Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 157 of 186
Found at i:52257374 original size:8 final size:8
Alignment explanation
Indices: 52257361--52257390 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
52257351 AGATCGGCAC
52257361 AAGCCGAA
1 AAGCCGAA
52257369 AAGCCGAA
1 AAGCCGAA
*
52257377 ATGCCGAA
1 AAGCCGAA
52257385 AAGCCG
1 AAGCCG
52257391 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:52257863 original size:54 final size:54
Alignment explanation
Indices: 52257777--52257938 Score: 229
Period size: 54 Copynumber: 3.0 Consensus size: 54
52257767 TAGAGGAAGC
* *
52257777 GTCCTGGTGGCTATGCCATAATTATCTAATCTGGTGGCTTTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTTTGCCACATATATCT
*
52257831 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTTTGCCACATATATCT
* * * * *
52257885 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTGACTTCGTCACA-ATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTTTGCCACATATATCT
52257938 G
1 G
52257939 GCAGCCTCGC
Statistics
Matches: 98, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
53 13 0.13
54 85 0.87
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTTTGCCACATATATCT
Found at i:52257931 original size:27 final size:27
Alignment explanation
Indices: 52257780--52257938 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
52257770 AGGAAGCGTC
* * *
52257780 CTGGTGGCTATGCCATAATTATCT-AAT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
* *
52257807 CTGGTGGCTTTGCCACATATATCTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
*
52257834 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
52257861 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
52257888 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
52257915 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
52257939 GCAGCCTCGC
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 103 0.90
28 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:52257932 original size:81 final size:80
Alignment explanation
Indices: 52257780--52257938 Score: 189
Period size: 81 Copynumber: 2.0 Consensus size: 80
52257770 AGGAAGCGTC
* * *
52257780 CTGGTGGCTATGCCATAATTATCTAATCTGGTGGCTTTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
52257845 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* ** *
52257861 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTAATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
*
52257924 -TCGTCACAATATCTG
64 AT-GCCACAATATCTG
52257939 GCAGCCTCGC
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
80 17 0.25
81 50 0.75
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.35
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
GCCACAATATCTGAT
Found at i:52259062 original size:24 final size:24
Alignment explanation
Indices: 52258996--52259110 Score: 101
Period size: 23 Copynumber: 4.9 Consensus size: 24
52258986 TCAACTTGTA
* *
52258996 AGAGCTTACTATTTT-AGCTCATT
1 AGAGCTTACTGTTTTCAGCTCGTT
* *** *
52259019 GGAGCTTAC-CAATTCAGCTCGGT
1 AGAGCTTACTGTTTTCAGCTCGTT
*
52259042 AGAGCTTACTGTTTTCAGCTCATT
1 AGAGCTTACTGTTTTCAGCTCGTT
* *
52259066 GGAGCTTACCGTTTT-AGCTCGTT
1 AGAGCTTACTGTTTTCAGCTCGTT
*
52259089 AGAGCTTACTGTTCATCAGCTC
1 AGAGCTTACTGTT-TTCAGCTC
52259111 AAGACGAGCT
Statistics
Matches: 70, Mismatches: 18, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
22 2 0.03
23 40 0.57
24 23 0.33
25 5 0.07
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.37
Consensus pattern (24 bp):
AGAGCTTACTGTTTTCAGCTCGTT
Found at i:52259074 original size:47 final size:47
Alignment explanation
Indices: 52258964--52259111 Score: 176
Period size: 47 Copynumber: 3.1 Consensus size: 47
52258954 AGACTCACCA
* * *
52258964 CAGCTCATATGG-GCTTACCGATTCAACT-TGTAAGAGCTTACTATTTT
1 CAGCTCAT-TGGAGCTTACCGATTCAGCTCGGT-AGAGCTTACTGTTTT
*
52259011 -AGCTCATTGGAGCTTACCAATTCAGCTCGGTAGAGCTTACTGTTTT
1 CAGCTCATTGGAGCTTACCGATTCAGCTCGGTAGAGCTTACTGTTTT
* * * *
52259057 CAGCTCATTGGAGCTTACCGTTTTAGCTCGTTAGAGCTTACTGTTCAT
1 CAGCTCATTGGAGCTTACCGATTCAGCTCGGTAGAGCTTACTGTT-TT
52259105 CAGCTCA
1 CAGCTCA
52259112 AGACGAGCTT
Statistics
Matches: 88, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
45 3 0.03
46 35 0.40
47 42 0.48
48 8 0.09
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (47 bp):
CAGCTCATTGGAGCTTACCGATTCAGCTCGGTAGAGCTTACTGTTTT
Found at i:52259862 original size:396 final size:396
Alignment explanation
Indices: 52259130--52259903 Score: 1361
Period size: 396 Copynumber: 2.0 Consensus size: 396
52259120 TTACCGATCA
*
52259130 TGGCTCAAAAGAGCATATATGATGATGAATTGACAGATTAATGATGGTATTCACTCTTGTATCCT
1 TGGCTCAAAAGAGCATATATGATGATGAATTGACAGATTAATGATGATATTCACTCTTGTATCCT
*
52259195 TTGAAGTTCTAATAAGTTCAACGGGACAATATGCTGCTTATACGGATAAGTTACAGATTATAAAT
66 TTGAAGTTCTAATAAGTTCAACGGGACAATATGCTGCTTATACAGATAAGTTACAGATTATAAAT
*
52259260 GTTACTAGTGTTATATATATATGATATATGGATTTTGGAATGATGTAAAGTATTGTATCAATGGA
131 GTTACTAGTGTTATATATATATGATATATGAATTTTGGAATGATGTAAAGTATTGTATCAATGGA
*
52259325 TGATTTTATGTATTTGGCAAATGACTAACATGTGTTGGATACTTGTGATTAGGTGTTGGATAATT
196 TGATTTTATGTATTTGGCAAATGACTAACATGTGATGGATACTTGTGATTAGGTGTTGGATAATT
52259390 AAATTGTTGGCACATTTAATGTTACCTTGATTATGTTTGAATGGTAAGTTTAATTCTGAATTATA
261 AAATTGTTGGCACATTTAATGTTACCTTGATTATGTTTGAATGGTAAGTTTAATTCTGAATTATA
* *
52259455 CGGGCTTACTAAGCTTTAAAGCTTACTCATTTTCTTTTTCTATGTTTTATAGAGGTTCGTTAGCT
326 CGGGCTTACTAAACTTTAAAGCTTACTCAGTTTCTTTTTCTATGTTTTATAGAGGTTCGTTAGCT
52259520 CGCTCG
391 CGCTCG
* * *
52259526 TGGCTCAAAAGAGCATATATGATGATGAATTGACTGATTATTGATGATGTTCACT-TGTGTATCC
1 TGGCTCAAAAGAGCATATATGATGATGAATTGACAGATTAATGATGATATTCACTCT-TGTATCC
* *
52259590 TTTGAAGTTCTAATAAGTTCAACGGGACTATATGCTGTTTATACAGATAAGTTACAGATTATAAA
65 TTTGAAGTTCTAATAAGTTCAACGGGACAATATGCTGCTTATACAGATAAGTTACAGATTATAAA
*
52259655 TGTTACTAGTGTTATATATATATGATATGTGAATTTTGGAATGATGTAAAGTATTGTATCAATGG
130 TGTTACTAGTGTTATATATATATGATATATGAATTTTGGAATGATGTAAAGTATTGTATCAATGG
* *
52259720 ATGATTTTGTGTATTTGTCAAATGACTAACATGTGATGGATACTTGTGATTAGGTGTTGGATAAT
195 ATGATTTTATGTATTTGGCAAATGACTAACATGTGATGGATACTTGTGATTAGGTGTTGGATAAT
* * *
52259785 TAAATTGTTGGCATATTTAATTTTTCCTTGATTATGTTTGAATGGTAAGTTTAATTCTGAATTAT
260 TAAATTGTTGGCACATTTAATGTTACCTTGATTATGTTTGAATGGTAAGTTTAATTCTGAATTAT
* *
52259850 ACGGGCTTACTAAATTTTAAAGCTTACTCAGTTTCTTTTTCTATGTTTTCTAGA
325 ACGGGCTTACTAAACTTTAAAGCTTACTCAGTTTCTTTTTCTATGTTTTATAGA
52259904 TGTAACACCC
Statistics
Matches: 358, Mismatches: 19, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
395 1 0.00
396 357 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.41
Consensus pattern (396 bp):
TGGCTCAAAAGAGCATATATGATGATGAATTGACAGATTAATGATGATATTCACTCTTGTATCCT
TTGAAGTTCTAATAAGTTCAACGGGACAATATGCTGCTTATACAGATAAGTTACAGATTATAAAT
GTTACTAGTGTTATATATATATGATATATGAATTTTGGAATGATGTAAAGTATTGTATCAATGGA
TGATTTTATGTATTTGGCAAATGACTAACATGTGATGGATACTTGTGATTAGGTGTTGGATAATT
AAATTGTTGGCACATTTAATGTTACCTTGATTATGTTTGAATGGTAAGTTTAATTCTGAATTATA
CGGGCTTACTAAACTTTAAAGCTTACTCAGTTTCTTTTTCTATGTTTTATAGAGGTTCGTTAGCT
CGCTCG
Found at i:52260906 original size:14 final size:14
Alignment explanation
Indices: 52260887--52260916 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
52260877 GATCCTATAA
52260887 AATGAGGAAAAAGG
1 AATGAGGAAAAAGG
52260901 AATGAGGAAAAAGG
1 AATGAGGAAAAAGG
52260915 AA
1 AA
52260917 GGGGTATGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.33, T:0.07
Consensus pattern (14 bp):
AATGAGGAAAAAGG
Found at i:52262060 original size:48 final size:48
Alignment explanation
Indices: 52261943--52262272 Score: 293
Period size: 48 Copynumber: 6.8 Consensus size: 48
52261933 GTAAAATGTT
*** * ** * *
52261943 GATGCCATGTCCTGGACAGGGTCTTACACTGGCTCTTATACATCAGTGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATA-A-AAATGCC
* * * ** * *
52261993 GATGCCATGTCCCAGACATGGTCTTATACTGACAAATATAAAAATGTC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAAAAATGCC
* *** *
52262041 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATTGAGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAAAAATGCC
* *
52262089 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAAAAATGCC
* * * *** *
52262137 GATTCCATGTTCCAAACATGGTCTTACACTGGCT-AGCGTATTGAGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCA-CATAAAAATGCC
* * * * * *
52262185 GATGCAATGTCCCAGACATGGTCTTACACTGGCTTACATAATACTGCT
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAAAAATGCC
* *
52262233 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATA
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATA
52262273 TCGCCGTGGT
Statistics
Matches: 226, Mismatches: 52, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
47 1 0.00
48 191 0.85
49 2 0.01
50 32 0.14
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAAAAATGCC
Found at i:52262145 original size:96 final size:96
Alignment explanation
Indices: 52261962--52262273 Score: 419
Period size: 96 Copynumber: 3.2 Consensus size: 96
52261952 TCCTGGACAG
** * * * * *
52261962 GGTCTTACACTGGCTCTTATACATCAGTGCCGATGCCATGTCCCAGACATGGTCTTATACTGACA
1 GGTCTTACACTGGCTCACATA-TTGAG-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
* *
52262027 AATATAAAAATGTCGATGCCATGTTCCAAACAT
64 AACATAAAAATGCCGATGCCATGTTCCAAACAT
*
52262060 GGTCTTACACTGGCTCACATATTGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA
1 GGTCTTACACTGGCTCACATATTGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTAA
* *
52262125 CATAACAATGCCGATTCCATGTTCCAAACAT
66 CATAAAAATGCCGATGCCATGTTCCAAACAT
* * *
52262156 GGTCTTACACTGGCT-AGCGTATTGAGGCCGATGCAATGTCCCAGACATGGTCTTACACTGGCTT
1 GGTCTTACACTGGCTCA-CATATTGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTA
* * *
52262220 ACATAATACTGCTGATGCCATGTTCCAAACAT
65 ACATAAAAATGCCGATGCCATGTTCCAAACAT
*
52262252 GGTCTTACACTGGCTCTCATAT
1 GGTCTTACACTGGCTCACATAT
52262274 CGCCGTGGTC
Statistics
Matches: 191, Mismatches: 21, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
95 1 0.01
96 168 0.88
97 3 0.02
98 19 0.10
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (96 bp):
GGTCTTACACTGGCTCACATATTGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTAA
CATAAAAATGCCGATGCCATGTTCCAAACAT
Found at i:52272832 original size:15 final size:15
Alignment explanation
Indices: 52272812--52272842 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
52272802 CTTATTATAA
52272812 ATTAAAGTTTAATTT
1 ATTAAAGTTTAATTT
52272827 ATTAAAGTTTAATTT
1 ATTAAAGTTTAATTT
52272842 A
1 A
52272843 CATATAACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (15 bp):
ATTAAAGTTTAATTT
Found at i:52273456 original size:14 final size:15
Alignment explanation
Indices: 52273432--52273461 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
52273422 AAATATCAAA
52273432 ACAAGAATTAAGAAC
1 ACAAGAATTAAGAAC
52273447 ACAA-AATTAAGAAC
1 ACAAGAATTAAGAAC
52273461 A
1 A
52273462 AGTCAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ACAAGAATTAAGAAC
Found at i:52278682 original size:40 final size:40
Alignment explanation
Indices: 52278605--52278862 Score: 378
Period size: 40 Copynumber: 6.5 Consensus size: 40
52278595 AAACCAAGTA
* * * *
52278605 CCTTCGAGATTTAG-CCGGATATAGCT-ACTCACTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
52278644 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
52278684 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
52278724 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
52278764 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
52278804 CCTTCGGGGCTTAGGCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
52278844 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
52278863 TTATCATCCG
Statistics
Matches: 200, Mismatches: 16, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
39 14 0.07
40 186 0.93
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:52280173 original size:47 final size:47
Alignment explanation
Indices: 52280119--52281108 Score: 1532
Period size: 47 Copynumber: 21.1 Consensus size: 47
52280109 TTAGGATTTT
** * *
52280119 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
52280166 ATGTGATGAATATGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
52280213 ATGTAATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
52280260 ATGTGATGAATATGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
52280307 ATGTAATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
52280354 ATGTGATGAATATGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
52280401 ATGTAATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
52280448 ATGTGATGAATATGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
52280495 ATGTAATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
52280542 ATGTGATGAATATGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
52280589 ATGTAATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
52280636 ATGTGATGAATATGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
52280683 ATGTAATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
52280730 ATGTGATGAATATGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
52280777 ATGTAATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
52280824 ATGTGATGAATATGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
52280871 ATGTAATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
52280918 ATGTGATGAATATGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
52280965 ATGTAATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
52281012 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * * *
52281059 ATGTGATGAACGCAGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATG-TGAACATGCATATATGTGATAAGGCCGAATGGCCA
52281106 ATG
1 ATG
52281109 CGAAATGTGT
Statistics
Matches: 857, Mismatches: 85, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
47 854 1.00
48 3 0.00
ACGTcount: A:0.36, C:0.11, G:0.27, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:52280226 original size:94 final size:94
Alignment explanation
Indices: 52280119--52281068 Score: 1828
Period size: 94 Copynumber: 10.1 Consensus size: 94
52280109 TTAGGATTTT
* ** * * *
52280119 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCAATGTGATGAATATGAACA
1 ATGTAATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACA
52280184 TGCATATATGTGATAAGGCAGAATGGCCA
66 TGCATATATGTGATAAGGCAGAATGGCCA
52280213 ATGTAATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACA
1 ATGTAATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACA
52280278 TGCATATATGTGATAAGGCAGAATGGCCA
66 TGCATATATGTGATAAGGCAGAATGGCCA
52280307 ATGTAATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACA
1 ATGTAATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACA
52280372 TGCATATATGTGATAAGGCAGAATGGCCA
66 TGCATATATGTGATAAGGCAGAATGGCCA
52280401 ATGTAATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACA
1 ATGTAATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACA
52280466 TGCATATATGTGATAAGGCAGAATGGCCA
66 TGCATATATGTGATAAGGCAGAATGGCCA
52280495 ATGTAATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACA
1 ATGTAATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACA
52280560 TGCATATATGTGATAAGGCAGAATGGCCA
66 TGCATATATGTGATAAGGCAGAATGGCCA
52280589 ATGTAATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACA
1 ATGTAATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACA
52280654 TGCATATATGTGATAAGGCAGAATGGCCA
66 TGCATATATGTGATAAGGCAGAATGGCCA
52280683 ATGTAATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACA
1 ATGTAATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACA
52280748 TGCATATATGTGATAAGGCAGAATGGCCA
66 TGCATATATGTGATAAGGCAGAATGGCCA
52280777 ATGTAATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACA
1 ATGTAATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACA
52280842 TGCATATATGTGATAAGGCAGAATGGCCA
66 TGCATATATGTGATAAGGCAGAATGGCCA
52280871 ATGTAATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACA
1 ATGTAATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACA
52280936 TGCATATATGTGATAAGGCAGAATGGCCA
66 TGCATATATGTGATAAGGCAGAATGGCCA
*
52280965 ATGTAATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTAATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACA
52281030 TGCATATATGTGATAAGGCAGAATGGCCA
66 TGCATATATGTGATAAGGCAGAATGGCCA
*
52281059 ATGTGATGAA
1 ATGTAATGAA
52281069 CGCAGAAGTG
Statistics
Matches: 848, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 848 1.00
ACGTcount: A:0.36, C:0.11, G:0.27, T:0.26
Consensus pattern (94 bp):
ATGTAATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACA
TGCATATATGTGATAAGGCAGAATGGCCA
Found at i:52281135 original size:46 final size:46
Alignment explanation
Indices: 52281082--52281172 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
52281072 AGAAGTGTAT
* *
52281082 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
* *
52281128 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATG
52281173 TGTATATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.34, C:0.08, G:0.31, T:0.27
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
Found at i:52289549 original size:30 final size:27
Alignment explanation
Indices: 52289513--52289569 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 27
52289503 CAATTAACTC
*
52289513 TCTTGTCTCCTCATGAGTGTCCTGCTG
1 TCTTGTCTCCTCATGAGTGACCTGCTG
52289540 NNNTCTTGTCTCCTCATGAGTGACCTGCTG
1 ---TCTTGTCTCCTCATGAGTGACCTGCTG
52289570 AAAGTCTGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.09, C:0.28, G:0.21, T:0.37
Consensus pattern (27 bp):
TCTTGTCTCCTCATGAGTGACCTGCTG
Found at i:52290144 original size:150 final size:149
Alignment explanation
Indices: 52289849--52290126 Score: 346
Period size: 150 Copynumber: 1.9 Consensus size: 149
52289839 TCACCTTGCA
* *
52289849 CCACTACTCTTCGCCAACTTTCACCTTTGCATCACCACAATTAATCATTCTTTATTTTCTCCTTT
1 CCACTACTCTTCGCCAACTTTCAACTTTGCATCACCACAATTAACCATTCTTTATTTTCTCCTTT
* * ** * *
52289914 CCCTTTTCCTATTCTTTTCATTTTTTTCATTTCTTTTTTATTAAAAAAATTATCATCCCTCTTCA
66 CCCTCTTCATATTCTTTT-ATCCTCTTCATTTCTTTTTGATTAAAAAAATTATCATCCCTCTTCA
52289979 ATGCTTGTCAATTCATTATG
130 ATGCTTGTCAATTCATTATG
* ** * *
52289999 CCACTACTCTTCTCCAACTTTCAACTTTGCATCACCACTCTTAACCGTTCTTTCTTTTCTCCTTT
1 CCACTACTCTTCGCCAACTTTCAACTTTGCATCACCACAATTAACCATTCTTTATTTTCTCCTTT
* * * *
52290064 TCCTCTT-ATTTTCAATTTT-TCCTCTTCTTTTC-TTTTGATTAAAACAAATTGTCATCCCTCTT
66 CCCTCTTCATATTC--TTTTATCCTCTTCATTTCTTTTTGATTAAAA-AAATTATCATCCCTCTT
52290126 C
128 C
52290127 TGTTCTTTTT
Statistics
Matches: 108, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
148 11 0.10
149 30 0.28
150 63 0.58
151 4 0.04
ACGTcount: A:0.20, C:0.29, G:0.03, T:0.48
Consensus pattern (149 bp):
CCACTACTCTTCGCCAACTTTCAACTTTGCATCACCACAATTAACCATTCTTTATTTTCTCCTTT
CCCTCTTCATATTCTTTTATCCTCTTCATTTCTTTTTGATTAAAAAAATTATCATCCCTCTTCAA
TGCTTGTCAATTCATTATG
Found at i:52294298 original size:45 final size:45
Alignment explanation
Indices: 52294231--52294352 Score: 162
Period size: 45 Copynumber: 2.8 Consensus size: 45
52294221 CGCACAGTAT
* *
52294231 TATTCGGGCCTTTGAGCTTAGCAGGCTATAATGCCGATGAGAT-A
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGAAATGA
*
52294275 CTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAATGA
1 -TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGAAATGA
* *
52294321 TA-TCGGG-CTTTGAGCCTAGAAGGCGA-AATGCC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
52294353 AGTGAATGAA
Statistics
Matches: 71, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
42 6 0.08
43 17 0.24
44 5 0.07
45 42 0.59
46 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGAAATGA
Found at i:52294918 original size:16 final size:18
Alignment explanation
Indices: 52294887--52294919 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
52294877 AACTCGTCAC
52294887 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
52294905 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
52294920 AGCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:52296796 original size:17 final size:18
Alignment explanation
Indices: 52296776--52296815 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
52296766 CTTCACAAAG
*
52296776 TTTTGCTTCACTTGATT-
1 TTTTGCTTCACTCGATTA
*
52296793 TTTTTCTTCACTCGATTA
1 TTTTGCTTCACTCGATTA
52296811 TTTTG
1 TTTTG
52296816 ACAGTGTTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.12, C:0.17, G:0.10, T:0.60
Consensus pattern (18 bp):
TTTTGCTTCACTCGATTA
Found at i:52298546 original size:3 final size:3
Alignment explanation
Indices: 52298538--52298590 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
52298528 AATAAACACA
52298538 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
52298586 AAT AA
1 AAT AA
52298591 ACTAATTATG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:52303721 original size:21 final size:21
Alignment explanation
Indices: 52303695--52303741 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
52303685 ACGTGTACTG
52303695 TACTGGCAGCTCTACTGCAAT
1 TACTGGCAGCTCTACTGCAAT
* *
52303716 TACTGGCAGCTGTGCTGCAAT
1 TACTGGCAGCTCTACTGCAAT
52303737 TACTG
1 TACTG
52303742 AATAGTGCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (21 bp):
TACTGGCAGCTCTACTGCAAT
Found at i:52303941 original size:34 final size:34
Alignment explanation
Indices: 52303874--52303942 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
52303864 GCATTTGTTT
* *
52303874 CTGTTACTGTAATGGGCTAAGGCCCGCATTGATA
1 CTGTTACTGTAATGGGCTAAGGCCCACACTGATA
* * *
52303908 CTGTTATTGTAATGGGCTAAGGCCTATACTGATA
1 CTGTTACTGTAATGGGCTAAGGCCCACACTGATA
52303942 C
1 C
52303943 AGGACTGTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (34 bp):
CTGTTACTGTAATGGGCTAAGGCCCACACTGATA
Found at i:52317475 original size:233 final size:233
Alignment explanation
Indices: 52317059--52317523 Score: 840
Period size: 233 Copynumber: 2.0 Consensus size: 233
52317049 GTATGTTTAT
* * *
52317059 ATGTAAGTAATACAACAATTTTACTTGTATTATGATATTTTATAATAATGTTGGAAATATGTTTG
1 ATGTAAGTAATACAACAATATTACTTGTATTATGATATTTTATAAAAATATTGGAAATATGTTTG
*
52317124 TTGATAATTACTTGATTGGTGAAATTGTTGGAAAAGAGAGAGAAATCCCGGTTGAACCTTCGGAA
66 TGGATAATTACTTGATTGGTGAAATTGTTGGAAAAGAGAGAGAAATCCCGGTTGAACCTTCGGAA
* * *
52317189 AGATTGGATGATACAGATGGTATGTAGCTAGGTCACATGTATGGTGTTGAGTGCACATCATGTGT
131 AGATTCGATGATACAGATGGTATGTAGCTAGGTCACATGTATAGTGCTGAGTGCACATCATGTGT
52317254 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCG
196 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCG
* *
52317292 ATGTAAGTAATACATCACTATTACTTGTATTATGATATTTTATAAAAATATTGGAAATATGTTTG
1 ATGTAAGTAATACAACAATATTACTTGTATTATGATATTTTATAAAAATATTGGAAATATGTTTG
*
52317357 TGGATAATTACTTTATTGGTGAAATTGTTGGAAAAGAGAGAGAAATCCCGGTTGAACCTTCGGAA
66 TGGATAATTACTTGATTGGTGAAATTGTTGGAAAAGAGAGAGAAATCCCGGTTGAACCTTCGGAA
52317422 AGATTCGATGATACAGATGGTATGTAGCTAGGTCACATGTATAGTGCTGAGTGCACATCATGTGT
131 AGATTCGATGATACAGATGGTATGTAGCTAGGTCACATGTATAGTGCTGAGTGCACATCATGTGT
52317487 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTC
196 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTC
52317524 ACATGGGTGA
Statistics
Matches: 222, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
233 222 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.33
Consensus pattern (233 bp):
ATGTAAGTAATACAACAATATTACTTGTATTATGATATTTTATAAAAATATTGGAAATATGTTTG
TGGATAATTACTTGATTGGTGAAATTGTTGGAAAAGAGAGAGAAATCCCGGTTGAACCTTCGGAA
AGATTCGATGATACAGATGGTATGTAGCTAGGTCACATGTATAGTGCTGAGTGCACATCATGTGT
ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCG
Found at i:52317552 original size:68 final size:64
Alignment explanation
Indices: 52317487--52317826 Score: 296
Period size: 64 Copynumber: 5.2 Consensus size: 64
52317477 CATCATGTGT
*
52317487 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTAC--GAGA-TAT-ATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATG
52317552 TAG
62 TAG
* * ** * ** * *
52317555 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGTATGGTGTTGA-GTGCACATCATGT-G
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCACATGGGTGATACT-ATGTGTACACCATGTAG
* *
52317618 TACAAGAGAGCTCCAAGACATTATGATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCAT
1 -ACAAGAGAGCT--ACGAGA-TAT-ATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCAT
52317683 GTAG
61 GTAG
* * * * * *
52317687 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGCT-CTAGGTGAAGGACACCATG
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCACATGGGT-GATACTA--TG-TGTACACCATG
52317751 TAG
62 TAG
* * * *
52317754 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-G
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCACATGGGTGATACT-ATGTGTACACCATGTAG
52317816 TACAAGAGAGC
1 -ACAAGAGAGC
52317827 CGAACTCTAT
Statistics
Matches: 219, Mismatches: 38, Indels: 35
0.75 0.13 0.12
Matches are distributed among these distances:
62 1 0.00
63 20 0.09
64 66 0.30
65 11 0.05
66 27 0.12
67 37 0.17
68 56 0.26
69 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAG
Found at i:52317616 original size:64 final size:65
Alignment explanation
Indices: 52317442--52317826 Score: 256
Period size: 68 Copynumber: 5.8 Consensus size: 65
52317432 ATACAGATGG
* * *
52317442 TATGTAGCTAGGTCACATGTAT-AGTGCTGA-GTGCACATCATGTGTACAAGAGAGCTACAAGAC
1 TATGTAGCTAGGTCACATGGATGA-TACT-ATGTGCACACCATGTGTACAAGAGAGCTAC--GAC
52317505 ATTA
62 ATTA
* * **
52317509 TGATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGCTACGGGA-
1 T-ATGTAGCTAGGTCACATGGATGATACTATGTGCACACCATGT-GTACAAGAGAGCTACGACAT
52317572 TA
64 TA
* * * ** * *
52317574 TATGTAGCTAGGTCGCATGTATGGTGTTGA-GTGCACATCATGTGTACAAGAGAGCTCCAAGACA
1 TATGTAGCTAGGTCACATGGATGATACT-ATGTGCACACCATGTGTACAAGAGAGCT--ACGACA
52317638 TTA
63 TTA
* * **
52317641 TGATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGCTACGGGA-
1 T-ATGTAGCTAGGTCACATGGATGATACTATGTGCACACCATGT-GTACAAGAGAGCTACGACAT
52317704 TA
64 TA
* * * *
52317706 TATGTAGCTAGGTCGCATGCG-TGGCT-CTAGGTGAAGGACACCATGTAG-ACAAGAGAGCTACG
1 TATGTAGCTAGGTCACATG-GAT-GATACTA--TG-TGCACACCATGT-GTACAAGAGAGCTACG
*
52317768 AGA-TA
60 ACATTA
* * * * **
52317773 AAT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGTGTACAAGAGAGC
1 TATGTAGCTAGGTCACATGGATGATACT-ATGTGCACACCATGTGTACAAGAGAGC
52317827 CGAACTCTAT
Statistics
Matches: 256, Mismatches: 41, Indels: 46
0.75 0.12 0.13
Matches are distributed among these distances:
62 1 0.00
63 20 0.08
64 65 0.25
65 13 0.05
66 26 0.10
67 39 0.15
68 89 0.35
69 3 0.01
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (65 bp):
TATGTAGCTAGGTCACATGGATGATACTATGTGCACACCATGTGTACAAGAGAGCTACGACATTA
Found at i:52317679 original size:132 final size:132
Alignment explanation
Indices: 52317442--52317724 Score: 530
Period size: 132 Copynumber: 2.1 Consensus size: 132
52317432 ATACAGATGG
*
52317442 TATGTAGCTAGGTCACATGTATAGTGCTGAGTGCACATCATGTGTACAAGAGAGCTACAAGACAT
1 TATGTAGCTAGGTCGCATGTATAGTGCTGAGTGCACATCATGTGTACAAGAGAGCTACAAGACAT
52317507 TATGATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGA
66 TATGATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGA
52317572 TA
131 TA
* * *
52317574 TATGTAGCTAGGTCGCATGTATGGTGTTGAGTGCACATCATGTGTACAAGAGAGCTCCAAGACAT
1 TATGTAGCTAGGTCGCATGTATAGTGCTGAGTGCACATCATGTGTACAAGAGAGCTACAAGACAT
52317639 TATGATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGA
66 TATGATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGA
52317704 TA
131 TA
52317706 TATGTAGCTAGGTCGCATG
1 TATGTAGCTAGGTCGCATG
52317725 CGTGGCTCTA
Statistics
Matches: 147, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 147 1.00
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.27
Consensus pattern (132 bp):
TATGTAGCTAGGTCGCATGTATAGTGCTGAGTGCACATCATGTGTACAAGAGAGCTACAAGACAT
TATGATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGA
TA
Found at i:52321543 original size:32 final size:32
Alignment explanation
Indices: 52321497--52321577 Score: 99
Period size: 32 Copynumber: 2.5 Consensus size: 32
52321487 ATTGAAATGG
* * *
52321497 GCTAGGCCCAACTGATATTGGTTCTGATATGA
1 GCTAAGCCCAACTGATATTGATTCTGAGATGA
* * *
52321529 GCTATGCCCAACTGATATTGATTTTGAGATGG
1 GCTAAGCCCAACTGATATTGATTCTGAGATGA
*
52321561 GCTAAGCCCAATTGATA
1 GCTAAGCCCAACTGATA
52321578 CTGTGATGAG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (32 bp):
GCTAAGCCCAACTGATATTGATTCTGAGATGA
Found at i:52326554 original size:15 final size:15
Alignment explanation
Indices: 52326534--52326563 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
52326524 ATTAAGAAAG
52326534 ATATGTTTTGGATTA
1 ATATGTTTTGGATTA
*
52326549 ATATGTTTTGTATTA
1 ATATGTTTTGGATTA
52326564 GAATTTTTGA
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:0.27, C:0.00, G:0.17, T:0.57
Consensus pattern (15 bp):
ATATGTTTTGGATTA
Found at i:52327206 original size:43 final size:43
Alignment explanation
Indices: 52327158--52327312 Score: 233
Period size: 43 Copynumber: 3.6 Consensus size: 43
52327148 TATATGTTCT
52327158 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
* *
52327201 TGTGTAAGACCACGTCTGGGACGTTAGCATCGATATGTGATTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
* *
52327244 CGTGTAAGGCC-CAGTCTGGGATAG-TGGCATCGATATGTGATTA
1 CGTGTAAGACCAC-GTCTGGGA-CGTTGGCATCGATATGTGATTA
*
52327287 CATGTAAGACCACGTCTGGGACGTTG
1 CGTGTAAGACCACGTCTGGGACGTTG
52327313 ACATTGTATG
Statistics
Matches: 99, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
42 2 0.02
43 95 0.96
44 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
Found at i:52350502 original size:40 final size:40
Alignment explanation
Indices: 52350453--52350640 Score: 231
Period size: 40 Copynumber: 4.7 Consensus size: 40
52350443 GCTACTTGCT
*
52350453 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGAA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGAA
*
52350493 CGAAA-GCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 C-AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGAA
* * *
52350533 CAAATGCCTTTGGGACTTAGCCCGGATATAATAACTC-ACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGA-A
* * * * *
52350573 CAATTGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGAA
52350612 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
52350641 CATCCGAATA
Statistics
Matches: 126, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
38 1 0.01
39 33 0.26
40 88 0.70
41 4 0.03
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGAA
Found at i:52350614 original size:39 final size:40
Alignment explanation
Indices: 52350420--52350636 Score: 230
Period size: 40 Copynumber: 5.5 Consensus size: 40
52350410 AAACCAAGTA
** * *
52350420 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTAGCACAAATG
* * * *
52350459 CCTTCAGGACTTAGCCCGGTTATAGTAACTCGAACGAAA-G
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCAC-AAATG
* *
52350499 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* * *
52350539 CCTTTGGGACTTAGCCCGGATATAATAACTCA-CACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACT-AGCACAAATG
*
52350579 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCACAAATG
52350618 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
52350637 TTATCATCCG
Statistics
Matches: 152, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 47 0.31
40 100 0.66
41 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:52350627 original size:79 final size:80
Alignment explanation
Indices: 52350420--52350636 Score: 248
Period size: 79 Copynumber: 2.7 Consensus size: 80
52350410 AAACCAAGTA
** * * * *
52350420 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTTGCTCAAATGCCTTCAGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
*
52350483 GTAACTCGAACGAAAG
65 ATAACTCGAACGAAAG
* * *
52350499 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTTGGGACTTAGCCCGGATATAA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
*
52350564 TAACTC-ACAC-AATTG
66 TAACTCGA-ACGAA-AG
*
52350579 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
52350637 TTATCATCCG
Statistics
Matches: 119, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 60 0.50
80 58 0.49
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
TAACTCGAACGAAAG
Found at i:52364555 original size:43 final size:43
Alignment explanation
Indices: 52364508--52364664 Score: 188
Period size: 43 Copynumber: 3.7 Consensus size: 43
52364498 TGTGTTCTCG
*
52364508 TGTAAGACCACGCCTGGGACGTTGGCATCGATATGTGATTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACA
* * *
52364551 TGTAAGACCACGTCTTGGACGTTGGCCTCGATATGTGATTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACA
** *** *
52364594 TGTAAGACCGTGTCTGGGAAAATGGCATCGATATGTAATTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACA
* * * *
52364637 TGTCAGACCATGTTTGGAACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
52364665 TGTATGATAT
Statistics
Matches: 94, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 94 1.00
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACA
Found at i:52373240 original size:26 final size:26
Alignment explanation
Indices: 52373210--52373315 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
52373200 TGAAATTCCC
52373210 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
52373236 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
52373262 ATCATGAAACATTTACCT--CCCATT
1 ATCATGGAACATTTACCTAACCCATT
52373286 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
52373312 ATCA
1 ATCA
52373316 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
24 23 0.30
26 53 0.70
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:52373296 original size:50 final size:51
Alignment explanation
Indices: 52373210--52373315 Score: 187
Period size: 50 Copynumber: 2.1 Consensus size: 51
52373200 TGAAATTCCC
*
52373210 ATCATGGAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCT-ACCCATTATCATGGAACATTTACCTAACCCATT
52373262 ATCATGAAACATTTACCT-CCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTACCCATTATCATGGAACATTTACCTAACCCATT
52373312 ATCA
1 ATCA
52373316 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
50 36 0.68
52 17 0.32
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.31
Consensus pattern (51 bp):
ATCATGAAACATTTACCTACCCATTATCATGGAACATTTACCTAACCCATT
Found at i:52376701 original size:20 final size:21
Alignment explanation
Indices: 52376650--52376701 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
52376640 AGTCATACAC
*
52376650 TAAAATCAAAT-ACATTAAAA
1 TAAAATCAAATAACATAAAAA
*
52376670 TAAAAT-TAATAACATAAAAA
1 TAAAATCAAATAACATAAAAA
52376690 T-AAATCAAATAA
1 TAAAATCAAATAA
52376702 AAATAACTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 7 0.26
20 20 0.74
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAAATCAAATAACATAAAAA
Found at i:52376714 original size:15 final size:14
Alignment explanation
Indices: 52376665--52376714 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
52376655 TCAAATACAT
*
52376665 TAAAATAAAATTAA
1 TAAAATAAAAATAA
*
52376679 TAACATAAAAATAAA
1 TAAAATAAAAAT-AA
*
52376694 TCAAATAAAAATAA
1 TAAAATAAAAATAA
52376708 CTAAAAT
1 -TAAAAT
52376715 TCAAATTCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
14 12 0.41
15 17 0.59
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAAATAAAAATAA
Found at i:52380718 original size:27 final size:27
Alignment explanation
Indices: 52380660--52380718 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
52380650 TTTGGGCTAA
* *
52380660 GCCCAATTGATTCTGTTATGGGCTGTG
1 GCCCAAATGATTCTGTAATGGGCTGTG
* *
52380687 ACCCAAATGATAT-TGTAATGGGCTTTG
1 GCCCAAATGAT-TCTGTAATGGGCTGTG
52380714 GCCCA
1 GCCCA
52380719 CGTATGCTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.32
Consensus pattern (27 bp):
GCCCAAATGATTCTGTAATGGGCTGTG
Found at i:52384687 original size:27 final size:27
Alignment explanation
Indices: 52384617--52384756 Score: 113
Period size: 27 Copynumber: 5.1 Consensus size: 27
52384607 GGTCGTTAAG
* *
52384617 ACCCCCAACTTGTAAAACTTACTGAAAT
1 ACCCCTAATTTGTAAAA-TTACTGAAAT
*** *
52384645 ACCACC-GGGTTATAAAATTA-TCGAAAT
1 ACC-CCTAATTTGTAAAATTACT-GAAAT
*
52384672 TCCCCTAATTTGTAAAATTACTGAAAT
1 ACCCCTAATTTGTAAAATTACTGAAAT
* * *
52384699 ACCCCTGACTTGTAAAATTACTAAAAT
1 ACCCCTAATTTGTAAAATTACTGAAAT
* * **
52384726 ACCCCCATTTTGTAAAATTACCAAAAT
1 ACCCCTAATTTGTAAAATTACTGAAAT
52384753 ACCC
1 ACCC
52384757 TTTGTAGTGT
Statistics
Matches: 90, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
26 3 0.03
27 74 0.82
28 11 0.12
29 2 0.02
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (27 bp):
ACCCCTAATTTGTAAAATTACTGAAAT
Found at i:52384715 original size:54 final size:53
Alignment explanation
Indices: 52384617--52384756 Score: 147
Period size: 54 Copynumber: 2.6 Consensus size: 53
52384607 GGTCGTTAAG
* ** *
52384617 ACCCCCAACTTGTAAAACTTACTGAAATACCACCGGGTTATAAAATTA-TCGAAAT
1 ACCCCCAATTTGTAAAA-TTACTGAAATACC-CCGACTTATAAAATTACT-AAAAT
* * *
52384672 TCCCCTAATTTGTAAAATTACTGAAATACCCCTGACTTGTAAAATTACTAAAAT
1 ACCCCCAATTTGTAAAATTACTGAAATACCCC-GACTTATAAAATTACTAAAAT
* **
52384726 ACCCCCATTTTGTAAAATTACCAAAATACCC
1 ACCCCCAATTTGTAAAATTACTGAAATACCC
52384757 TTTGTAGTGT
Statistics
Matches: 71, Mismatches: 12, Indels: 5
0.81 0.14 0.06
Matches are distributed among these distances:
53 2 0.03
54 54 0.76
55 15 0.21
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (53 bp):
ACCCCCAATTTGTAAAATTACTGAAATACCCCGACTTATAAAATTACTAAAAT
Found at i:52385381 original size:32 final size:30
Alignment explanation
Indices: 52385279--52385380 Score: 78
Period size: 32 Copynumber: 3.2 Consensus size: 30
52385269 ATATTTACCC
* *
52385279 AAGGCTATGTGCCGATTATATTACCGTCACT
1 AAGGCTATGTGCCAATTATAATACCGT-ACT
* ** *
52385310 GATGGCTATGTGCCAAACATAATACAGTTACCT
1 -AAGGCTATGTGCCAATTATAATACCG-TA-CT
* *
52385343 ATGGCTTTGTGCCAATTATAATACCGCTACT
1 AAGGCTATGTGCCAATTATAATACCG-TACT
52385374 AAAGGCT
1 -AAGGCT
52385381 TAGAGTAGCA
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
31 2 0.04
32 50 0.91
33 3 0.05
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (30 bp):
AAGGCTATGTGCCAATTATAATACCGTACT
Found at i:52386240 original size:16 final size:17
Alignment explanation
Indices: 52386208--52386240 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
52386198 AAATAAGAAA
52386208 GGTTTTCAATGAAAACAT
1 GGTTTTCAA-GAAAACAT
52386226 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
52386241 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAT
Found at i:52386781 original size:9 final size:9
Alignment explanation
Indices: 52386767--52386799 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
52386757 TGGGTTAAAT
52386767 TGAATTTTG
1 TGAATTTTG
52386776 TGAATTTTG
1 TGAATTTTG
*
52386785 TGTA-TTTG
1 TGAATTTTG
52386793 TGAATTT
1 TGAATTT
52386800 GGGGACTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.58
Consensus pattern (9 bp):
TGAATTTTG
Found at i:52387275 original size:43 final size:42
Alignment explanation
Indices: 52387182--52387328 Score: 150
Period size: 43 Copynumber: 3.4 Consensus size: 42
52387172 GATTACCAAG
* * *
52387182 ATGTGATTACATGTAAGACCATGTGTAGGAAATTGGCATTGT
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGT
* *
52387224 ATTGTGATTACGTGTAAGACCATGTCTAGGACATTGGGATCGTT
1 A-TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCG-T
* * * * * * *
52387268 ATATGATTTCGTATAAGACCCTGTCTGGGACAGTGGCATCGAT
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCG-T
*
52387311 ATGTGATAACATGTAAGA
1 ATGTGATTACATGTAAGA
52387329 TCATATCTGG
Statistics
Matches: 85, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
42 1 0.01
43 82 0.96
44 2 0.02
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGT
Found at i:52388941 original size:50 final size:50
Alignment explanation
Indices: 52388866--52388989 Score: 167
Period size: 50 Copynumber: 2.5 Consensus size: 50
52388856 CTTAAGGTTT
52388866 GGCACTTGGTGCTGAGGCATGTTACAAGAGGGATACTAGCCTACAGGCTA
1 GGCACTTGGTGCTGAGGCATGTTACAAGAGGGATACTAGCCTACAGGCTA
* ** * *
52388916 GGCACTTGGTGCTGAGGCGTGTTACAAGAGGGATGTTAGCCTACGGGTTA
1 GGCACTTGGTGCTGAGGCATGTTACAAGAGGGATACTAGCCTACAGGCTA
* * **
52388966 GGCACATGGTACCAAGGCATGTTA
1 GGCACTTGGTGCTGAGGCATGTTA
52388990 TCGATTGGCT
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 64 1.00
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.23
Consensus pattern (50 bp):
GGCACTTGGTGCTGAGGCATGTTACAAGAGGGATACTAGCCTACAGGCTA
Found at i:52394147 original size:15 final size:15
Alignment explanation
Indices: 52394129--52394170 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
52394119 CAATTTGGTT
52394129 TATTTTTATTTTTAC
1 TATTTTTATTTTTAC
*
52394144 TATTTTTATTTTAAC
1 TATTTTTATTTTTAC
*
52394159 T-TATTTATTTTT
1 TATTTTTATTTTT
52394171 GTGATTTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (15 bp):
TATTTTTATTTTTAC
Found at i:52407166 original size:142 final size:142
Alignment explanation
Indices: 52406910--52407193 Score: 559
Period size: 142 Copynumber: 2.0 Consensus size: 142
52406900 TTAGTCGATT
52406910 GCATGTGAATTTAGTCAATAGGACTTATGTGAGAAAATTTTGAAATGTGATAGGTCAAAGCATAA
1 GCATGTGAATTTAGTCAATAGGACTTATGTGAGAAAATTTTGAAATGTGATAGGTCAAAGCATAA
*
52406975 GGGCCTATTAGTGTATGTTGAAAAAGGGGGGACTTGCATGTCAATTTTCCCCCCTATTAGTAGTG
66 GGGCCTATTAGTGCATGTTGAAAAAGGGGGGACTTGCATGTCAATTTTCCCCCCTATTAGTAGTG
52407040 GCCGGCCATGAC
131 GCCGGCCATGAC
52407052 GCATGTGAATTTAGTCAATAGGACTTATGTGAGAAAATTTTGAAATGTGATAGGTCAAAGCATAA
1 GCATGTGAATTTAGTCAATAGGACTTATGTGAGAAAATTTTGAAATGTGATAGGTCAAAGCATAA
52407117 GGGCCTATTAGTGCATGTTGAAAAAGGGGGGACTTGCATGTCAATTTTCCCCCCTATTAGTAGTG
66 GGGCCTATTAGTGCATGTTGAAAAAGGGGGGACTTGCATGTCAATTTTCCCCCCTATTAGTAGTG
52407182 GCCGGCCATGAC
131 GCCGGCCATGAC
52407194 AAGCATGGTA
Statistics
Matches: 141, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
142 141 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (142 bp):
GCATGTGAATTTAGTCAATAGGACTTATGTGAGAAAATTTTGAAATGTGATAGGTCAAAGCATAA
GGGCCTATTAGTGCATGTTGAAAAAGGGGGGACTTGCATGTCAATTTTCCCCCCTATTAGTAGTG
GCCGGCCATGAC
Found at i:52407532 original size:148 final size:148
Alignment explanation
Indices: 52407243--52407539 Score: 540
Period size: 149 Copynumber: 2.0 Consensus size: 148
52407233 AGACATGTTT
* * *
52407243 GGTTGGTGCATCATGGGTGGAAAAAATTAAAATAATGAGTATGGAAACTAAATAATAAAGGGAAT
1 GGTTGGTGCATCATGGGTGGAAAAAAATAAAATAATGAGCACGGAAACTAAATAATAAAGGGAAT
*
52407308 ATGATGAAAACAAAAAAAGTGTGTGGTTGTTTCTCCCCCCCCCCCATTTTGCCGAAACTAGAAAG
66 ATGATGAAAACAAAAAAAGTATGTGGTTGTTTCTCCCCCCCCCCCATTTTGCCGAAACTAGAAAG
52407373 AAAAACAAAAAAAAAGTG
131 AAAAACAAAAAAAAAGTG
*
52407391 GGTTGGTGCATCATGGGTGGAAAAAAATAAAATAATGAGCACGGAAATTAAATAATGAAAGGGAA
1 GGTTGGTGCATCATGGGTGGAAAAAAATAAAATAATGAGCACGGAAACTAAATAAT-AAAGGGAA
52407456 TATGATGAAAACAAAAAAAGTATGTGGTTGTTTCTCCCCCCCCCCCATTTTGCCGAAACTAGAAA
65 TATGATGAAAACAAAAAAAGTATGTGGTTGTTTCTCCCCCCCCCCCATTTTGCCGAAACTAGAAA
52407521 GAAAAACAAAAAAAAAGTG
130 GAAAAACAAAAAAAAAGTG
52407540 CTCATCCTTT
Statistics
Matches: 143, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
148 52 0.36
149 91 0.64
ACGTcount: A:0.44, C:0.14, G:0.21, T:0.22
Consensus pattern (148 bp):
GGTTGGTGCATCATGGGTGGAAAAAAATAAAATAATGAGCACGGAAACTAAATAATAAAGGGAAT
ATGATGAAAACAAAAAAAGTATGTGGTTGTTTCTCCCCCCCCCCCATTTTGCCGAAACTAGAAAG
AAAAACAAAAAAAAAGTG
Found at i:52415373 original size:39 final size:40
Alignment explanation
Indices: 52415278--52415500 Score: 255
Period size: 39 Copynumber: 5.7 Consensus size: 40
52415268 TTGAATGATG
*
52415278 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
52415316 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
52415357 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
52415396 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
52415435 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
52415474 AACCGGGCTATGTCCCGAAGGCGTTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
52415501 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 13, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
39 93 0.57
40 58 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:52415465 original size:79 final size:80
Alignment explanation
Indices: 52415278--52415500 Score: 262
Period size: 79 Copynumber: 2.8 Consensus size: 80
52415268 TTGAATGATG
* * *
52415278 TCCGGGCTAAGTCCCGAAGGC-TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
52415340 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
52415357 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
*
52415419 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* * * * * *
52415435 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCGTT
1 TCCGGGCTAAGTCCCGAAGGC-ATTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
52415499 TG
65 TG
52415501 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 46 0.37
79 54 0.43
80 25 0.20
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:52415531 original size:79 final size:79
Alignment explanation
Indices: 52415330--52415533 Score: 200
Period size: 79 Copynumber: 2.6 Consensus size: 79
52415320 GGACTAAGAT
** * * * * *
52415330 CCGAAGGCATTTGTGCGAGATACTAATTCCGGG-CTAAGCCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTCAAATCCCGAAGGCAATTGTGCGAGATACTA
*
52415394 ATTCCGGGCTAAGC
66 ATACCGGGCTAAGC
** * * *
52415408 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTCAAATCCCGAAGGCAATTGTGCGAGATACTA
*
52415472 ATAACCGGGCTATGTC
66 AT-ACCGGGCTAAG-C
* * *
52415488 CCGAAGGCGTTTGAACGAG-TAGCTATATCC-GGTCAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTTA-CTAAATCCGGGTCAAATCCCGAAGG
52415534 TACGTGGTTT
Statistics
Matches: 105, Mismatches: 17, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
78 33 0.31
79 48 0.46
80 24 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTCAAATCCCGAAGGCAATTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:52417648 original size:43 final size:42
Alignment explanation
Indices: 52417600--52417751 Score: 121
Period size: 43 Copynumber: 3.5 Consensus size: 42
52417590 CAATGCCAAA
* * *
52417600 GTCCCAGACTTGGTCTTACATGTAATCAAACATCGATG-TCATT
1 GTCCCAGACATGGTCTTACACGAAATCAAACA-CGATGCTCA-T
* * * * *
52417643 GTCCCAGACAGGGTCATACACGAAATTAAATACGATGCTGAT
1 GTCCCAGACATGGTCTTACACGAAATCAAACACGATGCTCAT
* *
52417685 GTCCCAGACATGGTCTTACACATAAAACAAA-AGTCGATGC-CAAT
1 GTCCCAGACATGGTCTTACAC-GAAATCAAACA--CGATGCTC-AT
* *
52417729 GTCCCAAACATCGTCTTACACGA
1 GTCCCAGACATGGTCTTACACGA
52417752 TAATTCATAT
Statistics
Matches: 87, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
42 26 0.30
43 34 0.39
44 27 0.31
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGAAATCAAACACGATGCTCAT
Found at i:52424197 original size:241 final size:241
Alignment explanation
Indices: 52423774--52424254 Score: 910
Period size: 241 Copynumber: 2.0 Consensus size: 241
52423764 TTCATTTCAT
52423774 CAATTTCCCAGTTGAACGCTTCGGAATAATAACAGATACGTGATGGTATCGCACACAGCCCACCT
1 CAATTTCCCAGTTGAACGCTTCGGAATAATAACAGATACGTGATGGTATCGCACACAGCCCACCT
52423839 TTAAAATCGAAGCTCTCTTGTACAGATAGTGGCTTTCACTTAGCACCACTCATGTTACCTAGCTC
66 TTAAAATCGAAGCTCTCTTGTACAGATAGTGGCTTTCACTTAGCACCACTCATGTTACCTAGCTC
52423904 GTTTGTACACATAATTTTGGCTCTCTTGTACACATGGTGAACACTTAGTACCA-CCTATGTGACC
131 GTTTGTACACATAATTTTGGCTCTCTTGTACACATGGTGAACACTTAGTACCATCC-ATGTGACC
* *
52423968 TAGCCAGTTTATCTCGTAGCTGTCTTGTCTACATGGTATCCTTCACA
195 TAGCCAGTTTATCTCATAGCTCTCTTGTCTACATGGTATCCTTCACA
52424015 CAATTTCCCAGTTGAACGCTTCGGAATAATAACAGATACGTGATGGTATCGCACACAGCCCACCT
1 CAATTTCCCAGTTGAACGCTTCGGAATAATAACAGATACGTGATGGTATCGCACACAGCCCACCT
52424080 TTAAAATCGAAGCTCTCTTGTACAGATAGTGGCTTTCACTTAGCACCACTCATGTTACCTAGCTC
66 TTAAAATCGAAGCTCTCTTGTACAGATAGTGGCTTTCACTTAGCACCACTCATGTTACCTAGCTC
*
52424145 GTTTGTACACATAATTTTGGCTCTCTTGTACACATGGTGAACACTTAGTACCATCCATGTGGCCT
131 GTTTGTACACATAATTTTGGCTCTCTTGTACACATGGTGAACACTTAGTACCATCCATGTGACCT
*
52424210 AGCCAGTTTATCTCATAGCTCTCTTGTCTACATGGTGTCCTTCAC
196 AGCCAGTTTATCTCATAGCTCTCTTGTCTACATGGTATCCTTCAC
52424255 CTGGAACCAC
Statistics
Matches: 235, Mismatches: 4, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
241 233 0.99
242 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (241 bp):
CAATTTCCCAGTTGAACGCTTCGGAATAATAACAGATACGTGATGGTATCGCACACAGCCCACCT
TTAAAATCGAAGCTCTCTTGTACAGATAGTGGCTTTCACTTAGCACCACTCATGTTACCTAGCTC
GTTTGTACACATAATTTTGGCTCTCTTGTACACATGGTGAACACTTAGTACCATCCATGTGACCT
AGCCAGTTTATCTCATAGCTCTCTTGTCTACATGGTATCCTTCACA
Found at i:52426147 original size:6 final size:6
Alignment explanation
Indices: 52426115--52426460 Score: 284
Period size: 6 Copynumber: 56.8 Consensus size: 6
52426105 AACCAAAATG
* * *
52426115 AGAATC AGAATA AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC
* * *
52426163 AGTAA-C AGAATC AGAATC AGAATC CGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * *
52426212 AGAATC A-ATAAC AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC
1 AGAATC AGA-ATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC
* * *
52426261 AGAATT AGAATC AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C
* *
52426310 AGAATC AGAATT AGAATC AGTAA-C AGAATC AGAATC AGAATC AGAATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC
* *
52426358 AG-GTGAC AGAATC AGAATT AGAATC AGTAA-C AGAATC AGAATC AGAATC
1 AGAAT--C AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC
* * *
52426407 AGAATT AG-GTGAC AGAATT AGAATC AGAATC AGTAA-C AGAATC AGAATC
1 AGAATC AGAAT--C AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC
52426456 AGAAT
1 AGAAT
52426461 GTGAATGCAA
Statistics
Matches: 273, Mismatches: 38, Indels: 58
0.74 0.10 0.16
Matches are distributed among these distances:
5 18 0.07
6 228 0.84
7 22 0.08
8 5 0.02
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:52426224 original size:55 final size:55
Alignment explanation
Indices: 52426144--52426460 Score: 562
Period size: 55 Copynumber: 5.8 Consensus size: 55
52426134 GTAACAGAAT
* * *
52426144 CAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATCCGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATTAGGTGA
*
52426199 CAGAATCAGAATCAGAATCAATAACAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATTAGGTGA
*
52426254 CAGAATCAGAATTAGAATCAGTAACAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATTAGGTGA
*
52426309 CAGAATCAGAATTAGAATCAGTAACAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATTAGGTGA
*
52426364 CAGAATCAGAATTAGAATCAGTAACAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATTAGGTGA
*
52426419 CAGAATTAGAATCAGAATCAGTAACAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAAT
52426461 GTGAATGCAA
Statistics
Matches: 254, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 254 1.00
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (55 bp):
CAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATTAGGTGA
Found at i:52426615 original size:27 final size:26
Alignment explanation
Indices: 52426578--52426643 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
52426568 AGCATGGCTG
*
52426578 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
52426604 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
52426631 CCAGAATCAGATA
1 CCAGAA-CAGATA
52426644 ATGTGGAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:52426864 original size:22 final size:22
Alignment explanation
Indices: 52426816--52426874 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
52426806 GTAAATACAT
*
52426816 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
52426838 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
52426860 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
52426875 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:52427030 original size:27 final size:26
Alignment explanation
Indices: 52426962--52427044 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
52426952 TCGATCGGTC
** * *
52426962 AACAGATATTGTAACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
*
52426988 ATACAGATATTATGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
52427015 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
52427042 AAC
1 AAC
52427045 GCTTCCTCCG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
26 8 0.17
27 40 0.83
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:52427321 original size:27 final size:28
Alignment explanation
Indices: 52427242--52427332 Score: 116
Period size: 27 Copynumber: 3.4 Consensus size: 28
52427232 AGGGGCAAAA
* *
52427242 TGGTAATTT-TACCCCACAAGGGTATCT
1 TGGTAATTTCTACCCTACAAGGGTATTT
* *
52427269 CGGTAA-TTCTACCCTACAGGGGTATTT
1 TGGTAATTTCTACCCTACAAGGGTATTT
52427296 TGGT-ATTTCTACCCTACAAGGGTATTT
1 TGGTAATTTCTACCCTACAAGGGTATTT
*
52427323 TAGTAATTTC
1 TGGTAATTTC
52427333 ACAGTCAAGG
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
26 3 0.06
27 46 0.85
28 5 0.09
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (28 bp):
TGGTAATTTCTACCCTACAAGGGTATTT
Found at i:52427733 original size:27 final size:27
Alignment explanation
Indices: 52427340--52427716 Score: 431
Period size: 27 Copynumber: 14.0 Consensus size: 27
52427330 TTCACAGTCA
* *
52427340 AGGGTAAAACGATAATTTTGTAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATC-G
* ** **
52427367 AGGGTAAACCAATAATTCTGTAAATTA
1 AGGGTAAAACGGTAATTCTGTAAATCG
* **
52427394 AGGGTAAAACGGTAATTTTACAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
**
52427421 AGGGTAAAATAGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
***
52427448 AGGGTAAAATAATAATTCTGTAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATC-G
*
52427475 AGGGTAAAATGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
**
52427502 AGGGTAAAATAGTAATTCTGTAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATC-G
52427529 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
** * **
52427556 A-GGTAAAATAGTAATTTTACAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
52427582 AGGGTAAAACGGTAATTCTGTAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATC-G
*
52427609 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* **
52427636 AGGGTAAAACGGTAATTTTAAAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
*
52427663 AAGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
52427690 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
52427717 GGAGTACTTT
Statistics
Matches: 300, Mismatches: 42, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
26 24 0.08
27 273 0.91
28 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AGGGTAAAACGGTAATTCTGTAAATCG
Found at i:52427747 original size:81 final size:81
Alignment explanation
Indices: 52427340--52427739 Score: 488
Period size: 81 Copynumber: 5.0 Consensus size: 81
52427330 TTCACAGTCA
* * ** ** *
52427340 AGGGTAAAAC-GATAATTTTGTAAACTGAGGGTAAACCAATAATTCTGTAAATTAAGGGTAAAAC
1 AGGGTAAAACAG-TAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAT
52427404 GGTAATTTTACAAATCG
65 GGTAATTTTACAAATCG
* ***
52427421 AGGGTAAAATAGTAATTCTGTAAA-TCGAGGGTAAAATAATAATTCTGTAAA-CTGAGGGTAAAA
1 AGGGTAAAACAGTAATTCTGTAAACT-GAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAA
* **
52427484 TGGTAATTCTGTAAATCG
64 TGGTAATTTTACAAATCG
* *
52427502 AGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTAAATCGA-GGTAAAATA
1 AGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATG
52427566 GTAATTTTACAAATCG
66 GTAATTTTACAAATCG
* * *
52427582 AGGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
1 AGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATG
*
52427647 GTAATTTTAAAAATCG
66 GTAATTTTACAAATCG
* * ***
52427663 AAGGTAAAACGGTAATTCTGTAAA-TCGAGGGTAAAACGGTAATTCTGTAAATCG-GGAGTACTT
1 AGGGTAAAACAGTAATTCTGTAAACT-GAGGGTAAAACGGTAATTCTGTAAATCGAGG-GTAAAA
52427726 TGGTAATTTTACAA
64 TGGTAATTTTACAA
52427740 GTTGAAGGCA
Statistics
Matches: 281, Mismatches: 30, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
80 77 0.27
81 201 0.72
82 3 0.01
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.28
Consensus pattern (81 bp):
AGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATG
GTAATTTTACAAATCG
Found at i:52442678 original size:21 final size:21
Alignment explanation
Indices: 52442654--52442698 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
52442644 AACATTTAAA
52442654 TCATCATAATTATACTTACTT
1 TCATCATAATTATACTTACTT
52442675 TCATCATAATTATACTTACTT
1 TCATCATAATTATACTTACTT
52442696 TCA
1 TCA
52442699 ACACCTCGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.47
Consensus pattern (21 bp):
TCATCATAATTATACTTACTT
Found at i:52445247 original size:46 final size:46
Alignment explanation
Indices: 52445194--52445285 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
52445184 AACATGTTTG
52445194 CTTACTAGAATCTGTTTAGTCAGCTGAATTGACATAGGGATATATC
1 CTTACTAGAATCTGTTTAGTCAGCTGAATTGACATAGGGATATATC
52445240 CTTACTAGAATCTGTTTAGTCAGCTGAATTGACATAGGGATATATC
1 CTTACTAGAATCTGTTTAGTCAGCTGAATTGACATAGGGATATATC
52445286 AAGAGATGAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (46 bp):
CTTACTAGAATCTGTTTAGTCAGCTGAATTGACATAGGGATATATC
Found at i:52452532 original size:30 final size:30
Alignment explanation
Indices: 52452498--52452558 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
52452488 TTCCCGAGCC
52452498 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
52452528 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
52452558 T
1 T
52452559 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:52453272 original size:63 final size:63
Alignment explanation
Indices: 52453090--52453331 Score: 290
Period size: 63 Copynumber: 3.8 Consensus size: 63
52453080 CGAGACATTA
* * *
52453090 GCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATATA-TG
1 GCTAGGTCACATGGGTGATACTATGTATACACCATGTAGACAAGAGAGCTACGAGATAAACTG
* * * * * * *
52453152 TAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATAAA
1 --GCTAGGTCACATGGGTGATACTA--TGTA-TACACCATGTAGACAAGAGAGCTACGAGATAAA
52453217 CTG
61 CTG
52453220 GCTAGGTCACATGGGTGATACTATGTATACACCATGTAGACAAGAGAGCTACGAGATAAACTG
1 GCTAGGTCACATGGGTGATACTATGTATACACCATGTAGACAAGAGAGCTACGAGATAAACTG
* * * *
52453283 GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 GCTAGGTCACATGGGTGATACTATGTATACACCATGTAG-ACAAGAGAGC
52453332 CAAAATTATG
Statistics
Matches: 152, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
62 1 0.01
63 78 0.51
64 21 0.14
66 20 0.13
67 30 0.20
68 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.29, T:0.22
Consensus pattern (63 bp):
GCTAGGTCACATGGGTGATACTATGTATACACCATGTAGACAAGAGAGCTACGAGATAAACTG
Found at i:52463941 original size:25 final size:25
Alignment explanation
Indices: 52463888--52463972 Score: 93
Period size: 26 Copynumber: 3.4 Consensus size: 25
52463878 GAGGAAGTGC
* *
52463888 AAAAGGGC-TATGCCCCAGTTTACCG
1 AAAAGGGCTTTTGCCCCAGTTTA-CT
*
52463913 AAAAGGGCTTTTGCCCCAGTTTATT
1 AAAAGGGCTTTTGCCCCAGTTTACT
*
52463938 AAAAAGGGCTTTTGGCCCAG-TTACT
1 -AAAAGGGCTTTTGCCCCAGTTTACT
52463963 AAAAGAGGCT
1 AAAAG-GGCT
52463973 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
24 5 0.10
25 16 0.31
26 31 0.60
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTTACT
Found at i:52464218 original size:31 final size:31
Alignment explanation
Indices: 52464175--52464276 Score: 152
Period size: 31 Copynumber: 3.3 Consensus size: 31
52464165 CATATTGTTA
* *
52464175 CAGTAATATGAATAATGAAAAGGCTTTGGCC
1 CAGTGATATGAATAATGAAAAGGCTTCGGCC
52464206 CAGTGATATGAATAATGAAAAGGCTTCGGCC
1 CAGTGATATGAATAATGAAAAGGCTTCGGCC
* * *
52464237 TAGTGATATGAATAATGTAAAGGCTTCGGCA
1 CAGTGATATGAATAATGAAAAGGCTTCGGCC
52464268 CAGT-ATATG
1 CAGTGATATG
52464277 CTGAGATTGA
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
30 5 0.08
31 60 0.92
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (31 bp):
CAGTGATATGAATAATGAAAAGGCTTCGGCC
Found at i:52470532 original size:131 final size:131
Alignment explanation
Indices: 52470293--52470554 Score: 445
Period size: 131 Copynumber: 2.0 Consensus size: 131
52470283 TACCTTAATG
* *
52470293 TTGGAATGTTTCAAGCGTATTAATTGAAATTTTTACAGCAAGATCATTCATTCCCAAATCACGTA
1 TTGGAATGTTTCAAGAGTATTAACTGAAATTTTTACAGCAAGATCATTCATTCCCAAATCACGTA
*
52470358 CCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATAG
66 CCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAACCCGGATT-TAG
52470422 TA
130 TA
* *
52470424 TTGGGATGTTTCTAGAGTATTAACTGAAATTTTTACAGCAAGATCATTCATTCCCAAATCACGTA
1 TTGGAATGTTTCAAGAGTATTAACTGAAATTTTTACAGCAAGATCATTCATTCCCAAATCACGTA
* *
52470489 CCTTCGGAATTTAACCGGATATAGCTCCTCGTTCAAATGCCTTCGGGACTTAACCCGGATTTAGT
66 CCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAACCCGGATTTAGT
52470554 A
131 A
52470555 ACTCGCACAA
Statistics
Matches: 123, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
131 121 0.98
132 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (131 bp):
TTGGAATGTTTCAAGAGTATTAACTGAAATTTTTACAGCAAGATCATTCATTCCCAAATCACGTA
CCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAACCCGGATTTAGT
A
Found at i:52470543 original size:39 final size:39
Alignment explanation
Indices: 52470489--52470614 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
52470479 AAATCACGTA
* * * * *
52470489 CCTTCGGAATTTAACCGGATATAGCT-CCTCGTTCAAATG
1 CCTTCGGGACTTAACCGGATTTAG-TAACTCGTACAAATG
*
52470528 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAA-CCGGATTTAGTAACTCGTACAAATG
*
52470568 CCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTACAAATG
1 CCTTCGGGA-CTTA-ACCGGATTTAGTAACTCGTACAAATG
52470608 CCTTCGG
1 CCTTCGG
52470615 ATCTTAGTCC
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
39 16 0.22
40 57 0.77
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (39 bp):
CCTTCGGGACTTAACCGGATTTAGTAACTCGTACAAATG
Found at i:52470566 original size:40 final size:40
Alignment explanation
Indices: 52470522--52470667 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
52470512 GCTCCTCGTT
*
52470522 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATTTAGTAACTCGCA
* *
52470562 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
* * * * *
52470602 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGT-AACTCGCA
52470643 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGCCCGGA
52470668 CATCATTCGA
Statistics
Matches: 94, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
39 3 0.03
40 79 0.84
41 12 0.13
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
Found at i:52478590 original size:79 final size:81
Alignment explanation
Indices: 52478448--52478630 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
52478438 TACTCGTTCA
* * *
52478448 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGAACTTAACCCGGA
* *
52478512 TTTAGTAAC-TCGCACC
66 TATAGTAACTTAGCA-C
* **
52478528 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GAATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGAA-CTTAACCCGG
* *
52478590 ATATGGTCACTTAGCAC
65 ATATAGTAACTTAGCAC
*
52478607 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
52478631 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 2 0.02
79 58 0.66
80 28 0.32
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGAACTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:52478630 original size:40 final size:40
Alignment explanation
Indices: 52478428--52478630 Score: 218
Period size: 40 Copynumber: 5.1 Consensus size: 40
52478418 GGAATTTAAT
** *
52478428 CGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCC
1 CGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCC
* *
52478468 CGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACC
1 CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
* *
52478508 CGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCC
1 CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
* * *
52478547 CGGA-ATTAGTATCTCGCACAAATGCCTTC-GAATCTTAGTC
1 CGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCC
* * *
52478587 CGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCC
1 CGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCC
52478627 CGGA
1 CGGA
52478631 CATCATTCGA
Statistics
Matches: 136, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 32 0.24
40 92 0.68
41 11 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
Found at i:52484057 original size:17 final size:18
Alignment explanation
Indices: 52484031--52484064 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
52484021 TTTTTGTTTA
52484031 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
*
52484048 AATAATTTAATATGCAT
1 AATAAATTAATATGCAT
52484065 ATATTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:52499718 original size:40 final size:40
Alignment explanation
Indices: 52499617--52499887 Score: 366
Period size: 40 Copynumber: 6.8 Consensus size: 40
52499607 TGGATGATAA
* * * * **
52499617 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
52499657 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
52499696 CCGAGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
52499736 TCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
**
52499776 CCGGGCTAAGTCCCGAAGGCATTTGTGTAAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
52499816 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* * *
52499856 CCGGGCTATGTCCCGAACGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
52499888 AGCTATATCC
Statistics
Matches: 207, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 32 0.15
40 173 0.84
41 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:52510993 original size:40 final size:40
Alignment explanation
Indices: 52510934--52511441 Score: 899
Period size: 40 Copynumber: 12.7 Consensus size: 40
52510924 GAGCATTGGA
52510934 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
52510974 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
52511014 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
52511054 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
52511094 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
52511134 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
52511174 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
52511214 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
52511254 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
52511294 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
52511334 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
52511374 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
52511414 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
52511442 ATGTGTTTGC
Statistics
Matches: 445, Mismatches: 23, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 445 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:52519982 original size:40 final size:40
Alignment explanation
Indices: 52519923--52520070 Score: 251
Period size: 40 Copynumber: 3.7 Consensus size: 40
52519913 GAGCATTGGA
52519923 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
52519963 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
52520003 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
52520043 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
52520071 ATGTGTTTGC
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 101 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:52525143 original size:27 final size:27
Alignment explanation
Indices: 52525113--52525262 Score: 158
Period size: 27 Copynumber: 5.6 Consensus size: 27
52525103 ATATCGAGTC
* * *
52525113 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
52525140 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
** ** *
52525167 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
52525194 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* * *
52525221 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACATAATCAAAT
52525248 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52525263 GTACAATTTA
Statistics
Matches: 104, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
27 103 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:52525225 original size:81 final size:81
Alignment explanation
Indices: 52525113--52525261 Score: 219
Period size: 81 Copynumber: 1.8 Consensus size: 81
52525103 ATATCGAGTC
*
52525113 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAG
1 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTAG
52525178 TGCCGCATGGTCAATT
66 TGCCGCATGGTCAATT
* * ** * *
52525194 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCACACTTA
1 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTA
52525258 GTGC
65 GTGC
52525262 TGTACAATTT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
80 2 0.03
81 58 0.97
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTAG
TGCCGCATGGTCAATT
Found at i:52534133 original size:39 final size:40
Alignment explanation
Indices: 52533984--52534208 Score: 266
Period size: 40 Copynumber: 5.7 Consensus size: 40
52533974 GCTCCTCGTT
* *
52533984 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
52534024 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
52534064 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
52534104 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * *
52534143 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGT-ATC-TCGCA
*
52534184 CAAA-GCCTTCGGGACATAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52534209 CATCATTCAA
Statistics
Matches: 165, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
38 2 0.01
39 39 0.24
40 110 0.67
41 14 0.08
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:52534168 original size:119 final size:120
Alignment explanation
Indices: 52533984--52534208 Score: 298
Period size: 119 Copynumber: 1.9 Consensus size: 120
52533974 GCTCCTCGTT
*
52533984 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
* * *
52534049 ATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACATAGCCCGGAATTAGTATCTCGCA
* **
52534104 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
* *
52534165 CGGATATGGTCACTTAGCACAAAGCCTTCGGGACATAGCCCGGA
63 CGGATATAGTAACTTAGCACAAAGCCTTCGGGACATAGCCCGGA
52534209 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
118 6 0.07
119 64 0.70
120 22 0.24
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACATAGCCCGGAATTAGTATCTCGCA
Found at i:52536263 original size:43 final size:43
Alignment explanation
Indices: 52536116--52536274 Score: 191
Period size: 43 Copynumber: 3.7 Consensus size: 43
52536106 TATGTGTTAT
* *
52536116 CGTGTAAGACCACATCTGGGACGTTGGCATTGACT-TATGATTTA
1 CGTGTAAGACCACATCTGGGACGTTGGCATCGA-TATTTGA-TTA
* * *
52536160 TGTGTAAGACCACGTCTGGGACGTTGGCATC-ATATTTGATTT
1 CGTGTAAGACCACATCTGGGACGTTGGCATCGATATTTGATTA
52536202 CGTGTAAGACC-CTATCTGGGACAG-TGGCATCGATATTTGATTA
1 CGTGTAAGACCAC-ATCTGGGAC-GTTGGCATCGATATTTGATTA
* *
52536245 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACATCTGGGACGTTGGCAT
52536275 TGTATGAGCT
Statistics
Matches: 99, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
41 1 0.01
42 29 0.29
43 40 0.40
44 29 0.29
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCACATCTGGGACGTTGGCATCGATATTTGATTA
Found at i:52546473 original size:30 final size:30
Alignment explanation
Indices: 52546416--52546473 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
52546406 CACAAGCTGC
* *
52546416 CACATGGGCATGTGGCTAGCCCGTGTGGCT
1 CACACGGGCATGTGGCTAGCCCATGTGGCT
*
52546446 CACACGGGCGTGT-GCTCAGCCCATGTGG
1 CACACGGGCATGTGGCT-AGCCCATGTGG
52546474 AAATGGTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 21 0.88
ACGTcount: A:0.14, C:0.29, G:0.36, T:0.21
Consensus pattern (30 bp):
CACACGGGCATGTGGCTAGCCCATGTGGCT
Found at i:52548262 original size:30 final size:31
Alignment explanation
Indices: 52548227--52548289 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
52548217 ATTTTCACCT
52548227 TTTGTGCAAAA-CTATCA-AAAATAAATAAAA
1 TTTGTG-AAAATCTATCATAAAATAAATAAAA
* * *
52548257 TTTGTGAAAATTTATTATAAAATAATTAAAA
1 TTTGTGAAAATCTATCATAAAATAAATAAAA
52548288 TT
1 TT
52548290 AATTATGTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 4 0.14
30 10 0.36
31 14 0.50
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.37
Consensus pattern (31 bp):
TTTGTGAAAATCTATCATAAAATAAATAAAA
Found at i:52548344 original size:27 final size:28
Alignment explanation
Indices: 52548284--52548337 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
52548274 TAAAATAATT
*
52548284 AAAATTAATTATGTTAATAATTTAAGTG
1 AAAATTAATTATGTTAATAATTAAAGTG
*
52548312 AAAATTAATTAT-TTTATAATTAAAGT
1 AAAATTAATTATGTTAATAATTAAAGT
52548338 ATGAATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (28 bp):
AAAATTAATTATGTTAATAATTAAAGTG
Found at i:52569004 original size:40 final size:40
Alignment explanation
Indices: 52568953--52569184 Score: 401
Period size: 40 Copynumber: 5.8 Consensus size: 40
52568943 GAATACATAT
* *
52568953 CACCGGCACGAATGCCCTTCGGGACTTAGCCCGAATATAA
1 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
* *
52568993 CATCGGCACGAATACCCTTCGGGATTTAGCCCGGATATAA
1 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
52569033 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
1 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
* *
52569073 CACCGGCACGAATGCCCTTCGAGATTTAGCCCGAATATAA
1 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
52569113 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
1 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
*
52569153 CACCGGCACGAATGCCCTTCGGGACTTAGCCC
1 CACCGGCACGAATGCCCTTCGGGATTTAGCCC
52569185 AGATCATCGT
Statistics
Matches: 181, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 181 1.00
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.19
Consensus pattern (40 bp):
CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
Found at i:52571316 original size:22 final size:22
Alignment explanation
Indices: 52571288--52571363 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
52571278 TTTCACATTC
52571288 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
52571310 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
52571334 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
52571357 ATCACAT
1 ATCACAT
52571364 ATATACACTT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 18 0.46
23 5 0.13
24 5 0.13
25 11 0.28
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:52571329 original size:47 final size:47
Alignment explanation
Indices: 52571260--52571411 Score: 286
Period size: 47 Copynumber: 3.2 Consensus size: 47
52571250 CCCTTCGAGA
*
52571260 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
52571307 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
52571354 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
52571401 CTTATCACATA
1 CTTATCACATA
52571412 ATTAATACTA
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 103 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:52571434 original size:94 final size:95
Alignment explanation
Indices: 52571260--52571449 Score: 262
Period size: 94 Copynumber: 2.0 Consensus size: 95
52571250 CCCTTCGAGA
* *
52571260 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
* *
52571325 TTTCACATTCATCAC-ATTGGCCATTCGGC
66 TTACACATTCATCACAATTGACCATTCGGC
*
52571354 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATA-ATTAAT
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATA-T-AC
* *
52571418 AC-TACACACTT-TTCACAATTGATCATTCGGC
64 ACTTACACA-TTCATCACAATTGACCATTCGGC
52571449 C
1 C
52571450 ACATTATACA
Statistics
Matches: 85, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
93 1 0.01
94 66 0.78
95 18 0.21
ACGTcount: A:0.28, C:0.29, G:0.08, T:0.34
Consensus pattern (95 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
TTACACATTCATCACAATTGACCATTCGGC
Found at i:52575169 original size:23 final size:22
Alignment explanation
Indices: 52575110--52575185 Score: 73
Period size: 25 Copynumber: 3.3 Consensus size: 22
52575100 AATTAAATAC
* *
52575110 TTTATATAAAATTATTTTATTTT
1 TTTATATAAAATTA-TTTATATA
*
52575133 TCTTAAAATAAAATCATATTTAT-TA
1 T-TT-ATATAAAAT--TATTTATATA
52575158 TTTATATAAAATTATTTATATA
1 TTTATATAAAATTATTTATATA
52575180 TTTATA
1 TTTATA
52575186 GATACAAGTA
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
21 7 0.16
22 8 0.18
23 9 0.20
24 4 0.09
25 10 0.22
26 5 0.11
27 2 0.04
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTATATAAAATTATTTATATA
Found at i:52578660 original size:13 final size:12
Alignment explanation
Indices: 52578633--52578668 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
52578623 TAGATATGTT
52578633 TTGGTTGTGGAA
1 TTGGTTGTGGAA
*
52578645 TTGGTTAGTTGAA
1 TTGGTT-GTGGAA
52578658 TTGGTTGTGGA
1 TTGGTTGTGGA
52578669 TAGATGGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.17, C:0.00, G:0.39, T:0.44
Consensus pattern (12 bp):
TTGGTTGTGGAA
Found at i:52581069 original size:17 final size:17
Alignment explanation
Indices: 52581039--52581071 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
52581029 TTTAAACAAT
52581039 AAATGTTAACTTATTTG
1 AAATGTTAACTTATTTG
52581056 AAAT-TTAACATTATTT
1 AAATGTTAAC-TTATTT
52581072 TATTCTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (17 bp):
AAATGTTAACTTATTTG
Found at i:52590333 original size:22 final size:22
Alignment explanation
Indices: 52590308--52590359 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
52590298 TGCTGAGACG
52590308 GTGGTGTTATAGTGGTGGTATA
1 GTGGTGTTATAGTGGTGGTATA
* * * *
52590330 GTGGTGATATGGTGGTTGTATG
1 GTGGTGTTATAGTGGTGGTATA
*
52590352 GTGCTGTT
1 GTGGTGTT
52590360 TCAGTTTGTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.13, C:0.02, G:0.42, T:0.42
Consensus pattern (22 bp):
GTGGTGTTATAGTGGTGGTATA
Found at i:52590805 original size:114 final size:114
Alignment explanation
Indices: 52590687--52590998 Score: 495
Period size: 114 Copynumber: 2.7 Consensus size: 114
52590677 TCCTTTCGGC
**
52590687 CCTTAGTTTCATTAGCGGCGTTTTCAAAAAATGCCACTAAAGGTTGAGTATTTGCGGCGTTTTTT
1 CCTTAGTGACATTAGCGGCGTTTTCAAAAAATGCCACTAAAGGTTGAGTATTTGCGGCGTTTTTT
52590752 GGAAAACGCCGCAAAAAAAAATAGCAAGACGCTATCATTTTGTTTTAAA
66 GGAAAACGCCGCAAAAAAAAATAGCAAGACGCTATCATTTTGTTTTAAA
52590801 CCTTAGTGACATTAGCGGCGTTTTCAAAAAATGCCACTAAAGGTTGAGTATTTGCGGCGTTTTTT
1 CCTTAGTGACATTAGCGGCGTTTTCAAAAAATGCCACTAAAGGTTGAGTATTTGCGGCGTTTTTT
*
52590866 GGAAAACGCCGAAAAAAAAAATAGCAAGACGCTATCATTTTGTTTTAAA
66 GGAAAACGCCGCAAAAAAAAATAGCAAGACGCTATCATTTTGTTTTAAA
* * *
52590915 CCTTAGTGACATTAGCGGCGTTTTTATAAAAACGCCAC-AATAGGTCT-AGTATTAGCGGCGTTT
1 CCTTAGTGACATTAGCGGCGTTTTCA-AAAAATGCCACTAA-AGGT-TGAGTATTTGCGGCGTTT
*
52590978 CTTAT-AAAAACGCCGCAAAAA
63 -TT-TGGAAAACGCCGCAAAAA
52590999 GTATTTTATG
Statistics
Matches: 185, Mismatches: 8, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
114 138 0.75
115 29 0.16
116 17 0.09
117 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (114 bp):
CCTTAGTGACATTAGCGGCGTTTTCAAAAAATGCCACTAAAGGTTGAGTATTTGCGGCGTTTTTT
GGAAAACGCCGCAAAAAAAAATAGCAAGACGCTATCATTTTGTTTTAAA
Found at i:52591048 original size:28 final size:29
Alignment explanation
Indices: 52591003--52591057 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
52590993 CAAAAAGTAT
*
52591003 TTTATGTATATATTTATT-ATTTAAATGG
1 TTTATGTATATATTTATTGATTAAAATGG
*
52591031 TTTATTTATAT-TTATATTGATTAAAAT
1 TTTATGTATATATT-TATTGATTAAAAT
52591058 ACAATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.09
28 14 0.61
29 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (29 bp):
TTTATGTATATATTTATTGATTAAAATGG
Found at i:52595505 original size:241 final size:241
Alignment explanation
Indices: 52594981--52595843 Score: 1647
Period size: 241 Copynumber: 3.6 Consensus size: 241
52594971 GCTCCATTAG
52594981 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
1 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
52595046 CTGTAAGATATAATGGATCCTCTCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
66 CTGTAAGATATAATGGATCCTCTCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
52595111 AAAAATACTTGAAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTT
131 AAAAATACTTG-AAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTT
52595176 GCTTGTCCATTAAAATGACAACAATATCTGACCTTCTCTCCAACCTT
195 GCTTGTCCATTAAAATGACAACAATATCTGACCTTCTCTCCAACCTT
* *
52595223 ATTTTAAATGTTTTAAAGATTCAAAGTATATAGACTGGAAACCTGACGGGTTGCCTTATATCGAG
1 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
52595288 CTGTAAGATATAATGGATCCTC-CTTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATT
66 CTGTAAGATATAATGGATCCTCTC-TAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATT
52595352 CAAAAATACTTGAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTT
130 CAAAAATACTTGAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTT
*
52595417 GCTTGTCCATTAAAATGACAACAATATCTGACCTTCTCTCCAGCCTT
195 GCTTGTCCATTAAAATGACAACAATATCTGACCTTCTCTCCAACCTT
* *
52595464 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGTTGGAAACCTGACGGGTTGACTTATATCGAG
1 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
*
52595529 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
66 CTGTAAGATATAATGGATCCTCTCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
52595594 AAAAATACTTGAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTG
131 AAAAATACTTGAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTG
52595659 CTTGTCCATTAAAATGACAACAATATCTGACCTTCTCTCCAACCTT
196 CTTGTCCATTAAAATGACAACAATATCTGACCTTCTCTCCAACCTT
52595705 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
1 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
52595770 CTGTAAGATATAATGGATCCTCTCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
66 CTGTAAGATATAATGGATCCTCTCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
52595835 AAAAATACT
131 AAAAATACT
52595844 GATATTGATC
Statistics
Matches: 608, Mismatches: 11, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
241 470 0.77
242 138 0.23
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (241 bp):
ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
CTGTAAGATATAATGGATCCTCTCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
AAAAATACTTGAAAAAATTTCTATCGAGCTCATTTACTATTGAATATTTATTACCATGTAGCTTG
CTTGTCCATTAAAATGACAACAATATCTGACCTTCTCTCCAACCTT
Found at i:52595882 original size:9 final size:9
Alignment explanation
Indices: 52595868--52595984 Score: 99
Period size: 9 Copynumber: 12.3 Consensus size: 9
52595858 CTTAAAGAAA
52595868 TTACATAAC
1 TTACATAAC
52595877 TTACATAAC
1 TTACATAAC
* *
52595886 TCATATAAC
1 TTACATAAC
*
52595895 TTACATAAT
1 TTACATAAC
52595904 TTACATAACAAC
1 TTACAT---AAC
52595916 TTACATAAC
1 TTACATAAC
*
52595925 TCACATAAC
1 TTACATAAC
* *
52595934 ATACATAAT
1 TTACATAAC
*
52595943 TTACATATC
1 TTACATAAC
*
52595952 TCACATAAC
1 TTACATAAC
*
52595961 GTACATAACAAC
1 TTACAT---AAC
52595973 TTACATAAC
1 TTACATAAC
52595982 TTA
1 TTA
52595985 ACTAATACAT
Statistics
Matches: 84, Mismatches: 18, Indels: 12
0.74 0.16 0.11
Matches are distributed among these distances:
9 68 0.81
12 16 0.19
ACGTcount: A:0.45, C:0.22, G:0.01, T:0.32
Consensus pattern (9 bp):
TTACATAAC
Found at i:52595926 original size:39 final size:39
Alignment explanation
Indices: 52595874--52595949 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
52595864 GAAATTACAT
* *
52595874 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACATACATAATTTACATAAC
52595913 AACTTACATAACTCACATAACATACATAATTTACATA
1 AACTTACATAACTCACATAACATACATAATTTACATA
52595950 TCTCACATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTCACATAACATACATAATTTACATAAC
Found at i:52595958 original size:57 final size:57
Alignment explanation
Indices: 52595870--52595982 Score: 154
Period size: 57 Copynumber: 2.0 Consensus size: 57
52595860 TAAAGAAATT
* * * **
52595870 ACATAACTTACATAACTCATATAACTTACATAATTTACATAACAACTTACATAACTC
1 ACATAACATACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
* * *
52595927 ACATAACATACATAATTTACATATCTCACATAACGTACATAACAACTTACATAACT
1 ACATAACATACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACT
52595983 TAACTAATAC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 48 1.00
ACGTcount: A:0.46, C:0.23, G:0.01, T:0.30
Consensus pattern (57 bp):
ACATAACATACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
Found at i:52595978 original size:39 final size:38
Alignment explanation
Indices: 52595868--52595980 Score: 119
Period size: 39 Copynumber: 3.0 Consensus size: 38
52595858 CTTAAAGAAA
*
52595868 TTACATAACTTACATAACT-CAT-ATAACTTACATAAT
1 TTACATAACTTACATAACTACATAACAACTTACATAAT
52595904 TTACATAACAACTTACATAACTCACATAAC-A--TACATAAT
1 TTACAT---AACTTACATAACT-ACATAACAACTTACATAAT
* *
52595943 TTACATATCTCACATAACGTACATAACAACTTACATAA
1 TTACATAACTTACATAAC-TACATAACAACTTACATAA
52595981 CTTAACTAAT
Statistics
Matches: 64, Mismatches: 3, Indels: 17
0.76 0.04 0.20
Matches are distributed among these distances:
36 23 0.36
37 2 0.03
39 34 0.53
41 4 0.06
42 1 0.02
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (38 bp):
TTACATAACTTACATAACTACATAACAACTTACATAAT
Found at i:52602037 original size:43 final size:43
Alignment explanation
Indices: 52601990--52602166 Score: 142
Period size: 43 Copynumber: 4.1 Consensus size: 43
52601980 TCTGCCAAAA
*
52601990 TTAGCAGCGCTTGT-AGAAAAAGCGCCGCTAAAAGCCTTGACAT
1 TTAGCAGCGCTTGTCACAAAAA-CGCCGCTAAAAGCCTTGACAT
* * * * *
52602033 TTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCT
1 TTAGCAGCGCTTGTCACAAAAACGCCGCTAAAAGCCTTGACAT
* * * * * * * *
52602076 TTCGCGGCACTTTTCCCATAAACGCCACTAAAAGCCTTGACCT
1 TTAGCAGCGCTTGTCACAAAAACGCCGCTAAAAGCCTTGACAT
* * * * * *
52602119 TCAGCGGCG-TTTTCCCCACAAACGCCGCTAAAAGCCTTGACCT
1 TTAGCAGCGCTTGT-CACAAAAACGCCGCTAAAAGCCTTGACAT
52602162 TTAGC
1 TTAGC
52602167 GGCGTTTTTT
Statistics
Matches: 116, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
42 4 0.03
43 108 0.93
44 4 0.03
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (43 bp):
TTAGCAGCGCTTGTCACAAAAACGCCGCTAAAAGCCTTGACAT
Found at i:52602168 original size:43 final size:42
Alignment explanation
Indices: 52602012--52602174 Score: 245
Period size: 43 Copynumber: 3.8 Consensus size: 42
52602002 GTAGAAAAAG
*
52602012 CGCCGCTAAAAGCCTTGACATTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCG-TTTTCCCACAAA
* * *
52602055 CGCCGCTAAAAGCCTTGACCTTTCGCGGCACTTTTCCCATAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGC-GTTTTCCCACAAA
* *
52602098 CGCCACTAAAAGCCTTGACCTTCAGCGGCGTTTTCCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTT-CCCACAAA
52602141 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTT
52602175 TTTCCAATAA
Statistics
Matches: 107, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
42 4 0.04
43 103 0.96
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.25
Consensus pattern (42 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTTCCCACAAA
Found at i:52606840 original size:16 final size:17
Alignment explanation
Indices: 52606819--52606855 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
52606809 AGGTGATTGT
52606819 TCTTTCC-CCATTCTTC
1 TCTTTCCTCCATTCTTC
*
52606835 TCTTTCCTCTATTCTTC
1 TCTTTCCTCCATTCTTC
52606852 -CTTT
1 TCTTT
52606856 TGATTTGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.05, C:0.38, G:0.00, T:0.57
Consensus pattern (17 bp):
TCTTTCCTCCATTCTTC
Found at i:52610530 original size:21 final size:21
Alignment explanation
Indices: 52610479--52610521 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
52610469 AATCACTTGT
52610479 AAACACAAAAAAATAAATTTA
1 AAACACAAAAAAATAAATTTA
52610500 AAACACAAAAAAATAAATTTA
1 AAACACAAAAAAATAAATTTA
52610521 A
1 A
52610522 CTCTAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.72, C:0.09, G:0.00, T:0.19
Consensus pattern (21 bp):
AAACACAAAAAAATAAATTTA
Found at i:52610660 original size:69 final size:69
Alignment explanation
Indices: 52610575--52610719 Score: 254
Period size: 69 Copynumber: 2.1 Consensus size: 69
52610565 AAAAATTAAA
* * *
52610575 AAATCTATATCACCCTCACATTTTATTTAGCACATTGTCCCTAATGTGTGCAAAAATAAATTAAG
1 AAAT-TATATCACCCTCACACTTTATATAGCACATTATCCCTAATGTGTGCAAAAATAAATTAAG
52610640 GATCG
65 GATCG
52610645 AAATTATATCACCCTCACACTTTATATAGCACATTATCCCTAATGTGTGCAAAAATAAATTAAGG
1 AAATTATATCACCCTCACACTTTATATAGCACATTATCCCTAATGTGTGCAAAAATAAATTAAGG
52610710 ATCG
66 ATCG
52610714 AAATTA
1 AAATTA
52610720 CCCTATTTAT
Statistics
Matches: 72, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
69 68 0.94
70 4 0.06
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (69 bp):
AAATTATATCACCCTCACACTTTATATAGCACATTATCCCTAATGTGTGCAAAAATAAATTAAGG
ATCG
Found at i:52610893 original size:23 final size:23
Alignment explanation
Indices: 52610849--52610893 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
52610839 TTTCATTAAT
*
52610849 TAAAACAAATAAAAAAATATAAC
1 TAAAACAAATAAAAAAAAATAAC
*
52610872 TAAAAGAAA-AAAATAAAAATAA
1 TAAAACAAATAAAA-AAAAATAA
52610894 TCCAGGTCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (23 bp):
TAAAACAAATAAAAAAAAATAAC
Found at i:52612089 original size:27 final size:27
Alignment explanation
Indices: 52612065--52612377 Score: 362
Period size: 27 Copynumber: 11.6 Consensus size: 27
52612055 TTAGTTTACG
* **
52612065 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
52612092 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
52612119 AAATTA-CAAGAATACCCTTGGTTTATA
1 AAATTACCAA-AATACCCCTGGTTTGTA
*
52612146 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
52612173 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
52612200 AAATCACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
52612227 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
52612254 AAATTATCAAAATACCCCTAATTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
52612281 AAATTACCAAAATACCCCTGATTTATG
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
52612308 AAATTACTAAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*** **
52612335 AAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*
52612362 AAATTACCAAAGTACC
1 AAATTACCAAAATACC
52612378 ATTGATTTAT
Statistics
Matches: 252, Mismatches: 30, Indels: 7
0.87 0.10 0.02
Matches are distributed among these distances:
26 7 0.03
27 241 0.96
28 4 0.02
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:52612404 original size:81 final size:82
Alignment explanation
Indices: 52612114--52612433 Score: 244
Period size: 81 Copynumber: 3.9 Consensus size: 82
52612104 TACCCCTGGT
* * * **
52612114 TTGTAAAATTA-CAAGAATACC-CTTGGTTTATAAAATCACCAAAATACCC-CTGGTTTGTAAAA
1 TTGTAAAATTACCAA-AATACCAC-TGATTTATGAAATTACCAAAATACCCTC-GACTTGTAAAA
*** ***
52612176 TTACCAAAATACCCT-TGGT
63 TTATTGAAATACCCTCTAAC
* * * * **
52612195 TTGTAAAATCACCAAAATACC-CTTGGTTTGTAAAATTACCAAAATACCC-CTGGTTTGTAAAAT
1 TTGTAAAATTACCAAAATACCAC-TGATTTATGAAATTACCAAAATACCCTC-GACTTGTAAAAT
** *
52612258 TATCAAAATACCC-CTAAT
64 TATTGAAATACCCTCTAAC
* *
52612276 TTGTAAAATTACCAAAATACCCCTGATTTATGAAATTACTAAAATACCCTCGACTTGTAAAATTA
1 TTGTAAAATTACCAAAATACCACTGATTTATGAAATTACCAAAATACCCTCGACTTGTAAAATTA
*
52612341 TTGAAATACCCTC-GAC
66 TTGAAATACCCTCTAAC
* * *** * **
52612357 TTGTAAAATTACCAAAGTACCATTGATTTAT-AGAATTACCGTTATACCCTCGATTTACAAAATT
1 TTGTAAAATTACCAAAATACCACTGATTTATGA-AATTACCAAAATACCCTCGACTTGTAAAATT
52612421 ATTGAAATACCCT
65 ATTGAAATACCCT
52612434 TGTAGGGTAG
Statistics
Matches: 206, Mismatches: 27, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
80 1 0.00
81 199 0.97
82 6 0.03
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (82 bp):
TTGTAAAATTACCAAAATACCACTGATTTATGAAATTACCAAAATACCCTCGACTTGTAAAATTA
TTGAAATACCCTCTAAC
Found at i:52612430 original size:27 final size:27
Alignment explanation
Indices: 52612065--52612433 Score: 133
Period size: 27 Copynumber: 13.7 Consensus size: 27
52612055 TTAGTTTACG
** * * *
52612065 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACTGAAATACCCTCGATTTATA
** * *
52612092 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACTGAAATACCCTC-GATTTATA
* * *
52612119 AAATTAC-AAGAATACCCTTGGTTTATA
1 AAATTACTGA-AATACCCTCGATTTATA
* ** * *
52612146 AAATCACCAAAATACCC-CTGGTTTGTA
1 AAATTACTGAAATACCCTC-GATTTATA
** * * *
52612173 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACTGAAATACCCTCGATTTATA
* ** * * *
52612200 AAATCACCAAAATACCCTTGGTTTGTA
1 AAATTACTGAAATACCCTCGATTTATA
** * *
52612227 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACTGAAATACCCTC-GATTTATA
* * *
52612254 AAATTA-TCAAAATACCC-CTAATTTGTA
1 AAATTACT-GAAATACCCTC-GATTTATA
** *
52612281 AAATTACCAAAATACCC-CTGATTTATG
1 AAATTACTGAAATACCCTC-GATTTATA
* * *
52612308 AAATTACTAAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTATA
* * *
52612335 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTATA
* * *
52612362 AAATTAC-CAAAGTACCATTGATTTATA
1 AAATTACTGAAA-TACCCTCGATTTATA
* * ** *
52612389 GAATTACCGTTATACCCTCGATTTACA
1 AAATTACTGAAATACCCTCGATTTATA
*
52612416 AAATTATTGAAATACCCT
1 AAATTACTGAAATACCCT
52612434 TGTAGGGTAG
Statistics
Matches: 286, Mismatches: 44, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
26 5 0.02
27 277 0.97
28 4 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTATA
Found at i:52612447 original size:27 final size:27
Alignment explanation
Indices: 52612424--52612800 Score: 479
Period size: 27 Copynumber: 14.0 Consensus size: 27
52612414 CAAAATTATT
*
52612424 GAAATACCCTTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
52612451 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
52612478 GAAATACCCCTGTA-GGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
52612504 GAAATACCCCTATAGGGTAGAGTTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
52612531 GAAATGCCCCTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
52612558 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
52612585 AAAATACCCATGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
52612612 GAAATACTCTTGTAGGGTAGAAATT-CC
1 GAAATACCCCTGTAGGGTAG-AATTACC
* *
52612639 GAAATTCCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
52612666 AAAATACCCATGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
52612693 GAAATACTCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
52612720 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
52612747 GAAATACCCCTGTAGGGTAGGATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * * *
52612774 GAGATACCCTTATGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
52612801 ATTTTACCCC
Statistics
Matches: 301, Mismatches: 46, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
26 27 0.09
27 270 0.90
28 4 0.01
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:52612811 original size:81 final size:81
Alignment explanation
Indices: 52612417--52612784 Score: 576
Period size: 81 Copynumber: 4.6 Consensus size: 81
52612407 CGATTTACAA
* *
52612417 AATTATTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAA
1 AATTACTGAAATACCCATGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAA
52612482 TACCCCTGTA-GGTAG
66 TACCCCTGTAGGGTAG
* * * * *
52612497 AATTACTGAAATACCCCTATAGGGTAGAGTTACCGAAATGCCCCTGTAGGGTAGAAATACCGAAA
1 AATTACTGAAATACCCATGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAA
52612562 TACCCCTGTAGGGTAG
66 TACCCCTGTAGGGTAG
* * *
52612578 AATTACTAAAATACCCATGTAGGGTAGAATTACCGAAATACTCTTGTAGGGTAGAAATTCCGAAA
1 AATTACTGAAATACCCATGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAA
*
52612643 TTCCCCTGTAGGGTAG
66 TACCCCTGTAGGGTAG
* *
52612659 AATTACTAAAATACCCATGTAGGGTAGAATTACCGAAATACTCTTGTAGGGTAGAAATACCGAAA
1 AATTACTGAAATACCCATGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAA
52612724 TACCCCTGTAGGGTAG
66 TACCCCTGTAGGGTAG
* * * *
52612740 AATTACTGAAATACCCCTGTAGGGTAGGATTATCGAGATACCCTT
1 AATTACTGAAATACCCATGTAGGGTAGAATTACCGAAATACCCTT
52612785 ATGGGGTAAA
Statistics
Matches: 264, Mismatches: 23, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
80 69 0.26
81 195 0.74
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (81 bp):
AATTACTGAAATACCCATGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAA
TACCCCTGTAGGGTAG
Found at i:52613081 original size:31 final size:30
Alignment explanation
Indices: 52613044--52613125 Score: 86
Period size: 27 Copynumber: 2.8 Consensus size: 30
52613034 CCTCGCTACA
52613044 ATCTGGTGGCTTCGCCACATATATATATCTG
1 ATCTGGTGGCTTCGCCACATATAT-TATCTG
52613075 -TCCTGGTGGCTAT-GCCAC--A-ATTATCTG
1 AT-CTGGTGGCT-TCGCCACATATATTATCTG
52613102 ATCTGGTGGC-TCTGCCACATATAT
1 ATCTGGTGGCTTC-GCCACATATAT
52613126 CTGTTCTCGT
Statistics
Matches: 43, Mismatches: 0, Indels: 17
0.72 0.00 0.28
Matches are distributed among these distances:
25 1 0.02
27 19 0.44
28 3 0.07
29 2 0.05
30 3 0.07
31 14 0.33
32 1 0.02
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (30 bp):
ATCTGGTGGCTTCGCCACATATATTATCTG
Found at i:52613107 original size:27 final size:26
Alignment explanation
Indices: 52613069--52613187 Score: 157
Period size: 27 Copynumber: 4.5 Consensus size: 26
52613059 CACATATATA
* *
52613069 TATCTGTCCTGGTGGCTATGCCACAAT
1 TATCTGTTCTGGTGGCTCTGCCAC-AT
*
52613096 TATCTGATCTGGTGGCTCTGCCACAT
1 TATCTGTTCTGGTGGCTCTGCCACAT
*
52613122 ATATCTGTTCTCGTGGCTCTGCCACGAT
1 -TATCTGTTCTGGTGGCTCTGCCAC-AT
* *
52613150 TATCTGTTCTGGTGACTCTGTCACAT
1 TATCTGTTCTGGTGGCTCTGCCACAT
52613176 TATCTGTTCTGG
1 TATCTGTTCTGG
52613188 CAGCCATGCT
Statistics
Matches: 82, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
26 16 0.20
27 64 0.78
28 2 0.02
ACGTcount: A:0.15, C:0.25, G:0.22, T:0.38
Consensus pattern (26 bp):
TATCTGTTCTGGTGGCTCTGCCACAT
Found at i:52613360 original size:19 final size:19
Alignment explanation
Indices: 52613319--52613362 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
52613309 CTGATTTTTG
* * *
52613319 ATTCTGTTACCTGATACTG
1 ATTCTGTCACCTAATACTA
*
52613338 ATTCTGTCACCTAATTCTA
1 ATTCTGTCACCTAATACTA
52613357 ATTCTG
1 ATTCTG
52613363 ATTCTGATTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.43
Consensus pattern (19 bp):
ATTCTGTCACCTAATACTA
Found at i:52615056 original size:27 final size:27
Alignment explanation
Indices: 52614822--52615133 Score: 319
Period size: 27 Copynumber: 11.6 Consensus size: 27
52614812 TTAGTTTACG
* **
52614822 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
52614849 AAATTA-CAAGAATACCCTTGGTTTATA
1 AAATTACCAA-AATACCCCTGGTTTGTA
*
52614876 AAATTA-CAAGAATACCCCTGGTTTATA
1 AAATTACCAA-AATACCCCTGGTTTGTA
* *
52614903 AAATCACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
52614930 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
52614957 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
52614984 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
52615011 AAATT-TCAAAATATCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** *
52615037 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
** **
52615064 AAATTACTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*** **
52615091 AAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*
52615118 AAATTACCAAAGTACC
1 AAATTACCAAAATACC
52615134 ATTGATTTAT
Statistics
Matches: 252, Mismatches: 28, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
26 30 0.12
27 218 0.87
28 4 0.02
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:52615117 original size:107 final size:107
Alignment explanation
Indices: 52614822--52615122 Score: 256
Period size: 107 Copynumber: 2.8 Consensus size: 107
52614812 TTAGTTTACG
* ** ** * * *
52614822 AAATTACCAAAATACCCTTGGTTTACAAAATTA-CAAGAATACCCTTG-GTTTATAAAATTA-CA
1 AAATTACCAAAATACCCCTAATTTGTAAAATTATCAA-AATACCC-CGAGCTTGTAAAATTACCA
** * ** *
52614884 AGAATACCCCTGGTTTATAAAATCACCAAAATACCCTTGGTTTGTA
64 A-AATACCCCTGACTTGTAAAAT-TTCAAAATACCCTTAGTTTGTA
** * *
52614930 AAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCCTAATTTGTAAAATTATCAAAATACCCCGAGCTTGTAAAATTACCAAA
**
52614995 ATACCCCTGGTTTGTAAAATTTCAAAATATCCC-TAGTTTGTA
66 ATACCCCTGACTTGTAAAATTTCAAAATA-CCCTTAGTTTGTA
* * ***
52615037 AAATTACCAAAATACCCCTAATTTGTGAAATTA-CTGAAATACCCTCGA-CTTGTAAAATTATTG
1 AAATTACCAAAATACCCCTAATTTGTAAAATTATC-AAAATACCC-CGAGCTTGTAAAATTACCA
52615100 AAATA-CCCTCGACTTGTAAAATT
64 AAATACCCCT-GACTTGTAAAATT
52615123 ACCAAAGTAC
Statistics
Matches: 165, Mismatches: 21, Indels: 15
0.82 0.10 0.07
Matches are distributed among these distances:
106 5 0.03
107 80 0.48
108 74 0.45
109 6 0.04
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (107 bp):
AAATTACCAAAATACCCCTAATTTGTAAAATTATCAAAATACCCCGAGCTTGTAAAATTACCAAA
ATACCCCTGACTTGTAAAATTTCAAAATACCCTTAGTTTGTA
Found at i:52615150 original size:81 final size:81
Alignment explanation
Indices: 52615032--52615188 Score: 190
Period size: 81 Copynumber: 1.9 Consensus size: 81
52615022 TATCCCTAGT
* * * **
52615032 TTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCCTCGACTTGTAAAATTA
1 TTGTAAAATTACCAAAATACCACTAATTTATGAAATTACCGAAATACCCTCGACTTACAAAATTA
52615097 TTGAAATACCCTCGAC
66 TTGAAATACCCTCGAC
* * * *** *
52615113 TTGTAAAATTACCAAAGTACCATTGATTTAT-AGAATTACCGTTTTACCCTCGATTTACAAAATT
1 TTGTAAAATTACCAAAATACCACTAATTTATGA-AATTACCGAAATACCCTCGACTTACAAAATT
52615177 ATTGAAATACCC
65 ATTGAAATACCC
52615189 CTATAGGGTA
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
80 1 0.02
81 62 0.98
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.33
Consensus pattern (81 bp):
TTGTAAAATTACCAAAATACCACTAATTTATGAAATTACCGAAATACCCTCGACTTACAAAATTA
TTGAAATACCCTCGAC
Found at i:52615187 original size:27 final size:27
Alignment explanation
Indices: 52615064--52615188 Score: 99
Period size: 27 Copynumber: 4.6 Consensus size: 27
52615054 CTAATTTGTG
*
52615064 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACTTATA
* *
52615091 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACTTATA
* * * *
52615118 AAATTAC-CAAAGTACCATTGATTTATA
1 AAATTACTGAAA-TACCCTCGACTTATA
* * *** * *
52615145 GAATTACCGTTTTACCCTCGATTTACA
1 AAATTACTGAAATACCCTCGACTTATA
*
52615172 AAATTATTGAAATACCC
1 AAATTACTGAAATACCC
52615189 CTATAGGGTA
Statistics
Matches: 75, Mismatches: 21, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
26 3 0.04
27 72 0.96
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.33
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACTTATA
Found at i:52615210 original size:27 final size:27
Alignment explanation
Indices: 52615180--52615576 Score: 477
Period size: 27 Copynumber: 15.0 Consensus size: 27
52615170 CAAAATTATT
* *
52615180 GAAATACCCCTATAGGGTAGATTTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
52615207 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
52615234 GAAGTACCCTTGTA-GG--G---TA--
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
52615253 GAAATACCCTTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
52615280 GAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
52615307 GAAATGCCCCTGTAGGGTAGAAATAAC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
52615334 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
52615361 AAAATACCCATGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
52615388 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
52615415 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
52615442 AAAATACCCATGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
52615469 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
52615496 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
52615523 GAAATACCCTTGTAGGGTAGGATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
52615550 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
52615577 ATTTTACCCC
Statistics
Matches: 320, Mismatches: 42, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
19 13 0.04
20 2 0.01
21 2 0.01
22 1 0.00
24 1 0.00
25 2 0.01
26 2 0.01
27 297 0.93
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Done.