Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 120 of 427
Found at i:31608050 original size:23 final size:23
Alignment explanation
Indices: 31608019--31608143 Score: 105
Period size: 24 Copynumber: 5.3 Consensus size: 23
31608009 ATAGCCCGTA
*
31608019 AGAGCTTACTATTTCAGCTCATT
1 AGAGCTTACTATTTCAGCTCAAT
* *
31608042 GGAGCTTACCGA-TTCAGCTCGAA-
1 AGAGCTTA-CTATTTCAGCTC-AAT
*
31608065 AGAGCTTACT-GTT-AGCTCAAT
1 AGAGCTTACTATTTCAGCTCAAT
*
31608086 AGAGCTTACTGTTTTCAGCTCAAT
1 AGAGCTTACT-ATTTCAGCTCAAT
* *
31608110 AGAGCTTACTGTTTATCAGCTCAGT
1 AGAGCTTACT-ATT-TCAGCTCAAT
31608135 AAGAGCTTA
1 -AGAGCTTA
31608144 TCGACCATGA
Statistics
Matches: 86, Mismatches: 7, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
20 2 0.02
21 15 0.17
22 3 0.03
23 24 0.28
24 25 0.29
25 9 0.10
26 8 0.09
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (23 bp):
AGAGCTTACTATTTCAGCTCAAT
Found at i:31608110 original size:24 final size:23
Alignment explanation
Indices: 31608019--31608143 Score: 130
Period size: 23 Copynumber: 5.3 Consensus size: 23
31608009 ATAGCCCGTA
* *
31608019 AGAGCTTACTATTTCAGCTCATT
1 AGAGCTTACTGTTTCAGCTCAAT
* * *
31608042 GGAGCTTACCGATTCAGCTCGAA-
1 AGAGCTTACTGTTTCAGCTC-AAT
31608065 AGAGCTTACTG-TT-AGCTCAAT
1 AGAGCTTACTGTTTCAGCTCAAT
31608086 AGAGCTTACTGTTTTCAGCTCAAT
1 AGAGCTTACTG-TTTCAGCTCAAT
*
31608110 AGAGCTTACTGTTTATCAGCTCAGT
1 AGAGCTTACTG-TT-TCAGCTCAAT
31608135 AAGAGCTTA
1 -AGAGCTTA
31608144 TCGACCATGA
Statistics
Matches: 87, Mismatches: 8, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
20 2 0.02
21 16 0.18
22 2 0.02
23 27 0.31
24 23 0.26
25 9 0.10
26 8 0.09
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTCAAT
Found at i:31608115 original size:45 final size:45
Alignment explanation
Indices: 31608018--31608122 Score: 124
Period size: 45 Copynumber: 2.3 Consensus size: 45
31608008 CATAGCCCGT
* * *
31608018 AAGAGCTTACTATTTCAGCTCATTGGAGCTTACCGATTCAGCTCGA
1 AAGAGCTTACT-GTTCAGCTCAATAGAGCTTACCGATTCAGCTCGA
* *
31608064 AAGAGCTTACTGTT-AGCTCAATAGAGCTTACTGTTTTCAGCTC-A
1 AAGAGCTTACTGTTCAGCTCAATAGAGCTTACCG-ATTCAGCTCGA
31608108 ATAGAGCTTACTGTT
1 A-AGAGCTTACTGTT
31608123 TATCAGCTCA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
44 18 0.35
45 23 0.44
46 11 0.21
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (45 bp):
AAGAGCTTACTGTTCAGCTCAATAGAGCTTACCGATTCAGCTCGA
Found at i:31613323 original size:753 final size:752
Alignment explanation
Indices: 31611875--31613362 Score: 2433
Period size: 753 Copynumber: 2.0 Consensus size: 752
31611865 ATCTAGATAT
* *
31611875 ATAAGATAACTATATTACATGTCCTTGGAATAATATTTGGTCCCTCTATTTAGACAACATCTGAA
1 ATAAGATAACTATATTACATGTCCTTGGAATAATATTAGGTCCCTCTATTTAGACAACATCTAAA
* * * *
31611940 ATTTAGTCATTATATTTAAATAGTTGAAAATTATATTCTTTTAATTTTTTATTTAAAAATTTTAA
66 ATTTAGTCATTATATTTAAATAGTTGAAAATGAAATTCTTTTAATTTTTTATGTAAAAATTTCAA
** * * *
31612005 TCCAATCATTAATATTATTATTATTTTCTATCAAAATTTGCAAACTCAGCATGCTAATTAGATTG
131 TCCAATCATTAATATTATTAGCATTTTCTATCAAAACTTGCAAACACAGCATGCTAATTAAATTG
* * * *
31612070 CCCTCTTATGACATTGCACATGATGAAAAAAAAAATAAACATGTTAAGTTAACAAGTTTTTACAG
196 CCCTCTTATAACATTGCACATGATGAAAAAAAAAATAAAAATGTTAAGTTAACAAGTCTTGACAG
* *
31612135 AAATTACAAAAAATATAATGGTTAGACTAAAATTTTTAAATTAAAAAAGCAAGAGGCTTAAAATT
261 AAATTACAAAAAATATAATGATTAGACTAAAATCTTTAAATTAAAAAAGCAAGAGGCTTAAAATT
* *
31612200 TTAACTTTTAAAATACAGTAACTAAATCTCAAATTCTAGATAAATATAGGGACTACAAGCATATT
326 TTAACTTTTAAAATACAGTAACTAAATCTCAAATTCTAGATAAATATAGGGAATACAAGCATATC
*
31612265 TTAACAACAATATTATTATATAACCTTATTTTGCGAGGGAAAGACTCTCTACATGCAACTATGGA
391 TTAACAACAATATTATTATATAACCTTATTTTGCGAGGGAAAGACTCTCTACATGCAAATATGGA
*
31612330 ATTTATTCTTCATAAATTAAAGCCAAAAGACATACATCCCTCATTATGTAGAAGTAATATCTTTT
456 ATTTATTCTTCATAAATTAAAGCCAAAAGACATACATCCCTCATCATGTAGAAGTAATATCTTTT
*
31612395 GAAGTTTTGGAGAACAATTTAAATGTTAAACCTGAGTTATCCAATTTCTCTTGAATAAGTTTCTC
521 GAAGTTTTAGAGAACAATTTAAATGTTAAACCTGAGTTATCCAATTTCTCTTGAATAAGTTTCTC
31612460 TAGACGTACAACCATGGAGGGTGTGAGATAATTGCTCCAATCTCCCATTTTTGCTTTTCTAAAGA
586 TAGACGTACAACCATGGAGGGTGTGAGATAATTGCTCCAATCTCCCATTTTTGCTTTTCTAAAGA
* * *
31612525 AAGCTTCACATGGAATCTCAAAAGTCATTGCTTTCCCTAAGAAAGTTTCTTGTGGATTCCCAAAT
651 AAGCTTCACATGGAATCACAAAAGTCATTGCTTTCCCTAAGAAAGTTTCTTGTGGATACCCAAAA
31612590 GTTTGCACGCCCTTCATATTATTAGCATAACCTTACA
716 GTTTGCACGCCCTTCATATTATTAGCATAACCTTACA
* * * *
31612627 ATAAGATAATTATATTACATGTCCTTGGAATAATATTAGGTCCCTGTATTTAGATAAGATCTAAA
1 ATAAGATAACTATATTACATGTCCTTGGAATAATATTAGGTCCCTCTATTTAGACAACATCTAAA
*
31612692 ATTTAGTCATTATATTTAAATAGTTGAAAGTGAAATTCTTTTAATTTTTTATGTAAAAATTTCAA
66 ATTTAGTCATTATATTTAAATAGTTGAAAATGAAATTCTTTTAATTTTTTATGTAAAAATTTCAA
* * *
31612757 TCCAATCATTCATATTATTAGCATTTT-TCATCAAAACTTGCCAACACGGCATGCTAATTAAATT
131 TCCAATCATTAATATTATTAGCATTTTCT-ATCAAAACTTGCAAACACAGCATGCTAATTAAATT
* *
31612821 GCCCTCTTATAACATTGCACATGATTG-ACAAAAAAATAAAAATGTTAAGTTGACAAGTCTTGAC
195 GCCCTCTTATAACATTGCACATGA-TGAAAAAAAAAATAAAAATGTTAAGTTAACAAGTCTTGAC
* * * * *
31612885 AGAAATTACAAACAATGATAATGATTAGATTAAAATCTTTAAATTGACAAAGCAAGAGTCTTAAA
259 AGAAATTACAAAAAAT-ATAATGATTAGACTAAAATCTTTAAATTAAAAAAGCAAGAGGCTTAAA
*
31612950 ATTTTAACTTTTAAAATACAGTAACTAAATCTCAAATTCTGGATAAATATAGGGAATACAAGCAT
323 ATTTTAACTTTTAAAATACAGTAACTAAATCTCAAATTCTAGATAAATATAGGGAATACAAGCAT
**
31613015 ATCTTAACCTCAATATTATTATATAACCTTATTTTGCGAGGGAAAGACTCTCTACATGCAAATAT
388 ATCTTAACAACAATATTATTATATAACCTTATTTTGCGAGGGAAAGACTCTCTACATGCAAATAT
* * *
31613080 GGAATTTATTCTTCATAAATTAAAGCCAATATACATACATCCCTCGTCATGTAGAAGTAATATCT
453 GGAATTTATTCTTCATAAATTAAAGCCAAAAGACATACATCCCTCATCATGTAGAAGTAATATCT
31613145 TTTGAAGTTTTAGAGAACAATTTAAATGTTAAACCTGAGTTATCCAATTTCTCTTGAATAAGTTT
518 TTTGAAGTTTTAGAGAACAATTTAAATGTTAAACCTGAGTTATCCAATTTCTCTTGAATAAGTTT
*
31613210 CTCTAGACG-ATCAACCATGGAGGGTGTGAGATAATTGCTCCAATCTCCCGTTTTTGCTTTTCTA
583 CTCTAGACGTA-CAACCATGGAGGGTGTGAGATAATTGCTCCAATCTCCCATTTTTGCTTTTCTA
* * * * *
31613274 AAGAAAGCTTCCCGTGGAATCACAAAAGTCTTTGTTTTCCCTGAGAAAGTTTCTTGTGGATACCC
647 AAGAAAGCTTCACATGGAATCACAAAAGTCATTGCTTTCCCTAAGAAAGTTTCTTGTGGATACCC
* *
31613339 AAAAGTTTGCGCGCCCTTCTTATT
712 AAAAGTTTGCACGCCCTTCATATT
31613363 CACTTCCAAG
Statistics
Matches: 678, Mismatches: 54, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
751 1 0.00
752 244 0.36
753 433 0.64
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (752 bp):
ATAAGATAACTATATTACATGTCCTTGGAATAATATTAGGTCCCTCTATTTAGACAACATCTAAA
ATTTAGTCATTATATTTAAATAGTTGAAAATGAAATTCTTTTAATTTTTTATGTAAAAATTTCAA
TCCAATCATTAATATTATTAGCATTTTCTATCAAAACTTGCAAACACAGCATGCTAATTAAATTG
CCCTCTTATAACATTGCACATGATGAAAAAAAAAATAAAAATGTTAAGTTAACAAGTCTTGACAG
AAATTACAAAAAATATAATGATTAGACTAAAATCTTTAAATTAAAAAAGCAAGAGGCTTAAAATT
TTAACTTTTAAAATACAGTAACTAAATCTCAAATTCTAGATAAATATAGGGAATACAAGCATATC
TTAACAACAATATTATTATATAACCTTATTTTGCGAGGGAAAGACTCTCTACATGCAAATATGGA
ATTTATTCTTCATAAATTAAAGCCAAAAGACATACATCCCTCATCATGTAGAAGTAATATCTTTT
GAAGTTTTAGAGAACAATTTAAATGTTAAACCTGAGTTATCCAATTTCTCTTGAATAAGTTTCTC
TAGACGTACAACCATGGAGGGTGTGAGATAATTGCTCCAATCTCCCATTTTTGCTTTTCTAAAGA
AAGCTTCACATGGAATCACAAAAGTCATTGCTTTCCCTAAGAAAGTTTCTTGTGGATACCCAAAA
GTTTGCACGCCCTTCATATTATTAGCATAACCTTACA
Found at i:31615669 original size:73 final size:73
Alignment explanation
Indices: 31615550--31615693 Score: 288
Period size: 73 Copynumber: 2.0 Consensus size: 73
31615540 TATTATTTGT
31615550 TTAATAAAATTTGTTTTTATATTTTTAACTTTTAGATATTGACCTTAATTATTAATTAAAGTGTT
1 TTAATAAAATTTGTTTTTATATTTTTAACTTTTAGATATTGACCTTAATTATTAATTAAAGTGTT
31615615 TTAGTTAA
66 TTAGTTAA
31615623 TTAATAAAATTTGTTTTTATATTTTTAACTTTTAGATATTGACCTTAATTATTAATTAAAGTGTT
1 TTAATAAAATTTGTTTTTATATTTTTAACTTTTAGATATTGACCTTAATTATTAATTAAAGTGTT
31615688 TTAGTT
66 TTAGTT
31615694 TATCATTCAA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.54
Consensus pattern (73 bp):
TTAATAAAATTTGTTTTTATATTTTTAACTTTTAGATATTGACCTTAATTATTAATTAAAGTGTT
TTAGTTAA
Found at i:31616186 original size:2 final size:2
Alignment explanation
Indices: 31616141--31616167 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
31616131 ATACAAACTA
31616141 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
31616168 AATGCAAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:31619812 original size:2 final size:2
Alignment explanation
Indices: 31619763--31619798 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
31619753 ATACAAACTA
31619763 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
31619799 GCAAGATTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31620895 original size:14 final size:15
Alignment explanation
Indices: 31620878--31620911 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
31620868 GAGTACGCTA
31620878 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
31620892 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
*
31620907 TAATA
1 AAATA
31620912 ATAATTGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:31622761 original size:15 final size:15
Alignment explanation
Indices: 31622731--31622760 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
31622721 ATGTTTGAAA
31622731 TGTAAAATTATATTT
1 TGTAAAATTATATTT
31622746 TGTAAAA-TATATTT
1 TGTAAAATTATATTT
31622760 T
1 T
31622761 TTGAATAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (15 bp):
TGTAAAATTATATTT
Found at i:31629741 original size:252 final size:253
Alignment explanation
Indices: 31629278--31629752 Score: 718
Period size: 252 Copynumber: 1.9 Consensus size: 253
31629268 TTCAAAATAA
* * *
31629278 ATTTTCTAAATAAGGCAATATTTGGCGTTTGGAAATTTCGAGAAATCGTGCCCTACGTGCTAGGT
1 ATTTTCTAAACAAGGCAATATTTGGCGTTTGGAAATTTCAAGAAATCGTACCCTACGTGCTAGGT
* * * *
31629343 TTCGATTTATCGTTTGACCGAACAACCGAATATCCTTTTTAAAATTTCAATGCATAAGTTTTGGG
66 TTCGATTTATCGTTTGACCAAACAACCGAATATCCTTTATAAAATTTCAATGCATAAATTTTGGA
* * *
31629408 AATCATAAGATGATTTTGGTATTGAAGGTTTAAAATATCGTGTCCTACGTGCTGGATGTGATATT
131 AATCATAAGACGATTTTGGTATCGAAGGTTTAAAATATCGTGTCCTACCTGCTGGATGTGATATT
* * * *
31629473 TTATTTCTTTGAAACAATATAATCTTAACTGTTTCAAACTATTGCATTTTTATTCGAG
196 GTATTTCTTCGAAACAAGAGAATCTTAACTGTTTCAAACTATTGCATTTTTATTCGAG
* *
31629531 ATTTT-TAAACAAGGCAATATTTGGCGTTTGGAAATTTCAAGAAATTGTACCCTACGTGCTGGGT
1 ATTTTCTAAACAAGGCAATATTTGGCGTTTGGAAATTTCAAGAAATCGTACCCTACGTGCTAGGT
* * * *
31629595 TTTGATTTATCGTTTGACTAAACAATCGAATATCCTTTATAAATTTTCAATGCATAAATTTTGGA
66 TTCGATTTATCGTTTGACCAAACAACCGAATATCCTTTATAAAATTTCAATGCATAAATTTTGGA
* * * * *
31629660 AATTATGAGACGATTTTGGTATCGAAGGTTTGAAATGTCGTGTCCTACCTGTTGGATGTGATATT
131 AATCATAAGACGATTTTGGTATCGAAGGTTTAAAATATCGTGTCCTACCTGCTGGATGTGATATT
31629725 GTATTTCTTCGAAACAAGAGAATCTTAA
196 GTATTTCTTCGAAACAAGAGAATCTTAA
31629753 TATCCACTTC
Statistics
Matches: 197, Mismatches: 25, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
252 192 0.97
253 5 0.03
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.39
Consensus pattern (253 bp):
ATTTTCTAAACAAGGCAATATTTGGCGTTTGGAAATTTCAAGAAATCGTACCCTACGTGCTAGGT
TTCGATTTATCGTTTGACCAAACAACCGAATATCCTTTATAAAATTTCAATGCATAAATTTTGGA
AATCATAAGACGATTTTGGTATCGAAGGTTTAAAATATCGTGTCCTACCTGCTGGATGTGATATT
GTATTTCTTCGAAACAAGAGAATCTTAACTGTTTCAAACTATTGCATTTTTATTCGAG
Found at i:31641102 original size:45 final size:45
Alignment explanation
Indices: 31641052--31641524 Score: 181
Period size: 45 Copynumber: 10.4 Consensus size: 45
31641042 AAGTGGTATC
*
31641052 TCCCTGAGGTTGCAGTGGAGCAGGCTGAAGATAGCAAGTCTTATT
1 TCCCTGAAGTTGCAGTGGAGCAGGCTGAAGATAGCAAGTCTTATT
* ** *
31641097 TCCCTGGAA-TTGCAGTGGAACAGATTGAAGCTATAAATTGC-AGATCTTATC
1 TCCCT-GAAGTTGCAGTGGAGCAGGCTGAAG--AT--A--GCAAG-TCTTATT
* * * * * *
31641148 TCTCTGAAGTTACAGTAGAGCA-GATCAA-A-A-CAAGTCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGGCTGAAGATAGCAAGTCTTATT
* * * *
31641189 TCCTTAAAGTTGCAGAGGAGC-GGACTGAAGATAGCAAATCTTATT
1 TCCCTGAAGTTGCAGTGGAGCAGG-CTGAAGATAGCAAGTCTTATT
* * ** *
31641234 TCCCTGGAGTTGCAGTGGAACAGATTGAAGCTATAAATTGC-AGATCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGGCTGAAG--AT--A--GCAAG-TCTTATT
* * * * *
31641285 TCTCTGAAGTTGCAGTAGAGCA-GATCAA-A-A-TAAGTCTTATT
1 TCCCTGAAGTTGCAGTGGAGCAGGCTGAAGATAGCAAGTCTTATT
* * *
31641326 TCTCTGAAGTTGCAGCGGAGCGGGCTGAAGATAGCAAGTCTTATT
1 TCCCTGAAGTTGCAGTGGAGCAGGCTGAAGATAGCAAGTCTTATT
* * ** ** *
31641371 TCCCTGGAA-TTGTAGTGGAACAGATTGAAGCTATAAATTACAGATCTTATC
1 TCCCT-GAAGTTGCAGTGGAGCAGGCTGAAG--AT--AGCA-AG-TCTTATT
* * * * * *
31641422 TCTCTGAAGTTGCAGTAGAGTA-GATCAA-A-A-CAAGTCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGGCTGAAGATAGCAAGTCTTATT
** * *
31641463 TCTTTGAAGTTGCAGCGGAGC-GGACTGGAGATAGCAAGTCTTATT
1 TCCCTGAAGTTGCAGTGGAGCAGG-CTGAAGATAGCAAGTCTTATT
* *
31641508 TCCCTGGAGTTGTAGTG
1 TCCCTGAAGTTGCAGTG
31641525 AAACAGATTG
Statistics
Matches: 309, Mismatches: 78, Indels: 82
0.66 0.17 0.17
Matches are distributed among these distances:
41 74 0.24
42 15 0.05
43 4 0.01
44 6 0.02
45 104 0.34
46 6 0.02
47 9 0.03
49 4 0.01
50 20 0.06
51 67 0.22
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (45 bp):
TCCCTGAAGTTGCAGTGGAGCAGGCTGAAGATAGCAAGTCTTATT
Found at i:31641121 original size:133 final size:132
Alignment explanation
Indices: 31640822--31641127 Score: 345
Period size: 133 Copynumber: 2.3 Consensus size: 132
31640812 AATTTTGGAA
31640822 AATCTTATCTTCCTGAAGTTGCAGTGAAGCAGATCGAAGCCACTAACCTTATCTCTCTGAAGATG
1 AATCTTATCTTCCTGAAGTTGCAGTGAAGCAGATCGAAGCCACTAACCTTATCTCTCTGAAGAT-
* * * * *
31640887 CAATAGAGTAAGTTGAAGTTGCAAGTCTTATCTCCTTGAAGTTGCAGTGGAGTAGACTGAAGATG
65 CAATAGAGTAAGTTGAAGTTACAAGTCGTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA
31640952 GCG
130 GCG
* ** * * *
31640955 AATCTTGTCTTTTTTAAGTTGCAGTAAAGCAGATCGAAGCCACTAACCTTATCT-TCCTGAATAT
1 AATCTTATCTTCCTGAAGTTGCAGTGAAGCAGATCGAAGCCACTAACCTTATCTCT-CTGAAGAT
* * * * *
31641019 -AAGGTGGAGTAGGTTGAAGTTACAAGTGGTATCTCCCTGAGGTTGCAGTGGAGCAGGCTGAAGA
65 CAA--TAGAGTAAGTTGAAGTTACAAGTCGTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA
31641083 TAGC-
128 TAGCG
*
31641087 AAGTCTTAT-TTCCCTGGAA-TTGCAGTGGAA-CAGATTGAAGC
1 AA-TCTTATCTT-CCT-GAAGTTGCAGT-GAAGCAGATCGAAGC
31641128 TATAAATTGC
Statistics
Matches: 144, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
131 2 0.01
132 5 0.03
133 133 0.92
134 4 0.03
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (132 bp):
AATCTTATCTTCCTGAAGTTGCAGTGAAGCAGATCGAAGCCACTAACCTTATCTCTCTGAAGATC
AATAGAGTAAGTTGAAGTTACAAGTCGTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG
CG
Found at i:31641309 original size:51 final size:49
Alignment explanation
Indices: 31641226--31641446 Score: 137
Period size: 51 Copynumber: 4.7 Consensus size: 49
31641216 AAGATAGCAA
* * *
31641226 ATCTTATTTCCCTGGAGTTGCAGTGGAACAGATTGAAGCTATAAATTGCAG
1 ATCTTATTTCTCTGAAGTTGCAGTGGAGCAGATTGAAGC-ATAAA-TGCAG
* * *
31641277 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T----CA-AAAT-AAG
1 ATCTTATTTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCATAAATGCAG
* * **
31641319 -TCTTATTTCTCTGAAGTTGCAGCGGAGCGGGCTGAAG-AT--A-GCA-
1 ATCTTATTTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCATAAATGCAG
* * * *
31641362 AGTCTTATTTCCCTGGAA-TTGTAGTGGAACAGATTGAAGCTATAAATTACAG
1 A-TCTTATTTCTCT-GAAGTTGCAGTGGAGCAGATTGAAGC-ATAAA-TGCAG
* * *
31641414 ATCTTATCTCTCTGAAGTTGCAGTAGAGTAGAT
1 ATCTTATTTCTCTGAAGTTGCAGTGGAGCAGAT
31641447 CAAAACAAGT
Statistics
Matches: 126, Mismatches: 26, Indels: 36
0.67 0.14 0.19
Matches are distributed among these distances:
41 26 0.21
42 3 0.02
43 1 0.01
44 5 0.04
45 28 0.22
46 4 0.03
47 2 0.02
49 1 0.01
50 4 0.03
51 51 0.40
52 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (49 bp):
ATCTTATTTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCATAAATGCAG
Found at i:31641393 original size:274 final size:275
Alignment explanation
Indices: 31641048--31641624 Score: 886
Period size: 274 Copynumber: 2.1 Consensus size: 275
31641038 TTACAAGTGG
* *
31641048 TATCTCCCTGAGGTTGCAGTGGAGCAGGCTGAAGATAGCAAGTCTTATTTCCCTGGAATTGCAGT
1 TATCTCTCTGAAGTTGCAGTGGAGCAGGCTGAAGATAGCAAGTCTTATTTCCCTGGAATTGCAGT
*
31641113 GGAACAGATTGAAGCTATAAATTGCAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCAAAA
66 GGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCAAAA
31641178 CAAGTCTTATCTCCTTAAAGTTGCAGAGGAGCGGACTGAAGATAGCAAATCTTATTTCCCTGGAG
131 CAAGTCTTATCTCCTTAAAGTTGCAGAGGAGCGGACTGAAGATAGCAAATCTTATTTCCCTGGAG
* ** * * *
31641243 TTGCAGTGGAACAGATTGAAGCTATAAATTGCAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAG
196 TTGCAGTGAAACAGATTGAAGCTATAAATCACAAATCTTATCTCTCTGAAGATACAGTAGAGCAG
**
31641308 ATCAAA-ATAAGTCT
261 ATCAAACATAAACCT
* * * *
31641322 TATTTCTCTGAAGTTGCAGCGGAGCGGGCTGAAGATAGCAAGTCTTATTTCCCTGGAATTGTAGT
1 TATCTCTCTGAAGTTGCAGTGGAGCAGGCTGAAGATAGCAAGTCTTATTTCCCTGGAATTGCAGT
* *
31641387 GGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCAAAA
66 GGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCAAAA
* * * * *
31641452 CAAGTCTTATCTCTTTGAAGTTGCAGCGGAGCGGACTGGAGATAGCAAGTCTTATTTCCCTGGAG
131 CAAGTCTTATCTCCTTAAAGTTGCAGAGGAGCGGACTGAAGATAGCAAATCTTATTTCCCTGGAG
* * **
31641517 TTGTAGTGAAACAGATTGAATCTATAAATCACAAATCTTATCTCTCTGAAGATACAGTAGAGTGG
196 TTGCAGTGAAACAGATTGAAGCTATAAATCACAAATCTTATCTCTCTGAAGATACAGTAGAGCAG
*
31641582 ATTAAAGCTATAAACCT
261 ATCAAA-C-ATAAACCT
31641599 TATCTCTCTGAAGTTGCAGTGGAGCA
1 TATCTCTCTGAAGTTGCAGTGGAGCA
31641625 CATTGAAGAT
Statistics
Matches: 270, Mismatches: 30, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
274 241 0.89
277 29 0.11
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (275 bp):
TATCTCTCTGAAGTTGCAGTGGAGCAGGCTGAAGATAGCAAGTCTTATTTCCCTGGAATTGCAGT
GGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCAAAA
CAAGTCTTATCTCCTTAAAGTTGCAGAGGAGCGGACTGAAGATAGCAAATCTTATTTCCCTGGAG
TTGCAGTGAAACAGATTGAAGCTATAAATCACAAATCTTATCTCTCTGAAGATACAGTAGAGCAG
ATCAAACATAAACCT
Found at i:31641579 original size:137 final size:137
Alignment explanation
Indices: 31641060--31641578 Score: 806
Period size: 137 Copynumber: 3.8 Consensus size: 137
31641050 TCTCCCTGAG
*
31641060 GTTGCAGTGGAGCAGG-CTGAAGATAGCAAGTCTTATTTCCCTGGAATTGCAGTGGAACAGATTG
1 GTTGCAGCGGAGC-GGACTGAAGATAGCAAGTCTTATTTCCCTGGAATTGCAGTGGAACAGATTG
*
31641124 AAGCTATAAATTGCAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCAAAACAAGTCTTATC
65 AAGCTATAAATTACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCAAAACAAGTCTTATC
* *
31641189 TCCTTAAA
130 TCTTTGAA
* * *
31641197 GTTGCAGAGGAGCGGACTGAAGATAGCAAATCTTATTTCCCTGGAGTTGCAGTGGAACAGATTGA
1 GTTGCAGCGGAGCGGACTGAAGATAGCAAGTCTTATTTCCCTGGAATTGCAGTGGAACAGATTGA
* * * *
31641262 AGCTATAAATTGCAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAATAAGTCTTATTT
66 AGCTATAAATTACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCAAAACAAGTCTTATCT
*
31641327 CTCTGAA
131 CTTTGAA
* *
31641334 GTTGCAGCGGAGCGGGCTGAAGATAGCAAGTCTTATTTCCCTGGAATTGTAGTGGAACAGATTGA
1 GTTGCAGCGGAGCGGACTGAAGATAGCAAGTCTTATTTCCCTGGAATTGCAGTGGAACAGATTGA
* *
31641399 AGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCAAAACAAGTCTTATCT
66 AGCTATAAATTACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCAAAACAAGTCTTATCT
31641464 CTTTGAA
131 CTTTGAA
* * * *
31641471 GTTGCAGCGGAGCGGACTGGAGATAGCAAGTCTTATTTCCCTGGAGTTGTAGTGAAACAGATTGA
1 GTTGCAGCGGAGCGGACTGAAGATAGCAAGTCTTATTTCCCTGGAATTGCAGTGGAACAGATTGA
* * * *
31641536 ATCTATAAATCACAAATCTTATCTCTCTGAAGATACAGTAGAG
66 AGCTATAAATTACAGATCTTATCTCTCTGAAGTTACAGTAGAG
31641579 TGGATTAAAG
Statistics
Matches: 353, Mismatches: 28, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
136 2 0.01
137 351 0.99
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (137 bp):
GTTGCAGCGGAGCGGACTGAAGATAGCAAGTCTTATTTCCCTGGAATTGCAGTGGAACAGATTGA
AGCTATAAATTACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCAAAACAAGTCTTATCT
CTTTGAA
Found at i:31644368 original size:248 final size:250
Alignment explanation
Indices: 31643909--31644380 Score: 680
Period size: 248 Copynumber: 1.9 Consensus size: 250
31643899 TTCAAAATAA
* *
31643909 ATTTTCTAAATAAGGCAATATTTGGCGTTTGGAAATTTCGAGAAATCGTGCCCTACGTGCTGGGT
1 ATTTTCTAAACAAGGCAATATTTGGCGTTTGGAAATTTCGAGAAATCGTGCCCTACATGCTGGGT
* * * * *
31643974 TTCGATTTATCATTTGACCGAACAACCGAATATCCTTTTTAAAATTTCAATGCATAAGTTTTGGG
66 TTCGATTTATCATTTAACCG---AACCGAAGATCCTTTTTAAAATTTCAAGGCATAAATTTTGGA
* ** *
31644039 AATCATGAGATGATTTTGGTATTGAAGGTTTAAATTATCGTGTCCTACGTGCTGGATGTGATATT
128 AATCATGAGACGATTTTGGTATCAAAGGTTGAAATTATCGTGTCCTACGTGCTGGATGTGATATT
* * *
31644104 TTATTTCTTTGAAACAAGATAATCTTAATTGTTTCAAACTATTGCATTTTTATTCGAG
193 GTATTTCTTCGAAACAAGAGAATCTTAATTGTTTCAAACTATTGCATTTTTATTCGAG
* *
31644162 ATTTT-TAAACAAGGCAATATTTGGCGTTTGGAAATTTCGAGAAATTGTGCCCTACATGCTGTGT
1 ATTTTCTAAACAAGGCAATATTTGGCGTTTGGAAATTTCGAGAAATCGTGCCCTACATGCTGGGT
* * *
31644226 TTCGATTTATCTTTTAACTG-ACCGAAGATCCTTTTTAAATTTTCAAGGCATAAATTTTGGAAAT
66 TTCGATTTATCATTTAACCGAACCGAAGATCCTTTTTAAAATTTCAAGGCATAAATTTTGGAAAT
* * * *
31644290 TATGAGACGATTTTGGTATCAAAGGTCTGAAA-TGTCGTGTCCTGCGTGTTGGATGTGATATTGT
131 CATGAGACGATTTTGGTATCAAAGGT-TGAAATTATCGTGTCCTACGTGCTGGATGTGATATTGT
31644354 ATTTCTTCGAAACAAGAGAATCTTAAT
195 ATTTCTTCGAAACAAGAGAATCTTAAT
31644381 ATCCACTTCA
Statistics
Matches: 195, Mismatches: 23, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
248 114 0.58
249 4 0.02
252 72 0.37
253 5 0.03
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (250 bp):
ATTTTCTAAACAAGGCAATATTTGGCGTTTGGAAATTTCGAGAAATCGTGCCCTACATGCTGGGT
TTCGATTTATCATTTAACCGAACCGAAGATCCTTTTTAAAATTTCAAGGCATAAATTTTGGAAAT
CATGAGACGATTTTGGTATCAAAGGTTGAAATTATCGTGTCCTACGTGCTGGATGTGATATTGTA
TTTCTTCGAAACAAGAGAATCTTAATTGTTTCAAACTATTGCATTTTTATTCGAG
Found at i:31648074 original size:30 final size:29
Alignment explanation
Indices: 31648018--31648080 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
31648008 GAAAACCAGA
31648018 ATAAAGAAATCCATGACAGAGGAATCCAAG
1 ATAAAGAAATCCATGACAGA-GAATCCAAG
* *
31648048 ATAAAGACATCCAATGAGCAGA-AATCCATG
1 ATAAAGAAATCC-ATGA-CAGAGAATCCAAG
31648078 ATA
1 ATA
31648081 CTGTATCACA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 21 0.72
31 4 0.14
32 4 0.14
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.16
Consensus pattern (29 bp):
ATAAAGAAATCCATGACAGAGAATCCAAG
Found at i:31650010 original size:37 final size:37
Alignment explanation
Indices: 31649946--31650021 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
31649936 TTACATGCCA
31649946 AAATCATTATAAGCCACATCTGATGGCTACAT-ACAAC
1 AAATCATTATAAGCCACATCTGATGGCTA-ATCACAAC
*
31649983 AAATCATTATAAGCCA-ATACAT-TTGGCTAATCACAAC
1 AAATCATTATAAGCCACAT-C-TGATGGCTAATCACAAC
31650020 AA
1 AA
31650022 CATCGATCAC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
36 4 0.11
37 30 0.86
38 1 0.03
ACGTcount: A:0.43, C:0.22, G:0.09, T:0.25
Consensus pattern (37 bp):
AAATCATTATAAGCCACATCTGATGGCTAATCACAAC
Found at i:31659753 original size:20 final size:20
Alignment explanation
Indices: 31659724--31659768 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
31659714 AGCACAAGTA
* *
31659724 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
31659744 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
31659764 TTCAT
1 TTCAT
31659769 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:31660553 original size:40 final size:40
Alignment explanation
Indices: 31660493--31660573 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
31660483 TTTAAAACTT
*
31660493 ATATGTTTAATGATAGTTGTTAACAAAAGATGATTATACA
1 ATATGTTTAATGATACTTGTTAACAAAAGATGATTATACA
31660533 ATATGTTTAATGATACTTGTTAACAAAAGATGATTATACA
1 ATATGTTTAATGATACTTGTTAACAAAAGATGATTATACA
31660573 A
1 A
31660574 CCAACCTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.37
Consensus pattern (40 bp):
ATATGTTTAATGATACTTGTTAACAAAAGATGATTATACA
Found at i:31666678 original size:74 final size:74
Alignment explanation
Indices: 31666591--31666738 Score: 269
Period size: 74 Copynumber: 2.0 Consensus size: 74
31666581 CTTAGATTTG
31666591 CCACTATACCAACCCATGATAATAGACTAAGATTTACACAATCACTTGACCCAACAAGTCTAGTC
1 CCACTATACCAACCCATGATAATAGACTAAGATTTACACAATCACTTGACCCAACAAGTCTAGTC
31666656 CCTTAACAA
66 CCTTAACAA
* * *
31666665 CCACTGTACCAACCCCTGATAATGGACTAAGATTTACACAATCACTTGACCCAACAAGTCTAGTC
1 CCACTATACCAACCCATGATAATAGACTAAGATTTACACAATCACTTGACCCAACAAGTCTAGTC
31666730 CCTTAACAA
66 CCTTAACAA
31666739 AGAACAGATG
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.37, C:0.30, G:0.09, T:0.23
Consensus pattern (74 bp):
CCACTATACCAACCCATGATAATAGACTAAGATTTACACAATCACTTGACCCAACAAGTCTAGTC
CCTTAACAA
Found at i:31677158 original size:89 final size:89
Alignment explanation
Indices: 31677057--31677236 Score: 351
Period size: 89 Copynumber: 2.0 Consensus size: 89
31677047 TTTTTTAAAA
31677057 TTAATTTTTTAAATCTCTAAAATAATTTTATTGAATATGAATTTATTTGATTAACTCAAAAAATT
1 TTAATTTTTTAAATCTCTAAAATAATTTTATTGAATATGAATTTATTTGATTAACTCAAAAAATT
*
31677122 TAAATTTTTAGTATTTTCAAGATT
66 TAAATCTTTAGTATTTTCAAGATT
31677146 TTAATTTTTTAAATCTCTAAAATAATTTTATTGAATATGAATTTATTTGATTAACTCAAAAAATT
1 TTAATTTTTTAAATCTCTAAAATAATTTTATTGAATATGAATTTATTTGATTAACTCAAAAAATT
31677211 TAAATCTTTAGTATTTTCAAGATT
66 TAAATCTTTAGTATTTTCAAGATT
31677235 TT
1 TT
31677237 GTTTTTACGG
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 90 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.49
Consensus pattern (89 bp):
TTAATTTTTTAAATCTCTAAAATAATTTTATTGAATATGAATTTATTTGATTAACTCAAAAAATT
TAAATCTTTAGTATTTTCAAGATT
Found at i:31692991 original size:40 final size:40
Alignment explanation
Indices: 31692929--31693007 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
31692919 CTGTATGCAT
31692929 ACTGTATCTGAGATGGGCTAAGGCCTTAATTTATATCTGAG
1 ACTGTATCTGAGATGGGCTAAGGCCTTAA-TTATATCTGAG
* *
31692970 ACTGTATCTGA-ATGGGCTAAGGTCTTAATTGTATCTGA
1 ACTGTATCTGAGATGGGCTAAGGCCTTAATTATATCTGA
31693008 ATCTATAATG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 9 0.25
40 16 0.44
41 11 0.31
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (40 bp):
ACTGTATCTGAGATGGGCTAAGGCCTTAATTATATCTGAG
Found at i:31703182 original size:38 final size:38
Alignment explanation
Indices: 31703125--31703201 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
31703115 TATGTATTAA
* *
31703125 ATGATATGTGGAAACTCAATGCTATCTCTGTAAAAGCT
1 ATGATATGTGAAAAATCAATGCTATCTCTGTAAAAGCT
31703163 ATGATATGTGAAAAATCAATGCTATCTCTGTAAAAGCT
1 ATGATATGTGAAAAATCAATGCTATCTCTGTAAAAGCT
31703201 A
1 A
31703202 ATACTATGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (38 bp):
ATGATATGTGAAAAATCAATGCTATCTCTGTAAAAGCT
Found at i:31709678 original size:118 final size:119
Alignment explanation
Indices: 31709497--31709718 Score: 283
Period size: 118 Copynumber: 1.9 Consensus size: 119
31709487 TACTCGTTCA
*
31709497 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* * *
31709562 TTAGTAAC-TCGCACAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCAC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCAC
* * * **
31709616 AATGCCTTC-GGATCTTAGTCCGGAT-TAGTAACTCGCACGAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGA-CATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
*
31709678 ATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
31709719 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
117 3 0.03
118 57 0.64
119 29 0.33
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (119 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
Found at i:31709718 original size:40 final size:40
Alignment explanation
Indices: 31709476--31709718 Score: 275
Period size: 40 Copynumber: 6.1 Consensus size: 40
31709466 CGGAGTTTAA
** *
31709476 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGA-CATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTC-GGATCTTAGC
* *
31709516 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTC-GGATCTTAGC
* *
31709556 CCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAGC
* *
31709596 CCGGATTTAGTAACTCGCAC-AATGCCTTCGGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAGC
* *
31709635 CCGGAT-TAGTAACTCGCACGAATGCCTTCGGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAGC
* *
31709674 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGA-CTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTC-GGATCTTAGC
31709714 CCGGA
1 CCGGA
31709719 CATCATTCGA
Statistics
Matches: 184, Mismatches: 13, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
38 13 0.07
39 54 0.29
40 107 0.58
41 10 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAGC
Found at i:31717813 original size:39 final size:40
Alignment explanation
Indices: 31717677--31717900 Score: 264
Period size: 40 Copynumber: 5.7 Consensus size: 40
31717667 GCTACTCGTT
*
31717677 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
31717717 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
31717757 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
*
31717797 C-AATGCCTTC-GGATCTTAGTCCGGA-TTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
31717835 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
31717876 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
31717901 CATCATTCGA
Statistics
Matches: 167, Mismatches: 11, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
38 13 0.08
39 51 0.31
40 91 0.54
41 12 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:31717860 original size:118 final size:119
Alignment explanation
Indices: 31717679--31717900 Score: 283
Period size: 118 Copynumber: 1.9 Consensus size: 119
31717669 TACTCGTTCA
*
31717679 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* * *
31717744 TTAGTAAC-TCGCACAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCACAC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCACAC
* * * **
31717798 AATGCCTTC-GGATCTTAGTCCGGAT-TAGTAACTCGCACGAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGA-CATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
*
31717860 ATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
31717901 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
117 3 0.03
118 57 0.64
119 29 0.33
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (119 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC
Found at i:31722761 original size:14 final size:14
Alignment explanation
Indices: 31722742--31722781 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
31722732 TCTGAATGGT
*
31722742 TACATTTGCATACG
1 TACATTTGCATACA
31722756 TACATTTGCATACA
1 TACATTTGCATACA
*
31722770 TACATATGCATA
1 TACATTTGCATA
31722782 AACTATTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (14 bp):
TACATTTGCATACA
Found at i:31731939 original size:131 final size:131
Alignment explanation
Indices: 31731669--31732079 Score: 424
Period size: 131 Copynumber: 3.2 Consensus size: 131
31731659 AACACAATTG
* ** * ** * * * * *
31731669 AGATTGTTCATGATATTGAATCAAATGAACTTAGATTGGGATTTTAGATCAACGAACCTTAACGT
1 AGATTGTTCATGATATTAAATTGAATGAACTTAGGTTGTAATATTAAATCAACAAACCTTAAAGA
* * * * *
31731734 TATCAGCTGCGATATTAAATAAACGAA-C-ATTTGGAGTAGCAATATTAAATCAGCTAACTCAAA
66 TATCAGCTACGATCTTAAATCAAC-AAGCTATTTGGAGTAGCGATATTAAATCAACTAACTCAAA
31731797 TA
130 TA
* * * *
31731799 AGATAGTTCACGATATTAAATTGAATGAGCTTAGGTTGCT-ATATTAAA-CTAACGAACCTTAAC
1 AGATTGTTCATGATATTAAATTGAATGAACTTAGGTTG-TAATATTAAATC-AACAAACCTTAA-
* * * *
31731862 A-ATATC-GACTACGATTTTAAATCAACGAGTTGTTTGGAGTAGCGATATTAAATCAACTAACTC
63 AGATATCAG-CTACGATCTTAAATCAACAAGCTATTTGGAGTAGCGATATTAAATCAACTAACTC
31731925 AAATA
127 AAATA
* * *
31731930 AGATTGTTCATGGTATTAAATTGAATGAACTTAGGTTGTAATTTTAAATCAGCAAACCTTAAAGA
1 AGATTGTTCATGATATTAAATTGAATGAACTTAGGTTGTAATATTAAATCAACAAACCTTAAAGA
* * * *
31731995 TATCAGCTGCGATCTTAAATCAGCAAGCTATTTGGAGTAACGATA-TAAATCAACTAGCT-AAAT
66 TATCAGCTACGATCTTAAATCAACAAGCTATTTGGAGTAGCGATATTAAATCAACTAACTCAAAT
31732058 A
131 A
*
31732059 AGATTATTCATGATATATAAA
1 AGATTGTTCATGATAT-TAAA
31732080 GTAAACAATA
Statistics
Matches: 233, Mismatches: 37, Indels: 22
0.80 0.13 0.08
Matches are distributed among these distances:
129 22 0.09
130 87 0.37
131 122 0.52
132 2 0.01
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (131 bp):
AGATTGTTCATGATATTAAATTGAATGAACTTAGGTTGTAATATTAAATCAACAAACCTTAAAGA
TATCAGCTACGATCTTAAATCAACAAGCTATTTGGAGTAGCGATATTAAATCAACTAACTCAAAT
A
Found at i:31747108 original size:9 final size:9
Alignment explanation
Indices: 31747090--31747148 Score: 64
Period size: 9 Copynumber: 6.6 Consensus size: 9
31747080 ATAAGTATAA
31747090 AATTAACCG
1 AATTAACCG
*
31747099 AATTACCCG
1 AATTAACCG
* *
31747108 AACTACCCG
1 AATTAACCG
* *
31747117 AATTACCCA
1 AATTAACCG
*
31747126 AATTAACTG
1 AATTAACCG
31747135 AATTAACCG
1 AATTAACCG
31747144 AATTA
1 AATTA
31747149 TTTGTATAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.42, C:0.25, G:0.08, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:31747147 original size:18 final size:18
Alignment explanation
Indices: 31747090--31747148 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
31747080 ATAAGTATAA
31747090 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
* * *
31747108 AACTACCCGAATTACCCA
1 AATTAACCGAATTACCCG
* *
31747126 AATTAACTGAATTAACCG
1 AATTAACCGAATTACCCG
31747144 AATTA
1 AATTA
31747149 TTTGTATAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.42, C:0.25, G:0.08, T:0.24
Consensus pattern (18 bp):
AATTAACCGAATTACCCG
Found at i:31747183 original size:5 final size:6
Alignment explanation
Indices: 31747168--31747213 Score: 65
Period size: 6 Copynumber: 7.3 Consensus size: 6
31747158 AATTATATGT
*
31747168 TTTTTA TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TT
1 TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TT
31747214 AATTAAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
6 27 0.75
7 8 0.22
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:31759490 original size:550 final size:545
Alignment explanation
Indices: 31758450--31760098 Score: 2677
Period size: 550 Copynumber: 3.0 Consensus size: 545
31758440 GCGTCGATCC
31758450 AAGGGCTCGAAACTCAGATAGGCCAACTCACCAAATTGATTTCTGAACGACCACAAGGTAGTCTG
1 AAGGGCTCGAAACTCAGATAGGCCAACTCACCAAATTGATTTCTGAACGACCACAAGGTAG-CTG
* * *
31758515 CCGAGTAACACTGAATCTGACCCAAGGGAACAACTCAATGCAATTACCATTCAAGATG-TGGAAG
65 CCGAGTAACACTGAATCTAACCTAAGGGAACAGCTCAATGCAATTACCATTCAAGATGAT-GAAG
* * * *
31758579 GGTTAGTTGAACCTGAATCAGAACCAAGGCAAGTGATGGTGGTAAGTAAAGGTAAAGGTGAGGCA
129 GGTTAGTTGAACCTGAACCAGAACCAAGGCAAG-GAAGATGGTAAGTAAAGGTAAAGGTGAGGTA
* * * * * * *
31758644 GTCCATAGTGAGCAACAACCAGTAAGTAAAGAGTATAAACCACAGGTGCCATACCCTAATACAAA
193 GTCCACAGTGAGCAACAACCGGTAAGTAAAGAGTACAAACCACGGGTGCCATACCCTAATGCGAC
*
31758709 AAGAAAAGACCGCACAGACGAACAATTTGGTAAATTCCTTCAATTATTAAAAAAATTACATATCA
258 AAGGAAAGA-C-CACAGACGAACAATTT-GTAAATTCCTTCAATTATTAAAAAAATTACATATCA
*
31758774 ACTTACCATTTATTGAAGCTCTTTCGCAGATGCCAAACGCAGCCAAATTCTTAAAGGAGCTTTTA
320 ACTTACCGTTTATTGAAGCTCTTTCGCAGATGCCAAACGCAGCCAAATTCTTAAAGGAGCTTTTA
*
31758839 ACAAATAAGCGGAAGTTGGATGAGGCGTCGCATGTTAAGTTAAATGCAGTTTGCTCAGCCATACT
385 ACAAATAAGCGGAAGTTGGATGAGGCGTCGCATGTTGAGTTAAATGCAGTTTGCTCAGCCATACT
*
31758904 ACAGAATAAGCTGGCCAACAAATTAAAAGATCTAGGGAGTTTTACGATTCCTTATGTAATTGGTA
450 ACAGAATAAGCTGGCCAACAAATTAAAAGATCTAGGGAGTTTTACGATTCCTTGTGTAATTGGTA
*
31758969 GTTTAGATGTTAATAATGCTTTGGCTGATTT
515 GTTTAGAAGTTAATAATGCTTTGGCTGATTT
*
31759000 AAGGGCTCGAAACTCAGATAGGCCAACTCACCAAATTGATTTCT-AGACTACCACAAGGTAGCGT
1 AAGGGCTCGAAACTCAGATAGGCCAACTCACCAAATTGATTTCTGA-ACGACCACAAGGTAGC-T
* *
31759064 GCCGAGTAACACT-AATTCTAACCTAAGGGAATAGCTCAATGCAATTACCATTCACGATGATGAA
64 GCCGAGTAACACTGAA-TCTAACCTAAGGGAACAGCTCAATGCAATTACCATTCAAGATGATGAA
*
31759128 GGGTTAGTTGAACCTGAACCAAAACCAAGGCAAGGAACGATGGTAAGTAAAGGTAAAGGTGAGGT
128 GGGTTAGTTGAACCTGAACCAGAACCAAGGCAAGGAA-GATGGTAAGTAAAGGTAAAGGTGAGGT
*
31759193 AGTCCACAGTGAGCAACAACCGGTAAGTAAAGAGTACAAACCACGGGTGTCATACCCTAATGCGA
192 AGTCCACAGTGAGCAACAACCGGTAAGTAAAGAGTACAAACCACGGGTGCCATACCCTAATGCGA
* *
31759258 CAAGGAAAGACTACACATACGAACAATTTGATAAATTCCTTCAATTATTAAAAAAAATACATATC
257 CAAGGAAAGAC--CACAGACGAACAATTTG-TAAATTCCTTCAATTATTAAAAAAATTACATATC
31759323 AACTTACCGTTTATTGAAGCTCTTTCGCAGATGCCAAACGCAGCCAAATTCTTAAAGGAGCTTTT
319 AACTTACCGTTTATTGAAGCTCTTTCGCAGATGCCAAACGCAGCCAAATTCTTAAAGGAGCTTTT
*
31759388 AACAAATAAGCGGAAGTTGGATGAGGCGTCGCATGTTGAGTTAAATGTAGTTTGCTCAGCCATAC
384 AACAAATAAGCGGAAGTTGGATGAGGCGTCGCATGTTGAGTTAAATGCAGTTTGCTCAGCCATAC
* * *
31759453 TACAGAATAAGCTGGCCAAAAAATTAAAAGATCTAGGGAGTTTTATGATTCCTTGTGTAATTCGT
449 TACAGAATAAGCTGGCCAACAAATTAAAAGATCTAGGGAGTTTTACGATTCCTTGTGTAATTGGT
31759518 AGTTTAGAAGTTAATAATGCTTTGGCTGATTT
514 AGTTTAGAAGTTAATAATGCTTTGGCTGATTT
*
31759550 AAGGGCTCTAAACTCAGATAGGCCAACTCACCAAATTGATTTCTGAACGACCACAAGGTAGCCTG
1 AAGGGCTCGAAACTCAGATAGGCCAACTCACCAAATTGATTTCTGAACGACCACAAGGTAG-CTG
* * *
31759615 CCAAGTAACATTGAATCTAACCTAAGGGAACAGCTCAATGCAATTACCATTCAAGATGAGGAAGG
65 CCGAGTAACACTGAATCTAACCTAAGGGAACAGCTCAATGCAATTACCATTCAAGATGATGAAGG
* *
31759680 GTTAGTTGAACTTGAACCAGAACCAAGGCAAGGAATAGTGGTAAGTAAAGGTAAAGGTGAGGTAG
130 GTTAGTTGAACCTGAACCAGAACCAAGGCAAGGAAGA-TGGTAAGTAAAGGTAAAGGTGAGGTAG
*
31759745 TCCACAGTGAGCAACAACTGGTAAGTAAAGAGTACAAACCACGGGTGCCATACCCTAATGCGACA
194 TCCACAGTGAGCAACAACCGGTAAGTAAAGAGTACAAACCACGGGTGCCATACCCTAATGCGACA
* *
31759810 AGGAAAG-----AGACGAACAATTCCGTAAATTCCTTCAATTATTAAAAAAATTACATATCAAGT
259 AGGAAAGACCACAGACGAACAATT-TGTAAATTCCTTCAATTATTAAAAAAATTACATATCAACT
* * *
31759870 TACCGTTTATTGAAGCT-TTTCGCAGATGCCAAACACAACCAAATTCTTAAAGGAGCTTATAACA
323 TACCGTTTATTGAAGCTCTTTCGCAGATGCCAAACGCAGCCAAATTCTTAAAGGAGCTTTTAACA
*
31759934 AATAAGCGGAAGTTGGATGAGGCGTCGCATGTGGAGTTAAATGCAGTTTGCTCAGCCATACTACA
388 AATAAGCGGAAGTTGGATGAGGCGTCGCATGTTGAGTTAAATGCAGTTTGCTCAGCCATACTACA
* *
31759999 GAATAAGCTGGCCAACAAATTAAAAGATCTAAGGAGTTTTACGATTCCTTGTGTCATTGGTAGTT
453 GAATAAGCTGGCCAACAAATTAAAAGATCTAGGGAGTTTTACGATTCCTTGTGTAATTGGTAGTT
31760064 TAGAAGTTAATAATGCTTTGGCTGATTT
518 TAGAAGTTAATAATGCTTTGGCTGATTT
*
31760092 AGGGGCT
1 AAGGGCT
31760099 AGTACCAATG
Statistics
Matches: 1029, Mismatches: 58, Indels: 32
0.92 0.05 0.03
Matches are distributed among these distances:
542 201 0.20
543 64 0.06
544 1 0.00
549 9 0.01
550 749 0.73
551 5 0.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (545 bp):
AAGGGCTCGAAACTCAGATAGGCCAACTCACCAAATTGATTTCTGAACGACCACAAGGTAGCTGC
CGAGTAACACTGAATCTAACCTAAGGGAACAGCTCAATGCAATTACCATTCAAGATGATGAAGGG
TTAGTTGAACCTGAACCAGAACCAAGGCAAGGAAGATGGTAAGTAAAGGTAAAGGTGAGGTAGTC
CACAGTGAGCAACAACCGGTAAGTAAAGAGTACAAACCACGGGTGCCATACCCTAATGCGACAAG
GAAAGACCACAGACGAACAATTTGTAAATTCCTTCAATTATTAAAAAAATTACATATCAACTTAC
CGTTTATTGAAGCTCTTTCGCAGATGCCAAACGCAGCCAAATTCTTAAAGGAGCTTTTAACAAAT
AAGCGGAAGTTGGATGAGGCGTCGCATGTTGAGTTAAATGCAGTTTGCTCAGCCATACTACAGAA
TAAGCTGGCCAACAAATTAAAAGATCTAGGGAGTTTTACGATTCCTTGTGTAATTGGTAGTTTAG
AAGTTAATAATGCTTTGGCTGATTT
Found at i:31762611 original size:13 final size:13
Alignment explanation
Indices: 31762585--31762614 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
31762575 TATTATTTAG
31762585 TATTATTTAGTTT
1 TATTATTTAGTTT
*
31762598 TATTATTTATTTT
1 TATTATTTAGTTT
31762611 TATT
1 TATT
31762615 TTATTAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (13 bp):
TATTATTTAGTTT
Found at i:31766050 original size:124 final size:124
Alignment explanation
Indices: 31765828--31766052 Score: 326
Period size: 124 Copynumber: 1.8 Consensus size: 124
31765818 GAATTATGTG
* * * * * * *
31765828 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* **
31765893 GCTAAGTCCCGAAGGCGATTATGCTAGTGATTATATTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
*
31765952 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
*
31766017 GCTAAGTCCCGAAGACG-TTATTGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGATTA-TGCTAGAAATTATAT
31766053 CCGGGTTAAG
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
123 3 0.03
124 85 0.97
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
Found at i:31766174 original size:40 final size:40
Alignment explanation
Indices: 31766047--31766176 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
31766037 TTGCTGGAAA
* * *
31766047 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
31766087 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
31766127 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
31766167 TTATATCCGG
1 TTATATCCGG
31766177 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:31775986 original size:25 final size:25
Alignment explanation
Indices: 31775952--31776010 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
31775942 TTGTAGAAAA
*
31775952 AGCGCCGCTAAAAGCCTTGACCTTT
1 AGCGGCGCTAAAAGCCTTGACCTTT
*
31775977 AGCGGCGCTAAAAGTCTTGACCTTT
1 AGCGGCGCTAAAAGCCTTGACCTTT
31776002 AGCGGCGCT
1 AGCGGCGCT
31776011 TTTCCAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.24
Consensus pattern (25 bp):
AGCGGCGCTAAAAGCCTTGACCTTT
Found at i:31776068 original size:44 final size:43
Alignment explanation
Indices: 31775982--31776182 Score: 312
Period size: 43 Copynumber: 4.6 Consensus size: 43
31775972 CCTTTAGCGG
* * * *
31775982 CGCTAAAAGTCTTGACCTTTAGCGGCGCTTTTCCAAAAAAACGC
1 CGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTCC-CACAAACGC
* *
31776026 CCCTAAAAGCCTTGACCTTTTAGCGGTGCTTCTCCCACAAACGC
1 CGCTAAAAGCCTTGACC-TTTAGCGGCGCTTCTCCCACAAACGC
*
31776070 CGCTAAAAGCCTTGACCTTTAGCGGCGTTTCTCCCACAAACGC
1 CGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTCCCACAAACGC
*
31776113 CGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGC
1 CGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTCCCACAAACGC
31776156 CGCTAAAAGCCTTGACCTTTAGCGGCG
1 CGCTAAAAGCCTTGACCTTTAGCGGCG
31776183 TTTTTTTCCA
Statistics
Matches: 145, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
43 92 0.63
44 38 0.26
45 15 0.10
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (43 bp):
CGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTCCCACAAACGC
Found at i:31784600 original size:41 final size:41
Alignment explanation
Indices: 31784551--31784688 Score: 127
Period size: 41 Copynumber: 3.2 Consensus size: 41
31784541 AAGACATAGC
31784551 TGATTTGGCTTTCACGTGTTTACGTTGAAGCAGATCCAAGA
1 TGATTTGGCTTTCACGTGTTTACGTTGAAGCAGATCCAAGA
* * * * ** *
31784592 TGATTTGGC-ATCTC-TGTATCAGGCGGAGAGCAGATCGAAGACATAGC
1 TGATTTGGCTTTCACGTGT-TTACGTTGA-AGCAGATC-----CA-AGA
31784639 TGATTTGGCTTTCACGTGTTTACGTTGAAGCAGATCCAAGA
1 TGATTTGGCTTTCACGTGTTTACGTTGAAGCAGATCCAAGA
31784680 TGATTTGGC
1 TGATTTGGC
31784689 GTCTCTGTAG
Statistics
Matches: 73, Mismatches: 14, Indels: 20
0.68 0.13 0.19
Matches are distributed among these distances:
39 3 0.04
40 8 0.11
41 28 0.38
42 2 0.03
46 2 0.03
47 19 0.26
48 8 0.11
49 3 0.04
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (41 bp):
TGATTTGGCTTTCACGTGTTTACGTTGAAGCAGATCCAAGA
Found at i:31784645 original size:88 final size:88
Alignment explanation
Indices: 31784498--31784718 Score: 369
Period size: 88 Copynumber: 2.6 Consensus size: 88
31784488 AGCTGAAGAT
* *
31784498 ATCCAAGATGATTTGGCAT-TTTGTATCAGG-GGGGAGCAGATCGAAGACATAGCTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGAGAGCAGATCGAAGACATAGCTGATTTGGCT
31784561 TTCACGTGTTTACGTTGAAGCAG
66 TTCACGTGTTTACGTTGAAGCAG
31784584 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGAGAGCAGATCGAAGACATAGCTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGAGAGCAGATCGAAGACATAGCTGATTTGGCT
31784649 TTCACGTGTTTACGTTGAAGCAG
66 TTCACGTGTTTACGTTGAAGCAG
* * *
31784672 ATCCAAGATGATTTGGCGTCTCTGTAGC-GGCAGA-AGCAGATCGAAGA
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGAGAGCAGATCGAAGA
31784719 TAACAGATTT
Statistics
Matches: 128, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
86 32 0.25
87 15 0.12
88 81 0.63
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.28
Consensus pattern (88 bp):
ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGAGAGCAGATCGAAGACATAGCTGATTTGGCT
TTCACGTGTTTACGTTGAAGCAG
Found at i:31784671 original size:47 final size:47
Alignment explanation
Indices: 31784532--31784679 Score: 150
Period size: 47 Copynumber: 3.3 Consensus size: 47
31784522 ATCAGGGGGG
31784532 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
1 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
* * * * * **
31784579 AGCAGATC-----CA-AGATGATTTGGC-ATCTC-TGTATCAGGCGGA
1 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT-TTACGTTGA
31784619 GAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
1 -AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
*
31784667 AGCAGATCCAAGA
1 AGCAGATCGAAGA
31784680 TGATTTGGCG
Statistics
Matches: 76, Mismatches: 15, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
39 3 0.04
40 8 0.11
41 19 0.25
42 2 0.03
46 2 0.03
47 31 0.41
48 8 0.11
49 3 0.04
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (47 bp):
AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
Found at i:31784734 original size:19 final size:19
Alignment explanation
Indices: 31784710--31784748 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
31784700 GGCAGAAGCA
31784710 GATCGAAGATAACAGATTT
1 GATCGAAGATAACAGATTT
*
31784729 GATCGAAGATAGCAGATTT
1 GATCGAAGATAACAGATTT
31784748 G
1 G
31784749 GCATCTCTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.26
Consensus pattern (19 bp):
GATCGAAGATAACAGATTT
Found at i:31784817 original size:43 final size:44
Alignment explanation
Indices: 31784729--31785792 Score: 1656
Period size: 43 Copynumber: 24.7 Consensus size: 44
31784719 TAACAGATTT
* * *
31784729 GATCGAAGATAGCAGATTTGGCATCTCTGTAGCGGTGGAGAGCA
1 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCA
31784773 GATCGAAGATAACAGATTTGGCGTCT-TGTAGCGGCGGAGAGCA
1 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCA
* *
31784816 GATCGAAGATAACAGATTTGGCGT-TCTATA--GGCAGAGAGCA
1 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCA
31784857 GATCGAAGATAACAGATTTGGCGTCT-TGTAGCGGCGGAGA--A
1 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCA
* *
31784898 GATCGAAGAT----GATTTGGCATCTCTGTAGCGGCAGAGAGCA
1 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCA
*
31784938 GATCGAAGATAACAGATTTGGCGTATCTGTAGCGGCGGAGAGCA
1 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCA
*
31784982 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC-AAGAGCA
1 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCA
31785025 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCA
1 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCA
31785069 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG-GGAGAGCA
1 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCA
31785112 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC-GAGAGCA
1 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCA
*
31785155 -ATCGAAGAT----GATTT-G-GTCT-TGTAGCGGAGGAGAGCA
1 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCA
31785191 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCA
1 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCA
31785235 GATCGAAGATAACAGATTTGGCGTCT-TGTAGCGGCGGAGAGCA
1 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCA
*
31785278 GATCGAAGATAACAGATTTGGCATCT-TGTAGCGGCGGAGAGCA
1 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCA
31785321 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGTGTAGCGGCGGAGAGCA
1 GATCGAAGATAACAGATTTGGCG--TC--T-----C--TGTAGCGGCGGAGAGCA
31785376 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCA
1 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCA
*
31785420 GATCGAAGATAACAGATTTGGCGTCTCTGTAGTGGCGGAGAGCA
1 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCA
*
31785464 GATCGAAGAT----GATTTGGCATCTCTGTAGCGGC-GAGAGCA
1 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCA
31785503 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCA
1 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCA
31785547 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCA
1 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCA
31785591 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC-GAGAGCA
1 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCA
31785634 GATCGAAGATAA-AGATTTGGCGTCTCTGTAGC-GCGGAGAGCA
1 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCA
31785676 GATCGAAGATAACAGATTTGGCGTCTC-GTAGCGGCGGAGAGCA
1 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCA
*
31785719 GATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCGG-GAGCA
1 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCA
*
31785762 GATCGAAGATAACGGATTTGGCGTCTCTGTA
1 GATCGAAGATAACAGATTTGGCGTCTCTGTA
31785793 TTAGACGGGA
Statistics
Matches: 951, Mismatches: 26, Indels: 87
0.89 0.02 0.08
Matches are distributed among these distances:
35 8 0.01
36 11 0.01
37 21 0.02
38 18 0.02
39 17 0.02
40 31 0.03
41 55 0.06
42 56 0.06
43 351 0.37
44 336 0.35
45 2 0.00
46 1 0.00
47 1 0.00
51 1 0.00
53 2 0.00
55 40 0.04
ACGTcount: A:0.28, C:0.17, G:0.34, T:0.21
Consensus pattern (44 bp):
GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCA
Found at i:31785042 original size:87 final size:87
Alignment explanation
Indices: 31784729--31785792 Score: 1605
Period size: 87 Copynumber: 12.4 Consensus size: 87
31784719 TAACAGATTT
* * *
31784729 GATCGAAGATAGCAGATTTGGCATCTCTGTAGCGGTGGAGAGCAGATCGAAGATAACAGATTTGG
1 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG-CGAGAGCAGATCGAAGATAACAGATTTGG
31784794 CGTCT-TGTAGCGGCGGAGAGCA
65 CGTCTCTGTAGCGGCGGAGAGCA
*
31784816 GATCGAAGATAACAGATTTGGCGT-TCTATA--GGCAGAGAGCAGATCGAAGATAACAGATTTGG
1 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC-GAGAGCAGATCGAAGATAACAGATTTGG
31784878 CGTCT-TGTAGCGGCGGAGA--A
65 CGTCTCTGTAGCGGCGGAGAGCA
*
31784898 GATCGAAGAT----GATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGG
1 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC-GAGAGCAGATCGAAGATAACAGATTTGG
*
31784959 CGTATCTGTAGCGGCGGAGAGCA
65 CGTCTCTGTAGCGGCGGAGAGCA
*
31784982 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCAAGAGCAGATCGAAGATAACAGATTTGGC
1 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGAGAGCAGATCGAAGATAACAGATTTGGC
31785047 GTCTCTGTAGCGGCGGAGAGCA
66 GTCTCTGTAGCGGCGGAGAGCA
*
31785069 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGGGAGAGCAGATCGAAGATAACAGATTTGGC
1 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGAGAGCAGATCGAAGATAACAGATTTGGC
31785134 GTCTCTGTAGCGGC-GAGAGCA
66 GTCTCTGTAGCGGCGGAGAGCA
*
31785155 -ATCGAAGAT----GATTT-G-GTCT-TGTAGCGGAGGAGAGCAGATCGAAGATAACAGATTTGG
1 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG-CGAGAGCAGATCGAAGATAACAGATTTGG
31785212 CGTCTCTGTAGCGGCGGAGAGCA
65 CGTCTCTGTAGCGGCGGAGAGCA
31785235 GATCGAAGATAACAGATTTGGCGTCT-TGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGG
1 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC-GAGAGCAGATCGAAGATAACAGATTTGG
*
31785299 CATCT-TGTAGCGGCGGAGAGCA
65 CGTCTCTGTAGCGGCGGAGAGCA
31785321 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGTGTAGCGGCGGAGAGCAGATCGAAGAT
1 GATCGAAGATAACAGATTTGGCG--TC--T-----C--TGTAGCGGC-GAGAGCAGATCGAAGAT
31785386 AACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCA
54 AACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCA
*
31785420 GATCGAAGATAACAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGAT----GATTTGG
1 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC-GAGAGCAGATCGAAGATAACAGATTTGG
*
31785481 CATCTCTGTAGCGGC-GAGAGCA
65 CGTCTCTGTAGCGGCGGAGAGCA
31785503 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGG
1 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC-GAGAGCAGATCGAAGATAACAGATTTGG
31785568 CGTCTCTGTAGCGGCGGAGAGCA
65 CGTCTCTGTAGCGGCGGAGAGCA
31785591 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGAGAGCAGATCGAAGATAA-AGATTTGGC
1 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGAGAGCAGATCGAAGATAACAGATTTGGC
31785655 GTCTCTGTAGC-GCGGAGAGCA
66 GTCTCTGTAGCGGCGGAGAGCA
*
31785676 GATCGAAGATAACAGATTTGGCGTCTC-GTAGCGGCGGAGAGCAGATCAAAGATAACAGATTTGG
1 GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC-GAGAGCAGATCGAAGATAACAGATTTGG
31785740 CGTCTCTGTAGCGGCGG-GAGCA
65 CGTCTCTGTAGCGGCGGAGAGCA
*
31785762 GATCGAAGATAACGGATTTGGCGTCTCTGTA
1 GATCGAAGATAACAGATTTGGCGTCTCTGTA
31785793 TTAGACGGGA
Statistics
Matches: 913, Mismatches: 21, Indels: 86
0.90 0.02 0.08
Matches are distributed among these distances:
78 17 0.02
79 53 0.06
80 8 0.01
81 50 0.05
82 25 0.03
83 60 0.07
84 89 0.10
85 69 0.08
86 124 0.14
87 239 0.26
88 92 0.10
90 2 0.00
95 1 0.00
97 2 0.00
98 42 0.05
99 40 0.04
ACGTcount: A:0.28, C:0.17, G:0.34, T:0.21
Consensus pattern (87 bp):
GATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGAGAGCAGATCGAAGATAACAGATTTGGC
GTCTCTGTAGCGGCGGAGAGCA
Found at i:31785370 original size:55 final size:54
Alignment explanation
Indices: 31785304--31785457 Score: 220
Period size: 44 Copynumber: 3.0 Consensus size: 54
31785294 TTTGGCATCT
31785304 TGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGG
1 TGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAG-GGCGG
31785359 TGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCG--TC--T----C--
1 TGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGGGCGG
31785403 TGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGTGGCGG
1 TGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAG-GGCGG
31785458 AGAGCAGATC
Statistics
Matches: 88, Mismatches: 0, Indels: 22
0.80 0.00 0.20
Matches are distributed among these distances:
44 40 0.45
46 3 0.03
48 1 0.01
51 1 0.01
53 3 0.03
55 40 0.45
ACGTcount: A:0.25, C:0.18, G:0.37, T:0.21
Consensus pattern (54 bp):
TGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGGGCGG
Found at i:31787308 original size:19 final size:19
Alignment explanation
Indices: 31787284--31787321 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
31787274 TTGAGATTGC
*
31787284 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
31787303 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
31787322 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:31792985 original size:20 final size:19
Alignment explanation
Indices: 31792924--31792981 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
31792914 ATGCCTAGTT
31792924 ACGAACTCGGACTCAACTC
1 ACGAACTCGGACTCAACTC
*
31792943 ACG-GCTCGGACT-AACATTC
1 ACGAACTCGGACTCAAC--TC
31792962 ACGAACTCGGACTCAACTC
1 ACGAACTCGGACTCAACTC
31792981 A
1 A
31792982 ACGAGTTCGG
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
17 3 0.09
18 8 0.24
19 11 0.33
20 8 0.24
21 3 0.09
ACGTcount: A:0.31, C:0.34, G:0.17, T:0.17
Consensus pattern (19 bp):
ACGAACTCGGACTCAACTC
Found at i:31792991 original size:20 final size:19
Alignment explanation
Indices: 31792924--31792993 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 19
31792914 ATGCCTAGTT
*
31792924 ACGAACTCGGACTCAACTC
1 ACGAGCTCGGACTCAACTC
31792943 ACG-GCTCGGACT-AACATTC
1 ACGAGCTCGGACTCAAC--TC
*
31792962 ACGAACTCGGACTCAACTC
1 ACGAGCTCGGACTCAACTC
*
31792981 AACGAGTTCGGAC
1 -ACGAGCTCGGAC
31792994 ATCGATCCAT
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
17 3 0.07
18 8 0.19
19 10 0.24
20 18 0.43
21 3 0.07
ACGTcount: A:0.30, C:0.33, G:0.20, T:0.17
Consensus pattern (19 bp):
ACGAGCTCGGACTCAACTC
Found at i:31794983 original size:30 final size:30
Alignment explanation
Indices: 31794939--31795027 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
31794929 CAAAGATAAC
*
31794939 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
31794968 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
31794998 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
31795028 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:31794987 original size:15 final size:14
Alignment explanation
Indices: 31794939--31795021 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
31794929 CAAAGATAAC
*
31794939 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
31794953 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
31794968 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
31794983 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
31794998 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
31795013 AAGAAACCC
1 AAGAAACCC
31795022 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:31795027 original size:15 final size:15
Alignment explanation
Indices: 31794950--31795027 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
31794940 AGAAAACCGA
31794950 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
31794965 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
31794979 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
31794994 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
31795010 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
31795025 ATA
1 ATA
31795028 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:31797720 original size:13 final size:13
Alignment explanation
Indices: 31797698--31797728 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
31797688 AACATAAAAC
31797698 ATCA-TTTGCATA
1 ATCATTTTGCATA
31797710 ATCATTTTGCATA
1 ATCATTTTGCATA
31797723 ATCATT
1 ATCATT
31797729 ACCAAGACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.32, C:0.16, G:0.06, T:0.45
Consensus pattern (13 bp):
ATCATTTTGCATA
Found at i:31798050 original size:46 final size:45
Alignment explanation
Indices: 31797983--31798208 Score: 203
Period size: 47 Copynumber: 4.9 Consensus size: 45
31797973 TGTAACCCGC
*
31797983 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGC-A-T
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GG-ATGC-CTAGT
*
31798029 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-T
* * *
31798075 ACATCTCA-CGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-T
* * * * *
31798122 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A-T
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGT
*
31798169 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC
31798209 TCAACCATCC
Statistics
Matches: 158, Mismatches: 13, Indels: 20
0.83 0.07 0.10
Matches are distributed among these distances:
43 1 0.01
44 7 0.04
45 4 0.03
46 64 0.41
47 75 0.47
48 2 0.01
49 4 0.03
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGT
Found at i:31798091 original size:27 final size:27
Alignment explanation
Indices: 31798061--31798139 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 27
31798051 CTCAACGAGT
31798061 TCGGATGCCTAGTTACATCTCACGAAC
1 TCGGATGCCTAGTTACATCTCACGAAC
* *
31798088 TCGGA---CTCA---AC-TC-AACGAGC
1 TCGGATGCCT-AGTTACATCTCACGAAC
*
31798108 TCGGATGCCTAGTTACATTTCACGAAC
1 TCGGATGCCTAGTTACATCTCACGAAC
31798135 TCGGA
1 TCGGA
31798140 CTCAACTCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 18
0.62 0.08 0.30
Matches are distributed among these distances:
20 10 0.26
21 2 0.05
22 3 0.08
23 2 0.05
24 2 0.05
25 3 0.08
26 1 0.03
27 15 0.39
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (27 bp):
TCGGATGCCTAGTTACATCTCACGAAC
Found at i:31798105 original size:47 final size:47
Alignment explanation
Indices: 31798037--31798208 Score: 228
Period size: 47 Copynumber: 3.7 Consensus size: 47
31798027 ATCCATAAGT
31798037 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
* *
31798084 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
* * *
31798131 GAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA-C
31798177 GAACTCGGACTCAACTCAACGAGTTCGGATGC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC
31798209 TCAACCATCC
Statistics
Matches: 111, Mismatches: 7, Indels: 12
0.85 0.05 0.09
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 29 0.26
47 73 0.66
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:31804806 original size:48 final size:48
Alignment explanation
Indices: 31804731--31804958 Score: 218
Period size: 48 Copynumber: 4.9 Consensus size: 48
31804721 CACATGGTAG
* * ** *
31804731 GATGCCAATGCCGTATCCTGGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* ** *
31804779 GATGTCAATGCCATGTCCCAGACATGGTCTTACATGGGATCGTAGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * * *
31804827 AATACCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* ** *
31804875 GATGCCGAT---A-G-CCCAG-CTATGGTCTTACACT-AAATTACATATC
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACA-TGGGATCACATATC
* *
31804918 GATGCCAAAGCCATGTCCCAGACATGGTCATACATGGGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
31804959 GCACATAACC
Statistics
Matches: 140, Mismatches: 31, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
42 1 0.01
43 30 0.21
44 2 0.01
45 1 0.01
46 1 0.01
47 2 0.01
48 102 0.73
49 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:31806842 original size:44 final size:44
Alignment explanation
Indices: 31806779--31807181 Score: 323
Period size: 44 Copynumber: 8.9 Consensus size: 44
31806769 CACCATAGCG
* * * * *
31806779 AATCTTATCTCTTTGAAGTTGCAGTAGAGTAGATTAAAGCTAAA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
*
31806823 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTATA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* *
31806867 AATCTTATTTCCTTGAAGTTGCAGTGGAGCATATTGAAGCTACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * *
31806911 AATCTTATCTCCCTGAAATTGCAGTGGAGTAGATTGAAGCTACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
** * *
31806955 AATCTTATCTCGC-TGAAGTTATAGTGAAGCAGATTGAAG-TGAAA
1 AATCTTATCTC-CTTGAAGTTGCAGTGGAGCAGATTGAAGCT-ACA
* * * *
31806999 AATCCTT-TAC-CTTTGAAGTTGCAGTGG-GTCGGATTAAATCTACCATA
1 AAT-CTTAT-CTCCTTGAAGTTGCAGTGGAG-CAGATTGAAGCTA-C--A
* * * * *
31807046 ACGAGTCTTATTTCCCTAAAGTTGCAGTGGAGCGGATTAAGGTTACAAGGTACA
1 A--A-TCTTATCTCCTTGAAGTTGCAGTGGAGCAGATT---G----AAGCTACA
* * *
31807100 AATCTTATCTTCC-TGAAGTTGCAGTGGAGTAGATCGAAGCTACG
1 AATCTTATC-TCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * *
31807144 AATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAA
31807182 ACTAAGATTC
Statistics
Matches: 291, Mismatches: 43, Indels: 50
0.76 0.11 0.13
Matches are distributed among these distances:
43 5 0.02
44 215 0.74
45 6 0.02
47 2 0.01
48 1 0.00
49 4 0.01
50 22 0.08
51 25 0.09
52 4 0.01
54 2 0.01
56 1 0.00
57 4 0.01
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (44 bp):
AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
Found at i:31807202 original size:44 final size:44
Alignment explanation
Indices: 31807100--31807214 Score: 135
Period size: 44 Copynumber: 2.6 Consensus size: 44
31807090 ACAAGGTACA
* * * *
31807100 AATCTTATCTTCCTGAAGTTGCAGTGGAGTAGATCGAAGCTACG
1 AATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATCGAAACTAAG
*
31807144 AATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAACTAAG
1 AATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATCGAAACTAAG
* *
31807188 ATTC-CTATAC-CCCTGAAGTTGTAGTGG
1 AATCTC-AT-CTCCCTGAAGTTGCAGTGG
31807215 GTTAGAATGA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
43 1 0.02
44 60 0.97
45 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (44 bp):
AATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATCGAAACTAAG
Found at i:31808199 original size:2 final size:2
Alignment explanation
Indices: 31808192--31808223 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
31808182 GGGAGAAAAC
31808192 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
31808224 TTTAAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31808760 original size:4 final size:4
Alignment explanation
Indices: 31808751--31808792 Score: 52
Period size: 4 Copynumber: 11.0 Consensus size: 4
31808741 TTATAAACTG
* *
31808751 TTTA TTTA TTTA TTTA -TTA TTTC TTTA TTT- TTTA TATA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
31808793 AAAATTATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
3 6 0.19
4 26 0.81
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:31808770 original size:15 final size:15
Alignment explanation
Indices: 31808752--31808792 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
31808742 TATAAACTGT
31808752 TTATTTATTTATTTA
1 TTATTTATTTATTTA
* *
31808767 TTATTTCTTTATTTT
1 TTATTTATTTATTTA
*
31808782 TTATATATTTA
1 TTATTTATTTA
31808793 AAAATTATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (15 bp):
TTATTTATTTATTTA
Found at i:31812613 original size:13 final size:12
Alignment explanation
Indices: 31812595--31812629 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
31812585 AGCATTTGTT
31812595 AGAAAAATAAATA
1 AGAAAAATAAA-A
31812608 AGAAAAATAAAA
1 AGAAAAATAAAA
*
31812620 ATAAAAATAA
1 AGAAAAATAA
31812630 TAAATGCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.80, C:0.00, G:0.06, T:0.14
Consensus pattern (12 bp):
AGAAAAATAAAA
Found at i:31812995 original size:12 final size:12
Alignment explanation
Indices: 31812970--31813007 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
31812960 TGAAATTTTA
*
31812970 ATTA-TATTAGG
1 ATTATTATTAAG
31812981 ATTATTATTAAG
1 ATTATTATTAAG
*
31812993 ATTATTATTTAG
1 ATTATTATTAAG
31813005 ATT
1 ATT
31813008 TAATTTTAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 4 0.17
12 20 0.83
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (12 bp):
ATTATTATTAAG
Found at i:31813954 original size:20 final size:21
Alignment explanation
Indices: 31813929--31813968 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
31813919 CACTTAAAAC
31813929 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
31813949 AGGGCAACACGCCTGTGTGG
1 AGGGCAACACGCCCGTGTGG
31813969 CCCTGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.28, G:0.40, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:31828924 original size:24 final size:24
Alignment explanation
Indices: 31828848--31828924 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
31828838 AAGAGAAACC
*
31828848 CCACCTCTATTGTTTGAAGCGACA
1 CCACTTCTATTGTTTGAAGCGACA
* *
31828872 CCACTTCTTATGTTGCTTGAAGTG--A
1 CCACTTC-TA--TTGTTTGAAGCGACA
*
31828897 -CACTTCTATTGTTTGGAGCGACA
1 CCACTTCTATTGTTTGAAGCGACA
31828920 CCACT
1 CCACT
31828925 CATATAGGTA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
21 9 0.22
23 3 0.07
24 16 0.39
25 3 0.07
27 10 0.24
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (24 bp):
CCACTTCTATTGTTTGAAGCGACA
Found at i:31831348 original size:40 final size:40
Alignment explanation
Indices: 31831303--31831510 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 40
31831293 CGGAATACAA
* *
31831303 CCGGATATAACCACATGTACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
31831343 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * *
31831383 CCGGATTTAACAACTTGCACGAATGCCTTTGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * *
31831423 CCGGATGTAGTCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACGAA-TGCCTTCGGGTCTTAGC
** * ** * *
31831463 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
31831503 CCGGATAT
1 CCGGATAT
31831511 CATTCAATTG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:31833757 original size:15 final size:15
Alignment explanation
Indices: 31833739--31833776 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
31833729 AATTGGAAAG
31833739 ATGAAAAGTT-ATTAA
1 ATGAAAA-TTAATTAA
31833754 ATGACAAATTAATTAA
1 ATGA-AAATTAATTAA
31833770 ATGAAAA
1 ATGAAAA
31833777 AGAAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.58, C:0.03, G:0.11, T:0.29
Consensus pattern (15 bp):
ATGAAAATTAATTAA
Found at i:31834120 original size:20 final size:20
Alignment explanation
Indices: 31834083--31834128 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
31834073 TAGGGACTAA
*
31834083 GATGAAAAGTTGTAAAATTT
1 GATGAAAAGTTCTAAAATTT
* *
31834103 GATGAAAATTTCTGAAATTT
1 GATGAAAAGTTCTAAAATTT
*
31834123 TATGAA
1 GATGAA
31834129 TACATGTGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.02, G:0.17, T:0.37
Consensus pattern (20 bp):
GATGAAAAGTTCTAAAATTT
Found at i:31835957 original size:22 final size:22
Alignment explanation
Indices: 31835915--31835957 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
31835905 CTAAGGTAAG
*
31835915 ATTATAGACATGTATGCATGAA
1 ATTATAGACATGTATGAATGAA
*
31835937 ATTATATGCCATG-ATGAATGA
1 ATTATA-GACATGTATGAATGA
31835958 TGGAAGTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.33
Consensus pattern (22 bp):
ATTATAGACATGTATGAATGAA
Found at i:31845265 original size:16 final size:18
Alignment explanation
Indices: 31845230--31845267 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
31845220 ATCCTTATTT
*
31845230 AAATAAAATACAGTAGTA
1 AAATAAAATACAGAAGTA
31845248 AAATAAAATA-A-AAGTA
1 AAATAAAATACAGAAGTA
31845264 AAAT
1 AAAT
31845268 CCATATAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 1 0.05
18 10 0.53
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.21
Consensus pattern (18 bp):
AAATAAAATACAGAAGTA
Found at i:31849606 original size:29 final size:29
Alignment explanation
Indices: 31849563--31849638 Score: 125
Period size: 29 Copynumber: 2.6 Consensus size: 29
31849553 GAAGAGGTGG
*
31849563 AGAACTTGTTCGTTGAGAGTTCACGATGA
1 AGAACTTGTTCGTTGAGAGTTCACGATAA
*
31849592 AGAACTTGTTTGTTGAGAGTTCACGATAA
1 AGAACTTGTTCGTTGAGAGTTCACGATAA
*
31849621 AGAACTTGTTCATTGAGA
1 AGAACTTGTTCGTTGAGA
31849639 ATTCGTGTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (29 bp):
AGAACTTGTTCGTTGAGAGTTCACGATAA
Found at i:31852452 original size:15 final size:16
Alignment explanation
Indices: 31852432--31852469 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
31852422 TGCCATCGTG
31852432 TTTCTTCTT-TTTTCC
1 TTTCTTCTTCTTTTCC
*
31852447 TTTCTTCTTCTTTTTC
1 TTTCTTCTTCTTTTCC
31852463 -TTCTTCT
1 TTTCTTCT
31852470 CGTCATCACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTCTTCTTCTTTTCC
Found at i:31852532 original size:24 final size:24
Alignment explanation
Indices: 31852490--31852535 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
31852480 ACCACCATCG
* **
31852490 CTATCACGGTCGCTTTCACGATCA
1 CTATCACGGTCCCGATCACGATCA
31852514 CTATCACGGTCCCGATCACGAT
1 CTATCACGGTCCCGATCACGAT
31852536 GGTGCTCACG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.22, C:0.35, G:0.17, T:0.26
Consensus pattern (24 bp):
CTATCACGGTCCCGATCACGATCA
Found at i:31852695 original size:21 final size:21
Alignment explanation
Indices: 31852669--31852710 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
31852659 CTTTGCGTTC
*
31852669 CTTGTGCTTATGGTCATCTTT
1 CTTGTGCTTATCGTCATCTTT
31852690 CTTGTGCTTATCGTCATCTTT
1 CTTGTGCTTATCGTCATCTTT
31852711 ATCACCAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.10, C:0.21, G:0.17, T:0.52
Consensus pattern (21 bp):
CTTGTGCTTATCGTCATCTTT
Found at i:31852803 original size:105 final size:105
Alignment explanation
Indices: 31852639--31852865 Score: 402
Period size: 105 Copynumber: 2.2 Consensus size: 105
31852629 TCTTATCTAG
* *
31852639 CATCCCTTCATCCTTGTGTTCTTTGCGTTCCTTGTGCTTATGGTCATCTTTCTTGTGCTTATCGT
1 CATCCCTTCATCCTTGTGGTCTTTGCGTTCCTTGTGCTTATGGTCATCTTTCTTATGCTTATCGT
31852704 CATCTTTATCACCAGTGATCATGTCCTTGATTTTATCCAT
66 CATCTTTATCACCAGTGATCATGTCCTTGATTTTATCCAT
31852744 CATCCCTTCATCCTTGTGGTCTTTGC-TGTCCTTGTGCTTATGGTCATCTTTCTTATGCTTATCG
1 CATCCCTTCATCCTTGTGGTCTTTGCGT-TCCTTGTGCTTATGGTCATCTTTCTTATGCTTATCG
*
31852808 TCATCTTTATCACCCGTGATCATGTCCTTGATTTTATCCAT
65 TCATCTTTATCACCAGTGATCATGTCCTTGATTTTATCCAT
*
31852849 CATCCCTTCATCTTTGT
1 CATCCCTTCATCCTTGT
31852866 CATCTTTATG
Statistics
Matches: 117, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
104 1 0.01
105 116 0.99
ACGTcount: A:0.13, C:0.27, G:0.14, T:0.46
Consensus pattern (105 bp):
CATCCCTTCATCCTTGTGGTCTTTGCGTTCCTTGTGCTTATGGTCATCTTTCTTATGCTTATCGT
CATCTTTATCACCAGTGATCATGTCCTTGATTTTATCCAT
Found at i:31852895 original size:18 final size:18
Alignment explanation
Indices: 31852874--31852910 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
31852864 GTCATCTTTA
31852874 TGATCTTTGCCTTTCTTG
1 TGATCTTTGCCTTTCTTG
*
31852892 TGATCTTTGTCTTTCTTG
1 TGATCTTTGCCTTTCTTG
31852910 T
1 T
31852911 CCTTTTTGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.05, C:0.19, G:0.16, T:0.59
Consensus pattern (18 bp):
TGATCTTTGCCTTTCTTG
Found at i:31852918 original size:18 final size:18
Alignment explanation
Indices: 31852897--31852931 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
31852887 TCTTGTGATC
*
31852897 TTTGTCTTTCTTGTCCTT
1 TTTGTCCTTCTTGTCCTT
31852915 TTTGTCCTTCTTGTCCT
1 TTTGTCCTTCTTGTCCT
31852932 CCTCGTCCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.00, C:0.26, G:0.11, T:0.63
Consensus pattern (18 bp):
TTTGTCCTTCTTGTCCTT
Found at i:31852930 original size:9 final size:9
Alignment explanation
Indices: 31852898--31852931 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
31852888 CTTGTGATCT
*
31852898 TTGTCTTTC
1 TTGTCCTTC
*
31852907 TTGTCCTTT
1 TTGTCCTTC
31852916 TTGTCCTTC
1 TTGTCCTTC
31852925 TTGTCCT
1 TTGTCCT
31852932 CCTCGTCCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.00, C:0.26, G:0.12, T:0.62
Consensus pattern (9 bp):
TTGTCCTTC
Found at i:31853637 original size:21 final size:20
Alignment explanation
Indices: 31853600--31853638 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
31853590 AGTTCTATAA
*
31853600 AAATAATCTTTCCTTTTTTT
1 AAATAATCTTTCATTTTTTT
*
31853620 AAATAAATCTTTTATTTTT
1 AAAT-AATCTTTCATTTTT
31853639 CATTTCATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.59
Consensus pattern (20 bp):
AAATAATCTTTCATTTTTTT
Found at i:31853921 original size:24 final size:24
Alignment explanation
Indices: 31853869--31853921 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
31853859 CCTATTTTTT
* * *
31853869 AATAATTTTTTTGTTTTTTAAAAA
1 AATATTTTTTTTATTATTTAAAAA
31853893 AATATTTTTTTTATTATTTAAAAA
1 AATATTTTTTTTATTATTTAAAAA
*
31853917 TATAT
1 AATAT
31853922 ATATATCAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (24 bp):
AATATTTTTTTTATTATTTAAAAA
Found at i:31854234 original size:18 final size:19
Alignment explanation
Indices: 31854213--31854258 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
31854203 AAAAAGAGGG
*
31854213 AAAGAAAGGAG-AAGAAAA
1 AAAGAAAGAAGAAAGAAAA
*
31854231 AAAG-AAGAAGAAAGAAAG
1 AAAGAAAGAAGAAAGAAAA
31854249 AAAGAAAGAA
1 AAAGAAAGAA
31854259 AGAAGAGGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 5 0.21
18 14 0.58
19 5 0.21
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (19 bp):
AAAGAAAGAAGAAAGAAAA
Found at i:31854247 original size:4 final size:4
Alignment explanation
Indices: 31854198--31854262 Score: 62
Period size: 4 Copynumber: 16.2 Consensus size: 4
31854188 TGCATAAGTG
* ** *
31854198 AAGA AAAA AAGA GGGA AAGA AAGGA GAAGA AAAA AAG- AAG- AAGA AAGA
1 AAGA AAGA AAGA AAGA AAGA AA-GA -AAGA AAGA AAGA AAGA AAGA AAGA
31854246 AAGA AAGA AAGA AAGA A
1 AAGA AAGA AAGA AAGA A
31854263 GAGGTATGTA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
3 6 0.12
4 38 0.76
5 4 0.08
6 2 0.04
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:31854398 original size:17 final size:18
Alignment explanation
Indices: 31854376--31854415 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
31854366 GTGTTTAGTA
*
31854376 TTTATG-ATTTAATTTTT
1 TTTATGAATGTAATTTTT
31854393 TTTATGAATGTAATTTTT
1 TTTATGAATGTAATTTTT
31854411 TTTAT
1 TTTAT
31854416 AATTATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (18 bp):
TTTATGAATGTAATTTTT
Found at i:31854510 original size:80 final size:81
Alignment explanation
Indices: 31854424--31854587 Score: 267
Period size: 80 Copynumber: 2.0 Consensus size: 81
31854414 ATAATTATTT
* * *
31854424 TAAAATTATTTTGTTAGTAATTTAGGATTATGTTATAAATTGTT-GTGTTTAGTTTAGTGTTTTG
1 TAAAATTATTTTGTTAGTAATGTAGGATTAGGTTATAAATTGTTAGTGTTTAGTTTAATGTTTTG
*
31854488 TTATTGTTTATTAATG
66 TTATTGTTTAATAATG
*
31854504 TAAAATTATTTTGTTAGTAATGTATGATTAGGTTATAAATTGTTAGTGTTTAGTTTAATGTTTTG
1 TAAAATTATTTTGTTAGTAATGTAGGATTAGGTTATAAATTGTTAGTGTTTAGTTTAATGTTTTG
*
31854569 TTATTTTTTAATAATG
66 TTATTGTTTAATAATG
31854585 TAA
1 TAA
31854588 GTTTTTTATA
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
80 41 0.53
81 36 0.47
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (81 bp):
TAAAATTATTTTGTTAGTAATGTAGGATTAGGTTATAAATTGTTAGTGTTTAGTTTAATGTTTTG
TTATTGTTTAATAATG
Found at i:31854598 original size:16 final size:16
Alignment explanation
Indices: 31854571--31854607 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
31854561 ATGTTTTGTT
31854571 ATTTTTTAATAATGTA
1 ATTTTTTAATAATGTA
31854587 AGTTTTTT-ATAATGTA
1 A-TTTTTTAATAATGTA
31854603 ATTTT
1 ATTTT
31854608 ATTTGATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 4 0.20
16 10 0.50
17 6 0.30
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.59
Consensus pattern (16 bp):
ATTTTTTAATAATGTA
Found at i:31856657 original size:21 final size:22
Alignment explanation
Indices: 31856618--31856672 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
31856608 ATATGCATAT
* **
31856618 TTTATCATTATTTTTTTTATCA
1 TTTATTATTATTTACTTTATCA
*
31856640 TT-ATTATTATTTACTTTATTA
1 TTTATTATTATTTACTTTATCA
31856661 TTTATT-TTATTT
1 TTTATTATTATTT
31856673 TTCTTCGATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 23 0.82
22 5 0.18
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTATTATTATTTACTTTATCA
Found at i:31864340 original size:26 final size:25
Alignment explanation
Indices: 31864311--31864362 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
31864301 ACTTTTGTTA
31864311 AGGGACT-TTTGATGAAAATGTGAAAT
1 AGGGACTATTTG-TG-AAATGTGAAAT
*
31864337 AGGGGCTAATTTGTGAAATGTGAAAT
1 AGGGACT-ATTTGTGAAATGTGAAAT
31864363 TTATGACTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 17 0.74
27 2 0.09
28 4 0.17
ACGTcount: A:0.37, C:0.04, G:0.29, T:0.31
Consensus pattern (25 bp):
AGGGACTATTTGTGAAATGTGAAAT
Found at i:31864870 original size:42 final size:42
Alignment explanation
Indices: 31864822--31864944 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
31864812 ACCGAGATTC
*
31864822 CGTATAAGACCATATCTGGGATATGGCATCGGTATG-TGATTT
1 CGTATAAGACCATATCTGGGATATGGCATCGATATGAT-ATTT
* * * * * *
31864864 TGTATAAGACTATGTCAGGGACATGGCGTCGATATGATATTT
1 CGTATAAGACCATATCTGGGATATGGCATCGATATGATATTT
* * * * *
31864906 CATGTAAGACCATATCTGGGATATAGCATTGATACGATA
1 CGTATAAGACCATATCTGGGATATGGCATCGATATGATA
31864945 CTAAGAGTAT
Statistics
Matches: 62, Mismatches: 18, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
42 61 0.98
43 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (42 bp):
CGTATAAGACCATATCTGGGATATGGCATCGATATGATATTT
Found at i:31871959 original size:51 final size:51
Alignment explanation
Indices: 31871883--31872017 Score: 173
Period size: 51 Copynumber: 2.6 Consensus size: 51
31871873 GAAGATAACG
* * *
31871883 AATCTCATTTCTTTAAAGTTGCAGTGGAACAGACTAAAGCCACAAGTTACA
1 AATCTTATTTCCTTGAAGTTGCAGTGGAACAGACTAAAGCCACAAGTTACA
* * **
31871934 AATCTTATTTCCTTGAAGTTACAGTGGAACAGATTAAAGTTACAAGTTACA
1 AATCTTATTTCCTTGAAGTTGCAGTGGAACAGACTAAAGCCACAAGTTACA
* *
31871985 AATCTTATCT-CTATGAAGTTGCAGTGGAGCAGA
1 AATCTTATTTCCT-TGAAGTTGCAGTGGAACAGA
31872018 TTGAAGCTAC
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
50 2 0.03
51 71 0.97
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (51 bp):
AATCTTATTTCCTTGAAGTTGCAGTGGAACAGACTAAAGCCACAAGTTACA
Found at i:31872018 original size:51 final size:49
Alignment explanation
Indices: 31871896--31872180 Score: 225
Period size: 44 Copynumber: 6.1 Consensus size: 49
31871886 CTCATTTCTT
* * * *
31871896 TAAAGTTGCAGTGGAACAGACTAAAGCCACAAGTTACAAATCTTATTTC-C
1 TAAAGTTGCAGTGGAGCAGATTAAAG--ACAAGCTACAAATCTTATCTCTC
* * * * *
31871946 TTGAAGTTACAGTGGAACAGATTAAAGTTACAAGTTACAAATCTTATCTCTA
1 -TAAAGTTGCAGTGGAGCAGATTAAAG--ACAAGCTACAAATCTTATCTCTC
*
31871998 TGAAGTTGCAGTGGAGCAGATT---G--AAGCTACAAATCTTATCTCTC
1 TAAAGTTGCAGTGGAGCAGATTAAAGACAAGCTACAAATCTTATCTCTC
*
31872042 TAAAGTTGCAGTGGAGTAGATT---G--AAGCTACAAATCTTATCTCTC
1 TAAAGTTGCAGTGGAGCAGATTAAAGACAAGCTACAAATCTTATCTCTC
* * *
31872086 TAAAGTTGCAGTGGAGCAGATT----A-AAGCTACAAATCTTAACTTTT
1 TAAAGTTGCAGTGGAGCAGATTAAAGACAAGCTACAAATCTTATCTCTC
* * *
31872130 TGAAGTTGCAGTAGAGCAGATT---G--AAGCTACAAATCTTATCTCCC
1 TAAAGTTGCAGTGGAGCAGATTAAAGACAAGCTACAAATCTTATCTCTC
31872174 TAAAGTT
1 TAAAGTT
31872181 ACAATAAAGT
Statistics
Matches: 207, Mismatches: 24, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
44 143 0.69
48 1 0.00
51 63 0.30
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (49 bp):
TAAAGTTGCAGTGGAGCAGATTAAAGACAAGCTACAAATCTTATCTCTC
Found at i:31872048 original size:44 final size:44
Alignment explanation
Indices: 31871981--31872180 Score: 310
Period size: 44 Copynumber: 4.5 Consensus size: 44
31871971 AGTTACAAGT
* *
31871981 TACAAATCTTATCTCTATGAAGTTGCAGTGGAGCAGATTGAAGC
1 TACAAATCTTATCTCTCTAAAGTTGCAGTGGAGCAGATTGAAGC
*
31872025 TACAAATCTTATCTCTCTAAAGTTGCAGTGGAGTAGATTGAAGC
1 TACAAATCTTATCTCTCTAAAGTTGCAGTGGAGCAGATTGAAGC
*
31872069 TACAAATCTTATCTCTCTAAAGTTGCAGTGGAGCAGATTAAAGC
1 TACAAATCTTATCTCTCTAAAGTTGCAGTGGAGCAGATTGAAGC
* * * * *
31872113 TACAAATCTTAACTTTTTGAAGTTGCAGTAGAGCAGATTGAAGC
1 TACAAATCTTATCTCTCTAAAGTTGCAGTGGAGCAGATTGAAGC
*
31872157 TACAAATCTTATCTCCCTAAAGTT
1 TACAAATCTTATCTCTCTAAAGTT
31872181 ACAATAAAGT
Statistics
Matches: 140, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 140 1.00
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (44 bp):
TACAAATCTTATCTCTCTAAAGTTGCAGTGGAGCAGATTGAAGC
Found at i:31872195 original size:44 final size:44
Alignment explanation
Indices: 31871981--31872208 Score: 294
Period size: 44 Copynumber: 5.2 Consensus size: 44
31871971 AGTTACAAGT
* * *
31871981 TACAAATCTTATCTCTATGAAGTTGCAGTGGAGCAGATTGAAGC
1 TACAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTGAAGC
* *
31872025 TACAAATCTTATCTCTCTAAAGTTGCAGTGGAGTAGATTGAAGC
1 TACAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTGAAGC
* *
31872069 TACAAATCTTATCTCTCTAAAGTTGCAGTGGAGCAGATTAAAGC
1 TACAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTGAAGC
* * * *
31872113 TACAAATCTTAACTTTTTGAAGTTGCAGTAGAGCAGATTGAAGC
1 TACAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTGAAGC
* * * * * *
31872157 TACAAATCTTATCTCCCTAAAGTTACAATAAAGTAGATTGAAAC
1 TACAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTGAAGC
*
31872201 AACAAATC
1 TACAAATC
31872209 CAATACCTCT
Statistics
Matches: 162, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 162 1.00
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.30
Consensus pattern (44 bp):
TACAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTGAAGC
Found at i:31872222 original size:88 final size:88
Alignment explanation
Indices: 31872012--31872239 Score: 228
Period size: 88 Copynumber: 2.6 Consensus size: 88
31872002 GTTGCAGTGG
* * ** * * * *
31872012 AGCAGATTGAAGCTACAAATCTTATCTCTCTAAAGTTGCAGTGGAGTAGATTGAAGCTACAAATC
1 AGCAGATTAAAGCAACAAATCCAAACTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCTACAAATC
* * * **
31872077 TTATCTCTCTAAAGTTGCAGTGG
66 TTATCTCCCTAAAGTTACAATAA
* ** * *
31872100 AGCAGATTAAAGCTACAAATCTTAACTTTTTGAAGTTGCAGTAGAGCAGATTGAAGCTACAAATC
1 AGCAGATTAAAGCAACAAATCCAAACTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCTACAAATC
31872165 TTATCTCCCTAAAGTTACAATAA
66 TTATCTCCCTAAAGTTACAATAA
* *
31872188 AGTAGATTGAAA-CAACAAATCCAATAC-CTCTGAAGTTGTAGTAG-GTCAGATT
1 AGCAGATT-AAAGCAACAAATCCAA-ACTCTCTGAAGTTGCAGTAGAG-CAGATT
31872240 AAATCTACCA
Statistics
Matches: 118, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
87 1 0.01
88 112 0.95
89 5 0.04
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (88 bp):
AGCAGATTAAAGCAACAAATCCAAACTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCTACAAATC
TTATCTCCCTAAAGTTACAATAA
Found at i:31872224 original size:132 final size:132
Alignment explanation
Indices: 31871981--31872247 Score: 349
Period size: 132 Copynumber: 2.0 Consensus size: 132
31871971 AGTTACAAGT
* * *
31871981 TACAAATCTTATCTCTATGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCTCTAAA
1 TACAAATCTTAACTCTATGAAGTTGCAGTAGAGCAGATTGAAGCTACAAATCTTATCTCCCTAAA
* * ** * * **
31872046 GTTGCAGTGGAGTAGATTGAAGCTACAAATCTTATCTCTCTAAAGTTGCAGT-GGAGCAGATTAA
66 GTTACAATAAAGTAGATTGAAACAACAAATCCAATCTCTCTAAAGTTGCAGTAGG-GCAGATTAA
31872110 AGC
130 AGC
* *
31872113 TACAAATCTTAACTTTTTGAAGTTGCAGTAGAGCAGATTGAAGCTACAAATCTTATCTCCCTAAA
1 TACAAATCTTAACTCTATGAAGTTGCAGTAGAGCAGATTGAAGCTACAAATCTTATCTCCCTAAA
* * *
31872178 GTTACAATAAAGTAGATTGAAACAACAAATCCAATAC-CTCTGAAGTTGTAGTAGGTCAGATTAA
66 GTTACAATAAAGTAGATTGAAACAACAAATCCAAT-CTCTCTAAAGTTGCAGTAGGGCAGATTAA
*
31872242 ATC
130 AGC
31872245 TAC
1 TAC
31872248 CATAACAAGT
Statistics
Matches: 116, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
132 113 0.97
133 3 0.03
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.30
Consensus pattern (132 bp):
TACAAATCTTAACTCTATGAAGTTGCAGTAGAGCAGATTGAAGCTACAAATCTTATCTCCCTAAA
GTTACAATAAAGTAGATTGAAACAACAAATCCAATCTCTCTAAAGTTGCAGTAGGGCAGATTAAA
GC
Found at i:31873940 original size:3 final size:3
Alignment explanation
Indices: 31873932--31873968 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
31873922 CTCGTTAGCC
31873932 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
31873969 TAAAACTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:31879162 original size:64 final size:64
Alignment explanation
Indices: 31879056--31879221 Score: 269
Period size: 64 Copynumber: 2.6 Consensus size: 64
31879046 TTAATGTAAT
31879056 CACATAAGTATCATAAAGAGTGAAAGTACCAGTAATAACATATGGAGAAGAAGCTTCTTCGTTGG
1 CACA-AAGTATCATAAAGAGTGAAAGTACCAGTAATAACATATGGAGAAGAAGCTTCTTCGTTGG
* * * * *
31879121 CACGAAGTATCATAAAGAATGAAAGTACCAGTATTTACATATGGAGAAGAAGCTTCTTCGTTTG
1 CACAAAGTATCATAAAGAGTGAAAGTACCAGTAATAACATATGGAGAAGAAGCTTCTTCGTTGG
*
31879185 CACAAAGTATCATAAAGAGTGAAAGTACTAGTAATAA
1 CACAAAGTATCATAAAGAGTGAAAGTACCAGTAATAA
31879222 AGTCGTATCT
Statistics
Matches: 91, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
64 88 0.97
65 3 0.03
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.25
Consensus pattern (64 bp):
CACAAAGTATCATAAAGAGTGAAAGTACCAGTAATAACATATGGAGAAGAAGCTTCTTCGTTGG
Found at i:31881380 original size:22 final size:23
Alignment explanation
Indices: 31881341--31881389 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
31881331 ATCCCAACTT
*
31881341 TTCATATCCATTCTCATATCAAA
1 TTCATATCCATTCTCATAACAAA
*
31881364 TTCATA-CCATT-TCCATAACTAA
1 TTCATATCCATTCT-CATAACAAA
31881386 TTCA
1 TTCA
31881390 CATAACTAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 1 0.04
22 16 0.70
23 6 0.26
ACGTcount: A:0.35, C:0.27, G:0.00, T:0.39
Consensus pattern (23 bp):
TTCATATCCATTCTCATAACAAA
Found at i:31882092 original size:43 final size:43
Alignment explanation
Indices: 31882031--31882203 Score: 131
Period size: 43 Copynumber: 4.0 Consensus size: 43
31882021 AAAGCTCATA
*
31882031 CAATGCCAATGTCCCAGAT-GTGGTCTTACATGTAATCAAATAT
1 CAATGCCAATGTCCCAGATAG-GGTCTTACATGAAATCAAATAT
* *
31882074 CAATGCCACTGTTCCAGATAGGGTCTTACATGAAATCAAATA-
1 CAATGCCAATGTCCCAGATAGGGTCTTACATGAAATCAAATAT
* ** * * * *
31882116 CGATGCTGATGTCCCAAACATGGTCTTACACGTAAAT-ATTAA-AT
1 CAATGCCAATGTCCCAGATAGGGTCTTACATG-AAATCA--AATAT
* * * * *
31882160 CGATGCCAATGTCCCGGACT-TGGTCTTACACGAAATCACATAT
1 CAATGCCAATGTCCCAGA-TAGGGTCTTACATGAAATCAAATAT
31882203 C
1 C
31882204 TGAATCCTAT
Statistics
Matches: 104, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
42 25 0.24
43 49 0.47
44 30 0.29
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGATAGGGTCTTACATGAAATCAAATAT
Found at i:31886998 original size:47 final size:48
Alignment explanation
Indices: 31886701--31887014 Score: 240
Period size: 49 Copynumber: 6.6 Consensus size: 48
31886691 TGTGATAAGT
*
31886701 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTAGCATCATCGA
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGC-ATCATCATCGA
* * *
31886750 GGCCGGTGCCATGTCCCAAACATGGTCTTACACTAGCTAGCATCATCGA
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGC-ATCATCATCGA
* * * * *
31886799 GGCCGGTGCCATGTCCCAAACATGGTCCTATACTA-CTCTCGTAT-ATAC-A
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGC-ATC--ATCAT-CGA
* * * * *
31886848 TGCTGATG-CATGTCCCAGACAT-GTCTTACACTAGCA-AAAC-TC-T
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCATCATCATCGA
* * * *
31886891 TAGCCGATG-CGTGTCCCAAACA-CGTCTTACACTGGCTATTATCATCGA
1 T-GCCGATGCCATGTCCCAAACATGGTCTTACACTAGC-ATCATCATCGA
* * * *
31886939 AGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATC-TCTA
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCA-TCATCATCGA
* *
31886985 TGCCGATGCCATGTCTCAGACATGGTCTTA
1 TGCCGATGCCATGTCCCAAACATGGTCTTA
31887015 TACTGGCACT
Statistics
Matches: 220, Mismatches: 30, Indels: 31
0.78 0.11 0.11
Matches are distributed among these distances:
43 2 0.01
44 31 0.14
45 1 0.00
46 13 0.06
47 59 0.27
48 23 0.10
49 88 0.40
50 3 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCATCATCATCGA
Found at i:31887445 original size:30 final size:30
Alignment explanation
Indices: 31887404--31887489 Score: 136
Period size: 30 Copynumber: 2.9 Consensus size: 30
31887394 ATTCACATCT
*
31887404 TTGGAAAAATGACCATTTTGCCCCTAGACC
1 TTGGCAAAATGACCATTTTGCCCCTAGACC
31887434 TTGGCAAAATGACCATTTTGCCCCTAGACC
1 TTGGCAAAATGACCATTTTGCCCCTAGACC
* * *
31887464 TTGACAAAATAACCATTTTACCCCTA
1 TTGGCAAAATGACCATTTTGCCCCTA
31887490 TGCTCAAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (30 bp):
TTGGCAAAATGACCATTTTGCCCCTAGACC
Found at i:31893427 original size:41 final size:41
Alignment explanation
Indices: 31893382--31893499 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
31893372 TGAAAGATAA
31893382 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
31893423 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
31893453 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
31893494 ATGTAG
1 ATGTAG
31893500 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:31893438 original size:71 final size:71
Alignment explanation
Indices: 31893350--31893513 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
31893340 GAGATGTATC
31893350 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
31893415 AGGACA
66 AGGACA
31893421 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
31893486 AGGACA
66 AGGACA
31893492 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
31893514 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:31900997 original size:41 final size:41
Alignment explanation
Indices: 31900952--31901069 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
31900942 TGAAAGATAA
31900952 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
31900993 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
31901023 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
31901064 ATGTAG
1 ATGTAG
31901070 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:31901008 original size:71 final size:71
Alignment explanation
Indices: 31900920--31901083 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
31900910 GAGATGTATC
31900920 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
31900985 AGGACA
66 AGGACA
31900991 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
31901056 AGGACA
66 AGGACA
31901062 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
31901084 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:31904644 original size:49 final size:48
Alignment explanation
Indices: 31904533--31904896 Score: 172
Period size: 47 Copynumber: 7.7 Consensus size: 48
31904523 GGGATAAGTT
31904533 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTAGCATCATCGAG
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTAGCATCATCGAG
* * ** * *
31904582 GCCGATGCTATGTCCCAAACATGGTCTTATACTGGCTCTCATATATACG-T
1 GCCGATGC-ATGTCCCAGACATGGTCTTACACTGGCTAGCAT-CAT-CGAG
* * * * * *
31904632 GCTGATGCATGTCCTAGACAT-GTCTTACACTAGC-A-AAAC-TCTTA-
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTAGCATCATC-GAG
* * * * * *
31904676 GCCGATGCGTGTCTCAAACA-CGTCTTACACTGGCT-GTCATAATCGAA
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTAG-CATCATCGAG
* * * * * *
31904723 GTCAATGCATGTCCCAGACAT-GTCTTATACTGGC-ACTCATC-TCTAT
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTA-GCATCATCGAG
* * ** * * * *
31904769 GCTGATGTCATGTCTCAGACATGGTCTTGTACTAGC-ACTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTA-GCATCATCGAG
* *
31904817 GCCAATGCATGTCCCAGACAT-GTCTTACACTGGC-A-C-TCAT-AATG
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTAGCATCATCGA-G
*
31904861 TCATCGATGCATGTCCCAGACAT-GTCTTACACTGGC
1 GC--CGATGCATGTCCCAGACATGGTCTTACACTGGC
31904897 ACACAAGAAA
Statistics
Matches: 238, Mismatches: 57, Indels: 43
0.70 0.17 0.13
Matches are distributed among these distances:
43 4 0.02
44 31 0.13
46 52 0.22
47 58 0.24
48 34 0.14
49 48 0.20
50 9 0.04
51 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.29
Consensus pattern (48 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTAGCATCATCGAG
Found at i:31904848 original size:141 final size:138
Alignment explanation
Indices: 31904541--31904898 Score: 361
Period size: 141 Copynumber: 2.6 Consensus size: 138
31904531 TTGCCGATGC
* * * *
31904541 CATGTCCCAGACATGGTCTTACACTGGCTAG-CATCATCGAGGCCGATGCTATGTCCCAAACATG
1 CATGTCCCAGACAT-GTCTTACACTGGCT-GTCATAATCGAAGTCGATGC-ATGTCCCAGACAT-
*
31904605 GTCTTATACTGGCTCTCATATATACGTGCTGATGCATGTCCTAGACATGTCTTACACTAGCAAAA
62 GTCTTATACTGGCACTCATATATAC-TGCTGATGCATGTCCTAGACATGTCTTACACTAGCAAAA
* *
31904670 CTCTTAGCCGATG
126 CTCGTAGCCAATG
* * * * *
31904683 CGTGTCTCAAACACGTCTTACACTGGCTGTCATAATCGAAGTCAATGCATGTCCCAGACATGTCT
1 CATGTCCCAGACATGTCTTACACTGGCTGTCATAATCGAAGTCGATGCATGTCCCAGACATGTCT
* * **
31904748 TATACTGGCACTCATCTCTA-TGCTGATGTCATGT-CTCAGACATGGTCTTGTACTAGCACTCAT
66 TATACTGGCACTCATATATACTGCTGATG-CATGTCCT-AGACAT-GTCTTACACTAGCA---A-
*
31904811 AA-T-GTGGCCAATG
124 AACTCGTAGCCAATG
** *
31904824 CATGTCCCAGACATGTCTTACACTGGCACTCATAAT-GTCA-TCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTGGCTGTCATAATCG-AAGTCGATGCATGTCCCAGACATGTC
*
31904887 TTACACTGGCAC
65 TTATACTGGCAC
31904899 ACAAGAAATA
Statistics
Matches: 181, Mismatches: 26, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
137 10 0.06
138 11 0.06
139 33 0.18
140 47 0.26
141 66 0.36
142 12 0.07
143 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (138 bp):
CATGTCCCAGACATGTCTTACACTGGCTGTCATAATCGAAGTCGATGCATGTCCCAGACATGTCT
TATACTGGCACTCATATATACTGCTGATGCATGTCCTAGACATGTCTTACACTAGCAAAACTCGT
AGCCAATG
Found at i:31908428 original size:48 final size:48
Alignment explanation
Indices: 31908339--31908448 Score: 114
Period size: 48 Copynumber: 2.3 Consensus size: 48
31908329 TCATTAACAA
* * ** *
31908339 GATCCCGTGTAAGACCATGATTGGGACATGGCATCGACATCGATACGT
1 GATCTCGTGTAAGACCATAACAGGGACATGGCATCGACATCGATAAGT
* * *
31908387 GATCTCGTGTAAGACCATAACAGGGATATGGCTTCCG-CATCGTTAAGT
1 GATCTCGTGTAAGACCATAACAGGGACATGGCAT-CGACATCGATAAGT
* *
31908435 GATTTCGTATAAGA
1 GATCTCGTGTAAGA
31908449 GTATGTCTAG
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
48 49 0.96
49 2 0.04
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.26
Consensus pattern (48 bp):
GATCTCGTGTAAGACCATAACAGGGACATGGCATCGACATCGATAAGT
Found at i:31909387 original size:45 final size:45
Alignment explanation
Indices: 31909323--31909412 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
31909313 TTAGGTTATA
31909323 GCATGGTTTAAAGTAAGGAAATGTTCTGAATGATTTTAATAAGTT
1 GCATGGTTTAAAGTAAGGAAATGTTCTGAATGATTTTAATAAGTT
* *
31909368 GCATGGTTTAAAGTAAGGAAATGTTTTGAATGATTTTAGTAAGTT
1 GCATGGTTTAAAGTAAGGAAATGTTCTGAATGATTTTAATAAGTT
31909413 ATAGAGACTC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.34, C:0.03, G:0.23, T:0.39
Consensus pattern (45 bp):
GCATGGTTTAAAGTAAGGAAATGTTCTGAATGATTTTAATAAGTT
Found at i:31918745 original size:31 final size:31
Alignment explanation
Indices: 31918710--31918769 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
31918700 GTTAATTTCT
31918710 AGCATGTGTATATTTATTTTATGAAATTACC
1 AGCATGTGTATATTTATTTTATGAAATTACC
31918741 AGCATGTGTATATTTATTTTATGAAATTA
1 AGCATGTGTATATTTATTTTATGAAATTA
31918770 TTCAAAGAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (31 bp):
AGCATGTGTATATTTATTTTATGAAATTACC
Found at i:31918957 original size:55 final size:52
Alignment explanation
Indices: 31918870--31919114 Score: 250
Period size: 55 Copynumber: 4.6 Consensus size: 52
31918860 CATTAGGGTT
*
31918870 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATT-GTAA-GTTTCTAAGGC
* * * *
31918925 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTG-TAAGTT--TCTAAGGC
* * *
31918980 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATT-GTAAGTTTC-TAAGGC
* *
31919033 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGTAAGTTTCTAAGGC
* *
31919082 AAGGATACCACGTAAGACCATGCCAAGTCATGG
1 AAGGATACCATGTAAGACCATGCCAAGACATGG
31919115 AAATGGTAAG
Statistics
Matches: 161, Mismatches: 20, Indels: 24
0.79 0.10 0.12
Matches are distributed among these distances:
49 30 0.19
52 7 0.04
53 40 0.25
54 12 0.07
55 67 0.42
56 5 0.03
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.21
Consensus pattern (52 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGTAAGTTTCTAAGGC
Found at i:31919076 original size:108 final size:110
Alignment explanation
Indices: 31918877--31919077 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
31918867 GTTAAGGATA
*
31918877 CCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
31918942 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * *
31918987 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
31919049 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
31919078 TCAAAAGGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.57
109 6 0.07
110 27 0.32
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:31919336 original size:16 final size:16
Alignment explanation
Indices: 31919315--31919345 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31919305 ATAAATTTGA
31919315 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
31919331 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
31919346 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:31926435 original size:55 final size:54
Alignment explanation
Indices: 31926347--31926602 Score: 271
Period size: 55 Copynumber: 4.8 Consensus size: 54
31926337 CGTTAGGGTT
* *
31926347 CAAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGGAAGGTTTCTAAGG
1 CAAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGG
* * * * *
31926402 CAAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGG
1 CAAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGG
* * *
31926457 CAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGG
1 C-AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGG
* *
31926510 CAAGGATACCATGTAAGACCATGTCAAGAAATGGCAA-TGGTAAGTTTC-AA--
1 CAAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGG
* *
31926560 -AAGGATACCACGTAAGACCATGCCAAGTCATGGCAA-TGGTAAG
1 CAAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
31926603 GTACCCGTGT
Statistics
Matches: 170, Mismatches: 24, Indels: 20
0.79 0.11 0.09
Matches are distributed among these distances:
49 39 0.23
52 7 0.04
53 40 0.24
54 11 0.06
55 69 0.41
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
CAAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGG
Found at i:31926554 original size:108 final size:110
Alignment explanation
Indices: 31926355--31926555 Score: 311
Period size: 108 Copynumber: 1.8 Consensus size: 110
31926345 TTCAAGGATA
*
31926355 CCATGTAAGACCATGCCAAGGCATGGCAATTGGGAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGGAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
* *
31926420 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGAAATGGCAATGATAAGTTACTATAAGGCAAAGGTC
*
31926465 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTG-A-G-TTCATAAGGCAAGGATACCATGTAA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGG-GAAGGTTTC-TAAGGCAAGGAAACCATGTAA
*
31926526 GACCATGTCAAGAAATGGCAATGGTAAGTT
64 GACCATGTCAAGAAATGGCAATGATAAGTT
31926556 TCAAAAGGAT
Statistics
Matches: 84, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
107 3 0.04
108 47 0.56
109 6 0.07
110 28 0.33
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGGAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGAAATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:31926815 original size:16 final size:16
Alignment explanation
Indices: 31926794--31926824 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31926784 ATAAATTTGA
31926794 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
31926810 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
31926825 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:31928921 original size:27 final size:26
Alignment explanation
Indices: 31928891--31928979 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 26
31928881 TGCCGCTTGT
* *
31928891 CAGATAGGGGTCACTAGTGGCACCTAC
1 CAGATAGGAGT-ACTAGTGGCGCCTAC
* *
31928918 CAGATAGGAGTACTCAGTGGTGCCTAT
1 CAGATAGGAGTACT-AGTGGCGCCTAC
* *
31928945 CAGATAGGAGTTACCAGTGACGCCTAC
1 CAGATAGGAG-TACTAGTGGCGCCTAC
31928972 CAGATAGG
1 CAGATAGG
31928980 CACCATCCCT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
26 3 0.06
27 46 0.88
28 3 0.06
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.20
Consensus pattern (26 bp):
CAGATAGGAGTACTAGTGGCGCCTAC
Found at i:31932811 original size:23 final size:23
Alignment explanation
Indices: 31932785--31932831 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
31932775 TAGATAAAAG
31932785 TTAGGATAACACATATAATTATA
1 TTAGGATAACACATATAATTATA
31932808 TTAGGATAACACATATAATTATA
1 TTAGGATAACACATATAATTATA
31932831 T
1 T
31932832 CTAATGCACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.36
Consensus pattern (23 bp):
TTAGGATAACACATATAATTATA
Found at i:31944072 original size:39 final size:39
Alignment explanation
Indices: 31944018--31944093 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
31944008 TTTCCCTTAG
*
31944018 TAAAAAACTGCAGGCAATCAAATAAATATCTTATCTTCC
1 TAAAAAACTGCAGGCAATCAAATAAAAATCTTATCTTCC
*
31944057 TAAAAAAGTGCAGGCAATCAAATAAAAATCTTATCTT
1 TAAAAAACTGCAGGCAATCAAATAAAAATCTTATCTT
31944094 ACGATCATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.46, C:0.17, G:0.09, T:0.28
Consensus pattern (39 bp):
TAAAAAACTGCAGGCAATCAAATAAAAATCTTATCTTCC
Found at i:31950982 original size:64 final size:65
Alignment explanation
Indices: 31950874--31950995 Score: 174
Period size: 64 Copynumber: 1.9 Consensus size: 65
31950864 AATACTTTTT
* * * *
31950874 AATATTTTTCACATATACATATTTATAATCTAATTTTTAATTTCTTGATAAATTATATATACATT
1 AATATTTTTCACATATA-ATATTTATAACCTAAGTTTTAATTTCTTCAAAAATTATATATACATT
31950939 A
65 A
* *
31950940 AATATTTTTCACATAT-ATATTTATAGCCTAAGTTTTAGTTTCTTCAAAAATTATAT
1 AATATTTTTCACATATAATATTTATAACCTAAGTTTTAATTTCTTCAAAAATTATAT
31950996 TTTTTTGTCA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
64 34 0.68
66 16 0.32
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (65 bp):
AATATTTTTCACATATAATATTTATAACCTAAGTTTTAATTTCTTCAAAAATTATATATACATTA
Done.