Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_060546
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: 104716
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Found at i:8695 original size:24 final size:24
Alignment explanation
Indices: 8663--8710 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
8653 AAACCAGAAA
8663 TTTAGGATCCGATAGAATTATTCT
1 TTTAGGATCCGATAGAATTATTCT
8687 TTTAGGATCCGATAGAATTATTCT
1 TTTAGGATCCGATAGAATTATTCT
8711 CAGTCCATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (24 bp):
TTTAGGATCCGATAGAATTATTCT
Left flanking sequence: Indices 8163 -- 8662
GTAAAATTTTTCGGTCCACTAAACCTGCATAACCTAATTTGGAGTAGCTGTTTACCTTGTAATCA
TGTAGAACCTTATAGTTATTTGGAATCGTCAGGCTACTCTAAGTATTCAGGCATTGAAGCTTAGC
TCCAATTTTATTGAACCCAGTTCGGAACTTCGATTTGAAAGCCGGCTTTGGATGAGTGAACTAAG
AACCATATCACTTTTTGCAGATTTCTTTCATCAACCACACCACAATAATTAGAATTGGGCAGTCC
TATTAATTAGGTCAGGATGGATATCTGGATGTGATAGTCTTATCTTTTGATACCTTTGGCGCAGA
TTAATCTATGATTCAGCCTTTGCGTATACGTATCTGCGAGTTCGAAAAACCAGTTCCCATGCAAT
CTATAAGGGGTTGGGCCATCTGAACCTTTTTCCGCAAAGCCGAGAAAGCTGGTTTTACGAGTAAT
GTCCCCAGGCTTACCTTGGATACTTTCATAGCAGGAAACCAGAAA
Right flanking sequence: Indices 8711 -- 9210
CAGTCCATTATAGCGTCCCTGGTTATTTTTACAATTGTTTACTATCTCATTAGCATATGTACGGG
CGTCGCTTTGTTAACCATTCTTCTGATTTCTTCGAAGAGGCCTGCAAGAGTAACTTTCTTTGCCC
GAAACAGATGAAAAAGAACTATGGATCGTTTTCTGACTAGTCACCTTTGTGTTCTGGCCGGGTGG
GTTTCCTTCCCCTTGCTACTATGAGACCTCTGAGCCCGCGCATCATTTGTCGGATGATGTGAAGC
GGTTACTTCCCGTGGTTGCCCCATCTTTGTGTTTTCTTTTTGACCTTCGTCAAGGCCTTCAGTAG
TTTAAGGTCCTTGCGCACTTGCTTGATTGCTCAAGCCGGTTCCCATGTTAGAATCACCCGTGGCT
GTCCAACAACTATGACCGTTCACTACATCAGTCAAAGCTTTCGCCCGGATTGGTGTCGGTTCCCG
GGTTACTCTACCACACATATACCGACGTATTCTGCCTGGGATATG
Found at i:22737 original size:20 final size:20
Alignment explanation
Indices: 22712--22751 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
22702 TTTTTCATAA
22712 AGAGAATATCTTGTTTTTTG
1 AGAGAATATCTTGTTTTTTG
22732 AGAGAATATCTTGTTTTTTG
1 AGAGAATATCTTGTTTTTTG
22752 CTTGATTCTG
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:0.05, G:0.20, T:0.50
Consensus pattern (20 bp):
AGAGAATATCTTGTTTTTTG
Left flanking sequence: Indices 22212 -- 22711
ATAAGTCATATTGTTTTTTGCGTCTGCGGGTATACTATCTAAGCATCATATCTTTTTGACTGCGT
CGAAAGAAAGAGGGCGAAGCGGTTCTTTGCTTTCGCGCAGTGAACCACTAGTGCCGGTAGTCTAT
CTTGTAGGTCATTTGATTGGTATACTGACGATTTTATTATGTCATTTTCTATTGTCGTCTCTGTT
CCATTGTGGTTGAGCGCGTGATGTACAAAAACATGCAAATTTTTGATTCATCCAATACTATACAG
ATTATGACATCTATATATTTCGGTCCAGTGCACTGTGGCGCGTTTTGCGACATGGCTCAGTGTCG
CGCCTCGAGCTAAGCCACGGCACAATACGCGCTGTCCCGCCGAGTAAAAATCTCCTCAAGCTTTT
CAGGGTACTGCCCTATTTTTCGGCTGCCAAGCACAGAGCCACCAACTGAAGATCATTCCTTTTTC
TTGAATGAATCATCATAAATAATGATTATATATTTTTTTTCATAA
Right flanking sequence: Indices 22752 -- 23251
CTTGATTCTGCAAAAGAATTACACAACGTTAAGATCTGTAAAGGTTACATGCTATTTTGTTTTAA
AAAAGGGTAACTAATTACCCTACTTACGGATGGAGAGGGATTCGAACCCCCGGTATTCTCAATAC
TTCGGTTTTCAAGACCGACTCTTTCAACCGCTCAGACATCCATCCTTATCTTAGTAAGATCATCG
GCTCAAAGGAACCAATAATCAACCTACTATTCATTTGCTATGTAGATGGAGATTTGAAAGAAAAA
AGCGGGAAGAAATAAAAAAAAATTTTAGGCGGATATAGATTAAAGGTAAATTATCTGCCTTCCAA
GCAGGAGATATGGGTTCGATTCCCGTTATCCGCAATGGCTGAAAAAACAAATGAAACTTCATATG
CCTGCATCAAGATTCAAAACTTGTCGTCAAATTTCGGAAAATGTTTGGCAGACCAAAAAACTTAC
TCAAAAACAAAAAGCCATTATTTTGAAGCTTCAGAAAAAAACAAA
Found at i:33148 original size:14 final size:14
Alignment explanation
Indices: 33129--33155 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
33119 TCGGTTCTGT
33129 TTGATAGTAACACA
1 TTGATAGTAACACA
33143 TTGATAGTAACAC
1 TTGATAGTAACAC
33156 GAAGAAGCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (14 bp):
TTGATAGTAACACA
Left flanking sequence: Indices 32629 -- 33128
TGGAGGAAGGTGGGGATGACGTCAAGTCCGCATGGCCCTTATGGGCTGGGCTACACACGTGCTAC
AATGGCAATTACAATAGGAAGCGAGGCTTGAAGGCGGAGCGAATCCAGAAAGATAGCCTTAGTTC
GGATTGTTCTCTGCAACTCGAGAACATGAAGTTGGAATCGCTAGTAATCGCGGATCAGCATGCCG
CGGTGAATATGTACTCAGGCCCTGTACACACCGCCCGTCACACCATGGGAATTGGCTTCGCCCGA
AGCATCAAACCAAGGATCACCCATTCTTTCAGTGTTCTACGCCGTTGGTGAGTGTGGTCTACCAG
AGGAATTGGTGGTCTGATGTGGGATACCAAGGTGGGGCCTTTGACTGAGGTGAAGTCGTAACAAG
GTAGCCGTAGGGGAACCTGTGGCTGGATTGACTCCTTTTTTTTGACGAGAGAGAGAAAAAAAAGA
CTCCAAAAAAGAAACATCTATCTAGTTTCTGTCGTTCGGTTCTGT
Right flanking sequence: Indices 33156 -- 33655
GAAGAAGCGAAAAAAAAGAGTAGATACGCCCTGTGCTCTTCATTCTTTGGACTAGGATTGCATGG
CCCGAAGCAGCATAATGCGATAGTAGCAAAGACTTGAGTGAATTTTTGGTCTATGTCAGTTAGTG
AGAGCCTATCTCGCAGCCTTTCCAATTATGCCTGTGAATGCCCTTACTATTACACAATAACGGCT
TCAGTCGCTATTATGAATATCACGTTGGCGCAGGGCGCTCTAATAATCTACTCCGTTTGAACTTC
ATACATAAACAGTTACTTCTATCGTGTTGCCCCATCGGGGCCAGGTTAAAGGGCGCATGAGGCGA
ATTATCATCCAACAGCCAGGGGAATGAGCGGCAGATTGGTAGAACAGCGGATTAATAATTCGCAT
GTCGGAATAGTTTAGTCGGTTAGAACAGCGGGATCATAATTCGCACACGGGGGTTCAAATCCCTC
TTCCGATAGGAACTTTCGGATAAGAATTGAACCTACGGGAGGCAA
Found at i:33827 original size:25 final size:25
Alignment explanation
Indices: 33799--33848 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
33789 GATAATTCAT
33799 TAAAATACATAGAGACTCAAATTGC
1 TAAAATACATAGAGACTCAAATTGC
33824 TAAAATACATAGAGACTCAAATTGC
1 TAAAATACATAGAGACTCAAATTGC
33849 ATAGAACGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.24
Consensus pattern (25 bp):
TAAAATACATAGAGACTCAAATTGC
Left flanking sequence: Indices 33299 -- 33798
CAGCCTTTCCAATTATGCCTGTGAATGCCCTTACTATTACACAATAACGGCTTCAGTCGCTATTA
TGAATATCACGTTGGCGCAGGGCGCTCTAATAATCTACTCCGTTTGAACTTCATACATAAACAGT
TACTTCTATCGTGTTGCCCCATCGGGGCCAGGTTAAAGGGCGCATGAGGCGAATTATCATCCAAC
AGCCAGGGGAATGAGCGGCAGATTGGTAGAACAGCGGATTAATAATTCGCATGTCGGAATAGTTT
AGTCGGTTAGAACAGCGGGATCATAATTCGCACACGGGGGTTCAAATCCCTCTTCCGATAGGAAC
TTTCGGATAAGAATTGAACCTACGGGAGGCAAAAAAAAGATATATATATCGTTTTTTTGCTGGTC
ACTAACCTTATCCTAAATCTCCTTCTTCTATCACAGAACACGGTAAAGAAGGATTTACCATGGAT
AACTAGAAATGCAACATAATCAATCAATCATCATAGATAATTCAT
Right flanking sequence: Indices 33849 -- 34348
ATAGAACGGCGGCATCACCTTTAGGTTTCATTCTAGATCTTGTTCACGAACGTTGTGGCTATACT
CTTATGTTCTATCAACAAAGTAGAATTAGCCGTTATGCTAGTAGCTTATGAATCATCATAGATAA
TTCATTGTTGTAGCTCCACAAATGGGAACGCGCGCGAATGGTTCGTTGCTCCGGCTTGCTGCAGG
AGAAATTGAAGTAGGTCTACATGGCTTGCTGAAGAGAAGCGGCATCACCGGCGGCAAGTAGCCGA
CGCGTGGCCTGCGGCATCCATTATTTATGTGGAGCTAGAGGGGCGCTTCCTAGAACAACCATAAC
AACCATAAGGGCGCTTCTTAGAACAACCATAACAACCATAAGGCCGCAGGGCGCAGCAAATCGAA
ATAAAGTCAAGTTGGCGATGGCGGCGATTCTCGCCCTGTGATTGGCGGCGCTGGCGGCGATTCTC
GCCCTGTGATTATTCTCGCCGAAGAGCACCTGTGTATTCGGCGCT
Found at i:34196 original size:33 final size:33
Alignment explanation
Indices: 34149--34216 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
34139 GGAGCTAGAG
34149 GGGCGCTTCCTAGAACAACCATAACAACCATAA
1 GGGCGCTTCCTAGAACAACCATAACAACCATAA
*
34182 GGGCGCTTCTTAGAACAACCATAACAACCATAA
1 GGGCGCTTCCTAGAACAACCATAACAACCATAA
34215 GG
1 GG
34217 CCGCAGGGCG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.38, C:0.28, G:0.18, T:0.16
Consensus pattern (33 bp):
GGGCGCTTCCTAGAACAACCATAACAACCATAA
Left flanking sequence: Indices 33649 -- 34148
GAGGCAAAAAAAAGATATATATATCGTTTTTTTGCTGGTCACTAACCTTATCCTAAATCTCCTTC
TTCTATCACAGAACACGGTAAAGAAGGATTTACCATGGATAACTAGAAATGCAACATAATCAATC
AATCATCATAGATAATTCATTAAAATACATAGAGACTCAAATTGCTAAAATACATAGAGACTCAA
ATTGCATAGAACGGCGGCATCACCTTTAGGTTTCATTCTAGATCTTGTTCACGAACGTTGTGGCT
ATACTCTTATGTTCTATCAACAAAGTAGAATTAGCCGTTATGCTAGTAGCTTATGAATCATCATA
GATAATTCATTGTTGTAGCTCCACAAATGGGAACGCGCGCGAATGGTTCGTTGCTCCGGCTTGCT
GCAGGAGAAATTGAAGTAGGTCTACATGGCTTGCTGAAGAGAAGCGGCATCACCGGCGGCAAGTA
GCCGACGCGTGGCCTGCGGCATCCATTATTTATGTGGAGCTAGAG
Right flanking sequence: Indices 34217 -- 34716
CCGCAGGGCGCAGCAAATCGAAATAAAGTCAAGTTGGCGATGGCGGCGATTCTCGCCCTGTGATT
GGCGGCGCTGGCGGCGATTCTCGCCCTGTGATTATTCTCGCCGAAGAGCACCTGTGTATTCGGCG
CTGGCGGCGCTTTGCGCCCTTGTTGACTCTATTCATCAATTATTCTAAAACGCGTTACAAAGTGA
TGAACAATCAATTGCAGGGCCGAAGGTTCTAGGGGACTAAGCTCGCCAAATAGTACTATGCAACA
CTCGGCGCCTACGGATGGATCATCATAGAGACTCGCAAGAAAAAAATGACATATTTCTAATAAAG
AACTCTACTAGAATATAATGACTCATTTTCGATGAATCATCATATATAATAGACTAAAAATCCAC
CGCTACGCGCTTCCGGGCACTACCCTTGTTGACTCTATTCATCAATCGCTACGCGCTTCCGGGCA
CTATGGTAAGACATGAAAACACCCGATCCCATTCCGACCTCGAAA
Found at i:34295 original size:33 final size:33
Alignment explanation
Indices: 34252--34314 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
34242 AAGTCAAGTT
34252 GGCGATGGCGGCGATTCTCGCCCTGTGATTGGC
1 GGCGATGGCGGCGATTCTCGCCCTGTGATTGGC
*
34285 GGCGCTGGCGGCGATTCTCGCCCTGTGATT
1 GGCGATGGCGGCGATTCTCGCCCTGTGATT
34315 ATTCTCGCCG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.08, C:0.29, G:0.38, T:0.25
Consensus pattern (33 bp):
GGCGATGGCGGCGATTCTCGCCCTGTGATTGGC
Left flanking sequence: Indices 33752 -- 34251
ATAACTAGAAATGCAACATAATCAATCAATCATCATAGATAATTCATTAAAATACATAGAGACTC
AAATTGCTAAAATACATAGAGACTCAAATTGCATAGAACGGCGGCATCACCTTTAGGTTTCATTC
TAGATCTTGTTCACGAACGTTGTGGCTATACTCTTATGTTCTATCAACAAAGTAGAATTAGCCGT
TATGCTAGTAGCTTATGAATCATCATAGATAATTCATTGTTGTAGCTCCACAAATGGGAACGCGC
GCGAATGGTTCGTTGCTCCGGCTTGCTGCAGGAGAAATTGAAGTAGGTCTACATGGCTTGCTGAA
GAGAAGCGGCATCACCGGCGGCAAGTAGCCGACGCGTGGCCTGCGGCATCCATTATTTATGTGGA
GCTAGAGGGGCGCTTCCTAGAACAACCATAACAACCATAAGGGCGCTTCTTAGAACAACCATAAC
AACCATAAGGCCGCAGGGCGCAGCAAATCGAAATAAAGTCAAGTT
Right flanking sequence: Indices 34315 -- 34814
ATTCTCGCCGAAGAGCACCTGTGTATTCGGCGCTGGCGGCGCTTTGCGCCCTTGTTGACTCTATT
CATCAATTATTCTAAAACGCGTTACAAAGTGATGAACAATCAATTGCAGGGCCGAAGGTTCTAGG
GGACTAAGCTCGCCAAATAGTACTATGCAACACTCGGCGCCTACGGATGGATCATCATAGAGACT
CGCAAGAAAAAAATGACATATTTCTAATAAAGAACTCTACTAGAATATAATGACTCATTTTCGAT
GAATCATCATATATAATAGACTAAAAATCCACCGCTACGCGCTTCCGGGCACTACCCTTGTTGAC
TCTATTCATCAATCGCTACGCGCTTCCGGGCACTATGGTAAGACATGAAAACACCCGATCCCATT
CCGACCTCGAAATGTGAAATCGTCTTACGCTATATGTACTGATTTATCAATTTCGGGAGACATGG
TCCAGGCCCGGACAACGTCCAATTTCAATTATAATAATGAAATAA
Found at i:39124 original size:31 final size:31
Alignment explanation
Indices: 39065--39310 Score: 176
Period size: 30 Copynumber: 8.4 Consensus size: 31
39055 AAATAAAATG
* * *
39065 CAACTAAACATAATAATATATTATTTTAGTA
1 CAACAAAACATACTAATATATTAGTTTAGTA
* *
39096 CAACAAAATATACTAATATACTAGTTTAGTA
1 CAACAAAACATACTAATATATTAGTTTAGTA
*
39127 CAACAAAACATATTAATATATTAGTTTAGTA
1 CAACAAAACATACTAATATATTAGTTTAGTA
* ** *
39158 -GATGAATCAT-C--ATATA-TA----A-TA
1 CAACAAAACATACTAATATATTAGTTTAGTA
* *
39179 CAACTAAACATAATAATATATTAGTTTAGTA
1 CAACAAAACATACTAATATATTAGTTTAGTA
* *
39210 CAACAAAACATAAT-ATATATTAGTTTAATA
1 CAACAAAACATACTAATATATTAGTTTAGTA
* * * * *
39240 TAACTAAACATAAT-ATATATTATTTTAATA
1 CAACAAAACATACTAATATATTAGTTTAGTA
* * * *
39270 TAACTAAACATAAT-ATATACTAGTTTAGTA
1 CAACAAAACATACTAATATATTAGTTTAGTA
* *
39300 TAACTAAACAT
1 CAACAAAACAT
39311 TTTTGTTGTT
Statistics
Matches: 179, Mismatches: 26, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
21 2 0.01
22 7 0.04
25 5 0.03
26 4 0.02
27 5 0.03
30 87 0.49
31 69 0.39
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (31 bp):
CAACAAAACATACTAATATATTAGTTTAGTA
Left flanking sequence: Indices 38565 -- 39064
CGGGGATAACAGGCTGATGACTCCCAAGAGCTCTTATCGACGGAGTCGTTTGGCACCTCGATGTC
GACTCATCACATCCTGGGGTTGAAGAAGGTCCCAAGGGTTCGGTTGTTCGCCGATGAAAGTGGTA
CGTGAGTTGGGTTTAGAACGTCGTGAGACAGTTCGGTTCCTATCTACCGTTGGTGTTTGAAAGAG
AACTGCGAGGAGCCAACCCTAGTACGAGAGGACTGGGTTGGGTCAACCTATGGTGTACCGGTTGT
TATGCCAATAGCAGCGCCGGGTAGCTAAGTTGGTATAGAAGAACTGCTGAAAGCATCTAAGCGGG
AAATCCTTCTCTATACAAGTTCTCATAAAGGGTGAAAGACCATCACTTTGATAGGCGAGAGGTAT
AAACACCGTGAGGTGTGAAACAAGGCTTACGGCTCTTGTTGAGCTTACTCGTACTAATTATCTAT
TTCCCGGGAGCCCAGGGGAAAGGTTAAAATAATCCAAATAAAATG
Right flanking sequence: Indices 39311 -- 39810
TTTTGTTGTTTTACAAACAAACGCTGTAGCTTTAAGTTGTAGTTGTACAACTATTGTTATAAACT
TGTTAGTACAACAGAATAAGACTTCTGTTGTATCAGTTTACTAGGGAATATAAGAAAAACTTTAA
AAAGTTTTTCTTTTTGGGAGAGAACCTCTTAATTGAGCAGAGATTGTTGCGATCCGTACGGAAAG
TGAAAAAAAAGTTATCATAGAAGATTGTTAGTTCTTCCCATTTCTGTGGATTCTTTCATAGAGTA
CCTAAAAATATAGTAAGCTACAGAATCTTTTCGTTTCTTTTTGTCATCTTCAAAATTAGTGTAAG
AATAGTTACAACGGTGTTCTTTATTTCCGGAACATTTTTGATTTCAAAATGATTATTCTGATAGA
AAAGTCCATAATGAAATTACAGCATTTCCGAGATGTTTTCTTATTTAAGTATCATGGTTTTTAGA
TTTACTATTGTGTCTATCCCGTCGGGTTGTTATGAGGTTTCGTAA
Found at i:39230 original size:30 final size:30
Alignment explanation
Indices: 39174--39310 Score: 202
Period size: 30 Copynumber: 4.5 Consensus size: 30
39164 TCATCATATA
*
39174 TAATACAACTAAACATAATAATATATTAGTT
1 TAATATAACTAAACATAAT-ATATATTAGTT
* * *
39205 TAGTACAACAAAACATAATATATATTAGTT
1 TAATATAACTAAACATAATATATATTAGTT
*
39235 TAATATAACTAAACATAATATATATTATTT
1 TAATATAACTAAACATAATATATATTAGTT
*
39265 TAATATAACTAAACATAATATATACTAGTT
1 TAATATAACTAAACATAATATATATTAGTT
*
39295 TAGTATAACTAAACAT
1 TAATATAACTAAACAT
39311 TTTTGTTGTT
Statistics
Matches: 97, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
30 80 0.82
31 17 0.18
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.36
Consensus pattern (30 bp):
TAATATAACTAAACATAATATATATTAGTT
Left flanking sequence: Indices 38674 -- 39173
TGTTCGCCGATGAAAGTGGTACGTGAGTTGGGTTTAGAACGTCGTGAGACAGTTCGGTTCCTATC
TACCGTTGGTGTTTGAAAGAGAACTGCGAGGAGCCAACCCTAGTACGAGAGGACTGGGTTGGGTC
AACCTATGGTGTACCGGTTGTTATGCCAATAGCAGCGCCGGGTAGCTAAGTTGGTATAGAAGAAC
TGCTGAAAGCATCTAAGCGGGAAATCCTTCTCTATACAAGTTCTCATAAAGGGTGAAAGACCATC
ACTTTGATAGGCGAGAGGTATAAACACCGTGAGGTGTGAAACAAGGCTTACGGCTCTTGTTGAGC
TTACTCGTACTAATTATCTATTTCCCGGGAGCCCAGGGGAAAGGTTAAAATAATCCAAATAAAAT
GCAACTAAACATAATAATATATTATTTTAGTACAACAAAATATACTAATATACTAGTTTAGTACA
ACAAAACATATTAATATATTAGTTTAGTAGATGAATCATCATATA
Right flanking sequence: Indices 39311 -- 39810
TTTTGTTGTTTTACAAACAAACGCTGTAGCTTTAAGTTGTAGTTGTACAACTATTGTTATAAACT
TGTTAGTACAACAGAATAAGACTTCTGTTGTATCAGTTTACTAGGGAATATAAGAAAAACTTTAA
AAAGTTTTTCTTTTTGGGAGAGAACCTCTTAATTGAGCAGAGATTGTTGCGATCCGTACGGAAAG
TGAAAAAAAAGTTATCATAGAAGATTGTTAGTTCTTCCCATTTCTGTGGATTCTTTCATAGAGTA
CCTAAAAATATAGTAAGCTACAGAATCTTTTCGTTTCTTTTTGTCATCTTCAAAATTAGTGTAAG
AATAGTTACAACGGTGTTCTTTATTTCCGGAACATTTTTGATTTCAAAATGATTATTCTGATAGA
AAAGTCCATAATGAAATTACAGCATTTCCGAGATGTTTTCTTATTTAAGTATCATGGTTTTTAGA
TTTACTATTGTGTCTATCCCGTCGGGTTGTTATGAGGTTTCGTAA
Found at i:39253 original size:15 final size:16
Alignment explanation
Indices: 39235--39291 Score: 57
Period size: 15 Copynumber: 3.8 Consensus size: 16
39225 TATATTAGTT
39235 TAATATA-ACTAAACA
1 TAATATATACTAAACA
* ***
39250 TAATATATA-TTATTT
1 TAATATATACTAAACA
39265 TAATATA-ACTAAACA
1 TAATATATACTAAACA
39280 TAATATATACTA
1 TAATATATACTA
39292 GTTTAGTATA
Statistics
Matches: 31, Mismatches: 8, Indels: 5
0.70 0.18 0.11
Matches are distributed among these distances:
14 1 0.03
15 25 0.81
16 5 0.16
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.39
Consensus pattern (16 bp):
TAATATATACTAAACA
Left flanking sequence: Indices 38735 -- 39234
TATCTACCGTTGGTGTTTGAAAGAGAACTGCGAGGAGCCAACCCTAGTACGAGAGGACTGGGTTG
GGTCAACCTATGGTGTACCGGTTGTTATGCCAATAGCAGCGCCGGGTAGCTAAGTTGGTATAGAA
GAACTGCTGAAAGCATCTAAGCGGGAAATCCTTCTCTATACAAGTTCTCATAAAGGGTGAAAGAC
CATCACTTTGATAGGCGAGAGGTATAAACACCGTGAGGTGTGAAACAAGGCTTACGGCTCTTGTT
GAGCTTACTCGTACTAATTATCTATTTCCCGGGAGCCCAGGGGAAAGGTTAAAATAATCCAAATA
AAATGCAACTAAACATAATAATATATTATTTTAGTACAACAAAATATACTAATATACTAGTTTAG
TACAACAAAACATATTAATATATTAGTTTAGTAGATGAATCATCATATATAATACAACTAAACAT
AATAATATATTAGTTTAGTACAACAAAACATAATATATATTAGTT
Right flanking sequence: Indices 39292 -- 39791
GTTTAGTATAACTAAACATTTTTGTTGTTTTACAAACAAACGCTGTAGCTTTAAGTTGTAGTTGT
ACAACTATTGTTATAAACTTGTTAGTACAACAGAATAAGACTTCTGTTGTATCAGTTTACTAGGG
AATATAAGAAAAACTTTAAAAAGTTTTTCTTTTTGGGAGAGAACCTCTTAATTGAGCAGAGATTG
TTGCGATCCGTACGGAAAGTGAAAAAAAAGTTATCATAGAAGATTGTTAGTTCTTCCCATTTCTG
TGGATTCTTTCATAGAGTACCTAAAAATATAGTAAGCTACAGAATCTTTTCGTTTCTTTTTGTCA
TCTTCAAAATTAGTGTAAGAATAGTTACAACGGTGTTCTTTATTTCCGGAACATTTTTGATTTCA
AAATGATTATTCTGATAGAAAAGTCCATAATGAAATTACAGCATTTCCGAGATGTTTTCTTATTT
AAGTATCATGGTTTTTAGATTTACTATTGTGTCTATCCCGTCGGG
Found at i:39256 original size:83 final size:83
Alignment explanation
Indices: 39094--39258 Score: 217
Period size: 83 Copynumber: 2.0 Consensus size: 83
39084 ATTATTTTAG
* * * * *
39094 TACAACAAAATATACTAATATACTAGTTTAGTACAACAAAACATATTAATATATTAGTTTAGTAG
1 TACAACAAAACATAATAATATACTAGTTTAGTACAACAAAACATAATAATATATTAGTTTAATAA
* *
39159 ATGAATCATCATATATAA
66 ATGAAACATAATATATAA
* *
39177 TACAACTAAACATAATAATATATTAGTTTAGTACAACAAAACATAAT-ATATATTAGTTTAATAT
1 TACAACAAAACATAATAATATACTAGTTTAGTACAACAAAACATAATAATATATTAGTTTAATA-
39241 AACT-AAACATAATATATA
65 AA-TGAAACATAATATATA
39259 TTATTTTAAT
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
82 15 0.21
83 55 0.77
84 1 0.01
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.34
Consensus pattern (83 bp):
TACAACAAAACATAATAATATACTAGTTTAGTACAACAAAACATAATAATATATTAGTTTAATAA
ATGAAACATAATATATAA
Left flanking sequence: Indices 38594 -- 39093
GCTCTTATCGACGGAGTCGTTTGGCACCTCGATGTCGACTCATCACATCCTGGGGTTGAAGAAGG
TCCCAAGGGTTCGGTTGTTCGCCGATGAAAGTGGTACGTGAGTTGGGTTTAGAACGTCGTGAGAC
AGTTCGGTTCCTATCTACCGTTGGTGTTTGAAAGAGAACTGCGAGGAGCCAACCCTAGTACGAGA
GGACTGGGTTGGGTCAACCTATGGTGTACCGGTTGTTATGCCAATAGCAGCGCCGGGTAGCTAAG
TTGGTATAGAAGAACTGCTGAAAGCATCTAAGCGGGAAATCCTTCTCTATACAAGTTCTCATAAA
GGGTGAAAGACCATCACTTTGATAGGCGAGAGGTATAAACACCGTGAGGTGTGAAACAAGGCTTA
CGGCTCTTGTTGAGCTTACTCGTACTAATTATCTATTTCCCGGGAGCCCAGGGGAAAGGTTAAAA
TAATCCAAATAAAATGCAACTAAACATAATAATATATTATTTTAG
Right flanking sequence: Indices 39259 -- 39758
TTATTTTAATATAACTAAACATAATATATACTAGTTTAGTATAACTAAACATTTTTGTTGTTTTA
CAAACAAACGCTGTAGCTTTAAGTTGTAGTTGTACAACTATTGTTATAAACTTGTTAGTACAACA
GAATAAGACTTCTGTTGTATCAGTTTACTAGGGAATATAAGAAAAACTTTAAAAAGTTTTTCTTT
TTGGGAGAGAACCTCTTAATTGAGCAGAGATTGTTGCGATCCGTACGGAAAGTGAAAAAAAAGTT
ATCATAGAAGATTGTTAGTTCTTCCCATTTCTGTGGATTCTTTCATAGAGTACCTAAAAATATAG
TAAGCTACAGAATCTTTTCGTTTCTTTTTGTCATCTTCAAAATTAGTGTAAGAATAGTTACAACG
GTGTTCTTTATTTCCGGAACATTTTTGATTTCAAAATGATTATTCTGATAGAAAAGTCCATAATG
AAATTACAGCATTTCCGAGATGTTTTCTTATTTAAGTATCATGGT
Found at i:42149 original size:17 final size:17
Alignment explanation
Indices: 42127--42190 Score: 82
Period size: 17 Copynumber: 4.0 Consensus size: 17
42117 AACCACTTAA
42127 TAACTAACACAAATAGT
1 TAACTAACACAAATAGT
42144 TAACTAACACAAATAGT
1 TAACTAACACAAATAGT
**
42161 TAACT---A-TTATAGT
1 TAACTAACACAAATAGT
42174 TAACTAACACAAATAGT
1 TAACTAACACAAATAGT
42191 AATGGATGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
16 1 0.03
17 27 0.69
ACGTcount: A:0.50, C:0.16, G:0.06, T:0.28
Consensus pattern (17 bp):
TAACTAACACAAATAGT
Left flanking sequence: Indices 41627 -- 42126
TGAAAAAAAATCTCCATATATTCTTTTATTTCATTGTAGTGGCTTGACAAGTCGACAATGGCGAC
AACTCAAAAATCTATTGTGTGCCTTTCGAGGTAGAACTTTATTTCGACCAAATTACAAAAGAAAA
CTACCACGTAGAAACAAGCAAGGTGGTTTTATTGAGCAGCTTGCTTCTAGCGCAGGTCCCACTTG
TATCTTGTACTTAACTAAAGAAGCACCAGATAATACATGGTCACAGTTATTACCTTTGGCCTCAT
ACAACCAAAATCTAGTTTTATTATACGGACAACTTCAATCTACTTTAGTCAATCATATGGATATA
GAAAAAGCGGCTAATTTAGAAATAACATCAGTATTTCAACAACTTTTTGAGCTCATTTTTTACCC
ATATAATTCTTTATATTCTTGTTTGAACAAGCCAATTTATGCTCTACCCACTATACAAGAAAAGA
CGCAAGGAGGGTTGCTTAGTCACCAGAAGATAACCAACCACTTAA
Right flanking sequence: Indices 42191 -- 42690
AATGGATGATTTGTTTTTTTGGCGAATAACGGGATTCGAACCCGTGTTTTCAAATTCACAATCTG
ACACTTTCACCTATTAAGTTATACTCGCCCTTTTTTCCAATTCAGACATTAAAATACTCGCTATC
GGATTCGAACCGATAACCCATAGGAACAGATTTTGAGACTGCCGTGTTTACCATTTTCACCAAGC
GAGTATGCTCACTATCGGACTTGAACCGATAACCCATAGGAACAGATTTTAAGTCTGTCGTGTTT
ACCATTTTCACCAAGTGAGCTTAGGCAGGCGAAGCGCAGAATCGAAACACAATAACACAATCTTT
TTCTTTAACACAATCCCCATCTTTCGTTTTCCTCTTGCCATTTCATTTTATAGACATCTCCGGCT
TATCCTGGCTCGGCTGAATCTGCGGCATTTTCTCAAATATTTGAAAAATCTATAGTCCTCTGTCT
CAAGGTGTGTAGAGACTCCTTTTTTACTGATTTATACTAATCTAT
Found at i:42451 original size:81 final size:81
Alignment explanation
Indices: 42316--42465 Score: 257
Period size: 81 Copynumber: 1.9 Consensus size: 81
42306 AAAATACTCG
*
42316 CTATCGGATTCGAACCGATAACCCATAGGAACAGATTTTGAGACTGCCGTGTTTACCATTTTCAC
1 CTATCGGATTCGAACCGATAACCCATAGGAACAGATTTTAAGACTGCCGTGTTTACCATTTTCAC
42381 CAAGCGAGTATGCTCA
66 CAAGCGAGTATGCTCA
* *
42397 CTATCGGACTT-GAACCGATAACCCATAGGAACAGATTTTAAGTCTGTCGTGTTTACCATTTTCA
1 CTATCGGA-TTCGAACCGATAACCCATAGGAACAGATTTTAAGACTGCCGTGTTTACCATTTTCA
42461 CCAAG
65 CCAAG
42466 TGAGCTTAGG
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
81 63 0.97
82 2 0.03
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (81 bp):
CTATCGGATTCGAACCGATAACCCATAGGAACAGATTTTAAGACTGCCGTGTTTACCATTTTCAC
CAAGCGAGTATGCTCA
Left flanking sequence: Indices 41816 -- 42315
CACTTGTATCTTGTACTTAACTAAAGAAGCACCAGATAATACATGGTCACAGTTATTACCTTTGG
CCTCATACAACCAAAATCTAGTTTTATTATACGGACAACTTCAATCTACTTTAGTCAATCATATG
GATATAGAAAAAGCGGCTAATTTAGAAATAACATCAGTATTTCAACAACTTTTTGAGCTCATTTT
TTACCCATATAATTCTTTATATTCTTGTTTGAACAAGCCAATTTATGCTCTACCCACTATACAAG
AAAAGACGCAAGGAGGGTTGCTTAGTCACCAGAAGATAACCAACCACTTAATAACTAACACAAAT
AGTTAACTAACACAAATAGTTAACTATTATAGTTAACTAACACAAATAGTAATGGATGATTTGTT
TTTTTGGCGAATAACGGGATTCGAACCCGTGTTTTCAAATTCACAATCTGACACTTTCACCTATT
AAGTTATACTCGCCCTTTTTTCCAATTCAGACATTAAAATACTCG
Right flanking sequence: Indices 42466 -- 42965
TGAGCTTAGGCAGGCGAAGCGCAGAATCGAAACACAATAACACAATCTTTTTCTTTAACACAATC
CCCATCTTTCGTTTTCCTCTTGCCATTTCATTTTATAGACATCTCCGGCTTATCCTGGCTCGGCT
GAATCTGCGGCATTTTCTCAAATATTTGAAAAATCTATAGTCCTCTGTCTCAAGGTGTGTAGAGA
CTCCTTTTTTACTGATTTATACTAATCTATCTTAGATCCGAGATAGTGCCGAAAAAATGATTCAA
TTTAATCTAACCATGGTTGCCTCGGCAATGGCAATGACTTTTATACAATATGCAGAATACTCCAA
AACCTCTATTTAGAACTGAAAGAAGATAATGCTTTTTTATTTATGAGAAAATCATAAAGTGCAAA
GGTTAAAATTTTGAGCTTTGTTTTACGTAGTTTCGCCATCTATATAATAGAATATGGTAGAAAAT
AATAAGTTGGCGAGGAAGTAAAAATATATATATATCTATATATAT
Found at i:63138 original size:6 final size:6
Alignment explanation
Indices: 63127--63205 Score: 104
Period size: 6 Copynumber: 13.2 Consensus size: 6
63117 TGCGCGAAGC
* *
63127 ACTCAT ACTCAT ACTCAT ACTCAT ACCCAT ACTCAT ACCCAT ACTCAT
1 ACTCAT ACTCAT ACTCAT ACTCAT ACTCAT ACTCAT ACTCAT ACTCAT
* * * *
63175 ACCCAT ACCCAC ACTCAT ACTCAT ACCCAT A
1 ACTCAT ACTCAT ACTCAT ACTCAT ACTCAT A
63206 ATGGTGCGAA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 64 1.00
ACGTcount: A:0.34, C:0.41, G:0.00, T:0.25
Consensus pattern (6 bp):
ACTCAT
Left flanking sequence: Indices 62627 -- 63126
ACCTTACCTTTATCTGAAGACAAATTTAAAAAACGCAGCATACTATAGATTATGTCTAAGTTAGG
CCTCATATGGATAAATCTTATGGTTAAACGCAATTCATTTGGGTTTTTTCAGCTCTCGTCCATGT
AAGTATAGCATGGTCAAGCTATCAAGCATAAAGCATGTAAATTTTTAATGTGTTTCCGCTTTGCG
CCTAGCTTTTAATTCCGAATTATGGGTCTACTCCATGTCGTAGCATCTAATTACTATGTTATTGC
AGAACTGAATCAAAGCCAAGTGGTTTTTCCATTATATGAATAATTAACAAGTTGCATAATCTGCT
ACTTTTAATCCCTTCTAAGCATTGTATTGGTTCGACTGTCTGTTTCTAAGAGGTTAGTTATACTT
ATTAAAGCAAATAACCAAAGCCTTTGTAGGCTCCGTTTCTTCTATATGATGGCGCATGGTTAACG
GAAGATTAATACTGATCATGTAGAACAGATTCAGTTGCGCGAAGC
Right flanking sequence: Indices 63206 -- 63705
ATGGTGCGAAGCACTCGAAATGCATGATGCATCTCTAGTGTAGGGCCGAAGGCCCGGGCTTATTA
GGATGTAAGTATGTAGATTGTGTAGGTTTTTCCATTAATAAAGAGATCTATATTGTAGAAGGCTT
GGCCTTTCTCTCTTTGGGAGGAGACAACAATGCTGTTAAGGAATCCTTAGGCCCGAATGGAAAGG
CTTGGGTTACTAATGAACGAATTCCAGGAGTTGGTGAACTACAGAGAGAAGAAAATATGAAAAAG
CCTTGTAAGTCGTGAGTACACTCCAATAGACGACTAGGATCTTAGACCTTCAGAACGTAGCCGAC
ACTTTCTATGATATAATAGAAAAGGAGTTGTTGACGCAGTCTACTGGCCACCCCTCGTGACGGAA
AACGCATTTGCTTCGGTTTACGCCTTCCATCTTTAATTCCATCAATTGGCTATTTCGGCCGAAGC
GGTCTTGCGATAGAACCCAGACCCCACCGTCTATAATAAATAGTT
Found at i:63144 original size:12 final size:12
Alignment explanation
Indices: 63130--63205 Score: 116
Period size: 12 Copynumber: 6.3 Consensus size: 12
63120 GCGAAGCACT
*
63130 CATACTCATACT
1 CATACTCATACC
63142 CATACTCATACC
1 CATACTCATACC
63154 CATACTCATACC
1 CATACTCATACC
63166 CATACTCATACC
1 CATACTCATACC
* * *
63178 CATACCCACACT
1 CATACTCATACC
63190 CATACTCATACC
1 CATACTCATACC
63202 CATA
1 CATA
63206 ATGGTGCGAA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 57 1.00
ACGTcount: A:0.34, C:0.41, G:0.00, T:0.25
Consensus pattern (12 bp):
CATACTCATACC
Left flanking sequence: Indices 62630 -- 63129
TTACCTTTATCTGAAGACAAATTTAAAAAACGCAGCATACTATAGATTATGTCTAAGTTAGGCCT
CATATGGATAAATCTTATGGTTAAACGCAATTCATTTGGGTTTTTTCAGCTCTCGTCCATGTAAG
TATAGCATGGTCAAGCTATCAAGCATAAAGCATGTAAATTTTTAATGTGTTTCCGCTTTGCGCCT
AGCTTTTAATTCCGAATTATGGGTCTACTCCATGTCGTAGCATCTAATTACTATGTTATTGCAGA
ACTGAATCAAAGCCAAGTGGTTTTTCCATTATATGAATAATTAACAAGTTGCATAATCTGCTACT
TTTAATCCCTTCTAAGCATTGTATTGGTTCGACTGTCTGTTTCTAAGAGGTTAGTTATACTTATT
AAAGCAAATAACCAAAGCCTTTGTAGGCTCCGTTTCTTCTATATGATGGCGCATGGTTAACGGAA
GATTAATACTGATCATGTAGAACAGATTCAGTTGCGCGAAGCACT
Right flanking sequence: Indices 63206 -- 63705
ATGGTGCGAAGCACTCGAAATGCATGATGCATCTCTAGTGTAGGGCCGAAGGCCCGGGCTTATTA
GGATGTAAGTATGTAGATTGTGTAGGTTTTTCCATTAATAAAGAGATCTATATTGTAGAAGGCTT
GGCCTTTCTCTCTTTGGGAGGAGACAACAATGCTGTTAAGGAATCCTTAGGCCCGAATGGAAAGG
CTTGGGTTACTAATGAACGAATTCCAGGAGTTGGTGAACTACAGAGAGAAGAAAATATGAAAAAG
CCTTGTAAGTCGTGAGTACACTCCAATAGACGACTAGGATCTTAGACCTTCAGAACGTAGCCGAC
ACTTTCTATGATATAATAGAAAAGGAGTTGTTGACGCAGTCTACTGGCCACCCCTCGTGACGGAA
AACGCATTTGCTTCGGTTTACGCCTTCCATCTTTAATTCCATCAATTGGCTATTTCGGCCGAAGC
GGTCTTGCGATAGAACCCAGACCCCACCGTCTATAATAAATAGTT
Found at i:63150 original size:18 final size:18
Alignment explanation
Indices: 63130--63205 Score: 116
Period size: 18 Copynumber: 4.2 Consensus size: 18
63120 GCGAAGCACT
*
63130 CATACTCATACTCATACT
1 CATACTCATACTCATACC
*
63148 CATACCCATACTCATACC
1 CATACTCATACTCATACC
*
63166 CATACTCATACCCATACC
1 CATACTCATACTCATACC
*
63184 CACACTCATACTCATACC
1 CATACTCATACTCATACC
63202 CATA
1 CATA
63206 ATGGTGCGAA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 51 1.00
ACGTcount: A:0.34, C:0.41, G:0.00, T:0.25
Consensus pattern (18 bp):
CATACTCATACTCATACC
Left flanking sequence: Indices 62630 -- 63129
TTACCTTTATCTGAAGACAAATTTAAAAAACGCAGCATACTATAGATTATGTCTAAGTTAGGCCT
CATATGGATAAATCTTATGGTTAAACGCAATTCATTTGGGTTTTTTCAGCTCTCGTCCATGTAAG
TATAGCATGGTCAAGCTATCAAGCATAAAGCATGTAAATTTTTAATGTGTTTCCGCTTTGCGCCT
AGCTTTTAATTCCGAATTATGGGTCTACTCCATGTCGTAGCATCTAATTACTATGTTATTGCAGA
ACTGAATCAAAGCCAAGTGGTTTTTCCATTATATGAATAATTAACAAGTTGCATAATCTGCTACT
TTTAATCCCTTCTAAGCATTGTATTGGTTCGACTGTCTGTTTCTAAGAGGTTAGTTATACTTATT
AAAGCAAATAACCAAAGCCTTTGTAGGCTCCGTTTCTTCTATATGATGGCGCATGGTTAACGGAA
GATTAATACTGATCATGTAGAACAGATTCAGTTGCGCGAAGCACT
Right flanking sequence: Indices 63206 -- 63705
ATGGTGCGAAGCACTCGAAATGCATGATGCATCTCTAGTGTAGGGCCGAAGGCCCGGGCTTATTA
GGATGTAAGTATGTAGATTGTGTAGGTTTTTCCATTAATAAAGAGATCTATATTGTAGAAGGCTT
GGCCTTTCTCTCTTTGGGAGGAGACAACAATGCTGTTAAGGAATCCTTAGGCCCGAATGGAAAGG
CTTGGGTTACTAATGAACGAATTCCAGGAGTTGGTGAACTACAGAGAGAAGAAAATATGAAAAAG
CCTTGTAAGTCGTGAGTACACTCCAATAGACGACTAGGATCTTAGACCTTCAGAACGTAGCCGAC
ACTTTCTATGATATAATAGAAAAGGAGTTGTTGACGCAGTCTACTGGCCACCCCTCGTGACGGAA
AACGCATTTGCTTCGGTTTACGCCTTCCATCTTTAATTCCATCAATTGGCTATTTCGGCCGAAGC
GGTCTTGCGATAGAACCCAGACCCCACCGTCTATAATAAATAGTT
Found at i:73120 original size:24 final size:24
Alignment explanation
Indices: 73092--73137 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
73082 GCGGCATGGC
73092 TGGCATGTGGCCGCGAATGCGGCA
1 TGGCATGTGGCCGCGAATGCGGCA
73116 TGGCATGTGGCCGCGAATGCGG
1 TGGCATGTGGCCGCGAATGCGG
73138 GGCAGGCGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.15, C:0.24, G:0.43, T:0.17
Consensus pattern (24 bp):
TGGCATGTGGCCGCGAATGCGGCA
Left flanking sequence: Indices 72592 -- 73091
TGGGGCATATCCTGGTGCCCAATCTCCAGTCCGCGTCAATGGAGTCAATCGCCCAGAGGTAGCGT
TGCCGCAATGCGCGTGGAAAAGCATCTGGGAAACCAAGTCATGACCCATAAAAGGACGACTTGGA
AGATACTGTTGGGATTGATGAGGCTGACGAATCCGAATGACGTAGCTGCTGAACGACAGCATTCA
CCAAGCCAGCGGGGAACGACTTGGTCCTGGAATCGGTTCTTTTGGTAGGTATAACGGGGGCCGGA
GACGGAAGACAAGGGCGAAGCAGGGGCATTCTCAGTAAGGGAATAAGACTATGCGGACATCTTAT
CTCAACGAACAGGTAGAAAAAGTCGAAGACGCAATCACGGGATCGACCTACTCTCTAGCGAGAGG
GTCGGCGGAGCCGCTATAGTAAGTCAATAGGGAAATCGACCGAGCCAGGTACTGAAGGGCGGCAG
TCATGATCCGAGGGTAGAGGGCCACTTCAGTGGCAGCGGCATGGC
Right flanking sequence: Indices 73138 -- 73637
GGCAGGCGGCGACGCTTCAACTCTTCCGAGAAGACGGGTTGGTCCCGGCAGACATAAGAATGCTG
CTACGATCTCATTCAAGAAGTACCTCGTAAAGCGCGTCAATCTAGATCTAGATTGTTGTTGATGT
GCTTGAAGAAATCAGTGGCGGAGAGCTTTATGACGGGAAACTGTCACGTATGGTTCGGAGGGCGG
GGAAATCTCCGACCCCTACTTTTGATTATGGTATGGTATTGTCAGATTTAAATGTAGGTATACTT
TATCTATTTGCTATATCTTCTCTAGGCGTGTATGGTATTATTACAGCAGGCTGGTCCAGTAATTC
TAAATATGCTTTTCTAGGAGCATTACGATCTGCAGCTCAAATGGTTTCTTATGAAGTTTCTATCG
GTCTTATTATCATCACCGTACTGATTTGTGTAGGTTCTCGTAACTTTAGTGAGATCGTAATCGCG
CAAAAGCAGATATGGTTTGCTGCGCCCTTGTTTCCTGTATTCATT
Found at i:75128 original size:2 final size:2
Alignment explanation
Indices: 75121--75146 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
75111 AACGAATAAA
75121 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
75147 TTTTTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Left flanking sequence: Indices 74621 -- 75120
CCACGAAGCTACACCCTTACTCTCCTAGTCTATGTACATTACTTTTTCTAGGAGGTTGGCTGCCT
ATCCTAGATATTCCTATTTTCTATGTGATTCCGGGTTCGATTCGGTTTAGTATCAAGGTTCTTTT
CTTTTTGTTTGTATATATATGGGTTCGTGCAGCATTTCCACGATATCGTTATGACCAATTGATGA
GGCTTGGTTGGAAAGTATTCTTACCTTTATCATTAGCTTGGGTAGTTTTTGTATCTGGTGTTCTA
GTAGCCTTTGACTGGCTCCCTTAATTCATTGAACAATTTCACTGCAGTGCAACTAAAAAATATAT
ATTTTTAATTAGAAAAAACTCCGTTAAATAGCAGCTAAAAAACCAAATGAATTGATTAAAAGAAA
TAGAAAATAATATATTTTATTCGTTCTATTAACTTCGTAAATGCAGGCTTTGAGAGAAGGAGAGA
GAGGCCAAGCCTCTCTCTCTCTTTGAGCGTTCCAAAACGAATAAA
Right flanking sequence: Indices 75147 -- 75646
TTTTTTTTTATCTAAGGCCTTGTAATGATGGGTAAATCCTGCCCATGATGGATTGCGTTAATCAT
GAAGAACACAAAGTTTCCATGATCCGCAAAAACGAGAAAGCACGAAACATTCATATGGCAAGACG
ACTATCGATTCTTAAACAACCTATATTTTCTACATTTAACAATCATTTAATAGATTATCCAACCC
CAAGCAATATAAGTTATTGGTGGAGTTTCGGTTCGTTGGCTGGTCTTTGCTTGTTCATTCAGATA
ATTACAGGCGTTTTTTTAGCTATGCATTATACGCCTCATGTGGATTTAGCTTTTTTAAGCGTAGA
ACACATCATGAGAGATGTGAAAGGCGGCTGGTTGCTTCGTTATATGCATGCTAATGGGGCAAGTA
TGTTTTTTATTGTGGTTTATCTTCATATTTTTCGTGGTCTATATTATGGAAGCTATTCGAGTCCT
AGGGAATTAGTTTGGTGTCTTGGAGTTGTCATTTTACTTTTAATG
Found at i:78535 original size:10 final size:10
Alignment explanation
Indices: 78520--78569 Score: 100
Period size: 10 Copynumber: 5.0 Consensus size: 10
78510 TAGCTTCGCC
78520 CTGCTATTGG
1 CTGCTATTGG
78530 CTGCTATTGG
1 CTGCTATTGG
78540 CTGCTATTGG
1 CTGCTATTGG
78550 CTGCTATTGG
1 CTGCTATTGG
78560 CTGCTATTGG
1 CTGCTATTGG
78570 TCGAGAGCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 40 1.00
ACGTcount: A:0.10, C:0.20, G:0.30, T:0.40
Consensus pattern (10 bp):
CTGCTATTGG
Left flanking sequence: Indices 78020 -- 78519
TGAGAATTTTTTTTTATACCGGGCATAGACGTTTTTTGCGTTCCGCCAGTCTTATTATAGCAAGC
GCGTAATCATCCGAACAGTTGTCGTCTACTGTTTCAATTAAATTTGATGATTTAGCACATTGCAA
AATTTAATTGACTTCGTTAAGTTTTCTGGAGAAATTATCATTATATATTATGTTATGATTATGAT
GTTGGCACGGCGGCGGCTATTAAAAAAGTTGTTTTTGGTATTAGAACTCCAGTCATTAAGGCTTT
TGTAGCTTCTACAGCAATGACGGCCTATAGCAGAATAAAGTCATAAAGGCGTCTCGAAGCTTAAT
AAGTACGGCAATGCCCGGCCCGGGCGACCGGTCCTGCCCAACATCGTGCTCGAGGGCCGGTGCTG
TTTACCGCTCAGCGAAGAAGCTTCTCCCGGCTGAGTAATCGCTCGCTCCTCATGACAGCCAGGTT
TGTTATGGGTTGGCGGTAGCACGGCAGTAGCCTGCTAGCTTCGCC
Right flanking sequence: Indices 78570 -- 79069
TCGAGAGCTTTACTTGATAACGAATCGGTTAGAGCTTTACACAAAGCTCCCAGCTTTTAGACTTT
TGTAATAGTAAAATAGGCTTCGCCCTTTAACTTATGTTCTAATGTGTTTACTTCTTAGAAAAAAA
GAGACGATTTGTGGATAACCAATCGTTTTTCAAATCTCTGATAGCTACTTTACCGAAATGGATAC
ATCAATTTCGAAAATCAAAACATGAAAATATATTCTATACCAATCCTGATTACCTATTTCAATTA
TTATGGTTTTTGAAATATCATACCAATACACGTTTTCAGGTCTTAATCGATATTTGTGGAGTTGA
TTATCCCTCTCGAAAACAAAGATTTGAAGTAGTTTATAATTTACTAAGGGCGACCGCGAAGTAAC
CGAATAAAGTGCTCATTCGTACCAAACGAATGAGACGTTGTAGAAGTCTGCAACGAAACGGGCAC
GACTTATTTGACGGATATACCGCTAAAGACACCCAACAGGACGAA
Found at i:87351 original size:21 final size:21
Alignment explanation
Indices: 87325--87372 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
87315 TTTTATTGAA
87325 ATATAACCA-AAAAAGCATGCG
1 ATATAA-CATAAAAAGCATGCG
* *
87346 ATATAATATGAAAAGCATGCG
1 ATATAACATAAAAAGCATGCG
87367 ATATAA
1 ATATAA
87373 TATGATTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.52, C:0.12, G:0.15, T:0.21
Consensus pattern (21 bp):
ATATAACATAAAAAGCATGCG
Left flanking sequence: Indices 86825 -- 87324
TGAGAAAAAAAATAGATATATTTTTTTTTACTGTGGACATTTAAAAGGTGCCCTGGTTCCATACG
GCTCCACTAGCATAGCGAGTAGAGGCCGAAGTGCTTCGGCCTTATTGGCCATTACTGTGTAATCG
GCTTGACGCATGCGAGGCCACAGGTCAACTAATCGCGAAAAAGTGCCTTTCGGTGCAAAGCAGAG
AGCCGCGCAGCCATTAGACTCGTGGCTTCGCTTGAACGATACTTCCGGGTTTCTATTAACGTATA
TAGCCAGTAGAATGGAAAGATTCCGATGAATCATCTACGATGATTCATTATGTTTGGGAAAATAG
CTTAGTTGGTTAGAGTGCTGGTCTGTCACGCCAGAAGTTGCGGGTTCAAATCCCGTTTTTCCCGG
TAATTTTTTGATTCAAAAATGAATTATTATAAAATCAGTTCATAAAGAGAGATATATCTCTCTTT
ATGAACTGGTAACTAAATCAGTTAAAATCTTTTTTTTTTATTGAA
Right flanking sequence: Indices 87373 -- 87872
TATGATTCAATTTTACAGGGCGTAGCCCTTATCCTACCCGCGTCAAAAGTAATCTCGAGGTGTGA
AACTTTAGGGATAATGTAATAATGGTTAAGATTACATACTGAGCTGATGCTAGAGTAAAGAGATT
GGAAAAAAAAATTATGCTATGCGGATGAATAGTGCAAGGAACTAATACAAAGACCTTGTCAAAAA
GACTCTAAGATCTTAATCGGTGTTAGCGGAACCGAAAAATTTTCTATATAGAATTTTATAGAGAG
AATATCCTAGGTTGCGTAAGTCGTATGTGGGCGCAGAGCGCAGCACGTGTGGTTCTAACCGGGGA
AGAAAAGCATGAGAGGGCCCGCCCATCCTGACAAATACAACAATACTGTATCCTGGGTTCAAACC
CCATTTTCTCCGTAGGGGACGTAGTTCAATTGGTAGAGCGCATGTTTTGCAAGCATGAAGCTGTC
GGTTCAACTCCGATCGTCTCCAAATAAACAAGTGATATATTGTAG
Found at i:87373 original size:21 final size:21
Alignment explanation
Indices: 87335--87377 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
87325 ATATAACCAA
87335 AAAAGCATGCGATATAATATG
1 AAAAGCATGCGATATAATATG
87356 AAAAGCATGCGATATAATATG
1 AAAAGCATGCGATATAATATG
87377 A
1 A
87378 TTCAATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.09, G:0.19, T:0.23
Consensus pattern (21 bp):
AAAAGCATGCGATATAATATG
Left flanking sequence: Indices 86835 -- 87334
AATAGATATATTTTTTTTTACTGTGGACATTTAAAAGGTGCCCTGGTTCCATACGGCTCCACTAG
CATAGCGAGTAGAGGCCGAAGTGCTTCGGCCTTATTGGCCATTACTGTGTAATCGGCTTGACGCA
TGCGAGGCCACAGGTCAACTAATCGCGAAAAAGTGCCTTTCGGTGCAAAGCAGAGAGCCGCGCAG
CCATTAGACTCGTGGCTTCGCTTGAACGATACTTCCGGGTTTCTATTAACGTATATAGCCAGTAG
AATGGAAAGATTCCGATGAATCATCTACGATGATTCATTATGTTTGGGAAAATAGCTTAGTTGGT
TAGAGTGCTGGTCTGTCACGCCAGAAGTTGCGGGTTCAAATCCCGTTTTTCCCGGTAATTTTTTG
ATTCAAAAATGAATTATTATAAAATCAGTTCATAAAGAGAGATATATCTCTCTTTATGAACTGGT
AACTAAATCAGTTAAAATCTTTTTTTTTTATTGAAATATAACCAA
Right flanking sequence: Indices 87378 -- 87877
TTCAATTTTACAGGGCGTAGCCCTTATCCTACCCGCGTCAAAAGTAATCTCGAGGTGTGAAACTT
TAGGGATAATGTAATAATGGTTAAGATTACATACTGAGCTGATGCTAGAGTAAAGAGATTGGAAA
AAAAAATTATGCTATGCGGATGAATAGTGCAAGGAACTAATACAAAGACCTTGTCAAAAAGACTC
TAAGATCTTAATCGGTGTTAGCGGAACCGAAAAATTTTCTATATAGAATTTTATAGAGAGAATAT
CCTAGGTTGCGTAAGTCGTATGTGGGCGCAGAGCGCAGCACGTGTGGTTCTAACCGGGGAAGAAA
AGCATGAGAGGGCCCGCCCATCCTGACAAATACAACAATACTGTATCCTGGGTTCAAACCCCATT
TTCTCCGTAGGGGACGTAGTTCAATTGGTAGAGCGCATGTTTTGCAAGCATGAAGCTGTCGGTTC
AACTCCGATCGTCTCCAAATAAACAAGTGATATATTGTAGAAAAG
Done.