Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 63 of 373
Found at i:18991539 original size:6 final size:6
Alignment explanation
Indices: 18991528--18991568 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
18991518 ATAATTTAAT
18991528 AAATAA AAATAA AAATATA AAACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATA-A AAA-TAA AAATAA AAATAA AAA
18991569 ACATATAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 23 0.70
7 8 0.24
8 2 0.06
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:18991556 original size:20 final size:20
Alignment explanation
Indices: 18991531--18991570 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
18991521 ATTTAATAAA
*
18991531 TAAAAATAAAAATATAAAAC
1 TAAAAATAAAAATAAAAAAC
18991551 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
18991571 ATATAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:18991602 original size:9 final size:9
Alignment explanation
Indices: 18991588--18991664 Score: 118
Period size: 9 Copynumber: 8.6 Consensus size: 9
18991578 TTTATACAAA
18991588 TAATTCGGT
1 TAATTCGGT
18991597 TAATTCGGT
1 TAATTCGGT
*
18991606 TAATTCGGG
1 TAATTCGGT
*
18991615 TAATTCGGG
1 TAATTCGGT
18991624 TAATTCGGT
1 TAATTCGGT
* *
18991633 TAATTTGAT
1 TAATTCGGT
18991642 TAATTCGGT
1 TAATTCGGT
18991651 TAATTCGGT
1 TAATTCGGT
18991660 TAATT
1 TAATT
18991665 TTACACTTAT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 62 1.00
ACGTcount: A:0.25, C:0.09, G:0.22, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:19002426 original size:18 final size:18
Alignment explanation
Indices: 19002403--19002443 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
19002393 ATAAGACTAA
*
19002403 GGAAGCTACTTAGGTGCC
1 GGAAGCTACTTAGGAGCC
19002421 GGAAGCTACTTAGGAGCC
1 GGAAGCTACTTAGGAGCC
19002439 GGAAG
1 GGAAG
19002444 ATATCATGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.27, C:0.20, G:0.37, T:0.17
Consensus pattern (18 bp):
GGAAGCTACTTAGGAGCC
Found at i:19004826 original size:22 final size:21
Alignment explanation
Indices: 19004792--19004833 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
19004782 CACTTAACAC
19004792 AGGGGCACACGCCTGTGTGAG
1 AGGGGCACACGCCTGTGTGAG
19004813 AGGGGCAACACGCCTGTGTGA
1 AGGGGC-ACACGCCTGTGTGA
19004834 CCATTTAGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.21, C:0.24, G:0.40, T:0.14
Consensus pattern (21 bp):
AGGGGCACACGCCTGTGTGAG
Found at i:19007572 original size:48 final size:48
Alignment explanation
Indices: 19007514--19007800 Score: 254
Period size: 48 Copynumber: 6.0 Consensus size: 48
19007504 TAGGGTGAAT
* * *
19007514 TGCCGATGCCATGTTCCAAACATGGTCTTACACT-GTCTCACATGTCGA
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAG-CTCACATATCAA
* * * * * * *
19007562 GGTCGATGCCATGTCCCAGATATGGTCTTACACTAGCTCTCGTCTCAA
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAA
* * * *
19007610 TGTCGTTGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAA
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAA
* * * * * *
19007658 TGCCGATGCCATGTCCCAGACATGGTCTTACAATGGCTCTCACATCAT
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAA
* * * * * * **
19007706 TGCCGATGCCATGTTCCAAACATGGTTTTACAATGGCTCTCCTAT-TG
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAA
* * * *
19007753 TGGCCGACGCCATGTCCCAAACACGGTCTTACACTAACGCACATATCA
1 T-GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCA
19007801 CTCAAATGTC
Statistics
Matches: 194, Mismatches: 42, Indels: 5
0.80 0.17 0.02
Matches are distributed among these distances:
47 1 0.01
48 192 0.99
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAA
Found at i:19007759 original size:96 final size:96
Alignment explanation
Indices: 19007512--19007785 Score: 291
Period size: 96 Copynumber: 2.9 Consensus size: 96
19007502 AATAGGGTGA
* * * * *
19007512 ATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGTCTCACATGTCGAGGTCGATGCCATGTC
1 ATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATAGTGGCCGATGCCATGTC
* * *
19007577 CCAGATATGGTCTTACACTAGCTCTCGTCTC
66 CCAGACATGGTCTTACAATAGCTCTCGACTC
* * * * * * * *
19007608 AATGTCGTTGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAAT-GCCGATGCCATGT
1 ATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAT-AGTGGCCGATGCCATGT
*
19007672 CCCAGACATGGTCTTACAATGGCTCTC-ACATC
65 CCCAGACATGGTCTTACAATAGCTCTCGAC-TC
* * * * * *
19007704 ATTGCCGATGCCATGTTCCAAACATGGTTTTACAATGGCTCTCCTATTGTGGCCGACGCCATGTC
1 ATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATAGTGGCCGATGCCATGTC
* *
19007769 CCAAACACGGTCTTACA
66 CCAGACATGGTCTTACA
19007786 CTAACGCACA
Statistics
Matches: 142, Mismatches: 33, Indels: 6
0.78 0.18 0.03
Matches are distributed among these distances:
95 2 0.01
96 140 0.99
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (96 bp):
ATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATAGTGGCCGATGCCATGTC
CCAGACATGGTCTTACAATAGCTCTCGACTC
Found at i:19013388 original size:24 final size:25
Alignment explanation
Indices: 19013329--19013380 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
19013319 AGCTCTCTGC
19013329 TTCCTAATTCTGTCAACTAGAGGAT
1 TTCCTAATTCTGTCAACTAGAGGAT
19013354 TTCCTAATTCTGTCAACTAGAGG-T
1 TTCCTAATTCTGTCAACTAGAGGAT
19013378 TTC
1 TTC
19013381 TCCCTTCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 4 0.15
25 23 0.85
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.38
Consensus pattern (25 bp):
TTCCTAATTCTGTCAACTAGAGGAT
Found at i:19016001 original size:48 final size:48
Alignment explanation
Indices: 19015946--19016314 Score: 370
Period size: 48 Copynumber: 7.7 Consensus size: 48
19015936 GGGTGAATTA
* * * * * * *
19015946 CCGATGCCATGTTCCAAACATGGTCTTACACTAGCACACATGTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATG
* * *
19015994 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATTATCTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATG
* * *
19016042 TCGATGCCATGT-CCAGACATGGTCTTACACTGGCTCTCATA--ATGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCA-AT-G
* *
19016089 CCGATGCTATGTCCCAGACATGGTCTTACACTAG-TGCACATATCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-CTCATATCAATG
* * * * *
19016137 CCGATGCCATGTCCCAGACATGGTCTTACACGAACGCACATATTAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATG
* * * *
19016185 TCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAACATTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATG
* * * * *
19016233 CTGATGCCATATTCCAAACATGGTCTTACACTAGCTCTCATATC-GTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAAT-G
* * * *
19016281 CTGACGCCATGTCTCAGACATGGTCTTATACTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAG
19016315 TGCACATATC
Statistics
Matches: 265, Mismatches: 48, Indels: 16
0.81 0.15 0.05
Matches are distributed among these distances:
45 1 0.00
46 1 0.00
47 38 0.14
48 223 0.84
49 1 0.00
50 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATG
Found at i:19016320 original size:144 final size:143
Alignment explanation
Indices: 19015946--19016324 Score: 462
Period size: 144 Copynumber: 2.6 Consensus size: 143
19015936 GGGTGAATTA
* * *
19015946 CCGATGCCATGTTCCAAACATGGTCTTACACTAGCACACATGTCGAGGCCGATGCCATGTCCCAG
1 CCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGTGGCCGATGCCATGTCCCAG
* *
19016011 ACATGGTCTTACACTAGCTA-TTATCTCAATGTCGATGCCATGTCCAGACATGGTCTTACACTGG
66 ACATGGTCTTACACTAGC-ACATATCTCAATGTCGATGCCATGTCCAGACATGGTCTTACACTAG
* **
19016075 CTCTCATAATGTGG
130 CTCTCACAACATGG
* * * *
19016089 CCGATGCTATGTCCCAGACATGGTCTTACACTAG-TGCACATATCAAT-GCCGATGCCATGTCCC
1 CCGATGCCATGTTCCAAACATGGTCTTACACTAGCT-CACATATC-GTGGCCGATGCCATGTCCC
*
19016152 AGACATGGTCTTACACGAACGCACATAT-T-AATGTCGATGCCATGTCCCAGACATGGTCTTACA
64 AGACATGGTCTTACAC-TA-GCACATATCTCAATGTCGATGCCATGT-CCAGACATGGTCTTACA
*
19016215 CTAGCTCTCACAACATTG
126 CTAGCTCTCACAACATGG
* * * * * *
19016233 CTGATGCCATATTCCAAACATGGTCTTACACTAGCTCTCATATCGTGGCTGACGCCATGTCTCAG
1 CCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGTGGCCGATGCCATGTCCCAG
*
19016298 ACATGGTCTTATACTAGTGCACATATC
66 ACATGGTCTTACACTA--GCACATATC
19016325 ACCCAAATGT
Statistics
Matches: 199, Mismatches: 27, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
143 88 0.44
144 105 0.53
145 6 0.03
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (143 bp):
CCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGTGGCCGATGCCATGTCCCAG
ACATGGTCTTACACTAGCACATATCTCAATGTCGATGCCATGTCCAGACATGGTCTTACACTAGC
TCTCACAACATGG
Found at i:19027922 original size:91 final size:91
Alignment explanation
Indices: 19027757--19027952 Score: 270
Period size: 91 Copynumber: 2.2 Consensus size: 91
19027747 CAGTGTGGAT
* *
19027757 CACACGGCCTCACCAGCCAATACACGGTCGTGTCATGCGCCCGTGTCTCGCGCGCACGGCCTGGC
1 CACACGGCCTCACCAACCAATACACGGTCGTGTCATGCGCCCGTGTCTCGCGCACACGGCCTGGC
**
19027822 TCGTCGATCACACGCCCATCTATTGC
66 TCGTCGATCACACAACCATCTATTGC
* * *
19027848 CACACAGCCTCACCAACC-ATCACACGGTCGTGTCTTGCGCCCGTGTCTCGTGCACACGGCCTGG
1 CACACGGCCTCACCAACCAAT-ACACGGTCGTGTCATGCGCCCGTGTCTCGCGCACACGGCCTGG
* * * *
19027912 TTCGTTGATCACACAACCGTGTATTGC
65 CTCGTCGATCACACAACCATCTATTGC
19027939 CACACGGCCT-ACCA
1 CACACGGCCTCACCA
19027953 CACAGACGAC
Statistics
Matches: 92, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
90 6 0.07
91 86 0.93
ACGTcount: A:0.18, C:0.39, G:0.22, T:0.20
Consensus pattern (91 bp):
CACACGGCCTCACCAACCAATACACGGTCGTGTCATGCGCCCGTGTCTCGCGCACACGGCCTGGC
TCGTCGATCACACAACCATCTATTGC
Found at i:19034122 original size:19 final size:20
Alignment explanation
Indices: 19034095--19034133 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
19034085 AAATCGAGTT
*
19034095 TAGTCT-AAAATCCCATAAA
1 TAGTCTAAAAATCCAATAAA
*
19034114 TAGTTTAAAAATCCAATAAA
1 TAGTCTAAAAATCCAATAAA
19034134 GTCCATAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.51, C:0.15, G:0.05, T:0.28
Consensus pattern (20 bp):
TAGTCTAAAAATCCAATAAA
Found at i:19038704 original size:14 final size:13
Alignment explanation
Indices: 19038680--19038718 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
19038670 AATTTATTTT
19038680 TAATATATTAATA
1 TAATATATTAATA
*
19038693 TAAATATTTTAA-A
1 T-AATATATTAATA
19038706 TAATATATTAATA
1 TAATATATTAATA
19038719 ATATTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 9 0.41
13 4 0.18
14 9 0.41
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TAATATATTAATA
Found at i:19038707 original size:23 final size:22
Alignment explanation
Indices: 19038646--19038707 Score: 65
Period size: 25 Copynumber: 2.7 Consensus size: 22
19038636 CATTCATTAT
19038646 TAAATATTTATAAAT-TCTAATA
1 TAAATATTT-TAAATATCTAATA
19038668 TAAATTTATTTTTAATATAT-TAATA
1 TAAA--TA-TTTTAA-ATATCTAATA
19038693 TAAATATTTTAAATA
1 TAAATATTTTAAATA
19038708 ATATATTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
21 3 0.09
22 10 0.29
23 2 0.06
24 5 0.14
25 14 0.40
26 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TAAATATTTTAAATATCTAATA
Found at i:19038715 original size:26 final size:26
Alignment explanation
Indices: 19038680--19038732 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
19038670 AATTTATTTT
19038680 TAATATATTAAT-ATAAATATTTTAAA
1 TAATATATTAATAAT-AATATTTTAAA
*
19038706 TAATATATTAATAATATTATTTTAAA
1 TAATATATTAATAATAATATTTTAAA
19038732 T
1 T
19038733 TTAAATTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
TAATATATTAATAATAATATTTTAAA
Found at i:19038833 original size:25 final size:23
Alignment explanation
Indices: 19038801--19038860 Score: 70
Period size: 22 Copynumber: 2.6 Consensus size: 23
19038791 ACTAAAAATA
*
19038801 TATTATATTAATTATATTAATAATT
1 TATTATATTAATTAAATT--TAATT
19038826 TATTATATT-ATTAAATTTAATT
1 TATTATATTAATTAAATTTAATT
*
19038848 AATTA-ATTAATTA
1 TATTATATTAATTA
19038861 CGTATAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 3 0.09
22 13 0.41
24 7 0.22
25 9 0.28
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TATTATATTAATTAAATTTAATT
Found at i:19038851 original size:4 final size:4
Alignment explanation
Indices: 19038802--19038860 Score: 50
Period size: 4 Copynumber: 14.0 Consensus size: 4
19038792 CTAAAAATAT
*
19038802 ATTA TATTA ATTA TATTA A-TA ATTT ATTA TATT- ATTAA ATTTA ATTA
1 ATTA -ATTA ATTA -ATTA ATTA ATTA ATTA -ATTA ATT-A A-TTA ATTA
19038849 ATTA ATTA ATTA
1 ATTA ATTA ATTA
19038861 CGTATAATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
3 6 0.13
4 24 0.52
5 14 0.30
6 2 0.04
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (4 bp):
ATTA
Found at i:19038855 original size:30 final size:30
Alignment explanation
Indices: 19038799--19038860 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
19038789 TCACTAAAAA
* *
19038799 TATATTATATTAATTATATTAATAATTTAT
1 TATATTATATAAATTATATTAATAATTAAT
19038829 TATATTAT-TAAATT-TAATTAATTAATTAAT
1 TATATTATATAAATTAT-ATTAA-TAATTAAT
19038859 TA
1 TA
19038861 CGTATAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 1 0.04
29 10 0.36
30 17 0.61
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (30 bp):
TATATTATATAAATTATATTAATAATTAAT
Found at i:19045949 original size:93 final size:93
Alignment explanation
Indices: 19045837--19046008 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
19045827 CGCCCATAAG
* *
19045837 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
19045902 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
19045930 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
19045995 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
19046009 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:19046005 original size:46 final size:46
Alignment explanation
Indices: 19045830--19046005 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
19045820 TGTAACCCGC
* * *
19045830 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
19045876 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
19045926 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
19045969 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
19046006 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:19050820 original size:63 final size:63
Alignment explanation
Indices: 19050701--19050822 Score: 172
Period size: 63 Copynumber: 1.9 Consensus size: 63
19050691 TGGTAGGCCA
* * * *
19050701 TGTAACTTACTGTTTTAGAATTAGAGACACATGGGCTAGAGACACGGGTGCATGCCTAGATCG
1 TGTAACTCACTGTTTTAGAATTAGAGACACACGGGCCAGAGACACGGGCGCATGCCTAGATCG
* * **
19050764 TGTAACTCACTGTTTTGGAATTAGAGACACACGGGCCAGAGACATGGGCGTGTGCCTAG
1 TGTAACTCACTGTTTTAGAATTAGAGACACACGGGCCAGAGACACGGGCGCATGCCTAG
19050823 GCCATGTGAG
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 51 1.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (63 bp):
TGTAACTCACTGTTTTAGAATTAGAGACACACGGGCCAGAGACACGGGCGCATGCCTAGATCG
Found at i:19054079 original size:13 final size:14
Alignment explanation
Indices: 19054053--19054080 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
19054043 CTGCAAAAAG
19054053 TTAGGGGGATTTTT
1 TTAGGGGGATTTTT
19054067 TTAGGGGGATTTTT
1 TTAGGGGGATTTTT
19054081 CGTATGGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.36, T:0.50
Consensus pattern (14 bp):
TTAGGGGGATTTTT
Found at i:19060347 original size:13 final size:13
Alignment explanation
Indices: 19060329--19060353 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19060319 AAACAAAGAA
19060329 AGGCATAAAATTC
1 AGGCATAAAATTC
19060342 AGGCATAAAATT
1 AGGCATAAAATT
19060354 GGTAAGAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (13 bp):
AGGCATAAAATTC
Found at i:19065083 original size:17 final size:17
Alignment explanation
Indices: 19065049--19065083 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
19065039 TCTTTTAGAT
**
19065049 TTTTTTTAAAAATTATA
1 TTTTTTTAAAAAAAATA
19065066 TTTTTTTAAAAAAAATA
1 TTTTTTTAAAAAAAATA
19065083 T
1 T
19065084 AAATTTTAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTTTTTAAAAAAAATA
Found at i:19065102 original size:18 final size:19
Alignment explanation
Indices: 19065081--19065116 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
19065071 TTAAAAAAAA
19065081 TATAAAT-TTTAGAATTTC
1 TATAAATATTTAGAATTTC
*
19065099 TATAAATATTTTGAATTT
1 TATAAATATTTAGAATTT
19065117 TAAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.53
Consensus pattern (19 bp):
TATAAATATTTAGAATTTC
Found at i:19065116 original size:19 final size:18
Alignment explanation
Indices: 19065081--19065129 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
19065071 TTAAAAAAAA
*
19065081 TATAAAT-TTTAGAATTT
1 TATAAATATTTTGAATTT
19065098 CTATAAATATTTTGAATTT
1 -TATAAATATTTTGAATTT
*
19065117 TAAAAATTATTTT
1 TATAAA-TATTTT
19065130 CAAATTTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (18 bp):
TATAAATATTTTGAATTT
Found at i:19065123 original size:18 final size:21
Alignment explanation
Indices: 19065086--19065146 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 21
19065076 AAAAATATAA
*
19065086 ATTTTAGAATTTCTATAAA-T
1 ATTTTAGAATTTCTAAAAATT
19065106 ATTTT-GAATTT-TAAAAATT
1 ATTTTAGAATTTCTAAAAATT
* *
19065125 ATTTTCA-AATTTTTGAAAATT
1 ATTTT-AGAATTTCTAAAAATT
19065146 A
1 A
19065147 CTTTGATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
18 5 0.14
19 12 0.34
20 10 0.29
21 8 0.23
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (21 bp):
ATTTTAGAATTTCTAAAAATT
Found at i:19065567 original size:8 final size:8
Alignment explanation
Indices: 19065554--19065588 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
19065544 GACGTTCTCC
19065554 TTTTTCTT
1 TTTTTCTT
19065562 TTTTTCTT
1 TTTTTCTT
*
19065570 TTTTGCTT
1 TTTTTCTT
*
19065578 TTGTTCTT
1 TTTTTCTT
19065586 TTT
1 TTT
19065589 GGCTTCTTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.00, C:0.11, G:0.06, T:0.83
Consensus pattern (8 bp):
TTTTTCTT
Found at i:19065578 original size:16 final size:16
Alignment explanation
Indices: 19065554--19065593 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
19065544 GACGTTCTCC
*
19065554 TTTTT-CTTTTTTTCT
1 TTTTTGCTTTTGTTCT
19065569 TTTTTGCTTTTGTTCT
1 TTTTTGCTTTTGTTCT
*
19065585 TTTTGGCTT
1 TTTTTGCTT
19065594 CTTCTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.00, C:0.12, G:0.10, T:0.78
Consensus pattern (16 bp):
TTTTTGCTTTTGTTCT
Found at i:19067776 original size:19 final size:18
Alignment explanation
Indices: 19067742--19067777 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
19067732 TCTCTAGATG
19067742 TTTTCCTTTTTTCTTTTC
1 TTTTCCTTTTTTCTTTTC
*
19067760 TTTTGCTTTTGTTCTTTT
1 TTTTCCTTTT-TTCTTTT
19067778 TGGCTTCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.00, C:0.17, G:0.06, T:0.78
Consensus pattern (18 bp):
TTTTCCTTTTTTCTTTTC
Found at i:19068360 original size:21 final size:21
Alignment explanation
Indices: 19068334--19068374 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19068324 GATCCTTCAC
*
19068334 GGGCGTGTGTTATGGACACAT
1 GGGCGTATGTTATGGACACAT
*
19068355 GGGCGTATGTTATGGTCACA
1 GGGCGTATGTTATGGACACA
19068375 CAGCCGTGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.15, G:0.37, T:0.29
Consensus pattern (21 bp):
GGGCGTATGTTATGGACACAT
Found at i:19068477 original size:21 final size:21
Alignment explanation
Indices: 19068453--19068505 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
19068443 AGGGATCCTT
19068453 CACGAGCGTGTGTTATGGTCA
1 CACGAGCGTGTGTTATGGTCA
* *
19068474 CACGGGCGTATGTTATGGTCA
1 CACGAGCGTGTGTTATGGTCA
19068495 CAC-AGCCGTGT
1 CACGAG-CGTGT
19068506 CTGGGGGGCA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 1 0.04
21 26 0.96
ACGTcount: A:0.19, C:0.23, G:0.32, T:0.26
Consensus pattern (21 bp):
CACGAGCGTGTGTTATGGTCA
Found at i:19068547 original size:122 final size:122
Alignment explanation
Indices: 19068292--19068539 Score: 442
Period size: 122 Copynumber: 2.0 Consensus size: 122
19068282 ATTTGGTGCT
* * * *
19068292 ACACGGCCGTGTGGCTAATTTGGAGATTTAGGGATCCTTCACGGGCGTGTGTTATGGACACATGG
1 ACACGACCGTGTGGCTAATTTAGAGATTTAGGGATCCTTCACGAGCGTGTGTTATGGACACACGG
19068357 GCGTATGTTATGGTCACACAGCCGTGTCTGAGGGGCACACAGACGTGTGAGACCTTC
66 GCGTATGTTATGGTCACACAGCCGTGTCTGAGGGGCACACAGACGTGTGAGACCTTC
*
19068414 ACACGACCGTGTGGCTAATTTAGAGATTTAGGGATCCTTCACGAGCGTGTGTTATGGTCACACGG
1 ACACGACCGTGTGGCTAATTTAGAGATTTAGGGATCCTTCACGAGCGTGTGTTATGGACACACGG
*
19068479 GCGTATGTTATGGTCACACAGCCGTGTCTGGGGGGCACACAGACGTGTGAGACCTTC
66 GCGTATGTTATGGTCACACAGCCGTGTCTGAGGGGCACACAGACGTGTGAGACCTTC
19068536 ACAC
1 ACAC
19068540 TGTCGTGTCT
Statistics
Matches: 120, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
122 120 1.00
ACGTcount: A:0.21, C:0.22, G:0.31, T:0.25
Consensus pattern (122 bp):
ACACGACCGTGTGGCTAATTTAGAGATTTAGGGATCCTTCACGAGCGTGTGTTATGGACACACGG
GCGTATGTTATGGTCACACAGCCGTGTCTGAGGGGCACACAGACGTGTGAGACCTTC
Found at i:19072253 original size:11 final size:11
Alignment explanation
Indices: 19072229--19072275 Score: 62
Period size: 11 Copynumber: 4.5 Consensus size: 11
19072219 CATACTTTTA
19072229 TTTT-TAAA-T
1 TTTTATAAATT
19072238 TTTTATAAATT
1 TTTTATAAATT
*
19072249 TTTTATATATT
1 TTTTATAAATT
*
19072260 TTTTATATATT
1 TTTTATAAATT
19072271 TTTTA
1 TTTTA
19072276 AATTTTGAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
9 4 0.11
10 4 0.11
11 27 0.77
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTATAAATT
Found at i:19072261 original size:9 final size:10
Alignment explanation
Indices: 19072227--19072297 Score: 60
Period size: 11 Copynumber: 7.3 Consensus size: 10
19072217 TTCATACTTT
19072227 TATTTTTA-A
1 TATTTTTATA
19072236 -ATTTTTATA
1 TATTTTTATA
*
19072245 AATTTTTTATA
1 TA-TTTTTATA
19072256 TATTTTTTATA
1 TA-TTTTTATA
19072267 TATTTTT-TA
1 TATTTTTATA
* *
19072276 AATTTTGA-A
1 TATTTTTATA
*
19072285 TCTTTTTATA
1 TATTTTTATA
19072295 TAT
1 TAT
19072298 GAAAACTTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
8 7 0.14
9 14 0.28
10 9 0.18
11 20 0.40
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (10 bp):
TATTTTTATA
Found at i:19075752 original size:30 final size:30
Alignment explanation
Indices: 19075717--19075790 Score: 112
Period size: 30 Copynumber: 2.5 Consensus size: 30
19075707 GAAAAAATGA
*
19075717 GTAAATTAGCCCCTATACATTTTGAAACAT
1 GTAAATTAGCCCCTATACATTTCGAAACAT
* *
19075747 GTAAATTATCCCTTATACATTTCGAAACAT
1 GTAAATTAGCCCCTATACATTTCGAAACAT
*
19075777 GCAAATTAGCCCCT
1 GTAAATTAGCCCCT
19075791 CGTTAAAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.32
Consensus pattern (30 bp):
GTAAATTAGCCCCTATACATTTCGAAACAT
Found at i:19080340 original size:28 final size:27
Alignment explanation
Indices: 19080291--19080344 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
19080281 AATATATTTA
*
19080291 AACCCAACCCAATTACCTAATTTAATT
1 AACCCAACCCAATTACATAATTTAATT
19080318 AACCCAACCCAA-TACAAATAATTTAAT
1 AACCCAACCCAATTAC--ATAATTTAAT
19080345 AAATAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 3 0.12
27 12 0.50
28 9 0.38
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (27 bp):
AACCCAACCCAATTACATAATTTAATT
Found at i:19080371 original size:14 final size:14
Alignment explanation
Indices: 19080348--19080377 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
19080338 ATTTAATAAA
19080348 TAAAAATAAAAATC
1 TAAAAATAAAAATC
*
19080362 TAAAAGTAAAAATC
1 TAAAAATAAAAATC
19080376 TA
1 TA
19080378 CTAAAACTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.03, T:0.23
Consensus pattern (14 bp):
TAAAAATAAAAATC
Found at i:19081684 original size:12 final size:11
Alignment explanation
Indices: 19081655--19081688 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
19081645 TTGTACCAAT
19081655 ATTTTATTTAA
1 ATTTTATTTAA
*
19081666 TTTTTATTATAA
1 ATTTTATT-TAA
19081678 ATTTTATTTAA
1 ATTTTATTTAA
19081689 CAAGTATTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
ATTTTATTTAA
Found at i:19081775 original size:19 final size:21
Alignment explanation
Indices: 19081736--19081782 Score: 80
Period size: 19 Copynumber: 2.3 Consensus size: 21
19081726 ATGAAAATTG
19081736 TTTAATATTATAAATATGTAT
1 TTTAATATTATAAATATGTAT
19081757 TTTAATATTAT-AA-ATGTAT
1 TTTAATATTATAAATATGTAT
19081776 TTTAATA
1 TTTAATA
19081783 AATTATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 13 0.50
20 2 0.08
21 11 0.42
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTAATATTATAAATATGTAT
Found at i:19084260 original size:20 final size:20
Alignment explanation
Indices: 19084235--19084298 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
19084225 ATGTTTTAAA
19084235 TTATGTAGTGATTCATAGAC
1 TTATGTAGTGATTCATAGAC
* **
19084255 TTATGTAAT-ATTTTTA-A-
1 TTATGTAGTGATTCATAGAC
*
19084272 TTATGTAGTGATTCAAAGAC
1 TTATGTAGTGATTCATAGAC
19084292 TTATGTA
1 TTATGTA
19084299 ATGTTTTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
17 8 0.24
18 5 0.15
19 6 0.18
20 15 0.44
ACGTcount: A:0.33, C:0.06, G:0.16, T:0.45
Consensus pattern (20 bp):
TTATGTAGTGATTCATAGAC
Found at i:19084272 original size:72 final size:74
Alignment explanation
Indices: 19084174--19084324 Score: 245
Period size: 72 Copynumber: 2.1 Consensus size: 74
19084164 ATGTGTTAAT
*
19084174 TTCAAGACTTAATGTAATGTTTTTAATTATGTAGTGATTCAAAGAC-T-TGTAATGTTTTAAATT
1 TTCAAGACTTAATGTAATATTTTTAATTATGTAGTGATTCAAAGACTTATGTAATGTTTTAAATT
*
19084237 ATGTAGTGA
66 ATGTAATGA
*
19084246 TTCATAGACTT-ATGTAATATTTTTAATTATGTAGTGATTCAAAGACTTATGTAATGTTTTTAAT
1 TTCA-AGACTTAATGTAATATTTTTAATTATGTAGTGATTCAAAGACTTATGTAATGTTTTAAAT
19084310 TATGTAATGA
65 TATGTAATGA
19084320 TTCAA
1 TTCAA
19084325 TTCGGGTATT
Statistics
Matches: 73, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
72 38 0.52
73 8 0.11
74 27 0.37
ACGTcount: A:0.34, C:0.06, G:0.15, T:0.46
Consensus pattern (74 bp):
TTCAAGACTTAATGTAATATTTTTAATTATGTAGTGATTCAAAGACTTATGTAATGTTTTAAATT
ATGTAATGA
Found at i:19084274 original size:37 final size:37
Alignment explanation
Indices: 19084177--19084324 Score: 237
Period size: 37 Copynumber: 4.0 Consensus size: 37
19084167 TGTTAATTTC
19084177 AAGACTTAATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTT-ATGTAATGTTTTTAATTATGTAGTGATTCA
*
19084215 AAGAC-T-TGTAATGTTTTAAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
* *
19084250 TAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
*
19084287 AAGACTTATGTAATGTTTTTAATTATGTAATGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
19084324 A
1 A
19084325 TTCGGGTATT
Statistics
Matches: 101, Mismatches: 7, Indels: 5
0.89 0.06 0.04
Matches are distributed among these distances:
35 32 0.32
36 1 0.01
37 63 0.62
38 5 0.05
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.45
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
Found at i:19084277 original size:17 final size:17
Alignment explanation
Indices: 19084255--19084317 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
19084245 ATTCATAGAC
19084255 TTATGTAATATTTTTAA
1 TTATGTAATATTTTTAA
* ***
19084272 TTATGTAGTGATTCAAAGA
1 TTATGTAAT-ATTTTTA-A
*
19084291 CTTATGTAATGTTTTTAA
1 -TTATGTAATATTTTTAA
19084309 TTATGTAAT
1 TTATGTAAT
19084318 GATTCAATTC
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
17 17 0.50
18 5 0.15
19 4 0.12
20 8 0.24
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.51
Consensus pattern (17 bp):
TTATGTAATATTTTTAA
Found at i:19084346 original size:9 final size:9
Alignment explanation
Indices: 19084323--19084406 Score: 116
Period size: 9 Copynumber: 9.4 Consensus size: 9
19084313 GTAATGATTC
*
19084323 AATTCGGGT
1 AATTCGGTT
19084332 -ATTCGGTT
1 AATTCGGTT
19084340 AATTCGGTT
1 AATTCGGTT
19084349 AATTCGGTT
1 AATTCGGTT
*
19084358 AATCCGGTT
1 AATTCGGTT
19084367 AATTCGGTT
1 AATTCGGTT
19084376 AATTCGGTT
1 AATTCGGTT
* *
19084385 AACTCGTTT
1 AATTCGGTT
*
19084394 AATTCGATT
1 AATTCGGTT
19084403 AATT
1 AATT
19084407 TTTAACCACA
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
8 7 0.10
9 60 0.90
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:19086060 original size:21 final size:21
Alignment explanation
Indices: 19086036--19086076 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
19086026 GACTGAATTT
*
19086036 GAGACCTCCAATTTTGACCAA
1 GAGACCCCCAATTTTGACCAA
19086057 GAGACCCCCAATTTTGACCA
1 GAGACCCCCAATTTTGACCA
19086077 TACTCAAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.32, G:0.15, T:0.22
Consensus pattern (21 bp):
GAGACCCCCAATTTTGACCAA
Found at i:19087760 original size:8 final size:8
Alignment explanation
Indices: 19087747--19087779 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
19087737 TTTTATCAAC
19087747 AATTTGAA
1 AATTTGAA
19087755 AATTTGAA
1 AATTTGAA
19087763 AATTTGAA
1 AATTTGAA
*
19087771 GATTTGAA
1 AATTTGAA
19087779 A
1 A
19087780 TTTTTTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (8 bp):
AATTTGAA
Found at i:19089011 original size:14 final size:14
Alignment explanation
Indices: 19088992--19089020 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
19088982 CCTTGAGGAA
19088992 GAAAATAGTAGTAG
1 GAAAATAGTAGTAG
19089006 GAAAATAGTAGTAG
1 GAAAATAGTAGTAG
19089020 G
1 G
19089021 GGTGAAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.31, T:0.21
Consensus pattern (14 bp):
GAAAATAGTAGTAG
Found at i:19093663 original size:16 final size:16
Alignment explanation
Indices: 19093642--19093684 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
19093632 GTAGATCGGT
19093642 AAAAGCCGAAATGCCA
1 AAAAGCCGAAATGCCA
*
19093658 AAAAGCCGAAATGCCG
1 AAAAGCCGAAATGCCA
*
19093674 AAAAGCTGAAA
1 AAAAGCCGAAA
19093685 GTTTGACTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.51, C:0.21, G:0.21, T:0.07
Consensus pattern (16 bp):
AAAAGCCGAAATGCCA
Found at i:19093684 original size:8 final size:8
Alignment explanation
Indices: 19093642--19093684 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
19093632 GTAGATCGGT
19093642 AAAAGCCG
1 AAAAGCCG
* *
19093650 AAATGCCA
1 AAAAGCCG
19093658 AAAAGCCG
1 AAAAGCCG
*
19093666 AAATGCCG
1 AAAAGCCG
*
19093674 AAAAGCTG
1 AAAAGCCG
19093682 AAA
1 AAA
19093685 GTTTGACTAC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.51, C:0.21, G:0.21, T:0.07
Consensus pattern (8 bp):
AAAAGCCG
Found at i:19093978 original size:28 final size:28
Alignment explanation
Indices: 19093897--19093986 Score: 119
Period size: 29 Copynumber: 3.1 Consensus size: 28
19093887 TGAGCATGAC
*
19093897 TATAAATGTGAATCGGGCCT-GATGGGCCA
1 TATAAATGTG-ATTGGGCCTAG-TGGGCCA
*
19093926 TATAAATGTGGTTTGGGCCTAGTGGGCCA
1 TATAAATGT-GATTGGGCCTAGTGGGCCA
*
19093955 TATAAATGTGATTGGGCCTAGTGGGTCA
1 TATAAATGTGATTGGGCCTAGTGGGCCA
19093983 TATA
1 TATA
19093987 CAGGTATGTG
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
28 21 0.38
29 32 0.58
30 2 0.04
ACGTcount: A:0.26, C:0.13, G:0.31, T:0.30
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAGTGGGCCA
Found at i:19095828 original size:39 final size:39
Alignment explanation
Indices: 19095774--19095854 Score: 126
Period size: 39 Copynumber: 2.1 Consensus size: 39
19095764 AGTCTTTTAA
* *
19095774 AAATGCTATGTGATTATATGAGTATTGTGATATATGCTT
1 AAATGCTATGCGATTATATGAGTAATGTGATATATGCTT
* *
19095813 AAATGTTATGCGATTATATGTGTAATGTGATATATGCTT
1 AAATGCTATGCGATTATATGAGTAATGTGATATATGCTT
19095852 AAA
1 AAA
19095855 AGTGAATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.33, C:0.05, G:0.20, T:0.42
Consensus pattern (39 bp):
AAATGCTATGCGATTATATGAGTAATGTGATATATGCTT
Found at i:19110235 original size:37 final size:37
Alignment explanation
Indices: 19110185--19110258 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
19110175 AAGTACAAAT
19110185 TTACCATATATGAATATATAATTTCATTGTTTAGATA
1 TTACCATATATGAATATATAATTTCATTGTTTAGATA
19110222 TTACCATATATGAATATATAATTTCATTGTTTAGATA
1 TTACCATATATGAATATATAATTTCATTGTTTAGATA
19110259 AGGACTAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (37 bp):
TTACCATATATGAATATATAATTTCATTGTTTAGATA
Found at i:19111182 original size:10 final size:10
Alignment explanation
Indices: 19111152--19111190 Score: 51
Period size: 10 Copynumber: 3.6 Consensus size: 10
19111142 TAATTTTTAA
19111152 AAAAAATATTT
1 AAAAAAT-TTT
19111163 AACAATAATTTT
1 AA-AA-AATTTT
19111175 AAAAAATTTT
1 AAAAAATTTT
19111185 AAAAAA
1 AAAAAA
19111191 ACTTAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 12 0.46
11 4 0.15
12 7 0.27
13 3 0.12
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAAAATTTT
Found at i:19111227 original size:19 final size:18
Alignment explanation
Indices: 19111193--19111230 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
19111183 TTAAAAAAAC
*
19111193 TTAAAATATTATAAATTA
1 TTAAAATATTAAAAATTA
19111211 TTAAAACTATTAAAAATTA
1 TTAAAA-TATTAAAAATTA
19111230 T
1 T
19111231 GTTAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
TTAAAATATTAAAAATTA
Found at i:19116717 original size:27 final size:27
Alignment explanation
Indices: 19116687--19117134 Score: 287
Period size: 27 Copynumber: 16.1 Consensus size: 27
19116677 GGGCATAATC
* *
19116687 GTCATTTTACTATACATGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* * * *
19116714 GTCA-TTTACCATATAGGGGCATCACA
1 GTCATTTTACCATACAGGGGTATTACG
*
19116740 GTCATTTTACCATTCAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* * *
19116767 GTCATTTTA-GACTACAGGGGCATTAGG
1 GTCATTTTACCA-TACAGGGGTATTACG
* *
19116794 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
19116821 GTCATTTTACCCTACGGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
19116848 GTTATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
*
19116875 ATCATTTTATCC-TACAGGGGTATTACG
1 GTCATTTTA-CCATACAGGGGTATTACG
* * * * *
19116902 GTTATTTTACCCTATAAGGGTATTACA
1 GTCATTTTACCATACAGGGGTATTACG
** *** *
19116929 GTCATTTATTACGGT-CA-TTTTACCCTATAGGG
1 GTCA-TT-TTACCATACAGGGGTA---T-TA-CG
*
19116961 GT-ATTGTTGCCATTTTACCCTACAGGGGTATTACG
1 GTCATT-TT---A-----CCATACAGGGGTATTACG
* * *
19116996 GTCATTTTACCCTACAGAGGAATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
19117023 GTCATTTTACCCTATAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* * * * *
19117050 ATCATTTTACCCTATAGAGGCATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* * *
19117077 GTCATTCTACCCTATAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* * *
19117104 GTCATATTACCCTATAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
19117131 GTCA
1 GTCA
19117135 AATAAATACC
Statistics
Matches: 339, Mismatches: 59, Indels: 46
0.76 0.13 0.10
Matches are distributed among these distances:
26 23 0.07
27 277 0.82
28 5 0.01
29 5 0.01
30 5 0.01
31 3 0.01
32 3 0.01
33 1 0.00
35 5 0.01
36 5 0.01
37 1 0.00
38 2 0.01
39 2 0.01
40 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:19116948 original size:67 final size:67
Alignment explanation
Indices: 19116868--19117002 Score: 171
Period size: 67 Copynumber: 2.0 Consensus size: 67
19116858 CCTACAGGGG
* ** *
19116868 TATTACGATCATTTTATCCTACAGGGGTATTACGGTTATTTTACCCTATAAGGGTATTACAGTCA
1 TATTACGATCATTTTACCCTACAGGGGTATTACGGCCATTTTACCCTACAAGGGTATTACAGTCA
19116933 TT
66 TT
* * *** * *
19116935 TATTACGGTCATTTTACCCTATAGGGGTATTGTTGCCATTTTACCCTACAGGGGTATTACGGTCA
1 TATTACGATCATTTTACCCTACAGGGGTATTACGGCCATTTTACCCTACAAGGGTATTACAGTCA
19117000 TT
66 TT
19117002 T
1 T
19117003 TACCCTACAG
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
67 57 1.00
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.40
Consensus pattern (67 bp):
TATTACGATCATTTTACCCTACAGGGGTATTACGGCCATTTTACCCTACAAGGGTATTACAGTCA
TT
Found at i:19117021 original size:94 final size:93
Alignment explanation
Indices: 19116841--19117029 Score: 256
Period size: 94 Copynumber: 2.0 Consensus size: 93
19116831 CCTACGGGGG
* * *
19116841 TATTACGGTTATTTTACCCTACAGGGGTATTACGATCATTTTATCCTACAGGGGTATTACGGTTA
1 TATTACGGTCATTTTACCCTACAGGGGTATTA-GATCATTTTACCCTACAGGGGTATTACGGTCA
* *
19116906 TTTTACCCTATAAGGGTATTACAGTCATT
65 TTTTACCCTACAAGGGAATTACAGTCATT
* *
19116935 TATTACGGTCATTTTACCCTATAGGGGTATT-GTTGCCATTTTACCCTACAGGGGTATTACGGTC
1 TATTACGGTCATTTTACCCTACAGGGGTATTAGAT--CATTTTACCCTACAGGGGTATTACGGTC
*
19116999 ATTTTACCCTAC-AGAGGAATTACGGTCATT
64 ATTTTACCCTACAAG-GGAATTACAGTCATT
19117029 T
1 T
19117030 TACCCTATAG
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
92 2 0.02
93 2 0.02
94 80 0.95
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (93 bp):
TATTACGGTCATTTTACCCTACAGGGGTATTAGATCATTTTACCCTACAGGGGTATTACGGTCAT
TTTACCCTACAAGGGAATTACAGTCATT
Found at i:19117030 original size:121 final size:121
Alignment explanation
Indices: 19116815--19117056 Score: 351
Period size: 121 Copynumber: 2.0 Consensus size: 121
19116805 CTACAGGGGC
* **
19116815 ATTACGGTCATTTTACCCTACGGGGGTATTACGGTTATTTTACCCTACAGGGGTATTACGATCAT
1 ATTACGGTCATTTTACCCTACAGGGGTATTACGGCCATTTTACCCTACAGGGGTATTACGATCAT
* * * *
19116880 TTTATCCTACAGGGGTATTACGGTTATTTTACCCTATAAGGGTATTAC-AGTCATTT
66 TTTACCCTACAGAGGAATTACGGTCATTTTACCCTATAAGGGTATTACGA-TCATTT
* *** *
19116936 ATTACGGTCATTTTACCCTATAGGGGTATTGTTGCCATTTTACCCTACAGGGGTATTACGGTCAT
1 ATTACGGTCATTTTACCCTACAGGGGTATTACGGCCATTTTACCCTACAGGGGTATTACGATCAT
*
19117001 TTTACCCTACAGAGGAATTACGGTCATTTTACCCTATAGGGGTATTACGATCATTT
66 TTTACCCTACAGAGGAATTACGGTCATTTTACCCTATAAGGGTATTACGATCATTT
19117057 TACCCTATAG
Statistics
Matches: 107, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
121 106 0.99
122 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (121 bp):
ATTACGGTCATTTTACCCTACAGGGGTATTACGGCCATTTTACCCTACAGGGGTATTACGATCAT
TTTACCCTACAGAGGAATTACGGTCATTTTACCCTATAAGGGTATTACGATCATTT
Found at i:19117061 original size:148 final size:148
Alignment explanation
Indices: 19116788--19117082 Score: 412
Period size: 148 Copynumber: 2.0 Consensus size: 148
19116778 CTACAGGGGC
* * * *
19116788 ATTAGGGTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACGGGGGTATTACGGTTAT
1 ATTACGGTCATTTTACCCTACAGGGGCATTACGGCCATTTTACCCTACAGGGGTATTACGGTCAT
* * * * *
19116853 TTTACCCTACAGGGGTATTACGATCATTTTATCCTACAGGGGTATTACGGTTATTTTACCCTATA
66 TTTACCCTACAGAGGAATTACGATCATTTTACCCTACAGGGGTATTACGATCATTTTACCCTATA
*
19116918 -AGGGTATTACAGTCATTT
131 GA-GGCATTACAGTCATTT
* * ***
19116936 ATTACGGTCATTTTACCCTATAGGGGTATTGTTGCCATTTTACCCTACAGGGGTATTACGGTCAT
1 ATTACGGTCATTTTACCCTACAGGGGCATTACGGCCATTTTACCCTACAGGGGTATTACGGTCAT
* *
19117001 TTTACCCTACAGAGGAATTACGGTCATTTTACCCTATAGGGGTATTACGATCATTTTACCCTATA
66 TTTACCCTACAGAGGAATTACGATCATTTTACCCTACAGGGGTATTACGATCATTTTACCCTATA
*
19117066 GAGGCATTACGGTCATT
131 GAGGCATTACAGTCATT
19117083 CTACCCTATA
Statistics
Matches: 128, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
148 127 0.99
149 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (148 bp):
ATTACGGTCATTTTACCCTACAGGGGCATTACGGCCATTTTACCCTACAGGGGTATTACGGTCAT
TTTACCCTACAGAGGAATTACGATCATTTTACCCTACAGGGGTATTACGATCATTTTACCCTATA
GAGGCATTACAGTCATTT
Found at i:19120953 original size:27 final size:27
Alignment explanation
Indices: 19120923--19120993 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 27
19120913 AGCATAGCTG
19120923 CCAAAAACAGTAAATGTGGCAAAGCCA
1 CCAAAAACAGTAAATGTGGCAAAGCCA
* * *
19120950 CC-AAATCAGTAATTGTGGCATAGCCA
1 CCAAAAACAGTAAATGTGGCAAAGCCA
** *
19120976 CCAGTAACAGTGAATGTG
1 CCAAAAACAGTAAATGTG
19120994 ACATAGTCAC
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
26 23 0.66
27 12 0.34
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (27 bp):
CCAAAAACAGTAAATGTGGCAAAGCCA
Found at i:19120998 original size:27 final size:26
Alignment explanation
Indices: 19120928--19121008 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 26
19120918 AGCTGCCAAA
*
19120928 AACAGTAAATGTGGCAAAGCCACCA--
1 AACAGT-AATGTGGCATAGCCACCAGT
19120953 AATCAGTAATTGTGGCATAGCCACCAGT
1 AA-CAGTAA-TGTGGCATAGCCACCAGT
* *
19120981 AACAGTGAATGTGACATAGTCACCAGT
1 AACAGT-AATGTGGCATAGCCACCAGT
19121008 A
1 A
19121009 CAATACTACC
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
25 4 0.08
26 19 0.40
27 21 0.44
28 4 0.08
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (26 bp):
AACAGTAATGTGGCATAGCCACCAGT
Found at i:19121204 original size:27 final size:27
Alignment explanation
Indices: 19121174--19121527 Score: 460
Period size: 27 Copynumber: 13.1 Consensus size: 27
19121164 AAAGGTATTC
*
19121174 CGGTTATTTTACCCTACAGGGGCATTA
1 CGGTCATTTTACCCTACAGGGGCATTA
* * *
19121201 CGGTCATTTCACCCTTCAGGGGTATTA
1 CGGTCATTTTACCCTACAGGGGCATTA
* * * *
19121228 CAGTCATTGTACCCTATAGGGACATTA
1 CGGTCATTTTACCCTACAGGGGCATTA
*
19121255 GGGTCATTTTTACCCTACAGGGGCATTA
1 CGGTCA-TTTTACCCTACAGGGGCATTA
* * * *
19121283 CAGTCATTTTACCCTACA-AGGTATGA
1 CGGTCATTTTACCCTACAGGGGCATTA
* *
19121309 CGGTCATTTTACACTACAGGGGTATTA
1 CGGTCATTTTACCCTACAGGGGCATTA
* *
19121336 CGGTCATTTTACCCTATAGGGGTATTA
1 CGGTCATTTTACCCTACAGGGGCATTA
**
19121363 CAATCATTTTACCCTACAGGGGCATTA
1 CGGTCATTTTACCCTACAGGGGCATTA
* * *
19121390 CAGTCATTTTACCCTACAGAGACATTA
1 CGGTCATTTTACCCTACAGGGGCATTA
19121417 CGGTCATTTTACCCTACAGGGGCATTA
1 CGGTCATTTTACCCTACAGGGGCATTA
19121444 CGGTCATTTTACCCTACAGGGGCA-TA
1 CGGTCATTTTACCCTACAGGGGCATTA
* *
19121470 CGGTTATTTTACCCTACAGGGGTATTA
1 CGGTCATTTTACCCTACAGGGGCATTA
*
19121497 CGGTCATTTTACCCTACAGGGGTATTA
1 CGGTCATTTTACCCTACAGGGGCATTA
19121524 CGGT
1 CGGT
19121528 TAAATAAAGA
Statistics
Matches: 284, Mismatches: 40, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
26 45 0.16
27 217 0.76
28 22 0.08
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.32
Consensus pattern (27 bp):
CGGTCATTTTACCCTACAGGGGCATTA
Found at i:19131016 original size:25 final size:24
Alignment explanation
Indices: 19130983--19131035 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
19130973 ATTAAAGGAG
* *
19130983 AAATTAAATCAATTTGATTAAAAT
1 AAATCAAATCAATTTGAATAAAAT
*
19131007 CAAATCAAATTAATTTGAATAAAAT
1 -AAATCAAATCAATTTGAATAAAAT
19131032 AAAT
1 AAAT
19131036 TAGGATACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.34
Consensus pattern (24 bp):
AAATCAAATCAATTTGAATAAAAT
Found at i:19131036 original size:15 final size:16
Alignment explanation
Indices: 19131012--19131053 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
19131002 AAAATCAAAT
*
19131012 CAAATTAATTTGAATA
1 CAAATAAATTTGAATA
* *
19131028 -AAATAAATTAGGATA
1 CAAATAAATTTGAATA
19131043 CAAATAAATTT
1 CAAATAAATTT
19131054 CGGTCTAGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (16 bp):
CAAATAAATTTGAATA
Found at i:19131518 original size:9 final size:9
Alignment explanation
Indices: 19131504--19131550 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
19131494 AAACAAATTC
19131504 AAAAATATT
1 AAAAATATT
*
19131513 AAAAATAAAT
1 AAAAAT-ATT
*
19131523 ATAAATTATT
1 A-AAAATATT
19131533 AAAAATATT
1 AAAAATATT
19131542 AAAAA-ATT
1 AAAAATATT
19131550 A
1 A
19131551 TGTTAAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
8 4 0.12
9 18 0.56
10 6 0.19
11 4 0.12
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
AAAAATATT
Found at i:19131548 original size:20 final size:20
Alignment explanation
Indices: 19131504--19131574 Score: 67
Period size: 20 Copynumber: 3.4 Consensus size: 20
19131494 AAACAAATTC
19131504 AAAAA-TATTAAAAATA--A
1 AAAAATTATTAAAAATATTA
19131521 ATATAAATTATTAAAAATATTA
1 A-A-AAATTATTAAAAATATTA
19131543 AAAAATTATGTTAAAATATATTTA
1 AAAAATTA--TTAAAA-ATA-TTA
19131567 AAAAATTA
1 AAAAATTA
19131575 ATATATAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
17 1 0.02
18 1 0.02
19 3 0.07
20 17 0.38
21 1 0.02
22 8 0.18
23 3 0.07
24 11 0.24
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.35
Consensus pattern (20 bp):
AAAAATTATTAAAAATATTA
Found at i:19131563 original size:23 final size:23
Alignment explanation
Indices: 19131531--19131625 Score: 77
Period size: 24 Copynumber: 3.9 Consensus size: 23
19131521 ATATAAATTA
19131531 TTAAAAATA-TTAAAAAATTATG
1 TTAAAAATATTTAAAAAATTATG
*
19131553 TTAAAATATATTTAAAAAATTAATA
1 TTAAAA-ATATTTAAAAAATT-ATG
*
19131578 TATAAAACAAAATTCT-AAAAATATATG
1 T-T-AAA-AATATT-TAAAAAAT-TATG
* *
19131605 TAAAAAATCTTTAAAAAATTA
1 TTAAAAATATTTAAAAAATTA
19131626 CAAAAAAAAC
Statistics
Matches: 58, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
22 6 0.10
23 6 0.10
24 20 0.34
25 6 0.10
26 1 0.02
27 16 0.28
28 3 0.05
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (23 bp):
TTAAAAATATTTAAAAAATTATG
Found at i:19133028 original size:30 final size:30
Alignment explanation
Indices: 19132970--19133028 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
19132960 ATTTTCGAGC
* **
19132970 CTAAGGGTAAAATGGTCATTTTGTCAAAGT
1 CTAAGGGCAAAATGGTCATTTTACCAAAGT
*
19133000 CTAAGGGCAAAATGGTCGTTTTACCAAAG
1 CTAAGGGCAAAATGGTCATTTTACCAAAG
19133029 ATATGAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.29
Consensus pattern (30 bp):
CTAAGGGCAAAATGGTCATTTTACCAAAGT
Found at i:19140475 original size:46 final size:45
Alignment explanation
Indices: 19140422--19140637 Score: 181
Period size: 46 Copynumber: 4.7 Consensus size: 45
19140412 TTGTGAGCTG
*
19140422 GTGTAAGACATGTTTGGGACATGCATCGGCCACATTATGA-GAGCCA
1 GTGTAAGACATGTCTGGGACATGCATCGGCCACA-TA-GACGAGCCA
* *
19140468 GTGTAAGACCATGTCTGGGACATGGCATCGG-CA-TTGAGACGAGTGCTA
1 GTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACAT-AGACGA--GCCA
* * * *
19140516 GTGTAAGACATGTCTGGGACATGCATCGACCTC-GAGACGTAAGTCA
1 GTGTAAGACATGTCTGGGACATGCATCGGCCACATAGACG--AGCCA
* * * * *
19140562 GTGTAAAACATGTCTGGGACATGCATCGGCTACA-AGATGTGTCA
1 GTGTAAGACATGTCTGGGACATGCATCGGCCACATAGACGAGCCA
*
19140606 GTGTAAGACAATGTTTGGGACATGGCATCGGC
1 GTGTAAGAC-ATGTCTGGGACAT-GCATCGGC
19140638 ACCTAACCCC
Statistics
Matches: 141, Mismatches: 16, Indels: 26
0.77 0.09 0.14
Matches are distributed among these distances:
44 12 0.09
45 15 0.11
46 65 0.46
47 30 0.21
48 19 0.13
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (45 bp):
GTGTAAGACATGTCTGGGACATGCATCGGCCACATAGACGAGCCA
Found at i:19141813 original size:400 final size:400
Alignment explanation
Indices: 19141072--19141872 Score: 1121
Period size: 400 Copynumber: 2.0 Consensus size: 400
19141062 GAATTAGTCT
* * * *
19141072 TGTAACACCCCGAACCCGAGACCGTCGCCGGAGTCGAACACGAGGTGTTAACAGACTTCAAACCA
1 TGTAACACCCCAAACCCGAGACCGACACCGGAGTCGAACACGAGGTGTTAAAAGACTTCAAACCA
***
19141137 CTTATTTGACATTTCCCAGACAAGCTGCCAATCTGCGTACTAGTCGCTTTAAAAATCATATCTTG
66 CTTATAAAACATTTCCCAGACAAGCTGCCAATCTGCGTACTAGTCGCTTTAAAAATCATATCTTG
* * * **
19141202 AGTTCTGAAACTCGAAATCCAGTTCCGTAAATTTTCCCTGGAACTAGACTCATATAAATATATGG
131 AGTTCTCAAACTCGAAATCAAGTTCCGTAAATTTTCCCTGAAACTAGACTCATATAAATATATCA
* * * *
19141267 TAGAATTTTTGTAGAATTTTTGGTCGGGCAAATTAGTACAGTTTATTAGTTAAATTCTCCCCTAT
196 TAGAATTTTTCTAGAATTTTTGGTCGGGCAAATTAGTACAGTTTATTAGTCAAAGTCTCCCATAT
* **
19141332 TACAGGGTGCGACTACACTGACCTTCATGCATTACGATTTGGATAACTCCCTGCACAGAGCTTCA
261 TACAGGGTGCGACTACACTGACCTTCACGCATTACGACCTGGATAACTCCCTGCACAGAGCTTCA
*
19141397 ATACTGATGTCGTTTGTTTATATAGAAACTAGACTCAGAGAGGAATCTATACATATATGGCATGA
326 ATACTGATGTCGTTTGTTTATATAGAAACTAAACTCAGAGAGGAATCTATACATATATGGCATGA
19141462 CTCCTAATTA
391 CTCCTAATTA
* *
19141472 TGTAACACCCCAAACCCGAGACCGACACCGGAGTCGAACACGAGGTGTTAAAAGACTTTAAACCC
1 TGTAACACCCCAAACCCGAGACCGACACCGGAGTCGAACACGAGGTGTTAAAAGACTTCAAACCA
*
19141537 CTTATAAAAATATTTCCCAGAC-A-CTGCCAATCTGCGTACTAGTCGCTTTAAAAATCATATCTT
66 CTTAT-AAAACATTTCCCAGACAAGCTGCCAATCTGCGTACTAGTCGCTTTAAAAATCATATCTT
** * * ** *
19141600 GAGTT-TCACAACTCGAAAAT-AAGTTTTGTGATTTTTCCCTGAAACTAGACTCATATGCCCATC
130 GAGTTCTCA-AACTCG-AAATCAAGTTCCGTAAATTTTCCCTGAAACTAGACTCATAT--AAATA
*** *
19141663 TA-CATATTTTTTTTCTAGAATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCC
191 TATCATAGAATTTTTCTAGAATTTTTGGTCGGGCAAATTAGTACAGTTTATTAGTCAAAGTCTCC
* * ** *
19141727 CATGTTACAGGGAT-TGACTACACTGACCTTTGCGCATTACGACCTGGATATCTCCCTGCACAGA
256 CATATTACAGGG-TGCGACTACACTGACCTTCACGCATTACGACCTGGATAACTCCCTGCACAGA
*
19141791 GCTTCAATACTGAT-TCCGTTTGTTTCTATAGAAACTAAACTCAGAGAGGAATCTATACATATAT
320 GCTTCAATACTGATGT-CGTTTGTTTATATAGAAACTAAACTCAGAGAGGAATCTATACATATAT
*
19141855 GGTATGACTCCTAATTA
384 GGCATGACTCCTAATTA
19141872 T
1 T
19141873 CTCTGGTTAA
Statistics
Matches: 353, Mismatches: 41, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
398 2 0.01
399 82 0.23
400 252 0.71
401 17 0.05
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (400 bp):
TGTAACACCCCAAACCCGAGACCGACACCGGAGTCGAACACGAGGTGTTAAAAGACTTCAAACCA
CTTATAAAACATTTCCCAGACAAGCTGCCAATCTGCGTACTAGTCGCTTTAAAAATCATATCTTG
AGTTCTCAAACTCGAAATCAAGTTCCGTAAATTTTCCCTGAAACTAGACTCATATAAATATATCA
TAGAATTTTTCTAGAATTTTTGGTCGGGCAAATTAGTACAGTTTATTAGTCAAAGTCTCCCATAT
TACAGGGTGCGACTACACTGACCTTCACGCATTACGACCTGGATAACTCCCTGCACAGAGCTTCA
ATACTGATGTCGTTTGTTTATATAGAAACTAAACTCAGAGAGGAATCTATACATATATGGCATGA
CTCCTAATTA
Found at i:19142937 original size:79 final size:79
Alignment explanation
Indices: 19142826--19143048 Score: 269
Period size: 79 Copynumber: 2.8 Consensus size: 79
19142816 GCTCCTCGTT
* * *
19142826 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTATCCCG
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCG
*
19142890 GATTTAGTAACTCGCA
64 GAATTAGTAACTCGCA
19142906 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
19142969 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
* * * *
19142984 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCC
19143046 GGA
63 GGA
19143049 CATCATTCAA
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 57 0.45
80 23 0.18
81 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:19142943 original size:39 final size:40
Alignment explanation
Indices: 19142826--19143048 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
19142816 GCTCCTCGTT
* *
19142826 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
19142866 CAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
19142906 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
19142945 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
19142984 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
19143025 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19143049 CATCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:19151059 original size:40 final size:40
Alignment explanation
Indices: 19151015--19151276 Score: 310
Period size: 39 Copynumber: 6.7 Consensus size: 40
19151005 GCTCCTCGTT
* *
19151015 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * * *
19151055 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
19151095 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
19151134 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
19151173 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
19151212 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
19151253 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19151277 CATCATTCAA
Statistics
Matches: 199, Mismatches: 15, Indels: 17
0.86 0.06 0.07
Matches are distributed among these distances:
38 2 0.01
39 123 0.62
40 63 0.32
41 11 0.06
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:19154316 original size:28 final size:28
Alignment explanation
Indices: 19154256--19154375 Score: 170
Period size: 28 Copynumber: 4.3 Consensus size: 28
19154246 TTAAGTCCGT
19154256 ACACTTAGTGCTATATAATC-AACTCGC
1 ACACTTAGTGCTATATAATCAAACTCGC
*
19154283 ACACTTAGTTCTATATAATCAAACTCGC
1 ACACTTAGTGCTATATAATCAAACTCGC
*
19154311 ACACTTAGTGCTACATAATCAAACTCGC
1 ACACTTAGTGCTATATAATCAAACTCGC
* * * *
19154339 ACACTTAGTGCTGTACAATTTAAACCCGC
1 ACACTTAGTGCTATATAA-TCAAACTCGC
19154368 ACACTTAG
1 ACACTTAG
19154376 CGCCAATCTC
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 19 0.23
28 48 0.58
29 16 0.19
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.28
Consensus pattern (28 bp):
ACACTTAGTGCTATATAATCAAACTCGC
Found at i:19161789 original size:89 final size:88
Alignment explanation
Indices: 19161683--19161849 Score: 271
Period size: 88 Copynumber: 1.9 Consensus size: 88
19161673 CTAGAAGGTT
*
19161683 GTGAATGCACAACATATTTGCATATAAGAGCTGCCAGAAAATGGGTGGATAAACCAAAAGTGTTG
1 GTGAATGCACAACATATTTACATATAAGAGCTGCCA-AAAATGGGTGGATAAACCAAAAGTGTTG
*
19161748 CAGGTTCATACACTATTAAATGGC
65 CAGGTTAATACACTATTAAATGGC
* **
19161772 GTGAATGCACAACATATTTACATATAAGAGCTGCCAAAAATGGGTGGATGAACCACCAGTGTTGC
1 GTGAATGCACAACATATTTACATATAAGAGCTGCCAAAAATGGGTGGATAAACCAAAAGTGTTGC
*
19161837 GGGTTAATACACT
66 AGGTTAATACACT
19161850 GTCAGATGGT
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 37 0.51
89 35 0.49
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (88 bp):
GTGAATGCACAACATATTTACATATAAGAGCTGCCAAAAATGGGTGGATAAACCAAAAGTGTTGC
AGGTTAATACACTATTAAATGGC
Found at i:19161865 original size:89 final size:89
Alignment explanation
Indices: 19161679--19161924 Score: 278
Period size: 89 Copynumber: 2.8 Consensus size: 89
19161669 GCTGCTAGAA
* * **
19161679 GGTTGTGAATGCACAACATATTTGCATATAAGAGCTGCCAGAAAATGGGTGGATAAACCAAAAGT
1 GGTTGTGAATGCACAACATATTTACATATAAGAGCTGCCA-AAAATGGGTGGATGAACCACCAGT
* *
19161744 GTTGCAGGTTCATACACTATTAAAT
65 GTTGCAGGTTAATACACTATCAAAT
*
19161769 GG-CGTGAATGCACAACATATTTACATATAAGAGCTGCCAAAAATGGGTGGATGAACCACCAGTG
1 GGTTGTGAATGCACAACATATTTACATATAAGAGCTGCCAAAAATGGGTGGATGAACCACCAGTG
* * *
19161833 TTGCGGGTTAATACACTGTCAGAT
66 TTGCAGGTTAATACACTATCAAAT
* ** * * * * * ** * *
19161857 GGTTGTGAATGCATAATGTGTTTTCAGATAAGAGCTACCAAAAGTCTGTGAATGAACCACCAGAG
1 GGTTGTGAATGCACAACATATTTACATATAAGAGCTGCCAAAAATGGGTGGATGAACCACCAGTG
19161922 TTG
66 TTG
19161925 TAAATCATTA
Statistics
Matches: 132, Mismatches: 23, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
88 43 0.33
89 87 0.66
90 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (89 bp):
GGTTGTGAATGCACAACATATTTACATATAAGAGCTGCCAAAAATGGGTGGATGAACCACCAGTG
TTGCAGGTTAATACACTATCAAAT
Found at i:19168012 original size:25 final size:25
Alignment explanation
Indices: 19167982--19168064 Score: 157
Period size: 25 Copynumber: 3.3 Consensus size: 25
19167972 GAGTGTCCTG
19167982 ATATGGCTCGCTTGAACTTCCTGAA
1 ATATGGCTCGCTTGAACTTCCTGAA
*
19168007 ATATGGCTCGCTTGAACTTCCTAAA
1 ATATGGCTCGCTTGAACTTCCTGAA
19168032 ATATGGCTCGCTTGAACTTCCTGAA
1 ATATGGCTCGCTTGAACTTCCTGAA
19168057 ATATGGCT
1 ATATGGCT
19168065 ATCCAAAGCT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (25 bp):
ATATGGCTCGCTTGAACTTCCTGAA
Found at i:19172028 original size:40 final size:40
Alignment explanation
Indices: 19171984--19172168 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
19171974 GCTACTCGTT
* *
19171984 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
19172024 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
19172064 CTAATGCCTTTGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
19172103 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
19172144 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19172169 CATCATTCGA
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 77 0.62
41 13 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:19172152 original size:79 final size:80
Alignment explanation
Indices: 19171989--19172168 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
19171979 TCGTTCAAAT
* *
19171989 GCCTTCGGGACATAGCCCGG--TTACAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 GCCTTCGGGACTTAGCCCGGAATT--AGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATA
* *
19172052 TAGTAACTCGCACTAAT
64 TAGTAACTAGCACTAAA
* **
19172069 GCCTTTGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATAT
1 GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATAT
* *
19172132 GGTCACTTAGCAC-AAA
65 AGTAAC-TAGCACTAAA
19172148 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAGCCCGGA
19172169 CATCATTCGA
Statistics
Matches: 85, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
78 3 0.04
79 56 0.66
80 24 0.28
81 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATA
GTAACTAGCACTAAA
Found at i:19177774 original size:23 final size:23
Alignment explanation
Indices: 19177748--19177792 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
19177738 CCCATTACAT
19177748 GGCTCTTTGT-AAGCTTCCCGATA
1 GGCTCTTTGTGAA-CTTCCCGATA
19177771 GGCTCTTTGTGAACTTCCCGAT
1 GGCTCTTTGTGAACTTCCCGAT
19177793 TAAAAGTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.16, C:0.27, G:0.22, T:0.36
Consensus pattern (23 bp):
GGCTCTTTGTGAACTTCCCGATA
Found at i:19177886 original size:23 final size:23
Alignment explanation
Indices: 19177860--19177910 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
19177850 CCAGATAAGT
19177860 TTCCTG-ATAGACTCTTTGTGAGC
1 TTCCTGAATAGA-TCTTTGTGAGC
* *
19177883 TTCCTGAATGGATCTTTGTGAGT
1 TTCCTGAATAGATCTTTGTGAGC
19177906 TTCCT
1 TTCCT
19177911 ATTATATGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.16, C:0.20, G:0.22, T:0.43
Consensus pattern (23 bp):
TTCCTGAATAGATCTTTGTGAGC
Found at i:19180469 original size:23 final size:23
Alignment explanation
Indices: 19180443--19180505 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
19180433 CATATACTGT
19180443 TATTAGCAGCTCTACTGCGTTAC
1 TATTAGCAGCTCTACTGCGTTAC
*
19180466 TATTAGCAGCTCTGCTGCGTTAC
1 TATTAGCAGCTCTACTGCGTTAC
* *
19180489 TGTTAGCAGCTTTACTG
1 TATTAGCAGCTCTACTG
19180506 TGATATTGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.37
Consensus pattern (23 bp):
TATTAGCAGCTCTACTGCGTTAC
Found at i:19182411 original size:48 final size:48
Alignment explanation
Indices: 19182346--19182572 Score: 216
Period size: 48 Copynumber: 4.8 Consensus size: 48
19182336 GTTATGTGTA
* * *
19182346 ATCCCATGTAAGACCATGTTTGGAACATGGGATTGGCATCGATATGTG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTG
* *
19182394 ATCCCATGTAAGACCATGTCTGGGAGATGGCATTGGCATCGATATTTG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTG
* * * **
19182442 ATCCCATATAAGACCATATCTGGGATATGGCATTGGCATCGATATAAG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTG
*** * * * *
19182490 A-CATTGTGTAAGACCATAG-CTGGG-C-T---ATCGGCTTCGATCTATG
1 ATC-CCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGATATGTG
* *
19182533 ATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATC
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
19182573 TTACTATGGG
Statistics
Matches: 143, Mismatches: 27, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
43 30 0.21
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 109 0.76
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (48 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTG
Found at i:19184451 original size:84 final size:84
Alignment explanation
Indices: 19184303--19184526 Score: 430
Period size: 84 Copynumber: 2.7 Consensus size: 84
19184293 TAATTGAAAT
*
19184303 ACATGGGTATGATTTGTATATGTTATATGAATTCATGATGTGGAAAGTATATGTATGTGGAAATT
1 ACATGGGTATGATTTGTATATGTTATATGAATTCATGATGTGGAAAGTATATGTATGTGAAAATT
19184368 TGGTTATTATTGAGTCCAC
66 TGGTTATTATTGAGTCCAC
*
19184387 ATATGGGTATGATTTGTATATGTTATATGAATTCATGATGTGGAAAGTATATGTATGTGAAAATT
1 ACATGGGTATGATTTGTATATGTTATATGAATTCATGATGTGGAAAGTATATGTATGTGAAAATT
19184452 TGGTTATTATTGAGTCCAC
66 TGGTTATTATTGAGTCCAC
19184471 ACATGGGTATGATTTGTATATGTTATATGAATTCATGATGTGGAAAGTATATGTAT
1 ACATGGGTATGATTTGTATATGTTATATGAATTCATGATGTGGAAAGTATATGTAT
19184527 ATGGAAAGTA
Statistics
Matches: 137, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 137 1.00
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.41
Consensus pattern (84 bp):
ACATGGGTATGATTTGTATATGTTATATGAATTCATGATGTGGAAAGTATATGTATGTGAAAATT
TGGTTATTATTGAGTCCAC
Found at i:19187473 original size:90 final size:90
Alignment explanation
Indices: 19187357--19187558 Score: 296
Period size: 90 Copynumber: 2.2 Consensus size: 90
19187347 AATATGCTAG
* *
19187357 CAGAAGGTTGTGAATGCACAAAATATTCGTAGATAAGAGCTACCAAAAAATAGGTGGATGAACCA
1 CAGATGGTTGTGAATGCACAACATATTCGTAGATAAGAGCTACCAAAAAATAGGTGGATGAACCA
*
19187422 CCAATGTTGTAGGTTAATACACTGC
66 CCAATGTTGCAGGTTAATACACTGC
* * * *
19187447 CAGATGGTTGAGAATGCACAACATATTTGTAGATAAGAGCTGCCAAAAAATGGGTGGATGAACCA
1 CAGATGGTTGTGAATGCACAACATATTCGTAGATAAGAGCTACCAAAAAATAGGTGGATGAACCA
* * * *
19187512 TCAGTGTTGCAGTTTAATACGCTGC
66 CCAATGTTGCAGGTTAATACACTGC
*
19187537 CAGATGGTTGTGAATGAACAAC
1 CAGATGGTTGTGAATGCACAAC
19187559 GCATTTTCAT
Statistics
Matches: 99, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
90 99 1.00
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.24
Consensus pattern (90 bp):
CAGATGGTTGTGAATGCACAACATATTCGTAGATAAGAGCTACCAAAAAATAGGTGGATGAACCA
CCAATGTTGCAGGTTAATACACTGC
Found at i:19187573 original size:90 final size:90
Alignment explanation
Indices: 19187357--19187605 Score: 268
Period size: 90 Copynumber: 2.8 Consensus size: 90
19187347 AATATGCTAG
* * * * * *
19187357 CAGAAGGTTGTGAATGCACAAAATATTCGTAGATAAGAGCTACCAAAAAATAGGTGGATGAACCA
1 CAGATGGTTGAGAATGAACAACACATTTGTAGATAAGAGCTACCAAAAAATAGGTGGATGAACCA
*
19187422 CCAATGTTGTAGGTTAATACACTGC
66 CCAATGTTGCAGGTTAATACACTGC
* * * *
19187447 CAGATGGTTGAGAATGCACAACATATTTGTAGATAAGAGCTGCCAAAAAATGGGTGGATGAACCA
1 CAGATGGTTGAGAATGAACAACACATTTGTAGATAAGAGCTACCAAAAAATAGGTGGATGAACCA
* * * *
19187512 TCAGTGTTGCAGTTTAATACGCTGC
66 CCAATGTTGCAGGTTAATACACTGC
* * * * ** *
19187537 CAGATGGTTGTGAATGAACAACGCATTT-TCATATAAGAGCTA-CAAGAAAGTTTGTGGATTAAC
1 CAGATGGTTGAGAATGAACAACACATTTGT-AGATAAGAGCTACCAA-AAAATAGGTGGATGAAC
19187600 CACCAA
64 CACCAA
19187606 AGCTGCAGAT
Statistics
Matches: 134, Mismatches: 23, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
89 4 0.03
90 130 0.97
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.25
Consensus pattern (90 bp):
CAGATGGTTGAGAATGAACAACACATTTGTAGATAAGAGCTACCAAAAAATAGGTGGATGAACCA
CCAATGTTGCAGGTTAATACACTGC
Found at i:19197034 original size:19 final size:19
Alignment explanation
Indices: 19197010--19197051 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
19197000 GAGAGCAGGG
*
19197010 GAAAGAAAGAAGGAAGGAA
1 GAAAGAAAGAAAGAAGGAA
19197029 GAAAGAAAGAAAGAAGGAA
1 GAAAGAAAGAAAGAAGGAA
19197048 -AAAG
1 GAAAG
19197052 GGAAAAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (19 bp):
GAAAGAAAGAAAGAAGGAA
Found at i:19198103 original size:51 final size:53
Alignment explanation
Indices: 19198039--19198141 Score: 133
Period size: 51 Copynumber: 2.0 Consensus size: 53
19198029 CTGCGACTGC
19198039 TCCGGATTCGTTCCGA-AGAGGTAC-TCTGT-AC-CTGACTGTTACTGTTACTAT
1 TCCGGATTCGTTCCGATA-AGGTACTTCTGTAACGCT-ACTGTTACTGTTACTAT
* *
19198090 TCCGGATTTGTTCCGATAAGGTACTTTGTGTAACGCTACTGTTACTGTTACT
1 TCCGGATTCGTTCCGATAAGGTAC-TTCTGTAACGCTACTGTTACTGTTACT
19198142 GTTACTGTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
51 21 0.47
52 1 0.02
53 4 0.09
54 17 0.38
55 2 0.04
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (53 bp):
TCCGGATTCGTTCCGATAAGGTACTTCTGTAACGCTACTGTTACTGTTACTAT
Found at i:19198137 original size:6 final size:6
Alignment explanation
Indices: 19198126--19198164 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
19198116 TGTGTAACGC
*
19198126 TACTGT TACTGT TACTGT TACTGT TACTGT TATTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TAC
19198165 CCTTACGGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.51
Consensus pattern (6 bp):
TACTGT
Found at i:19198170 original size:18 final size:18
Alignment explanation
Indices: 19198131--19198170 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
19198121 AACGCTACTG
**
19198131 TTACTGTTACTGTTACTG
1 TTACTGTTACTGTTACCC
*
19198149 TTACTGTTATTGTTACCC
1 TTACTGTTACTGTTACCC
19198167 TTAC
1 TTAC
19198171 GGTGTGTTCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.12, T:0.50
Consensus pattern (18 bp):
TTACTGTTACTGTTACCC
Found at i:19198306 original size:188 final size:188
Alignment explanation
Indices: 19197989--19198340 Score: 650
Period size: 188 Copynumber: 1.9 Consensus size: 188
19197979 TTCAGGGATA
19197989 TTCCGACTGTGTGTCAATGAGACACTATATGTGTCGACTACTGCGACTGCTCCGGATTCGTTCCG
1 TTCCGACTGTGTGTCAATGAGACACTATATGTGTCGACTACTGCGACTGCTCCGGATTCGTTCCG
* *
19198054 AAGAGGTACTCTGTACCTGACTGTTACTGTTACTATTCCGGATTTGTTCCGATAAGGTACTTTGT
66 AAGAGGTACTCCGTACCTGACTGTTACTGTTACTATTCCAGATTTGTTCCGATAAGGTACTTTGT
19198119 GTAACGCTACTGTTACTGTTACTGTTACTGTTACTGTTATTGTTACCCTTACGGTGTG
131 GTAACGCTACTGTTACTGTTACTGTTACTGTTACTGTTATTGTTACCCTTACGGTGTG
*
19198177 TTCCGACTGTGTGTCGATGAGACACTATATGTGTCGACTACTGCGACTGCTCCGGATTCGTTCCG
1 TTCCGACTGTGTGTCAATGAGACACTATATGTGTCGACTACTGCGACTGCTCCGGATTCGTTCCG
*
19198242 AAGAGGTACTCCGTACCTGACTGTTACTGTTACTATTCCAGATTTGTTCCGATGAGGTACTTTGT
66 AAGAGGTACTCCGTACCTGACTGTTACTGTTACTATTCCAGATTTGTTCCGATAAGGTACTTTGT
* *
19198307 GTAGCGCTACTGTTACTGTTATTGTTACTGTTAC
131 GTAACGCTACTGTTACTGTTACTGTTACTGTTAC
19198341 CCTTACGGTG
Statistics
Matches: 158, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
188 158 1.00
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.37
Consensus pattern (188 bp):
TTCCGACTGTGTGTCAATGAGACACTATATGTGTCGACTACTGCGACTGCTCCGGATTCGTTCCG
AAGAGGTACTCCGTACCTGACTGTTACTGTTACTATTCCAGATTTGTTCCGATAAGGTACTTTGT
GTAACGCTACTGTTACTGTTACTGTTACTGTTACTGTTATTGTTACCCTTACGGTGTG
Found at i:19203587 original size:19 final size:19
Alignment explanation
Indices: 19203563--19203604 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
19203553 GAGAGCAGGG
* *
19203563 GAAAGAAAGAAGGAAGGAA
1 GAAAGAAAAAAAGAAGGAA
19203582 GAAAGAAAAAAAGAAGGAA
1 GAAAGAAAAAAAGAAGGAA
19203601 -AAAG
1 GAAAG
19203605 GGGAAAATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (19 bp):
GAAAGAAAAAAAGAAGGAA
Found at i:19204656 original size:51 final size:53
Alignment explanation
Indices: 19204592--19204694 Score: 140
Period size: 51 Copynumber: 2.0 Consensus size: 53
19204582 CTGCGACTGC
19204592 TCCGGATTCGTTCCGAAGAGGTAC-TCTGT-AC-CTGACTGTTACTGTTACTAT
1 TCCGGATTCGTTCCGAAGAGGTACTTCTGTAACGCT-ACTGTTACTGTTACTAT
* * *
19204643 TCCGGATTTGTTCCGATGAGGTACTTTGTGTAACGCTACTGTTACTGTTACT
1 TCCGGATTCGTTCCGAAGAGGTAC-TTCTGTAACGCTACTGTTACTGTTACT
19204695 GTTACTGTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
51 22 0.49
53 4 0.09
54 17 0.38
55 2 0.04
ACGTcount: A:0.18, C:0.21, G:0.22, T:0.38
Consensus pattern (53 bp):
TCCGGATTCGTTCCGAAGAGGTACTTCTGTAACGCTACTGTTACTGTTACTAT
Found at i:19204690 original size:6 final size:6
Alignment explanation
Indices: 19204679--19204711 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
19204669 TGTGTAACGC
*
19204679 TACTGT TACTGT TACTGT TACTGT TATTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TACTGT TAC
19204712 CCTTACGGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:19204717 original size:18 final size:18
Alignment explanation
Indices: 19204679--19204717 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
19204669 TGTGTAACGC
**
19204679 TACTGTTACTGTTACTGT
1 TACTGTTACTGTTACCCT
*
19204697 TACTGTTATTGTTACCCT
1 TACTGTTACTGTTACCCT
19204715 TAC
1 TAC
19204718 GGTGTATTCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.18, C:0.21, G:0.13, T:0.49
Consensus pattern (18 bp):
TACTGTTACTGTTACCCT
Found at i:19204885 original size:18 final size:18
Alignment explanation
Indices: 19204843--19204885 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
19204833 GACTATCTGC
** *
19204843 TACTGAATAATTGACTGT
1 TACTGAATAAACGACTGG
*
19204861 TATTGAATAAACGACTGG
1 TACTGAATAAACGACTGG
19204879 TACTGAA
1 TACTGAA
19204886 CGATAAAGAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (18 bp):
TACTGAATAAACGACTGG
Found at i:19206934 original size:24 final size:23
Alignment explanation
Indices: 19206907--19206954 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
19206897 AAATTTCAAT
* *
19206907 TTTATTTAATTATTTAATTTTTTA
1 TTTATTGAATTA-TTAATATTTTA
*
19206931 TTTATTGACTTATTAATATTTTA
1 TTTATTGAATTATTAATATTTTA
19206954 T
1 T
19206955 ACTAATTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTATTGAATTATTAATATTTTA
Found at i:19208505 original size:16 final size:16
Alignment explanation
Indices: 19208484--19208515 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
19208474 ACTCACCTCC
19208484 TCTTTTCTAGAATCAT
1 TCTTTTCTAGAATCAT
19208500 TCTTTTCTAGAATCAT
1 TCTTTTCTAGAATCAT
19208516 ACCTGGTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.06, T:0.50
Consensus pattern (16 bp):
TCTTTTCTAGAATCAT
Found at i:19219626 original size:40 final size:40
Alignment explanation
Indices: 19219561--19219785 Score: 303
Period size: 40 Copynumber: 5.7 Consensus size: 40
19219551 GGATATAACC
* * * * *
19219561 ACTCGCAC-AAGGCCGTCGGGTCTTAGCCCGG-ATATGGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* *
19219600 ACTAGCGCAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
19219640 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
19219680 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * *
19219720 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGAATTAATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
19219760 ACTAGCACAAATGTCTTCGGGACTTA
1 ACTCGCACAAATGCCTTCGGGACTTA
19219786 ACCCCGTTAG
Statistics
Matches: 170, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 6 0.04
40 162 0.95
41 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:19222685 original size:47 final size:47
Alignment explanation
Indices: 19222627--19222756 Score: 172
Period size: 47 Copynumber: 2.8 Consensus size: 47
19222617 ACAATCGATA
* *
19222627 AGTATCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCTCAG
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCAG
* * *
19222674 AGTACCTATACCATGGCCTC-TAGCCAAATTAAGGTAACTCCTCTCTG
1 AGTACCTATACCATGGCC-CGTAGCCAAATCAAGGTAACTCATCTCAG
* * *
19222721 AATACCTCTACCATGGCCCGTAGCCAAATCGAGGTA
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
19222757 TTATTCACAC
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
46 1 0.01
47 70 0.97
48 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (47 bp):
AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCAG
Found at i:19236426 original size:14 final size:13
Alignment explanation
Indices: 19236406--19236437 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
19236396 AATATTTAAC
19236406 TTGTTCTTAATTA
1 TTGTTCTTAATTA
19236419 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
19236433 TTGTT
1 TTGTT
19236438 TTGATATCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:19240045 original size:47 final size:47
Alignment explanation
Indices: 19239991--19240122 Score: 194
Period size: 47 Copynumber: 2.8 Consensus size: 47
19239981 TCACAATCCA
*
19239991 TAAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATC-C
1 TAAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTC
*
19240037 TCGAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTC
1 T-AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTC
* * * *
19240085 TAAATACGTATAGCATGGCCCGTAGCAAAATCAAGGTA
1 TAAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
19240123 TTATTCGCAC
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
46 1 0.01
47 74 0.96
48 2 0.03
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (47 bp):
TAAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTC
Found at i:19244813 original size:47 final size:47
Alignment explanation
Indices: 19244756--19244886 Score: 183
Period size: 47 Copynumber: 2.8 Consensus size: 47
19244746 TCACAACCGA
*
19244756 TAAATACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTTATC-C
1 TAAATACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCATCTC
* * * * *
19244802 TAGAGTACCTATACCATGGTCTGTAGCCAAATCAAGGCAACTCCTCTT
1 TA-AATACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCATCTC
*
19244850 TAAATACCTATACCATGGCCTATAGCCAAATCAAGGT
1 TAAATACCTATACCATGGCCTGTAGCCAAATCAAGGT
19244887 TTTATTTGCA
Statistics
Matches: 73, Mismatches: 10, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
46 2 0.03
47 69 0.95
48 2 0.03
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (47 bp):
TAAATACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCATCTC
Found at i:19256079 original size:51 final size:51
Alignment explanation
Indices: 19256002--19256201 Score: 285
Period size: 51 Copynumber: 3.9 Consensus size: 51
19255992 CGGATACACG
** * *
19256002 GTGGCCTTCATGTAGTACCACCCTTGTAG-CCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTATATTCACAAA
*
19256053 GTGGCCTTCAGATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
* * *
19256104 GTGGCCTTCACATAGTACTACACTTCTATCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
* * *
19256155 GTGCCCTTCACATAGTACCACACTTATGTCCAAAGCTATTTTATTCA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCA
19256202 TAAGGTTCAA
Statistics
Matches: 135, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
50 1 0.01
51 134 0.99
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.32
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
Found at i:19256268 original size:28 final size:27
Alignment explanation
Indices: 19256224--19256426 Score: 226
Period size: 28 Copynumber: 7.7 Consensus size: 27
19256214 GAGAAATTTC
19256224 TCACTTAGCACCATGCCATGGACTTATT
1 TCACTTAGCA-CATGCCATGGACTTATT
* *
19256252 TAATTTAGCACATTGCCATGGACTTATT
1 TCACTTAGCACA-TGCCATGGACTTATT
* *
19256280 TCACTTAG---ATGACATGGTCTTATT
1 TCACTTAGCACATGCCATGGACTTATT
19256304 TCACTTAGCACATTGCCATGGACTTATT
1 TCACTTAGCACA-TGCCATGGACTTATT
* *
19256332 TCACTTAG---ATGACATGGTCTTATT
1 TCACTTAGCACATGCCATGGACTTATT
*
19256356 TCACTTAGCACATTGCCATGGGCTTATT
1 TCACTTAGCACA-TGCCATGGACTTATT
*
19256384 TCACTTAG---ATGCCATGGTCTTATT
1 TCACTTAGCACATGCCATGGACTTATT
19256408 TCACTTAGCACAATGCCAT
1 TCACTTAGCAC-ATGCCAT
19256427 ATCCTAGATA
Statistics
Matches: 149, Mismatches: 13, Indels: 26
0.79 0.07 0.14
Matches are distributed among these distances:
24 64 0.43
25 3 0.02
27 4 0.03
28 78 0.52
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (27 bp):
TCACTTAGCACATGCCATGGACTTATT
Found at i:19256295 original size:24 final size:24
Alignment explanation
Indices: 19256265--19256415 Score: 185
Period size: 24 Copynumber: 6.0 Consensus size: 24
19256255 TTTAGCACAT
*
19256265 TGCCATGGACTTATTTCACTTAGA
1 TGCCATGGTCTTATTTCACTTAGA
*
19256289 TGACATGGTCTTATTTCACTTAGCACA
1 TGCCATGGTCTTATTTCACTTAG---A
*
19256316 TTGCCATGGACTTATTTCACTTAGA
1 -TGCCATGGTCTTATTTCACTTAGA
*
19256341 TGACATGGTCTTATTTCACTTAGCACA
1 TGCCATGGTCTTATTTCACTTAG---A
*
19256368 TTGCCATGGGCTTATTTCACTTAGA
1 -TGCCATGGTCTTATTTCACTTAGA
19256393 TGCCATGGTCTTATTTCACTTAG
1 TGCCATGGTCTTATTTCACTTAG
19256416 CACAATGCCA
Statistics
Matches: 110, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
24 64 0.58
25 2 0.02
27 2 0.02
28 42 0.38
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (24 bp):
TGCCATGGTCTTATTTCACTTAGA
Found at i:19256296 original size:52 final size:52
Alignment explanation
Indices: 19256240--19256426 Score: 320
Period size: 52 Copynumber: 3.6 Consensus size: 52
19256230 AGCACCATGC
* * *
19256240 CATGGACTTATTTAATTTAGCACATTGCCATGGACTTATTTCACTTAGATGA
1 CATGGTCTTATTTCACTTAGCACATTGCCATGGACTTATTTCACTTAGATGA
19256292 CATGGTCTTATTTCACTTAGCACATTGCCATGGACTTATTTCACTTAGATGA
1 CATGGTCTTATTTCACTTAGCACATTGCCATGGACTTATTTCACTTAGATGA
* *
19256344 CATGGTCTTATTTCACTTAGCACATTGCCATGGGCTTATTTCACTTAGATGC
1 CATGGTCTTATTTCACTTAGCACATTGCCATGGACTTATTTCACTTAGATGA
*
19256396 CATGGTCTTATTTCACTTAGCACAATGCCAT
1 CATGGTCTTATTTCACTTAGCACATTGCCAT
19256427 ATCCTAGATA
Statistics
Matches: 129, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 129 1.00
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (52 bp):
CATGGTCTTATTTCACTTAGCACATTGCCATGGACTTATTTCACTTAGATGA
Found at i:19266721 original size:16 final size:17
Alignment explanation
Indices: 19266691--19266723 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
19266681 AGTTTTCATA
*
19266691 ACTTATTCCATTGCATG
1 ACTTATTCCACTGCATG
19266708 ACTT-TTCCACTGCATG
1 ACTTATTCCACTGCATG
19266724 TTAATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.21, C:0.27, G:0.12, T:0.39
Consensus pattern (17 bp):
ACTTATTCCACTGCATG
Found at i:19271310 original size:26 final size:26
Alignment explanation
Indices: 19271274--19271383 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
19271264 TGATACAAAT
19271274 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
19271300 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
19271326 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
19271352 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
19271378 TGATAA
1 TGATAA
19271384 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:19277206 original size:26 final size:26
Alignment explanation
Indices: 19277170--19277279 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
19277160 TGATACAAAT
19277170 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
19277196 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
19277222 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
19277248 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
19277274 TGATAA
1 TGATAA
19277280 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:19280168 original size:47 final size:47
Alignment explanation
Indices: 19280117--19280595 Score: 782
Period size: 47 Copynumber: 10.2 Consensus size: 47
19280107 AGGTGTGTAA
*
19280117 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATAT
* *
19280164 ATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATAT
* *
19280211 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTGTAT
1 ATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATAT
*
19280258 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATAT
*
19280305 ATGTGATAAGG-CTGAATGGCCAATGTGATGAATGTGAAAGTGTGTAT
1 ATGTGATAAGGCCT-AATGGCCAATGTGATGAATGTGAAAGTGTATAT
*
19280352 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATAT
*
19280399 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATAT
19280446 ATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATAT
* * * * *
19280493 ATGAGATAAGACCT-ATGGCCGATGTGATGGATGTGAAGGTGTATAT
1 ATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATAT
* * *
19280539 ATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATAA
1 ATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATAT
19280586 ATGTGATAAG
1 ATGTGATAAG
19280596 TCCCGAAGGG
Statistics
Matches: 403, Mismatches: 26, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
46 42 0.10
47 359 0.89
48 2 0.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATAT
Found at i:19284715 original size:8 final size:8
Alignment explanation
Indices: 19284702--19284727 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
19284692 ATTTTAAAAA
19284702 ATTCAATT
1 ATTCAATT
19284710 ATTCAATT
1 ATTCAATT
19284718 ATTCAATT
1 ATTCAATT
19284726 AT
1 AT
19284728 ATAACTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (8 bp):
ATTCAATT
Found at i:19289536 original size:10 final size:10
Alignment explanation
Indices: 19289521--19289545 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
19289511 ATCAATTTGA
19289521 TAATGGTATG
1 TAATGGTATG
19289531 TAATGGTATG
1 TAATGGTATG
19289541 TAATG
1 TAATG
19289546 ACATGAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.28, T:0.40
Consensus pattern (10 bp):
TAATGGTATG
Found at i:19289758 original size:26 final size:26
Alignment explanation
Indices: 19289728--19289779 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
19289718 GCTTTCGGAG
19289728 AATGAACTTGGACCTCGGATTATTAT
1 AATGAACTTGGACCTCGGATTATTAT
19289754 AATGAACTTGGACCTCGGATTATTAT
1 AATGAACTTGGACCTCGGATTATTAT
19289780 TTTTTAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (26 bp):
AATGAACTTGGACCTCGGATTATTAT
Found at i:19293459 original size:26 final size:26
Alignment explanation
Indices: 19293422--19293505 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
19293412 TGATACAAAT
* *
19293422 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
19293448 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
19293474 TGATAATGGGTTAGGTAAACGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
19293500 TGATAA
1 TGATAA
19293506 GAATTTCATG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:19295559 original size:137 final size:137
Alignment explanation
Indices: 19295277--19295552 Score: 511
Period size: 137 Copynumber: 2.0 Consensus size: 137
19295267 GAGTAGTCTC
19295277 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
19295342 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTAGAAAGGGCTCTGGTCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTAGAAAGGGCTCTGGTCCAGTACC
19295407 ACTGTTA
131 ACTGTTA
19295414 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
19295479 TGTTATCTGAATAAGGGGCTAGGGCCCAGTTTATTGTAATCT-GAAAAGGGCTCTGG-CCTAGTA
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTAG-AAAGGGCTCTGGTCC-AGTA
19295542 CCACTGTTA
129 CCACTGTTA
19295551 CC
1 CC
19295553 TGAATGGACT
Statistics
Matches: 136, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
136 3 0.02
137 133 0.98
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTAGAAAGGGCTCTGGTCCAGTACC
ACTGTTA
Found at i:19300272 original size:26 final size:26
Alignment explanation
Indices: 19300235--19300318 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
19300225 TGATACAAAT
* *
19300235 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
19300261 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
19300287 TGATAATGGATTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
19300313 TGATAA
1 TGATAA
19300319 GAATTTCATG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:19302351 original size:137 final size:137
Alignment explanation
Indices: 19302105--19302391 Score: 513
Period size: 137 Copynumber: 2.1 Consensus size: 137
19302095 GAGTAGTCTC
* *
19302105 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCTATAC
1 CCCAAATGGGCTTGCATATGCTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
19302170 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTGTTGTAATCTGAAAAGGGCTCTGGTCC-AGTAC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGG-CCTAGTAC
19302234 CACTGTTA
130 CACTGTTA
19302242 CCCAAATGGGCTTGCATATGCTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGCTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
19302307 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCTAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCTAGTACC
19302372 ACTGTTA
131 ACTGTTA
**
19302379 CCTGAATGGGCTT
1 CCCAAATGGGCTT
19302392 AGGCCCAATG
Statistics
Matches: 144, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
136 2 0.01
137 142 0.99
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGCTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCTAGTACC
ACTGTTA
Found at i:19304253 original size:24 final size:24
Alignment explanation
Indices: 19304199--19304278 Score: 67
Period size: 26 Copynumber: 3.2 Consensus size: 24
19304189 TATATATATA
19304199 ATTTAT-TTATT-TTAAAAAAACT
1 ATTTATATTATTATTAAAAAAACT
* *
19304221 ATACATATATTATTATTAAAAATACT
1 AT--TTATATTATTATTAAAAAAACT
*
19304247 ATTTATATGT-TTATATAAAAAAATTT
1 ATTTATAT-TATTAT-TAAAAAAA-CT
19304273 ATTTAT
1 ATTTAT
19304279 CAAATATTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
22 2 0.04
24 12 0.26
25 13 0.28
26 19 0.41
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (24 bp):
ATTTATATTATTATTAAAAAAACT
Done.