Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 61 of 378
Found at i:15559155 original size:20 final size:22
Alignment explanation
Indices: 15559108--15559161 Score: 69
Period size: 20 Copynumber: 2.5 Consensus size: 22
15559098 TTCGTATAAC
15559108 TAAATTGTATATGTTTATATGCT
1 TAAATTGTATATGTTTATAT-CT
15559131 TAAATTG-A-ATGTTGTATAT-T
1 TAAATTGTATATGTT-TATATCT
15559151 TAAATTGTATA
1 TAAATTGTATA
15559162 AATGCCATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
20 8 0.29
21 6 0.21
22 7 0.25
23 7 0.25
ACGTcount: A:0.35, C:0.02, G:0.13, T:0.50
Consensus pattern (22 bp):
TAAATTGTATATGTTTATATCT
Found at i:15562140 original size:21 final size:21
Alignment explanation
Indices: 15562116--15562163 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
15562106 AGCTTCCTCC
15562116 TGAGTTGGGGTAAT-CTCTTGT
1 TGAGTTGGGGT-ATCCTCTTGT
*
15562137 TGAGTTGGGGTATCCTTTTGT
1 TGAGTTGGGGTATCCTCTTGT
15562158 TGAGTT
1 TGAGTT
15562164 AGAGCAACCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 2 0.08
21 23 0.92
ACGTcount: A:0.12, C:0.08, G:0.33, T:0.46
Consensus pattern (21 bp):
TGAGTTGGGGTATCCTCTTGT
Found at i:15564707 original size:186 final size:184
Alignment explanation
Indices: 15564339--15564911 Score: 840
Period size: 186 Copynumber: 3.1 Consensus size: 184
15564329 AAACCTAGGC
* * **
15564339 AATGGTAGACAATAACCAATACAAAAACAATATAACACAAAAAAATCCATTTCTGTCATGTACAA
1 AATGGTAGACAATAACCAATACAAAAATAATTTAACA-AAAAAAATTTATTTCTGTCATGTACAA
* * *
15564404 TAATCAAACAATAATCATGCACTTTAATCCAAAATAGTATCATAAACATGGCAAACAATAACCAA
65 TAACCAAACAATAATCATGCACTTTAATCCAAAATAGTATCATACACATGGCAGACAATAACCAA
* * *
15564469 CCAATAATCCAAAATAGGAATTGATTTGTCACTTTCCTAAGGCAATTAGTATGCA
130 ACAATAATCCAAAATAGGAACTGATTTGTCTCTTTCCTAAGGCAATTAGTATGCA
* *
15564524 AATCGTAGACAATAGCCAATACAAAAATAATTTAACATAAAAAAATTTATTTCTGTCATGTACAA
1 AATGGTAGACAATAACCAATACAAAAATAATTTAACA-AAAAAAATTTATTTCTGTCATGTACAA
* * * *
15564589 TAACCAAACAATAATCATGCACTTTTTACCCAAAATAGTATCATGCACATGGCAGACAATAGCCA
65 TAACCAAACAATAATCATGCAC-TTTAATCCAAAATAGTATCATACACATGGCAGACAATAACCA
*
15564654 AACAATAATCCAAAATAGGGACTGATTTGTCTCTTTCCTAAGGCAATTAGTATGCA
129 AACAATAATCCAAAATAGGAACTGATTTGTCTCTTTCCTAAGGCAATTAGTATGCA
* *
15564710 AATGGTAGACAATAACCAATACAAAAATAATTTTAAACAAAAAAAATTCTATTTTTGTCATGTAA
1 AATGGTAGACAATAACCAATACAAAAATAA-TTT-AACAAAAAAAATT-TATTTCTGTCATGTAC
* *
15564775 AATAACCAAACAATAATCATGCACTTTAATCCTAAATAGTATCATACAAATGGCAGACAATAACC
63 AATAACCAAACAATAATCATGCACTTTAATCCAAAATAGTATCATACACATGGCAGACAATAACC
* * * * * * *
15564840 AAACAGTAATCTAAAATAGGAACTAATTTGTCTATTTCTTATGGCAATTATTATGCA
128 AAACAATAATCCAAAATAGGAACTGATTTGTCTCTTTCCTAAGGCAATTAGTATGCA
15564897 AATGGTAGACAATAA
1 AATGGTAGACAATAA
15564912 GTTTACAAAA
Statistics
Matches: 348, Mismatches: 36, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
185 79 0.23
186 116 0.33
187 111 0.32
188 42 0.12
ACGTcount: A:0.45, C:0.17, G:0.10, T:0.27
Consensus pattern (184 bp):
AATGGTAGACAATAACCAATACAAAAATAATTTAACAAAAAAAATTTATTTCTGTCATGTACAAT
AACCAAACAATAATCATGCACTTTAATCCAAAATAGTATCATACACATGGCAGACAATAACCAAA
CAATAATCCAAAATAGGAACTGATTTGTCTCTTTCCTAAGGCAATTAGTATGCA
Found at i:15565569 original size:26 final size:26
Alignment explanation
Indices: 15565518--15565572 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
15565508 CCTTCAATCG
*
15565518 TCCAACCCTGAACCCTAAAATTGATT
1 TCCAACCCTGAACCCTAAAATCGATT
* **
15565544 TCCAACCCTTAACCCTATTATCGATT
1 TCCAACCCTGAACCCTAAAATCGATT
15565570 TCC
1 TCC
15565573 CAATTAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.05, T:0.31
Consensus pattern (26 bp):
TCCAACCCTGAACCCTAAAATCGATT
Found at i:15568862 original size:40 final size:39
Alignment explanation
Indices: 15568735--15568901 Score: 133
Period size: 40 Copynumber: 4.2 Consensus size: 39
15568725 CGGAATATAA
*
15568735 CCGGATATAATC-ACGT-GCACAAATGCCATCGGGTCTTAGC
1 CCGGATATAA-CAAC-TAGCAC-AATGCCTTCGGGTCTTAGC
* * * *
15568775 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAACAACTAGCAC-AATGCCTTCGGGTCTTAGC
* * *
15568815 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAA-TGCCTTCGGGTCTTAGC
*** * * *
15568855 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACAACTAGCACAA-TGCCTTCGGGTCTTAGC
15568894 CCGGATAT
1 CCGGATAT
15568902 CATTCAATTT
Statistics
Matches: 104, Mismatches: 20, Indels: 7
0.79 0.15 0.05
Matches are distributed among these distances:
39 16 0.15
40 88 0.85
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CCGGATATAACAACTAGCACAATGCCTTCGGGTCTTAGC
Found at i:15570161 original size:57 final size:54
Alignment explanation
Indices: 15570097--15570207 Score: 127
Period size: 57 Copynumber: 2.0 Consensus size: 54
15570087 CCCCCTTTTC
*
15570097 CCTTAGTA-ATTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTTCTTTTCTTT
1 CCTTAGTACA-TTCAGCCAAGAAGATGGAG-AAGGATGAAC--ATTTTTT-TTTTCTTT
***
15570154 CCTTAGTACATTCAGCCAAGCCTATGGAGAAGGATGAACATTTTTTTTTTCTTT
1 CCTTAGTACATTCAGCCAAGAAGATGGAGAAGGATGAACATTTTTTTTTTCTTT
15570208 TTTTCTTTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
54 8 0.17
55 7 0.15
57 29 0.60
58 4 0.08
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (54 bp):
CCTTAGTACATTCAGCCAAGAAGATGGAGAAGGATGAACATTTTTTTTTTCTTT
Found at i:15572585 original size:20 final size:19
Alignment explanation
Indices: 15572550--15572595 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
15572540 GCTATTTTGC
15572550 ATAAGTTGTAAAATAGTTA
1 ATAAGTTGTAAAATAGTTA
* *
15572569 ATAAGTATGTGAAATAG-TG
1 ATAAGT-TGTAAAATAGTTA
15572588 ATAAGTTG
1 ATAAGTTG
15572596 AAGTTTCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 13 0.54
20 9 0.38
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (19 bp):
ATAAGTTGTAAAATAGTTA
Found at i:15573140 original size:47 final size:45
Alignment explanation
Indices: 15573069--15573428 Score: 235
Period size: 47 Copynumber: 7.7 Consensus size: 45
15573059 TGATTTGTGC
* * *
15573069 GCCAGTGCAAGACATGTCTAGGACATGCTTCAGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACA-TATGAGA
* * ** *
15573115 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-GGCATCCAAACAAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCA--CATATGAGA
* * *
15573163 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACA-TATGAGA
* * * * *
15573209 GCCAGTGTAAAACCATGTCTGGGACATGACATCGGCACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACATG-CATCAGC-CACATATGAGA
* * *
15573257 GCCAGTGTAAGATATGTCTGGGACATGCATCAGCCTCGACAGA-GATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAG-C-C-ACATATGAGA
* * * * * * *
15573304 GCCAGTGTAAGACGTGTCTGGGATACGCATCGGCTTAGAGT-T--GT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGC-CACA-TATGAGA
* * *
15573348 GCTAGTGTAAGACATGTCTGAGACATGCATCAGCACGCGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGC-CAC--ATATGAGA
* *
15573396 GCCAGTGTAATACCATGTTTGGGACATGGCATC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
15573429 GGTAATATAT
Statistics
Matches: 239, Mismatches: 55, Indels: 36
0.72 0.17 0.11
Matches are distributed among these distances:
44 28 0.12
45 4 0.02
46 37 0.15
47 94 0.39
48 54 0.23
49 17 0.07
50 5 0.02
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.23
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATATGAGA
Found at i:15573242 original size:94 final size:93
Alignment explanation
Indices: 15573072--15573430 Score: 347
Period size: 94 Copynumber: 3.8 Consensus size: 93
15573062 TTTGTGCGCC
* * * * *
15573072 AGTGCAAGACATGTCTAGGACATGCTTCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTCTGG
*
15573137 GACATGGCATCGGCATCCAAACAAGGGCT
66 GACATGGCATCGGCAT-CAAACAAGTGCT
* *
15573166 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAAACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTCTGG
* ** *
15573231 GACATGACATCGGCA-CAGAGATGAGTGCC
66 GACATGGCATCGGCATCA-A-ACAAGTGCT
* *
15573260 AGTGTAAGATATGTCTGGGACATGCATCAGCC-TCGAC-A-GAGATAGCCAGTGTAAGA-CGTGT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAT--ACTATGAG--AGCCAGTGTAAGACCATGT
* * * * ***
15573321 CTGGGATA-CGCATCGGC-TTAGAGTTGTGCT
62 CTGGGACATGGCATCGGCATCAAACAAGTGCT
* * * *
15573351 AGTGTAAGACATGTCTGAGACATGCATCAGCACGCGTA-TATGAGAGCCAGTGTAATACCATGTT
1 AGTGTAAGACATGTCTGGGACATGCATCAG--C-CATACTATGAGAGCCAGTGTAAGACCATGTC
15573415 TGGGACATGGCATCGG
63 TGGGACATGGCATCGG
15573431 TAATATATCC
Statistics
Matches: 218, Mismatches: 32, Indels: 30
0.78 0.11 0.11
Matches are distributed among these distances:
91 33 0.15
92 14 0.06
93 25 0.11
94 131 0.60
95 15 0.07
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.23
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGGCATCAAACAAGTGCT
Found at i:15573428 original size:141 final size:141
Alignment explanation
Indices: 15573069--15573428 Score: 342
Period size: 141 Copynumber: 2.6 Consensus size: 141
15573059 TGATTTGTGC
* * *
15573069 GCCAGTGCAAGACATGTCT-AGGACATGCTTCAGC-CACAT-TATGAGAGCCAGTGTAAGACCAT
1 GCCAGTGTAAGACATGTCTGA-GACATGCATCAGCAC-CGTATATGAGAGCCAGTGTAAGACCAT
* * * *
15573131 GTCTGGGACATGGCATCGGCATCCAAACAAGGGCTAGTGTAAGACATGTCTGGGACATGCATCAG
64 GTCTGGGACATGGCATCAGCATCCAAACAAGAGCCAGTGTAAGACATGTCTGGGACACGCATCAG
*
15573196 CCATACTATGATA
129 CCAGACTATGATA
* * * * * * *
15573209 GCCAGTGTAAAACCATGTCTGGGACATGACATCGGCACAG-AGATGAGTGCCAGTGTAAGA-TAT
1 GCCAGTGTAAGA-CATGTCTGAGACATG-CATCAGCACCGTATATGAGAGCCAGTGTAAGACCAT
* * * * * * * *
15573272 GTCTGGGACAT-GCATCAGCCTCGACAGAGATAGCCAGTGTAAGACGTGTCTGGGATACGCATCG
64 GTCTGGGACATGGCATCAGCATCCAAACA-AGAGCCAGTGTAAGACATGTCTGGGACACGCATCA
* *
15573336 GCTTAGAGT-TG-T-
128 GC-CAGACTATGATA
* *
15573348 GCTAGTGTAAGACATGTCTGAGACATGCATCAGCACGCGTATATGAGAGCCAGTGTAATACCATG
1 GCCAGTGTAAGACATGTCTGAGACATGCATCAGCAC-CGTATATGAGAGCCAGTGTAAGACCATG
*
15573413 TTTGGGACATGGCATC
65 TCTGGGACATGGCATC
15573429 GGTAATATAT
Statistics
Matches: 174, Mismatches: 35, Indels: 21
0.76 0.15 0.09
Matches are distributed among these distances:
137 8 0.05
138 15 0.09
139 27 0.16
140 35 0.20
141 63 0.36
142 25 0.14
143 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.23
Consensus pattern (141 bp):
GCCAGTGTAAGACATGTCTGAGACATGCATCAGCACCGTATATGAGAGCCAGTGTAAGACCATGT
CTGGGACATGGCATCAGCATCCAAACAAGAGCCAGTGTAAGACATGTCTGGGACACGCATCAGCC
AGACTATGATA
Found at i:15588779 original size:16 final size:15
Alignment explanation
Indices: 15588758--15588800 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
15588748 ATTTTTTTTA
15588758 TTATTTACTCTTATTT
1 TTATTTA-TCTTATTT
*
15588774 TTATTTTATTTTATTT
1 TTA-TTTATCTTATTT
*
15588790 TTATTTTTCTT
1 TTATTTATCTT
15588801 TTGATTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 6 0.26
16 13 0.57
17 4 0.17
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (15 bp):
TTATTTATCTTATTT
Found at i:15588782 original size:5 final size:5
Alignment explanation
Indices: 15588772--15588839 Score: 50
Period size: 5 Copynumber: 12.8 Consensus size: 5
15588762 TTACTCTTAT
* *
15588772 TTTTA TTTTA TTTTA TTTTTA TTTTTC TTTTGA TTTTTA TTTTCA TTTCAA
1 TTTTA TTTTA TTTTA -TTTTA -TTTTA TTTT-A -TTTTA TTTT-A TTT-TA
15588823 TTTTA --TTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTT
15588840 GAAAGACATA
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
3 3 0.06
5 26 0.50
6 19 0.37
7 4 0.08
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:15588786 original size:22 final size:22
Alignment explanation
Indices: 15588747--15588808 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
15588737 TGAATCCTCC
*
15588747 TATTTTTTTTATTA-TTTACTCT
1 TATTTTTATT-TTATTTTACTCT
* *
15588769 TATTTTTATTTTATTTTATTTT
1 TATTTTTATTTTATTTTACTCT
*
15588791 TATTTTTCTTTTGATTTT
1 TATTTTTATTTT-ATTTT
15588809 TATTTTCATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 3 0.09
22 26 0.76
23 5 0.15
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (22 bp):
TATTTTTATTTTATTTTACTCT
Found at i:15588793 original size:35 final size:36
Alignment explanation
Indices: 15588752--15588833 Score: 107
Period size: 35 Copynumber: 2.3 Consensus size: 36
15588742 CCTCCTATTT
*
15588752 TTTTTATTATTTACTCTT-ATTTTTATTTT-ATTTTA
1 TTTTTATTATTT-CTCTTGATTTTTATTTTCATTTCA
*
15588787 TTTTTATT-TTTCTTTTGATTTTTATTTTCATTTCA
1 TTTTTATTATTTCTCTTGATTTTTATTTTCATTTCA
*
15588822 ATTTTATTATTT
1 TTTTTATTATTT
15588834 TATTTTGAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
33 4 0.10
34 14 0.34
35 20 0.49
36 3 0.07
ACGTcount: A:0.18, C:0.06, G:0.01, T:0.74
Consensus pattern (36 bp):
TTTTTATTATTTCTCTTGATTTTTATTTTCATTTCA
Found at i:15588809 original size:7 final size:6
Alignment explanation
Indices: 15588752--15588819 Score: 68
Period size: 6 Copynumber: 11.5 Consensus size: 6
15588742 CCTCCTATTT
* * *
15588752 TTTTTA TTATTTA CTCTTA TTTTTA -TTTTA -TTTTA TTTTTA TTTTTC
1 TTTTTA TT-TTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* *
15588799 TTTTGA TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTT
15588820 CAATTTTATT
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
5 10 0.20
6 36 0.71
7 5 0.10
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:15591749 original size:13 final size:13
Alignment explanation
Indices: 15591733--15591765 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
15591723 TTTAATTAAA
*
15591733 TTAGTTAATTAGT
1 TTAGATAATTAGT
15591746 TTAGATAATTAGT
1 TTAGATAATTAGT
15591759 TTA-ATAA
1 TTAGATAA
15591766 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:15601320 original size:17 final size:18
Alignment explanation
Indices: 15601298--15601332 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
15601288 GTAAATAAAC
15601298 ATAAAAGAAT-AAAGAAA
1 ATAAAAGAATAAAAGAAA
15601315 ATAAAAGAATAAAAGAAA
1 ATAAAAGAATAAAAGAAA
15601333 GAAATGAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (18 bp):
ATAAAAGAATAAAAGAAA
Found at i:15601325 original size:8 final size:8
Alignment explanation
Indices: 15601298--15601331 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
15601288 GTAAATAAAC
15601298 ATAAAAGA
1 ATAAAAGA
*
15601306 ATAAAGAAA
1 ATAAA-AGA
15601315 ATAAAAGA
1 ATAAAAGA
15601323 ATAAAAGA
1 ATAAAAGA
15601331 A
1 A
15601332 AGAAATGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (8 bp):
ATAAAAGA
Found at i:15602669 original size:42 final size:42
Alignment explanation
Indices: 15602610--15602793 Score: 142
Period size: 42 Copynumber: 4.3 Consensus size: 42
15602600 TTTATGCAAA
* * *
15602610 AAAACACTGCTAAAGAACAAGACTTTTAGCGGCGCTTTCAAG-
1 AAAACACCGCTAAAGAACATGACCTTTAGCGGCGCTTTC-AGT
* * * *
15602652 AAAACACCGCTAAAGAACGTGACCTTTAGCGGAGCCTTCTGT
1 AAAACACCGCTAAAGAACATGACCTTTAGCGGCGCTTTCAGT
* * * *
15602694 ACAAACGCCACTAAAGAACTTGACCTTTAGCGGCGCTTTCTGT
1 A-AAACACCGCTAAAGAACATGACCTTTAGCGGCGCTTTCAGT
* * * **
15602737 ACAAAC-GCGCTAAAGGCCACAT--TCTTTAGCGGCGCTTTCTCT
1 A-AAACACCGCTAAA-G-AACATGACCTTTAGCGGCGCTTTCAGT
15602779 ACAAACACCGCTAAA
1 A-AAACACCGCTAAA
15602794 AATGTATGTT
Statistics
Matches: 118, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
41 1 0.01
42 64 0.54
43 50 0.42
44 3 0.03
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.22
Consensus pattern (42 bp):
AAAACACCGCTAAAGAACATGACCTTTAGCGGCGCTTTCAGT
Found at i:15602711 original size:43 final size:43
Alignment explanation
Indices: 15602661--15602744 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
15602651 GAAAACACCG
15602661 CTAAAGAACGTGACCTTTAGCGGAGCCTTCTGTACAAACGCCA
1 CTAAAGAACGTGACCTTTAGCGGAGCCTTCTGTACAAACGCCA
* * *
15602704 CTAAAGAACTTGACCTTTAGCGGCGCTTTCTGTACAAACGC
1 CTAAAGAACGTGACCTTTAGCGGAGCCTTCTGTACAAACGC
15602745 GCTAAAGGCC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (43 bp):
CTAAAGAACGTGACCTTTAGCGGAGCCTTCTGTACAAACGCCA
Found at i:15602965 original size:47 final size:47
Alignment explanation
Indices: 15602888--15603028 Score: 228
Period size: 47 Copynumber: 3.0 Consensus size: 47
15602878 AATCCTTCCT
* *
15602888 GCAACATCAAATCCAACCAATGACAGCAAATCTGAATGATACTTCAA
1 GCAACATCAAATCCAACCAATAACAGCAAATCTAAATGATACTTCAA
*
15602935 GCAACATCAAATCCAACCAATAACAACAAATCTAAATGATACTTCAA
1 GCAACATCAAATCCAACCAATAACAGCAAATCTAAATGATACTTCAA
* * *
15602982 GAAACATCAAATCCAACCAATAATAGCAAATCTAAATGATACATCAA
1 GCAACATCAAATCCAACCAATAACAGCAAATCTAAATGATACTTCAA
15603029 AAATTTAGTG
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 87 1.00
ACGTcount: A:0.50, C:0.24, G:0.07, T:0.19
Consensus pattern (47 bp):
GCAACATCAAATCCAACCAATAACAGCAAATCTAAATGATACTTCAA
Found at i:15603257 original size:21 final size:21
Alignment explanation
Indices: 15603231--15603270 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
15603221 CTTCCCTCGC
*
15603231 TGCTGCCTCATCTTTAAGTGA
1 TGCTGCCTCAGCTTTAAGTGA
*
15603252 TGCTGCCTCCGCTTTAAGT
1 TGCTGCCTCAGCTTTAAGT
15603271 TGAGTAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.28, G:0.20, T:0.38
Consensus pattern (21 bp):
TGCTGCCTCAGCTTTAAGTGA
Found at i:15606552 original size:11 final size:11
Alignment explanation
Indices: 15606536--15606565 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
15606526 TTGCATCAAG
15606536 ATGTGATAATC
1 ATGTGATAATC
15606547 ATGTGATAATC
1 ATGTGATAATC
*
15606558 ATGAGATA
1 ATGTGATA
15606566 TATTTGATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (11 bp):
ATGTGATAATC
Found at i:15607638 original size:25 final size:24
Alignment explanation
Indices: 15607592--15607640 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
15607582 ACATATATAT
*
15607592 TTAAAAATATTTTCAAAAAAAAAC
1 TTAAAAATATTTGCAAAAAAAAAC
*
15607616 TTAAAAATAATTTGGAAACAAAAAA
1 TTAAAAAT-ATTTGCAAA-AAAAAA
15607641 GGTTCTGCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 8 0.38
25 7 0.33
26 6 0.29
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.27
Consensus pattern (24 bp):
TTAAAAATATTTGCAAAAAAAAAC
Found at i:15608646 original size:543 final size:544
Alignment explanation
Indices: 15607609--15608666 Score: 1834
Period size: 543 Copynumber: 1.9 Consensus size: 544
15607599 TATTTTCAAA
*
15607609 AAAAAACTTAAAAATAATTTGGAAACAAAAAAGGTTCTGCTCCAAACAAAACCAGCAATTAAATC
1 AAAAAACTTAAAAATAATTTGGAAACAAAAAAGGTTCTGCTCCAAACAAAACCAACAATTAAATC
* * * *
15607674 TGTACAAATCGCAGCCCCAAAATATTAATTTTTCCAAAATCATCATGATGAAACTATTATTGACT
66 TATACAAATCGCAACCCCAAAATATTAATTTTTCAAAAATCATCATGATAAAACTATTATTGACT
*
15607739 AGAATTTTGAACTAAAACGTACCTTAATAATTTCAACAACATGGTCTACTCCACTCTCACCAGCA
131 AGAATTTTGAACTAAAACATACCTTAATAATTTCAACAACATGGTCTACTCCACTCTCACCAGCA
* *
15607804 AACAGAGGCTGGAGTCAAAAAAGCAGTATTTGTTAAGTAATTTAAAGCGAAAATGCATAGAAATA
196 AACAGAGGCTAGAGTCAAAAAAGCAGTATTTGCTAAGTAATTTAAAGCGAAAATGCATAGAAATA
*
15607869 AGTTAAGTAATTTAGCAACGAAACATGTACCTAGAACATATGTCAATGGCTGTGGTGTATTTAGT
261 AGTTAAGTAATTTAGCAACGAAACATGTACCTAGAACAGATGTCAATGGCTGTGGTGTATTTAGT
15607934 TGCACCAAATATTAATCCAGGTGCTCGATAGTACCTAGAACAGATGTAAGATTATAAGAGTAGCA
326 TGCACCAAATATTAATCCAGGTGCTCGATAGTACCTAGAACAGATGTAAGATTATAAGAGTAGCA
*
15607999 TCAAATATATTTCAGTTCAAGCAAATATAAAAACTTTATCAATATCAGTACCAAATATTAATTCG
391 CCAAATATATTTCAGTTCAAGCAAATATAAAAACTTTATCAATATCAGTACCAAATATTAATTCG
* * *
15608064 AAGATTAAATGGCAGCTTTAGTTGAACCAATAATTGCAGGAGGAGGAGGAAGTAGTAACTGAAAT
456 AAGATTAAATGGCAGCTTCAGTTGAACCAATAATTGCAGGAGGAGCAGGAAGCAGTAACTGAAAT
15608129 ACATACAACATTATTTTCAAAAGC
521 ACATACAACATTATTTTCAAAAGC
* *
15608153 AAAAAATTTAAAAATAATTTGGAAACAAAATA-GTTCTGCTCCAAA-AAGAACCAACAATTAAAT
1 AAAAAACTTAAAAATAATTTGGAAACAAAAAAGGTTCTGCTCCAAACAA-AACCAACAATTAAAT
* *
15608216 CTATACAAAATTGCAACCCCAAAATATTAATTTTTCAAAAATCATTATGATAAAACTATTATTGA
65 CTATAC-AAATCGCAACCCCAAAATATTAATTTTTCAAAAATCATCATGATAAAACTATTATTGA
* * *
15608281 TTAGAATTTTGAACTAAAACATACTTTAATAATTTCAACAAC-TGGTCTACTCCAGTCTCACCAG
129 CTAGAATTTTGAACTAAAACATACCTTAATAATTTCAACAACATGGTCTACTCCACTCTCACCAG
* *
15608345 CAAACAGAGGCTAGAGTCAAAAAAGTAGTATTTGCTAAGTAGTTTAAAGCGAAAATGCATAGAAA
194 CAAACAGAGGCTAGAGTCAAAAAAGCAGTATTTGCTAAGTAATTTAAAGCGAAAATGCATAGAAA
*
15608410 TAAGTTAAGTAATTTAGCAATGAAACATGTACCTAGAACAGATGTCAATGGCTGTGGTGTATTTA
259 TAAGTTAAGTAATTTAGCAACGAAACATGTACCTAGAACAGATGTCAATGGCTGTGGTGTATTTA
** *
15608475 GTTGCACCAAATATTAATTTAGGTGTTCGATAGTACCTAGAACAGATGTAAGATTATAAGAGTAG
324 GTTGCACCAAATATTAATCCAGGTGCTCGATAGTACCTAGAACAGATGTAAGATTATAAGAGTAG
15608540 CACCAAATATATTTCAGTTCAAGCAAATATAAAAACTTTATCAATATCAGTACCAAATATTAATT
389 CACCAAATATATTTCAGTTCAAGCAAATATAAAAACTTTATCAATATCAGTACCAAATATTAATT
*
15608605 CGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGGAGCAGGAAGCAGTAACT
454 CGAAGATTAAATGGCAGCTTCAGTTGAACCAATAATTGCAGGAGGAGCAGGAAGCAGTAACT
15608667 ATAATAATAT
Statistics
Matches: 485, Mismatches: 27, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
542 2 0.00
543 361 0.74
544 122 0.25
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (544 bp):
AAAAAACTTAAAAATAATTTGGAAACAAAAAAGGTTCTGCTCCAAACAAAACCAACAATTAAATC
TATACAAATCGCAACCCCAAAATATTAATTTTTCAAAAATCATCATGATAAAACTATTATTGACT
AGAATTTTGAACTAAAACATACCTTAATAATTTCAACAACATGGTCTACTCCACTCTCACCAGCA
AACAGAGGCTAGAGTCAAAAAAGCAGTATTTGCTAAGTAATTTAAAGCGAAAATGCATAGAAATA
AGTTAAGTAATTTAGCAACGAAACATGTACCTAGAACAGATGTCAATGGCTGTGGTGTATTTAGT
TGCACCAAATATTAATCCAGGTGCTCGATAGTACCTAGAACAGATGTAAGATTATAAGAGTAGCA
CCAAATATATTTCAGTTCAAGCAAATATAAAAACTTTATCAATATCAGTACCAAATATTAATTCG
AAGATTAAATGGCAGCTTCAGTTGAACCAATAATTGCAGGAGGAGCAGGAAGCAGTAACTGAAAT
ACATACAACATTATTTTCAAAAGC
Found at i:15609304 original size:12 final size:12
Alignment explanation
Indices: 15609287--15609311 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15609277 CATAAGGAGT
15609287 AAACAATGATGA
1 AAACAATGATGA
15609299 AAACAATGATGA
1 AAACAATGATGA
15609311 A
1 A
15609312 CTAAAAAGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.16, T:0.16
Consensus pattern (12 bp):
AAACAATGATGA
Found at i:15610765 original size:15 final size:15
Alignment explanation
Indices: 15610742--15610773 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
15610732 AAATAATAAT
15610742 TTATATATATTTATC
1 TTATATATATTTATC
*
15610757 TTATTTATATTTATC
1 TTATATATATTTATC
15610772 TT
1 TT
15610774 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATATATATTTATC
Found at i:15610831 original size:14 final size:14
Alignment explanation
Indices: 15610799--15610846 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
15610789 AAATTATACT
*
15610799 CTAAACTTGAAACC
1 CTAAACCTGAAACC
* *
15610813 ATAAACCTGAGACC
1 CTAAACCTGAAACC
15610827 CTAAACCCT-AAACC
1 CTAAA-CCTGAAACC
15610841 CTAAAC
1 CTAAAC
15610847 AACAAACACC
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
13 1 0.04
14 24 0.86
15 3 0.11
ACGTcount: A:0.44, C:0.33, G:0.06, T:0.17
Consensus pattern (14 bp):
CTAAACCTGAAACC
Found at i:15616824 original size:26 final size:26
Alignment explanation
Indices: 15616794--15616901 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
15616784 TGAAATTCCC
15616794 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
15616820 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
15616846 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
15616872 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
15616898 ATCA
1 ATCA
15616902 ATTTGTACCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:15623878 original size:26 final size:26
Alignment explanation
Indices: 15623848--15623954 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
15623838 TGAAATTCCC
15623848 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
15623874 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
15623900 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
15623926 ATCATGGAACATTTACC-AACCCATT
1 ATCATGGAACATTTACCTAACCCATT
15623951 ATCA
1 ATCA
15623955 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
25 11 0.15
26 64 0.85
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:15628774 original size:18 final size:17
Alignment explanation
Indices: 15628714--15628812 Score: 67
Period size: 18 Copynumber: 5.6 Consensus size: 17
15628704 TAATATTCAA
*
15628714 TTATTCAGTAGAATTAG
1 TTATTCAGTAGAATCAG
* *
15628731 TTATTCAGTAACAATCAT
1 TTATTCAGT-AGAATCAG
**
15628749 TTGCTCAGTAGGAATCAG
1 TTATTCAGTA-GAATCAG
*
15628767 TTATTCAGTA-ACGATCAA
1 TTATTCAGTAGA--ATCAG
15628785 TTATTCAGTA-ACAGTCAG
1 TTATTCAGTAGA-A-TCAG
*
15628803 TCATTCAGTA
1 TTATTCAGTA
15628813 CTTTTATTTA
Statistics
Matches: 64, Mismatches: 13, Indels: 9
0.74 0.15 0.10
Matches are distributed among these distances:
16 1 0.02
17 11 0.17
18 52 0.81
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
Consensus pattern (17 bp):
TTATTCAGTAGAATCAG
Found at i:15628793 original size:36 final size:35
Alignment explanation
Indices: 15628710--15628812 Score: 118
Period size: 36 Copynumber: 2.9 Consensus size: 35
15628700 TTAGTAATAT
*
15628710 TCAATTATTCAGTAGAATTAGTTATTCAGTAACAA
1 TCAATTATTCAGTAGAATCAGTTATTCAGTAACAA
* ** *
15628745 TCATTTGCTCAGTAGGAATCAGTTATTCAGTAACGA
1 TCAATTATTCAGTA-GAATCAGTTATTCAGTAACAA
*
15628781 TCAATTATTCAGTA-ACAGTCAGTCATTCAGTA
1 TCAATTATTCAGTAGA-A-TCAGTTATTCAGTA
15628813 CTTTTATTTA
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
34 1 0.02
35 12 0.21
36 43 0.77
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
Consensus pattern (35 bp):
TCAATTATTCAGTAGAATCAGTTATTCAGTAACAA
Found at i:15634461 original size:17 final size:18
Alignment explanation
Indices: 15634429--15634472 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
15634419 AATAATAAAG
*
15634429 TAAATAAACATAAAAGAA
1 TAAAGAAACATAAAAGAA
15634447 TAAAGAAAC-TAAAAGAA
1 TAAAGAAACATAAAAGAA
15634464 TAAAAGAAA
1 T-AAAGAAA
15634473 GAAATGAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.73, C:0.05, G:0.09, T:0.14
Consensus pattern (18 bp):
TAAAGAAACATAAAAGAA
Found at i:15635801 original size:4 final size:4
Alignment explanation
Indices: 15635792--15635838 Score: 94
Period size: 4 Copynumber: 11.8 Consensus size: 4
15635782 TGGTTTAGTA
15635792 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
15635839 GTTATATGAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:15640903 original size:19 final size:20
Alignment explanation
Indices: 15640873--15640911 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
15640863 TAATATATTA
15640873 TATTATTATATAGAGTATAT
1 TATTATTATATAGAGTATAT
15640893 TATTA-TATATAGAGTATAT
1 TATTATTATATAGAGTATAT
15640912 AGCATATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (20 bp):
TATTATTATATAGAGTATAT
Found at i:15654889 original size:107 final size:107
Alignment explanation
Indices: 15654642--15654882 Score: 284
Period size: 107 Copynumber: 2.3 Consensus size: 107
15654632 CCTATTATCG
* *
15654642 CGATGGCTGAGATCCTACATATATTGCGGATTCTTAACAACTTGTATGAGCAGCATCGTAAACTG
1 CGATGGCTGAGATCCTGCATATGTTGCGGATTCTTAACAACTTGTATGAGCAGCATCGTAAACTG
* * ** * ** * * *
15654707 TTGAATTGAATGGCTACTCTATTTTGATGACATAGACCGTTC
66 GTGAAATGAATAACTACACTATACTGATGAAATAGACCATTA
* * * * *
15654749 CGATGGCTGAGATCCTGCACATGTTTCGGATTCTTGACAACTTGTGTGAGCAGCATCGTGAACTG
1 CGATGGCTGAGATCCTGCATATGTTGCGGATTCTTAACAACTTGTATGAGCAGCATCGTAAACTG
* * **
15654814 GTGAAATGACTAACTACACTGTACTGATGAAATAGATTATTA
66 GTGAAATGAATAACTACACTATACTGATGAAATAGACCATTA
*
15654856 CGATGGTTGAGATCCTGCATATGTTGC
1 CGATGGCTGAGATCCTGCATATGTTGC
15654883 AAATTCTCAT
Statistics
Matches: 110, Mismatches: 24, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
107 110 1.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (107 bp):
CGATGGCTGAGATCCTGCATATGTTGCGGATTCTTAACAACTTGTATGAGCAGCATCGTAAACTG
GTGAAATGAATAACTACACTATACTGATGAAATAGACCATTA
Found at i:15655899 original size:21 final size:21
Alignment explanation
Indices: 15655868--15655916 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
15655858 GCATACGGTT
15655868 GAGCC-CATGGGCT-TGTGGGA
1 GAGCCACATGGG-TGTGTGGGA
15655888 TG-GCCACATGGGTGTGTGGGA
1 -GAGCCACATGGGTGTGTGGGA
15655909 GAGCCACA
1 GAGCCACA
15655917 CGGCTGGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 5 0.20
21 20 0.80
ACGTcount: A:0.18, C:0.20, G:0.43, T:0.18
Consensus pattern (21 bp):
GAGCCACATGGGTGTGTGGGA
Found at i:15658648 original size:42 final size:42
Alignment explanation
Indices: 15658599--15658741 Score: 170
Period size: 41 Copynumber: 3.5 Consensus size: 42
15658589 GTAACAGTGA
*
15658599 TATATCAGGCTTATTGCCTAGCAGGCTTTGACGCCGGTGTAT
1 TATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTAT
*
15658641 GT-TATCAGGCTTATTGCCTAGCAGGCTTT-ATTCCGGTGTAT
1 -TATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTAT
* * * *
15658682 TAAATCAGGTTTATTACCTAGCAGGCTCTG-TGCCGGTGTAT
1 TATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTAT
*
15658723 TAT-TTAGGCTT-TATGCCTA
1 TATATCAGGCTTAT-TGCCTA
15658742 ACAAATTTTA
Statistics
Matches: 86, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
39 1 0.01
40 12 0.14
41 45 0.52
42 27 0.31
43 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.37
Consensus pattern (42 bp):
TATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTAT
Found at i:15659408 original size:39 final size:37
Alignment explanation
Indices: 15659308--15659400 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 37
15659298 ATGGCATGTA
* *
15659308 TATTTTGTCCGATCTTGGATATGTATAGGCTAATATG
1 TATTATGTCTGATCTTGGATATGTATAGGCTAATATG
*
15659345 TATTTTGTCTGATCTTGGATATGTATAGGCTAACTTATG
1 TATTATGTCTGATCTTGGATATGTATAGGCTAA--TATG
* *
15659384 T-TTATGTTTGATTTTGG
1 TATTATGTCTGATCTTGG
15659401 GTTATGTAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
37 32 0.64
38 13 0.26
39 5 0.10
ACGTcount: A:0.22, C:0.09, G:0.22, T:0.48
Consensus pattern (37 bp):
TATTATGTCTGATCTTGGATATGTATAGGCTAATATG
Found at i:15662516 original size:2 final size:2
Alignment explanation
Indices: 15662509--15662563 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
15662499 TTTATGCGTT
15662509 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
15662551 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
15662564 GTCTATTATG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15665476 original size:3 final size:3
Alignment explanation
Indices: 15665468--15665507 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
15665458 CAAGCATATT
15665468 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
15665508 TTAATCATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:15666718 original size:27 final size:27
Alignment explanation
Indices: 15666670--15666827 Score: 173
Period size: 27 Copynumber: 5.9 Consensus size: 27
15666660 GCGAGGCTGC
* *
15666670 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
15666697 TAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
15666723 CAGATATATGTGGCAGAGCCACTAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
15666750 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
15666777 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
15666804 CAGATAATTGTGGCATAGCCACCA
1 CAGAT-ATTGTGGCAGAGCCACCA
15666828 AGACGCTTCC
Statistics
Matches: 112, Mismatches: 11, Indels: 16
0.81 0.08 0.12
Matches are distributed among these distances:
26 9 0.08
27 98 0.88
28 5 0.04
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:15666771 original size:54 final size:54
Alignment explanation
Indices: 15666688--15666827 Score: 219
Period size: 54 Copynumber: 2.6 Consensus size: 54
15666678 GTGACGAAGT
* * *
15666688 CACCAGATATAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
15666742 CACTAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
15666796 CACCAGATCAGATAATTGTGGCATAGCCACCA
1 CACCAGATCAGATAATCGTGGCATAGCCACCA
15666828 AGACGCTTCC
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 4 0.05
54 75 0.95
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:15668479 original size:26 final size:26
Alignment explanation
Indices: 15668460--15668557 Score: 169
Period size: 26 Copynumber: 3.8 Consensus size: 26
15668450 ATCATTAAAT
*
15668460 ATTTACCTAAACCATTATCATGGAAC
1 ATTTACCTAACCCATTATCATGGAAC
*
15668486 ATTTACCTAACCCATTATCATGGAAT
1 ATTTACCTAACCCATTATCATGGAAC
*
15668512 ATTTACCTAATCCATTATCATGGAAC
1 ATTTACCTAACCCATTATCATGGAAC
15668538 ATTTACCTAACCCATTATCA
1 ATTTACCTAACCCATTATCA
15668558 ATTTGTACCA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 67 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
ATTTACCTAACCCATTATCATGGAAC
Found at i:15668513 original size:52 final size:52
Alignment explanation
Indices: 15668457--15668557 Score: 193
Period size: 52 Copynumber: 1.9 Consensus size: 52
15668447 CCCATCATTA
15668457 AATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTATCATGG
1 AATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTATCATGG
*
15668509 AATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCA
1 AATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTATCA
15668558 ATTTGTACCA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.34
Consensus pattern (52 bp):
AATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTATCATGG
Found at i:15672062 original size:2 final size:2
Alignment explanation
Indices: 15672055--15672100 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
15672045 AAATAAACTT
15672055 TA TA TA TA TA TA TA -A 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
15672096 TA TA T
1 TA TA T
15672101 TTTGTCGTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15672491 original size:17 final size:18
Alignment explanation
Indices: 15672471--15672508 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
15672461 AGATTAAATT
15672471 TAAAAAAAAATTATAA-A
1 TAAAAAAAAATTATAAGA
* *
15672488 TAAAAATATATTATAAGA
1 TAAAAAAAAATTATAAGA
15672506 TAA
1 TAA
15672509 TATTAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
TAAAAAAAAATTATAAGA
Found at i:15673536 original size:11 final size:12
Alignment explanation
Indices: 15673508--15673536 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
15673498 GTTATTAATA
15673508 TAATTTAGTTCT
1 TAATTTAGTTCT
15673520 TAATTTAGTTC-
1 TAATTTAGTTCT
15673531 TAATTT
1 TAATTT
15673537 GTTTTAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.59
Consensus pattern (12 bp):
TAATTTAGTTCT
Found at i:15673678 original size:25 final size:23
Alignment explanation
Indices: 15673641--15673686 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
15673631 TTTGTTTTAA
*
15673641 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
15673664 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
15673687 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:15676302 original size:26 final size:26
Alignment explanation
Indices: 15676244--15676349 Score: 171
Period size: 25 Copynumber: 4.2 Consensus size: 26
15676234 TGGTACAAAT
*
15676244 TGATAATGGGTTAGGTAAATGTT-CA
1 TGATAATGGGTTAGGTAAATATTCCA
*
15676269 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
15676295 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
15676321 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
15676346 TGAT
1 TGAT
15676350 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 42 0.55
26 34 0.45
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:15676304 original size:51 final size:51
Alignment explanation
Indices: 15676244--15676349 Score: 178
Period size: 51 Copynumber: 2.1 Consensus size: 51
15676234 TGGTACAAAT
*
15676244 TGATAATGGGTTAGGTAAATGTT-CATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCATGATAATGG-TTAGGTAAATATTCCA
*
15676295 TGATAATGGGTTAGGTAAATATTCCATGATAATGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCATGATAATGGTTAGGTAAATATTCCA
15676346 TGAT
1 TGAT
15676350 GGGCATTTCA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
51 41 0.79
52 11 0.21
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.36
Consensus pattern (51 bp):
TGATAATGGGTTAGGTAAATATTCCATGATAATGGTTAGGTAAATATTCCA
Found at i:15684462 original size:26 final size:25
Alignment explanation
Indices: 15684419--15684525 Score: 178
Period size: 26 Copynumber: 4.2 Consensus size: 25
15684409 TGGTACAAAT
15684419 TGATAATGGTTAGGTAAATGTTCCA
1 TGATAATGGTTAGGTAAATGTTCCA
*
15684444 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
15684470 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
15684496 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
15684522 TGAT
1 TGAT
15684526 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
25 11 0.14
26 64 0.83
27 2 0.03
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:15687498 original size:2 final size:2
Alignment explanation
Indices: 15687487--15687528 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
15687477 ATGAAATAAT
15687487 TA TA TA -A 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
15687528 T
1 T
15687529 GAATATAAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15687782 original size:16 final size:16
Alignment explanation
Indices: 15687759--15687807 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
15687749 ATTTATAATA
15687759 AATA-ATAATATAAAT
1 AATATATAATATAAAT
15687774 AATATATAATA-AAAT
1 AATATATAATATAAAT
15687789 AACTATATAATATATAAT
1 AA-TATATAATATA-AAT
15687807 A
1 A
15687808 TAAAAATAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
15 10 0.33
16 15 0.50
17 1 0.03
18 4 0.13
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
AATATATAATATAAAT
Found at i:15687798 original size:23 final size:24
Alignment explanation
Indices: 15687745--15687815 Score: 76
Period size: 23 Copynumber: 3.0 Consensus size: 24
15687735 ACTTGTGAAA
*
15687745 AATAATTTATAATAAATAATAATAT
1 AATAATATATAAT-AATAATAATAT
15687770 AAATAATATATAATAA-AATAACTAT
1 -AATAATATATAATAATAATAA-TAT
*
15687795 -ATAATATATAAT-ATAAAAATA
1 AATAATATATAATAATAATAATA
15687816 AGGTTAAAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
22 3 0.07
23 16 0.39
24 5 0.12
25 5 0.12
26 12 0.29
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.35
Consensus pattern (24 bp):
AATAATATATAATAATAATAATAT
Found at i:15687800 original size:26 final size:26
Alignment explanation
Indices: 15687744--15687816 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 26
15687734 AACTTGTGAA
*
15687744 AAATAATTTATAATAAATAATAATAT
1 AAATAATATATAATAAATAATAATAT
15687770 AAATAATATATAAT-AA-AATAACTAT
1 AAATAATATATAATAAATAATAA-TAT
*
15687795 --ATAATATATAATATAAAAATAA
1 AAATAATATATAATA-AATAATAA
15687817 GGTTAAAGAT
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
23 12 0.29
24 5 0.12
25 7 0.17
26 18 0.43
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (26 bp):
AAATAATATATAATAAATAATAATAT
Found at i:15687808 original size:7 final size:7
Alignment explanation
Indices: 15687746--15687809 Score: 60
Period size: 7 Copynumber: 9.1 Consensus size: 7
15687736 CTTGTGAAAA
*
15687746 ATAATTT
1 ATAATAT
*
15687753 ATAATAA
1 ATAATAT
15687760 ATAATA-
1 ATAATAT
*
15687766 AT-ATAA
1 ATAATAT
15687772 ATAATAT
1 ATAATAT
*
15687779 ATAATAAA
1 ATAAT-AT
15687787 ATAACTAT
1 ATAA-TAT
15687795 ATAATAT
1 ATAATAT
15687802 ATAATAT
1 ATAATAT
15687809 A
1 A
15687810 AAAATAAGGT
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
5 3 0.06
6 4 0.08
7 30 0.62
8 10 0.21
9 1 0.02
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (7 bp):
ATAATAT
Found at i:15692773 original size:27 final size:27
Alignment explanation
Indices: 15692733--15692800 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
15692723 GGATTCCAAT
15692733 CAAACACACCAGAACAAATAATCCTCC
1 CAAACACACCAGAACAAATAATCCTCC
* * *
15692760 CAAACACACTAGAATAAATAATCCTTC
1 CAAACACACCAGAACAAATAATCCTCC
*
15692787 CAAACACAACAGAA
1 CAAACACACCAGAA
15692801 AGGCATTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.51, C:0.31, G:0.04, T:0.13
Consensus pattern (27 bp):
CAAACACACCAGAACAAATAATCCTCC
Found at i:15693985 original size:18 final size:18
Alignment explanation
Indices: 15693942--15693988 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
15693932 CTTGTCCTGA
* *
15693942 TTTAATTTAATTTATTTG
1 TTTAATATAATTTATATG
*
15693960 TTTTATATAATTTAATAT-
1 TTTAATATAATTT-ATATG
15693978 TTTAATATAAT
1 TTTAATATAAT
15693989 AAATGTAACG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 21 0.88
19 3 0.12
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
TTTAATATAATTTATATG
Found at i:15694411 original size:26 final size:26
Alignment explanation
Indices: 15694325--15694409 Score: 152
Period size: 26 Copynumber: 3.3 Consensus size: 26
15694315 TGATACAAAT
15694325 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
15694351 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
15694377 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
15694403 TGATAAT
1 TGATAAT
15694410 GGAATGTTTC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 57 1.00
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:15695891 original size:28 final size:26
Alignment explanation
Indices: 15695849--15695923 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
15695839 AAAAGTAGCT
* *
15695849 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGGA
* * *
15695877 AAATTACTGTTATACCTCTAGGTGTA
1 AAATTACTGTTATACCCCTAGATGGA
*
15695903 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
15695924 GGTTAATTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 22 0.55
27 1 0.03
28 17 0.43
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGGA
Found at i:15696068 original size:27 final size:27
Alignment explanation
Indices: 15696027--15696148 Score: 172
Period size: 27 Copynumber: 4.5 Consensus size: 27
15696017 GAGGAAGCGT
*
15696027 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
15696054 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
15696081 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
15696108 TCTGGTGGCCCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
*
15696136 TCTGGTGACTCTG
1 TCTGGTGGCTCTG
15696149 TCATAGTATC
Statistics
Matches: 84, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
27 73 0.87
28 11 0.13
ACGTcount: A:0.18, C:0.25, G:0.24, T:0.33
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:15696159 original size:54 final size:53
Alignment explanation
Indices: 15696027--15696162 Score: 148
Period size: 54 Copynumber: 2.5 Consensus size: 53
15696017 GAGGAAGCGT
* * * * *
15696027 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGACTCTG-CACATATATCTGTTCTGGTGGCCCTGCCACAAATATCTGA
* * *
15696081 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCCCTGCCACGATTATCTGTA
1 TCTGGTGACTCTG-CACATATATCTGTTCTGGTGGCCCTGCCACAAATATCTG-A
*
15696136 TCTGGTGACTCTG-TCATAGTATCTGTT
1 TCTGGTGACTCTGCACATA-TATCTGTT
15696163 ATGGCAGCCA
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
53 4 0.06
54 55 0.76
55 13 0.18
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (53 bp):
TCTGGTGACTCTGCACATATATCTGTTCTGGTGGCCCTGCCACAAATATCTGA
Found at i:15699876 original size:10 final size:10
Alignment explanation
Indices: 15699861--15699887 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
15699851 TTATCCTGTT
15699861 GAATTTCTCA
1 GAATTTCTCA
15699871 GAATTTCTCA
1 GAATTTCTCA
15699881 GAATTTC
1 GAATTTC
15699888 GATGGATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.41
Consensus pattern (10 bp):
GAATTTCTCA
Found at i:15700429 original size:23 final size:23
Alignment explanation
Indices: 15700403--15700470 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
15700393 GATAGCCATA
* **
15700403 TATCGGGAAGTTCA-AGCGAGCAC
1 TATCGGGAAGCTCACAAAGAGC-C
*
15700426 TATCGAGAAGCTCACAAAGAGCC
1 TATCGGGAAGCTCACAAAGAGCC
*
15700449 TATCGGGAAGCTCACGAAGAGC
1 TATCGGGAAGCTCACAAAGAGC
15700471 TATATATCGA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 33 0.87
24 5 0.13
ACGTcount: A:0.34, C:0.24, G:0.28, T:0.15
Consensus pattern (23 bp):
TATCGGGAAGCTCACAAAGAGCC
Found at i:15704272 original size:40 final size:40
Alignment explanation
Indices: 15704217--15704466 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
15704207 AACATTGGAA
15704217 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
15704257 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
15704297 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
15704337 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
15704377 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
15704416 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
15704457 CTATATCCGG
1 ATATATCCGG
15704467 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:15712446 original size:40 final size:40
Alignment explanation
Indices: 15712391--15712640 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
15712381 AACATTGGAA
15712391 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
15712431 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
15712471 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
15712511 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
15712551 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
15712590 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
15712631 CTATATCCGG
1 ATATATCCGG
15712641 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:15714197 original size:18 final size:20
Alignment explanation
Indices: 15714170--15714218 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
15714160 TAATTAATAA
* *
15714170 TAAAATAATAAAATATCTCAT
1 TAAAATAAT-ATATATCTAAT
15714191 TAAAATAATATATATCTAAT
1 TAAAATAATATATATCTAAT
15714211 T-AAATAAT
1 TAAAATAAT
15714219 CATAAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 7 0.27
20 10 0.38
21 9 0.35
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAATAATATATATCTAAT
Found at i:15714207 original size:20 final size:21
Alignment explanation
Indices: 15714170--15714229 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
15714160 TAATTAATAA
*
15714170 TAAAATAATAAAATATCTCAT
1 TAAAATAATAAAATATCTAAT
*
15714191 TAAAATAAT-ATATATCTAAT
1 TAAAATAATAAAATATCTAAT
*
15714211 TAAATAATCATAAAATATC
1 T-AA-AATAATAAAATATC
15714230 ATCAACATCA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 10 0.31
21 11 0.34
22 5 0.16
23 6 0.19
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATAATAAAATATCTAAT
Found at i:15714755 original size:3 final size:3
Alignment explanation
Indices: 15714747--15714838 Score: 71
Period size: 3 Copynumber: 30.3 Consensus size: 3
15714737 AATATCAATT
* * *
15714747 TAA TAA TAA TAA TAA TAA TAA TAT TAA TAA TAT TAA TAA TAT TAA TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
* ** **
15714796 TATT TAA T-A TAA -AA CCA TAA TAA TAAA TAA CGA TAA TAA TAA T
1 TA-A TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA T
15714839 TTAATATATT
Statistics
Matches: 69, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
2 4 0.06
3 57 0.83
4 8 0.12
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:15726469 original size:2 final size:2
Alignment explanation
Indices: 15726462--15726493 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
15726452 GTCTCACAAC
15726462 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
15726494 CAAACCAAAA
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:15727042 original size:41 final size:40
Alignment explanation
Indices: 15726992--15727138 Score: 204
Period size: 41 Copynumber: 3.6 Consensus size: 40
15726982 CTTTCTCAAA
*
15726992 TCGCACACTAAGTGCCATATATAGCCGAAGTTATCTCGACC
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCGA-C
* *
15727033 TCGCACACTAAGTGCCATATATAGCTGAAGCTATCTTGATC
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCGA-C
* * * *
15727074 TCGTACACTAAATGCCATATATAGCCGAAGCTATGTCGAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCGAC
*
15727114 TCGCACACTAAGTGCCACATATAGC
1 TCGCACACTAAGTGCCATATATAGC
15727139 TGATTTGTCG
Statistics
Matches: 93, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
40 22 0.24
41 71 0.76
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCGAC
Found at i:15737708 original size:26 final size:26
Alignment explanation
Indices: 15737662--15737714 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
15737652 TCAAACATGC
*
15737662 ATTTAGGTCAATTTAACCCTATGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* *
15737688 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAAC-CCTAGGGGT
15737714 A
1 A
15737715 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:15739231 original size:26 final size:26
Alignment explanation
Indices: 15739200--15739307 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
15739190 TGAAATGCCC
*
15739200 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
15739226 ATCATGGACCATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
15739252 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
15739278 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
15739304 ATCA
1 ATCA
15739308 ATTTGTATCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:15740382 original size:47 final size:47
Alignment explanation
Indices: 15740312--15740442 Score: 190
Period size: 47 Copynumber: 2.8 Consensus size: 47
15740302 CACAATTTAT
*
15740312 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATCCCA
1 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCA
* * * * *
15740359 GAGTACCTATACAATGGCCCATAGCCAAATCAAGGTAGCTCCTCTCA
1 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCA
* *
15740406 AAATACCTATACCATGGCCCGTAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTA
15740443 TTATTCACAC
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.35, C:0.29, G:0.15, T:0.21
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCA
Found at i:15745709 original size:17 final size:17
Alignment explanation
Indices: 15745668--15745733 Score: 60
Period size: 17 Copynumber: 3.9 Consensus size: 17
15745658 CTTCGCAACT
***
15745668 TTGATGAGCTCACAGCC
1 TTGATGAGCTCACAAAA
*
15745685 TTGGTGAGCTCACAAAA
1 TTGATGAGCTCACAAAA
** * *
15745702 TTGATGAGCTCGTACAT
1 TTGATGAGCTCACAAAA
15745719 TTGATGAGCTCACAA
1 TTGATGAGCTCACAA
15745734 TCTTAGTGAG
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 37 1.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (17 bp):
TTGATGAGCTCACAAAA
Found at i:15745790 original size:35 final size:36
Alignment explanation
Indices: 15745702--15745792 Score: 100
Period size: 35 Copynumber: 2.6 Consensus size: 36
15745692 GCTCACAAAA
* * *
15745702 TTGATGAGCTCGTACATTT-GATGAGCTCACAATCT
1 TTGATGAGCTCGTACCTTTGGGTAAGCTCACAATCT
* *
15745737 TAG-TGAGCTC-TCAACTTTGGGTAAGCTCAC-ATCT
1 TTGATGAGCTCGT-ACCTTTGGGTAAGCTCACAATCT
15745771 TTGATGAGCTCGTACCTTTGGG
1 TTGATGAGCTCGTACCTTTGGG
15745793 GAGTTCGCAT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
33 1 0.02
34 17 0.38
35 26 0.58
36 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (36 bp):
TTGATGAGCTCGTACCTTTGGGTAAGCTCACAATCT
Found at i:15750655 original size:23 final size:22
Alignment explanation
Indices: 15750598--15750656 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 22
15750588 TTATGATATA
* *
15750598 TAAAATTTAAAATTTAAATATTTT
1 TAAAATTT--AATATAAATATTTG
*
15750622 TAAATAATTAATATAAATTATTTG
1 TAAA-ATTTAATATAAA-TATTTG
15750646 TAAAATTTAAT
1 TAAAATTTAAT
15750657 TTGAATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
23 13 0.45
24 13 0.45
25 3 0.10
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
TAAAATTTAATATAAATATTTG
Found at i:15752378 original size:2 final size:2
Alignment explanation
Indices: 15752371--15752407 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
15752361 TTTATCATGC
15752371 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15752408 GTCTTATATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15754773 original size:15 final size:15
Alignment explanation
Indices: 15754739--15754770 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
15754729 AATCCTTTAC
15754739 AAATTATAAAAATAT
1 AAATTATAAAAATAT
15754754 AAATTATAAAAAT-T
1 AAATTATAAAAATAT
15754768 AAA
1 AAA
15754771 ATTTCATCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATTATAAAAATAT
Found at i:15755181 original size:18 final size:18
Alignment explanation
Indices: 15755143--15755189 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
15755133 CAATTTATAA
*
15755143 ATTTTTAATATTAAAAAT
1 ATTTTTAAAATTAAAAAT
**
15755161 ATTTTTAAAATTAAATTT
1 ATTTTTAAAATTAAAAAT
15755179 ATTTATTAAAA
1 ATTT-TTAAAA
15755190 GTTTTAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTTTAAAATTAAAAAT
Found at i:15755819 original size:26 final size:26
Alignment explanation
Indices: 15755790--15755893 Score: 181
Period size: 26 Copynumber: 4.0 Consensus size: 26
15755780 TGGTACAAAT
15755790 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
15755816 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
15755842 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
15755868 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
15755894 AGATGGGAAT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:15763254 original size:79 final size:82
Alignment explanation
Indices: 15763114--15763298 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
15763104 TCGAATGATG
* * *
15763114 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
15763178 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
15763194 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
15763256 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
15763274 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
15763299 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:15763306 original size:40 final size:40
Alignment explanation
Indices: 15763115--15763306 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
15763105 CGAATGATGT
* * * * *
15763115 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
15763155 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
15763195 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
15763234 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
15763274 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
15763307 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:15763329 original size:79 final size:79
Alignment explanation
Indices: 15763114--15763331 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
15763104 TCGAATGATG
* * * * ** *
15763114 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
15763177 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
15763194 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
15763259 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
15763274 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
15763332 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:15771276 original size:79 final size:82
Alignment explanation
Indices: 15771136--15771320 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
15771126 TCGAATGATG
* * *
15771136 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
15771200 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
15771216 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
15771278 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
15771296 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
15771321 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:15771328 original size:40 final size:40
Alignment explanation
Indices: 15771137--15771328 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
15771127 CGAATGATGT
* * * * *
15771137 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
15771177 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
15771217 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
15771256 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
15771296 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
15771329 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:15771351 original size:79 final size:79
Alignment explanation
Indices: 15771136--15771353 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
15771126 TCGAATGATG
* * * * ** *
15771136 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
15771199 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
15771216 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
15771281 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
15771296 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
15771354 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:15774168 original size:26 final size:26
Alignment explanation
Indices: 15774139--15774242 Score: 181
Period size: 26 Copynumber: 4.0 Consensus size: 26
15774129 TGGTACAAAT
15774139 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
15774165 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
15774191 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
15774217 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
15774243 AGATGGGAAT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:15780421 original size:44 final size:44
Alignment explanation
Indices: 15780358--15780446 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
15780348 AGTTGGTATT
15780358 TAGTTTGTGCAATATACCTATGCTTGTGTTATGTTTTGTATGAC
1 TAGTTTGTGCAATATACCTATGCTTGTGTTATGTTTTGTATGAC
15780402 TAGTTTGTGCAATATACCTATGCTTGTGTTATGTTTTGTATGAC
1 TAGTTTGTGCAATATACCTATGCTTGTGTTATGTTTTGTATGAC
15780446 T
1 T
15780447 TGTGAGAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.20, C:0.11, G:0.20, T:0.48
Consensus pattern (44 bp):
TAGTTTGTGCAATATACCTATGCTTGTGTTATGTTTTGTATGAC
Found at i:15782608 original size:18 final size:19
Alignment explanation
Indices: 15782587--15782622 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
15782577 AATAAAGAAA
*
15782587 GGAATTAAA-AAGAAAAGG
1 GGAATAAAATAAGAAAAGG
15782605 GGAATAAAATAAGAAAAG
1 GGAATAAAATAAGAAAAG
15782623 AAAAAGGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.25, T:0.11
Consensus pattern (19 bp):
GGAATAAAATAAGAAAAGG
Found at i:15783474 original size:2 final size:2
Alignment explanation
Indices: 15783467--15783497 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15783457 CGTGATGCCC
15783467 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
15783498 CATAAGTATG
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:15784016 original size:29 final size:29
Alignment explanation
Indices: 15783974--15784105 Score: 237
Period size: 29 Copynumber: 4.5 Consensus size: 29
15783964 AAAATTGTAC
15783974 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
15784003 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
*
15784032 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATAT
*
15784062 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
15784091 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
15784106 GATTCACTAT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAACTGAAAATATAT
Found at i:15784070 original size:59 final size:58
Alignment explanation
Indices: 15783974--15784105 Score: 237
Period size: 59 Copynumber: 2.3 Consensus size: 58
15783964 AAAATTGTAC
15783974 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
* *
15784032 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAACTGAAAATATAT
15784091 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
15784106 GATTCACTAT
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
58 23 0.32
59 48 0.68
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.24
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
Found at i:15784094 original size:88 final size:89
Alignment explanation
Indices: 15783944--15784105 Score: 263
Period size: 88 Copynumber: 1.8 Consensus size: 89
15783934 GACAAGATTG
* * *
15783944 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
15784009 AAGTGTGCGAACTGAAAATATATA
66 AAGTGTGCGAACTGAAAATATATA
* * *
15784033 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
15784097 AAGTGTGCG
66 AAGTGTGCG
15784106 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 52 0.78
89 15 0.22
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.25
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGAACTGAAAATATATA
Found at i:15786283 original size:40 final size:40
Alignment explanation
Indices: 15786198--15786286 Score: 99
Period size: 40 Copynumber: 2.2 Consensus size: 40
15786188 TGACTATGAT
* * *
15786198 TGGCACTAAGTGTGCGATTTAATATACCTTCGGCTACAAA
1 TGGCACTAAGTGTGCGAGTTAACATACCTTCAGCTACAAA
** * *
15786238 TGGCACTAAGTGTGCGAGTTGGCATAGCTTCAGCTATATAA
1 TGGCACTAAGTGTGCGAGTTAACATACCTTCAGCTACA-AA
15786279 -GGCACTAA
1 TGGCACTAA
15786287 AGGAGTGAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
40 39 0.95
41 2 0.05
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (40 bp):
TGGCACTAAGTGTGCGAGTTAACATACCTTCAGCTACAAA
Found at i:15793561 original size:40 final size:42
Alignment explanation
Indices: 15793486--15793582 Score: 112
Period size: 40 Copynumber: 2.4 Consensus size: 42
15793476 CGACTATGAT
* * *
15793486 TGGCACTAAGTCTGCG-GTTTAATATAGCTTTGGCTACA-AA
1 TGGCACTAAGTGTGCGAGTTTAACATAGCTTCGGCTACATAA
* * *
15793526 TGGCACTAAGTGTGCGAG-TTAGCATTGCTTCGGCTATATAA
1 TGGCACTAAGTGTGCGAGTTTAACATAGCTTCGGCTACATAA
15793567 -GGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
15793583 TACCGACTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
40 46 0.94
41 3 0.06
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (42 bp):
TGGCACTAAGTGTGCGAGTTTAACATAGCTTCGGCTACATAA
Found at i:15797247 original size:2 final size:2
Alignment explanation
Indices: 15797240--15797272 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
15797230 AAATCACCAA
15797240 AT 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 AT A
15797273 CACATACACA
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15800006 original size:14 final size:15
Alignment explanation
Indices: 15799989--15800017 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15799979 TCACAAAAAT
15799989 TTCACACAT-ATAAA
1 TTCACACATAATAAA
15800003 TTCACACATAATAAA
1 TTCACACATAATAAA
15800018 CACAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:15810322 original size:55 final size:55
Alignment explanation
Indices: 15810263--15810379 Score: 126
Period size: 55 Copynumber: 2.1 Consensus size: 55
15810253 TGTTTATAAG
* * * *
15810263 CCGTGGTAGAAACTGATAAATTAACACGGGAGTGCAACACATCCATGCTCACCAC
1 CCGTGGTAGAAACTGAGAAATTAACACGAGAGTGCAACACACCCATGCCCACCAC
** * * * * * *
15810318 CCGTGGTCTACACTGCGAAATTAACACGAGCGTGCGACACGCCCATGCCCACTAC
1 CCGTGGTAGAAACTGAGAAATTAACACGAGAGTGCAACACACCCATGCCCACCAC
15810373 CCGTGGT
1 CCGTGGT
15810380 TGAATCCTGT
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.28, C:0.32, G:0.22, T:0.18
Consensus pattern (55 bp):
CCGTGGTAGAAACTGAGAAATTAACACGAGAGTGCAACACACCCATGCCCACCAC
Found at i:15816459 original size:71 final size:71
Alignment explanation
Indices: 15816375--15816538 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
15816365 CGATTTGTCT
15816375 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
15816440 CTTTCA
66 CTTTCA
* *
15816446 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
15816511 CTTTCA
66 CTTTCA
15816517 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
15816539 GATACATCTC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:15816576 original size:71 final size:70
Alignment explanation
Indices: 15816375--15816572 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
15816365 CGATTTGTCT
* * * * *
15816375 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
15816440 CTTTCA
65 CTTTCA
* * * *
15816446 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
15816511 CTTTCA
65 CTTTCA
* *
15816517 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
15816573 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 1 0.01
71 94 0.80
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:15830157 original size:8 final size:9
Alignment explanation
Indices: 15830114--15830154 Score: 82
Period size: 9 Copynumber: 4.6 Consensus size: 9
15830104 TAGTAATTAT
15830114 ATTTTTAAA
1 ATTTTTAAA
15830123 ATTTTTAAA
1 ATTTTTAAA
15830132 ATTTTTAAA
1 ATTTTTAAA
15830141 ATTTTTAAA
1 ATTTTTAAA
15830150 ATTTT
1 ATTTT
15830155 AAATTAGTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:15830242 original size:15 final size:16
Alignment explanation
Indices: 15830222--15830258 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
15830212 TTAATTTTTT
15830222 TAAAATATAAAAAT-A
1 TAAAATATAAAAATAA
*
15830237 TAAAATATTAAAATAA
1 TAAAATATAAAAATAA
15830253 TAAAAT
1 TAAAAT
15830259 TATATTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
TAAAATATAAAAATAA
Found at i:15845712 original size:26 final size:26
Alignment explanation
Indices: 15845683--15845790 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
15845673 TGGTACAAAT
15845683 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
15845709 TGATAATGGATTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
15845735 CGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
15845761 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
15845787 TGAT
1 TGAT
15845791 GGGCATTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:15848962 original size:21 final size:20
Alignment explanation
Indices: 15848920--15848962 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
15848910 TGCCTTTCTT
*
15848920 TTTCTTTTTCTTTGTTTTTA
1 TTTCTTTTTCTTTGTTTATA
15848940 TTTCTTTATTCTTT-TATTATA
1 TTTCTTT-TTCTTTGT-TTATA
15848961 TT
1 TT
15848963 ATTAACTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.12, C:0.09, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTCTTTTTCTTTGTTTATA
Found at i:15848974 original size:15 final size:15
Alignment explanation
Indices: 15848953--15848995 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
15848943 CTTTATTCTT
15848953 TTATTATATTATTAAC
1 TTATTATATTATT-AC
15848969 -TATTATATT-TTAC
1 TTATTATATTATTAC
15848982 TTTATTATATTATT
1 -TTATTATATTATT
15848996 TATAATTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
13 2 0.08
14 2 0.08
15 18 0.75
16 2 0.08
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (15 bp):
TTATTATATTATTAC
Found at i:15851486 original size:40 final size:40
Alignment explanation
Indices: 15851427--15851568 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
15851417 AAATTGAATG
* * *
15851427 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
15851467 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
15851507 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
15851547 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
15851569 GCATTTGTGC
Statistics
Matches: 85, Mismatches: 16, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 3 0.04
40 82 0.96
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:15851592 original size:40 final size:39
Alignment explanation
Indices: 15851465--15851594 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
15851455 ATGCTGGAAA
* * *
15851465 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-A-CAGC
* *
15851506 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAG-C
*
15851544 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACA-GC
15851585 TTATATCCGG
1 TTATATCCGG
15851595 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 70 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAGC
Found at i:15859474 original size:40 final size:40
Alignment explanation
Indices: 15859415--15859556 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
15859405 AAATTGAATG
* * *
15859415 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
15859455 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
15859495 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
15859535 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
15859557 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:15859580 original size:40 final size:40
Alignment explanation
Indices: 15859453--15859582 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
15859443 ATGCTGGAAA
* * *
15859453 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * **
15859493 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
15859533 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
15859573 TTATATCCGG
1 TTATATCCGG
15859583 TTATATTCCG
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 1 0.01
40 75 0.99
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:15869669 original size:41 final size:40
Alignment explanation
Indices: 15869574--15869726 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
15869564 AAATTGAATG
* * * ** *
15869574 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCACT
* * **
15869614 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAG-TCACT
*
15869655 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCACT
* *
15869695 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
15869727 ACATGCTTAT
Statistics
Matches: 93, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
40 61 0.66
41 32 0.34
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCACT
Found at i:15869674 original size:81 final size:81
Alignment explanation
Indices: 15869574--15869726 Score: 202
Period size: 81 Copynumber: 1.9 Consensus size: 81
15869564 AAATTGAATG
* *
15869574 ATATCCGGGCTAAGCCCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGTTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGAC-ATTCATGC-GAGAAATTATATCCGGGCTAAGACCCGAAGG
15869637 CAATTGTGCTAGCTGGCT
64 CAATTGTGCTAGCTGGCT
* * ** *
15869655 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCGAGAAATTATATCCGGGCTAAGACCCGAAGGCA
*
15869720 TTTGTGC
66 ATTGTGC
15869727 ACATGCTTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
80 4 0.06
81 58 0.94
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (81 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCGAGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGCTGGCT
Found at i:15869740 original size:40 final size:40
Alignment explanation
Indices: 15869612--15869742 Score: 144
Period size: 40 Copynumber: 3.2 Consensus size: 40
15869602 ATGCTGGAAA
* *
15869612 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGC-TGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-A-CAT-GC
* *
15869654 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGC-GA-GTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACATG-C
*
15869692 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
15869733 TTATATCCGG
1 TTATATCCGG
15869743 TTATATTCCG
Statistics
Matches: 75, Mismatches: 8, Indels: 14
0.77 0.08 0.14
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 40 0.53
41 32 0.43
42 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
Found at i:15877653 original size:40 final size:40
Alignment explanation
Indices: 15877560--15877709 Score: 130
Period size: 40 Copynumber: 3.8 Consensus size: 40
15877550 AAATTGAATG
* * * * *
15877560 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-G-AAAT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCACT
* * *
15877599 -TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-CGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTC-ACT
* *
15877638 ATATCCGAGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCACT
* *
15877678 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
15877710 ACATGCTTAT
Statistics
Matches: 89, Mismatches: 16, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
38 28 0.31
39 4 0.04
40 54 0.61
41 3 0.03
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCACT
Found at i:15877723 original size:40 final size:39
Alignment explanation
Indices: 15877599--15877725 Score: 132
Period size: 40 Copynumber: 3.2 Consensus size: 39
15877589 TGCTGGAAAT
* * *
15877599 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGC-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGC-A-CAGCTTA
* * * *
15877639 TATCCGAGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCACAG-C-TTA
15877679 TATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGCTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCACA-GCTTA
15877719 TATCCGG
1 TATCCGG
15877726 TTATATTCCG
Statistics
Matches: 71, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 66 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.24
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCACAGCTTA
Found at i:15886179 original size:112 final size:112
Alignment explanation
Indices: 15886015--15886242 Score: 438
Period size: 112 Copynumber: 2.0 Consensus size: 112
15886005 AAGAAACTAC
15886015 TAAGTCAATTCTAAAGACTTAAACTTTCAAGCATACCTAACTTTCCTAAAGAACTAAAAATTTTT
1 TAAGTCAATTCTAAAGACTTAAACTTTCAAGCATACCTAACTTTCCTAAAGAACTAAAAATTTTT
15886080 ATGGTACGAATTTGCATGCTTCATTAAAAATACATTCATGTTATTAT
66 ATGGTACGAATTTGCATGCTTCATTAAAAATACATTCATGTTATTAT
15886127 TAAGTCAATTCTAAAGACTTAAACTTTCAAGCATACCTAACTTTCCTAAAGAACTAAAAATTTTT
1 TAAGTCAATTCTAAAGACTTAAACTTTCAAGCATACCTAACTTTCCTAAAGAACTAAAAATTTTT
* *
15886192 ATGGTATGAATTTGCATGCTTTATTAAAAATACATTCATGTTATTAT
66 ATGGTACGAATTTGCATGCTTCATTAAAAATACATTCATGTTATTAT
15886239 TAAG
1 TAAG
15886243 CTAACATAAT
Statistics
Matches: 114, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
112 114 1.00
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (112 bp):
TAAGTCAATTCTAAAGACTTAAACTTTCAAGCATACCTAACTTTCCTAAAGAACTAAAAATTTTT
ATGGTACGAATTTGCATGCTTCATTAAAAATACATTCATGTTATTAT
Found at i:15892697 original size:30 final size:30
Alignment explanation
Indices: 15892663--15892723 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
15892653 TCTTTAACTC
15892663 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
15892693 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
15892723 A
1 A
15892724 GACTCGAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:15894069 original size:54 final size:51
Alignment explanation
Indices: 15893952--15894069 Score: 130
Period size: 51 Copynumber: 2.3 Consensus size: 51
15893942 ATGTGTCGAC
* *
15893952 TACTGTGACTGTTCCAGATTCATTCCGAAGAGGTACTCTGTACCTGACTGT
1 TACTGTTACTGTTCCAGATTCATTCCGAAGAGGTACTCTGTACCTGACTAT
* ** * *
15894003 TACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTTTGCGTACC-GCTACTAT
1 TACTGTTACTGTTCCAGATTCATTCCGAAGAGGTACTCT--GTACCTG--ACTAT
15894057 TACTGTTACTGTT
1 TACTGTTACTGTT
15894070 ACCCTTACGG
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
51 33 0.59
52 1 0.02
53 5 0.09
54 17 0.30
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (51 bp):
TACTGTTACTGTTCCAGATTCATTCCGAAGAGGTACTCTGTACCTGACTAT
Found at i:15894236 original size:18 final size:18
Alignment explanation
Indices: 15894215--15894249 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15894205 CTGAATAGTT
*
15894215 GACTGTTACAGAATAAAC
1 GACTGATACAGAATAAAC
*
15894233 GACTGATACTGAATAAA
1 GACTGATACAGAATAAA
15894250 TGAATATTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.23
Consensus pattern (18 bp):
GACTGATACAGAATAAAC
Done.