Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 156 of 168
Found at i:46503101 original size:13 final size:13
Alignment explanation
Indices: 46503079--46503233 Score: 91
Period size: 13 Copynumber: 11.8 Consensus size: 13
46503069 TTTATAGCAG
*
46503079 GTAATGTATTTAA
1 GTAATATATTTAA
*
46503092 GTAACATATTTAA
1 GTAATATATTTAA
* *
46503105 GTAAAAAATTTAA
1 GTAATATATTTAA
** *
46503118 CCAA-ATTTTAGTAA
1 GTAATATATT--TAA
* * *
46503132 GTAATGTATCTGA
1 GTAATATATTTAA
*
46503145 GTAACATATTTAA
1 GTAATATATTTAA
* *
46503158 GTAAAAAATTTAA
1 GTAATATATTTAA
*
46503171 CG-AA-ATTTTAGTAA
1 -GTAATATATT--TAA
*
46503185 GTAATGTATTTAA
1 GTAATATATTTAA
*
46503198 GTAATTTATTTAA
1 GTAATATATTTAA
*
46503211 GTAATATATTCAA
1 GTAATATATTTAA
46503224 GTAATATATT
1 GTAATATATT
46503234 AAGAGTAAAA
Statistics
Matches: 107, Mismatches: 27, Indels: 16
0.71 0.18 0.11
Matches are distributed among these distances:
12 6 0.06
13 85 0.79
14 11 0.10
15 5 0.05
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.40
Consensus pattern (13 bp):
GTAATATATTTAA
Found at i:46503148 original size:53 final size:53
Alignment explanation
Indices: 46503079--46503214 Score: 227
Period size: 53 Copynumber: 2.6 Consensus size: 53
46503069 TTTATAGCAG
46503079 GTAATGTATTTAAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
1 GTAATGTATTTAAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
* * *
46503132 GTAATGTATCTGAGTAACATATTTAAGTAAAAAATTTAACGAAATTTTAGTAA
1 GTAATGTATTTAAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
**
46503185 GTAATGTATTTAAGTAATTTATTTAAGTAA
1 GTAATGTATTTAAGTAACATATTTAAGTAA
46503215 TATATTCAAG
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 76 1.00
ACGTcount: A:0.45, C:0.04, G:0.12, T:0.39
Consensus pattern (53 bp):
GTAATGTATTTAAGTAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
Found at i:46503475 original size:46 final size:44
Alignment explanation
Indices: 46503425--46503510 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
46503415 TTAAATTGTA
46503425 AAAATATTAACATATATATAAATTTTTAATATTAATAAGTTATGAT
1 AAAATA-TAACA-ATATATAAATTTTTAATATTAATAAGTTATGAT
** **
46503471 AAAATATATGAATATATACTTTTTTAATATTAATAAGTTA
1 AAAATATAACAATATATAAATTTTTAATATTAATAAGTTA
46503511 AATAAAAACT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 27 0.75
45 3 0.08
46 6 0.17
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (44 bp):
AAAATATAACAATATATAAATTTTTAATATTAATAAGTTATGAT
Found at i:46503868 original size:7 final size:7
Alignment explanation
Indices: 46503848--46503896 Score: 55
Period size: 7 Copynumber: 6.9 Consensus size: 7
46503838 TTCATTCAAT
*
46503848 AGAAAAT
1 AGAAAAC
46503855 AGCAAAAC
1 AG-AAAAC
46503863 AGAAAAC
1 AGAAAAC
*
46503870 A-AAACAT
1 AGAAA-AC
46503877 AGAAAAC
1 AGAAAAC
46503884 AGAAAAC
1 AGAAAAC
46503891 AGAAAA
1 AGAAAA
46503897 TAAAGAAACA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
6 3 0.08
7 24 0.67
8 9 0.25
ACGTcount: A:0.71, C:0.12, G:0.12, T:0.04
Consensus pattern (7 bp):
AGAAAAC
Found at i:46504734 original size:305 final size:306
Alignment explanation
Indices: 46504180--46504794 Score: 1018
Period size: 305 Copynumber: 2.0 Consensus size: 306
46504170 TAAACTAGAT
*
46504180 ATTAAAACTATATATATTATATATTAAAAATGTATATAAATTTTAAGTATATTATAAAAGAAAAA
1 ATTAAAACTATATATATTATATATTAAAAATGTATATAAATTTTAAATATATTATAAAAGAAAAA
* *
46504245 AATCAAAAAAAAAAAAAGATTGAATCTCATATTTCAACAAAAAATATAACTTTGCCCTTTAGAAG
66 AAT--AAAAAAAAAAAAGATTGAATCTCAGATTTCAACAAAAAATATAACTTTGCCCTTTAGAAA
*
46504310 TTTGAACTTACAAGTTTTGAACAGTGCTGTAGTGTTCAGTTCCTTGAGACTATTGGATTTTTTCT
129 TTTGAACTTACAAGTTTTGAACAGTGCTGTAGTGTTCAGTTCCTTGACACTATTGGATTTTTTCT
*
46504375 AATAGTAGTATAGTAGCCCTGCCATAGCAAATATTAATAGATATCATTCAATAGGTTTAGAACAG
194 AATAGTAGTATAGTAGCCCTGCCATAGCAAATATTAATAGATATCATTCAATAGGTTTAGAACAA
** *
46504440 TTTTGCAATTTTCGACAGAACAGCAGTAAATGATTCAACATGGTAGCA
259 TTTTGCAATTTTCGACAGAACAGCAGTAAATGATGAAACATGGTAACA
46504488 ATTAAAACTATATATATTATATATTAAAAATGTATATAAATTTTAAATATATTATAAAAGAAAAA
1 ATTAAAACTATATATATTATATATTAAAAATGTATATAAATTTTAAATATATTATAAAAGAAAAA
* ** * * *
46504553 AAT-AAAATAAAAAAGATTGAATCTCAGATTTCGTGC-TAAAATATTACTTTGCTCTTTAGAAAT
66 AATAAAAAAAAAAAAGATTGAATCTCAGATTTC-AACAAAAAATATAACTTTGCCCTTTAGAAAT
* * * *
46504616 TTGAACTTACAAGTTTTGAACAGTGGTGTAGTGTTCAGTTCCTTGCCAGTATTGGATTTTTTCTG
130 TTGAACTTACAAGTTTTGAACAGTGCTGTAGTGTTCAGTTCCTTGACACTATTGGATTTTTTCTA
*
46504681 ATAGTAGTATAGTAGCCCTGCCATAGCAAATATTAATAGATATCATTCAATAGGTTTTGAACAAT
195 ATAGTAGTATAGTAGCCCTGCCATAGCAAATATTAATAGATATCATTCAATAGGTTTAGAACAAT
46504746 TTTGCAATTTTCGACAGAACAGCAGTAAATGATGAAACATGGTAACA
260 TTTGCAATTTTCGACAGAACAGCAGTAAATGATGAAACATGGTAACA
46504793 AT
1 AT
46504795 GGAAACTAAT
Statistics
Matches: 287, Mismatches: 19, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
305 219 0.76
306 1 0.00
308 67 0.23
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (306 bp):
ATTAAAACTATATATATTATATATTAAAAATGTATATAAATTTTAAATATATTATAAAAGAAAAA
AATAAAAAAAAAAAAGATTGAATCTCAGATTTCAACAAAAAATATAACTTTGCCCTTTAGAAATT
TGAACTTACAAGTTTTGAACAGTGCTGTAGTGTTCAGTTCCTTGACACTATTGGATTTTTTCTAA
TAGTAGTATAGTAGCCCTGCCATAGCAAATATTAATAGATATCATTCAATAGGTTTAGAACAATT
TTGCAATTTTCGACAGAACAGCAGTAAATGATGAAACATGGTAACA
Found at i:46505756 original size:198 final size:197
Alignment explanation
Indices: 46505412--46505879 Score: 812
Period size: 198 Copynumber: 2.4 Consensus size: 197
46505402 NNNNNNNNNN
46505412 GTAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTCTGTAATTTGCGGCGTTTATATACCAGC
1 GTAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTCTGTAATTTGCGGCGTTTATATACCAGC
* *
46505477 GCCACTAGTAATATGATCAAACGCTGTCGTTTTCCGATCAGTTAACTCAAACTCATGGCGTTTTA
66 GCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAGATAACTCAAACTCATGGCGTTTTA
* *
46505542 GAAAAAACGGCATCGTCTCCATAAAAATTAAAATATTTTTGCGGCGTTTACTAAAAGCGCCACTA
131 GAAAAAACGACATCGTCTCCATAAAAATTAAAACATTTTTGCGGCGTTTACTAAAAGCGCCACT-
46505607 AAA
195 AAA
46505610 GTAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTCTGTAATTTGCGGCGTTTATATACCAGC
1 GTAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTCTGTAATTTGCGGCGTTTATATACCAGC
46505675 GCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAGATAACTCAAACTCATGGCGTTTTA
66 GCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAGATAACTCAAACTCATGGCGTTTTA
*
46505740 GAGAAAACGACATCGTCTCCATAAAAATTAAAACATTTTTGCGGCGTTTACTAAAAGCGCCACTA
131 GAAAAAACGACATCGTCTCCATAAAAATTAAAACATTTTTGCGGCGTTTACTAAAAGCGCCACTA
46505805 AA
196 AA
* * * **
46505807 GTTAAATAAGAAAAC-AGAGCCGTTTTCCTAAACAATTTATGTAAATTGCGGCGTTTATACATAA
1 G-TAAATAAGAAAACGA-AGCCGTTTTCCTAAACAATTTCTGTAATTTGCGGCGTTTATATACCA
46505871 GCGCCACTA
64 GCGCCACTA
46505880 AATATTGGCC
Statistics
Matches: 258, Mismatches: 10, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
197 5 0.02
198 253 0.98
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (197 bp):
GTAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTCTGTAATTTGCGGCGTTTATATACCAGC
GCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAGATAACTCAAACTCATGGCGTTTTA
GAAAAAACGACATCGTCTCCATAAAAATTAAAACATTTTTGCGGCGTTTACTAAAAGCGCCACTA
AA
Found at i:46506348 original size:18 final size:18
Alignment explanation
Indices: 46506327--46506367 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
46506317 AATTTTTAGT
*
46506327 TTTTTTA-TTTCTTTTTTA
1 TTTTTTATTTTC-ATTTTA
46506345 TTTTTTATTTTCATTTTA
1 TTTTTTATTTTCATTTTA
46506363 TTTTT
1 TTTTT
46506368 GGAAATTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTTATTTTCATTTTA
Found at i:46506348 original size:19 final size:19
Alignment explanation
Indices: 46506319--46506367 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
46506309 AAAATAAAAA
46506319 TTTTTAGTTTTTTTA-TTTC
1 TTTTTA-TTTTTTTATTTTC
46506338 TTTTT-TATTTTTTATTTTC
1 TTTTTAT-TTTTTTATTTTC
*
46506357 ATTTTATTTTT
1 TTTTTATTTTT
46506368 GGAAATTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 1 0.04
18 7 0.27
19 17 0.65
20 1 0.04
ACGTcount: A:0.12, C:0.04, G:0.02, T:0.82
Consensus pattern (19 bp):
TTTTTATTTTTTTATTTTC
Found at i:46507486 original size:7 final size:7
Alignment explanation
Indices: 46507474--46507535 Score: 72
Period size: 7 Copynumber: 8.9 Consensus size: 7
46507464 ATAGCCCAAT
46507474 CCCTAAC
1 CCCTAAC
46507481 CCCTAAC
1 CCCTAAC
46507488 CCCTAA-
1 CCCTAAC
46507494 CCCTAAAC
1 CCCT-AAC
*
46507502 CCTTAAC
1 CCCTAAC
* *
46507509 CCATGAC
1 CCCTAAC
*
46507516 CTCTAAC
1 CCCTAAC
46507523 CCCTAAC
1 CCCTAAC
46507530 CCCTAA
1 CCCTAA
46507536 ATCTTATTTA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
6 4 0.09
7 39 0.85
8 3 0.07
ACGTcount: A:0.31, C:0.50, G:0.02, T:0.18
Consensus pattern (7 bp):
CCCTAAC
Found at i:46507488 original size:95 final size:95
Alignment explanation
Indices: 46507320--46507504 Score: 221
Period size: 95 Copynumber: 1.9 Consensus size: 95
46507310 TATAAAGAAC
* * * * * * *
46507320 TTATTTAATATGTTAATTAAAAAGTACTAATTAATCCAAATCTTAATCCCTAACCCGACTCCAAA
1 TTATTTAATATATAAATTAAAAAGCACTAATTAATCCAAACCTTAAACCATAACCCAACTCCAAA
* *
46507385 TCCATAACCCCTAACCCCTAACCCCTAAACT
66 CCCATAACCCCTAA-CCCTAAACCCTAAACT
* * *
46507416 TTATTTAATATATAAATTAAAAA-CACTAATTAATCTAAACCTTAAACCATAGCCCAA-TCCCTA
1 TTATTTAATATATAAATTAAAAAGCACTAATTAATCCAAACCTTAAACCATAACCCAACT-CCAA
*
46507479 ACCCCTAACCCCTAACCCTAAACCCT
65 ACCCATAACCCCTAACCCTAAACCCT
46507505 TAACCCATGA
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
94 11 0.15
95 43 0.57
96 21 0.28
ACGTcount: A:0.40, C:0.30, G:0.02, T:0.28
Consensus pattern (95 bp):
TTATTTAATATATAAATTAAAAAGCACTAATTAATCCAAACCTTAAACCATAACCCAACTCCAAA
CCCATAACCCCTAACCCTAAACCCTAAACT
Found at i:46507657 original size:7 final size:7
Alignment explanation
Indices: 46507647--46507681 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
46507637 AACCCCTAAA
46507647 CTAACCC
1 CTAACCC
46507654 CTAACCC
1 CTAACCC
*
46507661 CTAACAC
1 CTAACCC
*
46507668 ATAACCC
1 CTAACCC
46507675 CTAACCC
1 CTAACCC
46507682 ATAAACCTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.34, C:0.51, G:0.00, T:0.14
Consensus pattern (7 bp):
CTAACCC
Found at i:46507672 original size:14 final size:14
Alignment explanation
Indices: 46507655--46507685 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
46507645 AACTAACCCC
46507655 TAACCCCTAACACA
1 TAACCCCTAACACA
*
46507669 TAACCCCTAACCCA
1 TAACCCCTAACACA
46507683 TAA
1 TAA
46507686 ACCTTAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.16
Consensus pattern (14 bp):
TAACCCCTAACACA
Found at i:46507674 original size:21 final size:19
Alignment explanation
Indices: 46507636--46507687 Score: 77
Period size: 21 Copynumber: 2.6 Consensus size: 19
46507626 TCTTAACATT
46507636 TAACCCCTAAACTAACCCC
1 TAACCCCTAAACTAACCCC
46507655 TAACCCCTAACACATAACCCC
1 TAACCCCTAA-AC-TAACCCC
*
46507676 TAACCCATAAAC
1 TAACCCCTAAAC
46507688 CTTAAATCAC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 10 0.33
20 4 0.13
21 16 0.53
ACGTcount: A:0.40, C:0.44, G:0.00, T:0.15
Consensus pattern (19 bp):
TAACCCCTAAACTAACCCC
Found at i:46507737 original size:14 final size:15
Alignment explanation
Indices: 46507715--46507748 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
46507705 CTTAAACCAG
*
46507715 AATCCCTAA-TCCAT
1 AATCTCTAATTCCAT
46507729 AATCTCTAATTCCAT
1 AATCTCTAATTCCAT
46507744 AATCT
1 AATCT
46507749 ATAAAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.35
Consensus pattern (15 bp):
AATCTCTAATTCCAT
Found at i:46507819 original size:19 final size:20
Alignment explanation
Indices: 46507795--46507836 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
46507785 AATCCTAAAT
*
46507795 TAACCATATATA-TATACCC
1 TAACCATATATATTAAACCC
*
46507814 TAACCATATTTATTAAACCC
1 TAACCATATATATTAAACCC
46507834 TAA
1 TAA
46507837 ACTATAATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.33
Consensus pattern (20 bp):
TAACCATATATATTAAACCC
Found at i:46508133 original size:114 final size:112
Alignment explanation
Indices: 46507984--46508479 Score: 480
Period size: 114 Copynumber: 4.4 Consensus size: 112
46507974 ATTTTAAATC
* *
46507984 CCTGAGTATTAGTGGCGC-TTCATAAAAACGCCACTAAATCCCCGAAAGCTAAAAAAACGGCGTC
1 CCTGAGCATTAGCGGCGCATTCATAAAAACGCCACTAAATCCCCGAAAGCT-AAAAAACGGCGTC
46508048 GTTGGGCTGAAGTATTTTTGCGGCGCATTCCAAAAAACGCCGCTAAAGA
65 GTTGGGCTGAAGTATTTTTGCGGCGC-TTCCAAAAAACGCCGCTAAAGA
* * ** *
46508097 CCTGAGCATTAGCGGCGCATACATAAAAACGCCACTAAATCCTTC-TCAGCTTAGAAAACGGCGT
1 CCTGAGCATTAGCGGCGCATTCATAAAAACGCCACTAAATCC-CCGAAAGC-TAAAAAACGGCGT
* * * * * * *
46508161 TGTTGGGCTGAAGTATTATTGTGACGCTTTCACAAAAACGCCACTAAA-T
64 CGTTGGGCTGAAGTATTTTTGCGGCGCTTCCA-AAAAACGCCGCTAAAGA
* * * * * *
46508210 CACTGAGTATTAACGGCGCTTTAATAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGTGT
1 C-CTGAGCATTAGCGGCGCATTCATAAAAACGCCACTAAATCCCCGAAAGCT-AAAAAACGGCGT
* *** * *
46508275 CGTTGGGTTGAAGTGCGTTTGCGGCGCTTTCCCAAAAACGCCGCTAAGGA
64 CGTTGGGCTGAAGTATTTTTGCGGCGC-TTCCAAAAAACGCCGCTAAAGA
* * * *
46508325 CCTGAGCATTAGCGGCG-ATTTCATGAAAACGCCACTAAATCCCCCGAAAGCTCAGAAACGGAGT
1 CCTGAGCATTAGCGGCGCA-TTCATAAAAACGCCACTAAAT-CCCCGAAAGCTAAAAAACGGCGT
* * ** *
46508389 CGTGGGGCTGAAGTCTTTTTGCGGCGCTTACTGAGAAACGCCGCTAAAGA
64 CGTTGGGCTGAAGTATTTTTGCGGCGCTT-CCAAAAAACGCCGCTAAAGA
* ** * * * *
46508439 -TTGATAATTGGCGGCGCTTTCATAAAATCGCAACTAAATCC
1 CCTGAGCATTAGCGGCGCATTCATAAAAACGCCACTAAATCC
46508480 TTCTCAGCTC
Statistics
Matches: 308, Mismatches: 62, Indels: 27
0.78 0.16 0.07
Matches are distributed among these distances:
112 2 0.01
113 55 0.18
114 234 0.76
115 17 0.06
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.23
Consensus pattern (112 bp):
CCTGAGCATTAGCGGCGCATTCATAAAAACGCCACTAAATCCCCGAAAGCTAAAAAACGGCGTCG
TTGGGCTGAAGTATTTTTGCGGCGCTTCCAAAAAACGCCGCTAAAGA
Found at i:46508430 original size:228 final size:228
Alignment explanation
Indices: 46507978--46508479 Score: 600
Period size: 228 Copynumber: 2.2 Consensus size: 228
46507968 TAATTTATTT
* *
46507978 TAAATCCCTGAGTATTAGTGGCGC-TTCATAAAAACGCCACTAAATCCCCGAAAGCTAAAAAAAC
1 TAAATCACTGAGTATTAGCGGCGCTTTCATAAAAACGCCACTAAATCCCCGAAAGCTAAAAAAAC
**
46508042 GGCGTCGTTGGGCTGAAGTATTTTTGCGGCGCATTCCAAAAAACGCCGCTAAAGACCTGAGCATT
66 GGCGTCGTTGGGCTGAAGTACGTTTGCGGCGCATTCCAAAAAACGCCGCTAAAGACCTGAGCATT
** ** * * * *
46508107 AGCGGCGCATACATAAAAACGCCACTAAATCCTTCTCAGCTTAGAAAACGGCGTTGTTGGGCTGA
131 AGCGGCGCATACATAAAAACGCCACTAAATCCCCCAAAGCTCAGAAAACGGAGTCGTGGGGCTGA
* *
46508172 AGTATTATTGTGACGCTTTCACAAAAACGCCAC
196 AGTATTATTGCGACGCTTACACAAAAACGCCAC
* * * *
46508205 TAAATCACTGAGTATTAACGGCGCTTTAATAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAAC
1 TAAATCACTGAGTATTAGCGGCGCTTTCATAAAAACGCCACTAAATCCCCGAAAGCTAAAAAAAC
* * * * * *
46508270 GGTGTCGTTGGGTTGAAGTGCGTTTGCGGCGCTTTCCCAAAAACGCCGCTAAGGACCTGAGCATT
66 GGCGTCGTTGGGCTGAAGTACGTTTGCGGCGCATTCCAAAAAACGCCGCTAAAGACCTGAGCATT
* *
46508335 AGCGGCG-ATTTCATGAAAACGCCACTAAATCCCCCGAAAGCTCAG-AAACGGAGTCGTGGGGCT
131 AGCGGCGCA-TACATAAAAACGCCACTAAATCCCCC-AAAGCTCAGAAAACGGAGTCGTGGGGCT
* * * ** * *
46508398 GAAGTCTTTTTGCGGCGCTTACTGAGAAACGCCGC
194 GAAGTATTATTGCGACGCTTACACAAAAACGCCAC
* * * * *
46508433 TAAA-GATTGA-TAATTGGCGGCGCTTTCATAAAATCGCAACTAAATCC
1 TAAATCACTGAGT-ATTAGCGGCGCTTTCATAAAAACGCCACTAAATCC
46508480 TTCTCAGCTC
Statistics
Matches: 231, Mismatches: 40, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
226 1 0.00
227 56 0.24
228 168 0.73
229 6 0.03
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (228 bp):
TAAATCACTGAGTATTAGCGGCGCTTTCATAAAAACGCCACTAAATCCCCGAAAGCTAAAAAAAC
GGCGTCGTTGGGCTGAAGTACGTTTGCGGCGCATTCCAAAAAACGCCGCTAAAGACCTGAGCATT
AGCGGCGCATACATAAAAACGCCACTAAATCCCCCAAAGCTCAGAAAACGGAGTCGTGGGGCTGA
AGTATTATTGCGACGCTTACACAAAAACGCCAC
Found at i:46512834 original size:63 final size:64
Alignment explanation
Indices: 46512720--46512854 Score: 164
Period size: 63 Copynumber: 2.1 Consensus size: 64
46512710 TTCTAAATAT
* * * ** * *
46512720 AAAAAATTCAATAAATTTAGCCCTCAATATTTATAAAAATTATCATTTTAGTTCTAA-TTTAAA
1 AAAAAAATCAATAAATTTAGCCATCAACATTTATAAAAATTATCAACTTAGTCCTAACTATAAA
* * *
46512783 AAAAAAATCAATAAATTTAGTCATCAACATTTATAAAATTTGTCAACTTAGTCCTAACTATAAA
1 AAAAAAATCAATAAATTTAGCCATCAACATTTATAAAAATTATCAACTTAGTCCTAACTATAAA
46512847 AATAAAAA
1 AA-AAAAA
46512855 AAATTTAAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
63 48 0.80
64 7 0.12
65 5 0.08
ACGTcount: A:0.50, C:0.12, G:0.04, T:0.35
Consensus pattern (64 bp):
AAAAAAATCAATAAATTTAGCCATCAACATTTATAAAAATTATCAACTTAGTCCTAACTATAAA
Found at i:46520459 original size:3 final size:3
Alignment explanation
Indices: 46520451--46520478 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
46520441 TATACTTCAG
46520451 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
46520479 TTTTCATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:46538939 original size:48 final size:47
Alignment explanation
Indices: 46538887--46538978 Score: 123
Period size: 47 Copynumber: 1.9 Consensus size: 47
46538877 AACATACCCT
*
46538887 AATCCAACCGAATATGA-AGGAAAAATCGTTAGATTTAATTAATATTCC
1 AATCCAACCGAAAATGAGA-G-AAAATCGTTAGATTTAATTAATATTCC
* * *
46538935 AATCCAACCTAAAATGAGAGAAAATGGTTGGATTTAATTAATAT
1 AATCCAACCGAAAATGAGAGAAAATCGTTAGATTTAATTAATAT
46538979 ACTAAAGCCG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
47 22 0.56
48 16 0.41
49 1 0.03
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (47 bp):
AATCCAACCGAAAATGAGAGAAAATCGTTAGATTTAATTAATATTCC
Found at i:46542549 original size:21 final size:21
Alignment explanation
Indices: 46542523--46542563 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
46542513 TTACCGATTG
46542523 AAGAAAAAGGAAATTATAATT
1 AAGAAAAAGGAAATTATAATT
*
46542544 AAGAAAAGGGAAATTATAAT
1 AAGAAAAAGGAAATTATAAT
46542564 GTAATCTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.17, T:0.22
Consensus pattern (21 bp):
AAGAAAAAGGAAATTATAATT
Found at i:46548621 original size:5 final size:5
Alignment explanation
Indices: 46548603--46548639 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
46548593 AACCAAAGAT
46548603 TAAA- TAAA- TAAAC TAAAC TAAAC TAAAC TAAAC TAAA
1 TAAAC TAAAC TAAAC TAAAC TAAAC TAAAC TAAAC TAAA
46548640 GAACATTCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 8 0.25
5 24 0.75
ACGTcount: A:0.65, C:0.14, G:0.00, T:0.22
Consensus pattern (5 bp):
TAAAC
Found at i:46549040 original size:2 final size:2
Alignment explanation
Indices: 46549033--46549067 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
46549023 AGGCAACAAT
46549033 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
46549068 TGTTAACGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:46554740 original size:21 final size:20
Alignment explanation
Indices: 46554714--46554753 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
46554704 GACCACTTCA
46554714 TAAGTGACTAAAACGATAACG
1 TAAGTGACTAAAACG-TAACG
46554735 TAAGTGACTAAAACGTAAC
1 TAAGTGACTAAAACGTAAC
46554754 ATTTCAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.20
Consensus pattern (20 bp):
TAAGTGACTAAAACGTAACG
Found at i:46566225 original size:29 final size:29
Alignment explanation
Indices: 46566175--46566234 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
46566165 TTTAAAATTT
*
46566175 AAAAACTATTAAAAATCATAAAATTTATAA
1 AAAAACTATTAAAAATCAT-AAACTTATAA
**
46566205 AAAAACTA-TAAAAATTTTAAACTTATAA
1 AAAAACTATTAAAAATCATAAACTTATAA
46566233 AA
1 AA
46566235 TTTTTATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 11 0.41
29 8 0.30
30 8 0.30
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (29 bp):
AAAAACTATTAAAAATCATAAACTTATAA
Found at i:46566233 original size:17 final size:16
Alignment explanation
Indices: 46566207--46566240 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
46566197 ATTTATAAAA
46566207 AAACTATAAAAATTTT
1 AAACTATAAAAATTTT
*
46566223 AAACTTATAAAATTTTT
1 AAAC-TATAAAAATTTT
46566240 A
1 A
46566241 TTAAAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (16 bp):
AAACTATAAAAATTTT
Found at i:46567692 original size:2 final size:2
Alignment explanation
Indices: 46567685--46567720 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
46567675 CTTCATATTC
46567685 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46567721 CATTCAAGAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46567970 original size:33 final size:33
Alignment explanation
Indices: 46567914--46568003 Score: 126
Period size: 33 Copynumber: 2.7 Consensus size: 33
46567904 ACATTCGTAG
* *
46567914 TGCCATAACCCAGTTATGGTCTTATCATCAGAA
1 TGCCATAGCCCAGCTATGGTCTTATCATCAGAA
* * *
46567947 TGCCATAGCCCAACTATGATCTTATCATCATAA
1 TGCCATAGCCCAGCTATGGTCTTATCATCAGAA
*
46567980 TGCCATAGCCTAGCTATGGTCTTA
1 TGCCATAGCCCAGCTATGGTCTTA
46568004 CATATAAACA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (33 bp):
TGCCATAGCCCAGCTATGGTCTTATCATCAGAA
Found at i:46577639 original size:18 final size:17
Alignment explanation
Indices: 46577586--46577628 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
46577576 AGTACTTGAA
* *
46577586 TTTTCATCTTTAAAATT
1 TTTTCATCCTTCAAATT
46577603 TTTTCATCCTTCAAATT
1 TTTTCATCCTTCAAATT
46577620 TTTTCATCC
1 TTTTCATCC
46577629 ACTTTAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.23, C:0.21, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTCATCCTTCAAATT
Found at i:46579224 original size:57 final size:57
Alignment explanation
Indices: 46579111--46579225 Score: 176
Period size: 57 Copynumber: 2.0 Consensus size: 57
46579101 TATTTGTTTA
* * **
46579111 TTATTTGTGTTATAATATTTTAAATGTTTTATAATATTTGTTTATTCAAATGTTTTT
1 TTATTTGTGTTATAATATTTTAAATATTTTATAATATTTATTTATTCAAACCTTTTT
* *
46579168 TTATTTGTTTTATTATATTTTAAATATTTTATAATATTTATTTATTCAAACCTTTTT
1 TTATTTGTGTTATAATATTTTAAATATTTTATAATATTTATTTATTCAAACCTTTTT
46579225 T
1 T
46579226 AAAATCATAT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (57 bp):
TTATTTGTGTTATAATATTTTAAATATTTTATAATATTTATTTATTCAAACCTTTTT
Found at i:46579245 original size:57 final size:57
Alignment explanation
Indices: 46579120--46579248 Score: 145
Period size: 57 Copynumber: 2.3 Consensus size: 57
46579110 ATTATTTGTG
* * * ** * * **
46579120 TTATAATATTTTAAATGTTTTATAATATTTGTTTATTCAAATGTTTTTTTATTTGTT
1 TTATTATATTTTAAATATTTTATAATATTTATTTATTCAAACCTTTTTTAAATCATT
46579177 TTATTATATTTTAAATATTTTATAATATTTATTTATTCAAACCTTTTTTAAAATCATAT
1 TTATTATATTTTAAATATTTTATAATATTTATTTATTCAAACCTTTTTT-AAATCAT-T
46579236 TTA-TA-ATTTTAAA
1 TTATTATATTTTAAA
46579249 ATACGTAAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
57 52 0.85
58 5 0.08
59 4 0.07
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (57 bp):
TTATTATATTTTAAATATTTTATAATATTTATTTATTCAAACCTTTTTTAAATCATT
Found at i:46582985 original size:44 final size:44
Alignment explanation
Indices: 46582936--46583037 Score: 150
Period size: 44 Copynumber: 2.3 Consensus size: 44
46582926 AATGCGAGCA
* * *
46582936 AGTCTAAATGCAAGCTCGAATGGATGCAAGTCGAAGTGGCGGAC
1 AGTCTAAATGCAAGCCCGAATGGATGCAAGCCGAAGTGGCGAAC
* * *
46582980 TGTCTAAATGCAAGCCCGAGTGGATGCAAGCCGAAGTGGTGAAC
1 AGTCTAAATGCAAGCCCGAATGGATGCAAGCCGAAGTGGCGAAC
46583024 AGTCTAAATGCAAG
1 AGTCTAAATGCAAG
46583038 GTGAGTGGTG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.32, C:0.19, G:0.30, T:0.19
Consensus pattern (44 bp):
AGTCTAAATGCAAGCCCGAATGGATGCAAGCCGAAGTGGCGAAC
Found at i:46593372 original size:6 final size:6
Alignment explanation
Indices: 46593361--46593392 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
46593351 CAAATAGACT
46593361 TCACCA TCACCA TCACCA TCACCA TCACCA TC
1 TCACCA TCACCA TCACCA TCACCA TCACCA TC
46593393 TCCCTCAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.31, C:0.50, G:0.00, T:0.19
Consensus pattern (6 bp):
TCACCA
Found at i:46595625 original size:2 final size:2
Alignment explanation
Indices: 46595618--46595642 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
46595608 CACTTTGGTC
46595618 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
46595643 AAACACGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:46606260 original size:5 final size:5
Alignment explanation
Indices: 46606250--46606276 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
46606240 ATTATGGGCG
46606250 GTGGA GTGGA GTGGA GTGGA GTGGA GT
1 GTGGA GTGGA GTGGA GTGGA GTGGA GT
46606277 TAGTAAGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.59, T:0.22
Consensus pattern (5 bp):
GTGGA
Found at i:46609463 original size:23 final size:21
Alignment explanation
Indices: 46609413--46609463 Score: 50
Period size: 23 Copynumber: 2.3 Consensus size: 21
46609403 TTTACAAAAA
46609413 ATGAATTTTTTTTTAATTTGT
1 ATGAATTTTTTTTTAATTTGT
**
46609434 AACAATTTTATCTTTTAACTTTG-
1 ATGAATTTT-T-TTTTAA-TTTGT
46609457 ATGAATT
1 ATGAATT
46609464 AATTCAATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
21 7 0.30
22 1 0.04
23 11 0.48
24 4 0.17
ACGTcount: A:0.29, C:0.06, G:0.08, T:0.57
Consensus pattern (21 bp):
ATGAATTTTTTTTTAATTTGT
Found at i:46613321 original size:31 final size:32
Alignment explanation
Indices: 46613281--46613405 Score: 123
Period size: 30 Copynumber: 3.9 Consensus size: 32
46613271 TTTAAAAAAC
*
46613281 ATTTT-AAAATTA-AATAAAATTAAAAAAAGT
1 ATTTTAAAAATTATATTAAAATTAAAAAAAGT
*
46613311 ATTTTAAAAATATTTTAATTAAAAATTAAAAAAAGT
1 ATTTT-AAAA-ATTAT-ATT-AAAATTAAAAAAAGT
*
46613347 ATTTTAAAAA-TATTTTAAAATT-AAAAAAGT
1 ATTTTAAAAATTATATTAAAATTAAAAAAAGT
* * * *
46613377 ATGTAAAAAAATATTTTAAAATTAAAAAA
1 ATTTTAAAAATTATATTAAAATTAAAAAA
46613406 TAAATATATT
Statistics
Matches: 81, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
30 21 0.26
31 18 0.22
32 10 0.12
33 5 0.06
34 1 0.01
35 6 0.07
36 20 0.25
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (32 bp):
ATTTTAAAAATTATATTAAAATTAAAAAAAGT
Found at i:46613324 original size:11 final size:11
Alignment explanation
Indices: 46613304--46613366 Score: 63
Period size: 11 Copynumber: 5.4 Consensus size: 11
46613294 ATAAAATTAA
46613304 AAAAAGTATTTT
1 AAAAA-TATTTT
46613316 AAAAATATTTT
1 AAAAATATTTT
* **
46613327 AATTAAAAATTAA
1 AA--AAATATTTT
46613340 AAAAAGTATTTT
1 AAAAA-TATTTT
46613352 AAAAATATTTT
1 AAAAATATTTT
46613363 AAAA
1 AAAA
46613367 TTAAAAAAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
11 21 0.50
12 13 0.31
13 8 0.19
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:46613343 original size:36 final size:37
Alignment explanation
Indices: 46613254--46613373 Score: 170
Period size: 36 Copynumber: 3.1 Consensus size: 37
46613244 AAAAATTTTA
* *
46613254 AAAAATTAAAAAAAGTATTTAAAAAACATTTTAAAATT
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTT-AAATT
46613292 AAATAAAATTAAAAAAAGTATTTTAAAAATATTTT-AATT
1 --A-AAAATTAAAAAAAGTATTTTAAAAATATTTTAAATT
46613331 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATT
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTT-AAATT
46613369 AAAAA
1 AAAAA
46613374 AGTATGTAAA
Statistics
Matches: 75, Mismatches: 2, Indels: 8
0.88 0.02 0.09
Matches are distributed among these distances:
36 31 0.41
37 1 0.01
38 9 0.12
39 4 0.05
40 1 0.01
41 29 0.39
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (37 bp):
AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAATT
Found at i:46613362 original size:77 final size:77
Alignment explanation
Indices: 46613254--46613397 Score: 229
Period size: 77 Copynumber: 1.9 Consensus size: 77
46613244 AAAAATTTTA
46613254 AAAAATTAAAAAAAGTATTTAAAAAACATTTTAAAATTAAATAAA-AT-TAAAAAAAGTATTTTA
1 AAAAATTAAAAAAAGTATTTAAAAAACATTTTAAAATTAAA-AAAGATGTAAAAAAA-TATTTTA
46613317 AAAATATTTTAATT
64 AAAATATTTTAATT
* *
46613331 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAGTATGTAAAAAAATATTTTAA
1 AAAAATTAAAAAAAGTATTTAAAAAACATTTTAAAATTAAAAAAG-ATGTAAAAAAATATTTTAA
46613396 AA
65 AA
46613398 TTAAAAAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
76 3 0.05
77 39 0.63
78 12 0.19
79 8 0.13
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (77 bp):
AAAAATTAAAAAAAGTATTTAAAAAACATTTTAAAATTAAAAAAGATGTAAAAAAATATTTTAAA
AATATTTTAATT
Found at i:46613398 original size:77 final size:73
Alignment explanation
Indices: 46613238--46613398 Score: 220
Period size: 77 Copynumber: 2.2 Consensus size: 73
46613228 GGCCCATTTT
46613238 TATTTTAAAA-ATTTTAAAAAATTAAAAAAAGTATTTAAAAAACATTTTAAAATTAAATAAAATT
1 TATTTTAAAATATTTTAAAAAATTAAAAAAAGTATTTAAAAAACATTTTAAAATTAAATAAAATT
46613302 AAAAAAAG
66 AAAAAAAG
* *
46613310 TATTTTAAAAATATTTTAATTAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA-AA
1 TATTTT-AAAATATTTT-A--AAAAATTAAAAAAAGTATTTAAAAAACATTTTAAAATTAAATAA
46613374 AGTATGTAAAAAAA-
62 A--AT-TAAAAAAAG
46613388 TATTTTAAAAT
1 TATTTTAAAAT
46613399 TAAAAAATAA
Statistics
Matches: 79, Mismatches: 2, Indels: 11
0.86 0.02 0.12
Matches are distributed among these distances:
72 6 0.08
73 4 0.05
74 5 0.06
75 1 0.01
76 3 0.04
77 44 0.56
78 8 0.10
79 8 0.10
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.37
Consensus pattern (73 bp):
TATTTTAAAATATTTTAAAAAATTAAAAAAAGTATTTAAAAAACATTTTAAAATTAAATAAAATT
AAAAAAAG
Found at i:46614858 original size:17 final size:18
Alignment explanation
Indices: 46614833--46614869 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
46614823 ATACTTAAAA
46614833 ATTATAAAT-ATATAAATT
1 ATTATAAATAATA-AAATT
46614851 ATTA-AAATAATAAAATT
1 ATTATAAATAATAAAATT
46614868 AT
1 AT
46614870 ATTTTTCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATTATAAATAATAAAATT
Found at i:46620464 original size:13 final size:15
Alignment explanation
Indices: 46620436--46620464 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
46620426 AATCAGAAGT
46620436 AATATATAAATAAAA
1 AATATATAAATAAAA
46620451 AATAT-TAAATAAAA
1 AATATATAAATAAAA
46620465 TATAATGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AATATATAAATAAAA
Found at i:46631311 original size:78 final size:78
Alignment explanation
Indices: 46631217--46631372 Score: 312
Period size: 78 Copynumber: 2.0 Consensus size: 78
46631207 TATATATCTG
46631217 TATCCTTGTGATTTGTAAGTGATTTCATCAGTTCTTTATTTTAGTCAGTGGTGTCACCGATTAAA
1 TATCCTTGTGATTTGTAAGTGATTTCATCAGTTCTTTATTTTAGTCAGTGGTGTCACCGATTAAA
46631282 GCTCAACATTTTC
66 GCTCAACATTTTC
46631295 TATCCTTGTGATTTGTAAGTGATTTCATCAGTTCTTTATTTTAGTCAGTGGTGTCACCGATTAAA
1 TATCCTTGTGATTTGTAAGTGATTTCATCAGTTCTTTATTTTAGTCAGTGGTGTCACCGATTAAA
46631360 GCTCAACATTTTC
66 GCTCAACATTTTC
46631373 GTTGATTTTC
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.44
Consensus pattern (78 bp):
TATCCTTGTGATTTGTAAGTGATTTCATCAGTTCTTTATTTTAGTCAGTGGTGTCACCGATTAAA
GCTCAACATTTTC
Found at i:46631987 original size:2 final size:2
Alignment explanation
Indices: 46631980--46632017 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
46631970 TTTTAGTTGT
46631980 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
46632018 ATACAATATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:46636115 original size:2 final size:2
Alignment explanation
Indices: 46636108--46636162 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
46636098 TTTACTCTTT
46636108 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
46636150 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
46636163 TTTTTTTTTA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:46637773 original size:13 final size:15
Alignment explanation
Indices: 46637755--46637786 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
46637745 GAGCAACTTT
46637755 AAAATTT-A-AAATA
1 AAAATTTAATAAATA
46637768 AAAATTTAATAAATA
1 AAAATTTAATAAATA
46637783 AAAA
1 AAAA
46637787 AAAGTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 1 0.06
15 9 0.53
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAATTTAATAAATA
Found at i:46639589 original size:29 final size:31
Alignment explanation
Indices: 46639536--46639598 Score: 94
Period size: 29 Copynumber: 2.1 Consensus size: 31
46639526 GTCTACAAAC
* *
46639536 TTAGGTGACAGAATATAAGTTTAAGTACCAA
1 TTAGGTGACAAAAAATAAGTTTAAGTACCAA
46639567 TTAGGT-ACAAAAAATAA-TTTAAGTACCAA
1 TTAGGTGACAAAAAATAAGTTTAAGTACCAA
46639596 TTA
1 TTA
46639599 AATAAAGTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 15 0.50
30 9 0.30
31 6 0.20
ACGTcount: A:0.46, C:0.10, G:0.14, T:0.30
Consensus pattern (31 bp):
TTAGGTGACAAAAAATAAGTTTAAGTACCAA
Found at i:46640889 original size:105 final size:105
Alignment explanation
Indices: 46640696--46640892 Score: 238
Period size: 105 Copynumber: 1.9 Consensus size: 105
46640686 AGTGTTTAAA
** * **
46640696 TGTAAGACCATAGCTGGGTTATGGCATTTTAATGAAAAGACCATAACTGGGTTATGACACATTGA
1 TGTAAGACCATAGCTGGACTATGGCATTCTAATGAAAAGACCATAACTGGGTTATGACACATACA
*
46640761 ACATAAGACCATGGTTAGACCATGGCAGAATAGATACATG
66 ACATAAGACCATGGTGAGACCATGGCAGAATAGATACATG
* ** * *
46640801 TGTAAGACCATAGCTGGACTATGGCATTCTGATGATCAGATCATAACTGGGTTATGATAC-TACA
1 TGTAAGACCATAGCTGGACTATGGCATTCTAATGAAAAGACCATAACTGGGTTATGACACATACA
*
46640865 A-ATGTAAGACCATGG-GAGGGCCATGGCA
66 ACA--TAAGACCATGGTGA-GACCATGGCA
46640893 ATGCATGTGT
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
103 1 0.01
104 4 0.05
105 72 0.94
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.25
Consensus pattern (105 bp):
TGTAAGACCATAGCTGGACTATGGCATTCTAATGAAAAGACCATAACTGGGTTATGACACATACA
ACATAAGACCATGGTGAGACCATGGCAGAATAGATACATG
Found at i:46643756 original size:25 final size:23
Alignment explanation
Indices: 46643727--46643778 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
46643717 TGTTATCTTC
*
46643727 TTCTTACTATTATTTTTCCTTTTAT
1 TTCTTACTATT-TCTTTCCTTTT-T
* *
46643752 TTCTTCCTGTTTCTTTCCTTTTT
1 TTCTTACTATTTCTTTCCTTTTT
46643775 TTCT
1 TTCT
46643779 CCTTCATTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.21
24 10 0.42
25 9 0.38
ACGTcount: A:0.08, C:0.21, G:0.02, T:0.69
Consensus pattern (23 bp):
TTCTTACTATTTCTTTCCTTTTT
Found at i:46645321 original size:9 final size:9
Alignment explanation
Indices: 46645300--46645331 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
46645290 AATGTATATA
46645300 TTATTTA-T
1 TTATTTATT
46645308 TTATTTATT
1 TTATTTATT
46645317 TTATTTATT
1 TTATTTATT
46645326 TTATTT
1 TTATTT
46645332 TTATATATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
TTATTTATT
Found at i:46645801 original size:15 final size:15
Alignment explanation
Indices: 46645795--46645829 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
46645785 TATATTTTAG
46645795 TTTTATAATTTTATA
1 TTTTATAATTTTATA
*
46645810 TTTTATAATTTAAT-
1 TTTTATAATTTTATA
46645824 TTTTAT
1 TTTTAT
46645830 TTCATAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTATAATTTTATA
Found at i:46647524 original size:16 final size:16
Alignment explanation
Indices: 46647505--46647538 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
46647495 TGCTGATATC
46647505 ATTTCAGTGTATAAAA
1 ATTTCAGTGTATAAAA
46647521 ATTTCAGTGTATAAAA
1 ATTTCAGTGTATAAAA
46647537 AT
1 AT
46647539 AATTAATGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (16 bp):
ATTTCAGTGTATAAAA
Found at i:46659955 original size:27 final size:27
Alignment explanation
Indices: 46659891--46659961 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
46659881 TGTCGAGGGT
*
46659891 CTGCCATAGGCTA-CACCAAAGGTCCCA
1 CTGCCACAGGC-AGCACCAAAGGTCCCA
* * * *
46659918 GTGGCAGAGGCAGCACCAAAGGTGCCA
1 CTGCCACAGGCAGCACCAAAGGTCCCA
*
46659945 CTGCCACAGGCGGCACC
1 CTGCCACAGGCAGCACC
46659962 TGTGCCATGT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
26 1 0.03
27 34 0.97
ACGTcount: A:0.27, C:0.35, G:0.28, T:0.10
Consensus pattern (27 bp):
CTGCCACAGGCAGCACCAAAGGTCCCA
Found at i:46660499 original size:156 final size:157
Alignment explanation
Indices: 46660153--46660512 Score: 607
Period size: 156 Copynumber: 2.3 Consensus size: 157
46660143 TTATTTTAGT
*
46660153 TAGTATGTTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAACAAATGACCAAAATAA
1 TAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAACAAATGACCAAAATAA
* *
46660218 GAGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATACATTTCAAACTTTATGTACTA
66 GAGTTTTTTACTAAATTTATAT-AAAAAACACACTAAAATAATACATTTCAAACATTATGTACTA
*
46660283 AAATAATATAAATAATAAAATAGGAAAA
130 AAATAATATAAATAATAAAATACGAAAA
* * *
46660311 TAGTATATTTTTTGAAAGTAATAAAATTCGAAAATAAGAAAAATACGAATAAATGGCCAAAATAA
1 TAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAACAAATGACCAAAATAA
* *
46660376 GGGTTTTTTACTAAATTTATAT-AAAAACACACTAAAATAATATATTTCAAACATTATGTACTAA
66 GAGTTTTTTACTAAATTTATATAAAAAACACACTAAAATAATACATTTCAAACATTATGTACTAA
46660440 AATAATATAAAATAATAAAATACGAAAA
131 AATAATAT-AAATAATAAAATACGAAAA
46660468 TAGTAT-TTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATAC
1 TAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATAC
46660513 ATTGAAATTA
Statistics
Matches: 191, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
156 85 0.45
157 24 0.13
158 82 0.43
ACGTcount: A:0.53, C:0.08, G:0.09, T:0.30
Consensus pattern (157 bp):
TAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATACGAACAAATGACCAAAATAA
GAGTTTTTTACTAAATTTATATAAAAAACACACTAAAATAATACATTTCAAACATTATGTACTAA
AATAATATAAATAATAAAATACGAAAA
Found at i:46660776 original size:20 final size:20
Alignment explanation
Indices: 46660742--46660779 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
46660732 AGATAATCCA
**
46660742 TTATTTTTTTTAAAAATACC
1 TTATTTTTTAAAAAAATACC
46660762 TTATTTTTTAAAAAAATA
1 TTATTTTTTAAAAAAATA
46660780 TAAAAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
TTATTTTTTAAAAAAATACC
Found at i:46665035 original size:24 final size:24
Alignment explanation
Indices: 46665008--46665061 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
46664998 TGTATACAGG
46665008 AAGCTCATAAGAGCC-ATAATCGGA
1 AAGCTCATAAGAGCCAATAA-CGGA
*
46665032 AAGCTCATAAGAGCCAATAACGGG
1 AAGCTCATAAGAGCCAATAACGGA
46665056 AAGCTC
1 AAGCTC
46665062 CGGATAGCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.15
Consensus pattern (24 bp):
AAGCTCATAAGAGCCAATAACGGA
Found at i:46669948 original size:14 final size:13
Alignment explanation
Indices: 46669929--46669962 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
46669919 TACTAACTCT
46669929 TAATATTATTATAA
1 TAATATTATTAT-A
*
46669943 TAATATTTTTATA
1 TAATATTATTATA
46669956 TAATATT
1 TAATATT
46669963 TAAGTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TAATATTATTATA
Found at i:46678747 original size:37 final size:37
Alignment explanation
Indices: 46678706--46678779 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
46678696 TAAGAAATGG
46678706 CAAGCTTAATAGACTGTATTCAAAACCAATTAAACTC
1 CAAGCTTAATAGACTGTATTCAAAACCAATTAAACTC
* *
46678743 CAAGCTTAATAGGCTGTATTCAAAACCGATTAAACTC
1 CAAGCTTAATAGACTGTATTCAAAACCAATTAAACTC
46678780 AGTATATCGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.27
Consensus pattern (37 bp):
CAAGCTTAATAGACTGTATTCAAAACCAATTAAACTC
Found at i:46682315 original size:2 final size:2
Alignment explanation
Indices: 46682308--46682339 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
46682298 ATAATCTAAC
46682308 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
46682340 AGTGAAAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:46691552 original size:6 final size:6
Alignment explanation
Indices: 46691541--46691573 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
46691531 CCTCGATATA
*
46691541 AAATTT AAATTT AAATTT AAATTT AAATAT AAA
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAA
46691574 AATATATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (6 bp):
AAATTT
Found at i:46693227 original size:2 final size:2
Alignment explanation
Indices: 46693220--46693246 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
46693210 AGGAATATGG
46693220 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 A
46693247 AAACTCATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:46697969 original size:37 final size:37
Alignment explanation
Indices: 46697866--46698084 Score: 381
Period size: 37 Copynumber: 6.0 Consensus size: 37
46697856 TACGTATGAT
* *
46697866 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
46697901 CACCTATCACTTTGTTTC-TGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
46697937 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
46697974 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
46698011 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
46698048 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
46698085 TAAAGCTATT
Statistics
Matches: 177, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
35 9 0.05
36 38 0.21
37 130 0.73
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:46698118 original size:46 final size:46
Alignment explanation
Indices: 46698048--46698467 Score: 333
Period size: 46 Copynumber: 8.6 Consensus size: 46
46698038 TAAGTGTAGC
* * **
46698048 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* * *
46698094 TATTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
46698140 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* * * * *
46698192 CACTTATCACTTTCCACTTTCCACTTG-TCACTTGATCAG-ATAAG-TGTAGCTGAAG
1 CACTTATCAC-TT----TGT-CACTTGATCA---GATAAGTAT-AGCCGAAGCT--AT
**
46698247 CTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 C-A-CTT--ATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* *
46698297 CACTTATCACTTTGTCATTTGATTAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* * *
46698343 TACTTATCACTTTGTCATTTGATTAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* * ** *
46698389 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
46698441 CACTTATCACTTTTTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
46698468 AGTACTCAAA
Statistics
Matches: 309, Mismatches: 35, Indels: 60
0.76 0.09 0.15
Matches are distributed among these distances:
46 158 0.51
47 1 0.00
48 2 0.01
49 2 0.01
50 5 0.02
51 12 0.04
52 94 0.30
53 12 0.04
54 12 0.04
55 2 0.01
56 1 0.00
57 1 0.00
58 2 0.01
59 5 0.02
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.36
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:46698161 original size:52 final size:52
Alignment explanation
Indices: 46698100--46698461 Score: 382
Period size: 46 Copynumber: 7.1 Consensus size: 52
46698090 CTATTATTTA
*
46698100 TCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTT
1 TCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTT
*
46698153 TCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTT
1 TCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCAC--T----TT
* *
46698211 TCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCAC---
1 T-CACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTT
46698261 T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCAC---
1 TCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTT
* * *
46698307 T---TTGTCATTTGATTAGATAAGTATAGCCGAAGCTATTACTTATCAC---
1 TCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTT
* * *
46698353 T---TTGTCATTTGATTAGATAAGTATAGCCGAAGCTATTACTTATCACTTT
1 TCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTT
* * ** *
46698402 CCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTT
1 TCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCAC-TTT
46698455 TCACTTG
1 TCACTTG
46698462 ATCAGAAGTA
Statistics
Matches: 278, Mismatches: 17, Indels: 28
0.86 0.05 0.09
Matches are distributed among these distances:
46 132 0.47
50 1 0.00
52 81 0.29
53 13 0.05
54 1 0.00
58 3 0.01
59 47 0.17
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (52 bp):
TCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTT
Found at i:46698210 original size:59 final size:58
Alignment explanation
Indices: 46698137--46698263 Score: 218
Period size: 59 Copynumber: 2.2 Consensus size: 58
46698127 TAGCCGAAGC
*
46698137 TATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTT-TCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
*
46698196 TATCACTTTCCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTT-CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
46698255 TATCACTTT
1 TATCACTTT
46698264 GTCACTTGAT
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
58 1 0.02
59 64 0.98
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (58 bp):
TATCACTTTCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
Found at i:46698220 original size:157 final size:151
Alignment explanation
Indices: 46698059--46698355 Score: 459
Period size: 157 Copynumber: 1.9 Consensus size: 151
46698049 ACTTATCACT
* * * *
46698059 TTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATTATTTATCACTTTGTCTCTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
*
46698124 GTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
66 GTATAGCCGAAGCTATCACTTATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGC
46698189 TATCACTTATCACTTTCCACTTTCCAC
125 TATCACTTATCACTTTCCACTTTCCAC
*
46698216 TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
* * *
46698281 GTATAGCCGAAGCTATCACTTATCACTTTGTCATTTGATTAGATAAGTATAGCCGAAGCTATTAC
66 GTATAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCAC
46698346 TTATCACTTT
131 TTATCACTTT
46698356 GTCATTTGAT
Statistics
Matches: 131, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
151 44 0.34
154 1 0.01
157 86 0.66
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.37
Consensus pattern (151 bp):
TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
GTATAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCAC
TTATCACTTTCCACTTTCCAC
Found at i:46698325 original size:92 final size:94
Alignment explanation
Indices: 46698048--46698467 Score: 434
Period size: 92 Copynumber: 4.3 Consensus size: 94
46698038 TAAGTGTAGC
* * ** * * *
46698048 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATTATTTATCAC-T-TTGTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTCTTGTCA
* *
46698111 CTTGATCAGATAAGTATAGCCGAAGCTAT
66 CTTGATCAGATAAGTGTAGCTGAAGCTAT
*
46698140 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCAC-T-T-A---T
46698205 CCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
54 -CAC-TT---CTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
46698251 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCAC-T-TTGTCA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTCTTGTCA
* * * *
46698314 TTTGATTAGATAAGTATAGCCGAAGCTAT
66 CTTGATCAGATAAGTGTAGCTGAAGCTAT
* * * *
46698343 TACTTATCACTTTGTCATTTGATTAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCAC-TT---CTT
* *
46698408 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
62 GTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
*
46698441 CACTTATCACTTTTTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
46698468 AGTACTCAAA
Statistics
Matches: 276, Mismatches: 27, Indels: 44
0.80 0.08 0.13
Matches are distributed among these distances:
92 93 0.34
94 1 0.00
95 1 0.00
96 1 0.00
98 88 0.32
99 2 0.01
100 1 0.00
101 1 0.00
102 1 0.00
103 1 0.00
104 2 0.01
105 40 0.14
107 1 0.00
108 1 0.00
111 42 0.15
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.36
Consensus pattern (94 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTCTTGTCA
CTTGATCAGATAAGTGTAGCTGAAGCTAT
Found at i:46700887 original size:19 final size:19
Alignment explanation
Indices: 46700863--46700901 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
46700853 TAGGACTTAG
46700863 ATATCCATACATGCATGCT
1 ATATCCATACATGCATGCT
46700882 ATATCCATACATGCATGCT
1 ATATCCATACATGCATGCT
46700901 A
1 A
46700902 CTCAGCTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.26, G:0.10, T:0.31
Consensus pattern (19 bp):
ATATCCATACATGCATGCT
Found at i:46706190 original size:3 final size:3
Alignment explanation
Indices: 46706182--46706210 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
46706172 GATAAGTTTC
46706182 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
46706211 TTTTGGCATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:46711556 original size:2 final size:2
Alignment explanation
Indices: 46711549--46711582 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
46711539 AGCTTCTTTT
46711549 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
46711583 GGAAATATTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:46712865 original size:24 final size:25
Alignment explanation
Indices: 46712838--46712885 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
46712828 AAAAGAAAGT
46712838 TTAAAGAACATAAAA-GAAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAAA
** *
46712862 TTAAATTACTTAAAACGAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAA
46712886 TATGGGGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (25 bp):
TTAAAGAACATAAAACGAAAAAAAA
Found at i:46714924 original size:24 final size:24
Alignment explanation
Indices: 46714892--46714940 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
46714882 GTGACTGTTG
46714892 CTCAGTTTTTCAAACTTTCAAGTT
1 CTCAGTTTTTCAAACTTTCAAGTT
46714916 CTCAGTTTTTCAAACTTTCAAGTT
1 CTCAGTTTTTCAAACTTTCAAGTT
46714940 C
1 C
46714941 CAATCCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.22, G:0.08, T:0.45
Consensus pattern (24 bp):
CTCAGTTTTTCAAACTTTCAAGTT
Found at i:46718043 original size:15 final size:16
Alignment explanation
Indices: 46718004--46718045 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
46717994 AACGAAAGGA
*
46718004 AAAACCAAATAATAGG
1 AAAACCAAAAAATAGG
*
46718020 AAAA-TAAAAAATA-G
1 AAAACCAAAAAATAGG
46718034 AAAACCAAAAAA
1 AAAACCAAAAAA
46718046 GCAAAAGGCC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 5 0.23
15 13 0.59
16 4 0.18
ACGTcount: A:0.74, C:0.10, G:0.07, T:0.10
Consensus pattern (16 bp):
AAAACCAAAAAATAGG
Found at i:46724462 original size:9 final size:9
Alignment explanation
Indices: 46724408--46724571 Score: 86
Period size: 9 Copynumber: 17.6 Consensus size: 9
46724398 AAAATATAAG
46724408 AAAAATTAT
1 AAAAATTAT
* *
46724417 -TAAATAAT
1 AAAAATTAT
46724425 -AAAA-TAT
1 AAAAATTAT
*
46724432 TAAAATTGAT
1 AAAAATT-AT
*
46724442 ATAAACTTAT
1 A-AAAATTAT
46724452 AAAAATTAT
1 AAAAATTAT
46724461 AAAAA-TAT
1 AAAAATTAT
*
46724469 AATAAAATAT
1 AA-AAATTAT
46724479 AAAAAATTAT
1 -AAAAATTAT
* *
46724489 AAAAGTAAT
1 AAAAATTAT
46724498 AAAACA-TACTT
1 AAAA-ATTA--T
* *
46724509 AAAATTTTT
1 AAAAATTAT
*
46724518 AAAATTTTAT
1 AAAA-ATTAT
46724528 AAAAATGTATT
1 AAAAAT-TA-T
*
46724539 AAAATTTTAT
1 AAAA-ATTAT
*
46724549 AAAAATCAT
1 AAAAATTAT
46724558 AAAAATTAT
1 AAAAATTAT
46724567 AAAAA
1 AAAAA
46724572 AAGTTATAAA
Statistics
Matches: 120, Mismatches: 20, Indels: 30
0.71 0.12 0.18
Matches are distributed among these distances:
7 2 0.02
8 18 0.15
9 50 0.42
10 29 0.24
11 20 0.17
12 1 0.01
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (9 bp):
AAAAATTAT
Found at i:46724473 original size:20 final size:20
Alignment explanation
Indices: 46724397--46724582 Score: 89
Period size: 21 Copynumber: 9.2 Consensus size: 20
46724387 AAATTATAAA
*
46724397 AAAAATATAAGAAAAATTATT
1 AAAAATATAATAAAAATTA-T
*
46724418 AAATAATAAAATATTAAAATTGAT
1 AAA-AATATAATA--AAAATT-AT
*
46724442 ATAAACT-T-ATAAAAATTAT
1 A-AAAATATAATAAAAATTAT
46724461 AAAAATATAAT-AAAA-TAT
1 AAAAATATAATAAAAATTAT
* * *
46724479 AAAAA-ATTATAAAAGTAAT
1 AAAAATATAATAAAAATTAT
* * * *
46724498 -AAAACATACTTAAAATTTT
1 AAAAATATAATAAAAATTAT
* * *
46724517 TAAAATTTTATAAAAATGTAT
1 AAAAATATAATAAAAAT-TAT
* * * *
46724538 TAAAATTTTATAAAAATCAT
1 AAAAATATAATAAAAATTAT
46724558 AAAAATTATAA-AAAAAGTTAT
1 AAAAA-TATAATAAAAA-TTAT
46724579 AAAA
1 AAAA
46724583 GTATTAAATT
Statistics
Matches: 126, Mismatches: 25, Indels: 28
0.70 0.14 0.16
Matches are distributed among these distances:
17 4 0.03
18 19 0.15
19 18 0.14
20 30 0.24
21 32 0.25
22 10 0.08
24 10 0.08
25 3 0.02
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (20 bp):
AAAAATATAATAAAAATTAT
Found at i:46724551 original size:10 final size:10
Alignment explanation
Indices: 46724508--46724552 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
46724498 AAAACATACT
46724508 TAAAATTTT-
1 TAAAATTTTA
46724517 TAAAATTTTA
1 TAAAATTTTA
* *
46724527 TAAAAATGTA
1 TAAAATTTTA
46724537 TTAAAATTTTA
1 -TAAAATTTTA
46724548 TAAAA
1 TAAAA
46724553 ATCATAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 9 0.30
10 13 0.43
11 8 0.27
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (10 bp):
TAAAATTTTA
Found at i:46724560 original size:30 final size:29
Alignment explanation
Indices: 46724507--46724571 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
46724497 TAAAACATAC
* *
46724507 TTAAAATTTTTAAAATTTTATAAAAATGTA
1 TTAAAATTTTTAAAATATCATAAAAAT-TA
46724537 TTAAAATTTTATAAAA-ATCATAAAAATTA
1 TTAAAATTTT-TAAAATATCATAAAAATTA
*
46724566 TAAAAA
1 TTAAAA
46724572 AAGTTATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 7 0.23
30 19 0.61
31 5 0.16
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (29 bp):
TTAAAATTTTTAAAATATCATAAAAATTA
Found at i:46724619 original size:49 final size:51
Alignment explanation
Indices: 46724524--46724620 Score: 121
Period size: 48 Copynumber: 2.0 Consensus size: 51
46724514 TTTTAAAATT
* *
46724524 TTATAAAAATGTATTAAAATTTTATAAAAATCATAAAAATTATAAAAAAAG
1 TTATAAAAATGTATTAAAATTTGATAAAAATCATAAAAATGATAAAAAAAG
* *
46724575 TTAT-AAAA-GTATT-AAATTTGATATAAACTCAT-AAAATGATTAAAAA
1 TTATAAAAATGTATTAAAATTTGATA-AAAATCATAAAAATGATAAAAAA
46724621 TCATAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
48 21 0.51
49 12 0.29
50 4 0.10
51 4 0.10
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (51 bp):
TTATAAAAATGTATTAAAATTTGATAAAAATCATAAAAATGATAAAAAAAG
Found at i:46725083 original size:16 final size:18
Alignment explanation
Indices: 46725062--46725101 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
46725052 GAATTTAGAA
46725062 GAATTTTTG-AA-TTAGT
1 GAATTTTTGTAATTTAGT
46725078 GAA-TTTTGTAATTTAGT
1 GAATTTTTGTAATTTAGT
46725095 GAATTTT
1 GAATTTT
46725102 GTGATTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 5 0.24
16 5 0.24
17 8 0.38
18 3 0.14
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (18 bp):
GAATTTTTGTAATTTAGT
Found at i:46725093 original size:17 final size:17
Alignment explanation
Indices: 46725073--46725109 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
46725063 AATTTTTGAA
46725073 TTAGTGAATTTTGTAAT
1 TTAGTGAATTTTGTAAT
*
46725090 TTAGTGAATTTTGTGAT
1 TTAGTGAATTTTGTAAT
46725107 TTA
1 TTA
46725110 AAAAGAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (17 bp):
TTAGTGAATTTTGTAAT
Found at i:46726373 original size:46 final size:46
Alignment explanation
Indices: 46726320--46726415 Score: 174
Period size: 46 Copynumber: 2.1 Consensus size: 46
46726310 ATCCATGGAA
*
46726320 AGTTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTG
1 AGTTGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTG
*
46726366 AGTTGTGAAAAGTAGGTATGGTATTTCAGTGAAGGAAACCATACTG
1 AGTTGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTG
46726412 AGTT
1 AGTT
46726416 ATAGCATTGT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.29
Consensus pattern (46 bp):
AGTTGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTG
Found at i:46728307 original size:9 final size:9
Alignment explanation
Indices: 46728293--46728369 Score: 70
Period size: 9 Copynumber: 8.6 Consensus size: 9
46728283 GTTTGATTAA
46728293 TTTTATAAT
1 TTTTATAAT
46728302 TTTTAT-AT
1 TTTTATAAT
46728310 TTTTATAAT
1 TTTTATAAT
*
46728319 ATTTATAAGT
1 TTTTATAA-T
46728329 TTTTAT-AT
1 TTTTATAAT
46728337 TTTTAATAAGT
1 TTTT-ATAA-T
* *
46728348 TTATATAAA
1 TTTTATAAT
*
46728357 TTTCAT-AT
1 TTTTATAAT
46728365 TTTTA
1 TTTTA
46728370 ATATTTCATA
Statistics
Matches: 55, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
8 18 0.33
9 22 0.40
10 11 0.20
11 4 0.07
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:46728331 original size:19 final size:19
Alignment explanation
Indices: 46728293--46728359 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 19
46728283 GTTTGATTAA
*
46728293 TTTTATAATTTTTAT-A-T
1 TTTTATAATATTTATAAGT
46728310 TTTTATAATATTTATAAGT
1 TTTTATAATATTTATAAGT
*
46728329 TTTTAT-ATTTTTAATAAGT
1 TTTTATAATATTT-ATAAGT
*
46728348 TTATATAA-ATTT
1 TTTTATAATATTT
46728360 CATATTTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
17 14 0.33
18 6 0.14
19 21 0.50
20 1 0.02
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (19 bp):
TTTTATAATATTTATAAGT
Found at i:46728345 original size:28 final size:26
Alignment explanation
Indices: 46728290--46728390 Score: 107
Period size: 28 Copynumber: 3.7 Consensus size: 26
46728280 CAAGTTTGAT
46728290 TAATTTTATAATTTTTATATTTTT-A
1 TAATTTTATAATTTTTATATTTTTAA
46728315 TAATATTTATAAGTTTTTATATTTTTAA
1 TAAT-TTTATAA-TTTTTATATTTTTAA
* *
46728343 TAAGTTTATATAAATTTCATATTTTTAA
1 TAA-TTT-TATAATTTTTATATTTTTAA
46728371 T-ATTTCATATATATTTTTAT
1 TAATTT--TATA-ATTTTTAT
46728391 TTATATTTAT
Statistics
Matches: 65, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
25 4 0.06
26 10 0.15
27 19 0.29
28 26 0.40
29 6 0.09
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (26 bp):
TAATTTTATAATTTTTATATTTTTAA
Found at i:46729931 original size:11 final size:11
Alignment explanation
Indices: 46729912--46729941 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
46729902 TTAAATATAA
*
46729912 TTATTATTCTT
1 TTATAATTCTT
46729923 TTATAATTCTT
1 TTATAATTCTT
46729934 TTATAATT
1 TTATAATT
46729942 TATAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (11 bp):
TTATAATTCTT
Found at i:46730732 original size:47 final size:47
Alignment explanation
Indices: 46730663--46730756 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
46730653 TCTCATCATG
46730663 ATTACATTCTAAAAAGAAGGCGAGTTTTCTGTTCTTTTAATGTGTTT
1 ATTACATTCTAAAAAGAAGGCGAGTTTTCTGTTCTTTTAATGTGTTT
46730710 ATTACATTCTAAAAAGAAGGCGAGTTTTCTGTTCTTTTAATGTGTTT
1 ATTACATTCTAAAAAGAAGGCGAGTTTTCTGTTCTTTTAATGTGTTT
46730757 TCACACTTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.45
Consensus pattern (47 bp):
ATTACATTCTAAAAAGAAGGCGAGTTTTCTGTTCTTTTAATGTGTTT
Found at i:46731048 original size:16 final size:16
Alignment explanation
Indices: 46731027--46731059 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
46731017 ACTATGAAAG
46731027 TAAGTTAAATTCATGT
1 TAAGTTAAATTCATGT
46731043 TAAGTTAAATTCATGT
1 TAAGTTAAATTCATGT
46731059 T
1 T
46731060 TCTTTTGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (16 bp):
TAAGTTAAATTCATGT
Found at i:46734394 original size:14 final size:13
Alignment explanation
Indices: 46734364--46734397 Score: 52
Period size: 12 Copynumber: 2.6 Consensus size: 13
46734354 CTTAACTCTT
46734364 TTTTTAAAAATAA
1 TTTTTAAAAATAA
46734377 -TTTTAAAAATATA
1 TTTTTAAAAATA-A
46734390 TTTTTAAA
1 TTTTTAAA
46734398 TTTTTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 11 0.58
13 1 0.05
14 7 0.37
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TTTTTAAAAATAA
Found at i:46741544 original size:123 final size:125
Alignment explanation
Indices: 46741324--46741575 Score: 391
Period size: 123 Copynumber: 2.0 Consensus size: 125
46741314 CCCAAACATG
* *
46741324 CTACTGTAGCAAAAGCTCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAACGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
* *
46741389 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA-AAAAATTATTTCTTCCATGAC
66 CTAGAAGCGATTTTATACTATTTGATCAGAAACGTCAACAAAAATTATTTCTTCCAGGAC
*
46741448 CTACTGTAGCAAAAACGCGTCCACGAGGGCGCGA-TTTCACAAATTCTTCTCAAATAGCATCTTG
1 CTACTGTAGCAAAAACGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
* * * **
46741512 CTAGAAGCGGTTTTATAGTATTTGATTAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
66 CTAGAAGCGATTTTATACTATTTGATCAGAAACGTCAAC-AAAAATTATTTCTTCCAGGAC
46741573 CTA
1 CTA
46741576 AAAACCCTAA
Statistics
Matches: 116, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
123 63 0.54
124 32 0.28
125 21 0.18
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAACGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
CTAGAAGCGATTTTATACTATTTGATCAGAAACGTCAACAAAAATTATTTCTTCCAGGAC
Found at i:46741982 original size:22 final size:22
Alignment explanation
Indices: 46741956--46742009 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
46741946 AACAACGATA
46741956 ATGAAAAGCAATGTTAATAGTC
1 ATGAAAAGCAATGTTAATAGTC
* *
46741978 GTGAAAATCAATGTTAATAGTC
1 ATGAAAAGCAATGTTAATAGTC
46742000 ATGAAAAGCA
1 ATGAAAAGCA
46742010 TGGATACAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.46, C:0.09, G:0.19, T:0.26
Consensus pattern (22 bp):
ATGAAAAGCAATGTTAATAGTC
Found at i:46742275 original size:17 final size:17
Alignment explanation
Indices: 46742253--46742286 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
46742243 AATATTTTCA
46742253 TTTTTTCACTAAAAATG
1 TTTTTTCACTAAAAATG
46742270 TTTTTTCACTAAAAATG
1 TTTTTTCACTAAAAATG
46742287 CATTATAAAT
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:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (17 bp):
TTTTTTCACTAAAAATG
Found at i:46744702 original size:13 final size:13
Alignment explanation
Indices: 46744684--46744709 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46744674 TCTAAATCAG
46744684 AATTATTTTTGAA
1 AATTATTTTTGAA
46744697 AATTATTTTTGAA
1 AATTATTTTTGAA
46744710 CTCAAAAGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
AATTATTTTTGAA
Found at i:46748126 original size:120 final size:120
Alignment explanation
Indices: 46748002--46748539 Score: 918
Period size: 120 Copynumber: 4.5 Consensus size: 120
46747992 AATTATTTTA
* *
46748002 AATTTTATTAAATAATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATCTTT
*
46748066 TATAGTATCAAATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
46748122 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATCTTT
46748186 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
46748242 AATTTTGTTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
46748307 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * * *
46748362 AAATTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
46748427 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * * *
46748482 AAATTTATTAAATTATATATTTCAATTATATTATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
46748540 ATGATTAAAT
Statistics
Matches: 404, Mismatches: 12, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
120 397 0.98
121 7 0.02
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:46748151 original size:18 final size:17
Alignment explanation
Indices: 46748123--46748157 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
46748113 ATTATTAAGA
*
46748123 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
46748140 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
46748158 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:46748402 original size:15 final size:15
Alignment explanation
Indices: 46748367--46748418 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
46748357 TTAAGAAATT
*
46748367 TATTAAATTAT-ATA
1 TATTTAATTATAATA
46748381 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
46748395 TATTTAATAATAAT-
1 TATTTAATTATAATA
46748409 TATGTTAATT
1 TAT-TTAATT
46748419 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:46748731 original size:44 final size:44
Alignment explanation
Indices: 46748683--46748770 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 44
46748673 CCTCTATTCC
46748683 ATTCAACCAAACACA-AGATTAT-TATTACGCCTCTATTCCATTAT
1 ATTCAACCAAACA-ATAGATT-TCTATTACGCCTCTATTCCATTAT
* *
46748727 ATTCAACCAAACAATTGATTTGCTATTACGCCTTTATTCCATTA
1 ATTCAACCAAACAATAGATTT-CTATTACGCCTCTATTCCATTA
46748771 CGCCTCTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
43 2 0.05
44 17 0.44
45 20 0.51
ACGTcount: A:0.34, C:0.24, G:0.06, T:0.36
Consensus pattern (44 bp):
ATTCAACCAAACAATAGATTTCTATTACGCCTCTATTCCATTAT
Found at i:46748772 original size:16 final size:16
Alignment explanation
Indices: 46748751--46748783 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
46748741 TTGATTTGCT
*
46748751 ATTACGCCTTTATTCC
1 ATTACGCCTCTATTCC
46748767 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
46748783 A
1 A
46748784 ATACAGCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.33, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:46748991 original size:20 final size:20
Alignment explanation
Indices: 46748966--46749008 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
46748956 TGTTTTTCAA
46748966 TTTTCAAAAATGAGAATTTT
1 TTTTCAAAAATGAGAATTTT
46748986 TTTTCAAAAATGAGAATTTT
1 TTTTCAAAAATGAGAATTTT
46749006 TTT
1 TTT
46749009 ATTTTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.49
Consensus pattern (20 bp):
TTTTCAAAAATGAGAATTTT
Found at i:46775312 original size:8 final size:8
Alignment explanation
Indices: 46775301--46775335 Score: 61
Period size: 8 Copynumber: 4.2 Consensus size: 8
46775291 ATATGTATAG
46775301 GTGTATCA
1 GTGTATCA
46775309 GTGTATCA
1 GTGTATCA
46775317 GTGTATCA
1 GTGTATCA
46775325 GTGTATGCA
1 GTGTAT-CA
46775334 GT
1 GT
46775336 CCAAAAGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 22 0.85
9 4 0.15
ACGTcount: A:0.23, C:0.11, G:0.29, T:0.37
Consensus pattern (8 bp):
GTGTATCA
Found at i:46778687 original size:34 final size:33
Alignment explanation
Indices: 46778636--46778706 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 33
46778626 TTTTAATTTG
*
46778636 TAATAATTAAAAGTTAATTATTGATGTAACTAC
1 TAATAATTAAAAGTTAATTATAGATGTAACTAC
*
46778669 TAATAATTAAAAAGTTAATTATAGATTTAACTAC
1 TAATAATT-AAAAGTTAATTATAGATGTAACTAC
46778703 TAAT
1 TAAT
46778707 CTTATATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 8 0.23
34 27 0.77
ACGTcount: A:0.48, C:0.06, G:0.07, T:0.39
Consensus pattern (33 bp):
TAATAATTAAAAGTTAATTATAGATGTAACTAC
Found at i:46779031 original size:29 final size:30
Alignment explanation
Indices: 46778999--46779062 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 30
46778989 AAGTTTCACG
*
46778999 TATATAATTAT-ATCAAATTAAAATTCATA
1 TATACAATTATAATCAAATTAAAATTCATA
*
46779028 TATACAATTATACATTAAATTAAAATTCATA
1 TATACAATTATA-ATCAAATTAAAATTCATA
46779059 TATA
1 TATA
46779063 ATTTTCTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 10 0.32
31 21 0.68
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.41
Consensus pattern (30 bp):
TATACAATTATAATCAAATTAAAATTCATA
Found at i:46780529 original size:17 final size:17
Alignment explanation
Indices: 46780491--46780530 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
46780481 ATGAAAATAT
46780491 TTTTTTATTATTTTCTA
1 TTTTTTATTATTTTCTA
*
46780508 ATTTTTATATATTTT-TA
1 TTTTTTAT-TATTTTCTA
46780525 TTTTTT
1 TTTTTT
46780531 CTAAAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTTATTATTTTCTA
Found at i:46780530 original size:18 final size:18
Alignment explanation
Indices: 46780488--46780530 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
46780478 TTAATGAAAA
46780488 TATTTTTTTATTATTTTC
1 TATTTTTTTATTATTTTC
*
46780506 TA-ATTTTTATATATTTT-
1 TATTTTTTTAT-TATTTTC
46780523 TATTTTTT
1 TATTTTTT
46780531 CTAAAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (18 bp):
TATTTTTTTATTATTTTC
Found at i:46780541 original size:26 final size:27
Alignment explanation
Indices: 46780487--46780541 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
46780477 TTTAATGAAA
* ***
46780487 ATATTTTTTTATTATTTTCTAATTTTT
1 ATATATTTTTATTATTTTCTAAAAATT
46780514 ATATATTTTTATT-TTTTCTAAAAATT
1 ATATATTTTTATTATTTTCTAAAAATT
46780540 AT
1 AT
46780542 TTTTAAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (27 bp):
ATATATTTTTATTATTTTCTAAAAATT
Found at i:46785412 original size:29 final size:30
Alignment explanation
Indices: 46785341--46785406 Score: 98
Period size: 29 Copynumber: 2.2 Consensus size: 30
46785331 GTTGCCAAGA
* *
46785341 GTAAATACTCAAATTTTGAGGGGTTGAAGT
1 GTAAATACTCAAAATTTGAGGGGTTAAAGT
*
46785371 GT-AATACTCAAAATTTGTGGGGTTAAAGT
1 GTAAATACTCAAAATTTGAGGGGTTAAAGT
46785400 GTAAATA
1 GTAAATA
46785407 TGAAAAGTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 26 0.81
30 6 0.19
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.33
Consensus pattern (30 bp):
GTAAATACTCAAAATTTGAGGGGTTAAAGT
Found at i:46787554 original size:45 final size:45
Alignment explanation
Indices: 46787487--46787579 Score: 150
Period size: 45 Copynumber: 2.1 Consensus size: 45
46787477 TGATGAACGA
* *
46787487 TATTATGTATTTAGTATATTGTTGAAAAATAGAATATTGTTAAAT
1 TATTATGTATTTAGCATATTGTTGAAAAATAGAATATTGTCAAAT
* *
46787532 TATTATGTATTTAGCATGTTGTTGAAAAATTGAATATTGTCAAAT
1 TATTATGTATTTAGCATATTGTTGAAAAATAGAATATTGTCAAAT
46787577 TAT
1 TAT
46787580 GAAATTGAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.46
Consensus pattern (45 bp):
TATTATGTATTTAGCATATTGTTGAAAAATAGAATATTGTCAAAT
Found at i:46787817 original size:42 final size:42
Alignment explanation
Indices: 46787748--46787901 Score: 182
Period size: 42 Copynumber: 3.7 Consensus size: 42
46787738 TTAACTCATA
* * *
46787748 TGAGTTTCAGTTTAATCCTAATGGGTTTTCGTTCAGCTCTTT
1 TGAGCTTCAGTTTAACCCTAATGGGTTTTCGTTCAACTCTTT
* *
46787790 TGAGCTTCAATTTAACCCTAATGGGTTTCCGTTCAACTCTTT
1 TGAGCTTCAGTTTAACCCTAATGGGTTTTCGTTCAACTCTTT
* * * * *
46787832 TAAGCTTCAGTTTAACCCTTATAGGCTTTCGTTCAACTCTTA
1 TGAGCTTCAGTTTAACCCTAATGGGTTTTCGTTCAACTCTTT
* * * *
46787874 TGAGCTTCCGTTCAACCCTTACGGGTTT
1 TGAGCTTCAGTTTAACCCTAATGGGTTT
46787902 CTGTTTAGAA
Statistics
Matches: 94, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 94 1.00
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (42 bp):
TGAGCTTCAGTTTAACCCTAATGGGTTTTCGTTCAACTCTTT
Found at i:46787873 original size:21 final size:21
Alignment explanation
Indices: 46787819--46787894 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 21
46787809 AATGGGTTTC
* * *
46787819 CGTTCAACTCTTTTAAGC-TT
1 CGTTCAACCCTTATAGGCTTT
*
46787839 CAGTTTAACCCTTATAGGCTTT
1 C-GTTCAACCCTTATAGGCTTT
* *
46787861 CGTTCAACTCTTAT-GAGCTTC
1 CGTTCAACCCTTATAG-GCTTT
46787882 CGTTCAACCCTTA
1 CGTTCAACCCTTA
46787895 CGGGTTTCTG
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
20 2 0.04
21 40 0.89
22 3 0.07
ACGTcount: A:0.21, C:0.28, G:0.12, T:0.39
Consensus pattern (21 bp):
CGTTCAACCCTTATAGGCTTT
Found at i:46802205 original size:21 final size:22
Alignment explanation
Indices: 46802192--46802234 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
46802182 ATCCTAAATC
*
46802192 CTAAACCTCGAAT-CTCAAACT
1 CTAAACCCCGAATCCTCAAACT
46802213 CTAAACCCCGAATCC-CAAACT
1 CTAAACCCCGAATCCTCAAACT
46802234 C
1 C
46802235 GAACTTAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.37, C:0.40, G:0.05, T:0.19
Consensus pattern (22 bp):
CTAAACCCCGAATCCTCAAACT
Found at i:46802907 original size:5 final size:5
Alignment explanation
Indices: 46802897--46802922 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
46802887 AATATTTACT
46802897 TTTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TTTTC TTTTC TTTTC TTTTC T
46802923 GGTGTGTGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:46806530 original size:5 final size:6
Alignment explanation
Indices: 46806515--46806539 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
46806505 ATTATTTTAA
46806515 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
46806540 TTTTAAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:46806573 original size:41 final size:42
Alignment explanation
Indices: 46806502--46806581 Score: 126
Period size: 41 Copynumber: 1.9 Consensus size: 42
46806492 TAAACATTAA
*
46806502 AAAATTATTTTAAAAAAATAAAAATAAAAATAAAAATATTTT
1 AAAAGTATTTTAAAAAAATAAAAATAAAAATAAAAATATTTT
**
46806544 AAAAGTATTTTAAAATTA-AAAAATAAAAATAAAAATAT
1 AAAAGTATTTTAAAAAAATAAAAATAAAAATAAAAATAT
46806582 ATATTTATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
41 20 0.57
42 15 0.43
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (42 bp):
AAAAGTATTTTAAAAAAATAAAAATAAAAATAAAAATATTTT
Found at i:46809815 original size:21 final size:21
Alignment explanation
Indices: 46809791--46809851 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
46809781 ATGAGTTTCC
*
46809791 GTTTAACCCTAATGGGTTTTA
1 GTTTAACCCTTATGGGTTTTA
** * * * *
46809812 GTTTTGCTCTTTTGAGCTTTA
1 GTTTAACCCTTATGGGTTTTA
46809833 GTTTAACCCTTATGGGTTT
1 GTTTAACCCTTATGGGTTT
46809852 CCTTTCAGCT
Statistics
Matches: 27, Mismatches: 13, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.16, C:0.15, G:0.20, T:0.49
Consensus pattern (21 bp):
GTTTAACCCTTATGGGTTTTA
Found at i:46809867 original size:21 final size:21
Alignment explanation
Indices: 46809837--46809898 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
46809827 GCTTTAGTTT
*
46809837 AACCCTTATGGGTTTCCTTTC
1 AACCCTTATGGGTTTCCGTTC
* * * *
46809858 AGCTCTTATGAGCTTCCGTTC
1 AACCCTTATGGGTTTCCGTTC
46809879 AACCCTTATGGGTTTCCGTT
1 AACCCTTATGGGTTTCCGTT
46809899 TAGCACTTGT
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.15, C:0.27, G:0.18, T:0.40
Consensus pattern (21 bp):
AACCCTTATGGGTTTCCGTTC
Found at i:46809915 original size:42 final size:42
Alignment explanation
Indices: 46809780--46809902 Score: 149
Period size: 42 Copynumber: 2.9 Consensus size: 42
46809770 AGTTAACTCA
* * ** *
46809780 TATGAGTTTCCGTTTAACCCTAATGGGTTTTAGTTTTGCTCT
1 TATGAGCTTCCGTTTAACCCTTATGGGTTTCCGTTTAGCTCT
* **
46809822 TTTGAGCTTTAGTTTAACCCTTATGGGTTTCC-TTTCAGCTCT
1 TATGAGCTTCCGTTTAACCCTTATGGGTTTCCGTTT-AGCTCT
*
46809864 TATGAGCTTCCGTTCAACCCTTATGGGTTTCCGTTTAGC
1 TATGAGCTTCCGTTTAACCCTTATGGGTTTCCGTTTAGC
46809903 ACTTGTGTGC
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 3 0.04
42 61 0.91
43 3 0.04
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.45
Consensus pattern (42 bp):
TATGAGCTTCCGTTTAACCCTTATGGGTTTCCGTTTAGCTCT
Found at i:46811119 original size:23 final size:20
Alignment explanation
Indices: 46811093--46811135 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 20
46811083 TTGATATGTA
46811093 TATTAAATGTTGTGAAATGTTCG
1 TATTAAAT-TTGT-AAA-GTTCG
*
46811116 TATTTAATTTGTAAAGTTCG
1 TATTAAATTTGTAAAGTTCG
46811136 ATAATGCTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.26
21 3 0.16
22 4 0.21
23 7 0.37
ACGTcount: A:0.30, C:0.05, G:0.19, T:0.47
Consensus pattern (20 bp):
TATTAAATTTGTAAAGTTCG
Found at i:46811672 original size:71 final size:71
Alignment explanation
Indices: 46811550--46811694 Score: 202
Period size: 71 Copynumber: 2.0 Consensus size: 71
46811540 ACTGAAAAAT
* * *
46811550 TTCAAAATATGCTAAGTGGGTGTCACGATATCCAAGACTTGGTATCGCGATCTCAAAGACAATAG
1 TTCAAAATATGCTAAGTGGGTATCACGATATCCAAGACTTGGCATCACGATCTCAAAGACAATAG
46811615 CCAAAC
66 CCAAAC
* * * *
46811621 TTCAAAATATG-TCAAGTGGGTATCGCGATATCCAGGGCTTGGCATCACGATCTCATAGACAATA
1 TTCAAAATATGCT-AAGTGGGTATCACGATATCCAAGACTTGGCATCACGATCTCAAAGACAATA
*
46811685 GCTAAAC
65 GCCAAAC
46811692 TTC
1 TTC
46811695 TCAATTTGAG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
70 1 0.02
71 64 0.98
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (71 bp):
TTCAAAATATGCTAAGTGGGTATCACGATATCCAAGACTTGGCATCACGATCTCAAAGACAATAG
CCAAAC
Found at i:46823762 original size:22 final size:22
Alignment explanation
Indices: 46823735--46823785 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
46823725 CTCTCTAATC
46823735 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
46823757 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
46823779 CTCTCAA
1 CTCTCAA
46823786 ACTCATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.39
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:46823867 original size:31 final size:31
Alignment explanation
Indices: 46823831--46823894 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
46823821 CTCAAATCCA
*
46823831 TTTTTAAAATAATTATAATTTTTTTTATATT
1 TTTTTAAAATAATTATAAATTTTTTTATATT
*
46823862 TTTTTAAAATAATTTTAAATTTTTTTATATT
1 TTTTTAAAATAATTATAAATTTTTTTATATT
46823893 TT
1 TT
46823895 CATCAATGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (31 bp):
TTTTTAAAATAATTATAAATTTTTTTATATT
Done.