Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_024624
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: 511530
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Found at i:131587 original size:7 final size:7
Alignment explanation
Indices: 131575--131602 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
131565 TCGAACCGCT
131575 TTAAGCA
1 TTAAGCA
131582 TTAAGCA
1 TTAAGCA
131589 TTAAGCA
1 TTAAGCA
131596 TTAAGCA
1 TTAAGCA
131603 AGAGCCTACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (7 bp):
TTAAGCA
Left flanking sequence: Indices 131075 -- 131574
TAGCTTTAGATGTTATATGAACCCCTAACAAGGAACCGTAGGCATAGAGCTATCGGGTCATAACT
CTTCTCACTCTGGCCTTAGGGTTCTTCTTTCAACAATCTAAAATCCTTTCTTCATTTACAAACAC
TTATGTGATAATATTCCTAACAAAGATTCCGTTTGACTTGACCGTAGGACATCACCTTCCTCAAT
GCAATGGAAAACTAGGAGCACGGAAGCGATGAAAGCATGCCCACTTTCGCCGGCTAACACAATGG
ATCAATACAGGGGAAACTGGCCGAGAAGCCTAAGCTAGCTATCAGCTGCCCTAGCGAACGAAGTC
TAGTCTTCTTATCGAGATGAGCATGAGTGGTCAAGCCCTGCAATGAGATCATGCGCCCTAACCTA
AGCCTGGGCTACTGTTGTGTGTTCCGATCCTTCTAGTGAGAGCTTGTGACCATCGCAGTGACCGC
AAGCTAGCAACAACGAAAGAATGAGCGAGAGCAGCTCGAACCGCT
Right flanking sequence: Indices 131603 -- 132102
AGAGCCTACCTCTACCCGAAAGCAGCGGCGAGGCGGACATTGATTTTGCAGAAAGGCTGGCTGCC
TTGCAGGGTCGCTTACCTAGTTCACCGGTACTAGGCTATGAGAGGCTCAACATCGGGTCCAATGT
AAAGCAAGCCTTGCGAATGATGGTGGCTCCATACGGGTAGACGTAGGCCCTGAAACCATAACAAA
GACAAGACAATTACAGGGAGGACGTACGTGTTCTCGGGCGAGTGCGGACTCGGTTAGTATACAAG
ATCATCAACATAGTAATAGGATGCATCTGCTGAAGCCAAGACTCATGTAACAACAAGCTGGACCG
AAGCTCAGCCATAGTTGGTTTTGGTCGTTGAAGCTTCGCCGTAGTGACAAAGCTTTCATACTCCG
AAGGCAGGCCAGCAAGAAGGAATGTAAACATATCAGATTGGGACACCGGTGCATTGATAGATGCC
AAGGAGTCACAACTGTTCTTGAATGTACGAAGGTAAGCCGCCATA
Found at i:138774 original size:18 final size:18
Alignment explanation
Indices: 138751--138786 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
138741 AGTGTGCACC
138751 CTAACGGTGCATCACAAG
1 CTAACGGTGCATCACAAG
138769 CTAACGGTGCATCACAAG
1 CTAACGGTGCATCACAAG
138787 AAGGACTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.28, G:0.22, T:0.17
Consensus pattern (18 bp):
CTAACGGTGCATCACAAG
Left flanking sequence: Indices 138251 -- 138750
CTTTTTTTTTGCTTACAAAAAAAAAAGGTGATCTACTATCTCATATATATGATAAAGGAAGCAGA
CTCTTTTTAGCTATTTTGATTCTTTTCTTTGTGGTACCCCTAAGAGACCTTTTTCCTTTCCTTGT
ATTGTATACATAGTCTTATGTGTTCCGTTCTAGAAGTAGTTAATTTCTAGAATTCCCTAGGAGCA
CAGTGCTCCGTGGATCTAGTCTTTAACCCTCACCCCGAACACTAGGATTGCACTAAAAGGAGGTG
AATTCTAAAAGAAGAAAAGAAGGTGTCACGGTAATAGTATTGTGACCAGAATTGTTTATTCCTTT
TCTTTCTTAACTTCAAATAAAACTCACCCCTTTTAACGCAAACAAAGTGCTAGAGCATGAGAATT
TCCGACAGACCTTCAAGTAACGCACAAATGAAAACACCACCTTACCAAAGGGTGATGCTTGCATC
CATCCAGGTTTGAGGTGTTCCAAACCCTTCACATGAGTGTGCACC
Right flanking sequence: Indices 138787 -- 139286
AAGGACTTATCCATCTTAGGAGACAAGGCAATGCCGTTTAAAAGATAAAACTTAGAAAGGCTCAC
CCATACAGAGAAAATCCATCAGAACGAAAGTTCCATGATGACAATATGGTCATAACGGAAGGACG
TCTCCTTCCTCCCATAAAGATTATCATCACAGTACCACATTTGATCAGAATGCAGTATCGATGAA
TTAACCAAAGTATAGGTTCACACGCCGTGAACCCTATTAAGAGCGGAGGAAACTAAATATACTCC
TCCACATCTCCTTGGTTAGGAACACATTTAGGTCTGATTTAAAACAGACCACGCCAAGAGGTACG
AAACCTCACTTTTCCTATCGGACCAAACTAGTCGGTCTCGGGGGGGGCGCCTGGGTTCCAACCAG
GAGTCCTTCAGAGTAATAAGCCTGGGATGGACCCTTACTAAGAAGAACCGGAGATTGTGGTGAGA
TATTAGTGTGATGAACTTTCAAGAAAGATAAGAAAATGTCATTTT
Found at i:146757 original size:28 final size:28
Alignment explanation
Indices: 146717--146773 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
146707 TGCGCTTAAA
146717 TCAACTAGTAGAAGGAAGGTGGCACAGT
1 TCAACTAGTAGAAGGAAGGTGGCACAGT
146745 TCAACTAGTAGAAGGAAGGTGGCACAGT
1 TCAACTAGTAGAAGGAAGGTGGCACAGT
146773 T
1 T
146774 AATCAACTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.14, G:0.32, T:0.19
Consensus pattern (28 bp):
TCAACTAGTAGAAGGAAGGTGGCACAGT
Left flanking sequence: Indices 146217 -- 146716
TCGAGGCTATGAGTTTTCATAGGACAGATGATCCTTTACCGTGAAGGTAGTTTACTTGCTTACTT
GTTAAAGTAAGGCAGAAAGAGTACCTGTTGTTAACAAAACGGAGTCTCAAAAGCTCATTTATCGC
AGTGGTCTCAAAAACGAAATTATCGTATTTTAGAAAAAGAGGTCTATAAAAGTCACTTAAGAAAG
ATGGCGCCTTTGCGAGGATGTCTTGAATCAGCCAATGCCAAGGCAACAAGGCTAGCATCAAACCT
ACCTGCCGAGAACCCTCCAACATTCCTACCAAGGTTCCCATCCCCGATGACAGAAGAAGGACGTA
ACCGGTGTTAAGGTTAGAAGGGTAACTGCTCTCGTAGTCGTAGCCGCTCTTGGGACTGATTCCTT
AAGGAAATGGAATTCTTCCTAAATTCCCATGGAAGGTGTAGATGTTTAGGCTTGCCCCTGCTGCT
GCTAGAGAATAGGTCGTCACTTTCTTTGCGGTTGATGCGCTTAAA
Right flanking sequence: Indices 146774 -- 147273
AATCAACTGAATCCGCGCTTAGAAAGAATAACTTTGAAGCCACGTTTAGAATGGTCAGCACCTTT
TGAGAAGAATTGCTCTTTGGAGAGCTAAATATAAGGGCGATGAAAGTTGTAAGCCGTAGAAAGGA
GATTTTGTTTGTTCATAGACAGAAACTAATTGTGGAAATTCACTCTTTTATTCTGAGTGCGCAGA
ATGGTGCTTTGCGGCTACTATGGGTCTTCAAAAGGAACCAGGGGCAAAGACATCCTAAGAAGTTT
GCCTATGGACTCTACCTCAGCGACCTTCTTCCGTACTTTCACGAGAAAGCAAGCTATCGACCTTA
TCTCCGTTAGTTTTTCAAGATCAGTGAACCCGGATGTCAACATCTCTATGGGGCCTACTCTAGTC
TTTTATCTGCGGAGAGATGGTCGTTTACATGCTTACTTACTAAAGTACGGGAAAGAAATAGCTTA
CAAGAACAAGTAAGAGAGTTGACTTGCTTACTTTAACAAGTAAGG
Found at i:153408 original size:20 final size:20
Alignment explanation
Indices: 153371--153408 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
153361 AACCAAATTC
*
153371 TTTATATATATTATATATTA
1 TTTATATATATTAAATATTA
153391 TTTATATAT-TTAGAATAT
1 TTTATATATATTA-AATAT
153409 ATGAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (20 bp):
TTTATATATATTAAATATTA
Left flanking sequence: Indices 152871 -- 153370
AAACGAAGGTGCCTCAAGGTATACAGTTTGGTAAATAAAAGATAAGAAGGGAGCTCCTATTTTGA
CTGGGAAACCTACTAAACCAGAGAAAAGAGCAGGTAGCGAATGATCAAGCAATGAAATCCTCCTT
TGTCGACCTGAAGCTGAAGTGAACGAACGGAAGGAGTTGAACTATGTCCCTATTCCCTATGTCTT
CTCGTGACACGCGCACAGCTTCCGCAACAGATTAAGAGATCAGGAAAAGAGCCAATGCGTCGATA
GCAGGTTTTGCTTTGAAAGCCTGATTCGGGACCTATAAGTGAGCAAGGAGCAATCTATCTTCAAA
CCACTCCCGATAGTCCGAGGATGGTGTACTATTTTCAGTTTCTCCATAGGTAATCTGCAACTCAA
AAGCAAAAAGGTGCTTGCTTCTTCCTTCTTTGGAATACGGATAAGATCAGAAAGGCAAACAATGC
AATAGCTTCGGTTAGAGCAAAGCCCAAAATGGCATAACCAAATTC
Right flanking sequence: Indices 153409 -- 153908
ATGAATATATAATATGAGTATTCTCTTTTACAAAGATCTTCCCTTGTTTCTTGATAGCCAAAATT
CTCATCCCGGGCCGTGCCCCCCGCCGCGAATATAGTGGAATCAGAATTGGGTGGAATTGAGTTCC
CAGACATTCCACCCGAAGAAGACGGTGCGAATTGGGAAATTTCGTCCATAAAGAGATACCCGACC
GACTTGGAAGTAAGATAAAGAAAAAAGAAGTCTCCCCAAAATTGGAACATATCTTACCCGGAGAT
AAGAATGAAGGAAAAAAACCATCTTTTCTTCCAACTGCCGAAATAGTCATTTCCATTTTTTGACT
TTTATAAGAACAAGTCAAATAATAATTATTCCCAGAGTTCGAACCTGCAATCTTCAGGTTATGAG
CCTGATGAGTTGACCTATTCCTCTACCCCGCTTCTTCTCTTTCTTTCACTATTCCCCGCCTCTGA
TTCTATCTATGAGCCTAGGTCTCTCGAGCAAAGTAAGTTGAACTG
Found at i:155150 original size:28 final size:26
Alignment explanation
Indices: 155098--155154 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 26
155088 GGCCGAAGTG
*
155098 AAAGCAGAAAACGACTTCAACGCTAT
1 AAAGCAGAAAACAACTTCAACGCTAT
155124 AAAGCAGAAATAACAACTTCATA-GCTAT
1 AAAGCAG-AA-AACAACTTCA-ACGCTAT
155152 AAA
1 AAA
155155 AGCCTTAGCG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 7 0.26
27 2 0.07
28 17 0.63
29 1 0.04
ACGTcount: A:0.51, C:0.19, G:0.12, T:0.18
Consensus pattern (26 bp):
AAAGCAGAAAACAACTTCAACGCTAT
Left flanking sequence: Indices 154598 -- 155097
ACTCATACTAATGAATCAAATCGTCCTTTATCAAATTGTTGGTAATACAACGCTTAGCGATTTAG
AATTTATGCGGAGGGATCCTATTTATTTCCCTTCCGCTAGTAGCACATCAACTAGTTCTTCAACA
GCGTCCGACGCGCAAAGTGCTCCACCTGACTTTGAGAAATTCTTTTCTAAAGTATGTGATGAATA
CACCAGGTGTGTGCATGAAGCCGGGAGGGTATTACCCCCGGAATGGACCATGCCTGAACTTGTTC
GGACAGTGCTTGGGGATGACGCTATTCATCACGGCTTTCTTACAGATGCCTACTACAATGTGATG
TTATGTGGCACTCGTAGTTGGGGATGCGAGGAGCTGCTGAAGTTTCTGGATCTAATCAACTATGT
CTTCTAGTCTGAGAACTCTTTGAAAGTTGGCGACCGTCAGACGATTGAGTGTTGGCGACCAAGAA
GCTACTCGACCTTAAAGTGAGACTCTATCTAACAAGGCCGAAGTG
Right flanking sequence: Indices 155155 -- 155654
AGCCTTAGCGCTGAAGCAAGGCACCAGCGCGAAACGAGAGCGTCAGCTGAAGGGTGCAAGGCTCG
CGCTACGCTCTAGTAGAAGCAAAAGCGGAAGCAATCCGAAAGGTTTCAGCCAACTGAGACCGTAG
ATTCTATTAGTGATTAGCATCCTCTAGCCCTTACTTCCCATAGGCACCGTTCTATGAAAGGCACT
ATCGACTGCGCTTGTCTTTATTGAGTACCGCACGAGGCCACTAAAAGGGCATCCTCTACCTCTGC
TCATCAGTAACTTCTTTCACTCGTTCTGTCGTCTCATTTCAGCTTTCAACCGCATTTCCACCACG
ATTTTTCTCCAAACGAGAAGCTTTGGCTAGCCGTTCACTCACTCTCGATGGTCTGCCATTTAGTT
CGTTCGTTGTAGCAGAGCGAATAATGTGCCGATGGAAGGTAGCTGCATGCAGCATAAAAGAAAAG
AGATTGACATCCGACAGCTCCTTGTCCTTTCCATCCGGAGGTGGC
Found at i:158763 original size:18 final size:18
Alignment explanation
Indices: 158740--158775 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
158730 GACGGATATA
158740 TATTATTTATATATGTTT
1 TATTATTTATATATGTTT
158758 TATTATTTATATATGTTT
1 TATTATTTATATATGTTT
158776 CCGATATAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (18 bp):
TATTATTTATATATGTTT
Left flanking sequence: Indices 158240 -- 158739
TACAAATACAAAATAGATGAAAACTTTCCCGGATTACTGAACTGCTTTTTTATCGTACTTGCACC
TTGAGTTCTGTTTTCCTTAATTTTTCCTAAAAGTCAAAGAAATCCTAATCCTTCTTCCCTTTTGA
TTGGGTTTGATTCATCCTTTCAATTTCGATTGAGTCTATCTCAAAATTCATAATGTTCAAAACTT
TCTCTTACCTTTCTATTGAAATCTATTGAAAAATCAAATGTGGATTTTCAGTCGCAAAATCCAAA
ATTCAACTTTATGAAAATAGGAACCATTAACTATTGACTTAGAATGCATGAACGATTCTTGGATT
TGAATCTCCAATTTTGGTTTTCCTAATGACATAAGAAAATACAACTTGATATATAACTAATCAGT
ATGGATTTTTTCAATCAAAAAATCCTTCTCAATTATAATTATTAATAATAATTATAACAACAATT
ATGAGTATATGTAAACACCCCAAGAGAAATTGTTAGACGGATATA
Right flanking sequence: Indices 158776 -- 159275
CCGATATAGAATTATCAGATATAAGAAAAGTATCATACTTCAATTTGAATTTTGAATTGAATCCA
ATCCCATCCAGCATAGGCTGGTAAAGTTCACTAATCCGGTAGCGAGGGGAAGATGAACAATGAAG
CTATAGCTGCTCACCTTTCCTTCGAAAGCAGTTAAGCCCACCTTACAATCTTTCTTTCTATCTCG
AATTCTTGATCTTTGGTGCCAATGGAGCAAAGGAAGCGAGGGACGAAGTCCTCTATCTACCCGGT
TGGATCTATTGAATGAGATCCTGGAGACAGGGCTGGGAGGTATGAGTCGATCGGATGCAGGGAAG
CCCAGGCAATCCGTTCCTATCAGTCATTCGTCAGGAAGCGGTAGAGAAAGAATCAGATTTTCAAA
TCTCATTGTTGAAGGCGTAGAGAGAAAGCACGAAAAGGAATGTCTTAGCGTGCCCTTACTCTAAT
TCGAAATCCGTCTCTTTCTTTCTTTTCTAATTCCTCTCCCTTCAT
Found at i:211623 original size:27 final size:27
Alignment explanation
Indices: 211585--211684 Score: 137
Period size: 27 Copynumber: 3.7 Consensus size: 27
211575 AAGAGATGAA
211585 AGGTCGTACTGCGTCGAGATAGCTCAT
1 AGGTCGTACTGCGTCGAGATAGCTCAT
* * * * *
211612 AGGTCGTACTGCGTCGAAAGAGATGAA
1 AGGTCGTACTGCGTCGAGATAGCTCAT
*
211639 AGGTCGTACTGCGTCGAGATAGCTCGT
1 AGGTCGTACTGCGTCGAGATAGCTCAT
211666 CAGGTCGTACTGCGTCGAG
1 -AGGTCGTACTGCGTCGAG
211685 TGAAGGAAGC
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
27 43 0.70
28 18 0.30
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.23
Consensus pattern (27 bp):
AGGTCGTACTGCGTCGAGATAGCTCAT
Left flanking sequence: Indices 211085 -- 211584
AACAAGGGGAATAGCGGTAACAAAGCCCTTTAACAGGGGTAATACTAAACGCTAGAGGAAGTCGG
GTGGGGATTACTGAACTCAAACTACGCGTAATACGTCTACGCTCGTTTAAAAGCCGCTAAAGCCT
ATTCAACGAGCTCCAGTAGTCGTAGCTCGGTTAGCACTGTTCTAGCTGCGATTTAGCTACTTTAC
GCTAGTATTGAAGAGAGAGCAGCTGTGGCCAATGAAAGGAGCGGAATAGAAGGTGCGTAGCGGGG
GAGAGAAGTGGTAACACAGGGGTACGGGTCGAAACAACTTCCATACTTGTAGCTCGGGGCAAAGG
AAGTTGGTTAGGAGTAATTCACTGGACGGCGGTAAAGTGAGGAAAGAAAGCGTATATAGTCGTTT
AGCTCCATACTTTCCGTATTAGCACAACGAAAAGCAAAATCAAGGTTTCTACGTCGAGATAGAGT
TGGTGCTACGCAAGAGAATAGAGTTTATGGATGGGAAGAGATGAA
Right flanking sequence: Indices 211685 -- 212184
TGAAGGAAGCTATTCAGAAGCTTACTGAGCAGAAAGCCGATTCGTTGGGCGAGCAGAGGAAAGAA
AGAAAACACTTACTTATTGCTTTGCTGATTTCATTCAAAAGCGAAGGAAGAAAGAAGTGCTGTGC
TGACTCACCCAACGGTGAATGAGGAGGCTCTTACTACTCACCTAAGAGAATAAATAAATAGAAAG
AAACTAAGATAGAACCACGTTAGTGGCAGATAGAGTAGGTGACTGTGAAGCTCTCCGACCGAGGC
AATTCCAAGTTGGAGCTTCGATAGCACACGAGTCTGGAGCTGTGAGGGCTCACTCGTCCTTGCCT
CGAGCCGATGACGCCAAACCCAAAGTTTGAAAAGCATCCGAAGACGCATCAGTAGACGTAAAAGA
GATCCTATTCCCTAAGTGGAAACTTCCTTTCTTCCCATAGGGAAAGGCTAACCATCTTGAAAGCT
ACTTTATCAACAAGCTCTACCCATTGGTCTGAATCTTTGGATTGT
Found at i:211657 original size:54 final size:55
Alignment explanation
Indices: 211575--211683 Score: 202
Period size: 54 Copynumber: 2.0 Consensus size: 55
211565 TATGGATGGG
211575 AAGAGATGAAAGGTCGTACTGCGTCGAGATAGCTCAT-AGGTCGTACTGCGTCGA
1 AAGAGATGAAAGGTCGTACTGCGTCGAGATAGCTCATCAGGTCGTACTGCGTCGA
*
211629 AAGAGATGAAAGGTCGTACTGCGTCGAGATAGCTCGTCAGGTCGTACTGCGTCGA
1 AAGAGATGAAAGGTCGTACTGCGTCGAGATAGCTCATCAGGTCGTACTGCGTCGA
211684 GTGAAGGAAG
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
54 36 0.68
55 17 0.32
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.22
Consensus pattern (55 bp):
AAGAGATGAAAGGTCGTACTGCGTCGAGATAGCTCATCAGGTCGTACTGCGTCGA
Left flanking sequence: Indices 211075 -- 211574
TAGCTGATGAAACAAGGGGAATAGCGGTAACAAAGCCCTTTAACAGGGGTAATACTAAACGCTAG
AGGAAGTCGGGTGGGGATTACTGAACTCAAACTACGCGTAATACGTCTACGCTCGTTTAAAAGCC
GCTAAAGCCTATTCAACGAGCTCCAGTAGTCGTAGCTCGGTTAGCACTGTTCTAGCTGCGATTTA
GCTACTTTACGCTAGTATTGAAGAGAGAGCAGCTGTGGCCAATGAAAGGAGCGGAATAGAAGGTG
CGTAGCGGGGGAGAGAAGTGGTAACACAGGGGTACGGGTCGAAACAACTTCCATACTTGTAGCTC
GGGGCAAAGGAAGTTGGTTAGGAGTAATTCACTGGACGGCGGTAAAGTGAGGAAAGAAAGCGTAT
ATAGTCGTTTAGCTCCATACTTTCCGTATTAGCACAACGAAAAGCAAAATCAAGGTTTCTACGTC
GAGATAGAGTTGGTGCTACGCAAGAGAATAGAGTTTATGGATGGG
Right flanking sequence: Indices 211684 -- 212183
GTGAAGGAAGCTATTCAGAAGCTTACTGAGCAGAAAGCCGATTCGTTGGGCGAGCAGAGGAAAGA
AAGAAAACACTTACTTATTGCTTTGCTGATTTCATTCAAAAGCGAAGGAAGAAAGAAGTGCTGTG
CTGACTCACCCAACGGTGAATGAGGAGGCTCTTACTACTCACCTAAGAGAATAAATAAATAGAAA
GAAACTAAGATAGAACCACGTTAGTGGCAGATAGAGTAGGTGACTGTGAAGCTCTCCGACCGAGG
CAATTCCAAGTTGGAGCTTCGATAGCACACGAGTCTGGAGCTGTGAGGGCTCACTCGTCCTTGCC
TCGAGCCGATGACGCCAAACCCAAAGTTTGAAAAGCATCCGAAGACGCATCAGTAGACGTAAAAG
AGATCCTATTCCCTAAGTGGAAACTTCCTTTCTTCCCATAGGGAAAGGCTAACCATCTTGAAAGC
TACTTTATCAACAAGCTCTACCCATTGGTCTGAATCTTTGGATTG
Found at i:225130 original size:26 final size:26
Alignment explanation
Indices: 225094--225159 Score: 132
Period size: 26 Copynumber: 2.5 Consensus size: 26
225084 GAACCCGCTT
225094 TCGCTTTCTGCTTTGACGCTATGAAG
1 TCGCTTTCTGCTTTGACGCTATGAAG
225120 TCGCTTTCTGCTTTGACGCTATGAAG
1 TCGCTTTCTGCTTTGACGCTATGAAG
225146 TCGCTTTCTGCTTT
1 TCGCTTTCTGCTTT
225160 CACTTCGGCC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.12, C:0.24, G:0.21, T:0.42
Consensus pattern (26 bp):
TCGCTTTCTGCTTTGACGCTATGAAG
Left flanking sequence: Indices 224594 -- 225093
TTGCGAAGACCCTTTCTGGCCGTGTGAATGAAATCCATCCCGTGAAAGAAAGGAGAGCTGGGGAA
AGTAAGGATAAGGCAAGACAACAGACCAGAGCACCGGCATAACAAAGAAGGTTTTCCATTATTTA
AGCTACGTGATTTCGGGATCAACCTCAATGAATTCTGGCGTCACGGGCTGATCCGTAGCCCGCTC
TGGGTGAGAGACTGCATGGAAAAGCTCGATAAACGTCCTCCTATCCCGAGGTTAGAAATGCTTTC
CCGTCACCTGTTAGCTCTACACGTGTGATGTTAGCGACATAAAGTGCGAATCAAAGTGCATATTT
TCTAACGTCCGGTTATGCTTCTGATCCTCTCCTAGCTGCCAGAACTCCTATCAGATTGTAATCAA
ATCAATCGTCGAAGCAGAAGAGCTTTCAGTAAATTTAGGTATTTAGCAGTCCTAGTTGATGCAAT
AAGAGACAAAAAAGCCTGCTGGAAATGAATAGAAAGAACCCGCTT
Right flanking sequence: Indices 225160 -- 225659
CACTTCGGCCTTGTTAGATAGAGTCTCACTTTAAGGTCGAGTAGCTTCTTGGTCGCCAACACTCA
ATCGTCTGACGGTGTCCTATCATAGTTCTAAGGATTGAGAATGGTTGGTAGCTATATCGAATGAA
AAAGCACTGTATGAGGTTTGTAGTTCATCAATGAAGAAAAGTGTATATAGACTGCACATTTCCAT
TGTTGCTAGACCTAATAGATTTCCTAGGGTTGCTATAGCTAATAGATATCCTAGGGTTGCTATAG
CTAATAGATTTCCGACGGTTTGATTCATTTTATAGTACTTTTCTCCCCCTACCTCAACAAAGAAT
AGGAGGAGGGACCTCGCCCTTTAGAGCTACTTTAAAAGGTCCGACGACCCTTAACCAACAACAAT
GCATGAGAATGAACTCCTACAACAATGCATGAGAATGAACTATACCCGCTGCCTCAGTCGCTTTT
TTGACAGCTACATAATCGCATAAACCCATCCCATTTCGGTTGGGA
Found at i:225439 original size:27 final size:27
Alignment explanation
Indices: 225356--225432 Score: 127
Period size: 27 Copynumber: 2.9 Consensus size: 27
225346 CATTTCCATT
* *
225356 GTTGCTAGACCTAATAGATTTCCTAGG
1 GTTGCTATAGCTAATAGATTTCCTAGG
*
225383 GTTGCTATAGCTAATAGATATCCTAGG
1 GTTGCTATAGCTAATAGATTTCCTAGG
225410 GTTGCTATAGCTAATAGATTTCC
1 GTTGCTATAGCTAATAGATTTCC
225433 GACGGTTTGA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (27 bp):
GTTGCTATAGCTAATAGATTTCCTAGG
Left flanking sequence: Indices 224856 -- 225355
GTCACCTGTTAGCTCTACACGTGTGATGTTAGCGACATAAAGTGCGAATCAAAGTGCATATTTTC
TAACGTCCGGTTATGCTTCTGATCCTCTCCTAGCTGCCAGAACTCCTATCAGATTGTAATCAAAT
CAATCGTCGAAGCAGAAGAGCTTTCAGTAAATTTAGGTATTTAGCAGTCCTAGTTGATGCAATAA
GAGACAAAAAAGCCTGCTGGAAATGAATAGAAAGAACCCGCTTTCGCTTTCTGCTTTGACGCTAT
GAAGTCGCTTTCTGCTTTGACGCTATGAAGTCGCTTTCTGCTTTCACTTCGGCCTTGTTAGATAG
AGTCTCACTTTAAGGTCGAGTAGCTTCTTGGTCGCCAACACTCAATCGTCTGACGGTGTCCTATC
ATAGTTCTAAGGATTGAGAATGGTTGGTAGCTATATCGAATGAAAAAGCACTGTATGAGGTTTGT
AGTTCATCAATGAAGAAAAGTGTATATAGACTGCACATTTCCATT
Right flanking sequence: Indices 225433 -- 225932
GACGGTTTGATTCATTTTATAGTACTTTTCTCCCCCTACCTCAACAAAGAATAGGAGGAGGGACC
TCGCCCTTTAGAGCTACTTTAAAAGGTCCGACGACCCTTAACCAACAACAATGCATGAGAATGAA
CTCCTACAACAATGCATGAGAATGAACTATACCCGCTGCCTCAGTCGCTTTTTTGACAGCTACAT
AATCGCATAAACCCATCCCATTTCGGTTGGGACTATACCCGCTGCTAAAACGAAGGAGACCATAA
TCCCCAATCCAACAGCCTTGAGAAGAGGTTCACTAGCCGGAATAGCTAATTCACACAAAGGTTCA
TTGCTCATAGCTTGGTTCACTGATTCTGACTGTGTCCCACTCACTCTTTCTAGAAACTTGATAAC
CTGAAAACCTGGTACTTGATGTTAGGGCTTGAAAAAAGCCTCGTAGTCTATGTTGGGGCAAAAAA
GAGATGGGTCCGGTATAGAGCTATGGTCCACCTTGTACCAAACAA
Found at i:241764 original size:16 final size:16
Alignment explanation
Indices: 241743--241783 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
241733 TGTGCAGTCC
241743 AAAACAAAAAAATGAA
1 AAAACAAAAAAATGAA
*
241759 AAAACAAAAAAATGCA
1 AAAACAAAAAAATGAA
*
241775 AAATCAAAA
1 AAAACAAAA
241784 GAAAAATCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.78, C:0.10, G:0.05, T:0.07
Consensus pattern (16 bp):
AAAACAAAAAAATGAA
Left flanking sequence: Indices 241243 -- 241742
AACCCCAGAGTATATCTTTCCACGGATCGAAAGAAAAAAGAAAGTTCGAGCAAATATTTATTTTT
AGATTCTTTTGTCTGTTAGAAAAAGAGATAATCTACTATTTTTCCCTTTAGCAAATCTAAAATTC
AATAAAATAAATAAAATAACTAGGAGACTGGAAATGAAAGTCTCTTTCTCGGATCTATTCTTCAT
CACACTGTTGGAACAAAACAAAAATACCGGATGCAACGATATTGAAATATTTGTTACATGAAGCC
ACGATCTGATAGATATACATCGAAATCTACAATCTACTTAATATAGATATATAATCTAGATAGAA
ATTAATCTTTGATCTAGAATCAAAGAAAGATAATAAATGGCTCTTATGGTGTGACTTGGAAGAAA
GGTTTATCTGTAGAGGAAAGGAATAACAATTTATTCCTCTAATTTTTCCTATAGAAAATCTAGTA
ACAAGAAGATTTAATCGGAAATATCGACAAATTCTTGTGCAGTCC
Right flanking sequence: Indices 241784 -- 242283
GAAAAATCAAAAGGTCGTTTTATTCAAAACCCCAATTGTGACATCCCTTCTCTCCCACTTCACAC
CTCGGAGCGCACCCTTCTTATAGAGATAAACGCGCTTTCACATCTTCTTAACCGGGAGAGGAAAG
GTTCCTTTTTTTGAGGGTACTCCCGGGAACAGATCCAGTGGAGACGGGGTGGGGCCTGTAGCTCA
GAGGATTAGAGCACGTGGCTACGAACCACGGTGTCGGGGGTTCGAATCCCTCCTCGCCCACAACC
GGCCCAAAAGGGAAGTACCTTTCCCTCTGGGGGTAGGAAAATCATGATCGGGATAGCGAACCAAA
AGCTATGGAACTTGGGTGTGGGTCTTTTGTCGAAATGGAATGGCTTTTCTTTTTCTCTTTTTATT
TATCGTGAATGGGGGAATCATTACACATAGTATGCCCGATCGGCATATTTTTTTGTTTTACGCCC
CGTAACTCTTCCTCAGCCAGGCTTGGGCAGAATAGCAGAGCAAGT
Found at i:262120 original size:27 final size:27
Alignment explanation
Indices: 262082--262181 Score: 137
Period size: 27 Copynumber: 3.7 Consensus size: 27
262072 AAGAGATGAA
262082 AGGTCGTACTGCGTCGAGATAGCTCAT
1 AGGTCGTACTGCGTCGAGATAGCTCAT
* * * * *
262109 AGGTCGTACTGCGTCGAAAGAGATGAA
1 AGGTCGTACTGCGTCGAGATAGCTCAT
*
262136 AGGTCGTACTGCGTCGAGATAGCTCGT
1 AGGTCGTACTGCGTCGAGATAGCTCAT
262163 CAGGTCGTACTGCGTCGAG
1 -AGGTCGTACTGCGTCGAG
262182 TGAAGGAAGC
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
27 43 0.70
28 18 0.30
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.23
Consensus pattern (27 bp):
AGGTCGTACTGCGTCGAGATAGCTCAT
Left flanking sequence: Indices 261582 -- 262081
AACAAGGGGAATAGCGGTAACAAAGCCCTTTAACAGGGGTAATACTAAACGCTAGAGGAAGTCGG
GTGGGGATTACTGAACTCAAACTACGCGTAATACGTCTACGCTCGTTTAAAAGCCGCTAAAGCCT
ATTCAACGAGCTCCAGTAGTCGTAGCTCGGTTAGCACTGTTCTAGCTGCGATTTAGCTACTTTAC
GCTAGTATTGAAGAGAGAGCAGCTGTGGCCAATGAAAGGAGCGGAATAGAAGGTGCGTAGCGGGG
GAGAGAAGTGGTAACACAGGGGTACGGGTCGAAACAACTTCCATACTTGTAGCTCGGGGCAAAGG
AAGTTGGTTAGGAGTAATTCACTGGACGGCGGTAAAGTGAGGAAAGAAAGCGTATATAGTCGTTT
AGCTCCATACTTTCCGTATTAGCACAACGAAAAGCAAAATCAAGGTTTCTACGTCGAGATAGAGT
TGGTGCTACGCAAGAGAATAGAGTTTATGGATGGGAAGAGATGAA
Right flanking sequence: Indices 262182 -- 262681
TGAAGGAAGCTATTCAGAAGCTTACTGAGCAGAAAGCCGATTCGTTGGGCGAGCAGAGGAAAGAA
AGAAAACACTTACTTATTGCTTTGCTGATTTCATTCAAAAGCGAAGGAAGAAAGCTACTCGACCA
AAGCAAAGAGCAAGCTGAAAAACGCAAGCAAAAAATTTCAATGTAAAGTTTTATGCATGCGAAAG
AGAAGTCGAAGGCCTTAGTCTGTGCCAGTCCCCGAGGAATAAGTTGTTCCAGGTAAGACTTTCTA
TAGTCGCATTCCTCTGCTGTCCCCTTGTTTGAGGAGTTCAGAGTTTCATCCAGTTCCTTACGAGT
GTACCAATTCCCCTCCAGCCAGTCTTAAGCCAACAGTATCTTATCACATCACAAGCCATCAGGGA
AGGGAAATCCTAGACTCAGACGAGGCTATGAAATAGGTGAAGTAGTCCTCAAAACCATGGGAAGA
AAAGATATTAAGGTACCCTTGAGGACTGATGCTGCTGGCTTATGG
Found at i:262154 original size:54 final size:55
Alignment explanation
Indices: 262072--262180 Score: 202
Period size: 54 Copynumber: 2.0 Consensus size: 55
262062 TATGGATGGG
262072 AAGAGATGAAAGGTCGTACTGCGTCGAGATAGCTCAT-AGGTCGTACTGCGTCGA
1 AAGAGATGAAAGGTCGTACTGCGTCGAGATAGCTCATCAGGTCGTACTGCGTCGA
*
262126 AAGAGATGAAAGGTCGTACTGCGTCGAGATAGCTCGTCAGGTCGTACTGCGTCGA
1 AAGAGATGAAAGGTCGTACTGCGTCGAGATAGCTCATCAGGTCGTACTGCGTCGA
262181 GTGAAGGAAG
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
54 36 0.68
55 17 0.32
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.22
Consensus pattern (55 bp):
AAGAGATGAAAGGTCGTACTGCGTCGAGATAGCTCATCAGGTCGTACTGCGTCGA
Left flanking sequence: Indices 261572 -- 262071
TAGCTGATGAAACAAGGGGAATAGCGGTAACAAAGCCCTTTAACAGGGGTAATACTAAACGCTAG
AGGAAGTCGGGTGGGGATTACTGAACTCAAACTACGCGTAATACGTCTACGCTCGTTTAAAAGCC
GCTAAAGCCTATTCAACGAGCTCCAGTAGTCGTAGCTCGGTTAGCACTGTTCTAGCTGCGATTTA
GCTACTTTACGCTAGTATTGAAGAGAGAGCAGCTGTGGCCAATGAAAGGAGCGGAATAGAAGGTG
CGTAGCGGGGGAGAGAAGTGGTAACACAGGGGTACGGGTCGAAACAACTTCCATACTTGTAGCTC
GGGGCAAAGGAAGTTGGTTAGGAGTAATTCACTGGACGGCGGTAAAGTGAGGAAAGAAAGCGTAT
ATAGTCGTTTAGCTCCATACTTTCCGTATTAGCACAACGAAAAGCAAAATCAAGGTTTCTACGTC
GAGATAGAGTTGGTGCTACGCAAGAGAATAGAGTTTATGGATGGG
Right flanking sequence: Indices 262181 -- 262680
GTGAAGGAAGCTATTCAGAAGCTTACTGAGCAGAAAGCCGATTCGTTGGGCGAGCAGAGGAAAGA
AAGAAAACACTTACTTATTGCTTTGCTGATTTCATTCAAAAGCGAAGGAAGAAAGCTACTCGACC
AAAGCAAAGAGCAAGCTGAAAAACGCAAGCAAAAAATTTCAATGTAAAGTTTTATGCATGCGAAA
GAGAAGTCGAAGGCCTTAGTCTGTGCCAGTCCCCGAGGAATAAGTTGTTCCAGGTAAGACTTTCT
ATAGTCGCATTCCTCTGCTGTCCCCTTGTTTGAGGAGTTCAGAGTTTCATCCAGTTCCTTACGAG
TGTACCAATTCCCCTCCAGCCAGTCTTAAGCCAACAGTATCTTATCACATCACAAGCCATCAGGG
AAGGGAAATCCTAGACTCAGACGAGGCTATGAAATAGGTGAAGTAGTCCTCAAAACCATGGGAAG
AAAAGATATTAAGGTACCCTTGAGGACTGATGCTGCTGGCTTATG
Found at i:284052 original size:33 final size:33
Alignment explanation
Indices: 284015--284121 Score: 103
Period size: 33 Copynumber: 3.3 Consensus size: 33
284005 ACCAGTTCAG
284015 GTGAGAGGGAGGATGTAATTCAGCTCGAACGAA
1 GTGAGAGGGAGGATGTAATTCAGCTCGAACGAA
* * *** * *
284048 GTGAGA--G-GGCTGAAAGGGAAGCTCGACCTACA
1 GTGAGAGGGAGGATGTAA-TTCAGCTCGAACGA-A
*
284080 GGGAGAGGGAGGATGTAATTCAGCTCGAACGAA
1 GTGAGAGGGAGGATGTAATTCAGCTCGAACGAA
284113 GTGAGAGGG
1 GTGAGAGGG
284122 CTGAAAGGGA
Statistics
Matches: 53, Mismatches: 16, Indels: 10
0.67 0.20 0.13
Matches are distributed among these distances:
30 6 0.11
31 10 0.19
32 6 0.11
33 15 0.28
34 10 0.19
35 6 0.11
ACGTcount: A:0.32, C:0.13, G:0.40, T:0.15
Consensus pattern (33 bp):
GTGAGAGGGAGGATGTAATTCAGCTCGAACGAA
Left flanking sequence: Indices 283515 -- 284014
GATGAGAGGGAAGGTCGATTTGACTCGAATCCTGGACCTGATCTTGAATCCTACACCGGTTAATG
ATGCGATGGGGGAAGTTTTTCTTTTTTCATCAATGCTGGCCCAGTCGAGGCTCGTCCATGCCCAA
TCCCGATGGGCCTTCGATTTGCCCCTACCCTAGCTCTATAATCCACCCGTCTTCCCCAGTCCCTG
AAAGCCCTCCGGGGGCCTAGCCCTCTTTCTCCACTCGAGTCTGAAGTTCAGCGGCTTTCATCGTT
GACGAACACCTGCGCTAATAAGACAAAGAAATGGAGAGTCTATGCCTTGAATGAATCAGTAACAA
CGGATTAGTGGAATGAGGGATCAAGAGACGGATAGGGAGGGAATGGCCTATCAATCATTGGTTGA
CCTTCCCTTGAACCAGTCACGGAGCTCTCAACTGAGTTGTTTAGGTTCTGGAATTGGGGCTTTCG
ATTCGAAAAAATGTGGTGCGGGTTCATCTCTCTCGACCAGTTCAG
Right flanking sequence: Indices 284122 -- 284621
CTGAAAGGGAAGCTCGACCTACAGGGAGAGGGAGGGTGATCGAGGGGACCCAGACTTTCGATCTC
TTCTCTATGGCGGGAGGTTTCTTTCGTATCAAGAGTGTGTTGGGGAGGCCAGGGAAGATGGATTG
GATCGAGAGGCGATGCTTATGCCTCTTCTTTCTCGATAGGATTCCCATCATTTTCAGTCTACGGC
GAAGGAGACAAGGGCGAGGCACCGAACATGTTCTACCCTCAACCTCCATCCGTCATTAGTAATCT
CAATTCGCTTTTCCTATTCACTAGTACACTGCGCGCTACAACTAGCAGCCCCTTGTATAGGTTGG
GAAAAGGCTAGCGCGCTAGCGCGCAACGGCTGATGAAAAGCCAGCAACTTCTTAGGAGTCAGTTC
CGCCCAAGGGCCCCTCTCCTTACAGTGGCTGAACGCCCCTTTCTTCTTATTAGTCAGATAGGTTT
GGAACCCTATACAAGGGGCTGCTTGCTGCTCGCCCCTATTTCTAA
Found at i:284091 original size:65 final size:65
Alignment explanation
Indices: 284012--284156 Score: 281
Period size: 65 Copynumber: 2.2 Consensus size: 65
284002 TCGACCAGTT
284012 CAGGTGAGAGGGAGGATGTAATTCAGCTCGAACGAAGTGAGAGGGCTGAAAGGGAAGCTCGACCT
1 CAGG-GAGAGGGAGGATGTAATTCAGCTCGAACGAAGTGAGAGGGCTGAAAGGGAAGCTCGACCT
284077 A
65 A
284078 CAGGGAGAGGGAGGATGTAATTCAGCTCGAACGAAGTGAGAGGGCTGAAAGGGAAGCTCGACCTA
1 CAGGGAGAGGGAGGATGTAATTCAGCTCGAACGAAGTGAGAGGGCTGAAAGGGAAGCTCGACCTA
284143 CAGGGAGAGGGAGG
1 CAGGGAGAGGGAGG
284157 GTGATCGAGG
Statistics
Matches: 79, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
65 75 0.95
66 4 0.05
ACGTcount: A:0.32, C:0.14, G:0.41, T:0.13
Consensus pattern (65 bp):
CAGGGAGAGGGAGGATGTAATTCAGCTCGAACGAAGTGAGAGGGCTGAAAGGGAAGCTCGACCTA
Left flanking sequence: Indices 283512 -- 284011
TGAGATGAGAGGGAAGGTCGATTTGACTCGAATCCTGGACCTGATCTTGAATCCTACACCGGTTA
ATGATGCGATGGGGGAAGTTTTTCTTTTTTCATCAATGCTGGCCCAGTCGAGGCTCGTCCATGCC
CAATCCCGATGGGCCTTCGATTTGCCCCTACCCTAGCTCTATAATCCACCCGTCTTCCCCAGTCC
CTGAAAGCCCTCCGGGGGCCTAGCCCTCTTTCTCCACTCGAGTCTGAAGTTCAGCGGCTTTCATC
GTTGACGAACACCTGCGCTAATAAGACAAAGAAATGGAGAGTCTATGCCTTGAATGAATCAGTAA
CAACGGATTAGTGGAATGAGGGATCAAGAGACGGATAGGGAGGGAATGGCCTATCAATCATTGGT
TGACCTTCCCTTGAACCAGTCACGGAGCTCTCAACTGAGTTGTTTAGGTTCTGGAATTGGGGCTT
TCGATTCGAAAAAATGTGGTGCGGGTTCATCTCTCTCGACCAGTT
Right flanking sequence: Indices 284157 -- 284656
GTGATCGAGGGGACCCAGACTTTCGATCTCTTCTCTATGGCGGGAGGTTTCTTTCGTATCAAGAG
TGTGTTGGGGAGGCCAGGGAAGATGGATTGGATCGAGAGGCGATGCTTATGCCTCTTCTTTCTCG
ATAGGATTCCCATCATTTTCAGTCTACGGCGAAGGAGACAAGGGCGAGGCACCGAACATGTTCTA
CCCTCAACCTCCATCCGTCATTAGTAATCTCAATTCGCTTTTCCTATTCACTAGTACACTGCGCG
CTACAACTAGCAGCCCCTTGTATAGGTTGGGAAAAGGCTAGCGCGCTAGCGCGCAACGGCTGATG
AAAAGCCAGCAACTTCTTAGGAGTCAGTTCCGCCCAAGGGCCCCTCTCCTTACAGTGGCTGAACG
CCCCTTTCTTCTTATTAGTCAGATAGGTTTGGAACCCTATACAAGGGGCTGCTTGCTGCTCGCCC
CTATTTCTAAAGTGGCTTATGCACTCCACTTGTTACCACTAAACG
Found at i:284138 original size:31 final size:31
Alignment explanation
Indices: 284036--284138 Score: 91
Period size: 31 Copynumber: 3.2 Consensus size: 31
284026 GATGTAATTC
284036 AGCTCGAACGAAGTGAGAGGGCTGAAAGGGA
1 AGCTCGAACGAAGTGAGAGGGCTGAAAGGGA
* * * * * ***
284067 AGCTCGACCTACAGGGAGAGGGAGGATGTAA-TTC
1 AGCTCGAACGA-AGTGAGA--G-GGCTGAAAGGGA
284101 AGCTCGAACGAAGTGAGAGGGCTGAAAGGGA
1 AGCTCGAACGAAGTGAGAGGGCTGAAAGGGA
284132 AGCTCGA
1 AGCTCGA
284139 CCTACAGGGA
Statistics
Matches: 51, Mismatches: 16, Indels: 10
0.66 0.21 0.13
Matches are distributed among these distances:
30 6 0.12
31 17 0.33
32 6 0.12
33 6 0.12
34 10 0.20
35 6 0.12
ACGTcount: A:0.33, C:0.16, G:0.39, T:0.13
Consensus pattern (31 bp):
AGCTCGAACGAAGTGAGAGGGCTGAAAGGGA
Left flanking sequence: Indices 283536 -- 284035
GACTCGAATCCTGGACCTGATCTTGAATCCTACACCGGTTAATGATGCGATGGGGGAAGTTTTTC
TTTTTTCATCAATGCTGGCCCAGTCGAGGCTCGTCCATGCCCAATCCCGATGGGCCTTCGATTTG
CCCCTACCCTAGCTCTATAATCCACCCGTCTTCCCCAGTCCCTGAAAGCCCTCCGGGGGCCTAGC
CCTCTTTCTCCACTCGAGTCTGAAGTTCAGCGGCTTTCATCGTTGACGAACACCTGCGCTAATAA
GACAAAGAAATGGAGAGTCTATGCCTTGAATGAATCAGTAACAACGGATTAGTGGAATGAGGGAT
CAAGAGACGGATAGGGAGGGAATGGCCTATCAATCATTGGTTGACCTTCCCTTGAACCAGTCACG
GAGCTCTCAACTGAGTTGTTTAGGTTCTGGAATTGGGGCTTTCGATTCGAAAAAATGTGGTGCGG
GTTCATCTCTCTCGACCAGTTCAGGTGAGAGGGAGGATGTAATTC
Right flanking sequence: Indices 284139 -- 284638
CCTACAGGGAGAGGGAGGGTGATCGAGGGGACCCAGACTTTCGATCTCTTCTCTATGGCGGGAGG
TTTCTTTCGTATCAAGAGTGTGTTGGGGAGGCCAGGGAAGATGGATTGGATCGAGAGGCGATGCT
TATGCCTCTTCTTTCTCGATAGGATTCCCATCATTTTCAGTCTACGGCGAAGGAGACAAGGGCGA
GGCACCGAACATGTTCTACCCTCAACCTCCATCCGTCATTAGTAATCTCAATTCGCTTTTCCTAT
TCACTAGTACACTGCGCGCTACAACTAGCAGCCCCTTGTATAGGTTGGGAAAAGGCTAGCGCGCT
AGCGCGCAACGGCTGATGAAAAGCCAGCAACTTCTTAGGAGTCAGTTCCGCCCAAGGGCCCCTCT
CCTTACAGTGGCTGAACGCCCCTTTCTTCTTATTAGTCAGATAGGTTTGGAACCCTATACAAGGG
GCTGCTTGCTGCTCGCCCCTATTTCTAAAGTGGCTTATGCACTCC
Found at i:284153 original size:32 final size:32
Alignment explanation
Indices: 284050--284153 Score: 95
Period size: 32 Copynumber: 3.2 Consensus size: 32
284040 CGAACGAAGT
284050 GAGAGGGCTGAAAGGGAAGCTCGACCTACAGG
1 GAGAGGGCTGAAAGGGAAGCTCGACCTACAGG
* * *** * * *
284082 GAGAGGGAGGATGTAA-TTCAGCTCGAACGA-AGT
1 GAGA--G-GGCTGAAAGGGAAGCTCGACCTACAGG
284115 GAGAGGGCTGAAAGGGAAGCTCGACCTACAGG
1 GAGAGGGCTGAAAGGGAAGCTCGACCTACAGG
284147 GAGAGGG
1 GAGAGGG
284154 AGGGTGATCG
Statistics
Matches: 51, Mismatches: 16, Indels: 10
0.66 0.21 0.13
Matches are distributed among these distances:
30 6 0.12
31 10 0.20
32 13 0.25
33 6 0.12
34 10 0.20
35 6 0.12
ACGTcount: A:0.32, C:0.15, G:0.41, T:0.12
Consensus pattern (32 bp):
GAGAGGGCTGAAAGGGAAGCTCGACCTACAGG
Left flanking sequence: Indices 283550 -- 284049
ACCTGATCTTGAATCCTACACCGGTTAATGATGCGATGGGGGAAGTTTTTCTTTTTTCATCAATG
CTGGCCCAGTCGAGGCTCGTCCATGCCCAATCCCGATGGGCCTTCGATTTGCCCCTACCCTAGCT
CTATAATCCACCCGTCTTCCCCAGTCCCTGAAAGCCCTCCGGGGGCCTAGCCCTCTTTCTCCACT
CGAGTCTGAAGTTCAGCGGCTTTCATCGTTGACGAACACCTGCGCTAATAAGACAAAGAAATGGA
GAGTCTATGCCTTGAATGAATCAGTAACAACGGATTAGTGGAATGAGGGATCAAGAGACGGATAG
GGAGGGAATGGCCTATCAATCATTGGTTGACCTTCCCTTGAACCAGTCACGGAGCTCTCAACTGA
GTTGTTTAGGTTCTGGAATTGGGGCTTTCGATTCGAAAAAATGTGGTGCGGGTTCATCTCTCTCG
ACCAGTTCAGGTGAGAGGGAGGATGTAATTCAGCTCGAACGAAGT
Right flanking sequence: Indices 284154 -- 284653
AGGGTGATCGAGGGGACCCAGACTTTCGATCTCTTCTCTATGGCGGGAGGTTTCTTTCGTATCAA
GAGTGTGTTGGGGAGGCCAGGGAAGATGGATTGGATCGAGAGGCGATGCTTATGCCTCTTCTTTC
TCGATAGGATTCCCATCATTTTCAGTCTACGGCGAAGGAGACAAGGGCGAGGCACCGAACATGTT
CTACCCTCAACCTCCATCCGTCATTAGTAATCTCAATTCGCTTTTCCTATTCACTAGTACACTGC
GCGCTACAACTAGCAGCCCCTTGTATAGGTTGGGAAAAGGCTAGCGCGCTAGCGCGCAACGGCTG
ATGAAAAGCCAGCAACTTCTTAGGAGTCAGTTCCGCCCAAGGGCCCCTCTCCTTACAGTGGCTGA
ACGCCCCTTTCTTCTTATTAGTCAGATAGGTTTGGAACCCTATACAAGGGGCTGCTTGCTGCTCG
CCCCTATTTCTAAAGTGGCTTATGCACTCCACTTGTTACCACTAA
Found at i:313185 original size:13 final size:13
Alignment explanation
Indices: 313167--313197 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
313157 TCAAAGTCTT
313167 GTTGACTCAAAAC
1 GTTGACTCAAAAC
313180 GTTGACTCAAAAC
1 GTTGACTCAAAAC
313193 GTTGA
1 GTTGA
313198 ATGCTACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (13 bp):
GTTGACTCAAAAC
Left flanking sequence: Indices 312667 -- 313166
TGTCGCACGGAGCTTCATTCTTTATTTAATAGCGCTAAGTAGCGCCTTCTCTTTTCTTACTCGAG
GATTGCTTTGATTAGACTCCTTTGCATTGGGGAATACCTTTCGCCTTACTAGATCCGTTCTTGGA
AAAACGGAGCATAAACCCAGCTCGGTTATTGACCCTTTTACGGACCAATATCCGACTCCCCCCAC
GAAGCACAATCTGAGAAATGGGGATTAGCGAGAACCATCCATTCGAAGTCCAATCCAATCCTTTG
AAGTAACTAACCAGGCTAGAAGAGAAAAGGCCAGAATGATCTTAGTGAACTGTAAACCGTAGTTC
AAGGAGGCTTTCTAAGTCCTATCCTAGTAGGGTCGAAAGCAAAGGCTTCAGAGACTCTCTTTCTA
ATAGATTCAAAAGTCAAGAAAAAGTCTGCATTTCTTTTTCCTACTGGATTTCAAATTCCAGTTCT
GATTTTGACCTGAACTTCAGAGGCGATGGAGAAAATCAAAGTCTT
Right flanking sequence: Indices 313198 -- 313697
ATGCTACCTTAAGGGAGAGAAGTTTCCCAAGGGCAGAGTTAAGGTGACATGAAATTGCTTAAGAG
AAAGAGAGAAGGTAGGCTAGGTGGCTCACTTCCCGCCAGATAACGATGGGTAAGCAAACTTGTTT
AAGATATCCATGGAAGCAAGACTGAGTAGCTCAATCTCTAAGTGTTAAATTGTCAGTTTCATCAA
CGAAAGTTGCCTGAGATCATATGGATCAACAATTCTCATTTCTTAGTTACAGAAAGCCCTTCTCA
GTAAGCCAAGAGCCACTCATCTAAGCCAGCGGATTCGAATTCAGCTGTGCCGGTGCGCAAAGCAA
GCACGCTTAGACTGCGATGTGCAATCATGAGTACAAATTGACACTCTGACCGCTGGCAGACGCTT
ATTTTGCCTGAAAGAAGGAAAAGAATCAGTCCCACAGCCTACTTTTACGTTTCCAATTTCCGGGG
CAGAAGATCAAAGAAGGAAGAAGTTTCTCTTCTTTCCTTGATTCC
Found at i:336045 original size:21 final size:21
Alignment explanation
Indices: 336019--336090 Score: 144
Period size: 21 Copynumber: 3.4 Consensus size: 21
336009 CATTCTTTCA
336019 AGTTCTGATTCGTAGTGATTT
1 AGTTCTGATTCGTAGTGATTT
336040 AGTTCTGATTCGTAGTGATTT
1 AGTTCTGATTCGTAGTGATTT
336061 AGTTCTGATTCGTAGTGATTT
1 AGTTCTGATTCGTAGTGATTT
336082 AGTTCTGAT
1 AGTTCTGAT
336091 ACATAATCAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.19, C:0.10, G:0.24, T:0.47
Consensus pattern (21 bp):
AGTTCTGATTCGTAGTGATTT
Left flanking sequence: Indices 335519 -- 336018
AATATGTACATCAAGTGCTAAAAACGACCCCGATACATTCAGCCACATATGAAGTAATGGTCCGA
GACTTCCTAAACACGGAGATGTGTTTTGTAACTCGCGACCAGATTTCCTCTCTCTATCAACTCAT
TTTTTATGGTCGAGAGGATCCCCAATTATTCATTGATCCACAAGACCTAGATTCCATACTCAAAT
TGCACCTTGAACCCCTCGAATTCAATCACCCGGCTCTATGCCAGGTCTTGGAAAGTTTGTCTTTC
GAAAGAGAGACATCCCCATTCTATTTTGAGGTAAAAAGGACCCAGGCAGAGCATTTCCAGGGCTT
TTTAAAACAAAAGCACCAAGCCCAATTGGAAATGCAACATCGCCGAGAATTAAAAGAGTTATGGG
AATCCCTGTCGAGAAGGAACGCTTTTCTAAGCGAAGAAAACGCCTCTCTAAGAGAAAGACTTTTT
ATTCTCGACGGGGAAGCCCCATAACATTATTTATGCATTCTTTCA
Right flanking sequence: Indices 336091 -- 336590
ACATAATCAATCCTATCAAATATTTCGATTTTTCCTTTGAATTACTCATATATATCCTATGAATT
TCATTTCGCACCGGAAACTATTCTAGGAGAAGTTCGAATCCGTTCCGTTCGGATATTGATTGGTC
TTGGTTTGACATGGTTTACGCGTTACTGGTTCCCGGAAGAGTTAATATTTCCATTAGCTAAACCC
TTTCTTACCCTGCCTTTGGATTCGTATTTTGTTCGTACACAATCAACGGAGGCCTTCCCGACATA
TGTTGCAACGTCTCCAATAGCATGCTCTTACTTCGTCTTTCCCTTAATAAGTCATCAAATTTGGT
GCTTTTTGATCCCCAGTTGCTATGAGGAACAAAGGACGAAATACAATCGATTCCTCTATTTAAGT
GGTTCTCGCTTCTCCTTGTTCCTGTTCCTAACTCCTCCCCGGGTAGTTCCCAATGTTTGGCACTT
TCCATACTTCATGGGTGCAACATCAACAAATTCGCTCATGATCAA
Found at i:338229 original size:19 final size:19
Alignment explanation
Indices: 338205--338242 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
338195 TCGGTGCGAC
*
338205 CACTAAAGAATTGCTTATA
1 CACTAAAGAACTGCTTATA
*
338224 CACTAAAGAGCTGCTTATA
1 CACTAAAGAACTGCTTATA
338243 TACGTTTACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.29
Consensus pattern (19 bp):
CACTAAAGAACTGCTTATA
Left flanking sequence: Indices 337705 -- 338204
AAGAGTCAAGACCAGGCTACCTAATGGAATGTTTAACCGATCCATTCCGGATCGACCGAATTGGT
ACGGAAGTTGTAACATGGGAAAACCACGGAAAACACGACTTATTTGAATAACCCGGTGACCTACC
AATTGTAGAAGTAGGATTTTTGGCAAGCAATAAGCACTTAAATAATACAATTCAAGTGTACCATC
TTCTTTCTCATTTCGAGGAAAAGGTGCGGAAGGAAAAGGAAACAACGGAGGGATCCGAATCGGAC
CTAAATGGGAATGACATGAAAAGTCTTTTTCAAAACCTAGCATTAAGGGCGTTACGACGATATAC
GAGAGGAATAGAGAAAAACTCGTGATTGGTGTGGAGGGGAAGATCTGTTTATGATATAGTTCAAG
AAAGAGTCGTCTCATTTCCTTACTTCTTTATAATTCATTCACTTCAAGACTGGTTCTGAACGCCG
CGTAACATCATCTTCAACCAACCTCCACCGTACTTTCGGTGCGAC
Right flanking sequence: Indices 338243 -- 338742
TACGTTTACTAAAAGACTGACTTTCATTCATTATCATTAGTCCAGCGTGAAACTAAGAAAGAGAG
ATGTGCCTAAGGCGGCATGTAAGCAAACTGTGCACGCTAAGAGAAGAGGAGAGATGTTCGCAATT
ACTACCACAAGAAAGCCGCCCCCTATCTTCTAAAGGGGCCCCTCACTTCGTTCGTACCTTCTTGG
CTTAGGCTTCCAACTGAACAACATGGCCTTGCCGCCCCGCCACTAGCAGAAGCTAAGCGCTTGAA
AAGCGCGCTAAGAAAGGTTCCTTCTGTCGCCCTTTCTGTGCAACAGTCCACCAGTAGCGGAAGAG
AGGGTTACCGTACATACAAGAGTCTTCCAGTTCTTACGGAAGCTCTTTCTTACCAGTCAATCAAG
TAGTACAAGAACTGTATCTTATCTTATAGCCCGGCGCGGCGGGTCGCCTTTGAAATGTTTGTTGT
AGATAGAAGAAAGTATTAAATAGATAAGGAGTAGATGAGTGAGTG
Found at i:361237 original size:33 final size:33
Alignment explanation
Indices: 361193--361281 Score: 169
Period size: 33 Copynumber: 2.7 Consensus size: 33
361183 AAGAAGATCA
*
361193 AAAAAGGTTATGATGAGCTTGAGTCGAGTCAAT
1 AAAAAGCTTATGATGAGCTTGAGTCGAGTCAAT
361226 AAAAAGCTTATGATGAGCTTGAGTCGAGTCAAT
1 AAAAAGCTTATGATGAGCTTGAGTCGAGTCAAT
361259 AAAAAGCTTATGATGAGCTTGAG
1 AAAAAGCTTATGATGAGCTTGAG
361282 AAGAGAGATG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.37, C:0.10, G:0.26, T:0.27
Consensus pattern (33 bp):
AAAAAGCTTATGATGAGCTTGAGTCGAGTCAAT
Left flanking sequence: Indices 360693 -- 361192
AAAAAGCTTTCCTGCACGCGGGAACCTTCCTTCTTCGAACCTTGATGCTCAGTTCTGTTCTCCCG
CACACCCGCTTTTGCAAGGCTAGCCGGGGGGGAGGTGCTTTTTCGGGTTTGGTTTGCCTAGATAG
GAAGTGCGCTTGCAGTGCTTCTAGTAACTATTTTGAAGTACAATATATTTCTGTTCCAGGGGTAT
GATTGCTTCTTTCTTCGGCTTAAAAGCTAGGGCTTGTGGTTCGTTATCAGTACCTGTTTTAGAGC
GATATAACCTCCTTGTCCGCCTCTCAATGTCCGGGTCTTTCCCCAGCCCTCTCTCTCGATGTGGT
GCCTTTCACTCTGCTCTGTCAACACTTTATCGCAATGCCGAAAGGTAGGATTTCAGGTCTTTTGG
CAATAGAAGGCATATTACTAATTGATTCTTTGGCCATTTTGTGTTCGAATTCTAAACCGGCGAGG
CGCTGCTGGATGCTTCTGATCAATAGAACACGAAGAAGAAGATCA
Right flanking sequence: Indices 361282 -- 361781
AAGAGAGATGCACAGAGGAAGAGAACGAACGTCAGCTTTGTTTTTCTCTCTTTTGAAACGCATTT
TTCTCAGTCTCACTGTCCTTTTGCTTACTCCTATCCTTTTACACTTTAATTGGGACTTTTCTTTG
GAAGCCGCTTTCTTTGCTCCATTTCGTCAGCGACTTTTTTGATTTTTGGCTTTCTTTGATGGATA
GAATTCCTCTTTCCGTCGGAGGCGATGGAAGTGGTCCTAGCTTATCGAAAAAACCTTCCTTTGAT
CTCAACATACCCTCGGTTGAACACCAGGTATATGAGCTCATGGAAGAGGAAATCAAAAGGAGAAA
GGCAAAATTAGCCGACCTCCTAGAACCTCTCATTCAAAGAGAGGCAGAAAGGTATCCCAACATAA
GGGAACTGCCTTCGCCAAAGGCCATGGTCGAAAGGCTAATCGAAAGCCTTGGATCGGATCAGATA
AAGCCAAAGAAGAAAACGAGGGCAATGCGCCCAATTTTACAAATC
Found at i:384308 original size:21 final size:21
Alignment explanation
Indices: 384282--384321 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
384272 TTTCAACTCT
384282 CTCAAAATGGAATCTATTCTA
1 CTCAAAATGGAATCTATTCTA
384303 CTCAAAATGGAATCTATTC
1 CTCAAAATGGAATCTATTC
384322 CAAACATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.33
Consensus pattern (21 bp):
CTCAAAATGGAATCTATTCTA
Left flanking sequence: Indices 383782 -- 384281
AATATCTTGTTCATTCGCAACAAAATATTTTCTTTGTGCGTCGGTAAAAAAAAAACATGCTTTTT
GGGGAGAGATACTATTTCACCAATCGAGTCACAGGTATCTAACATATTCATACCTAACGATTTTC
CACAAAGTGGTGACGAAACGTATAACTTGTACAAATCTTTCCATTTTCCAAGTCGATCCGATCCA
TTCGTTCGTAGAGCTATTTACTCGATCGCAGACATTTCTGGAACACCTCTAACAGAGGGGCAAAT
AGTCAATTTTGAAAGAACTTATTGTCAACCTCTTTCAGATATGAATCTATCTGATTCAGAAGGGA
AGAACTTGCATCAGTATCTCAATTTCAATTCAAACATGGGTTTGATTCACACTCCATGTTCTGAG
AAAGATTTATCATCCGAAAAGAGGAAAAAACGGAGTCTTTGTCTAAAGAAATGCGTTGAGAAAGG
GCAGATGTATAGAACCTTTCAACGAGATAGTGCTTTTTCAACTCT
Right flanking sequence: Indices 384322 -- 384821
CAAACATATATGCCATGGTTCCTTACTTCGACAGGGTACAAATATCTAAATTTGATATTTTTAGA
TACTTTTTCAGACCTATTGCCAATACTAAGTAGCGGTCAAAAATTTGTATCCACTTTTCCTGATA
TTATGCATGGATCAGGTATATCATGGCGAATTCTTCAGAAAAAATTGTGTCTTCCACAATGGAAT
CTGATAAGTGAGATCTCGAGTAAGTGTTTACATAATCTTCTTCTGTCCGAAGAAATGATTCATCG
AAATAATGAGTCACCATTGATATCGACACATCTGAGATCGCCAAATGCTCGGGAGTTCCTCTATT
CAATCCTTTTCCTTCTTCTTGTTGCTGGATATCTCGTTCGTACACATCTTCTCTTTGTTTCCCGT
GCCTCTAGTGAGTTAGAGACAGAGTTCGAAAAGGTCAAATCTTTGATGATGGAATCATCTATGAT
TGAGTTGCGAAAACTTCTGGATAGGTATCCTCCATCTGAACCGAA
Found at i:385588 original size:57 final size:57
Alignment explanation
Indices: 385519--385632 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
385509 ATTGTTCTTT
385519 GTCCGAATCCGTCTCGGAGGATGCATGGCCGATAAGGGAGTCCGACGGAGAAGCCGG
1 GTCCGAATCCGTCTCGGAGGATGCATGGCCGATAAGGGAGTCCGACGGAGAAGCCGG
385576 GTCCGAATCCGTCTCGGAGGATGCATGGCCGATAAGGGAGTCCGACGGAGAAGCCGG
1 GTCCGAATCCGTCTCGGAGGATGCATGGCCGATAAGGGAGTCCGACGGAGAAGCCGG
385633 AGTCGCCGGA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.23, C:0.25, G:0.39, T:0.14
Consensus pattern (57 bp):
GTCCGAATCCGTCTCGGAGGATGCATGGCCGATAAGGGAGTCCGACGGAGAAGCCGG
Left flanking sequence: Indices 385019 -- 385518
TAGGCTAGCGCGGCTCGCTTCGCTCTTCAAGCTCCGCCCCAGCAAGTCATAATTGAAAAACGATG
TTTCGATTTGTAGCATCATTCTTCCCATCCCGTCTTGCGACGGTGCTTCTTTAGTAGGTCCGAGA
AGCCAGCATATGATGCCCCCGCTGGGGCTGTTTCGAACTTGGCCCAGTCCAGCCCCAGCAATTCT
TTTGATAGGCGTTCCATTTCTTCCTTTGTTTGGACGAATTCAAGCTTTAAAGCTTGGGCCAGTTC
CTCATTGCTGATCAAACCAGCAATTTTCCCACTGGCCTCCCATTCTTCGATCCTTCCCCTTGCAA
TGCGAATCAAACTTTCTTTCATTGCCTCGTGTGCTGCACTTCCCGGGTTGATAGAAGTAAAAGAG
TATCGCTCTTCGTTCTCCCCGTTGTTGGGAGCACTCTCAATACCGGGAGTCGAGGTGGAAGAAGA
CGACGCGGACGAGACGGATTGTGGTGGAGTAAAGAATTGTTCTTT
Right flanking sequence: Indices 385633 -- 386132
AGTCGCCGGAGACTCTGAGCTTGATGCGCCTGATGTCCCCTCGCCGAAAGGGATCATCATATGGG
TGAACTCCTCGCCTGTGAGCAGCGCTCGTAAAGCAAAGCCTACTCTCAAGGCAAGCCCTGCTGAG
CAGCAGCAGCCCAACCCTCTTAGAGGAAAGGATAGGGCTCGACCGCCCAGAAAGAACCCAACCTT
TGAAAGTAAGGCATGAAAGAAATCCATCAAGTTGAATAAGATACAAAGAAGATACAAAAGACTGC
ACACAGTTGCTACAAAGAGGAAAGGCACCGATTTCAACCAAATAAGAGTACCATGTTTGCCCAAT
AAGAAGACTTTCTTCAACAATCTTCGGAGAATACGGCGTTGTATTCTTATAAGTTCTCGTTGACC
ACGACCTATAGGAACCAGGCTATCTACCGCTTTTAAACCTGTTTGCATAGGCTCGTGCACTGATT
TACGTTCAATAATCCCAGGGGCTTTCACTTCCACACGTCTTCGCT
Found at i:392264 original size:28 final size:28
Alignment explanation
Indices: 392224--392280 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
392214 TGCGCTTAAA
392224 TCAACTAGTAGAAGGAAGGTGGCACAGT
1 TCAACTAGTAGAAGGAAGGTGGCACAGT
392252 TCAACTAGTAGAAGGAAGGTGGCACAGT
1 TCAACTAGTAGAAGGAAGGTGGCACAGT
392280 T
1 T
392281 AATCAACTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.14, G:0.32, T:0.19
Consensus pattern (28 bp):
TCAACTAGTAGAAGGAAGGTGGCACAGT
Left flanking sequence: Indices 391724 -- 392223
TCGAGGCTATGAGTTTTCATAGGACAGATGATCCTTTACCGTGAAGGTAGTTTACTTGCTTACTT
GTTAAAGTAAGGCAGAAAGAGTACCTGTTGTTAACAAAACGGAGTCTCAAAAGCTCATTTATCGC
AGTGGTCTCAAAAACGAAATTATCGTATTTTAGAAAAAGAGGTCTATAAAAGTCACTTAAGAAAG
ATGGCGCCTTTGCGAGGATGTCTTGAATCAGCCAATGCCAAGGCAACAAGGCTAGCATCAAACCT
ACCTGCCGAGAACCCTCCAACATTCCTACCAAGGTTCCCATCCCCGATGACAGAAGAAGGACGTA
ACCGGTGTTAAGGTTAGAAGGGTAACTGCTCTCGTAGTCGTAGCCGCTCTTGGGACTGATTCCTT
AAGGAAATGGAATTCTTCCTAAATTCCCATGGAAGGTGTAGATGTTTAGGCTTGCCCCTGCTGCT
GCTAGAGAATAGGTCGTCACTTTCTTTGCGGTTGATGCGCTTAAA
Right flanking sequence: Indices 392281 -- 392780
AATCAACTGAATCCGCGCTTAGAAAGAATAACTTTGAAGCCACGTTTAGAATGGTCAGCACCTTT
TGAGAAGAATTGCTCTTTGGAGAGCTAAATATAAGGGCGATGAAAGTTGTAAGCCGTAGAAAGGA
GATTTTGTTTGTTCATAGACAGAAACTAATTGTGGAAATTCACTCTTTTATTCTGAGTGCGCAGA
ATGGTGCTTTGCGGCTACTATGGGTCTTCAAAAGGAACCAGGGGCAAAGACATCCTAAGAAGTTT
GCCTATGGACTCTACCTCAGCGACCTTCTTCCGTACTTTCACGAGAAAGCAAGCTATCGACCTTA
TCTCCGTTAGTTTTTCAAGATCAGTGAACCCGGATGTCAACATCTCTATGGGGCCTACTCTAGTC
TTTTATCTGCGGAGAGATGGTCGTTTACATGCTTACTTACTAAAGTACGGGAAAGAAATAGCTTA
CAAGAACAAGTAAGAGAGTTGACTTGCTTACTTTAACAAGTAAGG
Found at i:394185 original size:14 final size:14
Alignment explanation
Indices: 394166--394193 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
394156 TCTACAAAGG
394166 GTTATTAATGGGAT
1 GTTATTAATGGGAT
394180 GTTATTAATGGGAT
1 GTTATTAATGGGAT
394194 AAAGTCGAAA
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:0.00, G:0.29, T:0.43
Consensus pattern (14 bp):
GTTATTAATGGGAT
Left flanking sequence: Indices 393666 -- 394165
GATTTCAATAACTTAGACTCGAATTTGAAATAAGCTAATAAGCTCTTTCTCGATTCGCCGCATTT
CTATCTCTTACTATCAAAAAGAAGACTAGCTTTTGGTATCTTCACTAACTCGATTCAAGAGCGAC
TCCAGGGCGTTAAGCTCGGTGAGGTGGGTTCGAAAGACAGAGAGTTGATGAGGAGGCTTTTATAA
GAAAAAAGGCATGGTTCTTTCAATTCCGCATCCGGGGAAAGCAGCTTCCGCTAAAAACCATATCT
GCTACTCTGACATTAGCTATTCGAGTAAAATCATAGGATTGAAAGCCGATTGCTACTTTCTTGCC
TTGGGGCATCGCATTCTGGATAACGTAATAAAAAGTCTTTCTCTACTGTCTTCACCCTGGTCCTC
TCATACGCCGAGGGCTCAATTACAGGTTCCTTTATAGGTCAGCCCCTACGCTAGCGCTGGTGCTG
ACTTGCTAGATCTTGCTTTCAGGTTCTTTAGTAGTTCTACAAAGG
Right flanking sequence: Indices 394194 -- 394693
AAAGTCGAAACTTTGACTCCAACTATTACTGAAATGGATAAGATTGTATGAAGGAAGAGAGAGGA
CTGATCGGGTGAGAAGTCCGATTGATGACTGACCTTTCTATGCTGCCATTGATAGTCTTTTCTAA
CTTCTTACTAACCTTAAAGCTAACTAGAAGGCGAAGTATCTAATGGGTATTAGGGACGAGCTCTT
AAAGAAGACTAAAGGAGCCCTCCCAGCAACTAAACAATCAAAAGTGTGCGATCCTCCCCATAGTA
TAGGCCTAGTATGATTGACATATCAAGTCAAGAGGGCGAGGACCCTATGGCAAATGGATGGGATA
AATCCCTAGGGTCGGGCGGTTGCTACTCCTGGGCTAGGACTACTATGTCCACCCAAAAGCTCTAA
TTCTCAGGCTAGTCCGAAAGCAATAAAAGAAAAGATTAGCAAGGCTAAGGAAAACAAGTACAAGC
ATATGTATGCCTTGTTTATAGAATGCCTTTCCGTCTAAAATCACG
Found at i:416182 original size:20 final size:19
Alignment explanation
Indices: 416157--416197 Score: 73
Period size: 20 Copynumber: 2.1 Consensus size: 19
416147 CGTTTCATGC
416157 TTGATAGCTATTCAGTCGTT
1 TTGATAGCTATTCAGTC-TT
416177 TTGATAGCTATTCAGTCTT
1 TTGATAGCTATTCAGTCTT
416196 TT
1 TT
416198 CATGCATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.20, C:0.15, G:0.17, T:0.49
Consensus pattern (19 bp):
TTGATAGCTATTCAGTCTT
Left flanking sequence: Indices 415657 -- 416156
ATAAGTAAGGGTAAGAGTCATTCCAATTGAGTAGGTGAAGAGTCTCTTTCGAGCGAGATCCTTTA
CCACGCCTAACTAAATGAAAGAAAGTAAGAGAGAGAGTTGCCGCCTATTTCAACAATGAAAATAA
AGGACTTCCTTATCCTAAGGCTGTCACTGAATGAATCTGGTAACTAATGCCGCCAGAGAGGCTGA
GGTGAGTATCGTCGCATCGCCTCCTCCACACTTCTTTTTCTTTTTTCGGCTTGATAGCTATGAAG
TTGTTATTTATGCTTTATAGCGTTGAAGTCGTTTTTCTAGCTATGAAGTCTGCTTTTTGGGCATA
TCTTTAAGTTTACAGCATTTCTAGCCTTTCATTTCTTTTTATTTTAGGCTTTATAGCCTTGAAGT
CGTTTTGATAGCGTAGAAGTCCTTTCATGCTTGATAGCTCTAAGGCTTTTATAGCGTTGAAGTCC
TTTTTCTAGCTCTAAGGCTTTTGACGCTATTCAGTCGTTTCATGC
Right flanking sequence: Indices 416198 -- 416697
CATGCATCAATGTCTAACAACAATGCCTATTTGTTAATGGCCTCTGGGATAATTATGTGATGCTA
TTAGATCCCTATCAAAGGCGAAATTAATATCTCTATGTGTATGAATTATTCCCTATAGATTAACA
CTAATTGGTATATACTTTTAGTGTAAGGCAGGTGTTTTTCTCGGTGGATGGATGGGATAAATGCC
TATATTGCTTTATAATGTTATTGTTATGTTGATGTTATATTAAAGAATGAAATCTAAAAAAGTTG
CTTAGTCCAATTCTTTAGAATTGTCTTTCTCATACTGTGTAAACGAACTTCAAGTCTGAATTGTG
TACTGTACTCAACAGGAAGCGAGCTAGTCATACGAGCCAGGGAGCTAGTCAGCTTGCTGTAGTTG
CTACGGTAAACTGGAGTGAAACGAGTTGGCAGTAGAGACCATAGGAAGGAGCCACACCTGCGATC
TTTCATCAAAGGAGCATGCGTTCTAATGAGGGAATCAAGATGCTC
Found at i:452017 original size:14 final size:14
Alignment explanation
Indices: 451998--452042 Score: 81
Period size: 14 Copynumber: 3.1 Consensus size: 14
451988 AGGGCCATTA
451998 TTATCTTATTTACT
1 TTATCTTATTTACT
452012 TTATCTTATTTACT
1 TTATCTTATTTACT
452026 ATTATCTTATTTACT
1 -TTATCTTATTTACT
452041 TT
1 TT
452043 GATTCCGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
14 16 0.53
15 14 0.47
ACGTcount: A:0.22, C:0.13, G:0.00, T:0.64
Consensus pattern (14 bp):
TTATCTTATTTACT
Left flanking sequence: Indices 451498 -- 451997
GCCTACTTTCGTACCAAAGGGTTGAGACTTTCTTTCTGAGATAGATAGAATGGGCTCCTACTCTC
TTTCAATCGCCGATGCTAAAAACAAAGACAAAGAGTGCGTAGACCCGAGGGGAGGTTGAGTCAGC
AGCTAGTTTTTCCGGAATAGGAAGAAAGGATGCTATTGAATCTTGTTGTTGAAGGGCATTTTAGC
AATTAGACGGAATGAGTCTTAGTTTCCATATTCCCTGCTCTTGTTAAGTCTACTGTCTCATGGTT
TTTAGGGAGATAGAGAAAGATACAAAACTCTATTATCTATATTTTCAATTTCAAATTATATACCT
AAGACAAGAAGAAATTCGTTTTATTTTCCTAATTTCACGAAAGGAAGAACTCACTCTTGGTGATA
AAGGCTTCTTGATTCGTAATCAGGAATATAGGTCAAAAAAGAGTTATCCTCAACTTTAGTTTTGA
TTCTTTCTACAATTAGATCTTCTATCACCAAAGAAAGGGCCATTA
Right flanking sequence: Indices 452043 -- 452542
GATTCCGATAAACTAACTACTTTTTTGCTACAAACACAAATAAAATAAAATAATGGCCTTAGTGC
TCTACTTGATTTTGCTTGACTTTTGATTCAAAGGAAAAAAGGCGTGGAGCTTAAATAACTCACTC
AGAACGCTTTTTAAAAGATTACGTGGTACAATTAGGTCGAATAAACCCTTCTGGAATAAGTATTC
AGCTACTTGTGAACCTTCGGGTACTGTTTTATTCAATGTTTGTTCAATTACTCTTTTACCTGCAA
ATGCAATGTAGGCATTGGGTTCGGCAATAATGATATCCCCCAACATACCAAAACTAGCTGTCACT
CCACCAGTTGTCGGAGATGTAAGGATTGATACATAAAAGAATTTTGGATTTAATTGATAATCATA
TAAAGCAGACGATATTTTAGCCATTTGCATCAAGCTCAAACTTCCTTCCTGCATGCGCGCCCCCC
CAGAAGCACACACTATAATAAGAGGTCAAATTTGATTGGCAGCGT
Found at i:452032 original size:15 final size:15
Alignment explanation
Indices: 451996--452040 Score: 83
Period size: 15 Copynumber: 3.1 Consensus size: 15
451986 AAAGGGCCAT
451996 TATTATCTTATTTAC
1 TATTATCTTATTTAC
452011 T-TTATCTTATTTAC
1 TATTATCTTATTTAC
452025 TATTATCTTATTTAC
1 TATTATCTTATTTAC
452040 T
1 T
452041 TTGATTCCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
14 14 0.48
15 15 0.52
ACGTcount: A:0.24, C:0.13, G:0.00, T:0.62
Consensus pattern (15 bp):
TATTATCTTATTTAC
Left flanking sequence: Indices 451496 -- 451995
GGGCCTACTTTCGTACCAAAGGGTTGAGACTTTCTTTCTGAGATAGATAGAATGGGCTCCTACTC
TCTTTCAATCGCCGATGCTAAAAACAAAGACAAAGAGTGCGTAGACCCGAGGGGAGGTTGAGTCA
GCAGCTAGTTTTTCCGGAATAGGAAGAAAGGATGCTATTGAATCTTGTTGTTGAAGGGCATTTTA
GCAATTAGACGGAATGAGTCTTAGTTTCCATATTCCCTGCTCTTGTTAAGTCTACTGTCTCATGG
TTTTTAGGGAGATAGAGAAAGATACAAAACTCTATTATCTATATTTTCAATTTCAAATTATATAC
CTAAGACAAGAAGAAATTCGTTTTATTTTCCTAATTTCACGAAAGGAAGAACTCACTCTTGGTGA
TAAAGGCTTCTTGATTCGTAATCAGGAATATAGGTCAAAAAAGAGTTATCCTCAACTTTAGTTTT
GATTCTTTCTACAATTAGATCTTCTATCACCAAAGAAAGGGCCAT
Right flanking sequence: Indices 452041 -- 452540
TTGATTCCGATAAACTAACTACTTTTTTGCTACAAACACAAATAAAATAAAATAATGGCCTTAGT
GCTCTACTTGATTTTGCTTGACTTTTGATTCAAAGGAAAAAAGGCGTGGAGCTTAAATAACTCAC
TCAGAACGCTTTTTAAAAGATTACGTGGTACAATTAGGTCGAATAAACCCTTCTGGAATAAGTAT
TCAGCTACTTGTGAACCTTCGGGTACTGTTTTATTCAATGTTTGTTCAATTACTCTTTTACCTGC
AAATGCAATGTAGGCATTGGGTTCGGCAATAATGATATCCCCCAACATACCAAAACTAGCTGTCA
CTCCACCAGTTGTCGGAGATGTAAGGATTGATACATAAAAGAATTTTGGATTTAATTGATAATCA
TATAAAGCAGACGATATTTTAGCCATTTGCATCAAGCTCAAACTTCCTTCCTGCATGCGCGCCCC
CCCAGAAGCACACACTATAATAAGAGGTCAAATTTGATTGGCAGC
Found at i:452990 original size:33 final size:33
Alignment explanation
Indices: 452953--453020 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
452943 CTCGAGATCA
452953 TTAGAACTTTCTCTTATAGTTAAATCACTGCCC
1 TTAGAACTTTCTCTTATAGTTAAATCACTGCCC
452986 TTAGAACTTTCTCTTATAGTTAAATCACTGCCC
1 TTAGAACTTTCTCTTATAGTTAAATCACTGCCC
453019 TT
1 TT
453021 TGTGCGAGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.26, C:0.24, G:0.09, T:0.41
Consensus pattern (33 bp):
TTAGAACTTTCTCTTATAGTTAAATCACTGCCC
Left flanking sequence: Indices 452453 -- 452952
CCATTTGCATCAAGCTCAAACTTCCTTCCTGCATGCGCGCCCCCCCAGAAGCACACACTATAATA
AGAGGTCAAATTTGATTGGCAGCGTGTTCAATCAAACGGGTGATTTTCTCTCCGACTACGGATCC
CATACTACCCCCCATAAACTGAAAATCCATAACCCCAATTGCTACGGGAATGCCGTTTATTTGGC
CTATGCCTGTTTGAACAGCCTCGGTTAATCCTGTCTTTCTTTGATAAGAATCAATACGATCTTTA
TAAGGCTCCTCTTCCGAATGAAATTCAATGGGATCCAGAGAGACCATGTCTTCATCCATAGGATC
CCAAGTACCCGGATCGATCAAAAGTTCAATTCTATCCGAACTACTCATTTTCAAATGATATCCAC
ATTGTTCACAAATATTCATTTTTGATTTCCAAAATTTCTTCTAATTGTTTCCATAACAATTCTCG
CATTGAACCCACAAATGCCTGTATTTTTGAGTTACCTCGAGATCA
Right flanking sequence: Indices 453021 -- 453520
TGTGCGAGTTTGTATACTGGAACCCTCGTTTTCACTACTATTTTGACTTTCACCACCACAAAGGG
CCCTATAAATGTAACTGTCACTGTAATTCTCACTACCACTTATAATGGAAGTATCTATACAGATT
TGAGACTGAAGATAATTATCAATGCAACTATGTTTGTGATTATTCCAACTATATTGAGTATTATA
CATGTCAGAATTATAGTAGGGATCTTCGCCCCTAAATCCATTATTCAGATAACTCGAGTTTCGAT
AACTATAAAAAGAACTTTCTAGTTCACTCAGAAAAGAATGATCGTTGTCAATCTCAAAAATCTGA
TTTTCAATATCAAAATAGATGGAATAACTGTCTCCATTCCTATCACTAACTACAAAAGTGTCATC
AGAGATGAAATTCCGAATGTCTTTAACGCCGAATAAATAATCAACATTACTGCAACTGGGAATGT
TTTTCACTTTTCGATTTGGATCTTCACTGGTATTTTCAATAGGAC
Found at i:453739 original size:12 final size:12
Alignment explanation
Indices: 453722--453746 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
453712 ATCCAATCAC
453722 TAGGATTATTAG
1 TAGGATTATTAG
453734 TAGGATTATTAG
1 TAGGATTATTAG
453746 T
1 T
453747 GAGTATTGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (12 bp):
TAGGATTATTAG
Left flanking sequence: Indices 453222 -- 453721
AGAATTATAGTAGGGATCTTCGCCCCTAAATCCATTATTCAGATAACTCGAGTTTCGATAACTAT
AAAAAGAACTTTCTAGTTCACTCAGAAAAGAATGATCGTTGTCAATCTCAAAAATCTGATTTTCA
ATATCAAAATAGATGGAATAACTGTCTCCATTCCTATCACTAACTACAAAAGTGTCATCAGAGAT
GAAATTCCGAATGTCTTTAACGCCGAATAAATAATCAACATTACTGCAACTGGGAATGTTTTTCA
CTTTTCGATTTGGATCTTCACTGGTATTTTCAATAGGACCAAGACTGCCCATTGATTTATTTAGC
CCACACCTGCGTTCGAACTCCTTCTTAAACAACATCGAATTAAACCACCATCTTTCCATAGAGTT
TTCTTGCCCCCTATTTGCATGAAAATACAATAGATGAATAGTCATTCGCTAGAAAATTATTTATT
TGAATATCTTATTTCCTATCAGACTAAGCATAGAAATCCAATCAC
Right flanking sequence: Indices 453747 -- 454246
GAGTATTGAAAAAAAGTTCTGAATCTGGGGGAACACTTCACTATATATTAATATGTCGGAACCCC
CTTTTATTATTCAAAATAATATAAATATAATAATAACATTTTTGATAAAGGGCGGCTTCTCCTAT
GTCGTGTCAAATTCGCATCGAAAAAAAGAGATTTGTCCTCTCAGAAATCAAAAAAATTTTCTTAA
AATCTCGTCTAATACTAATATCTAATCACTAACTAATCTAAAATCTAATAAAATAATAAGTAATA
AATGTTGCTTCCATTTCAACACGGAACGGAACAAAGGGGACAATATACAGGATGGGTAGAAAGAG
TTGTGCTACTTGGCTTGATTCAGGGAAACTACAAACTACAGGATATAAAAAAATATACCAATCCT
AAGAATCCGTAGGATTTATTGTGGATCCAAGACAACAATAGAAAGATTTGAGTCTTAGATTTTTA
TTTAGTTTTCTAGATTTTGTATTTCAAATCTTGTATATCTAGGTA
Found at i:470729 original size:22 final size:20
Alignment explanation
Indices: 470692--470752 Score: 65
Period size: 17 Copynumber: 3.0 Consensus size: 20
470682 GGGATCACTA
470692 ACTAATACTAATCTAATATAAT
1 ACTAATA-T-ATCTAATATAAT
470714 AGTCTAATATATCT-A-AT-AT
1 A--CTAATATATCTAATATAAT
470733 ACTAATATATCTAATATAAT
1 ACTAATATATCTAATATAAT
470753 TGAAAATACT
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
17 11 0.32
18 1 0.03
19 5 0.15
20 4 0.12
21 1 0.03
22 5 0.15
23 1 0.03
24 6 0.18
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (20 bp):
ACTAATATATCTAATATAAT
Left flanking sequence: Indices 470192 -- 470691
CCCCTATCGGAAATAGGATTGACTACCGATTCCGAAGGAACTAGAGTTACATCTCTTTTCCATTC
AAGAGTTCTTATGCGTTTCCACGCCCCTTTGAGACCCCGAAAAAATGGAGAAATTCCTTTTCTTA
GGAACACATACAAGATTCGTCACTACAAAAAGGATAATGGTAACCCTACCATTAACTACTTCATT
TATGAATTTCATAGTAATAGAAATACATGTCCTACCGAGACAGAATTTGGAACTTGCTATCCTCT
TGCCTAGCAGGCAAAGATTTACCTCCGTGGAAAGGATGATTCATTCGGATCGACATGAGAGTCCA
ACTACATTGCCAGAATCCATGTTGTATATTTGAAAGAGGTTGACCTCCTTGCTTCTCTCATGGTA
CACTCCTCTTCCCGCCGAGCCCCTTTTCTCCTCGGTCCACAGAGACAAAATGTAGGACTGGTGCC
AACAGTTCATCACGGAAGAAAGGACTCACTAAGTCGGGATCACTA
Right flanking sequence: Indices 470753 -- 471252
TGAAAATACTAATATAATAGAAAAGAACTGTCTTTTCTGTATACTTTCCCTGGTTCCGTTGCTAC
CGCGGGCTTTACGCAATCGATCGGATTAGATAGATATCCCTTCAACATAGGTCATCGAAAGGATC
TCGGAGACCCACCAAAGTACGAAAGCCAGGATCTTTCAGAAAACGGATTCCTATTCAAAGAGTGC
ATAACCGCATGGATAAGCTCACACTAACCCGTCAATTTGGGATCCAAATTCGAGATTTTCCTTGG
GAGGTATCGGGAAGGATTTGGAATGGAATAATATCGATTCATACAGAAGAAAGGGTTCTCTATTG
ATTCAAACACTGTACCTATGGGATAGGGATCGAGGAAGGGGAAAAACCGAAGATTTCACATGGTA
CTTTTATCAATCTGATTTATTTCGTACCTTTCGTTCAATGAGAAAATGGGTCAAATTCTACAGGA
TCAAACCTATGGGACTTAAGGAATGATATAAAAAAAAGAGAGGGA
Found at i:470730 original size:9 final size:9
Alignment explanation
Indices: 470716--470750 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
470706 AATATAATAG
470716 TCTAATATA
1 TCTAATATA
470725 TCTAATATA
1 TCTAATATA
470734 -CTAATATA
1 TCTAATATA
470742 TCTAATATA
1 TCTAATATA
470751 ATTGAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (9 bp):
TCTAATATA
Left flanking sequence: Indices 470216 -- 470715
ACCGATTCCGAAGGAACTAGAGTTACATCTCTTTTCCATTCAAGAGTTCTTATGCGTTTCCACGC
CCCTTTGAGACCCCGAAAAAATGGAGAAATTCCTTTTCTTAGGAACACATACAAGATTCGTCACT
ACAAAAAGGATAATGGTAACCCTACCATTAACTACTTCATTTATGAATTTCATAGTAATAGAAAT
ACATGTCCTACCGAGACAGAATTTGGAACTTGCTATCCTCTTGCCTAGCAGGCAAAGATTTACCT
CCGTGGAAAGGATGATTCATTCGGATCGACATGAGAGTCCAACTACATTGCCAGAATCCATGTTG
TATATTTGAAAGAGGTTGACCTCCTTGCTTCTCTCATGGTACACTCCTCTTCCCGCCGAGCCCCT
TTTCTCCTCGGTCCACAGAGACAAAATGTAGGACTGGTGCCAACAGTTCATCACGGAAGAAAGGA
CTCACTAAGTCGGGATCACTAACTAATACTAATCTAATATAATAG
Right flanking sequence: Indices 470751 -- 471250
ATTGAAAATACTAATATAATAGAAAAGAACTGTCTTTTCTGTATACTTTCCCTGGTTCCGTTGCT
ACCGCGGGCTTTACGCAATCGATCGGATTAGATAGATATCCCTTCAACATAGGTCATCGAAAGGA
TCTCGGAGACCCACCAAAGTACGAAAGCCAGGATCTTTCAGAAAACGGATTCCTATTCAAAGAGT
GCATAACCGCATGGATAAGCTCACACTAACCCGTCAATTTGGGATCCAAATTCGAGATTTTCCTT
GGGAGGTATCGGGAAGGATTTGGAATGGAATAATATCGATTCATACAGAAGAAAGGGTTCTCTAT
TGATTCAAACACTGTACCTATGGGATAGGGATCGAGGAAGGGGAAAAACCGAAGATTTCACATGG
TACTTTTATCAATCTGATTTATTTCGTACCTTTCGTTCAATGAGAAAATGGGTCAAATTCTACAG
GATCAAACCTATGGGACTTAAGGAATGATATAAAAAAAAGAGAGG
Found at i:470737 original size:17 final size:17
Alignment explanation
Indices: 470717--470750 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
470707 ATATAATAGT
470717 CTAATATATCTAATATA
1 CTAATATATCTAATATA
470734 CTAATATATCTAATATA
1 CTAATATATCTAATATA
470751 ATTGAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (17 bp):
CTAATATATCTAATATA
Left flanking sequence: Indices 470217 -- 470716
CCGATTCCGAAGGAACTAGAGTTACATCTCTTTTCCATTCAAGAGTTCTTATGCGTTTCCACGCC
CCTTTGAGACCCCGAAAAAATGGAGAAATTCCTTTTCTTAGGAACACATACAAGATTCGTCACTA
CAAAAAGGATAATGGTAACCCTACCATTAACTACTTCATTTATGAATTTCATAGTAATAGAAATA
CATGTCCTACCGAGACAGAATTTGGAACTTGCTATCCTCTTGCCTAGCAGGCAAAGATTTACCTC
CGTGGAAAGGATGATTCATTCGGATCGACATGAGAGTCCAACTACATTGCCAGAATCCATGTTGT
ATATTTGAAAGAGGTTGACCTCCTTGCTTCTCTCATGGTACACTCCTCTTCCCGCCGAGCCCCTT
TTCTCCTCGGTCCACAGAGACAAAATGTAGGACTGGTGCCAACAGTTCATCACGGAAGAAAGGAC
TCACTAAGTCGGGATCACTAACTAATACTAATCTAATATAATAGT
Right flanking sequence: Indices 470751 -- 471250
ATTGAAAATACTAATATAATAGAAAAGAACTGTCTTTTCTGTATACTTTCCCTGGTTCCGTTGCT
ACCGCGGGCTTTACGCAATCGATCGGATTAGATAGATATCCCTTCAACATAGGTCATCGAAAGGA
TCTCGGAGACCCACCAAAGTACGAAAGCCAGGATCTTTCAGAAAACGGATTCCTATTCAAAGAGT
GCATAACCGCATGGATAAGCTCACACTAACCCGTCAATTTGGGATCCAAATTCGAGATTTTCCTT
GGGAGGTATCGGGAAGGATTTGGAATGGAATAATATCGATTCATACAGAAGAAAGGGTTCTCTAT
TGATTCAAACACTGTACCTATGGGATAGGGATCGAGGAAGGGGAAAAACCGAAGATTTCACATGG
TACTTTTATCAATCTGATTTATTTCGTACCTTTCGTTCAATGAGAAAATGGGTCAAATTCTACAG
GATCAAACCTATGGGACTTAAGGAATGATATAAAAAAAAGAGAGG
Found at i:482313 original size:21 final size:21
Alignment explanation
Indices: 482287--482326 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
482277 CGACCGTAAG
482287 GTACGTAGTAGCTCGACCAAC
1 GTACGTAGTAGCTCGACCAAC
*
482308 GTACGTAGTCGCTCGACCA
1 GTACGTAGTAGCTCGACCA
482327 TAAGGGAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.20
Consensus pattern (21 bp):
GTACGTAGTAGCTCGACCAAC
Left flanking sequence: Indices 481787 -- 482286
TAGCATGATATGTAGGCTGAACACAAACCCAATCGAAGTGAAACTCTCCTTTCCTTACTTGTTCC
AAGTAAGAGAATTGGCATTACCTTCGAAAGGTAGGAGCTCAAATCCGGCTCGGTTAGGGTAGACC
CAGGGAAAGAGCTGTGCACAAAGGTTTGAACCATGGGGCTCCTCGAGCAGATACCATTACAATGG
AGAAGCTCATCTTCCCATTACCGGCGGAGAACTCAAGGGCTCCAAACTCCTTAGGTCTTGTTTTG
TAAGCTTGAAGCTTTGAAACCTGTCGAAATGAACTTACCACTCCACTAACCTAAGCTTACCAGAT
CAATTGTTTCACTACCGAAACCCGTACCGTACACGCCGCTTTCTCGGCTTCCCCTGTATAGCTAG
CCTTCTTCTTCATACGAAGACTTTGAATGAGATAGTGAGATAGTTCGTATGAGGTCTTACGCGGA
TACTCTTTATATAGGGAGAGTTTCTTCATTATGCTCGACCGTAAG
Right flanking sequence: Indices 482327 -- 482826
TAAGGGAGAGGATGGACTGGTTCGTAAGAATAATATAGCTGAGTACATACTTTGACCCCTTACCA
TAAAGCCAGGAAAGGATAGGAAACCTCGAGCAACGGGAGCTCGTTCACTCGTTCTTCGGTACGTA
GCTTCAGCTCACTCGTGAAACGAATCCGTTGCAACAAAGGAAGCTAAGTATAGGACTTGTCTGTA
GGCAGAATAGAGTAAGTAGGCCGTTAGGCAATACGGCAGTAAGTACTGGAGAAAAATTATTAGAC
AGAGGGTTCCTTGGAAGGTAGGCGAACATTCTTCTTGCTTGGTCTTTTATAGGTATGTTAATGTT
CAGTCTTTGGTGCAGTACGCTTGAGTGAGTTCGCTTGATCTTTGCTAATTGGCTGCCATTGTTAT
TGCTGTATACCGTCTATCTGTATATTTCATAAAAAGACTTTTTTAGTAAGATCTTATATCATCTG
TTCCAAGAGCGATGGGATCCCCCTCTATCACCGGGAGCCCGAGCG
Found at i:497981 original size:24 final size:24
Alignment explanation
Indices: 497949--497995 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
497939 AAGCAGCGCG
* *
497949 TCGTGCTATAATCGGACACTTCCA
1 TCGTGCTATAAGCGGACAATTCCA
*
497973 TCGTGCTATGAGCGGACAATTCC
1 TCGTGCTATAAGCGGACAATTCC
497996 GAAGAAATGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (24 bp):
TCGTGCTATAAGCGGACAATTCCA
Left flanking sequence: Indices 497449 -- 497948
TAATTGAATCGGTCAAGATCAAATCTGTTTATCAAAGTGCTTCTCCGATTGCTCAAGACATCTCT
TTTCAACCGAGGAACAAAACAAGATCATTTCGTTCCATTTTTAGTAAAATAGTGAAGGATATTCC
ATTAGTAATGAAAAAAGGGGTGGAGGGGATCCGTATATGTTGTTCAGGTCGATTAGAAGGTGCAG
AAATAGCTAGAACTGAATGCGGAAAGTATGGAAAAACATCTCGTAATGTATTTAACCAGAAAATA
GATTATGCTCCTGCGGAAGTATCTACTCGTTACGGAATCTCAGGTGTCAAAGTGTGGATTTCATA
TAGTAAAAAAAAAGGGGGACGTGCTATATCCGAAACGTACGAAATATAGTAAATATCGTAAAGGC
AGATGTAGTAGGGGTTGCAAACCGGACGGTACACAACTTGGTTTTGGAAGATATGGCACTCAAAG
TTGTAGAGCTGGTCGTCTTTCATATCGAGCCATTGAAGCAGCGCG
Right flanking sequence: Indices 497996 -- 498495
GAAGAAATGGTAAGATATGGGTAAGAGTTCTCGCAGATATCCCTATTACCGGGAAACCTACAGAA
GTAAGAATGGGAAGAGGAAAAGGAAATCCTACGGGTTGGATTGCTCGTGTGTCCAGGGGACAAAT
CCTATTTGAAATGGATGGTGTGAGTTTGTCAAATGCTCGACAAGCCGCTACATTAGCGGCGCATA
AACTATGTTCGTCAACCAAGTTTGTTCAGTGGTCGTAAGCTTATTAATCTGACCCAAATTGGTAC
ACGCCAATTCCATTTCGCCGGATTGAAAGAGCCATCAATCACTATGATCTCTTTCGTCAGAAAAG
AAATTGCGTAAATTCTGCCTTTTTTGATCCCATGCTTTCCGTTGGTCAACAACCAACCAAAGTGC
TCTATACTTCTTCACTACTCGTACAGGGAAGGTGGAAGAAATTCAGTCTCTCTTTTTGGGAGCAG
AGCAGTCAAAGAATGAACCAAACCAAATGATTGTTCTAGAATGGC
Found at i:508494 original size:21 final size:21
Alignment explanation
Indices: 508468--508509 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
508458 TAGGCGGGGC
508468 AAGAGGTACGAAGTCACTCGA
1 AAGAGGTACGAAGTCACTCGA
508489 AAGAGGTACGAAGTCACTCGA
1 AAGAGGTACGAAGTCACTCGA
508510 CCTACAGGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.29, T:0.14
Consensus pattern (21 bp):
AAGAGGTACGAAGTCACTCGA
Left flanking sequence: Indices 507968 -- 508467
AGGAATCAATCTCTTTTAACCAACCCCTCTTACTAGATTGAGAAAAGGCGATCTCGATACGATCT
TTCTAAACCAATCTATCACTGGCACTGGAACGAACCATTCTATACTAGTACTAGTATACTGAGTA
GCGTGATCAAGTCAAGTCCTTCCTCCTTATTTCCGGATTTCAATTAGATTAATGTGCGCTCGTAT
GGGAGTAGAAGCCACTACTTCCCTCTTCCCCCGAGATGAACTACTCTCGCAAAGAACCTTCCTTC
TATTGGCTATATATCTGTAGTCACACAGTTCCAGCTATCTTCTGGATAGAAGCGCAGGTGCTTGA
GTGAAAGGCAGACAGGTAAGGGTAGGTAGTAAAGGCAAGCGCTTAGAAAAAGGTGGATTAAAAAA
CGAAAATAAATAGAACCAGATACATTCAACAAAGAAAGTGCTAGAGCATTTATTTAATACAAAGA
AAGGACGTTATGTTTAATGAACTTATACAGGCCGTTAGGCGGGGC
Right flanking sequence: Indices 508510 -- 509009
CCTACAGGGAGAGGTACGAAGTCGCTCGACCTACAGGGAGAGGTACGAAGTCGCTCGAAGAGGGG
CTACCGCTCGTTTCAAATGAGTTGTTCGTTGAACTATGTTCAACTATGTGATACTATGTTACAGA
ATAGTGAAACGAACAACGAATAGTTCAACTCATACGTTACGTATACTAGAGTGACTGGTAATGAC
AGGGTAAAGGCTGCATTGATATTATCAGTGTGAAATCCCATGTTTCAAATGAAACTAAGCCGTTC
TCATCCTGTAGGTTTTCGATGATTACTGATCAGATGGGTGTCAAAAATGGTTGAGAGACAGCTAG
GTGCTACCATACGGTACACTACGATACCCCCGGTACCCTACGTACGAAGTGACTCGACTGAAAGG
AGAGGGGAGAGGAACGTAGTTCTGCAACGAAGAACGGAGTGGAATCCGTCCAGTGAGTAACTCGA
GCAAACCCCCAATGCGGAAGTAGGGAAAAAATGACTATCCCAAAA
Found at i:508532 original size:29 final size:29
Alignment explanation
Indices: 508490--508567 Score: 147
Period size: 29 Copynumber: 2.7 Consensus size: 29
508480 GTCACTCGAA
*
508490 AGAGGTACGAAGTCACTCGACCTACAGGG
1 AGAGGTACGAAGTCGCTCGACCTACAGGG
508519 AGAGGTACGAAGTCGCTCGACCTACAGGG
1 AGAGGTACGAAGTCGCTCGACCTACAGGG
508548 AGAGGTACGAAGTCGCTCGA
1 AGAGGTACGAAGTCGCTCGA
508568 AGAGGGGCTA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.29, C:0.23, G:0.33, T:0.14
Consensus pattern (29 bp):
AGAGGTACGAAGTCGCTCGACCTACAGGG
Left flanking sequence: Indices 507990 -- 508489
ACCCCTCTTACTAGATTGAGAAAAGGCGATCTCGATACGATCTTTCTAAACCAATCTATCACTGG
CACTGGAACGAACCATTCTATACTAGTACTAGTATACTGAGTAGCGTGATCAAGTCAAGTCCTTC
CTCCTTATTTCCGGATTTCAATTAGATTAATGTGCGCTCGTATGGGAGTAGAAGCCACTACTTCC
CTCTTCCCCCGAGATGAACTACTCTCGCAAAGAACCTTCCTTCTATTGGCTATATATCTGTAGTC
ACACAGTTCCAGCTATCTTCTGGATAGAAGCGCAGGTGCTTGAGTGAAAGGCAGACAGGTAAGGG
TAGGTAGTAAAGGCAAGCGCTTAGAAAAAGGTGGATTAAAAAACGAAAATAAATAGAACCAGATA
CATTCAACAAAGAAAGTGCTAGAGCATTTATTTAATACAAAGAAAGGACGTTATGTTTAATGAAC
TTATACAGGCCGTTAGGCGGGGCAAGAGGTACGAAGTCACTCGAA
Right flanking sequence: Indices 508568 -- 509067
AGAGGGGCTACCGCTCGTTTCAAATGAGTTGTTCGTTGAACTATGTTCAACTATGTGATACTATG
TTACAGAATAGTGAAACGAACAACGAATAGTTCAACTCATACGTTACGTATACTAGAGTGACTGG
TAATGACAGGGTAAAGGCTGCATTGATATTATCAGTGTGAAATCCCATGTTTCAAATGAAACTAA
GCCGTTCTCATCCTGTAGGTTTTCGATGATTACTGATCAGATGGGTGTCAAAAATGGTTGAGAGA
CAGCTAGGTGCTACCATACGGTACACTACGATACCCCCGGTACCCTACGTACGAAGTGACTCGAC
TGAAAGGAGAGGGGAGAGGAACGTAGTTCTGCAACGAAGAACGGAGTGGAATCCGTCCAGTGAGT
AACTCGAGCAAACCCCCAATGCGGAAGTAGGGAAAAAATGACTATCCCAAAAGGGGAAGTCCGAA
GATGAATCAGAATTGGCATCTTGTTCAGACAAAAGGGGAGAAGTT
Found at i:510855 original size:21 final size:21
Alignment explanation
Indices: 510835--510937 Score: 179
Period size: 21 Copynumber: 4.9 Consensus size: 21
510825 AGATTCGGTC
***
510835 GAGGTACGAAGTCACTCGGTC
1 GAGGTACGAAGTCACTCGAAA
510856 GAGGTACGAAGTCACTCGAAA
1 GAGGTACGAAGTCACTCGAAA
510877 GAGGTACGAAGTCACTCGAAA
1 GAGGTACGAAGTCACTCGAAA
510898 GAGGTACGAAGTCACTCGAAA
1 GAGGTACGAAGTCACTCGAAA
510919 GAGGTACGAAGTCACTCGA
1 GAGGTACGAAGTCACTCGA
510938 CCAATTCGTT
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 79 1.00
ACGTcount: A:0.34, C:0.20, G:0.30, T:0.16
Consensus pattern (21 bp):
GAGGTACGAAGTCACTCGAAA
Left flanking sequence: Indices 510335 -- 510834
GAAGGTTTAGAAGCCTTGGACACCAAGAAGGTTCAATCTGAAAGAGAATAGAAAGGCGGGGGGCT
AGAGGAAATAGGTTCCTAAAGAAAGGAAAGCCACCTCCGATCGAGCTTTCTTATGCTTATGACAG
GCATTCTCGGGGAAAGGGGGAAGAAAGACTTATTGGATTGGTTATTCGCCCACGTATTTAAAGAA
GAGCCTTCTATATTACTTATATTACGTGCGAGTGAGGTCTTTCCCAAAACAAATAGTGGGATTTC
CTCAACCTTCCTGACTTTTTACCGACTACTCCTTGCTGGTGGGTTGACTTCTACAGTACAACGCG
GGGACTTCTCTATTCTATAATTCTATATCTTTTTGATCTCGCACTTCCTTACTTCTAATAGAACC
TGGAGACTAGCTATAGCTCTTCTCTTGCGCGCTTCCCTGCTTTAGCTCACCATTCTTCTCTTTGG
AAAAGCCTTTTAGAAGAAGAATTTGAAAGGTACAGAGATTCGGTC
Right flanking sequence: Indices 510938 -- 511437
CCAATTCGTTGAACATAGTTCAACTCATTTAGTTGCTAGAGATTCGTTGAACATAGTGAGACTAA
GGACGCGAAACGCCCACTTGGGTAGCTATGACCAAGTCAGCCCATCGGACTCGAAGAAGGGAAGC
GGAATGCCGAGAAAAATACCCTAAGCTAGCCGAAGAAAGCTTAGTCCCACCAGTTGTTTCTGGGG
CCTCCAATAAGCTTTCCATCCTCCCATCAATACCAATTCGGAAGCATGAACCAACAACCAATCCA
ACCATATAACCGTTATTTGGTATCAGCTGTTTTTAGATAGGCTGCCACTTTAGATCGGGATAACA
ACCGGTAGTCACAGCTGCTATCCGCTGTTGTCACTAGGAACTATCACTCTCCTTCCAGCCCCCTT
CACGGGCAGTATTCTTATGTTCTTTTGTTCTTTACGTCTTGTATACCAATGGGTGATGAATCCAC
CGGGGACATGATGAAGTCGGAACCAGAGAAACCATCCAGGGAATT
Done.