Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 23 of 93
Found at i:10126879 original size:14 final size:13
Alignment explanation
Indices: 10126848--10126888 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
10126838 TTTGAAATTA
10126848 TTATTATTTTTAT
1 TTATTATTTTTAT
* *
10126861 CTATTGTTATTTAT
1 TTATTATT-TTTAT
10126875 TTATTATTTTTAT
1 TTATTATTTTTAT
10126888 T
1 T
10126889 GAGTAATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (13 bp):
TTATTATTTTTAT
Found at i:10127114 original size:22 final size:21
Alignment explanation
Indices: 10127089--10127144 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
10127079 TCATGGAATA
* *
10127089 TTATTATCATTTTTTCCTTTTT
1 TTATTATCATTTTTT-ATATTT
* *
10127111 TTATCATTATTTTTTATATTT
1 TTATTATCATTTTTTATATTT
10127132 TTATTATACATTT
1 TTATTAT-CATTT
10127145 GTAAGAAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (21 bp):
TTATTATCATTTTTTATATTT
Found at i:10127229 original size:10 final size:10
Alignment explanation
Indices: 10127216--10127257 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
10127206 TATATATATA
10127216 TATTATTTTT
1 TATTATTTTT
*
10127226 TATTCTTTTT
1 TATTATTTTT
*
10127236 TTTTATTTTTT
1 TATTA-TTTTT
10127247 TATT-TTTTT
1 TATTATTTTT
10127256 TA
1 TA
10127258 CGCTTTATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
9 7 0.26
10 12 0.44
11 8 0.30
ACGTcount: A:0.14, C:0.02, G:0.00, T:0.83
Consensus pattern (10 bp):
TATTATTTTT
Found at i:10127768 original size:27 final size:28
Alignment explanation
Indices: 10127738--10127800 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
10127728 TTTCAGCGAC
*
10127738 GCCGACCGGGCCT-TCTCCC-TCAAGGCT
1 GCCGACCGGGCCTCTC-CCCTTCAAAGCT
* *
10127765 GCCGATCGGGTCTCTCCCCTTCAAAGCT
1 GCCGACCGGGCCTCTCCCCTTCAAAGCT
*
10127793 GCAGACCG
1 GCCGACCG
10127801 ATTCTTTCTC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 14 0.48
28 15 0.52
ACGTcount: A:0.14, C:0.41, G:0.25, T:0.19
Consensus pattern (28 bp):
GCCGACCGGGCCTCTCCCCTTCAAAGCT
Found at i:10132178 original size:2 final size:2
Alignment explanation
Indices: 10132171--10132203 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10132161 GATATGTGTT
10132171 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
10132204 TAAGCAACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10133507 original size:43 final size:43
Alignment explanation
Indices: 10133459--10133559 Score: 202
Period size: 43 Copynumber: 2.3 Consensus size: 43
10133449 CTATAAGAAC
10133459 AGGCGTATGAAGCTTGAAACTACCCAGCAACAGCAAACAACAT
1 AGGCGTATGAAGCTTGAAACTACCCAGCAACAGCAAACAACAT
10133502 AGGCGTATGAAGCTTGAAACTACCCAGCAACAGCAAACAACAT
1 AGGCGTATGAAGCTTGAAACTACCCAGCAACAGCAAACAACAT
10133545 AGGCGTATGAAGCTT
1 AGGCGTATGAAGCTT
10133560 TTAACACAAG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.16
Consensus pattern (43 bp):
AGGCGTATGAAGCTTGAAACTACCCAGCAACAGCAAACAACAT
Found at i:10140035 original size:78 final size:78
Alignment explanation
Indices: 10139924--10140131 Score: 294
Period size: 78 Copynumber: 2.7 Consensus size: 78
10139914 AAGATATTAA
* * * *
10139924 ATTTACATA-TGAGCACCATTATATCTTCATGTATAATAGGAATGCCGCATGCCCACTTATCACA
1 ATTTACATATTGA-CATCATTATACCTTAATGTATAATAGGAATGCCACATGCCCACTTATCACA
**
10139988 TGGACCTTTATCGT
65 TGGACCTGGATCGT
* *
10140002 ATTTACATATTGACATCATTATACCTTAATGTATAATAGAAATGCCACATAG-CCACTTATCATA
1 ATTTACATATTGACATCATTATACCTTAATGTATAATAGGAATGCCACAT-GCCCACTTATCACA
*
10140066 TGGACCTGGATGGT
65 TGGACCTGGATCGT
*
10140080 ATTTACATATTGGCATCATTATACCTTAATGTATAATAGGAATGCCACATGC
1 ATTTACATATTGACATCATTATACCTTAATGTATAATAGGAATGCCACATGC
10140132 TCATGCCTTG
Statistics
Matches: 116, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
77 1 0.01
78 111 0.96
79 4 0.03
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.34
Consensus pattern (78 bp):
ATTTACATATTGACATCATTATACCTTAATGTATAATAGGAATGCCACATGCCCACTTATCACAT
GGACCTGGATCGT
Found at i:10159799 original size:12 final size:12
Alignment explanation
Indices: 10159776--10159806 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
10159766 GTTTTCAAAG
10159776 TAAAAT-AAAAA
1 TAAAATAAAAAA
10159787 TAAAATAAAAAA
1 TAAAATAAAAAA
10159799 TAAAATAA
1 TAAAATAA
10159807 TATCTGAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.32
12 13 0.68
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (12 bp):
TAAAATAAAAAA
Found at i:10160189 original size:15 final size:15
Alignment explanation
Indices: 10160169--10160199 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10160159 TAATTGAGGT
*
10160169 TATTAATTTATCGAG
1 TATTAATTTATAGAG
10160184 TATTAATTTATAGAG
1 TATTAATTTATAGAG
10160199 T
1 T
10160200 TTTTACTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.03, G:0.13, T:0.48
Consensus pattern (15 bp):
TATTAATTTATAGAG
Found at i:10165459 original size:71 final size:71
Alignment explanation
Indices: 10165343--10165548 Score: 340
Period size: 71 Copynumber: 2.9 Consensus size: 71
10165333 ATAGGGCACT
*
10165343 TCAGGTAATTATAATAAGTTCACTATAACCTTCACCTGTAGAGAACATGATCATATGAGCTTAGA
1 TCAGGTAATTATAATAAGTTCAATATAACCTTCACCTGTAGAGAACATGATCATATGAGCTTAGA
10165408 TTTACC
66 TTTACC
10165414 TCAGGTAATTATAATAAGTTCAATATAACCTTCACCTGTAGAGAACATGATCATATGAGCTTAGA
1 TCAGGTAATTATAATAAGTTCAATATAACCTTCACCTGTAGAGAACATGATCATATGAGCTTAGA
10165479 TTTACC
66 TTTACC
* * * * * *
10165485 TCAGCTAATCATAATAAGTTCAATATAAGCTTCACCTATAGAGAAAAGTGATCATAGGAGCTTA
1 TCAGGTAATTATAATAAGTTCAATATAACCTTCACCTGTAGAGAACA-TGATCATATGAGCTTA
10165549 AAATTCTAGC
Statistics
Matches: 127, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
71 112 0.88
72 15 0.12
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (71 bp):
TCAGGTAATTATAATAAGTTCAATATAACCTTCACCTGTAGAGAACATGATCATATGAGCTTAGA
TTTACC
Found at i:10168738 original size:22 final size:21
Alignment explanation
Indices: 10168713--10168755 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
10168703 TAAAATATAT
*
10168713 AATATAGGAAATTATATTAAGA
1 AATAAAGGAAATTATA-TAAGA
**
10168735 AATAAATTAAATTATATAAGA
1 AATAAAGGAAATTATATAAGA
10168756 TTATAATAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (21 bp):
AATAAAGGAAATTATATAAGA
Found at i:10175258 original size:33 final size:32
Alignment explanation
Indices: 10175221--10175306 Score: 109
Period size: 33 Copynumber: 2.6 Consensus size: 32
10175211 TTTTAATGTC
*
10175221 ATATATTTTATTTTTATTTCTTATTATAATCTT
1 ATATATTTTATTTTTATTT-TTAGTATAATCTT
* *
10175254 ATATATTTTATTTTCATTTTTAGTATAATTTT
1 ATATATTTTATTTTTATTTTTAGTATAATCTT
* *
10175286 CTATATTATATATTTTATTTT
1 ATATATTTTAT-TTTTATTTT
10175307 AAATTTTTTC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
32 20 0.43
33 26 0.57
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.66
Consensus pattern (32 bp):
ATATATTTTATTTTTATTTTTAGTATAATCTT
Found at i:10175291 original size:32 final size:31
Alignment explanation
Indices: 10175221--10175306 Score: 100
Period size: 32 Copynumber: 2.6 Consensus size: 31
10175211 TTTTAATGTC
*
10175221 ATATATTTTATTTTTATTTCTTATTATAATCTT
1 ATATATTTTA-TTTTATTT-TTAGTATAATCTT
*
10175254 ATATATTTTATTTTCATTTTTAGTATAATTTT
1 ATATATTTTATTTT-ATTTTTAGTATAATCTT
*
10175286 CTATATTATATATTTTATTTT
1 ATATATT-T-TATTTTATTTT
10175307 AAATTTTTTC
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
32 21 0.45
33 20 0.43
34 6 0.13
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.66
Consensus pattern (31 bp):
ATATATTTTATTTTATTTTTAGTATAATCTT
Found at i:10180612 original size:76 final size:76
Alignment explanation
Indices: 10180483--10180628 Score: 220
Period size: 76 Copynumber: 1.9 Consensus size: 76
10180473 TAGTACTAAT
* * * *
10180483 CCACATTTTGTATAAGCATAAACTTATTCAGATTGCTTGCAGTTCTTTATAAAAAGATAACACAC
1 CCACATTTTGCATAAGCATAAACTTATCCAGATTGCTTACAGTCCTTTATAAAAAGATAACACAC
10180548 ACACACACACA
66 ACACACACACA
* * * *
10180559 CCACATTTTGCATAAGCATATACTTATCCGGATTGTTTACAGTCCTTTGTAAAAAGATAACACAC
1 CCACATTTTGCATAAGCATAAACTTATCCAGATTGCTTACAGTCCTTTATAAAAAGATAACACAC
10180624 ACACA
66 ACACA
10180629 TTGGAAATCC
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
76 62 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (76 bp):
CCACATTTTGCATAAGCATAAACTTATCCAGATTGCTTACAGTCCTTTATAAAAAGATAACACAC
ACACACACACA
Found at i:10186121 original size:29 final size:29
Alignment explanation
Indices: 10186079--10186156 Score: 138
Period size: 29 Copynumber: 2.7 Consensus size: 29
10186069 CCCCAGCTGC
10186079 CGACCTACCACACCATGCTCATCAGTTGT
1 CGACCTACCACACCATGCTCATCAGTTGT
10186108 CGACCTACCACACCATGCTCATCAGTTGT
1 CGACCTACCACACCATGCTCATCAGTTGT
* *
10186137 CGACCTACCACGCCAAGCTC
1 CGACCTACCACACCATGCTC
10186157 GGCTCCTTCA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.24, C:0.41, G:0.14, T:0.21
Consensus pattern (29 bp):
CGACCTACCACACCATGCTCATCAGTTGT
Found at i:10193853 original size:28 final size:28
Alignment explanation
Indices: 10193821--10193880 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
10193811 ACAACTCAAT
10193821 ACTGGCCAGTAATGAACCATTTGTTTTA
1 ACTGGCCAGTAATGAACCATTTGTTTTA
10193849 ACTGGCCAGTAATGAACCATTTGTTTTA
1 ACTGGCCAGTAATGAACCATTTGTTTTA
10193877 ACTG
1 ACTG
10193881 CCCAAGTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (28 bp):
ACTGGCCAGTAATGAACCATTTGTTTTA
Found at i:10195698 original size:2 final size:2
Alignment explanation
Indices: 10195693--10195724 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
10195683 ATATATCAGG
10195693 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10195725 CGATTATGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10196726 original size:18 final size:18
Alignment explanation
Indices: 10196662--10196727 Score: 53
Period size: 18 Copynumber: 3.3 Consensus size: 18
10196652 TCAACGGAAA
10196662 TTTCCGTTGGAAA-AATT
1 TTTCCGTTGGAAATAATT
10196679 ATTTCCGTTGGAAATGCCAAAATGTT
1 -TTTCCGTTGGAAAT-----AA--TT
10196705 TTTCCGTTGGAAATAATT
1 TTTCCGTTGGAAATAATT
10196723 TTTCC
1 TTTCC
10196728 AACGAAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 16
0.71 0.00 0.29
Matches are distributed among these distances:
18 20 0.50
20 2 0.05
24 2 0.05
25 14 0.35
26 2 0.05
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (18 bp):
TTTCCGTTGGAAATAATT
Found at i:10196773 original size:46 final size:45
Alignment explanation
Indices: 10196703--10196822 Score: 132
Period size: 45 Copynumber: 2.6 Consensus size: 45
10196693 TGCCAAAATG
**
10196703 TTTTTCCGTTGGAAATAATTTTTCCAACGAAAAAAATTCCAACAGA
1 TTTTTCCGTTGGAAATAGGTTTTCCAACG-AAAAAATTCCAACAGA
* * *** * *
10196749 TTTTTCCGTTGGAAATAGGCTTTCCAACGGAATTGTTCCAACTGG
1 TTTTTCCGTTGGAAATAGGTTTTCCAACGAAAAAATTCCAACAGA
* *
10196794 TTTTTCCATTGGAAATAGGTTTTTCAACG
1 TTTTTCCGTTGGAAATAGGTTTTCCAACG
10196823 GAAATTTCCA
Statistics
Matches: 62, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
45 36 0.58
46 26 0.42
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (45 bp):
TTTTTCCGTTGGAAATAGGTTTTCCAACGAAAAAATTCCAACAGA
Found at i:10196869 original size:29 final size:31
Alignment explanation
Indices: 10196795--10196869 Score: 86
Period size: 29 Copynumber: 2.5 Consensus size: 31
10196785 TCCAACTGGT
10196795 TTTTCCATTGGAAA-TAGGTTTTTCAACGGAAA
1 TTTT-CATTGGAAATTA-GTTTTTCAACGGAAA
* *
10196827 TTTCCAATGG-AATTA-TTTTTCAACGG-AA
1 TTTTCATTGGAAATTAGTTTTTCAACGGAAA
10196855 TTTTCATTGGAAATT
1 TTTTCATTGGAAATT
10196870 TCCAATAGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
28 10 0.27
29 15 0.41
30 2 0.05
31 7 0.19
32 3 0.08
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (31 bp):
TTTTCATTGGAAATTAGTTTTTCAACGGAAA
Found at i:10201982 original size:11 final size:11
Alignment explanation
Indices: 10201930--10202011 Score: 62
Period size: 11 Copynumber: 7.3 Consensus size: 11
10201920 TTATTTAAAG
10201930 TATTAATAATT
1 TATTAATAATT
**
10201941 TA-TAATGAAAA
1 TATTAAT-AATT
*
10201952 TATTGATAATT
1 TATTAATAATT
10201963 T-TTAATAATAGTT
1 TATTAAT-A-A-TT
10201976 TATTAATAATT
1 TATTAATAATT
10201987 TA-TAATTAATT
1 TATTAA-TAATT
*
10201998 TTTTAATAATT
1 TATTAATAATT
10202009 TAT
1 TAT
10202012 CTCTATAATT
Statistics
Matches: 55, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
10 11 0.20
11 27 0.49
12 8 0.15
13 4 0.07
14 5 0.09
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (11 bp):
TATTAATAATT
Found at i:10202011 original size:22 final size:22
Alignment explanation
Indices: 10201932--10202011 Score: 72
Period size: 22 Copynumber: 3.5 Consensus size: 22
10201922 ATTTAAAGTA
* ** *
10201932 TTAATAATTTATAATGAAAATA
1 TTAATAATTTATAATTAATTTT
* *
10201954 TTGATAATTTTTAA-TAATAGTTT
1 TTAATAATTTATAATTAAT--TTT
10201977 ATTAATAATTTATAATTAATTTT
1 -TTAATAATTTATAATTAATTTT
10202000 TTAATAATTTAT
1 TTAATAATTTAT
10202012 CTCTATAATT
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
21 2 0.04
22 24 0.52
23 4 0.09
24 12 0.26
25 4 0.09
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (22 bp):
TTAATAATTTATAATTAATTTT
Found at i:10202159 original size:42 final size:43
Alignment explanation
Indices: 10202063--10202144 Score: 112
Period size: 42 Copynumber: 1.9 Consensus size: 43
10202053 TGATAATTTA
* * * *
10202063 TATAAAGTATTAATAGTTTATAATTAAAACATTAAGAATTCAT
1 TATAAATTTTTAATAATTTATAAATAAAACATTAAGAATTCAT
*
10202106 TATAAATTTTTAATAATTTA-AAATAAAACATTAATAATT
1 TATAAATTTTTAATAATTTATAAATAAAACATTAAGAATT
10202145 TGTTAACATA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
42 17 0.50
43 17 0.50
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (43 bp):
TATAAATTTTTAATAATTTATAAATAAAACATTAAGAATTCAT
Found at i:10202261 original size:19 final size:19
Alignment explanation
Indices: 10202221--10202262 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
10202211 AAAAGATTAA
* *
10202221 TAATTTATATATAATATTT
1 TAATTTATATATAAAATAT
10202240 TAATTTATA-ATTAAAATAT
1 TAATTTATATA-TAAAATAT
10202259 TAAT
1 TAAT
10202263 AATATTGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATTTATATATAAAATAT
Found at i:10205201 original size:45 final size:45
Alignment explanation
Indices: 10205133--10205268 Score: 245
Period size: 45 Copynumber: 3.0 Consensus size: 45
10205123 TTATGATGAC
* *
10205133 GCCTTGTTTTAGAGTTGAGCGTCAAACTCTAAGCTTTTTGTCTAT
1 GCCTTGTTTTGGAGTTGACCGTCAAACTCTAAGCTTTTTGTCTAT
10205178 GCCTTGTTTTGGAGTTGACCGTCAAACTCTAAGCTTTTTGTCTAT
1 GCCTTGTTTTGGAGTTGACCGTCAAACTCTAAGCTTTTTGTCTAT
*
10205223 GCCTTGTTTTGGAGTTGACCGTCAAACTCTAAGCATTTTGTCTAT
1 GCCTTGTTTTGGAGTTGACCGTCAAACTCTAAGCTTTTTGTCTAT
10205268 G
1 G
10205269 GGGACAATCA
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 88 1.00
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (45 bp):
GCCTTGTTTTGGAGTTGACCGTCAAACTCTAAGCTTTTTGTCTAT
Found at i:10214095 original size:21 final size:21
Alignment explanation
Indices: 10214069--10214113 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
10214059 GCTAAAGGGA
10214069 ATGATGACAACGAAGATGATG
1 ATGATGACAACGAAGATGATG
*
10214090 ATGATGACGACGAAGATGATG
1 ATGATGACAACGAAGATGATG
10214111 ATG
1 ATG
10214114 GAAGTGATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.40, C:0.09, G:0.31, T:0.20
Consensus pattern (21 bp):
ATGATGACAACGAAGATGATG
Found at i:10216774 original size:27 final size:27
Alignment explanation
Indices: 10216733--10216898 Score: 100
Period size: 26 Copynumber: 6.1 Consensus size: 27
10216723 TTAGATAAAC
*
10216733 AATATTAATAATTAAATAATCAATTATT
1 AATATTTA-AATTAAATAATCAATTATT
* *
10216761 AATATTTAAATT-AATTACCAATTATT
1 AATATTTAAATTAAATAATCAATTATT
* **
10216787 AATATTTAAAAAATAAAATAAAAAATTAATCAT
1 AATATTT---AAATTAAATAATCAATT-AT--T
10216820 AATAAAATTTAAATTAAATAA--AA-TATT
1 AAT---ATTTAAATTAAATAATCAATTATT
*
10216847 AATATTTAAA-T---T-ATCTATTATT
1 AATATTTAAATTAAATAATCAATTATT
10216869 AATATTTTAAA-TAAATAATCAATTATT
1 AATA-TTTAAATTAAATAATCAATTATT
10216896 AAT
1 AAT
10216899 TTTCAAAAAT
Statistics
Matches: 110, Mismatches: 10, Indels: 37
0.70 0.06 0.24
Matches are distributed among these distances:
19 1 0.01
20 1 0.01
21 1 0.01
22 8 0.07
23 8 0.07
24 7 0.06
26 20 0.18
27 20 0.18
28 7 0.06
29 6 0.05
30 9 0.08
31 4 0.04
33 14 0.13
36 4 0.04
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (27 bp):
AATATTTAAATTAAATAATCAATTATT
Found at i:10216786 original size:26 final size:25
Alignment explanation
Indices: 10216716--10216796 Score: 89
Period size: 26 Copynumber: 3.3 Consensus size: 25
10216706 ACATAATATC
*
10216716 ATTTAAATTAGATAAACAA-TATTAAT
1 ATTTAAATTA-AT-TACAATTATTAAT
*
10216742 AATTAAA-TAA-T-CAATTATTAAT
1 ATTTAAATTAATTACAATTATTAAT
10216764 ATTTAAATTAATTACCAATTATTAAT
1 ATTTAAATTAATTA-CAATTATTAAT
10216790 ATTTAAA
1 ATTTAAA
10216797 AAATAAAATA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
21 3 0.06
22 13 0.28
23 3 0.06
24 2 0.04
25 2 0.04
26 24 0.51
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (25 bp):
ATTTAAATTAATTACAATTATTAAT
Found at i:10216872 original size:108 final size:111
Alignment explanation
Indices: 10216603--10216967 Score: 332
Period size: 114 Copynumber: 3.2 Consensus size: 111
10216593 AATATTAATA
* * * **
10216603 TTAAATTATAAAATAAATATTAATATTTAAATTATCAATTATTAATA----AAATAAATTATAAA
1 TTAAATTA-AATA-AAATATTAATATTTAAATAATCAATTATTAATATTTTAAATAAATAACCAA
* * * * * * **
10216664 TTATTCCTATTTAAAAACAAAATAAATTAAAATTAAACTAAAACATAATATCAT
64 TTATT--AATTT-TAAATAAAATAAAATAAAA-T-AA-TTAATCATAATAAAAT
* * * *
10216718 TTAAATTAGATAAACAATATTAATAATTAAATAATCAATTATTAATA-TTTAAATTAATTACCAA
1 TTAAATTAAAT-AA-AATATTAATATTTAAATAATCAATTATTAATATTTTAAATAAATAACCAA
10216782 TTATTAATATTT-AA-AAAATAAAATAAAA-AATTAATCATAATAAAAT
64 TTATTAAT-TTTAAATAAAATAAAATAAAATAATTAATCATAATAAAAT
* * *
10216828 TTAAATTAAATAAAATATTAATATTTAAATTATCTATTATTAATATTTTAAATAAATAATCAATT
1 TTAAATTAAATAAAATATTAATATTTAAATAATCAATTATTAATATTTTAAATAAATAACCAATT
* * *
10216893 ATTAATTTTCAAAAATAAAATAAAATAAAATAATTGATCATCATAATAT
66 ATTAATTTT---AAATAAAATAAAATAAAATAATTAATCATAATAAAAT
*
10216942 TTAAATTAAATTAAATATTAATATTT
1 TTAAATTAAATAAAATATTAATATTT
10216968 TAAAAAATAA
Statistics
Matches: 212, Mismatches: 25, Indels: 27
0.80 0.09 0.10
Matches are distributed among these distances:
108 32 0.15
109 24 0.11
110 22 0.10
111 2 0.01
112 2 0.01
113 14 0.07
114 55 0.26
115 41 0.19
116 2 0.01
117 2 0.01
118 16 0.08
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.39
Consensus pattern (111 bp):
TTAAATTAAATAAAATATTAATATTTAAATAATCAATTATTAATATTTTAAATAAATAACCAATT
ATTAATTTTAAATAAAATAAAATAAAATAATTAATCATAATAAAAT
Found at i:10216914 original size:75 final size:74
Alignment explanation
Indices: 10216830--10217060 Score: 263
Period size: 75 Copynumber: 3.2 Consensus size: 74
10216820 AATAAAATTT
*
10216830 AAATTAAATAAAATATTAATATTTAAATTATCTATTATTAATATTTTAAATAAATAATCAATTAT
1 AAATAAAATAAAATATTAATATTTAAATTATC-ATTATTAATATTTTAAATAAAT-ATCAATTAT
*
10216895 TAAT-TTTCAA
64 TAATATTTTAA
* *
10216905 AAATAAAATAAAATA--AA-A--T-AATTGATCATCA-TAATA-TTTAAATTAAAT-T-AAATAT
1 AAATAAAATAAAATATTAATATTTAAATT-ATCATTATTAATATTTTAAA-TAAATATCAATTAT
10216960 TAATATTTTAA
64 TAATATTTTAA
*
10216971 AAA-ATAAAT-AAATATTAATATTGAAATTATCAATTATTAATATTTTAAATAAATTATCAATTA
1 AAATA-AAATAAAATATTAATATTTAAATTATC-ATTATTAATATTTTAAATAAA-TATCAATTA
10217034 TTAATATTTTAA
63 TTAATATTTTAA
10217046 AAATAAAATAAAATA
1 AAATAAAATAAAATA
10217061 AAAATTAATC
Statistics
Matches: 131, Mismatches: 7, Indels: 35
0.76 0.04 0.20
Matches are distributed among these distances:
65 15 0.11
66 13 0.10
67 8 0.06
68 11 0.08
69 7 0.05
70 7 0.05
71 7 0.05
72 10 0.08
73 9 0.07
74 1 0.01
75 37 0.28
76 6 0.05
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (74 bp):
AAATAAAATAAAATATTAATATTTAAATTATCATTATTAATATTTTAAATAAATATCAATTATTA
ATATTTTAA
Found at i:10216952 original size:68 final size:68
Alignment explanation
Indices: 10216868--10217093 Score: 227
Period size: 75 Copynumber: 3.3 Consensus size: 68
10216858 TATCTATTAT
*
10216868 TAATATTTTAAATAAATAATCAATTATTAAT-TTTCAAAAATAAAATAAAATAAAATAATTGATC
1 TAATATTTTAAATAAATAATCAATTATTAATATTTTAAAAATAAAATAAAATAAAATAATT-ATC
*
10216932 ATCA
65 ATAA
* *
10216936 TAATA-TTTAAATTAAAT--T-AAATATTAATATTTTAAAAA-ATAAATAAATATTAATATTGAA
1 TAATATTTTAAA-TAAATAATCAATTATTAATATTTTAAAAATA-AAATAAA-A-TAA-AAT--A
*
10216996 ATTATCAATTAT
59 ATTATC-A-TAA
*
10217008 TAATATTTTAAATAAATTATCAATTATTAATATTTTAAAAATAAAATAAAAT-AAA-AATTAATC
1 TAATATTTTAAATAAATAATCAATTATTAATATTTTAAAAATAAAATAAAATAAAATAATT-ATC
10217071 ATAA
65 ATAA
10217075 TAATA-TTTAAATTAAATAA
1 TAATATTTTAAA-TAAATAA
10217094 ATGTTAATAT
Statistics
Matches: 132, Mismatches: 9, Indels: 35
0.75 0.05 0.20
Matches are distributed among these distances:
65 10 0.08
66 22 0.17
67 20 0.15
68 18 0.14
69 5 0.04
70 3 0.02
71 6 0.05
72 12 0.09
73 7 0.05
74 2 0.02
75 26 0.20
76 1 0.01
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (68 bp):
TAATATTTTAAATAAATAATCAATTATTAATATTTTAAAAATAAAATAAAATAAAATAATTATCA
TAA
Found at i:10216999 original size:140 final size:139
Alignment explanation
Indices: 10216834--10217105 Score: 440
Period size: 140 Copynumber: 1.9 Consensus size: 139
10216824 AAATTTAAAT
* *
10216834 TAAATAAAATATTAATATTTAAATTATCTATTATTAATATTTTAAATAAATAATCAATTATTAAT
1 TAAATAAAATATTAATATTGAAATTATCAATTATTAATATTTTAAATAAATAATCAATTATTAAT
* *
10216899 -TTTCAAAAATAAAATAAAATAAAATAATTGATCATCATAATATTTAAATTAAATTAAATATTAA
66 ATTTCAAAAATAAAATAAAAT-AAA-AATTAATCATAATAATATTTAAATTAAA-TAAATATTAA
10216963 TATTTTAAAAAA
128 TATTTTAAAAAA
*
10216975 TAAAT-AAATATTAATATTGAAATTATCAATTATTAATATTTTAAATAAATTATCAATTATTAAT
1 TAAATAAAATATTAATATTGAAATTATCAATTATTAATATTTTAAATAAATAATCAATTATTAAT
* *
10217039 ATTTTAAAAATAAAATAAAATAAAAATTAATCATAATAATATTTAAATTAAATAAATGTTAATAT
66 ATTTCAAAAATAAAATAAAATAAAAATTAATCATAATAATATTTAAATTAAATAAATATTAATAT
10217104 TT
131 TT
10217106 AAATTATTAA
Statistics
Matches: 123, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
138 14 0.11
139 26 0.21
140 59 0.48
141 24 0.20
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (139 bp):
TAAATAAAATATTAATATTGAAATTATCAATTATTAATATTTTAAATAAATAATCAATTATTAAT
ATTTCAAAAATAAAATAAAATAAAAATTAATCATAATAATATTTAAATTAAATAAATATTAATAT
TTTAAAAAA
Found at i:10217026 original size:27 final size:27
Alignment explanation
Indices: 10216994--10217046 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
10216984 ATTAATATTG
10216994 AAATTATCAATTATTAATATTTTAAAT
1 AAATTATCAATTATTAATATTTTAAAT
10217021 AAATTATCAATTATTAATATTTTAAA
1 AAATTATCAATTATTAATATTTTAAA
10217047 AATAAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (27 bp):
AAATTATCAATTATTAATATTTTAAAT
Found at i:10217101 original size:23 final size:23
Alignment explanation
Indices: 10216936--10217136 Score: 125
Period size: 22 Copynumber: 8.7 Consensus size: 23
10216926 TTGATCATCA
10216936 TAATATTTAAATTAAATTAAATAT
1 TAATATTTAAATTAAA-TAAATAT
*
10216960 TAATATTTTAAAAAATAAATAAATAT
1 TAATA-TTT--AAATTAAATAAATAT
* *
10216986 TAATATTGAAATT--ATCAATTAT
1 TAATATTTAAATTAAAT-AAATAT
10217008 TAATATTTTAAA-TAAATTATCAATTAT
1 TAATA-TTTAAATTAAA-TA--AA-TAT
*
10217035 TAATATTTTAA--AAATAAA-A-
1 TAATATTTAAATTAAATAAATAT
* ** * *
10217054 TAAAATAAAAATT-AAT-CATAA
1 TAATATTTAAATTAAATAAATAT
*
10217075 TAATATTTAAATTAAATAAATGT
1 TAATATTTAAATTAAATAAATAT
* *
10217098 TAATATTTAAATT-ATTAATTAT
1 TAATATTTAAATTAAATAAATAT
*
10217120 TAATATTTTAATTAAAT
1 TAATATTTAAATTAAAT
10217137 TCTAGATTAT
Statistics
Matches: 136, Mismatches: 23, Indels: 37
0.69 0.12 0.19
Matches are distributed among these distances:
19 8 0.06
20 5 0.04
21 12 0.09
22 34 0.25
23 26 0.19
24 9 0.07
25 9 0.07
26 18 0.13
27 15 0.11
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (23 bp):
TAATATTTAAATTAAATAAATAT
Found at i:10217127 original size:22 final size:23
Alignment explanation
Indices: 10217075--10217157 Score: 87
Period size: 22 Copynumber: 3.5 Consensus size: 23
10217065 TTAATCATAA
* * *
10217075 TAATATTTAAATTAAATAAATGT
1 TAATATTTAAATTAATTAATTAT
10217098 TAATATTTAAATT-ATTAATTAT
1 TAATATTTAAATTAATTAATTAT
*
10217120 TAATATTTTAATTAAATTCTAGATTAT
1 TAATATTTAAATT-AA-T-TA-ATTAT
10217147 TAATATTTAAA
1 TAATATTTAAA
10217158 AAATCTAATA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
22 18 0.36
23 13 0.26
24 1 0.02
25 1 0.02
26 2 0.04
27 15 0.30
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.49
Consensus pattern (23 bp):
TAATATTTAAATTAATTAATTAT
Found at i:10217186 original size:112 final size:113
Alignment explanation
Indices: 10216975--10217192 Score: 300
Period size: 112 Copynumber: 1.9 Consensus size: 113
10216965 TTTTAAAAAA
10216975 TAAATAAATATTAATATTGAAATTATCAATTATTAATATTTTAAATAAATTATCAATTATTAATA
1 TAAATAAATATTAATATTGAAATTATCAATTATTAATATTTTAAATAAATTATCAATTATTAATA
*
10217040 TTTTAAAAATAAAATAAAATAAAAATTAATCAT-AATAATATTTAAAT
66 TTTAAAAAATAAAATAAAATAAAAATTAATCATAAATAATATTTAAAT
* * * * *
10217087 TAAATAAATGTTAATATTTAAATTATTAATTATTAATATTTTAATTAAATTCT-AGATTATTAAT
1 TAAATAAATATTAATATTGAAATTATCAATTATTAATATTTTAAATAAATTATCA-ATTATTAAT
** *
10217151 ATTTAAAAAATCTAATAAAA-ATAAAATGTCA-CATAAATAATA
65 ATTTAAAAAATAAAATAAAATA-AAAAT-TAATCATAAATAATA
10217193 AAGGGTGTTT
Statistics
Matches: 93, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
111 2 0.02
112 82 0.88
113 9 0.10
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (113 bp):
TAAATAAATATTAATATTGAAATTATCAATTATTAATATTTTAAATAAATTATCAATTATTAATA
TTTAAAAAATAAAATAAAATAAAAATTAATCATAAATAATATTTAAAT
Found at i:10217602 original size:22 final size:21
Alignment explanation
Indices: 10217560--10217621 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
10217550 TATGAGGTAA
10217560 TTTATTAATAAAGTAATTATT
1 TTTATTAATAAAGTAATTATT
*
10217581 TTTATGTATATAAA-TATTTATT
1 TTTAT-TA-ATAAAGTAATTATT
*
10217603 TATTTTTAAT--AGTAATTAT
1 T-TTATTAATAAAGTAATTAT
10217622 ATATAAATAC
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
19 1 0.03
20 6 0.18
21 7 0.21
22 12 0.35
23 8 0.24
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (21 bp):
TTTATTAATAAAGTAATTATT
Found at i:10219153 original size:36 final size:36
Alignment explanation
Indices: 10219101--10219169 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
10219091 TGAAATAGAG
*
10219101 TTTAATACAATACCTTTTGTGGATT-AAGTACAATCT
1 TTTAATACAATACCTTTTATGG-TTAAAGTACAATCT
* *
10219137 TTTAATACGATGCCTTTTATGGTTAAAGTACAA
1 TTTAATACAATACCTTTTATGGTTAAAGTACAA
10219170 CCATTTCACC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 2 0.07
36 27 0.93
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (36 bp):
TTTAATACAATACCTTTTATGGTTAAAGTACAATCT
Found at i:10219800 original size:60 final size:61
Alignment explanation
Indices: 10219687--10219820 Score: 162
Period size: 60 Copynumber: 2.2 Consensus size: 61
10219677 GGCCATTCTA
* * * *
10219687 TTGAAAATGTATCGATACTTTTGAGGTAACAAGCATTCTATTAAAAATGTATCGATATA-T
1 TTGAGAATGTATCAATACTTTTGAGGTAACAAGCATTCTATTAAAAATCTATCGATACATT
* * * ** **
10219747 TTGAGAATGTATCAATACTTTTGAGGTAATAAGTATTTTATTGTATTTCTATCGATACATT
1 TTGAGAATGTATCAATACTTTTGAGGTAACAAGCATTCTATTAAAAATCTATCGATACATT
10219808 TTGAGAATGTATC
1 TTGAGAATGTATC
10219821 GATAGATTGA
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
60 48 0.77
61 14 0.23
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (61 bp):
TTGAGAATGTATCAATACTTTTGAGGTAACAAGCATTCTATTAAAAATCTATCGATACATT
Found at i:10221954 original size:26 final size:26
Alignment explanation
Indices: 10221918--10221968 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
10221908 GGAAAAAGAA
10221918 AGAAAATGGTAAAGAACATGTGTTTC
1 AGAAAATGGTAAAGAACATGTGTTTC
10221944 AGAAAATGGTAAAGAACATGTGTTT
1 AGAAAATGGTAAAGAACATGTGTTT
10221969 TAAAAAAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.43, C:0.06, G:0.24, T:0.27
Consensus pattern (26 bp):
AGAAAATGGTAAAGAACATGTGTTTC
Found at i:10221975 original size:26 final size:26
Alignment explanation
Indices: 10221920--10221984 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
10221910 AAAAAGAAAG
*
10221920 AAAATGGTAAAGAACATGTGTTTCAG
1 AAAATGGTAAAGAACATGTGTTTCAA
*
10221946 AAAATGGTAAAGAACATGTGTTTTAA
1 AAAATGGTAAAGAACATGTGTTTCAA
* *
10221972 AAAAAGGTTAAGA
1 AAAATGGTAAAGA
10221985 GGAAATCCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.48, C:0.05, G:0.22, T:0.26
Consensus pattern (26 bp):
AAAATGGTAAAGAACATGTGTTTCAA
Found at i:10223042 original size:2 final size:2
Alignment explanation
Indices: 10223035--10223083 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
10223025 CTTCTGTACT
10223035 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10223077 TA TA TA T
1 TA TA TA T
10223084 TTGATATCAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10232283 original size:25 final size:25
Alignment explanation
Indices: 10232255--10232311 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
10232245 TTAGATTGTT
10232255 AAATATGTTATTAA-AAAAAA-AGCAA
1 AAATATGTTA--AAGAAAAAAGAGCAA
*
10232280 AAATGTGTTAAAGAAAAAAGAGCAA
1 AAATATGTTAAAGAAAAAAGAGCAA
10232305 AAATATG
1 AAATATG
10232312 AAAGAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 2 0.07
24 6 0.21
25 20 0.71
ACGTcount: A:0.61, C:0.04, G:0.14, T:0.21
Consensus pattern (25 bp):
AAATATGTTAAAGAAAAAAGAGCAA
Found at i:10232315 original size:23 final size:24
Alignment explanation
Indices: 10232268--10232317 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
10232258 TATGTTATTA
*
10232268 AAAAAAAAGCAAAAATGTGTTAAAG
1 AAAAAAAAGCAAAAATATG-TAAAG
*
10232293 AAAAAAGAGCAAAAATATG-AAAG
1 AAAAAAAAGCAAAAATATGTAAAG
10232316 AA
1 AA
10232318 TTAAGAGAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 6 0.26
25 17 0.74
ACGTcount: A:0.68, C:0.04, G:0.16, T:0.12
Consensus pattern (24 bp):
AAAAAAAAGCAAAAATATGTAAAG
Found at i:10247590 original size:2 final size:2
Alignment explanation
Indices: 10247583--10247620 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
10247573 NNNNNNNNNN
10247583 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10247621 TACAAGACAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10247799 original size:16 final size:16
Alignment explanation
Indices: 10247757--10247805 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 16
10247747 AAGCTCTCTT
10247757 TAAGTATATATAT-CA
1 TAAGTATATATATACA
*
10247772 TAAGTTTATATATACA
1 TAAGTATATATATACA
10247788 -ATAGTATATATATA-A
1 TA-AGTATATATATACA
10247803 TAA
1 TAA
10247806 TTAATAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
15 15 0.52
16 14 0.48
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.41
Consensus pattern (16 bp):
TAAGTATATATATACA
Found at i:10247827 original size:15 final size:17
Alignment explanation
Indices: 10247809--10247841 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
10247799 ATAATAATTA
10247809 ATAA-TTTTATAA-GTT
1 ATAATTTTTATAATGTT
10247824 ATAATTTTTATAATGTT
1 ATAATTTTTATAATGTT
10247841 A
1 A
10247842 ACAAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 8 0.50
17 4 0.25
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
ATAATTTTTATAATGTT
Found at i:10249484 original size:3 final size:3
Alignment explanation
Indices: 10249476--10249518 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
10249466 CTATTCCCTC
10249476 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
10249519 GAATAAATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:10250400 original size:25 final size:26
Alignment explanation
Indices: 10250369--10250473 Score: 97
Period size: 25 Copynumber: 4.1 Consensus size: 26
10250359 AATTCTAATT
10250369 ATAATTTTACCACCAGAAGTGGAT-A
1 ATAATTTTACCACCAGAAGTGGATGA
** * * ** **
10250394 ATAATTTTAGTATCAGGA-TCTAAAA
1 ATAATTTTACCACCAGAAGTGGATGA
* * *
10250419 ATAATTTTACCATCAAAAGTGGATGG
1 ATAATTTTACCACCAGAAGTGGATGA
10250445 ATAATTTTACCACCAGAAGTGGATGA
1 ATAATTTTACCACCAGAAGTGGATGA
10250471 ATA
1 ATA
10250474 CCCATCAAAA
Statistics
Matches: 59, Mismatches: 19, Indels: 3
0.73 0.23 0.04
Matches are distributed among these distances:
24 2 0.03
25 29 0.49
26 28 0.47
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.30
Consensus pattern (26 bp):
ATAATTTTACCACCAGAAGTGGATGA
Found at i:10250452 original size:26 final size:26
Alignment explanation
Indices: 10250419--10250469 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
10250409 GGATCTAAAA
*
10250419 ATAATTTTACCATCAAAAGTGGATGG
1 ATAATTTTACCACCAAAAGTGGATGG
*
10250445 ATAATTTTACCACCAGAAGTGGATG
1 ATAATTTTACCACCAAAAGTGGATG
10250470 AATACCCATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (26 bp):
ATAATTTTACCACCAAAAGTGGATGG
Found at i:10250515 original size:50 final size:47
Alignment explanation
Indices: 10250428--10250523 Score: 129
Period size: 50 Copynumber: 2.0 Consensus size: 47
10250418 AATAATTTTA
* * *
10250428 CCATCAAAAGTGGATGGATAATTTTACCACCAGAAGTGGATGAATAC
1 CCATCAAAAGTGGATGAATAATTTAACCACCAAAAGTGGATGAATAC
*
10250475 CCATCAAAAAGTGGATGAATACTTTCAACCCACCAAAAGTGGATGAATA
1 CCATC-AAAAGTGGATGAATAATTT-AA-CCACCAAAAGTGGATGAATA
10250524 ATGAAAATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
47 5 0.12
48 17 0.40
49 1 0.02
50 19 0.45
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (47 bp):
CCATCAAAAGTGGATGAATAATTTAACCACCAAAAGTGGATGAATAC
Found at i:10254974 original size:13 final size:13
Alignment explanation
Indices: 10254956--10254980 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10254946 AGAGAAATTG
10254956 TGATTTTATAAAA
1 TGATTTTATAAAA
10254969 TGATTTTATAAA
1 TGATTTTATAAA
10254981 TTTTCTGAAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:10257990 original size:17 final size:17
Alignment explanation
Indices: 10257970--10258005 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
10257960 TTCACTCAGA
*
10257970 TTTTTTCCCA-TGAGGT
1 TTTTTTCCCAGTAAGGT
10257986 TTTTTTCCCAGTAAGGT
1 TTTTTTCCCAGTAAGGT
10258003 TTT
1 TTT
10258006 AACGAGGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.14, C:0.17, G:0.17, T:0.53
Consensus pattern (17 bp):
TTTTTTCCCAGTAAGGT
Found at i:10263561 original size:14 final size:12
Alignment explanation
Indices: 10263531--10263560 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10263521 TTTTTTTTAT
10263531 TCTCTCATTTTC
1 TCTCTCATTTTC
*
10263543 ACTCTCATTTTC
1 TCTCTCATTTTC
10263555 TCTCTC
1 TCTCTC
10263561 TAAAGTGCAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.10, C:0.37, G:0.00, T:0.53
Consensus pattern (12 bp):
TCTCTCATTTTC
Found at i:10266077 original size:2 final size:2
Alignment explanation
Indices: 10266070--10266099 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10266060 CTGTCACATG
10266070 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
10266100 ATAATCGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:10272433 original size:3 final size:3
Alignment explanation
Indices: 10272425--10272460 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
10272415 TGCCACCAGG
*
10272425 TAT TAT TAT TAT T-T TTT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
10272461 CAATTTGAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TAT
Found at i:10278088 original size:34 final size:34
Alignment explanation
Indices: 10278050--10278123 Score: 112
Period size: 34 Copynumber: 2.2 Consensus size: 34
10278040 TTTTGGCGTG
10278050 TAACATCTAGTGATGAAACTTTGACCTTAGCATA
1 TAACATCTAGTGATGAAACTTTGACCTTAGCATA
* * * *
10278084 TAACATCTAGTGTTGAAGCTTTGACCTTGGCATG
1 TAACATCTAGTGATGAAACTTTGACCTTAGCATA
10278118 TAACAT
1 TAACAT
10278124 TTGCTACTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34
Consensus pattern (34 bp):
TAACATCTAGTGATGAAACTTTGACCTTAGCATA
Found at i:10278103 original size:124 final size:126
Alignment explanation
Indices: 10277893--10278157 Score: 338
Period size: 124 Copynumber: 2.1 Consensus size: 126
10277883 TAACCTTGGC
* * ** * *
10277893 GTGTAACATCTTCTGCTTTGGCTTTGGTGCATGTAACATCTAGTGCTGAAGCTTTGGTTTTGACG
1 GTGTAACATCTTCTGCTTTGGCTTTGGTGCATGTAACATCTAGTGATGAAACTTTGCCTTAGACA
* * *
10277958 TATGACATATGGTGTTAAAGCTTTAACCTTAGCATGTAACATTTACTACTGAAGTTTTCGT
66 TATAACATATAGTGTTAAAGCTTTAACCTTAGCATGTAACATTTACTACTAAAGTTTTCGT
* *
10278019 GTGTAACATCTTCTGCTTTGG-TTTTG-GCGTGTAACATCTAGTGATGAAACTTTGACCTTAG-C
1 GTGTAACATCTTCTGCTTTGGCTTTGGTGCATGTAACATCTAGTGATGAAACTTTG-CCTTAGAC
* * * * * *
10278081 ATATAACATCTAGTGTTGAAGCTTTGACCTTGGCATGTAACATTTGCTACTAAAGTTTTTGT
65 ATATAACATATAGTGTTAAAGCTTTAACCTTAGCATGTAACATTTACTACTAAAGTTTTCGT
*
10278143 ATGTAACATCTTCTG
1 GTGTAACATCTTCTG
10278158 TTGAAGCATG
Statistics
Matches: 120, Mismatches: 18, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
124 92 0.77
125 7 0.06
126 21 0.17
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (126 bp):
GTGTAACATCTTCTGCTTTGGCTTTGGTGCATGTAACATCTAGTGATGAAACTTTGCCTTAGACA
TATAACATATAGTGTTAAAGCTTTAACCTTAGCATGTAACATTTACTACTAAAGTTTTCGT
Found at i:10279678 original size:21 final size:19
Alignment explanation
Indices: 10279647--10279687 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
10279637 TAAACATTAT
*
10279647 AAAAGAAAAAATGAAAAAA
1 AAAAGAAAAAATCAAAAAA
10279666 AAAAGAGAGAAAATCAAAAAA
1 AAAAGA-A-AAAATCAAAAAA
10279687 A
1 A
10279688 TCATAAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 1 0.05
21 12 0.63
ACGTcount: A:0.80, C:0.02, G:0.12, T:0.05
Consensus pattern (19 bp):
AAAAGAAAAAATCAAAAAA
Found at i:10279709 original size:13 final size:14
Alignment explanation
Indices: 10279683--10279715 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
10279673 AGAAAATCAA
10279683 AAAAATCATAAAAC
1 AAAAATCATAAAAC
10279697 AAAAATCAT-AAAC
1 AAAAATCATAAAAC
10279710 AAAAAT
1 AAAAAT
10279716 GAATTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (14 bp):
AAAAATCATAAAAC
Found at i:10280290 original size:36 final size:36
Alignment explanation
Indices: 10280250--10280341 Score: 150
Period size: 36 Copynumber: 2.6 Consensus size: 36
10280240 AGAAGGAGGC
10280250 CGGCGGGCATAGAGAGAGAGGGAGAGAGCT-GATCGT
1 CGGCGGGCATAGAGAGAGAGGGAGAGAG-TAGATCGT
*
10280286 CGGCGGGCATAGAGAAAGAGGGAGAGAGTAGATCGT
1 CGGCGGGCATAGAGAGAGAGGGAGAGAGTAGATCGT
*
10280322 CGACGGGCATAGAGAGAGAG
1 CGGCGGGCATAGAGAGAGAG
10280342 AGAGCTCGAT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
35 1 0.02
36 51 0.98
ACGTcount: A:0.32, C:0.13, G:0.46, T:0.10
Consensus pattern (36 bp):
CGGCGGGCATAGAGAGAGAGGGAGAGAGTAGATCGT
Found at i:10280868 original size:17 final size:17
Alignment explanation
Indices: 10280848--10280881 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
10280838 AAAGAAAAAC
10280848 ATATAAAA-AAAGCATAA
1 ATATAAAAGAAAG-ATAA
10280865 ATATAAAAGAAAGATAA
1 ATATAAAAGAAAGATAA
10280882 GGGTGAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.71, C:0.03, G:0.09, T:0.18
Consensus pattern (17 bp):
ATATAAAAGAAAGATAA
Found at i:10280996 original size:76 final size:77
Alignment explanation
Indices: 10280923--10281081 Score: 259
Period size: 76 Copynumber: 2.1 Consensus size: 77
10280913 GCAAAAATGG
10280923 AAAATAGAAAAATGAATGAATATATTTGATTATGTGAATTTATATAGGTAACATAGGAATGAA-T
1 AAAATA-AAAAATGAATGAATATATTTGATTATGTGAATTTATATAGGTAACATAGGAATGAATT
10280987 TTTGAAAAATAAA
65 TTTGAAAAATAAA
***
10281000 AAAATAAATTNTGAATGAATATATTTGATTATGTGAATTTATATAGGTAACATAGGAATGAATTT
1 AAAATAAAAAATGAATGAATATATTTGATTATGTGAATTTATATAGGTAACATAGGAATGAATTT
10281065 TTG-AAAATAAA
66 TTGAAAAATAAA
*
10281076 TAAATA
1 AAAATA
10281082 GAATTCTCAT
Statistics
Matches: 77, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
76 66 0.86
77 11 0.14
ACGTcount: A:0.49, C:0.01, G:0.14, T:0.35
Consensus pattern (77 bp):
AAAATAAAAAATGAATGAATATATTTGATTATGTGAATTTATATAGGTAACATAGGAATGAATTT
TTGAAAAATAAA
Found at i:10281330 original size:12 final size:12
Alignment explanation
Indices: 10281308--10281357 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
10281298 TTTTTATTTT
10281308 AAATA-AATAAA
1 AAATATAATAAA
10281319 AAATATAATAAA
1 AAATATAATAAA
*
10281331 AAATAAAAT-AA
1 AAATATAATAAA
*
10281342 TAATAATAATAAA
1 AAAT-ATAATAAA
10281355 AAA
1 AAA
10281358 CAAACAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 10 0.31
12 18 0.56
13 4 0.12
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (12 bp):
AAATATAATAAA
Found at i:10281339 original size:24 final size:23
Alignment explanation
Indices: 10281308--10281357 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
10281298 TTTTTATTTT
10281308 AAATAAATAAAAA-ATATAATAAA
1 AAATAAATAAAAATA-ATAATAAA
*
10281331 AAATAAAATAATAATAATAATAAA
1 AAAT-AAATAAAAATAATAATAAA
10281355 AAA
1 AAA
10281358 CAAACAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 4 0.17
24 19 0.79
25 1 0.04
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (23 bp):
AAATAAATAAAAATAATAATAAA
Found at i:10288488 original size:2 final size:2
Alignment explanation
Indices: 10288481--10288512 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
10288471 CTAAATATTT
10288481 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10288513 ATCTTTGAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10291244 original size:9 final size:9
Alignment explanation
Indices: 10291230--10291277 Score: 60
Period size: 10 Copynumber: 5.0 Consensus size: 9
10291220 AATATTTCAA
10291230 AAAAAATTT
1 AAAAAATTT
10291239 AAAAAATTT
1 AAAAAATTT
*
10291248 AAAATTATTT
1 AAAA-AATTT
10291258 AAAAATATTT
1 AAAAA-ATTT
10291268 AAATAAATTT
1 AAA-AAATTT
10291278 TTATTTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
9 13 0.38
10 19 0.56
11 2 0.06
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AAAAAATTT
Found at i:10291302 original size:28 final size:29
Alignment explanation
Indices: 10291262--10291318 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
10291252 TTATTTAAAA
*
10291262 ATATTTAAATAAATTTTTAT-TTTTTATT
1 ATATTTAAATAAATTTATATATTTTTATT
*
10291290 ATATTTAATTAAATTTATATATTTTTATT
1 ATATTTAAATAAATTTATATATTTTTATT
10291319 TTAGATGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 18 0.69
29 8 0.31
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (29 bp):
ATATTTAAATAAATTTATATATTTTTATT
Found at i:10295066 original size:25 final size:27
Alignment explanation
Indices: 10295015--10295067 Score: 65
Period size: 25 Copynumber: 2.0 Consensus size: 27
10295005 TTAAATATTT
* *
10295015 TTAAAAAATTAATTAGAATTGATCAAAC
1 TTAAAAAA-TAATTAGAATTAACCAAAC
10295043 TTAAAAAA-AATTA-AATTAACCAAAC
1 TTAAAAAATAATTAGAATTAACCAAAC
10295068 ATCAAATTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 10 0.43
26 5 0.22
28 8 0.35
ACGTcount: A:0.58, C:0.09, G:0.04, T:0.28
Consensus pattern (27 bp):
TTAAAAAATAATTAGAATTAACCAAAC
Found at i:10296184 original size:23 final size:23
Alignment explanation
Indices: 10296120--10296184 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 23
10296110 TGTTTTCAAT
* * * *
10296120 AAACACAACAAACACATTTGTTG
1 AAACATAACAGACACATTTATTA
* *
10296143 AAACATAACATACATATTTATTA
1 AAACATAACAGACACATTTATTA
* *
10296166 AAATATAATAGACACATTT
1 AAACATAACAGACACATTT
10296185 GGTGAAAGAC
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.51, C:0.15, G:0.05, T:0.29
Consensus pattern (23 bp):
AAACATAACAGACACATTTATTA
Found at i:10297352 original size:24 final size:23
Alignment explanation
Indices: 10297304--10297356 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
10297294 TGATTTTTTT
* *
10297304 ATATT-AAATACCTCGTTCTAGA
1 ATATTCAAATACCTCATTCTAAA
*
10297326 ATATTCAAATAGCCTCATTTTAAA
1 ATATTCAAATA-CCTCATTCTAAA
10297350 ATATTCA
1 ATATTCA
10297357 GTACGATTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 5 0.19
23 5 0.19
24 16 0.62
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.38
Consensus pattern (23 bp):
ATATTCAAATACCTCATTCTAAA
Found at i:10297624 original size:7 final size:7
Alignment explanation
Indices: 10297612--10297678 Score: 57
Period size: 7 Copynumber: 9.4 Consensus size: 7
10297602 CTATTTCAAA
10297612 AAAAAAT
1 AAAAAAT
10297619 AAAAAAT
1 AAAAAAT
10297626 AAAAAAT
1 AAAAAAT
*
10297633 AATGAAAT
1 AA-AAAAT
*
10297641 --ATAAT
1 AAAAAAT
10297646 AAAAAAT
1 AAAAAAT
*
10297653 CAAGAAAT
1 -AAAAAAT
10297661 AAAAAAAT
1 -AAAAAAT
*
10297669 AAGAAAT
1 AAAAAAT
10297676 AAA
1 AAA
10297679 TTAAAAAAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
5 3 0.06
7 28 0.60
8 16 0.34
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.16
Consensus pattern (7 bp):
AAAAAAT
Found at i:10297631 original size:15 final size:15
Alignment explanation
Indices: 10297611--10297678 Score: 57
Period size: 15 Copynumber: 4.2 Consensus size: 15
10297601 CCTATTTCAA
10297611 AAAAAAATAAAAAAT
1 AAAAAAATAAAAAAT
10297626 -AAAAAATAATGAAATAT
1 AAAAAAATAA--AAA-AT
*
10297643 AATAAAAAATCAAGAAAT
1 -A-AAAAAAT-AAAAAAT
*
10297661 AAAAAAATAAGAAAT
1 AAAAAAATAAAAAAT
10297676 AAA
1 AAA
10297679 TTAAAAAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
14 9 0.20
15 10 0.22
16 10 0.22
17 3 0.07
18 2 0.04
19 2 0.04
20 7 0.16
21 2 0.04
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.16
Consensus pattern (15 bp):
AAAAAAATAAAAAAT
Found at i:10297648 original size:20 final size:20
Alignment explanation
Indices: 10297623--10297661 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
10297613 AAAAATAAAA
10297623 AATAAAAAAT-AATGAAATAT
1 AATAAAAAATCAA-GAAATAT
10297643 AATAAAAAATCAAGAAATA
1 AATAAAAAATCAAGAAATA
10297662 AAAAAATAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.21
Consensus pattern (20 bp):
AATAAAAAATCAAGAAATAT
Found at i:10297651 original size:35 final size:36
Alignment explanation
Indices: 10297611--10297687 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 36
10297601 CCTATTTCAA
10297611 AAAAAAAT-AAAAAAT-AAAAAATAATGAAATATAA-T
1 AAAAAAATCAAAAAATAAAAAAATAA-GAAATA-AATT
*
10297646 -AAAAAATCAAGAAATAAAAAAATAAGAAATAAATT
1 AAAAAAATCAAAAAATAAAAAAATAAGAAATAAATT
10297681 AAAAAAA
1 AAAAAAA
10297688 AGAGAGGAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
34 9 0.24
35 13 0.35
36 15 0.41
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.17
Consensus pattern (36 bp):
AAAAAAATCAAAAAATAAAAAAATAAGAAATAAATT
Found at i:10301684 original size:2 final size:2
Alignment explanation
Indices: 10301677--10301707 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10301667 TTATGAAATA
10301677 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10301708 ACTAATATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10303635 original size:15 final size:16
Alignment explanation
Indices: 10303602--10303632 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10303592 GACCCCCCCC
10303602 CAAAAAAAAAAGAAAA
1 CAAAAAAAAAAGAAAA
*
10303618 CAAAAGAAAAAGAAA
1 CAAAAAAAAAAGAAA
10303633 CAAGCTAACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.84, C:0.06, G:0.10, T:0.00
Consensus pattern (16 bp):
CAAAAAAAAAAGAAAA
Found at i:10309492 original size:21 final size:21
Alignment explanation
Indices: 10309466--10309507 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10309456 TCATTATGAA
*
10309466 TTTTATTAAAT-TTTAAGTTTT
1 TTTTATCAAATATTTAA-TTTT
10309487 TTTTATCAAATATTTAATTTT
1 TTTTATCAAATATTTAATTTT
10309508 ATTAAATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTATCAAATATTTAATTTT
Found at i:10328638 original size:16 final size:17
Alignment explanation
Indices: 10328619--10328653 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
10328609 CTTTCTCTAA
10328619 TTTATTCTTATT-ATTT
1 TTTATTCTTATTCATTT
*
10328635 TTTATTTTTATTCATTT
1 TTTATTCTTATTCATTT
10328652 TT
1 TT
10328654 ATTATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTATTCTTATTCATTT
Found at i:10335180 original size:23 final size:22
Alignment explanation
Indices: 10335154--10335203 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
10335144 AAATAAGTTG
*
10335154 AGAAAATA-AAAGGAAATAGAAGA
1 AGAAAA-ACAAAGAAAAT-GAAGA
*
10335177 AGAAAAACAAAGAAAATGAGGA
1 AGAAAAACAAAGAAAATGAAGA
10335199 AGAAA
1 AGAAA
10335204 GGGATGAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.70, C:0.02, G:0.22, T:0.06
Consensus pattern (22 bp):
AGAAAAACAAAGAAAATGAAGA
Found at i:10336344 original size:21 final size:22
Alignment explanation
Indices: 10336315--10336356 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
10336305 GTAAAGAAAT
* *
10336315 AAAACATTAAGAA-AGAATAAC
1 AAAAAATTAAAAAGAGAATAAC
10336336 AAAAAATTAAAAAGAGAATAA
1 AAAAAATTAAAAAGAGAATAA
10336357 AACTAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.71, C:0.05, G:0.10, T:0.14
Consensus pattern (22 bp):
AAAAAATTAAAAAGAGAATAAC
Found at i:10349770 original size:22 final size:20
Alignment explanation
Indices: 10349745--10349812 Score: 57
Period size: 22 Copynumber: 3.2 Consensus size: 20
10349735 TTCAAAACTC
10349745 AATAGTGATAACTTTTTTTATG
1 AATAGT-ATAA-TTTTTTTATG
* *
10349767 AATAATATGA-TTTTTTATG
1 AATAGTATAATTTTTTTATG
* *
10349786 AATAGTCATAAATTTATTTATA
1 AATAGT-AT-AATTTTTTTATG
10349808 AATAG
1 AATAG
10349813 GTATTTAAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 14 0.38
20 2 0.05
21 4 0.11
22 17 0.46
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (20 bp):
AATAGTATAATTTTTTTATG
Found at i:10354203 original size:23 final size:23
Alignment explanation
Indices: 10354172--10354227 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
10354162 TTATAAAGGC
10354172 TTATGTAATTTAAAATAAAAAAA
1 TTATGTAATTTAAAATAAAAAAA
* *
10354195 TTATTTAATTTAAAATAAAAATA
1 TTATGTAATTTAAAATAAAAAAA
10354218 -TATG-AATTTA
1 TTATGTAATTTA
10354228 TTTGAATGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 6 0.20
22 3 0.10
23 21 0.70
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (23 bp):
TTATGTAATTTAAAATAAAAAAA
Found at i:10357046 original size:41 final size:41
Alignment explanation
Indices: 10356994--10357077 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
10356984 AAATCTATCT
*
10356994 TCCTTTTCACCTTCAACTTATCAATCGTGAATTCACCAAAA
1 TCCTTTTCACCTTCAACTTACCAATCGTGAATTCACCAAAA
10357035 TCCTTTTCACCTTCAACTTACCAATCGTGAATTCACCAAAA
1 TCCTTTTCACCTTCAACTTACCAATCGTGAATTCACCAAAA
10357076 TC
1 TC
10357078 TCAGTCCTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.31, C:0.31, G:0.05, T:0.33
Consensus pattern (41 bp):
TCCTTTTCACCTTCAACTTACCAATCGTGAATTCACCAAAA
Found at i:10368647 original size:625 final size:630
Alignment explanation
Indices: 10367224--10369020 Score: 2231
Period size: 639 Copynumber: 2.8 Consensus size: 630
10367214 GCCTCACAGT
* * * * *
10367224 CCAACTTTGAATTGTCGCTTCTTTGATTTTTAAATTTCAAAAGTTCTCGCTTATTTATTTTGTTA
1 CCAACTTTGAATTATCGCTCCTTTGATTTTCAAATTTCAAAAGTTC-CGCTTATTTGTTTTGCTA
* * *
10367289 GCAATCGACGTTTTAACACCACCACCCTTATCGTTACCTTGCACATTAGTAACAGCCAAACCTAT
65 GCAATCGACGTTTTAACACCACCGCCCTTATCGTTACCTTGCACATCAGTAACAGCCAAATCTAT
** * * * * *
10367354 AGTTGAGAAATCAACACTA-CTAGAGGATGATTCAAACATACCTTCAAGTTGACCTCGGTCTTAG
130 AGCCGAGAAATCAACACTATC-AGAGGATGATTCAAGCATGCCTTCAAGTTGACTTGGGTCCTAG
* * * * * *
10367418 TTAGTCGTGGAGAGTTTGAGA-GCAACTTGATTGTCGGTTATTAACATCTCTTTCCACTTAAGCA
194 TTAGCCGTGGAGAGTCTGA-ACACAACTCGATTG-CCGTTATTAACATCTCTTTCCACTCAAGCA
*
10367482 CAGTCCTCTTATGTTCAAACATGATTAACACCTTAAC-CAATCCAACCTTTGCTAAGAAATTATG
257 CAGTCCTCTTATGTTCAAACATGATTAACACCTTAACAAAATCCAACCTTTGCTAAGAAATTATG
* * *
10367546 GACCAATTTACCTTGATTACTTTACCCCAGAGATTACTAATTTTCAAGAAAGCAGCCTCACACCA
322 GACCAATTTACCTTGATTACCTTACCCCAGAGATTACCAATTTTCAAGAAAGTAGCCTCACACCA
* * * * *
10367611 TAAATGAATGGGGAGGTTTTCAATGGTTATCAAGGTAGGACATAA--TTTTGTTCCACCACTAGA
387 TAAATGAATTGGGAGGTTTTCAATGGTTATCAAGGTGGGACGTAACCTTTT-TTCCGCCACCAGA
* * * * * *
10367674 GGGTACGATGTAATAAATCAAAACCAATTGTTGAAAATGTCGAGTAAACTTTTTAGAATGATTTT
451 CGGTAAGGTGTAATAAATCAAAACCAATTGTTGAAAATGTCGAGTAAACTCTCTAGGATGATTTT
* * * * * * * * *
10367739 CATCT-TTTCAACATATGTTTGTAGTCTAGGGTGGGCCTTTTACAAATCGAAGAGAGGCTTTTGT
516 CATCTCCTT-AACATCTGATCGTAGGCT---GTGAG----TTAC--ATAGAAGAAAGGCTTTCGT
* * ** * *
10367803 TAAGCTTGGTATATTAAGCAAGCCTCACCAGTCTGGGCTCGTTAACGGCCTTAAACCTGC
571 TAAACTTGGTAAAAGAAGCAAGCCTCACCAGTCTGGGCTCGTTAACAGCCCTAAACCTGC
*
10367863 CCAACTTTGAATTATCGCTCTTTTGATTTTCAAATTTCAAAAGTTCCCGCTTATTTGTTTTGCTA
1 CCAACTTTGAATTATCGCTCCTTTGATTTTCAAATTTCAAAAGTT-CCGCTTATTTGTTTTGCTA
* ** * *
10367928 ACAATCGACGTTTTAACACCACCGCCCTTATCGTTACCTTATACATCAGTAATAGTCAAATCTAT
65 GCAATCGACGTTTTAACACCACCGCCCTTATCGTTACCTTGCACATCAGTAACAGCCAAATCTAT
* * * * ** *
10367993 AACCGAGAAGTCAACACCATCAAAGGATGAGCCAAGCATGCCTTCAAGGTGACTTGGGTCCTAGT
130 AGCCGAGAAATCAACACTATCAGAGGATGATTCAAGCATGCCTTCAAGTTGACTTGGGTCCTAGT
* * ** * **
10368058 TAGCCATGGAGAGTCTGAACACAACCCGACCGCCGTTATTAATATCTCTTTCCACTCAAGCTTAG
195 TAGCCGTGGAGAGTCTGAACACAACTCGATTGCCGTTATTAACATCTCTTTCCACTCAAGCACAG
* *
10368123 TCCTCTTATGTTCAAACATGATTAACACCTTAACAAAATCCAACCTTTGTTAAAAAATTATGGAC
260 TCCTCTTATGTTCAAACATGATTAACACCTTAACAAAATCCAACCTTTGCTAAGAAATTATGGAC
* *
10368188 CAGTTTACCTTGATTTCCTTACCCCAGAGATTACCAATTTTCAAGAAAGTAGCCTCACACCATAA
325 CAATTTACCTTGATTACCTTACCCCAGAGATTACCAATTTTCAAGAAAGTAGCCTCACACCATAA
* * * * *
10368253 ATGAATTGGAAGGTTTTCAATTGTTATCAAGGTGGGACGTAACCCTTTTTCTGCCACCAGACAGT
390 ATGAATTGGGAGGTTTTCAATGGTTATCAAGGTGGGACGTAACCTTTTTTCCGCCACCAGACGGT
*
10368318 AAGGTGTAATAAATCAAAACCAATTGTTGAAAACGTCGAGTAAACTCTCTAGGATGATTTTCATC
455 AAGGTGTAATAAATCAAAACCAATTGTTGAAAATGTCGAGTAAACTCTCTAGGATGATTTTCATC
10368383 TCCTTAACATCT-ATCGTAGGCT-TGAG-T-C-TAGAA-AAAGGCTTTCGTTAAACTTGGTAAAA
520 TCCTTAACATCTGATCGTAGGCTGTGAGTTACATAGAAGAAAGGCTTTCGTTAAACTTGGTAAAA
* * * *
10368442 GAAGTAAGCCTCACCAGTTTGGGCTCGTTAATAGCCCTAAA-CTCGT
585 GAAGCAAGCCTCACCAGTCTGGGCTCGTTAACAGCCCTAAACCT-GC
* * * **
10368488 CTAACTTTGAATTATTGCTCCTTTGATTTTCAGATTTCAAAAGTTCCAATTTATTTGTTTTGCTA
1 CCAACTTTGAATTATCGCTCCTTTGATTTTCAAATTTCAAAAGTTCC-GCTTATTTGTTTTGCTA
* *
10368553 GCAATCGACATTTTAACACCACCGCCCTTATCATTACCTTGCACATC-GATAACAGCCAAATCTA
65 GCAATCGACGTTTTAACACCACCGCCCTTATCGTTACCTTGCACATCAG-TAACAGCCAAATCTA
* * * *
10368617 CAGCCAAGAAATCAACACTATCAGAGGATGATTCAAGCATGCCTTAAAGTTGACTTGGGTTCTAG
129 TAGCCGAGAAATCAACACTATCAGAGGATGATTCAAGCATGCCTTCAAGTTGACTTGGGTCCTAG
* *
10368682 TTAGCCGTGGAAAGTCT-AAGCACAACTCGATTACCGTTTATTAACATCTCTTTCCACTCAAGCA
194 TTAGCCGTGGAGAGTCTGAA-CACAACTCGATTGCCG-TTATTAACATCTCTTTCCACTCAAGCA
** * * *
10368746 CAGTCCTCCCATGTTTAAACATGATTAACACCTTAACAAAATCTAATCTTTGCTAAGAAATTATG
257 CAGTCCTCTTATGTTCAAACATGATTAACACCTTAACAAAATCCAACCTTTGCTAAGAAATTATG
* *
10368811 GATCAATTTACCTTGATTACCTTACCCCAGATATTACCAATTTTCAAGAAAGTAGCCTCACACCA
322 GACCAATTTACCTTGATTACCTTACCCCAGAGATTACCAATTTTCAAGAAAGTAGCCTCACACCA
* ** * **
10368876 TAGATGAA-TGAGGAGGTTTTCAATGGTTATCAAAATGGGATGTAACCTTTTTTCCGTAACCAGA
387 TAAATGAATTG-GGAGGTTTTCAATGGTTATCAAGGTGGGACGTAACCTTTTTTCCGCCACCAGA
* * * * *
10368940 TGGTAAGGTGTAATAAATCGAAACCAACTGTTGAAAATGTCGAGTAAACTCTCTAAGATGATTCT
451 CGGTAAGGTGTAATAAATCAAAACCAATTGTTGAAAATGTCGAGTAAACTCTCTAGGATGATTTT
*
10369005 CATCACCTTAACATCT
516 CATCTCCTTAACATCT
10369021 TTAAAAGTGA
Statistics
Matches: 998, Mismatches: 147, Indels: 39
0.84 0.12 0.03
Matches are distributed among these distances:
624 7 0.01
625 251 0.25
626 271 0.27
629 1 0.00
630 1 0.00
635 3 0.00
638 63 0.06
639 316 0.32
640 80 0.08
641 5 0.01
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.32
Consensus pattern (630 bp):
CCAACTTTGAATTATCGCTCCTTTGATTTTCAAATTTCAAAAGTTCCGCTTATTTGTTTTGCTAG
CAATCGACGTTTTAACACCACCGCCCTTATCGTTACCTTGCACATCAGTAACAGCCAAATCTATA
GCCGAGAAATCAACACTATCAGAGGATGATTCAAGCATGCCTTCAAGTTGACTTGGGTCCTAGTT
AGCCGTGGAGAGTCTGAACACAACTCGATTGCCGTTATTAACATCTCTTTCCACTCAAGCACAGT
CCTCTTATGTTCAAACATGATTAACACCTTAACAAAATCCAACCTTTGCTAAGAAATTATGGACC
AATTTACCTTGATTACCTTACCCCAGAGATTACCAATTTTCAAGAAAGTAGCCTCACACCATAAA
TGAATTGGGAGGTTTTCAATGGTTATCAAGGTGGGACGTAACCTTTTTTCCGCCACCAGACGGTA
AGGTGTAATAAATCAAAACCAATTGTTGAAAATGTCGAGTAAACTCTCTAGGATGATTTTCATCT
CCTTAACATCTGATCGTAGGCTGTGAGTTACATAGAAGAAAGGCTTTCGTTAAACTTGGTAAAAG
AAGCAAGCCTCACCAGTCTGGGCTCGTTAACAGCCCTAAACCTGC
Found at i:10371675 original size:3 final size:3
Alignment explanation
Indices: 10371662--10371698 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
10371652 ATAAGTAAAG
*
10371662 ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
10371699 ATACAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:10377260 original size:11 final size:10
Alignment explanation
Indices: 10377229--10377263 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
10377219 ATTTTGAACG
10377229 TTTTGAGTAT
1 TTTTGAGTAT
*
10377239 TTTTAAGTAT
1 TTTTGAGTAT
10377249 TTTTGAGTTAT
1 TTTTGAG-TAT
10377260 TTTT
1 TTTT
10377264 TATATATGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 15 0.68
11 7 0.32
ACGTcount: A:0.20, C:0.00, G:0.14, T:0.66
Consensus pattern (10 bp):
TTTTGAGTAT
Found at i:10377508 original size:23 final size:22
Alignment explanation
Indices: 10377477--10377532 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
10377467 TTTTTTAAGT
* *
10377477 ATTGTGTGACTGGTTGATATAAC
1 ATTGCGTGACTAGTTGATA-AAC
**
10377500 ATTGCGTGACTAGTTGATAGGC
1 ATTGCGTGACTAGTTGATAAAC
10377522 ATTGCGTGACT
1 ATTGCGTGACT
10377533 TATTAGTAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 12 0.41
23 17 0.59
ACGTcount: A:0.23, C:0.12, G:0.29, T:0.36
Consensus pattern (22 bp):
ATTGCGTGACTAGTTGATAAAC
Found at i:10377527 original size:22 final size:22
Alignment explanation
Indices: 10377499--10377570 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 22
10377489 GTTGATATAA
10377499 CATTGCGTGACTAGTT-G-ATAGG
1 CATTGCGTGACTA-TTAGTA-AGG
10377521 CATTGCGTGACTTATTAGTAAGG
1 CATTGCGTGAC-TATTAGTAAGG
*
10377544 CATTGCGTGACTTGTTAGTAAGG
1 CATTGCGTGAC-TATTAGTAAGG
10377567 CATT
1 CATT
10377571 ATGTGACTTA
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
22 13 0.28
23 32 0.70
24 1 0.02
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.35
Consensus pattern (22 bp):
CATTGCGTGACTATTAGTAAGG
Found at i:10377548 original size:23 final size:23
Alignment explanation
Indices: 10377518--10377580 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
10377508 ACTAGTTGAT
10377518 AGGCATTGCGTGACTTATTAGTA
1 AGGCATTGCGTGACTTATTAGTA
*
10377541 AGGCATTGCGTGACTTGTTAGTA
1 AGGCATTGCGTGACTTATTAGTA
**
10377564 AGGCATTATGTGACTTA
1 AGGCATTGCGTGACTTA
10377581 GGCATTGTTT
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:0.25, C:0.13, G:0.27, T:0.35
Consensus pattern (23 bp):
AGGCATTGCGTGACTTATTAGTA
Found at i:10377636 original size:22 final size:22
Alignment explanation
Indices: 10377590--10377660 Score: 81
Period size: 22 Copynumber: 3.3 Consensus size: 22
10377580 AGGCATTGTT
* **
10377590 TAAAAATCAGTCACGTAATATC
1 TAAAAATCAATCACGTAATGCC
*
10377612 TAAAAATCAATTACGTAATGCC
1 TAAAAATCAATCACGTAATGCC
* *
10377634 T-AAAACCAATCATGTAATGCC
1 TAAAAATCAATCACGTAATGCC
10377655 TAAAAA
1 TAAAAA
10377661 CTAGTCACGC
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
21 18 0.44
22 23 0.56
ACGTcount: A:0.48, C:0.18, G:0.08, T:0.25
Consensus pattern (22 bp):
TAAAAATCAATCACGTAATGCC
Found at i:10377643 original size:21 final size:21
Alignment explanation
Indices: 10377600--10377659 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
10377590 TAAAAATCAG
** *
10377600 TCACGTAATATCTAAAAATCAA
1 TCACGTAATGCCT-AAAACCAA
*
10377622 TTACGTAATGCCTAAAACCAA
1 TCACGTAATGCCTAAAACCAA
*
10377643 TCATGTAATGCCTAAAA
1 TCACGTAATGCCTAAAA
10377660 ACTAGTCACG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 22 0.69
22 10 0.31
ACGTcount: A:0.45, C:0.20, G:0.08, T:0.27
Consensus pattern (21 bp):
TCACGTAATGCCTAAAACCAA
Found at i:10377711 original size:22 final size:22
Alignment explanation
Indices: 10377655--10377704 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
10377645 ATGTAATGCC
* *
10377655 TAAAAACTAGTCACGCAATACT
1 TAAAAACTAGTCTCACAATACT
*
10377677 TAAAAACTAGTCTCACAATATT
1 TAAAAACTAGTCTCACAATACT
10377699 TAAAAA
1 TAAAAA
10377705 TCAGTCTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.50, C:0.18, G:0.06, T:0.26
Consensus pattern (22 bp):
TAAAAACTAGTCTCACAATACT
Found at i:10377718 original size:23 final size:22
Alignment explanation
Indices: 10377655--10377718 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
10377645 ATGTAATGCC
*
10377655 TAAAAACTAGTC-ACGCAATACT
1 TAAAAACTAGTCTA-ACAATACT
* *
10377677 TAAAAACTAGTCTCACAATATT
1 TAAAAACTAGTCTAACAATACT
10377699 TAAAAA-TCAGTCTAATCAAT
1 TAAAAACT-AGTCTAA-CAAT
10377719 TTCAACTCCT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
21 1 0.03
22 30 0.86
23 4 0.11
ACGTcount: A:0.47, C:0.19, G:0.06, T:0.28
Consensus pattern (22 bp):
TAAAAACTAGTCTAACAATACT
Found at i:10379404 original size:16 final size:16
Alignment explanation
Indices: 10379379--10379409 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10379369 TCAATTTTTT
*
10379379 ATTTTCGAATATCTAA
1 ATTTTAGAATATCTAA
10379395 ATTTTAGAATATCTA
1 ATTTTAGAATATCTA
10379410 CTTTCCAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (16 bp):
ATTTTAGAATATCTAA
Found at i:10388322 original size:18 final size:18
Alignment explanation
Indices: 10388299--10388334 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
10388289 TATTTTGTTG
10388299 AATTTTTATCAATTCATT
1 AATTTTTATCAATTCATT
*
10388317 AATTTTTCTCAATTCATT
1 AATTTTTATCAATTCATT
10388335 TTGAGAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.56
Consensus pattern (18 bp):
AATTTTTATCAATTCATT
Found at i:10390952 original size:64 final size:64
Alignment explanation
Indices: 10390677--10390944 Score: 387
Period size: 64 Copynumber: 4.2 Consensus size: 64
10390667 AATTGATGCA
* * * * * *
10390677 ACCGTGCATGTGTGGAGTAGGAAGTGC-AATGCC-AGTTGAATGACAAAGGATGTGATAATTACG
1 ACCGTGCATGTGCGGAGTGGGAAGTACAAATGCCGA-TTTAATGATAAAGGTTGTGATAATTACG
* * *
10390740 ATCGTGCATGTGCGGAGTGGGAAGTGCAAATGCCGATTTAATGATAAAGGTTGTGATAATTACA
1 ACCGTGCATGTGCGGAGTGGGAAGTACAAATGCCGATTTAATGATAAAGGTTGTGATAATTACG
* * *
10390804 ACCGTGCATGTGCGGAGTGGGAAGTACAAATGCCGGTTTAATGATAAAAGTTATGATAATTACG
1 ACCGTGCATGTGCGGAGTGGGAAGTACAAATGCCGATTTAATGATAAAGGTTGTGATAATTACG
* *
10390868 ACCGTGCATGTGTGGAGTGGGAAGTACAAATGCCGATTTAATGATAAAGGTTGTGATAATTACT
1 ACCGTGCATGTGCGGAGTGGGAAGTACAAATGCCGATTTAATGATAAAGGTTGTGATAATTACG
10390932 ACCGTGCATGTGC
1 ACCGTGCATGTGC
10390945 AAAGTGGGGA
Statistics
Matches: 184, Mismatches: 19, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
63 24 0.13
64 159 0.86
65 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (64 bp):
ACCGTGCATGTGCGGAGTGGGAAGTACAAATGCCGATTTAATGATAAAGGTTGTGATAATTACG
Found at i:10393506 original size:28 final size:29
Alignment explanation
Indices: 10393465--10393524 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
10393455 GTCTATGGGC
*
10393465 AATTTTTCAGTTTT-TGGGGCAAAAATGT
1 AATTTTTCAGTTTTAGGGGGCAAAAATGT
* * *
10393493 AATTTTTGATTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAGTTTTA-GGGGGCAAAAATGT
10393523 AA
1 AA
10393525 ATATCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (29 bp):
AATTTTTCAGTTTTAGGGGGCAAAAATGT
Found at i:10397687 original size:16 final size:15
Alignment explanation
Indices: 10397666--10397707 Score: 59
Period size: 14 Copynumber: 2.8 Consensus size: 15
10397656 TATATATATC
10397666 TATATATATTAATTT
1 TATATATATTAATTT
*
10397681 T-TATATATAATATTT
1 TATATATATTA-ATTT
10397696 TATATATATTAA
1 TATATATATTAA
10397708 GAAGAATTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 8 0.35
15 7 0.30
16 8 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TATATATATTAATTT
Found at i:10397703 original size:14 final size:13
Alignment explanation
Indices: 10397654--10397703 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
10397644 CCAAACTAGG
*
10397654 TTTATATAT-ATC
1 TTTATATATAATT
*
10397666 TATATATATTAATT
1 TTTATATA-TAATT
10397680 TTTATATATAATAT
1 TTTATATATAAT-T
10397694 TTTATATATA
1 TTTATATATA
10397704 TTAAGAAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
12 7 0.22
13 5 0.16
14 20 0.62
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (13 bp):
TTTATATATAATT
Found at i:10398366 original size:216 final size:219
Alignment explanation
Indices: 10397991--10398417 Score: 610
Period size: 216 Copynumber: 2.0 Consensus size: 219
10397981 AATTGTATAA
* *
10397991 ATATATGATACATACATATATTTAATTTATACATAAAGATTACTATAATTTATAATAAACTCTAT
1 ATATATGATACATACATATATTTAATTTATACATAAAGATTACTATAACTTAAAATAAACTCTAT
* * *
10398056 TTATATAATTACACTCAAATAACTTTATTAGTTATCGCCTTAGATTTTATAAAATCTTGTTTATA
66 TTATATAATTACACTCAAATAACTTTATTAGTTATCACCTTAGATTTTATAAAATATTATTTATA
* * * * *
10398121 ACTAGTTATTATTTATATAAACTTTGATATAAAATGTTATAACATATAAATTATGTCACTAA-TT
131 ACTAATTATTATTTATACAAACGTTGATATAAAATATTATAACATATAAATTATATCACTAATTT
10398185 TC-ATATATATATATAATAAAGTC
196 TCTATATATATATATAATAAAGTC
* * *
10398208 ATATATTATATATACATATATTTAATTTATACAT-AAGTATTACTATAACTTAAAATAAACTTTA
1 ATATATGATACATACATATATTTAATTTATACATAAAG-ATTACTATAACTTAAAATAAACTCTA
* * * * *
10398272 TTTATATGATTACACT-TAATAGCTTTATTAGTTATCACTTTAGATTTTATAACATATTATTTAT
65 TTTATATAATTACACTCAAATAACTTTATTAGTTATCACCTTAGATTTTATAAAATATTATTTAT
* * * * *
10398336 AATTAATTATTATTTATACAAACGTTGATATAAAATATTTTAACATATAATTTGTATCATTAATT
130 AACTAATTATTATTTATACAAACGTTGATATAAAATATTATAACATATAAATTATATCACTAATT
10398401 TTCTATATATATATATA
195 TTCTATATATATATATA
10398418 TATATAAAAT
Statistics
Matches: 184, Mismatches: 23, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
216 97 0.53
217 74 0.40
218 13 0.07
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.45
Consensus pattern (219 bp):
ATATATGATACATACATATATTTAATTTATACATAAAGATTACTATAACTTAAAATAAACTCTAT
TTATATAATTACACTCAAATAACTTTATTAGTTATCACCTTAGATTTTATAAAATATTATTTATA
ACTAATTATTATTTATACAAACGTTGATATAAAATATTATAACATATAAATTATATCACTAATTT
TCTATATATATATATAATAAAGTC
Found at i:10398641 original size:22 final size:21
Alignment explanation
Indices: 10398589--10398651 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
10398579 GCTCCATATA
* *
10398589 TTAT-ATATACATATATTTAAT
1 TTATAATAAACAT-TATTTAAC
10398610 TTATACATAAACATTATTATAAC
1 TTATA-ATAAACATTATT-TAAC
*
10398633 TTATAATAAACTTTATTTA
1 TTATAATAAACATTATTTA
10398652 TATGATTATA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
21 6 0.17
22 15 0.42
23 15 0.42
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (21 bp):
TTATAATAAACATTATTTAAC
Found at i:10406798 original size:18 final size:18
Alignment explanation
Indices: 10406775--10406815 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
10406765 ACTTTTTAGA
10406775 TCATATCATA-ATAGATAT
1 TCATAT-ATATATAGATAT
*
10406793 TCATATATATATATATAT
1 TCATATATATATAGATAT
10406811 TCATA
1 TCATA
10406816 ACACTCTCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (18 bp):
TCATATATATATAGATAT
Found at i:10406845 original size:35 final size:34
Alignment explanation
Indices: 10406805--10406870 Score: 96
Period size: 35 Copynumber: 1.9 Consensus size: 34
10406795 ATATATATAT
10406805 ATATATTCATAACACTCTCCTTGAATTATTCACAC
1 ATATATTCATAACACTCTCCTTGAATT-TTCACAC
* **
10406840 ATATATTTATAACACTCTTTTTGAATTTTCA
1 ATATATTCATAACACTCTCCTTGAATTTTCA
10406871 TTATATTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 4 0.14
35 24 0.86
ACGTcount: A:0.33, C:0.20, G:0.03, T:0.44
Consensus pattern (34 bp):
ATATATTCATAACACTCTCCTTGAATTTTCACAC
Found at i:10408669 original size:28 final size:29
Alignment explanation
Indices: 10408628--10408687 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
10408618 GTCTATGGGC
* *
10408628 AATTTTTCAGTTTT-TGGGGCAAAAATGT
1 AATTTTTCACTTTTAGGGGGCAAAAATGT
* *
10408656 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCACTTTTA-GGGGGCAAAAATGT
10408686 AA
1 AA
10408688 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.38
Consensus pattern (29 bp):
AATTTTTCACTTTTAGGGGGCAAAAATGT
Found at i:10413506 original size:2 final size:2
Alignment explanation
Indices: 10413499--10413526 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10413489 TTTGCTAGAC
10413499 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10413527 GTCATTCATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10414104 original size:28 final size:27
Alignment explanation
Indices: 10414046--10414109 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 27
10414036 TCTATTCTTG
* *
10414046 GTGGTTAAAAGTATGCATCCACTCTTT
1 GTGGTTAAAAGTATGCATCCACTCGTA
* *
10414073 GTGGGTTAAATGTATTCATCCACTCGTA
1 GT-GGTTAAAAGTATGCATCCACTCGTA
10414101 GTGGTTAAA
1 GTGGTTAAA
10414110 GATACCACTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 9 0.28
28 23 0.72
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.36
Consensus pattern (27 bp):
GTGGTTAAAAGTATGCATCCACTCGTA
Found at i:10418463 original size:21 final size:22
Alignment explanation
Indices: 10418420--10418464 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
10418410 AATTACAAAC
* * *
10418420 TTAAACTTATAAAATTAATATT
1 TTAAACTTAAAAAATAAAAATT
10418442 TTAAA-TTAAAAAATAAAAATT
1 TTAAACTTAAAAAATAAAAATT
10418463 TT
1 TT
10418465 TTTAAATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAAACTTAAAAAATAAAAATT
Found at i:10418489 original size:13 final size:13
Alignment explanation
Indices: 10418460--10418516 Score: 53
Period size: 13 Copynumber: 4.3 Consensus size: 13
10418450 AAAAATAAAA
*
10418460 ATTTTT-TTAAAT
1 ATTTTTATTTAAT
*
10418472 TTTTTTATTTAAT
1 ATTTTTATTTAAT
10418485 ATTTTTAATTTAAT
1 ATTTTT-ATTTAAT
* *
10418499 GATTTTGATTTAAG
1 -ATTTTTATTTAAT
10418513 ATTT
1 ATTT
10418517 ATTGTCTTAG
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
12 5 0.14
13 14 0.38
14 13 0.35
15 5 0.14
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (13 bp):
ATTTTTATTTAAT
Found at i:10418489 original size:14 final size:15
Alignment explanation
Indices: 10418472--10418516 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 15
10418462 TTTTTTAAAT
*
10418472 TTTTTTATTTAAT-A
1 TTTTTAATTTAATGA
10418486 TTTTTAATTTAATGA
1 TTTTTAATTTAATGA
*
10418501 -TTTTGATTTAA-GA
1 TTTTTAATTTAATGA
10418514 TTT
1 TTT
10418517 ATTGTCTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 2 0.07
14 24 0.89
15 1 0.04
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (15 bp):
TTTTTAATTTAATGA
Found at i:10419225 original size:16 final size:15
Alignment explanation
Indices: 10419204--10419236 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
10419194 TATTGTTAAT
10419204 ATTTAAAAATAAAATA
1 ATTTAAAAAT-AAATA
10419220 ATTTAAAAATAAATA
1 ATTTAAAAATAAATA
10419235 AT
1 AT
10419237 CATAATAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATTTAAAAATAAATA
Found at i:10419315 original size:20 final size:20
Alignment explanation
Indices: 10419250--10419316 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
10419240 AATAACATTT
*
10419250 AAATTATATATAAAATATTA
1 AAATTATAAATAAAATATTA
* * *
10419270 ATATTTTATAATATTAATAATT-
1 AAATTATA-AATA-AAAT-ATTA
10419292 AAATTATAAATAAAATATTA
1 AAATTATAAATAAAATATTA
10419312 AAATT
1 AAATT
10419317 TTTAAAAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
19 3 0.08
20 14 0.39
21 7 0.19
22 9 0.25
23 3 0.08
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
AAATTATAAATAAAATATTA
Found at i:10419496 original size:27 final size:27
Alignment explanation
Indices: 10419466--10419518 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
10419456 TATCAAACTA
10419466 ATAATAATTATTTTATTTTATTTTTAC
1 ATAATAATTATTTTATTTTATTTTTAC
10419493 ATAATAATTATTTTATTTTATTTTTA
1 ATAATAATTATTTTATTTTATTTTTA
10419519 TTTATTTCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (27 bp):
ATAATAATTATTTTATTTTATTTTTAC
Found at i:10425478 original size:2 final size:2
Alignment explanation
Indices: 10425473--10425508 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
10425463 GTGGTGGGAT
*
10425473 TC TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
10425509 CTCGTAAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:10431816 original size:163 final size:163
Alignment explanation
Indices: 10431546--10431872 Score: 530
Period size: 163 Copynumber: 2.0 Consensus size: 163
10431536 TTGAGACCAA
* *
10431546 AATTGTCCTGGTTTGGGTTTTCATTAAAAAGGGAGATTGAGGAAGTTGTTCTGAATTAACAGTAG
1 AATTGTCCTGGTTTGGGTTTTCATTAAAAAGGAAGATGGAGGAAGTTGTTCTGAATTAACAGTAG
* * * *
10431611 CTATAAAAGTTCTTGCCTACTATGCTTTGTGGCAGGGTATGTTGAATGATTGGAGAGCGTGGTAT
66 CTATAAAAGTTCTTGCCAACAATGCTTTATGGCAGGGTATGTTGAATGATTGGAGAGCATGGTAT
10431676 GTTGGAATTTAAATCTAGATTGGACTTTTGTTG
131 GTTGGAATTTAAATCTAGATTGGACTTTTGTTG
** * *
10431709 AATTGTCCTGGTTTGGGTTTTTGTTAAAAAGGAAGATGGAGGGAGTTGTTTTTGAATTAACAGTA
1 AATTGTCCTGGTTTGGGTTTTCATTAAAAAGGAAGATGGAGGAAGTTG-TTCTGAATTAACAGTA
*
10431774 GCTATAAAAGTTCTTGTCAACAATGCTTTATGG-AGGGTATGTTGAATGATTGGAGAGCATGGTA
65 GCTATAAAAGTTCTTGCCAACAATGCTTTATGGCAGGGTATGTTGAATGATTGGAGAGCATGGTA
*
10431838 TGTTGGAATTTAAATCTTGATTGGACTTTTGTTG
130 TGTTGGAATTTAAATCTAGATTGGACTTTTGTTG
10431872 A
1 A
10431873 GAAGGGATAT
Statistics
Matches: 151, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
163 107 0.71
164 44 0.29
ACGTcount: A:0.27, C:0.08, G:0.28, T:0.38
Consensus pattern (163 bp):
AATTGTCCTGGTTTGGGTTTTCATTAAAAAGGAAGATGGAGGAAGTTGTTCTGAATTAACAGTAG
CTATAAAAGTTCTTGCCAACAATGCTTTATGGCAGGGTATGTTGAATGATTGGAGAGCATGGTAT
GTTGGAATTTAAATCTAGATTGGACTTTTGTTG
Found at i:10434146 original size:30 final size:30
Alignment explanation
Indices: 10434096--10434163 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 30
10434086 GATTACATAG
* *
10434096 TAATATTATAAAAATGATTTTACT-TTTTAT
1 TAATTTTAAAAAAATGATTTTA-TATTTTAT
*
10434126 TAATTTTAAAAAAATTATTTTATAATTTTAT
1 TAATTTTAAAAAAATGATTTTAT-ATTTTAT
10434157 TAATTTT
1 TAATTTT
10434164 TTTAAAAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 1 0.03
30 19 0.58
31 13 0.39
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (30 bp):
TAATTTTAAAAAAATGATTTTATATTTTAT
Found at i:10434306 original size:17 final size:17
Alignment explanation
Indices: 10434284--10434319 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
10434274 TGGTCGACTT
10434284 GAAAAGAATAAAGAAAA
1 GAAAAGAATAAAGAAAA
10434301 GAAAAGAATAAAGAAAA
1 GAAAAGAATAAAGAAAA
10434318 GA
1 GA
10434320 GAAGGATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (17 bp):
GAAAAGAATAAAGAAAA
Found at i:10435047 original size:21 final size:21
Alignment explanation
Indices: 10435021--10435062 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
10435011 ACCTCCAATG
*
10435021 CTGTGATGTCTTTAGATGGAT
1 CTGTGATGTCTTTAAATGGAT
10435042 CTGTGATGTCTTTAAATGGAT
1 CTGTGATGTCTTTAAATGGAT
10435063 GTAACCATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.10, G:0.26, T:0.43
Consensus pattern (21 bp):
CTGTGATGTCTTTAAATGGAT
Found at i:10436858 original size:24 final size:24
Alignment explanation
Indices: 10436808--10436858 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
10436798 AATCCTGCAT
* *
10436808 AACATTCAGGGACACTTCTAGCGA
1 AACATTCAAGGACACTTCTAGCAA
* *
10436832 AACATTCAAGGACACTTTTAGTAA
1 AACATTCAAGGACACTTCTAGCAA
10436856 AAC
1 AAC
10436859 TCGAAAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.24
Consensus pattern (24 bp):
AACATTCAAGGACACTTCTAGCAA
Found at i:10438850 original size:43 final size:41
Alignment explanation
Indices: 10438803--10438929 Score: 130
Period size: 43 Copynumber: 3.0 Consensus size: 41
10438793 TGCGATAATA
*
10438803 ATGACCTAGCTATATGCGGTGTGAGAGTGCACATGAGCTGATG
1 ATGACCTAGCTATGTGCGGTG-G-GAGTGCACATGAGCTGATG
* * * *
10438846 ATGACCCAACTATGTGAGGTGAGGGAGTGCACATGAGTTGATG
1 ATGACCTAGCTATGTGCGGT--GGGAGTGCACATGAGCTGATG
*
10438889 ATGACCCT-GTTATGTGCGAGTAGGGAGTGCACATGAGCTGA
1 ATGA-CCTAGCTATGTGCG-GT-GGGAGTGCACATGAGCTGA
10438930 GTGTGGCAGG
Statistics
Matches: 70, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
43 64 0.91
44 5 0.07
45 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.34, T:0.24
Consensus pattern (41 bp):
ATGACCTAGCTATGTGCGGTGGGAGTGCACATGAGCTGATG
Done.