Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 307 of 362
Found at i:103001572 original size:18 final size:18
Alignment explanation
Indices: 103001546--103001598 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 18
103001536 TATTTTGATA
*
103001546 ATGAATTTTAAATTTTTT
1 ATGATTTTTAAATTTTTT
*
103001564 ATGATTTTTATAATATTTT
1 ATGATTTTTA-AATTTTTT
**
103001583 ATTTTTTTTAAATTTT
1 ATGATTTTTAAATTTT
103001599 ATTACTTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 14 0.48
19 15 0.52
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (18 bp):
ATGATTTTTAAATTTTTT
Found at i:103006975 original size:13 final size:13
Alignment explanation
Indices: 103006959--103006989 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
103006949 GACACGACTG
103006959 TGTGCCACGCCCA
1 TGTGCCACGCCCA
103006972 TGTGCCACGCCCA
1 TGTGCCACGCCCA
103006985 TGTGC
1 TGTGC
103006990 AGATGCTCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.13, C:0.42, G:0.26, T:0.19
Consensus pattern (13 bp):
TGTGCCACGCCCA
Found at i:103010447 original size:9 final size:9
Alignment explanation
Indices: 103010433--103010460 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
103010423 TAAACCGAGA
103010433 CCAATCCAT
1 CCAATCCAT
103010442 CCAATCCAT
1 CCAATCCAT
103010451 CCAATCCAT
1 CCAATCCAT
103010460 C
1 C
103010461 ATATTTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.46, G:0.00, T:0.21
Consensus pattern (9 bp):
CCAATCCAT
Found at i:103016409 original size:16 final size:16
Alignment explanation
Indices: 103016388--103016455 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
103016378 TTTGGTTCGC
103016388 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
103016404 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
103016420 TGTAATGGATTAGAGG
1 TGTATTGGATTAGAGG
*
103016436 TGTATTGGAATAGAGG
1 TGTATTGGATTAGAGG
103016452 TGTA
1 TGTA
103016456 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:103016495 original size:45 final size:41
Alignment explanation
Indices: 103016436--103016545 Score: 116
Period size: 45 Copynumber: 2.6 Consensus size: 41
103016426 GGATTAGAGG
*
103016436 TGTATTGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGG-T
* * ***
103016478 GAATGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGT
1 ---TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
103016521 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
103016546 TAATGGAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.39
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (41 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
Found at i:103016708 original size:16 final size:16
Alignment explanation
Indices: 103016671--103016712 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
103016661 TTAATCATAT
*
103016671 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
103016687 TT-AAATATATTATAA
1 TTAAAATATATTATAA
103016702 TTAAAATATAT
1 TTAAAATATAT
103016713 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:103016719 original size:14 final size:15
Alignment explanation
Indices: 103016680--103016721 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
103016670 TTTAAACATA
*
103016680 ATTATTATTAAATAT
1 ATTATAATTAAATAT
103016695 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
103016709 A-TATAATTTAATA
1 ATTATAATTAAATA
103016722 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:103016813 original size:120 final size:121
Alignment explanation
Indices: 103016669--103016937 Score: 456
Period size: 120 Copynumber: 2.2 Consensus size: 121
103016659 ATTTAATCAT
103016669 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
103016734 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAA-GATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATG-TA
103016790 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
103016854 ATTAATATTCTTATATGAATTTATTAAAATCATAATATATGATACTATAAAATGTA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATGTA
* *
103016910 ATTTGAA-ATAATTAATATTAAATA-ATTA
1 ATTTAAACATAATTATTATTAAATATATTA
103016938 ATGTTGACAA
Statistics
Matches: 142, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
119 4 0.03
120 131 0.92
121 7 0.05
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (121 bp):
ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATGTA
Found at i:103016830 original size:16 final size:16
Alignment explanation
Indices: 103016787--103016832 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
103016777 ACTATAAAAG
*
103016787 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
103016803 ATTATT-AAATATATT
1 ATAATTAAAATATATT
103016818 ATAATTAAAATATAT
1 ATAATTAAAATATAT
103016833 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:103016839 original size:14 final size:15
Alignment explanation
Indices: 103016787--103016841 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
103016777 ACTATAAAAG
103016787 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
103016803 ATTATTAAATATATT
1 ATAATTAAATATATT
103016818 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
103016831 ATAATTTAATA
1 ATAATTAAATA
103016842 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:103016904 original size:61 final size:61
Alignment explanation
Indices: 103016719--103016906 Score: 181
Period size: 61 Copynumber: 3.1 Consensus size: 61
103016709 ATATAATTTA
* * *
103016719 ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTCTTAATAATTAATATTCTTATATGAATTTATTAAAATCATAATATATGATACT
** * * * * * * * *
103016780 ATAAAA--GATAAT--TTAACATAATTATTAT-TAAATATATTATAATTAAAATATATAAT-TT
1 ATAAAATTCTTAATAATT-A-AT-ATTCTTATATGAATTTATTAAAATCATAATATATGATACT
103016838 AATAAAATTCTTAATAATTAATATTCTTATATGAATTTATTAAAATCATAATATATGATACT
1 -ATAAAATTCTTAATAATTAATATTCTTATATGAATTTATTAAAATCATAATATATGATACT
103016900 ATAAAAT
1 ATAAAAT
103016907 GTAATTTGAA
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
57 1 0.01
58 2 0.02
59 32 0.34
60 14 0.15
61 41 0.44
62 2 0.02
63 2 0.02
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (61 bp):
ATAAAATTCTTAATAATTAATATTCTTATATGAATTTATTAAAATCATAATATATGATACT
Found at i:103020272 original size:17 final size:18
Alignment explanation
Indices: 103020250--103020290 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
103020240 TAATTAGAAT
* *
103020250 TAATTTTTTTATTTTT-A
1 TAATTTTATAATTTTTAA
103020267 TAATTTTATAATTTTTAA
1 TAATTTTATAATTTTTAA
103020285 TAATTT
1 TAATTT
103020291 ATTTGTTCGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TAATTTTATAATTTTTAA
Found at i:103020289 original size:10 final size:9
Alignment explanation
Indices: 103020250--103020290 Score: 50
Period size: 8 Copynumber: 4.7 Consensus size: 9
103020240 TAATTAGAAT
103020250 TAATTTTT-
1 TAATTTTTA
*
103020258 TTATTTTTA
1 TAATTTTTA
103020267 TAA-TTTTA
1 TAATTTTTA
103020275 TAATTTTTAA
1 TAATTTTT-A
103020285 TAATTT
1 TAATTT
103020291 ATTTGTTCGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 15 0.54
9 6 0.21
10 7 0.25
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TAATTTTTA
Found at i:103020604 original size:19 final size:20
Alignment explanation
Indices: 103020582--103020619 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
103020572 TTTAATTTTT
103020582 TAAAAA-TTAAAATTAAATA
1 TAAAAATTTAAAATTAAATA
*
103020601 TAAAAATTTAAATTTAAAT
1 TAAAAATTTAAAATTAAAT
103020620 TTATTTTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAAATTTAAAATTAAATA
Found at i:103023060 original size:21 final size:21
Alignment explanation
Indices: 103023032--103023083 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
103023022 TTTTGCCTAG
*
103023032 GATG-TAAATTGAATTCAATT
1 GATGCTAAATTGAATTAAATT
*
103023052 GA-GCATAAAGTGAATTAAATT
1 GATGC-TAAATTGAATTAAATT
103023073 GATGCTAAATT
1 GATGCTAAATT
103023084 CATTTATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 1 0.04
20 2 0.08
21 21 0.81
22 2 0.08
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.35
Consensus pattern (21 bp):
GATGCTAAATTGAATTAAATT
Found at i:103024296 original size:8 final size:8
Alignment explanation
Indices: 103024283--103024309 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
103024273 TGAATAAACA
103024283 AAACATAC
1 AAACATAC
103024291 AAACATAC
1 AAACATAC
103024299 AAACATAC
1 AAACATAC
103024307 AAA
1 AAA
103024310 GTAATAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.67, C:0.22, G:0.00, T:0.11
Consensus pattern (8 bp):
AAACATAC
Found at i:103024826 original size:17 final size:19
Alignment explanation
Indices: 103024712--103024845 Score: 66
Period size: 19 Copynumber: 7.1 Consensus size: 19
103024702 ACAAATTTTA
*
103024712 AAATTATAAATAATATAAT
1 AAATAATAAATAATATAAT
* *
103024731 GAATAATATAA-ACGTA-AAT
1 AAATAATA-AATA-ATATAAT
*
103024750 AATATAATAGATAATAT-AT
1 AA-ATAATAAATAATATAAT
* * *
103024769 -GAT-ATATATAACCTATAAA
1 AAATAATAAATAA--TATAAT
103024788 AAATAATAAATAATATAGAAT
1 AAATAATAAATAATAT--AAT
103024809 AAA-AATAAA-AATATAAT
1 AAATAATAAATAATATAAT
** *
103024826 AAATGTTAAATAATAAAAT
1 AAATAATAAATAATATAAT
103024845 A
1 A
103024846 TATTTTAAAT
Statistics
Matches: 86, Mismatches: 15, Indels: 28
0.67 0.12 0.22
Matches are distributed among these distances:
16 7 0.08
17 8 0.09
18 7 0.08
19 33 0.38
20 19 0.22
21 12 0.14
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (19 bp):
AAATAATAAATAATATAAT
Found at i:103024840 original size:19 final size:19
Alignment explanation
Indices: 103024814--103024860 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
103024804 AGAATAAAAA
103024814 TAAA-AATATAATAAATGT
1 TAAATAATATAATAAATGT
* * *
103024832 TAAATAATAAAATATATTT
1 TAAATAATATAATAAATGT
103024851 TAAAT-ATATA
1 TAAATAATATA
103024861 GGAAATAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
TAAATAATATAATAAATGT
Found at i:103024841 original size:31 final size:30
Alignment explanation
Indices: 103024783--103024843 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
103024773 TATATAACCT
*
103024783 ATAAAAAATAATAAATAATATAGAATAAAA
1 ATAAAAAATAATAAATAATAAAGAATAAAA
** *
103024813 ATAAAAATATAATAAATGTTAAATAATAAAA
1 ATAAAAA-ATAATAAATAATAAAGAATAAAA
103024844 TATATTTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 7 0.27
31 19 0.73
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.26
Consensus pattern (30 bp):
ATAAAAAATAATAAATAATAAAGAATAAAA
Found at i:103025055 original size:15 final size:15
Alignment explanation
Indices: 103025021--103025087 Score: 54
Period size: 14 Copynumber: 4.7 Consensus size: 15
103025011 TAATTTGTGA
* *
103025021 AAAATAAAACATAAT
1 AAAATAATATATAAT
103025036 -AAATAATA-AT-AT
1 AAAATAATATATAAT
103025048 -AAATAATATATAAT
1 AAAATAATATATAAT
*
103025062 AAAATAATTTTATAAT
1 AAAATAA-TATATAAT
*
103025078 -ATATAATATA
1 AAAATAATATA
103025088 AAAATAAGGT
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
12 10 0.23
13 4 0.09
14 12 0.27
15 11 0.25
16 7 0.16
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (15 bp):
AAAATAATATATAAT
Found at i:103025075 original size:27 final size:27
Alignment explanation
Indices: 103025001--103025076 Score: 73
Period size: 26 Copynumber: 2.7 Consensus size: 27
103024991 ATAATGTCAA
*
103025001 ATAATAATAATAATTTGTGAAAAATAAAAC
1 ATAATAA-AATAATTT-T-ATAAATAAAAC
** * *
103025031 ATAAT-AAATAATAATATAAATAATAT
1 ATAATAAAATAATTTTATAAATAAAAC
103025057 ATAATAAAATAATTTTATAA
1 ATAATAAAATAATTTTATAA
103025077 TATATAATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
26 13 0.34
27 13 0.34
28 6 0.16
29 1 0.03
30 5 0.13
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (27 bp):
ATAATAAAATAATTTTATAAATAAAAC
Found at i:103025144 original size:23 final size:23
Alignment explanation
Indices: 103025024--103025144 Score: 79
Period size: 23 Copynumber: 5.0 Consensus size: 23
103025014 TTTGTGAAAA
103025024 ATAAAACATA-ATA-AATAATAAT
1 ATAAAA-ATATATATAATAATAAT
103025046 ATAAATAATATATAATAA-AATAATT
1 ATAAA-AATATAT-ATAATAATAA-T
* * *
103025071 TTATAATATATAATATAAAAATAAGGT
1 ATA-AAAATAT-ATATAATAATAA--T
* * *
103025098 ATAAAAATA-AAACAATTAACAAT
1 ATAAAAATATATATAA-TAATAAT
103025121 ATAAAAATATATATAATAATAAT
1 ATAAAAATATATATAATAATAAT
103025144 A
1 A
103025145 AACATATAGG
Statistics
Matches: 76, Mismatches: 12, Indels: 21
0.70 0.11 0.19
Matches are distributed among these distances:
22 8 0.11
23 20 0.26
24 14 0.18
25 17 0.22
26 14 0.18
27 3 0.04
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (23 bp):
ATAAAAATATATATAATAATAAT
Found at i:103027430 original size:50 final size:50
Alignment explanation
Indices: 103027355--103027454 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
103027345 AGTCTAACTT
103027355 AGCCAATGTTGACATGTAAATGGTTGTTTGTAATCTAGCCATTGAATGGC
1 AGCCAATGTTGACATGTAAATGGTTGTTTGTAATCTAGCCATTGAATGGC
*
103027405 AGCCAATGTTGACATGTAAATGGTTGTTTGTAATTTAGCCATTGAATGGC
1 AGCCAATGTTGACATGTAAATGGTTGTTTGTAATCTAGCCATTGAATGGC
103027455 TAAAATGGTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (50 bp):
AGCCAATGTTGACATGTAAATGGTTGTTTGTAATCTAGCCATTGAATGGC
Found at i:103035665 original size:18 final size:20
Alignment explanation
Indices: 103035623--103035659 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
103035613 ATATTTTATG
*
103035623 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
103035642 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
103035660 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:103037873 original size:46 final size:46
Alignment explanation
Indices: 103037821--103038094 Score: 352
Period size: 46 Copynumber: 6.0 Consensus size: 46
103037811 AGTGTGCTCT
* *
103037821 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
103037867 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
103037913 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** * * *
103037959 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
103038005 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
103038051 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGACATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
103038095 TCACGTCAAA
Statistics
Matches: 205, Mismatches: 22, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
45 1 0.00
46 204 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:103037978 original size:92 final size:92
Alignment explanation
Indices: 103037821--103038094 Score: 404
Period size: 92 Copynumber: 3.0 Consensus size: 92
103037811 AGTGTGCTCT
* * * *
103037821 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAG
103037886 ACCATGGTTGAAAGATACCATGGCAGC
66 ACCATGGTTGAAAGATACCATGGCAGC
* * * *
103037913 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATAAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAG
103037978 ACCATGGTTGAAAGATACCATGGCAGC
66 ACCATGGTTGAAAGATACCATGGCAGC
* * ** *
103038005 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAG
* * *
103038070 ACCATAGTTGAAAGACACTATGGCA
66 ACCATGGTTGAAAGATACCATGGCA
103038095 TCACGTCAAA
Statistics
Matches: 162, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
92 162 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (92 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAG
ACCATGGTTGAAAGATACCATGGCAGC
Found at i:103044248 original size:6 final size:6
Alignment explanation
Indices: 103044237--103044270 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
103044227 CTTTCATGTA
*
103044237 TTTCTT TTTCTT TTTCTT TTT-TT TTTCCT TTTCT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCT
103044271 GATATACTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTCTT
Found at i:103044254 original size:12 final size:12
Alignment explanation
Indices: 103044237--103044270 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
103044227 CTTTCATGTA
103044237 TTTCTTTTTCTT
1 TTTCTTTTTCTT
103044249 TTTCTTTTT-TT
1 TTTCTTTTTCTT
*
103044260 TTTCCTTTTCT
1 TTTCTTTTTCT
103044271 GATATACTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTCTTTTTCTT
Found at i:103056009 original size:150 final size:150
Alignment explanation
Indices: 103055824--103056105 Score: 401
Period size: 150 Copynumber: 1.9 Consensus size: 150
103055814 CATAATTTTA
* * *
103055824 TTAAAATATAATATATTTACAATATTATAATTTCTTGATTTTTTTTATTATAGATAATTA-TGTT
1 TTAAAATATAATATATTTACAATATTATAATTTCTTGA-TTTTCTTATTATAGAGAATCACT-TT
* *
103055888 AATCTAATTTAAATAA-AAATTTAGTAAAAACAAAATTTATGTCTCTTT-GTAATTCATATACGT
64 AACCTAATTTAAATAATAAATTTAGTAAAAACAAAATTTATGTCTCTTTAGTAATTCATATACGC
103055951 AATTACGTGAATCGTGATTTGT
129 AATTACGTGAATCGTGATTTGT
* * *
103055973 TTAATAATATAATATATTTATAATATT-TAAATTTCTTTATTTTCTTATTATAGAGAGTCACTTT
1 TTAA-AATATAATATATTTACAATATTAT-AATTTCTTGATTTTCTTATTATAGAGAATCACTTT
* * *
103056037 AACCTAATTTAAATAATAATTTTAGTAAAAACAAAATTTATGTTTCTTTATTAATTCATATACGC
64 AACCTAATTTAAATAATAAATTTAGTAAAAACAAAATTTATGTCTCTTTAGTAATTCATATACGC
103056102 AATT
129 AATT
103056106 CATATTTTTA
Statistics
Matches: 117, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
149 39 0.33
150 61 0.52
151 17 0.15
ACGTcount: A:0.39, C:0.07, G:0.06, T:0.47
Consensus pattern (150 bp):
TTAAAATATAATATATTTACAATATTATAATTTCTTGATTTTCTTATTATAGAGAATCACTTTAA
CCTAATTTAAATAATAAATTTAGTAAAAACAAAATTTATGTCTCTTTAGTAATTCATATACGCAA
TTACGTGAATCGTGATTTGT
Found at i:103067463 original size:49 final size:48
Alignment explanation
Indices: 103067355--103067624 Score: 198
Period size: 49 Copynumber: 5.7 Consensus size: 48
103067345 GGGATAAGAC
* * * ** * *
103067355 GCCGATGCTATGTCCCAGACATGGTCTTGCACTGGCTAGCACAT--CAA
1 GCCGATGCCATGTCCCAGACA-GGTCTTACACTGACTTTCATATAACAG
* *
103067402 GTCGATGCCATGTCCTAGACAGGTCTTACACTGACTTTCATATAACGAG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATAAC-AG
* * * * * *
103067451 GCCGATGCCATGTCCCGGATAGGTCTTACACTGGCTCTCATCTATCAG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATAACAG
* * * *
103067499 TGTCGATGTCATGTCCCAGACAGGTCTTACACTGA----CACATAACAA
1 -GCCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATAACAG
* * **
103067544 GCTGATGCCATGTCCCAGACAGGTTTTACACT-AGCTTGT-ATATCTCGAG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGA-CTT-TCATATAAC-AG
* *
103067593 GCCGATG-CATGTCCCAAACATGTCTTACACTG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTG
103067625 GCACACATAA
Statistics
Matches: 173, Mismatches: 38, Indels: 22
0.74 0.16 0.09
Matches are distributed among these distances:
43 1 0.01
44 28 0.16
45 6 0.03
46 17 0.10
47 18 0.10
48 28 0.16
49 75 0.43
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATAACAG
Found at i:103067522 original size:98 final size:96
Alignment explanation
Indices: 103067355--103067575 Score: 249
Period size: 98 Copynumber: 2.3 Consensus size: 96
103067345 GGGATAAGAC
* * *
103067355 GCCGATGCTATGTCCCAGACATGGTCTTGCACTGGCTAGCACATCAAGTCGATGCCATGTCCTAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAGTCGATGCCATGTCCCAG
103067420 ACAGGTCTTACACTGACTTTCATATAACGAG
66 ACAGGTCTTACACTGACTTTCATATAACGAG
* * ** * *
103067451 GCCGATGCCATGTCCCGGATA-GGTCTTACACTGGCTCTCATCTATCAGTGTCGATGTCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTAGCA-C-ATCA-AGTCGATGCCATGTCC
* *
103067515 CAGACAGGTCTTACACTGA----CACATAAC-AA
63 CAGACAGGTCTTACACTGACTTTCATATAACGAG
* *
103067544 GCTGATGCCATGTCCCAGACA-GGTTTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
103067576 AGCTTGTATA
Statistics
Matches: 107, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
93 29 0.27
94 7 0.07
95 16 0.15
96 19 0.18
97 4 0.04
98 32 0.30
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.26
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAGTCGATGCCATGTCCCAG
ACAGGTCTTACACTGACTTTCATATAACGAG
Found at i:103067593 original size:142 final size:144
Alignment explanation
Indices: 103067364--103067626 Score: 340
Period size: 142 Copynumber: 1.8 Consensus size: 144
103067354 CGCCGATGCT
* * * *
103067364 ATGTCCCAGACATGGTCTTGCACTGGCTAGCACATCAAGTCGATGCCATGTCCTAGACAGGTCTT
1 ATGTCCCAGACATGGTCTTACACTGACTAGCACAACAAGTCGATGCCATGTCCCAGACAGGTCTT
** *
103067429 ACACTGACTTTCATATAACGAGGCCGATGCCATGTCCCGGATAGGTCTTACACTGGCTCTCATCT
66 ACACTGACTTTCATATAACGAGGCCGATG-CATGTCCCAAACAGGTCTTACACTGGCTCTCATCT
103067494 ATCAGTGTCGATGTC
130 ATCAGTGTCGATGTC
* *
103067509 ATGTCCCAGACA-GGTCTTACACTGAC-A-CATAACAAG-CTGATGCCATGTCCCAGACAGGTTT
1 ATGTCCCAGACATGGTCTTACACTGACTAGCACAACAAGTC-GATGCCATGTCCCAGACAGGTCT
** *
103067570 TACACT-AGCTTGT-ATATCTCGAGGCCGATGCATGTCCCAAACATGTCTTACACTGGC
65 TACACTGA-CTT-TCATATAACGAGGCCGATGCATGTCCCAAACAGGTCTTACACTGGC
103067627 ACACATAATG
Statistics
Matches: 103, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
141 25 0.24
142 52 0.50
143 2 0.02
144 12 0.12
145 12 0.12
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.27
Consensus pattern (144 bp):
ATGTCCCAGACATGGTCTTACACTGACTAGCACAACAAGTCGATGCCATGTCCCAGACAGGTCTT
ACACTGACTTTCATATAACGAGGCCGATGCATGTCCCAAACAGGTCTTACACTGGCTCTCATCTA
TCAGTGTCGATGTC
Found at i:103067657 original size:94 final size:93
Alignment explanation
Indices: 103067502--103067673 Score: 233
Period size: 94 Copynumber: 1.8 Consensus size: 93
103067492 CTATCAGTGT
*
103067502 CGATGTCATGTCCCAGACAGGTCTTACACTGACACATAACAAGCTGATGCCATGTCCCAGACAGG
1 CGATGTCATGTCCCAAACAGGTCTTACACTGACACATAACAAGCTGATGCCATGTCCCAGACAGG
**
103067567 TTTTACACTAGCTTGTATATCTCGAGGC
66 ACTTACACTAGCTTGTATATCTCGAGGC
* *
103067595 CGATG-CATGTCCCAAACATGTCTTACACTGGCACACATAATGC-GGCTGATG-CATGTCCCAGA
1 CGATGTCATGTCCCAAACAGGTCTTACACT-G-ACACATAA--CAAGCTGATGCCATGTCCCAGA
*
103067657 CATGACTTACACTAGCT
62 CAGGACTTACACTAGCT
103067674 CACATACCAC
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
92 22 0.32
93 6 0.09
94 33 0.48
95 7 0.10
96 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (93 bp):
CGATGTCATGTCCCAAACAGGTCTTACACTGACACATAACAAGCTGATGCCATGTCCCAGACAGG
ACTTACACTAGCTTGTATATCTCGAGGC
Found at i:103067660 original size:46 final size:47
Alignment explanation
Indices: 103067405--103067679 Score: 145
Period size: 49 Copynumber: 5.8 Consensus size: 47
103067395 ACATCAAGTC
* * * * * *
103067405 GATGCCATGTCCTAGACAGGTCTTACACT-GACTTTCATATAACGAGGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTAG-C--ACACATAATGCGGCT
* * * * * *
103067454 GATGCCATGTCCCGGATAGGTCTTACACTGGCTCTCATCTAT-CAGTG-T
1 GATGCCATGTCCCAGACAGGTCTTACACTAGCACACAT-AATGC-G-GCT
* *
103067502 CGATGTCATGTCCCAGACAGGTCTTACACT-G-ACACATAA--CAAGCT
1 -GATGCCATGTCCCAGACAGGTCTTACACTAGCACACATAATGC-GGCT
* **** * * *
103067547 GATGCCATGTCCCAGACAGGTTTTACACTAGCTTGTATATCTCGAGGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTAGCACACATA-AT-GCGGCT
* * *
103067596 GATG-CATGTCCCAAACATGTCTTACACTGGCACACATAATGCGGCT
1 GATGCCATGTCCCAGACAGGTCTTACACTAGCACACATAATGCGGCT
* * *
103067642 GATG-CATGTCCCAGACATGACTTACACTAGCTCACATA
1 GATGCCATGTCCCAGACAGGTCTTACACTAGCACACATA
103067680 CCACCCAATG
Statistics
Matches: 173, Mismatches: 41, Indels: 27
0.72 0.17 0.11
Matches are distributed among these distances:
44 28 0.16
45 4 0.02
46 42 0.24
47 9 0.05
48 29 0.17
49 60 0.35
50 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (47 bp):
GATGCCATGTCCCAGACAGGTCTTACACTAGCACACATAATGCGGCT
Found at i:103070197 original size:29 final size:27
Alignment explanation
Indices: 103070158--103070219 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 27
103070148 TTTTTAATTC
* *
103070158 TTTTTATTTTTAGTTTTCATAATATTAAT-
1 TTTTTAATTTTA-TTTT--TAAAATTAATA
103070187 TTTTTAATTTTATTTTTAAAATTAATA
1 TTTTTAATTTTATTTTTAAAATTAATA
103070214 TTTTTA
1 TTTTTA
103070220 GGCTTAAGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 9 0.30
27 6 0.20
28 4 0.13
29 11 0.37
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (27 bp):
TTTTTAATTTTATTTTTAAAATTAATA
Found at i:103070390 original size:87 final size:84
Alignment explanation
Indices: 103070244--103070448 Score: 207
Period size: 87 Copynumber: 2.4 Consensus size: 84
103070234 AAAAATGCTC
* * *
103070244 AAATTTTTTCAAAAAAATCAATTAAGCCCTTCCTATTTTTGCACTCAATAGAGCATTGAACTTTC
1 AAATTTTTT--AAAAAAGCAATTAAGCCCCTGCTATTTTTGCACTCAATAGAGCATTGAACTTTC
* *
103070309 AAAGTGTACCA-AAAAGGCCCTCA
64 AAAATG---CATAAAAGACCCTCA
* * * * *
103070332 AACATTTTTTAAAAAAGCAATTAAGCCCCTGCT-TTTTTTCACTCATTTGGGTACTTGAACTTTC
1 AA-ATTTTTTAAAAAAGCAATTAAGCCCCTGCTATTTTTGCACTCAATAGAGCA-TTGAACTTTC
* *
103070396 AAAATGCATTAAAGACTCTCA
64 AAAATGCATAAAAGACCCTCA
* *
103070417 AAATTTTTCAAAAAAGCAATTAAGTCCCTGCT
1 AAATTTTTTAAAAAAGCAATTAAGCCCCTGCT
103070449 CTTATTAAAA
Statistics
Matches: 100, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
84 30 0.30
85 11 0.11
86 15 0.15
87 35 0.35
88 2 0.02
89 7 0.07
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.33
Consensus pattern (84 bp):
AAATTTTTTAAAAAAGCAATTAAGCCCCTGCTATTTTTGCACTCAATAGAGCATTGAACTTTCAA
AATGCATAAAAGACCCTCA
Found at i:103070835 original size:47 final size:48
Alignment explanation
Indices: 103070729--103070838 Score: 120
Period size: 48 Copynumber: 2.3 Consensus size: 48
103070719 TTTTATAATT
*
103070729 TTTTTACAAAA-TTTATATTTCTTTACATTTTATATAATTTTCTTATGA
1 TTTTTACAAAATTTTATATTTCTATACATTTTATAT-ATTTTCTTATGA
* * * *
103070777 -CTTTATAAAATTTTGTATTTCTATATATTTTATAT-TTTT-TTGATGA
1 TTTTTACAAAATTTTATATTTCTATACATTTTATATATTTTCTT-ATGA
*
103070823 TTTTTAGAAAATTTTA
1 TTTTTACAAAATTTTA
103070839 CAACTTTTTA
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
45 2 0.04
46 8 0.16
47 20 0.39
48 21 0.41
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (48 bp):
TTTTTACAAAATTTTATATTTCTATACATTTTATATATTTTCTTATGA
Found at i:103070856 original size:19 final size:19
Alignment explanation
Indices: 103070834--103070874 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
103070824 TTTTAGAAAA
103070834 TTTTACAACTTTTTATATTT
1 TTTTACAA-TTTTTATATTT
*
103070854 TTTTACGATTTTTATATTT
1 TTTTACAATTTTTATATTT
103070873 TT
1 TT
103070875 CTAATTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTTACAATTTTTATATTT
Found at i:103071113 original size:88 final size:87
Alignment explanation
Indices: 103070988--103071149 Score: 198
Period size: 88 Copynumber: 1.9 Consensus size: 87
103070978 GTTTAATTGC
* * * * * *
103070988 TTTTTTTTTAAAGTTTAATAGTCTTTTTGATGTATTTTAAAAGTTCAAGTACCTAATTGAGTGCC
1 TTTTTTTTTAAAGTTTAAGAGTCTTTTTGATGCATTTTAAAAGTTCAAGTACCAAAATAAGTGCA
103071053 AAAAAAAAAGTAGGGGCTTACT
66 AAAAAAAAAGTAGGGGCTTACT
* * * * * * *
103071075 TTTTTTTTTAAAGGTTTGAGGGTTTTTTTGTTGCATTTTGAAAGTTTAAGTATCAAAATAAGTGC
1 TTTTTTTTTAAA-GTTTAAGAGTCTTTTTGATGCATTTTAAAAGTTCAAGTACCAAAATAAGTGC
103071140 AAAAAAAAAA
65 AAAAAAAAAA
103071150 AGCAAGAGCT
Statistics
Matches: 61, Mismatches: 13, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
87 12 0.20
88 49 0.80
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.42
Consensus pattern (87 bp):
TTTTTTTTTAAAGTTTAAGAGTCTTTTTGATGCATTTTAAAAGTTCAAGTACCAAAATAAGTGCA
AAAAAAAAAGTAGGGGCTTACT
Found at i:103071722 original size:15 final size:16
Alignment explanation
Indices: 103071698--103071736 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
103071688 TGGGCTGCAG
103071698 TTTTTAACGAAGATGA
1 TTTTTAACGAAGATGA
103071714 TTTTT-ACGAAGATGA
1 TTTTTAACGAAGATGA
*
103071729 TTGTTAAC
1 TTTTTAAC
103071737 AGACTACGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (16 bp):
TTTTTAACGAAGATGA
Found at i:103077228 original size:11 final size:12
Alignment explanation
Indices: 103077198--103077230 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
103077188 GATTTTATTT
103077198 AATTAATATTTAA
1 AATTAA-ATTTAA
103077211 AATTAAATTTAA
1 AATTAAATTTAA
103077223 AA-TAAATT
1 AATTAAATT
103077231 ATAGTTACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
AATTAAATTTAA
Found at i:103078918 original size:18 final size:18
Alignment explanation
Indices: 103078850--103078921 Score: 76
Period size: 18 Copynumber: 4.1 Consensus size: 18
103078840 TATTTACGAC
103078850 ACTATTCACGTATAC-GAT
1 ACTATTCACGTATACAG-T
* **
103078868 ACTATTCATGTATATGGT
1 ACTATTCACGTATACAGT
*
103078886 ACTATT-ATGTATACAGT
1 ACTATTCACGTATACAGT
*
103078903 ACTGTTCACGTATACAGT
1 ACTATTCACGTATACAGT
103078921 A
1 A
103078922 GTTAGGATTG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
17 14 0.30
18 31 0.67
19 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.38
Consensus pattern (18 bp):
ACTATTCACGTATACAGT
Found at i:103085739 original size:25 final size:25
Alignment explanation
Indices: 103085710--103085758 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
103085700 CAAAGAAAAA
**
103085710 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
103085735 TCCTAATAGAATTCCTAATTTAAA
1 TCCTAATAGAATTCCTAATTTAAA
103085759 ATTTATAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.39, C:0.18, G:0.04, T:0.39
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:103088983 original size:25 final size:25
Alignment explanation
Indices: 103088954--103089004 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
103088944 CAATGTTAGG
*
103088954 AACCCGTTCTTCGTTTGCCACACAT
1 AACCCGTTCTCCGTTTGCCACACAT
103088979 AACCCGTTCTCCGTTTGCCACACAT
1 AACCCGTTCTCCGTTTGCCACACAT
103089004 A
1 A
103089005 CTTGCAACCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.22, C:0.37, G:0.12, T:0.29
Consensus pattern (25 bp):
AACCCGTTCTCCGTTTGCCACACAT
Found at i:103090437 original size:25 final size:25
Alignment explanation
Indices: 103090408--103090458 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
103090398 CAAAGGAAAA
**
103090408 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
103090433 TCCTAATAGAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
103090458 T
1 T
103090459 TTATAAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:103090838 original size:23 final size:23
Alignment explanation
Indices: 103090812--103090861 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
103090802 TCAGACATAC
103090812 ATACGAGGGAAAAAAAGCTAGTT
1 ATACGAGGGAAAAAAAGCTAGTT
103090835 ATACGAGGGAAAAAAAGCTAGTT
1 ATACGAGGGAAAAAAAGCTAGTT
103090858 ATAC
1 ATAC
103090862 AACAAGAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.48, C:0.10, G:0.24, T:0.18
Consensus pattern (23 bp):
ATACGAGGGAAAAAAAGCTAGTT
Found at i:103096129 original size:52 final size:54
Alignment explanation
Indices: 103096035--103096153 Score: 145
Period size: 52 Copynumber: 2.2 Consensus size: 54
103096025 AGATGTCTTG
* * * *
103096035 TATATTATTTATTTTAAGTTTCTTTTTACATAACATTTATTTTAAACTCATT-CA
1 TATATTATTTATCTTAAGATTCATTTTACATAACATTCATTTTAAACT-ATTCCA
* *
103096089 TATATTATTTATCTTAA-ATT-ATTTTACATATCATTCATTTTAAACTTTTCCCA
1 TATATTATTTATCTTAAGATTCATTTTACATAACATTCATTTTAAACTATT-CCA
103096142 TATATTATTTAT
1 TATATTATTTAT
103096154 TTCAAACTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
51 2 0.04
52 23 0.40
53 16 0.28
54 16 0.28
ACGTcount: A:0.32, C:0.12, G:0.01, T:0.55
Consensus pattern (54 bp):
TATATTATTTATCTTAAGATTCATTTTACATAACATTCATTTTAAACTATTCCA
Found at i:103096131 original size:26 final size:27
Alignment explanation
Indices: 103096058--103096134 Score: 77
Period size: 26 Copynumber: 2.9 Consensus size: 27
103096048 TTAAGTTTCT
*
103096058 TTTTACATAACATTTATTTTAAACTCA
1 TTTTACATATCATTTATTTTAAACTCA
* * * * *
103096085 -TTCATATATTATTTATCTTAAA-TTA
1 TTTTACATATCATTTATTTTAAACTCA
*
103096110 TTTTACATATCATTCATTTTAAACT
1 TTTTACATATCATTTATTTTAAACT
103096135 TTTCCCATAT
Statistics
Matches: 37, Mismatches: 11, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
25 2 0.05
26 34 0.92
27 1 0.03
ACGTcount: A:0.35, C:0.13, G:0.00, T:0.52
Consensus pattern (27 bp):
TTTTACATATCATTTATTTTAAACTCA
Found at i:103096171 original size:26 final size:27
Alignment explanation
Indices: 103096116--103096180 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
103096106 ATTATTTTAC
* * *
103096116 ATATCATTCATTTTAAACTTTTCCCAT
1 ATATTATTTATTTCAAACTTTTCCCAT
103096143 ATATTATTTATTTCAAAC-TTTCGCC-T
1 ATATTATTTATTTCAAACTTTTC-CCAT
*
103096169 ATATTACTTATT
1 ATATTATTTATT
103096181 CTAAAATTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 16 0.48
27 17 0.52
ACGTcount: A:0.29, C:0.18, G:0.02, T:0.51
Consensus pattern (27 bp):
ATATTATTTATTTCAAACTTTTCCCAT
Found at i:103097259 original size:25 final size:25
Alignment explanation
Indices: 103097225--103097275 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
103097215 GCTTTCTTTG
103097225 AGAATGTTTCATCTGAGGTTCCCAT
1 AGAATGTTTCATCTGAGGTTCCCAT
103097250 AGAATGTTTCATCTGAGGTTCCCAT
1 AGAATGTTTCATCTGAGGTTCCCAT
103097275 A
1 A
103097276 TCTGATTCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (25 bp):
AGAATGTTTCATCTGAGGTTCCCAT
Found at i:103104119 original size:72 final size:72
Alignment explanation
Indices: 103104043--103104193 Score: 266
Period size: 72 Copynumber: 2.1 Consensus size: 72
103104033 TTGGTTGTGA
* * *
103104043 CTGCCATTGTTCTTGTCGGGATGGGTTTAGGAGTGTTTGATGCATGAGATAAGAAAGAGAGATAG
1 CTGCCATTGTTCTTGTCGAGATGAGTTTAGGAGTGTTTGATGCATGAGATAAGAAAAAGAGATAG
103104108 GTAGAAG
66 GTAGAAG
*
103104115 CTGCCATTGTTCTTGTCGAGATGAGTTTAGGAGTGTTTGGTGCATGAGATAAGAAAAAGAGATAG
1 CTGCCATTGTTCTTGTCGAGATGAGTTTAGGAGTGTTTGATGCATGAGATAAGAAAAAGAGATAG
103104180 GTAGAAG
66 GTAGAAG
103104187 CTGCCAT
1 CTGCCAT
103104194 GGTTGATTTT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 75 1.00
ACGTcount: A:0.28, C:0.10, G:0.32, T:0.29
Consensus pattern (72 bp):
CTGCCATTGTTCTTGTCGAGATGAGTTTAGGAGTGTTTGATGCATGAGATAAGAAAAAGAGATAG
GTAGAAG
Found at i:103106219 original size:12 final size:12
Alignment explanation
Indices: 103106198--103106228 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
103106188 TCTAAAGGAA
103106198 AAAAAAAAAAAC
1 AAAAAAAAAAAC
*
103106210 AAAAACAAAAAC
1 AAAAAAAAAAAC
103106222 AAAAAAA
1 AAAAAAA
103106229 GACAGCAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAC
Found at i:103112697 original size:19 final size:19
Alignment explanation
Indices: 103112638--103112718 Score: 71
Period size: 18 Copynumber: 4.4 Consensus size: 19
103112628 TATTATTCTA
103112638 GAATTTTTA-AAATATTTT
1 GAATTTTTATAAATATTTT
*** *
103112656 -AATAAATATAAAT-TTTG
1 GAATTTTTATAAATATTTT
103112673 GAATTTTTATAAATATTTT
1 GAATTTTTATAAATATTTT
*
103112692 GAA-TTTTAAAAATTATTTT
1 GAATTTTTATAAA-TATTTT
*
103112711 AAATTTTT
1 GAATTTTT
103112719 TTGTAATTTT
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
17 8 0.17
18 22 0.46
19 14 0.29
20 4 0.08
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (19 bp):
GAATTTTTATAAATATTTT
Found at i:103112699 original size:18 final size:18
Alignment explanation
Indices: 103112662--103112717 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 18
103112652 TTTTAATAAA
*
103112662 TATAAAT-TTTGGAATTTT
1 TATAAATATTTTGAA-TTT
103112680 TATAAATATTTTGAATTT
1 TATAAATATTTTGAATTT
* *
103112698 TAAAAATTATTTTAAATTT
1 TATAAA-TATTTTGAATTT
103112717 T
1 T
103112718 TTTGTAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (18 bp):
TATAAATATTTTGAATTT
Found at i:103113423 original size:30 final size:29
Alignment explanation
Indices: 103113384--103113445 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
103113374 TCATTGGTTC
*
103113384 AAATATCATTATGGACTTTATTTTTTT-TAA
1 AAATATCATTATGGAC--AATTTTTTTATAA
*
103113414 AAATCTCATTATGGACAATTTTTTTATAA
1 AAATATCATTATGGACAATTTTTTTATAA
103113443 AAA
1 AAA
103113446 GTCAAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 8 0.28
29 6 0.21
30 15 0.52
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.47
Consensus pattern (29 bp):
AAATATCATTATGGACAATTTTTTTATAA
Found at i:103114960 original size:55 final size:56
Alignment explanation
Indices: 103114875--103114984 Score: 186
Period size: 55 Copynumber: 2.0 Consensus size: 56
103114865 AATTCATATT
*
103114875 TAGAACTAAGTTTGAAAAAATCATTTTAATTTCAATTTTAATTGTAAACGAGTCTC
1 TAGAACTAAGTTTGAAAAAATCATTTTAATTTCAATTTTAATTGCAAACGAGTCTC
* *
103114931 TAGAACTAAGTTT-ACAAAATCGTTTTAATTTCAATTTTAATTGCAAACGAGTCT
1 TAGAACTAAGTTTGAAAAAATCATTTTAATTTCAATTTTAATTGCAAACGAGTCT
103114985 TTAAAATAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
55 38 0.75
56 13 0.25
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (56 bp):
TAGAACTAAGTTTGAAAAAATCATTTTAATTTCAATTTTAATTGCAAACGAGTCTC
Found at i:103117467 original size:15 final size:15
Alignment explanation
Indices: 103117447--103117477 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
103117437 AGAGGGAGTA
*
103117447 AGCATAAAGTTTAGT
1 AGCATAAAGCTTAGT
103117462 AGCATAAAGCTTAGT
1 AGCATAAAGCTTAGT
103117477 A
1 A
103117478 AGTTGCATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (15 bp):
AGCATAAAGCTTAGT
Found at i:103118014 original size:96 final size:94
Alignment explanation
Indices: 103117836--103118071 Score: 253
Period size: 96 Copynumber: 2.5 Consensus size: 94
103117826 GGTGAATTGC
* * * * * * *
103117836 CGATCCCATATTCCAAACA-TGATCTTACACTGGCTCACATGTCGAGGCCAATGCCATGTCCTAG
1 CGATGCCATGTTCCAAACATTG-TCTTACACTAGCACACATATC-AGGCCAATGCCATGTCCCAA
*
103117900 ACATAGTCTTACATTGGCTCTCATAGCT-TGG
64 ACATAGTCTTACACTGGCTCTCATA-CTATGG
* *
103117931 TCGATGCCATGTTCCAAACATTGTCTTACACTAGCGCACATATCAGTGCCGATGCCATGTCCCAA
1 -CGATGCCATGTTCCAAACATTGTCTTACACTAGCACACATATCAG-GCCAATGCCATGTCCCAA
* *
103117996 ACATGGTCTTACACTGGCTCTCATATTATGG
64 ACATAGTCTTACACTGGCTCTCATACTATGG
** *
103118027 CTGATGCCATG-TCCTAGGCATGGTCTTACACTAGCACACATATCA
1 C-GATGCCATGTTCC-AAACATTGTCTTACACTAGCACACATATCA
103118072 CCCAAATGGC
Statistics
Matches: 120, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
95 7 0.06
96 111 0.93
97 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (94 bp):
CGATGCCATGTTCCAAACATTGTCTTACACTAGCACACATATCAGGCCAATGCCATGTCCCAAAC
ATAGTCTTACACTGGCTCTCATACTATGG
Found at i:103118069 original size:48 final size:48
Alignment explanation
Indices: 103117833--103118071 Score: 169
Period size: 48 Copynumber: 5.0 Consensus size: 48
103117823 GAGGGTGAAT
* * * * * * *
103117833 TGCCGATCCCATATTCCAAACATGATCTTACACTGGCTCACATGTCGAG
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATC-AG
* * * * * * * * * *
103117882 -GCCAATGCCATGTCCTAGACATAGTCTTACATTGGCTCTCATAGC-T
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAG
* * * *
103117928 TGGTCGATGCCATGTTCCAAACATTGTCTTACACTAGCGCACATATCAG
1 T-GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAG
* * * *
103117977 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATTA-
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAG
* * **
103118024 TGGCTGATGCCATGTCCTAGGCATGGTCTTACACTAGCACACATATCA
1 T-GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCA
103118072 CCCAAATGGC
Statistics
Matches: 146, Mismatches: 40, Indels: 9
0.75 0.21 0.05
Matches are distributed among these distances:
47 1 0.01
48 144 0.99
49 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAG
Found at i:103121783 original size:23 final size:23
Alignment explanation
Indices: 103121757--103121806 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
103121747 GGAATATTAG
103121757 GCACTTTATATGTCGTATATCAA
1 GCACTTTATATGTCGTATATCAA
* *
103121780 GCACTTTATGTGTCGTATTTCAA
1 GCACTTTATATGTCGTATATCAA
103121803 GCAC
1 GCAC
103121807 CTTGTGTGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (23 bp):
GCACTTTATATGTCGTATATCAA
Found at i:103121814 original size:23 final size:22
Alignment explanation
Indices: 103121757--103121882 Score: 107
Period size: 21 Copynumber: 5.8 Consensus size: 22
103121747 GGAATATTAG
* *
103121757 GCACTTTATATGTCGTATATCAA
1 GCACCTTATGTGTCGTAT-TCAA
*
103121780 GCACTTTATGTGTCGTATTTCAA
1 GCACCTTATGTGTCGTA-TTCAA
* * *
103121803 GCACCTTGTGTGACGTA-TCAG
1 GCACCTTATGTGTCGTATTCAA
* *
103121824 GCACCTTCTGTATCGTA-TCAA
1 GCACCTTATGTGTCGTATTCAA
**
103121845 GCACCTCGTGTGTCGT-TTCAA
1 GCACCTTATGTGTCGTATTCAA
*
103121866 ACA-CTTATGTGTCGTAT
1 GCACCTTATGTGTCGTAT
103121883 ACTGATCAGG
Statistics
Matches: 85, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
20 10 0.12
21 40 0.47
23 34 0.40
24 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (22 bp):
GCACCTTATGTGTCGTATTCAA
Found at i:103122080 original size:18 final size:19
Alignment explanation
Indices: 103122057--103122095 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
103122047 TGGAATTATG
*
103122057 AATTGAAATGTGA-ATTGA
1 AATTGAAATATGAGATTGA
*
103122075 AATTGAGATATGAGATTGA
1 AATTGAAATATGAGATTGA
103122094 AA
1 AA
103122096 GCTTGAACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (19 bp):
AATTGAAATATGAGATTGA
Found at i:103122780 original size:22 final size:22
Alignment explanation
Indices: 103122752--103122820 Score: 86
Period size: 22 Copynumber: 3.1 Consensus size: 22
103122742 TCTTTGATTA
103122752 TTAGCACATTAGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
*
103122774 TTAGCACATCTA-TGCTATCTGT
1 TTAGCACAT-TAGTGCTCTCTGT
* * *
103122796 ATAACACTTTAGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
103122818 TTA
1 TTA
103122821 ATAGTGCATA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
21 2 0.05
22 35 0.90
23 2 0.05
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (22 bp):
TTAGCACATTAGTGCTCTCTGT
Found at i:103130064 original size:19 final size:19
Alignment explanation
Indices: 103130020--103130076 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
103130010 AAACTACAAA
*
103130020 AAAAATTGAAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
* *
103130039 TATAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
103130058 AAAAATTCCAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
103130076 A
1 A
103130077 TTTTCTAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 11 0.35
19 20 0.65
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:103130097 original size:10 final size:10
Alignment explanation
Indices: 103130082--103130149 Score: 57
Period size: 10 Copynumber: 6.6 Consensus size: 10
103130072 TTATATTTTC
103130082 TAAAAAATTA
1 TAAAAAATTA
* *
103130092 TAAAAATTTC
1 TAAAAAATTA
*
103130102 TAAAAAATTTC
1 TAAAAAA-TTA
103130113 TAAAAATATATA
1 TAAAAA-AT-TA
*
103130125 TAAAAAAGT-
1 TAAAAAATTA
*
103130134 TAAAAAATTT
1 TAAAAAATTA
103130144 TAAAAA
1 TAAAAA
103130150 TTAAAGAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
9 8 0.17
10 21 0.44
11 11 0.23
12 8 0.17
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.32
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:103130107 original size:11 final size:11
Alignment explanation
Indices: 103130078--103130149 Score: 64
Period size: 11 Copynumber: 6.9 Consensus size: 11
103130068 AAATTTATAT
103130078 TTTCTAAAAAA
1 TTTCTAAAAAA
*
103130089 -TTAT-AAAAA
1 TTTCTAAAAAA
103130098 TTTCTAAAAAA
1 TTTCTAAAAAA
103130109 TTTCTAAAAATA
1 TTTCTAAAAA-A
* *
103130121 TATATAAAAAA
1 TTTCTAAAAAA
*
103130132 -GT-TAAAAAA
1 TTTCTAAAAAA
103130141 TTT-TAAAAA
1 TTTCTAAAAA
103130150 TTAAAGAATA
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
9 12 0.24
10 14 0.27
11 16 0.31
12 9 0.18
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.35
Consensus pattern (11 bp):
TTTCTAAAAAA
Found at i:103130166 original size:32 final size:32
Alignment explanation
Indices: 103130102--103130166 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 32
103130092 TAAAAATTTC
* *
103130102 TAAAAAATTTCTAAAAATATATATAAAAAAGT
1 TAAAAAATTTCTAAAAATATAAAGAAAAAAGT
103130134 TAAAAAATTT-TAAAAAT-TAAAGAATAATAAGT
1 TAAAAAATTTCTAAAAATATAAAGAA-AA-AAGT
103130166 T
1 T
103130167 TGGGACCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 5 0.17
31 9 0.31
32 15 0.52
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (32 bp):
TAAAAAATTTCTAAAAATATAAAGAAAAAAGT
Found at i:103133267 original size:25 final size:25
Alignment explanation
Indices: 103133236--103133309 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 25
103133226 ACTTCCTGAT
* *
103133236 TATGGCTTAGACGAGCTTCCCGTTA
1 TATGGCTCAAACGAGCTTCCCGTTA
* * * *
103133261 TATGGCTCACATGAGTTTCTCGTTA
1 TATGGCTCAAACGAGCTTCCCGTTA
103133286 TATGGCTCGAAAC-AGCTTCCCGTT
1 TATGGCTC-AAACGAGCTTCCCGTT
103133310 TACATATTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
25 37 0.95
26 2 0.05
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (25 bp):
TATGGCTCAAACGAGCTTCCCGTTA
Found at i:103139962 original size:14 final size:15
Alignment explanation
Indices: 103139945--103139976 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
103139935 ATTACTCCCC
103139945 AAAAATA-GCATGG-
1 AAAAATATGCATGGT
103139958 AAAAATATGCATGGT
1 AAAAATATGCATGGT
103139973 AAAA
1 AAAA
103139977 CTAATAGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 6 0.35
15 4 0.24
ACGTcount: A:0.56, C:0.06, G:0.19, T:0.19
Consensus pattern (15 bp):
AAAAATATGCATGGT
Found at i:103146779 original size:39 final size:39
Alignment explanation
Indices: 103146613--103146769 Score: 251
Period size: 39 Copynumber: 4.0 Consensus size: 39
103146603 TGATATTGGG
*
103146613 AATATATCCGGACATGAGGTCCGCAGGCTATATGCTGGG
1 AATATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
*
103146652 AATATACCCGGACATGAGGTCCGCAGGCTATATGCTGGA
1 AATATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
*
103146691 AATATATCCAGACATGAGGTCCGCAGGCTATATGCTGGA
1 AATATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * * *
103146730 AATATATCCGGACTTGAAGTCCGCAGGCTATGTGTTGGA
1 AATATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
103146769 A
1 A
103146770 TGGAATCCGG
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 109 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (39 bp):
AATATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:103148758 original size:9 final size:9
Alignment explanation
Indices: 103148744--103148783 Score: 71
Period size: 9 Copynumber: 4.4 Consensus size: 9
103148734 ATAAGTATAA
103148744 AATTAACCG
1 AATTAACCG
103148753 AATTAACCG
1 AATTAACCG
*
103148762 AATTACCCG
1 AATTAACCG
103148771 AATTAACCG
1 AATTAACCG
103148780 AATT
1 AATT
103148784 GAATCACTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:103148813 original size:17 final size:17
Alignment explanation
Indices: 103148791--103148847 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
103148781 ATTGAATCAC
103148791 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
103148808 TACATAAATCTTTGAATCAC
1 TACAT-AA--TTAAAAACAT
103148828 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
103148845 TAC
1 TAC
103148848 CGAAGTCTTT
Statistics
Matches: 29, Mismatches: 8, Indels: 6
0.67 0.19 0.14
Matches are distributed among these distances:
17 14 0.48
18 2 0.07
19 2 0.07
20 11 0.38
ACGTcount: A:0.51, C:0.16, G:0.02, T:0.32
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:103148910 original size:37 final size:37
Alignment explanation
Indices: 103148782--103148893 Score: 188
Period size: 37 Copynumber: 3.0 Consensus size: 37
103148772 ATTAACCGAA
*
103148782 TTGAATCACTACATAATTAAAAACATTACATAAATCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
**
103148819 TTGAATCACTACATAATTAAAAACATTACCGAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
*
103148856 TTGAATCACTACATAATTGAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
103148893 T
1 T
103148894 GAAATTAACA
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.45, C:0.17, G:0.06, T:0.32
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:103151711 original size:56 final size:55
Alignment explanation
Indices: 103151639--103151841 Score: 200
Period size: 56 Copynumber: 3.7 Consensus size: 55
103151629 AATAATACTT
* * * *
103151639 AATTTCAAACATTAAAACAACAGC-TTAATTTAATTTAAGATTGCATGAAAATGCTC
1 AATTTGAAACACTAAAACAACAACTTTAATTCAATTTAAGA--GCATGAAAATGCTC
* * * * *
103151695 AGTTTGATACACTAAAACACCAACTTTAATTCAA-TGAA-AACATGAAAATGCTC
1 AATTTGAAACACTAAAACAACAACTTTAATTCAATTTAAGAGCATGAAAATGCTC
* * *
103151748 AATATGAAACACTAAAACAACAGC-TTGATTCAATTTAAGA-CAGTAAGAAAATGCTC
1 AATTTGAAACACTAAAACAACAACTTTAATTCAATTTAAGAGCA-T--GAAAATGCTC
* *
103151804 AATTTGAAACATTCAAACAACAACTTTAATTCAATTTA
1 AATTTGAAACACTAAAACAACAACTTTAATTCAATTTA
103151842 TGCCAGCATA
Statistics
Matches: 119, Mismatches: 21, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
52 8 0.07
53 37 0.31
54 2 0.02
55 1 0.01
56 51 0.43
57 20 0.17
ACGTcount: A:0.46, C:0.16, G:0.09, T:0.29
Consensus pattern (55 bp):
AATTTGAAACACTAAAACAACAACTTTAATTCAATTTAAGAGCATGAAAATGCTC
Found at i:103151741 original size:53 final size:53
Alignment explanation
Indices: 103151682--103151838 Score: 181
Period size: 53 Copynumber: 2.9 Consensus size: 53
103151672 TTTAAGATTG
* * *
103151682 CATGAAAATGCTCAGTTTGATACACTAAAACACCAACTTTAATTCAATGAAAA
1 CATGAAAATGCTCAATTTGAAACACTAAAACAACAACTTTAATTCAATGAAAA
* * * * *
103151735 CATGAAAATGCTCAATATGAAACACTAAAACAACAGC-TTGATTCAATTTAAGA
1 CATGAAAATGCTCAATTTGAAACACTAAAACAACAACTTTAATTCAA-TGAAAA
* *
103151788 CAGTAAGAAAATGCTCAATTTGAAACATTCAAACAACAACTTTAATTCAAT
1 CA-T--GAAAATGCTCAATTTGAAACACTAAAACAACAACTTTAATTCAAT
103151839 TTATGCCAGC
Statistics
Matches: 86, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
52 8 0.09
53 38 0.44
54 1 0.01
56 31 0.36
57 8 0.09
ACGTcount: A:0.46, C:0.18, G:0.10, T:0.26
Consensus pattern (53 bp):
CATGAAAATGCTCAATTTGAAACACTAAAACAACAACTTTAATTCAATGAAAA
Found at i:103157623 original size:19 final size:19
Alignment explanation
Indices: 103157599--103157636 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
103157589 CTTGACAGAA
*
103157599 TTCACAATGTTTTTCATGT
1 TTCACAATGTATTTCATGT
103157618 TTCACAATGTATTTCATGT
1 TTCACAATGTATTTCATGT
103157637 GTATATGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.16, G:0.11, T:0.50
Consensus pattern (19 bp):
TTCACAATGTATTTCATGT
Found at i:103159322 original size:27 final size:25
Alignment explanation
Indices: 103159283--103159333 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 25
103159273 CATGATATAT
*
103159283 GGCTTTTCAGAGCTTCCCGATTAAA
1 GGCTTTTCAGAGCTTCCCAATTAAA
103159308 GGCTCTTTCATGAGCTTCCCAATTAA
1 GGCT-TTTCA-GAGCTTCCCAATTAA
103159334 TTGGCTCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.17
26 5 0.22
27 14 0.61
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (25 bp):
GGCTTTTCAGAGCTTCCCAATTAAA
Found at i:103161893 original size:47 final size:47
Alignment explanation
Indices: 103161811--103161949 Score: 190
Period size: 47 Copynumber: 2.9 Consensus size: 47
103161801 CAGCTCGTAT
*
103161811 GAGCTTACCGATATATCAGCTCGTAAGAGCTTACTGTTATCAGCTCATTG
1 GAGCTTACCG-T-T-TCAGATCGTAAGAGCTTACTGTTATCAGCTCATTG
* *
103161861 GAGCTTACCGTTTTAGATCGTAAGAGCTTACTGTTATCAGCTTATTG
1 GAGCTTACCGTTTCAGATCGTAAGAGCTTACTGTTATCAGCTCATTG
* * *
103161908 GAGCTTACCGTTTCAGCTCGTATGAGCTTACGGTT-TCAGCTC
1 GAGCTTACCGTTTCAGATCGTAAGAGCTTACTGTTATCAGCTC
103161950 GTATAAGCTT
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
46 6 0.07
47 63 0.78
48 1 0.01
49 1 0.01
50 10 0.12
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (47 bp):
GAGCTTACCGTTTCAGATCGTAAGAGCTTACTGTTATCAGCTCATTG
Found at i:103161934 original size:23 final size:23
Alignment explanation
Indices: 103161801--103161971 Score: 150
Period size: 23 Copynumber: 7.2 Consensus size: 23
103161791 GGACTCACCA
103161801 CAGCTCGTATGAGCTTACCGATATAT
1 CAGCTCGTATGAGCTTACCG-T-T-T
* *
103161827 CAGCTCGTAAGAGCTTACTGTTAT
1 CAGCTCGTATGAGCTTACCGTT-T
*
103161851 CAGCTCAT-TGGAGCTTACCGTTT
1 CAGCTCGTAT-GAGCTTACCGTTT
* * * *
103161874 TAGATCGTAAGAGCTTACTGTTAT
1 CAGCTCGTATGAGCTTACCGTT-T
103161898 CAGCT--TATTGGAGCTTACCGTTT
1 CAGCTCGTA-T-GAGCTTACCGTTT
*
103161921 CAGCTCGTATGAGCTTACGGTTT
1 CAGCTCGTATGAGCTTACCGTTT
* * *
103161944 CAGCTCGTATAAGCTTATCATTT
1 CAGCTCGTATGAGCTTACCGTTT
103161967 CAGCT
1 CAGCT
103161972 TAATAGAGCT
Statistics
Matches: 119, Mismatches: 19, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
22 2 0.02
23 59 0.50
24 37 0.31
25 3 0.03
26 18 0.15
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (23 bp):
CAGCTCGTATGAGCTTACCGTTT
Found at i:103162808 original size:182 final size:182
Alignment explanation
Indices: 103162501--103162866 Score: 723
Period size: 182 Copynumber: 2.0 Consensus size: 182
103162491 TGTTACTTGA
*
103162501 TATCATGATTTTGGTATATTTTGTGTATAAGTAAGCCATGTGATTTGGCTTATTTTGATGTTATG
1 TATCATGATTTTGGTATATTTTGTGTATAACTAAGCCATGTGATTTGGCTTATTTTGATGTTATG
103162566 TTTTGGTTGAATTGAAGTACTCAATTATGGTGTGTTTTAGGTAAGGAATCATTGAATGAAATTAT
66 TTTTGGTTGAATTGAAGTACTCAATTATGGTGTGTTTTAGGTAAGGAATCATTGAATGAAATTAT
103162631 GTAAGTAAAGTCCTAATATGTGTTTGATTAATGAATGGATTATGCATGTTGT
131 GTAAGTAAAGTCCTAATATGTGTTTGATTAATGAATGGATTATGCATGTTGT
103162683 TATCATGATTTTGGTATATTTTGTGTATAACTAAGCCATGTGATTTGGCTTATTTTGATGTTATG
1 TATCATGATTTTGGTATATTTTGTGTATAACTAAGCCATGTGATTTGGCTTATTTTGATGTTATG
103162748 TTTTGGTTGAATTGAAGTACTCAATTATGGTGTGTTTTAGGTAAGGAATCATTGAATGAAATTAT
66 TTTTGGTTGAATTGAAGTACTCAATTATGGTGTGTTTTAGGTAAGGAATCATTGAATGAAATTAT
103162813 GTAAGTAAAGTCCTAATATGTGTTTGATTAATGAATGGATTATGCATGTTGT
131 GTAAGTAAAGTCCTAATATGTGTTTGATTAATGAATGGATTATGCATGTTGT
103162865 TA
1 TA
103162867 GAGAGGTATT
Statistics
Matches: 183, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
182 183 1.00
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.44
Consensus pattern (182 bp):
TATCATGATTTTGGTATATTTTGTGTATAACTAAGCCATGTGATTTGGCTTATTTTGATGTTATG
TTTTGGTTGAATTGAAGTACTCAATTATGGTGTGTTTTAGGTAAGGAATCATTGAATGAAATTAT
GTAAGTAAAGTCCTAATATGTGTTTGATTAATGAATGGATTATGCATGTTGT
Found at i:103168535 original size:46 final size:46
Alignment explanation
Indices: 103168493--103168722 Score: 289
Period size: 46 Copynumber: 5.0 Consensus size: 46
103168483 TCTCAAGTTT
*
103168493 GCAACATATGCAAGAGCTTGGAACCTATTCCTGTATTTTCAAGTCC
1 GCAACATATGCAAGAGCTCGGAACCTATTCCTGTATTTTCAAGTCC
* * **
103168539 ACAACATATGTAAGAGCTCGGAACCTATTCCTGTATTTTTGAGTCC
1 GCAACATATGCAAGAGCTCGGAACCTATTCCTGTATTTTCAAGTCC
* * *
103168585 GCAACATATGCAAGAGCTCGGAACCTATTCCTCTATTTTCGAGTCT
1 GCAACATATGCAAGAGCTCGGAACCTATTCCTGTATTTTCAAGTCC
** * * * *
103168631 GCAACATATGCAAGAGCTCAAAACTTATACCTGTATTCTCAAGTTC
1 GCAACATATGCAAGAGCTCGGAACCTATTCCTGTATTTTCAAGTCC
* * * * *
103168677 GCAACATATGCAAAAGCTCAGAACCTATTCATGTATTCTCGAGTCC
1 GCAACATATGCAAGAGCTCGGAACCTATTCCTGTATTTTCAAGTCC
103168723 ACAATACATG
Statistics
Matches: 158, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 158 1.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (46 bp):
GCAACATATGCAAGAGCTCGGAACCTATTCCTGTATTTTCAAGTCC
Found at i:103168743 original size:92 final size:92
Alignment explanation
Indices: 103168481--103168748 Score: 329
Period size: 92 Copynumber: 2.9 Consensus size: 92
103168471 ATATTCCTAC
* * *
103168481 ATTCTCAAGTTTGCAACATATGCAAGAGCTTGGAACCTATTCCTGTATTTTCAAGTCCACAACAT
1 ATTCTCAAGTTCGCAACATATGCAAGAGCTCGGAACCTATTCCTGTATTTTCGAGTCCACAACAT
** *
103168546 ATGTAAGAGCTCGGAACCTATTCCTGT
66 ATGTAAGAGCTCAAAACCTATACCTGT
* ** * * **
103168573 ATTTTTGAGTCCGCAACATATGCAAGAGCTCGGAACCTATTCCTCTATTTTCGAGTCTGCAACAT
1 ATTCTCAAGTTCGCAACATATGCAAGAGCTCGGAACCTATTCCTGTATTTTCGAGTCCACAACAT
* *
103168638 ATGCAAGAGCTCAAAACTTATACCTGT
66 ATGTAAGAGCTCAAAACCTATACCTGT
* * * * * *
103168665 ATTCTCAAGTTCGCAACATATGCAAAAGCTCAGAACCTATTCATGTATTCTCGAGTCCACAATAC
1 ATTCTCAAGTTCGCAACATATGCAAGAGCTCGGAACCTATTCCTGTATTTTCGAGTCCACAACAT
* *
103168730 ATGTAGGAACTCAAAACCT
66 ATGTAAGAGCTCAAAACCT
103168749 GGGCAAGAAC
Statistics
Matches: 144, Mismatches: 32, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
92 144 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.29
Consensus pattern (92 bp):
ATTCTCAAGTTCGCAACATATGCAAGAGCTCGGAACCTATTCCTGTATTTTCGAGTCCACAACAT
ATGTAAGAGCTCAAAACCTATACCTGT
Found at i:103168748 original size:138 final size:138
Alignment explanation
Indices: 103168492--103168748 Score: 316
Period size: 138 Copynumber: 1.9 Consensus size: 138
103168482 TTCTCAAGTT
*** * * * *
103168492 TGCAACATATGCAAGAGCTTGGAACCTATTCCTGTATTTTCAAGTCCACAACATATGTAAGAGCT
1 TGCAACATATGCAAGAGCTCAAAACCTATACCTGTATTCTCAAGTCCACAACATATGCAAAAGCT
* * * * * * * **
103168557 CGGAACCTATTCCTGTATTTTTGAGTCCGCAACATATGCAAGAGCTCGGAACCTATTCCTCTATT
66 CAGAACCTATTCATGTATTCTCGAGTCCACAACACATGCAAGAACTCAAAACCTATTCCTCTATT
103168622 TTCGAGTC
131 TTCGAGTC
* * *
103168630 TGCAACATATGCAAGAGCTCAAAACTTATACCTGTATTCTCAAGTTCGCAACATATGCAAAAGCT
1 TGCAACATATGCAAGAGCTCAAAACCTATACCTGTATTCTCAAGTCCACAACATATGCAAAAGCT
* * *
103168695 CAGAACCTATTCATGTATTCTCGAGTCCACAATACATGTAGGAACTCAAAACCT
66 CAGAACCTATTCATGTATTCTCGAGTCCACAACACATGCAAGAACTCAAAACCT
103168749 GGGCAAGAAC
Statistics
Matches: 97, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
138 97 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.29
Consensus pattern (138 bp):
TGCAACATATGCAAGAGCTCAAAACCTATACCTGTATTCTCAAGTCCACAACATATGCAAAAGCT
CAGAACCTATTCATGTATTCTCGAGTCCACAACACATGCAAGAACTCAAAACCTATTCCTCTATT
TTCGAGTC
Found at i:103169096 original size:5 final size:5
Alignment explanation
Indices: 103169086--103169440 Score: 689
Period size: 5 Copynumber: 71.6 Consensus size: 5
103169076 GCAACCATTT
103169086 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
103169136 TAATA TAATA TAATA TAATA TAATA TAATA TAATA T-A-A TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
103169184 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
103169234 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
103169284 TAATA TAATA TAATA TAATA TAATA TAATA TAATA T-ATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
103169333 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
103169383 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
103169433 TAATA TAA
1 TAATA TAA
103169441 ATTTCAATTT
Statistics
Matches: 347, Mismatches: 0, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
3 2 0.01
4 6 0.02
5 339 0.98
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:103170816 original size:23 final size:22
Alignment explanation
Indices: 103170756--103170818 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 22
103170746 GTTAATGTTC
*
103170756 ACGAACATGTTCATTTAACTTAA
1 ACGAACATGTTCA-TGAACTTAA
**
103170779 TTGAACATGTTCATGAACATTAA
1 ACGAACATGTTCATGAAC-TTAA
103170802 ACGAACATGTTCATGAA
1 ACGAACATGTTCATGAA
103170819 ATAAAATTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
22 4 0.12
23 30 0.88
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.32
Consensus pattern (22 bp):
ACGAACATGTTCATGAACTTAA
Found at i:103170831 original size:23 final size:24
Alignment explanation
Indices: 103170777--103170843 Score: 84
Period size: 23 Copynumber: 2.9 Consensus size: 24
103170767 CATTTAACTT
*
103170777 AATTGAACATGTTCATGAACATTA
1 AATTGAACATGTTCATGAACATAA
*
103170801 AA-CGAACATGTTCATGAA-ATAA
1 AATTGAACATGTTCATGAACATAA
* *
103170823 AATTTAACATGTTTATGAACA
1 AATTGAACATGTTCATGAACA
103170844 ATGTTAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 5 0.14
23 28 0.78
24 3 0.08
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (24 bp):
AATTGAACATGTTCATGAACATAA
Found at i:103174449 original size:72 final size:72
Alignment explanation
Indices: 103174332--103174477 Score: 247
Period size: 72 Copynumber: 2.0 Consensus size: 72
103174322 CTCAGCCTTT
*
103174332 CATAAATTTCCTCAACCACTTTTTGTGCATCCATCAGAGTTGGGGCTTGGCACAAACCTTGACAA
1 CATAAATTTCCTCAACCACTTTTTGTGCATCCATCAGAGTTGGGGCATGGCACAAACCTTGACAA
103174397 GCAATCC
66 GCAATCC
* * * *
103174404 CATAATTTTCCTCAACCACTTTTTGTGTATCCATTAGAGTTGGGGCATGGCACAAACCTTGACAT
1 CATAAATTTCCTCAACCACTTTTTGTGCATCCATCAGAGTTGGGGCATGGCACAAACCTTGACAA
103174469 GCAATCC
66 GCAATCC
103174476 CA
1 CA
103174478 GGATGTATAA
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.29
Consensus pattern (72 bp):
CATAAATTTCCTCAACCACTTTTTGTGCATCCATCAGAGTTGGGGCATGGCACAAACCTTGACAA
GCAATCC
Found at i:103176373 original size:21 final size:20
Alignment explanation
Indices: 103176344--103176382 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
103176334 CAGCTCAAAA
103176344 AAAAGAAGAAAACTCAAACCC
1 AAAAGAAGAAAA-TCAAACCC
* *
103176365 AAAATAAGAACATCAAAC
1 AAAAGAAGAAAATCAAAC
103176383 TGGAACTGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.64, C:0.21, G:0.08, T:0.08
Consensus pattern (20 bp):
AAAAGAAGAAAATCAAACCC
Found at i:103180992 original size:11 final size:11
Alignment explanation
Indices: 103180961--103181002 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
103180951 AGATTAAATT
103180961 ATAGTTTAA-A
1 ATAGTTTAATA
103180971 ATATGTTTAATA
1 ATA-GTTTAATA
103180983 ATAGTTTAATTA
1 ATAGTTTAA-TA
103180995 ATA-TTTAA
1 ATAGTTTAA
103181003 CTGATTAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 3 0.10
11 17 0.59
12 9 0.31
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (11 bp):
ATAGTTTAATA
Found at i:103183658 original size:46 final size:46
Alignment explanation
Indices: 103183608--103183736 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
103183598 TGGTTGAGCA
*
103183608 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
103183654 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
103183700 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
103183737 GCGAGTTACA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:103188373 original size:21 final size:21
Alignment explanation
Indices: 103188313--103188373 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
103188303 AGATGTTTTT
103188313 ACTATAAATTGCACTTGGTAA
1 ACTATAAATTGCACTTGGTAA
* * *
103188334 ACTATGAA--G-GCTT-CT--
1 ACTATAAATTGCACTTGGTAA
103188349 ACTATAAATTGCACTTGGTAA
1 ACTATAAATTGCACTTGGTAA
103188370 ACTA
1 ACTA
103188374 AGTAATCAGA
Statistics
Matches: 28, Mismatches: 6, Indels: 12
0.61 0.13 0.26
Matches are distributed among these distances:
15 7 0.25
17 2 0.07
18 6 0.21
19 2 0.07
21 11 0.39
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (21 bp):
ACTATAAATTGCACTTGGTAA
Found at i:103203317 original size:18 final size:18
Alignment explanation
Indices: 103203281--103203418 Score: 148
Period size: 18 Copynumber: 7.9 Consensus size: 18
103203271 AATCATATCT
*
103203281 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
103203300 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
* *
103203318 TCTAAGACTG-TATCATA
1 TCTAAGATTGCAATCATA
103203335 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
103203353 TCTAAGATTG---T-A-A
1 TCTAAGATTGCAATCATA
*
103203366 --TAAGATTGCAAGCATA
1 TCTAAGATTGCAATCATA
*
103203382 TCTAAGATTGCATATCACA
1 TCTAAGATTGCA-ATCATA
103203401 TCTAAGATTGCATATCAT
1 TCTAAGATTGCA-ATCAT
103203419 TGAAGATTAT
Statistics
Matches: 101, Mismatches: 9, Indels: 18
0.79 0.07 0.14
Matches are distributed among these distances:
11 8 0.08
13 1 0.01
14 1 0.01
15 2 0.02
16 1 0.01
17 15 0.15
18 41 0.41
19 32 0.32
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:103203339 original size:35 final size:34
Alignment explanation
Indices: 103203293--103203418 Score: 145
Period size: 35 Copynumber: 3.7 Consensus size: 34
103203283 TAAGATTGTA
103203293 TATCATATCTAAGATTGCAATCATATCTAAGACTG
1 TATCATATCTAAGATTGCAATCATATCTAAGA-TG
103203328 TATCATATCTAAGATTGCAATCATATCTAAGAT-
1 TATCATATCTAAGATTGCAATCATATCTAAGATG
* *
103203361 TGT-A-A--TAAGATTGCAAGCATATCTAAGATTG
1 TATCATATCTAAGATTGCAATCATATCTAAGA-TG
*
103203392 CATATCACATCTAAGATTGCATATCAT
1 --TATCATATCTAAGATTGCA-ATCAT
103203419 TGAAGATTAT
Statistics
Matches: 78, Mismatches: 4, Indels: 15
0.80 0.04 0.15
Matches are distributed among these distances:
29 22 0.28
30 1 0.01
31 1 0.01
32 1 0.01
33 4 0.05
34 2 0.03
35 33 0.42
37 10 0.13
38 4 0.05
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (34 bp):
TATCATATCTAAGATTGCAATCATATCTAAGATG
Found at i:103204262 original size:207 final size:207
Alignment explanation
Indices: 103203824--103204809 Score: 1589
Period size: 207 Copynumber: 4.8 Consensus size: 207
103203814 ATTTATTCCT
* * ** * * *
103203824 TGACAATACAGAGATGCCAAATCATCTTAGATTTGTTTCAGTGTAAACATGCGAAAGCCAAATTA
1 TGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAGCCAAATCA
* * * * * *
103203889 GGTATGTCTTCGATTTGCTCCTTGTAAGCGCAAGGATACCAAACCATCTAGGATC-TGCTTTAGT
66 GCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTGCTTCAGT
* * ** * *
103203953 CTAATCATCTGAAGGTTAAATCTGCTAAATGTCTGTCCTCCGTCGAATATGGAGACGCCAAACTT
131 ATAAACATCTGAAGGCCAGATCTGCTATATGTCTGTCCTCCGTCGAATATGGAGACGCCAAACTT
*
103204018 CGATTTGTTCTA
196 CGATTTGTTCTC
*
103204030 TGACAATACAAAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAGCCAAATCA
1 TGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAGCCAAATCA
* *
103204095 GCTATGTCTTCGATTTGCTCCTTGTAAGCGCAAGGATGCCAAACCATCTTGGATCTTGCTTCAGT
66 GCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTGCTTCAGT
103204160 ATAAACATCTGAAGGCCAGATCTGCTATATGTCT-TCCCTCCGTCGAATATGGAGACGCCAAACT
131 ATAAACATCTGAAGGCCAGATCTGCTATATGTCTGT-CCTCCGTCGAATATGGAGACGCCAAACT
103204224 TCGATTTGTTCTC
195 TCGATTTGTTCTC
* *
103204237 TGACAATACAAAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAATACGTGAAAGCCAAATCA
1 TGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAGCCAAATCA
* *
103204302 GCTATGTCTTCGATTTGTTCCTTATAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGT
66 GCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTGCTTCAGT
* * *
103204367 ATAAACATCTAAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGCCAAACTT
131 ATAAACATCTGAAGGCCAGATCTGCTATATGTCTGTCCTCCGTCGAATATGGAGACGCCAAACTT
*
103204432 TGATTTGTTCTC
196 CGATTTGTTCTC
*
103204444 TGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAGTCAAATCA
1 TGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAGCCAAATCA
103204509 GCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTGCTTCAGT
66 GCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTGCTTCAGT
* *
103204574 ATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGTCCTCTGTCGAATATGGAGACGCCAAACTT
131 ATAAACATCTGAAGGCCAGATCTGCTATATGTCTGTCCTCCGTCGAATATGGAGACGCCAAACTT
*
103204639 CAATTTGTTCTC
196 CGATTTGTTCTC
103204651 TGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAGCCAAATCA
1 TGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAGCCAAATCA
* * *
103204716 ACTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATATTGGATCTTGCTTCAGT
66 GCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTGCTTCAGT
* *
103204781 ATAAACATTTGAAGGCTAGATCTGCTATA
131 ATAAACATCTGAAGGCCAGATCTGCTATA
103204810 CTTTAACCTG
Statistics
Matches: 732, Mismatches: 45, Indels: 5
0.94 0.06 0.01
Matches are distributed among these distances:
206 110 0.15
207 622 0.85
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (207 bp):
TGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAGCCAAATCA
GCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTGCTTCAGT
ATAAACATCTGAAGGCCAGATCTGCTATATGTCTGTCCTCCGTCGAATATGGAGACGCCAAACTT
CGATTTGTTCTC
Found at i:103204965 original size:87 final size:82
Alignment explanation
Indices: 103204815--103205016 Score: 264
Period size: 87 Copynumber: 2.4 Consensus size: 82
103204805 CTATACTTTA
103204815 ACCTGTTA-CCTACTGCTTAGGGGGTTAAGGCGTATCTTCGATCTGCTCCACTACTGCTTAGGGA
1 ACCTGTTACCCTACTGCTTA-GGGGTTAAGGCGTATCTTCGATCTGCTCCACTACTGCTTAGGGA
103204879 GATAAGATCCGCAATTTT
65 GATAAGATCCGCAATTTT
* * *
103204897 GACCTGTTACCCTACTGCTTAGGGGATTAAGGCG-AGTCGTCGTTGATCTGTTCCACTATTGCTT
1 -ACCTGTTACCCTACTGCTTAGGGG-TTAAGGCGTA-TC-T--TCGATCTGCTCCACTACTGCTT
* *
103204961 AGGGAGATAAGATCTGTAATTTT
60 AGGGAGATAAGATCCGCAATTTT
*
103204984 AGCCTGTTACCCTACTACTTAGGGGTTAAGGCG
1 A-CCTGTTACCCTACTGCTTAGGGGTTAAGGCG
103205017 CTGAATTTTG
Statistics
Matches: 106, Mismatches: 6, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
83 13 0.12
84 21 0.20
85 1 0.01
86 9 0.08
87 62 0.58
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (82 bp):
ACCTGTTACCCTACTGCTTAGGGGTTAAGGCGTATCTTCGATCTGCTCCACTACTGCTTAGGGAG
ATAAGATCCGCAATTTT
Found at i:103205993 original size:19 final size:19
Alignment explanation
Indices: 103205965--103206028 Score: 60
Period size: 21 Copynumber: 3.2 Consensus size: 19
103205955 GCCTCTCCAT
*
103205965 TTTTTCTTTTTTCTCTTTTT-
1 TTTTT-TTTTTGC-CTTTTTC
103205985 TTTATTTTTTTGCCTTTTTC
1 TTT-TTTTTTTGCCTTTTTC
103206005 TTTTTTTTTTTTGCCTTTTT-
1 --TTTTTTTTTTGCCTTTTTC
103206025 TTTT
1 TTTT
103206029 GAAATAGAAG
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
18 4 0.10
19 6 0.15
20 9 0.23
21 17 0.44
22 3 0.08
ACGTcount: A:0.02, C:0.12, G:0.03, T:0.83
Consensus pattern (19 bp):
TTTTTTTTTTGCCTTTTTC
Found at i:103206008 original size:21 final size:20
Alignment explanation
Indices: 103205980--103206028 Score: 80
Period size: 21 Copynumber: 2.4 Consensus size: 20
103205970 CTTTTTTCTC
103205980 TTTTTTTTATTTTTTTGCCT
1 TTTTTTTTATTTTTTTGCCT
*
103206000 TTTTCTTTTTTTTTTTTGCCT
1 TTTT-TTTTATTTTTTTGCCT
103206021 TTTTTTTT
1 TTTTTTTT
103206029 GAAATAGAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 8 0.30
21 19 0.70
ACGTcount: A:0.02, C:0.10, G:0.04, T:0.84
Consensus pattern (20 bp):
TTTTTTTTATTTTTTTGCCT
Found at i:103208886 original size:39 final size:39
Alignment explanation
Indices: 103208831--103209008 Score: 211
Period size: 39 Copynumber: 4.6 Consensus size: 39
103208821 TTCCAACCCA
** * *
103208831 AATGCCTTCGAAACTTATCCCGGATATAACATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
* *
103208870 AATGCCTTTGGGACTTAGCCCGAATATAATA-CTAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATC-AGCACG
*
103208909 AATGCCTTCGGGACTTAACCCGGATATAATATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
* *
103208948 AATGACTTCGGGACTTAGCCCGGATATAAATCTCA-CAC-
1 AATGCCTTCGGGACTTAGCCCGGATAT-AATATCAGCACG
*
103208986 AAGGCCTT-GGGATCTTAGCCCGG
1 AATGCCTTCGGGA-CTTAGCCCGG
103209009 TTAAAATCCT
Statistics
Matches: 121, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
37 4 0.03
38 17 0.14
39 93 0.77
40 7 0.06
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
Found at i:103210580 original size:16 final size:15
Alignment explanation
Indices: 103210561--103210590 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
103210551 GTCTTCCCCC
103210561 TTTTCTTTCTTCAAAA
1 TTTTCTTTC-TCAAAA
103210577 TTTTCTTTCTCAAA
1 TTTTCTTTCTCAAA
103210591 TTCGGCAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTTCTTTCTCAAAA
Found at i:103211558 original size:18 final size:18
Alignment explanation
Indices: 103211532--103211591 Score: 84
Period size: 18 Copynumber: 3.3 Consensus size: 18
103211522 AAGATTGTAT
103211532 ATCATATCTAAGATCGCA
1 ATCATATCTAAGATCGCA
* *
103211550 ATTATATCTAAGATTGCA
1 ATCATATCTAAGATCGCA
*
103211568 ATCATATCTAAGATTGCA
1 ATCATATCTAAGATCGCA
103211586 TATCAT
1 -ATCAT
103211592 TGAAGATTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
18 33 0.87
19 5 0.13
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (18 bp):
ATCATATCTAAGATCGCA
Found at i:103211599 original size:17 final size:18
Alignment explanation
Indices: 103211522--103211599 Score: 70
Period size: 18 Copynumber: 4.3 Consensus size: 18
103211512 CATATCTTCT
* *
103211522 AAGATTGTATATCATATCT
1 AAGATTGCA-ATCATATCG
* * *
103211541 AAGATCGCAATTATATCT
1 AAGATTGCAATCATATCG
*
103211559 AAGATTGCAATCATATCT
1 AAGATTGCAATCATATCG
103211577 AAGATTGCATATCAT-T-G
1 AAGATTGCA-ATCATATCG
103211594 AAGATT
1 AAGATT
103211600 ATATTTCCAT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
17 6 0.12
18 34 0.65
19 12 0.23
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (18 bp):
AAGATTGCAATCATATCG
Found at i:103212704 original size:18 final size:19
Alignment explanation
Indices: 103212668--103212776 Score: 172
Period size: 18 Copynumber: 5.9 Consensus size: 19
103212658 AATCATATAT
*
103212668 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
103212687 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
103212705 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
103212722 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
*
103212740 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
103212759 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
103212777 TGAAGATTAT
Statistics
Matches: 83, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
17 16 0.19
18 34 0.41
19 33 0.40
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:103212726 original size:35 final size:36
Alignment explanation
Indices: 103212668--103212776 Score: 175
Period size: 35 Copynumber: 3.0 Consensus size: 36
103212658 AATCATATAT
103212668 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCAATCATA
103212705 TCTAAGATTG-TATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGATATCATATCTAAGATTGCAATCATA
*
103212740 TCTAAGATTGCATATCACATCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCATATCTAAGATTGCA-ATCAT
103212777 TGAAGATTAT
Statistics
Matches: 68, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
35 35 0.51
37 28 0.41
38 5 0.07
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (36 bp):
TCTAAGATTGATATCATATCTAAGATTGCAATCATA
Found at i:103213614 original size:207 final size:206
Alignment explanation
Indices: 103213156--103213668 Score: 767
Period size: 207 Copynumber: 2.5 Consensus size: 206
103213146 AAATCTGCTT
* * * * *
103213156 CTTCAATTTGTTCCCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACATAAACAC
*
103213221 GCGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTATAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTATAAGCACAAGGATACCAAACCATCTT
* * ** *
103213286 GGATCTGCTTCAGTCTAATCATCTAAAGGTTAGATCTACTATATGTCTGTCCTCCGTCGAATATG
131 GGATCTGCTTCAGTATAAACATCTAAAGGCCAGATCTACTATATGTCTGCCCTCCGTCGAATATG
103213351 GAGACGCCAAA
196 GAGACGCCAAA
*
103213362 CTTCGATTTGTTCTCTGACAATACTA-AGATGCCAAATCATCTTAGACTTGCTTCAACATAAACA
1 CTTCGATTTGTTCTCTGACAATAC-AGAGATGCCAAATCATCTTAGATTTGCTTCAACATAAACA
* * * * *
103213426 CGTGAAAGCCCAATCAACTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTATAAGCACAAGGATACCAAACCATCT
* ** *
103213491 TGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGGTATGTGTCTGCCCTCCGTCGAATA
130 TGGATC-TGCTTCAGTATAAACATCTAAAGGCCAGATCTACTATATGTCTGCCCTCCGTCGAATA
*
103213556 TGGAGACGCGAAA
194 TGGAGACGCCAAA
* * *
103213569 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCGTCTTAGATTTGCTTCATCATAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACATAAACAC
*
103213634 GTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTC
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTC
103213669 TCCGTCGAAT
Statistics
Matches: 274, Mismatches: 30, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
206 122 0.45
207 152 0.55
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACATAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTATAAGCACAAGGATACCAAACCATCTT
GGATCTGCTTCAGTATAAACATCTAAAGGCCAGATCTACTATATGTCTGCCCTCCGTCGAATATG
GAGACGCCAAA
Found at i:103214050 original size:83 final size:84
Alignment explanation
Indices: 103213787--103214077 Score: 390
Period size: 83 Copynumber: 3.4 Consensus size: 84
103213777 TCTGTTATAC
* * *
103213787 TTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGCA-TATTCGATCTGCTCCACTACTTCTT
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG-AGTCTTCGATCTGCTCCACTACTGCTT
*
103213851 ATGGAGATAAGAT-TCACAAT
65 AGGGAGATAAGATCT-ACAAT
* * * * *
103213871 TTTGACCTGTTACCCTACTGCTTAGGGGATTAAGGTGAGTCGTCATTGATCTGTTCCACTACTGT
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGCTCCACTACTGC
**
103213936 TTAGGGAGATAAGATCTGTAAT
63 TTAGGGAGATAAGATCTACAAT
* *
103213958 TTTAGCCTGTTACCCTACTTCTTAGGGG-TTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
*
103214022 GGGAGATAAGATCTACAAA
66 GGGAGATAAGATCTACAAT
103214041 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
103214078 CTGAATTTTG
Statistics
Matches: 178, Mismatches: 23, Indels: 12
0.84 0.11 0.06
Matches are distributed among these distances:
83 63 0.35
84 43 0.24
85 2 0.01
86 11 0.06
87 58 0.33
88 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (84 bp):
TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
GGGAGATAAGATCTACAAT
Found at i:103215049 original size:14 final size:16
Alignment explanation
Indices: 103215032--103215064 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
103215022 CCATTTTTTC
103215032 TTTTT-TCTTTTTATT
1 TTTTTCTCTTTTTATT
103215047 TTTTTCTCTTTTTATT
1 TTTTTCTCTTTTTATT
103215063 TT
1 TT
103215065 ATTTTTTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.06, C:0.09, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTTCTCTTTTTATT
Found at i:103215056 original size:16 final size:15
Alignment explanation
Indices: 103215032--103215069 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 15
103215022 CCATTTTTTC
103215032 TTTTTTCTTTTTATT
1 TTTTTTCTTTTTATT
103215047 TTTTTCTCTTTTTATT
1 TTTTT-TCTTTTTATT
103215063 TTATTTT
1 TT-TTTT
103215070 TTTGCCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.24
16 13 0.62
17 3 0.14
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTCTTTTTATT
Found at i:103215078 original size:21 final size:21
Alignment explanation
Indices: 103215025--103215080 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
103215015 GGCCTCTCCA
*
103215025 TTTTTTCT-TTTTTCTTTTTAT
1 TTTTTTCTCTTTTT-ATTTTAT
103215046 TTTTTTCTCTTTTTATTTTAT
1 TTTTTTCTCTTTTTATTTTAT
103215067 TTTTTTGC-CTTTTT
1 TTTTTT-CTCTTTTT
103215081 TTTAAACAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 26 0.81
22 6 0.19
ACGTcount: A:0.05, C:0.11, G:0.02, T:0.82
Consensus pattern (21 bp):
TTTTTTCTCTTTTTATTTTAT
Found at i:103220868 original size:17 final size:18
Alignment explanation
Indices: 103220827--103220940 Score: 169
Period size: 17 Copynumber: 6.3 Consensus size: 18
103220817 CAAGATTGTA
103220827 TATCATATCTAAGATTGC
1 TATCATATCTAAGATTGC
*
103220845 AATCATATCTAAGATTG-
1 TATCATATCTAAGATTGC
103220862 TATCATATCTAAGATTGC
1 TATCATATCTAAGATTGC
*
103220880 AATCATATCTAAGATTG-
1 TATCATATCTAAGATTGC
103220897 TATCATATCTAAGATTGC
1 TATCATATCTAAGATTGC
*
103220915 ATATCACATCTAAGATTGC
1 -TATCATATCTAAGATTGC
103220934 ATATCAT
1 -TATCAT
103220941 TGAAGATTAT
Statistics
Matches: 87, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
17 32 0.37
18 32 0.37
19 23 0.26
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (18 bp):
TATCATATCTAAGATTGC
Found at i:103220871 original size:35 final size:35
Alignment explanation
Indices: 103220818--103220932 Score: 194
Period size: 35 Copynumber: 3.2 Consensus size: 35
103220808 CATATCTTCC
103220818 AAGATTGTATATCATATCTAAGATTGCAATCATATCT
1 AAGATTG--TATCATATCTAAGATTGCAATCATATCT
103220855 AAGATTGTATCATATCTAAGATTGCAATCATATCT
1 AAGATTGTATCATATCTAAGATTGCAATCATATCT
*
103220890 AAGATTGTATCATATCTAAGATTGCATATCACATCT
1 AAGATTGTATCATATCTAAGATTGCA-ATCATATCT
103220926 AAGATTG
1 AAGATTG
103220933 CATATCATTG
Statistics
Matches: 76, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
35 54 0.71
36 15 0.20
37 7 0.09
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (35 bp):
AAGATTGTATCATATCTAAGATTGCAATCATATCT
Found at i:103223636 original size:14 final size:14
Alignment explanation
Indices: 103223597--103223636 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
103223587 ATACATACAA
**
103223597 ACACACAAACACAC
1 ACACACAAACATGC
103223611 ACACACAAACATGC
1 ACACACAAACATGC
*
103223625 ACACACATACAT
1 ACACACAAACAT
103223637 ACATATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.53, C:0.38, G:0.03, T:0.07
Consensus pattern (14 bp):
ACACACAAACATGC
Found at i:103224168 original size:42 final size:41
Alignment explanation
Indices: 103224089--103224221 Score: 112
Period size: 42 Copynumber: 3.2 Consensus size: 41
103224079 CGGAAGCCCG
* * * *
103224089 AGGGCTAAACAGAAGCACATAAGTGCT-AAC-AGAAACCCAT
1 AGGGTTAAACATAAGCTCATAAGAGCTGAACGA-AAACCCAT
*
103224129 AAGGGTTGAACATAAGCTCATAAGAGCTGAACGAAAACCCAGT
1 -AGGGTTAAACATAAGCTCATAAGAGCTGAACGAAAACCCA-T
* * *
103224172 AGGGTTAAAC-TGAAACTCATAAGAGTTGAAATG-AAACCCATT
1 AGGGTTAAACAT-AAGCTCATAAGAGCTG-AACGAAAACCCA-T
103224214 AGGGTTAA
1 AGGGTTAA
103224222 CTGAAACTCA
Statistics
Matches: 77, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
41 23 0.30
42 49 0.64
43 5 0.06
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.18
Consensus pattern (41 bp):
AGGGTTAAACATAAGCTCATAAGAGCTGAACGAAAACCCAT
Found at i:103224206 original size:21 final size:20
Alignment explanation
Indices: 103224175--103224251 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
103224165 ACCCAGTAGG
103224175 GTTAAACTGAAACTCATAAGA
1 GTTAAA-TGAAACTCATAAGA
* * *
103224196 GTTGAAATGAAACCCATTAGG
1 GTT-AAATGAAACTCATAAGA
* *
103224217 GTTAACTGAAACTCATATGA
1 GTTAAATGAAACTCATAAGA
* *
103224237 GTTAACTGAAGCTCA
1 GTTAAATGAAACTCA
103224252 CGAGAGCTAA
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
20 26 0.57
21 17 0.37
22 3 0.07
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (20 bp):
GTTAAATGAAACTCATAAGA
Found at i:103224228 original size:20 final size:21
Alignment explanation
Indices: 103224163--103224246 Score: 68
Period size: 21 Copynumber: 4.1 Consensus size: 21
103224153 AGCTGAACGA
* *
103224163 AAACCCAGTAGGGTTAAACTG
1 AAACCCATTAGAGTTAAACTG
* *
103224184 AAACTCATAAGAGTTGAAA-TG
1 AAACCCATTAGAGTT-AAACTG
*
103224205 AAACCCATTAGGGTT-AACTG
1 AAACCCATTAGAGTTAAACTG
*
103224225 AAACTCA-TATGAGTT-AACTG
1 AAACCCATTA-GAGTTAAACTG
103224245 AA
1 AA
103224247 GCTCACGAGA
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
19 4 0.08
20 19 0.37
21 25 0.49
22 3 0.06
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.24
Consensus pattern (21 bp):
AAACCCATTAGAGTTAAACTG
Found at i:103224239 original size:41 final size:41
Alignment explanation
Indices: 103224120--103224239 Score: 136
Period size: 42 Copynumber: 2.9 Consensus size: 41
103224110 AGTGCTAACA
* * * *
103224120 GAAACCCATAAGGGTTGAACAT-AAGCTCATAAGAGCTGAAC
1 GAAACCCATTAGGGTTAAAC-TGAAACTCATAAGAGTTGAAC
* *
103224161 GAAAACCCAGTAGGGTTAAACTGAAACTCATAAGAGTTGAAAT
1 G-AAACCCATTAGGGTTAAACTGAAACTCATAAGAGTTG-AAC
*
103224204 GAAACCCATTAGGGTT-AACTGAAACTCATATGAGTT
1 GAAACCCATTAGGGTTAAACTGAAACTCATAAGAGTT
103224240 AACTGAAGCT
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
41 21 0.31
42 44 0.65
43 3 0.04
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.22
Consensus pattern (41 bp):
GAAACCCATTAGGGTTAAACTGAAACTCATAAGAGTTGAAC
Found at i:103225305 original size:38 final size:38
Alignment explanation
Indices: 103225254--103225333 Score: 142
Period size: 38 Copynumber: 2.1 Consensus size: 38
103225244 CATTTTTTAG
103225254 GTTTGATCAATTGGCCTGGGAACAGAGCACACCAAGTA
1 GTTTGATCAATTGGCCTGGGAACAGAGCACACCAAGTA
* *
103225292 GTTTGATCAATTGGCTTGGGAACAGAGCACGCCAAGTA
1 GTTTGATCAATTGGCCTGGGAACAGAGCACACCAAGTA
103225330 GTTT
1 GTTT
103225334 TCAACAACGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (38 bp):
GTTTGATCAATTGGCCTGGGAACAGAGCACACCAAGTA
Found at i:103226544 original size:77 final size:77
Alignment explanation
Indices: 103226417--103226570 Score: 290
Period size: 77 Copynumber: 2.0 Consensus size: 77
103226407 TAACAGCAAA
*
103226417 TTTAACCCTTATCATTTACATATTATATCAATTTAATCTTAATTTTAAAAAAATGGTAGGTTAAT
1 TTTAACCCTTATCATTTACATATTATATCAATTTAATATTAATTTTAAAAAAATGGTAGGTTAAT
103226482 TGAATGAGTGGT
66 TGAATGAGTGGT
*
103226494 TTTAACCCTTATCATTTACATATTATGTCAATTTAATATTAATTTTAAAAAAATGGTAGGTTAAT
1 TTTAACCCTTATCATTTACATATTATATCAATTTAATATTAATTTTAAAAAAATGGTAGGTTAAT
103226559 TGAATGAGTGGT
66 TGAATGAGTGGT
103226571 GAGGCTCTCT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.43
Consensus pattern (77 bp):
TTTAACCCTTATCATTTACATATTATATCAATTTAATATTAATTTTAAAAAAATGGTAGGTTAAT
TGAATGAGTGGT
Found at i:103227532 original size:30 final size:31
Alignment explanation
Indices: 103227496--103227556 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
103227486 GGTTTCATTT
* *
103227496 CAGTCACTCAAC-TT-TCAAAAAGTTACAAAA
1 CAGTCACT-AACGTTATAAAAAAGTGACAAAA
103227526 CAGTCACTAACGTTATAAAAAAGTGACAAAA
1 CAGTCACTAACGTTATAAAAAAGTGACAAAA
103227557 TAATCACTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 3 0.11
30 10 0.37
31 14 0.52
ACGTcount: A:0.49, C:0.20, G:0.10, T:0.21
Consensus pattern (31 bp):
CAGTCACTAACGTTATAAAAAAGTGACAAAA
Found at i:103229509 original size:51 final size:52
Alignment explanation
Indices: 103229432--103229553 Score: 203
Period size: 51 Copynumber: 2.3 Consensus size: 52
103229422 GAAAAAGGGT
103229432 AAATTATGTATTTAGTCACCTGATTTTACCTATGTTCCAATTTTAATTATTC
1 AAATTATGTATTTAGTCACCTGATTTTACCTATGTTCCAATTTTAATTATTC
*
103229484 -AATTATGTATTTAGTCACCTGATTTTACCTATGTTCCTATTTTAATTATTC
1 AAATTATGTATTTAGTCACCTGATTTTACCTATGTTCCAATTTTAATTATTC
103229535 AAATT-TGTTATTTTAGTCA
1 AAATTATG-TA-TTTAGTCA
103229554 TTCCTGCTAG
Statistics
Matches: 66, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
51 52 0.79
52 6 0.09
53 8 0.12
ACGTcount: A:0.28, C:0.14, G:0.08, T:0.50
Consensus pattern (52 bp):
AAATTATGTATTTAGTCACCTGATTTTACCTATGTTCCAATTTTAATTATTC
Found at i:103229926 original size:16 final size:16
Alignment explanation
Indices: 103229900--103229939 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
103229890 TTAAATTACG
*
103229900 TAAATATATTTTAATAT
1 TAAA-ATATTTTAAAAT
103229917 TAAAATATTTTAAAAT
1 TAAAATATTTTAAAAT
103229933 TAAAATA
1 TAAAATA
103229940 ACAGAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TAAAATATTTTAAAAT
Done.