Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 184 of 259
Found at i:59464501 original size:23 final size:24
Alignment explanation
Indices: 59464416--59464514 Score: 70
Period size: 23 Copynumber: 4.3 Consensus size: 24
59464406 AAGAATGTGT
*
59464416 TAATAATAATAAAT-TAATGAATTAA
1 TAATAATACTAAATATAAT-AA-TAA
*
59464441 TAATAA-AATAAATA-AATAA-ACA
1 TAATAATACTAAATATAATAATA-A
* *
59464463 CAA-AA-A-TAAATATAATTATAA
1 TAATAATACTAAATATAATAATAA
*
59464484 TAGTAATACTAAA-ATAATAATAA
1 TAATAATACTAAATATAATAATAA
59464507 TAATAATA
1 TAATAATA
59464515 ATAATGTGAT
Statistics
Matches: 61, Mismatches: 6, Indels: 16
0.73 0.07 0.19
Matches are distributed among these distances:
20 6 0.10
21 10 0.16
22 6 0.10
23 19 0.31
24 14 0.23
25 6 0.10
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (24 bp):
TAATAATACTAAATATAATAATAA
Found at i:59468503 original size:97 final size:95
Alignment explanation
Indices: 59468184--59468517 Score: 361
Period size: 97 Copynumber: 3.5 Consensus size: 95
59468174 TAAAATATGC
* *
59468184 CTTAAATCCAAACCCTCATTACAAGAAATAAATTAATGAATAAAATTTACCATTTTAGTGGCTAT
1 CTTAAATCCAAACCCTCATTACAAGAAATAAATTAATAAATAAAATTTACCATTTTAG-GGCCAT
* * **
59468249 GTCCACTAAGTTTCCAGTACGCCCCACTACTG
65 GTCCACTAGGTTTCCAGTACG-CTCACTGTTG
* * * * * * *
59468281 CTTAAATCCAAACCTTTATTACAAGAAATAAATTCATGAATAAAACTTATCATTTTAGGGGCATG
1 CTTAAATCCAAACCCTCATTACAAGAAATAAATTAATAAATAAAATTTACCATTTTAGGGCCATG
* * **
59468346 -CCTCCTAGGTTTCTAGTACATTC-C-GTCACTG
66 TCC-ACTAGGTTTCCAGTACGCTCACTGT---TG
* * *
59468377 CTGAAATCCAAACTCTCATTACAAGAAATAAATTAGTAAATAAAATTTACCATTTTAGGGACCAT
1 CTTAAATCCAAACCCTCATTACAAGAAATAAATTAATAAATAAAATTTACCATTTTAGGG-CCAT
59468442 GTCC-CTTAGGTTTCCAGTACGCTCAACTGTTG
65 GTCCAC-TAGGTTTCCAGTACGCTC-ACTGTTG
* *
59468474 CTTAAATCCAAACCCTTATTACAATAAATAAATTAATAAATAAA
1 CTTAAATCCAAACCCTCATTACAAGAAATAAATTAATAAATAAA
59468518 TCCTTAAACT
Statistics
Matches: 194, Mismatches: 33, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
94 1 0.01
95 3 0.02
96 72 0.37
97 113 0.58
98 2 0.01
99 1 0.01
100 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.31
Consensus pattern (95 bp):
CTTAAATCCAAACCCTCATTACAAGAAATAAATTAATAAATAAAATTTACCATTTTAGGGCCATG
TCCACTAGGTTTCCAGTACGCTCACTGTTG
Found at i:59475516 original size:64 final size:64
Alignment explanation
Indices: 59475436--59475569 Score: 169
Period size: 64 Copynumber: 2.1 Consensus size: 64
59475426 AGTGCAGGGT
* * * * * * *
59475436 TCACACAAGCCAAGGACACGGACGTGTGTCTAGGCTATGCAACTCACTGATTACAAGATAAGGA
1 TCACACAAGCCAAGGACACGAACATATGTCCAGGCCATGCAACACACTGATTACAAAATAAGGA
* * *
59475500 TCACACAGGCCAAGGACACGAATATATGTCCAGGCCATGTAACACACTGATTACAAAATAAGGA
1 TCACACAAGCCAAGGACACGAACATATGTCCAGGCCATGCAACACACTGATTACAAAATAAGGA
*
59475564 CCACAC
1 TCACAC
59475570 GGGTGGAGGA
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.37, C:0.25, G:0.20, T:0.17
Consensus pattern (64 bp):
TCACACAAGCCAAGGACACGAACATATGTCCAGGCCATGCAACACACTGATTACAAAATAAGGA
Found at i:59476822 original size:577 final size:577
Alignment explanation
Indices: 59475729--59476887 Score: 2185
Period size: 577 Copynumber: 2.0 Consensus size: 577
59475719 ACCGAGCATC
*
59475729 GTTGGAGTAAAATACGAGCCTTCTCTGAAGTCGTTTGAACTGAATTTGATTGCATAAATTGATAT
1 GTTGGAGTAAAATACGAGCCTTCTCTAAAGTCGTTTGAACTGAATTTGATTGCATAAATTGATAT
59475794 TTTATGATCAAGAATTTGAATACTGATTATCAATGTGCGTATTGTGTTTGACAAAAATCATTGGA
66 TTTATGATCAAGAATTTGAATACTGATTATCAATGTGCGTATTGTGTTTGACAAAAATCATTGGA
*
59475859 ATTTATCTACTATATACGAACACGAGTATATCTGTATATTTACATATAAATCTGTGTTAATTGTC
131 ATTTATCTACTATATACGAACACGAGTATATCTGCATATTTACATATAAATCTGTGTTAATTGTC
*
59475924 ATGTGAAGTATGTGTATACATTGGATGGGAATTGAATCAAGAGGAAGTATTCTATTCTGAACCAG
196 ATGTGAAGTATGTGTATACATTGGATGGGAATTGAATCAAGAGGAAGTATTCTATTCTGAACAAG
59475989 TGGTTAAATCCCTAGTATTTGTATACTAATCTGGCAGCTAGTTTGCAATCTTTAAAACATGTCAG
261 TGGTTAAATCCCTAGTATTTGTATACTAATCTGGCAGCTAGTTTGCAATCTTTAAAACATGTCAG
*
59476054 ACAGACACTGAGTGGTGTGTAGGGCTGGATGGATAATGAATACCCTATTTAGTGTGTTGGGTTGG
326 ACAGACACTGAGTGGTGTGTAGGGCTGGATGGATAATGAATACCCTATTTAGTATGTTGGGTTGG
59476119 TCGGAGATGGTATATTGTAGTTGGTATTAAATAATTGTATTTATTTTGTTCTATTTTGCATTTGA
391 TCGGAGATGGTATATTGTAGTTGGTATTAAATAATTGTATTTATTTTGTTCTATTTTGCATTTGA
*
59476184 TTATGGCTTGATCTGTTATCCGTCTGTATGACTCTGATCTGTAACTAAATGAACTATTTCTTGAT
456 TTATGGCTTGATCTATTATCCGTCTGTATGACTCTGATCTGTAACTAAATGAACTATTTCTTGAT
59476249 TCTACATAAACATCTTGGATATCTTAGTTTTCCGATAATCTTTTGAATATGTAAATA
521 TCTACATAAACATCTTGGATATCTTAGTTTTCCGATAATCTTTTGAATATGTAAATA
59476306 GTTGGAGTAAAATACGAGCCTTCTCTAAAGTCGTTTGAACTGAATTTGATTGCATAAATTGATAT
1 GTTGGAGTAAAATACGAGCCTTCTCTAAAGTCGTTTGAACTGAATTTGATTGCATAAATTGATAT
**
59476371 TTTATGATTTAGAATTTGAATACTGATTATCAATGTGCGTATTGTGTTTGACAAAAATCATTGGA
66 TTTATGATCAAGAATTTGAATACTGATTATCAATGTGCGTATTGTGTTTGACAAAAATCATTGGA
* * *
59476436 ATTTATCTACTATATACGAACACGAGTATATCTGCATATTTGCATATAACTTTGTGTTAATTGTC
131 ATTTATCTACTATATACGAACACGAGTATATCTGCATATTTACATATAAATCTGTGTTAATTGTC
* *
59476501 ATGTGAAGTATGTGTATACATTGGATGGGAATTGAATCAATAGGAAGTATTCTATTTTGAACAAG
196 ATGTGAAGTATGTGTATACATTGGATGGGAATTGAATCAAGAGGAAGTATTCTATTCTGAACAAG
59476566 TGGTTAAATCCCTAGTATTTGTATACTAATCTGGCAGCTAGTTTGCAATCTTTAAAACATGTCAG
261 TGGTTAAATCCCTAGTATTTGTATACTAATCTGGCAGCTAGTTTGCAATCTTTAAAACATGTCAG
*
59476631 ACAGACACTGAGTGGTGTGTAGGGTTGGATGGATAATGAATACCCTATTTAGTATGTTGGGTTGG
326 ACAGACACTGAGTGGTGTGTAGGGCTGGATGGATAATGAATACCCTATTTAGTATGTTGGGTTGG
59476696 TCGGAGATGGTATATT-TCAGTTGGTATTAAATAATTGTATTTATTTTGTTCTATTTTGCATTTG
391 TCGGAGATGGTATATTGT-AGTTGGTATTAAATAATTGTATTTATTTTGTTCTATTTTGCATTTG
59476760 ATTATGGCTTGATCTATTATCCGTCTGTATGACTCTGATCTGTAACTAAATGAACTATTTCTTGA
455 ATTATGGCTTGATCTATTATCCGTCTGTATGACTCTGATCTGTAACTAAATGAACTATTTCTTGA
59476825 TTCTACATAAACATCTTGGATATCTTAGTTTTCCGATAATCTTTTGAATATGTAAATA
520 TTCTACATAAACATCTTGGATATCTTAGTTTTCCGATAATCTTTTGAATATGTAAATA
59476883 GTTGG
1 GTTGG
59476888 GTCCTTTTTG
Statistics
Matches: 568, Mismatches: 13, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
576 1 0.00
577 567 1.00
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (577 bp):
GTTGGAGTAAAATACGAGCCTTCTCTAAAGTCGTTTGAACTGAATTTGATTGCATAAATTGATAT
TTTATGATCAAGAATTTGAATACTGATTATCAATGTGCGTATTGTGTTTGACAAAAATCATTGGA
ATTTATCTACTATATACGAACACGAGTATATCTGCATATTTACATATAAATCTGTGTTAATTGTC
ATGTGAAGTATGTGTATACATTGGATGGGAATTGAATCAAGAGGAAGTATTCTATTCTGAACAAG
TGGTTAAATCCCTAGTATTTGTATACTAATCTGGCAGCTAGTTTGCAATCTTTAAAACATGTCAG
ACAGACACTGAGTGGTGTGTAGGGCTGGATGGATAATGAATACCCTATTTAGTATGTTGGGTTGG
TCGGAGATGGTATATTGTAGTTGGTATTAAATAATTGTATTTATTTTGTTCTATTTTGCATTTGA
TTATGGCTTGATCTATTATCCGTCTGTATGACTCTGATCTGTAACTAAATGAACTATTTCTTGAT
TCTACATAAACATCTTGGATATCTTAGTTTTCCGATAATCTTTTGAATATGTAAATA
Found at i:59478910 original size:26 final size:27
Alignment explanation
Indices: 59478871--59478934 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 27
59478861 TCAGATTGTT
* * *
59478871 TTATGTATATATTTTCTTTTAAATCTA
1 TTATATATATATTTCCTTTCAAATCTA
59478898 -TATATATATATTTCCTTTCAAATCTA
1 TTATATATATATTTCCTTTCAAATCTA
*
59478924 TTATGTATATA
1 TTATATATATA
59478935 GTTTATTCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 23 0.72
27 9 0.28
ACGTcount: A:0.33, C:0.09, G:0.03, T:0.55
Consensus pattern (27 bp):
TTATATATATATTTCCTTTCAAATCTA
Found at i:59478999 original size:22 final size:21
Alignment explanation
Indices: 59478973--59479022 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
59478963 TATATGCTTT
*
59478973 TATTATTTAAAACTCTTTTATA
1 TATTATTT-AAACCCTTTTATA
*
59478995 TATTA-TT-ATCCCTTTTATA
1 TATTATTTAAACCCTTTTATA
59479014 TATTATTTA
1 TATTATTTA
59479023 TATTAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 15 0.62
20 2 0.08
21 2 0.08
22 5 0.21
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (21 bp):
TATTATTTAAACCCTTTTATA
Found at i:59479313 original size:52 final size:52
Alignment explanation
Indices: 59479235--59479386 Score: 304
Period size: 52 Copynumber: 2.9 Consensus size: 52
59479225 ACATTTGATA
59479235 TTTTTTAAATTGTTTTTATATCGTATTGATTCCAAGTTTCCCGTCTTTATAG
1 TTTTTTAAATTGTTTTTATATCGTATTGATTCCAAGTTTCCCGTCTTTATAG
59479287 TTTTTTAAATTGTTTTTATATCGTATTGATTCCAAGTTTCCCGTCTTTATAG
1 TTTTTTAAATTGTTTTTATATCGTATTGATTCCAAGTTTCCCGTCTTTATAG
59479339 TTTTTTAAATTGTTTTTATATCGTATTGATTCCAAGTTTCCCGTCTTT
1 TTTTTTAAATTGTTTTTATATCGTATTGATTCCAAGTTTCCCGTCTTT
59479387 TATATTATTA
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 100 1.00
ACGTcount: A:0.20, C:0.14, G:0.11, T:0.55
Consensus pattern (52 bp):
TTTTTTAAATTGTTTTTATATCGTATTGATTCCAAGTTTCCCGTCTTTATAG
Found at i:59480122 original size:17 final size:17
Alignment explanation
Indices: 59480096--59480129 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
59480086 TATATAATTG
*
59480096 AAATATGTTATAATATA
1 AAATAAGTTATAATATA
59480113 AAATAAGTTATAATATA
1 AAATAAGTTATAATATA
59480130 TTAAGTGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
AAATAAGTTATAATATA
Found at i:59481373 original size:24 final size:24
Alignment explanation
Indices: 59481310--59481422 Score: 113
Period size: 24 Copynumber: 4.7 Consensus size: 24
59481300 GAAATGATTT
**
59481310 TGGCACTATGTGTGCAAATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
59481334 TGGCACTATGTGTGCGGATTTGTA
1 TGGCACTATGTGTGCGGATTTGAA
*
59481358 TGGCACTATGTGTGCGGATTGGAA
1 TGGCACTATGTGTGCGGATTTGAA
* * * * *
59481382 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGGATT--TGAA
59481407 -GGCACTATGTGTGCGG
1 TGGCACTATGTGTGCGG
59481423 GTTAACATGG
Statistics
Matches: 71, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
24 69 0.97
25 2 0.03
ACGTcount: A:0.24, C:0.12, G:0.30, T:0.34
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:59481383 original size:48 final size:48
Alignment explanation
Indices: 59481310--59481422 Score: 127
Period size: 48 Copynumber: 2.4 Consensus size: 48
59481300 GAAATGATTT
** * * * * **
59481310 TGGCACTATGTGTGCAAATTTGAATGGCACTATGTGTGCGGATTTGTA
1 TGGCACTATGTGTGCGGATTGGAATGGCAATATGTATGCGAATTACTA
* *
59481358 TGGCACTATGTGTGCGGATTGGAATGTCAATATGTATGTGAATTACTA
1 TGGCACTATGTGTGCGGATTGGAATGGCAATATGTATGCGAATTACTA
*
59481406 AGGCACTATGTGTGCGG
1 TGGCACTATGTGTGCGG
59481423 GTTAACATGG
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.24, C:0.12, G:0.30, T:0.34
Consensus pattern (48 bp):
TGGCACTATGTGTGCGGATTGGAATGGCAATATGTATGCGAATTACTA
Found at i:59487592 original size:17 final size:17
Alignment explanation
Indices: 59487566--59487599 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
59487556 TATATAATTG
*
59487566 AAATATGTTATAATATA
1 AAATAAGTTATAATATA
59487583 AAATAAGTTATAATATA
1 AAATAAGTTATAATATA
59487600 TTAAGTGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
AAATAAGTTATAATATA
Found at i:59488493 original size:46 final size:46
Alignment explanation
Indices: 59488440--59488616 Score: 193
Period size: 46 Copynumber: 3.8 Consensus size: 46
59488430 TATTTGGGCA
59488440 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
59488486 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
59488531 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
59488579 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGGA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
59488617 CGGGTTACAT
Statistics
Matches: 109, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 6 0.06
46 59 0.54
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59488595 original size:93 final size:93
Alignment explanation
Indices: 59488436--59488608 Score: 294
Period size: 93 Copynumber: 1.9 Consensus size: 93
59488426 AGGATATTTG
* * *
59488436 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGTCCCAACTCGTTGAG
59488501 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
59488529 GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG-CCCAAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGTCCCAA-CTCGTTGA
59488593 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
59488609 CTTATGGACG
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
92 4 0.05
93 71 0.95
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGTCCCAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:59493543 original size:46 final size:46
Alignment explanation
Indices: 59493490--59493618 Score: 204
Period size: 46 Copynumber: 2.8 Consensus size: 46
59493480 TATTTGGGCA
* *
59493490 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
59493536 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
59493582 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
59493619 GCGGGTTACA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:59493809 original size:15 final size:15
Alignment explanation
Indices: 59493789--59493831 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
59493779 TTGAACAGGT
59493789 TGAAAATGTGATAAA
1 TGAAAATGTGATAAA
59493804 TGAAAA-GATGATAAA
1 TGAAAATG-TGATAAA
59493819 TGAAAATGTGATA
1 TGAAAATGTGATA
59493832 TGAATGTCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 1 0.04
15 24 0.92
16 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.21, T:0.26
Consensus pattern (15 bp):
TGAAAATGTGATAAA
Found at i:59495878 original size:24 final size:24
Alignment explanation
Indices: 59495851--59495933 Score: 121
Period size: 24 Copynumber: 3.5 Consensus size: 24
59495841 GAAATGATTT
*
59495851 TGGCACTATGTGTGCGAATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
59495875 TGGCACTATGTGTGCGGATTTGTA
1 TGGCACTATGTGTGCGGATTTGAA
*
59495899 TGGCACTATGTGTGCGGATTGGAA
1 TGGCACTATGTGTGCGGATTTGAA
* *
59495923 TGTCAATATGT
1 TGGCACTATGT
59495934 ACGTGAATTA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 53 1.00
ACGTcount: A:0.22, C:0.12, G:0.31, T:0.35
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:59500082 original size:130 final size:130
Alignment explanation
Indices: 59499759--59500084 Score: 480
Period size: 131 Copynumber: 2.5 Consensus size: 130
59499749 GAAAAATCGA
* *
59499759 AACCCAGCACGGTAGAGCACGATTCCCCGAATTTCCAAACATTGAACATTGCCTT-GTTTT-AGA
1 AACCCAGCACGGTAGGGCACGATTCCCCGAATTTCCAAACATCGAACATTGCCTTCGTTTTAAGA
* * *
59499822 A-TTTAAAAAACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAGCGAACGAGAAATTGC
66 ATTTTAAAAAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGAGAAATTGC
* * *
59499886 AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTCGTTTTGAAG
1 AACCCAGCACGGTAGGGCACGATTCCCCGAATTTCCAAACATCGAACATTGCCTTCGTTTT-AAG
* * *
59499951 AATTTTCAAAGACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATTG
65 AATTTTAAAAAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGAGAAATTG
59500016 C
130 C
* * *
59500017 AACCCAGCA-GGTAGGGTACGATTCCCCGAATTTCCAAACATCAAACATTGCATTCGTTTTAAAG
1 AACCCAGCACGGTAGGGCACGATTCCCCGAATTTCCAAACATCGAACATTGCCTTCGTTTT-AAG
59500081 AATT
65 AATT
59500085 CTTGAATGAA
Statistics
Matches: 177, Mismatches: 18, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
127 50 0.28
128 5 0.03
130 56 0.32
131 66 0.37
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (130 bp):
AACCCAGCACGGTAGGGCACGATTCCCCGAATTTCCAAACATCGAACATTGCCTTCGTTTTAAGA
ATTTTAAAAAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGAGAAATTGC
Found at i:59501924 original size:30 final size:28
Alignment explanation
Indices: 59501889--59501956 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 28
59501879 ACCTTATTTT
59501889 TATATTAT-ATATTATAAAATTATTTTATTA
1 TATATTATCATATTAT--AATTA-TTTATTA
*
59501919 TATATTATTTCATATTATTATTATTTATTA
1 TATATTA--TCATATTATAATTATTTATTA
59501949 TATATTAT
1 TATATTAT
59501957 TTTTCACAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
28 1 0.03
30 21 0.62
31 4 0.12
32 1 0.03
33 7 0.21
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (28 bp):
TATATTATCATATTATAATTATTTATTA
Found at i:59501933 original size:10 final size:10
Alignment explanation
Indices: 59501913--59501957 Score: 58
Period size: 10 Copynumber: 4.5 Consensus size: 10
59501903 TAAAATTATT
59501913 TTATTATATA
1 TTATTATATA
59501923 TTATT-TCATA
1 TTATTAT-ATA
59501933 TTATTAT-TA
1 TTATTATATA
59501942 TTTATTATATA
1 -TTATTATATA
59501953 TTATT
1 TTATT
59501958 TTTCACAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
9 3 0.10
10 25 0.81
11 3 0.10
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (10 bp):
TTATTATATA
Found at i:59501957 original size:23 final size:23
Alignment explanation
Indices: 59501883--59501957 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
59501873 TTTTTAACCT
*
59501883 TATTTTTA-TATTATATATTATAA
1 TATTATTATTATTATATATTAT-A
* *
59501906 AATTATT-TTATTATATATTATT
1 TATTATTATTATTATATATTATA
*
59501928 TCA-TATTATTATTATTTATTATA
1 T-ATTATTATTATTATATATTATA
59501951 TATTATT
1 TATTATT
59501958 TTTCACAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
22 5 0.12
23 37 0.88
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (23 bp):
TATTATTATTATTATATATTATA
Found at i:59502052 original size:20 final size:20
Alignment explanation
Indices: 59501930--59502055 Score: 60
Period size: 20 Copynumber: 5.8 Consensus size: 20
59501920 ATATTATTTC
* **
59501930 ATATTATTATTATTTATTAT
1 ATATTATTTTTACATATTAT
*
59501950 ATATTATTTTTCACAAATTAT
1 ATATTATTTTT-ACATATTAT
*
59501971 -TAATA-TTTTACATTATTAT
1 ATATTATTTTTACA-TATTAT
* *
59501990 CTA-TATTTTTTACTTGTATTGTAT
1 ATATTA-TTTTTAC--ATA-T-TAT
59502014 ATTTATTAATTATTATACATATTAT
1 A--TATT-ATT-TT-TACATATTAT
59502039 ATATTATTTTTACATAT
1 ATATTATTTTTACATAT
59502056 ATACACTTTC
Statistics
Matches: 82, Mismatches: 9, Indels: 30
0.68 0.07 0.25
Matches are distributed among these distances:
18 3 0.04
19 11 0.13
20 23 0.28
21 14 0.17
22 5 0.06
23 5 0.06
24 3 0.04
25 4 0.05
26 3 0.04
27 5 0.06
28 3 0.04
29 3 0.04
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.59
Consensus pattern (20 bp):
ATATTATTTTTACATATTAT
Found at i:59502305 original size:22 final size:21
Alignment explanation
Indices: 59502280--59502324 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
59502270 ATTAATTACT
* *
59502280 TATTTTATACTTATATTATATA
1 TATTATATAATTATATTAT-TA
*
59502302 TATTATATAATTATTTTATTA
1 TATTATATAATTATATTATTA
59502323 TA
1 TA
59502325 AATATAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTATATAATTATATTATTA
Found at i:59505575 original size:44 final size:46
Alignment explanation
Indices: 59505520--59505637 Score: 138
Period size: 45 Copynumber: 2.6 Consensus size: 46
59505510 TGTTTTTATC
* * *
59505520 CTGCTCTACTGCAACTTCAGAGAGATAAGGAT-TG-TGACTTCGA-T
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGATCTGTTAACTT-GAGT
* *
59505564 CTGCTCCACTGCAACTTCAGGGAAATAA-GATCTGTTAACTTTAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGATCTGTTAACTTGAGT
59505609 CTGCTCCACTGCAACCTT-AGGGAGATAAG
1 CTGCTCCACTGCAA-CTTCAGGGAGATAAG
59505638 ACTTGTAATT
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.05
44 28 0.44
45 29 0.46
46 3 0.05
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (46 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGGATCTGTTAACTTGAGT
Found at i:59505759 original size:87 final size:87
Alignment explanation
Indices: 59505608--59505992 Score: 389
Period size: 87 Copynumber: 4.4 Consensus size: 87
59505598 TTAACTTTAG
* * * * * *
59505608 TCTGCTCCACTGCAACCTTAGGGAGATAAGA-CTTGTAAT-TTACAGCCTGTTACCTTACTGCTT
1 TCTGCTCCACTACTA-CTTAGGGAGACAAGATC-TGCAATCTT-CAGCCTGTTACCCTACTACTT
59505671 AGGGGGTTAAGG-TCACCGTCTTCGA
63 AGGGGGTTAAGGCT-ACCGTCTTCGA
* * * ** *
59505696 TTTGCTCCACTACTACTTAGGAAGACAAGATCTACAATCTTTGGCTTGTTACCCTACTACTTAGG
1 TCTGCTCCACTACTACTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAGG
* * *
59505761 GGATTAAGGCTCACTGTCTTTGA
66 GGGTTAAGGCT-ACCGTCTTCGA
* * * * *
59505784 TCTGTTCCACTGCAACTTCAGGGGGACAAGATCTGTAATCTTCAGCCTGTTACCCTACTACTTAG
1 TCTGCTCCACTACTACTT-AGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAG
* ** * *
59505849 AGGGTTAAGGCTTGCTTCTTCAA
65 GGGGTTAAGGCTACCGTCTTCGA
* **
59505872 TTTGCTCCACTACTGTTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAGG
1 TCTGCTCCACTACTACTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAGG
** *
59505937 GGGTTAAGGCTTGCTTCTTCGA
66 GGGTTAAGGCTACCGTCTTCGA
* * *
59505959 TCTGCTCCACTACTGCTCAGGGAGGCAAGATCTG
1 TCTGCTCCACTACTACTTAGGGAGACAAGATCTG
59505993 TGAATTCACT
Statistics
Matches: 245, Mismatches: 48, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
87 139 0.57
88 57 0.23
89 49 0.20
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (87 bp):
TCTGCTCCACTACTACTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAGG
GGGTTAAGGCTACCGTCTTCGA
Found at i:59505870 original size:43 final size:42
Alignment explanation
Indices: 59505822--59505956 Score: 112
Period size: 43 Copynumber: 3.1 Consensus size: 42
59505812 AGATCTGTAA
59505822 TCTTCAGCCTGTTACCCTACTACTTAGAGGGTTAAGGCTTGCT
1 TCTTCAGCCTGTTACCCTACTACTTAG-GGGTTAAGGCTTGCT
*** * ** ** * *
59505865 TCTTCAATTTGCT-CCACTACTGTTTAGGGAGACAA-GATCTGCAA
1 TCTTCAGCCTGTTACC-CTACTACTTAGGG-GTTAAGGCT-TGC-T
59505909 TCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCT
1 TCTTCAGCCTGTTACCCTACTACTTA-GGGGTTAAGGCTTGCT
59505952 TCTTC
1 TCTTC
59505957 GATCTGCTCC
Statistics
Matches: 65, Mismatches: 20, Indels: 14
0.66 0.20 0.14
Matches are distributed among these distances:
42 6 0.09
43 29 0.45
44 23 0.35
45 7 0.11
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (42 bp):
TCTTCAGCCTGTTACCCTACTACTTAGGGGTTAAGGCTTGCT
Found at i:59505912 original size:176 final size:175
Alignment explanation
Indices: 59505608--59505969 Score: 462
Period size: 176 Copynumber: 2.1 Consensus size: 175
59505598 TTAACTTTAG
* * *
59505608 TCTGCTCCACTGCAACCTTAGGGAGATAAGACTTGTAATTTACAGCCTGTTACCTTACTGCTTAG
1 TCTGCTCCACTGCAACCTTAGGGAGACAAGACTTGTAATTTACAGCCTGTTACCCTACTACTTAG
* * *
59505673 GGGGTTAAGGTCACCGTCTTCGATTTGCTCCACTACTACTTAGGAAGACAAGATCTACAATCTTT
66 AGGGTTAAGGTCACCGTCTTCAATTTGCTCCACTACTACTTAGGAAGACAAGATCTACAATCTTC
* * *
59505738 GGCTTGTTACCCTACTACTTAGGGGATTAAGGCTCACTGTCTTTGA
131 AGCCTGTTACCCTACTACTTAGGGGATTAAGGCTCACT-TCTTCGA
* *
59505784 TCTGTTCCACTGCAA-CTTCAGGGGGACAAGA-TCTGTAATCTT-CAGCCTGTTACCCTACTACT
1 TCTGCTCCACTGCAACCTT-AGGGAGACAAGACT-TGTAAT-TTACAGCCTGTTACCCTACTACT
** * ** * *
59505846 TAGAGGGTTAAGG-CTTGCTTCTTCAATTTGCTCCACTACTGTTTAGGGAGACAAGATCTGCAAT
63 TAGAGGGTTAAGGTC-ACCGTCTTCAATTTGCTCCACTACTACTTAGGAAGACAAGATCTACAAT
* **
59505910 CTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTTCTTCGA
127 CTTCAGCCTGTTACCCTACTACTTAGGGGATTAAGGCTCACTTCTTCGA
59505959 TCTGCTCCACT
1 TCTGCTCCACT
59505970 ACTGCTCAGG
Statistics
Matches: 160, Mismatches: 22, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
175 21 0.13
176 137 0.86
177 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (175 bp):
TCTGCTCCACTGCAACCTTAGGGAGACAAGACTTGTAATTTACAGCCTGTTACCCTACTACTTAG
AGGGTTAAGGTCACCGTCTTCAATTTGCTCCACTACTACTTAGGAAGACAAGATCTACAATCTTC
AGCCTGTTACCCTACTACTTAGGGGATTAAGGCTCACTTCTTCGA
Found at i:59505936 original size:44 final size:43
Alignment explanation
Indices: 59505805--59505938 Score: 112
Period size: 44 Copynumber: 3.1 Consensus size: 43
59505795 GCAACTTCAG
*
59505805 GGGGACAAGATCTGTAATCTTCAGCCTGTTACCCTACTACTTA
1 GGGGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTA
** * * *** * **
59505848 GAGGGTTAAG-GCTTGC-TTCTTCAATTTGCT-CCACTACTGTTTA
1 G-GGGACAAGATC-TGCAATCTTCAGCCTGTTACC-CTACTACTTA
59505891 GGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTA
1 GGG-GACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTA
59505935 GGGG
1 GGGG
59505939 GTTAAGGCTT
Statistics
Matches: 63, Mismatches: 21, Indels: 14
0.64 0.21 0.14
Matches are distributed among these distances:
42 4 0.06
43 28 0.44
44 29 0.46
45 2 0.03
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.31
Consensus pattern (43 bp):
GGGGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTA
Found at i:59517503 original size:127 final size:129
Alignment explanation
Indices: 59517365--59517697 Score: 458
Period size: 131 Copynumber: 2.6 Consensus size: 129
59517355 GTCCAACGAA
* * *
59517365 AAATTGAAACCCAGCAAGGTAGAGCACGATTCCCCGAATTTTCAAACATTGAACATTGCCTT-GT
1 AAATTGAAACCCAGCACGGTAGGGCACGATTCCCCGAATTTTCAAACATCGAACATTGCCTTCGT
* * *
59517429 TTTAGAATTTAGAAA-ACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAGA-AAATGGG
66 TTTAGAATTTACAAAGACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGA-ACAAACGGG
* * * * ** *
59517492 AAATTGCAACCCAACACGATGGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTCGT
1 AAATTGAAACCCAGCACGGTAGGGCACGATTCCCCGAATTTTCAAACATCGAACATTGCCTTCGT
*
59517557 TTTGAAGAATTTTCAAAGACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGG
66 TTT--AGAATTTACAAAGACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGG
59517622 G
129 G
*
59517623 AAATTGTAACCCAGCACGGTAGGGCACGATTCCCCGAA-TTTCTAAACATCGAACATTGCCTTCG
1 AAATTGAAACCCAGCACGGTAGGGCACGATTCCCCGAATTTTC-AAACATCGAACATTGCCTTCG
*
59517687 TTTTAAAATTT
65 TTTTAGAATTT
59517698 TTTTGAATGA
Statistics
Matches: 178, Mismatches: 22, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
127 52 0.29
128 5 0.03
129 6 0.03
130 13 0.07
131 102 0.57
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (129 bp):
AAATTGAAACCCAGCACGGTAGGGCACGATTCCCCGAATTTTCAAACATCGAACATTGCCTTCGT
TTTAGAATTTACAAAGACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGG
Found at i:59527396 original size:30 final size:32
Alignment explanation
Indices: 59527311--59527388 Score: 126
Period size: 32 Copynumber: 2.5 Consensus size: 32
59527301 TTCACTTTTT
59527311 AATATTTATGAGCATATTTATATTTTATATAA
1 AATATTTATGAGCATATTTATATTTTATATAA
*
59527343 AATATTTATCAGCATATTTATATTTTATA-AA
1 AATATTTATGAGCATATTTATATTTTATATAA
59527374 AATATTTA-GAG-ATAT
1 AATATTTATGAGCATAT
59527389 CTAATATTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
29 4 0.09
30 2 0.05
31 10 0.23
32 28 0.64
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.47
Consensus pattern (32 bp):
AATATTTATGAGCATATTTATATTTTATATAA
Found at i:59530109 original size:19 final size:21
Alignment explanation
Indices: 59530067--59530111 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
59530057 CTATTTTGAT
* *
59530067 TTTTTTTTATATTATTCTTCC
1 TTTTGTTTATATTATTCCTCC
59530088 TTTTGTTTATATT-TTCCT-C
1 TTTTGTTTATATTATTCCTCC
59530107 TTTTG
1 TTTTG
59530112 GAATAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.27
20 4 0.18
21 12 0.55
ACGTcount: A:0.11, C:0.13, G:0.04, T:0.71
Consensus pattern (21 bp):
TTTTGTTTATATTATTCCTCC
Found at i:59531413 original size:55 final size:55
Alignment explanation
Indices: 59531345--59531448 Score: 147
Period size: 55 Copynumber: 1.9 Consensus size: 55
59531335 GTGAGCACCC
* * *
59531345 ATAACGGGTGAGCTCTTAGGGAGCTC-TCCAGAGCCTACATGTCAGGCAAGCACTT
1 ATAACAGGCGAGCTCTTAGGGAGCTCGT-CAGAGCCTACATGTCAAGCAAGCACTT
* *
59531400 ATAACAGGCGAGCTCTTGGGGAGCTCGTCAGAGCCTACGTGTCAAGCAA
1 ATAACAGGCGAGCTCTTAGGGAGCTCGTCAGAGCCTACATGTCAAGCAA
59531449 ACAGGGTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
55 42 0.98
56 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.29, T:0.20
Consensus pattern (55 bp):
ATAACAGGCGAGCTCTTAGGGAGCTCGTCAGAGCCTACATGTCAAGCAAGCACTT
Found at i:59532474 original size:24 final size:24
Alignment explanation
Indices: 59532447--59532500 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
59532437 GAAAATCCAA
59532447 TTATTTTTGCTCCTAGCTTTATAC
1 TTATTTTTGCTCCTAGCTTTATAC
*
59532471 TTATTTTTGCTCCTAGCTTTATCC
1 TTATTTTTGCTCCTAGCTTTATAC
59532495 TTATTT
1 TTATTT
59532501 GTTTGGCTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.15, C:0.20, G:0.07, T:0.57
Consensus pattern (24 bp):
TTATTTTTGCTCCTAGCTTTATAC
Found at i:59537973 original size:103 final size:104
Alignment explanation
Indices: 59537729--59537994 Score: 419
Period size: 103 Copynumber: 2.6 Consensus size: 104
59537719 GTTGTACATA
** *
59537729 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
59537794 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
59537833 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
59537897 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
59537936 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
59537995 AATAACGGTT
Statistics
Matches: 149, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:59541713 original size:2 final size:2
Alignment explanation
Indices: 59541706--59541737 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
59541696 TGGCTCAACC
*
59541706 AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
59541738 TGTAAACTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:59541959 original size:43 final size:43
Alignment explanation
Indices: 59541898--59541983 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
59541888 GTAGATGAGG
59541898 GTAGGATTATATATTTGCATTTGAACTCTTTGTTTGTCTGTTA
1 GTAGGATTATATATTTGCATTTGAACTCTTTGTTTGTCTGTTA
59541941 GTAGGATTATATATTTGCATTTGAACTCTTTGTTTGTCTGTTA
1 GTAGGATTATATATTTGCATTTGAACTCTTTGTTTGTCTGTTA
59541984 CTTTCAGGTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.21, C:0.09, G:0.19, T:0.51
Consensus pattern (43 bp):
GTAGGATTATATATTTGCATTTGAACTCTTTGTTTGTCTGTTA
Found at i:59546203 original size:30 final size:30
Alignment explanation
Indices: 59546167--59546230 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
59546157 TCCCCCGCGA
59546167 CAACAACCTTGTACTCCAGTTATCAATTCT
1 CAACAACCTTGTACTCCAGTTATCAATTCT
59546197 CAACAACCTTGTACTCCAGTTATCAATTCT
1 CAACAACCTTGTACTCCAGTTATCAATTCT
59546227 CAAC
1 CAAC
59546231 TTAACTTTAT
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:0.31, C:0.31, G:0.06, T:0.31
Consensus pattern (30 bp):
CAACAACCTTGTACTCCAGTTATCAATTCT
Found at i:59558097 original size:18 final size:17
Alignment explanation
Indices: 59558074--59558107 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
59558064 TCATAAACTT
59558074 AATATAAAAATGATATAA
1 AATATAAAAAT-ATATAA
*
59558092 AATATAATAATATATA
1 AATATAAAAATATATA
59558108 TAAGATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
AATATAAAAATATATAA
Found at i:59558251 original size:21 final size:18
Alignment explanation
Indices: 59558210--59558260 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 18
59558200 ATATATATGT
59558210 AATATAAAAAATTAAATA
1 AATATAAAAAATTAAATA
*
59558228 AATATAATGAAATGTAATATA
1 AATATAA-AAAAT-TAA-ATA
*
59558249 AATATAACAAAT
1 AATATAAAAAAT
59558261 ATTTTTCATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 7 0.25
19 4 0.14
20 7 0.25
21 10 0.36
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (18 bp):
AATATAAAAAATTAAATA
Found at i:59560341 original size:206 final size:206
Alignment explanation
Indices: 59560000--59560745 Score: 1163
Period size: 206 Copynumber: 3.6 Consensus size: 206
59559990 TTGTTCCCTG
* * *
59560000 ACAATACAGAGATGGCAAATCATCTTAGATTTGCTTCAGCGTAAGCACGTGAAAACCAAATCAGC
1 ACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCACGTGAAAGCCAAATCAGC
* * * * *
59560065 TATGTCTTCGATTTGCTCCTTATAAACACAAGGATACCAAACCATCTTGGATTTCCTTCAGTCTA
66 TATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTCTA
*
59560130 ATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCAGTCGAATATGGAGATGCCAAACTTTGA
131 ATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCAGTCGAATATGGAGATGCCAAACTTCGA
* *
59560195 TTTGTTCTCTA
196 TCTGCTCTCTA
* *
59560206 ACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCACGTGAAAGCTAAATTAGC
1 ACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCACGTGAAAGCCAAATCAGC
* *
59560271 TATGAT-TTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGTTTCAGTCT
66 TATG-TCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTCT
* * *
59560335 AATCATCTGAAGGTTAGATTTGCTATGTGTCTGCCCTCTGTCGAATATGGAGACGCCAAACTTCG
130 AATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCAGTCGAATATGGAGATGCCAAACTTCG
*
59560400 ATCTGCTCTCTG
195 ATCTGCTCTCTA
* * *
59560412 ACAATATAGAGATGCCAAATCATCTTAGACTTACTTCAGCGTAAGCACGTGAAAGCTAAATCAGC
1 ACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCACGTGAAAGCCAAATCAGC
* *
59560477 TATGAT-TTTGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGAGCTGCTTCAGTCT
66 TATG-TCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTCT
* * * *
59560541 AGTCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTTGAATATGAAGATGCCAAACTTCG
130 AATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCAGTCGAATATGGAGATGCCAAACTTCG
59560606 ATCTGCTCTCTA
195 ATCTGCTCTCTA
* *
59560618 ACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAGC
1 ACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCACGTGAAAGCCAAATCAGC
* *
59560683 TATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGT
66 TATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGATC-TGCTTCAGT
59560746 TAGATCTGCT
Statistics
Matches: 495, Mismatches: 42, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
205 1 0.00
206 484 0.98
207 10 0.02
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (206 bp):
ACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCACGTGAAAGCCAAATCAGC
TATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTCTA
ATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCAGTCGAATATGGAGATGCCAAACTTCGA
TCTGCTCTCTA
Found at i:59571003 original size:57 final size:57
Alignment explanation
Indices: 59570935--59571068 Score: 250
Period size: 57 Copynumber: 2.4 Consensus size: 57
59570925 ACTTCCATAT
*
59570935 ATATTCGGCGATTCCTTTATCATATAAATGGATATCTTCAATGAATCACCATCTTCC
1 ATATTCTGCGATTCCTTTATCATATAAATGGATATCTTCAATGAATCACCATCTTCC
59570992 ATATTCTGCGATTCCTTTATCATATAAATGGATATCTTCAATGAATCACCATCTTCC
1 ATATTCTGCGATTCCTTTATCATATAAATGGATATCTTCAATGAATCACCATCTTCC
*
59571049 ATATTCTACGATTCCTTTAT
1 ATATTCTGCGATTCCTTTAT
59571069 TTTTCTTTTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 75 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (57 bp):
ATATTCTGCGATTCCTTTATCATATAAATGGATATCTTCAATGAATCACCATCTTCC
Found at i:59572470 original size:18 final size:19
Alignment explanation
Indices: 59572430--59572470 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
59572420 AGAATAAGTT
59572430 TTTAATTAAATAAATTTAA
1 TTTAATTAAATAAATTTAA
* *
59572449 -TTAATTGAA-AATTTTAA
1 TTTAATTAAATAAATTTAA
59572466 TTTAA
1 TTTAA
59572471 ATATACAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
TTTAATTAAATAAATTTAA
Found at i:59573326 original size:5 final size:5
Alignment explanation
Indices: 59573318--59573358 Score: 75
Period size: 5 Copynumber: 8.4 Consensus size: 5
59573308 ATTAAATAAA
59573318 TATTT TATTT TATTT TA-TT TATTT TATTT TATTT TATTT TA
1 TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT TA
59573359 AATAACTACA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.11
5 31 0.89
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:59573340 original size:14 final size:15
Alignment explanation
Indices: 59573318--59573358 Score: 75
Period size: 14 Copynumber: 2.8 Consensus size: 15
59573308 ATTAAATAAA
59573318 TATTTTATTTTATTT
1 TATTTTATTTTATTT
59573333 TA-TTTATTTTATTT
1 TATTTTATTTTATTT
59573347 TATTTTATTTTA
1 TATTTTATTTTA
59573359 AATAACTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (15 bp):
TATTTTATTTTATTT
Found at i:59573342 original size:19 final size:19
Alignment explanation
Indices: 59573318--59573356 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
59573308 ATTAAATAAA
59573318 TATTTTATTTTATTTTATT
1 TATTTTATTTTATTTTATT
59573337 TATTTTATTTTATTTTATT
1 TATTTTATTTTATTTTATT
59573356 T
1 T
59573357 TAAATAACTA
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:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (19 bp):
TATTTTATTTTATTTTATT
Found at i:59573927 original size:3 final size:3
Alignment explanation
Indices: 59573919--59573950 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
59573909 ATAAAAAACC
59573919 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
59573951 CAACAACATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:59575372 original size:16 final size:16
Alignment explanation
Indices: 59575347--59575381 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
59575337 TAATTCCCAT
*
59575347 TTTATTTATTTACGTA
1 TTTATCTATTTACGTA
*
59575363 TTTATCTATTTACTTA
1 TTTATCTATTTACGTA
59575379 TTT
1 TTT
59575382 TTACAGTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.23, C:0.09, G:0.03, T:0.66
Consensus pattern (16 bp):
TTTATCTATTTACGTA
Found at i:59578306 original size:19 final size:20
Alignment explanation
Indices: 59578282--59578325 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
59578272 AAAAGATTTT
*
59578282 CCACAAATCTGATGAT-AAC
1 CCACAAATCCGATGATAAAC
59578301 CCACAAATCCGATGATAAAC
1 CCACAAATCCGATGATAAAC
59578321 CCACA
1 CCACA
59578326 TATAGTGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.43, C:0.32, G:0.09, T:0.16
Consensus pattern (20 bp):
CCACAAATCCGATGATAAAC
Found at i:59578861 original size:11 final size:11
Alignment explanation
Indices: 59578816--59578864 Score: 62
Period size: 11 Copynumber: 4.3 Consensus size: 11
59578806 AGATAAATAT
*
59578816 TATTTTATTAA
1 TATTTTATTAG
*
59578827 TATTTTAATAAG
1 TATTTT-ATTAG
59578839 ATATTTTATTAG
1 -TATTTTATTAG
59578851 TATTTTATTAG
1 TATTTTATTAG
59578862 TAT
1 TAT
59578865 ATAAAGAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
11 20 0.61
12 7 0.21
13 6 0.18
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (11 bp):
TATTTTATTAG
Found at i:59580145 original size:24 final size:24
Alignment explanation
Indices: 59580094--59580336 Score: 398
Period size: 24 Copynumber: 10.0 Consensus size: 24
59580084 GCTTTATCAT
*
59580094 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
59580119 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
59580143 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
59580167 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
59580191 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
59580215 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
59580239 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
59580263 ATAACTGGGGCATAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
*
59580288 ATAATTGGGGCATAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
*
59580313 ATAATTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
59580337 CACTTCCTCC
Statistics
Matches: 210, Mismatches: 6, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
24 150 0.71
25 60 0.29
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:59580413 original size:20 final size:20
Alignment explanation
Indices: 59580388--59580451 Score: 110
Period size: 20 Copynumber: 3.2 Consensus size: 20
59580378 TGAAGACATA
59580388 ATGTGCATATCATACATATC
1 ATGTGCATATCATACATATC
*
59580408 ATGTGCATATCATACATGTC
1 ATGTGCATATCATACATATC
*
59580428 ATGTGCATATCATACATACC
1 ATGTGCATATCATACATATC
59580448 ATGT
1 ATGT
59580452 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.34
Consensus pattern (20 bp):
ATGTGCATATCATACATATC
Found at i:59580418 original size:11 final size:11
Alignment explanation
Indices: 59580388--59580440 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
59580378 TGAAGACATA
59580388 ATGTGCATATC
1 ATGTGCATATC
*
59580399 A--TACATATC
1 ATGTGCATATC
59580408 ATGTGCATATC
1 ATGTGCATATC
* *
59580419 A--TACATGTC
1 ATGTGCATATC
59580428 ATGTGCATATC
1 ATGTGCATATC
59580439 AT
1 AT
59580441 ACATACCATG
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.47
11 17 0.53
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (11 bp):
ATGTGCATATC
Found at i:59583348 original size:30 final size:31
Alignment explanation
Indices: 59583314--59583376 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
59583304 ACTTATTCAC
*
59583314 TTGTTAATT-TTGTTATTATTTTAAAGGCAT
1 TTGTTAATTATTATTATTATTTTAAAGGCAT
*
59583344 TTGTTAATTATTATTATTATTTTAGAGGCAT
1 TTGTTAATTATTATTATTATTTTAAAGGCAT
59583375 TT
1 TT
59583377 ACTTGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (31 bp):
TTGTTAATTATTATTATTATTTTAAAGGCAT
Found at i:59584668 original size:27 final size:27
Alignment explanation
Indices: 59584632--59584925 Score: 312
Period size: 27 Copynumber: 11.0 Consensus size: 27
59584622 CCAAATTATT
* *
59584632 GAAATACCC-CCAGTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* *
59584658 -AAAGTACCCCCGATTTATAAAATTACC
1 GAAA-TACCCTCGATTTGTAAAATTACC
* *
59584685 CAAATATCCTCGATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
*
59584712 GAAATACCGTCGA-TTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
59584738 GAAATACCCTCGATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
*
59584765 GAAATA-CCTCGA-TTGTAAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
**
59584790 GAAATACCCTCGATTTGTAAAATTATT
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
59584817 AAAATACCCTC-AGTTTGCAAAATTACT
1 GAAATACCCTCGA-TTTGTAAAATTACC
* ** * *
59584844 AAAATACCCTTAATTTGTAATATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
* **
59584871 GAAATACCCTTGCCTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
59584898 AAAATACCCTCGATTTATAGAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
59584925 G
1 G
59584926 TTTTACCCTC
Statistics
Matches: 229, Mismatches: 31, Indels: 15
0.83 0.11 0.05
Matches are distributed among these distances:
25 21 0.09
26 43 0.19
27 161 0.70
28 4 0.02
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (27 bp):
GAAATACCCTCGATTTGTAAAATTACC
Found at i:59585008 original size:26 final size:26
Alignment explanation
Indices: 59584952--59585138 Score: 203
Period size: 27 Copynumber: 7.0 Consensus size: 26
59584942 CAAAATTATT
* *
59584952 GAAATACCCCTGTAAGGTAGTATTACT
1 GAAATACCCCTGT-AGGTAGAATTACC
*
59584979 GAAATACCCCTGTACGTAGAATTACC
1 GAAATACCCCTGTAGGTAGAATTACC
* *
59585005 GAAATACCCCTATAAGTAGAATTACC
1 GAAATACCCCTGTAGGTAGAATTACC
* * *
59585031 GAAATACCCTTGTAGGGTAGAAATATC
1 GAAATACCCCTGTA-GGTAGAATTACC
* *
59585058 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTA-GGTAGAATTACC
* **
59585085 GAAATACCCCTGTAGGATAGGATTATT
1 GAAATACCCCTGTAGG-TAGAATTACC
*
59585112 GAAATACCCTTGTAGGGTAGAATTACC
1 GAAATACCCCTGTA-GGTAGAATTACC
59585139 AAGATTCCCT
Statistics
Matches: 137, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
26 48 0.35
27 87 0.64
28 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (26 bp):
GAAATACCCCTGTAGGTAGAATTACC
Found at i:59585148 original size:27 final size:26
Alignment explanation
Indices: 59584953--59585166 Score: 171
Period size: 27 Copynumber: 8.0 Consensus size: 26
59584943 AAAATTATTG
* * * *
59584953 AAATACCCCTGTAAGGTAGTATTACTG
1 AAATACCCTTGTAGGGTAGAATTAC-C
* *
59584980 AAATACCCCTGTA-CGTAGAATTACC
1 AAATACCCTTGTAGGGTAGAATTACC
* * *
59585005 GAAATACCCCTATA-AGTAGAATTACC
1 -AAATACCCTTGTAGGGTAGAATTACC
* *
59585031 GAAATACCCTTGTAGGGTAGAAATATCG
1 -AAATACCCTTGTAGGGTAGAATTA-CC
*
59585059 AAATACCCTTGTAGGGTAGAAATACC
1 AAATACCCTTGTAGGGTAGAATTACC
* * * **
59585085 GAAATACCCCTGTAGGATAGGATTATTG
1 -AAATACCCTTGTAGGGTAGAATTA-CC
59585113 AAATACCCTTGTAGGGTAGAATTACC
1 AAATACCCTTGTAGGGTAGAATTACC
* * *
59585139 AAGATTCCCTTGTGGGGTAAAATTACC
1 AA-ATACCCTTGTAGGGTAGAATTACC
59585166 A
1 A
59585167 TTTTACCCCT
Statistics
Matches: 156, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
26 47 0.30
27 108 0.69
28 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (26 bp):
AAATACCCTTGTAGGGTAGAATTACC
Found at i:59585645 original size:22 final size:22
Alignment explanation
Indices: 59585593--59585657 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
59585583 TTAAAGCCTT
* *
59585593 CTGATTATGGTTTTGCGCCAAC
1 CTGATTATGGTTCTGTGCCAAC
* *
59585615 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGTTCTGTGCCAAC
*
59585637 CTGATTATGGTTGTGTGCCAA
1 CTGATTATGGTTCTGTGCCAA
59585658 ACGTATTTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGTTCTGTGCCAAC
Found at i:59585870 original size:26 final size:27
Alignment explanation
Indices: 59585839--59585898 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 27
59585829 ATTATCTGTT
59585839 TTTGGTGGCTATGCCACAA-ATATTTA
1 TTTGGTGGCTATGCCACAATATATTTA
* *
59585865 TTTGGTGGCTCTGCCACAATATCTTTA
1 TTTGGTGGCTATGCCACAATATATTTA
*
59585892 TCTGGTG
1 TTTGGTG
59585899 ACTCTATCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 18 0.60
27 12 0.40
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (27 bp):
TTTGGTGGCTATGCCACAATATATTTA
Found at i:59585903 original size:27 final size:27
Alignment explanation
Indices: 59585841--59585923 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 27
59585831 TATCTGTTTT
* * *
59585841 TGGTGGCTATGCCACAA-ATATTTATT
1 TGGTGGCTCTGCCACAATATCTTTATC
59585867 TGGTGGCTCTGCCACAATATCTTTATC
1 TGGTGGCTCTGCCACAATATCTTTATC
* ** *
59585894 TGGTGACTCTATCACAATATCTGT-TC
1 TGGTGGCTCTGCCACAATATCTTTATC
59585920 TGGT
1 TGGT
59585924 AGCCATGCTG
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
26 22 0.45
27 27 0.55
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAATATCTTTATC
Found at i:59586055 original size:6 final size:6
Alignment explanation
Indices: 59586044--59586143 Score: 78
Period size: 6 Copynumber: 16.2 Consensus size: 6
59586034 ATTCATATTT
* * *
59586044 TGATTC TGATTC TG-TTACC TGATAC TGATTC TGATTC TG-TCACC TAATTC
1 TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC TGAT--TC TGATTC
* * * *
59586094 TAATTC TGATTC TGATTC TGATTC TGTTATC TGATAC TGATTC TAATTC
1 TGATTC TGATTC TGATTC TGATTC TGAT-TC TGATTC TGATTC TGATTC
59586143 T
1 T
59586144 CATTTTGGTT
Statistics
Matches: 76, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
5 3 0.04
6 61 0.80
7 10 0.13
8 2 0.03
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (6 bp):
TGATTC
Found at i:59586072 original size:25 final size:25
Alignment explanation
Indices: 59586044--59586107 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
59586034 ATTCATATTT
* *
59586044 TGATTCTGATTCTGTTACCTGATAC
1 TGATTCTGATTCTGTCACCTAATAC
*
59586069 TGATTCTGATTCTGTCACCTAATTC
1 TGATTCTGATTCTGTCACCTAATAC
*
59586094 TAATTCTGATTCTG
1 TGATTCTGATTCTG
59586108 ATTCTGATTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.45
Consensus pattern (25 bp):
TGATTCTGATTCTGTCACCTAATAC
Found at i:59586082 original size:31 final size:30
Alignment explanation
Indices: 59586044--59586143 Score: 96
Period size: 31 Copynumber: 3.2 Consensus size: 30
59586034 ATTCATATTT
59586044 TGATTCTGATTCTGTTACCTGATACTGATTC
1 TGATTCTGATTCTGTTA-CTGATACTGATTC
* * * *
59586075 TGATTCTG-TCACCTAATT-CTAATTCTGATTC
1 TGATTCTGAT--TCT-GTTACTGATACTGATTC
59586106 TGATTCTGATTCTGTTATCTGATACTGATTC
1 TGATTCTGATTCTGTTA-CTGATACTGATTC
*
59586137 TAATTCT
1 TGATTCT
59586144 CATTTTGGTT
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
29 2 0.04
30 3 0.06
31 44 0.81
32 3 0.06
33 2 0.04
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (30 bp):
TGATTCTGATTCTGTTACTGATACTGATTC
Found at i:59586137 original size:37 final size:37
Alignment explanation
Indices: 59586062--59586143 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 37
59586052 ATTCTGTTAC
* *
59586062 CTGATACTGATTCTGATTCTGTCACCTAATTCTAATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATACTAATT
* * * *
59586099 CTGATTCTGATTCTGATTCTGTTATCTGATACTGATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATACTAATT
*
59586136 CTAATTCT
1 CTGATTCT
59586144 CATTTTGGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.46
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTCACCTAATACTAATT
Found at i:59587811 original size:27 final size:26
Alignment explanation
Indices: 59587777--59587933 Score: 181
Period size: 27 Copynumber: 5.9 Consensus size: 26
59587767 CAAAATGGTA
*
59587777 ATTT-TACCCCACAAGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTC-GT
59587803 ATTTCTACCCTACAAGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTC-GT
* * * * *
59587830 AATCCTATCCTAGAGGGGTATTTCGAT
1 ATTTCTACCCTACAAGGGTATTTCG-T
59587857 ATTTCTACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTC-GT
*
59587884 ATTTCTACCCTACAGGGGTATTTCGAT
1 ATTTCTACCCTACAAGGGTATTTCG-T
* *
59587911 AATTCTACCCTACAGGGGTATTT
1 ATTTCTACCCTACAAGGGTATTT
59587934 TAATAATTTT
Statistics
Matches: 114, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
26 6 0.05
27 107 0.94
28 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.36
Consensus pattern (26 bp):
ATTTCTACCCTACAAGGGTATTTCGT
Found at i:59587832 original size:54 final size:54
Alignment explanation
Indices: 59587774--59587943 Score: 209
Period size: 54 Copynumber: 3.1 Consensus size: 54
59587764 GGGCAAAATG
* *
59587774 GTAATTTTACCCCACAAGGGTATTTC-AGTATTTCTACCCTACAAGGGTATTTCA
1 GTAATTTTACCCTACAGGGGTATTTCGA-TATTTCTACCCTACAAGGGTATTTCA
** * * *
59587828 GTAATCCTATCCTAGAGGGGTATTTCGATATTTCTACCCTACAAGGGTATTTCG
1 GTAATTTTACCCTACAGGGGTATTTCGATATTTCTACCCTACAAGGGTATTTCA
* * *
59587882 GT-ATTTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTA
1 GTAATTT-TACCCTACAGGGGTATTTCGATATTTCTACCCTACAAGGGTATTTCA
*
59587936 ATAATTTT
1 GTAATTTT
59587944 GTAAATTGAG
Statistics
Matches: 97, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
53 2 0.02
54 90 0.93
55 5 0.05
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (54 bp):
GTAATTTTACCCTACAGGGGTATTTCGATATTTCTACCCTACAAGGGTATTTCA
Found at i:59587866 original size:81 final size:80
Alignment explanation
Indices: 59587777--59587933 Score: 235
Period size: 81 Copynumber: 1.9 Consensus size: 80
59587767 CAAAATGGTA
*
59587777 ATTTTACCCCACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTC-AGTAATCCTATCCT
1 ATTTTACCCCACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGA-TAATCCTACCCT
*
59587841 AGAGGGGTATTTCGAT
65 ACAGGGGTATTTCGAT
* * * *
59587857 ATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTCGATAATTCTACCCT
1 ATTT-TACCCCACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGATAATCCTACCCT
59587922 ACAGGGGTATTT
65 ACAGGGGTATTT
59587934 TAATAATTTT
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
80 4 0.06
81 64 0.93
82 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.36
Consensus pattern (80 bp):
ATTTTACCCCACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGATAATCCTACCCTA
CAGGGGTATTTCGAT
Found at i:59588010 original size:27 final size:26
Alignment explanation
Indices: 59587980--59588210 Score: 180
Period size: 27 Copynumber: 8.6 Consensus size: 26
59587970 TTTAAATCAG
* *
59587980 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTA-TTTAGTAATTTTACAAATCGA
59588007 GGGTATTTTAGTAATTTTACAAATCGA
1 GGGTA-TTTAGTAATTTTACAAATCGA
* *
59588034 GGATATTTCAGTAATTTTGCAAA-CTGA
1 GGGTATTT-AGTAATTTTACAAATC-GA
* * * *
59588061 GGGTATTTCGGTAATTATATAAATTGA
1 GGGTATTT-AGTAATTTTACAAATCGA
59588088 GGGTATTTTAGTAATTTTAC-AATCGA
1 GGGTA-TTTAGTAATTTTACAAATCGA
** *
59588114 CAGTACTTCAGTAATTTTACAAATCGA
1 GGGTA-TTTAGTAATTTTACAAATCGA
* * * * *
59588141 GGATATTTGGGTAATTTTATAAACCGG
1 GGGTATTT-AGTAATTTTACAAATCGA
* * *
59588168 GGGTACTTTGGTAATTTTACAACT-GG
1 GGGTA-TTTAGTAATTTTACAAATCGA
59588194 GGGTATTTCAGTAATTT
1 GGGTATTT-AGTAATTT
59588211 GGTAAACTAA
Statistics
Matches: 164, Mismatches: 32, Indels: 17
0.77 0.15 0.08
Matches are distributed among these distances:
25 3 0.02
26 41 0.25
27 114 0.70
28 6 0.04
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (26 bp):
GGGTATTTAGTAATTTTACAAATCGA
Found at i:59588031 original size:54 final size:53
Alignment explanation
Indices: 59587990--59588210 Score: 201
Period size: 54 Copynumber: 4.1 Consensus size: 53
59587980 GGGTACTTTG
* *
59587990 GTAATTTTACAAGTCGAGGGTATTTTAGTAATTTTACAAATCGAGGATATTTCA
1 GTAATTTTACAA-TCGAGGGTACTTCAGTAATTTTACAAATCGAGGATATTTCA
* * * * * * * * *
59588044 GTAATTTTGCAAACTGAGGGTATTTCGGTAATTATATAAATTGAGGGTATTTTA
1 GTAATTTTACAATC-GAGGGTACTTCAGTAATTTTACAAATCGAGGATATTTCA
** **
59588098 GTAATTTTACAATCGACAGTACTTCAGTAATTTTACAAATCGAGGATATTTGG
1 GTAATTTTACAATCGAGGGTACTTCAGTAATTTTACAAATCGAGGATATTTCA
* * * ** * * *
59588151 GTAATTTTATAAACCGGGGGTACTTTGGTAATTTTACAACT-GGGGGTATTTCA
1 GTAATTTTA-CAATCGAGGGTACTTCAGTAATTTTACAAATCGAGGATATTTCA
59588204 GTAATTT
1 GTAATTT
59588211 GGTAAACTAA
Statistics
Matches: 132, Mismatches: 33, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
53 54 0.41
54 78 0.59
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (53 bp):
GTAATTTTACAATCGAGGGTACTTCAGTAATTTTACAAATCGAGGATATTTCA
Found at i:59588204 original size:80 final size:80
Alignment explanation
Indices: 59587989--59588210 Score: 259
Period size: 80 Copynumber: 2.8 Consensus size: 80
59587979 GGGGTACTTT
* * * *
59587989 GGTAATTTTACAAGTCGAGGGTATTTTAGTAATTTTACAAATCGAGGATATTTCAGTAATTTTGC
1 GGTAATTTTATAAATCGAGGGTATTTTAGTAATTTTAC-AATCGAGGGTATTTCAGTAATTTTAC
*
59588054 AAACTGAGGGTATTTC
65 AAACTGAGGATATTTC
* * ** *
59588070 GGTAATTATATAAATTGAGGGTATTTTAGTAATTTTACAATCGACAGTACTTCAGTAATTTTACA
1 GGTAATTTTATAAATCGAGGGTATTTTAGTAATTTTACAATCGAGGGTATTTCAGTAATTTTACA
*
59588135 AA-TCGAGGATATTTG
66 AACT-GAGGATATTTC
* * * * *
59588150 GGTAATTTTATAAACCGGGGGTACTTTGGTAATTTTACAA-CTGGGGGTATTTCAGTAATTT
1 GGTAATTTTATAAATCGAGGGTATTTTAGTAATTTTACAATC-GAGGGTATTTCAGTAATTT
59588211 GGTAAACTAA
Statistics
Matches: 118, Mismatches: 21, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
79 2 0.02
80 82 0.69
81 34 0.29
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (80 bp):
GGTAATTTTATAAATCGAGGGTATTTTAGTAATTTTACAATCGAGGGTATTTCAGTAATTTTACA
AACTGAGGATATTTC
Found at i:59589607 original size:52 final size:51
Alignment explanation
Indices: 59589501--59589618 Score: 155
Period size: 52 Copynumber: 2.3 Consensus size: 51
59589491 ACTTCTGATC
* * *
59589501 AGTGACAAGTGATAAGTGGTAGCCTCAACTACACTTATCTGATTAGTGACA
1 AGTGACAAGTGATAAGCGGTAGCCTCAACTACACTTATCTGATCAATGACA
* * * * *
59589552 AGTGATAAGTGATAAGCGGTAGCTTTAGCTACCACTTATTTGATCAATGACA
1 AGTGACAAGTGATAAGCGGTAGCCTCAACTA-CACTTATCTGATCAATGACA
59589604 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
59589619 ATGTGATCCG
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
51 26 0.46
52 31 0.54
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (51 bp):
AGTGACAAGTGATAAGCGGTAGCCTCAACTACACTTATCTGATCAATGACA
Found at i:59590058 original size:45 final size:45
Alignment explanation
Indices: 59590008--59590127 Score: 170
Period size: 45 Copynumber: 2.7 Consensus size: 45
59589998 CCAAAAACAA
* *
59590008 GTAAGACCATAGCCGAAAGACGCTATGGCATCGCGATTCAGATGAT
1 GTAAGACCATAGCTGAAAGACGCTATGGCATCACGATTCAGAT-AT
*
59590054 -TAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCAGATAT
1 GTAAGACCATAGCTGAAAGACGCTATGGCATCACGATTCAGATAT
* **
59590098 GTAAGACCATAGTTGAAAGATACTATGGCA
1 GTAAGACCATAGCTGAAAGACGCTATGGCA
59590128 ATATGACGAG
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
44 2 0.03
45 64 0.97
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (45 bp):
GTAAGACCATAGCTGAAAGACGCTATGGCATCACGATTCAGATAT
Found at i:59590159 original size:46 final size:45
Alignment explanation
Indices: 59590099--59590257 Score: 246
Period size: 46 Copynumber: 3.5 Consensus size: 45
59590089 TTCAGATATG
* * *
59590099 TAAGACCATAGTTGAAAGATACTATGGCAATATGACGAGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGAC-AGAAATGAA
59590145 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAG-AAATGAA
*
59590191 TAAGACCATGGTTGAAAGATACCATAGCAACATGACAGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAATGAA
*
59590237 TAAGACCAGGGTTGAAAGATA
1 TAAGACCATGGTTGAAAGATA
59590258 GAAATGAATA
Statistics
Matches: 106, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
45 2 0.02
46 103 0.97
47 1 0.01
ACGTcount: A:0.45, C:0.13, G:0.23, T:0.19
Consensus pattern (45 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAATGAA
Found at i:59590424 original size:13 final size:13
Alignment explanation
Indices: 59590383--59590425 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
59590373 TCAAATGACG
*
59590383 AATGGTTATATGA
1 AATGGTTGTATGA
* **
59590396 ATTGGTTGTACAA
1 AATGGTTGTATGA
59590409 AATGGTTGTATGA
1 AATGGTTGTATGA
59590422 AATG
1 AATG
59590426 TTTACAAGAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.35, C:0.02, G:0.26, T:0.37
Consensus pattern (13 bp):
AATGGTTGTATGA
Found at i:59590440 original size:26 final size:26
Alignment explanation
Indices: 59590383--59590477 Score: 79
Period size: 26 Copynumber: 3.6 Consensus size: 26
59590373 TCAAATGACG
*
59590383 AATGGTTATATGAATTGGTTGTACAA
1 AATGGTTATATGAAATGGTTGTACAA
*
59590409 AATGGTTGTATGAAAT-GTT-TACAA
1 AATGGTTATATGAAATGGTTGTACAA
* *
59590433 GAATTGGTCATATGGAAAT-ATATGTACAA
1 -AA-TGGTTATAT-GAAATGGT-TGTACAA
* *
59590462 AATAGTTGTATGAAAT
1 AATGGTTATATGAAAT
59590478 AATTATGAAG
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
24 5 0.09
25 5 0.09
26 26 0.46
27 12 0.21
28 3 0.05
29 5 0.09
ACGTcount: A:0.39, C:0.04, G:0.21, T:0.36
Consensus pattern (26 bp):
AATGGTTATATGAAATGGTTGTACAA
Found at i:59598637 original size:28 final size:28
Alignment explanation
Indices: 59598597--59598694 Score: 153
Period size: 28 Copynumber: 3.5 Consensus size: 28
59598587 ATAGTAAGTC
*
59598597 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
59598625 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
*
59598653 CGCACACTTAGTGCTATACAATGAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
59598681 CGCACACTTAGTGC
1 CGCACACTTAGTGC
59598695 CAATCTCATT
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
28 65 0.98
29 1 0.02
ACGTcount: A:0.34, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:59605372 original size:44 final size:43
Alignment explanation
Indices: 59605291--59605890 Score: 336
Period size: 44 Copynumber: 13.4 Consensus size: 43
59605281 CATTATGGCG
* * *
59605291 AATCTTATCTCCCTAAAGTTGCAGTGGAGTC-GGTTGAAGTCACT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAG-CAGATTGAAGT-ACT
* * *
59605335 AATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAG-TA-CT
* * *** *
59605380 AATCTTATCTCTCTG-AGATTGCAATAGAATGGATTAAAGCTA-T
1 AATCTTATCTCCCTGAAG-TTGCAGTAGAGCAGATTGAAG-TACT
* * * *
59605423 AAACCTTATCTCCCTGAAGTTGCACTAGAGCAGCTTGAAATTAC-
1 -AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTG-AAGTACT
* *
59605467 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGT
1 AA-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAG-TACT
* * * * *
59605512 AAATCTTATCTCTCTAAAGTCGTAGTAGAGCAGATTAAAGCTA-T
1 -AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAG-TACT
* * * *
59605556 AAACCTTATCTCCCTGAAGTTCCAGTAGAGCAGGTTGAAATTAC-
1 -AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTG-AAGTACT
* * * *
59605600 AAGTCTTATCCCCCTGAAGTTGCAGTAGAGAAAATTGAAGATAGCA
1 AA-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAG-TA-CT
* * *
59605646 AATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGCTA-T
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAG-TACT
* * * * * * *
59605689 AAACCTTATCTCCCTAAAGTTGTAGTGGAGTAGATTGAAGATGCG
1 -AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAG-TACT
* * * * * * *
59605734 AATCTTATTTCCCTGAAGTTGAAGTGGAATGGATTAATGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTAG-A-GCA--GAT--T-GAAG-TACT
* * * * * *
59605785 AATCTTACCTCCTTGGAGTTGCAGTGGAGCAGATTGAAGATGCG
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAG-TACT
* * *
59605829 AATCTTATTTCCCTGAAGTTACAGT-GAAGCAGATTGAAGCTAAT
1 AATCTTATCTCCCTGAAGTTGCAGTAG-AGCAGATTGAAG-TACT
59605873 AATCTTATC-CCCTTGAAG
1 AATCTTATCTCCC-TGAAG
59605891 CTATAGTGGA
Statistics
Matches: 427, Mismatches: 100, Indels: 58
0.73 0.17 0.10
Matches are distributed among these distances:
43 13 0.03
44 266 0.62
45 107 0.25
46 6 0.01
47 2 0.00
48 2 0.00
49 2 0.00
50 2 0.00
51 27 0.06
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGTACT
Found at i:59605436 original size:89 final size:89
Alignment explanation
Indices: 59605291--59605890 Score: 418
Period size: 89 Copynumber: 6.7 Consensus size: 89
59605281 CATTATGGCG
* * * * *
59605291 AATCTTATCTCCCTAAAGTTGCAGTGGAGTCGG-TTGAAG-TCACT-AATCTTGTCTCCCTGAAG
1 AATCTTATCTCCCTGAAGTTGCAGTAGA-ACGGATTAAAGCT-A-TAAATCTTATCTCCCTGAAG
*
59605353 TTGCAGTGGAGCAGATTGAAGATAGCA
63 TTGCAGTAGAGCAGATTGAAGATAGCA
* * * *
59605380 AATCTTATCTCTCTG-AGATTGCAATAGAATGGATTAAAGCTATAAACCTTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAG-TTGCAGTAGAACGGATTAAAGCTATAAATCTTATCTCCCTGAAGTT
* *
59605444 GCACTAGAGCAGCTTGAA-ATTA-CA
65 GCAGTAGAGCAGATTGAAGA-TAGCA
* * * * * * * * *
59605468 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGTAAATCTTATCTCTCTAAAGTC
1 AATCTTATCTCCCTGAAGTTGCAGTAGAACGGATTAAAGCTA-TAAATCTTATCTCCCTGAAGTT
* * * *
59605533 GTAGTAGAGCAGATTAAAGCTA-TA
65 GCAGTAGAGCAGATTGAAGATAGCA
* * * * * * *
59605557 AACCTTATCTCCCTGAAGTTCCAGTAGAGCAGG-TTGAAA-TTACAAGTCTTATCCCCCTGAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAAC-GGATT-AAAGCTATAAATCTTATCTCCCTGAAGT
* *
59605620 TGCAGTAGAGAAAATTGAAGATAGCA
64 TGCAGTAGAGCAGATTGAAGATAGCA
* * * * * *
59605646 AATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGCTATAAACCTTATCTCCCTAAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTAGAACGGATTAAAGCTATAAATCTTATCTCCCTGAAGTTG
* * * *
59605711 TAGTGGAGTAGATTGAAGAT-GCG
66 CAGTAGAGCAGATTGAAGATAGCA
* * * * * * *
59605734 AATCTTATTTCCCTGAAGTTGAAGTGGAATGGATTAATGCTACAAGTTACAAATCTTACCTCCTT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAACGGATTAAAGCT---A--T--AAATCTTATCTCCCT
* * *
59605799 GGAGTTGCAGTGGAGCAGATTGAAGAT-GCG
59 GAAGTTGCAGTAGAGCAGATTGAAGATAGCA
* * * *
59605829 AATCTTATTTCCCTGAAGTTACAGT-GAAGCAGATTGAAGCTA-ATAATCTTATC-CCCTTGAAG
1 AATCTTATCTCCCTGAAGTTGCAGTAGAA-CGGATTAAAGCTATA-AATCTTATCTCCC-TGAAG
59605891 CTATAGTGGA
Statistics
Matches: 398, Mismatches: 90, Indels: 47
0.74 0.17 0.09
Matches are distributed among these distances:
87 3 0.01
88 122 0.31
89 194 0.49
90 4 0.01
91 1 0.00
92 1 0.00
93 1 0.00
94 3 0.01
95 69 0.17
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (89 bp):
AATCTTATCTCCCTGAAGTTGCAGTAGAACGGATTAAAGCTATAAATCTTATCTCCCTGAAGTTG
CAGTAGAGCAGATTGAAGATAGCA
Found at i:59605479 original size:133 final size:133
Alignment explanation
Indices: 59605294--59605761 Score: 604
Period size: 133 Copynumber: 3.5 Consensus size: 133
59605284 TATGGCGAAT
* * * *
59605294 CTTATCTCCCTAAAGTTGCAGTGGAGTC-GGTTGAAGTCACTAA-TCTTGTCTCCCTGAAGTTGC
1 CTTATCTCCCTAAAGTTGCAGTAGAG-CAGGTTGAAATTAC-AAGTCTTATCTCCCTGAAGTTGC
* * ***
59605357 AGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTG-AGATTGCAATAGAATGGATTAAAGCT
64 AGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAG-TTGTAGTAGAGCAGATTAAAGCT
59605421 ATAAAC
128 ATAAAC
* * *
59605427 CTTATCTCCCTGAAGTTGCACTAGAGCAGCTTGAAATTACAAGTCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTAAAGTTGCAGTAGAGCAGGTTGAAATTACAAGTCTTATCTCCCTGAAGTTGCAG
* * *
59605492 TGGAGCAGATTGAAGATAGTAAATCTTATCTCTCTAAAGTCGTAGTAGAGCAGATTAAAGCTATA
66 TGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGCTATA
59605557 AAC
131 AAC
* * *
59605560 CTTATCTCCCTGAAGTTCCAGTAGAGCAGGTTGAAATTACAAGTCTTATCCCCCTGAAGTTGCAG
1 CTTATCTCCCTAAAGTTGCAGTAGAGCAGGTTGAAATTACAAGTCTTATCTCCCTGAAGTTGCAG
* * *
59605625 TAGAGAAAATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGCTATA
66 TGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGCTATA
59605690 AAC
131 AAC
* * * * * * *
59605693 CTTATCTCCCTAAAGTTGTAGTGGAGTAGATTGAAGA-TGCGAA-TCTTATTTCCCTGAAGTTGA
1 CTTATCTCCCTAAAGTTGCAGTAGAGCAGGTTGAA-ATTAC-AAGTCTTATCTCCCTGAAGTTGC
59605756 AGTGGA
64 AGTGGA
59605762 ATGGATTAAT
Statistics
Matches: 294, Mismatches: 36, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
132 3 0.01
133 286 0.97
134 5 0.02
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (133 bp):
CTTATCTCCCTAAAGTTGCAGTAGAGCAGGTTGAAATTACAAGTCTTATCTCCCTGAAGTTGCAG
TGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGCTATA
AAC
Found at i:59607174 original size:31 final size:31
Alignment explanation
Indices: 59607138--59607199 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
59607128 ACGACTAAGT
59607138 GTGTACATCCCCACAAACAACATGCATACAA
1 GTGTACATCCCCACAAACAACATGCATACAA
59607169 GTGTACATCCCCACAAACAACATGCATACAA
1 GTGTACATCCCCACAAACAACATGCATACAA
59607200 ACAGATAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.32, G:0.10, T:0.16
Consensus pattern (31 bp):
GTGTACATCCCCACAAACAACATGCATACAA
Found at i:59607398 original size:40 final size:38
Alignment explanation
Indices: 59607306--59607402 Score: 95
Period size: 40 Copynumber: 2.5 Consensus size: 38
59607296 ACCATCTCCT
* * * *
59607306 TCCAACCCAACACACCATGTGGGGATAAAATCGATCCA
1 TCCAACCCTACACACCATATAGGGATAAAATCGACCCA
* * * * *
59607344 CCCATCCTTGCACACCGTATATAGGGATATAATCGACCCA
1 TCCAACCCTACACACC--ATATAGGGATAAAATCGACCCA
59607384 TCCAACCCTACACACCATA
1 TCCAACCCTACACACCATA
59607403 AAGTACCACA
Statistics
Matches: 44, Mismatches: 13, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
38 14 0.32
40 30 0.68
ACGTcount: A:0.34, C:0.35, G:0.12, T:0.19
Consensus pattern (38 bp):
TCCAACCCTACACACCATATAGGGATAAAATCGACCCA
Found at i:59609751 original size:15 final size:15
Alignment explanation
Indices: 59609727--59609756 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
59609717 CACAACTAAT
59609727 CGAAAAAGAAGAAAA
1 CGAAAAAGAAGAAAA
*
59609742 CGAAAGAGAAGAAAA
1 CGAAAAAGAAGAAAA
59609757 ATGGAGAAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.07, G:0.23, T:0.00
Consensus pattern (15 bp):
CGAAAAAGAAGAAAA
Found at i:59610278 original size:22 final size:24
Alignment explanation
Indices: 59610240--59610290 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 24
59610230 CCCAACAAGC
*
59610240 CCAAATCAAATACAAAACC-AAA-
1 CCAAATCAAACACAAAACCTAAAG
59610262 CCAAATCAAAC-CAAAAACCTAAAG
1 CCAAATCAAACAC-AAAACCTAAAG
59610286 CCAAA
1 CCAAA
59610291 ACTATAGCCC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 1 0.04
22 16 0.64
23 3 0.12
24 5 0.20
ACGTcount: A:0.61, C:0.29, G:0.02, T:0.08
Consensus pattern (24 bp):
CCAAATCAAACACAAAACCTAAAG
Found at i:59611405 original size:3 final size:3
Alignment explanation
Indices: 59611397--59611593 Score: 124
Period size: 3 Copynumber: 66.3 Consensus size: 3
59611387 TAATTTAATA
* *
59611397 TAT TAT TAT TAT TAT TAT CAT TAT T-T TAC TAT TAT TACT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
* * *
59611441 TCGT TAG TAT TAT TAT TAAT T-T TACC T-T TAT T-T CCT-T TAT TAT
1 T-AT TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TAT --TAT TAT TAT
* * * *
59611484 TAT TTT TAT TAT CAT TAAT TAT TAT TAT TAT TAT TAT TAC TAT TTT
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * **
59611530 TAT TAC TAT TAC TAC TAT TAT TAT TA- TAC TGT TAT TAT TCC TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
59611576 TAT TAT TAT TA- TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
59611594 TTTACCTATT
Statistics
Matches: 150, Mismatches: 29, Indels: 30
0.72 0.14 0.14
Matches are distributed among these distances:
2 15 0.10
3 121 0.81
4 14 0.09
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:59611758 original size:15 final size:15
Alignment explanation
Indices: 59611728--59611761 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
59611718 TTACCATTAC
*
59611728 CATTAATATTATTAT
1 CATTAATATTACTAT
*
59611743 CATTATTATTACTAT
1 CATTAATATTACTAT
59611758 CATT
1 CATT
59611762 TTTTAAATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (15 bp):
CATTAATATTACTAT
Found at i:59615653 original size:50 final size:50
Alignment explanation
Indices: 59615575--59615751 Score: 230
Period size: 50 Copynumber: 3.5 Consensus size: 50
59615565 CCATGGAAAC
59615575 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * ** * *
59615625 AATTGATAAGTAATAATTTCGGCTACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
59615675 AAGTGATAAGTGATAGCTTCGGTTACACTTATCTGATCAATGG-CAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGACAAATGA
* * * *
59615725 CAACTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
59615752 CTGATCAGTG
Statistics
Matches: 107, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
50 84 0.79
51 23 0.21
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:59615906 original size:31 final size:31
Alignment explanation
Indices: 59615729--59615898 Score: 268
Period size: 31 Copynumber: 5.5 Consensus size: 31
59615719 AAATGACAAC
* *
59615729 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
59615760 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
* *
59615791 TGAAAAATGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
59615822 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
* * *
59615853 TGAAAAATGGTAGCACCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
*
59615884 TGAATAGTGGTAGCT
1 TGAAAAGTGGTAGCT
59615899 TTGGCTACAA
Statistics
Matches: 127, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 127 1.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
Found at i:59615906 original size:62 final size:62
Alignment explanation
Indices: 59615729--59615898 Score: 295
Period size: 62 Copynumber: 2.7 Consensus size: 62
59615719 AAATGACAAC
*
59615729 TGAAAAGTGGTAGCTTCAGCTACCTGATCAGTGAAAAGTGGTAGCTCCGGCTACCTGATCAG
1 TGAAAAATGGTAGCTTCAGCTACCTGATCAGTGAAAAGTGGTAGCTCCGGCTACCTGATCAG
*
59615791 TGAAAAATGGTAGCTTCGGCTACCTGATCAGTGAAAAGTGGTAGCTCCGGCTACCTGATCAG
1 TGAAAAATGGTAGCTTCAGCTACCTGATCAGTGAAAAGTGGTAGCTCCGGCTACCTGATCAG
** *
59615853 TGAAAAATGGTAGCACCAGCTACCTGATCAGTGAATAGTGGTAGCT
1 TGAAAAATGGTAGCTTCAGCTACCTGATCAGTGAAAAGTGGTAGCT
59615899 TTGGCTACAA
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 102 1.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (62 bp):
TGAAAAATGGTAGCTTCAGCTACCTGATCAGTGAAAAGTGGTAGCTCCGGCTACCTGATCAG
Found at i:59615917 original size:7 final size:7
Alignment explanation
Indices: 59615905--59615933 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
59615895 AGCTTTGGCT
59615905 ACAAGTG
1 ACAAGTG
59615912 ACAAGTG
1 ACAAGTG
59615919 ACAAGTG
1 ACAAGTG
59615926 ACAAGTG
1 ACAAGTG
59615933 A
1 A
59615934 TTTCTGCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
ACAAGTG
Found at i:59616024 original size:47 final size:47
Alignment explanation
Indices: 59615941--59616062 Score: 147
Period size: 47 Copynumber: 2.6 Consensus size: 47
59615931 TGATTTCTGC
* * * *
59615941 ATAAGACCATATTTGAGATATGGCATCGGTGTGATATATG-CTACTGT
1 ATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTAC-GT
* * *
59615988 ATAAGACCATATCTGGGATATGACATCAGTGAGATATGTGATTACGT
1 ATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTACGT
* *
59616035 ATAAGACCATAGCTGGGCTATGGCATCA
1 ATAAGACCATATCTGGGATATGGCATCA
59616063 TTATGTAAAG
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
47 61 0.95
48 3 0.05
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.30
Consensus pattern (47 bp):
ATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTACGT
Found at i:59624217 original size:16 final size:15
Alignment explanation
Indices: 59624182--59624233 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
59624172 CTAATCGAAA
59624182 AAGAAGAAAATGAAG
1 AAGAAGAAAATGAAG
* *
59624197 GAGAAGAAAAATGGAG
1 AAGAAG-AAAATGAAG
*
59624213 AAGAAGGGAAAAAGAAG
1 AAGAA--GAAAATGAAG
59624230 AAGA
1 AAGA
59624234 GAAGTTCGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 5 0.17
16 12 0.41
17 11 0.38
18 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.33, T:0.04
Consensus pattern (15 bp):
AAGAAGAAAATGAAG
Found at i:59624236 original size:19 final size:20
Alignment explanation
Indices: 59624178--59624237 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 20
59624168 ACAACTAATC
*
59624178 GAAAAAGAAGAAAATGAAGGA
1 GAAAAAGAAGAAGA-GAAGGA
*
59624199 GAAGAAA-AATGGAGAAGAAGG-
1 GAA-AAAGAA-GAAG-AGAAGGA
59624220 GAAAAAGAAGAAGAGAAG
1 GAAAAAGAAGAAGAGAAG
59624238 TTCGACAGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
19 5 0.16
20 6 0.19
21 10 0.31
22 10 0.31
23 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.33, T:0.03
Consensus pattern (20 bp):
GAAAAAGAAGAAGAGAAGGA
Found at i:59631589 original size:15 final size:15
Alignment explanation
Indices: 59631547--59631598 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
59631537 TTTTATAAAA
*
59631547 AATATTTTAATTTTT
1 AATATTTAAATTTTT
*
59631562 --TATTTAATTTTTTT
1 AATATTTAA-ATTTTT
59631576 AATATTTAAATTTTT
1 AATATTTAAATTTTT
*
59631591 ACTATTTA
1 AATATTTA
59631599 TCAAATTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
13 6 0.20
14 5 0.17
15 12 0.40
16 7 0.23
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (15 bp):
AATATTTAAATTTTT
Found at i:59631734 original size:21 final size:23
Alignment explanation
Indices: 59631697--59631739 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
59631687 AATATAAAAA
59631697 ATTTAAAAAATATAG-AATATTT
1 ATTTAAAAAATATAGAAATATTT
59631719 ATTT-AAAAATCA-AGAAATATT
1 ATTTAAAAAAT-ATAGAAATATT
59631740 AGAAGTGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (23 bp):
ATTTAAAAAATATAGAAATATTT
Found at i:59631771 original size:19 final size:19
Alignment explanation
Indices: 59631749--59631785 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
59631739 TAGAAGTGTG
59631749 AATTTATATAAAAATATTA
1 AATTTATATAAAAATATTA
59631768 AATTTATATAAAAATATT
1 AATTTATATAAAAATATT
59631786 TTTTAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AATTTATATAAAAATATTA
Found at i:59632226 original size:19 final size:20
Alignment explanation
Indices: 59632191--59632228 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
59632181 TGTTACATCA
*
59632191 ATAAATAATTTAAAATTTAT
1 ATAAATAATTCAAAATTTAT
59632211 ATAAAT-ATTCAAAATTTA
1 ATAAATAATTCAAAATTTA
59632229 AAAAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
ATAAATAATTCAAAATTTAT
Found at i:59633144 original size:38 final size:38
Alignment explanation
Indices: 59633102--59633180 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
59633092 TCCCAAATTG
*
59633102 AGATGTCCTAAGCTAGAGGAATAGCCATATTGCATTAA
1 AGATGTCCTAAGCTAGAGGAATAGCCATACTGCATTAA
59633140 AGATGTCCTAAGCTAGAGGAATAGCCATACTGCATTAA
1 AGATGTCCTAAGCTAGAGGAATAGCCATACTGCATTAA
59633178 AGA
1 AGA
59633181 GGATTAGTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (38 bp):
AGATGTCCTAAGCTAGAGGAATAGCCATACTGCATTAA
Found at i:59637037 original size:26 final size:26
Alignment explanation
Indices: 59637006--59637113 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
59636996 TGAAATGCCC
*
59637006 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
59637032 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
59637058 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
59637084 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
59637110 ATCA
1 ATCA
59637114 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:59641671 original size:31 final size:32
Alignment explanation
Indices: 59641631--59641699 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 32
59641621 TTTTTTATCC
* * *
59641631 AATTAGGTACTTGAACTTGA-TTTCTTGGTTCA
1 AATTAGGTACCTAAACTTGACTTT-TTGGTCCA
59641663 AATT-GGTACCTAAACTTGACTTTTTGGTCCA
1 AATTAGGTACCTAAACTTGACTTTTTGGTCCA
59641694 AATTAG
1 AATTAG
59641700 TGCTTACAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 24 0.75
32 8 0.25
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (32 bp):
AATTAGGTACCTAAACTTGACTTTTTGGTCCA
Found at i:59643982 original size:15 final size:14
Alignment explanation
Indices: 59643964--59643993 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
59643954 GTATACATAT
59643964 TTTATATTATATTTA
1 TTTATATT-TATTTA
59643979 TTTATATTTATTTA
1 TTTATATTTATTTA
59643993 T
1 T
59643994 GAATTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTATATTTATTTA
Found at i:59643985 original size:10 final size:10
Alignment explanation
Indices: 59643964--59643993 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
59643954 GTATACATAT
59643964 TTTATATTATA
1 TTTAT-TTATA
59643975 TTTATTTATA
1 TTTATTTATA
59643985 TTTATTTAT
1 TTTATTTAT
59643994 GAATTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 14 0.74
11 5 0.26
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTATTTATA
Found at i:59644087 original size:34 final size:36
Alignment explanation
Indices: 59644044--59644118 Score: 113
Period size: 34 Copynumber: 2.2 Consensus size: 36
59644034 ACTTTTTGTA
59644044 TATATTATATTATATACA-TTATATTA-TATAT-TTT
1 TATATTATATTATATA-ATTTATATTACTATATATTT
59644078 TATATTATATTATATAATTTATATTACTATATATTT
1 TATATTATATTATATAATTTATATTACTATATATTT
59644114 T-TATT
1 TATATT
59644119 TGTAAATTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
33 1 0.03
34 24 0.63
35 9 0.24
36 4 0.11
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (36 bp):
TATATTATATTATATAATTTATATTACTATATATTT
Found at i:59644150 original size:5 final size:5
Alignment explanation
Indices: 59644044--59644134 Score: 68
Period size: 5 Copynumber: 18.8 Consensus size: 5
59644034 ACTTTTTGTA
* *
59644044 TATAT TATAT TATA- TACAT TATAT TATA- TATTTT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT TATAT TATAT
* * *
59644093 AAT-T TATAT TACTA- TATAT T-T-T TATTT GTAAAT TATAT TATA
1 TATAT TATAT TA-TAT TATAT TATAT TATAT -TATAT TATAT TATA
59644135 CACTATATAT
Statistics
Matches: 68, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
3 2 0.03
4 12 0.18
5 47 0.69
6 7 0.10
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:59645699 original size:26 final size:26
Alignment explanation
Indices: 59645664--59645729 Score: 105
Period size: 26 Copynumber: 2.5 Consensus size: 26
59645654 TATCACATTA
*
59645664 ATAAATAATTTAAAATCTATACAAAT
1 ATAAAAAATTTAAAATCTATACAAAT
59645690 ATAAAAAATTTAAAATCTATACAAAT
1 ATAAAAAATTTAAAATCTATACAAAT
*
59645716 ATTTAAAAATTTAA
1 A-TAAAAAATTTAA
59645730 TAAAAATCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
26 26 0.70
27 11 0.30
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (26 bp):
ATAAAAAATTTAAAATCTATACAAAT
Found at i:59646190 original size:5 final size:5
Alignment explanation
Indices: 59646175--59646207 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
59646165 TGTGTGTTCT
59646175 TTTTA -TTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
59646208 TTTACAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:59646198 original size:15 final size:14
Alignment explanation
Indices: 59646175--59646211 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
59646165 TGTGTGTTCT
59646175 TTTTATTTATTTTA
1 TTTTATTTATTTTA
59646189 TTTTATTTTATTTTA
1 TTTTA-TTTATTTTA
59646204 TTTT-TTTA
1 TTTTATTTA
59646212 CAAATTAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.18
14 5 0.23
15 13 0.59
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTATTTATTTTA
Found at i:59650629 original size:14 final size:14
Alignment explanation
Indices: 59650610--59650636 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
59650600 TGTGTGTTCT
59650610 TTTTATTTATTTTA
1 TTTTATTTATTTTA
59650624 TTTTATTTATTTT
1 TTTTATTTATTTT
59650637 TTTACAAGCT
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:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTATTTATTTTA
Found at i:59656901 original size:5 final size:5
Alignment explanation
Indices: 59656891--59656925 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
59656881 TTTGATAATG
*
59656891 TAAAA TAAAA TAAAA TAAAA TAAAG TAGAAA TAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TA-AAA TAAA
59656926 CAAAAGAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:59662409 original size:23 final size:23
Alignment explanation
Indices: 59662383--59662428 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
59662373 TGAAAAATGG
59662383 CCGAAATATTCTCGTTGAGGTTA
1 CCGAAATATTCTCGTTGAGGTTA
59662406 CCGAAATATTCTCGTTGAGGTTA
1 CCGAAATATTCTCGTTGAGGTTA
59662429 ACTCTTTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (23 bp):
CCGAAATATTCTCGTTGAGGTTA
Found at i:59671235 original size:13 final size:13
Alignment explanation
Indices: 59671217--59671243 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
59671207 TCTTGACAGG
59671217 GACACGCCCGTGT
1 GACACGCCCGTGT
59671230 GACACGCCCGTGT
1 GACACGCCCGTGT
59671243 G
1 G
59671244 CGATTACTCC
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:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:59675001 original size:20 final size:20
Alignment explanation
Indices: 59674973--59675011 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
59674963 CCGTATATGT
59674973 AATTCGTTTT-TATGTAAAGA
1 AATTCGTTTTCTA-GTAAAGA
*
59674993 AATTTGTTTTCTAGTAAAG
1 AATTCGTTTTCTAGTAAAG
59675012 TTGTTCTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.46
Consensus pattern (20 bp):
AATTCGTTTTCTAGTAAAGA
Found at i:59684118 original size:3 final size:3
Alignment explanation
Indices: 59684110--59684161 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
59684100 AATGCATAAC
*
59684110 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATT ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
59684158 ATA A
1 ATA A
59684162 CAACAACAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:59688832 original size:30 final size:30
Alignment explanation
Indices: 59688797--59688853 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
59688787 TACAACCATG
59688797 ACACACGGACGTGTGGCCTACCCGTGTTTC
1 ACACACGGACGTGTGGCCTACCCGTGTTTC
** **
59688827 ACACACGGGTGTGTGGGTTACCCGTGT
1 ACACACGGACGTGTGGCCTACCCGTGT
59688854 GGAAGTGCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.16, C:0.28, G:0.32, T:0.25
Consensus pattern (30 bp):
ACACACGGACGTGTGGCCTACCCGTGTTTC
Found at i:59690636 original size:11 final size:11
Alignment explanation
Indices: 59690620--59690644 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
59690610 TTATATATAC
59690620 TAATAAAATAA
1 TAATAAAATAA
59690631 TAATAAAATAA
1 TAATAAAATAA
59690642 TAA
1 TAA
59690645 AATATCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:59691907 original size:43 final size:42
Alignment explanation
Indices: 59691802--59691907 Score: 133
Period size: 42 Copynumber: 2.5 Consensus size: 42
59691792 AGATATTTAT
* *
59691802 GTGTAAGACCATGTCTGGGACATAGGCATCGTATCTGATTGC
1 GTGTAAGACCATGTCTGGGACAGAGGCATCGTATCTGATTAC
* * *
59691844 ATGTAAAACCCTGTCTGGGACAGAGGCATCG-ATACTGAATTAC
1 GTGTAAGACCATGTCTGGGACAGAGGCATCGTAT-CTG-ATTAC
*
59691887 GTGTAAGACCATGTCCGGGAC
1 GTGTAAGACCATGTCTGGGAC
59691908 GTCAACATTT
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
41 2 0.04
42 30 0.57
43 21 0.40
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACAGAGGCATCGTATCTGATTAC
Found at i:59700266 original size:44 final size:44
Alignment explanation
Indices: 59700202--59700600 Score: 345
Period size: 44 Copynumber: 8.9 Consensus size: 44
59700192 TGAAGAATTG
* * * *
59700202 TATCTCCTTGAAATTGCAGTGGAGTAGATTAAAGCCACAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCT
* * * *
59700246 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAGCAAATAT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CAAATCT
* * * * *
59700291 TATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGCTATAAACCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCT
* * * *
59700335 TATCTCCCTGGAGTTGCAGTGGAGCAGGTTAAAGTTACAAACCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCT
* * * * * *
59700379 TATCCCCCCTGAAGTT---GTGGAGTAGGTTAAAGTTCCAAATTT
1 TAT-CTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCT
* * *
59700421 TATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCT
* * * * * *
59700465 TATCTCCTTGAAGTTACAATGGAGCAAATTAAAGATAGCGAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CAAATCT
* * * *
59700510 TATTTTCCTGAAGTTGAAGTGGAACAGATTAAAGCTGCAAACCGCAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCT----A---CAAATCT
* *
59700561 TATCTTCCTGGAGTTGCAGTGGAGCAGATTAAAGCTACAA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAA
59700601 GCCTAATCCC
Statistics
Matches: 286, Mismatches: 57, Indels: 24
0.78 0.16 0.07
Matches are distributed among these distances:
41 11 0.04
42 25 0.09
44 129 0.45
45 80 0.28
47 1 0.00
49 1 0.00
51 39 0.14
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCT
Found at i:59700341 original size:89 final size:84
Alignment explanation
Indices: 59700220--59700532 Score: 302
Period size: 89 Copynumber: 3.6 Consensus size: 84
59700210 TGAAATTGCA
* * * * *
59700220 GTGGAGTAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAGC
1 GTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTA-C
*
59700285 AAATATTATCTCTCTGAAGTT
65 AAATCTTATCTC-CTGAAGTT
* * * *
59700306 GTAGTAGAGCAGATTAAAGCTATAAACCTTATCTCCCTGGAGTTGCAGTGGAGCAGGTTAAAGTT
1 GT-G--GAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTT
* *
59700371 ACAAACCTTATCCCCCCTGAAGTT
63 ACAAATCTTAT--CTCCTGAAGTT
* * * * *
59700395 GTGGAGTAGGTTAAAGTTCCAAATTTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACA
1 GTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACA
59700460 AATCTTATCTCCTTGAAGTT
66 AATCTTATCTCC-TGAAGTT
* * * * * * *
59700480 ACAATGGAGCAAATTAAAGATAGCGAATCTTATTTTCCTGAAGTTGAAGTGGA
1 ---GTGGAGCAGATTAAAGCTA-CAAATCTTATCTCCCTGAAGTTGCAGTGGA
59700533 ACAGATTAAA
Statistics
Matches: 183, Mismatches: 34, Indels: 17
0.78 0.15 0.07
Matches are distributed among these distances:
84 3 0.02
85 7 0.04
86 62 0.34
87 1 0.01
88 22 0.12
89 86 0.47
90 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.30
Consensus pattern (84 bp):
GTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACA
AATCTTATCTCCTGAAGTT
Found at i:59700436 original size:86 final size:85
Alignment explanation
Indices: 59700220--59700468 Score: 284
Period size: 86 Copynumber: 2.9 Consensus size: 85
59700210 TGAAATTGCA
* * * *
59700220 GTGGAGTAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAGC
1 GTGGAGTAGATTAAAGTC-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTA-C
* * *
59700285 AAATATTAT-CTCTCTGAAGTT
64 AAATCTTATCCCCCCTGAAGTT
* ** * * *
59700306 GTAGTAGAGCAGATTAAAGCTATAAACCTTATCTCCCTGGAGTTGCAGTGGAGCAGGTTAAAGTT
1 GT-G--GAGTAGATTAAAG-TCCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTT
*
59700371 ACAAACCTTATCCCCCCTGAAGTT
62 ACAAATCTTATCCCCCCTGAAGTT
* *
59700395 GTGGAGTAGGTTAAAGTTCCAAATTTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACA
1 GTGGAGTAGATTAAAG-TCCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACA
59700460 AATCTTATC
65 AATCTTATC
59700469 TCCTTGAAGT
Statistics
Matches: 134, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
86 63 0.47
87 1 0.01
88 9 0.07
89 61 0.46
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (85 bp):
GTGGAGTAGATTAAAGTCCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAA
ATCTTATCCCCCCTGAAGTT
Found at i:59702246 original size:4 final size:4
Alignment explanation
Indices: 59702237--59702281 Score: 56
Period size: 4 Copynumber: 11.2 Consensus size: 4
59702227 CGCAAATTTC
* *
59702237 TTAT TTAT TTAT TTAT TTATT TTGT TTAG TTAT TTA- TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTA-T TTAT TTAT TTAT TTAT TTAT TTAT T
59702282 AATTCTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
3 3 0.09
4 29 0.83
5 3 0.09
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:59702264 original size:21 final size:20
Alignment explanation
Indices: 59702240--59702278 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
59702230 AAATTTCTTA
*
59702240 TTTATTTATTTATTTATTTTG
1 TTTAGTTATTTA-TTATTTTG
59702261 TTTAGTTATTTATTATTT
1 TTTAGTTATTTATTATTT
59702279 ATTAATTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (20 bp):
TTTAGTTATTTATTATTTTG
Found at i:59706757 original size:14 final size:14
Alignment explanation
Indices: 59706738--59706772 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
59706728 CGACCTTGAT
59706738 AGGTCCAAGGTGCA
1 AGGTCCAAGGTGCA
*
59706752 AGGTCCAAGGTTCA
1 AGGTCCAAGGTGCA
*
59706766 TGGTCCA
1 AGGTCCA
59706773 GGATCCAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.20
Consensus pattern (14 bp):
AGGTCCAAGGTGCA
Found at i:59716683 original size:10 final size:9
Alignment explanation
Indices: 59716642--59716692 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 9
59716632 TGGAATCAGG
59716642 TTTTATAATT
1 TTTTATAA-T
59716652 TTTAATATAAT
1 TTT--TATAAT
59716663 TTTTA-AAT
1 TTTTATAAT
59716671 TTTTATGAAT
1 TTTTAT-AAT
59716681 TTTTAATAAT
1 TTTT-ATAAT
59716691 TT
1 TT
59716693 ATTTAATTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
8 8 0.22
9 2 0.06
10 15 0.42
11 6 0.17
12 5 0.14
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Done.