Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 153 of 425
Found at i:46544784 original size:19 final size:18
Alignment explanation
Indices: 46544747--46544790 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
46544737 ATACATACAG
46544747 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
46544764 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
46544783 TACTAATT
1 TAATAATT
46544791 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:46547230 original size:28 final size:28
Alignment explanation
Indices: 46547151--46547219 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
46547141 TTTAAAACCC
*
46547151 TAGGGGT-ATATCGGTAATTATGCTCTT
1 TAGGGGTAATTTCGGTAATTATGCTCTT
*
46547178 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTATGCTCTT
46547206 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
46547220 TGATCTATGC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 7 0.18
28 32 0.82
ACGTcount: A:0.20, C:0.10, G:0.28, T:0.42
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTATGCTCTT
Found at i:46550857 original size:59 final size:59
Alignment explanation
Indices: 46550765--46551000 Score: 352
Period size: 59 Copynumber: 4.0 Consensus size: 59
46550755 AGTGCCACAG
* * *
46550765 ATCACAGAATTACATGCCTTTCAACGGGGCTACTCAAAAGCAC-CTGGACCCTAGCATGT
1 ATCACATAATCACATGCCTCTCAACGGGGCTACTCAAAAGCACTC-GGACCCTAGCATGT
*
46550824 ATCACATATTCACATGCCTCTCAACGGGGCTACTCAAAAGCACTCGGACCCTAGCATGT
1 ATCACATAATCACATGCCTCTCAACGGGGCTACTCAAAAGCACTCGGACCCTAGCATGT
* * *
46550883 ATCACATAATCACATGCCTCTTATCGGGGCTACTCAAAAGCAGTCGGACCCTAGCATGT
1 ATCACATAATCACATGCCTCTCAACGGGGCTACTCAAAAGCACTCGGACCCTAGCATGT
* * *
46550942 ATCACATAATCACATGCCTCTCATC-GGGCTATTCAAAAGCAC-CGAACCCTAGCATGT
1 ATCACATAATCACATGCCTCTCAACGGGGCTACTCAAAAGCACTCGGACCCTAGCATGT
46550999 AT
1 AT
46551001 TACGTATCAA
Statistics
Matches: 164, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
57 16 0.10
58 15 0.09
59 132 0.80
60 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (59 bp):
ATCACATAATCACATGCCTCTCAACGGGGCTACTCAAAAGCACTCGGACCCTAGCATGT
Found at i:46559966 original size:11 final size:11
Alignment explanation
Indices: 46559950--46559974 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
46559940 TGCAGGATAA
46559950 TGGTAAAATTT
1 TGGTAAAATTT
46559961 TGGTAAAATTT
1 TGGTAAAATTT
46559972 TGG
1 TGG
46559975 GTGAGAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (11 bp):
TGGTAAAATTT
Found at i:46563618 original size:51 final size:51
Alignment explanation
Indices: 46563558--46563657 Score: 164
Period size: 51 Copynumber: 2.0 Consensus size: 51
46563548 ATGCTTCAAG
* *
46563558 ATAGCTAAAACCACATAAAAAGAATTACCCGATACATTATCTTGAATTGGA
1 ATAGCTAAAACCACATAAAAAGAATTACCCGATACATGATCTTAAATTGGA
* *
46563609 ATAGCTAAAACCACATGAAAAGAATTACTCGATACATGATCTTAAATTG
1 ATAGCTAAAACCACATAAAAAGAATTACCCGATACATGATCTTAAATTG
46563658 CCAGCCATAG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.45, C:0.17, G:0.12, T:0.26
Consensus pattern (51 bp):
ATAGCTAAAACCACATAAAAAGAATTACCCGATACATGATCTTAAATTGGA
Found at i:46566787 original size:57 final size:58
Alignment explanation
Indices: 46566665--46566804 Score: 187
Period size: 57 Copynumber: 2.4 Consensus size: 58
46566655 GTTGCTGACG
* * **
46566665 GGATTTAGCCTGGACTAGTAATCCTGATATAATCCCTCTTGAGCATATGTTACAATTA
1 GGATTTAGCCTGGACTAGTAATCCTAATATAATCCCTCTTGAGCATATATTACAAAAA
* *
46566723 GGATTTAGCCTGGACTGGTAATCCTAAT-TGAA-CTCT-TCTGAGCATATATTACAAAAA
1 GGATTTAGCCTGGACTAGTAATCCTAATAT-AATCCCTCT-TGAGCATATATTACAAAAA
46566780 GGATTTAGCCTGGACTAGTAATCCT
1 GGATTTAGCCTGGACTAGTAATCCT
46566805 GTTATATGAT
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
56 1 0.01
57 44 0.60
58 28 0.38
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (58 bp):
GGATTTAGCCTGGACTAGTAATCCTAATATAATCCCTCTTGAGCATATATTACAAAAA
Found at i:46569497 original size:27 final size:27
Alignment explanation
Indices: 46569470--46569609 Score: 145
Period size: 27 Copynumber: 5.1 Consensus size: 27
46569460 AAACATATAT
* *
46569470 CACATAGGGGCAAAACAGTCATTTTAT
1 CACATAAGGGCAAAACAGTCATTTTAC
** * ** *
46569497 CAGTTAAGGGCAAGATGGTCATTTTTC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
46569524 CTCATAAAGGCCAAAACAGTCATTTTAC
1 CACAT-AAGGGCAAAACAGTCATTTTAC
*
46569552 CTCATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
46569579 CAGATAAGGGTAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
46569606 CACA
1 CACA
46569610 AAGCGGGTCA
Statistics
Matches: 90, Mismatches: 22, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
27 68 0.76
28 22 0.24
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.27
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:46571046 original size:12 final size:12
Alignment explanation
Indices: 46571031--46571069 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
46571021 CCTAATCTCT
46571031 CTCCTAAAATCC
1 CTCCTAAAATCC
* *
46571043 CTCCTTAAATCT
1 CTCCTAAAATCC
*
46571055 CTCCTCAAATCC
1 CTCCTAAAATCC
46571067 CTC
1 CTC
46571070 AACTGATCAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.26, C:0.44, G:0.00, T:0.31
Consensus pattern (12 bp):
CTCCTAAAATCC
Found at i:46577304 original size:55 final size:55
Alignment explanation
Indices: 46577184--46577305 Score: 129
Period size: 55 Copynumber: 2.2 Consensus size: 55
46577174 AAGCCTGTCA
* ** * * *
46577184 AAAC-AACACGGGCATGCGACACGACCGTGTGGAAGACCCGTGGTTGAAACTGAG
1 AAACTAACACGGGCATGAGACACGACCGTGTCAAACACCCATGGTCGAAACTGAG
* * * **
46577238 AAACTAGCACGGGCATGAGACACGCCCGTGTCAAACACCCATGGTCGAACCTGTT
1 AAACTAACACGGGCATGAGACACGACCGTGTCAAACACCCATGGTCGAAACTGAG
*
46577293 AAATTAACACGGG
1 AAACTAACACGGG
46577306 TGTGGGGCTT
Statistics
Matches: 54, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
54 4 0.07
55 50 0.93
ACGTcount: A:0.32, C:0.26, G:0.27, T:0.15
Consensus pattern (55 bp):
AAACTAACACGGGCATGAGACACGACCGTGTCAAACACCCATGGTCGAAACTGAG
Found at i:46577768 original size:23 final size:24
Alignment explanation
Indices: 46577742--46577789 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
46577732 ACTTCATACC
*
46577742 CATGATATTACCATGCTAAT-TCT
1 CATGATATTACCATGCCAATGTCT
*
46577765 CATGATATTTCCATGCCAATGTCT
1 CATGATATTACCATGCCAATGTCT
46577789 C
1 C
46577790 TCAAGAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.27, C:0.25, G:0.10, T:0.38
Consensus pattern (24 bp):
CATGATATTACCATGCCAATGTCT
Found at i:46588334 original size:21 final size:21
Alignment explanation
Indices: 46588282--46588335 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
46588272 CAGCCATGTA
46588282 ACTGAGGCACATGCCTGTGTG
1 ACTGAGGCACATGCCTGTGTG
* *
46588303 AATGAAGGCACATG-GTAGTGTG
1 ACTG-AGGCACATGCCT-GTGTG
46588325 ACTGAGGCACA
1 ACTGAGGCACA
46588336 CACCCATGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 11 0.39
22 17 0.61
ACGTcount: A:0.28, C:0.19, G:0.33, T:0.20
Consensus pattern (21 bp):
ACTGAGGCACATGCCTGTGTG
Found at i:46591473 original size:29 final size:28
Alignment explanation
Indices: 46591441--46591525 Score: 80
Period size: 29 Copynumber: 2.9 Consensus size: 28
46591431 GTAAAACAGT
46591441 AAAATCTAAAAGAATAGTGGCAGAACTGA
1 AAAATCTAAAA-AATAGTGGCAGAACTGA
* * * *
46591470 AAAATATGAAAAAAAAGTGGCAGAAAATGT
1 AAAATCT-AAAAAATAGTGGCAG-AACTGA
** *
46591500 AAAATCTGGAAAATAGTGGCAAAACT
1 AAAATCTAAAAAATAGTGGCAGAACT
46591526 ATAAAATTTG
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
28 3 0.07
29 27 0.61
30 14 0.32
ACGTcount: A:0.54, C:0.08, G:0.20, T:0.18
Consensus pattern (28 bp):
AAAATCTAAAAAATAGTGGCAGAACTGA
Found at i:46591546 original size:29 final size:30
Alignment explanation
Indices: 46591499--46591570 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
46591489 GCAGAAAATG
* *
46591499 TAAAATCTGGAAAAT--AGTGGCAAAACTA
1 TAAAATCTGTAAAATCCAGTGGAAAAACTA
*
46591527 TAAAATTTG-AAAATCCAGTGGAAAAACTA
1 TAAAATCTGTAAAATCCAGTGGAAAAACTA
46591556 TAAAATCTGTAAAAT
1 TAAAATCTGTAAAAT
46591571 GGTGGTGCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 5 0.13
28 8 0.21
29 20 0.53
30 5 0.13
ACGTcount: A:0.51, C:0.10, G:0.14, T:0.25
Consensus pattern (30 bp):
TAAAATCTGTAAAATCCAGTGGAAAAACTA
Found at i:46591547 original size:58 final size:57
Alignment explanation
Indices: 46591421--46591575 Score: 152
Period size: 58 Copynumber: 2.7 Consensus size: 57
46591411 TAAATTTTTT
* * * *
46591421 AAAAAAAGTGGTAAAACAGTAAAATCTAAAAGAATAGTGGCAGAACTGAAAAATATGA
1 AAAAAAAGTGGAAAAACTGTAAAATCTGAAA-AATAGTGGCAAAACTGAAAAATATGA
* *
46591479 AAAAAAAGTGGCAGAAAA-TGTAAAATCTGGAAAATAGTGGCAAAACT-ATAAAATTTGA
1 AAAAAAAGTGG-A-AAAACTGTAAAATCTGAAAAATAGTGGCAAAACTGA-AAAATATGA
*** * * *
46591537 AAATCCAGTGGAAAAACTATAAAATCTGTAAAATGGTGG
1 AAAAAAAGTGGAAAAACTGTAAAATCTGAAAAATAGTGG
46591576 TGCATGGTCA
Statistics
Matches: 81, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
56 4 0.05
57 21 0.26
58 41 0.51
59 11 0.14
60 4 0.05
ACGTcount: A:0.53, C:0.08, G:0.19, T:0.20
Consensus pattern (57 bp):
AAAAAAAGTGGAAAAACTGTAAAATCTGAAAAATAGTGGCAAAACTGAAAAATATGA
Found at i:46592977 original size:17 final size:17
Alignment explanation
Indices: 46592955--46592994 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
46592945 AAATAAAACA
46592955 TCTCAAATAAATTAAT-T
1 TCTCAAATAAA-TAATCT
*
46592972 TCTCAATTAAATAATCT
1 TCTCAAATAAATAATCT
46592989 TCTCAA
1 TCTCAA
46592995 CCCAATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.40
Consensus pattern (17 bp):
TCTCAAATAAATAATCT
Found at i:46595156 original size:23 final size:23
Alignment explanation
Indices: 46595130--46595174 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
46595120 ATCGGACAAA
46595130 ATCCAAGTAGAATAGATCCAAGG
1 ATCCAAGTAGAATAGATCCAAGG
*
46595153 ATCCAAGTAGAATATATCCAAG
1 ATCCAAGTAGAATAGATCCAAG
46595175 ATTCATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.20
Consensus pattern (23 bp):
ATCCAAGTAGAATAGATCCAAGG
Found at i:46596839 original size:65 final size:65
Alignment explanation
Indices: 46596735--46596864 Score: 242
Period size: 65 Copynumber: 2.0 Consensus size: 65
46596725 GGTTCAATGG
*
46596735 TTAAGTTTTTGTTTGAGCTGTTGTCTTGAGTTTGAGTCTCTGTGTAAGCGAAGATATGTTTTTGT
1 TTAAGTTTTTGTTTGAGCTGTTGTCTTGAGTTTGAGTCTCTGTGTAAGCAAAGATATGTTTTTGT
*
46596800 TTAAGTTTTTGTTTGCGCTGTTGTCTTGAGTTTGAGTCTCTGTGTAAGCAAAGATATGTTTTTGT
1 TTAAGTTTTTGTTTGAGCTGTTGTCTTGAGTTTGAGTCTCTGTGTAAGCAAAGATATGTTTTTGT
46596865 ACTTTGCGTA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.17, C:0.08, G:0.25, T:0.49
Consensus pattern (65 bp):
TTAAGTTTTTGTTTGAGCTGTTGTCTTGAGTTTGAGTCTCTGTGTAAGCAAAGATATGTTTTTGT
Found at i:46597388 original size:19 final size:19
Alignment explanation
Indices: 46597351--46597388 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
46597341 AAGTCATTTA
*
46597351 TTTTCAAAATGTGAGTCAT
1 TTTTCAAAATGTGAATCAT
*
46597370 TTTTCAAAATGTTAATCAT
1 TTTTCAAAATGTGAATCAT
46597389 ATTAAAACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.45
Consensus pattern (19 bp):
TTTTCAAAATGTGAATCAT
Found at i:46599153 original size:11 final size:11
Alignment explanation
Indices: 46599137--46599169 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
46599127 TGAGATAGAA
46599137 ATAATTATTTT
1 ATAATTATTTT
46599148 ATAATTATTTT
1 ATAATTATTTT
46599159 ATAATTATTTT
1 ATAATTATTTT
46599170 GAGGTCTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
ATAATTATTTT
Found at i:46604542 original size:20 final size:20
Alignment explanation
Indices: 46604514--46604552 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
46604504 GAAACAGGCA
46604514 TGTCCCAAAGCACACGGGCG
1 TGTCCCAAAGCACACGGGCG
*
46604534 TGTCTCAAAGCACACGGGC
1 TGTCCCAAAGCACACGGGC
46604553 TTGTGAGGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.33, G:0.28, T:0.13
Consensus pattern (20 bp):
TGTCCCAAAGCACACGGGCG
Found at i:46608172 original size:27 final size:27
Alignment explanation
Indices: 46608142--46608339 Score: 236
Period size: 27 Copynumber: 7.3 Consensus size: 27
46608132 TACTGAAATG
** * *
46608142 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCGTTTTA
* * * *
46608169 CCCTCGATTTATAGAATTACTGTTTCA
1 CCCTCGATTTACAAAATTACCGTTTTA
*
46608196 CCCTCGATTTACAAAACTACCGTTTTA
1 CCCTCGATTTACAAAATTACCGTTTTA
** * * *
46608223 CCCTTAATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCGTTTTA
46608250 CCCTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACCGTTTTA
* *
46608277 CCCTCAATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCGTTTTA
46608304 CCCTC-AGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTACAAAATTACCGTTTTA
46608331 CCCTCGATT
1 CCCTCGATT
46608340 GTAAAATTAC
Statistics
Matches: 146, Mismatches: 23, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
26 1 0.01
27 144 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.38
Consensus pattern (27 bp):
CCCTCGATTTACAAAATTACCGTTTTA
Found at i:46608222 original size:54 final size:54
Alignment explanation
Indices: 46608142--46608335 Score: 264
Period size: 54 Copynumber: 3.6 Consensus size: 54
46608132 TACTGAAATG
** * * * ** *
46608142 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTCA
1 CCCTCGATTTACAAAATTACCGTTTTACCCTCAATTTATAGAATTACCATTTTA
* *
46608196 CCCTCGATTTACAAAACTACCGTTTTACCCTTAATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCGTTTTACCCTCAATTTATAGAATTACCATTTTA
* *
46608250 CCCTCGATTTACAAAATTACCGTTTTACCCTCAATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCGTTTTACCCTCAATTTATAGAATTACCATTTTA
46608304 CCCTC-AGTTTACAAAATTACCGTTTTACCCTC
1 CCCTCGA-TTTACAAAATTACCGTTTTACCCTC
46608336 GATTGTAAAA
Statistics
Matches: 125, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
53 1 0.01
54 124 0.99
ACGTcount: A:0.29, C:0.26, G:0.07, T:0.38
Consensus pattern (54 bp):
CCCTCGATTTACAAAATTACCGTTTTACCCTCAATTTATAGAATTACCATTTTA
Found at i:46608257 original size:81 final size:81
Alignment explanation
Indices: 46608142--46608339 Score: 270
Period size: 81 Copynumber: 2.4 Consensus size: 81
46608132 TACTGAAATG
* * * * * *
46608142 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTCACCCTCGATTTA
1 CCCTCAATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTCACCCTCAATTTA
*
46608207 CAAAACTACCGTTTTA
66 CAAAACTACCATTTTA
* *
46608223 CCCTTAATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCAATTTA
1 CCCTCAATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTCACCCTCAATTTA
*
46608288 CAAAATTACCATTTTA
66 CAAAACTACCATTTTA
* * * *
46608304 CCCTCAGTTTACAAAATTACCGTTTTACCCTCGATT
1 CCCTCAATTTATAGAATTACCATTTTACCCTCGATT
46608340 GTAAAATTAC
Statistics
Matches: 102, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 102 1.00
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.38
Consensus pattern (81 bp):
CCCTCAATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTCACCCTCAATTTA
CAAAACTACCATTTTA
Found at i:46608361 original size:27 final size:27
Alignment explanation
Indices: 46608338--46608518 Score: 177
Period size: 27 Copynumber: 6.7 Consensus size: 27
46608328 TTACCCTCGA
**
46608338 TTGTAAAATTACTTAAATACCCCT-GT
1 TTGTAAAATTACCAAAATACCCCTAGT
** * * *
46608364 AGGATAGAAGTACGAAAATACCCCTAGT
1 TTG-TAAAATTACCAAAATACCCCTAGT
46608392 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
* * *
46608419 TTGTAAAATTACCGAAATACCACTGGT
1 TTGTAAAATTACCAAAATACCCCTAGT
* * *
46608446 TTGTGAAATTACCGAAATA-CCCTCAAT
1 TTGTAAAATTACCAAAATACCCCT-AGT
*
46608473 TTGTAAAATTACCAAAATACCCCTAAT
1 TTGTAAAATTACCAAAATACCCCTAGT
** *
46608500 TTAAAAAATTACAAAAATA
1 TTGTAAAATTACCAAAATA
46608519 GCCTTGACTT
Statistics
Matches: 128, Mismatches: 23, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
26 4 0.03
27 117 0.91
28 7 0.05
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.29
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTAGT
Found at i:46608678 original size:27 final size:27
Alignment explanation
Indices: 46608637--46608701 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
46608627 TACCCTAATA
* *
46608637 GGTAAAAAGATCGTAA-AGCCCCTGTAG
1 GGTAAAATGACCGTAATA-CCCCTGTAG
* * *
46608664 GGTAAAGTGACCGTAATACCCTTGTAT
1 GGTAAAATGACCGTAATACCCCTGTAG
46608691 GGTAAAATGAC
1 GGTAAAATGAC
46608702 TAATATGCCC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (27 bp):
GGTAAAATGACCGTAATACCCCTGTAG
Found at i:46609549 original size:25 final size:24
Alignment explanation
Indices: 46609511--46609580 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 24
46609501 AGGAAGTGCT
*
46609511 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
46609535 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
46609560 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
46609581 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
24 1 0.02
25 41 0.98
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:46609593 original size:24 final size:24
Alignment explanation
Indices: 46609510--46609593 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
46609500 GAGGAAGTGC
* *
46609510 TAAAAGGGCTCTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
46609535 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
46609559 CAGAAAGGGCTTTGCCCCAG-TTAT
1 TA-AAAGGGCTTTGCCCCAGTTTAT
46609583 TAAAAGAGGCT
1 TAAAAG-GGCT
46609594 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.19
25 38 0.73
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:46609787 original size:42 final size:42
Alignment explanation
Indices: 46609728--46609819 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
46609718 TAGTCTCCCC
* *
46609728 AAATGGGATTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
*
46609770 AAATGGGCTTGCATACATCCATTGACATTACGTGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
46609812 AAATGGGC
1 AAATGGGC
46609820 CTAAGGGCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:46609878 original size:31 final size:30
Alignment explanation
Indices: 46609843--46609926 Score: 114
Period size: 31 Copynumber: 2.7 Consensus size: 30
46609833 CGTTTACAGT
46609843 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGT-ATATGATTTATGA
** *
46609874 AAAGGCTTCGGCCTTGTAATATGATTTATGG
1 AAAGGCTTCGGCCCAGT-ATATGATTTATGA
*
46609905 AAAGGATTCGGCCCAGTATATG
1 AAAGGCTTCGGCCCAGTATATG
46609927 TCAAGACTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
30 5 0.11
31 41 0.89
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTATATGATTTATGA
Found at i:46615448 original size:17 final size:19
Alignment explanation
Indices: 46615417--46615457 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
46615407 CAAATTACGG
46615417 GCCCATGTAGGCCTACAC-
1 GCCCATGTAGGCCTACACA
46615435 GCCCATGT-GGCCTACACA
1 GCCCATGTAGGCCTACACA
46615453 GCCCA
1 GCCCA
46615458 CAATGGCCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.22, C:0.41, G:0.22, T:0.15
Consensus pattern (19 bp):
GCCCATGTAGGCCTACACA
Found at i:46618057 original size:22 final size:22
Alignment explanation
Indices: 46618022--46618091 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
46618012 AGGAAACTGT
*
46618022 ATCTGTATCTAATCTATTCTGC
1 ATCTGTATCGAATCTATTCTGC
*
46618044 ATCTGTTTCGAATCTATTCTGC
1 ATCTGTATCGAATCTATTCTGC
* * *
46618066 ATCTATAAT-GAATATATTTTGC
1 ATCTGT-ATCGAATCTATTCTGC
46618088 ATCT
1 ATCT
46618092 TACCAAAATG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
22 40 0.98
23 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.10, T:0.46
Consensus pattern (22 bp):
ATCTGTATCGAATCTATTCTGC
Found at i:46623399 original size:18 final size:17
Alignment explanation
Indices: 46623376--46623409 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
46623366 TAGTTTCAGA
46623376 TAAAGGAAATTGTGCTAG
1 TAAAGGAAATTG-GCTAG
46623394 TAAAGGAAATTGGCTA
1 TAAAGGAAATTGGCTA
46623410 ATCATAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.41, C:0.06, G:0.26, T:0.26
Consensus pattern (17 bp):
TAAAGGAAATTGGCTAG
Found at i:46625254 original size:59 final size:59
Alignment explanation
Indices: 46625162--46625333 Score: 317
Period size: 59 Copynumber: 2.9 Consensus size: 59
46625152 TTGATTCGTA
*
46625162 ATACATGCTAGGGTCTGGGTGCTTTTGAGTAGCCCCGTTGAGAGGCATGTGATTATGTG
1 ATACATGCTAGGGTCCGGGTGCTTTTGAGTAGCCCCGTTGAGAGGCATGTGATTATGTG
*
46625221 ATACATGCTAGGGTCCGGGTGCTTTTGAGTAGCCCCGTTGAGAGGCATGTGAATATGTG
1 ATACATGCTAGGGTCCGGGTGCTTTTGAGTAGCCCCGTTGAGAGGCATGTGATTATGTG
*
46625280 ATACATGCTAGGGTCCGGGTGCTTTTGAGTAGCCCCATTGAGAGGCATGTGATT
1 ATACATGCTAGGGTCCGGGTGCTTTTGAGTAGCCCCGTTGAGAGGCATGTGATT
46625334 CTTTGATCTG
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 109 1.00
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (59 bp):
ATACATGCTAGGGTCCGGGTGCTTTTGAGTAGCCCCGTTGAGAGGCATGTGATTATGTG
Found at i:46633873 original size:39 final size:39
Alignment explanation
Indices: 46633830--46633967 Score: 197
Period size: 39 Copynumber: 3.6 Consensus size: 39
46633820 CTCTGATGAC
46633830 CTTCAGTTAGCCTTCAGGCTTCCGTTTAGCACTTGTGTG
1 CTTCAGTTAGCCTTCAGGCTTCCGTTTAGCACTTGTGTG
* * *
46633869 CTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGCGTT
1 CTTCAGTTAGCCTTCAGGCTTCCGTTTAGCACTTGTGTG
* *
46633908 CTTCAGTTAGCCTTCAGGCTTTCGTTTAG-ACTTATGTG
1 CTTCAGTTAGCCTTCAGGCTTCCGTTTAGCACTTGTGTG
* * *
46633946 CTTCAGCTAGACTTCGGGCTTC
1 CTTCAGTTAGCCTTCAGGCTTC
46633968 AGATCATGAT
Statistics
Matches: 87, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
38 24 0.28
39 63 0.72
ACGTcount: A:0.13, C:0.26, G:0.22, T:0.38
Consensus pattern (39 bp):
CTTCAGTTAGCCTTCAGGCTTCCGTTTAGCACTTGTGTG
Found at i:46638624 original size:39 final size:39
Alignment explanation
Indices: 46638581--46638699 Score: 186
Period size: 39 Copynumber: 3.1 Consensus size: 39
46638571 CTCTGATGAC
46638581 CTTCAGTTAGCCTTCAGGCTTCCGTTTAACACTTGTGTG
1 CTTCAGTTAGCCTTCAGGCTTCCGTTTAACACTTGTGTG
* *
46638620 CTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGTG
1 CTTCAGTTAGCCTTCAGGCTTCCGTTTAACACTTGTGTG
* * *
46638659 CTTCAGTTAGCCTTCAGGCTTTCGTTT-AGACTTATGTG
1 CTTCAGTTAGCCTTCAGGCTTCCGTTTAACACTTGTGTG
46638697 CTT
1 CTT
46638700 TAGCTAGACT
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
38 11 0.15
39 62 0.85
ACGTcount: A:0.13, C:0.24, G:0.22, T:0.40
Consensus pattern (39 bp):
CTTCAGTTAGCCTTCAGGCTTCCGTTTAACACTTGTGTG
Found at i:46638717 original size:38 final size:38
Alignment explanation
Indices: 46638581--46638718 Score: 177
Period size: 39 Copynumber: 3.6 Consensus size: 38
46638571 CTCTGATGAC
* *
46638581 CTTCAGTTAGCCTTCAGGCTTCCGTTTAACACTTGTGTG
1 CTTCAGTTAGCCTTCGGGCTTCCGTTT-AGACTTGTGTG
46638620 CTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGTG
1 CTTCAGTTAGCCTTCGGGCTTCCGTTTAG-ACTTGTGTG
* * *
46638659 CTTCAGTTAGCCTTCAGGCTTTCGTTTAGACTTATGTG
1 CTTCAGTTAGCCTTCGGGCTTCCGTTTAGACTTGTGTG
* * * *
46638697 CTTTAGCTAGACTTTGGGCTTC
1 CTTCAGTTAGCCTTCGGGCTTC
46638719 AGATCAAGGT
Statistics
Matches: 87, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
38 25 0.29
39 62 0.71
ACGTcount: A:0.14, C:0.24, G:0.22, T:0.40
Consensus pattern (38 bp):
CTTCAGTTAGCCTTCGGGCTTCCGTTTAGACTTGTGTG
Found at i:46639918 original size:42 final size:42
Alignment explanation
Indices: 46639799--46639920 Score: 163
Period size: 43 Copynumber: 2.9 Consensus size: 42
46639789 TACCATACTA
* **
46639799 ATGCCATACCCCATATATGGTCTTACATGGGATCTCATATCG
1 ATGCCATACCCCATATATGGTCTTACACGAAATCTCATATCG
* *
46639841 ATGCCAATAGCCCATCTATGGTCTTACACGAAATCTCATATCG
1 ATGCC-ATACCCCATATATGGTCTTACACGAAATCTCATATCG
* * *
46639884 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
1 ATGCCATACCCCATATATGGTCTTACACGAAATCTCA
46639921 ACTACCCTTA
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
42 33 0.47
43 37 0.53
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATACCCCATATATGGTCTTACACGAAATCTCATATCG
Found at i:46641220 original size:47 final size:47
Alignment explanation
Indices: 46641169--46641453 Score: 462
Period size: 47 Copynumber: 6.1 Consensus size: 47
46641159 TTCCATGTTT
* ** *
46641169 ATCACATTAGCCATTCTACCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
46641216 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
46641263 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
*
46641310 ATCACATTGGCCATTTGGCCTTATCACATATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
*
46641357 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
* * * * **
46641404 ATCACATTGGCCATTAGGCATTATCTCATATATACACATTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
46641451 ATC
1 ATC
46641454 TCATAAAATC
Statistics
Matches: 224, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 224 1.00
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.34
Consensus pattern (47 bp):
ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
Found at i:46653213 original size:30 final size:30
Alignment explanation
Indices: 46653179--46653236 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
46653169 CCGAGCCTAG
*
46653179 GGGCAAAAGTGTAAATATGCAAAAGTTTAT
1 GGGCAAAAGTGTAAATATGAAAAAGTTTAT
* * *
46653209 GGGCAAAATTGTAATTTTGAAAAAGTTT
1 GGGCAAAAGTGTAAATATGAAAAAGTTT
46653237 GAGTTAAGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.31
Consensus pattern (30 bp):
GGGCAAAAGTGTAAATATGAAAAAGTTTAT
Found at i:46653563 original size:18 final size:19
Alignment explanation
Indices: 46653530--46653566 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
46653520 TTAAATTTAG
*
46653530 TAAATTAATTGAATTATGT
1 TAAATTAAATGAATTATGT
46653549 TAAATTAAATG-ATTATGT
1 TAAATTAAATGAATTATGT
46653567 GTGACAGCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (19 bp):
TAAATTAAATGAATTATGT
Found at i:46655515 original size:40 final size:40
Alignment explanation
Indices: 46655452--46655672 Score: 279
Period size: 40 Copynumber: 5.5 Consensus size: 40
46655442 TATTCGAATG
* *
46655452 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * * * *
46655492 ATATCTGGACTAAGATCCAAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
*
46655532 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
46655572 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
46655612 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
46655652 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
46655673 ATACTTGGGT
Statistics
Matches: 157, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.09
40 138 0.88
41 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:46655940 original size:22 final size:22
Alignment explanation
Indices: 46655900--46655941 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
46655890 GAATGTGCAT
*
46655900 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
46655922 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
46655942 TCGAAACCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:46663740 original size:40 final size:40
Alignment explanation
Indices: 46663680--46663898 Score: 281
Period size: 40 Copynumber: 5.5 Consensus size: 40
46663670 TATTCGAATG
*
46663680 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
46663720 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
*
46663760 ATATCCGGGCTAAGA-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
*
46663799 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* * *
46663839 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
46663879 ATATCC-GGCTAA-ATCCGAAG
1 ATATCCGGGCTAAGATCCGAAG
46663899 ATACTTGGGT
Statistics
Matches: 159, Mismatches: 13, Indels: 16
0.85 0.07 0.09
Matches are distributed among these distances:
38 8 0.05
39 40 0.25
40 106 0.67
41 5 0.03
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:46663889 original size:79 final size:78
Alignment explanation
Indices: 46663680--46663898 Score: 291
Period size: 79 Copynumber: 2.8 Consensus size: 78
46663670 TATTCGAATG
* *
46663680 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACTATATCCGGACTAAGATCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGG-CTAAG-TCCGAAGGCA
*
46663745 TTTGTGCGAGTTGCT
64 TTTATGCGAGTTGCT
*
46663760 ATATCCGGGCTAAGA-CCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCC-GGCTAAGT-CCGAAGGCA
*
46663824 TTTATGCTAG-TGACT
64 TTTATGCGAGTTG-CT
* * *
46663839 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATATCCGGCTAAATCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACTATATCCGGCTAAGTCCGAAG
46663899 ATACTTGGGT
Statistics
Matches: 125, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
78 9 0.07
79 74 0.59
80 41 0.33
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (78 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGCTAAGTCCGAAGGCATT
TATGCGAGTTGCT
Found at i:46664590 original size:40 final size:39
Alignment explanation
Indices: 46664532--46664697 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 39
46664522 CGGGACTTTA
*
46664532 CCGGATATCACGA-TTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAT-ACAACTTGCACAAATGCCTTCGGGTCTTAGC
* *
46664571 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATAT-ACAACTTGCACAAATGCCTTCGGGTCTTAGC
* * * *
46664611 CCGGATATGCTACTAGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATACAACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
46664650 CCGGATATA-AA-TTTCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAGC
46664690 CCGGATAT
1 CCGGATAT
46664698 CATTCAATTT
Statistics
Matches: 106, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 45 0.42
40 55 0.52
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (39 bp):
CCGGATATACAACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:46664680 original size:79 final size:79
Alignment explanation
Indices: 46664547--46664697 Score: 200
Period size: 79 Copynumber: 1.9 Consensus size: 79
46664537 TATCACGATT
* *
46664547 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACGAATGCCTTCGGGGCTTAGCC
46664612 CGGATATGCTACTA
66 CGGATATGCTACTA
* * * *
46664626 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTTGCA-C-GAA-TGCCTTCGGGGCTTA
46664688 GCCCGGATAT
63 GCCCGGATAT
46664698 CATTCAATTT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
76 4 0.06
77 3 0.05
78 3 0.05
79 53 0.84
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACGAATGCCTTCGGGGCTTAGCC
CGGATATGCTACTA
Found at i:46672661 original size:37 final size:37
Alignment explanation
Indices: 46672612--46672758 Score: 134
Period size: 37 Copynumber: 3.8 Consensus size: 37
46672602 ATCACGATTT
*
46672612 GCACAAATGCCTTCGGGTCTTAGCCCGGATAA-AACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAACAACTA
*
46672649 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATA-A-CAACTA
* *** *
46672689 GCACAATTGCCTTCGGGTCTTAACCCGGTATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG-ATAACAACTA
* * *
46672728 GCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
46672759 TCATTCAATT
Statistics
Matches: 93, Mismatches: 12, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
37 30 0.32
38 4 0.04
39 28 0.30
40 28 0.30
41 3 0.03
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (37 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAACAACTA
Found at i:46672716 original size:40 final size:38
Alignment explanation
Indices: 46672580--46672720 Score: 135
Period size: 40 Copynumber: 3.7 Consensus size: 38
46672570 CCGCACCAAG
* * * * *
46672580 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAACCCGGATAT-ACAACTAGCAC-AAT
* *
46672620 GCCTTCGGGTCTTAGCCCGGATA-A-AACTCGCACGAAT
1 GCCTTCGGGTCTTAACCCGGATATACAACTAGCAC-AAT
* *
46672657 GCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACAATT
1 GCCTTCGGGTCTTAACCCGGATATA-CAACTAGCACAA-T
46672697 GCCTTCGGGTCTTAACCCGG-TATA
1 GCCTTCGGGTCTTAACCCGGATATA
46672721 ATTTCCAGCA
Statistics
Matches: 87, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
37 32 0.37
38 2 0.02
39 6 0.07
40 47 0.54
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (38 bp):
GCCTTCGGGTCTTAACCCGGATATACAACTAGCACAAT
Found at i:46674770 original size:24 final size:25
Alignment explanation
Indices: 46674743--46674829 Score: 70
Period size: 25 Copynumber: 3.5 Consensus size: 25
46674733 GTACATGTAT
* *
46674743 GCTCATACGAGCTGTA-AATGGTAA
1 GCTCATACGAGCTGAATAATAGTAA
* * *
46674767 GCTCCTCCGAGTTGAATAATAGTAA
1 GCTCATACGAGCTGAATAATAGTAA
* * *
46674792 GCTTATACGAGCTGAGT-ATCAATAA
1 GCTCATACGAGCTGAATAAT-AGTAA
*
46674817 GCTCATAAGAGCT
1 GCTCATACGAGCT
46674830 AAAATCCGTA
Statistics
Matches: 48, Mismatches: 13, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
24 14 0.29
25 34 0.71
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.26
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAATAGTAA
Found at i:46678876 original size:9 final size:9
Alignment explanation
Indices: 46678862--46678920 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
46678852 ATAAGTATAA
46678862 AATTAACCG
1 AATTAACCG
*
46678871 AATTAATCG
1 AATTAACCG
46678880 AATTAACCG
1 AATTAACCG
*
46678889 AATTACCCG
1 AATTAACCG
* *
46678898 AATTACCCA
1 AATTAACCG
46678907 AATTAACCG
1 AATTAACCG
46678916 AATTA
1 AATTA
46678921 TTTGTTTAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 44 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:46678953 original size:6 final size:6
Alignment explanation
Indices: 46678942--46678981 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
46678932 TTATATGTTC
*
46678942 TTTTAT TTTTATT TTTTAT TTTAGAT TTTTAT TTTTAT TT
1 TTTTAT TTTTA-T TTTTAT TTT-TAT TTTTAT TTTTAT TT
46678982 ATTAAATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 19 0.63
7 11 0.37
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:46678960 original size:13 final size:13
Alignment explanation
Indices: 46678942--46678981 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
46678932 TTATATGTTC
46678942 TTTTATTTTTATT
1 TTTTATTTTTATT
*
46678955 TTTTA-TTTTAGAT
1 TTTTATTTTTA-TT
46678968 TTTTATTTTTATT
1 TTTTATTTTTATT
46678981 T
1 T
46678982 ATTAAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 5 0.22
13 13 0.57
14 5 0.22
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (13 bp):
TTTTATTTTTATT
Found at i:46680887 original size:45 final size:44
Alignment explanation
Indices: 46680823--46680943 Score: 170
Period size: 45 Copynumber: 2.7 Consensus size: 44
46680813 ATACATCCAT
46680823 ATGAACTCGGACCAACTCAACGAGCTCAGATGCTTCACATATATC
1 ATGAACTCGGACCAACTCAACGAGCTCAGATGC-TCACATATATC
* * * * *
46680868 ATGAACTTGGACCAACTCAACAAGTTCGGACTTCTCACATATATC
1 ATGAACTCGGACCAACTCAACGAGCTCAGA-TGCTCACATATATC
*
46680913 ATGAACTCGAACCAACTCAACGAGCTCAGAT
1 ATGAACTCGGACCAACTCAACGAGCTCAGAT
46680944 TTTCTAAATT
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
44 1 0.02
45 62 0.95
46 2 0.03
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.22
Consensus pattern (44 bp):
ATGAACTCGGACCAACTCAACGAGCTCAGATGCTCACATATATC
Found at i:46682997 original size:10 final size:10
Alignment explanation
Indices: 46682984--46683067 Score: 52
Period size: 10 Copynumber: 8.7 Consensus size: 10
46682974 GAAAATATTA
*
46682984 AATATATTTT
1 AATATAATTT
46682994 AATATAATTT
1 AATATAATTT
46683004 AATATAA---
1 AATATAATTT
*
46683011 AATATAAAATT
1 AATAT-AATTT
* * *
46683022 ATTTTAATAT
1 AATATAATTT
*
46683032 AAAAT-ATTCT
1 AATATAATT-T
*
46683042 AA-ATATTTT
1 AATATAATTT
46683051 AATATAATTT
1 AATATAATTT
46683061 AATATAA
1 AATATAA
46683068 AAATAAAAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
7 5 0.09
8 2 0.04
9 7 0.12
10 39 0.70
11 3 0.05
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (10 bp):
AATATAATTT
Found at i:46683006 original size:57 final size:55
Alignment explanation
Indices: 46682917--46683075 Score: 178
Period size: 57 Copynumber: 2.8 Consensus size: 55
46682907 TAAAAGATGG
** * * **
46682917 AGAAAATAAAAAAATATTTTAATATAAATTAATATAAAATATTATTTCTAAATTT-T
1 AGAAAATATTAAAATATTTTAATATAATTTAATATAAAATATAAAAT-T-AATTTAT
*
46682973 AGAAAATATTAAATATATTTTAATATAATTTAATATAAAATATAAAATTATTTTAAT
1 AGAAAATATTAAA-ATATTTTAATATAATTTAATATAAAATATAAAATTAATTT-AT
* *
46683030 ATAAAATATTCTAAATATTTTAATATAATTTAATATAAAA-ATAAAA
1 AGAAAATATT-AAAATATTTTAATATAATTTAATATAAAATATAAAA
46683076 AAATATTTTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
55 4 0.04
56 18 0.20
57 66 0.73
58 2 0.02
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (55 bp):
AGAAAATATTAAAATATTTTAATATAATTTAATATAAAATATAAAATTAATTTAT
Found at i:46683029 original size:23 final size:24
Alignment explanation
Indices: 46683001--46683057 Score: 82
Period size: 23 Copynumber: 2.4 Consensus size: 24
46682991 TTTAATATAA
46683001 TTTAATATAAAATA-T-AAAATTAT
1 TTTAATATAAAATATTCAAAA-TAT
*
46683024 TTTAATATAAAATATTCTAAATAT
1 TTTAATATAAAATATTCAAAATAT
46683048 TTTAATATAA
1 TTTAATATAA
46683058 TTTAATATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
23 14 0.45
24 14 0.45
25 3 0.10
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
TTTAATATAAAATATTCAAAATAT
Found at i:46683046 original size:16 final size:16
Alignment explanation
Indices: 46683010--46683047 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
46683000 ATTTAATATA
46683010 AAATATAAAATTATTT
1 AAATATAAAATTATTT
*
46683026 TAATATAAAA-TATTCT
1 AAATATAAAATTATT-T
46683042 AAATAT
1 AAATAT
46683048 TTTAATATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
AAATATAAAATTATTT
Found at i:46683066 original size:34 final size:33
Alignment explanation
Indices: 46683024--46683114 Score: 119
Period size: 34 Copynumber: 2.7 Consensus size: 33
46683014 ATAAAATTAT
46683024 TTTAATATAAAATATTCTAAATATTTTAATATAA
1 TTTAATATAAAATATT-TAAATATTTTAATATAA
*** *
46683058 TTTAATATAAAAATAAAAAAATATTTTAATATTA
1 TTTAATAT-AAAATATTTAAATATTTTAATATAA
*
46683092 TTTAATATAAAATACTTAAATAT
1 TTTAATATAAAATATTTAAATAT
46683115 AACTTAATAT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
33 12 0.24
34 31 0.63
35 6 0.12
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (33 bp):
TTTAATATAAAATATTTAAATATTTTAATATAA
Found at i:46683113 original size:25 final size:25
Alignment explanation
Indices: 46683075--46683130 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
46683065 TAAAAATAAA
* * * *
46683075 AAAATATTTTAATATTATTTAATAT
1 AAAATACTTAAATATAACTTAATAT
46683100 AAAATACTTAAATATAACTTAATAT
1 AAAATACTTAAATATAACTTAATAT
46683125 AAAATA
1 AAAATA
46683131 TTATTTGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (25 bp):
AAAATACTTAAATATAACTTAATAT
Found at i:46683122 original size:59 final size:58
Alignment explanation
Indices: 46682994--46683128 Score: 164
Period size: 58 Copynumber: 2.3 Consensus size: 58
46682984 AATATATTTT
* * * * * *
46682994 AATATAATTTAATAT-AAAATATAAAATTATTTTAATATAAAATATTCTAAATATTTT
1 AATATAATTTAATATAAAAATAAAAAAATATTTTAATATAAAATAATATAAATACTTA
* **
46683051 AATATAATTTAATATAAAAATAAAAAAATATTTTAATATTATTTAATATAAAATACTTA
1 AATATAATTTAATATAAAAATAAAAAAATATTTTAATATAAAATAATAT-AAATACTTA
*
46683110 AATATAACTTAATATAAAA
1 AATATAATTTAATATAAAA
46683129 TATTATTTGA
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
57 15 0.23
58 26 0.39
59 25 0.38
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (58 bp):
AATATAATTTAATATAAAAATAAAAAAATATTTTAATATAAAATAATATAAATACTTA
Found at i:46683142 original size:29 final size:28
Alignment explanation
Indices: 46683107--46683169 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 28
46683097 TATAAAATAC
* *
46683107 TTAAATATAACTTAATATAAAATATTAT
1 TTAAATATAACTTAATAGAAAATATAAT
*
46683135 TTGAAATATAATTTAATAGAAAATATAAT
1 TT-AAATATAACTTAATAGAAAATATAAT
46683164 TTAAAT
1 TTAAAT
46683170 TTTTTATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 6 0.19
29 25 0.81
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (28 bp):
TTAAATATAACTTAATAGAAAATATAAT
Found at i:46690948 original size:18 final size:20
Alignment explanation
Indices: 46690925--46690961 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
46690915 CAAATGAATA
46690925 CTTTAT-TTAAA-AAAAAAC
1 CTTTATCTTAAATAAAAAAC
46690943 CTTTATCTTAAATAAAAAA
1 CTTTATCTTAAATAAAAAA
46690962 AATTAAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 5 0.29
20 6 0.35
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (20 bp):
CTTTATCTTAAATAAAAAAC
Found at i:46700256 original size:41 final size:43
Alignment explanation
Indices: 46700200--46700290 Score: 114
Period size: 41 Copynumber: 2.2 Consensus size: 43
46700190 TATGATTTAC
* *
46700200 GTGTAAGACCATGTCTGGGACA-TCACATCG-TATTTGATTTT
1 GTGTAAGACCATGTCTAGGACAGTCACATCGATATTTGATTAT
* **
46700241 GTGTAAGACCCTGTCTAGGACAGTGGCATCGATATTTGATTAT
1 GTGTAAGACCATGTCTAGGACAGTCACATCGATATTTGATTAT
*
46700284 ATGTAAG
1 GTGTAAG
46700291 GCCACATCTG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 20 0.48
42 6 0.14
43 16 0.38
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.34
Consensus pattern (43 bp):
GTGTAAGACCATGTCTAGGACAGTCACATCGATATTTGATTAT
Found at i:46704165 original size:27 final size:27
Alignment explanation
Indices: 46704126--46704230 Score: 122
Period size: 27 Copynumber: 3.9 Consensus size: 27
46704116 CAAATTAATT
46704126 AAATGACTATTTTGCCCTTATGTGGTA
1 AAATGACTATTTTGCCCTTATGTGGTA
*
46704153 AAATGACTGTTTTGCCCTTATGTGGTA
1 AAATGACTATTTTGCCCTTATGTGGTA
*** * *
46704180 AAATGACTAAAATGCCCCTATATGGTA
1 AAATGACTATTTTGCCCTTATGTGGTA
* *
46704207 AATTGACTGTTTTG-CCTCTATGTG
1 AAATGACTATTTTGCCCT-TATGTG
46704231 ATATATGTTT
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
26 2 0.03
27 61 0.97
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (27 bp):
AAATGACTATTTTGCCCTTATGTGGTA
Found at i:46705118 original size:17 final size:17
Alignment explanation
Indices: 46705096--46705128 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
46705086 CATCATTAAG
*
46705096 AATATGTAACAAAGGTA
1 AATATGTAAAAAAGGTA
46705113 AATATGTAAAAAAGGT
1 AATATGTAAAAAAGGT
46705129 TTTTCTTTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.03, G:0.18, T:0.24
Consensus pattern (17 bp):
AATATGTAAAAAAGGTA
Found at i:46706384 original size:39 final size:39
Alignment explanation
Indices: 46706330--46706407 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
46706320 TCTTAGTTTT
46706330 TAATCACCCTCTTCAAACAAAATATTTTTCTTTACCAAA
1 TAATCACCCTCTTCAAACAAAATATTTTTCTTTACCAAA
46706369 TAATCACCCTCTTCAAACAAAATATTTTTCTTTACCAAA
1 TAATCACCCTCTTCAAACAAAATATTTTTCTTTACCAAA
46706408 ATGTTTTAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.38, C:0.26, G:0.00, T:0.36
Consensus pattern (39 bp):
TAATCACCCTCTTCAAACAAAATATTTTTCTTTACCAAA
Found at i:46708268 original size:48 final size:48
Alignment explanation
Indices: 46708211--46708438 Score: 261
Period size: 48 Copynumber: 4.9 Consensus size: 48
46708201 CACATGGTAG
* * *
46708211 GATGCCAATGCCATATCCCGGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* ** *
46708259 GATGCCAATGCCATGTCTCAGACATGGTCTTACATGGGATCGTAGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
46708307 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* **** * *
46708355 GATGCCGAT---A-G-CCCAG-CTATGGTCTTACACAAAATTATATATC
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCACATATC
* *
46708398 GATGCCAAAGCCATGTCCCAGACATGGTCTTACATTGGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
46708439 GCACATAACC
Statistics
Matches: 148, Mismatches: 25, Indels: 14
0.79 0.13 0.07
Matches are distributed among these distances:
42 1 0.01
43 31 0.21
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 111 0.75
49 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:46708416 original size:91 final size:94
Alignment explanation
Indices: 46708211--46708438 Score: 275
Period size: 91 Copynumber: 2.4 Consensus size: 94
46708201 CACATGGTAG
* * *
46708211 GATGCCAATGCCATATCCCGGATATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCAAT--CATGTC
* **** *
46708276 TCAGACATGGTCTTACATGGGATCGTAGATC
64 CCAGACATGGTCTTACACAAAATCATAGATC
*
46708307 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCGAT-A-G-CCC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCAATCATGTCCC
* *
46708369 AG-CTATGGTCTTACACAAAATTATATATC
66 AGAC-ATGGTCTTACACAAAATCATAGATC
* *
46708398 GATGCCAAAGCCATGTCCCAGACATGGTCTTACATTGGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
46708439 GCACATAACC
Statistics
Matches: 117, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
90 1 0.01
91 61 0.52
92 1 0.01
93 1 0.01
96 53 0.45
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (94 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCAATCATGTCCC
AGACATGGTCTTACACAAAATCATAGATC
Found at i:46714853 original size:2 final size:2
Alignment explanation
Indices: 46714846--46714878 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
46714836 TCATTGTACA
46714846 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
46714879 AGAATTAGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:46717631 original size:46 final size:45
Alignment explanation
Indices: 46717535--46717743 Score: 181
Period size: 46 Copynumber: 4.5 Consensus size: 45
46717525 GTGCCAATGC
* * *
46717535 CATGTCCCAGACATGGTCTTACACTGAC-ACATCTCGTA-GCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTTCATCTCG-AGGCCGATG
*
46717580 CATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTT-CATCTCGAGGCCGATG
*** ** * * *
46717626 CATGTCTTGGACATGTCTTACACTATCATTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGC-TTCATCTCGAGGCCGATG
* * *
46717672 CCATGTCTCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCT-TCAT-CTCGAGGCCGATG
*
46717720 CATGTCCTAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
46717744 AGCTCACATA
Statistics
Matches: 134, Mismatches: 22, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
44 12 0.09
45 15 0.11
46 58 0.43
47 27 0.20
48 21 0.16
49 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTTCATCTCGAGGCCGATG
Found at i:46717701 original size:94 final size:92
Alignment explanation
Indices: 46717576--46717744 Score: 234
Period size: 94 Copynumber: 1.8 Consensus size: 92
46717566 TCTCGTAGCT
* * * *
46717576 GATGCATGTCCCAGACATGTCTTACACTGGCT-TACGT-CTCGAGGCCGATGCATGTCTTGGACA
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATAAT-GAGGCCGATGCATGTCCTAGACA
46717639 TGTCTTACACTATCATTCGTCTCAATGCC
64 TGTCTTACACTATCATTCGTCTCAATGCC
* *
46717668 GATGCCATGTCTCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCTAGACA
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCCTAGACA
46717733 TGTCTTACACTA
64 TGTCTTACACTA
46717745 GCTCACATAA
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
92 4 0.06
93 13 0.19
94 48 0.72
95 2 0.03
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCCTAGACATG
TCTTACACTATCATTCGTCTCAATGCC
Found at i:46717754 original size:46 final size:47
Alignment explanation
Indices: 46717475--46717754 Score: 163
Period size: 46 Copynumber: 6.0 Consensus size: 47
46717465 ATGGGGTCAG
* * * *
46717475 GTGCTGATGCCATGTCCCAGACATGGTCTTAAACAAGTTCTAGCATATAT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-A-CATA-AT
* * *
46717525 GTGCCAATGCCATGTCCCAGACATGGTCTTACACT-G-ACACAT-CT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAAT
* * * * *
46717569 CGTAGCTGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGT-CT
1 -GT-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAAT
* *** * *
46717615 CGAGGCCGATG-CATGTCTTGGACAT-GTCTTACACTATCATTCGTC-TCAA-
1 -G-TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGC--TC-ACAT-AAT
* * *
46717664 -TGCCGATGCCATGTCTCAGACATGGTCTTACACTGGCTCTCATAAT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAAT
*
46717710 GTGGCCGATG-CATGTCCTAGACAT-GTCTTACACTAGCTCACATAA
1 GT-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAA
46717755 GTAACCCAAC
Statistics
Matches: 184, Mismatches: 30, Indels: 36
0.74 0.12 0.14
Matches are distributed among these distances:
44 11 0.06
45 21 0.11
46 72 0.39
47 26 0.14
48 21 0.11
49 2 0.01
50 31 0.17
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (47 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAAT
Found at i:46719947 original size:42 final size:43
Alignment explanation
Indices: 46719839--46719994 Score: 147
Period size: 43 Copynumber: 3.6 Consensus size: 43
46719829 AGCTCGTATA
* * *
46719839 ATGCCAATGACCCAGACATGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * * * *
46719882 ATGCCACTATCCCAAACAGGGTCTTACACGAAATCATATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* *
46719924 ATGCCAATGTCCCAG-CAATGGTCTTACACGTAAATCTCAA-GTCG
1 ATGCCAATGTCCCAGAC-ATGGTCTTACACG-AAATC-AAATATCG
* * *
46719968 ATGCCAACGTCCTAGACGTGGTCTTAC
1 ATGCCAATGTCCCAGACATGGTCTTAC
46719995 TTGATATCAC
Statistics
Matches: 90, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
41 1 0.01
42 26 0.29
43 37 0.41
44 25 0.28
45 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:46724035 original size:58 final size:60
Alignment explanation
Indices: 46723965--46724087 Score: 205
Period size: 59 Copynumber: 2.1 Consensus size: 60
46723955 GCCCAATTAT
46723965 TTTAAGTATACATTTAGAAAA-AAAATTAAAATTATTTTTTGAGTATGTCAAATATAGGC
1 TTTAAGTATACATTTAGAAAAGAAAATTAAAATTATTTTTTGAGTATGTCAAATATAGGC
* * *
46724024 TTTAA-TATACATTTAGAAAAGAAATTTAAAATTATTTTTTGAGTTTGTCAAATATAGGT
1 TTTAAGTATACATTTAGAAAAGAAAATTAAAATTATTTTTTGAGTATGTCAAATATAGGC
46724083 TTTAA
1 TTTAA
46724088 CTTTGTTTCT
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
58 15 0.25
59 45 0.75
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.42
Consensus pattern (60 bp):
TTTAAGTATACATTTAGAAAAGAAAATTAAAATTATTTTTTGAGTATGTCAAATATAGGC
Found at i:46724707 original size:17 final size:17
Alignment explanation
Indices: 46724685--46724723 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
46724675 ATGTAATAAA
*
46724685 TATATTTATAATAAAAT
1 TATATTTAAAATAAAAT
46724702 TATA-TTAAAATAAAAT
1 TATATTTAAAATAAAAT
46724718 T-TATTT
1 TATATTT
46724724 TGGTTGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 2 0.10
16 14 0.70
17 4 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TATATTTAAAATAAAAT
Found at i:46725063 original size:2 final size:2
Alignment explanation
Indices: 46725056--46725099 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
46725046 TTATTCTTAT
46725056 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
46725098 TA
1 TA
46725100 GCAAAATATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:46727180 original size:58 final size:59
Alignment explanation
Indices: 46727057--46727189 Score: 164
Period size: 58 Copynumber: 2.2 Consensus size: 59
46727047 AAATTGAGTG
* * * * *
46727057 TTAAATTTATTTAATTTTTTATAATTTGAATTAAAATTATAAATTTTATAAATATTAAGGG
1 TTAAATTTA-TTATTTTTTTATAATTTAAATTAAAATTATAAA-TATATAAATATAAAGGA
46727118 TTAAATTTATTATTTTTTTAT-ATTTAAAATT-AAATTGATAAA-ATATAAATATAAAGGA
1 TTAAATTTATTATTTTTTTATAATTT-AAATTAAAATT-ATAAATATATAAATATAAAGGA
46727176 TTAAATTTATTATT
1 TTAAATTTATTATT
46727190 AAATCAATAA
Statistics
Matches: 65, Mismatches: 5, Indels: 7
0.84 0.06 0.09
Matches are distributed among these distances:
58 27 0.42
59 9 0.14
60 20 0.31
61 9 0.14
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.50
Consensus pattern (59 bp):
TTAAATTTATTATTTTTTTATAATTTAAATTAAAATTATAAATATATAAATATAAAGGA
Found at i:46727592 original size:12 final size:12
Alignment explanation
Indices: 46727575--46727599 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46727565 CATTATTATT
46727575 TATTAAAAAATA
1 TATTAAAAAATA
46727587 TATTAAAAAATA
1 TATTAAAAAATA
46727599 T
1 T
46727600 GAACTTAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
TATTAAAAAATA
Found at i:46730084 original size:27 final size:27
Alignment explanation
Indices: 46730025--46730085 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
46730015 TCTTTAACTG
* * * *
46730025 GTGAACCCCTAGTTCACAATTTACTTG
1 GTGAACACCTAGTTCACAACTTACATA
*
46730052 GCGAACACCTAGTTCACAACTTACATA
1 GTGAACACCTAGTTCACAACTTACATA
46730079 GTGAACA
1 GTGAACA
46730086 ACAGTTTGCC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (27 bp):
GTGAACACCTAGTTCACAACTTACATA
Found at i:46731796 original size:66 final size:66
Alignment explanation
Indices: 46731649--46731846 Score: 170
Period size: 66 Copynumber: 2.9 Consensus size: 66
46731639 CTAACCGATT
* *
46731649 TGTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
1 TGTCTCGTAGCTCTCTTGTCTACATGG-GTCCTTCAC-T---ATCACACATGTGACCTAGCTACA
** *
46731714 TTTATC
61 TACAGC
* *
46731720 TTTCACGTAGCTCTCTTGTCTACATGGGTCCTTCACTATCACACATGTGACCTAGCTAC-TACAG
1 TGTCTCGTAGCTCTCTTGTCTACATGGGTCCTTCACTATCACACATGTGACCTAGCTACATACA-
*
46731784 GG
65 GC
* * *
46731786 TGTCTCGTAGCTTTCTTGTAC-ACATGATGTGCAC-TCAGC-ATCATACATGTGACCTAGCTAC
1 TGTCTCGTAGCTCTCTTGT-CTACATG-GGT-C-CTTCA-CTATCACACATGTGACCTAGCTAC
46731847 GCTCCCTCTA
Statistics
Matches: 108, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
65 2 0.02
66 41 0.38
67 3 0.03
68 25 0.23
69 3 0.03
70 9 0.08
71 25 0.23
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (66 bp):
TGTCTCGTAGCTCTCTTGTCTACATGGGTCCTTCACTATCACACATGTGACCTAGCTACATACAG
C
Found at i:46739322 original size:71 final size:71
Alignment explanation
Indices: 46739155--46739315 Score: 243
Period size: 71 Copynumber: 2.3 Consensus size: 71
46739145 CTAACCGATT
46739155 TGTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
1 TGTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
** *
46739220 TTTATC
66 TACAGC
* *
46739226 TTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTAC-
1 TGTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
*
46739290 TACAGGG
66 TACA-GC
*
46739297 TGTCTCGTAGCTTTCTTGT
1 TGTCTCGTAGCTCTCTTGT
46739316 ACACATGATG
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
70 2 0.03
71 78 0.98
ACGTcount: A:0.17, C:0.27, G:0.20, T:0.35
Consensus pattern (71 bp):
TGTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
TACAGC
Found at i:46745574 original size:44 final size:44
Alignment explanation
Indices: 46745511--46745601 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
46745501 CCACGACTTT
46745511 AACTGTCTCGAAGCATAAGCAATTACTTTGCCTTCCTACATTAA
1 AACTGTCTCGAAGCATAAGCAATTACTTTGCCTTCCTACATTAA
46745555 AACTGTCTCGAAGCATAAGCAATTACTTTGCCTTCCTACATTAA
1 AACTGTCTCGAAGCATAAGCAATTACTTTGCCTTCCTACATTAA
46745599 AAC
1 AAC
46745602 ACATCCCAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.31
Consensus pattern (44 bp):
AACTGTCTCGAAGCATAAGCAATTACTTTGCCTTCCTACATTAA
Found at i:46750019 original size:43 final size:43
Alignment explanation
Indices: 46749964--46750124 Score: 168
Period size: 43 Copynumber: 3.7 Consensus size: 43
46749954 TGCCAACGTT
* * *
46749964 CCAGACATGGTCTTACATGTAATCAAATATCGATGCCACTGTC
1 CCAGACAGGGTCTTACACGAAATCAAATATCGATGCCACTGTC
*
46750007 CCAGACAGGGTCTTACACAAAATCAAATA-CGATGCCAAC-GTC
1 CCAGACAGGGTCTTACACGAAATCAAATATCGATGCC-ACTGTC
* * * *
46750049 CCAGACATGTTCTTACACGCAAATCATAA-GTCGATGCCAATGTC
1 CCAGACAGGGTCTTACACG-AAATCA-AATATCGATGCCACTGTC
* *
46750093 CCAGAC-GTGGTCTTACACGATATCACATATCG
1 CCAGACAG-GGTCTTACACGAAATCAAATATCG
46750125 GATCCTATGT
Statistics
Matches: 97, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
42 27 0.28
43 42 0.43
44 28 0.29
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (43 bp):
CCAGACAGGGTCTTACACGAAATCAAATATCGATGCCACTGTC
Found at i:46750105 original size:86 final size:85
Alignment explanation
Indices: 46749953--46750110 Score: 221
Period size: 86 Copynumber: 1.8 Consensus size: 85
46749943 AGATTGTACA
* * * *
46749953 ATGCCAACGTTCCAGACATGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAGGGT
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAATATCGATGCCAATGTCCCAGACAGGGT
46750018 CTTACACAAAATCAAATACG
66 CTTACACAAAATCAAATACG
* *
46750038 ATGCCAACGTCCCAGACATGTTCTTACACGCAAATCATAA-GTCGATGCCAATGTCCCAGAC-GT
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AAATCA-AATATCGATGCCAATGTCCCAGACAG-
46750101 GGTCTTACAC
63 GGTCTTACAC
46750111 GATATCACAT
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
85 28 0.44
86 34 0.53
87 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (85 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAATATCGATGCCAATGTCCCAGACAGGGT
CTTACACAAAATCAAATACG
Found at i:46752974 original size:6 final size:6
Alignment explanation
Indices: 46752957--46752992 Score: 63
Period size: 6 Copynumber: 5.8 Consensus size: 6
46752947 TCAGATCTTG
46752957 TATTTAA TATTTA TATTTA TATTTA TATTTA TATTT
1 TATTT-A TATTTA TATTTA TATTTA TATTTA TATTT
46752993 GTTCGTTAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATTTA
Found at i:46753285 original size:82 final size:82
Alignment explanation
Indices: 46753152--46753330 Score: 241
Period size: 82 Copynumber: 2.2 Consensus size: 82
46753142 TTTATTTCTA
* * * *
46753152 CCGTTCAACAAATTTTATTCCATTTTTATTTTGTTCCCAAACGAGAATTAATTGAATAATTCTGT
1 CCGTTCAACGAATTTTATTCCATTTTGATTTTGTTCCCAAACAAGAATTAATTAAATAATTCTGT
*
46753217 TTCGGAATTTATTCCTG
66 TTCGGAATTTAATCCTG
* * * * * *
46753234 TCGTTTAACGAATTTTATTCGATTTTGATTTTGTTTCCAAACAAGATTTAATTAAATAATTTTGT
1 CCGTTCAACGAATTTTATTCCATTTTGATTTTGTTCCCAAACAAGAATTAATTAAATAATTCTGT
*
46753299 TTCGGGATTTAATCCTG
66 TTCGGAATTTAATCCTG
46753316 CCGTTCAACAGAATT
1 CCGTTCAAC-GAATT
46753331 GATTTTGATT
Statistics
Matches: 82, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
82 77 0.94
83 5 0.06
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.44
Consensus pattern (82 bp):
CCGTTCAACGAATTTTATTCCATTTTGATTTTGTTCCCAAACAAGAATTAATTAAATAATTCTGT
TTCGGAATTTAATCCTG
Found at i:46757799 original size:55 final size:55
Alignment explanation
Indices: 46757698--46757829 Score: 155
Period size: 55 Copynumber: 2.4 Consensus size: 55
46757688 GTGAATCTGT
*
46757698 CAAAACAACACGGGCGTGCGACACGACCGTGTCTAGAGGCCATGGTTGAA-ACTGA
1 CAAAACAACACGGGCGTGCGACACGACCGTGTCTAGAGCCCATGGTT-AAGACTGA
* * * *
46757753 GAAAACAACACGGGCGTGCGACACGCCCGTG-CTTACTA-CCCGTGGTTAAGACTGA
1 CAAAACAACACGGGCGTGCGACACGACCGTGTC-TA-GAGCCCATGGTTAAGACTGA
*
46757808 CAAAACAACATGGGCGTG-GACA
1 CAAAACAACACGGGCGTGCGACA
46757830 TACATACACA
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
54 7 0.10
55 59 0.88
56 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.28, T:0.14
Consensus pattern (55 bp):
CAAAACAACACGGGCGTGCGACACGACCGTGTCTAGAGCCCATGGTTAAGACTGA
Found at i:46760992 original size:33 final size:33
Alignment explanation
Indices: 46760954--46761019 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
46760944 GCTATGTTTT
46760954 ATTTTTGATAGCTAGCCTATGTTACTTGACTTG
1 ATTTTTGATAGCTAGCCTATGTTACTTGACTTG
46760987 ATTTTTGATAGCTAGCCTATGTTACTTGACTTG
1 ATTTTTGATAGCTAGCCTATGTTACTTGACTTG
46761020 TTCTTAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.15, G:0.18, T:0.45
Consensus pattern (33 bp):
ATTTTTGATAGCTAGCCTATGTTACTTGACTTG
Found at i:46764864 original size:26 final size:26
Alignment explanation
Indices: 46764835--46764887 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
46764825 CATTCCTTCA
*
46764835 TTTCACATTAATTATAAACATAAATG
1 TTTCACATTAAGTATAAACATAAATG
*
46764861 TTTCACATTAAGTATAAATATAAATG
1 TTTCACATTAAGTATAAACATAAATG
46764887 T
1 T
46764888 GAAACTTGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.40
Consensus pattern (26 bp):
TTTCACATTAAGTATAAACATAAATG
Found at i:46766603 original size:15 final size:15
Alignment explanation
Indices: 46766583--46766612 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
46766573 CTGATTCTGT
46766583 TTGTTTCTATAGAAA
1 TTGTTTCTATAGAAA
46766598 TTGTTTCTATAGAAA
1 TTGTTTCTATAGAAA
46766613 CTAGACTCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (15 bp):
TTGTTTCTATAGAAA
Found at i:46767919 original size:49 final size:49
Alignment explanation
Indices: 46767849--46768106 Score: 457
Period size: 49 Copynumber: 5.3 Consensus size: 49
46767839 CCCTTCGGGA
*
46767849 CTTATCACAT-T-TATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
46767896 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
46767945 CTTATCACATATATACACACTTTCACATTCTTCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
46767994 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* *
46768043 CTTATCATATATATACACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
46768092 CTTATCACATATATA
1 CTTATCACATATATA
46768107 TATCTCATAC
Statistics
Matches: 203, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
47 10 0.05
48 1 0.00
49 192 0.95
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:46769975 original size:80 final size:80
Alignment explanation
Indices: 46769891--46770039 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
46769881 TATGGTAACC
* * * *
46769891 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
46769955 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
46769971 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
46770036 CCGG
66 CCGG
46770040 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:46769981 original size:40 final size:38
Alignment explanation
Indices: 46769932--46770039 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
46769922 ATCACGATTT
*
46769932 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
46769972 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
46770012 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
46770040 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:46776335 original size:48 final size:49
Alignment explanation
Indices: 46776279--46776399 Score: 129
Period size: 52 Copynumber: 2.4 Consensus size: 49
46776269 TAAGATATTG
*
46776279 TTTATTTAATTATTTTTCAGATAT-GATATTTTTAAATAAATATAGATA
1 TTTATTTAATTATTTTTCAGATATGGATATTTTTAAATAAATATAAATA
* * *
46776327 TTTATTTAATT-TTCTTTGCTTAGATATGGTTTTTTTTACATAAATATAAATA
1 TTTATTTAATTATT-TTT-C--AGATATGGATATTTTTAAATAAATATAAATA
*
46776379 TTTGTTTATATTATTTATTCA
1 TTTATTTA-ATTATTT-TTCA
46776400 AATCTTGTAT
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
47 2 0.03
48 14 0.23
49 1 0.02
51 7 0.12
52 27 0.45
53 5 0.08
54 4 0.07
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.56
Consensus pattern (49 bp):
TTTATTTAATTATTTTTCAGATATGGATATTTTTAAATAAATATAAATA
Found at i:46776580 original size:17 final size:17
Alignment explanation
Indices: 46776558--46776591 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
46776548 TTTTGGATTA
46776558 AAAAATAGAAATCCAAT
1 AAAAATAGAAATCCAAT
46776575 AAAAATAGAAATCCAAT
1 AAAAATAGAAATCCAAT
46776592 TACTAACATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.65, C:0.12, G:0.06, T:0.18
Consensus pattern (17 bp):
AAAAATAGAAATCCAAT
Found at i:46776801 original size:28 final size:29
Alignment explanation
Indices: 46776744--46776802 Score: 68
Period size: 31 Copynumber: 2.0 Consensus size: 29
46776734 TAGATCAAAA
*
46776744 TTTTAAAATATTAAAAAAAAAGTACTAAATT
1 TTTTAAAATA-TAAAAAAAAAATAC-AAATT
46776775 TTTTAAAATA-AAAATAAAAAATA-AAATT
1 TTTTAAAATATAAAA-AAAAAATACAAATT
46776803 GAAATATATG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
28 5 0.19
29 4 0.15
30 7 0.27
31 10 0.38
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (29 bp):
TTTTAAAATATAAAAAAAAAATACAAATT
Found at i:46776979 original size:25 final size:21
Alignment explanation
Indices: 46776932--46776973 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
46776922 ATGTTTTAAC
*
46776932 TAAAATATATTATTTAATATT
1 TAAAATTTATTATTTAATATT
46776953 TAAAATTTAGTTATTTTAATA
1 TAAAATTTA-TTA-TTTAATA
46776974 AGTTTAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 3 0.17
23 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
TAAAATTTATTATTTAATATT
Found at i:46777905 original size:16 final size:17
Alignment explanation
Indices: 46777884--46777915 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
46777874 AAAATTTAAA
46777884 TTTAA-TTATTAATTTT
1 TTTAATTTATTAATTTT
46777900 TTTAATTTATTAATTT
1 TTTAATTTATTAATTT
46777916 AGTATTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTAATTTATTAATTTT
Found at i:46777907 original size:36 final size:35
Alignment explanation
Indices: 46777825--46777907 Score: 80
Period size: 36 Copynumber: 2.4 Consensus size: 35
46777815 AGTTTGTTCT
** *
46777825 ATTTTTTTAA-TTGAAATTTATTTTTAAATTTTTA
1 ATTTTTTTAATTTGAAATTTAAATTTAAATTATTA
* **
46777859 CTTTTTCAAATTTCGAAAATTTAAATTT-AATTATTA
1 ATTTTTTTAATTT-G-AAATTTAAATTTAAATTATTA
46777895 ATTTTTTTAATTT
1 ATTTTTTTAATTT
46777908 ATTAATTTAG
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
34 7 0.19
35 2 0.05
36 18 0.49
37 10 0.27
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (35 bp):
ATTTTTTTAATTTGAAATTTAAATTTAAATTATTA
Found at i:46780684 original size:17 final size:17
Alignment explanation
Indices: 46780662--46780695 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
46780652 ATATCATATC
46780662 ATATCATATCTAAGATT
1 ATATCATATCTAAGATT
46780679 ATATCATATCTAAGATT
1 ATATCATATCTAAGATT
46780696 GCATATCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (17 bp):
ATATCATATCTAAGATT
Found at i:46781701 original size:44 final size:44
Alignment explanation
Indices: 46781646--46781737 Score: 112
Period size: 44 Copynumber: 2.1 Consensus size: 44
46781636 CGTTCAGGTA
* * *
46781646 AGATGCAGAACAGATCAGAAACAAATGCATAACATATTTGATAC
1 AGATACAGAACAAATCAGAAACAAATGCATAACATATCTGATAC
* * * * *
46781690 AGATACAGAACAAATTAGATATAGATGCATAACATATCTGATGC
1 AGATACAGAACAAATCAGAAACAAATGCATAACATATCTGATAC
46781734 AGAT
1 AGAT
46781738 GCAGTTTCCT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.47, C:0.14, G:0.16, T:0.23
Consensus pattern (44 bp):
AGATACAGAACAAATCAGAAACAAATGCATAACATATCTGATAC
Found at i:46781723 original size:22 final size:22
Alignment explanation
Indices: 46781646--46781740 Score: 66
Period size: 22 Copynumber: 4.3 Consensus size: 22
46781636 CGTTCAGGTA
* * * *
46781646 AGATGCAGAACAGATCAGAAAC
1 AGATGCATAACAAATTAGATAC
* * *
46781668 AAATGCATAACATATTTGATAC
1 AGATGCATAACAAATTAGATAC
* * *
46781690 AGATACAGAACAAATTAGATAT
1 AGATGCATAACAAATTAGATAC
* *
46781712 AGATGCATAACATATCT-GATGC
1 AGATGCATAACAAAT-TAGATAC
46781734 AGATGCA
1 AGATGCA
46781741 GTTTCCTACC
Statistics
Matches: 55, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
22 54 0.98
23 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.22
Consensus pattern (22 bp):
AGATGCATAACAAATTAGATAC
Found at i:46782440 original size:63 final size:63
Alignment explanation
Indices: 46782345--46782527 Score: 190
Period size: 63 Copynumber: 2.9 Consensus size: 63
46782335 ACACAACTGT
* * * * * * * *
46782345 GTCCCTGACCTATGTGACCCTAAATAAAAAATAATAACTTACACGACCTGTACACATGCCCAC
1 GTCCCTGGCCCATGTGACCTTAAATCACAAATAGTGAGTTACACGACCTGTACACATGCCCAC
* * * ***
46782408 GTCCTTGGCCCATGTGACCTTAAATCACAAATAGTGAGTTACACGACTTGGACACATGCCTGT
1 GTCCCTGGCCCATGTGACCTTAAATCACAAATAGTGAGTTACACGACCTGTACACATGCCCAC
***
46782471 GTCCCTGGCTTGTGTGA-CTCTAAATCACAAATAGTGAGTTACACGACCTGT-CACATG
1 GTCCCTGGCCCATGTGACCT-TAAATCACAAATAGTGAGTTACACGACCTGTACACATG
46782528 ACTTGGCATG
Statistics
Matches: 99, Mismatches: 20, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
62 8 0.08
63 91 0.92
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (63 bp):
GTCCCTGGCCCATGTGACCTTAAATCACAAATAGTGAGTTACACGACCTGTACACATGCCCAC
Found at i:46791683 original size:27 final size:28
Alignment explanation
Indices: 46791653--46791722 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
46791643 ATAGTGAATC
*
46791653 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
46791680 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
46791708 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46791723 GTACAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:46791794 original size:42 final size:42
Alignment explanation
Indices: 46791730--46791836 Score: 187
Period size: 42 Copynumber: 2.5 Consensus size: 42
46791720 GCTGTACAAT
* *
46791730 TTTAAACCCGCACACGTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
46791772 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
*
46791814 TTTATACCCACACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
46791837 GAGACAAATA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:46799149 original size:29 final size:28
Alignment explanation
Indices: 46799059--46799158 Score: 80
Period size: 29 Copynumber: 3.5 Consensus size: 28
46799049 TACTCAATCA
* *
46799059 CGCACACTTAGTGCCATGT-GATTCAAGCC
1 CGCACACTTAGTGCC--GTACATTCAAGCT
* * * *
46799088 CGCACACATAGTGCCATATAGTCCAA--T
1 CGCACACTTAGTGCCGTACA-TTCAAGCT
46799115 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCGTACATT-CAAGCT
*
46799144 CGCACACTCAGTGCC
1 CGCACACTTAGTGCC
46799159 AATCTCGTCA
Statistics
Matches: 56, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
26 1 0.02
27 21 0.38
28 1 0.02
29 33 0.59
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.22
Consensus pattern (28 bp):
CGCACACTTAGTGCCGTACATTCAAGCT
Found at i:46807906 original size:11 final size:10
Alignment explanation
Indices: 46807874--46807928 Score: 60
Period size: 11 Copynumber: 5.5 Consensus size: 10
46807864 CATGAGATTT
46807874 TGATAT-ACA
1 TGATATGACA
*
46807883 TGATTTGACA
1 TGATATGACA
46807893 TGATATGCACA
1 TGATATG-ACA
*
46807904 TGATATG-TA
1 TGATATGACA
46807913 TGATATGTACA
1 TGATATG-ACA
46807924 TGATA
1 TGATA
46807929 AATTCATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
9 13 0.34
10 9 0.24
11 16 0.42
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.36
Consensus pattern (10 bp):
TGATATGACA
Found at i:46808082 original size:25 final size:25
Alignment explanation
Indices: 46807976--46808067 Score: 139
Period size: 25 Copynumber: 3.7 Consensus size: 25
46807966 GAGGAAGTGC
* *
46807976 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCG
* * *
46808001 GAAAGGGCTTTACCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCG
46808026 AAAAGGGCTTTGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTATCG
46808051 AAAAGGGCTTTGCCCCA
1 AAAAGGGCTTTGCCCCA
46808068 ATTATTACAA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 59 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCG
Found at i:46808325 original size:31 final size:31
Alignment explanation
Indices: 46808290--46808373 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
46808280 CATTTACAGT
46808290 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
46808321 AAAGGCTTCGGCCCAATGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
46808352 AAAGGCTTCAGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
46808374 CTGAGATTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.10
31 44 0.90
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:46816544 original size:47 final size:44
Alignment explanation
Indices: 46816434--46816559 Score: 137
Period size: 47 Copynumber: 2.7 Consensus size: 44
46816424 TTATTTGTGT
* *
46816434 GCTAGTGTAAGACATGTCTGGGACATGTATCAGCCATATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-G-CATATTACGAGA
* *
46816480 GCCAGTGTAAGACCATGTCTAGGACATGGCATCG-ATATTGAGGCGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGCATATT-A--CGAGA
*
46816528 GCTAGTGTAAGACATGTTTGGGACATGCATCG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCG
46816560 GCCTCGAGAT
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
45 5 0.07
46 18 0.26
47 26 0.38
48 19 0.28
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (44 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGCATATTACGAGA
Found at i:46816788 original size:46 final size:47
Alignment explanation
Indices: 46816482--46816795 Score: 168
Period size: 46 Copynumber: 6.7 Consensus size: 47
46816472 TTATGAGAGC
* ** * ** *
46816482 CAGTGTAAGACCATGTCTAGGACATGGCATCGATATTGAGGCGAGAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATCG-CCTCGATTCGATAGT
* * *
46816529 CTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCTCGAGAT-G-TAAGC
1 C-AGTGTAAGACCATGTCTGGGACATGGCATC-GCCTCGA-TTCGAT-AGT
* * * * **
46816576 CAGTGTAAGA-CATGCCTGGGACAT-ACATTGGCTACGAGACG-T-GT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGCCT-CGATTCGATAGT
* * * * *
46816620 TAGTGTAAGACCATGTCTAGGACATGGCATCAGCAC-GGATATGTGAGAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATC-GC-CTCGAT-T-CGATAGT
* * *
46816669 CTGGTGTAAGACCATGTCTGGGACATGGCGTTGGCCTCGATTTCGATAGT
1 C-AGTGTAAGACCATGTCTGGGACATGGC-ATCGCCTCGA-TTCGATAGT
* *
46816719 CAGTGTAAGACCATGTCTGGGACATGGCATCG-CTTGA-TGGATAAGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGCCTCGATTCGAT-AGT
*
46816765 CAGTGTAAGACCATGTCTAGGACATGGCATC
1 CAGTGTAAGACCATGTCTGGGACATGGCATC
46816796 AGCATTATAC
Statistics
Matches: 205, Mismatches: 41, Indels: 43
0.71 0.14 0.15
Matches are distributed among these distances:
44 10 0.05
45 19 0.09
46 78 0.38
47 20 0.10
48 13 0.06
49 31 0.15
50 32 0.16
51 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGCCTCGATTCGATAGT
Found at i:46821474 original size:2 final size:2
Alignment explanation
Indices: 46821467--46821497 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
46821457 TGAAAGTTGA
46821467 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46821498 TTTGAAAGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:46822610 original size:38 final size:38
Alignment explanation
Indices: 46822455--46822604 Score: 192
Period size: 38 Copynumber: 3.9 Consensus size: 38
46822445 ATTTTATGTG
** *
46822455 TATCCGGGCTTAAAGACCACAGGCTTCGTGCTGGTAAAA
1 TATCCGGG-TTAAATCCCGCAGGCTTCGTGCTGGTAAAA
46822494 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
* **
46822532 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTTGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
* * * * *
46822570 TATCAGGGATAAATCCCGTAGGCCTAGTGCTGGTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
46822605 TTATATTCGG
Statistics
Matches: 99, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
38 91 0.92
39 8 0.08
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
Found at i:46822897 original size:171 final size:172
Alignment explanation
Indices: 46822608--46823019 Score: 664
Period size: 171 Copynumber: 2.4 Consensus size: 172
46822598 GCTGGTATTA
* ** *
46822608 TATTCGGGCCTTCGTGCCTAGCAGGTTTCGTGCCGGTGATGTGTATTTAGGCCTTCGTGCCTAGC
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAAC
* * *
46822673 AGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCGGTGATGTGT
66 AGGCTTCGTGCCGGTGATGTATATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCAGTGATGTAT
*
46822738 ATTCGGGCCTTCGTGCCTAACAGGCTTCGTACCGGTGATGTG
131 ATTCGGGCCTTCGTGCCTAACAGGCTTCGTACCAGTGATGTG
**
46822780 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTACATTCGGGCCTTCGTGCC-AAC
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAAC
*
46822844 AGGCTTCGTGCCGGTGATGTATATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTAT
66 AGGCTTCGTGCCGGTGATGTATATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCAGTGATGTAT
* * *
46822909 ATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCAGTGATGTG
131 ATTCGGGCCTTCGTGCCTAACAGGCTTCGTACCAGTGATGTG
* * *
46822951 TATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCGATGATGTGTATTCGGGCCTTCGTGCCTAGC
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAAC
46823016 AGGC
66 AGGC
46823020 GTAATGCCGG
Statistics
Matches: 220, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
171 158 0.72
172 62 0.28
ACGTcount: A:0.12, C:0.25, G:0.32, T:0.30
Consensus pattern (172 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAAC
AGGCTTCGTGCCGGTGATGTATATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCAGTGATGTAT
ATTCGGGCCTTCGTGCCTAACAGGCTTCGTACCAGTGATGTG
Found at i:46823003 original size:214 final size:215
Alignment explanation
Indices: 46822609--46823019 Score: 689
Period size: 214 Copynumber: 1.9 Consensus size: 215
46822599 CTGGTATTAT
* * * *
46822609 ATTCGGGCCTTCGTGCCTAGCAGGTTTCGTGCCGGTGATGTGTATTTAGGCCTTCGTGCCTAGCA
1 ATTCGGGCCTTCGTGCCTAACAGGCTTCGTGCCGGTGATGTATATTCAGGCCTTCGTGCCTAGCA
* * *
46822674 GGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCGGTGATGTGTA
66 GGCTTCGTGCCAGTGATGTATATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCAGTGATGTGTA
* *
46822739 TTCGGGCCTTCGTGCCTAACAGGCTTCGTACCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAG
131 TTCAGGCCTTCGTGCCTAACAGGCTTCGTACCGATGATGTGTATTCGGGCCTTCGTGCCTAGCAG
46822804 GCTTCGTGCCGGTGATGTAC
196 GCTTCGTGCCGGTGATGTAC
*
46822824 ATTCGGGCCTTCGTGCC-AACAGGCTTCGTGCCGGTGATGTATATTCGGGCCTTCGTGCCTAGCA
1 ATTCGGGCCTTCGTGCCTAACAGGCTTCGTGCCGGTGATGTATATTCAGGCCTTCGTGCCTAGCA
* *
46822888 GGCTTCGTGCCAGTGATGTATATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCAGTGATGTGTA
66 GGCTTCGTGCCAGTGATGTATATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCAGTGATGTGTA
* *
46822953 TTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCGATGATGTGTATTCGGGCCTTCGTGCCTAGCAG
131 TTCAGGCCTTCGTGCCTAACAGGCTTCGTACCGATGATGTGTATTCGGGCCTTCGTGCCTAGCAG
46823018 GC
196 GC
46823020 GTAATGCCGG
Statistics
Matches: 182, Mismatches: 14, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
214 165 0.91
215 17 0.09
ACGTcount: A:0.12, C:0.26, G:0.32, T:0.30
Consensus pattern (215 bp):
ATTCGGGCCTTCGTGCCTAACAGGCTTCGTGCCGGTGATGTATATTCAGGCCTTCGTGCCTAGCA
GGCTTCGTGCCAGTGATGTATATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCAGTGATGTGTA
TTCAGGCCTTCGTGCCTAACAGGCTTCGTACCGATGATGTGTATTCGGGCCTTCGTGCCTAGCAG
GCTTCGTGCCGGTGATGTAC
Found at i:46823028 original size:43 final size:43
Alignment explanation
Indices: 46822608--46823019 Score: 673
Period size: 43 Copynumber: 9.6 Consensus size: 43
46822598 GCTGGTATTA
*
46822608 TATTCGGGCCTTCGTGCCTAGCAGGTTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
**
46822651 TATTTAGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
46822694 TATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
46822737 TATTCGGGCCTTCGTGCCTAACAGGCTTCGTACCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
46822780 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * *
46822823 CATTCGGGCCTTCGTGCC-AACAGGCTTCGTGCCGGTGATGTA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
46822865 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
46822908 TATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
46822951 TATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
46822994 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
46823020 GTAATGCCGG
Statistics
Matches: 344, Mismatches: 24, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
42 40 0.12
43 304 0.88
ACGTcount: A:0.12, C:0.25, G:0.32, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:46825349 original size:42 final size:43
Alignment explanation
Indices: 46825292--46825405 Score: 133
Period size: 42 Copynumber: 2.7 Consensus size: 43
46825282 TGAGATTTAT
* * * *
46825292 GTGTAAGACCATGTCTGGGACATAGGCATCGTATCT-AATTTC
1 GTGTAAGACCCTGTCTGGGACATAGGCATCGAAACTAAATTAC
* *
46825334 GTGTAAGACCCTGTCTGGGACAAATGCATCGAAACTAAATTAC
1 GTGTAAGACCCTGTCTGGGACATAGGCATCGAAACTAAATTAC
* *
46825377 ATGTAAGACCAC-GTCTGGGACATCGGCAT
1 GTGTAAGACC-CTGTCTGGGACATAGGCAT
46825406 TGTACCCGTT
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
42 31 0.52
43 28 0.47
44 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (43 bp):
GTGTAAGACCCTGTCTGGGACATAGGCATCGAAACTAAATTAC
Found at i:46832417 original size:42 final size:42
Alignment explanation
Indices: 46832371--46832451 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
46832361 TACAACTTGC
*
46832371 ATGTTAAGCATGCCGACTATGTTAACTATAAATTTGATTCGG
1 ATGTTAAGCATGCCGACTATGTTAACTATAAATCTGATTCGG
* *
46832413 ATGTTAAGCATGCCGACTATGTTGATTATAAATCTGATT
1 ATGTTAAGCATGCCGACTATGTTAACTATAAATCTGATT
46832452 GCATGTTCAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.37
Consensus pattern (42 bp):
ATGTTAAGCATGCCGACTATGTTAACTATAAATCTGATTCGG
Found at i:46839198 original size:41 final size:41
Alignment explanation
Indices: 46839151--46839452 Score: 446
Period size: 41 Copynumber: 7.3 Consensus size: 41
46839141 TATTCGGGCT
*
46839151 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGCC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
* *
46839192 TTATTGCCTAGCAGGCTTTGTGCCGATGTATTATATTAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
* *
46839233 TTATTGCCTAGCAGGCTTTGTGCCGGTGTTTTAAATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
*
46839274 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
46839315 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
* * * *
46839356 TTATTGCCTAGCAGACTTTATATGTCGGTGTATTATATCAGCC
1 TTATTGCCTAGCAGGC-TT-TGTGCCGGTGTATTATATCAGGC
* *
46839399 TTATTGCCTAGCAGACTCTGTGCCGGTGTATTATA-CTAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATC-AGGC
46839440 TT-TATGCCTAGCA
1 TTAT-TGCCTAGCA
46839453 AATTTTATGT
Statistics
Matches: 240, Mismatches: 17, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
40 2 0.01
41 199 0.83
42 3 0.01
43 36 0.15
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.37
Consensus pattern (41 bp):
TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
Found at i:46842100 original size:42 final size:43
Alignment explanation
Indices: 46842054--46842175 Score: 115
Period size: 48 Copynumber: 2.7 Consensus size: 43
46842044 ACCACACATT
* *
46842054 GGTGCCATATCCCAGATATGGTCTTATACGAAG-CCTCGA-ATC
1 GGTGCCATGTCCCAGACATGGTCTTATACGAAGACCTC-ATATC
* *
46842096 GGTGCAGACGTCATGTCCCAGACATGGTCTTATACG-GGACCTCATATT
1 GGT---G-C--CATGTCCCAGACATGGTCTTATACGAAGACCTCATATC
*
46842144 GATGCCATGTCCCAGACATGGTCTTATACGAA
1 GGTGCCATGTCCCAGACATGGTCTTATACGAA
46842176 ATCACTTAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
42 28 0.43
44 1 0.02
45 2 0.03
46 1 0.02
47 2 0.03
48 31 0.48
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.26
Consensus pattern (43 bp):
GGTGCCATGTCCCAGACATGGTCTTATACGAAGACCTCATATC
Done.