AAAAGTAAGGGCTTAATTGTTTTTTTGAAAAGTTTGAGGGCTTTTTGATGCATTTTGAAAGTTCA
AATACCAAATTGAGTGCAAAAA
Found at i:89952630 original size:21 final size:21
Alignment explanation
Indices: 89952600--89952647 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
89952590 AACTATAACC
89952600 CTAAA-CTCGAACTCT-AAACT
1 CTAAACCTCGAAC-CTAAAACT
*
89952620 CTCAACCTCGAACCTAAAACT
1 CTAAACCTCGAACCTAAAACT
89952641 CTAAACC
1 CTAAACC
89952648 ATAAACCCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.40, C:0.35, G:0.04, T:0.21
Consensus pattern (21 bp):
CTAAACCTCGAACCTAAAACT
Found at i:89953120 original size:16 final size:15
Alignment explanation
Indices: 89953086--89953152 Score: 50
Period size: 15 Copynumber: 4.5 Consensus size: 15
89953076 TAATTGATAC
* *
89953086 AAAATAATATTATTT
1 AAAATAATAATAATT
89953101 AAAATAATAAATAATT
1 AAAATAAT-AATAATT
* *
89953117 AAAAT-ATACTAAAT
1 AAAATAATAATAATT
*
89953131 ACAAAT-ATTATAA-T
1 A-AAATAATAATAATT
89953145 AAAATAAT
1 AAAATAAT
89953153 TCCTACTCAA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
13 4 0.09
14 10 0.23
15 19 0.44
16 10 0.23
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
AAAATAATAATAATT
Found at i:89953562 original size:17 final size:18
Alignment explanation
Indices: 89953540--89953577 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
89953530 GACGATATTC
89953540 TTTTAT-TCCAAAATACA
1 TTTTATATCCAAAATACA
*
89953557 TTTTATGATTCAAAATACA
1 TTTTAT-ATCCAAAATACA
89953576 TT
1 TT
89953578 AAAATAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
19 12 0.67
ACGTcount: A:0.39, C:0.13, G:0.03, T:0.45
Consensus pattern (18 bp):
TTTTATATCCAAAATACA
Found at i:89969680 original size:28 final size:27
Alignment explanation
Indices: 89969649--89969705 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
89969639 TAAAATAGAA
* *
89969649 TATACACAAAGATTTAAAATAAATCATG
1 TATACA-AAAAATTTAAAATAAATAATG
*
89969677 TATATAAAAAATTTAAAATAAATAATG
1 TATACAAAAAATTTAAAATAAATAATG
89969704 TA
1 TA
89969706 AAAATAATCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (27 bp):
TATACAAAAAATTTAAAATAAATAATG
Found at i:89969778 original size:25 final size:23
Alignment explanation
Indices: 89969740--89969792 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 23
89969730 AAATATAAGA
89969740 AATAATAGAATAAT-GACAATAAT
1 AATAATAGAATAATAGA-AATAAT
*
89969763 AATAAGTAGCAATAATAGAATTAAT
1 AATAA-TAG-AATAATAGAAATAAT
89969788 AATAA
1 AATAA
89969793 AAATAAAGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 5 0.19
24 3 0.12
25 16 0.62
26 2 0.08
ACGTcount: A:0.60, C:0.04, G:0.09, T:0.26
Consensus pattern (23 bp):
AATAATAGAATAATAGAAATAAT
Found at i:89969827 original size:24 final size:23
Alignment explanation
Indices: 89969782--89969836 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 23
89969772 CAATAATAGA
89969782 ATTAA-TAATAAAAATAAAGTTG
1 ATTAATTAATAAAAATAAAGTTG
89969804 ATTAATTAATAAAAA-AAATGGTTG
1 ATTAATTAATAAAAATAAA--GTTG
89969828 ATTAATTAA
1 ATTAATTAA
89969837 AAATGGACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
22 8 0.27
23 9 0.30
24 13 0.43
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (23 bp):
ATTAATTAATAAAAATAAAGTTG
Found at i:89971848 original size:12 final size:12
Alignment explanation
Indices: 89971831--89971855 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
89971821 TAATGAGTTT
89971831 GTTGTGCTTGAG
1 GTTGTGCTTGAG
89971843 GTTGTGCTTGAG
1 GTTGTGCTTGAG
89971855 G
1 G
89971856 GCAAGCATGA
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:0.08, C:0.08, G:0.44, T:0.40
Consensus pattern (12 bp):
GTTGTGCTTGAG
Found at i:89972193 original size:15 final size:15
Alignment explanation
Indices: 89972162--89972204 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 15
89972152 TTGTGGGGTT
89972162 TTTTAAAAATATTTTA
1 TTTTAAAAATA-TTTA
89972178 TTTATAAAAATA-TTA
1 TTT-TAAAAATATTTA
89972193 TTTTAATAAATA
1 TTTTAA-AAATA
89972205 AATTTCATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 3 0.12
15 11 0.44
16 3 0.12
17 8 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TTTTAAAAATATTTA
Found at i:89972201 original size:17 final size:17
Alignment explanation
Indices: 89972165--89972202 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
89972155 TGGGGTTTTT
*
89972165 TAAAAATATTTTATTTA
1 TAAAAATATTTTATTAA
89972182 TAAAAATATTATT-TTAA
1 TAAAAATATT-TTATTAA
89972199 TAAA
1 TAAA
89972203 TAAATTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAAAAATATTTTATTAA
Found at i:89973024 original size:18 final size:17
Alignment explanation
Indices: 89972997--89973030 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
89972987 TGATTATTTG
89972997 TATGTTTGTTATACATA
1 TATGTTTGTTATACATA
89973014 TATGATTTGTTATACAT
1 TATG-TTTGTTATACAT
89973031 TTTTTGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.53
Consensus pattern (17 bp):
TATGTTTGTTATACATA
Found at i:89976386 original size:19 final size:20
Alignment explanation
Indices: 89976362--89976401 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
89976352 ATTGATCTTC
89976362 TCTGAT-AAAAATTATACAT
1 TCTGATAAAAAATTATACAT
*
89976381 TCTGATAAAAAATTATGCAT
1 TCTGATAAAAAATTATACAT
89976401 T
1 T
89976402 TTGTACTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (20 bp):
TCTGATAAAAAATTATACAT
Found at i:89979235 original size:19 final size:19
Alignment explanation
Indices: 89979210--89979261 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
89979200 AATTACAAGA
89979210 AAAAAATCAAAATGATTT-T
1 AAAAAATCAAAAT-ATTTAT
*
89979229 CAAAAATTCAAAATATTTAT
1 -AAAAAATCAAAATATTTAT
89979249 AAAAAATCCAAAA
1 AAAAAAT-CAAAA
89979262 CTTATATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 10 0.36
20 18 0.64
ACGTcount: A:0.62, C:0.10, G:0.02, T:0.27
Consensus pattern (19 bp):
AAAAAATCAAAATATTTAT
Found at i:89987673 original size:19 final size:19
Alignment explanation
Indices: 89987639--89987710 Score: 58
Period size: 20 Copynumber: 3.7 Consensus size: 19
89987629 TTATTTGTAT
89987639 TTTTTATATATTTAAAATTTA
1 TTTTTA-AT-TTTAAAATTTA
89987660 TTTTTAATTTTAAAAATTTA
1 TTTTTAATTTT-AAAATTTA
* * *
89987680 --ATTAATTTCAAAATTAA
1 TTTTTAATTTTAAAATTTA
*
89987697 TATTTAATTATTAA
1 TTTTTAATT-TTAA
89987711 CACTATTATA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
17 7 0.17
18 7 0.17
19 9 0.21
20 13 0.31
21 6 0.14
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTTAATTTTAAAATTTA
Found at i:89987675 original size:20 final size:21
Alignment explanation
Indices: 89987639--89987679 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
89987629 TTATTTGTAT
89987639 TTTTTATATATTTAAAATTTA
1 TTTTTATATATTTAAAATTTA
89987660 TTTTTA-AT-TTTAAAAATTTA
1 TTTTTATATATTT-AAAATTTA
89987680 ATTAATTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.16
20 10 0.53
21 6 0.32
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTTATATATTTAAAATTTA
Found at i:90008563 original size:23 final size:23
Alignment explanation
Indices: 90008537--90008586 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
90008527 TGGAATGTAT
*
90008537 AACTTTTACCAATTACAATATCA
1 AACTTTTACCAAATACAATATCA
90008560 AACTTTTACCAAATACAATATCA
1 AACTTTTACCAAATACAATATCA
90008583 AACT
1 AACT
90008587 CAAGTATTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (23 bp):
AACTTTTACCAAATACAATATCA
Found at i:90016155 original size:13 final size:14
Alignment explanation
Indices: 90016139--90016174 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
90016129 CAATCTCATA
90016139 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
90016152 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
90016165 TCTC-ATTTCA
1 TCTCAATTTCA
90016175 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:90016157 original size:26 final size:25
Alignment explanation
Indices: 90016119--90016181 Score: 60
Period size: 26 Copynumber: 2.5 Consensus size: 25
90016109 AACCTTTTGG
*
90016119 TTCATATTTTCAATCTC-ATATCTCAAT
1 TTCA-ATTCTCAAT-TCAATATCTC-AT
*
90016146 TTCAATTCTCAATTCAATTTCTCAT
1 TTCAATTCTCAATTCAATATCTCAT
90016171 TTC-ATTC-CAAT
1 TTCAATTCTCAAT
90016182 AGCTCAATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 4 0.12
24 4 0.12
25 7 0.21
26 14 0.42
27 4 0.12
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.48
Consensus pattern (25 bp):
TTCAATTCTCAATTCAATATCTCAT
Found at i:90016164 original size:18 final size:19
Alignment explanation
Indices: 90016126--90016166 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
90016116 TGGTTCATAT
90016126 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
90016145 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
90016163 TTTC
1 TTTC
90016167 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:90016592 original size:8 final size:10
Alignment explanation
Indices: 90016563--90016603 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
90016553 ATTCTAATAA
*
90016563 TCACATATTT
1 TCACACATTT
90016573 TCACACATTT
1 TCACACATTT
90016583 TCACA-A-TT
1 TCACACATTT
*
90016591 TCATACATTT
1 TCACACATTT
90016601 TCA
1 TCA
90016604 TTCAATTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 6 0.22
9 2 0.07
10 19 0.70
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (10 bp):
TCACACATTT
Found at i:90016829 original size:15 final size:15
Alignment explanation
Indices: 90016811--90016860 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
90016801 ATATATATAT
90016811 TATAATTTCAATCAA
1 TATAATTTCAATCAA
*
90016826 TATAAATTCAATCAA
1 TATAATTTCAATCAA
* *
90016841 AATGATTTCAATCAA
1 TATAATTTCAATCAA
90016856 TATAA
1 TATAA
90016861 ATTTGATAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.36
Consensus pattern (15 bp):
TATAATTTCAATCAA
Found at i:90017634 original size:15 final size:15
Alignment explanation
Indices: 90017595--90017641 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 15
90017585 CCTGTTTATT
90017595 CTCTGTTTCGTTTCCA
1 CTCTGTTTC-TTTCCA
*
90017611 CGTTCTGTTTCTTTTCA
1 C--TCTGTTTCTTTCCA
90017628 CTCTGTTTCTTTCC
1 CTCTGTTTCTTTCC
90017642 TTTATTTCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 12 0.44
16 1 0.04
17 6 0.22
18 8 0.30
ACGTcount: A:0.04, C:0.30, G:0.11, T:0.55
Consensus pattern (15 bp):
CTCTGTTTCTTTCCA
Found at i:90020925 original size:20 final size:20
Alignment explanation
Indices: 90020900--90020940 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
90020890 TTAAAAATAT
*
90020900 AAATTTAATATTTTTAAAAA
1 AAATTTAATATATTTAAAAA
*
90020920 AAATTTCATATATTTAAAAA
1 AAATTTAATATATTTAAAAA
90020940 A
1 A
90020941 TGTACCAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATTTAATATATTTAAAAA
Found at i:90021330 original size:75 final size:75
Alignment explanation
Indices: 90021207--90021357 Score: 302
Period size: 75 Copynumber: 2.0 Consensus size: 75
90021197 TACCCCAATT
90021207 TTATTTACCATTAATCTCTTTAAACTTACCCTTTGTAAATCTAATATATATAAAATATTGTAAAG
1 TTATTTACCATTAATCTCTTTAAACTTACCCTTTGTAAATCTAATATATATAAAATATTGTAAAG
90021272 AATCCAACCA
66 AATCCAACCA
90021282 TTATTTACCATTAATCTCTTTAAACTTACCCTTTGTAAATCTAATATATATAAAATATTGTAAAG
1 TTATTTACCATTAATCTCTTTAAACTTACCCTTTGTAAATCTAATATATATAAAATATTGTAAAG
90021347 AATCCAACCA
66 AATCCAACCA
90021357 T
1 T
90021358 ACCATAAAGA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.40, C:0.17, G:0.04, T:0.39
Consensus pattern (75 bp):
TTATTTACCATTAATCTCTTTAAACTTACCCTTTGTAAATCTAATATATATAAAATATTGTAAAG
AATCCAACCA
Found at i:90022810 original size:8 final size:8
Alignment explanation
Indices: 90022788--90022827 Score: 62
Period size: 9 Copynumber: 4.8 Consensus size: 8
90022778 TTTAATCTCC
90022788 TTTAAAAA
1 TTTAAAAA
90022796 TTATAAAAA
1 TT-TAAAAA
90022805 TTTAAAAA
1 TTTAAAAA
90022813 TTATAAAAA
1 TT-TAAAAA
90022822 TTTAAA
1 TTTAAA
90022828 TTAGTAAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 14 0.47
9 16 0.53
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TTTAAAAA
Found at i:90022810 original size:17 final size:17
Alignment explanation
Indices: 90022788--90022827 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
90022778 TTTAATCTCC
90022788 TTTAAAAATTATAAAAA
1 TTTAAAAATTATAAAAA
90022805 TTTAAAAATTATAAAAA
1 TTTAAAAATTATAAAAA
90022822 TTTAAA
1 TTTAAA
90022828 TTAGTAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTTAAAAATTATAAAAA
Found at i:90023182 original size:29 final size:29
Alignment explanation
Indices: 90023128--90023185 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
90023118 TTATAAGAAT
*
90023128 TGGATTAAATTAGTCACTCTATTATTAAA
1 TGGATTAAATTAGTCACTCTACTATTAAA
* *
90023157 TGGATTAATTTAGTC-CCCTTACTATTAAA
1 TGGATTAAATTAGTCACTC-TACTATTAAA
90023186 AATAATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.41
Consensus pattern (29 bp):
TGGATTAAATTAGTCACTCTACTATTAAA
Found at i:90023925 original size:29 final size:30
Alignment explanation
Indices: 90023893--90023957 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
90023883 TTATACTTTT
90023893 AAATTA-TTTTA-ATGACTTTTAATTTTTAA
1 AAATTACTTTTATAT-ACTTTTAATTTTTAA
**
90023922 AAATTACTTTTATATTTTTTTAATTTTTAA
1 AAATTACTTTTATATACTTTTAATTTTTAA
90023952 AAATTA
1 AAATTA
90023958 ACTAAATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
29 6 0.19
30 24 0.75
31 2 0.06
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (30 bp):
AAATTACTTTTATATACTTTTAATTTTTAA
Found at i:90023946 original size:20 final size:19
Alignment explanation
Indices: 90023886--90023946 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
90023876 CTTCTATTTA
*
90023886 TACTTTTAAATTATTTTAAT
1 TACTTTT-AATTTTTTTAAT
* **
90023906 GACTTTTAATTTTTAAAAAT
1 TACTTTTAATTTTT-TTAAT
90023926 TACTTTTATATTTTTTTAAT
1 TACTTTTA-ATTTTTTTAAT
90023946 T
1 T
90023947 TTTAAAAATT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
19 6 0.19
20 20 0.62
21 6 0.19
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (19 bp):
TACTTTTAATTTTTTTAAT
Found at i:90023967 original size:30 final size:30
Alignment explanation
Indices: 90023909--90023967 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
90023899 TTTTAATGAC
**
90023909 TTTTAATTTTTAAAAATTACTTTTATATTT
1 TTTTAATTTTTAAAAATTACTTAAATATTT
90023939 TTTTAATTTTTAAAAATTAAC-TAAATATT
1 TTTTAATTTTTAAAAATT-ACTTAAATATT
90023968 GATGTATCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (30 bp):
TTTTAATTTTTAAAAATTACTTAAATATTT
Found at i:90031440 original size:31 final size:31
Alignment explanation
Indices: 90031399--90031461 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
90031389 ATCATTGAAT
* *
90031399 TATTCTAAAGTTTTCATTTAAGTCACTAAAC
1 TATTCAAAAGTTTTCATTTAAGCCACTAAAC
*
90031430 TATTCAAAAGTTTTTATTTAAGCCACTAAAC
1 TATTCAAAAGTTTTCATTTAAGCCACTAAAC
90031461 T
1 T
90031462 GTCAGGGCGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.41
Consensus pattern (31 bp):
TATTCAAAAGTTTTCATTTAAGCCACTAAAC
Found at i:90034377 original size:16 final size:15
Alignment explanation
Indices: 90034337--90034386 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
90034327 AAAATTATAC
*
90034337 TTTTCATCCTTCTAA
1 TTTTCATCCTTCAAA
*
90034352 TTCTTTATCCATTCAAA
1 TT-TTCATCC-TTCAAA
*
90034369 TTTTCATCCTTCCAA
1 TTTTCATCCTTCAAA
90034384 TTT
1 TTT
90034387 CCTTTCTACT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 10 0.34
16 12 0.41
17 7 0.24
ACGTcount: A:0.22, C:0.26, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTTCATCCTTCAAA
Found at i:90037779 original size:3 final size:3
Alignment explanation
Indices: 90037771--90037799 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
90037761 GTGCTGATAA
90037771 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
90037800 TTTCAGTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:90043570 original size:19 final size:19
Alignment explanation
Indices: 90043548--90043591 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
90043538 AATTATTGAA
90043548 TTAATTGTT-AATTTTAATT
1 TTAATTGTTAAATTTTAA-T
90043567 TTAA-TGTTAAAATTTTAAT
1 TTAATTGTT-AAATTTTAAT
90043586 TTAATT
1 TTAATT
90043592 TTTTTAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 4 0.18
19 9 0.41
20 9 0.41
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
TTAATTGTTAAATTTTAAT
Found at i:90043736 original size:25 final size:25
Alignment explanation
Indices: 90043707--90043759 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
90043697 AAATTTTATG
* *
90043707 AATCTTATCCTAAAAATTAATA-TAA
1 AATCTAAT-CTAAAAATAAATATTAA
*
90043732 AATCTAATTTAAAAATAAATATTAA
1 AATCTAATCTAAAAATAAATATTAA
90043757 AAT
1 AAT
90043760 ATTTCAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.36
Consensus pattern (25 bp):
AATCTAATCTAAAAATAAATATTAA
Found at i:90046507 original size:528 final size:528
Alignment explanation
Indices: 90045511--90046566 Score: 2112
Period size: 528 Copynumber: 2.0 Consensus size: 528
90045501 CTTCCACCGC
90045511 TATCTTCTTCGTCCCACACTTTGGCAAAACCAACAGCTTCAGTTTCTTCGTGGCCGTTGGAGTCC
1 TATCTTCTTCGTCCCACACTTTGGCAAAACCAACAGCTTCAGTTTCTTCGTGGCCGTTGGAGTCC
90045576 CCGTCGCTGTACCCGCAGACCCAGTACCGGACCCGGTCGGGGATGGCTTTATATTAACATCAACA
66 CCGTCGCTGTACCCGCAGACCCAGTACCGGACCCGGTCGGGGATGGCTTTATATTAACATCAACA
90045641 TCACTATTCTCCTCCAGTTCACATTCCCGTGACGATAGGCTGTCAACGGGAACCGGGTCCATTTG
131 TCACTATTCTCCTCCAGTTCACATTCCCGTGACGATAGGCTGTCAACGGGAACCGGGTCCATTTG
90045706 GCCATGCATCTTCTCTTTTAATCGTAAAGGGTTGTCGTTTACGTCCGCTTCTGAAGGAACAACGG
196 GCCATGCATCTTCTCTTTTAATCGTAAAGGGTTGTCGTTTACGTCCGCTTCTGAAGGAACAACGG
90045771 TATTCGACGAAGGGGTATTGCTGTTGAGCTGTGCATTCTTGGCTGGCGAAGGAAGTTGATGGTCG
261 TATTCGACGAAGGGGTATTGCTGTTGAGCTGTGCATTCTTGGCTGGCGAAGGAAGTTGATGGTCG
90045836 GCGGCGGCGGCATTGGGTTGGGGTTGTTTAGTACTGTTACTAGTATGGGAATCAGAAGAAACCAA
326 GCGGCGGCGGCATTGGGTTGGGGTTGTTTAGTACTGTTACTAGTATGGGAATCAGAAGAAACCAA
90045901 GAGTTGGATACGGGAATTTTGAAGGATTTCACAGTACTCAACGTCACGACCATCTTGAAGGACAT
391 GAGTTGGATACGGGAATTTTGAAGGATTTCACAGTACTCAACGTCACGACCATCTTGAAGGACAT
90045966 TGCCATTAAATATTAGAGTTTGGTGAGGGATAGGGATACCATGGTATTTATGAATCTTTTCTTTG
456 TGCCATTAAATATTAGAGTTTGGTGAGGGATAGGGATACCATGGTATTTATGAATCTTTTCTTTG
90046031 ATTTCAAG
521 ATTTCAAG
90046039 TATCTTCTTCGTCCCACACTTTGGCAAAACCAACAGCTTCAGTTTCTTCGTGGCCGTTGGAGTCC
1 TATCTTCTTCGTCCCACACTTTGGCAAAACCAACAGCTTCAGTTTCTTCGTGGCCGTTGGAGTCC
90046104 CCGTCGCTGTACCCGCAGACCCAGTACCGGACCCGGTCGGGGATGGCTTTATATTAACATCAACA
66 CCGTCGCTGTACCCGCAGACCCAGTACCGGACCCGGTCGGGGATGGCTTTATATTAACATCAACA
90046169 TCACTATTCTCCTCCAGTTCACATTCCCGTGACGATAGGCTGTCAACGGGAACCGGGTCCATTTG
131 TCACTATTCTCCTCCAGTTCACATTCCCGTGACGATAGGCTGTCAACGGGAACCGGGTCCATTTG
90046234 GCCATGCATCTTCTCTTTTAATCGTAAAGGGTTGTCGTTTACGTCCGCTTCTGAAGGAACAACGG
196 GCCATGCATCTTCTCTTTTAATCGTAAAGGGTTGTCGTTTACGTCCGCTTCTGAAGGAACAACGG
90046299 TATTCGACGAAGGGGTATTGCTGTTGAGCTGTGCATTCTTGGCTGGCGAAGGAAGTTGATGGTCG
261 TATTCGACGAAGGGGTATTGCTGTTGAGCTGTGCATTCTTGGCTGGCGAAGGAAGTTGATGGTCG
90046364 GCGGCGGCGGCATTGGGTTGGGGTTGTTTAGTACTGTTACTAGTATGGGAATCAGAAGAAACCAA
326 GCGGCGGCGGCATTGGGTTGGGGTTGTTTAGTACTGTTACTAGTATGGGAATCAGAAGAAACCAA
90046429 GAGTTGGATACGGGAATTTTGAAGGATTTCACAGTACTCAACGTCACGACCATCTTGAAGGACAT
391 GAGTTGGATACGGGAATTTTGAAGGATTTCACAGTACTCAACGTCACGACCATCTTGAAGGACAT
90046494 TGCCATTAAATATTAGAGTTTGGTGAGGGATAGGGATACCATGGTATTTATGAATCTTTTCTTTG
456 TGCCATTAAATATTAGAGTTTGGTGAGGGATAGGGATACCATGGTATTTATGAATCTTTTCTTTG
90046559 ATTTCAAG
521 ATTTCAAG
90046567 AACAGTATCA
Statistics
Matches: 528, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
528 528 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (528 bp):
TATCTTCTTCGTCCCACACTTTGGCAAAACCAACAGCTTCAGTTTCTTCGTGGCCGTTGGAGTCC
CCGTCGCTGTACCCGCAGACCCAGTACCGGACCCGGTCGGGGATGGCTTTATATTAACATCAACA
TCACTATTCTCCTCCAGTTCACATTCCCGTGACGATAGGCTGTCAACGGGAACCGGGTCCATTTG
GCCATGCATCTTCTCTTTTAATCGTAAAGGGTTGTCGTTTACGTCCGCTTCTGAAGGAACAACGG
TATTCGACGAAGGGGTATTGCTGTTGAGCTGTGCATTCTTGGCTGGCGAAGGAAGTTGATGGTCG
GCGGCGGCGGCATTGGGTTGGGGTTGTTTAGTACTGTTACTAGTATGGGAATCAGAAGAAACCAA
GAGTTGGATACGGGAATTTTGAAGGATTTCACAGTACTCAACGTCACGACCATCTTGAAGGACAT
TGCCATTAAATATTAGAGTTTGGTGAGGGATAGGGATACCATGGTATTTATGAATCTTTTCTTTG
ATTTCAAG
Found at i:90055997 original size:18 final size:17
Alignment explanation
Indices: 90055976--90056009 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
90055966 ATTTGATTAA
90055976 ATAAATTATTAAAAATTT
1 ATAAATT-TTAAAAATTT
90055994 ATAAATTTTAAAAATT
1 ATAAATTTTAAAAATT
90056010 ATTTTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATAAATTTTAAAAATTT
Found at i:90058429 original size:15 final size:17
Alignment explanation
Indices: 90058404--90058437 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
90058394 ATAGAAATAT
90058404 AATATAATA-TTAAAAA
1 AATATAATATTTAAAAA
90058420 AATA-AATATTTAAAAA
1 AATATAATATTTAAAAA
90058436 AA
1 AA
90058438 GAGACTCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AATATAATATTTAAAAA
Found at i:90074266 original size:103 final size:104
Alignment explanation
Indices: 90074087--90074351 Score: 424
Period size: 103 Copynumber: 2.6 Consensus size: 104
90074077 AACCGTTATT
* * * *
90074087 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
90074152 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
*
90074190 GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
90074255 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
90074294 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
90074352 TTATGTACAA
Statistics
Matches: 149, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:90074713 original size:30 final size:29
Alignment explanation
Indices: 90074679--90074743 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
90074669 TAATCCACCA
90074679 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
90074709 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
90074739 CCCAA
1 CCCAA
90074744 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:90074717 original size:31 final size:30
Alignment explanation
Indices: 90074686--90074743 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
90074676 CCACCCAACT
90074686 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
90074716 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
90074744 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:90080356 original size:271 final size:271
Alignment explanation
Indices: 90079873--90080418 Score: 1074
Period size: 271 Copynumber: 2.0 Consensus size: 271
90079863 GAAGTCGGCA
*
90079873 TGTGGAAGAGAGGACTAAGCTTATATTATGCCTGAATTTGGTTCCCAATCTCCTGCATTTTCAAT
1 TGTGGAAGAGAGGACTAAGATTATATTATGCCTGAATTTGGTTCCCAATCTCCTGCATTTTCAAT
90079938 ATGAGATGAGCTAATTTAGTCATCCCTATTTTTAGCTTTGATTTTTTGGGTTTTCTCATTTTTAG
66 ATGAGATGAGCTAATTTAGTCATCCCTATTTTTAGCTTTGATTTTTTGGGTTTTCTCATTTTTAG
90080003 GGTAATTTTAATTATTAATCTATGTATAATACGTAAGTTGCAAATTTAATATTTGTATCATAATT
131 GGTAATTTTAATTATTAATCTATGTATAATACGTAAGTTGCAAATTTAATATTTGTATCATAATT
90080068 TCATTAATTTTAATTTGTGTATTTTTTTTGAATTAGAAACTTTTATTATGTTTTTAGTTTAATAC
196 TCATTAATTTTAATTTGTGTATTTTTTTTGAATTAGAAACTTTTATTATGTTTTTAGTTTAATAC
90080133 TATTTTTAAGT
261 TATTTTTAAGT
*
90080144 TGTGGAAGAGCGGACTAAGATTATATTATGCCTGAATTTGGTTCCCAATCTCCTGCATTTTCAAT
1 TGTGGAAGAGAGGACTAAGATTATATTATGCCTGAATTTGGTTCCCAATCTCCTGCATTTTCAAT
90080209 ATGAGATGAGCTAATTTAGTCATCCCTATTTTTAGCTTTGATTTTTTGGGTTTTCTCATTTTTAG
66 ATGAGATGAGCTAATTTAGTCATCCCTATTTTTAGCTTTGATTTTTTGGGTTTTCTCATTTTTAG
90080274 GGTAATTTTAATTATTAATCTATGTATAATACGTAAGTTGCAAATTTAATATTTGTATCATAATT
131 GGTAATTTTAATTATTAATCTATGTATAATACGTAAGTTGCAAATTTAATATTTGTATCATAATT
90080339 TCATTAATTTTAATTTGTGTATTTTTTTTGAATTAGAAACTTTTATTATGTTTTTAGTTTAATAC
196 TCATTAATTTTAATTTGTGTATTTTTTTTGAATTAGAAACTTTTATTATGTTTTTAGTTTAATAC
90080404 TATTTTTAAGT
261 TATTTTTAAGT
90080415 TGTG
1 TGTG
90080419 AATTTAATTT
Statistics
Matches: 273, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
271 273 1.00
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.48
Consensus pattern (271 bp):
TGTGGAAGAGAGGACTAAGATTATATTATGCCTGAATTTGGTTCCCAATCTCCTGCATTTTCAAT
ATGAGATGAGCTAATTTAGTCATCCCTATTTTTAGCTTTGATTTTTTGGGTTTTCTCATTTTTAG
GGTAATTTTAATTATTAATCTATGTATAATACGTAAGTTGCAAATTTAATATTTGTATCATAATT
TCATTAATTTTAATTTGTGTATTTTTTTTGAATTAGAAACTTTTATTATGTTTTTAGTTTAATAC
TATTTTTAAGT
Found at i:90080453 original size:15 final size:14
Alignment explanation
Indices: 90080421--90080467 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 14
90080411 AAGTTGTGAA
90080421 TTTAATTTATATTT
1 TTTAATTTATATTT
90080435 TTTAATTTGATCA-TT
1 TTTAATTT-AT-ATTT
90080450 TTTAATTTTATACTTT
1 TTTAA-TTTATA-TTT
90080466 TT
1 TT
90080468 CAAATTTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 9 0.32
15 11 0.39
16 8 0.29
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (14 bp):
TTTAATTTATATTT
Found at i:90083545 original size:16 final size:16
Alignment explanation
Indices: 90083524--90083575 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
90083514 TTTGGTTCGC
90083524 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
90083540 TGTATTGGAATAGAGG
1 TGTATTGGATTAGAGG
*
90083556 TGTATTGGATTAGAGT
1 TGTATTGGATTAGAGG
90083572 TGTA
1 TGTA
90083576 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.27, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:90083838 original size:14 final size:15
Alignment explanation
Indices: 90083799--90083840 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
90083789 TTTTAACATA
*
90083799 ATTATTATTAAATAT
1 ATTATAATTAAATAT
90083814 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
90083828 A-TATAATTTAATA
1 ATTATAATTAAATA
90083841 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:90084150 original size:24 final size:27
Alignment explanation
Indices: 90084099--90084151 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
90084089 TATATGTAAT
*
90084099 ATTATTAAAATAATATTTTTTATTTTA
1 ATTATTAAAATAATATTTTTTATATTA
*
90084126 ATTATTTAAA-AATA-TTTTTA-ATTA
1 ATTATTAAAATAATATTTTTTATATTA
90084150 AT
1 AT
90084152 GCAGTGTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.21
25 6 0.25
26 4 0.17
27 9 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
ATTATTAAAATAATATTTTTTATATTA
Found at i:90088243 original size:3 final size:3
Alignment explanation
Indices: 90088222--90088270 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
90088212 CTATAAAATA
* *
90088222 ATT ATT ATC ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
90088270 A
1 A
90088271 CAAATGTTCC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:90089884 original size:11 final size:11
Alignment explanation
Indices: 90089863--90089914 Score: 70
Period size: 11 Copynumber: 4.8 Consensus size: 11
90089853 ATTTTACTGT
90089863 TATTTT-TTAC
1 TATTTTATTAC
*
90089873 TATTTTACTAC
1 TATTTTATTAC
*
90089884 TATTTTATTAT
1 TATTTTATTAC
*
90089895 TATTTTGTTAC
1 TATTTTATTAC
90089906 TATTTTATT
1 TATTTTATT
90089915 GTTATTATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
10 6 0.17
11 29 0.83
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.67
Consensus pattern (11 bp):
TATTTTATTAC
Found at i:90089906 original size:22 final size:22
Alignment explanation
Indices: 90089851--90089920 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
90089841 TGTTTTCCTT
**
90089851 TTATTTTACTGTTATTTT-TTA
1 TTATTTTACTACTATTTTATTA
*
90089872 CTATTTTACTACTATTTTATTA
1 TTATTTTACTACTATTTTATTA
** *
90089894 TTATTTTGTTACTATTTTATTG
1 TTATTTTACTACTATTTTATTA
90089916 TTATT
1 TTATT
90089921 ATTTGAATAT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
21 15 0.37
22 26 0.63
ACGTcount: A:0.21, C:0.07, G:0.04, T:0.67
Consensus pattern (22 bp):
TTATTTTACTACTATTTTATTA
Found at i:90089920 original size:11 final size:11
Alignment explanation
Indices: 90089851--90089920 Score: 61
Period size: 11 Copynumber: 6.5 Consensus size: 11
90089841 TGTTTTCCTT
* *
90089851 TTATTTTACTG
1 TTATTTTATTA
90089862 TTATTTT-TTA
1 TTATTTTATTA
* *
90089872 CTATTTTACTA
1 TTATTTTATTA
*
90089883 CTATTTTATTA
1 TTATTTTATTA
*
90089894 TTATTTTGTTA
1 TTATTTTATTA
* *
90089905 CTATTTTATTG
1 TTATTTTATTA
90089916 TTATT
1 TTATT
90089921 ATTTGAATAT
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
10 7 0.15
11 40 0.85
ACGTcount: A:0.21, C:0.07, G:0.04, T:0.67
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:90089931 original size:22 final size:22
Alignment explanation
Indices: 90089884--90089931 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
90089874 ATTTTACTAC
* *
90089884 TATTTTATTATTATTTTGTTAC
1 TATTTTATTATTATTTTGTGAA
*
90089906 TATTTTATTGTTATTATT-TGAA
1 TATTTTATTATTATT-TTGTGAA
90089928 TATT
1 TATT
90089932 GTATAACTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.67
Consensus pattern (22 bp):
TATTTTATTATTATTTTGTGAA
Found at i:90090066 original size:23 final size:23
Alignment explanation
Indices: 90090040--90090084 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
90090030 ATTGAAAATA
90090040 TTTATT-TTAATTTTTTAATATAT
1 TTTATTCTT-ATTTTTTAATATAT
*
90090063 TTTATTCTTATTTTTTTATATA
1 TTTATTCTTATTTTTTAATATA
90090085 AAAAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTATTCTTATTTTTTAATATAT
Found at i:90099097 original size:31 final size:31
Alignment explanation
Indices: 90099034--90099097 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
90099024 AAATTTCCAA
* *
90099034 AATTTGAAAAGTACAAAAATAAAAATTGATC
1 AATTTGAAAAATACAAAAATAAAAATTAATC
* * *
90099065 AATTTGAAAAATACAAATATTAGAATTAATC
1 AATTTGAAAAATACAAAAATAAAAATTAATC
90099096 AA
1 AA
90099098 ATAAGAGTAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.58, C:0.06, G:0.08, T:0.28
Consensus pattern (31 bp):
AATTTGAAAAATACAAAAATAAAAATTAATC
Found at i:90101873 original size:25 final size:26
Alignment explanation
Indices: 90101824--90101873 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
90101814 ACAAATAATT
*
90101824 AAAAATTATAATAAAAATTTAAAAAC
1 AAAAATTATAATAAAAATTCAAAAAC
90101850 AAAAATTAT-AT-AAAATTCATAAAA
1 AAAAATTATAATAAAAATTCA-AAAA
90101874 AATTAAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 7 0.32
25 6 0.27
26 9 0.41
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (26 bp):
AAAAATTATAATAAAAATTCAAAAAC
Found at i:90102919 original size:19 final size:21
Alignment explanation
Indices: 90102881--90102920 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
90102871 GGTTAGAATA
*
90102881 TTTTATAAGTTATTGTAATTT
1 TTTTATAAATTATTGTAATTT
90102902 TTTTATAAATT-TTG-AATTT
1 TTTTATAAATTATTGTAATTT
90102921 AGTACTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 3 0.17
21 10 0.56
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.62
Consensus pattern (21 bp):
TTTTATAAATTATTGTAATTT
Found at i:90108651 original size:21 final size:20
Alignment explanation
Indices: 90108617--90108665 Score: 82
Period size: 21 Copynumber: 2.5 Consensus size: 20
90108607 TAAGTGATAC
90108617 TTTAA-TTTATTTATGCAAA
1 TTTAATTTTATTTATGCAAA
90108636 TTTAATTTTCATTTATGCAAA
1 TTTAATTTT-ATTTATGCAAA
90108657 TTTAATTTT
1 TTTAATTTT
90108666 TTAAATTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 5 0.18
20 3 0.11
21 20 0.71
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (20 bp):
TTTAATTTTATTTATGCAAA
Found at i:90108660 original size:35 final size:35
Alignment explanation
Indices: 90108620--90108687 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
90108610 GTGATACTTT
*
90108620 AATTT-ATTTATGCAAATTTAATTTTCATTTATGCA
1 AATTTAATTT-TGCAAATTTAATTTTCAGTTATGCA
**
90108655 AATTTAATTTTTTAAATTTAATTTTCAGTTATG
1 AATTTAATTTTGCAAATTTAATTTTCAGTTATG
90108688 ATGTTTGCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 25 0.86
36 4 0.14
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (35 bp):
AATTTAATTTTGCAAATTTAATTTTCAGTTATGCA
Found at i:90110259 original size:30 final size:30
Alignment explanation
Indices: 90110192--90110259 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
90110182 GACGACGATG
* * *
90110192 CAGGCCCATCAACAGTGCCCATACAATCAT
1 CAGGCCCATCAACAGCGCCCACACAATCAC
*
90110222 CAAGCCCATCAACAGCG-CCACCACAATCAC
1 CAGGCCCATCAACAGCGCCCA-CACAATCAC
*
90110252 CGGGCCCA
1 CAGGCCCA
90110260 ACAGTTCAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
29 3 0.10
30 28 0.90
ACGTcount: A:0.32, C:0.43, G:0.15, T:0.10
Consensus pattern (30 bp):
CAGGCCCATCAACAGCGCCCACACAATCAC
Found at i:90110337 original size:18 final size:18
Alignment explanation
Indices: 90110316--90110358 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
90110306 AGTCAGGTAC
*
90110316 GTATCCTATCCCTTATAT
1 GTATCCTAACCCTTATAT
*
90110334 GTATCCTAACCCTTTTAT
1 GTATCCTAACCCTTATAT
*
90110352 GTTTCCT
1 GTATCCT
90110359 TTTCCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.07, T:0.47
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:90114298 original size:21 final size:21
Alignment explanation
Indices: 90114260--90114307 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
90114250 AATATTTTTC
*
90114260 TTTAAATTTGAATAGTTGATAT
1 TTTAAATTTGAATAGTTG-TAA
90114282 TTTAATATTT-AA-AGTTGTAA
1 TTTAA-ATTTGAATAGTTGTAA
90114302 TTTAAA
1 TTTAAA
90114308 ATTAATATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 1 0.04
20 7 0.29
21 5 0.21
22 7 0.29
23 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (21 bp):
TTTAAATTTGAATAGTTGTAA
Found at i:90114333 original size:16 final size:18
Alignment explanation
Indices: 90114312--90114346 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
90114302 TTTAAAATTA
90114312 ATATTC-AA-TTAATAAT
1 ATATTCAAATTTAATAAT
90114328 ATATTCAAATTTAATAAT
1 ATATTCAAATTTAATAAT
90114346 A
1 A
90114347 GTAAACTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 2 0.12
18 9 0.53
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATTCAAATTTAATAAT
Found at i:90131523 original size:21 final size:21
Alignment explanation
Indices: 90131491--90131531 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
90131481 GAACATTTGG
90131491 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
90131512 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
90131532 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:90144321 original size:58 final size:58
Alignment explanation
Indices: 90144252--90144368 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
90144242 ACTTGAACTA
90144252 AATCGAATCTGTTACCATATAGACAATCCATGTTATCCAAATCTGGGACAAATCGAAT
1 AATCGAATCTGTTACCATATAGACAATCCATGTTATCCAAATCTGGGACAAATCGAAT
90144310 AATCGAATCTGTTACCATATAGACAATCCATGTTATCCAAATCTGGGACAAATCGAAT
1 AATCGAATCTGTTACCATATAGACAATCCATGTTATCCAAATCTGGGACAAATCGAAT
90144368 A
1 A
90144369 CCGGTACATT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (58 bp):
AATCGAATCTGTTACCATATAGACAATCCATGTTATCCAAATCTGGGACAAATCGAAT
Found at i:90151097 original size:236 final size:235
Alignment explanation
Indices: 90150426--90151128 Score: 1100
Period size: 226 Copynumber: 3.0 Consensus size: 235
90150416 AAAGAGTTGT
* * *
90150426 GTGCTATATATAGAGAGGTTGATATGCAGTAAGCAAGGGCCATAGAGAAGTGGAATGGTCAATGC
1 GTGCTATATATAGAGAGGTTAATATGCAGTAAACAAGGGCCACAGAGAAGTGGAATGGTC-ATGC
* * * *
90150491 TATAGTAAATAAGTCTTGGTGATTTACGAGGGTGATACTTCCTAATGATCTATATATCGACCACT
65 --TAGTAAATAAGTCTTGGTGATTTACAAGGGTGATACTTCCCAATGATCTATATATCTACAACT
*
90150556 GGCCTCCAACATTTGTCCAGGAACTGATAATTAATGCTAATAATTACTGTCTTGAGAATTCAATA
128 GGCCTCCAACATTTGTCCAGGAACTGATAACTAATGCTAATAATTACTGTCTTGAGAATTCAATA
90150621 ATCGATAATTATCTCTTATTTACTTATGAGGTTACATATATCA
193 ATCGATAATTATCTCTTATTTACTTATGAGGTTACATATATCA
*
90150664 GTGCTATATATATAGAGGTTAATATGCAGTAAACAAGGGCCACAGAGAAGTGG-A-----ATG--
1 GTGCTATATATAGAGAGGTTAATATGCAGTAAACAAGGGCCACAGAGAAGTGGAATGGTCATGCT
*
90150721 -GTAAATAAGTCTTGGTGATTTACAAGGGTGATACTTCCCAATGATCTATGTATCTACAACTGGC
66 AGTAAATAAGTCTTGGTGATTTACAAGGGTGATACTTCCCAATGATCTATATATCTACAACTGGC
* * * *
90150785 CTCTAACATTTGACTAGGAACTGATAACTAATGCTAATAATTTCTGTCTTGAGAATTCAATAATC
131 CTCCAACATTTGTCCAGGAACTGATAACTAATGCTAATAATTACTGTCTTGAGAATTCAATAATC
* *
90150850 GATAATTATCTCTTATTTACTTGTGAGGTTAAATATATCA
196 GATAATTATCTCTTATTTACTTATGAGGTTACATATATCA
*
90150890 GTGCTATATATAGAGAGGTTAATATGCAGTAACCAAGGGCCACAGAGAAGTGGAATGGTCAGTGC
1 GTGCTATATATAGAGAGGTTAATATGCAGTAAACAAGGGCCACAGAGAAGTGGAATGGTCA-TGC
*
90150955 TAGTAAATAAGTCTTGGTGATTTACAAGGGTGATACTTCCCAATGATCTATATATCTAAAACTGG
65 TAGTAAATAAGTCTTGGTGATTTACAAGGGTGATACTTCCCAATGATCTATATATCTACAACTGG
* * *
90151020 CCTCCAACATTTGTCCAGGAACTGATAACTAATGTTGATAATTACTGTCTTGAGACTTCAATAAT
130 CCTCCAACATTTGTCCAGGAACTGATAACTAATGCTAATAATTACTGTCTTGAGAATTCAATAAT
* *
90151085 TGATAATTATCTCTTATTTACTTATGAGGTTACATATATAA
195 CGATAATTATCTCTTATTTACTTATGAGGTTACATATATCA
90151126 GTG
1 GTG
90151129 ATTTGAGCTT
Statistics
Matches: 424, Mismatches: 31, Indels: 22
0.89 0.06 0.05
Matches are distributed among these distances:
226 208 0.49
227 1 0.00
231 3 0.01
232 1 0.00
233 2 0.00
236 159 0.38
237 1 0.00
238 49 0.12
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (235 bp):
GTGCTATATATAGAGAGGTTAATATGCAGTAAACAAGGGCCACAGAGAAGTGGAATGGTCATGCT
AGTAAATAAGTCTTGGTGATTTACAAGGGTGATACTTCCCAATGATCTATATATCTACAACTGGC
CTCCAACATTTGTCCAGGAACTGATAACTAATGCTAATAATTACTGTCTTGAGAATTCAATAATC
GATAATTATCTCTTATTTACTTATGAGGTTACATATATCA
Found at i:90160051 original size:14 final size:14
Alignment explanation
Indices: 90160014--90160040 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
90160004 CGAGCAAAAG
90160014 AAAAGAAGAAGAAA
1 AAAAGAAGAAGAAA
90160028 AAAAGAAGAAGAA
1 AAAAGAAGAAGAA
90160041 GCAATGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (14 bp):
AAAAGAAGAAGAAA
Found at i:90169677 original size:20 final size:20
Alignment explanation
Indices: 90169641--90169679 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
90169631 CAACTTTAAA
*
90169641 TAATAGAAATAGATAATTTT
1 TAATAGAAATAAATAATTTT
90169661 TAATAGAAA-AAACTAATTT
1 TAATAGAAATAAA-TAATTT
90169680 ACTACTTGAT
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:0.54, C:0.03, G:0.08, T:0.36
Consensus pattern (20 bp):
TAATAGAAATAAATAATTTT
Found at i:90176133 original size:30 final size:31
Alignment explanation
Indices: 90176093--90176151 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
90176083 AGTGTTAGGA
* *
90176093 GTAACTGTCTTACGGTTAGT-TGGTTAGCTTT
1 GTAACTGTCTT-CAGTTAGTATAGTTAGCTTT
90176124 GTAAC-GTCTTCAGTTAGTATAGTTAGCT
1 GTAACTGTCTTCAGTTAGTATAGTTAGCT
90176152 GTTAGCTGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 7 0.28
30 13 0.52
31 5 0.20
ACGTcount: A:0.20, C:0.14, G:0.24, T:0.42
Consensus pattern (31 bp):
GTAACTGTCTTCAGTTAGTATAGTTAGCTTT
Found at i:90182258 original size:22 final size:21
Alignment explanation
Indices: 90182228--90182274 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
90182218 TACAAATTAA
90182228 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
90182250 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
90182271 ATCT
1 ATCT
90182275 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:90182280 original size:19 final size:19
Alignment explanation
Indices: 90182245--90182323 Score: 117
Period size: 19 Copynumber: 4.2 Consensus size: 19
90182235 AGATTACAAG
90182245 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
90182266 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
90182283 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
90182302 ATTATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
90182321 ATC
1 ATC
90182324 CTTAAAGATT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
17 17 0.31
19 28 0.52
20 1 0.02
21 8 0.15
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:90182300 original size:36 final size:38
Alignment explanation
Indices: 90182245--90182317 Score: 123
Period size: 36 Copynumber: 2.0 Consensus size: 38
90182235 AGATTACAAG
90182245 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
*
90182283 ATCATATC-T-AAGATTGCATATTATATCTAAGATTG
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTG
90182318 CATATCCTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 25 0.74
37 1 0.03
38 8 0.24
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.40
Consensus pattern (38 bp):
ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
Found at i:90182332 original size:36 final size:35
Alignment explanation
Indices: 90182246--90182333 Score: 108
Period size: 36 Copynumber: 2.4 Consensus size: 35
90182236 GATTACAAGA
90182246 TCATATCTTCAAGATTGCATATCATATCTAAGATTG
1 TCATATCTT-AAGATTGCATATCATATCTAAGATTG
*
90182282 TATCATATC-TAAGATTGCATATTATATCTAAGATTG
1 --TCATATCTTAAGATTGCATATCATATCTAAGATTG
90182318 -CATATCCTTAAAGATT
1 TCATAT-CTT-AAGATT
90182334 ATATTTCCAT
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
33 5 0.11
34 1 0.02
35 1 0.02
36 31 0.67
37 1 0.02
38 7 0.15
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (35 bp):
TCATATCTTAAGATTGCATATCATATCTAAGATTG
Found at i:90185512 original size:13 final size:14
Alignment explanation
Indices: 90185496--90185533 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
90185486 CTTTATCAAA
*
90185496 CATATTTCATAT-T
1 CATAATTCATATGT
90185509 CATAATTCATATGT
1 CATAATTCATATGT
90185523 CATAATCTCAT
1 CATAAT-TCAT
90185534 GCTTCCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.50
14 7 0.32
15 4 0.18
ACGTcount: A:0.34, C:0.18, G:0.03, T:0.45
Consensus pattern (14 bp):
CATAATTCATATGT
Found at i:90186117 original size:48 final size:48
Alignment explanation
Indices: 90186014--90186256 Score: 274
Period size: 48 Copynumber: 4.9 Consensus size: 48
90186004 TCGTTTTCTA
* ** *
90186014 GATGCCATAGCCCAGCTATGGTTTTACACATAATCACATATCACATATT
1 GATGCCATAGCCCAGCTATGGTCTTACAC-GGATCACATATCACATATC
*
90186063 GATGCCATAGCCCAGCTATGGTCTTACACGGATCACATAACACATATC
1 GATGCCATAGCCCAGCTATGGTCTTACACGGATCACATATCACATATC
* * *
90186111 GATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCA-CT-
1 GATGCCATAGCCCAGCTATGGTCTTACACGGATCACATATCACATATC
* * * *
90186157 GATGCCATATCCCAGATATGGTCTTATACGGAAGCACATAATCACATCTATTC
1 GATGCCATAGCCCAGCTATGGTCTTACACGG-ATCACAT-ATCACA--TA-TC
* *
90186210 GATGCCATAGCCCAGCTATGGTTTTATACGGAAATCACATATCACAT
1 GATGCCATAGCCCAGCTATGGTCTTACACGG--ATCACATATCACAT
90186257 GTTGCCATGG
Statistics
Matches: 166, Mismatches: 20, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
46 27 0.16
47 7 0.04
48 61 0.37
49 28 0.17
51 1 0.01
52 1 0.01
53 34 0.20
54 7 0.04
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.27
Consensus pattern (48 bp):
GATGCCATAGCCCAGCTATGGTCTTACACGGATCACATATCACATATC
Found at i:90203517 original size:11 final size:11
Alignment explanation
Indices: 90203501--90203529 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
90203491 AGGTCTTTGG
90203501 ATGCATATGTT
1 ATGCATATGTT
90203512 ATGCATATGTT
1 ATGCATATGTT
90203523 ATGCATA
1 ATGCATA
90203530 AGTACCAGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.41
Consensus pattern (11 bp):
ATGCATATGTT
Found at i:90220032 original size:19 final size:19
Alignment explanation
Indices: 90220008--90220045 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
90219998 GGATTTTCTA
90220008 AAAATACTAAAAAAAATTT
1 AAAATACTAAAAAAAATTT
* *
90220027 AAAATATTAAAAAATATTT
1 AAAATACTAAAAAAAATTT
90220046 TTTATGAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAATACTAAAAAAAATTT
Found at i:90220056 original size:21 final size:21
Alignment explanation
Indices: 90220032--90220089 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
90220022 AATTTAAAAT
* * *
90220032 ATTAAAAAATATTTTTTATGA
1 ATTAAAAAATATATTATATAA
* *
90220053 ATTATAAATTATATTATATAA
1 ATTAAAAAATATATTATATAA
90220074 ATT-AAAAATAATATTA
1 ATTAAAAAAT-ATATTA
90220090 AAAGTACCTG
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
ATTAAAAAATATATTATATAA
Found at i:90225873 original size:2 final size:2
Alignment explanation
Indices: 90225866--90225902 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
90225856 CTACACATAA
* *
90225866 AT AT AT AT AT GT AT AT AT AT AT GT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
90225903 AAGAAATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:90225883 original size:12 final size:12
Alignment explanation
Indices: 90225866--90225899 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
90225856 CTACACATAA
90225866 ATATATATATGT
1 ATATATATATGT
90225878 ATATATATATGT
1 ATATATATATGT
90225890 ATATATATAT
1 ATATATATAT
90225900 ATAAAGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (12 bp):
ATATATATATGT
Found at i:90228651 original size:87 final size:87
Alignment explanation
Indices: 90228505--90228664 Score: 266
Period size: 87 Copynumber: 1.8 Consensus size: 87
90228495 TTCCAGCCTA
* * * *
90228505 TTACCCTACTGCTTAGGGGGTTAAGGCCCATCATCTTCGATCTGTTTCCCTTCTACTTAGGGGTT
1 TTACCCTACTGCTTAAGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTACTTAGGGGGT
90228570 TAAGATCTGTAAATTCAGCTTG
66 TAAGATCTGTAAATTCAGCTTG
* *
90228592 TTACCCTACTGCTTAAGGGGTTAAAGCCCATCATCTTCGATTTGTTTCCCTACTGCTTAGGGGGT
1 TTACCCTACTGCTTAAGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTACTTAGGGGGT
90228657 TAAGATCT
66 TAAGATCT
90228665 ATAATCTTCG
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 67 1.00
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (87 bp):
TTACCCTACTGCTTAAGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTACTTAGGGGGT
TAAGATCTGTAAATTCAGCTTG
Found at i:90228672 original size:44 final size:44
Alignment explanation
Indices: 90228508--90228674 Score: 151
Period size: 44 Copynumber: 3.8 Consensus size: 44
90228498 CAGCCTATTA
* * *
90228508 CCCTACTGCTTAGGGGGTTAAGGCCCATCATCTTCGATCTGTTT
1 CCCTACTGCTTAGGGGGTTAAGACCCATAATCTTCGATTTGTTT
* * * * ** * * *
90228552 CCCTTCTACTTAGGGGTTTAAGATCTGTAA-ATTC-AGCTTGTTA
1 CCCTACTGCTTAGGGGGTTAAGACCCATAATCTTCGA-TTTGTTT
* *
90228595 CCCTACTGCTTAAGGGGTTAA-AGCCCATCATCTTCGATTTGTTT
1 CCCTACTGCTTAGGGGGTTAAGA-CCCATAATCTTCGATTTGTTT
* *
90228639 CCCTACTGCTTAGGGGGTTAAGATCTATAATCTTCG
1 CCCTACTGCTTAGGGGGTTAAGACCCATAATCTTCG
90228675 GCCTACTCCA
Statistics
Matches: 91, Mismatches: 27, Indels: 10
0.71 0.21 0.08
Matches are distributed among these distances:
42 2 0.02
43 27 0.30
44 60 0.66
45 2 0.02
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (44 bp):
CCCTACTGCTTAGGGGGTTAAGACCCATAATCTTCGATTTGTTT
Found at i:90229181 original size:66 final size:66
Alignment explanation
Indices: 90229075--90229205 Score: 217
Period size: 66 Copynumber: 2.0 Consensus size: 66
90229065 TATGCTTATG
* * *
90229075 TCAAATGATTAGGATGGTATGATCGAAATGAATCAAATGCTCCTAACTAGACGTGTTATGAATGA
1 TCAAATAACTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGACGTGTTATGAATGA
90229140 A
66 A
* *
90229141 TCAAATAACTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAATTAGATGTGTTATGAATGA
1 TCAAATAACTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGACGTGTTATGAATGA
90229206 TGTATGAATG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (66 bp):
TCAAATAACTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGACGTGTTATGAATGA
A
Found at i:90232603 original size:31 final size:31
Alignment explanation
Indices: 90232568--90232634 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
90232558 CTTCCTGCAT
*
90232568 TAAAATCCAACCAAATACAACAAATATAGCA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
* * * *
90232599 TAAAATGCAGCCAAAAACAGCAAATTTAGCA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
90232630 TAAAA
1 TAAAA
90232635 ATATAACTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.57, C:0.19, G:0.07, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAGCA
Found at i:90232901 original size:21 final size:21
Alignment explanation
Indices: 90232877--90232926 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
90232867 TCTGCTACCA
*
90232877 TCGCTGTTGCCGCTGCCTCCC
1 TCGCTGCTGCCGCTGCCTCCC
90232898 TCGCTGCTGCCGCTGCCTCCC
1 TCGCTGCTGCCGCTGCCTCCC
*
90232919 TCTCTGCT
1 TCGCTGCT
90232927 ACCTCCGCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.22, T:0.30
Consensus pattern (21 bp):
TCGCTGCTGCCGCTGCCTCCC
Found at i:90233373 original size:13 final size:14
Alignment explanation
Indices: 90233346--90233374 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
90233336 TGATGAGTTG
90233346 AATTAAACAATTAT
1 AATTAAACAATTAT
90233360 AATTAAAC-ATTAT
1 AATTAAACAATTAT
90233373 AA
1 AA
90233375 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:90238596 original size:9 final size:9
Alignment explanation
Indices: 90238582--90238861 Score: 181
Period size: 9 Copynumber: 30.6 Consensus size: 9
90238572 TATTTAAGTA
90238582 TTATGTAAG
1 TTATGTAAG
90238591 TTATGTAAG
1 TTATGTAAG
*
90238600 TTATGATATG
1 TTATG-TAAG
* * *
90238610 ATATAT-AT
1 TTATGTAAG
*
90238618 TTATGTAAA
1 TTATGTAAG
*
90238627 TTATAT-A-
1 TTATGTAAG
*
90238634 TTAATCTAAG
1 TT-ATGTAAG
*
90238644 TTATATAAG
1 TTATGTAAG
90238653 TTATGTAAG
1 TTATGTAAG
*
90238662 TTTTGTAAG
1 TTATGTAAG
*
90238671 TTATGTAAA
1 TTATGTAAG
*
90238680 TTATGATATAAAA
1 TTATG---T-AAG
* *
90238693 TATATTTAACTA
1 T-TATGTAA--G
90238705 TTATGTAAG
1 TTATGTAAG
90238714 TTATGTAAG
1 TTATGTAAG
* *
90238723 TTATATATG
1 TTATGTAAG
*
90238732 TTATATAAG
1 TTATGTAAG
90238741 TTATGTAAG
1 TTATGTAAG
* *
90238750 TTATATATG
1 TTATGTAAG
*
90238759 TTATATAAG
1 TTATGTAAG
*
90238768 TTATGTATG
1 TTATGTAAG
*
90238777 TTATATAAG
1 TTATGTAAG
90238786 TTATGTAAG
1 TTATGTAAG
*
90238795 TTATATAAG
1 TTATGTAAG
* *
90238804 TTATAT-AT
1 TTATGTAAG
*
90238812 TTATCTAAG
1 TTATGTAAG
*
90238821 TTATATAAG
1 TTATGTAAG
*
90238830 TTATGTACG
1 TTATGTAAG
*
90238839 TTTTGTAAG
1 TTATGTAAG
* *
90238848 TTATATAAA
1 TTATGTAAG
90238857 TTATG
1 TTATG
90238862 ATATCAAATA
Statistics
Matches: 215, Mismatches: 43, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
7 2 0.01
8 14 0.07
9 172 0.80
10 10 0.05
11 7 0.03
12 3 0.01
13 4 0.02
14 3 0.01
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:90238663 original size:18 final size:18
Alignment explanation
Indices: 90238582--90238861 Score: 208
Period size: 18 Copynumber: 15.3 Consensus size: 18
90238572 TATTTAAGTA
*
90238582 TTATGTAAGTTATGTAAG
1 TTATGTAAGTTATATAAG
* * *
90238600 TTATGATATGATATAT-AT
1 TTATG-TAAGTTATATAAG
*
90238618 TTATGTAAATTATAT-A-
1 TTATGTAAGTTATATAAG
*
90238634 TTAATCTAAGTTATATAAG
1 TT-ATGTAAGTTATATAAG
* *
90238653 TTATGTAAGTTTTGTAAG
1 TTATGTAAGTTATATAAG
* *
90238671 TTATGTAAATTATGATATAAAA
1 TTATGT-AAGT-T-ATAT-AAG
* * *
90238693 TATATTTAACTATTATGTAAG
1 T-TATGTAA--GTTATATAAG
*
90238714 TTATGTAAGTTATATATG
1 TTATGTAAGTTATATAAG
* *
90238732 TTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAG
* *
90238750 TTATATATGTTATATAAG
1 TTATGTAAGTTATATAAG
*
90238768 TTATGTATGTTATATAAG
1 TTATGTAAGTTATATAAG
90238786 TTATGTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* * *
90238804 TTATAT-ATTTATCTAAG
1 TTATGTAAGTTATATAAG
* * *
90238821 TTATATAAGTTATGTACG
1 TTATGTAAGTTATATAAG
* *
90238839 TTTTGTAAGTTATATAAA
1 TTATGTAAGTTATATAAG
90238857 TTATG
1 TTATG
90238862 ATATCAAATA
Statistics
Matches: 207, Mismatches: 43, Indels: 24
0.76 0.16 0.09
Matches are distributed among these distances:
16 2 0.01
17 34 0.16
18 133 0.64
19 12 0.06
20 7 0.03
21 5 0.02
22 8 0.04
23 5 0.02
24 1 0.00
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.47
Consensus pattern (18 bp):
TTATGTAAGTTATATAAG
Found at i:90238986 original size:15 final size:15
Alignment explanation
Indices: 90238966--90239021 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
90238956 AAGTAGCGGG
90238966 ATTAAATAATATTTA
1 ATTAAATAATATTTA
90238981 ATTAAATAATATTT-
1 ATTAAATAATATTTA
90238995 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
90239010 ATTAAATAATAT
1 ATTAAATAATAT
90239022 ACATGTCGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.44
16 6 0.17
17 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:90239222 original size:24 final size:24
Alignment explanation
Indices: 90239195--90239265 Score: 108
Period size: 24 Copynumber: 3.0 Consensus size: 24
90239185 TTAACTTAAA
90239195 TGATAAAACGGACGATAATATTTG
1 TGATAAAACGGACGATAATATTTG
*
90239219 TGATAAAACAGA-GAATAATATTTG
1 TGATAAAACGGACG-ATAATATTTG
*
90239243 TGATAAAACGGACGAGAATATTT
1 TGATAAAACGGACGATAATATTT
90239266 CAATAATAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
23 1 0.02
24 40 0.95
25 1 0.02
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.28
Consensus pattern (24 bp):
TGATAAAACGGACGATAATATTTG
Found at i:90239415 original size:64 final size:64
Alignment explanation
Indices: 90239313--90239446 Score: 232
Period size: 64 Copynumber: 2.1 Consensus size: 64
90239303 ATATTTTATT
* **
90239313 AAATATTTGTATATTAGATGGGACATATTATATTAATAAATAAATTTATTGCAAATCGTGATAG
1 AAATATTTGTATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCGTGATAG
*
90239377 AAATATTTGTATATTAGATTGGACATATTATATCAATAAATAAATTTATTAAAAATCGTGATAG
1 AAATATTTGTATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCGTGATAG
90239441 AAATAT
1 AAATAT
90239447 AGAATTATTA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.45, C:0.04, G:0.12, T:0.39
Consensus pattern (64 bp):
AAATATTTGTATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCGTGATAG
Found at i:90241900 original size:16 final size:16
Alignment explanation
Indices: 90241879--90241913 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
90241869 TTTATTTAAT
90241879 ATATAAA-TAAAAAACA
1 ATATAAATTAAAAAA-A
90241895 ATATAAATTAAAAAAA
1 ATATAAATTAAAAAAA
90241911 ATA
1 ATA
90241914 AGTTATATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
ATATAAATTAAAAAAA
Found at i:90242070 original size:16 final size:16
Alignment explanation
Indices: 90242028--90242076 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
90242018 TACATAAAAT
*
90242028 TTAAAATCTTGAAAATTA
1 TTAAAAT-TTG-AAATCA
90242046 TTGAAAATTTGAAATCA
1 TT-AAAATTTGAAATCA
90242063 TTAAAATTTGAAAT
1 TTAAAATTTGAAAT
90242077 TATTTAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 12 0.41
17 7 0.24
18 5 0.17
19 5 0.17
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (16 bp):
TTAAAATTTGAAATCA
Found at i:90242287 original size:73 final size:72
Alignment explanation
Indices: 90242203--90242370 Score: 228
Period size: 73 Copynumber: 2.3 Consensus size: 72
90242193 AAACCCTTAA
* * *
90242203 CCCCTATCCCCTTAACCCCTAAACCATTAACCCTTAATCCCTAAAATTTAAACACTAAACCTTAA
1 CCCCTAACCCCTTAACCCCTAAACCATAAACCCTTAATCCCTAAAATTTAAACACTAAACCCTAA
90242268 ACAATAT
66 ACAATAT
* * * * *
90242275 CCCCCTAACCCCTAAACCCTTAAACCCTAAACCCTTAATCCCTAGACTTTAAACACTAAACCCTA
1 -CCCCTAACCCCTTAACCCCTAAACCATAAACCCTTAATCCCTAAAATTTAAACACTAAACCCTA
*
90242340 AACTATAT
65 AACAATAT
*
90242348 CCCCTCAACCCCTTAACTCCTAA
1 CCCCT-AACCCCTTAACCCCTAA
90242371 CATTTGACCC
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
72 5 0.06
73 77 0.94
ACGTcount: A:0.36, C:0.39, G:0.01, T:0.24
Consensus pattern (72 bp):
CCCCTAACCCCTTAACCCCTAAACCATAAACCCTTAATCCCTAAAATTTAAACACTAAACCCTAA
ACAATAT
Found at i:90242304 original size:15 final size:15
Alignment explanation
Indices: 90242192--90242342 Score: 76
Period size: 15 Copynumber: 10.3 Consensus size: 15
90242182 CTAATTATCC
* *
90242192 TAAACCCTTAACCCC
1 TAAACCCTAAACCCT
** * *
90242207 TATCCCCTTAACCCC
1 TAAACCCTAAACCCT
* *
90242222 TAAACCATTAACCCT
1 TAAACCCTAAACCCT
* **
90242237 TAATCCCTAAA-ATT
1 TAAACCCTAAACCCT
*
90242251 TAAACACTAAA-CCT
1 TAAACCCTAAACCCT
** ** *
90242265 TAAACAATATCCCCC
1 TAAACCCTAAACCCT
*
90242280 TAACCCCTAAACCCT
1 TAAACCCTAAACCCT
90242295 TAAACCCTAAACCCT
1 TAAACCCTAAACCCT
* * *
90242310 TAATCCCTAGA-CTT
1 TAAACCCTAAACCCT
*
90242324 TAAACACTAAACCC-
1 TAAACCCTAAACCCT
90242338 TAAAC
1 TAAAC
90242343 TATATCCCCT
Statistics
Matches: 101, Mismatches: 33, Indels: 5
0.73 0.24 0.04
Matches are distributed among these distances:
14 34 0.34
15 67 0.66
ACGTcount: A:0.38, C:0.37, G:0.01, T:0.24
Consensus pattern (15 bp):
TAAACCCTAAACCCT
Found at i:90242340 original size:7 final size:7
Alignment explanation
Indices: 90242277--90242342 Score: 60
Period size: 7 Copynumber: 9.1 Consensus size: 7
90242267 AACAATATCC
*
90242277 CCCTAAC
1 CCCTAAA
90242284 CCCTAAA
1 CCCTAAA
90242291 CCCTTAAA
1 CCC-TAAA
90242299 CCCTAAA
1 CCCTAAA
*
90242306 CCCTTAAT
1 CCC-TAAA
*
90242314 CCCTAGA
1 CCCTAAA
**
90242321 CTTTAAA
1 CCCTAAA
*
90242328 CACTAAA
1 CCCTAAA
90242335 CCCTAAA
1 CCCTAAA
90242342 C
1 C
90242343 TATATCCCCT
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
7 34 0.72
8 13 0.28
ACGTcount: A:0.38, C:0.39, G:0.02, T:0.21
Consensus pattern (7 bp):
CCCTAAA
Found at i:90242624 original size:16 final size:14
Alignment explanation
Indices: 90242593--90242630 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 14
90242583 TCATAATCCA
90242593 TAAACCATAAACCC
1 TAAACCATAAACCC
90242607 TAAACCATATATACCC
1 TAAACCATA-A-ACCC
90242623 TAAACCAT
1 TAAACCAT
90242631 GCATAAACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 9 0.41
15 1 0.05
16 12 0.55
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:90242912 original size:28 final size:28
Alignment explanation
Indices: 90242858--90242912 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
90242848 CGTGTCCTTC
* * *
90242858 ATTTAGGGTTTATAGTTTAAGGTTTTAA
1 ATTTAAGGTCTATAGTTTAAGGGTTTAA
*
90242886 ATTTAAGGTCTATAGTTTATGGGTTTA
1 ATTTAAGGTCTATAGTTTAAGGGTTTA
90242913 GGGGTTAAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.27, C:0.02, G:0.22, T:0.49
Consensus pattern (28 bp):
ATTTAAGGTCTATAGTTTAAGGGTTTAA
Found at i:90243032 original size:15 final size:16
Alignment explanation
Indices: 90243014--90243055 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
90243004 GGTTTAAGGG
90243014 TTTAGGGTTTAGT-AA
1 TTTAGGGTTTAGTGAA
*
90243029 TTTAAGGGTTTAGTGGA
1 TTT-AGGGTTTAGTGAA
90243046 -TTAGGGTTTA
1 TTTAGGGTTTA
90243056 AAACATGGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 11 0.46
16 12 0.50
17 1 0.04
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (16 bp):
TTTAGGGTTTAGTGAA
Found at i:90243055 original size:23 final size:23
Alignment explanation
Indices: 90243004--90243056 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
90242994 TGAGACTTAA
*
90243004 GGTTTAAGGGTTTAGGGTTTAGT
1 GGTTTAAGGGTTTAGGGATTAGT
**
90243027 AATTTAAGGGTTTAGTGGATTAG-
1 GGTTTAAGGGTTTAG-GGATTAGT
90243050 GGTTTAA
1 GGTTTAA
90243057 AACATGGTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.25, C:0.00, G:0.34, T:0.42
Consensus pattern (23 bp):
GGTTTAAGGGTTTAGGGATTAGT
Found at i:90243125 original size:6 final size:6
Alignment explanation
Indices: 90243106--90243136 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
90243096 TTCAGATATG
90243106 ATCAAA AT-AAA ATCAAA ATCAAA ATCAAA AT
1 ATCAAA ATCAAA ATCAAA ATCAAA ATCAAA AT
90243137 AAGACCTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.68, C:0.13, G:0.00, T:0.19
Consensus pattern (6 bp):
ATCAAA
Found at i:90243531 original size:40 final size:42
Alignment explanation
Indices: 90243452--90243532 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 42
90243442 TAGATCTTTA
* * *
90243452 GCGGCGTTTTTTCAAAAAGCGCTGCTAAAACTCATATCTATT
1 GCGGCGTTTTCTCAAAAAGCACCGCTAAAACTCATATCTATT
*
90243494 GCGGCGTTTTCT-AAAAAGCACCGCTAATACTCA-ATCTAT
1 GCGGCGTTTTCTCAAAAAGCACCGCTAAAACTCATATCTAT
90243533 AGCTGTGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 6 0.17
41 18 0.51
42 11 0.31
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (42 bp):
GCGGCGTTTTCTCAAAAAGCACCGCTAAAACTCATATCTATT
Found at i:90243543 original size:40 final size:40
Alignment explanation
Indices: 90243445--90243535 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 40
90243435 AATAGTTTAG
* * *
90243445 ATCTTTAGCGGCGTTTTTTCAAAAAGCGCTGCTAAAACTCAT
1 ATCTATAGCGGCG--TTTTCAAAAAGCACCGCTAAAACTCAT
* *
90243487 ATCTATTGCGGCGTTTTCTAAAAAGCACCGCTAATACTCA-
1 ATCTATAGCGGCGTTTTC-AAAAAGCACCGCTAAAACTCAT
90243527 ATCTATAGC
1 ATCTATAGC
90243536 TGTGTTTTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
40 13 0.31
41 18 0.43
42 11 0.26
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (40 bp):
ATCTATAGCGGCGTTTTCAAAAAGCACCGCTAAAACTCAT
Found at i:90251848 original size:33 final size:33
Alignment explanation
Indices: 90251802--90251883 Score: 80
Period size: 32 Copynumber: 2.5 Consensus size: 33
90251792 GAGTGTGGCT
** *
90251802 GTGTGGGTTACACGGGGCTAAA-CCAGA-CTGGGC
1 GTGTGGGCCACACGGGGC-AAAGCCA-ATCTGGAC
*
90251835 GTGTGGGCCACAC-GGGCAAAGCTAATCTGGAC
1 GTGTGGGCCACACGGGGCAAAGCCAATCTGGAC
90251867 GTGTGGGCCTACACGGG
1 GTGTGGGCC-ACACGGG
90251884 CATGTGGGCC
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
31 4 0.10
32 20 0.49
33 15 0.37
34 2 0.05
ACGTcount: A:0.21, C:0.23, G:0.39, T:0.17
Consensus pattern (33 bp):
GTGTGGGCCACACGGGGCAAAGCCAATCTGGAC
Found at i:90252448 original size:35 final size:35
Alignment explanation
Indices: 90252351--90252437 Score: 174
Period size: 35 Copynumber: 2.5 Consensus size: 35
90252341 TGTATCTGAG
90252351 ATGGGCTTAGGCCCGAACATGCATCTGTGATTGTA
1 ATGGGCTTAGGCCCGAACATGCATCTGTGATTGTA
90252386 ATGGGCTTAGGCCCGAACATGCATCTGTGATTGTA
1 ATGGGCTTAGGCCCGAACATGCATCTGTGATTGTA
90252421 ATGGGCTTAGGCCCGAA
1 ATGGGCTTAGGCCCGAA
90252438 TTTATATCTG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 52 1.00
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (35 bp):
ATGGGCTTAGGCCCGAACATGCATCTGTGATTGTA
Found at i:90254623 original size:12 final size:13
Alignment explanation
Indices: 90254605--90254634 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
90254595 AAACAAACTC
90254605 CATGGTGGGTTCT
1 CATGGTGGGTTCT
90254618 -ATGGTGGGTTCT
1 CATGGTGGGTTCT
90254630 CATGG
1 CATGG
90254635 AAGCCTCTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.10, C:0.13, G:0.40, T:0.37
Consensus pattern (13 bp):
CATGGTGGGTTCT
Found at i:90259527 original size:41 final size:41
Alignment explanation
Indices: 90259470--90259552 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
90259460 TACTATTTTC
*
90259470 TTGCTTCTAAATTGATGAACATATTCTCTAGAACCTCTACT
1 TTGCTTCTAAATTGATGAAAATATTCTCTAGAACCTCTACT
90259511 TTGCTTCTAAATTGATGAAAATATTCTCTAGAACCTCTACT
1 TTGCTTCTAAATTGATGAAAATATTCTCTAGAACCTCTACT
90259552 T
1 T
90259553 CATCTTCTCT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (41 bp):
TTGCTTCTAAATTGATGAAAATATTCTCTAGAACCTCTACT
Done.