Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 109 of 226
Found at i:33957938 original size:15 final size:15
Alignment explanation
Indices: 33957898--33957926 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
33957888 AAATATATTT
33957898 AAAAATATAAAAATC
1 AAAAATATAAAAATC
33957913 AAAAATATAAAAAT
1 AAAAATATAAAAAT
33957927 TATAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAAATATAAAAATC
Found at i:33957943 original size:27 final size:28
Alignment explanation
Indices: 33957908--33957960 Score: 65
Period size: 27 Copynumber: 1.9 Consensus size: 28
33957898 AAAAATATAA
*
33957908 AAATCAAAAAT-ATAAAAATTATAAAAAT
1 AAATCAAAAATGA-AAAAAATATAAAAAT
*
33957936 AAAT-AAAAGTGAAAAAAATATAAAA
1 AAATCAAAAATGAAAAAAATATAAAA
33957961 CAAATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 17 0.77
28 5 0.23
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.21
Consensus pattern (28 bp):
AAATCAAAAATGAAAAAAATATAAAAAT
Found at i:33958260 original size:18 final size:16
Alignment explanation
Indices: 33958239--33958299 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 16
33958229 ATGTATTTTT
33958239 TATTTTTATATTTTTAAA
1 TATTTTTA-ATTTTT-AA
33958257 TATTTTCTAAATTTTATTAA
1 TATTTT-T-AA-TTT-TTAA
33958277 T-TTTTTAATATTTTAA
1 TATTTTTAAT-TTTTAA
33958293 TATTTTT
1 TATTTTT
33958300 CTTAATTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 13
0.74 0.00 0.26
Matches are distributed among these distances:
16 6 0.16
17 9 0.24
18 7 0.19
19 6 0.16
20 7 0.19
21 2 0.05
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (16 bp):
TATTTTTAATTTTTAA
Found at i:33958261 original size:10 final size:9
Alignment explanation
Indices: 33958239--33958299 Score: 58
Period size: 8 Copynumber: 6.8 Consensus size: 9
33958229 ATGTATTTTT
33958239 TATTTTT-A
1 TATTTTTAA
33958247 TATTTTTAAA
1 TATTTTT-AA
33958257 TATTTTCTAA
1 TATTTT-TAA
33958267 -ATTTTATTAA
1 TA-TTT-TTAA
33958277 T-TTTTTAA
1 TATTTTTAA
33958285 TA-TTTTAA
1 TATTTTTAA
33958293 TATTTTT
1 TATTTTT
33958300 CTTAATTTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
8 20 0.44
9 8 0.18
10 15 0.33
11 2 0.04
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (9 bp):
TATTTTTAA
Found at i:33958307 original size:18 final size:18
Alignment explanation
Indices: 33958250--33958308 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
33958240 ATTTTTATAT
33958250 TTTTAA-ATATTTTCTAAA
1 TTTTAATAT-TTTTCTAAA
*
33958268 TTTTATTAATTTTT-TAATA
1 TTTTAAT-ATTTTTCTAA-A
*
33958287 TTTTAATATTTTTCTTAA
1 TTTTAATATTTTTCTAAA
33958305 TTTT
1 TTTT
33958309 TACAAAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
18 19 0.56
19 13 0.38
20 2 0.06
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTAATATTTTTCTAAA
Found at i:33958427 original size:28 final size:27
Alignment explanation
Indices: 33958395--33958455 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
33958385 AATTTATAGA
*
33958395 ATTTTTTGTCA-TTTATAATATTTTTATG
1 ATTTTTT-TCACTTTATAAT-TTTTAATG
*
33958423 ATTTTTTTCACTTTTCTAATTTTTAATG
1 ATTTTTTTCAC-TTTATAATTTTTAATG
33958451 ATTTT
1 ATTTT
33958456 CTTAATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 3 0.10
28 19 0.66
29 7 0.24
ACGTcount: A:0.23, C:0.07, G:0.05, T:0.66
Consensus pattern (27 bp):
ATTTTTTTCACTTTATAATTTTTAATG
Found at i:33958461 original size:19 final size:18
Alignment explanation
Indices: 33958434--33958474 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
33958424 TTTTTTTCAC
33958434 TTTTCTAATTTTTAATGA
1 TTTTCTAATTTTTAATGA
*
33958452 TTTTCTTAATTTTTTATGA
1 TTTTC-TAATTTTTAATGA
33958471 TTTT
1 TTTT
33958475 AGTGAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTCTAATTTTTAATGA
Found at i:33958966 original size:6 final size:7
Alignment explanation
Indices: 33958949--33958975 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
33958939 CAATAGTTTC
33958949 AAAAAAT
1 AAAAAAT
33958956 AAAAAAT
1 AAAAAAT
33958963 AAAAAAT
1 AAAAAAT
33958970 AAAAAA
1 AAAAAA
33958976 AATCTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:33959037 original size:30 final size:30
Alignment explanation
Indices: 33959001--33959064 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
33958991 ATTTAATTTC
33959001 AAAAATTATAATTCTATAATATTTTCCTTT
1 AAAAATTATAATTCTATAATATTTTCCTTT
33959031 AAAAATTATAATTCTATAATATTTTCCTTT
1 AAAAATTATAATTCTATAATATTTTCCTTT
33959061 AAAA
1 AAAA
33959065 TCATAAAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (30 bp):
AAAAATTATAATTCTATAATATTTTCCTTT
Found at i:33959324 original size:19 final size:19
Alignment explanation
Indices: 33959300--33959338 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
33959290 TGGAAGCTTT
33959300 TCTAAAGATATAAGTTTTA
1 TCTAAAGATATAAGTTTTA
33959319 TCTAAAGATATAAGTTTTA
1 TCTAAAGATATAAGTTTTA
33959338 T
1 T
33959339 GTTATTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (19 bp):
TCTAAAGATATAAGTTTTA
Found at i:33961235 original size:41 final size:41
Alignment explanation
Indices: 33961168--33961410 Score: 319
Period size: 41 Copynumber: 5.9 Consensus size: 41
33961158 CCATATGGGG
* * *
33961168 CTTTAGCGGTGTTTTTTAGAAAAGCGCCGCTAATGCTCAGGGT
1 CTTTAGCGGCG-TTTTTGGAAAAGCGCCGCTAATGCTC-TGGT
33961211 -TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
** *
33961251 CTTTAGCGGCG-TTTTGGGGAAGCGCCGCTAATACTCTGGT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
** *
33961291 CTTTAGCGGCGTTTTTGGGGAAGCGCCGCTAATGCTTTGGT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
* * * * *
33961332 CTTTAGCGACGGTTTTGGGAAAGCGCCGCTAATGCTTTGGG
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
*
33961373 CTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCT
33961411 AGTGCGTTTT
Statistics
Matches: 181, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
40 40 0.22
41 132 0.73
42 9 0.05
ACGTcount: A:0.16, C:0.21, G:0.31, T:0.32
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
Found at i:33961305 original size:81 final size:82
Alignment explanation
Indices: 33961188--33961410 Score: 342
Period size: 81 Copynumber: 2.7 Consensus size: 82
33961178 GTTTTTTAGA
* *
33961188 AAAGCGCCGCTAATGCTCAGGGT-TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTC
1 AAAGCGCCGCTAATGCTC-TGGTCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCTGGTC
*
33961252 TTTAGCGGC-GTTTTGGG
65 TTTAGCGACGGTTTTGGG
* * * *
33961269 GAAGCGCCGCTAATACTCTGGTCTTTAGCGGCGTTTTTGGGGAAGCGCCGCTAATGCTTTGGTCT
1 AAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCTGGTCT
33961334 TTAGCGACGGTTTTGGG
66 TTAGCGACGGTTTTGGG
* *
33961351 AAAGCGCCGCTAATGCTTTGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCT
1 AAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCT
33961411 AGTGCGTTTT
Statistics
Matches: 127, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
80 3 0.02
81 62 0.49
82 62 0.49
ACGTcount: A:0.17, C:0.22, G:0.32, T:0.30
Consensus pattern (82 bp):
AAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCTGGTCT
TTAGCGACGGTTTTGGG
Found at i:33961386 original size:122 final size:123
Alignment explanation
Indices: 33961189--33961410 Score: 340
Period size: 122 Copynumber: 1.8 Consensus size: 123
33961179 TTTTTTAGAA
* * *
33961189 AAGCGCCGCTAATGCTCAGGGTTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCTT
1 AAGCGCCGCTAATGCTCAGGGTTTTAGCGACGGTTTTGGAAAAGCGCCGCTAATGCTCTGGGCTT
*
33961254 TAGCGGCG-TTTTGGGGAAGCGCCGCTAATACTCTGGTCTTTAGCGGCGTTTTTGGGG
66 TAGCGGCGTTTTTGGAGAAGCGCCGCTAATACTCTGGTCTTTAGCGGCGTTTTTGGGG
** * *
33961311 AAGCGCCGCTAATGCT-TTGGTCTTTAGCGACGGTTTTGGGAAAGCGCCGCTAATGCTTTGGGCT
1 AAGCGCCGCTAATGCTCAGGGT-TTTAGCGACGGTTTTGGAAAAGCGCCGCTAATGCTCTGGGCT
*
33961375 TTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCT
65 TTAGCGGCGTTTTTGGAGAAGCGCCGCTAATACTCT
33961411 AGTGCGTTTT
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
121 3 0.03
122 62 0.70
123 24 0.27
ACGTcount: A:0.16, C:0.22, G:0.32, T:0.30
Consensus pattern (123 bp):
AAGCGCCGCTAATGCTCAGGGTTTTAGCGACGGTTTTGGAAAAGCGCCGCTAATGCTCTGGGCTT
TAGCGGCGTTTTTGGAGAAGCGCCGCTAATACTCTGGTCTTTAGCGGCGTTTTTGGGG
Found at i:33961812 original size:16 final size:16
Alignment explanation
Indices: 33961791--33961825 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
33961781 TTTAAGGTTT
33961791 AGGAGTTACTATTTTA
1 AGGAGTTACTATTTTA
33961807 AGGAGTTACTATTTTA
1 AGGAGTTACTATTTTA
33961823 AGG
1 AGG
33961826 TTTATGGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.40
Consensus pattern (16 bp):
AGGAGTTACTATTTTA
Found at i:33961850 original size:7 final size:7
Alignment explanation
Indices: 33961819--33961907 Score: 70
Period size: 7 Copynumber: 12.6 Consensus size: 7
33961809 GAGTTACTAT
*
33961819 TTTAAGG
1 TTTATGG
33961826 TTTATGG
1 TTTATGG
*
33961833 ATTATGAG
1 TTTATG-G
*
33961841 TTTAGGG
1 TTTATGG
33961848 TTTATGG
1 TTTATGG
***
33961855 TTTACAC
1 TTTATGG
33961862 TTTATGG
1 TTTATGG
* *
33961869 TTTAAGA
1 TTTATGG
33961876 TTTATGG
1 TTTATGG
*
33961883 TTTAAGG
1 TTTATGG
* *
33961890 GTTACGG
1 TTTATGG
33961897 TTTATGG
1 TTTATGG
33961904 TTTA
1 TTTA
33961908 AGGGTATAGA
Statistics
Matches: 61, Mismatches: 20, Indels: 2
0.73 0.24 0.02
Matches are distributed among these distances:
7 56 0.92
8 5 0.08
ACGTcount: A:0.22, C:0.03, G:0.26, T:0.48
Consensus pattern (7 bp):
TTTATGG
Found at i:33961886 original size:21 final size:21
Alignment explanation
Indices: 33961870--33961912 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
33961860 ACTTTATGGT
33961870 TTAAGATTTATGGTTTAAGGG
1 TTAAGATTTATGGTTTAAGGG
* *
33961891 TTACGGTTTATGGTTTAAGGG
1 TTAAGATTTATGGTTTAAGGG
33961912 T
1 T
33961913 ATAGATTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.44
Consensus pattern (21 bp):
TTAAGATTTATGGTTTAAGGG
Found at i:33961967 original size:21 final size:21
Alignment explanation
Indices: 33961942--33961981 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
33961932 TTAAGTTTAG
33961942 GGGTTAATG-GTTAGGGGTTGA
1 GGGTTAA-GAGTTAGGGGTTGA
33961963 GGGTTAAGAGTTAGGGGTT
1 GGGTTAAGAGTTAGGGGTT
33961982 TAAGATTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.20, C:0.00, G:0.47, T:0.33
Consensus pattern (21 bp):
GGGTTAAGAGTTAGGGGTTGA
Found at i:33962346 original size:21 final size:22
Alignment explanation
Indices: 33962322--33962363 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
33962312 ATAGTTTATT
33962322 GTTTAAGGGTT-GGGATTTAAA
1 GTTTAAGGGTTAGGGATTTAAA
* *
33962343 GTTTAGGGGTTAGGGGTTTAA
1 GTTTAAGGGTTAGGGATTTAA
33962364 GATTTTAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (22 bp):
GTTTAAGGGTTAGGGATTTAAA
Found at i:33969065 original size:86 final size:86
Alignment explanation
Indices: 33968975--33969157 Score: 222
Period size: 86 Copynumber: 2.1 Consensus size: 86
33968965 TCTTTAGCTA
* ** * *
33968975 TAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGATTCTGATCTATAGTGGCGTTTCTCGTAAAAGC
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATTAGGATCTATAGCGGCGTTTCTCGGAAAAGC
* *
33969040 GTCGCTAAAGGCCATGGTCTT
66 GCCGCTAAAGGCCATGGCCTT
* * * * * * * *
33969061 TAGCGTCGTTTGTTGGAGAAGCGCCGTTAAATATTAGGATCTTTAGCGGCGTTTTTGGGAAAAGC
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATTAGGATCTATAGCGGCGTTTCTCGGAAAAGC
*
33969126 GCCGCTAAAGGTCATGGCCTT
66 GCCGCTAAAGGCCATGGCCTT
33969147 TAGCGGCGTTT
1 TAGCGGCGTTT
33969158 ATTTCTAAAA
Statistics
Matches: 80, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
86 80 1.00
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (86 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATTAGGATCTATAGCGGCGTTTCTCGGAAAAGC
GCCGCTAAAGGCCATGGCCTT
Found at i:33969148 original size:43 final size:43
Alignment explanation
Indices: 33968975--33969157 Score: 156
Period size: 43 Copynumber: 4.3 Consensus size: 43
33968965 TCTTTAGCTA
* * * * *
33968975 TAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGATTC-TGATCTA
1 TAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAG-GTCATGGTCTT
* * * * * *
33969018 TAGTGGCGTTTCTCGTAAAAGCGTCGCTAAAGGCCATGGTCTT
1 TAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCATGGTCTT
* * * ** *
33969061 TAGCGTCGTTTGTT-GGAGAAGCGCCGTTAAATATTA-GGATCTT
1 TAGCGGCGTTT-TTGGGAAAAGCGCCGCTAAAGGTCATGG-TCTT
*
33969104 TAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCATGGCCTT
1 TAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCATGGTCTT
33969147 TAGCGGCGTTT
1 TAGCGGCGTTT
33969158 ATTTCTAAAA
Statistics
Matches: 107, Mismatches: 28, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
42 5 0.05
43 99 0.93
44 3 0.03
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (43 bp):
TAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCATGGTCTT
Found at i:33969286 original size:22 final size:22
Alignment explanation
Indices: 33969250--33969292 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
33969240 TAGCGGCGCT
* *
33969250 AAAAAGTGCCACTAAAGGCCTA
1 AAAAAGCGCCACTAAAAGCCTA
*
33969272 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCACTAAAAGCCT
33969293 GTTTTGGTGT
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:0.44, C:0.26, G:0.19, T:0.12
Consensus pattern (22 bp):
AAAAAGCGCCACTAAAAGCCTA
Found at i:33975074 original size:3 final size:3
Alignment explanation
Indices: 33975066--33975106 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
33975056 TATATAGATC
33975066 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
33975107 TAGGTGATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:33986898 original size:21 final size:21
Alignment explanation
Indices: 33986874--33987022 Score: 78
Period size: 21 Copynumber: 7.1 Consensus size: 21
33986864 AATAGAAACC
*
33986874 CATAAGGGTTGAACGAAAGCT
1 CATAAGGGTTAAACGAAAGCT
* ** *
33986895 CATAAGAGCTTAATGGAAA-CC
1 CATAAG-GGTTAAACGAAAGCT
33986916 CATAAGGGTTAAAC-AGAAGCT
1 CATAAGGGTTAAACGA-AAGCT
* * * *
33986937 CATAAGAGCTAGACGGAAA-CC
1 CATAAGGGTTAAAC-GAAAGCT
33986958 CATAAGGGTTAAAC-AGAAGCT
1 CATAAGGGTTAAACGA-AAGCT
* * *
33986979 CAATAA-AGCTGAACGGAAA-CT
1 C-ATAAGGGTTAAAC-GAAAGCT
33987000 CATAAGGGTTAAAC-AGAAGCT
1 CATAAGGGTTAAACGA-AAGCT
33987021 CA
1 CA
33987023 ATAGAGCTAA
Statistics
Matches: 92, Mismatches: 23, Indels: 26
0.65 0.16 0.18
Matches are distributed among these distances:
19 3 0.03
20 15 0.16
21 56 0.61
22 16 0.17
23 2 0.02
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (21 bp):
CATAAGGGTTAAACGAAAGCT
Found at i:33986903 original size:42 final size:42
Alignment explanation
Indices: 33986843--33987050 Score: 269
Period size: 42 Copynumber: 5.0 Consensus size: 42
33986833 CCAAAGACTG
* ** *
33986843 AACAGAAGCTCATGAGAGCTAAATAGAAACCCATAAGGGTTG
1 AACAGAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTA
* *
33986885 AAC-GAAAGCTCATAAGAGCTTAATGGAAACCCATAAGGGTTA
1 AACAG-AAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTA
*
33986927 AACAGAAGCTCATAAGAGCTAGACGGAAACCCATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTA
* *
33986969 AACAGAAGCTCAATAA-AGCTGAACGGAAACTCATAAGGGTTA
1 AACAGAAGCTC-ATAAGAGCTAAACGGAAACCCATAAGGGTTA
* *
33987011 AACAGAAGCTCA-ATAGAGCTAAACGGAAACTCATATGGGT
1 AACAGAAGCTCATA-AGAGCTAAACGGAAACCCATAAGGGT
33987051 AATTTGCCAC
Statistics
Matches: 149, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
40 1 0.01
41 3 0.02
42 140 0.94
43 5 0.03
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTA
Found at i:33987033 original size:21 final size:21
Alignment explanation
Indices: 33986967--33987043 Score: 66
Period size: 21 Copynumber: 3.7 Consensus size: 21
33986957 CCATAAGGGT
* *
33986967 TAAACAGAAGCTCAATAAAGC
1 TAAACAGAAACTCAATAGAGC
* * * *
33986988 TGAACGGAAACTC-ATAAGGGT
1 TAAACAGAAACTCAAT-AGAGC
*
33987009 TAAACAGAAGCTCAATAGAGC
1 TAAACAGAAACTCAATAGAGC
*
33987030 TAAACGGAAACTCA
1 TAAACAGAAACTCA
33987044 TATGGGTAAT
Statistics
Matches: 41, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
20 2 0.05
21 37 0.90
22 2 0.05
ACGTcount: A:0.47, C:0.18, G:0.19, T:0.16
Consensus pattern (21 bp):
TAAACAGAAACTCAATAGAGC
Found at i:33989788 original size:15 final size:15
Alignment explanation
Indices: 33989767--33989817 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
33989757 GCATATATAT
33989767 AAAATATAAAATGTA
1 AAAATATAAAATGTA
* *
33989782 TAAATATTAGAAAAGTA
1 AAAATA-TA-AAATGTA
*
33989799 AAAATATAAAATATA
1 AAAATATAAAATGTA
33989814 AAAA
1 AAAA
33989818 AGTATGTATG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 14 0.48
16 4 0.14
17 11 0.38
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (15 bp):
AAAATATAAAATGTA
Found at i:33991704 original size:132 final size:132
Alignment explanation
Indices: 33991478--33992540 Score: 1518
Period size: 132 Copynumber: 8.1 Consensus size: 132
33991468 ATATCTGCTT
* * * * * * * * *
33991478 TCTTCGATCGATTCCACTGCTGACCGGGGAAATAGAATTACTGGCTTCAATATACTCCATTACAA
1 TCTTCAATCTATTCCGCTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAA
* *
33991543 CCTCAGGGAGGTAAAAGCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTAA
66 CCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGA
33991608 AA
131 AA
*
33991610 TCTTCAATCTATTCCGCTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAA
1 TCTTCAATCTATTCCGCTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAA
* ** * * *
33991675 CCACAGGGAGGTAAAATCTGCCATATTTGATCTGCCCCACTACTACTTAGGGAGACAAGATCTGA
66 CCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGA
33991740 AA
131 AA
** * * * *
33991742 TCTTCAATCTATTCCGCTGCTGCCCAAAGAGGTAGAATTAATGGCTTTAATGTACTCCACTGTAA
1 TCTTCAATCTATTCCGCTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAA
* * *
33991807 CCACAGGGAGGTAAAATCTACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGA
66 CCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGA
33991872 AA
131 AA
* *
33991874 TCTTCAATCTATTCCGCTGCTGCCCAAGGAGGTAGAATTACTGGCTTCAATGTACTCCACTGCAA
1 TCTTCAATCTATTCCGCTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAA
* * * * * *
33991939 CTTCAGGGAGGTAAAATCCGCCATCTTCGACCTGCTCCACTACTGCTTAGGGAGGCAAGATCTAA
66 CCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGA
33992004 AA
131 AA
* * *
33992006 TCTTCAATCTATTCCGCTGCTGCCTAGGGAAGTAGAATTACCGGCTTCAATGTACTCCACTGTAA
1 TCTTCAATCTATTCCGCTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAA
* * *
33992071 CCACAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTTAAGGAGACAAGATCTGA
66 CCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGA
33992136 AA
131 AA
* * **
33992138 TTTTCAATCTATTCCGCTGCTGCCCAGGGAAGTAGAATTACTGGCTTTAATGTACTCCACTATAA
1 TCTTCAATCTATTCCGCTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAA
* * * * **
33992203 CTTCAGGGAGGTAAAATCCGCCATCTTCGACCTGCTCCACTACTGCTTAGGGAGGTAAGATCTGA
66 CCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGA
33992268 AA
131 AA
* *
33992270 TCTTCAATCTATTCCAG-TGCTGCCTAGGGAAGTAGAATTGCTGGCTTCAATGTACTCCACTGCA
1 TCTTCAATCTATTCC-GCTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCA
* * *
33992334 ACCTCAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTG
65 ACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTG
*
33992399 TAA
130 AAA
* *
33992402 TCTTCAATCTATTCCACTGCTGCCCAGAG-AGATAGAATTACTGGCTTCAATGTACTCCACTGCA
1 TCTTCAATCTATTCCGCTGCTGCCCAGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGCA
* * *
33992466 ACCTCAGGGAGGTAAAATCCACCATCTTTGATCTACTCCACTACTGCTTAGGAAGATAAGATCTG
65 ACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTG
**
33992531 CTA
130 AAA
33992534 TCTTCAA
1 TCTTCAA
33992541 CCTGCTCCCC
Statistics
Matches: 841, Mismatches: 87, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
131 2 0.00
132 838 1.00
133 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (132 bp):
TCTTCAATCTATTCCGCTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAA
CCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGA
AA
Found at i:33993873 original size:7 final size:7
Alignment explanation
Indices: 33993859--33993905 Score: 69
Period size: 7 Copynumber: 6.7 Consensus size: 7
33993849 TCCATTTTAT
33993859 TTTTTCA
1 TTTTTCA
*
33993866 TTTCTCA
1 TTTTTCA
33993873 TTTTTCA
1 TTTTTCA
33993880 TTTTTCA
1 TTTTTCA
33993887 -TTTTCA
1 TTTTTCA
33993893 TCTTTTCA
1 T-TTTTCA
33993901 TTTTT
1 TTTTT
33993906 TCACATCACT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
6 6 0.17
7 23 0.64
8 7 0.19
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTTTCA
Found at i:33993877 original size:21 final size:22
Alignment explanation
Indices: 33993853--33993908 Score: 82
Period size: 21 Copynumber: 2.6 Consensus size: 22
33993843 AGCCTCTCCA
33993853 TTTT-ATTTTTTCATTTCTCAT-
1 TTTTCATTTTTTCATTT-TCATC
33993874 TTTTCA-TTTTTCATTTTCATC
1 TTTTCATTTTTTCATTTTCATC
33993895 TTTTCATTTTTTCA
1 TTTTCATTTTTTCA
33993909 CATCACTTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.12
21 20 0.62
22 8 0.25
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTCATTTTTTCATTTTCATC
Found at i:33993937 original size:13 final size:13
Alignment explanation
Indices: 33993919--33993943 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33993909 CATCACTTCT
33993919 TTTTTTCTTTTTC
1 TTTTTTCTTTTTC
33993932 TTTTTTCTTTTT
1 TTTTTTCTTTTT
33993944 GGGACTCAAA
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:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTCTTTTTC
Found at i:33996836 original size:22 final size:22
Alignment explanation
Indices: 33996808--33996858 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
33996798 TCAGGAGTCC
33996808 CCTAGGGTTTGGTATAGCTCTA
1 CCTAGGGTTTGGTATAGCTCTA
33996830 CCTAGGGTTTGGTATAGCTCTA
1 CCTAGGGTTTGGTATAGCTCTA
33996852 CCTAGGG
1 CCTAGGG
33996859 CAAGTTCCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.18, C:0.20, G:0.29, T:0.33
Consensus pattern (22 bp):
CCTAGGGTTTGGTATAGCTCTA
Found at i:33998472 original size:15 final size:15
Alignment explanation
Indices: 33998454--33998497 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 15
33998444 TATGCATATA
*
33998454 TATAAATATAAAATG
1 TATAAATATAAAAAG
33998469 TATAAATATTAGAAAAG
1 TATAAATA-TA-AAAAG
*
33998486 TAAAAATATAAA
1 TATAAATATAAA
33998498 TATAAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 10 0.40
16 4 0.16
17 11 0.44
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
TATAAATATAAAAAG
Found at i:34011338 original size:18 final size:18
Alignment explanation
Indices: 34011307--34011357 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
34011297 TGTATTATAA
*
34011307 TATTAATTAATAAAATAT
1 TATTACTTAATAAAATAT
*
34011325 TATTACTTATTAAAATAT
1 TATTACTTAATAAAATAT
34011343 TATTACTTAATAAAA
1 TATTACTTAATAAAA
34011358 AATCATTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (18 bp):
TATTACTTAATAAAATAT
Found at i:34015794 original size:21 final size:20
Alignment explanation
Indices: 34015766--34015804 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
34015756 CGGCATCGAT
34015766 TCTGTAAGTGTTTGAAAAGC
1 TCTGTAAGTGTTTGAAAAGC
*
34015786 TCTGATAAGTTTTTGAAAA
1 TCTG-TAAGTGTTTGAAAA
34015805 TGAGTAGCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (20 bp):
TCTGTAAGTGTTTGAAAAGC
Found at i:34031306 original size:17 final size:18
Alignment explanation
Indices: 34031264--34031311 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 18
34031254 ATTTTAAAAA
34031264 AAATTAAA-AATAAATCC
1 AAATTAAAGAATAAATCC
34031281 AAA--AAAGAATAAA-CC
1 AAATTAAAGAATAAATCC
*
34031296 AAATTAAAGAAGAAAT
1 AAATTAAAGAATAAAT
34031312 AGAATCAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
15 8 0.31
16 6 0.23
17 12 0.46
ACGTcount: A:0.69, C:0.08, G:0.06, T:0.17
Consensus pattern (18 bp):
AAATTAAAGAATAAATCC
Found at i:34034362 original size:37 final size:37
Alignment explanation
Indices: 34034258--34034347 Score: 144
Period size: 37 Copynumber: 2.4 Consensus size: 37
34034248 CCTGGAAGAC
*
34034258 AAAAGACAGAGATGAATAGTAATGATTCTCTACAAAG
1 AAAAGACGGAGATGAATAGTAATGATTCTCTACAAAG
* * *
34034295 AAGAGATGAAGATGAATAGTAATGATTCTCTACAAAG
1 AAAAGACGGAGATGAATAGTAATGATTCTCTACAAAG
34034332 AAAAGACGGAGATGAA
1 AAAAGACGGAGATGAA
34034348 CAATAACGGT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.49, C:0.09, G:0.22, T:0.20
Consensus pattern (37 bp):
AAAAGACGGAGATGAATAGTAATGATTCTCTACAAAG
Found at i:34034803 original size:3 final size:3
Alignment explanation
Indices: 34034795--34034842 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
34034785 AAAGTTGTCG
*
34034795 TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
34034843 AAACTATATA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:34035265 original size:14 final size:14
Alignment explanation
Indices: 34035246--34035272 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
34035236 ATAATTTAAC
34035246 TTAAAATGATTTTT
1 TTAAAATGATTTTT
34035260 TTAAAATGATTTT
1 TTAAAATGATTTT
34035273 ATGCATGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (14 bp):
TTAAAATGATTTTT
Found at i:34036562 original size:19 final size:19
Alignment explanation
Indices: 34036535--34036572 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
34036525 ATCGATTTCG
*
34036535 GATATTTCTATATTTATTC
1 GATAATTCTATATTTATTC
34036554 GATAATTCTATATTTATTC
1 GATAATTCTATATTTATTC
34036573 AACATGTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.05, T:0.55
Consensus pattern (19 bp):
GATAATTCTATATTTATTC
Found at i:34045752 original size:4 final size:4
Alignment explanation
Indices: 34045743--34045784 Score: 84
Period size: 4 Copynumber: 10.5 Consensus size: 4
34045733 AATACAATAG
34045743 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC
34045785 TGATTTAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:34048937 original size:41 final size:41
Alignment explanation
Indices: 34048871--34049021 Score: 144
Period size: 41 Copynumber: 3.7 Consensus size: 41
34048861 CATAATTTAA
*
34048871 CATATTCACCGGCACTTAGCATGCTAGGCTTATAGCCTGATT
1 CATA-TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
* * * *
34048913 CATATCACCGACACGTAGCCTGCTAGGTTTATAACCTGATT
1 CATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
** * * * * **
34048954 CCGATCACCGGCATTTAGCCTGCTAGACTTATAGTCTAAAA
1 CATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
34048995 AAT-TCACCGGCA-TTAAGCCTGCTAGGC
1 CATATCACCGGCACTT-AGCCTGCTAGGC
34049022 GCTTAGCCTG
Statistics
Matches: 87, Mismatches: 21, Indels: 4
0.78 0.19 0.04
Matches are distributed among these distances:
39 2 0.02
40 20 0.23
41 61 0.70
42 4 0.05
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (41 bp):
CATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
Found at i:34051107 original size:13 final size:13
Alignment explanation
Indices: 34051089--34051113 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34051079 CAATTAAATG
34051089 CACACAAAATAAA
1 CACACAAAATAAA
34051102 CACACAAAATAA
1 CACACAAAATAA
34051114 TATTAAAATA
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:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:34056816 original size:41 final size:41
Alignment explanation
Indices: 34056750--34056871 Score: 156
Period size: 41 Copynumber: 3.0 Consensus size: 41
34056740 CATAATTTAA
*
34056750 CATATTCACCGGCACTTAGCATGCTAGGCTTATAGCCTGATT
1 CATA-TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
* * *
34056792 CATATCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATT
1 CATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
* * *
34056833 C-TGATCACCGGCATTTAGCCTGCTAGACTTATAGTCTGA
1 CAT-ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGA
34056872 AAAATTCACC
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
40 1 0.01
41 64 0.93
42 4 0.06
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (41 bp):
CATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
Found at i:34058982 original size:13 final size:13
Alignment explanation
Indices: 34058964--34058988 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34058954 CAATTAAATG
34058964 CACACAAAATAAA
1 CACACAAAATAAA
34058977 CACACAAAATAA
1 CACACAAAATAA
34058989 TATTAAAATA
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:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:34061416 original size:20 final size:20
Alignment explanation
Indices: 34061393--34061432 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
34061383 TTAATTAACA
*
34061393 TAATTAACCTTACTTTAATT
1 TAATAAACCTTACTTTAATT
* *
34061413 TAATAAACTTTATTTTAATT
1 TAATAAACCTTACTTTAATT
34061433 AAGTTATTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.53
Consensus pattern (20 bp):
TAATAAACCTTACTTTAATT
Found at i:34063646 original size:16 final size:17
Alignment explanation
Indices: 34063615--34063648 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
34063605 CTCGTAATAC
*
34063615 AATAACTCATATTACTA
1 AATAACTCACATTACTA
34063632 AATAAC-CACATTACTA
1 AATAACTCACATTACTA
34063648 A
1 A
34063649 CAATTGCATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (17 bp):
AATAACTCACATTACTA
Found at i:34064372 original size:44 final size:45
Alignment explanation
Indices: 34064208--34064423 Score: 225
Period size: 44 Copynumber: 4.9 Consensus size: 45
34064198 ATGTTATCAC
* * *
34064208 ATATCGATGCCAATAGCCCAGCTATGGTCTTACATG-AAT--CAT
1 ATATCGATGCCAATATCCCAGATATGGTCTTACACGAAATCACAT
* *
34064250 ATATCGATGCCAAATGTCCCAGACATGGTCTTACACGAAATCACAT
1 ATATCGATGCC-AATATCCCAGATATGGTCTTACACGAAATCACAT
* * * *
34064296 A-A-CGATGCCAATGTCCTAGACATGGTCTTACACGTAATCACAT
1 ATATCGATGCCAATATCCCAGATATGGTCTTACACGAAATCACAT
* *
34064339 ATATCGATGCC-ATATCCCATATATGGTCTTACAC-AAAGTCTCAT
1 ATATCGATGCCAATATCCCAGATATGGTCTTACACGAAA-TCACAT
* *
34064383 ATATCGATGCC-ATAGCCCA-ACTATGGTCTTATACGAAATCA
1 ATATCGATGCCAATATCCCAGA-TATGGTCTTACACGAAATCA
34064424 TGTAAAGCCA
Statistics
Matches: 149, Mismatches: 16, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
42 11 0.07
43 56 0.38
44 67 0.45
45 11 0.07
46 4 0.03
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (45 bp):
ATATCGATGCCAATATCCCAGATATGGTCTTACACGAAATCACAT
Found at i:34064393 original size:89 final size:87
Alignment explanation
Indices: 34064208--34064424 Score: 241
Period size: 86 Copynumber: 2.5 Consensus size: 87
34064198 ATGTTATCAC
* *
34064208 ATATCGATGCCAATAGCCCAGCTATGGTCTTACATGAATCATATATCGATGCCAAATGTCCCAGA
1 ATATCGATGCCAATAGCCCAGCTATGGTCTTACACGAATCATATATCGATGCC-AATATCCCAGA
34064273 CATGGTCTTACACGAAATCACAT
65 CATGGTCTTACACGAAATCACAT
*
34064296 A-A-CGATGCCAAT-GTCCTAGAC-ATGGTCTTACACGTAATCACATATATCGATGCC-ATATCC
1 ATATCGATGCCAATAG-CCCAG-CTATGGTCTTACACG-AAT--CATATATCGATGCCAATATCC
* * *
34064356 CATATATGGTCTTACAC-AAAGTCTCAT
61 CAGACATGGTCTTACACGAAA-TCACAT
* *
34064383 ATATCGATGCC-ATAGCCCAACTATGGTCTTATACGAAATCAT
1 ATATCGATGCCAATAGCCCAGCTATGGTCTTACACG-AATCAT
34064425 GTAAAGCCAT
Statistics
Matches: 109, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
85 1 0.01
86 32 0.29
87 32 0.29
88 22 0.20
89 22 0.20
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.28
Consensus pattern (87 bp):
ATATCGATGCCAATAGCCCAGCTATGGTCTTACACGAATCATATATCGATGCCAATATCCCAGAC
ATGGTCTTACACGAAATCACAT
Found at i:34065343 original size:9 final size:9
Alignment explanation
Indices: 34065323--34065354 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
34065313 TTTACTTATT
34065323 TAACCTTTAA
1 TAACC-TTAA
34065333 TAACCTTAA
1 TAACCTTAA
34065342 TAACCTTAA
1 TAACCTTAA
34065351 TAAC
1 TAAC
34065355 TACACCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 17 0.77
10 5 0.23
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.34
Consensus pattern (9 bp):
TAACCTTAA
Found at i:34067111 original size:23 final size:23
Alignment explanation
Indices: 34067084--34067135 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
34067074 CAGAAAAGCG
* *
34067084 CTGTAATATCCCGAAAATTACTA
1 CTGTAATACCCCAAAAATTACTA
*
34067107 CTGTAGTACCCCAAAAATTACTA
1 CTGTAATACCCCAAAAATTACTA
*
34067130 CAGTAA
1 CTGTAA
34067136 GAAAGTAGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.27
Consensus pattern (23 bp):
CTGTAATACCCCAAAAATTACTA
Found at i:34079381 original size:60 final size:58
Alignment explanation
Indices: 34079289--34079514 Score: 265
Period size: 59 Copynumber: 3.8 Consensus size: 58
34079279 GCATTGATTT
* * * *
34079289 TTTTGAAGATATTTGTACAAACTT-TTTTATATTGTTTCATTTAATAAAAAATAAGTTG
1 TTTTGAATATTTTTGTACAAA-TTATTTTTTATTGTTTCATTTAATAAAAAATAAGTTC
* * *
34079347 TTTTGAATATTTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAACAGAAGTTAT
1 TTTTGAATA-TTTTTGTACAAATTATTTTT-TATTGTTTCATTTAATAAAAAATAAGTT-C
* *
34079408 TTTTGAATATTTTTGTACAAATTATTTTTTACTGTTTCATTTAATAAAATATAAGTTC
1 TTTTGAATATTTTTGTACAAATTATTTTTTATTGTTTCATTTAATAAAAAATAAGTTC
******
34079466 TTTTGAATAAGACAATACAAATTATTTTTTCATTGTTTCATTTAATAAA
1 TTTTGAATATTTTTGTACAAATTATTTTTT-ATTGTTTCATTTAATAAA
34079515 TTAGGAGTTA
Statistics
Matches: 146, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
58 34 0.23
59 57 0.39
60 46 0.32
61 9 0.06
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.50
Consensus pattern (58 bp):
TTTTGAATATTTTTGTACAAATTATTTTTTATTGTTTCATTTAATAAAAAATAAGTTC
Found at i:34079444 original size:119 final size:118
Alignment explanation
Indices: 34079288--34079514 Score: 305
Period size: 119 Copynumber: 1.9 Consensus size: 118
34079278 TGCATTGATT
* *
34079288 TTTTTGAAGATATTTGTACAAACTTTTTTATATTGTTTCATTTAATAAAAAATAAGTTGTTTTGA
1 TTTTTGAAGATATTTGTACAAACTTTTTTATACTGTTTCATTTAATAAAAAATAAGTTCTTTTGA
******
34079353 ATATTTTTTGTACAAATTATTTTTAT-ATTGTTTCATTTAATAAAACAGAAGTTA
66 ATA-AGACAATACAAATTATTTTT-TCATTGTTTCATTTAATAAAACAGAAGTTA
* * * *
34079407 TTTTTGAATATTTTTGTACAAA-TTATTTTTTACTGTTTCATTTAATAAAATATAAGTTCTTTTG
1 TTTTTGAAGATATTTGTACAAACTT-TTTTATACTGTTTCATTTAATAAAAAATAAGTTCTTTTG
34079471 AATAAGACAATACAAATTATTTTTTCATTGTTTCATTTAATAAA
65 AATAAGACAATACAAATTATTTTTTCATTGTTTCATTTAATAAA
34079515 TTAGGAGTTA
Statistics
Matches: 94, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
117 1 0.01
118 34 0.36
119 59 0.63
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.51
Consensus pattern (118 bp):
TTTTTGAAGATATTTGTACAAACTTTTTTATACTGTTTCATTTAATAAAAAATAAGTTCTTTTGA
ATAAGACAATACAAATTATTTTTTCATTGTTTCATTTAATAAAACAGAAGTTA
Found at i:34085840 original size:13 final size:12
Alignment explanation
Indices: 34085815--34085848 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
34085805 GGTTTCTATG
*
34085815 TCATTTTCAATT
1 TCATTTTCCATT
34085827 TCATCTTTCCATT
1 TCAT-TTTCCATT
34085840 TCATTTTCC
1 TCATTTTCC
34085849 CCTATTAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.18, C:0.26, G:0.00, T:0.56
Consensus pattern (12 bp):
TCATTTTCCATT
Found at i:34090155 original size:102 final size:102
Alignment explanation
Indices: 34089977--34090183 Score: 396
Period size: 102 Copynumber: 2.0 Consensus size: 102
34089967 GTGCCTCTGA
34089977 TTGTTAATGTTTGAATTAAATTATCAAAGCCCGATTGAGCGTAGTAAATGGTTAGGATACAATTG
1 TTGTTAATGTTTGAATTAAATTATCAAAGCCCGATTGAGCGTAGTAAATGGTTAGGATACAATTG
*
34090042 GCATGCCAATAGAGTTTGTACGCGTGCTTGTACAAGT
66 GCATGCCAATAGAGTTTGTACGCATGCTTGTACAAGT
34090079 TTGTTAATGTTTGAATTAAATTATCAAAGCCCGATTGAGCGTAGTAAATGGTTAGGATACAATTG
1 TTGTTAATGTTTGAATTAAATTATCAAAGCCCGATTGAGCGTAGTAAATGGTTAGGATACAATTG
*
34090144 GCATGCTAATAGAGTTTGTACGCATGCTTGTACAAGT
66 GCATGCCAATAGAGTTTGTACGCATGCTTGTACAAGT
34090181 TTG
1 TTG
34090184 CACGTCGGTT
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 103 1.00
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.34
Consensus pattern (102 bp):
TTGTTAATGTTTGAATTAAATTATCAAAGCCCGATTGAGCGTAGTAAATGGTTAGGATACAATTG
GCATGCCAATAGAGTTTGTACGCATGCTTGTACAAGT
Found at i:34090659 original size:13 final size:13
Alignment explanation
Indices: 34090634--34090682 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
34090624 AAATGGTAAG
34090634 ATGAAATGATTAT
1 ATGAAATGATTAT
*
34090647 ATGAAATGCTTAT
1 ATGAAATGATTAT
34090660 ATGGAAAT-A-TAT
1 AT-GAAATGATTAT
*
34090672 ATGAAACGATT
1 ATGAAATGATT
34090683 GTTGAAGTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 4 0.13
12 6 0.20
13 15 0.50
14 5 0.17
ACGTcount: A:0.45, C:0.04, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGAAATGATTAT
Found at i:34094893 original size:23 final size:23
Alignment explanation
Indices: 34094867--34094919 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
34094857 ATAAGTGCCA
34094867 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
34094890 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
34094913 CACTGAT
1 CACTGAT
34094920 CAATAACACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:34095019 original size:8 final size:8
Alignment explanation
Indices: 34095006--34095034 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
34094996 ACCCGGGACT
34095006 CACTGTAA
1 CACTGTAA
34095014 CACTGTAA
1 CACTGTAA
34095022 CACTGTAA
1 CACTGTAA
34095030 CACTG
1 CACTG
34095035 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:34095165 original size:18 final size:17
Alignment explanation
Indices: 34095139--34095177 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
34095129 ATTTTCCTTC
34095139 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
34095156 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
34095174 CACA
1 CACA
34095178 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:34098381 original size:23 final size:23
Alignment explanation
Indices: 34098355--34098407 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
34098345 ATAAGTGCCA
34098355 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
34098378 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
34098401 CACTGAT
1 CACTGAT
34098408 CAATAACACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:34098507 original size:8 final size:8
Alignment explanation
Indices: 34098494--34098522 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
34098484 ACCCGGGACT
34098494 CACTGTAA
1 CACTGTAA
34098502 CACTGTAA
1 CACTGTAA
34098510 CACTGTAA
1 CACTGTAA
34098518 CACTG
1 CACTG
34098523 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:34098653 original size:18 final size:17
Alignment explanation
Indices: 34098627--34098665 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
34098617 ATTTTCCTTC
34098627 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
34098644 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
34098662 CACA
1 CACA
34098666 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:34100123 original size:22 final size:21
Alignment explanation
Indices: 34100074--34100123 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
34100064 CTTCAAAGGT
34100074 ATTAAAATTTTAATTAAACTC
1 ATTAAAATTTTAATTAAACTC
*
34100095 ATCTAAAATTTTTA-TAAATTCTC
1 AT-TAAAATTTTAATTAAA--CTC
34100118 ATTAAA
1 ATTAAA
34100124 TCTATTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 6 0.24
22 14 0.56
23 5 0.20
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTAAAATTTTAATTAAACTC
Found at i:34100778 original size:26 final size:28
Alignment explanation
Indices: 34100726--34100789 Score: 114
Period size: 26 Copynumber: 2.4 Consensus size: 28
34100716 AAAAAAAATA
34100726 ACCAAAATATTATAACTTTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTTATTT
34100754 ACCAAAATATTAT-A-TTTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTTATTT
34100780 ACCAAAATAT
1 ACCAAAATAT
34100790 ACCAAAAAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 22 0.61
27 1 0.03
28 13 0.36
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (28 bp):
ACCAAAATATTATAACTTTTTTTTATTT
Found at i:34101519 original size:18 final size:19
Alignment explanation
Indices: 34101470--34101528 Score: 77
Period size: 19 Copynumber: 3.2 Consensus size: 19
34101460 ATTTTATATT
*
34101470 TTAAATGAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
*
34101489 TTAAA-TAAGAATAG-TTTA
1 TTAAATTAA-AATAGAGTTA
34101507 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
34101526 TTA
1 TTA
34101529 CTTAATTAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 15 0.44
19 19 0.56
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.37
Consensus pattern (19 bp):
TTAAATTAAAATAGAGTTA
Found at i:34101533 original size:18 final size:18
Alignment explanation
Indices: 34101477--34101533 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
34101467 ATTTTAAATG
*
34101477 AAAATAGAGTTATTAAAT
1 AAAATAGAGTTATTAATT
*
34101495 AAGAATAG-TTTATTAAATT
1 AA-AATAGAGTTATT-AATT
*
34101514 AAAATAGAGTTATTACTT
1 AAAATAGAGTTATTAATT
34101532 AA
1 AA
34101534 TTAGAATTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
18 17 0.53
19 15 0.47
ACGTcount: A:0.51, C:0.02, G:0.11, T:0.37
Consensus pattern (18 bp):
AAAATAGAGTTATTAATT
Found at i:34102246 original size:29 final size:26
Alignment explanation
Indices: 34102211--34102273 Score: 99
Period size: 29 Copynumber: 2.3 Consensus size: 26
34102201 TTTTTTTTGT
34102211 ATATTTTGATAAATAAAAAAAATTTTATA
1 ATATTTTGATAAAT-AAAAAAA--TTATA
34102240 ATATTTTGATAAATAAAAAAATTATA
1 ATATTTTGATAAATAAAAAAATTATA
34102266 ATATTTTG
1 ATATTTTG
34102274 GTTATTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
26 13 0.38
28 7 0.21
29 14 0.41
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (26 bp):
ATATTTTGATAAATAAAAAAATTATA
Found at i:34106302 original size:21 final size:22
Alignment explanation
Indices: 34106276--34106322 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
34106266 CTCTGCTCAA
*
34106276 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
34106297 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
34106319 ACTC
1 ACTC
34106323 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:34110183 original size:28 final size:28
Alignment explanation
Indices: 34110129--34110183 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
34110119 TATTAAACTA
* * *
34110129 ATTATAGTTTGAATATTAATATCAATAT
1 ATTATAATTTAAATAATAATATCAATAT
* *
34110157 ATTATAATTTAAATAATATTATTAATA
1 ATTATAATTTAAATAATAATATCAATA
34110184 ATTTCTTATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (28 bp):
ATTATAATTTAAATAATAATATCAATAT
Found at i:34116772 original size:12 final size:12
Alignment explanation
Indices: 34116744--34116779 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
34116734 TACTTACGCT
34116744 AATAATAATAGAC
1 AATAATAATA-AC
34116757 AATAATAATAAC
1 AATAATAATAAC
*
34116769 AATAATGATAA
1 AATAATAATAA
34116780 TAAATTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.64, C:0.06, G:0.06, T:0.25
Consensus pattern (12 bp):
AATAATAATAAC
Found at i:34118003 original size:23 final size:23
Alignment explanation
Indices: 34117977--34118020 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
34117967 TGTAAATTTT
34117977 CAAAATTCCACCATATTGAATTC
1 CAAAATTCCACCATATTGAATTC
34118000 CAAAATTCCACCATATTGAAT
1 CAAAATTCCACCATATTGAAT
34118021 GCCTATAAAA
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:0.41, C:0.25, G:0.05, T:0.30
Consensus pattern (23 bp):
CAAAATTCCACCATATTGAATTC
Found at i:34118390 original size:22 final size:22
Alignment explanation
Indices: 34118357--34118420 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
34118347 TATCTAATAT
* *
34118357 TTTAAATATAAATATTTATTTTA
1 TTTATATATAAATATTT-GTTTA
34118380 TTT-TATATAAATATTTGTTTA
1 TTTATATATAAATATTTGTTTA
* *
34118401 TTTATATTTATATATTTGTT
1 TTTATATATAAATATTTGTT
34118421 CGCTAACGTG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 7 0.19
22 26 0.72
23 3 0.08
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (22 bp):
TTTATATATAAATATTTGTTTA
Found at i:34123621 original size:13 final size:13
Alignment explanation
Indices: 34123603--34123627 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34123593 GAATTAATAT
34123603 GTGTGAAAATTTC
1 GTGTGAAAATTTC
34123616 GTGTGAAAATTT
1 GTGTGAAAATTT
34123628 TATCGTTTGT
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:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:34124787 original size:43 final size:42
Alignment explanation
Indices: 34124640--34124796 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 42
34124630 TGTGATTTCG
*
34124640 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGAGATTTA
1 TGTAAGACCATGTCTGGGACGTTGGCATCGATATT-AGATTTA
* * * *
34124682 CGTGTAAGACCGTGTCTGGGACATCGGCATCG-TA-TACGATTTCG
1 --TGTAAGACCATGTCTGGGACGTTGGCATCGATATTA-GATTT-A
* *
34124726 TGTAAGACCCTGTCTGGGACAG-TGGCATCGATATTTGATTATA
1 TGTAAGACCATGTCTGGGAC-GTTGGCATCGATATTAGATT-TA
34124769 TGTAAGACCATGTCTGGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACGTTGGCAT
34124797 TGTAAGAGCT
Statistics
Matches: 94, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
42 28 0.30
43 38 0.40
44 28 0.30
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACGTTGGCATCGATATTAGATTTA
Found at i:34130542 original size:40 final size:40
Alignment explanation
Indices: 34130494--34130694 Score: 287
Period size: 40 Copynumber: 5.0 Consensus size: 40
34130484 AACACACTAC
* * * *
34130494 ACAGAAGCTCATAAAAGCT-AGTCCAACCGAAACACACCAG
1 ACAGAAGCTCATAAGAGTTGA-TCCAACCGAAACACGCCAA
* *
34130534 ACAAAAGCTCATAAGAGCTGATCCAACCGAAACACGCCAA
1 ACAGAAGCTCATAAGAGTTGATCCAACCGAAACACGCCAA
* * *
34130574 GCAGAAGCTCATAAGATTTGATCCAATCGAAACACGCCAA
1 ACAGAAGCTCATAAGAGTTGATCCAACCGAAACACGCCAA
* *
34130614 ATAGAAGCTCATAAGAGTTGATCCAACAGAAACACGCCAA
1 ACAGAAGCTCATAAGAGTTGATCCAACCGAAACACGCCAA
34130654 ACAGAAGCTCATAAGAGTTGATCCAACCGAAACACGCCAA
1 ACAGAAGCTCATAAGAGTTGATCCAACCGAAACACGCCAA
34130694 A
1 A
34130695 TAGATAATAT
Statistics
Matches: 144, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 143 0.99
41 1 0.01
ACGTcount: A:0.44, C:0.27, G:0.16, T:0.13
Consensus pattern (40 bp):
ACAGAAGCTCATAAGAGTTGATCCAACCGAAACACGCCAA
Found at i:34131114 original size:20 final size:20
Alignment explanation
Indices: 34131086--34131135 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
34131076 CAGTAAAATG
34131086 TTTTCTGGAAAATGATTTAC
1 TTTTCTGGAAAATGATTTAC
*
34131106 TTTTTTGGAAAATGATTTAC
1 TTTTCTGGAAAATGATTTAC
34131126 TTTTCTGGAA
1 TTTTCTGGAA
34131136 GCGGTTTACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.28, C:0.08, G:0.16, T:0.48
Consensus pattern (20 bp):
TTTTCTGGAAAATGATTTAC
Found at i:34133472 original size:24 final size:24
Alignment explanation
Indices: 34133440--34133486 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
34133430 TAAAACATAC
34133440 AGGAGCAAAAACAACAGAGAAATG
1 AGGAGCAAAAACAACAGAGAAATG
*
34133464 AGGAGCAAAAATAACAGAGAAAT
1 AGGAGCAAAAACAACAGAGAAAT
34133487 TAACAAGAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.60, C:0.11, G:0.23, T:0.06
Consensus pattern (24 bp):
AGGAGCAAAAACAACAGAGAAATG
Found at i:34134796 original size:28 final size:28
Alignment explanation
Indices: 34134764--34134846 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 28
34134754 TTTTAAAACC
34134764 ATATTTGACTCATAGATATTAAATAATA
1 ATATTTGACTCATAGATATTAAATAATA
**
34134792 ATATTT-A-T-A-A-ACT-TT-AA-AACC
1 ATATTTGACTCATAGA-TATTAAATAATA
*
34134813 ATATTTGACTCGTAGATATTAAATAATA
1 ATATTTGACTCATAGATATTAAATAATA
34134841 ATATTT
1 ATATTT
34134847 ACAAACTTAC
Statistics
Matches: 41, Mismatches: 5, Indels: 18
0.64 0.08 0.28
Matches are distributed among these distances:
21 8 0.20
22 3 0.07
23 4 0.10
24 2 0.05
25 3 0.07
26 4 0.10
27 3 0.07
28 14 0.34
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.41
Consensus pattern (28 bp):
ATATTTGACTCATAGATATTAAATAATA
Found at i:34134812 original size:49 final size:49
Alignment explanation
Indices: 34134755--34134854 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 49
34134745 CAAAAACCTT
*
34134755 TTTAAAACCATATTTGACTCATAGATATTAAATAATAATATTTATAAAC
1 TTTAAAACCATATTTGACTCATAGATATTAAATAATAATATTTACAAAC
*
34134804 TTTAAAACCATATTTGACTCGTAGATATTAAATAATAATATTTACAAAC
1 TTTAAAACCATATTTGACTCATAGATATTAAATAATAATATTTACAAAC
34134853 TT
1 TT
34134855 ACTCGTCAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.45, C:0.11, G:0.05, T:0.39
Consensus pattern (49 bp):
TTTAAAACCATATTTGACTCATAGATATTAAATAATAATATTTACAAAC
Found at i:34140497 original size:14 final size:15
Alignment explanation
Indices: 34140457--34140506 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 15
34140447 AATTTGAATT
*
34140457 TAAAATTTGAAAA-C
1 TAAATTTTGAAAAGC
* *
34140471 TTAA-TTTGAAAAGT
1 TAAATTTTGAAAAGC
34140485 TAAATTTTG-AAAGC
1 TAAATTTTGAAAAGC
34140499 TAAATTTT
1 TAAATTTT
34140507 AGATAAACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
13 8 0.27
14 18 0.60
15 4 0.13
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (15 bp):
TAAATTTTGAAAAGC
Found at i:34148240 original size:19 final size:19
Alignment explanation
Indices: 34148216--34148252 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
34148206 TATTTTATTA
34148216 TTTTATTAAATAAATAAAT
1 TTTTATTAAATAAATAAAT
**
34148235 TTTTATTATTTAAATAAA
1 TTTTATTAAATAAATAAA
34148253 ATAACTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTTATTAAATAAATAAAT
Found at i:34148763 original size:29 final size:28
Alignment explanation
Indices: 34148729--34148785 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
34148719 TTATTTGAAC
* *
34148729 TAATTAATTATATTATAAAAATATTAAAT
1 TAATTAATAACATTATAAAAATA-TAAAT
*
34148758 TAATTAATAACATTATAAGAATATAAAT
1 TAATTAATAACATTATAAAAATATAAAT
34148786 ACAAAATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (28 bp):
TAATTAATAACATTATAAAAATATAAAT
Found at i:34151874 original size:13 final size:14
Alignment explanation
Indices: 34151848--34151880 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
34151838 TTAGTAATTT
34151848 TATTATTGATGGAA
1 TATTATTGATGGAA
34151862 TATTATT-ATGGAA
1 TATTATTGATGGAA
*
34151875 TGTTAT
1 TATTAT
34151881 CTTTTAGCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.48
Consensus pattern (14 bp):
TATTATTGATGGAA
Found at i:34155943 original size:11 final size:11
Alignment explanation
Indices: 34155912--34155945 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
34155902 TCTTTTTCAG
34155912 TTTTATTTTAA
1 TTTTATTTTAA
34155923 TTTTAGTTTTAA
1 TTTTA-TTTTAA
*
34155935 TTTTTTTTTAA
1 TTTTATTTTAA
34155946 AAGTTATGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (11 bp):
TTTTATTTTAA
Found at i:34163834 original size:13 final size:13
Alignment explanation
Indices: 34163816--34163842 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34163806 GAACTCCCAT
34163816 GTCTCTTCATAGA
1 GTCTCTTCATAGA
34163829 GTCTCTTCATAGA
1 GTCTCTTCATAGA
34163842 G
1 G
34163843 ACATAACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (13 bp):
GTCTCTTCATAGA
Found at i:34175181 original size:45 final size:44
Alignment explanation
Indices: 34175115--34175301 Score: 157
Period size: 44 Copynumber: 4.3 Consensus size: 44
34175105 ATATGTGGTT
*
34175115 GAAGCCACCAA-ATTCGTAGACAAGCTACCATGTAGGTTATGGA
1 GAAGCCACCAATATTCGCAGACAAGCTACCATGTAGGTTATGGA
* * * * *
34175158 CGAAGCCACAAATATTCGCAGACAAGTTGCCATGTAAGTTGTGGA
1 -GAAGCCACCAATATTCGCAGACAAGCTACCATGTAGGTTATGGA
* * * * * **
34175203 TAAACCACCAATATTTGAAGACAATCTACCATGTAGGTTGCGGA
1 GAAGCCACCAATATTCGCAGACAAGCTACCATGTAGGTTATGGA
* * * * *
34175247 TAAACCACCAAT-TTTGCAAACAAGCTGCCATG-AGG-TAGTGGA
1 GAAGCCACCAATATTCGCAGACAAGCTACCATGTAGGTTA-TGGA
34175289 CGAAGCCACCAAT
1 -GAAGCCACCAAT
34175302 TCTTCCTCCT
Statistics
Matches: 116, Mismatches: 24, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
41 1 0.01
42 6 0.05
43 26 0.22
44 56 0.48
45 27 0.23
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.21
Consensus pattern (44 bp):
GAAGCCACCAATATTCGCAGACAAGCTACCATGTAGGTTATGGA
Found at i:34177429 original size:100 final size:100
Alignment explanation
Indices: 34177256--34177441 Score: 372
Period size: 100 Copynumber: 1.9 Consensus size: 100
34177246 ACTAGCACAG
34177256 TGCTTAGAAAAACTAGGTGTACTACACATTTGGCGATATCCCTTACCAGACTTAATCTTTGCTTA
1 TGCTTAGAAAAACTAGGTGTACTACACATTTGGCGATATCCCTTACCAGACTTAATCTTTGCTTA
34177321 TAATATACTTTCTTAACTAATCTTTTGTTAATCTT
66 TAATATACTTTCTTAACTAATCTTTTGTTAATCTT
34177356 TGCTTAGAAAAACTAGGTGTACTACACATTTGGCGATATCCCTTACCAGACTTAATCTTTGCTTA
1 TGCTTAGAAAAACTAGGTGTACTACACATTTGGCGATATCCCTTACCAGACTTAATCTTTGCTTA
34177421 TAATATACTTTCTTAACTAAT
66 TAATATACTTTCTTAACTAAT
34177442 AGAATAACTT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 86 1.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.39
Consensus pattern (100 bp):
TGCTTAGAAAAACTAGGTGTACTACACATTTGGCGATATCCCTTACCAGACTTAATCTTTGCTTA
TAATATACTTTCTTAACTAATCTTTTGTTAATCTT
Found at i:34177600 original size:28 final size:28
Alignment explanation
Indices: 34177560--34177616 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
34177550 ATGCCTTTAA
*
34177560 ATCAGATTCGCCAGATCTGGGGTGTGAC
1 ATCAGATCCGCCAGATCTGGGGTGTGAC
34177588 ATCAGATCCGCCAGATCTGGGGTGTGAC
1 ATCAGATCCGCCAGATCTGGGGTGTGAC
34177616 A
1 A
34177617 GCATAAACCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.23
Consensus pattern (28 bp):
ATCAGATCCGCCAGATCTGGGGTGTGAC
Found at i:34182468 original size:40 final size:40
Alignment explanation
Indices: 34182408--34182486 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
34182398 ACTAAAATAG
* *
34182408 GGGTGCCGAAGTAAAAATAGGGGCACGTATGTGCATTCAA
1 GGGTACCGAAGTAAAAATAGGGGCACGAATGTGCATTCAA
*
34182448 GGGTACCGAAGTATAAATAGGGGCACGAATGTGCATTCA
1 GGGTACCGAAGTAAAAATAGGGGCACGAATGTGCATTCA
34182487 TACATTAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.33, C:0.15, G:0.32, T:0.20
Consensus pattern (40 bp):
GGGTACCGAAGTAAAAATAGGGGCACGAATGTGCATTCAA
Found at i:34185100 original size:7 final size:7
Alignment explanation
Indices: 34185090--34185141 Score: 77
Period size: 7 Copynumber: 7.1 Consensus size: 7
34185080 ACGAAAAATG
34185090 AAATGCA
1 AAATGCA
34185097 AAATGCA
1 AAATGCA
*
34185104 TGAAACGCA
1 --AAATGCA
34185113 AAATGCA
1 AAATGCA
34185120 AAATGCA
1 AAATGCA
34185127 AAATGCA
1 AAATGCA
34185134 AAATGCA
1 AAATGCA
34185141 A
1 A
34185142 TCCGTGTGGC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
7 35 0.85
9 6 0.15
ACGTcount: A:0.56, C:0.15, G:0.15, T:0.13
Consensus pattern (7 bp):
AAATGCA
Found at i:34185106 original size:30 final size:29
Alignment explanation
Indices: 34185078--34185133 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
34185068 ATGTCATGAC
34185078 AAACGAAAAATG-AAATGCAAAATGCATG
1 AAACGAAAAATGAAAATGCAAAATGCATG
*
34185106 AAACGCAAAATGCAAAATGCAAAATGCA
1 AAACGAAAAATG-AAAATGCAAAATGCA
34185134 AAATGCAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 11 0.44
30 14 0.56
ACGTcount: A:0.57, C:0.14, G:0.16, T:0.12
Consensus pattern (29 bp):
AAACGAAAAATGAAAATGCAAAATGCATG
Found at i:34189817 original size:20 final size:20
Alignment explanation
Indices: 34189792--34189830 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
34189782 TACTTTCTTC
34189792 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
34189812 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
34189831 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:34196971 original size:60 final size:59
Alignment explanation
Indices: 34196862--34196985 Score: 135
Period size: 60 Copynumber: 2.1 Consensus size: 59
34196852 CTCGGTCATC
* * * *
34196862 TATCACCCTACAGACATGAGGATTAGCGCCCTGACCATTCAACCTATCATTCATACCAGG
1 TATCACCCTACAAACAGGAGGATTAGCACCCTGACCATTCAA-CTATCATTCAGACCAGG
* * * *
34196922 TATCACCCTACAAATAGGAGGATTAGCATCTTGACCATTCAGA-TAATCATTGAGACCAGG
1 TATCACCCTACAAACAGGAGGATTAGCACCCTGACCATTCA-ACT-ATCATTCAGACCAGG
34196982 -ATCA
1 TATCA
34196986 TTCCTATTTC
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
59 5 0.09
60 48 0.89
61 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (59 bp):
TATCACCCTACAAACAGGAGGATTAGCACCCTGACCATTCAACTATCATTCAGACCAGG
Found at i:34203008 original size:24 final size:24
Alignment explanation
Indices: 34202958--34203021 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
34202948 AATGTTGCAG
* * **
34202958 ACAAACCGCCAGAACAATATGTGA
1 ACAAATCGCCAGAACAATACGCAA
*
34202982 ACAAATCTCCAGAACAATACGCAA
1 ACAAATCGCCAGAACAATACGCAA
*
34203006 ACAAATCGCGAGAACA
1 ACAAATCGCCAGAACA
34203022 CCAAATAGAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.48, C:0.27, G:0.14, T:0.11
Consensus pattern (24 bp):
ACAAATCGCCAGAACAATACGCAA
Found at i:34204186 original size:22 final size:22
Alignment explanation
Indices: 34204161--34204202 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
34204151 CAACAATGGC
34204161 GAAAAAAAGAAGAAAAATGAGA
1 GAAAAAAAGAAGAAAAATGAGA
* * *
34204183 GAAAAAGAGAGGGAAAATGA
1 GAAAAAAAGAAGAAAAATGA
34204203 AAGCGAAGGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.05
Consensus pattern (22 bp):
GAAAAAAAGAAGAAAAATGAGA
Found at i:34219643 original size:3 final size:3
Alignment explanation
Indices: 34219635--34219659 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
34219625 TTGTAGTGAG
34219635 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
34219660 AGATGCACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:34229821 original size:7 final size:7
Alignment explanation
Indices: 34229805--34229842 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
34229795 CAACCCTAGA
34229805 TTTT-TT
1 TTTTCTT
34229811 TTTTCTT
1 TTTTCTT
34229818 TTTTCTT
1 TTTTCTT
34229825 TTTTCTT
1 TTTTCTT
34229832 TTTTCTT
1 TTTTCTT
34229839 TTTT
1 TTTT
34229843 GGTGGGGTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 4 0.13
7 27 0.87
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTCTT
Found at i:34230508 original size:22 final size:23
Alignment explanation
Indices: 34230482--34230524 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
34230472 GCAATCGTAA
34230482 ATATGA-CATGTAATCTTAGAAT
1 ATATGATCATGTAATCTTAGAAT
**
34230504 ATATGATTTTGTAATCTTAGA
1 ATATGATCATGTAATCTTAGA
34230525 GATTTGATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (23 bp):
ATATGATCATGTAATCTTAGAAT
Found at i:34234550 original size:51 final size:51
Alignment explanation
Indices: 34234423--34234610 Score: 170
Period size: 51 Copynumber: 3.7 Consensus size: 51
34234413 TATCATTCGA
* * * *
34234423 TACACGTAGTAACCTTCACATAGTACTACACACGTGATCAAACTTTCCGGT
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGATCAAACCTTCCGAT
* *
34234474 T-CACGTAGTAGCTTGCACATAGTACTACATACGTGA-CTAAATCCTTCC-AT
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGATC-AAA-CCTTCCGAT
* * ** * * *
34234524 TACACATAGTAGCCTGCACATAGTACTACACATGTGGCCATTATCTAT-TGA-
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGATCA-AACCT-TCCGAT
* *
34234575 TACACGTAGTAGCCTACACTTAGTACTACACACGTG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTG
34234611 TTTATAGGCA
Statistics
Matches: 112, Mismatches: 18, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
49 1 0.01
50 36 0.32
51 71 0.63
52 4 0.04
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (51 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGTGATCAAACCTTCCGAT
Found at i:34237759 original size:44 final size:46
Alignment explanation
Indices: 34237705--34237795 Score: 116
Period size: 44 Copynumber: 2.0 Consensus size: 46
34237695 TATTACAACA
* *
34237705 TCCATTCCATTCAACCAAAC-ATAAGAA-TACT-ATTACAGCTCTAT
1 TCCATCCCATTCAACCAAACAAT-AGAATTACTGATTACAACTCTAT
* *
34237749 TCCATCCCATTGAACCAAACAATTGAATTACTGATTACAACTCTAT
1 TCCATCCCATTCAACCAAACAATAGAATTACTGATTACAACTCTAT
34237795 T
1 T
34237796 TCATTATAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
44 21 0.52
45 6 0.15
46 13 0.32
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.31
Consensus pattern (46 bp):
TCCATCCCATTCAACCAAACAATAGAATTACTGATTACAACTCTAT
Found at i:34238893 original size:46 final size:46
Alignment explanation
Indices: 34238837--34238965 Score: 195
Period size: 46 Copynumber: 2.8 Consensus size: 46
34238827 TGTAGGAATA
* *
34238837 AAATTGCTAAAAGATCATATCTAATAATAATATCCTATTAAAAATC
1 AAATTACTAAAAGATAATATCTAATAATAATATCCTATTAAAAATC
* * * *
34238883 AAATTTCTAAAAGATAATATCTAATAAAAATATCTTATTAGAAATC
1 AAATTACTAAAAGATAATATCTAATAATAATATCCTATTAAAAATC
*
34238929 AAATTACTAAAAGATAATATCTAATAATAATCTCCTA
1 AAATTACTAAAAGATAATATCTAATAATAATATCCTA
34238966 ACACCCCTAT
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.51, C:0.12, G:0.04, T:0.33
Consensus pattern (46 bp):
AAATTACTAAAAGATAATATCTAATAATAATATCCTATTAAAAATC
Found at i:34244082 original size:47 final size:47
Alignment explanation
Indices: 34244019--34244397 Score: 580
Period size: 47 Copynumber: 8.1 Consensus size: 47
34244009 GAAATGATAG
* *
34244019 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
34244066 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
34244113 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
34244160 TAAGGCCTAATAGCTGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
34244207 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
** *
34244254 TAAGGCCTAACGGCCGATGCGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
34244301 TAAGGCCTAATGGCCGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * * *
34244347 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
34244394 TAAG
1 TAAG
34244398 TCCCGAAGGG
Statistics
Matches: 309, Mismatches: 22, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
46 40 0.13
47 269 0.87
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:34244572 original size:37 final size:37
Alignment explanation
Indices: 34244516--34244594 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
34244506 CCGAGCTCTA
* * *
34244516 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
34244553 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
34244590 AAGAC
1 AAGAC
34244595 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:34247100 original size:100 final size:100
Alignment explanation
Indices: 34246978--34247162 Score: 273
Period size: 100 Copynumber: 1.9 Consensus size: 100
34246968 ATTTCATTTC
* * * * * * *
34246978 TTCTTTTTTTTTTTTTAATTTCTCGAGCTTTTACAGTTCAAAAATGGTGGACAAAGCTAAAA-CT
1 TTCTTTTTCTTTTTTAAATTTCTCAAGCTTTTACAATTCAAAAATGGCGAACAAAGCTAAAACCG
34247042 GAGAACCCATCTTTACTCCATAGGTATCAGTTTCTT
66 GA-AACCCATCTTTACTCCATAGGTATCAGTTTCTT
* *
34247078 TTCTTTTTCTTTTTTAAATTTCTTAAGCTTTTACAATTTAAAAATGGCGAACAAAGCTAAAACCG
1 TTCTTTTTCTTTTTTAAATTTCTCAAGCTTTTACAATTCAAAAATGGCGAACAAAGCTAAAACCG
34247143 GAAACCCATCTTTACTCCAT
66 GAAACCCATCTTTACTCCAT
34247163 GGAAAATATG
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
100 72 0.96
101 3 0.04
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.41
Consensus pattern (100 bp):
TTCTTTTTCTTTTTTAAATTTCTCAAGCTTTTACAATTCAAAAATGGCGAACAAAGCTAAAACCG
GAAACCCATCTTTACTCCATAGGTATCAGTTTCTT
Found at i:34248561 original size:16 final size:16
Alignment explanation
Indices: 34248540--34248577 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
34248530 TTTGGTTCAC
* *
34248540 TGTAATGGAATAGAGT
1 TGTAATAGAATAAAGT
34248556 TGTAATAGAATAAAGT
1 TGTAATAGAATAAAGT
34248572 TGTAAT
1 TGTAAT
34248578 CAGTAATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.24, T:0.34
Consensus pattern (16 bp):
TGTAATAGAATAAAGT
Found at i:34261609 original size:33 final size:33
Alignment explanation
Indices: 34261570--34261685 Score: 171
Period size: 33 Copynumber: 3.5 Consensus size: 33
34261560 ATTATAAAGC
34261570 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
*
34261603 ATGTATAATTGACCTAAAATTAATTGTTGGTTT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* * *
34261636 AT-TTTTATTTACCCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGA-CCTAAAATTAATTGTTGGTGT
*
34261669 ATGTATAATTGATCTAA
1 ATGTATAATTGACCTAA
34261686 GTATACATTG
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
32 6 0.08
33 60 0.83
34 6 0.08
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.46
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTGT
Found at i:34261828 original size:37 final size:37
Alignment explanation
Indices: 34261743--34261829 Score: 122
Period size: 37 Copynumber: 2.4 Consensus size: 37
34261733 GTATAAATAT
* * *
34261743 ATTGATTAGTTCATTAAAGCATGTTCAAAGTCCTCAC
1 ATTGATTAGTTTAATAAAGCATGTTCAAAGTCCTAAC
*
34261780 ATTGATTAGTTTAATAAAGCATGTTCAAAGT-TTGAAC
1 ATTGATTAGTTTAATAAAGCATGTTCAAAGTCCT-AAC
34261817 ATTGATTAGTTTA
1 ATTGATTAGTTTA
34261830 TTTATTTATG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
36 1 0.02
37 44 0.98
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.39
Consensus pattern (37 bp):
ATTGATTAGTTTAATAAAGCATGTTCAAAGTCCTAAC
Found at i:34264763 original size:17 final size:17
Alignment explanation
Indices: 34264741--34264778 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
34264731 CGATTGCATG
34264741 TTTCTATTGCTGTTTAT
1 TTTCTATTGCTGTTTAT
34264758 TTTCTATTGCTGTTTAT
1 TTTCTATTGCTGTTTAT
34264775 TTTC
1 TTTC
34264779 CTTTGAGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.11, C:0.13, G:0.11, T:0.66
Consensus pattern (17 bp):
TTTCTATTGCTGTTTAT
Found at i:34265543 original size:22 final size:22
Alignment explanation
Indices: 34265502--34265577 Score: 70
Period size: 23 Copynumber: 3.5 Consensus size: 22
34265492 GAAGATGAAA
34265502 CTGGAAATTG--TTGCATTTGTT
1 CTGGAAATTGTTTTG-ATTTGTT
* *
34265523 -TTGATATTGTTCTTGATTTGTT
1 CTGGAAATTGTT-TTGATTTGTT
34265545 CTGGAAATTGTTTTGA-TTGTCT
1 CTGGAAATTGTTTTGATTTGT-T
34265567 GCTGGAAATTG
1 -CTGGAAATTG
34265578 AATTTGTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
20 7 0.16
21 4 0.09
22 12 0.27
23 22 0.49
ACGTcount: A:0.18, C:0.08, G:0.24, T:0.50
Consensus pattern (22 bp):
CTGGAAATTGTTTTGATTTGTT
Found at i:34266805 original size:25 final size:25
Alignment explanation
Indices: 34266771--34266924 Score: 160
Period size: 25 Copynumber: 6.2 Consensus size: 25
34266761 TACATCAATA
34266771 ATTAAAATAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
*
34266796 ATTAAAATAAGGACTCATCAATA----
1 ATTAAAATAAGGACT--TTAATATTTT
34266819 ATTAAAATAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* *
34266844 ATTAAAATAAGGAC--TAATCA-ATA
1 ATTAAAATAAGGACTTTAAT-ATTTT
34266867 ATTAAAATAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* *
34266892 ATTAAAAATCAAGAAATTTAATATTTT
1 ATT-AAAAT-AAGGACTTTAATATTTT
*
34266919 AATAAA
1 ATTAAA
34266925 GAAATTTAAA
Statistics
Matches: 108, Mismatches: 9, Indels: 23
0.77 0.06 0.16
Matches are distributed among these distances:
21 5 0.05
23 34 0.31
24 2 0.02
25 37 0.34
26 8 0.07
27 22 0.20
ACGTcount: A:0.50, C:0.06, G:0.07, T:0.37
Consensus pattern (25 bp):
ATTAAAATAAGGACTTTAATATTTT
Found at i:34266820 original size:48 final size:48
Alignment explanation
Indices: 34266763--34266898 Score: 263
Period size: 48 Copynumber: 2.8 Consensus size: 48
34266753 TAAAAAATTA
34266763 CATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACT
1 CATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACT
34266811 CATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACT
1 CATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACT
*
34266859 AATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
1 CATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
34266899 ATCAAGAAAT
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 87 1.00
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.36
Consensus pattern (48 bp):
CATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACT
Found at i:34266826 original size:23 final size:22
Alignment explanation
Indices: 34266764--34266881 Score: 114
Period size: 23 Copynumber: 5.0 Consensus size: 22
34266754 AAAAAATTAC
34266764 ATCAATAATTAAAATAAGGACT
1 ATCAATAATTAAAATAAGGACT
*
34266786 -TTAATATTTTATTAAAATAAGGACT
1 ATCAATA----ATTAAAATAAGGACT
34266811 CATCAATAATTAAAATAAGGACT
1 -ATCAATAATTAAAATAAGGACT
*
34266834 -TTAATATTTTATTAAAATAAGGACT
1 ATCAATA----ATTAAAATAAGGACT
34266859 AATCAATAATTAAAATAAGGACT
1 -ATCAATAATTAAAATAAGGACT
34266882 TTAATATTTT
Statistics
Matches: 80, Mismatches: 4, Indels: 23
0.75 0.04 0.21
Matches are distributed among these distances:
21 10 0.12
23 30 0.38
25 30 0.38
27 10 0.12
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.34
Consensus pattern (22 bp):
ATCAATAATTAAAATAAGGACT
Found at i:34266933 original size:96 final size:94
Alignment explanation
Indices: 34266764--34266937 Score: 226
Period size: 96 Copynumber: 1.8 Consensus size: 94
34266754 AAAAAATTAC
* *
34266764 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTCATCAATAATTAAAATAA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGAAAT-ATCAATAATTAAAATAA
* *
34266829 GGACTTTAATATTTTATTAAAATAAGGACTA
65 GAAATTTAA-ATTTTATTAAAATAAGGACTA
* **
34266860 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAAATCAAGAAAT-TTAAT-ATTTTAATA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATT-AAAAT-AAGAAATATCAATAATTAAAAT-
34266923 AAGAAATTTAAATTT
63 AAGAAATTTAAATTT
34266938 AAAATGTTAT
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
95 10 0.15
96 48 0.71
97 5 0.07
98 5 0.07
ACGTcount: A:0.50, C:0.06, G:0.07, T:0.37
Consensus pattern (94 bp):
ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGAAATATCAATAATTAAAATAAG
AAATTTAAATTTTATTAAAATAAGGACTA
Found at i:34270610 original size:47 final size:45
Alignment explanation
Indices: 34270559--34270726 Score: 132
Period size: 47 Copynumber: 3.6 Consensus size: 45
34270549 TATTTAATAT
*
34270559 TAATTATTTTAAATTGTATAAATTCATATAAGAAAAATTATTATCAA
1 TAATTATTTTAAATT-TATAAATTCATATAAGAAAATTTATTAT-AA
* * **
34270606 TAATT-TTATGAAA-TTATATATT-AT-T-ATTAAATTATATGTAATAA
1 TAATTATT-TTAAATTTATAAATTCATATAAGAAAATT-TAT-T-ATAA
* * *
34270650 TAATTATTTTAAATTATACAAATTCATATAAGATAATTTATTAGTTA
1 TAATTATTTTAAATT-TATAAATTCATATAAGAAAATTTATTA-TAA
34270697 TAATTATTTTAAATTTTATTAAA-TCATATA
1 TAATTATTTTAAA-TTTA-TAAATTCATATA
34270727 TTTTAATTAA
Statistics
Matches: 95, Mismatches: 13, Indels: 26
0.71 0.10 0.19
Matches are distributed among these distances:
42 5 0.05
43 4 0.04
44 14 0.15
45 12 0.13
46 10 0.11
47 36 0.38
48 9 0.09
49 5 0.05
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.48
Consensus pattern (45 bp):
TAATTATTTTAAATTTATAAATTCATATAAGAAAATTTATTATAA
Found at i:34270632 original size:91 final size:91
Alignment explanation
Indices: 34270485--34270692 Score: 308
Period size: 91 Copynumber: 2.3 Consensus size: 91
34270475 TTGATTTTAG
* * *
34270485 TAAATTTATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
34270550 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
* * *
34270577 TAAATTCATATAAGAAAAATTATTATCAATAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
34270642 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
34270668 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
34270693 GTTATAATTA
Statistics
Matches: 104, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
91 89 0.86
92 15 0.14
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:34270653 original size:44 final size:43
Alignment explanation
Indices: 34270506--34270667 Score: 116
Period size: 44 Copynumber: 3.6 Consensus size: 43
34270496 AAGAACATTT
* * *
34270506 TATTATTAAGAATT-TTATGAAATTATATATCATTATTAAATTA
1 TATTAATAATAATTATT-TGAAATTATATATAATTATTAAATTA
* * * *
34270549 TATTTAATATTAATTATTTTAAATTGTATA-AATTCATATAAGA-AA
1 TA-TTAATAATAATTATTTGAAATTATATATAATT-AT-TAA-ATTA
* *
34270594 AATTATTATCAATAATT-TTATGAAATTATATATTATTATTAAATTA
1 TATTA--AT-AATAATTATT-TGAAATTATATATAATTATTAAATTA
*
34270640 TATGTAATAATAATTATTTTAAATTATA
1 TAT-TAATAATAATTATTTGAAATTATA
34270668 CAAATTCATA
Statistics
Matches: 91, Mismatches: 15, Indels: 25
0.69 0.11 0.19
Matches are distributed among these distances:
43 5 0.05
44 40 0.44
45 12 0.13
46 11 0.12
47 20 0.22
48 3 0.03
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.49
Consensus pattern (43 bp):
TATTAATAATAATTATTTGAAATTATATATAATTATTAAATTA
Found at i:34270667 original size:26 final size:28
Alignment explanation
Indices: 34270505--34270581 Score: 52
Period size: 28 Copynumber: 2.8 Consensus size: 28
34270495 TAAGAACATT
* *
34270505 TTATTATTAAGAATTTTATGAAATTATATA
1 TTATTATT-A-AATTATATGAAATAATATA
* ** *
34270535 TCATTATTAAATTATATTTAATATTA-A
1 TTATTATTAAATTATATGAAATAATATA
*
34270562 TTATT-TTAAATTGTAT-AAAT
1 TTATTATTAAATTATATGAAAT
34270582 TCATATAAGA
Statistics
Matches: 38, Mismatches: 9, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
25 3 0.08
26 10 0.26
27 5 0.13
28 12 0.32
29 1 0.03
30 7 0.18
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (28 bp):
TTATTATTAAATTATATGAAATAATATA
Found at i:34270872 original size:25 final size:25
Alignment explanation
Indices: 34270844--34270896 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
34270834 ATTAAATTAT
*
34270844 ATATTTTAATTATAA-TATATTTAA
1 ATATTTTAATAATAATTATATTTAA
*
34270868 GATA-TTTAATAATAATTATGTTTAA
1 -ATATTTTAATAATAATTATATTTAA
34270893 ATAT
1 ATAT
34270897 GATTAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (25 bp):
ATATTTTAATAATAATTATATTTAA
Found at i:34271119 original size:45 final size:44
Alignment explanation
Indices: 34271019--34271128 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
34271009 TTTTCCATTA
34271019 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
34271058 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
34271103 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
34271129 CCTCTATTCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:34271128 original size:16 final size:16
Alignment explanation
Indices: 34271107--34271160 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
34271097 TTGATTTGCT
34271107 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
34271123 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
34271139 ATTACACCTCTAATCC
1 ATTACACCTCTATTCC
*
34271155 AATACA
1 ATTACA
34271161 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:34280995 original size:16 final size:16
Alignment explanation
Indices: 34280976--34281009 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
34280966 GTAAATGGGT
* *
34280976 AAATAAATTATAAATA
1 AAATAAAATAAAAATA
34280992 AAATAAAATAAAAATA
1 AAATAAAATAAAAATA
34281008 AA
1 AA
34281010 TCGTCATCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATAAAATAAAAATA
Done.