Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 170 of 204
Found at i:50915854 original size:220 final size:221
Alignment explanation
Indices: 50915469--50915914 Score: 840
Period size: 220 Copynumber: 2.0 Consensus size: 221
50915459 GACTCCGCTG
50915469 GGGACTTTTTTTTAAAAGATAAGAGAGTCGAGCCACAAAGTTGATTAATTTTTGTCTTATGGTCG
1 GGGACTTTTTTTTAAAAGATAAGAGAGTCGAGCCACAAAGTTGATTAATTTTTGTCTTATGGTCG
**
50915534 AGAAAATATTTTTTTTAAAAAAACTCATGACATCCTTTCGCATTCATCATCTTATTGTCTAAATA
66 AGAAAATA--TTTTAAAAAAAAACTCATGACATCCTTTCGCATTCATCATCTTATTGTCTAAATA
50915599 TTGTTTGCATTATACATTTCATGAATTGAACAATGTTACCCTTTTAAGTGTGAGTAAGAAACTAT
129 TTGTTTGCATTATACATTTCATGAATTGAACAATGTTACCCTTTTAAGTGTGAGTAAGAAACTAT
50915664 GCCTTCGTGAGGTTTTTACCTCCGTGTA
194 GCCTTCGTGAGGTTTTTACCTCCGTGTA
50915692 GGGACTTTTTTTTAAAAGATAAGAGAGTCGAGCCACAAAGTTGATTAATTTTTGTCTTATGGTCG
1 GGGACTTTTTTTTAAAAGATAAGAGAGTCGAGCCACAAAGTTGATTAATTTTTGTCTTATGGTCG
50915757 AGAAAATA-TTTAAAAAAAAACTCATGACATCCTTTCGCATTCATCATCTTATTGTCTAAATATT
66 AGAAAATATTTTAAAAAAAAACTCATGACATCCTTTCGCATTCATCATCTTATTGTCTAAATATT
*
50915821 GTTTGCATTATACATTTCATGAATTGAACAATGTTACCCTTTTAAGTGTGAGTGAGAAACTATGC
131 GTTTGCATTATACATTTCATGAATTGAACAATGTTACCCTTTTAAGTGTGAGTAAGAAACTATGC
50915886 CTTCGTGAGGTTTTTACCTCCGTGTA
196 CTTCGTGAGGTTTTTACCTCCGTGTA
50915912 GGG
1 GGG
50915915 TAGTGGATTA
Statistics
Matches: 220, Mismatches: 3, Indels: 3
0.97 0.01 0.01
Matches are distributed among these distances:
220 147 0.67
223 73 0.33
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (221 bp):
GGGACTTTTTTTTAAAAGATAAGAGAGTCGAGCCACAAAGTTGATTAATTTTTGTCTTATGGTCG
AGAAAATATTTTAAAAAAAAACTCATGACATCCTTTCGCATTCATCATCTTATTGTCTAAATATT
GTTTGCATTATACATTTCATGAATTGAACAATGTTACCCTTTTAAGTGTGAGTAAGAAACTATGC
CTTCGTGAGGTTTTTACCTCCGTGTA
Found at i:50920492 original size:132 final size:132
Alignment explanation
Indices: 50920252--50921299 Score: 1672
Period size: 132 Copynumber: 7.9 Consensus size: 132
50920242 CTGCATTGAC
* * * * *
50920252 AGTGGAGCAGATCGAATATGGCGAATTTTACCTCCCTATGGTTATAGTGGAGTATATTAAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
50920317 GTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
50920382 GT
131 GT
* *
50920384 AGTGGAGCAGATCGAAGATGGCGAATTTTACCTCCCTGTGGTTATAGTGGAGTATATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
* * *
50920449 GTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAGGATTTCATATCTTATCTCTCTAAGCA
66 GTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
*
50920514 AT
131 GT
* *
50920516 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCTCTGTGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
* *
50920581 GTAATTCTACTT-CCTCGG-ACACAGTGGAATATATTGAAGATTTCAGATCTTATCTCCCTAAGC
66 GTAATTCTACTTCCCTGGGCA-ACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGC
50920644 AGT
130 AGT
* * * *
50920647 AGTGGAGCAGATTGGAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTATATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
50920712 GTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
50920777 GT
131 GT
* *
50920779 AGTGGAGCAGATTGGAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
*
50920844 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
50920909 GT
131 GT
* *
50920911 AGTGGAGCAGATTGGAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
* ***
50920976 GCAATTCTACTTCCCTATACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
50921041 GT
131 GT
*
50921043 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCTA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
* * * *
50921108 GTAATTCTACTTCCCTAGGCAATAGTGGAATTGATTGAGGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
50921173 GT
131 GT
* * * *
50921175 AGTGGAGTAGATCGAAGATGGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGTCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
* * * *
50921240 GTAATCCTA-TCTCCCTGGTCAGCAGTGGAATAGATTGAAGATTGTAAG-TCTTATCTCCCT
66 GTAATTCTACT-TCCCTGGGCAACAGTGGAATAGATTGAAGATT-TCAGATCTTATCTCCCT
50921300 GCAGTTGCAG
Statistics
Matches: 858, Mismatches: 53, Indels: 10
0.93 0.06 0.01
Matches are distributed among these distances:
130 1 0.00
131 118 0.14
132 735 0.86
133 4 0.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (132 bp):
AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
GTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
GT
Found at i:50920682 original size:44 final size:44
Alignment explanation
Indices: 50920603--50921211 Score: 239
Period size: 44 Copynumber: 13.8 Consensus size: 44
50920593 CCTCGGACAC
* * ** * *
50920603 AGTGGAATATATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCTAAGCAGT
* * ** *
50920647 AGTGGAGCAGATTGGAGATGGCAGATTTTACCTCCCTGTGGTTA-T
1 AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCT-AAG-CAGT
* *** * * * ** **
50920692 AGTGGAGTATATTGAAGCCAGTA-ATTCTACTTCCCTGGGCAAC
1 AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCTAAGCAGT
* ** * *
50920735 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCTAAGCAGT
* * * ** *
50920779 AGTGGAGCAGATTGGAGATGGCGGATTTTACCTCCCTGTGGTTA-T
1 AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCT-AAG-CAGT
* *** * * * * **
50920824 AGTGGAGTACATTGAAGCCAGTA-ATTCTACTTCCCT-GGACAAC
1 AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCTAAG-CAGT
* ** * *
50920867 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCTAAGCAGT
* * * ** *
50920911 AGTGGAGCAGATTGGAGATGGCGGATTTTACCTCCCTGTGGTTA-T
1 AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCT-AAG-CAGT
* *** * * **
50920956 AGTGGAGTACATTGAAGCCAGCA-ATTCTACTTCCCTATA-CAAC
1 AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCTA-AGCAGT
* ** * *
50920999 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCTAAGCAGT
* * * ** *
50921043 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTA-T
1 AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCT-AAG-CAGT
* * * * * * * *
50921088 AGTGGAGTACATTGAAGCTAGTA-ATTCTACTTCCCTAGGCAAT
1 AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCTAAGCAGT
* * * ** * *
50921131 AGTGGAATTGATTGAGGATTTCAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCTAAGCAGT
* **
50921175 AGTGGAGTAGATCGAAGATGGTGGATTTTACCTCCCT
1 AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCT
50921212 GTGGTTACAG
Statistics
Matches: 388, Mismatches: 158, Indels: 38
0.66 0.27 0.07
Matches are distributed among these distances:
42 6 0.02
43 70 0.18
44 236 0.61
45 72 0.19
46 4 0.01
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (44 bp):
AGTGGAGTAGATTGAAGATGGCAGATTTTACCTCCCTAAGCAGT
Found at i:50920984 original size:395 final size:395
Alignment explanation
Indices: 50920252--50921299 Score: 1690
Period size: 395 Copynumber: 2.6 Consensus size: 395
50920242 CTGCATTGAC
* * *
50920252 AGTGGAGCAGATCGAATATGGCGAATTTTACCTCCCTATGGTTATAGTGGAGTATATTAAAGCCA
1 AGTGGAGCAGATCGAAGATGGCG-ATTTTACCTCCCTGTGGTTATAGTGGAGTATATTGAAGCCA
50920317 GTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
65 GTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
* *
50920382 GTAGTGGAGCAGATCGAAGATGGCGAATTTTACCTCCCTGTGGTTATAGTGGAGTATATTGAAGC
130 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
* * * *
50920447 CAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAGGATTTCATATCTTATCTCTCTAAG
195 CAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
*
50920512 CAATAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCTCTGTGGTTACAGTGGAGTACATTGAA
260 CAATAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAA
* * *
50920577 GCCAGTAATTCTACTT-CCTCGGAC-ACAGTGGAATATATTGAAGATTTCAGATCTTATCTCCCT
325 GCCAGCAATTCTACTTCCCT-AGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCT
50920640 AAGCAGT
389 AAGCAGT
* *
50920647 AGTGGAGCAGATTGGAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTATATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGC-GATTTTACCTCCCTGTGGTTATAGTGGAGTATATTGAAGCCA
50920712 GTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
65 GTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
* *
50920777 GTAGTGGAGCAGATTGGAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
130 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
50920842 CAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
195 CAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
* * * *
50920907 CAGTAGTGGAGCAGATTGGAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAA
260 CAATAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAA
*
50920972 GCCAGCAATTCTACTTCCCTATACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTA
325 GCCAGCAATTCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTA
50921037 AGCAGT
390 AGCAGT
* *
50921043 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCTA
1 AGTGGAGCAGATCGAAGATGGC-GATTTTACCTCCCTGTGGTTATAGTGGAGTATATTGAAGCCA
* * * *
50921108 GTAATTCTACTTCCCTAGGCAATAGTGGAATTGATTGAGGATTTCAGATCTTATCTCCCTAAGCA
65 GTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
* * * *
50921173 GTAGTGGAGTAGATCGAAGATGGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGT
130 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
* * * *
50921238 CAGTAATCCTA-TCTCCCTGGTCAGCAGTGGAATAGATTGAAGATTGTAAG-TCTTATCTCCCT
195 CAGTAATTCTACT-TCCCTGGACAACAGTGGAATAGATTGAAGATT-TCAGATCTTATCTCCCT
50921300 GCAGTTGCAG
Statistics
Matches: 607, Mismatches: 41, Indels: 9
0.92 0.06 0.01
Matches are distributed among these distances:
395 323 0.53
396 281 0.46
397 3 0.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (395 bp):
AGTGGAGCAGATCGAAGATGGCGATTTTACCTCCCTGTGGTTATAGTGGAGTATATTGAAGCCAG
TAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG
TAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCC
AGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGC
AATAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAG
CCAGCAATTCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAA
GCAGT
Found at i:50921277 original size:43 final size:44
Alignment explanation
Indices: 50921219--50921324 Score: 119
Period size: 43 Copynumber: 2.4 Consensus size: 44
50921209 CCTGTGGTTA
* *
50921219 CAGTGGAGTACATTGAAG-TCAGTAA-TCCTATCTCCCTG-GTCAG
1 CAGTGGAATAGATTGAAGAT-AGTAAGTCCTATCTCCCTGAGT-AG
* * *
50921262 CAGTGGAATAGATTGAAGATTGTAAGTCTTATCTCCCTGCAGTTG
1 CAGTGGAATAGATTGAAGATAGTAAGTCCTATCTCCCTG-AGTAG
50921307 CAGTGGAATAGATTGAAG
1 CAGTGGAATAGATTGAAG
50921325 CACTAGCTCC
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
43 20 0.37
44 13 0.24
45 19 0.35
46 2 0.04
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.29
Consensus pattern (44 bp):
CAGTGGAATAGATTGAAGATAGTAAGTCCTATCTCCCTGAGTAG
Found at i:50921552 original size:19 final size:19
Alignment explanation
Indices: 50921528--50921659 Score: 192
Period size: 19 Copynumber: 6.8 Consensus size: 19
50921518 AATTTTTGAG
50921528 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
50921547 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
*
50921566 GATATGCAGTCTTAGATAT
1 GATATGCAATCTTAGATAT
50921585 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
50921606 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
50921625 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
50921644 GATATGCAATATTAGA
1 GATATGCAATCTTAGA
50921660 ATATATGATT
Statistics
Matches: 102, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
19 84 0.82
21 18 0.18
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:50921595 original size:59 final size:59
Alignment explanation
Indices: 50921529--50921648 Score: 195
Period size: 59 Copynumber: 2.0 Consensus size: 59
50921519 ATTTTTGAGG
* *
50921529 ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATGCAGTCTTAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATATGAT
* * *
50921588 ATATGCAATCTTAGATATGATATGTAATCTTAGATATGATATATAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATATGAT
50921647 AT
1 AT
50921649 GCAATATTAG
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (59 bp):
ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATATGAT
Found at i:50923131 original size:98 final size:98
Alignment explanation
Indices: 50923013--50923209 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
50923003 TTAAAAATAA
* * *
50923013 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
50923078 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGCATGTTCTTTTAAAG
50923111 TAAAGGAAATATTCCAAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
50923176 TTAAATCTTGGATAAGTGCATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGCATGTTCTTTTAAAG
50923209 T
1 T
50923210 TTTATTGTAC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCAAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGCATGTTCTTTTAAAG
Found at i:50927595 original size:35 final size:34
Alignment explanation
Indices: 50927556--50927650 Score: 86
Period size: 36 Copynumber: 2.7 Consensus size: 34
50927546 CGAATATAAT
50927556 AAATATATATTTTTTATTTTTATTTTTTAATTTTA
1 AAATATAT-TTTTTTATTTTTATTTTTTAATTTTA
*** *
50927591 AAATACT-TTTAAAATATTTTTATTTTTTTATTTTTA
1 AAATA-TATTT-TTTTATTTTTA-TTTTTTAATTTTA
* *
50927627 AAATA-ATTTTTTAATGTTTATTTT
1 AAATATATTTTTTTATTTTTATTTT
50927651 AAAAATGGGC
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
33 4 0.09
34 8 0.17
35 17 0.36
36 18 0.38
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (34 bp):
AAATATATTTTTTTATTTTTATTTTTTAATTTTA
Found at i:50931651 original size:23 final size:23
Alignment explanation
Indices: 50931624--50931669 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
50931614 AACAAATACC
50931624 CATATTTATATAAT-TAAAACATT
1 CATATTT-TATAATATAAAACATT
*
50931647 CATATTTTATACTATAAAACATT
1 CATATTTTATAATATAAAACATT
50931670 TATTATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (23 bp):
CATATTTTATAATATAAAACATT
Found at i:50931726 original size:24 final size:22
Alignment explanation
Indices: 50931669--50931728 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 22
50931659 TATAAAACAT
50931669 TTATTAT-TAAATATTTATAAA
1 TTATTATATAAATATTTATAAA
*
50931690 TT-TTA-ATATATATTTATTAAA
1 TTATTATATAAATATTTA-TAAA
50931711 TTATTGATATAAATATTT
1 TTATT-ATATAAATATTT
50931729 TTCAATAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 12 0.38
21 8 0.25
22 2 0.06
23 1 0.03
24 9 0.28
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TTATTATATAAATATTTATAAA
Found at i:50932754 original size:16 final size:15
Alignment explanation
Indices: 50932728--50932786 Score: 73
Period size: 16 Copynumber: 3.7 Consensus size: 15
50932718 AGAAAGTAAA
*
50932728 AGAGCTGTAATGAAAT
1 AGAGTTGTAATG-AAT
*
50932744 AGGGTTGTAATTGAAT
1 AGAGTTGTAA-TGAAT
50932760 AGAGTTGTAATGGAAT
1 AGAGTTGTAAT-GAAT
50932776 AGAGTTGTAAT
1 AGAGTTGTAAT
50932787 CAGTAATTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
15 1 0.03
16 35 0.92
17 2 0.05
ACGTcount: A:0.37, C:0.02, G:0.29, T:0.32
Consensus pattern (15 bp):
AGAGTTGTAATGAAT
Found at i:50935119 original size:25 final size:26
Alignment explanation
Indices: 50934998--50935143 Score: 165
Period size: 26 Copynumber: 5.7 Consensus size: 26
50934988 GTAATGGGCC
50934998 TAAATTACTGAAATACCCTCGATGGG
1 TAAATTACTGAAATACCCTCGATGGG
** *
50935024 TAAATTACCAAAATACCCTCGATGGT
1 TAAATTACTGAAATACCCTCGATGGG
* *
50935050 TAAATTACTCAAATACCCTCAATGGG
1 TAAATTACTGAAATACCCTCGATGGG
*
50935076 TAAATTA-TCGAAATACCC-CCATGGG
1 TAAATTACT-GAAATACCCTCGATGGG
*
50935101 TAAATTACTGAAATACCC-CG-TAGGAA
1 TAAATTACTGAAATACCCTCGAT-GG-G
*
50935127 AAAATTACTGAAATACC
1 TAAATTACTGAAATACC
50935144 TTCAGAAGGG
Statistics
Matches: 104, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
24 1 0.01
25 26 0.25
26 77 0.74
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.25
Consensus pattern (26 bp):
TAAATTACTGAAATACCCTCGATGGG
Found at i:50935132 original size:77 final size:78
Alignment explanation
Indices: 50934998--50935143 Score: 183
Period size: 77 Copynumber: 1.9 Consensus size: 78
50934988 GTAATGGGCC
* **
50934998 TAAATTACTGAAATACCCTCGATGGGTAAATTACCAAAATACCCTCGATGGTTAAATTACTCAAA
1 TAAATTACTGAAATACCCTCCATGGGTAAATTACCAAAATACCCTCGATGGAAAAATTACTCAAA
50935063 TACCCTCAATGGG
66 TACCCTCAATGGG
** *
50935076 TAAATTA-TCGAAATACCC-CCATGGGTAAATTACTGAAATACCC-CG-TAGGAAAAAATTACTG
1 TAAATTACT-GAAATACCCTCCATGGGTAAATTACCAAAATACCCTCGAT-GG-AAAAATTACTC
50935137 AAATACC
63 AAATACC
50935144 TTCAGAAGGG
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
75 1 0.02
76 4 0.07
77 38 0.64
78 16 0.27
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.25
Consensus pattern (78 bp):
TAAATTACTGAAATACCCTCCATGGGTAAATTACCAAAATACCCTCGATGGAAAAATTACTCAAA
TACCCTCAATGGG
Found at i:50935307 original size:27 final size:27
Alignment explanation
Indices: 50935269--50935333 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
50935259 ATAGAGGAAG
* *
50935269 TACTGTTTCTGGTGGCTCTGCCACA-A
1 TACTGTTACTGGTGGCTATGCCACATA
50935295 TTACTGTTACTGGTGGCTATGCCACATA
1 -TACTGTTACTGGTGGCTATGCCACATA
50935323 TACTG-TACTGG
1 TACTGTTACTGG
50935334 CAGCTCGGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
26 6 0.17
27 28 0.80
28 1 0.03
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTATGCCACATA
Found at i:50935540 original size:28 final size:28
Alignment explanation
Indices: 50935496--50935552 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
50935486 ATACTGTAAC
*
50935496 GGGCTTAAGCCCACACTGTTATTATATT
1 GGGCTTAAGCCCACACTGTTATGATATT
* *
50935524 GGGC-TAAGGCCCTCACTGTTCTGATATT
1 GGGCTTAA-GCCCACACTGTTATGATATT
50935552 G
1 G
50935553 TATTGGGCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 3 0.12
28 22 0.88
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (28 bp):
GGGCTTAAGCCCACACTGTTATGATATT
Found at i:50935576 original size:28 final size:28
Alignment explanation
Indices: 50935482--50935577 Score: 68
Period size: 33 Copynumber: 3.2 Consensus size: 28
50935472 TTTGCACCAT
* **
50935482 ATTGATACTGTAACGGGCTTAA-GCCCAC
1 ATTGATATTGTATTGGGC-TAAGGCCCAC
* * *
50935510 ACTGTTATTATATTGGGCTAAGGCCCTCAC
1 ATTGATATTGTATTGGGCTAAGG-CC-CAC
*
50935540 TGTTCTGATATTGTATTGGGCTAAGGCCCAC
1 --AT-TGATATTGTATTGGGCTAAGGCCCAC
50935571 ATTGATA
1 ATTGATA
50935578 CTGGAAAGGG
Statistics
Matches: 51, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
27 3 0.06
28 18 0.35
29 3 0.06
30 3 0.06
31 3 0.06
32 2 0.04
33 19 0.37
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (28 bp):
ATTGATATTGTATTGGGCTAAGGCCCAC
Found at i:50938685 original size:15 final size:15
Alignment explanation
Indices: 50938665--50938694 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
50938655 TTAAATACCT
*
50938665 TTTTAGAATTTTATA
1 TTTTAGAATTCTATA
50938680 TTTTAGAATTCTATA
1 TTTTAGAATTCTATA
50938695 AAAAATTGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (15 bp):
TTTTAGAATTCTATA
Found at i:50939374 original size:2 final size:2
Alignment explanation
Indices: 50939367--50939402 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
50939357 ATCAAAACTT
50939367 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
50939403 ATTTTCCTAA
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):
TA
Found at i:50941458 original size:13 final size:13
Alignment explanation
Indices: 50941440--50941466 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
50941430 AAACCCAACA
50941440 TCTGAATTCACTG
1 TCTGAATTCACTG
50941453 TCTGAATTCACTG
1 TCTGAATTCACTG
50941466 T
1 T
50941467 ATTTTACATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (13 bp):
TCTGAATTCACTG
Found at i:50947987 original size:11 final size:11
Alignment explanation
Indices: 50947971--50948000 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
50947961 TAAACTCAAG
50947971 AATTCTATTAC
1 AATTCTATTAC
50947982 AATTCTATTAC
1 AATTCTATTAC
50947993 -ATTCTATT
1 AATTCTATT
50948001 CAACCAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.42
11 11 0.58
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (11 bp):
AATTCTATTAC
Found at i:50948044 original size:16 final size:16
Alignment explanation
Indices: 50948023--50948062 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
50948013 TGAATTACTG
*
50948023 ATTACAGCTCTATTCC
1 ATTACAACTCTATTCC
*
50948039 ATTACAACTTTATTCC
1 ATTACAACTCTATTCC
50948055 ATTACAAC
1 ATTACAAC
50948063 GAACCAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.38
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:50953019 original size:18 final size:18
Alignment explanation
Indices: 50952993--50953030 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
50952983 TGAATATTAC
50952993 AATTCGAATAACTCGAAT
1 AATTCGAATAACTCGAAT
* *
50953011 AATTTGAATAATTCGAAT
1 AATTCGAATAACTCGAAT
50953029 AA
1 AA
50953031 CAGATTGGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.32
Consensus pattern (18 bp):
AATTCGAATAACTCGAAT
Found at i:50953122 original size:9 final size:9
Alignment explanation
Indices: 50953100--50953224 Score: 54
Period size: 9 Copynumber: 12.9 Consensus size: 9
50953090 CTATCTCAAC
50953100 AAAAATTTGAA
1 AAAAATTT--A
50953111 AAAAATTTA
1 AAAAATTTA
*
50953120 AAATATTTA
1 AAAAATTTA
*
50953129 TAAAATTT-
1 AAAAATTTA
*
50953137 TAAAATTTA
1 AAAAATTTA
* ***
50953146 TATTTTTTA
1 AAAAATTTA
*
50953155 GAAAATTCTA
1 AAAAATT-TA
50953165 AAAAATTCTAAA
1 AAAAATT-T--A
50953177 AAAAATTCTA
1 AAAAATT-TA
*
50953187 AAAAGCATATA
1 AAAA--ATTTA
*
50953198 AAGAAAGTTA
1 AA-AAATTTA
*
50953208 AAAAAATTA
1 AAAAATTTA
50953217 AAAAATTT
1 AAAAATTT
50953225 CTAGAACAAT
Statistics
Matches: 91, Mismatches: 16, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
8 8 0.09
9 37 0.41
10 20 0.22
11 12 0.13
12 14 0.15
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.34
Consensus pattern (9 bp):
AAAAATTTA
Found at i:50953171 original size:10 final size:10
Alignment explanation
Indices: 50953156--50953190 Score: 52
Period size: 10 Copynumber: 3.3 Consensus size: 10
50953146 TATTTTTTAG
50953156 AAAATTCTAA
1 AAAATTCTAA
50953166 AAAATTCTAAAA
1 AAAATTCT--AA
50953178 AAAATTCTAA
1 AAAATTCTAA
50953188 AAA
1 AAA
50953191 GCATATAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 13 0.57
12 10 0.43
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.26
Consensus pattern (10 bp):
AAAATTCTAA
Found at i:50953181 original size:12 final size:12
Alignment explanation
Indices: 50953156--50953190 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
50953146 TATTTTTTAG
50953156 AAAATTCT--AA
1 AAAATTCTAAAA
50953166 AAAATTCTAAAA
1 AAAATTCTAAAA
50953178 AAAATTCTAAAA
1 AAAATTCTAAAA
50953190 A
1 A
50953191 GCATATAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 8 0.35
12 15 0.65
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.26
Consensus pattern (12 bp):
AAAATTCTAAAA
Found at i:50959373 original size:3 final size:3
Alignment explanation
Indices: 50959365--50959396 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
50959355 TTTATGTATC
50959365 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
50959397 TACTTAATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:50959863 original size:17 final size:17
Alignment explanation
Indices: 50959819--50959876 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
50959809 TCTATCCTTC
50959819 TTTTTTCTTTTTTTGCGT
1 TTTTTTC-TTTTTTGCGT
* *
50959837 TTTTTGCTTTTTT-CTT
1 TTTTTTCTTTTTTGCGT
50959853 TTCTTTTC-TTTTTGCTGT
1 TT-TTTTCTTTTTTGC-GT
50959871 TTTTTT
1 TTTTTT
50959877 TAAAAAGAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
16 9 0.27
17 15 0.45
18 9 0.27
ACGTcount: A:0.00, C:0.12, G:0.09, T:0.79
Consensus pattern (17 bp):
TTTTTTCTTTTTTGCGT
Found at i:50959864 original size:25 final size:24
Alignment explanation
Indices: 50959818--50959874 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
50959808 ATCTATCCTT
50959818 CTTTTTTCTTTTTTTGCGTTTTTTG
1 CTTTTTTCTTTTTTTGCG-TTTTTG
*
50959843 CTTTTTTCTTTTCTTTTC-TTTTTG
1 CTTTTTTCTTTT-TTTGCGTTTTTG
50959867 CTGTTTTT
1 CT-TTTTT
50959875 TTTAAAAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 8 0.28
25 17 0.59
26 4 0.14
ACGTcount: A:0.00, C:0.14, G:0.09, T:0.77
Consensus pattern (24 bp):
CTTTTTTCTTTTTTTGCGTTTTTG
Found at i:50963649 original size:15 final size:15
Alignment explanation
Indices: 50963629--50963657 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
50963619 AACATCACTT
50963629 ATAGCAACTTTATTA
1 ATAGCAACTTTATTA
50963644 ATAGCAACTTTATT
1 ATAGCAACTTTATT
50963658 TAACTTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (15 bp):
ATAGCAACTTTATTA
Found at i:50964588 original size:63 final size:63
Alignment explanation
Indices: 50964517--50964653 Score: 168
Period size: 63 Copynumber: 2.2 Consensus size: 63
50964507 ATGGGGCCCT
* * * * **
50964517 CCACCATTCGGGCCAA-GAGTTTGTGTCCTATACTCATGGCTTTCAACATTCGACCTGGGCCAA
1 CCACCATTCGGCCCAATG-GTTTGTGGCCTATACGCATGACACTCAACATTCGACCTGGGCCAA
* * *
50964580 CCACCATTCGGCCCAATGGTTTGTGGCCTATACGCATGACACTCAACATTGGGCCTGGGCCCA
1 CCACCATTCGGCCCAATGGTTTGTGGCCTATACGCATGACACTCAACATTCGACCTGGGCCAA
*
50964643 CCACCAATCGG
1 CCACCATTCGG
50964654 TCCTGCATAT
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
63 62 0.98
64 1 0.02
ACGTcount: A:0.22, C:0.33, G:0.22, T:0.23
Consensus pattern (63 bp):
CCACCATTCGGCCCAATGGTTTGTGGCCTATACGCATGACACTCAACATTCGACCTGGGCCAA
Found at i:50966299 original size:19 final size:19
Alignment explanation
Indices: 50966261--50966298 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
50966251 TCTCCATTTT
*
50966261 TTAATGAAAATATTAAAAA
1 TTAATGAAAATAATAAAAA
50966280 TTAATGAAAAATAATAAAA
1 TTAATG-AAAATAATAAAA
50966299 TAATTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (19 bp):
TTAATGAAAATAATAAAAA
Found at i:50966384 original size:17 final size:16
Alignment explanation
Indices: 50966364--50966413 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
50966354 TTTTAATTGC
50966364 ATTATTATTTTTTAATA
1 ATTATTATTTTTTAA-A
*
50966381 ATTATAATTTTTATCAAA
1 ATTATTATTTTT-T-AAA
50966399 ATTATT-TTTTTTAAA
1 ATTATTATTTTTTAAA
50966414 TTTTTTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
15 3 0.10
16 1 0.03
17 16 0.55
18 7 0.24
19 2 0.07
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTATTATTTTTTAAA
Found at i:50976981 original size:43 final size:43
Alignment explanation
Indices: 50976773--50976981 Score: 216
Period size: 43 Copynumber: 4.9 Consensus size: 43
50976763 TCCGATTTGT
* * * * *
50976773 GATTTTGTGTAAGACCACATTTGGGATGTTGGCATCAAT-TTGA
1 GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATT-A
*
50976816 GATTTCGTGTAAGACCACGTTTGGGACGTTGGCATCGAT-TTGA
1 GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATT-A
* *
50976859 GATTTGCGTGTAAGACCATGTCTGGGACATTGGCATCG-TA-TA
1 GATTT-CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTA
50976901 TGATTTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATAGTT-
1 -GATTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATA-TTA
* *
50976945 GATTACATGTAAGACCACGTCTGGGACGTTGGCATCG
1 GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCG
50976982 TATGAGCTTT
Statistics
Matches: 145, Mismatches: 11, Indels: 20
0.82 0.06 0.11
Matches are distributed among these distances:
42 30 0.21
43 84 0.58
44 30 0.21
45 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.32
Consensus pattern (43 bp):
GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTA
Found at i:50987483 original size:29 final size:29
Alignment explanation
Indices: 50987440--50987495 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
50987430 CTACCAATTA
50987440 GCTAGGTTGGCTTTGTTTTAAATTGGGAT
1 GCTAGGTTGGCTTTGTTTTAAATTGGGAT
* *
50987469 GCTAGGTTGGGTTTGTTTTAGATTGGG
1 GCTAGGTTGGCTTTGTTTTAAATTGGG
50987496 CGAATTTGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.14, C:0.05, G:0.36, T:0.45
Consensus pattern (29 bp):
GCTAGGTTGGCTTTGTTTTAAATTGGGAT
Found at i:50993951 original size:24 final size:23
Alignment explanation
Indices: 50993907--50993951 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
50993897 ATTTTTACAC
*
50993907 TTTAATAGTTTGTTTTATGTGAT
1 TTTAATAGTTTGTATTATGTGAT
50993930 TTTAATAAGTTTGATATT-TGTG
1 TTTAAT-AGTTTG-TATTATGTG
50993952 TCACGGACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 6 0.32
24 10 0.53
25 3 0.16
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (23 bp):
TTTAATAGTTTGTATTATGTGAT
Found at i:50994871 original size:30 final size:30
Alignment explanation
Indices: 50994837--50994895 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
50994827 TTGGATCTGC
*
50994837 GCGTCGACCCGGTCCGGATCCAGGATCCGT
1 GCGTCGACCCGATCCGGATCCAGGATCCGT
50994867 GCGTCGACCCGATCCGGATCCAGGATCCG
1 GCGTCGACCCGATCCGGATCCAGGATCCG
50994896 CGCTTTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.15, C:0.37, G:0.32, T:0.15
Consensus pattern (30 bp):
GCGTCGACCCGATCCGGATCCAGGATCCGT
Found at i:50995722 original size:8 final size:8
Alignment explanation
Indices: 50995709--50995741 Score: 57
Period size: 8 Copynumber: 4.0 Consensus size: 8
50995699 CATCAATTTT
50995709 ATTTATTC
1 ATTTATTC
50995717 ATTTATTC
1 ATTTATTC
50995725 ATTTATTC
1 ATTTATTC
50995733 ATATTATTC
1 AT-TTATTC
50995742 CTATATCATC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.75
9 6 0.25
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (8 bp):
ATTTATTC
Found at i:50996169 original size:98 final size:98
Alignment explanation
Indices: 50996036--50996230 Score: 291
Period size: 98 Copynumber: 2.0 Consensus size: 98
50996026 TAAAAAATCA
* * * * *
50996036 TAAATGAAATATTCCGAGTTTGAGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGATATGATTTC
* *
50996101 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATATTGGATAAGTGGATATTCTTTTAAAG
* * * *
50996134 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGTCCTAATGTATTGGATATGATTTC
1 TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGATATGATTTC
50996199 TTAAATATTGGATAAGTGGATATTCTTTTAAA
66 TTAAATATTGGATAAGTGGATATTCTTTTAAA
50996231 TTTTTATTGT
Statistics
Matches: 86, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
98 86 1.00
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGATATGATTTC
TTAAATATTGGATAAGTGGATATTCTTTTAAAG
Found at i:50996667 original size:20 final size:19
Alignment explanation
Indices: 50996625--50996667 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
50996615 TCGACACATA
*
50996625 TATTTTAATTATTTTACAT
1 TATTTTAATTATTTTAAAT
50996644 TATTTT-ATTATATCTTAAAT
1 TATTTTAATTAT-T-TTAAAT
50996664 TATT
1 TATT
50996668 CTGAAGTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 5 0.24
19 7 0.33
20 9 0.43
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (19 bp):
TATTTTAATTATTTTAAAT
Found at i:51008741 original size:12 final size:12
Alignment explanation
Indices: 51008724--51008753 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
51008714 ACAAAATCCG
51008724 AATTTAATTTCC
1 AATTTAATTTCC
*
51008736 AATTTAATTTCT
1 AATTTAATTTCC
51008748 AATTTA
1 AATTTA
51008754 TTTAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (12 bp):
AATTTAATTTCC
Found at i:51015549 original size:47 final size:48
Alignment explanation
Indices: 51015478--51015570 Score: 125
Period size: 47 Copynumber: 2.0 Consensus size: 48
51015468 CATGGCAACA
*
51015478 TGTGATATGTGATTTTCGTATAAGACCATACCCGGGATATGGCATCGG
1 TGTGATATGTGATATTCGTATAAGACCATACCCGGGATATGGCATCGG
* * * * *
51015526 TGTGATATGTGCTATT-GTGTAAGACCATAGCTGGGCTATGGCATC
1 TGTGATATGTGATATTCGTATAAGACCATACCCGGGATATGGCATC
51015571 AATATATAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
47 25 0.64
48 14 0.36
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (48 bp):
TGTGATATGTGATATTCGTATAAGACCATACCCGGGATATGGCATCGG
Found at i:51018413 original size:51 final size:49
Alignment explanation
Indices: 51018352--51018535 Score: 188
Period size: 51 Copynumber: 3.6 Consensus size: 49
51018342 AAAATGATGA
* *
51018352 TCACGTGTGTAGTACTATGGTGCAGGCTACTACATGTACCGGAATGATAGG
1 TCACATGTGTAGTACTAT-GTGCAGGCTACTACGTGTACCGG-ATGATAGG
* * * * ** * * *
51018403 TCGCATGTGTAGTACTATGTGCAGGCCACTATGCGTACTAGATAGCTTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT-G-ATAGG
* * *
51018454 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGAT-A-GG
51018505 TCACATGTGTAGTACTATGTGCAGGCTACTA
1 TCACATGTGTAGTACTATGTGCAGGCTACTA
51018536 TGTGAACTGA
Statistics
Matches: 106, Mismatches: 23, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
49 3 0.03
50 19 0.18
51 84 0.79
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (49 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGATAGG
Found at i:51018468 original size:102 final size:102
Alignment explanation
Indices: 51018350--51018537 Score: 299
Period size: 102 Copynumber: 1.8 Consensus size: 102
51018340 TGAAAATGAT
*
51018350 GATCACGTGTGTAGTACTATGGTGCAGGCTACTACATGTACCGGAATGAT-A-GGTCGCATGTGT
1 GATCACGTGTGTAGTACTAT-GTGCAGGCTACTACATGTACCGG-ATGATAATGGTCACATGTGT
51018413 AGTACTATGTGCAGGCCACTATGCGTACTAGATAGCTTC
64 AGTACTATGTGCAGGCCACTATGCGTACTAGATAGCTTC
* * *
51018452 GATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGGTCACATGTGTAG
1 GATCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACCGGATGATAATGGTCACATGTGTAG
*
51018517 TACTATGTGCAGGCTACTATG
66 TACTATGTGCAGGCCACTATG
51018538 TGAACTGAAC
Statistics
Matches: 79, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
100 4 0.05
101 22 0.28
102 53 0.67
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (102 bp):
GATCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACCGGATGATAATGGTCACATGTGTAG
TACTATGTGCAGGCCACTATGCGTACTAGATAGCTTC
Found at i:51018539 original size:26 final size:26
Alignment explanation
Indices: 51018459--51018539 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
51018449 TTCGATCACG
51018459 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * *
51018485 CGTGTA-T-CGGATG-GTAATGG-TCAC-A
1 TGTGTAGTAC-TATGTG-CA-GGCT-ACTA
51018510 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
51018536 TGTG
1 TGTG
51018540 AACTGAACAT
Statistics
Matches: 40, Mismatches: 6, Indels: 18
0.62 0.09 0.28
Matches are distributed among these distances:
24 2 0.05
25 16 0.40
26 20 0.50
27 2 0.05
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:51018597 original size:45 final size:45
Alignment explanation
Indices: 51018546--51018633 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
51018536 TGTGAACTGA
* * *
51018546 ACATCATTGATTAGTAACGTGGTTGCTATGTGCTGATTCCACCAG
1 ACATCATTGATTAATAACGTGGTTGCTATGTACTGAATCCACCAG
*
51018591 ACATCATTGATTAATAAGGTGGTTGCTATGTACTGAATCCACC
1 ACATCATTGATTAATAACGTGGTTGCTATGTACTGAATCCACC
51018634 GAGTATCTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.33
Consensus pattern (45 bp):
ACATCATTGATTAATAACGTGGTTGCTATGTACTGAATCCACCAG
Found at i:51024180 original size:27 final size:27
Alignment explanation
Indices: 51024139--51024241 Score: 147
Period size: 27 Copynumber: 3.8 Consensus size: 27
51024129 TAGTATTGGC
51024139 GCCTATCTGGAAGGCGCCAATGGTGGT
1 GCCTATCTGGAAGGCGCCAATGGTGGT
* * *
51024166 GCCTATTTGGGAGGCGCCAATAGTGGT
1 GCCTATCTGGAAGGCGCCAATGGTGGT
51024193 GCCTATCTAGG-AGGCGCCAATGGTGGT
1 GCCTATCT-GGAAGGCGCCAATGGTGGT
51024220 GCCATAT-TGGAAGGCGCCAATG
1 GCC-TATCTGGAAGGCGCCAATG
51024242 CTGTGATTTT
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
26 2 0.03
27 61 0.90
28 5 0.07
ACGTcount: A:0.20, C:0.21, G:0.36, T:0.22
Consensus pattern (27 bp):
GCCTATCTGGAAGGCGCCAATGGTGGT
Found at i:51024338 original size:22 final size:21
Alignment explanation
Indices: 51024307--51024351 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
51024297 CGGAAGAAAG
* *
51024307 AAGAAGGAAGGAAGCAGAAGAA
1 AAGAACGAAGGAA-AAGAAGAA
51024329 AAGAACGAAGGAAAAGAAGAA
1 AAGAACGAAGGAAAAGAAGAA
51024350 AA
1 AA
51024352 AAATTAGGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.64, C:0.04, G:0.31, T:0.00
Consensus pattern (21 bp):
AAGAACGAAGGAAAAGAAGAA
Found at i:51024349 original size:24 final size:24
Alignment explanation
Indices: 51024299--51024354 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
51024289 TACAGAAACG
*
51024299 GAAG-AAAGAAGAAGGAAGGAAGCA
1 GAAGAAAAGAAGAAGGAA-GAAGAA
51024323 GAAGAAAAGAACGAAGGAA-AAGAA
1 GAAGAAAAGAA-GAAGGAAGAAGAA
*
51024347 GAAAAAAA
1 GAAGAAAA
51024355 TTAGGTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 15 0.54
25 6 0.21
26 7 0.25
ACGTcount: A:0.66, C:0.04, G:0.30, T:0.00
Consensus pattern (24 bp):
GAAGAAAAGAAGAAGGAAGAAGAA
Found at i:51027658 original size:12 final size:12
Alignment explanation
Indices: 51027641--51027673 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
51027631 AGAATGTAGT
51027641 TCTGGCTCTCGC
1 TCTGGCTCTCGC
51027653 TCTGGCTCTCGC
1 TCTGGCTCTCGC
51027665 TCTGGCTCT
1 TCTGGCTCT
51027674 GGTGCATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.00, C:0.39, G:0.24, T:0.36
Consensus pattern (12 bp):
TCTGGCTCTCGC
Found at i:51027660 original size:6 final size:6
Alignment explanation
Indices: 51027641--51027675 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
51027631 AGAATGTAGT
* *
51027641 TCTGGC TCTCGC TCTGGC TCTCGC TCTGGC TCTGG
1 TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGG
51027676 TGCATGATGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.37, G:0.29, T:0.34
Consensus pattern (6 bp):
TCTGGC
Found at i:51029743 original size:27 final size:26
Alignment explanation
Indices: 51029707--51029898 Score: 221
Period size: 27 Copynumber: 7.7 Consensus size: 26
51029697 ATATCCCCAC
51029707 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTA-AAT
51029734 ATTACAATATTCATAC-AAA--AAA-
1 ATTACAATATTCATACAAAATTAAAT
*
51029756 ATTGCAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTA-AAT
51029783 ATTACAATATTCATAC-AAA--AAA-
1 ATTACAATATTCATACAAAATTAAAT
*
51029805 ATTGCAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTA-AAT
51029832 ATTACAATATTCATACAAAA--AAAT
1 ATTACAATATTCATACAAAATTAAAT
*
51029856 A-T--AATATTCATACAAAATTACAAA
1 ATTACAATATTCATACAAAATTA-AAT
*
51029880 ATTGCAATATTCATACAAA
1 ATTACAATATTCATACAAA
51029899 NNNNNNNNNN
Statistics
Matches: 144, Mismatches: 5, Indels: 32
0.80 0.03 0.18
Matches are distributed among these distances:
21 15 0.10
22 30 0.21
23 12 0.08
24 9 0.06
25 4 0.03
26 10 0.07
27 64 0.44
ACGTcount: A:0.54, C:0.13, G:0.02, T:0.32
Consensus pattern (26 bp):
ATTACAATATTCATACAAAATTAAAT
Found at i:51029784 original size:49 final size:49
Alignment explanation
Indices: 51029654--51029898 Score: 322
Period size: 49 Copynumber: 5.1 Consensus size: 49
51029644 AATTAATTAT
* *
51029654 AAAATAATTACAATATTCATACAAAAAATTACAATATTACAATA-T-AT-C
1 AAAAAAATTGCAATATTCATAC--AAAATTACAATATTACAATATTCATAC
*** * *
51029702 -CCCACATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
1 AAAAAAATTGCAATATTCATACAAAATTACAATATTACAATATTCATAC
*
51029750 AAAAAAATTGCAATATTCATACAAAATTATAATATTACAATATTCATAC
1 AAAAAAATTGCAATATTCATACAAAATTACAATATTACAATATTCATAC
*
51029799 AAAAAAATTGCAATATTCATACAAAATTATAATATTACAATATTCATAC
1 AAAAAAATTGCAATATTCATACAAAATTACAATATTACAATATTCATAC
* *
51029848 AAAAAAATAT--AATATTCATACAAAATTACAAAATTGCAATATTCATAC
1 AAAAAAAT-TGCAATATTCATACAAAATTACAATATTACAATATTCATAC
51029896 AAA
1 AAA
51029899 NNNNNNNNNN
Statistics
Matches: 178, Mismatches: 14, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
45 20 0.11
46 1 0.01
47 18 0.10
48 39 0.22
49 99 0.56
50 1 0.01
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.31
Consensus pattern (49 bp):
AAAAAAATTGCAATATTCATACAAAATTACAATATTACAATATTCATAC
Found at i:51032271 original size:27 final size:27
Alignment explanation
Indices: 51032240--51032305 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
51032230 GCAGAGGACA
51032240 CCATTGGCGCCTCTCCATGAGGCTCCT
1 CCATTGGCGCCTCTCCATGAGGCTCCT
* *
51032267 TCATTGGCGCCTCTGCATGAGGCTCCT
1 CCATTGGCGCCTCTCCATGAGGCTCCT
51032294 CCATTGGCGCCT
1 CCATTGGCGCCT
51032306 ACTAGACAGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.11, C:0.38, G:0.24, T:0.27
Consensus pattern (27 bp):
CCATTGGCGCCTCTCCATGAGGCTCCT
Found at i:51034482 original size:12 final size:11
Alignment explanation
Indices: 51034429--51034480 Score: 77
Period size: 11 Copynumber: 4.5 Consensus size: 11
51034419 ATAAATCCTT
51034429 TCTCTAATTTCC
1 TCTC-AATTTCC
*
51034441 TCTCAATTTGC
1 TCTCAATTTCC
51034452 TCTCAATTTCC
1 TCTCAATTTCC
51034463 TCTCAAATTTCC
1 TCTC-AATTTCC
51034475 TCTCAA
1 TCTCAA
51034481 ATCTCTATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
11 22 0.59
12 15 0.41
ACGTcount: A:0.21, C:0.33, G:0.02, T:0.44
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:51036736 original size:16 final size:16
Alignment explanation
Indices: 51036715--51036750 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
51036705 TTTGGTTCGC
51036715 TGTATTGAATTAGAGG
1 TGTATTGAATTAGAGG
*
51036731 TGTATTGGATTAGAGG
1 TGTATTGAATTAGAGG
51036747 TGTA
1 TGTA
51036751 ATAGCAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.33, T:0.39
Consensus pattern (16 bp):
TGTATTGAATTAGAGG
Found at i:51037084 original size:125 final size:125
Alignment explanation
Indices: 51036932--51037157 Score: 389
Period size: 125 Copynumber: 1.8 Consensus size: 125
51036922 TTTAATAAGG
* * * *
51036932 TTATTATTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACCCATTTTAA
1 TTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACACATTATAA
*
51036997 TTAAAATATATAATTTCATAAAATTCTTAATAATTAGCAGAAATTTGTTTTGGTAATTAA
66 TTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAGAAATTTGTTTTGGTAATTAA
* *
51037057 TTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAA
1 TTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACACATTATAA
51037122 TTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 TTAAAATATATAATTTAATAAAATTCTTAATAATTA
51037158 ATATTCTTAT
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
125 94 1.00
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (125 bp):
TTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACACATTATAA
TTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAGAAATTTGTTTTGGTAATTAA
Found at i:51037128 original size:16 final size:16
Alignment explanation
Indices: 51037091--51037132 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
51037081 TTAATCATAT
*
51037091 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
51037107 TT-AAATATATTATAA
1 TTAAAATATATTATAA
51037122 TTAAAATATAT
1 TTAAAATATAT
51037133 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:51037139 original size:14 final size:15
Alignment explanation
Indices: 51037100--51037141 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
51037090 TTTAAACATA
*
51037100 ATTATTATTAAATAT
1 ATTATAATTAAATAT
51037115 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
51037129 A-TATAATTTAATA
1 ATTATAATTAAATA
51037142 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:51037190 original size:125 final size:123
Alignment explanation
Indices: 51036944--51037381 Score: 450
Period size: 120 Copynumber: 3.6 Consensus size: 123
51036934 ATTATTATCA
* *** *
51036944 ATAATA-AATATTTTAATCATATTTAAACATAATTATTATTAAACCCATTTTAATTAAAATATAT
1 ATAATACAATAATTTAAT-ATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATAT
* ** *** * ** * * *
51037008 AATTTCATAAAATTCTTAATAATTAGCA--GAAATTTGTTTTGGTAAT-TAATTATTAATAT
65 AATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATT--TACTCAAATCA-TAATAT
51037067 CAATAATA-AATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATAT
1 --ATAATACAATAATTTAAT-ATATTTAAACATAATTATTATTAAATATATTATAATTAAAATAT
51037131 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATAT
63 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATAT
* ** *
51037192 ATGATACTGTAA---AATATAAATT-AACATAATTATTATTAAATATATTATAATTAAAATATAT
1 ATAATACAATAATTTAATAT-ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATAT
51037253 AATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATAT
65 AATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATAT
* * * * * * * * *
51037312 ATGATACTATAAATGAA-A-ATTTGAA-ATAATTAATATTAAATATATTTTATTTAAAATATATG
1 ATAATACAATAATTTAATATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATA
51037374 ATTTAATA
66 ATTTAATA
51037382 NNNNNNNNNN
Statistics
Matches: 277, Mismatches: 27, Indels: 23
0.85 0.08 0.07
Matches are distributed among these distances:
120 155 0.56
121 8 0.03
122 1 0.00
123 7 0.03
124 3 0.01
125 93 0.34
126 4 0.01
127 6 0.02
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.43
Consensus pattern (123 bp):
ATAATACAATAATTTAATATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATA
ATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATAT
Found at i:51037257 original size:120 final size:121
Alignment explanation
Indices: 51037089--51037381 Score: 486
Period size: 120 Copynumber: 2.4 Consensus size: 121
51037079 ATTTAATCAT
*
51037089 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
51037154 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAAT-ATAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTAT-AAATGA-AA
51037211 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
51037274 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
* * * *
51037330 ATTTGAA-ATAATTAATATTAAATATATTTTATTTAAAATATATGATTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATA
51037382 NNNNNNNNNN
Statistics
Matches: 163, Mismatches: 5, Indels: 8
0.93 0.03 0.05
Matches are distributed among these distances:
119 7 0.04
120 151 0.93
121 4 0.02
122 1 0.01
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
Found at i:51037259 original size:14 final size:15
Alignment explanation
Indices: 51037210--51037261 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
51037200 GTAAAATATA
51037210 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
51037225 TATTAAATATATTAT
1 AATTAAATATATTAT
51037240 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
51037253 AATTTAATA
1 AATTAAATA
51037262 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:51040685 original size:33 final size:33
Alignment explanation
Indices: 51040646--51040755 Score: 136
Period size: 33 Copynumber: 3.3 Consensus size: 33
51040636 ATTATAAAGC
51040646 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* *
51040679 ATGTATAATTGACCTAAAATTACTTGTTGGTTT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* *
51040712 AATGT-T-ATTGTCCCTAAAA-AACATTGTTGGTGT
1 -ATGTATAATTG-ACCTAAAATTA-ATTGTTGGTGT
51040745 ATGTATAATTG
1 ATGTATAATTG
51040756 TTGGTTTAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
32 9 0.14
33 49 0.74
34 8 0.12
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTGT
Found at i:51040762 original size:51 final size:51
Alignment explanation
Indices: 51040702--51040855 Score: 292
Period size: 51 Copynumber: 3.0 Consensus size: 51
51040692 CTAAAATTAC
51040702 TTGTTGGTTTAATGTTATTGT-CCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATT-TACCCTAAAAAACATTGTTGGTGTATGTATAA
51040753 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
51040804 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
51040855 T
1 T
51040856 CTTTTTAATT
Statistics
Matches: 102, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
50 1 0.01
51 101 0.99
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (51 bp):
TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
Found at i:51045430 original size:2 final size:2
Alignment explanation
Indices: 51045417--51045475 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
51045407 TTTGTGCTAA
*
51045417 AT AT AA 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 AT AT AT
51045459 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
51045476 AATGGTGGAG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:51046009 original size:152 final size:149
Alignment explanation
Indices: 51045737--51046023 Score: 407
Period size: 152 Copynumber: 1.9 Consensus size: 149
51045727 GTTTCAGTCA
* * *
51045737 TTTGTTCGTATTTTTTCCGGATTTTATTACTTTTAAAAAAATACTATTTTTAAATTTTTTTATTT
1 TTTGTTCATATTTTTTCCGAATTTTATTACTTTTAAAAAAATACTATTTTTAAATTTTATTATTT
* * * *
51045802 TACATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTTTGTTTTTTAAATAAA-TTAAA
66 TACATGATTTTAGTACATCATATTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTTAAA
51045866 AAAATCCTTATTTCGGCCC
131 AAAATCCTTATTTCGGCCC
**
51045885 TTTGTTCATATTTTTTCCCGAATTTTATTACTTTTAATAAAAATA-TATTATTTTCGTATTTTAT
1 TTTGTTCATATTTTTT-CCGAATTTTATTACTTTTAA-AAAAATACTA-T-TTTT-AAATTTTAT
* *
51045949 TATTTTACATGATTTTAGTATATCATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAAT
61 TATTTTACATGATTTTAGTACATCATATTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAA-
51046014 TTTAAAAAAA
125 TTTAAAAAAA
51046024 CCTAAAAAAA
Statistics
Matches: 121, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
148 15 0.12
149 21 0.17
150 8 0.07
151 4 0.03
152 64 0.53
154 9 0.07
ACGTcount: A:0.32, C:0.08, G:0.07, T:0.53
Consensus pattern (149 bp):
TTTGTTCATATTTTTTCCGAATTTTATTACTTTTAAAAAAATACTATTTTTAAATTTTATTATTT
TACATGATTTTAGTACATCATATTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTTAAA
AAAATCCTTATTTCGGCCC
Found at i:51046281 original size:153 final size:151
Alignment explanation
Indices: 51046040--51046758 Score: 1020
Period size: 153 Copynumber: 4.7 Consensus size: 151
51046030 AAAAACCCTT
* * * *
51046040 AAAAATACGAACAAAGGGCAAGAATAAGGGTTTTTTTAATTTTATTTAAAAAATACAGTAAATTA
1 AAAAATACAAACAAAGGCCGA-AATAAGGGTTTTTTTAAATTTATTTAAAAAATACAGTAAATTA
51046105 ATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATA-TTTT
65 ATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTTT
51046169 TTAAAGTAATAAAATCCGGAGAA
130 TTAAAGTAATAAAATCCGG-GAA
*
51046192 AAAAATACAAACAAATGGCCGAAATAAGGGTTTTTTTTAAATTTATTTAAAAAATATAGTAAATT
1 AAAAATACAAACAAA-GGCCGAAATAAGGG-TTTTTTTAAATTTATTTAAAAAATACAGTAAATT
* *
51046257 AATACATTTCAAACTTAATTTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTT
64 AATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTT
* * *
51046322 TTTAAAGTAATAAACTCTGGGGA
129 TTTAAAGTAATAAAATCCGGGAA
*
51046345 AAAAATACGAACAAAGGGCCGAAATAAGGG-TTTTTTAAATTTATTT-AAAAA-ACAGGTAAATT
1 AAAAATACAAACAAA-GGCCGAAATAAGGGTTTTTTTAAATTTATTTAAAAAATACA-GTAAATT
* * *
51046407 AATACATTTCAAACATAATGTACTAAAATAATATAAAATAATAAAATTATAAAATAGTATAATTT
64 AATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTT
* * ** **
51046472 GTTAAAGTAATAAACTGTGGGGG
129 TTTAAAGTAATAAAATCCGGGAA
**
51046495 AAAAATACAAACAAAGGACCGAAATAAGGGTTTTTTTAAAATTTATTTAAAAAACGCAGTAAATT
1 AAAAATACAAACAAAGG-CCGAAATAAGGGTTTTTTT-AAATTTATTTAAAAAATACAGTAAATT
* *
51046560 AATACATTTCAAACATGATGTACTAAAATAATGTAAAATAATAAAA-TACGAAAATAATATATTT
64 AATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTA-GAAAATAGTATA-TT
51046624 TTATTTAAAGTAATAAAATCCGGGAA
127 TT-TTTAAAGTAATAAAATCCGGGAA
* * *
51046650 AAAAATACTAACAAATGGCCGAAATAAGGATTTTTTT-AATTTATTTAAAAAATACACTAAATTA
1 AAAAATACAAACAAA-GGCCGAAATAAGGGTTTTTTTAAATTTATTTAAAAAATACAGTAAATTA
* *
51046714 ATACATTTCAAATATAATGTACTAAAATAATTTAAAATAA-AAAAT
65 ATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAAT
51046759 ATATATTTTA
Statistics
Matches: 511, Mismatches: 42, Indels: 27
0.88 0.07 0.05
Matches are distributed among these distances:
149 4 0.01
150 118 0.23
151 22 0.04
152 38 0.07
153 252 0.49
154 26 0.05
155 49 0.10
156 2 0.00
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.32
Consensus pattern (151 bp):
AAAAATACAAACAAAGGCCGAAATAAGGGTTTTTTTAAATTTATTTAAAAAATACAGTAAATTAA
TACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTTTT
TAAAGTAATAAAATCCGGGAA
Found at i:51046623 original size:303 final size:306
Alignment explanation
Indices: 51046040--51046763 Score: 1070
Period size: 303 Copynumber: 2.4 Consensus size: 306
51046030 AAAAACCCTT
* *
51046040 AAAAATACGAACAAAGGG-CAAGAATAAGGGTTTTTTTAATTTTATTTAAAAAATACAGTAAATT
1 AAAAATACGAACAAAGGGCCGA-AATAAGGG-TTTTTTAAATTTATTTAAAAAATACAGTAAATT
* * *
51046104 AATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTT
64 AATACATTTCAAACATAATGTACTAAAATAATATAAAATAATAAAATTATAAAATAGTATATTTG
*
51046169 TTAAAGTAATAAAATCCGGAGAAAAAAATACAAACAAATGGCCGAAATAAGGGTTTTTTTTAAAT
129 TTAAAGTAATAAAATCCGGAGAAAAAAATACAAACAAATGGCCGAAATAAGGGTTTTTTTAAAAT
* * * *
51046234 TTATTTAAAAAATATAGTAAATTAATACATTTCAAACTTAATTTACTAAAATAATGTAAAATAAT
194 TTATTTAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
* * * *
51046299 AAAATTAGAAAATAGTATA-TTTT-TTTAAAGTAATAAACTCTGGGGA
259 AAAATTAGAAAATAATATATTTTTATTTAAAGTAATAAAATCCGGGAA
51046345 AAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTAAATTTATTT-AAAAA-ACAGGTAAATTA
1 AAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTAAATTTATTTAAAAAATACA-GTAAATTA
51046408 ATACATTTCAAACATAATGTACTAAAATAATATAAAATAATAAAATTATAAAATAGTATAATTTG
65 ATACATTTCAAACATAATGTACTAAAATAATATAAAATAATAAAATTATAAAATAGTAT-ATTTG
* ** **
51046473 TTAAAGTAATAAACTGTGG-GGGAAAAATACAAACAAA-GGACCGAAATAAGGGTTTTTTTAAAA
129 TTAAAGTAATAAAATCCGGAGAAAAAAATACAAACAAATGG-CCGAAATAAGGGTTTTTTTAAAA
* *
51046536 TTTATTTAAAAAACGCAGTAAATTAATACATTTCAAACATGATGTACTAAAATAATGTAAAATAA
193 TTTATTTAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAA
51046601 TAAAA-TACGAAAATAATATATTTTTATTTAAAGTAATAAAATCCGGGAA
258 TAAAATTA-GAAAATAATATATTTTTATTTAAAGTAATAAAATCCGGGAA
* * * * *
51046650 AAAAATACTAACAAATGGCCGAAATAAGGATTTTTTTAATTTATTTAAAAAATACACTAAATTAA
1 AAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTAAATTTATTTAAAAAATACAGTAAATTAA
* *
51046715 TACATTTCAAATATAATGTACTAAAATAATTTAAAATAA-AAAATATATA
66 TACATTTCAAACATAATGTACTAAAATAATATAAAATAATAAAAT-TATA
51046764 TTTTAAAAGT
Statistics
Matches: 381, Mismatches: 28, Indels: 19
0.89 0.07 0.04
Matches are distributed among these distances:
302 7 0.02
303 183 0.48
304 39 0.10
305 93 0.24
306 56 0.15
307 3 0.01
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.32
Consensus pattern (306 bp):
AAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTAAATTTATTTAAAAAATACAGTAAATTAA
TACATTTCAAACATAATGTACTAAAATAATATAAAATAATAAAATTATAAAATAGTATATTTGTT
AAAGTAATAAAATCCGGAGAAAAAAATACAAACAAATGGCCGAAATAAGGGTTTTTTTAAAATTT
ATTTAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAA
AATTAGAAAATAATATATTTTTATTTAAAGTAATAAAATCCGGGAA
Found at i:51047305 original size:26 final size:26
Alignment explanation
Indices: 51047255--51047312 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
51047245 TAGGCGCCAA
*
51047255 TGAATAAAATAATAATATATTTTTTT
1 TGAATAAAATAATAATATATATTTTT
*
51047281 TGAATAAAAT-ATAATTTTATATTTTT
1 TGAATAAAATAATAA-TATATATTTTT
*
51047307 TAAATA
1 TGAATA
51047313 TTTTTTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 4 0.14
26 24 0.86
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (26 bp):
TGAATAAAATAATAATATATATTTTT
Found at i:51047761 original size:21 final size:22
Alignment explanation
Indices: 51047737--51047792 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 22
51047727 TAGATTAGAA
* *
51047737 TTTTGTA-GATTATTTTAACTT
1 TTTTGTATGAATATTATAACTT
51047758 TTTTGTATGAATATTATAA-TT
1 TTTTGTATGAATATTATAACTT
51047779 TTTT-TATGAATATT
1 TTTTGTATGAATATT
51047793 GTAATGTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
20 10 0.31
21 13 0.41
22 9 0.28
ACGTcount: A:0.29, C:0.02, G:0.09, T:0.61
Consensus pattern (22 bp):
TTTTGTATGAATATTATAACTT
Found at i:51047804 original size:39 final size:39
Alignment explanation
Indices: 51047759--51048162 Score: 163
Period size: 49 Copynumber: 9.1 Consensus size: 39
51047749 TTTTAACTTT
*
51047759 TTTGTATGAATATTATAATTTTTT-TATGAATATTGTAA
1 TTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAA
* *
51047797 TGTTGTATGAATATTGTAATTATTT-TAT--A-ATT-AAA
1 T-TTGTATGAATATTGTAATTTTTTGTATGAATATTGTAA
** * *
51047832 TTTGTATTTATAGTTTTGGATTAGTAATTTGTATGAATATTGTAA
1 TTTGTATGAATA-TTGT-AATT--T--TTTGTATGAATATTGTAA
51047877 TTTTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAA
1 ---TTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAA
*
51047919 TTTTTTTGTATGAATATTGTAATATTATAGTTTTGTATGAATATTGCAA
1 ----TTTGTATGAATATTGT-A-A-T-T--TTTTGTATGAATATTGTAA
51047968 TTTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAATATTGTAA
1 ----TTTGTATGAATATTGT-A-A-T-T--TTTTGTATGAATATTGTAA
*
51048017 TTTTTTTGTATGAATATTGTAATATTATAATTTGTATGAATATTGCAA
1 ----TTTGTATGAATATTGT-A-ATT-T--TTTGTATGAATATTGTAA
51048065 TTTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTGTAA
1 ----TTTGTATGAATATTGTAA---T-T--TTTTGTATGAATATTGTAA
*
51048114 TGTCGGGATATATTGTAATATTGTAATTTTTTGTATGAATATTGTAA
1 T-T-----TGTA-TG-AATATTGTAATTTTTTGTATGAATATTGTAA
51048161 TT
1 TT
51048163 ATTTTATAAT
Statistics
Matches: 309, Mismatches: 20, Indels: 66
0.78 0.05 0.17
Matches are distributed among these distances:
34 9 0.03
35 6 0.02
36 6 0.02
37 1 0.00
38 1 0.00
39 24 0.08
40 3 0.01
41 3 0.01
42 18 0.06
43 20 0.06
44 5 0.02
45 4 0.01
46 9 0.03
47 26 0.08
48 48 0.16
49 107 0.35
50 2 0.01
51 5 0.02
52 2 0.01
53 10 0.03
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (39 bp):
TTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAA
Found at i:51047822 original size:82 final size:81
Alignment explanation
Indices: 51047736--51048088 Score: 198
Period size: 82 Copynumber: 4.0 Consensus size: 81
51047726 TTAGATTAGA
*
51047736 ATTTTGTAGATTATTTTAACTTTTTTGTATGAATATTATAATTTTTTTATGAATATTGTAA-TGT
1 ATTTTGTAGATTATTTTAA-TTTTTTGTATGAATATTATAA-TTTTGTATGAATATTGTAATTGT
51047800 TGTATGAATATTGTAATT
64 TGTATGAATATTGTAATT
* * * * *
51047818 ATTTTATA-ATTAAATTTGT-ATTTATAGTTTTG--GATTAGTAA-TTTGTATGAATATTGTAAT
1 ATTTTGTAGATT--ATTT-TAATTTTTTG-TATGAATATTA-TAATTTTGTATGAATATTGTAA-
*
51047878 TTTTTGTATGAATATTGTAATT
60 TTGTTGTATGAATATTGTAATT
* *
51047900 -TTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATAGTTTTGTATGAATATT
1 ATTTTGTA-GATTATTTTAA-TTTTTTGTATGAATA---T--TA-TA-A-TTTTGTATGAATATT
* *
51047964 GCAATTTTTTTGTATGAATATTGTAATATTGT
56 GTAA--TTGTTGTATGAATATTGT-A-A-T-T
* *
51047996 AATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATAATTTGTATGAATATT
1 -ATTTTGTA-GATTATTTTAA-TTTTTTGTATGAATA-T-T-ATA--AT--TTTGTATGAATATT
* *
51048061 GCAATTTTTTTGTATGAATATTGTAATT
56 GTAA--TTGTTGTATGAATATTGTAATT
51048089 TTGTAATTTT
Statistics
Matches: 221, Mismatches: 18, Indels: 53
0.76 0.06 0.18
Matches are distributed among these distances:
80 18 0.08
81 20 0.09
82 40 0.18
83 11 0.05
84 1 0.00
86 1 0.00
88 4 0.02
89 1 0.00
91 17 0.08
92 19 0.09
93 2 0.01
94 2 0.01
95 6 0.03
96 6 0.03
97 38 0.17
98 35 0.16
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (81 bp):
ATTTTGTAGATTATTTTAATTTTTTGTATGAATATTATAATTTTGTATGAATATTGTAATTGTTG
TATGAATATTGTAATT
Found at i:51047863 original size:121 final size:122
Alignment explanation
Indices: 51047718--51047941 Score: 330
Period size: 121 Copynumber: 1.8 Consensus size: 122
51047708 ATATTTAGTG
* *
51047718 TTTATAGTTTAGATTAGAATTTTGTA-GATTATTTTAACTTTTTTGTATGAATATTATAATTTTT
1 TTTATAGTTTAGATTAGAATTTTGTATGAATATTGTAA-TTTTTTGTATGAATATTATAATTTTT
51047782 T-TATGAATATTGTAA-TGTTGTATGAATATTGTAATTATTTTATAATTAAATTTGTA
65 TGTATGAATATTGTAATTGTTGTATGAATATTGTAATTATTTTATAATTAAATTTGTA
* *
51047838 TTTATAGTTTTGGATTAGTAA-TTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATTTT
1 TTTATAG-TTTAGATTAG-AATTTTGTATGAATATTGTAATTTTTTGTATGAATATTATAATTTT
*
51047902 TTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAAT
64 TTGTATGAATATTGTAA--TTGTTGTATGAATATTGTAAT
51047942 ATTATAGTTT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
120 7 0.08
121 41 0.45
122 25 0.27
125 19 0.21
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.55
Consensus pattern (122 bp):
TTTATAGTTTAGATTAGAATTTTGTATGAATATTGTAATTTTTTGTATGAATATTATAATTTTTT
GTATGAATATTGTAATTGTTGTATGAATATTGTAATTATTTTATAATTAAATTTGTA
Found at i:51047923 original size:22 final size:22
Alignment explanation
Indices: 51047859--51048114 Score: 309
Period size: 22 Copynumber: 10.9 Consensus size: 22
51047849 GGATTAGTAA
51047859 TTTGTATGAATATTGTAA-TTT
1 TTTGTATGAATATTGTAATTTT
51047880 TTTGTATGAATATTGTAA-TTT
1 TTTGTATGAATATTGTAATTTT
51047901 TTTGTATGAATATTGTAATTTT
1 TTTGTATGAATATTGTAATTTT
51047923 TTTGTATGAATATTGTAATATTATAGT
1 TTTGTATGAATATTGT-A-ATT-T--T
*
51047950 TTTGTATGAATATTGCAATTTT
1 TTTGTATGAATATTGTAATTTT
51047972 TTTGTATGAATATTGTAATATTGTAAT
1 TTTGTATGAATATTGT-A-ATT-T--T
51047999 TTTGTATGAATATTGTAATTTT
1 TTTGTATGAATATTGTAATTTT
51048021 TTTGTATGAATATTGTAATATTAT
1 TTTGTATGAATATTGTAAT-TT-T
*
51048045 AATTTGTATGAATATTGCAATTTT
1 --TTTGTATGAATATTGTAATTTT
51048069 TTTGTATGAATATTGTAATTTTGTAAT
1 TTTGTATGAATATTGTAA--TT-T--T
51048096 TTTGTATGAATATTGTAAT
1 TTTGTATGAATATTGTAAT
51048115 GTCGGGATAT
Statistics
Matches: 211, Mismatches: 4, Indels: 36
0.84 0.02 0.14
Matches are distributed among these distances:
21 39 0.18
22 72 0.34
23 4 0.02
24 12 0.06
25 12 0.06
26 20 0.09
27 52 0.25
ACGTcount: A:0.30, C:0.01, G:0.14, T:0.55
Consensus pattern (22 bp):
TTTGTATGAATATTGTAATTTT
Found at i:51047958 original size:49 final size:49
Alignment explanation
Indices: 51047900--51048167 Score: 375
Period size: 49 Copynumber: 5.5 Consensus size: 49
51047890 TATTGTAATT
*
51047900 TTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATAG
1 TTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATAA
* *
51047949 TTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATATTGTAA
1 TTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATAA
51047998 TTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATAA
1 TTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATAA
* * *
51048047 -TTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATTTTGTAA
1 TTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATAA
* ** * *
51048095 TTTTGTATGAATATTGTAA--TGTCGGGAT--ATATTGTAATATTGTAA
1 TTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATAA
*
51048140 TTTTTTGTATGAATATTGTAATTATTTT
1 --TTTTGTATGAATATTGTAATTTTTTT
51048168 ATAATTAATT
Statistics
Matches: 196, Mismatches: 18, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
45 16 0.08
47 24 0.12
48 45 0.23
49 111 0.57
ACGTcount: A:0.30, C:0.01, G:0.15, T:0.54
Consensus pattern (49 bp):
TTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATAA
Found at i:51048086 original size:97 final size:98
Alignment explanation
Indices: 51047888--51048114 Score: 411
Period size: 97 Copynumber: 2.3 Consensus size: 98
51047878 TTTTTGTATG
*
51047888 AATATTGTAATTTTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATAGTTTT
1 AATATTGTAA--TTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATAGATTT
51047953 GTATGAATATTGCAATTTTTTTGTATGAATATTGT
64 GTATGAATATTGCAATTTTTTTGTATGAATATTGT
51047988 AATATTGTAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA-ATTTGT
1 AATATTGTAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATAGATTTGT
51048052 ATGAATATTGCAATTTTTTTGTATGAATATTGT
66 ATGAATATTGCAATTTTTTTGTATGAATATTGT
*
51048085 AATTTTGTAATTTTGTATGAATATTGTAAT
1 AATATTGTAATTTTGTATGAATATTGTAAT
51048115 GTCGGGATAT
Statistics
Matches: 125, Mismatches: 2, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
97 67 0.54
98 48 0.38
100 10 0.08
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (98 bp):
AATATTGTAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATAGATTTGT
ATGAATATTGCAATTTTTTTGTATGAATATTGT
Found at i:51048236 original size:60 final size:60
Alignment explanation
Indices: 51048155--51048276 Score: 165
Period size: 60 Copynumber: 2.0 Consensus size: 60
51048145 TGTATGAATA
* * * * * *
51048155 TTGTAATTATTTTATAATTAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGT
1 TTGTAATTATTTTAAAATTAATTTATTAGTAATTCAGGATTAAGCTATAAATTGTTGTGT
*
51048215 TTGTAATTA-TTTAAAATTTAATTTATTAGTAATTCAGGATTAAGCTATAAGTTGTTGTGT
1 TTGTAATTATTTTAAAA-TTAATTTATTAGTAATTCAGGATTAAGCTATAAATTGTTGTGT
51048275 TT
1 TT
51048277 AGTTTAGTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
59 6 0.11
60 48 0.89
ACGTcount: A:0.31, C:0.02, G:0.14, T:0.53
Consensus pattern (60 bp):
TTGTAATTATTTTAAAATTAATTTATTAGTAATTCAGGATTAAGCTATAAATTGTTGTGT
Found at i:51048355 original size:38 final size:38
Alignment explanation
Indices: 51048310--51048429 Score: 213
Period size: 38 Copynumber: 3.2 Consensus size: 38
51048300 CATATAAAGT
*
51048310 TTATAAAAAAATTAAAAATTATTTCATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
*
51048348 TTATAAAAAAACTAAAAATCATTTCATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
*
51048386 TTATAAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
51048424 TTATAA
1 TTATAA
51048430 CTGACTTTTT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 78 1.00
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.38
Consensus pattern (38 bp):
TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
Found at i:51048507 original size:15 final size:15
Alignment explanation
Indices: 51048466--51048507 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
51048456 GTTAACTCAT
*
51048466 TTAATTTTTATATAA
1 TTAAATTTTATATAA
*
51048481 TGTAACTTTTATATAA
1 T-TAAATTTTATATAA
51048497 TTAAATTTTAT
1 TTAAATTTTAT
51048508 TTGATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTAAATTTTATATAA
Found at i:51051137 original size:22 final size:23
Alignment explanation
Indices: 51051112--51051165 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 23
51051102 AATACCTTAT
* *
51051112 TTTTTCTTCT-TTTCCTTCCGTC
1 TTTTTCTTCTGCTCCCTTCCGTC
*
51051134 -TTTTCTTCTGCTCCCTTCCTTC
1 TTTTTCTTCTGCTCCCTTCCGTC
51051156 TTATTTCTTC
1 TT-TTTCTTC
51051166 CGTTTCTCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 9 0.35
22 9 0.35
23 1 0.04
24 7 0.27
ACGTcount: A:0.02, C:0.33, G:0.04, T:0.61
Consensus pattern (23 bp):
TTTTTCTTCTGCTCCCTTCCGTC
Found at i:51055016 original size:15 final size:15
Alignment explanation
Indices: 51054997--51055037 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
51054987 TCATAAATAA
51054997 CTAAAATATAATAT-T
1 CTAAAATATAA-ATGT
*
51055012 -TTAAATATAAATGT
1 CTAAAATATAAATGT
51055026 CTAAAATATAAA
1 CTAAAATATAAA
51055038 CTAAACTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 2 0.09
14 10 0.45
15 10 0.45
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (15 bp):
CTAAAATATAAATGT
Found at i:51058469 original size:23 final size:22
Alignment explanation
Indices: 51058437--51058498 Score: 88
Period size: 22 Copynumber: 2.7 Consensus size: 22
51058427 CCCGGCCCGT
*
51058437 TTTTTAATTAAAATTAAAATTATA
1 TTTTT-ATTAAAATTAAAACTA-A
51058461 TTTTTATTAAAATTAAAACTAA
1 TTTTTATTAAAATTAAAACTAA
*
51058483 TTGTTATTAAAATTAA
1 TTTTTATTAAAATTAA
51058499 TTGTTATCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 16 0.44
23 15 0.42
24 5 0.14
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
TTTTTATTAAAATTAAAACTAA
Found at i:51058493 original size:16 final size:16
Alignment explanation
Indices: 51058472--51058528 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
51058462 TTTTATTAAA
*
51058472 ATTAAAACTAATTGTT
1 ATTAAAATTAATTGTT
51058488 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
* *
51058504 ATCAAAATTAATTATT
1 ATTAAAATTAATTGTT
51058520 ATTAAAATT
1 ATTAAAATT
51058529 GTATCAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (16 bp):
ATTAAAATTAATTGTT
Found at i:51058670 original size:86 final size:90
Alignment explanation
Indices: 51058574--51058750 Score: 263
Period size: 93 Copynumber: 2.0 Consensus size: 90
51058564 TTTGTAAAAT
* *
51058574 CTAACATTTTGTTAGT-AAA-ATT-A-TTAATTGTATTAATTGTTACTAAAATTATCAAATTATA
1 CTAACATTTTGTTAGTAAAATATTAATTTAATTGTATTAATTATTACTAAAATTATCAAATTACA
51058635 TCAAATTATTAATTATTAATTGTTA
66 TCAAATTATTAATTATTAATTGTTA
*
51058660 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTATTAGTAAAATTATCAAATT
1 CTAACATTTTGTTAGTAAAA-TATTAA-T-TTAATTGTATTAATTATTACTAAAATTATCAAATT
*
51058725 ACATCAAATTATTAATTGTTAATTGT
63 ACATCAAATTATTAATTATTAATTGT
51058751 ATTAATTGTT
Statistics
Matches: 80, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
86 16 0.20
87 3 0.04
89 3 0.04
90 1 0.01
93 57 0.71
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.47
Consensus pattern (90 bp):
CTAACATTTTGTTAGTAAAATATTAATTTAATTGTATTAATTATTACTAAAATTATCAAATTACA
TCAAATTATTAATTATTAATTGTTA
Found at i:51060687 original size:20 final size:20
Alignment explanation
Indices: 51060654--51060693 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
51060644 TCAACCTCCA
*
51060654 AAACTTTTTATTTTCCCCCT
1 AAACTTTTTATTTTCACCCT
51060674 AAAC-TTTTACTTTTCACCCT
1 AAACTTTTTA-TTTTCACCCT
51060694 TTACCCCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (20 bp):
AAACTTTTTATTTTCACCCT
Found at i:51064392 original size:38 final size:38
Alignment explanation
Indices: 51064341--51064417 Score: 102
Period size: 38 Copynumber: 2.0 Consensus size: 38
51064331 GCATGGTGGG
* * *
51064341 GGAGTGTTGGAGTGATTTTCA-GAGGAAAATATGGGATT
1 GGAGTGTAGGAGTGACTTT-AGGAGGAAAATATGAGATT
*
51064379 GGAGTGTAGGAGTGACTTTAGGAGGAGAATATGAGATT
1 GGAGTGTAGGAGTGACTTTAGGAGGAAAATATGAGATT
51064417 G
1 G
51064418 TGGAGTTATC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 1 0.03
38 33 0.97
ACGTcount: A:0.30, C:0.03, G:0.39, T:0.29
Consensus pattern (38 bp):
GGAGTGTAGGAGTGACTTTAGGAGGAAAATATGAGATT
Found at i:51070482 original size:37 final size:39
Alignment explanation
Indices: 51070396--51070490 Score: 106
Period size: 39 Copynumber: 2.5 Consensus size: 39
51070386 CACTCCAGTA
* *
51070396 TGGTACCCAGTGCCTCATCAGATAGTTCGAAGCAATAGT
1 TGGTACCCAGTGCCTCATCAGAAAGTCCGAAGCAATAGT
** *
51070435 TGACACCCAGTGTCTCATCAGCAAAG-CCGAAG-AA-AGT
1 TGGTACCCAGTGCCTCATCAG-AAAGTCCGAAGCAATAGT
*
51070472 TGGTACCCAGTACCTCATC
1 TGGTACCCAGTGCCTCATC
51070491 GAATCTATCC
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
37 18 0.39
38 2 0.04
39 23 0.50
40 3 0.07
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (39 bp):
TGGTACCCAGTGCCTCATCAGAAAGTCCGAAGCAATAGT
Found at i:51074198 original size:38 final size:38
Alignment explanation
Indices: 51074156--51074230 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
51074146 ATGGTGGGGG
* * *
51074156 AGTGTTGGAGTGATTTTAGGAGGAAAATATGAGATTGA
1 AGTGTTAGAGTGACTTGAGGAGGAAAATATGAGATTGA
*
51074194 AGTGTTAGAGTGACTTGAGGAGGAAAATATGGGATTG
1 AGTGTTAGAGTGACTTGAGGAGGAAAATATGAGATTG
51074231 TGGAGTCATC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.33, C:0.01, G:0.36, T:0.29
Consensus pattern (38 bp):
AGTGTTAGAGTGACTTGAGGAGGAAAATATGAGATTGA
Found at i:51075232 original size:9 final size:9
Alignment explanation
Indices: 51075200--51075265 Score: 71
Period size: 9 Copynumber: 7.2 Consensus size: 9
51075190 TTGGGTAATT
*
51075200 TTCGGGAAA
1 TTCGGGTAA
*
51075209 TTCAGGTAA
1 TTCGGGTAA
51075218 TTTTCGGGTAA
1 --TTCGGGTAA
*
51075229 TTCGGTTAA
1 TTCGGGTAA
*
51075238 TTCGGTTAA
1 TTCGGGTAA
51075247 -TCGGGTAA
1 TTCGGGTAA
51075255 TTCGGGTAA
1 TTCGGGTAA
51075264 TT
1 TT
51075266 TTTAACCAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
8 7 0.14
9 34 0.69
11 8 0.16
ACGTcount: A:0.24, C:0.11, G:0.27, T:0.38
Consensus pattern (9 bp):
TTCGGGTAA
Found at i:51075239 original size:20 final size:20
Alignment explanation
Indices: 51075193--51075231 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
51075183 GAACTTTTTG
51075193 GGTAATTTTCGGGAAATTCA
1 GGTAATTTTCGGGAAATTCA
*
51075213 GGTAATTTTCGGGTAATTC
1 GGTAATTTTCGGGAAATTC
51075232 GGTTAATTCG
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:0.10, G:0.26, T:0.38
Consensus pattern (20 bp):
GGTAATTTTCGGGAAATTCA
Found at i:51075255 original size:17 final size:17
Alignment explanation
Indices: 51075220--51075264 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
51075210 TCAGGTAATT
*
51075220 TTCGGGTAATTCGGTTAA
1 TTCGGGTAA-TCGGGTAA
*
51075238 TTCGGTTAATCGGGTAA
1 TTCGGGTAATCGGGTAA
51075255 TTCGGGTAAT
1 TTCGGGTAAT
51075265 TTTTAACCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.22, C:0.11, G:0.29, T:0.38
Consensus pattern (17 bp):
TTCGGGTAATCGGGTAA
Found at i:51088877 original size:19 final size:19
Alignment explanation
Indices: 51088814--51088877 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
51088804 GCATATATTC
* *
51088814 AAAATATAAATGTATGTTTA
1 AAAAT-TAAATATATGATTA
*
51088834 AAAA-T-AATATAT-AATA
1 AAAATTAAATATATGATTA
*
51088850 AATAATTAAATCTATGATTA
1 AA-AATTAAATATATGATTA
51088870 AAAATTAA
1 AAAATTAA
51088878 TTAATTATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
16 4 0.11
17 8 0.23
18 2 0.06
19 12 0.34
20 9 0.26
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.36
Consensus pattern (19 bp):
AAAATTAAATATATGATTA
Found at i:51088914 original size:52 final size:52
Alignment explanation
Indices: 51088852--51088957 Score: 203
Period size: 52 Copynumber: 2.0 Consensus size: 52
51088842 ATATAATAAA
*
51088852 TAATTAAATCTATGATTAAAAATTAATTAATTATAACAATATATGAAATATG
1 TAATTAAATCTAAGATTAAAAATTAATTAATTATAACAATATATGAAATATG
51088904 TAATTAAATCTAAGATTAAAAATTAATTAATTATAACAATATATGAAATATG
1 TAATTAAATCTAAGATTAAAAATTAATTAATTATAACAATATATGAAATATG
51088956 TA
1 TA
51088958 TGATATTAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.38
Consensus pattern (52 bp):
TAATTAAATCTAAGATTAAAAATTAATTAATTATAACAATATATGAAATATG
Found at i:51088932 original size:23 final size:23
Alignment explanation
Indices: 51088852--51088933 Score: 74
Period size: 23 Copynumber: 3.3 Consensus size: 23
51088842 ATATAATAAA
*
51088852 TAATTAAATCTATGATTAAAAAT
1 TAATTAAATCTAAGATTAAAAAT
* * *
51088875 TAATTAATTATAACAATATATGAAATAT
1 TAATTAAATCTAA-GAT-TA--AAA-AT
51088903 GTAATTAAATCTAAGATTAAAAAT
1 -TAATTAAATCTAAGATTAAAAAT
51088927 TAATTAA
1 TAATTAA
51088934 TTATAACAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
23 17 0.37
24 4 0.09
25 5 0.11
27 5 0.11
28 4 0.09
29 11 0.24
ACGTcount: A:0.54, C:0.04, G:0.05, T:0.38
Consensus pattern (23 bp):
TAATTAAATCTAAGATTAAAAAT
Found at i:51098135 original size:22 final size:24
Alignment explanation
Indices: 51098101--51098154 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
51098091 TGGTCTTCAT
51098101 ATTTTTTCGTTTTAAGCT-ATTTA
1 ATTTTTTCGTTTTAAGCTCATTTA
* *
51098124 ATTTTTTC-TTTTATGTTCATTTA
1 ATTTTTTCGTTTTAAGCTCATTTA
51098147 ACTTTTTT
1 A-TTTTTT
51098155 TTCATTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 7 0.26
23 14 0.52
24 6 0.22
ACGTcount: A:0.19, C:0.09, G:0.06, T:0.67
Consensus pattern (24 bp):
ATTTTTTCGTTTTAAGCTCATTTA
Found at i:51102779 original size:18 final size:18
Alignment explanation
Indices: 51102746--51102788 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
51102736 GGAAAAGGAG
*
51102746 AAGAAAAAGAGAGAAAGA
1 AAGAGAAAGAGAGAAAGA
51102764 ATAGAGAAAG-GAGAAAGA
1 A-AGAGAAAGAGAGAAAGA
51102782 AAGAGAA
1 AAGAGAA
51102789 GAAAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 6 0.26
18 10 0.43
19 7 0.30
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.02
Consensus pattern (18 bp):
AAGAGAAAGAGAGAAAGA
Found at i:51103165 original size:40 final size:37
Alignment explanation
Indices: 51103086--51103179 Score: 109
Period size: 40 Copynumber: 2.5 Consensus size: 37
51103076 TTTTACATTA
**
51103086 TATTATTGTTAGTTATTATTTTTAGTAAAACCCTAAT
1 TATTATTGTTAGTTATTATTTTTAGTAAAAAACTAAT
51103123 TATTATTGTTAGTTAGTATTATTTTTAGTGAAAAAACT-AT
1 TATTATTGTTAG-T--TATTATTTTTAGT-AAAAAACTAAT
* *
51103163 TATTATTATTAATTATT
1 TATTATTGTTAGTTATT
51103180 GTGTTAGTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
37 16 0.33
38 1 0.02
39 1 0.02
40 25 0.51
41 6 0.12
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.53
Consensus pattern (37 bp):
TATTATTGTTAGTTATTATTTTTAGTAAAAAACTAAT
Found at i:51106751 original size:18 final size:18
Alignment explanation
Indices: 51106728--51106776 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
51106718 TAATGTGATT
51106728 GCTCGGGATCTAGCTCGG
1 GCTCGGGATCTAGCTCGG
*
51106746 GCTCGGAATCTAGCTCGG
1 GCTCGGGATCTAGCTCGG
*
51106764 GCTCGGGCTCTAG
1 GCTCGGGATCTAG
51106777 TTCAGGATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.12, C:0.29, G:0.37, T:0.22
Consensus pattern (18 bp):
GCTCGGGATCTAGCTCGG
Found at i:51107465 original size:13 final size:13
Alignment explanation
Indices: 51107447--51107471 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51107437 TAATTTATAT
51107447 GTGTGAAAATTTC
1 GTGTGAAAATTTC
51107460 GTGTGAAAATTT
1 GTGTGAAAATTT
51107472 TATTGTTGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:51108922 original size:41 final size:41
Alignment explanation
Indices: 51108796--51108906 Score: 195
Period size: 41 Copynumber: 2.7 Consensus size: 41
51108786 GACTATATGT
*
51108796 CTAGCAGGCTAAGTGCCGGTGAATTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
* *
51108837 CTAGCAAGCTAAGTGTCGGTGAACTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
51108878 CTAGCAGGCTAAGTGCCGGTGAACTGAAT
1 CTAGCAGGCTAAGTGCCGGTGAACTGAAT
51108907 TAGACTTTAA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.22
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
Found at i:51112772 original size:10 final size:10
Alignment explanation
Indices: 51112759--51112783 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
51112749 TGGCAGCTAT
51112759 TGTTTCAATG
1 TGTTTCAATG
51112769 TGTTTCAATG
1 TGTTTCAATG
51112779 TGTTT
1 TGTTT
51112784 GATGAGTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.08, G:0.20, T:0.56
Consensus pattern (10 bp):
TGTTTCAATG
Found at i:51115326 original size:159 final size:158
Alignment explanation
Indices: 51114578--51115312 Score: 1075
Period size: 162 Copynumber: 4.6 Consensus size: 158
51114568 TCAAAACAAT
*
51114578 TTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCTAGATTTTATTACT
1 TTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTCTTTTTTCC-AGATTTTATTACT
51114643 TTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAAT
65 TTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAAT
51114708 GTATTAATTTAGTGTGGTTTTTTTTATATAAA
130 GTATTAATTTAGTGTGG---TTTTTATATAAA
* * * *
51114740 TTTAGTAAAAAACCTTTATTTTGGCCCTTTGTTCATATTTTTCTTTTTGCTC-GAATTTTATTAC
1 TTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTCTTTTTTC-CAG-ATTTTATTAC
* ** * *
51114804 TTTCAAACAATATGTTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAACGCTTGAAA
64 TTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAA
*
51114869 TGTATTAATTTAGTGTGTTTTTTATATAAA
129 TGTATTAATTTAGTGTGGTTTTTATATAAA
* *
51114899 TTTAGTAAAAAAACCCTTA-TTTGG-CACTTTGTTCGTATTTTTCTTTTTTCCCGGATTTTATGA
1 TTTAGT-AAAAAACCCTTATTTTGGCCA-TTTGTTCGTATTTTTCTTTTTT-CCAGATTTTATTA
51114962 CTTTCAAAAAATATACTATTTT-GTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAA
63 CTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAA
*
51115026 ATGTATTAATTTAGTGTGTTTTTTATATAAA
128 ATGTATTAATTTAGTGTGGTTTTTATATAAA
* *
51115057 TTTAGTAAAAAACCCTTATTTTGGTCATTTGTTCGTATTTTTCTTTTTTCCTGAATTTTATTACT
1 TTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTCTTTTTTCCAG-ATTTTATTACT
* * * * *
51115122 ATAAAAAAATATTCTATTTTCGTATTTTATTATTTTGTATTATTTTAATACATAATGTTTGAAAT
65 TTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAAT
*
51115187 GTATTATTTTAGTGTGAGTTTTTATATAAA
130 GTATTAATTTAGTGTG-GTTTTTATATAAA
*
51115217 TTTAGTAAAAAAACCCTTATTTTGGCCATTTGTTCGTAATTTTCTTATTTT-CAGATTTTATTAC
1 TTTAGT-AAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTCTT-TTTTCCAGATTTTATTAC
** * *
51115281 TTTCAGTAAATATACTATTTTTGTTTTTTATT
64 TTTCAAAAAATATACTATTTTCGTATTTTATT
51115313 TCTTTTCGTA
Statistics
Matches: 522, Mismatches: 38, Indels: 28
0.89 0.06 0.05
Matches are distributed among these distances:
157 15 0.03
158 132 0.25
159 130 0.25
160 66 0.13
161 40 0.08
162 138 0.26
163 1 0.00
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.53
Consensus pattern (158 bp):
TTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTCTTTTTTCCAGATTTTATTACTT
TCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATG
TATTAATTTAGTGTGGTTTTTATATAAA
Found at i:51115386 original size:317 final size:311
Alignment explanation
Indices: 51114578--51115312 Score: 940
Period size: 317 Copynumber: 2.3 Consensus size: 311
51114568 TCAAAACAAT
* * *
51114578 TTTAGT-AAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCTAGATTTTATTAC
1 TTTAGTAAAAAAACCCTTA-TTTGGCACTTTGTTCGTAATTTTCTTTTTTCC-AGATTTTATGAC
**
51114642 TTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAA
64 TTTCAAAAAATATACTATTTT-GTATTTTATTATTTTATATTATTTTA-TACATAA---TACAAA
* * * *
51114707 TGTATTAATTTAGTGTGGTTTTTTTTATATAAATTTAGTAAAAAACCTTTATTTTGGCCCTTTGT
124 TGTATTAATTTA---T-GTATTTTTAATATAAATTTAGTAAAAAACCCTTATTTTGGCCATTTGT
* * * *
51114772 TCATATTTTTCTTTTTGCTCGAATTTTATTACTTTCAAACAATATGTTATTTTCGTATTTTATTA
185 TCATATTTTTCTTTTTCCTCGAATTTTATTACTATAAAAAAATATGTTATTTTCGTATTTTATTA
* *
51114837 TTTTATATTATTTTAGTACATAACGCTTGAAATGTATTAATTTAGTGTGTTTTTTATATAAA
250 TTTTATATTATTTTAATACATAACGCTTGAAATGTATTAATTTAGTGTGGTTTTTATATAAA
* *
51114899 TTTAGTAAAAAAACCCTTATTTGGCACTTTGTTCGTATTTTTCTTTTTTCCCGGATTTTATGACT
1 TTTAGTAAAAAAACCCTTATTTGGCACTTTGTTCGTAATTTTCTTTTTT-CCAGATTTTATGACT
**
51114964 TTCAAAAAATATACTATTTTGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATG
65 TTCAAAAAATATACTATTTTGTATTTTATTATTTTATATTATTTTA-TACATAA---TACAAATG
* * * *
51115029 TATTAATTTAGTGTGTTTTTTATATAAATTTAGTAAAAAACCCTTATTTTGGTCATTTGTTCGTA
126 TATTAATTTA-TGTATTTTTAATATAAATTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCATA
51115094 TTTTTCTTTTTTCCT-GAATTTTATTACTATAAAAAAATAT-TCTATTTTCGTATTTTATTATTT
190 TTTTTC-TTTTTCCTCGAATTTTATTACTATAAAAAAATATGT-TATTTTCGTATTTTATTATTT
* * * *
51115157 TGTATTATTTTAATACATAATGTTTGAAATGTATTATTTTAGTGTGAGTTTTTATATAAA
253 TATATTATTTTAATACATAACGCTTGAAATGTATTAATTTAGTGTG-GTTTTTATATAAA
*
51115217 TTTAGTAAAAAAACCCTTATTTTGGC-CATTTGTTCGTAATTTTCTTATTTT-CAGATTTTATTA
1 TTTAGTAAAAAAACCCTTA-TTTGGCAC-TTTGTTCGTAATTTTCTT-TTTTCCAGATTTTATGA
** *
51115280 CTTTCAGTAAATATACTATTTTTGTTTTTTATT
63 CTTTCAAAAAATATACTA-TTTTGTATTTTATT
51115313 TCTTTTCGTA
Statistics
Matches: 381, Mismatches: 24, Indels: 20
0.90 0.06 0.05
Matches are distributed among these distances:
316 1 0.00
317 138 0.36
318 67 0.18
319 36 0.09
320 59 0.15
321 66 0.17
322 14 0.04
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.53
Consensus pattern (311 bp):
TTTAGTAAAAAAACCCTTATTTGGCACTTTGTTCGTAATTTTCTTTTTTCCAGATTTTATGACTT
TCAAAAAATATACTATTTTGTATTTTATTATTTTATATTATTTTATACATAATACAAATGTATTA
ATTTATGTATTTTTAATATAAATTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCATATTTTTC
TTTTTCCTCGAATTTTATTACTATAAAAAAATATGTTATTTTCGTATTTTATTATTTTATATTAT
TTTAATACATAACGCTTGAAATGTATTAATTTAGTGTGGTTTTTATATAAA
Found at i:51115994 original size:18 final size:18
Alignment explanation
Indices: 51115958--51115999 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
51115948 AAATAATGTT
51115958 AATTTTGAGTAGAATTTAA
1 AATTTTGAGTAGAATTT-A
51115977 AATTTTGATGT-G-ATTTA
1 AATTTTGA-GTAGAATTTA
51115994 AATTTT
1 AATTTT
51116000 AATTTACTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 7 0.32
18 4 0.18
19 9 0.41
20 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (18 bp):
AATTTTGAGTAGAATTTA
Found at i:51120572 original size:31 final size:31
Alignment explanation
Indices: 51120534--51120602 Score: 120
Period size: 31 Copynumber: 2.2 Consensus size: 31
51120524 TATAAAATGA
*
51120534 TCACTAAACTATTTGAAAGTTTTTATTCAAG
1 TCACTAAACTATTCGAAAGTTTTTATTCAAG
*
51120565 TCACTAAACTATTCGAAAGTTTTTATTTAAG
1 TCACTAAACTATTCGAAAGTTTTTATTCAAG
51120596 TCACTAA
1 TCACTAA
51120603 GTTGTTAAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (31 bp):
TCACTAAACTATTCGAAAGTTTTTATTCAAG
Found at i:51122433 original size:2 final size:2
Alignment explanation
Indices: 51122426--51122450 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
51122416 TAAACTATGA
51122426 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 A
51122451 CACATAAATG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:51124200 original size:31 final size:31
Alignment explanation
Indices: 51124159--51124217 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
51124149 ATATGTAGAA
*
51124159 TTGAATTAAAATCAATATTTT-ATGTATACAT
1 TTGAACTAAAATCAA-ATTTTAATGTATACAT
51124190 TTGAACTAAAATCAAATTTTAATGTATA
1 TTGAACTAAAATCAAATTTTAATGTATA
51124218 TAACTACTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 5 0.19
31 21 0.81
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (31 bp):
TTGAACTAAAATCAAATTTTAATGTATACAT
Found at i:51126261 original size:5 final size:5
Alignment explanation
Indices: 51126251--51126277 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
51126241 AAAATATTTT
51126251 TAAAA TAAAA TAAAA TAAAA TAAAA TA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TA
51126278 TATTATTTGA
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:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:51143669 original size:15 final size:16
Alignment explanation
Indices: 51143644--51143673 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
51143634 TATATTAACC
51143644 CAAATTAAAAATAATA
1 CAAATTAAAAATAATA
51143660 CAAA-TAAAAATAAT
1 CAAATTAAAAATAAT
51143674 GTCATATCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (16 bp):
CAAATTAAAAATAATA
Found at i:51144613 original size:12 final size:12
Alignment explanation
Indices: 51144598--51144648 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
51144588 AACAGATGGA
*
51144598 AAACCAGAAACT
1 AAACAAGAAACT
*
51144610 AAACAAGAATCT
1 AAACAAGAAACT
* *
51144622 AAACCAGAAACC
1 AAACAAGAAACT
*
51144634 AAACAAGAATCT
1 AAACAAGAAACT
51144646 AAA
1 AAA
51144649 GAAGTTGAGG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.61, C:0.22, G:0.08, T:0.10
Consensus pattern (12 bp):
AAACAAGAAACT
Found at i:51144625 original size:24 final size:24
Alignment explanation
Indices: 51144598--51144648 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
51144588 AACAGATGGA
*
51144598 AAACCAGAAACTAAACAAGAATCT
1 AAACCAGAAACCAAACAAGAATCT
51144622 AAACCAGAAACCAAACAAGAATCT
1 AAACCAGAAACCAAACAAGAATCT
51144646 AAA
1 AAA
51144649 GAAGTTGAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.61, C:0.22, G:0.08, T:0.10
Consensus pattern (24 bp):
AAACCAGAAACCAAACAAGAATCT
Found at i:51150604 original size:31 final size:30
Alignment explanation
Indices: 51150569--51150674 Score: 87
Period size: 31 Copynumber: 3.5 Consensus size: 30
51150559 TTTTGGGCCC
51150569 AATTTAGTACCTAAACTTGACACTTTTTCCT
1 AATTTAGTACCTAAACTTGACA-TTTTTCCT
* * *
51150600 AATTTAATACCTAAACTT----TTTTGAGCCC
1 AATTTAGTACCTAAACTTGACATTTT--TCCT
*
51150628 AATTT-GATACCTGAACTTGACATTTTTTCCT
1 AATTTAG-TACCTAAACTTGACA-TTTTTCCT
*
51150659 AATTTGGTACCTAAAC
1 AATTTAGTACCTAAAC
51150675 CTTTTTTTGG
Statistics
Matches: 58, Mismatches: 8, Indels: 18
0.69 0.10 0.21
Matches are distributed among these distances:
26 4 0.07
28 17 0.29
31 32 0.55
32 1 0.02
33 4 0.07
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (30 bp):
AATTTAGTACCTAAACTTGACATTTTTCCT
Found at i:51150618 original size:60 final size:59
Alignment explanation
Indices: 51150510--51150742 Score: 245
Period size: 59 Copynumber: 3.9 Consensus size: 59
51150500 TTAATATAAT
* * * *
51150510 ATTTGATACCTGAGCTTGACACTTTTTCCTAATTTGATATCTATACTTTTTTTGGGCCCA
1 ATTTG-TACCTAAACTTGACACTTTTTCCTAATTTGATACCTAAACTTTTTTTGGGCCCA
* *
51150570 ATTTAGTACCTAAACTTGACACTTTTTCCTAATTTAATACCTAAAC-TTTTTTGAGCCCA
1 ATTT-GTACCTAAACTTGACACTTTTTCCTAATTTGATACCTAAACTTTTTTTGGGCCCA
* * * * *
51150629 ATTTGATACCTGAACTTGACATTTTTTCCTAATTTGGTACCTAAACCTTTTTTTGGACCTA
1 ATTTG-TACCTAAACTTGACACTTTTTCCTAATTTGATACCTAAA-CTTTTTTTGGGCCCA
* * * * * *
51150690 GTTTGGTACCTAAACTTGGCATTTTTTTTCTAATTTGGTACC-AAAGTTTTTTT
1 ATTT-GTACCTAAACTTGACA-CTTTTTCCTAATTTGATACCTAAACTTTTTTT
51150743 TTTTTAGGTT
Statistics
Matches: 149, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
58 1 0.01
59 51 0.34
60 47 0.32
61 30 0.20
62 20 0.13
ACGTcount: A:0.24, C:0.19, G:0.12, T:0.45
Consensus pattern (59 bp):
ATTTGTACCTAAACTTGACACTTTTTCCTAATTTGATACCTAAACTTTTTTTGGGCCCA
Found at i:51151171 original size:31 final size:30
Alignment explanation
Indices: 51151122--51151192 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
51151112 AAAAGATTAG
* * *
51151122 GTACCAAAATTAGGAAAAAGAGTCAAGTTTAA
1 GTACC-AAATTA-AAAAAAAAGTCAAATTTAA
* *
51151154 GTACCAAATTAAAAAAAATGTCAAATTTAG
1 GTACCAAATTAAAAAAAAAGTCAAATTTAA
51151184 GTACCAAAT
1 GTACCAAAT
51151193 GTGGTATTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 23 0.68
31 6 0.18
32 5 0.15
ACGTcount: A:0.51, C:0.11, G:0.14, T:0.24
Consensus pattern (30 bp):
GTACCAAATTAAAAAAAAAGTCAAATTTAA
Found at i:51152608 original size:21 final size:21
Alignment explanation
Indices: 51152582--51152621 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
51152572 TTCTTCTGTT
*
51152582 TTGCTATTATTTATTATTATA
1 TTGCTACTATTTATTATTATA
*
51152603 TTGCTACTATTTTTTATTA
1 TTGCTACTATTTATTATTA
51152622 ATGTTTGCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.07, G:0.05, T:0.62
Consensus pattern (21 bp):
TTGCTACTATTTATTATTATA
Found at i:51155229 original size:28 final size:27
Alignment explanation
Indices: 51155175--51155232 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
51155165 AAAAGATATT
51155175 AAAAAATTATAATTTTATACCTTTTTTA
1 AAAAAATTATAATTTTATA-CTTTTTTA
*
51155203 AAAAAATTGATAATTTTTTA-TTCTTTTA
1 AAAAAATT-ATAATTTTATACTT-TTTTA
51155231 AA
1 AA
51155233 TTTTAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 2 0.07
28 15 0.56
29 10 0.37
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (27 bp):
AAAAAATTATAATTTTATACTTTTTTA
Found at i:51157455 original size:25 final size:25
Alignment explanation
Indices: 51157427--51157559 Score: 94
Period size: 25 Copynumber: 5.3 Consensus size: 25
51157417 CTGCGAAAAT
*
51157427 CCATTAATCGAGAAGCTCCGGATAG
1 CCATTAATCGAGAAGCTCCGGAGAG
* * ** *
51157452 CCATGT-ATCGGGAAGTTCAAGCGAG
1 CCAT-TAATCGAGAAGCTCCGGAGAG
51157477 CCA-T-ATCGAGAAGCTCCGGAGAG
1 CCATTAATCGAGAAGCTCCGGAGAG
** *
51157500 CCATTAATC-AGAAAGCTCACAAAAAG
1 CCATTAATCGAG-AAGCTC-CGGAGAG
* * *
51157526 CCTTTAATCGGGAAGCTCCGAAGAG
1 CCATTAATCGAGAAGCTCCGGAGAG
51157551 CCATATAAT
1 CCAT-TAAT
51157560 GGGACACTCA
Statistics
Matches: 82, Mismatches: 19, Indels: 13
0.72 0.17 0.11
Matches are distributed among these distances:
23 18 0.22
24 3 0.04
25 37 0.45
26 23 0.28
27 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (25 bp):
CCATTAATCGAGAAGCTCCGGAGAG
Found at i:51157500 original size:23 final size:23
Alignment explanation
Indices: 51157433--51157503 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
51157423 AAATCCATTA
*
51157433 ATCGAGAAGCTCCGGATAGCCATGT
1 ATCGAGAAGCTCCGGAGAGCCA--T
* * ** *
51157458 ATCGGGAAGTTCAAGCGAGCCAT
1 ATCGAGAAGCTCCGGAGAGCCAT
51157481 ATCGAGAAGCTCCGGAGAGCCAT
1 ATCGAGAAGCTCCGGAGAGCCAT
51157504 TAATCAGAAA
Statistics
Matches: 35, Mismatches: 11, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
23 19 0.54
25 16 0.46
ACGTcount: A:0.30, C:0.24, G:0.30, T:0.17
Consensus pattern (23 bp):
ATCGAGAAGCTCCGGAGAGCCAT
Found at i:51166006 original size:25 final size:25
Alignment explanation
Indices: 51165978--51166025 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
51165968 AAGCTTTTTT
51165978 GAGCTGAATAAC-GAGAAGCTCATGC
1 GAGCTGAATAACAG-GAAGCTCATGC
51166003 GAGCTGAATAACAGGAAGCTCAT
1 GAGCTGAATAACAGGAAGCTCAT
51166026 AAGAGCTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.38, C:0.19, G:0.27, T:0.17
Consensus pattern (25 bp):
GAGCTGAATAACAGGAAGCTCATGC
Found at i:51166031 original size:25 final size:25
Alignment explanation
Indices: 51165978--51166032 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
51165968 AAGCTTTTTT
**
51165978 GAGCTGAATAACGAGAAGCTCATGC
1 GAGCTGAATAACGAGAAGCTCATAA
51166003 GAGCTGAATAAC-AGGAAGCTCATAA
1 GAGCTGAATAACGA-GAAGCTCATAA
51166028 GAGCT
1 GAGCT
51166033 ATGGTATGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 1 0.04
25 26 0.96
ACGTcount: A:0.38, C:0.18, G:0.27, T:0.16
Consensus pattern (25 bp):
GAGCTGAATAACGAGAAGCTCATAA
Done.