Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 59 of 175
Found at i:17373303 original size:16 final size:16
Alignment explanation
Indices: 17373228--17373288 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
17373218 GCCTCTTGCC
*
17373228 TCTCTTTTCTTTTTAT
1 TCTCTTTTCTTTTTCT
17373244 T-TCATTTTCTTTTTCT
1 TCTC-TTTTCTTTTTCT
*
17373260 TCTC-TTGCTTTTTCTT
1 TCTCTTTTCTTTTTC-T
*
17373276 TTTCTTTTCTTTT
1 TCTCTTTTCTTTT
17373289 CTTTGTTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
15 11 0.30
16 17 0.46
17 9 0.24
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.75
Consensus pattern (16 bp):
TCTCTTTTCTTTTTCT
Found at i:17374369 original size:10 final size:11
Alignment explanation
Indices: 17374354--17374382 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
17374344 AACTCAAAAT
17374354 TTTTTTTTGA-
1 TTTTTTTTGAC
17374364 TTTTTTTTGAC
1 TTTTTTTTGAC
17374375 TTTTTTTT
1 TTTTTTTT
17374383 TCGTTACGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.07, C:0.03, G:0.07, T:0.83
Consensus pattern (11 bp):
TTTTTTTTGAC
Found at i:17375986 original size:30 final size:30
Alignment explanation
Indices: 17375952--17376048 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
17375942 TAAACTAAAA
*
17375952 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
17375982 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
17376012 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
17376041 ATGAGCTA
1 -TGAGCTA
17376049 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:17387209 original size:22 final size:22
Alignment explanation
Indices: 17387181--17387223 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
17387171 CCTTTTTGAA
17387181 CCCTTACCATTTCGTACCAAAT
1 CCCTTACCATTTCGTACCAAAT
17387203 CCCTTACCATTTCGTACCAAA
1 CCCTTACCATTTCGTACCAAA
17387224 ACCAAATACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.37, G:0.05, T:0.30
Consensus pattern (22 bp):
CCCTTACCATTTCGTACCAAAT
Found at i:17387237 original size:23 final size:22
Alignment explanation
Indices: 17387185--17387238 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
17387175 TTTGAACCCT
* **
17387185 TACCATTTCGTACCAAATCCCT
1 TACCATTTCGTACCAAAACCAA
17387207 TACCATTTCGTACCAAAACCAAA
1 TACCATTTCGTACCAAAACC-AA
17387230 TACCATTTC
1 TACCATTTC
17387239 TTAATTAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 19 0.68
23 9 0.32
ACGTcount: A:0.33, C:0.33, G:0.04, T:0.30
Consensus pattern (22 bp):
TACCATTTCGTACCAAAACCAA
Found at i:17405018 original size:111 final size:111
Alignment explanation
Indices: 17404824--17405051 Score: 447
Period size: 111 Copynumber: 2.1 Consensus size: 111
17404814 TCTGGAGGAA
17404824 GAGCATAAGGCATCTGTAGCTGGTTTATCTTCAAATGAAGATCAAAAGCATGAAGAAATTGAGGA
1 GAGCATAAGGCATCTGTAGCTGGTTTATCTTCAAATGAAGATCAAAAGCATGAAGAAATTGAGGA
17404889 GGAACTCGCAATTACAGCAAGAAATGCCCTCAAACATAAGCGAGAG
66 GGAACTCGCAATTACAGCAAGAAATGCCCTCAAACATAAGCGAGAG
17404935 GAGCATAAGGCATCTGTAGCTGGTTTATCTTCAAATGAAGATCAAAAGCATGAAGAAATTGAGGA
1 GAGCATAAGGCATCTGTAGCTGGTTTATCTTCAAATGAAGATCAAAAGCATGAAGAAATTGAGGA
*
17405000 GGAACTCGCGATTACAGCAAGAAATGCCCTCAAACATAAGCGAGAG
66 GGAACTCGCAATTACAGCAAGAAATGCCCTCAAACATAAGCGAGAG
17405046 GAGCAT
1 GAGCAT
17405052 GATAAAGCCA
Statistics
Matches: 116, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
111 116 1.00
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (111 bp):
GAGCATAAGGCATCTGTAGCTGGTTTATCTTCAAATGAAGATCAAAAGCATGAAGAAATTGAGGA
GGAACTCGCAATTACAGCAAGAAATGCCCTCAAACATAAGCGAGAG
Found at i:17409998 original size:89 final size:86
Alignment explanation
Indices: 17409838--17410051 Score: 243
Period size: 89 Copynumber: 2.5 Consensus size: 86
17409828 TAAAGGGAGT
* *
17409838 AAAAATCCCTCAAACTTTTTCAAAAAAAGCAATTAAGCTCTTTTTTTTTCCACTCAATTGAACAC
1 AAAAAACCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCTTTTTTTTTCCACTCAATTGAACAC
* *
17409903 TTGAACTTTTAAAATGCAT-A
66 TTGAACTCTCAAAATGCATCA
* * * *
17409923 AAAAAAGCCCTCAAACTTCTTCAAAAAAAAGCAATTAAGCCCTTACTTTTTTTTCACTTAATTGG
1 AAAAAA-CCCTCAAACTTTTTC-AAAAAAAGCAATTAAGCCCTT--TTTTTTTCCACTCAATTGA
** * *
17409988 GTACTTGAACTCTCAGAATTCATCA
62 ACACTTGAACTCTCAAAATGCATCA
* **
17410013 AAAAAACACTCAAGTTTTTTCAAAAAAA-CAATTAAGCCC
1 AAAAAACCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCC
17410052 ATGTTATTAT
Statistics
Matches: 108, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
85 5 0.05
86 14 0.13
87 31 0.29
88 7 0.06
89 44 0.41
90 7 0.06
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (86 bp):
AAAAAACCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCTTTTTTTTTCCACTCAATTGAACAC
TTGAACTCTCAAAATGCATCA
Found at i:17410107 original size:18 final size:18
Alignment explanation
Indices: 17410077--17410134 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
17410067 ATTAGAAAAG
17410077 AAATTATAA-AAAAATAAT
1 AAATT-TAAGAAAAATAAT
* *
17410095 AAATTTTAGAAAAAAAATT
1 AAATTTAAGAAAAATAA-T
17410114 AAAATTTAAGAAAAAT-AT
1 -AAATTTAAGAAAAATAAT
17410132 AAA
1 AAA
17410135 AAATTTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
17 5 0.15
18 13 0.39
19 2 0.06
20 13 0.39
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (18 bp):
AAATTTAAGAAAAATAAT
Found at i:17410109 original size:20 final size:20
Alignment explanation
Indices: 17410084--17410142 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
17410074 AAGAAATTAT
*
17410084 AAAAAAATAATAAATTTTAG
1 AAAAAAATAATAAATTTAAG
*
17410104 AAAAAAA-ATTAAAATTTAAG
1 AAAAAAATAAT-AAATTTAAG
* *
17410124 AAAAATATAAAAAATTTAA
1 AAAAAAATAATAAATTTAA
17410143 AATTTATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
19 2 0.06
20 29 0.91
21 1 0.03
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.27
Consensus pattern (20 bp):
AAAAAAATAATAAATTTAAG
Found at i:17410135 original size:27 final size:27
Alignment explanation
Indices: 17410105--17410157 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
17410095 AAATTTTAGA
17410105 AAAAAAATTAAAATTTAAGAAAAATAT
1 AAAAAAATTAAAATTTAAGAAAAATAT
* **
17410132 AAAAAATTTAAAATTTATTAAAAATA
1 AAAAAAATTAAAATTTAAGAAAAATA
17410158 GAATTTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (27 bp):
AAAAAAATTAAAATTTAAGAAAAATAT
Found at i:17410494 original size:18 final size:18
Alignment explanation
Indices: 17410383--17410497 Score: 65
Period size: 18 Copynumber: 6.2 Consensus size: 18
17410373 TTTGCAAAAC
17410383 TTATATTTCTTTAC-ATTT
1 TTATATTT-TTTACAATTT
17410401 TGTATAATTTTCTTACGAATTT
1 T-TAT-ATTTT-TTAC-AATTT
* ** *
17410423 ATA-AAATTTTATAATTAT
1 TTATATTTTTTACAATT-T
* *
17410441 TTTTA-TTTCTACATATTT
1 TTATATTTTTTACA-ATTT
*
17410459 TTATATTTTTTACGATTT
1 TTATATTTTTTACAATTT
**
17410477 TTATATTTTTTTTAATTT
1 TTATATTTTTTACAATTT
17410495 TTA
1 TTA
17410498 ATAAATTTTT
Statistics
Matches: 73, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
17 4 0.05
18 38 0.52
19 17 0.23
20 8 0.11
21 2 0.03
22 4 0.05
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.63
Consensus pattern (18 bp):
TTATATTTTTTACAATTT
Found at i:17410516 original size:26 final size:26
Alignment explanation
Indices: 17410487--17410539 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
17410477 TTATATTTTT
17410487 TTTAA-TTTTTAATAAATTTTTAATAA
1 TTTAATTTTTTAATAAA-TTTTAATAA
*
17410513 TTTAATTTTTTATTAAATTTTAATAA
1 TTTAATTTTTTAATAAATTTTAATAA
17410539 T
1 T
17410540 ATTTATAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
TTTAATTTTTTAATAAATTTTAATAA
Found at i:17411119 original size:4 final size:4
Alignment explanation
Indices: 17411067--17411144 Score: 61
Period size: 4 Copynumber: 19.0 Consensus size: 4
17411057 ATAATAAAAT
* * * *
17411067 GAAA TGAAA TAAA GAAA GAGA GAAA GCAA -AAC GAAACA GAAA GGAAA
1 GAAA -GAAA GAAA GAAA GAAA GAAA GAAA GAAA G-AA-A GAAA -GAAA
*
17411114 GAAA GAAA -AAA AAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
17411145 AACTCAGGGC
Statistics
Matches: 59, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
3 4 0.07
4 42 0.71
5 12 0.20
6 1 0.02
ACGTcount: A:0.72, C:0.04, G:0.22, T:0.03
Consensus pattern (4 bp):
GAAA
Found at i:17411833 original size:2 final size:2
Alignment explanation
Indices: 17411826--17411857 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
17411816 TTGATTTAAA
17411826 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
17411858 AGACACTGGG
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:17416643 original size:41 final size:41
Alignment explanation
Indices: 17416543--17416944 Score: 407
Period size: 41 Copynumber: 9.6 Consensus size: 41
17416533 TTACACGATA
* ** * *
17416543 GAATCAGCACTTAGCAACCACCTCATGTTCAAAGGATCCCGGTG
1 GAATCAGCACTTAGCAACCACCTTATAATC-AATGAT-ACGG-G
17416587 GAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGG
1 GAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGG
* * *
17416628 GAATCAGCACATAGCAACC-CCTTTCACAATCAAGGATACGGTG
1 GAATCAGCACTTAGCAACCACC-TT-ATAATCAATGATACGG-G
* *
17416671 GAATCAACACTTAGCAACCACCTTATAATCAATGAGACGGG
1 GAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGG
* * *
17416712 GAATCAGCACATAGCAACC-CCTTTCACAATCAAGGATACGGTG
1 GAATCAGCACTTAGCAACCACC-TT-ATAATCAATGATACGG-G
17416755 GAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGG
1 GAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGG
* * * * * *
17416796 GAATCAGCACATAGCAACC-CCTTTCACAATAAAGGATATTGTG
1 GAATCAGCACTTAGCAACCACC-TT-ATAATCAATGATA-CGGG
* *
17416839 GAATAAGCACTTAGAAACCACCTTATAATCAATGATACGGG
1 GAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGG
* * * * * **
17416880 GAATCAGCACATAGCAACCTCTTTTTGATCAATGATTTGGG
1 GAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGG
*
17416921 GAATCTGCACTTAGCAACC-CCTTA
1 GAATCAGCACTTAGCAACCACCTTA
17416945 CATTCAAAGA
Statistics
Matches: 298, Mismatches: 48, Indels: 28
0.80 0.13 0.07
Matches are distributed among these distances:
40 9 0.03
41 113 0.38
42 77 0.26
43 66 0.22
44 33 0.11
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (41 bp):
GAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGG
Found at i:17416690 original size:84 final size:84
Alignment explanation
Indices: 17416582--17416903 Score: 556
Period size: 84 Copynumber: 3.8 Consensus size: 84
17416572 CAAAGGATCC
*
17416582 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
17416647 CCTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGATA
*
17416666 CGGTGGAATCAACACTTAGCAACCACCTTATAATCAATGAGACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
17416731 CCTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGATA
*
17416750 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
*
17416815 CCTTTCACAATAAAGGATA
66 CCTTTCACAATCAAGGATA
** *
17416834 TTGTGGAAT-AAGCACTTAGAAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAAC
1 CGGTGGAATCAA-CACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAAC
*
17416898 CTCTTT
65 CCCTTT
17416904 TTGATCAATG
Statistics
Matches: 227, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
83 1 0.00
84 226 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (84 bp):
CGGTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
CCTTTCACAATCAAGGATA
Found at i:17423862 original size:35 final size:35
Alignment explanation
Indices: 17423823--17423937 Score: 176
Period size: 35 Copynumber: 3.3 Consensus size: 35
17423813 GTCCAATCAT
17423823 AACACGCCAATGCTCATAAGAGCTAATCCAACCGA
1 AACACGCCAATGCTCATAAGAGCTAATCCAACCGA
*
17423858 AACACGCCAATGCTCATAAGAGCTAATCCAACTGA
1 AACACGCCAATGCTCATAAGAGCTAATCCAACCGA
** *
17423893 AACACGGTAATGCTCATAAAAGCTAATCCAACCGA
1 AACACGCCAATGCTCATAAGAGCTAATCCAACCGA
**
17423928 AGTACGCCAA
1 AACACGCCAA
17423938 ATAGAGAATA
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 71 1.00
ACGTcount: A:0.41, C:0.29, G:0.15, T:0.16
Consensus pattern (35 bp):
AACACGCCAATGCTCATAAGAGCTAATCCAACCGA
Found at i:17425421 original size:32 final size:33
Alignment explanation
Indices: 17425379--17425442 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
17425369 TTTTTTATTG
17425379 GCCTAATAACAAAATTTT-CCA-TTCAATATTTA
1 GCCTAATAAC-AAATTTTACCATTTCAATATTTA
* *
17425411 GCCTAGTAACATATTTTACCATTTCAATATTT
1 GCCTAATAACAAATTTTACCATTTCAATATTT
17425443 GTATGTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 6 0.21
32 12 0.43
33 10 0.36
ACGTcount: A:0.36, C:0.19, G:0.05, T:0.41
Consensus pattern (33 bp):
GCCTAATAACAAATTTTACCATTTCAATATTTA
Found at i:17425967 original size:39 final size:39
Alignment explanation
Indices: 17425913--17425989 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
17425903 TATGATTATA
*
17425913 TAATCTTAGAGTTCTAATTGTATACAGTTTTTAATTGTG
1 TAATCTTAGAGTTCTAATTGTATACAGCTTTTAATTGTG
*
17425952 TAATCTTAGAGTTCTAATTGTATATAGCTTTTAATTGT
1 TAATCTTAGAGTTCTAATTGTATACAGCTTTTAATTGT
17425990 AGCCATTGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.29, C:0.08, G:0.14, T:0.49
Consensus pattern (39 bp):
TAATCTTAGAGTTCTAATTGTATACAGCTTTTAATTGTG
Found at i:17429508 original size:13 final size:13
Alignment explanation
Indices: 17429490--17429514 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17429480 TATTTTAATA
17429490 TTATTTTGTGTGT
1 TTATTTTGTGTGT
17429503 TTATTTTGTGTG
1 TTATTTTGTGTG
17429515 CATTTGATTG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:17430539 original size:26 final size:24
Alignment explanation
Indices: 17430510--17430559 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
17430500 TGAGCTGTTT
17430510 TTGGATGAATTATAATTAAAAATATG
1 TTGGATGAA--ATAATTAAAAATATG
* *
17430536 TTGGTTGAAATAATTAAAAGTATG
1 TTGGATGAAATAATTAAAAATATG
17430560 AGTGAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 14 0.64
26 8 0.36
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (24 bp):
TTGGATGAAATAATTAAAAATATG
Found at i:17430578 original size:13 final size:13
Alignment explanation
Indices: 17430562--17430586 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17430552 AAAGTATGAG
17430562 TGAATTATATGTC
1 TGAATTATATGTC
17430575 TGAATTATATGT
1 TGAATTATATGT
17430587 ATTATTGCAA
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:0.32, C:0.04, G:0.16, T:0.48
Consensus pattern (13 bp):
TGAATTATATGTC
Found at i:17430983 original size:75 final size:75
Alignment explanation
Indices: 17430847--17430988 Score: 169
Period size: 75 Copynumber: 1.9 Consensus size: 75
17430837 TGCAAATCTA
* * ** * * *
17430847 CATGTATATGTTCTTGTATTGAATTTAGGTATGCCATTTATACAAGTTTATATGGGTTTCGACTA
1 CATGTATATGTTCTTGTAATGAATTTAAGTATGAAATTTATACAAGTATATAGGGGGTTCGACTA
17430912 TGCAATTATG
66 TGCAATTATG
* * * *
17430922 CATGTATATGTTCTTGTAATGAGTTTAAGTATGAAATTTATATATGTATA-AGGGAGGTTCGATT
1 CATGTATATGTTCTTGTAATGAATTTAAGTATGAAATTTATACAAGTATATAGGG-GGTTCGACT
17430986 ATG
65 ATG
17430989 TATGTATGTT
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
74 3 0.05
75 52 0.95
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (75 bp):
CATGTATATGTTCTTGTAATGAATTTAAGTATGAAATTTATACAAGTATATAGGGGGTTCGACTA
TGCAATTATG
Found at i:17431370 original size:41 final size:43
Alignment explanation
Indices: 17431308--17431415 Score: 143
Period size: 41 Copynumber: 2.6 Consensus size: 43
17431298 ATTGTCAGTG
* * *
17431308 ACATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGA-
1 ACATTATTCAGACTATACGTCTAGCAGACTTAATGCCGGTGAC
17431350 A-ATTATTCAGACTATACGTCTAGCAGACTTAATGCCGGTGAC
1 ACATTATTCAGACTATACGTCTAGCAGACTTAATGCCGGTGAC
* *
17431392 ACATT-TT-GGACTATAAGTCTAGCA
1 ACATTATTCAGACTATACGTCTAGCA
17431416 AGCTCAAGAG
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
41 52 0.88
42 4 0.07
43 3 0.05
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (43 bp):
ACATTATTCAGACTATACGTCTAGCAGACTTAATGCCGGTGAC
Found at i:17431672 original size:31 final size:31
Alignment explanation
Indices: 17431634--17431699 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
17431624 GATAGATATT
* * *
17431634 TATATATATGTATGCATTCGGCATAGGTGGA
1 TATATATATGTATCCATTCGACATAGGTGAA
17431665 TATATATATGTATCCATTCGACATAGGTGAA
1 TATATATATGTATCCATTCGACATAGGTGAA
17431696 TATA
1 TATA
17431700 AGTGTATATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (31 bp):
TATATATATGTATCCATTCGACATAGGTGAA
Found at i:17437276 original size:13 final size:13
Alignment explanation
Indices: 17437258--17437282 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17437248 TATTTTAATA
17437258 TTATTTTGTGTGT
1 TTATTTTGTGTGT
17437271 TTATTTTGTGTG
1 TTATTTTGTGTG
17437283 CATTTGATTG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:17438306 original size:26 final size:24
Alignment explanation
Indices: 17438277--17438326 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
17438267 TGAGCTGTTT
17438277 TTGGATGAATTATAATTAAAAATATG
1 TTGGATGAA--ATAATTAAAAATATG
* *
17438303 TTGGTTGAAATAATTAAAAGTATG
1 TTGGATGAAATAATTAAAAATATG
17438327 AGTGAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 14 0.64
26 8 0.36
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (24 bp):
TTGGATGAAATAATTAAAAATATG
Found at i:17438737 original size:75 final size:75
Alignment explanation
Indices: 17438601--17438742 Score: 169
Period size: 75 Copynumber: 1.9 Consensus size: 75
17438591 TGCAAATCTA
* * ** * * *
17438601 CATGTATATGTTCTTGTATTGAATTTAGGTATGCCATTTATACAAGTTTATATGGGTTTCGACTA
1 CATGTATATGTTCTTGTAATGAATTTAAGTATGAAATTTATACAAGTATATAGGGGGTTCGACTA
17438666 TGCAATTATG
66 TGCAATTATG
* * * *
17438676 CATGTATATGTTCTTGTAATGAGTTTAAGTATGAAATTTATATATGTATA-AGGGAGGTTCGATT
1 CATGTATATGTTCTTGTAATGAATTTAAGTATGAAATTTATACAAGTATATAGGG-GGTTCGACT
17438740 ATG
65 ATG
17438743 TATGTATGTT
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
74 3 0.05
75 52 0.95
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (75 bp):
CATGTATATGTTCTTGTAATGAATTTAAGTATGAAATTTATACAAGTATATAGGGGGTTCGACTA
TGCAATTATG
Found at i:17439124 original size:41 final size:43
Alignment explanation
Indices: 17439062--17439169 Score: 134
Period size: 41 Copynumber: 2.6 Consensus size: 43
17439052 ATTGTCAGTG
* * * *
17439062 ACATAATTCAAACTTTACGTCTAGCAGGCTTAATGCCGGTGA-
1 ACATTATTCAGACTATACGTCTAGCAGACTTAATGCCGGTGAC
17439104 A-ATTATTCAGACTATACGTCTAGCAGACTTAATGCCGGTGAC
1 ACATTATTCAGACTATACGTCTAGCAGACTTAATGCCGGTGAC
* *
17439146 ACATT-TT-GGACTATAAGTCTAGCA
1 ACATTATTCAGACTATACGTCTAGCA
17439170 AGCTCAAGAG
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
41 51 0.88
42 4 0.07
43 3 0.05
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (43 bp):
ACATTATTCAGACTATACGTCTAGCAGACTTAATGCCGGTGAC
Found at i:17439428 original size:31 final size:31
Alignment explanation
Indices: 17439390--17439455 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
17439380 GATAGATATT
* *
17439390 TATATATATGTATGCATTCGGCATAGGTGGA
1 TATATATATGTATGCATTCGACATAGGTGAA
17439421 TATATATATGTATGCATTCGACATAGGTGAA
1 TATATATATGTATGCATTCGACATAGGTGAA
17439452 TATA
1 TATA
17439456 AGTGTATATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.36
Consensus pattern (31 bp):
TATATATATGTATGCATTCGACATAGGTGAA
Found at i:17447669 original size:104 final size:103
Alignment explanation
Indices: 17447353--17447728 Score: 407
Period size: 105 Copynumber: 3.5 Consensus size: 103
17447343 AAAATTGGAA
* * **
17447353 AAAAAAG-AAAAAAAAATTTTGAGTGCTGGCCTGTCAATGGTCGGCACCCCCTTTATATGAATTT
1 AAAAAAGTAAAAAAAAAATTTG-G-G-TGGCCTGGCAATGGTCGGCACCCCCTTTATACCAATTT
** * * * * *** *
17447417 TTTTTCAAGTGTTGGTCTATCAATTATCGGCACCAGAATACG
63 TTTTTTTACT-TTTGTGTGTCAATGGCCGGCACCAGTATACG
** * * *
17447459 -AAAAAGTAAAAAAATTTATTTTTTTGGGTGGCCTGGCAATAGCCGGCACCCCCTTTGTA-CAAT
1 AAAAAAGTAAAAAAA---A--AATTTGGGTGGCCTGGCAATGGTCGGCACCCCCTTTATACCAAT
*
17447522 AATTTTTTTTTACTTTTGTTGTGTCAATGGCTGGCACCAGTATACG
61 --TTTTTTTTTACTTTTG-TGTGTCAATGGCCGGCACCAGTATACG
17447568 AAAAAAGTAAAAAAAAAATTTGGGTGGCCTGGCAATGGTCGGCACCCCCTTTATACCAATTTTTT
1 AAAAAAGTAAAAAAAAAATTTGGGTGGCCTGGCAATGGTCGGCACCCCCTTTATACCAATTTTTT
17447633 TTTTACTTTTAGTGTGTCAATGGCCGGCACCAGTATACG
66 TTTTACTTTT-GTGTGTCAATGGCCGGCACCAGTATACG
* *
17447672 AAAAAAGTAAAAAAAAAATTTGGGGTGGCTTGGCAATGGTTGGCACCCCCTTTATAC
1 AAAAAAGTAAAAAAAAAATTT-GGGTGGCCTGGCAATGGTCGGCACCCCCTTTATAC
17447729 AAAAAAAAAT
Statistics
Matches: 232, Mismatches: 25, Indels: 27
0.82 0.09 0.10
Matches are distributed among these distances:
104 62 0.27
105 74 0.32
106 11 0.05
107 4 0.02
108 30 0.13
109 31 0.13
110 15 0.06
111 5 0.02
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.32
Consensus pattern (103 bp):
AAAAAAGTAAAAAAAAAATTTGGGTGGCCTGGCAATGGTCGGCACCCCCTTTATACCAATTTTTT
TTTTACTTTTGTGTGTCAATGGCCGGCACCAGTATACG
Found at i:17448207 original size:30 final size:30
Alignment explanation
Indices: 17448172--17448230 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
17448162 AAAAATTCTC
*
17448172 AAATTTCTCCCTAAATTTCTCAAAGCTCTT
1 AAATTTCTCACTAAATTTCTCAAAGCTCTT
*
17448202 AAATTTCTCATTAAATTTCTCAAAGCTCT
1 AAATTTCTCACTAAATTTCTCAAAGCTCT
17448231 CTTTAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AAATTTCTCACTAAATTTCTCAAAGCTCTT
Found at i:17449985 original size:18 final size:18
Alignment explanation
Indices: 17449962--17450004 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
17449952 TGCCAGGTGC
*
17449962 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
*
17449980 GTATCCTAACGCTTATAT
1 GTATCCTAACCCTTATAT
*
17449998 GTTTCCT
1 GTATCCT
17450005 TTTCTCAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.26, G:0.12, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:17452247 original size:126 final size:126
Alignment explanation
Indices: 17452022--17452416 Score: 612
Period size: 126 Copynumber: 3.1 Consensus size: 126
17452012 GCCCAAACAT
*
17452022 GAACTACTATAGAAAAAGAGCGTCGACGTGGGAGCTTTTTTCATCAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCGACGTGGGAGCTTTTTTCATCAATTTTGCTGACAGTGCATC
* *
17452087 CTGCTTGAAGCATTTTTGATACTATTTGTTCAGAACCATCTTCTCAAAATTATTTTTTTAG
66 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAACCATCTTCTCAAAATTATTTTTTCAG
*
17452148 GAACTACTGTAGAAAAAGAGCGTCGACGTGAGAGCTTTTTTCATCAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCGACGTGGGAGCTTTTTTCATCAATTTTGCTGACAGTGCATC
* * ** *
17452213 CTGCTTGAAGCATTTTTGACACCATTTGCTCAGAACTGTCTTCTCAAAATTATTTTTTCAA
66 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAACCATCTTCTCAAAATTATTTTTTCAG
* * * *
17452274 GAACTACTTTAGAAAAAGAGCGCCCACGTGGGAGCTTTTTTCAGT-AATTTTGCTGACAATGCAT
1 GAACTACTGTAGAAAAAGAGCGTCGACGTGGGAGCTTTTTTCA-TCAATTTTGCTGACAGTGCAT
* * * * *
17452338 TCTGCTTGAAGCATTTTTCACACTATTTGTTCAGAACCATATTATCAAATTTATTTTTTCAG
65 CCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAACCATCTTCTCAAAATTATTTTTTCAG
17452400 GAACTACTGTAGAAAAA
1 GAACTACTGTAGAAAAA
17452417 AATATCCTTA
Statistics
Matches: 243, Mismatches: 25, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
126 242 1.00
127 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCGTCGACGTGGGAGCTTTTTTCATCAATTTTGCTGACAGTGCATC
CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAACCATCTTCTCAAAATTATTTTTTCAG
Found at i:17452629 original size:43 final size:43
Alignment explanation
Indices: 17452582--17452673 Score: 125
Period size: 43 Copynumber: 2.2 Consensus size: 43
17452572 TTAAAAATTT
* * *
17452582 CTAAAACC-TAGAACCCTAAATTATTTTAACAAAACTCTAAACC
1 CTAAAACCTTACAAACCTAAATTATTTTAACAAAACCCT-AACC
17452625 CT-AAACCTTACAAACCTAAATTATTTTAACAAAACCCTAACC
1 CTAAAACCTTACAAACCTAAATTATTTTAACAAAACCCTAACC
*
17452667 TTAAAAC
1 CTAAAAC
17452674 TCCTAAACCA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
42 10 0.23
43 33 0.77
ACGTcount: A:0.47, C:0.26, G:0.01, T:0.26
Consensus pattern (43 bp):
CTAAAACCTTACAAACCTAAATTATTTTAACAAAACCCTAACC
Found at i:17454733 original size:9 final size:9
Alignment explanation
Indices: 17454683--17454736 Score: 54
Period size: 9 Copynumber: 5.8 Consensus size: 9
17454673 ATATTTTCTC
*
17454683 ATAAAAATA
1 ATAAAAATT
17454692 ATAAAAATT
1 ATAAAAATT
* *
17454701 ATTAAGATT
1 ATAAAAATT
*
17454710 GATATAAATTT
1 -ATA-AAAATT
17454721 ATAAAAATT
1 ATAAAAATT
17454730 ATAAAAA
1 ATAAAAA
17454737 CCAAATATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
9 27 0.75
10 5 0.14
11 4 0.11
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:17459833 original size:18 final size:16
Alignment explanation
Indices: 17459802--17459835 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
17459792 TGGTGATTTA
17459802 TGTTATTTATATATAT
1 TGTTATTTATATATAT
17459818 TGTTAATTTAATATATAT
1 TGTT-ATTT-ATATATAT
17459836 ATATGTATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 4 0.25
18 8 0.50
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (16 bp):
TGTTATTTATATATAT
Found at i:17464376 original size:54 final size:54
Alignment explanation
Indices: 17464318--17464442 Score: 146
Period size: 54 Copynumber: 2.3 Consensus size: 54
17464308 TCAATGAGTT
*
17464318 ACACGGGTTGGGACAC-AGCCGCT-TGTCTTAAGTCAGTAAGTTACACAGGCAAGG
1 ACACGGGTTGGGACACGA-CCG-TGTGTCTCAAGTCAGTAAGTTACACAGGCAAGG
* * * * **
17464372 ACACGGGCTGGGGCACGACTGTGTGTCTCAAGTCAGTGAGTTACATGGGCAAGG
1 ACACGGGTTGGGACACGACCGTGTGTCTCAAGTCAGTAAGTTACACAGGCAAGG
*
17464426 ACACGAGTTGGGACACG
1 ACACGGGTTGGGACACG
17464443 GTCATGTGTC
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
53 1 0.02
54 57 0.97
55 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.34, T:0.19
Consensus pattern (54 bp):
ACACGGGTTGGGACACGACCGTGTGTCTCAAGTCAGTAAGTTACACAGGCAAGG
Found at i:17464716 original size:3 final size:3
Alignment explanation
Indices: 17464710--17464787 Score: 147
Period size: 3 Copynumber: 26.0 Consensus size: 3
17464700 ATCATCGAAG
17464710 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA
1 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA
*
17464758 GTA GTA GTA GTA GTA GTA GTA GTA GGA GTA
1 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA
17464788 TGGTTCAATA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.33, C:0.00, G:0.35, T:0.32
Consensus pattern (3 bp):
GTA
Found at i:17467253 original size:20 final size:20
Alignment explanation
Indices: 17467228--17467274 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
17467218 CTGAGATCAA
17467228 TTTGGAACAAAACAT-AAAAT
1 TTTGGAA-AAAACATGAAAAT
*
17467248 TTTGG-AAAAACTTGAAAAT
1 TTTGGAAAAAACATGAAAAT
17467267 TTTGGAAA
1 TTTGGAAA
17467275 CAGGGGTCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 6 0.25
19 11 0.46
20 7 0.29
ACGTcount: A:0.49, C:0.06, G:0.15, T:0.30
Consensus pattern (20 bp):
TTTGGAAAAAACATGAAAAT
Found at i:17474919 original size:27 final size:27
Alignment explanation
Indices: 17474889--17475066 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
17474879 ATATTGAGTC
* * * *
17474889 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
17474916 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
17474943 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
17474971 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
17474998 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
17475025 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
17475052 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17475067 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:17475028 original size:82 final size:81
Alignment explanation
Indices: 17474910--17475065 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
17474900 TGCTATATAA
* *
17474910 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
17474975 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
17474992 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
17475056 CACTTAGTGC
65 CACTTAGTGC
17475066 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:17477359 original size:27 final size:28
Alignment explanation
Indices: 17477329--17477382 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
17477319 TGAAATTCAT
*
17477329 ACTTTAATTATTAA-ATAATTAATTTTC
1 ACTTAAATTATTAACATAATTAATTTTC
*
17477356 ACTTAAATTATTAACATATTTAATTTT
1 ACTTAAATTATTAACATAATTAATTTT
17477383 AATTATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 13 0.54
28 11 0.46
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (28 bp):
ACTTAAATTATTAACATAATTAATTTTC
Found at i:17480160 original size:23 final size:22
Alignment explanation
Indices: 17480109--17480153 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 22
17480099 ATCCATGCAC
*
17480109 ATATACATGTATTTTTTATAATAT
1 ATATACA--TATTTTTTAAAATAT
17480133 ATATACATATTTTTTAGAAAT
1 ATATACATATTTTTTA-AAAT
17480154 TATTATAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 9 0.47
23 3 0.16
24 7 0.37
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (22 bp):
ATATACATATTTTTTAAAATAT
Found at i:17483052 original size:27 final size:27
Alignment explanation
Indices: 17483022--17483199 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
17483012 ATATTGAGCC
* *
17483022 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
17483049 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
17483076 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
17483104 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
17483131 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
17483158 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
17483185 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17483200 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:17483161 original size:82 final size:81
Alignment explanation
Indices: 17483043--17483198 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
17483033 TGCTATATAA
* *
17483043 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
17483108 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
17483125 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
17483189 CACTTAGTGC
65 CACTTAGTGC
17483199 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:17485202 original size:42 final size:42
Alignment explanation
Indices: 17485012--17485201 Score: 218
Period size: 42 Copynumber: 4.5 Consensus size: 42
17485002 GCATTTACAG
* * * *
17485012 AAAAAAATGCCGCTAAAGAACATGATCTTTCGCAGCGCTTAAA
1 AAAAAAATGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT-AA
* * **
17485055 AAAAAAGACGCCGCTAAATATCATGTTCTTTAGCGGCGCTTCT
1 AAAAAA-ATGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAA
* ** * **
17485098 AAAAAGACACCGCTAAAGATCATATTCTTTAGCGGCGCTTTC
1 AAAAAAATGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAA
*
17485140 AAAAAAATGCCGCTAAAGATTATGTTCTTTAGCGGCGCTTAA
1 AAAAAAATGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAA
*
17485182 AGAAAAATGCCGCTAAAGAT
1 AAAAAAATGCCGCTAAAGAT
17485202 TGCTTGGTAA
Statistics
Matches: 124, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
42 85 0.69
43 11 0.09
44 28 0.23
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.25
Consensus pattern (42 bp):
AAAAAAATGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAA
Found at i:17485703 original size:21 final size:21
Alignment explanation
Indices: 17485679--17485750 Score: 101
Period size: 21 Copynumber: 3.4 Consensus size: 21
17485669 TTATTTTGAA
17485679 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCTCTCGCTGCAG
17485700 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCTCTCGCTGCAG
* * *
17485721 CCTCTACTTCCCTCGTTGCCA-
1 CCTCTGCTTCTCTCGCTG-CAG
17485742 CCTCTGCTT
1 CCTCTGCTT
17485751 TAAGTTGTAG
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
21 44 0.96
22 2 0.04
ACGTcount: A:0.06, C:0.44, G:0.15, T:0.35
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGCTGCAG
Found at i:17491268 original size:9 final size:9
Alignment explanation
Indices: 17491251--17491746 Score: 396
Period size: 9 Copynumber: 56.8 Consensus size: 9
17491241 TATGTATTAA
*
17491251 GTAAATTAT
1 GTAAGTTAT
17491260 GTAAGTTAT
1 GTAAGTTAT
*
17491269 GTACGTGTA-
1 GTAAGT-TAT
17491278 -TAAGTTAT
1 GTAAGTTAT
17491286 GTAAGTTAT
1 GTAAGTTAT
*
17491295 GT-A-TTAA
1 GTAAGTTAT
*
17491302 GTAAGCTAT
1 GTAAGTTAT
*
17491311 GTAAGTTGT
1 GTAAGTTAT
17491320 GT-A-TTAT
1 GTAAGTTAT
17491327 GTAAGTTAT
1 GTAAGTTAT
17491336 GTAAGTTAT
1 GTAAGTTAT
** *
17491345 CAAAGTAAT
1 GTAAGTTAT
*
17491354 GTATGTTAT
1 GTAAGTTAT
17491363 GTAAG-T-T
1 GTAAGTTAT
17491370 GTAAGTTAT
1 GTAAGTTAT
*
17491379 -TATGTATTAT
1 GTAAG--TTAT
17491389 GTAAGTTAT
1 GTAAGTTAT
17491398 GTAAGTTAT
1 GTAAGTTAT
17491407 GTAAGTTAAAT
1 GTAAGTT--AT
17491418 GT-A-TTAT
1 GTAAGTTAT
*
17491425 GTAGGTTAT
1 GTAAGTTAT
*
17491434 GTAAGTTGT
1 GTAAGTTAT
*
17491443 GTAAGATAT
1 GTAAGTTAT
*
17491452 TTAAGTTAT
1 GTAAGTTAT
*
17491461 GTAAGTTTT
1 GTAAGTTAT
17491470 GT-A-TTAT
1 GTAAGTTAT
17491477 GTAAGTTAT
1 GTAAGTTAT
17491486 GTAAGTTAT
1 GTAAGTTAT
** *
17491495 CAAAGTAAT
1 GTAAGTTAT
*
17491504 GTATGTTAT
1 GTAAGTTAT
17491513 GTAAG-T-T
1 GTAAGTTAT
17491520 GTAAGTTAT
1 GTAAGTTAT
*
17491529 -TATGTATTAT
1 GTAAG--TTAT
17491539 GTAAGTTAT
1 GTAAGTTAT
*
17491548 TTAAGTTAT
1 GTAAGTTAT
17491557 GTAAGTTAAAT
1 GTAAGTT--AT
17491568 GT-A-TTAT
1 GTAAGTTAT
*
17491575 GTAGGTTAT
1 GTAAGTTAT
*
17491584 GTAAGTTGT
1 GTAAGTTAT
*
17491593 GTAAGATAT
1 GTAAGTTAT
*
17491602 TTAAGTTAT
1 GTAAGTTAT
*
17491611 GTAAGTTTT
1 GTAAGTTAT
17491620 GT-A-TTAT
1 GTAAGTTAT
*
17491627 GTAAGTTGT
1 GTAAGTTAT
17491636 GTAAGTTAT
1 GTAAGTTAT
17491645 GTAAGTTAAAT
1 GTAAGTT--AT
17491656 GT-A-TTAT
1 GTAAGTTAT
* *
17491663 GTAGGCTAT
1 GTAAGTTAT
*
17491672 GTAAGTTGT
1 GTAAGTTAT
*
17491681 GTAAGATAT
1 GTAAGTTAT
*
17491690 TTAAGTTAT
1 GTAAGTTAT
*
17491699 GTAAGTTTT
1 GTAAGTTAT
17491708 GT-A-TTAT
1 GTAAGTTAT
17491715 GTAAGTTAT
1 GTAAGTTAT
* *
17491724 GTATGCTAT
1 GTAAGTTAT
17491733 GT-A-TTAT
1 GTAAGTTAT
17491740 GTAAGTT
1 GTAAGTT
17491747 GTTATGTTAT
Statistics
Matches: 381, Mismatches: 69, Indels: 74
0.73 0.13 0.14
Matches are distributed among these distances:
7 56 0.15
8 25 0.07
9 269 0.71
10 13 0.03
11 18 0.05
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:17491271 original size:25 final size:25
Alignment explanation
Indices: 17491240--17491559 Score: 147
Period size: 25 Copynumber: 12.3 Consensus size: 25
17491230 TGATATATAT
*
17491240 TTATGTATTAAGTAAATTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
17491265 TTATGTACGTGT-A-TAAGTTATGTAAG
1 TTATGTA--T-TAAGTAAGTTATGTAAG
*
17491291 TTATGTATTAAGTAAGCTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
* *
17491316 TTGTGTATTATGTAAGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
** * *
17491341 TTATCAAAGTAATGTATGTTATGTAAG
1 TTAT-GTATTAA-GTAAGTTATGTAAG
* *
17491368 TTGTAAGTTATTATGT-A-TTATGTAAG
1 -T-TATG-TATTAAGTAAGTTATGTAAG
*
17491394 TTATGTAAGTTATGTAAGTTAAATGT-A-
1 TTATGT-A-TTAAGTAAGTT--ATGTAAG
* *
17491421 TTATGTAGGTTATGTAAGTTGTGTAAG
1 TTATGTA--TTAAGTAAGTTATGTAAG
* * * *
17491448 ATATTTAAGTTATGTAAGTTTTGT-A-
1 TTATGT-A-TTAAGTAAGTTATGTAAG
* **
17491473 TTATGTAAGTTATGTAAGTTATCAAAG
1 TTATGT-A-TTAAGTAAGTTATGTAAG
* *
17491500 TAATGTATGTTATGTAAG-T-TGTAAG
1 TTATGTA--TTAAGTAAGTTATGTAAG
* *
17491525 TTATTATGTATTATGTAAGTTATTTAAG
1 ---TTATGTATTAAGTAAGTTATGTAAG
17491553 TTATGTA
1 TTATGTA
17491560 AGTTAAATGT
Statistics
Matches: 235, Mismatches: 32, Indels: 56
0.73 0.10 0.17
Matches are distributed among these distances:
23 2 0.01
24 6 0.03
25 84 0.36
26 47 0.20
27 70 0.30
28 17 0.07
29 9 0.04
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.46
Consensus pattern (25 bp):
TTATGTATTAAGTAAGTTATGTAAG
Found at i:17491485 original size:150 final size:150
Alignment explanation
Indices: 17491303--17491644 Score: 648
Period size: 150 Copynumber: 2.3 Consensus size: 150
17491293 ATGTATTAAG
* *
17491303 TAAGCTATGTAAGTTGTGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAG
1 TAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAG
17491368 TTGTAAGTTATTATGTATTATGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTA
66 TTGTAAGTTATTATGTATTATGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTA
17491433 TGTAAGTTGTGTAAGATATT
131 TGTAAGTTGTGTAAGATATT
17491453 TAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAG
1 TAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAG
*
17491518 TTGTAAGTTATTATGTATTATGTAAGTTATTTAAGTTATGTAAGTTAAATGTATTATGTAGGTTA
66 TTGTAAGTTATTATGTATTATGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTA
17491583 TGTAAGTTGTGTAAGATATT
131 TGTAAGTTGTGTAAGATATT
*
17491603 TAAGTTATGTAAGTTTTGTATTATGTAAGTTGTGTAAGTTAT
1 TAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAAGTTAT
17491645 GTAAGTTAAA
Statistics
Matches: 188, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
150 188 1.00
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.46
Consensus pattern (150 bp):
TAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAG
TTGTAAGTTATTATGTATTATGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTA
TGTAAGTTGTGTAAGATATT
Found at i:17491663 original size:150 final size:149
Alignment explanation
Indices: 17491303--17491710 Score: 633
Period size: 150 Copynumber: 2.7 Consensus size: 149
17491293 ATGTATTAAG
* *
17491303 TAAGCTATGTAAGTTGTGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAG
1 TAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTA-GTTATGTAAG
17491368 TTGTAAGTTATTATGTATTATGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTA
65 TTGTAAGTTATTATGTATTATGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTA
17491433 TGTAAGTTGTGTAAGATATT
130 TGTAAGTTGTGTAAGATATT
17491453 TAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAG
1 TAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTA-GTTATGTAAG
*
17491518 TTGTAAGTTATTATGTATTATGTAAGTTATTTAAGTTATGTAAGTTAAATGTATTATGTAGGTTA
65 TTGTAAGTTATTATGTATTATGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTA
17491583 TGTAAGTTGTGTAAGATATT
130 TGTAAGTTGTGTAAGATATT
* ** *
17491603 TAAGTTATGTAAGTTTTGTATTATGTAAGTTGTGTAAGTTATGTAAGTTAAATGTA-TTATGTAG
1 TAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAAGTTATCAAAG-T-AATGTAGTTATGTAA
* * * *
17491667 GCTATGTAAGTTGTGTAAG-A-TATTTAAGTTATGTAAGTTTTGTA
64 G-T-TGTAAGTTAT-TATGTATTATGTAAGTTATGTAAGTTATGTA
17491711 TTATGTAAGT
Statistics
Matches: 241, Mismatches: 12, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
150 199 0.83
151 23 0.10
152 16 0.07
153 3 0.01
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.46
Consensus pattern (149 bp):
TAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTAGTTATGTAAGT
TGTAAGTTATTATGTATTATGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTAT
GTAAGTTGTGTAAGATATT
Found at i:17491686 original size:88 final size:88
Alignment explanation
Indices: 17491531--17491735 Score: 365
Period size: 88 Copynumber: 2.3 Consensus size: 88
17491521 TAAGTTATTA
* *
17491531 TGTATTATGTAAGTTATTTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTA
1 TGTATTATGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGCTATGTAAGTTGTGTA
17491596 AGATATTTAAGTTATGTAAGTTT
66 AGATATTTAAGTTATGTAAGTTT
*
17491619 TGTATTATGTAAGTTGTGTAAGTTATGTAAGTTAAATGTATTATGTAGGCTATGTAAGTTGTGTA
1 TGTATTATGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGCTATGTAAGTTGTGTA
17491684 AGATATTTAAGTTATGTAAGTTT
66 AGATATTTAAGTTATGTAAGTTT
* *
17491707 TGTATTATGTAAGTTATGTATGCTATGTA
1 TGTATTATGTAAGTTATGTAAGTTATGTA
17491736 TTATGTAAGT
Statistics
Matches: 111, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 111 1.00
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (88 bp):
TGTATTATGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGCTATGTAAGTTGTGTA
AGATATTTAAGTTATGTAAGTTT
Found at i:17491880 original size:23 final size:23
Alignment explanation
Indices: 17491854--17491897 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
17491844 ATTTTTTTAT
17491854 AAGTTATGTATTATGTAAGTTAA
1 AAGTTATGTATTATGTAAGTTAA
17491877 AAGTTATGTATTATGTAAGTT
1 AAGTTATGTATTATGTAAGTT
17491898 TACATATAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (23 bp):
AAGTTATGTATTATGTAAGTTAA
Found at i:17492119 original size:13 final size:13
Alignment explanation
Indices: 17492101--17492265 Score: 136
Period size: 13 Copynumber: 12.5 Consensus size: 13
17492091 TAAATTTTAG
*
17492101 TAAGTAATGTATT
1 TAAGTAATATATT
*
17492114 TAAGTAACATATT
1 TAAGTAATATATT
*
17492127 TAAGTAATAAATT
1 TAAGTAATATATT
** *
17492140 TAAACAA-ATTTT
1 TAAGTAATATATT
*
17492152 AGTAAGTAATGTATT
1 --TAAGTAATATATT
*
17492167 TAAGTAACATATT
1 TAAGTAATATATT
*
17492180 TAAGTAATAAATT
1 TAAGTAATATATT
** *
17492193 TAACCAA-ATTTT
1 TAAGTAATATATT
*
17492205 AGTAAGTAATGTATT
1 --TAAGTAATATATT
*
17492220 TAAGTAATTTATT
1 TAAGTAATATATT
17492233 TAAGTAATATATT
1 TAAGTAATATATT
*
17492246 CAAGTAATATATT
1 TAAGTAATATATT
*
17492259 AAAGTAA
1 TAAGTAA
17492266 ATTTTAGTAA
Statistics
Matches: 118, Mismatches: 28, Indels: 12
0.75 0.18 0.08
Matches are distributed among these distances:
12 6 0.05
13 96 0.81
14 10 0.08
15 6 0.05
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.41
Consensus pattern (13 bp):
TAAGTAATATATT
Found at i:17492157 original size:53 final size:53
Alignment explanation
Indices: 17492092--17492241 Score: 273
Period size: 53 Copynumber: 2.8 Consensus size: 53
17492082 ATATATACTT
17492092 AAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAAAC
1 AAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAAAC
*
17492145 AAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAACC
1 AAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAAAC
**
17492198 AAATTTTAGTAAGTAATGTATTTAAGTAATTTATTTAAGTAATA
1 AAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATA
17492242 TATTCAAGTA
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
53 94 1.00
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.41
Consensus pattern (53 bp):
AAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAAAC
Found at i:17492292 original size:66 final size:66
Alignment explanation
Indices: 17492154--17492292 Score: 170
Period size: 66 Copynumber: 2.1 Consensus size: 66
17492144 CAAATTTTAG
* * ** *
17492154 TAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAACCAAATTTTAGTAAGTAATGTAT
1 TAAGTAATGTATTTAAGTAACATATTCAAGTAATAAATTAAACCAAATTTTAGTAAAAAATATAT
17492219 T
66 T
* * * ** *
17492220 TAAGTAATTTATTTAAGTAATATATTCAAGTAATATATTAAAGTAAATTTTAGTAAAAAATATGT
1 TAAGTAATGTATTTAAGTAACATATTCAAGTAATAAATTAAACCAAATTTTAGTAAAAAATATAT
17492285 T
66 T
*
17492286 TTAGTAA
1 TAAGTAA
17492293 GTAATGTAAG
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (66 bp):
TAAGTAATGTATTTAAGTAACATATTCAAGTAATAAATTAAACCAAATTTTAGTAAAAAATATAT
T
Found at i:17494775 original size:147 final size:144
Alignment explanation
Indices: 17494367--17494776 Score: 385
Period size: 147 Copynumber: 2.8 Consensus size: 144
17494357 AAATTAACCA
* * *
17494367 TTTGCGGCGTTTATAAATAAGTGCCACTAACTATAAGTCAAAACGTAGTCGTTTCATCAACAAAT
1 TTTGCGGCGTTT-TAAGTAAGTGCCACTAACTATAAGTCAAAACGAAGTCGTTTCATCAACAATT
* * * * * *
17494432 AGCTCATGCCTCTGGCGTTTTTGAATAAACGCCACTAATA-ATACAGCAAAGCAGCCTCGTATCA
65 AACTCAAGCCTGTGGCGTTTCTGAA-AAACGCCACTAATACATACA-CAAAACAGCATCGTATCA
*
17494496 ATAAATGTTAAAACATT
128 ATAAATGTTAAAACAAT
* * * * *
17494513 TTTGCGGCGTTTTAAGCGAAGTGCCACTAACTATAAATCAAAACGCAGTCGCTTCATCAACACTT
1 TTTGCGGCGTTTTAAG-TAAGTGCCACTAACTATAAGTCAAAACGAAGTCGTTTCATCAACAATT
** * * * * * ** * *
17494578 TCCTCAAACCCGTGGCATTT-TCGAAAAATTGCCACGAATAACATTTACAAAACGGCATCGTTTC
65 AACTCAAGCCTGTGGCGTTTCT-GAAAAA-CGCCACTAAT-ACATACACAAAACAGCATCGTATC
* *
17494642 TATAAATGTTAGAACAAT
127 AATAAATGTTAAAACAAT
* * ** *
17494660 TTTGAGGCGTTTTAAGTAAAGTGCCACTAAATATAAGTTC-AAACGAAGTCGTTTCCCCAACAGT
1 TTTGCGGCGTTTTAAGT-AAGTGCCACTAACTATAAG-TCAAAACGAAGTCGTTTCATCAACAAT
* *
17494724 TAACTCAAGCTTGTGGCGTTTCCTGAAAAACGCCACTAATACCATAGACAAAA
64 TAACTCAAGCCTGTGGCGTTT-CTGAAAAACGCCACTAATA-CATACACAAAA
17494777 TGACTACATT
Statistics
Matches: 210, Mismatches: 44, Indels: 19
0.77 0.16 0.07
Matches are distributed among these distances:
145 7 0.03
146 79 0.38
147 112 0.53
148 11 0.05
149 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.28
Consensus pattern (144 bp):
TTTGCGGCGTTTTAAGTAAGTGCCACTAACTATAAGTCAAAACGAAGTCGTTTCATCAACAATTA
ACTCAAGCCTGTGGCGTTTCTGAAAAACGCCACTAATACATACACAAAACAGCATCGTATCAATA
AATGTTAAAACAAT
Found at i:17496436 original size:114 final size:114
Alignment explanation
Indices: 17496244--17496674 Score: 610
Period size: 114 Copynumber: 3.8 Consensus size: 114
17496234 GCGCTTCATA
* * * *
17496244 AAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGGCATCGTTAGGCTTAGGTTTTTTTGCGGC
1 AAAAACGCCGCTAAATCCCTGAATGCTCAGAAAACGGCATCGTTGGGCTTCGGTTTCTTTGCGGC
**
17496309 ATTTACTCAAAAACGCCGCTAAAGTCCTGAGCATTAGCGAAGCTTCACC
66 GCTTACTCAAAAACGCCGCTAAAGTCCTGAGCATTAGCGAAGCTTCACC
* * * *
17496358 AAAAACACCGTTAAATCTCTGAATGCTCAGAAAACGACATCGTTGGGCTTCGGTTTCTTTGCGGC
1 AAAAACGCCGCTAAATCCCTGAATGCTCAGAAAACGGCATCGTTGGGCTTCGGTTTCTTTGCGGC
* *
17496423 GCTTACTCAAAAACGCCGCTAAAGTCTTGAGCATTAGCGACGCTTCACC
66 GCTTACTCAAAAACGCCGCTAAAGTCCTGAGCATTAGCGAAGCTTCACC
* * *
17496472 GAAAATGCCGCTAAATCCCTGAATGCTCAGAAAACGGCGTCGTTGGGCTTCGGTTTCTTTGCGGC
1 AAAAACGCCGCTAAATCCCTGAATGCTCAGAAAACGGCATCGTTGGGCTTCGGTTTCTTTGCGGC
* **
17496537 GCTTAATCAAAAACGCCGCTAAAGTCCTGAGCATTAGCGGTGCTTCACC
66 GCTTACTCAAAAACGCCGCTAAAGTCCTGAGCATTAGCGAAGCTTCACC
* * * ** *
17496586 GAAAATGCCACTAAATCCCAAAATGCTCAGAAAACGGCGTCGTTGGGCTTCGGTTTCTTTGCGGC
1 AAAAACGCCGCTAAATCCCTGAATGCTCAGAAAACGGCATCGTTGGGCTTCGGTTTCTTTGCGGC
* * * *
17496651 GCTTCCACAAAATCACCGCTAAAG
66 GCTTACTCAAAAACGCCGCTAAAG
17496675 CCTCGAATAG
Statistics
Matches: 286, Mismatches: 31, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
114 286 1.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (114 bp):
AAAAACGCCGCTAAATCCCTGAATGCTCAGAAAACGGCATCGTTGGGCTTCGGTTTCTTTGCGGC
GCTTACTCAAAAACGCCGCTAAAGTCCTGAGCATTAGCGAAGCTTCACC
Found at i:17501399 original size:43 final size:44
Alignment explanation
Indices: 17501352--17501493 Score: 121
Period size: 43 Copynumber: 3.2 Consensus size: 44
17501342 CCCTGGGTTG
*
17501352 CAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCT-ATCGA
1 CAGCGAAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGATCGA
* * * * * * * *
17501395 CAGCGAAGCAGATTGAAGACATCA-ACCTTGCC-TCTCTGGGT-TA
1 CAGCGAAGCAGGTTAAAAATAGCAGATCTTGCCTTC-CT-GATCGA
* * *
17501438 CAGCGGAGCAGGTTAAAAATAGCAGATTTTGCCTTCCTGCACCGA
1 CAGCGAAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTG-ATCGA
17501483 CAGCGAAGCAG
1 CAGCGAAGCAG
17501494 ATCGAAGACA
Statistics
Matches: 71, Mismatches: 21, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
41 2 0.03
42 9 0.13
43 38 0.54
44 9 0.13
45 13 0.18
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.21
Consensus pattern (44 bp):
CAGCGAAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGATCGA
Found at i:17501485 original size:174 final size:175
Alignment explanation
Indices: 17501189--17501781 Score: 579
Period size: 174 Copynumber: 3.4 Consensus size: 175
17501179 AGCAGATCAG
* *
17501189 TAAAAATAGTAGATCTTGCCTTCCGGCACCGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCC-GCACCGACAGCGAAGCAGATCGAAGACACTAACCTTGCCT
* * * *
17501254 CCCTAGGTTGCAGCGGAGAAGGTTAAAAAAAGTAGATCTTGTCTTCCTGCGCCGACAGCGAAGCA
65 CCCTAGGTTACAGCGGAGAAGGTTAAAAAAAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCA
* *
17501319 GATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGT
130 GATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCAGAGCAAGT
* * *
17501365 TAAAAATAGCAGATCTTGCCTTCC-TATCGACAGCGAAGCAGATTGAAGACA-TCAACCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCGCACCGACAGCGAAGCAGATCGAAGACACT-AACCTTGCCT
* * * * *
17501428 CTCTGGGTTACAGCGGAGCAGGTTAAAAATAGCAGATTTTGCCTTCCTGCACCGACAGCGAAGCA
65 CCCTAGGTTACAGCGGAGAAGGTTAAAAAAAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCA
*
17501493 GATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTAGCAGAGCAAGT
130 GATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCAGAGCAAGT
* * * * ** * **
17501539 TAAAAATAGCATATCTTGCCTTCTTGCACCGACAGTGAAGCAAATCGAAGACTTTAGCCTTATCT
1 TAAAAATAGCAGATCTTGCCTTC-CGCACCGACAGCGAAGCAGATCGAAGACACTAACCTTGCCT
* * * ** ** * * * * *
17501604 CCCT-GAG-CAGCAGTGGAGTAGGTTGAAAATTA-CAGATCTT-ATTTCCCT-AAGCAATAGCGG
65 CCCTAG-GTTA-CAGCGGAGAAGGTT-AAAAAAAGCAGATCTTGCCTT-CCTGCACCGACAGCGA
* * * * * * * * *
17501664 AGTAGATCAAAGACACTAACCTTGCCTCCCTTGGTGGCAGCGGAGTAGGT
126 AGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCAGAGCAAGT
* * ** * * *
17501714 TAAAGATAGCAGATCTTGCCTTCCTGTACTAACAGTGAAGTAGATCGAAGACACTAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCC-GCACCGACAGCGAAGCAGATCGAAGACACTAACCTTGCCT
17501779 CCC
65 CCC
17501782 ACGGTGGCAG
Statistics
Matches: 345, Mismatches: 63, Indels: 19
0.81 0.15 0.04
Matches are distributed among these distances:
173 1 0.00
174 154 0.45
175 106 0.31
176 77 0.22
177 7 0.02
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.23
Consensus pattern (175 bp):
TAAAAATAGCAGATCTTGCCTTCCGCACCGACAGCGAAGCAGATCGAAGACACTAACCTTGCCTC
CCTAGGTTACAGCGGAGAAGGTTAAAAAAAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAG
ATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCAGAGCAAGT
Found at i:17501815 original size:88 final size:88
Alignment explanation
Indices: 17501189--17501805 Score: 652
Period size: 88 Copynumber: 7.0 Consensus size: 88
17501179 AGCAGATCAG
* *
17501189 TAAAAATAGTAGATCTTGCCTTCCGGCACCGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCT
* *
17501254 CCCTAGGTTGCAGCGGAGAAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* * * * *
17501277 TAAAAAAAGTAGATCTTGTCTTCCTGCGCCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCT
17501342 CCCTGGGTTGCAGCGGAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* * *
17501365 TAAAAATAGCAGATCTTGCCTTCCT--ATCGACAGCGAAGCAGATTGAAGACA-TCAACCTTGCC
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACT-AGCCTTGCC
* *
17501427 TCTCTGGGTTACAGCGGAGCAGGT
65 TCCCTGGGTTGCAGCGGAGCAGGT
* *
17501451 TAAAAATAGCAGATTTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCT
* * *
17501516 CCCTGGGTTGTAGCAGAGCAAGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* * * * ** **
17501539 TAAAAATAGCATATCTTGCCTTCTTGCACCGACAGTGAAGCAAATCGAAGACTTTAGCCTTATCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCT
* ** * *
17501604 CCCTGAGCAGCAGTGGAGTAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* ** * * * * * * * *
17501627 TGAAAATTA-CAGATCTT-ATTTCCCT-AAGCAATAGCGGAGTAGATCAAAGACACTAACCTTGC
1 T-AAAAATAGCAGATCTTGCCTT-CCTGCACCGACAGCGAAGCAGATCGAAGACACTAGCCTTGC
* * *
17501689 CTCCCTTGGTGGCAGCGGAGTAGGT
64 CTCCCTGGGTTGCAGCGGAGCAGGT
* * ** * *
17501714 TAAAGATAGCAGATCTTGCCTTCCTGTACTAACAGTGAAGTAGATCGAAGACACTAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCT
** * * *
17501779 CCCACGGTGGCAGTGAAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
17501802 TAAA
1 TAAA
17501806 GATTACAGAT
Statistics
Matches: 434, Mismatches: 86, Indels: 18
0.81 0.16 0.03
Matches are distributed among these distances:
86 82 0.19
87 57 0.13
88 289 0.67
89 6 0.01
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (88 bp):
TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCT
CCCTGGGTTGCAGCGGAGCAGGT
Found at i:17502077 original size:100 final size:100
Alignment explanation
Indices: 17501901--17502190 Score: 427
Period size: 100 Copynumber: 2.9 Consensus size: 100
17501891 CCACGACGGT
* * *
17501901 GAATCTTACTCCCCTAGCGGTGTAGTGGGACAGATTGAAGCTACGACGGCGAATCTCATTTCCCC
1 GAATCTTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGTTTCCCC
17501966 AACATTGCAATTTAAAAGATTGAAGCCGCAACAGC
66 AACATTGCAATTTAAAAGATTGAAGCCGCAACAGC
* *
17502001 GAATCTTACTTCTCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGTTTCCCC
1 GAATCTTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGTTTCCCC
* * * * * **
17502066 AATATTTCAATTAAAAAGATTAAAGTCGCAATGGC
66 AACATTGCAATTTAAAAGATTGAAGCCGCAACAGC
* * * *
17502101 GAATCTTACTTCCCTAGCGGTGTAGTAGAACAGATTGAAGCCACGACGGCGAATCTTGTTTCCCT
1 GAATCTTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGTTTCCCC
*
17502166 AACATTGCAATTTAAAAGACTGAAG
66 AACATTGCAATTTAAAAGATTGAAG
17502191 ATGGCGAATC
Statistics
Matches: 167, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
100 167 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (100 bp):
GAATCTTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGTTTCCCC
AACATTGCAATTTAAAAGATTGAAGCCGCAACAGC
Found at i:17502152 original size:50 final size:50
Alignment explanation
Indices: 17501891--17502166 Score: 160
Period size: 50 Copynumber: 5.5 Consensus size: 50
17501881 CAAATTAAAA
* * * *
17501891 CCACGACGGTGAATCTTACTCCCCTAGCGGTGTAGTGGGACAGATTGAAG
1 CCACGACGGCGAATCTTACTTCCCTAGCGGTGTAGTAGAACAGATTGAAG
* * * * * ** * * ** *
17501941 CTACGACGGCGAATCTCATTTCCCCAACATTGCAATTTAAAAGATTGAAG
1 CCACGACGGCGAATCTTACTTCCCTAGCGGTGTAGTAGAACAGATTGAAG
* * * * * *
17501991 CCGCAACAGCGAATCTTACTTCTCTGGCGGTGTAGTGGAACAGATTGAAG
1 CCACGACGGCGAATCTTACTTCCCTAGCGGTGTAGTAGAACAGATTGAAG
* *** * *** * * * *
17502041 CTACGACGGCGAATCTCGTTTCCCCA-ATATTTCAATTA-AAAAGATTAAAG
1 CCACGACGGCGAATCTTACTTCCCTAGCGGTGT--AGTAGAACAGATTGAAG
* * * *
17502091 TCGCAATGGCGAATCTTACTTCCCTAGCGGTGTAGTAGAACAGATTGAAG
1 CCACGACGGCGAATCTTACTTCCCTAGCGGTGTAGTAGAACAGATTGAAG
**
17502141 CCACGACGGCGAATCTTGTTTCCCTA
1 CCACGACGGCGAATCTTACTTCCCTA
17502167 ACATTGCAAT
Statistics
Matches: 150, Mismatches: 72, Indels: 8
0.65 0.31 0.03
Matches are distributed among these distances:
49 5 0.03
50 141 0.94
51 4 0.03
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (50 bp):
CCACGACGGCGAATCTTACTTCCCTAGCGGTGTAGTAGAACAGATTGAAG
Found at i:17504235 original size:23 final size:22
Alignment explanation
Indices: 17504184--17504228 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 22
17504174 ATCCATGCAC
*
17504184 ATATACATGTATTTTTTATAATAT
1 ATATACA--TATTTTTTAAAATAT
17504208 ATATACATATTTTTTAGAAAT
1 ATATACATATTTTTTA-AAAT
17504229 TATTATAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 9 0.47
23 3 0.16
24 7 0.37
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (22 bp):
ATATACATATTTTTTAAAATAT
Found at i:17506754 original size:16 final size:18
Alignment explanation
Indices: 17506728--17506762 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
17506718 TAGAATTGGG
17506728 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
17506745 TTGA-AAAATTAATTTAA
1 TTGAGAAAATTAATTTAA
17506762 T
1 T
17506763 AATATTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:17509558 original size:23 final size:24
Alignment explanation
Indices: 17509514--17509558 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
17509504 ATTCACTTTT
*
17509514 ATTTTTACTTTAATCTTTTTTTGA
1 ATTTTTACTTTAATCTTATTTTGA
17509538 ATTTTT-CTTTAAT-TTCATTTT
1 ATTTTTACTTTAATCTT-ATTTT
17509559 TCGAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 2 0.11
23 11 0.58
24 6 0.32
ACGTcount: A:0.20, C:0.09, G:0.02, T:0.69
Consensus pattern (24 bp):
ATTTTTACTTTAATCTTATTTTGA
Found at i:17514388 original size:19 final size:19
Alignment explanation
Indices: 17514347--17514389 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
17514337 TACCTCTTTT
**
17514347 TGCATTAATTTCATTCATC
1 TGCATTAATTTCATTCAAA
17514366 TGCATTACATTTCATT-AAA
1 TGCATTA-ATTTCATTCAAA
17514385 TGCAT
1 TGCAT
17514390 CAAGTATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.30, C:0.19, G:0.07, T:0.44
Consensus pattern (19 bp):
TGCATTAATTTCATTCAAA
Found at i:17522800 original size:44 final size:43
Alignment explanation
Indices: 17522741--17522858 Score: 139
Period size: 43 Copynumber: 2.7 Consensus size: 43
17522731 CATATCAAAC
* * *
17522741 CTTATCTCCCTGAAGTTGCAGTGGGGCAGGTTGAAATTACAAG-T
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAATGA-AAGAT
* **
17522785 CTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAATGATGGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAATGAAAGAT
* *
17522828 CTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
17522859 CACATTAGAC
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 1 0.02
43 34 0.53
44 29 0.45
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAATGAAAGAT
Found at i:17524918 original size:24 final size:25
Alignment explanation
Indices: 17524873--17524919 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
17524863 ATTCACTTTT
*
17524873 ATTTTTACTTTAATCTTTTTTTTGA
1 ATTTTTACTTTAATCTTATTTTTGA
17524898 ATTTTT-CTTTAAT-TTCATTTTT
1 ATTTTTACTTTAATCTT-ATTTTT
17524920 CGAAATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 12 0.60
25 6 0.30
ACGTcount: A:0.19, C:0.09, G:0.02, T:0.70
Consensus pattern (25 bp):
ATTTTTACTTTAATCTTATTTTTGA
Found at i:17525513 original size:13 final size:13
Alignment explanation
Indices: 17525495--17525520 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17525485 TAAATTTGAT
17525495 ATTATTATTATTA
1 ATTATTATTATTA
17525508 ATTATTATTATTA
1 ATTATTATTATTA
17525521 GTTTTATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTATTATTATTA
Found at i:17533482 original size:17 final size:16
Alignment explanation
Indices: 17533453--17533501 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
17533443 TCAATGACAG
17533453 ATAGTATTCCCTGGCAA
1 ATAGTA-TCCCTGGCAA
* *
17533470 ATAGTATCACCTGACAG
1 ATAGTATC-CCTGGCAA
17533487 ATAGTATCTCCTGGC
1 ATAGTATC-CCTGGC
17533502 GGACAGCATC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 2 0.07
17 25 0.93
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (16 bp):
ATAGTATCCCTGGCAA
Found at i:17535071 original size:19 final size:19
Alignment explanation
Indices: 17535049--17535086 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
17535039 AGGATATCCT
17535049 TAATCTCTTTAG-ATAAATC
1 TAATCTCTTT-GCATAAATC
17535068 TAATCTCTTTGCATAAATC
1 TAATCTCTTTGCATAAATC
17535087 CGTTCTCCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.34, C:0.18, G:0.05, T:0.42
Consensus pattern (19 bp):
TAATCTCTTTGCATAAATC
Found at i:17536858 original size:25 final size:26
Alignment explanation
Indices: 17536802--17536861 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
17536792 TTTACCACAG
*
17536802 TAAAATTTTGACGAATTTACTCTCGA
1 TAAAATTTTGACGAATTTACCCTCGA
* *
17536828 TAAAATTTTGATGATTTTACCC-CTGA
1 TAAAATTTTGACGAATTTACCCTC-GA
17536854 T-AAATTTT
1 TAAAATTTT
17536862 CGAGAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 8 0.27
26 22 0.73
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.43
Consensus pattern (26 bp):
TAAAATTTTGACGAATTTACCCTCGA
Found at i:17542779 original size:45 final size:45
Alignment explanation
Indices: 17542715--17542807 Score: 177
Period size: 45 Copynumber: 2.1 Consensus size: 45
17542705 GTAGGTCTTG
*
17542715 TTTAGGAACCTTCTTCCACTCAATATTTAAAACAGACATGCAATT
1 TTTAGGAACCTTCTCCCACTCAATATTTAAAACAGACATGCAATT
17542760 TTTAGGAACCTTCTCCCACTCAATATTTAAAACAGACATGCAATT
1 TTTAGGAACCTTCTCCCACTCAATATTTAAAACAGACATGCAATT
17542805 TTT
1 TTT
17542808 TTAATTTTTG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.34, C:0.23, G:0.09, T:0.34
Consensus pattern (45 bp):
TTTAGGAACCTTCTCCCACTCAATATTTAAAACAGACATGCAATT
Found at i:17544612 original size:50 final size:51
Alignment explanation
Indices: 17544514--17544625 Score: 122
Period size: 50 Copynumber: 2.2 Consensus size: 51
17544504 AGTGATTTTG
* * * *
17544514 GCGTGTTTCTGGGGGCAGATGTAAAGCCTACGGGCTTGGCACTTGGTGCCCAA
1 GCGTGTTTCTGGAGG-AGATGTAAAGCCTACAGGCTAGGCACTCGGTG-CCAA
* *
17544567 GCGTGTTTCTGGAGG-GATGT-TAGCCTACAGGCTAGGCAGTCGGTGCCAA
1 GCGTGTTTCTGGAGGAGATGTAAAGCCTACAGGCTAGGCACTCGGTGCCAA
17544616 G-GTGTGTTCT
1 GCGTGT-TTCT
17544626 TGGTTAGACT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
48 4 0.08
49 9 0.17
50 20 0.38
51 5 0.10
53 14 0.27
ACGTcount: A:0.16, C:0.21, G:0.37, T:0.27
Consensus pattern (51 bp):
GCGTGTTTCTGGAGGAGATGTAAAGCCTACAGGCTAGGCACTCGGTGCCAA
Found at i:17550308 original size:25 final size:25
Alignment explanation
Indices: 17550262--17550343 Score: 139
Period size: 25 Copynumber: 3.3 Consensus size: 25
17550252 TTTCTCACCT
17550262 CAATTTTACCCTAGTAAAATTTGTGA
1 CAATTTTACCC-AGTAAAATTTGTGA
17550288 CAATTTTACCCAGTAAAATTTGTGA
1 CAATTTTACCCAGTAAAATTTGTGA
*
17550313 CAATTTTACCCAGTAAAATTT-TAA
1 CAATTTTACCCAGTAAAATTTGTGA
17550337 CAATTTT
1 CAATTTT
17550344 GCTTCTAGTA
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
24 9 0.16
25 35 0.64
26 11 0.20
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.39
Consensus pattern (25 bp):
CAATTTTACCCAGTAAAATTTGTGA
Found at i:17550514 original size:6 final size:6
Alignment explanation
Indices: 17550503--17550541 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
17550493 AGATTGTAAG
*
17550503 TTTCCA TTTCCA TTTCTA TTTCCA TTTCCA TTTCCA TTT
1 TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTT
17550542 TTAGAAACCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.15, C:0.28, G:0.00, T:0.56
Consensus pattern (6 bp):
TTTCCA
Found at i:17553518 original size:21 final size:23
Alignment explanation
Indices: 17553464--17553518 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
17553454 TAATTTAATA
* * *
17553464 AATTCATTTTAATATTAATATAC
1 AATTCAATTAAATATAAATATAC
*
17553487 AATTGAATTAAATATAAATATA-
1 AATTCAATTAAATATAAATATAC
17553509 AA-TCAATTAA
1 AATTCAATTAA
17553519 TTTTAATTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 7 0.26
22 2 0.07
23 18 0.67
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (23 bp):
AATTCAATTAAATATAAATATAC
Found at i:17557310 original size:11 final size:11
Alignment explanation
Indices: 17557294--17557319 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
17557284 ATTTTTTTAA
17557294 TTTTAAAATAC
1 TTTTAAAATAC
17557305 TTTTAAAATAC
1 TTTTAAAATAC
17557316 TTTT
1 TTTT
17557320 TTTAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:17557325 original size:40 final size:39
Alignment explanation
Indices: 17557278--17557432 Score: 172
Period size: 38 Copynumber: 4.2 Consensus size: 39
17557268 AATATTTTTA
17557278 TTTTTAATTTTTTTAATTTTAAAATACTTTTAAAATACTT
1 TTTTTAATTTTTTTAATTTTAAAATA-TTTTAAAATACTT
17557318 TTTTTAA---TTTT--TTTT---A-ATTTTAAAATACTTT
1 TTTTTAATTTTTTTAATTTTAAAATATTTTAAAATAC-TT
17557349 TTTTTAATTTTTTTAATTTTAAAATATTTTAAAAATAC--
1 TTTTTAATTTTTTTAATTTTAAAATATTTT-AAAATACTT
* *
17557387 TTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATA-TA
1 TTTTTAATTTTTTTAATTTTAAAATA-TTTTAAAATACTT
17557426 TTTTTAA
1 TTTTTAA
17557433 AATTTTTGTT
Statistics
Matches: 99, Mismatches: 2, Indels: 29
0.76 0.02 0.22
Matches are distributed among these distances:
30 11 0.11
31 10 0.10
32 1 0.01
34 4 0.04
35 4 0.04
36 4 0.04
37 4 0.04
38 31 0.31
39 11 0.11
40 12 0.12
41 7 0.07
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (39 bp):
TTTTTAATTTTTTTAATTTTAAAATATTTTAAAATACTT
Found at i:17557339 original size:30 final size:29
Alignment explanation
Indices: 17557305--17557378 Score: 123
Period size: 30 Copynumber: 2.5 Consensus size: 29
17557295 TTTAAAATAC
17557305 TTTTAAAATACTTTTTTTAATTTTTTTTAA
1 TTTTAAAATACTTTTTTTAA-TTTTTTTAA
17557335 TTTTAAAATACTTTTTTTTAATTTTTTTAA
1 TTTTAAAATAC-TTTTTTTAATTTTTTTAA
17557365 TTTTAAAATA-TTTT
1 TTTTAAAATACTTTT
17557379 AAAAATACTT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
28 4 0.09
30 30 0.70
31 9 0.21
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (29 bp):
TTTTAAAATACTTTTTTTAATTTTTTTAA
Found at i:17557419 original size:11 final size:11
Alignment explanation
Indices: 17557365--17557439 Score: 56
Period size: 11 Copynumber: 7.3 Consensus size: 11
17557355 ATTTTTTTAA
17557365 TTTTAAAATAT
1 TTTTAAAATAT
* *
17557376 TTTAAAAATAC
1 TTTTAAAATAT
17557387 TTTT-AAAT-T
1 TTTTAAAATAT
*
17557396 TTTT----TAA
1 TTTTAAAATAT
17557403 TTTTAAAATAT
1 TTTTAAAATAT
17557414 TTTTAAAATATAT
1 TTTT-AAA-ATAT
17557427 TTTTAAAAT-T
1 TTTTAAAATAT
17557437 TTT
1 TTT
17557440 GTTTTAATTT
Statistics
Matches: 51, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
6 1 0.02
7 4 0.08
9 4 0.08
10 8 0.16
11 20 0.39
12 6 0.12
13 8 0.16
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:17557422 original size:28 final size:30
Alignment explanation
Indices: 17557374--17557432 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 30
17557364 ATTTTAAAAT
17557374 ATTTTAAAAATACTTTTAAAT-T-TTTTTA
1 ATTTTAAAAATACTTTTAAATATATTTTTA
*
17557402 ATTTT-AAAATATTTTTAAAATATATTTTTA
1 ATTTTAAAAATACTTTT-AAATATATTTTTA
17557432 A
1 A
17557433 AATTTTTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 10 0.37
28 9 0.33
29 1 0.04
30 7 0.26
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (30 bp):
ATTTTAAAAATACTTTTAAATATATTTTTA
Found at i:17557446 original size:14 final size:13
Alignment explanation
Indices: 17557410--17557435 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17557400 TAATTTTAAA
17557410 ATATTTTTAAAAT
1 ATATTTTTAAAAT
17557423 ATATTTTTAAAAT
1 ATATTTTTAAAAT
17557436 TTTTGTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATATTTTTAAAAT
Found at i:17558459 original size:3 final size:3
Alignment explanation
Indices: 17558451--17558497 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
17558441 ACATATGCTT
17558451 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
17558498 TTGGCTGGAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:17560867 original size:27 final size:27
Alignment explanation
Indices: 17560837--17560987 Score: 178
Period size: 27 Copynumber: 5.6 Consensus size: 27
17560827 ATATTGAGTC
* * *
17560837 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
17560864 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
* * *
17560892 CGCACACTTAGTGCCACATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
17560919 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
17560946 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
17560973 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17560988 GTACAATTTA
Statistics
Matches: 108, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
26 1 0.01
27 81 0.75
28 26 0.24
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:17560949 original size:82 final size:81
Alignment explanation
Indices: 17560837--17560986 Score: 230
Period size: 82 Copynumber: 1.8 Consensus size: 81
17560827 ATATTGAGTC
*
17560837 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
1 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTTA
17560902 GTGCCACATGGTCAATT
65 GTGCCACATGGTCAATT
* * **
17560919 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
1 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
17560983 GTGC
65 GTGC
17560987 TGTACAATTT
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 17 0.27
82 45 0.73
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (81 bp):
CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAG
TGCCACATGGTCAATT
Found at i:17563034 original size:49 final size:49
Alignment explanation
Indices: 17562957--17563072 Score: 162
Period size: 50 Copynumber: 2.3 Consensus size: 49
17562947 TAAAAAGGGT
** *
17562957 GTTTGAACTAGTGTTAGCATTATTGAACTAGCTC-TTTGAGCAACCCTG
1 GTTTGAACTAGTGTTAGCAACATCGAACTAGCTCATTTGAGCAACCCTG
17563005 GTTTGAAGCTAGTGTTAGCAACATCGAACTAGCTCATTTGAGCAACCCTG
1 GTTTGAA-CTAGTGTTAGCAACATCGAACTAGCTCATTTGAGCAACCCTG
**
17563055 GTCTAAAACTAGTGTTAG
1 GT-TTGAACTAGTGTTAG
17563073 AAACCCGAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
48 7 0.12
49 24 0.40
50 26 0.43
51 3 0.05
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.32
Consensus pattern (49 bp):
GTTTGAACTAGTGTTAGCAACATCGAACTAGCTCATTTGAGCAACCCTG
Found at i:17563655 original size:4 final size:4
Alignment explanation
Indices: 17563646--17563740 Score: 190
Period size: 4 Copynumber: 23.8 Consensus size: 4
17563636 ATTTATTCAT
17563646 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
17563694 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
17563741 TCGTCCCTTA
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 91 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:17570357 original size:43 final size:40
Alignment explanation
Indices: 17570287--17570393 Score: 106
Period size: 43 Copynumber: 2.5 Consensus size: 40
17570277 ACTCAGAAAC
* *
17570287 ACATATATCACATACAATGCCATATCCCAGATATGGTCTT
1 ACATATATCACATACAATGCCATATCCCAGACAGGGTCTT
* *
17570327 ACATGATATCATATATCGATGCCACTATCCCAGACAGGGTCTT
1 ACAT-ATATCACATA-CAATGCCA-TATCCCAGACAGGGTCTT
* * *
17570370 AAACATAGTCTCATATCAATGCCA
1 ACATATA-TCACATA-CAATGCCA
17570394 ATGTCCCAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
40 4 0.07
41 9 0.17
42 10 0.19
43 31 0.57
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.28
Consensus pattern (40 bp):
ACATATATCACATACAATGCCATATCCCAGACAGGGTCTT
Found at i:17582630 original size:40 final size:40
Alignment explanation
Indices: 17582600--17582769 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
17582590 GGACTAAGAT
* *
17582600 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* *
17582640 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* ** * *
17582680 CCGAAGGCATTCGTGCGAGTTGTTAAATCTGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
17582720 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
17582759 CCGAAGGCATT
1 CCGAAGGCATT
17582770 TGAACGAGGA
Statistics
Matches: 117, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 33 0.28
40 84 0.72
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:17582684 original size:80 final size:79
Alignment explanation
Indices: 17582547--17582771 Score: 227
Period size: 80 Copynumber: 2.8 Consensus size: 79
17582537 TTGAATGCTG
* * * * * * * * * *
17582547 TCCGGGCTAAGTCCCGAAGGCTTTGTTCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAAACCGGGCTAAG-TCCCGAAGGCATT
17582611 TGTGCGAGATACTAAA
64 TGTGCGAGATACTAAA
* * * *
17582627 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTT
* **
17582692 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* * * *
17582707 TCTGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
17582772 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
79 36 0.30
80 82 0.68
81 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:17589647 original size:39 final size:40
Alignment explanation
Indices: 17589443--17589665 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
17589433 TTGAATGCTG
* * * * * *
17589443 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
17589483 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
17589523 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
17589563 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
17589603 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
17589642 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
17589666 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:17589685 original size:79 final size:80
Alignment explanation
Indices: 17589518--17589700 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
17589508 GTGCGAGATA
* * *
17589518 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
17589583 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
17589598 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
17589662 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
17589677 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
17589701 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:17591754 original size:57 final size:57
Alignment explanation
Indices: 17591656--17591765 Score: 141
Period size: 57 Copynumber: 1.9 Consensus size: 57
17591646 AGAAATGGTA
* * * *
17591656 AAAATGGAGAAATAAGAAACATTTGGAAGTGATTATGGTTTTCTCCAAAATGATAATG
1 AAAATGGAGAAAT-AGAAACATTTGGAAATGAATATAGTTTTCTCAAAAATGATAATG
* *
17591714 AAAATGGAGAAAT-GAAACCATTTGGAAATGAATGTAGTTTTCTTAAAAATGA
1 AAAATGGAGAAATAGAAA-CATTTGGAAATGAATATAGTTTTCTCAAAAATGA
17591766 AAATAACCTG
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
56 4 0.09
57 28 0.62
58 13 0.29
ACGTcount: A:0.45, C:0.06, G:0.20, T:0.29
Consensus pattern (57 bp):
AAAATGGAGAAATAGAAACATTTGGAAATGAATATAGTTTTCTCAAAAATGATAATG
Found at i:17599801 original size:17 final size:16
Alignment explanation
Indices: 17599757--17599803 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 16
17599747 ATGATATTTT
17599757 TTTAAAAAT-TTAATA
1 TTTAAAAATATTAATA
*
17599772 -TTAAAATTAATTAATGA
1 TTTAAAAAT-ATTAAT-A
17599789 TTTAAAAATATTAAT
1 TTTAAAAATATTAAT
17599804 TGTTAGAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 7 0.27
16 5 0.19
17 7 0.27
18 7 0.27
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (16 bp):
TTTAAAAATATTAATA
Found at i:17599933 original size:45 final size:47
Alignment explanation
Indices: 17599881--17599983 Score: 122
Period size: 49 Copynumber: 2.2 Consensus size: 47
17599871 ATCCATATAA
* *
17599881 AATTACACTT-ATTTTATTT-TATT-TTAGAATAAGGTTTTTCAACCT
1 AATTACACTTCA-TTTATTTATATTATAAGAATAAGGTGTTTCAACCT
*
17599926 TATTACACTTCATTTATTTGATATTGATAAGAATAAGGTGTTTCAACCT
1 AATTACACTTCATTTATTT-ATATT-ATAAGAATAAGGTGTTTCAACCT
*
17599975 AACTACACT
1 AATTACACT
17599984 CCTTCTAATA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
45 16 0.33
46 1 0.02
47 4 0.08
49 27 0.56
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.45
Consensus pattern (47 bp):
AATTACACTTCATTTATTTATATTATAAGAATAAGGTGTTTCAACCT
Found at i:17606727 original size:22 final size:22
Alignment explanation
Indices: 17606693--17606749 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
17606683 GGTTCATGCT
*
17606693 AAGA-GTTCACACAACGCATAG
1 AAGAGGTTCGCACAACGCATAG
* * * *
17606714 ATGAGGTTTGCACAATGCATGG
1 AAGAGGTTCGCACAACGCATAG
17606736 AAGAGGTTCGCACA
1 AAGAGGTTCGCACA
17606750 TGCACATGTT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 3 0.11
22 25 0.89
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.19
Consensus pattern (22 bp):
AAGAGGTTCGCACAACGCATAG
Found at i:17611131 original size:18 final size:18
Alignment explanation
Indices: 17611108--17611145 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
17611098 AACTTTGCAA
17611108 CAACATCAATAACACCAC
1 CAACATCAATAACACCAC
17611126 CAACATCAATAACACCAC
1 CAACATCAATAACACCAC
17611144 CA
1 CA
17611146 CTTTCCAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.39, G:0.00, T:0.11
Consensus pattern (18 bp):
CAACATCAATAACACCAC
Found at i:17615848 original size:27 final size:27
Alignment explanation
Indices: 17615809--17616110 Score: 269
Period size: 27 Copynumber: 11.2 Consensus size: 27
17615799 GAGTATGGGC
* * *
17615809 AAATGACCAAAATACCCTCGATGGGTG
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
17615836 AAATAACCGAAATACCCTTGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
17615863 AAATGACCGAAATACCTTTGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
17615890 AAATGACTGAAATACCC-CTAAAGGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
* * *
17615917 AAATAACCAAAATACCC-CTAAAGGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
*
17615944 AAATGACCAAAATAACCCT-GAAGGGTA
1 AAATGACCGAAAT-ACCCTCGAAGGGTA
* * *
17615971 AAATGACCAAAATACCC-CTTAATGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
* *
17615998 AAATGACCGAAATA-TCTCCAAAGGGTA
1 AAATGACCGAAATACCCT-CGAAGGGTA
***
17616025 AAATGTTTGAAATACCC-CTGAAGGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
* * *
17616052 AAATGATCGAAATACCCCCGAAGGATA
1 AAATGACCGAAATACCCTCGAAGGGTA
17616079 AAATGACCGAAATACCC-C-ATAGGGTA
1 AAATGACCGAAATACCCTCGA-AGGGTA
17616105 AAATGA
1 AAATGA
17616111 TTTTTATACC
Statistics
Matches: 232, Mismatches: 32, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
25 1 0.00
26 18 0.08
27 206 0.89
28 7 0.03
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.19
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCGAAGGGTA
Found at i:17615944 original size:81 final size:79
Alignment explanation
Indices: 17615831--17616110 Score: 310
Period size: 81 Copynumber: 3.5 Consensus size: 79
17615821 TACCCTCGAT
* ** *
17615831 GGGTGAAATAACCGAAATACCCTTGAAGGGTAAAATGACCGAAATACCTTTGAAGGGTAAAATGA
1 GGGTAAAATAACCGAAATACCC-CAAAGGGTAAAATGACCGAAATACC-CTGAAGGGTAAAATGA
17615896 CTGAAATACCCCTAAA
64 CTGAAATACCCCTAAA
* *
17615912 GGGTAAAATAACCAAAATACCCCTAAAGGGTAAAATGACCAAAATAACCCTGAAGGGTAAAATGA
1 GGGTAAAATAACCGAAATACCCC-AAAGGGTAAAATGACCGAAAT-ACCCTGAAGGGTAAAATGA
** *
17615977 CCAAAATACCCCTTAA
64 CTGAAATACCCCTAAA
* * * ***
17615993 TGGTAAAATGACCGAAATATCTCCAAAGGGTAAAATGTTTGAAATACCCCTGAAGGGTAAAATGA
1 GGGTAAAATAACCGAAATA-CCCCAAAGGGTAAAATGACCGAAATA-CCCTGAAGGGTAAAATGA
**
17616058 -TCGAAATACCCCCGAA
64 CT-GAAATACCCCTAAA
* * *
17616074 GGATAAAATGACCGAAATACCCCATAGGGTAAAATGA
1 GGGTAAAATAACCGAAATACCCCAAAGGGTAAAATGA
17616111 TTTTTATACC
Statistics
Matches: 168, Mismatches: 26, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
80 16 0.10
81 146 0.87
82 6 0.04
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (79 bp):
GGGTAAAATAACCGAAATACCCCAAAGGGTAAAATGACCGAAATACCCTGAAGGGTAAAATGACT
GAAATACCCCTAAA
Found at i:17616096 original size:54 final size:54
Alignment explanation
Indices: 17615809--17616110 Score: 324
Period size: 54 Copynumber: 5.6 Consensus size: 54
17615799 GAGTATGGGC
* * * *
17615809 AAATGACCAAAATA-CCCTCGATGGGTGAAATAACCGAAATACCCTTGAAGGGTA
1 AAATGACCAAAATACCCCT-GAAGGGTAAAATGACCGAAATACCCCTGAAGGGTA
* ** * *
17615863 AAATGACCGAAATACCTTTGAAGGGTAAAATGACTGAAATACCCCTAAAGGGTA
1 AAATGACCAAAATACCCCTGAAGGGTAAAATGACCGAAATACCCCTGAAGGGTA
* * * *
17615917 AAATAACCAAAATACCCCTAAAGGGTAAAATGACCAAAATAACCCTGAAGGGTA
1 AAATGACCAAAATACCCCTGAAGGGTAAAATGACCGAAATACCCCTGAAGGGTA
* * * *
17615971 AAATGACCAAAATACCCCTTAATGGTAAAATGACCGAAATATCTCC-AAAGGGTA
1 AAATGACCAAAATACCCCTGAAGGGTAAAATGACCGAAATA-CCCCTGAAGGGTA
**** * * *
17616025 AAATGTTTGAAATACCCCTGAAGGGTAAAATGATCGAAATACCCCCGAAGGATA
1 AAATGACCAAAATACCCCTGAAGGGTAAAATGACCGAAATACCCCTGAAGGGTA
*
17616079 AAATGACCGAAATACCCC--ATAGGGTAAAATGA
1 AAATGACCAAAATACCCCTGA-AGGGTAAAATGA
17616111 TTTTTATACC
Statistics
Matches: 206, Mismatches: 38, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
52 1 0.00
53 15 0.07
54 186 0.90
55 4 0.02
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.19
Consensus pattern (54 bp):
AAATGACCAAAATACCCCTGAAGGGTAAAATGACCGAAATACCCCTGAAGGGTA
Found at i:17616359 original size:26 final size:27
Alignment explanation
Indices: 17616306--17616359 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
17616296 CCTACTGGTG
* *
17616306 GCTTTGCCACGTATACTGTTACTGGCA
1 GCTTTGCCACGTATACTATTACTAGCA
* *
17616333 GCTTTGCTACG-ATTCTATTACTAGCA
1 GCTTTGCCACGTATACTATTACTAGCA
17616359 G
1 G
17616360 TTTTACTGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.35
Consensus pattern (27 bp):
GCTTTGCCACGTATACTATTACTAGCA
Found at i:17618048 original size:7 final size:7
Alignment explanation
Indices: 17618032--17618080 Score: 64
Period size: 8 Copynumber: 6.7 Consensus size: 7
17618022 AAAAACAACA
17618032 AAAAATTT
1 AAAAA-TT
17618040 AAAAATT
1 AAAAATT
17618047 AAAAATT
1 AAAAATT
17618054 AAAAAATT
1 -AAAAATT
17618062 AAAAAATT
1 -AAAAATT
17618070 -AAAATT
1 AAAAATT
17618076 AAAAA
1 AAAAA
17618081 GAAAATAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.15
7 13 0.33
8 20 0.51
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAAATT
Found at i:17618050 original size:15 final size:15
Alignment explanation
Indices: 17618032--17618080 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
17618022 AAAAACAACA
17618032 AAAAATTTAAAAATT
1 AAAAATTTAAAAATT
*
17618047 AAAAATTAAAAAATT
1 AAAAATTTAAAAATT
*
17618062 AAAAAATT-AAAATT
1 AAAAATTTAAAAATT
17618076 AAAAA
1 AAAAA
17618081 GAAAATAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
14 11 0.35
15 20 0.65
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAAATTTAAAAATT
Found at i:17619622 original size:5 final size:5
Alignment explanation
Indices: 17619612--17619744 Score: 53
Period size: 5 Copynumber: 25.4 Consensus size: 5
17619602 GAAGCAGAAT
* * * *
17619612 AATAA AATAA AATAA ACTAA GAA-AGA AACT-A AAGAA ACTAA TAATTAT
1 AATAA AATAA AATAA AATAA -AATA-A AA-TAA AATAA AATAA -AA-TAA
*
17619660 AATAA GAATAA ATATAAA ATATAA AATAA CAA-AC AA-AA AATAA GAATAA
1 AATAA -AATAA A-AT-AA A-ATAA AATAA -AATAA AATAA AATAA -AATAA
* *
17619709 GAAT-- AATAA AGTAA AATAA AGTAA AATAA AATAA AA
1 -AATAA AATAA AATAA AATAA AATAA AATAA AATAA AA
17619745 ATAGAGAACT
Statistics
Matches: 99, Mismatches: 14, Indels: 30
0.69 0.10 0.21
Matches are distributed among these distances:
3 3 0.03
4 5 0.05
5 57 0.58
6 26 0.26
7 8 0.08
ACGTcount: A:0.71, C:0.04, G:0.06, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:17624452 original size:30 final size:30
Alignment explanation
Indices: 17624416--17624474 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
17624406 CACGGGCTGA
*
17624416 CACACGGG-TGTGTGGCCAG-CTCGTGTGGCT
1 CACACGGGCT-TGTGCCCAGCCT-GTGTGGCT
17624446 CACACGGGCTTGTGCCCAGCCTGTGTGGC
1 CACACGGGCTTGTGCCCAGCCTGTGTGGC
17624475 AATGCCCAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 23 0.88
31 3 0.12
ACGTcount: A:0.10, C:0.31, G:0.37, T:0.22
Consensus pattern (30 bp):
CACACGGGCTTGTGCCCAGCCTGTGTGGCT
Found at i:17627774 original size:20 final size:20
Alignment explanation
Indices: 17627749--17627804 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
17627739 AGATCATGAA
*
17627749 CCATTCCATTTGCTTACTTT
1 CCATTCCATTTACTTACTTT
17627769 CCATTCCATTTACTTAC-TT
1 CCATTCCATTTACTTACTTT
*
17627788 CACATTTCATTTACTTA
1 C-CATTCCATTTACTTA
17627805 TCATAAACTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.21, C:0.29, G:0.02, T:0.48
Consensus pattern (20 bp):
CCATTCCATTTACTTACTTT
Found at i:17630447 original size:54 final size:54
Alignment explanation
Indices: 17630365--17630474 Score: 202
Period size: 54 Copynumber: 2.0 Consensus size: 54
17630355 ACAAGTATGG
17630365 GTAGAAACCTAATGGTTAAGCCTTTGCATTTCCCCCTTATATTCCTAAGTTTAA
1 GTAGAAACCTAATGGTTAAGCCTTTGCATTTCCCCCTTATATTCCTAAGTTTAA
* *
17630419 GTAGAATCCTAATGGTTAAGCTTTTGCATTTCCCCCTTATATTCCTAAGTTTAA
1 GTAGAAACCTAATGGTTAAGCCTTTGCATTTCCCCCTTATATTCCTAAGTTTAA
17630473 GT
1 GT
17630475 CACGCCGATC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (54 bp):
GTAGAAACCTAATGGTTAAGCCTTTGCATTTCCCCCTTATATTCCTAAGTTTAA
Found at i:17632172 original size:15 final size:16
Alignment explanation
Indices: 17632152--17632185 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
17632142 TGAAAGAGTC
17632152 ATAAAAAAA-CAAACT
1 ATAAAAAAATCAAACT
*
17632167 ATAAAAAAATCAAATT
1 ATAAAAAAATCAAACT
17632183 ATA
1 ATA
17632186 CAAGGTGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.71, C:0.09, G:0.00, T:0.21
Consensus pattern (16 bp):
ATAAAAAAATCAAACT
Found at i:17636833 original size:22 final size:22
Alignment explanation
Indices: 17636801--17636843 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
17636791 CTAAGTGTTC
*
17636801 TCACAACGCATAGATGAGGTTT
1 TCACAACGCATAGAAGAGGTTT
* *
17636823 TCACAATGCATGGAAGAGGTT
1 TCACAACGCATAGAAGAGGTT
17636844 CGGACATGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.26
Consensus pattern (22 bp):
TCACAACGCATAGAAGAGGTTT
Found at i:17641274 original size:40 final size:40
Alignment explanation
Indices: 17641220--17641318 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 40
17641210 AGATGCATAA
* *
17641220 CAGGGTTACC-AAGTGCAATCAAGAGCACAAATGTGC-AAT
1 CAGGGGTACCGAAGTGCAAACAAGAGCACAAATGT-CTAAT
* * * *
17641259 CAGGGGTACCGAAGTGCAAACAGGGGCACAGATGTCTATT
1 CAGGGGTACCGAAGTGCAAACAAGAGCACAAATGTCTAAT
*
17641299 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTGCAAA
17641319 TAGGGGCACG
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
39 10 0.20
40 41 0.80
ACGTcount: A:0.35, C:0.20, G:0.28, T:0.16
Consensus pattern (40 bp):
CAGGGGTACCGAAGTGCAAACAAGAGCACAAATGTCTAAT
Found at i:17641275 original size:20 final size:20
Alignment explanation
Indices: 17641230--17641343 Score: 65
Period size: 20 Copynumber: 5.7 Consensus size: 20
17641220 CAGGGTTACC
* * *
17641230 AAGTGCAATCAAGAGCA-CA
1 AAGTGCAATCAGGGGCACCG
*
17641249 AATGTGCAATCAGGGGTACCG
1 AA-GTGCAATCAGGGGCACCG
* *
17641270 AAGTGCAAACAGGGGCACAG
1 AAGTGCAATCAGGGGCACCG
* * *
17641290 ATGT-CTATTCAGGGGTACCG
1 AAGTGC-AATCAGGGGCACCG
*
17641310 AAGTACAAAT-AGGGGCA-CG
1 AAGTGC-AATCAGGGGCACCG
*
17641329 TAAGTGCAATTAGGG
1 -AAGTGCAATCAGGG
17641344 ATGCCAAAGT
Statistics
Matches: 72, Mismatches: 17, Indels: 11
0.72 0.17 0.11
Matches are distributed among these distances:
19 8 0.11
20 58 0.81
21 6 0.08
ACGTcount: A:0.35, C:0.18, G:0.31, T:0.17
Consensus pattern (20 bp):
AAGTGCAATCAGGGGCACCG
Found at i:17641354 original size:40 final size:39
Alignment explanation
Indices: 17641302--17641537 Score: 206
Period size: 40 Copynumber: 5.9 Consensus size: 39
17641292 GTCTATTCAG
* * *
17641302 GGGTACCGAAGTACAAATAGGGGCACGTAAGTGCAATTA
1 GGGTACCAAAGTACAAACAGGGGCACGTAAGTGCAATAA
* * * *
17641341 GGGATGCCAAAGTACAAACAAGGGAACGTAAGTGTAATCAA
1 GGG-TACCAAAGTACAAACAGGGGCACGTAAGTGCAAT-AA
* * * * * *
17641382 GTGTACTAAAGTACAAACAAGGGCCCATAAGTGCAACCAA
1 GGGTACCAAAGTACAAACAGGGGCACGTAAGTGCAA-TAA
* * *
17641422 GGGCACCAAAGTACAAACAGGGGCACGTAATTGCAATTA
1 GGGTACCAAAGTACAAACAGGGGCACGTAAGTGCAATAA
** * * * *
17641461 GAGGTACTGAAGTATAAACAGGGGCACGTAAGGGTAATCAT
1 G-GGTACCAAAGTACAAACAGGGGCACGTAAGTGCAAT-AA
17641502 GGGTACCAAAGTAC-AACTA-GGGCACGTAAGTGCAAT
1 GGGTACCAAAGTACAAAC-AGGGGCACGTAAGTGCAAT
17641538 CATTCAAAAA
Statistics
Matches: 153, Mismatches: 38, Indels: 12
0.75 0.19 0.06
Matches are distributed among these distances:
39 23 0.15
40 126 0.82
41 4 0.03
ACGTcount: A:0.39, C:0.17, G:0.27, T:0.17
Consensus pattern (39 bp):
GGGTACCAAAGTACAAACAGGGGCACGTAAGTGCAATAA
Found at i:17641413 original size:20 final size:20
Alignment explanation
Indices: 17641347--17641447 Score: 78
Period size: 20 Copynumber: 5.0 Consensus size: 20
17641337 ATTAGGGATG
*
17641347 CCAAAGTACAAACAAGGGAA
1 CCAAAGTACAAACAAGGGCA
** ** * * *
17641367 CGTAAGTGTAATCAAGTGTA
1 CCAAAGTACAAACAAGGGCA
*
17641387 CTAAAGTACAAACAAGGGC-
1 CCAAAGTACAAACAAGGGCA
* *
17641406 CCATAAGTGCAACCAAGGGCA
1 CCA-AAGTACAAACAAGGGCA
*
17641427 CCAAAGTACAAACAGGGGCA
1 CCAAAGTACAAACAAGGGCA
17641447 C
1 C
17641448 GTAATTGCAA
Statistics
Matches: 59, Mismatches: 20, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
19 2 0.03
20 54 0.92
21 3 0.05
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.12
Consensus pattern (20 bp):
CCAAAGTACAAACAAGGGCA
Found at i:17649293 original size:20 final size:20
Alignment explanation
Indices: 17649268--17649321 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
17649258 ATCATAAACC
*
17649268 ATTCCATTTGCTTACTTTCT
1 ATTCCATTTACTTACTTTCT
17649288 ATTCCATTTACTTACTTTAC-
1 ATTCCATTTACTTACTTT-CT
*
17649308 ATTTCATTTACTTA
1 ATTCCATTTACTTA
17649322 ACATAAACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.22, C:0.22, G:0.02, T:0.54
Consensus pattern (20 bp):
ATTCCATTTACTTACTTTCT
Found at i:17650243 original size:40 final size:40
Alignment explanation
Indices: 17650199--17650285 Score: 95
Period size: 40 Copynumber: 2.2 Consensus size: 40
17650189 GTAAGAATAG
* *
17650199 GGGCACTTAAGTGTAATAAG-GGATACCGAAGAACAAACAA
1 GGGCACTTAAGTGCAATAAGAGG-TACCAAAGAACAAACAA
* * * * *
17650239 GGGCACGTAATTGCAATCAGAGGTACCAAAGTACAAACAG
1 GGGCACTTAAGTGCAATAAGAGGTACCAAAGAACAAACAA
17650279 GGGCACT
1 GGGCACT
17650286 GATACATGCA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
40 36 0.95
41 2 0.05
ACGTcount: A:0.40, C:0.18, G:0.26, T:0.15
Consensus pattern (40 bp):
GGGCACTTAAGTGCAATAAGAGGTACCAAAGAACAAACAA
Found at i:17650271 original size:80 final size:79
Alignment explanation
Indices: 17650138--17650285 Score: 181
Period size: 80 Copynumber: 1.9 Consensus size: 79
17650128 ATGTACATTT
* * * * * * * *
17650138 AGGGGTACTGAAGTACAAACAGGCCACGTAAGTGCAATTAGGGGTATCGAAGTA-AGAATAGGGG
1 AGGGATACCGAAGAACAAACAGGCCACGTAAGTGCAATCAGAGGTACCAAAGTACA-AACAGGGG
17650202 CACTTAAGTGTAATA
65 CACTTAAGTGTAATA
* *
17650217 AGGGATACCGAAGAACAAACAAGGGCACGTAATTGCAATCAGAGGTACCAAAGTACAAACAGGGG
1 AGGGATACCGAAGAACAAAC-AGGCCACGTAAGTGCAATCAGAGGTACCAAAGTACAAACAGGGG
17650282 CACT
65 CACT
17650286 GATACATGCA
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
79 17 0.30
80 39 0.68
81 1 0.02
ACGTcount: A:0.39, C:0.16, G:0.28, T:0.16
Consensus pattern (79 bp):
AGGGATACCGAAGAACAAACAGGCCACGTAAGTGCAATCAGAGGTACCAAAGTACAAACAGGGGC
ACTTAAGTGTAATA
Found at i:17651390 original size:40 final size:39
Alignment explanation
Indices: 17651319--17651497 Score: 175
Period size: 40 Copynumber: 4.5 Consensus size: 39
17651309 ATCCTTTATC
* *
17651319 AGGCACCTAAGTGCAATC-AGGGTTACCGAAGTACAAACA
1 AGGCACGTAAGTGCAATCAAGGG-TACTGAAGTACAAACA
* *
17651358 AGGACACATAAGTGCAATCAAGGGTACTGAAGTACAAATA
1 AGG-CACGTAAGTGCAATCAAGGGTACTGAAGTACAAACA
* *
17651398 GGGGCACGTAAGTGCAATCAGGGGTA-TCGAAGTACAAACA
1 -AGGCACGTAAGTGCAATCAAGGGTACT-GAAGTACAAACA
* * *
17651438 GAGGCACGTAAGTGCAATCAAAGGTA-TCAAAGTACAAATA
1 -AGGCACGTAAGTGCAATCAAGGGTACT-GAAGTACAAACA
* *
17651478 GGGGCACGTAAGTGTAATCA
1 -AGGCACGTAAGTGCAATCA
17651498 GGGGCAGCTA
Statistics
Matches: 122, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
39 4 0.03
40 112 0.92
41 6 0.05
ACGTcount: A:0.40, C:0.17, G:0.26, T:0.17
Consensus pattern (39 bp):
AGGCACGTAAGTGCAATCAAGGGTACTGAAGTACAAACA
Done.