Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_013816
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 559045
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Found at i:201 original size:19 final size:19
Alignment explanation
Indices: 173--220 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
163 CGGTAACTAG
*
173 AGATTGAATAATAGAAGCC
1 AGATTCAATAATAGAAGCC
*
192 TGATTCAATAATAGAAGCC
1 AGATTCAATAATAGAAGCC
211 AGATTCAATA
1 AGATTCAATA
221 TCATAAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (19 bp):
AGATTCAATAATAGAAGCC
Left flanking sequence: Indices 1 -- 172
GGATACGAAATCTAGAGGCGGCAGGTAAACTAGGGAAACAGAAACTATTGTTTTTGGTGAATTAT
CAGTGTGCAGATGAATTTCATCCACTGCTATTGAAGAAGCTTTTAGAGGGATATCTTGTCTTGTC
GGACTAAGAGCTCTTATCTCTTTCTTTTCCCACGGTAACTAG
Right flanking sequence: Indices 221 -- 720
TCATAAGAAAATAGAGATTGTAGCGTAGAGTCAGGCTATCCCATGTTTGCAATAACAGCTTTGGG
ATCTTTCCTGTTAATGATGAATAGCTTGCCTCAACAGAGAATCAGAATTCTTTTTATTCGGTATA
ACAACCTTAAAAACGAATCGATCTAGATGCCCCGCTCTTGCCATCTTTGATGGAATTGAATCATC
AACTGACTTACTTGAGGAATAAAAAAATCTGCAGCTTTCGATTCTTGTCTATCGGATTCTATTGA
GAAGAAGGGACAACCATCCATCCTCCCCGAAACTAGTTTAGTGCCTGAACGAGATTGGTGGCACT
TATGACGAGAAAACAAACTCTTTCTTCTGTTCAAAAGCTAGTAGTGCCGTAGTGCCAATCTACTC
CGAAGAACAAGCTTCTTTGCAAAACTACTTTCTTCTACGGAGCTACCTCCGTCTCACTCTTGTAC
CGAATGCTACCTGGCATAACATCCTTACTTAAATATCTTCCGCTC
Found at i:28504 original size:11 final size:11
Alignment explanation
Indices: 28488--28515 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
28478 GTCGTCATGG
28488 GAAAGAAATAA
1 GAAAGAAATAA
28499 GAAAGAAATAA
1 GAAAGAAATAA
28510 GAAAGA
1 GAAAGA
28516 GATTATTCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.07
Consensus pattern (11 bp):
GAAAGAAATAA
Left flanking sequence: Indices 27988 -- 28487
TGAATTACAGGAAATTAAGTGGTTGACTTGGACAGCAGGCGGGTTACACGTTCCACTGTGCCGAG
ATGTGAGGTGCAGGTGGTGATGATCACCCCGGGGTATGCGCTAGCGCCCTTGACGGGCACTCCAG
GATCCGCCTACGCTCGTGAAAACCCAGGTTGGTCCTCCGACCAGATGTGTGGATAACGAGGCCAC
CTTCACAACCTTCTCCCTTCTATCTTTATCCAAAGTCAGGTAGGGCGGTTCGCTTGAGTCGCTCA
ACCGTCCCTTTGCCCGGTGCTCATGACGCGCTACGGAACCTCCACCGTGCTAGCGGCATAGGAGC
CTACTCAGCGTCAGCGGCTTCGTGCCGCACTGGAGTGATCCAATATGTGGTTCCGCACGTTCCAC
CACTTCTCCGTTCATTTCCAATACTGATCGTGAAACACCATGAGCAGCAGGATGTTGAGGTCCGG
AATTCGAAGTGAAATTCTTGATTTGCCCGTTCCTAGTCGTCATGG
Right flanking sequence: Indices 28516 -- 29015
GATTATTCCCCTAGAGCTTGTCCAGTACCACCAGTACTCAAAATGCATCTCCGCGCGTCTACCTG
GCGCTTTTATTAGCCGCCTTGCATGCAAGCGAAGCGCTATTGGCGGCAATTAATAGCTCACTGAG
CGATGATTGATGCAGTCAGTCAGTGCCCTCGATTATTCCTGATAGAAGGATCATGGCGCCCCGGA
ACGGAAGCATTCCATCCAGCAGCAGCATCTCCTTCAACCACGCGAGGACAAAACTGATGTTAGCT
ACATTCGAGCGTTCACCGCACAGAGGCGATCTCGAACACTACCTATGATAATAAATCCAAAGGAA
AGGAACAAGCAACGGATTGAGCGCACTAGCGCGAAAGAACAAGCTGCTTCTTGTTTAGGGTCTTG
ACTCTTGAGTCTGAGAGGGAGAAGGCTTCCCGCGTGGGCGGATTAGCAATCCCTAGTCTTCCATA
ACGCGTATTGGACTTATGTTTCCTCCTCCTCGAAGATGATGGATC
Found at i:40724 original size:22 final size:23
Alignment explanation
Indices: 40699--40743 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
40689 CCCACCTGAG
40699 CATTCTACTT-CCCCCTATTGGA
1 CATTCTACTTCCCCCCTATTGGA
*
40721 CATTCTCCTTCCCCCCTATTGGA
1 CATTCTACTTCCCCCCTATTGGA
40744 TTACTAGTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.16, C:0.40, G:0.09, T:0.36
Consensus pattern (23 bp):
CATTCTACTTCCCCCCTATTGGA
Left flanking sequence: Indices 40199 -- 40698
CTAATTTATTTTTGCACTATGTTGAGATTCTTTTCTTGCCGGTGTGGTAGATAAGAATGCGCCGA
ATAAGTGTCAGGATTCCCATCCATCACAGAAATCGATCATTCCTTGGATTCCTCACTTTAGGTAC
CTATTATACTCGCGCTTCTTTCTCTTTCTATCTTGCCGGCTTTGGTTTCAGTCAGAGGATGGGTG
AGTCGTAAGGGGATTGGAATGGGAAACTTTGGGAGTCCTAACTCTTTCCTAGGAGTCAAAGTTAC
CTACCGAAGGAGCCATAGTAATGAGAAGTGGGGACTGGGCCTGCCTTGTTGGAACTCTATTTTCC
CTTTCTCTGGAGCTTCCACATAAGATAAGATTCAAGAGCTATAAGCTCACCTTGGGGTTCCTTAT
AAGCACTTGTCTTCTTTCTAACATCACCAGGTGTCAACCCAACCGGTTCTCTTCGTCTATCCTTC
AGTACGAGTTATCCGGTGCTTTGGCTTGGATTCCTCCCACCTGAG
Right flanking sequence: Indices 40744 -- 41243
TTACTAGTCTCGCCCTCTAGTTACATACTATCTTCTTACGTTACATACTATCTTCTTACAGTGGA
TCACCATCTTGACAGCAACCTTTCCTACGTTCATGCGGGAGCCTTGATTTAGTACTCGGGCAATG
CCTATTGCTCTGTTGCCTAGAAGTCTCATACATATGTATAGGATCTCATCCATATTATCTTATAG
GAAGAGTAGTAACTACCTGCATTCGTATATTCCAAAAAAGAAGAAAGAATTCAACCTAGTAGAGT
ATAACTTTGCTTGCCTAGCCTTTCAAAGCTATTGTTTGATTCTAGAAGGACCTTAAAGTATTGTC
ACTGTTCCACTGGAATAAAAATATTTGTCAGTGGTCAGTTTAGTTCGAACAACAAAGTGAGTGGC
TGGACTTCTAGTTTTGAACTCTGGCTAGAGTAACCAACCATCGAACCATCTCCAGGTCACAGTCA
CCCACCAGGAAGGCATAGAGGCAAGACAGAAAGTCAAGACAGCAG
Found at i:40786 original size:20 final size:20
Alignment explanation
Indices: 40763--40802 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
40753 TCGCCCTCTA
40763 GTTACATACTATCTTCTTAC
1 GTTACATACTATCTTCTTAC
40783 GTTACATACTATCTTCTTAC
1 GTTACATACTATCTTCTTAC
40803 AGTGGATCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.25, G:0.05, T:0.45
Consensus pattern (20 bp):
GTTACATACTATCTTCTTAC
Left flanking sequence: Indices 40263 -- 40762
AATAAGTGTCAGGATTCCCATCCATCACAGAAATCGATCATTCCTTGGATTCCTCACTTTAGGTA
CCTATTATACTCGCGCTTCTTTCTCTTTCTATCTTGCCGGCTTTGGTTTCAGTCAGAGGATGGGT
GAGTCGTAAGGGGATTGGAATGGGAAACTTTGGGAGTCCTAACTCTTTCCTAGGAGTCAAAGTTA
CCTACCGAAGGAGCCATAGTAATGAGAAGTGGGGACTGGGCCTGCCTTGTTGGAACTCTATTTTC
CCTTTCTCTGGAGCTTCCACATAAGATAAGATTCAAGAGCTATAAGCTCACCTTGGGGTTCCTTA
TAAGCACTTGTCTTCTTTCTAACATCACCAGGTGTCAACCCAACCGGTTCTCTTCGTCTATCCTT
CAGTACGAGTTATCCGGTGCTTTGGCTTGGATTCCTCCCACCTGAGCATTCTACTTCCCCCTATT
GGACATTCTCCTTCCCCCCTATTGGATTACTAGTCTCGCCCTCTA
Right flanking sequence: Indices 40803 -- 41302
AGTGGATCACCATCTTGACAGCAACCTTTCCTACGTTCATGCGGGAGCCTTGATTTAGTACTCGG
GCAATGCCTATTGCTCTGTTGCCTAGAAGTCTCATACATATGTATAGGATCTCATCCATATTATC
TTATAGGAAGAGTAGTAACTACCTGCATTCGTATATTCCAAAAAAGAAGAAAGAATTCAACCTAG
TAGAGTATAACTTTGCTTGCCTAGCCTTTCAAAGCTATTGTTTGATTCTAGAAGGACCTTAAAGT
ATTGTCACTGTTCCACTGGAATAAAAATATTTGTCAGTGGTCAGTTTAGTTCGAACAACAAAGTG
AGTGGCTGGACTTCTAGTTTTGAACTCTGGCTAGAGTAACCAACCATCGAACCATCTCCAGGTCA
CAGTCACCCACCAGGAAGGCATAGAGGCAAGACAGAAAGTCAAGACAGCAGGAATCGAACCTAGT
CATAGTAAAATGATCATTCAAAGTAGACTTTTGTCATAGGGCAAA
Found at i:68439 original size:36 final size:36
Alignment explanation
Indices: 68398--68466 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
68388 GGTTCGTGCA
68398 CAGATTTACGTTCCAGAATCCCTGTTTTCGTGATCG
1 CAGATTTACGTTCCAGAATCCCTGTTTTCGTGATCG
68434 CAGATTTACGTTCCAGAATCCCTGTTTTCGTGA
1 CAGATTTACGTTCCAGAATCCCTGTTTTCGTGA
68467 CCGAATGACG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.36
Consensus pattern (36 bp):
CAGATTTACGTTCCAGAATCCCTGTTTTCGTGATCG
Left flanking sequence: Indices 67898 -- 68397
ATTCCTTATATTCTCCTCGTCCAGGGGACTCTTTAAGTTGATTTGTTCCCCTACTCTCCGGTAAA
GCTCCTCAGAAATTGCTTTTAGGAAAGATGCGTGTTCGGCCGCATAAGCCAGATAAATTGAAGAA
GAAGGGGCAGCCCCACCCCCTGTAGAGTTACTCGGGCCAGCCTCCCCTTGTAGCTGGGGTAGACT
GGTAGTAGTTTCACCTATAAAATTTTGCATTTGTGGAATGTAGGTTGGAACTACCTGTTCCGGGA
TTGTAGAAAGGAAGGGCTCCACAGTTGAAACTACCTGTTCTGGCATTTCCGAAAGGAAAGGCAGG
ACAGCTAAAAATAATTCGCTGTCAGCCGCAGTATAGATACTTCGAGTTTTGGTAACTCTGGAAGT
AGCGCTACAGATTGAAGTTTTTCTGCCCCCGATTATAAGTTCTCGTCGACCACGGCCTATAGGAA
CCAGGCTATCCACTGCTTTTAAGCCTGTTTGCATGGGTTCGTGCA
Right flanking sequence: Indices 68467 -- 68966
CCGAATGACGAAATAGATATACGAACTGTATAGGATCATTCGCTGGGATGGGATAAGTGATTCTT
TTATGGGATTCCCCTGGGATCGTGGAATCAACTAAGAATGCAATAGGTATTTGTGATCGAGCAGC
TTCCAGTATGACCGAAGACTTTCTATCTGCATTCAGAATAACCGCACAATCGGGTTGTTGGTTCA
ACCCAAAATTTATCTTTTTCGTTCTTAAACGGTAATTTTTTTTTTTAGCCAAATAATTGCTAAAA
AAAGTCCCGATCTTCCATTGAGAATCATTGATACAGCTCGCCATTTTTTCCAATATCTCACATCG
AAATAAATGATTGGTCTTTAAAAGGAAGGAACGGCATTTTTTACGAATGGGAGATCCTATAAAAT
GAAGAGCGGTTCGTAAACAAATCAGTGTCTTGTCTGAATCGAGAATAGCAATTCCACTTCTGGAA
CCACAGATATAGACATTGAAATGGTGAGCATCTACCCGACGCCCG
Found at i:120739 original size:25 final size:25
Alignment explanation
Indices: 120705--120752 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
120695 ATTTTTTTCT
120705 TTATTATATATACCATTCATATTTA
1 TTATTATATATACCATTCATATTTA
*
120730 TTATTCTATATACCATTCATATT
1 TTATTATATATACCATTCATATT
120753 AAAGTAAGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.52
Consensus pattern (25 bp):
TTATTATATATACCATTCATATTTA
Left flanking sequence: Indices 120205 -- 120704
GGATATTGGATAGGCTAAGCTAGGTGTAGCCCGCTTTCTCTACGGTTTTGCTGAACTTGTCAAGC
CCGGGGGGCCTTTAGGGAATTTTGGAGAATGATAGATTCTAGGATAACACTTTCTAAGGTTGAAA
GGGATGGCATGGGTTAAGCATCTGACTTTGGACCTTCGAGCTAAGTTATTTAATAAGGTCCTACT
AATTAATTGGAAATCCTTTTTACAAATCTCCTCCTCAGAGCGCCCTGTAACCTTACTTTTTCTGA
ATGGTACACCTTATTTAAGACATTCAGAATAGAAGAAGAGCAGTCGTCGATTGATTGAAAGTGGA
TTGACGGCATTCATCAGTTGATTGAAAATGGACTTTTCTTTTATGATCGAGCGAGGTCCCTTTTG
GGCTTAAAAGTCCTTTGAGCCGTGGAATCCCTTTTGTCTTGATTTAGGAGAATAGGCGCATTGAT
TAGGTTACGTGGTTTGAGCAATCTGCAGGAAGTTTATTTTTTTCT
Right flanking sequence: Indices 120753 -- 121252
AAAGTAAGACGGATAGGGCATATTTGACTAGGAAGCAAGCAAAGCTAGTCCCTCCATACCAGCTA
GCAGTCTTGTTTAGGGAGTCTCCTTCTTTACTGAGTAAGGTTCCCGGGTGCCTATGCGATTATTA
AGGCAGGGTGCTACTGTACCAGTAGTAGAGTGGCTTGAATCAAATCGTTTGTCTAGAGAGGGTGT
AGCGATAACCAAAGCTGACTGTACTAGAAACTTTAGATCCTGTATAGGCAACTGGCCTTAGAATA
GTGTCTTGAACTACAGGACAGGAACGACCCATAATCATTGACGAAGAAGGCTTGGAAAAGGATAA
AACATATTGAAGAGAAGCTTTCACAAAGGCCAATAGCCGATAGCTGATGTCACTAGCCTTAACTT
CTTTATCTACTTGAAAGCTGATGAGAGTACGGCTTTCTTAAAGGAAGTGTCCGTCCCTATGATAT
TATATCATAGTAAAGAGCCCTTGGATTCGCCTTTTTCCGTAAGCC
Found at i:129880 original size:19 final size:19
Alignment explanation
Indices: 129844--129883 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
129834 GGGTTTGAGC
**
129844 TTCTTTGGCAACTTAGCTA
1 TTCTTTGGCAACAGAGCTA
129863 TTCTTTGGCAACAGAGCTA
1 TTCTTTGGCAACAGAGCTA
129882 TT
1 TT
129884 GCAATAGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (19 bp):
TTCTTTGGCAACAGAGCTA
Left flanking sequence: Indices 129344 -- 129843
ATAGCTTGTGCGTTGGCCCAAAGAAGCCCTGGGTAAAGCTCGATTAGTACATAAAAAAAGGACCC
TCCCCGGGGCGGAGGAAACGGCAACCCTACTGCATTGGAACATCGTCTCCTCACCATCTCCCTCC
CCATCGTCTCCTTCTTCACTTCCCCGGAACTGCACATCAGGATTCTTCAATCCTTCTATCTGGCC
TCCGTACCCGTAGTGGAGTACCTTGCTACTTTCAATATTCAAGTCATTTTCATTGTTTGTTTTTA
GTTTTGTTGTGGAGAAAGAGGGCTACTTAGGAAGCAAGGTAACTCTATCACCTTCCGTCCGTCTT
TTCTTGAACATTTGACTTCGCGAATCCTAGCTTTTATAAGGGAAAACCAACATCACGTAAGATGA
GGCCTATCCTTCCCGAAAGCGTCGGCTAGTTCTATTCTATTCTAACTTGACTGACTTCCTCTAAA
AGAAGAGTTAACACGGTCGAAGGTCAAAGCAGAAAGGGTTTGAGC
Right flanking sequence: Indices 129884 -- 130383
GCAATAGAGAAATCGAGGGAAATAGGCTTAACCTACAGAGAAAGAGTGTAAGGAAAGAATGCAGA
AAAAGATAGAAAAAGTGAGTGAAACAAATGAAATCAGAGTAAGAAATCTCACAAATAGTAGGTTT
TACCGGACTAGAACAAACGAATTAGCTTGTTTTAACTAAAAAGCACAGTTGAGCAGGAACGAAGT
GTGAACATAGGCACAAAAACAACGTTTTGGTGATCCTGTGTAGTTGCTTGCTTTCCGCTTGAGCT
ACTTTCACTGTGAAGAAGAGGACTTCATCTCTTCACTTACCCAAGGAACTTGGAAATAACGCGTC
TGGCTTGGAAAGCTAGTTAGGGATATTCGATAGAGGAAGGACCCGTTTCGAGTAGTGAACGCACC
AAGAAAAGCCTTTTATTTTAAGCCATGCTTGGTAACGCACATGTCCTACTCTACCTGCATCGGGA
CTGGTGAGAGCCGGCGATGCACGGAATTTTGGAAACGCTCTACTT
Found at i:131169 original size:16 final size:16
Alignment explanation
Indices: 131144--131176 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
131134 ACTGATGGAC
131144 TGACTGAAGTGGCTAT
1 TGACTGAAGTGGCTAT
*
131160 TGACTTAAGTGGCTAT
1 TGACTGAAGTGGCTAT
131176 T
1 T
131177 TCCTGATTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.36
Consensus pattern (16 bp):
TGACTGAAGTGGCTAT
Left flanking sequence: Indices 130644 -- 131143
CTAAGGGCGGAAGAGGAAAGTACCAAGGTGCACTAGGTGAGAAGAACTTTTTTCGCTTTTTTATC
GGAATTTGACTCATTTTAGTATAGAAAAACACCATTCTATCCGACCTAGTAGGAAAAGTTACTAT
TTTGCATTCCTTAGGGAAAGTGGCATTTTCAAGGGTCATTTTTGAAAAGCATTTGTCCCAACCAT
GTGCAAAAGTAAAGAAAATTGCTTCTCCCTCGTAAATGGCTCCAAAATCTGCTCCATTTTTGAAA
ACTTGATAGCCAGCATGGGGCAATTTGGTAGTTTTTTCATTTTGCTTGTAAATCGGCTCTTTTTG
GCATCCCAGTTCTGAACTTTTTCATCTCGCCTAGTGGAACTTGAGACTTTTTCCAGTATCTTTAT
CCAGCAGCAGGACTTTCACTACTTTCCCAAGTAAAGCTAGTGTTAAGAGACTGGATTGTAGAAGT
GTTGACTGACTTGACTGGAAATATAATATGGAAAGACTGATGGAC
Right flanking sequence: Indices 131177 -- 131676
TCCTGATTCCGATATGGCGTCCTGAATCCGATATTGCTTGATTGTCTGTTGATGCCCAGCCGAAG
AAGTGACTTGCTTAACGCAGCAATTTCTGTTTTCTTGTGCTCTCCACCTCCGCTTGACACTCTCG
TAGTAGATCATAAGAGAAGTATTCTTTCAAGAAATTCGTATAGAAAGATGGACTAGCTCGAGAAC
AAGCAACGGATTGAGCGCACTAGCGCGAAAGCGTTAGCACGCGCATCCGTTTTCTTGCTCCTTGG
CTTCAAACAATCGATTGAATCTGGATTCCTTTGCTTATCCTTCCTGGCTATAGTCTCTCTTGTGC
CTTCGGCAGTTCAGTTAAAGATTTCTGTATCAGCAGTTTGTTTCCCCATTTGCTCAAAGAACGCA
TAAAACCTGTTCCCTCACCGTATCAAAAGATCAAGCGGAAGAGTCCTCTTCTTCAAGAAGAGTTT
TTCATTTCACTCTTCCGCAGCAATGCCCGGGCAAGAAAACAATAT
Found at i:188963 original size:19 final size:19
Alignment explanation
Indices: 188935--188982 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
188925 CGGTAACTAG
*
188935 AGATTGAATAATAGAAGCC
1 AGATTCAATAATAGAAGCC
*
188954 TGATTCAATAATAGAAGCC
1 AGATTCAATAATAGAAGCC
188973 AGATTCAATA
1 AGATTCAATA
188983 TCATAAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (19 bp):
AGATTCAATAATAGAAGCC
Left flanking sequence: Indices 188435 -- 188934
GAAATTGTCTCTATTCATATGTATGAAATACATATATGAAATACGTATGTGGAGTTCCCGAGAAT
TTCATGTGATTTAGTAAACAGAATATAGATTCCATAATTGCTAGATCGATCTGTAGGGATTGATG
AAGAGTGAGCTGATAATGGAATTTTTCTTCGATAAACAGGAAACTTAAGATTAAGATGCTCCGGA
ATGGAAATGAGGGAATGTCCACAATACCCGGATTTAGTCAGATCCAATTCGAGGGATTTTGTAGG
TTCATTAATCAAGGCTTGGCAGAAGAACTTGAGAAGTTTCCAACAATTAAAGATCCAGATCACGG
AATGGATACGAAATCTAGAGGCGGCAGGTAAACTAGGGAAACAGAAACTATTGTTTTTGGTGAAT
TATCAGTGTGCAGATGAATTTCATCCACTGCTATTGAAGAAGCTTTTAGAGGGATATCTTGTCTT
GTCGGACTAAGAGCTCTTATCTCTTTCTTTTCCCACGGTAACTAG
Right flanking sequence: Indices 188983 -- 189482
TCATAAGAAAATAGAGATTGTAGCGTAGAGTCAGGCTATCCCATGTTTGCAATAACAGCTTTGGG
ATCTTTCCTGTTAATGATGAATAGCTTGCCTCAACAGAGAATCAGAATTCTTTTTATTCGGTATA
ACAACCTTAAAAACGAATCGATCTAGATGCCCCGCTCTTGCCATCTTTGATGGAATTGAATCATC
AACTGACTTACTTGAGGAATAAAAAAATCTGCAGCTTTCGATTCTTGTCTATCGGATTCTATTGA
GAAGAAGGGACAACCATCCATCCTCCCCGAAACTAGTTTAGTGCCTGAACGAGATTGGTGGCACT
TATGACGAGAAAACAAACTCTTTCTTCTGTTCAAAAGCTAGTAGTGCCGTAGTGCCAATCTACTC
CGAAGAACAAGCTTCTTTGCAAAACTACTTTCTTCTACGGAGCTACCTCCGTCTCACTCTTGTAC
CGAATGCTACCTGGCATAACATCCTTACTTAAATATCTTCCGCTC
Found at i:217265 original size:11 final size:11
Alignment explanation
Indices: 217249--217276 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
217239 GTCGTCATGG
217249 GAAAGAAATAA
1 GAAAGAAATAA
217260 GAAAGAAATAA
1 GAAAGAAATAA
217271 GAAAGA
1 GAAAGA
217277 GATTATTCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.07
Consensus pattern (11 bp):
GAAAGAAATAA
Left flanking sequence: Indices 216749 -- 217248
TGAATTACAGGAAATTAAGTGGTTGACTTGGACAGCAGGCGGGTTACACGTTCCACTGTGCCGAG
ATGTGAGGTGCAGGTGGTGATGATCACCCCGGGGTATGCGCTAGCGCCCTTGACGGGCACTCCAG
GATCCGCCTACGCTCGTGAAAACCCAGGTTGGTCCTCCGACCAGATGTGTGGATAACGAGGCCAC
CTTCACAACCTTCTCCCTTCTATCTTTATCCAAAGTCAGGTAGGGCGGTTCGCTTGAGTCGCTCA
ACCGTCCCTTTGCCCGGTGCTCATGACGCGCTACGGAACCTCCACCGTGCTAGCGGCATAGGAGC
CTACTCAGCGTCAGCGGCTTCGTGCCGCACTGGAGTGATCCAATATGTGGTTCCGCACGTTCCAC
CACTTCTCCGTTCATTTCCAATACTGATCGTGAAACACCATGAGCAGCAGGATGTTGAGGTCCGG
AATTCGAAGTGAAATTCTTGATTTGCCCGTTCCTAGTCGTCATGG
Right flanking sequence: Indices 217277 -- 217776
GATTATTCCCCTAGAGCTTGTCCAGTACCACCAGTACTCAAAATGCATCTCCGCGCGTCTACCTG
GCGCTTTTATTAGCCGCCTTGCATGCAAGCGAAGCGCTATTGGCGGCAATTAATAGCTCACTGAG
CGATGATTGATGCAGTCAGTCAGTGCCCTCGATTATTCCTGATAGAAGGATCATGGCGCCCCGGA
ACGGAAGCATTCCATCCAGCAGCAGCATCTCCTTCAACCACGCGAGGACAAAACTGATGTTAGCT
ACATTCGAGCGTTCACCGCACAGAGGCGATCTCGAACACTACCTATGATAATAAATCCAAAGGAA
AGGAACAAGCAACGGATTGAGCGCACTAGCGCGAAAGAACAAGCTGCTTCTTGTTTAGGGTCTTG
ACTCTTGAGTCTGAGAGGGAGAAGGCTTCCCGCGTGGGCGGATTAGCAATCCCTAGTCTTCCATA
ACGCGTATTGGACTTATGTTTCCTCCTCCTCGAAGATGATGGATC
Found at i:229485 original size:22 final size:23
Alignment explanation
Indices: 229460--229504 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
229450 CCCACCTGAG
229460 CATTCTACTT-CCCCCTATTGGA
1 CATTCTACTTCCCCCCTATTGGA
*
229482 CATTCTCCTTCCCCCCTATTGGA
1 CATTCTACTTCCCCCCTATTGGA
229505 TTACTAGTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.16, C:0.40, G:0.09, T:0.36
Consensus pattern (23 bp):
CATTCTACTTCCCCCCTATTGGA
Left flanking sequence: Indices 228960 -- 229459
CTAATTTATTTTTGCACTATGTTGAGATTCTTTTCTTGCCGGTGTGGTAGATAAGAATGCGCCGA
ATAAGTGTCAGGATTCCCATCCATCACAGAAATCGATCATTCCTTGGATTCCTCACTTTAGGTAC
CTATTATACTCGCGCTTCTTTCTCTTTCTATCTTGCCGGCTTTGGTTTCAGTCAGAGGATGGGTG
AGTCGTAAGGGGATTGGAATGGGAAACTTTGGGAGTCCTAACTCTTTCCTAGGAGTCAAAGTTAC
CTACCGAAGGAGCCATAGTAATGAGAAGTGGGGACTGGGCCTGCCTTGTTGGAACTCTATTTTCC
CTTTCTCTGGAGCTTCCACATAAGATAAGATTCAAGAGCTATAAGCTCACCTTGGGGTTCCTTAT
AAGCACTTGTCTTCTTTCTAACATCACCAGGTGTCAACCCAACCGGTTCTCTTCGTCTATCCTTC
AGTACGAGTTATCCGGTGCTTTGGCTTGGATTCCTCCCACCTGAG
Right flanking sequence: Indices 229505 -- 230004
TTACTAGTCTCGCCCTCTAGTTACATACTATCTTCTTACGTTACATACTATCTTCTTACAGTGGA
TCACCATCTTGACAGCAACCTTTCCTACGTTCATGCGGGAGCCTTGATTTAGTACTCGGGCAATG
CCTATTGCTCTGTTGCCTAGAAGTCTCATACATATGTATAGGATCTCATCCATATTATCTTATAG
GAAGAGTAGTAACTACCTGCATTCGTATATTCCAAAAAAGAAGAAAGAATTCAACCTAGTAGAGT
ATAACTTTGCTTGCCTAGCCTTTCAAAGCTATTGTTTGATTCTAGAAGGACCTTAAAGTATTGTC
ACTGTTCCACTGGAATAAAAATATTTGTCAGTGGTCAGTTTAGTTCGAACAACAAAGTGAGTGGC
TGGACTTCTAGTTTTGAACTCTGGCTAGAGTAACCAACCATCGAACCATCTCCAGGTCACAGTCA
CCCACCAGGAAGGCATAGAGGCAAGACAGAAAGTCAAGACAGCAG
Found at i:229547 original size:20 final size:20
Alignment explanation
Indices: 229524--229563 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
229514 TCGCCCTCTA
229524 GTTACATACTATCTTCTTAC
1 GTTACATACTATCTTCTTAC
229544 GTTACATACTATCTTCTTAC
1 GTTACATACTATCTTCTTAC
229564 AGTGGATCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.25, G:0.05, T:0.45
Consensus pattern (20 bp):
GTTACATACTATCTTCTTAC
Left flanking sequence: Indices 229024 -- 229523
AATAAGTGTCAGGATTCCCATCCATCACAGAAATCGATCATTCCTTGGATTCCTCACTTTAGGTA
CCTATTATACTCGCGCTTCTTTCTCTTTCTATCTTGCCGGCTTTGGTTTCAGTCAGAGGATGGGT
GAGTCGTAAGGGGATTGGAATGGGAAACTTTGGGAGTCCTAACTCTTTCCTAGGAGTCAAAGTTA
CCTACCGAAGGAGCCATAGTAATGAGAAGTGGGGACTGGGCCTGCCTTGTTGGAACTCTATTTTC
CCTTTCTCTGGAGCTTCCACATAAGATAAGATTCAAGAGCTATAAGCTCACCTTGGGGTTCCTTA
TAAGCACTTGTCTTCTTTCTAACATCACCAGGTGTCAACCCAACCGGTTCTCTTCGTCTATCCTT
CAGTACGAGTTATCCGGTGCTTTGGCTTGGATTCCTCCCACCTGAGCATTCTACTTCCCCCTATT
GGACATTCTCCTTCCCCCCTATTGGATTACTAGTCTCGCCCTCTA
Right flanking sequence: Indices 229564 -- 230063
AGTGGATCACCATCTTGACAGCAACCTTTCCTACGTTCATGCGGGAGCCTTGATTTAGTACTCGG
GCAATGCCTATTGCTCTGTTGCCTAGAAGTCTCATACATATGTATAGGATCTCATCCATATTATC
TTATAGGAAGAGTAGTAACTACCTGCATTCGTATATTCCAAAAAAGAAGAAAGAATTCAACCTAG
TAGAGTATAACTTTGCTTGCCTAGCCTTTCAAAGCTATTGTTTGATTCTAGAAGGACCTTAAAGT
ATTGTCACTGTTCCACTGGAATAAAAATATTTGTCAGTGGTCAGTTTAGTTCGAACAACAAAGTG
AGTGGCTGGACTTCTAGTTTTGAACTCTGGCTAGAGTAACCAACCATCGAACCATCTCCAGGTCA
CAGTCACCCACCAGGAAGGCATAGAGGCAAGACAGAAAGTCAAGACAGCAGGAATCGAACCTAGT
CATAGTAAAATGATCATTCAAAGTAGACTTTTGTCATAGGGCAAA
Found at i:257198 original size:36 final size:36
Alignment explanation
Indices: 257157--257225 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
257147 GGTTCGTGCA
257157 CAGATTTACGTTCCAGAATCCCTGTTTTCGTGATCG
1 CAGATTTACGTTCCAGAATCCCTGTTTTCGTGATCG
257193 CAGATTTACGTTCCAGAATCCCTGTTTTCGTGA
1 CAGATTTACGTTCCAGAATCCCTGTTTTCGTGA
257226 CCGAATGACG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.36
Consensus pattern (36 bp):
CAGATTTACGTTCCAGAATCCCTGTTTTCGTGATCG
Left flanking sequence: Indices 256657 -- 257156
ATTCCTTATATTCTCCTCGTCCAGGGGACTCTTTAAGTTGATTTGTTCCCCTACTCTCCGGTAAA
GCTCCTCAGAAATTGCTTTTAGGAAAGATGCGTGTTCGGCCGCATAAGCCAGATAAATTGAAGAA
GAAGGGGCAGCCCCACCCCCTGTAGAGTTACTCGGGCCAGCCTCCCCTTGTAGCTGGGGTAGACT
GGTAGTAGTTTCACCTATAAAATTTTGCATTTGTGGAATGTAGGTTGGAACTACCTGTTCCGGGA
TTGTAGAAAGGAAGGGCTCCACAGTTGAAACTACCTGTTCTGGCATTTCCGAAAGGAAAGGCAGG
ACAGCTAAAAATAATTCGCTGTCAGCCGCAGTATAGATACTTCGAGTTTTGGTAACTCTGGAAGT
AGCGCTACAGATTGAAGTTTTTCTGCCCCCGATTATAAGTTCTCGTCGACCACGGCCTATAGGAA
CCAGGCTATCCACTGCTTTTAAGCCTGTTTGCATGGGTTCGTGCA
Right flanking sequence: Indices 257226 -- 257725
CCGAATGACGAAATAGATATACGAACTGTATAGGATCATTCGCTGGGATGGGATAAGTGATTCTT
TTATGGGATTCCCCTGGGATCGTGGAATCAACTAAGAATGCAATAGGTATTTGTGATCGAGCAGC
TTCCAGTATGACCGAAGACTTTCTATCTGCATTCAGAATAACCGCACAATCGGGTTGTTGGTTCA
ACCCAAAATTTATCTTTTTCGTTCTTAAACGGTAATTTTTTTTTTTAGCCAAATAATTGCTAAAA
AAAGTCCCGATCTTCCATTGAGAATCATTGATACAGCTCGCCATTTTTTCCAATATCTCACATCG
AAATAAATGATTGGTCTTTAAAAGGAAGGAACGGCATTTTTTACGAATGGGAGATCCTATAAAAT
GAAGAGCGGTTCGTAAACAAATCAGTGTCTTGTCTGAATCGAGAATAGCAATTCCACTTCTGGAA
CCACAGATATAGACATTGAAATGGTGAGCATCTACCCGACGCCCG
Found at i:296154 original size:13 final size:13
Alignment explanation
Indices: 296136--296161 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
296126 AAATAACAAA
296136 TAATATAGTTAAT
1 TAATATAGTTAAT
296149 TAATATAGTTAAT
1 TAATATAGTTAAT
296162 GGTTCCAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
TAATATAGTTAAT
Left flanking sequence: Indices 295636 -- 296135
TTAGCTCCGGCAGAACAGGTACTGCATTTCCTTAGTTGGATCCGCTCTTTCTCTCTCGTGCAGTT
GTTGCTTCCGGCTATTTATTCAGTCGTCAATCAGCATTGATCCGGGTAGTTAGTCAGTCTCTCTC
TTTTTTCCCGTCCTTCTCTATCTATGAAATTCCTAATTAAGGGCTTTCCAATATCTAAATGTTCA
TGCAAAGCAACAAACGAAATGCAAGAACTGTCACGCAGAAGTCACACAGTATGCTGATCGTTCTG
AAATGAGAAAAAGTATGGGATTGAATAAGAGATTCATACATAGAGATCTAAACTCATGGAAGGGC
CCGGCCAGCAAACGAGATCTCTTACATCCAAACAAGCACCGGATTGAGCGCACTAGCGCGAAAGC
GTTAGCACGCGCATCCGTTTTCTTGCTCGTTGACGATCGAGGAAAAAGGGATACAATACCCATTT
TAGAACCGTTCACTACTAACAAATAGAAAATATCAAAATAACAAA
Right flanking sequence: Indices 296162 -- 296661
GGTTCCAATTTGTCCTAAATTTTTCAGTCTGTGACTGGAAACCCTTTCTCTTTTCAATAGAAAGA
GAAGGTATTTAAGCAGTGTGTGTTTTGAGATACAATCAATCGAAGAGAATAAAACTGGGTCCAAT
AAAAAAACCGGAATGAATTTCTTCAAAGGGATTGGAAAGGGATAAGTACAAAGGGATTCGACGAA
AAAAAAGGGTTTAGTAATCCCCTCCTACGAACAATAATTAGTAAAATAATGTGGATGAATAAGAT
TTTTCTCGATTTTAGATCGGATTTGGCGGCATGGCCAAGCGGTAAGGCAGGGGACTGCAAATCCT
TTATCCCCAGTTCAAATCTGGGTGCCGCCTGATCAATAAAATACTTAGGCTTATAGTACTGATCC
AACTCGAAAAATTCGTACCCCGCATAAGTTGGGGCAAGAGAATAACTAGGCCCGGCGATACTTGA
TTTTGAGAACCCACAGTTCTTTCCTCAAACTAGGGTTTGTTTTGG
Found at i:329639 original size:14 final size:14
Alignment explanation
Indices: 329620--329647 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
329610 CTATTACTTA
329620 CTATTTCATCTAAG
1 CTATTTCATCTAAG
329634 CTATTTCATCTAAG
1 CTATTTCATCTAAG
329648 TGGAAGAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (14 bp):
CTATTTCATCTAAG
Left flanking sequence: Indices 329120 -- 329619
TCTTAGTCGTAGAATATTATTCTCGTCAGACTTGAACCTAACGAAAATAAGAAAGGTTCATAAAA
TTATTTCCCCTTTTCGCGGAAGGGCCTTAATCCGTATTTTCTCATTCATGTATCACAAATGGATC
TACAGTAGGATTTTTTTTTATTGCCGTACCAAAGTAATTAATTTTTAATAATGAATTTCTATCAA
ATAAAAGTCTTATTGCTGAAATCTATTTGATTTGATACATTGTGGTCGGTGGTGAATTAACAGAA
ACGGAAAGAGAGGGATTCGAACCCTCGGTAAACAAAAGCCTACATAGCAGTTCCAATGCTACGCC
TTGAACCGCTCGGCCATCTCTCCTACATAATCTTATTATTGACCAGAAACTGAGTGAATAGCGAG
TTTTCGTATCCCTGCAAGTACAGGTACAACCACAACCGCTCGGGGGTTCCATGGTTCTAAAGGAA
TAATTCCTTTCCCATTTCCATGGATACGAGCGGGACTATTACTTA
Right flanking sequence: Indices 329648 -- 330147
TGGAAGAATCCTGGATTTATTTTTACTAGGAATTCCGCTAACTCGAAAAGTTTTAGTTTGGTTTT
TCTCCCTCGAGAAAAAGAATGGAAGAATTCTTCTTATTCCATAATAACCCTAGAATTCTGTTTGC
ATAACGTACGCTACGCCATACAATCGAAATAGAAAATAGGGTAATGGGACAATTAATGACTTTGA
AAACGCGAAATAGCTGATGAGAGAAGTTGTTGTTGAGAAATAGGAAAGTGGAATGAAATCCAATC
TGATTCAAATATTGAATATCTCTCCTTGTCCAAGCAGAAGGAAAAGGAGACAATTTGAGCAGAAA
GCCCATATCTATTATCTATTTTTTAGAATCGAATTAGTCTGTTTTTTGCTATTTCGTACTGTATA
ATTCCTTTGTTTATGGGATCCCCGAGGGTTTCCAATCAATAGGGGCGTAGTATAGGTAGTTAGAG
AGTGTTGGCTCCCCTCTAACAGACAGGTTTGAAACTCGTGAAGTC
Found at i:331538 original size:16 final size:16
Alignment explanation
Indices: 331517--331563 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
331507 GTACCCTTTT
*
331517 AATACCATG-CTATTTC
1 AATACC-TGACTATTTA
331533 AATACCTGACTATTTA
1 AATACCTGACTATTTA
*
331549 AATAGCTGACT-TTTA
1 AATACCTGACTATTTA
331564 GGCTTGCACT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 6 0.21
16 22 0.79
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (16 bp):
AATACCTGACTATTTA
Left flanking sequence: Indices 331017 -- 331516
TTTTAGAAGACCCTACCTACGATGTAGACCTCAAACTCAAGCCCAGTAGATAGACCTCACGAAGG
ATTTTGCTGCGAGAACGCCTTACCCAAGCGCCAGTGTCCGGTTCCTCGAAAGAAGCAAGAAATCT
TTCATACGCCTATTCAAGAGATACCATCCTTGACGTGTTGTTGGGTGATACGTATAACCGGGTAC
GACTTACAACGTTTGGATACCAGATTCAGAGACATTTCATTACTGTTCTGAATATACAAGGCAAT
GTTTCAAGACTGACATTCAATGGGAAAGACCAACATAGTTAAGTTGGTAATAGGTCATAGGTAAC
CAAATACATAGATAGTACTTCTATATCGTTCGTGCAGAAAAAAGAGTATCCTTAGGGTACTAATT
AGATAAAATATATTATCCCCCATACTTTTAGTAGAAGGTTGCATTTCATATCCGGTGAGACAAGA
AAAGGCCTTCGGTACTATTATAGTATAGAAGTTCGGTACCCTTTT
Right flanking sequence: Indices 331564 -- 332063
GGCTTGCACTATCGATCGAATGACGGACGACTATAAAAATAGAATCAGAGGATTGCTTACCCTTC
TTACTTTCTATCGGTTCTATCTGATCTTGTCTTTCCTACGAGTATACATGCAGCTGGCTTTTTTG
GTAATCTGACCTTTCCTTCCTTCCCGCTAGCAACAAGCAACCGATTTCACTCACAACTCTTATTG
CAGGGATCTCCTACACTACTGGCACTTGGTAGCAAGGCGCTACGCGTACGAAAACCACCCACTAT
CAGAAGATGGATATATAGCGGTACTAGGGCGGAGCCCCCTCCTTAGATTCCCAATCGGCATCATT
GATGAATCACCTATCCAACATCCTTAAACAAAGATTGGCCCCCCCCGAATTGGGGGAAGCCGTAG
GTATTATTGCGGTTCAATCTATTGAAGAGCCTGGCACTCAACTAACATTAAGAACTTATCATACA
GGTGGTGGATTCACAGGGGGTACTGCTGACCTTGTACGACCCCCC
Found at i:341459 original size:23 final size:23
Alignment explanation
Indices: 341433--341480 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
341423 TCATAGTTGT
*
341433 TCTATTCAATCCAATCATTCCTA
1 TCTATTCAATCCAATCAATCCTA
*
341456 TCTATTTAATCCAATCAATCCTA
1 TCTATTCAATCCAATCAATCCTA
341479 TC
1 TC
341481 ATAGTATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (23 bp):
TCTATTCAATCCAATCAATCCTA
Left flanking sequence: Indices 340933 -- 341432
ATAGAAAAGCACATCAATGGAATTTCTTGAAGAAAATAGATAAAATGAAATGGAATTACAGAACA
AAACAGTGATGATTGAAGGAATTGGACAAAACCAACGATTACTGCGAATGGAAGAAATGAAAGTT
CAGATCGATCTAATCCTCGGCTCCACGAAGCGAAGTATGTTCAAATCCACGGAGGGACTTGAATT
ATTACTTCTATTTACTTGATTTGCTGGGGAAGAAAATCATTAAAATACCACTAAGGCCGGGCAAG
TGCAAGTCCCGATAACGGGAAGAAATGCCTACCGTGCGTAGTACCGATGTACAACCAAGACTAAA
ATTGGACTAGACCTTTTATCTTGGGCTCGTTCCGAGTAAGGATTCTTTTGCCTACCTCGATTCAA
GTTCCGACAAAGACTGGGACGGAGCTACTTCTTCCAAGGATGGATATGCACACCGTACCGACTTG
TGAGACCAACATTCTATTCAATCAACTATTATGTTTCATAGTTGT
Right flanking sequence: Indices 341481 -- 341980
ATAGTATTTGGTTTCATCTTCATTTTTTCAATTTAGTAGAATTTCGTTTATGTCAGGTAGCACAC
CTACCGATAAGCGGAAAGTGATCATTATACCTAAACCCATGGATAGTAACCATTTTCTTTTATGA
GGACTCTCTGTTTCCGGTATAGGACCAAACATTTCATTAAATGGATAATCATTTTGAAAGGCAGA
CAGCACTACTGGAGTAAGATCCTTCGTTTCCACGAAAACTACCTTACTATAATCAGTCACATTTG
CCCTCTCATTGAGAAAGACATGATAATCTTCTGGAAACAGATCAACGGGTAACGCTTCTATACCG
CTAACTGGTATATACCTGAACCATACAACGGTATAAAACCCAAATTTGACAAGAGCATAGAAATT
CCCACATACAAACGATGTTCCATCCTTGGATTGGATTGTCATAAGATTCACTAAACATTGTGTGT
GTATTTAGCGGTCAATGTATAATTTGAAGATTCTGTTAATCTTTG
Found at i:364677 original size:13 final size:13
Alignment explanation
Indices: 364659--364684 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
364649 AAATAACAAA
364659 TAATATAGTTAAT
1 TAATATAGTTAAT
364672 TAATATAGTTAAT
1 TAATATAGTTAAT
364685 GGTTCCAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
TAATATAGTTAAT
Left flanking sequence: Indices 364159 -- 364658
TTAGCTCCGGCAGAACAGGTACTGCATTTCCTTAGTTGGATCCGCTCTTTCTCTCTCGTGCAGTT
GTTGCTTCCGGCTATTTATTCAGTCGTCAATCAGCATTGATCCGGGTAGTTAGTCAGTCTCTCTC
TTTTTTCCCGTCCTTCTCTATCTATGAAATTCCTAATTAAGGGCTTTCCAATATCTAAATGTTCA
TGCAAAGCAACAAACGAAATGCAAGAACTGTCACGCAGAAGTCACACAGTATGCTGATCGTTCTG
AAATGAGAAAAAGTATGGGATTGAATAAGAGATTCATACATAGAGATCTAAACTCATGGAAGGGC
CCGGCCAGCAAACGAGATCTCTTACATCCAAACAAGCACCGGATTGAGCGCACTAGCGCGAAAGC
GTTAGCACGCGCATCCGTTTTCTTGCTCGTTGACGATCGAGGAAAAAGGGATACAATACCCATTT
TAGAACCGTTCACTACTAACAAATAGAAAATATCAAAATAACAAA
Right flanking sequence: Indices 364685 -- 365184
GGTTCCAATTTGTCCTAAATTTTTCAGTCTGTGACTGGAAACCCTTTCTCTTTTCAATAGAAAGA
GAAGGTATTTAAGCAGTGTGTGTTTTGAGATACAATCAATCGAAGAGAATAAAACTGGGTCCAAT
AAAAAAACCGGAATGAATTTCTTCAAAGGGATTGGAAAGGGATAAGTACAAAGGGATTCGACGAA
AAAAAAGGGTTTAGTAATCCCCTCCTACGAACAATAATTAGTAAAATAATGTGGATGAATAAGAT
TTTTCTCGATTTTAGATCGGATTTGGCGGCATGGCCAAGCGGTAAGGCAGGGGACTGCAAATCCT
TTATCCCCAGTTCAAATCTGGGTGCCGCCTGATCAATAAAATACTTAGGCTTATAGTACTGATCC
AACTCGAAAAATTCGTACCCCGCATAAGTTGGGGCAAGAGAATAACTAGGCCCGGCGATACTTGA
TTTTGAGAACCCACAGTTCTTTCCTCAAACTAGGGTTTGTTTTGG
Found at i:398161 original size:14 final size:14
Alignment explanation
Indices: 398142--398169 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
398132 CTATTACTTA
398142 CTATTTCATCTAAG
1 CTATTTCATCTAAG
398156 CTATTTCATCTAAG
1 CTATTTCATCTAAG
398170 TGGAAGAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (14 bp):
CTATTTCATCTAAG
Left flanking sequence: Indices 397642 -- 398141
TCTTAGTCGTAGAATATTATTCTCGTCAGACTTGAACCTAACGAAAATAAGAAAGGTTCATAAAA
TTATTTCCCCTTTTCGCGGAAGGGCCTTAATCCGTATTTTCTCATTCATGTATCACAAATGGATC
TACAGTAGGATTTTTTTTTATTGCCGTACCAAAGTAATTAATTTTTAATAATGAATTTCTATCAA
ATAAAAGTCTTATTGCTGAAATCTATTTGATTTGATACATTGTGGTCGGTGGTGAATTAACAGAA
ACGGAAAGAGAGGGATTCGAACCCTCGGTAAACAAAAGCCTACATAGCAGTTCCAATGCTACGCC
TTGAACCGCTCGGCCATCTCTCCTACATAATCTTATTATTGACCAGAAACTGAGTGAATAGCGAG
TTTTCGTATCCCTGCAAGTACAGGTACAACCACAACCGCTCGGGGGTTCCATGGTTCTAAAGGAA
TAATTCCTTTCCCATTTCCATGGATACGAGCGGGACTATTACTTA
Right flanking sequence: Indices 398170 -- 398669
TGGAAGAATCCTGGATTTATTTTTACTAGGAATTCCGCTAACTCGAAAAGTTTTAGTTTGGTTTT
TCTCCCTCGAGAAAAAGAATGGAAGAATTCTTCTTATTCCATAATAACCCTAGAATTCTGTTTGC
ATAACGTACGCTACGCCATACAATCGAAATAGAAAATAGGGTAATGGGACAATTAATGACTTTGA
AAACGCGAAATAGCTGATGAGAGAAGTTGTTGTTGAGAAATAGGAAAGTGGAATGAAATCCAATC
TGATTCAAATATTGAATATCTCTCCTTGTCCAAGCAGAAGGAAAAGGAGACAATTTGAGCAGAAA
GCCCATATCTATTATCTATTTTTTAGAATCGAATTAGTCTGTTTTTTGCTATTTCGTACTGTATA
ATTCCTTTGTTTATGGGATCCCCGAGGGTTTCCAATCAATAGGGGCGTAGTATAGGTAGTTAGAG
AGTGTTGGCTCCCCTCTAACAGACAGGTTTGAAACTCGTGAAGTC
Found at i:400060 original size:16 final size:16
Alignment explanation
Indices: 400039--400085 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
400029 GTACCCTTTT
*
400039 AATACCATG-CTATTTC
1 AATACC-TGACTATTTA
400055 AATACCTGACTATTTA
1 AATACCTGACTATTTA
*
400071 AATAGCTGACT-TTTA
1 AATACCTGACTATTTA
400086 GGCTTGCACT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 6 0.21
16 22 0.79
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (16 bp):
AATACCTGACTATTTA
Left flanking sequence: Indices 399539 -- 400038
TTTTAGAAGACCCTACCTACGATGTAGACCTCAAACTCAAGCCCAGTAGATAGACCTCACGAAGG
ATTTTGCTGCGAGAACGCCTTACCCAAGCGCCAGTGTCCGGTTCCTCGAAAGAAGCAAGAAATCT
TTCATACGCCTATTCAAGAGATACCATCCTTGACGTGTTGTTGGGTGATACGTATAACCGGGTAC
GACTTACAACGTTTGGATACCAGATTCAGAGACATTTCATTACTGTTCTGAATATACAAGGCAAT
GTTTCAAGACTGACATTCAATGGGAAAGACCAACATAGTTAAGTTGGTAATAGGTCATAGGTAAC
CAAATACATAGATAGTACTTCTATATCGTTCGTGCAGAAAAAAGAGTATCCTTAGGGTACTAATT
AGATAAAATATATTATCCCCCATACTTTTAGTAGAAGGTTGCATTTCATATCCGGTGAGACAAGA
AAAGGCCTTCGGTACTATTATAGTATAGAAGTTCGGTACCCTTTT
Right flanking sequence: Indices 400086 -- 400585
GGCTTGCACTATCGATCGAATGACGGACGACTATAAAAATAGAATCAGAGGATTGCTTACCCTTC
TTACTTTCTATCGGTTCTATCTGATCTTGTCTTTCCTACGAGTATACATGCAGCTGGCTTTTTTG
GTAATCTGACCTTTCCTTCCTTCCCGCTAGCAACAAGCAACCGATTTCACTCACAACTCTTATTG
CAGGGATCTCCTACACTACTGGCACTTGGTAGCAAGGCGCTACGCGTACGAAAACCACCCACTAT
CAGAAGATGGATATATAGCGGTACTAGGGCGGAGCCCCCTCCTTAGATTCCCAATCGGCATCATT
GATGAATCACCTATCCAACATCCTTAAACAAAGATTGGCCCCCCCCGAATTGGGGGAAGCCGTAG
GTATTATTGCGGTTCAATCTATTGAAGAGCCTGGCACTCAACTAACATTAAGAACTTATCATACA
GGTGGTGGATTCACAGGGGGTACTGCTGACCTTGTACGACCCCCC
Found at i:409981 original size:23 final size:23
Alignment explanation
Indices: 409955--410002 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
409945 TCATAGTTGT
*
409955 TCTATTCAATCCAATCATTCCTA
1 TCTATTCAATCCAATCAATCCTA
*
409978 TCTATTTAATCCAATCAATCCTA
1 TCTATTCAATCCAATCAATCCTA
410001 TC
1 TC
410003 ATAGTATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (23 bp):
TCTATTCAATCCAATCAATCCTA
Left flanking sequence: Indices 409455 -- 409954
ATAGAAAAGCACATCAATGGAATTTCTTGAAGAAAATAGATAAAATGAAATGGAATTACAGAACA
AAACAGTGATGATTGAAGGAATTGGACAAAACCAACGATTACTGCGAATGGAAGAAATGAAAGTT
CAGATCGATCTAATCCTCGGCTCCACGAAGCGAAGTATGTTCAAATCCACGGAGGGACTTGAATT
ATTACTTCTATTTACTTGATTTGCTGGGGAAGAAAATCATTAAAATACCACTAAGGCCGGGCAAG
TGCAAGTCCCGATAACGGGAAGAAATGCCTACCGTGCGTAGTACCGATGTACAACCAAGACTAAA
ATTGGACTAGACCTTTTATCTTGGGCTCGTTCCGAGTAAGGATTCTTTTGCCTACCTCGATTCAA
GTTCCGACAAAGACTGGGACGGAGCTACTTCTTCCAAGGATGGATATGCACACCGTACCGACTTG
TGAGACCAACATTCTATTCAATCAACTATTATGTTTCATAGTTGT
Right flanking sequence: Indices 410003 -- 410502
ATAGTATTTGGTTTCATCTTCATTTTTTCAATTTAGTAGAATTTCGTTTATGTCAGGTAGCACAC
CTACCGATAAGCGGAAAGTGATCATTATACCTAAACCCATGGATAGTAACCATTTTCTTTTATGA
GGACTCTCTGTTTCCGGTATAGGACCAAACATTTCATTAAATGGATAATCATTTTGAAAGGCAGA
CAGCACTACTGGAGTAAGATCCTTCGTTTCCACGAAAACTACCTTACTATAATCAGTCACATTTG
CCCTCTCATTGAGAAAGACATGATAATCTTCTGGAAACAGATCAACGGGTAACGCTTCTATACCG
CTAACTGGTATATACCTGAACCATACAACGGTATAAAACCCAAATTTGACAAGAGCATAGAAATT
CCCACATACAAACGATGTTCCATCCTTGGATTGGATTGTCATAAGATTCACTAAACATTGTGTGT
GTATTTAGCGGTCAATGTATAATTTGAAGATTCTGTTAATCTTTG
Found at i:455561 original size:28 final size:31
Alignment explanation
Indices: 455526--455590 Score: 91
Period size: 32 Copynumber: 2.2 Consensus size: 31
455516 GATGATTAAG
*
455526 ACTTTTCATAA-T-AG-CGGGTGAAGCTAAT
1 ACTTTTCATAAGTAAGACGAGTGAAGCTAAT
455554 ACTTTTCATAAGTAAGAACGAGTGAAGCTAAT
1 ACTTTTCATAAGTAAG-ACGAGTGAAGCTAAT
455586 ACTTT
1 ACTTT
455591 CTTTGCTGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 11 0.34
29 1 0.03
30 2 0.06
32 18 0.56
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (31 bp):
ACTTTTCATAAGTAAGACGAGTGAAGCTAAT
Left flanking sequence: Indices 455026 -- 455525
GTCACTAAGTAGTGCTATTCTGTCCGACGGCGGACTCCATCAATCTGAGGTTCTTTCTCTCACGT
AATTTCGCCCGCCCGTTCTACTTCCGTGCCGGAGGAAATGGGATTCGAACCCATGATACAATCTT
CTTGTATGTCGATTTAGCAAACCAATGCCTTAAGCCACTCAGCCATACCTCCAAGTTGTTGATCG
GAATTGGATGTGCCGGGTTGGTTGCCCGAAGATCCACTGCGTAAGCCGTAGCGCGCGTACTCTTC
TTTACTGAGCGAGAAAGACTCTATCCAGATCTATGGATCTCCCCTGCGTCCAAGCGAGACCCCAT
CCACATAACCCCTTATTTTCTCTCCAATGGTAGATTCGAACCCCAAATCATAGAAACTACACTAT
ATATGAGTTTCTGTCCCGCGTTTCAATGGGACTCCCTGGCAGTACGGTGCTGAATTCTCTGGCTT
TTCTAGCACGCACGGCCTTTTTCATATAGCACCAGGATGATTAAG
Right flanking sequence: Indices 455591 -- 456090
CTTTGCTGTGCTATCTCAAGAGTTTAGCTTTGAGAGTTGGAAAGGAAATAGGGCGGTGGGTAAGG
CCTATTTCAGAATTTTGTTGGTGGGTGGTACTATACGGGTGACTGAGGTCCATCAAAACTGTAGG
TGCATTCGTCTAAAGGGCAGACCCTTGAATTCACTCTGCCTGCTTTCGGCAACTGCATTCAACTT
TACCTGTCTGTGGGGCTTTGACTATGGTGGCTCCTCCTTTGACTCTAACCTCTGCCTACCTATAG
TTTCACTCCAGTCGCTTCTTCCTTTTTACTTATTTGAAAGTGGGCGGCGAAAGGAGTAAGTATCC
TATTTTTGGAATGGAATTTCAGTAAAGTCTTTTTTTCTGCTTTATCCTTCTCTCAATCAAAGAAA
GGGAATGCAGATGTTCTGTCGCCCTCTCTTCGTATGCCACCAGCCTTCCTATCAAAAAAAGATTC
ATTCCTTGAACATAGGCCTCTCTCTTGCGGCTAGCGAGATTGGCT
Found at i:501451 original size:16 final size:16
Alignment explanation
Indices: 501426--501458 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
501416 ACTGATGGAC
501426 TGACTGAAGTGGCTAT
1 TGACTGAAGTGGCTAT
*
501442 TGACTTAAGTGGCTAT
1 TGACTGAAGTGGCTAT
501458 T
1 T
501459 TCCTGATTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.36
Consensus pattern (16 bp):
TGACTGAAGTGGCTAT
Left flanking sequence: Indices 500926 -- 501425
TACTTTTGCCACAGACTGGACAGAAAGTTTCCTTTTTCTGCACCCAGTTTTTTCCTTTTTACGAG
GGAAAGTTAATTTTCAGTACTTTTCGCTATGGCTGGAACAAATGTTTTTTAAAACGACCCGGAAA
AATGCCAATTCCTTAGGCGAATTAAAAATTAGTACTTTTCGCCTATGGCGGGAAAGAATTGGTTT
AATTTCTTCCATCCATTTATAGAATGGGTCCAAAAAAGGTAAAAAATCGGCTAAAAAAGCGAAAA
AACTAGTTCCGACATAGTGGGAAAGTGGTAGTTTTTTCATTTTGCTTGTAAATCGGCTCTTTTTG
GCATCCCAGTTCTGAACTTTTTCATCTCGCCTAGTGGAACTTGAGACTTTTTCCAGTATCTTTAT
CCAGCAGCAGGACTTTCACTACTTTCCCAAGTAAAGCTAGTGTTAAGAGACTGGATTGTAGAAGT
GTTGACTGACTTGACTGGAAATATAATATGGAAAGACTGATGGAC
Right flanking sequence: Indices 501459 -- 501958
TCCTGATTCCGATATGGCGTCCTGAATCCGATATTGCTTGATTGTCTGTTGATGCCCAGCCGAAG
AAGTGACTTGCTTAACGCAGCAATTTCTGTTTTCTTGTGCTCTCCACCTCCGCTTGACACTCTCG
TAGTAGATCATAAGAGAAGTATTCTTTCAAGAAATTCGTATAGAAAGATGGACTAGCTCGAGAAC
AAGCAACGGATTGAGCGCACTAGCGCGAAAGCGTTAGCACGCGCATCCGTTTTCTTGCTCCTTGG
CTTCAAACAATCGATTGAATCTGGATTCCTTTGCTTATCCTTCCTGGCTATAGTCTCTCTTGTGC
CTTCGGCAGTTCAGTTAAAGATTTCTGTATCAGCAGTTTGTTTCCCCATTTGCTCAAAGAACGCA
TAAAACCTGTTCCCTCACCGTATCAAAAGATCAAGCGGAAGAGTCCTCTTCTTCAAGAAGAGTTT
TTCATTTCACTCTTCCGCAGCAATGCCCGGGCAAGAAAACAATAT
Done.