Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: KC784951
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: 103830
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.30
Found at i:18985 original size:19 final size:20
Alignment explanation
Indices: 18943--18985 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
18933 GGATGTTGGT
* *
18943 CATGACTTTCGAAAAGTTCC
1 CATGACTATCGAAAAGTTCA
*
18963 CATGACTAT-GAAAATTTCA
1 CATGACTATCGAAAAGTTCA
18982 CATG
1 CATG
18986 GAGGAGTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (20 bp):
CATGACTATCGAAAAGTTCA
Left flanking sequence: Indices 18443 -- 18942
GAGCTAAAAATGCATTTTTTTTCTTTTTTCTCTTTCTTTTTAATTTTTCCATTTTCAAATTTATG
GGAGACTTGTCATATTCAGAATCTTTCTGTGGTGTGCTTTGTTTTTCATTATCTTGTACATTTTT
TTTATCATTTAAATATAGGCGCGATACGTGGGCAAACGAGGAGCGTGGGCTTGGAATGGAAGAAA
AAGGAAAACCGCGTAGGCGGGCACAGAGAAGGAAGCGCCAAGCGCTTTGTTGGCCTAGCGGAAAA
AAGAAACAAAGAAATAAAAAGAAAGAAAATTTTTCCTTTTTATTTCTTTCAAATAAATCAAAAAT
ATTTTTGATTTATTTGCTGCAATTTTCAAAAACCTTCGGCTTCAACGAAAAAGCCAAAATTTTGG
CTTTTTATTCTCTGCTTGCTTCTTCGCAAGCTTATTCTCTCGTCCTTGAAAATATTTGGAATAGA
TTTTTTATTGTTCGCGCCTCACCAAAAAGACTGATGGATGTTGGT
Right flanking sequence: Indices 18986 -- 19485
GAGGAGTTTGCATCTCTATTATGGGTGTTATTCTGTCGTGCGACCCGGCAGCTTATGCGCGACCA
TCTCGTGTTTAAGCTCACGCCATATGGGCGTGAACTCTGGTTGAATTCGGGTTCTAAATCCCGCC
GCTGAGATGCTCAGTCGACTCTTGAACCTTGATAGGAAGACGGCTTCTTCCCAAATTAGTGCAAA
AGGTTCAGGGACTTAGGATGAACTTAATGTGAATGGGTATAAGCTTCGCTGCTCAAAAACACCCA
GTATTGACCACACTGAGAGACTTGCCAATAGCAAAAAAGGCCGCGGGTAACGCTAGTTGGCGAAA
TGGCGTTAAGCATTCCTGGCAATACGGAAAGAGAGGTCGTGATGATATCATCTACGTTCGTACTG
TCCCTTGTGGAGTAAATCTCACATCCAAAAATCTAACCAGGGAACGGAATAATTCCCATTAAGTT
CCAGTAAAACTGGCAGGCCAGCCGGGCCGTAAGCTAGTGGGAACA
Found at i:33089 original size:14 final size:14
Alignment explanation
Indices: 33070--33097 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
33060 TCGGTTCTGT
33070 TTGATAGTAACACA
1 TTGATAGTAACACA
33084 TTGATAGTAACACA
1 TTGATAGTAACACA
33098 AAGAAGCAAA
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:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (14 bp):
TTGATAGTAACACA
Left flanking sequence: Indices 32570 -- 33069
GAGGAAGGTGGGGATGACGTCAAGTCCGCATGGCCCTTATGGGCTGGGCTACACACGTGCTACAA
TGGCAATTACAATAGGAAGCGAGGCTTGAAGGCGGAGCGAATCCAGAAAGATAGCCTTAGTTCGG
ATTGTTCTCTGCAACTCGAGAACATGAAGTTGGAATCGCTAGTAATCGCGGATCAGCATGCCGCG
GTGAATATGTTCTCAGGCCCTGTACACACCGCCCGTCACACCATGGGAATTGGCTTCGCCCGAAG
CATCAAACCAAGGATCACCCATTCTTTCAGTGTTCTACGCCGTTGGTGAGTGTGGTCTACCAGAG
GAATTGGTGGTCTAATGTGGGATACCAAGGTGGGGCCTTTGACTGAGGTGAAGTCGTAACAAGGT
AGCCGTAGGGGAACCTGTGGCTGGATTGACTCCTTTTTTTCGACAAAAGAGAGAAAAAAAAAAGA
CTCCAAAAAAGAAACATCTATCTAGTTTCTGTCGTTCGGTTCTGT
Right flanking sequence: Indices 33098 -- 33597
AAGAAGCAAAAAAAAAGAGTAGATACGCCCTGTGCTCTTCATTCTTTGGACTAGGATTGCATGGC
CCGAAGCAGCATAATGCGATAGTAGCAAAGACTTGAGTGAATTTTTGGTCTATGTCAGTTAGTGA
GAGCCTACCTCGCAGCCTTTCCAATTATGCCTGTGAATGCCCCTACTATTACACAATAACGGCTT
CAGTCGCTATTATGAATATCACTAAGGCGCAGGGCGCTCTAATAATCTACTCCGTTTGAACCTCA
TACATAAACAGTTACTTCTATCGTTAAGCCCCATCGGGGCCAGGTTAAAGGGCGTATGAGGCGAA
TTATTATCCAACAGCCAGGGAGCGGCAGATTAGTAGAACAGCGGATTAATAATTCGCATGTCGGA
ATAGTTTAGTCGGTTAGAACAGCGGGATCATAATTCGCACACGGGGGTTCAAATCCCTCTTCCGA
TAGGAACTTTCGGATAAGAATTGAACCTACGGGAGGCAAAAAAAA
Found at i:34442 original size:25 final size:25
Alignment explanation
Indices: 34410--34457 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
34400 AACGCTAAAC
34410 AAAGTGATGAACAATCAATCGCGTA
1 AAAGTGATGAACAATCAATCGCGTA
34435 AAAGTGATGAACAATCAATCGCG
1 AAAGTGATGAACAATCAATCGCG
34458 GGGCCGAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.19
Consensus pattern (25 bp):
AAAGTGATGAACAATCAATCGCGTA
Left flanking sequence: Indices 33910 -- 34409
GCATCGCTCTCCGGCTTGCTGCAAGAGAAATTGAAGAAATTGAAGTAGGTCTACATGGCTTGCTG
AAGAGAATGAAGAGAAGCGGTCGTATCAACTCCACAAGGCCGCAGGCCACGCGTCGGTTACATGA
AAAGAAATCTAATTATTAATTAGAACAACCATAAGCGCGCTTCTCAGCTTTTCTCTCAGGGTTTT
AGTTGAAATCGAAATAAAGTCAAGTTGGCGATTCTCGCCCTGTGATTGGCGATTCTCGCCGAAGA
GCACCTGTGTAGTCCACTTCATTGAACGCGGGAAACCTACGACCGAGCAAGTTCCCTTTTGACTC
TATTCATCAATCGCTACGCGCTTCCGGGCACTATGGTAAGACATGAGAACACCCGATCCCATTCC
GACCTCGAAATGTGAAATCGTCTTACGCTATATGTACTGATTTATCAATTTCGGGAGACATGGTC
CAGGCCCGGACAACGTCCAATTTCAATTATTCTAAAACGCTAAAC
Right flanking sequence: Indices 34458 -- 34957
GGGCCGAAGGTTCTAGGGGACTAAGCTCGCCAAATAGTACTATGCAACACTCGGCGCCTACGGAT
GGATTATCATAGAGACCCGCAAGAAAAAAATCACATATTTCTAATAAAGAACTCTACTTGGGGCG
GGCGGGGAACTGCTGTGCAAAAAGAAATATTTTGAAATATTTTGCGGCGCCGTTGAAGAAAACCT
TATTATGTGCGCGGGATAGAGTAATTGGTAACTCGTCAGGCTCATAATCTGAATGTTGTGTAGGT
TCGAATCCTACTCCCGCCAAATAGTCTAAGTGGTTTTTGTGGAACAGCGGGATTTATACAAAAAG
CAGCAGTGCATCCATAACTTGGTTATTTCTGCGCGTTCTTGATCTATTTTTCGGTCAGAAAAATA
TTGAAATAAATAATGGTGTGATAAGACAAATACTCATTCTATTGTGTCTAGGCAAAAGGAACCCT
GTATTCTGCTTGTGATGCGAATGATGCGATATGTAAATAAAAGAT
Found at i:39709 original size:18 final size:18
Alignment explanation
Indices: 39686--39726 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
39676 AAAACAAAAA
39686 ATATTTATTATATTCGAT
1 ATATTTATTATATTCGAT
39704 ATATTTATTATATTCGAT
1 ATATTTATTATATTCGAT
39722 ATATT
1 ATATT
39727 ATTGGTATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.56
Consensus pattern (18 bp):
ATATTTATTATATTCGAT
Left flanking sequence: Indices 39186 -- 39685
GAGAAAAAACACTTGGAAAAAAGAACTGAAGGGCGAAGCTTGCAAGCGCGTGCTTGCACCTAAGC
CGTACTCCCTCCGGGTTTTATTAAATGCAGTATGACGGAACATTAAAAAAGACTTCCTTCCGGCT
AACCAAGCGAAATTTAGCCGAGTACTAAGTAAGTCCTTCGGTCCTGTTTTTTAGACCTAGCTGAA
CTATAATCAGTTCTGTAAGACCGTTTCCCGGAGGAGGAGGCTGGCGTCTTTGAAAAAACGAAGGA
TGTTGCAGAGAGATGGCACCCTTCCCGGGTTCAATTTGATTAGCAATTATTTTATGTGAAGGAAG
TACAGGCCATAAATAATGTTTTATTTACTTAAGTTATTTTAATCTGATTATATAAGTATAAATCA
TCGTGGATAAAAAATTACCATAGATGATCTAAATCCATGTAAAACACGACAGAAATTGATGATCC
TAAAGGATCAAATACATTTACCTCACCATCACCCAAAAACAAAAA
Right flanking sequence: Indices 39727 -- 40226
ATTGGTATCTTCCTGCTAATTTATCTTTGTATGTGGTTCTTTTATTGTGGAGGAGCCTATAAGCA
TTCTTTAGCGTAGGACCATGGCAATGTTACAGTAGAAGCTTATATGGCTTCTGTTATCGCTCTAA
TGAAGCCTTGGGTACCAAGGAGAAGAACCGGATAAAAGGATACTAGAAATAACTCATACCATGAA
GACCCCAACAATAGATACTTGATTATGATGGGATTGTCTACTCTATAATATATAAGTAACTGGAA
TATGAAACAGAATAGCCCTGAAAACGAAGCTGGCCGAACGATGGGTTGGGCTTAAAACACCTAAG
GACGCAGTTCCTATGAATCATCATATATAGCAATATAGCAGAAAAAGCCATTAAAACGAACAACA
ATTATTGGGGCGGTATAACGCAGCTCTGTGGCGCTGGATTGTCGCCCATGTATGCTACAAACGAT
CAGGCTACTGGTCGGCTCTAAAGTTGTAAAATGTCATAAGAATTC
Found at i:41381 original size:17 final size:17
Alignment explanation
Indices: 41359--41422 Score: 82
Period size: 17 Copynumber: 4.0 Consensus size: 17
41349 AACCACTTAA
41359 TAACTAACACAAATAGT
1 TAACTAACACAAATAGT
41376 TAACTAACACAAATAGT
1 TAACTAACACAAATAGT
**
41393 TAACT---A-TTATAGT
1 TAACTAACACAAATAGT
41406 TAACTAACACAAATAGT
1 TAACTAACACAAATAGT
41423 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 40859 -- 41358
TGAAAAAAAATCTCCATATATTCTTTTATTTCATTGTAGTGGCTTGACAAGTCGACAATGGCGAC
AACTCAAAAATCTATTGTGTGCCTTTCGAGGTAGAACTTTATTTCGACCAAATTACAAGAGAAAA
CTACCACATAGAAACAAGCAAGGTGGTTTTATTGAGCAGCTTGCTTCTAGCGCAGGTCCCACTTG
TATCTTGTACTTAACTAAAGAAGCACCAGATAATACATGGTCACAGTTATTACCTTTGGCCTCAT
ACAACCAAAATCTAGTTTTATTATACGGACAACTTCAATCTACTTTAGTCAATCATATGGATATA
AAAAAAGCGGCTAATTTAGAAATAACATCAGTATTTCAACAACTTTTTGAGCTCATTTTTTACCC
ATATAATTCTTTATGTTCTTGTTTGAACAAGCCAATTTATGCTCTACCCACTATACAAGAAAAGA
CGCAAGGAGGGTTGCTTAGTCACCAGAAGATAACCAACCACTTAA
Right flanking sequence: Indices 41423 -- 41922
AATGGATGATTTGTTTTTTTGGCGAATAACGGGATTCGAACCCGTGTTTTCAAATTCACAATCTG
ACACTTTCACCTATTAAGTTATACTCGCCCTTTTTTCCAATTCAGACATTAAAATACTCGCTATC
GGATTCGAACCGATAACCCATAGGAACAGATTTTGAGACTGCCGTGTTTACCATTTTCACCAAGC
GAGTATGCTCACTATCGGACTTGAACCGATAACCCATAGGAACAGATTTTAAGTCTGTCGTGTTT
ACCATTTTCACCAAGTGAGCTTAGGCAAGCGAAGCGCAGAATCGAAACACAATAACACAATCTTT
TTCTTTAACACAATCTTTTTCTTTAACACAATCCCCATCTTTCGTTTTCCTTTTGCCATTTCATT
TTATAGACATCTCCGGCTTATCCTGGCTCGGCTGAATCTGCGGCATTTTTTCAAATATTTGAAAA
ATCTATAGTCCTCTGTCTCAAGGTGTGTAGAGACTCCTTTTTTAT
Found at i:41683 original size:81 final size:81
Alignment explanation
Indices: 41548--41697 Score: 257
Period size: 81 Copynumber: 1.9 Consensus size: 81
41538 AAAATACTCG
*
41548 CTATCGGATTCGAACCGATAACCCATAGGAACAGATTTTGAGACTGCCGTGTTTACCATTTTCAC
1 CTATCGGATTCGAACCGATAACCCATAGGAACAGATTTTAAGACTGCCGTGTTTACCATTTTCAC
41613 CAAGCGAGTATGCTCA
66 CAAGCGAGTATGCTCA
* *
41629 CTATCGGACTT-GAACCGATAACCCATAGGAACAGATTTTAAGTCTGTCGTGTTTACCATTTTCA
1 CTATCGGA-TTCGAACCGATAACCCATAGGAACAGATTTTAAGACTGCCGTGTTTACCATTTTCA
41693 CCAAG
65 CCAAG
41698 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 41048 -- 41547
CACTTGTATCTTGTACTTAACTAAAGAAGCACCAGATAATACATGGTCACAGTTATTACCTTTGG
CCTCATACAACCAAAATCTAGTTTTATTATACGGACAACTTCAATCTACTTTAGTCAATCATATG
GATATAAAAAAAGCGGCTAATTTAGAAATAACATCAGTATTTCAACAACTTTTTGAGCTCATTTT
TTACCCATATAATTCTTTATGTTCTTGTTTGAACAAGCCAATTTATGCTCTACCCACTATACAAG
AAAAGACGCAAGGAGGGTTGCTTAGTCACCAGAAGATAACCAACCACTTAATAACTAACACAAAT
AGTTAACTAACACAAATAGTTAACTATTATAGTTAACTAACACAAATAGTAATGGATGATTTGTT
TTTTTGGCGAATAACGGGATTCGAACCCGTGTTTTCAAATTCACAATCTGACACTTTCACCTATT
AAGTTATACTCGCCCTTTTTTCCAATTCAGACATTAAAATACTCG
Right flanking sequence: Indices 41698 -- 42197
TGAGCTTAGGCAAGCGAAGCGCAGAATCGAAACACAATAACACAATCTTTTTCTTTAACACAATC
TTTTTCTTTAACACAATCCCCATCTTTCGTTTTCCTTTTGCCATTTCATTTTATAGACATCTCCG
GCTTATCCTGGCTCGGCTGAATCTGCGGCATTTTTTCAAATATTTGAAAAATCTATAGTCCTCTG
TCTCAAGGTGTGTAGAGACTCCTTTTTTATTGATTTATACTAATCTATCTTAGATCCGAGATAGT
GCCGAAAAAATGATTCAATTTGATCTAACCATGGTTGCCTCGGCAATGGCAATGACTTCTATACA
ATATGCAGAATACTCCAAAACCTCTATTTAGAACTGAAAGAAGATAATGCTTTTTTATGAGAAAA
TCATAAAGTGCAAAGGTTAAAATTTTGAGCTTTGTTTTACGTAGTTTCGCCATCTATATAATAGA
ATATGGTAGAAAATAATAAGTTGGCGAGGAAGTAAAAATATATAT
Found at i:41758 original size:18 final size:18
Alignment explanation
Indices: 41735--41780 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
41725 CGAAACACAA
41735 TAACACAATCTTTTTCTT
1 TAACACAATCTTTTTCTT
41753 TAACACAATCTTTTTCTT
1 TAACACAATCTTTTTCTT
41771 TAACACAATC
1 TAACACAATC
41781 CCCATCTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.43
Consensus pattern (18 bp):
TAACACAATCTTTTTCTT
Left flanking sequence: Indices 41235 -- 41734
CTCATTTTTTACCCATATAATTCTTTATGTTCTTGTTTGAACAAGCCAATTTATGCTCTACCCAC
TATACAAGAAAAGACGCAAGGAGGGTTGCTTAGTCACCAGAAGATAACCAACCACTTAATAACTA
ACACAAATAGTTAACTAACACAAATAGTTAACTATTATAGTTAACTAACACAAATAGTAATGGAT
GATTTGTTTTTTTGGCGAATAACGGGATTCGAACCCGTGTTTTCAAATTCACAATCTGACACTTT
CACCTATTAAGTTATACTCGCCCTTTTTTCCAATTCAGACATTAAAATACTCGCTATCGGATTCG
AACCGATAACCCATAGGAACAGATTTTGAGACTGCCGTGTTTACCATTTTCACCAAGCGAGTATG
CTCACTATCGGACTTGAACCGATAACCCATAGGAACAGATTTTAAGTCTGTCGTGTTTACCATTT
TCACCAAGTGAGCTTAGGCAAGCGAAGCGCAGAATCGAAACACAA
Right flanking sequence: Indices 41781 -- 42280
CCCATCTTTCGTTTTCCTTTTGCCATTTCATTTTATAGACATCTCCGGCTTATCCTGGCTCGGCT
GAATCTGCGGCATTTTTTCAAATATTTGAAAAATCTATAGTCCTCTGTCTCAAGGTGTGTAGAGA
CTCCTTTTTTATTGATTTATACTAATCTATCTTAGATCCGAGATAGTGCCGAAAAAATGATTCAA
TTTGATCTAACCATGGTTGCCTCGGCAATGGCAATGACTTCTATACAATATGCAGAATACTCCAA
AACCTCTATTTAGAACTGAAAGAAGATAATGCTTTTTTATGAGAAAATCATAAAGTGCAAAGGTT
AAAATTTTGAGCTTTGTTTTACGTAGTTTCGCCATCTATATAATAGAATATGGTAGAAAATAATA
AGTTGGCGAGGAAGTAAAAATATATATATATATCTATATATATATATATTTTTTTTTTTATTCTG
TGGTCTTGCAATTGTGTTTAAAGCTAAGGGCCCAGCCCCCTATTT
Found at i:42197 original size:2 final size:2
Alignment explanation
Indices: 42190--42219 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
42180 GGAAGTAAAA
*
42190 AT AT AT AT AT AT AT CT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
42220 TTTTTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Left flanking sequence: Indices 41690 -- 42189
TCACCAAGTGAGCTTAGGCAAGCGAAGCGCAGAATCGAAACACAATAACACAATCTTTTTCTTTA
ACACAATCTTTTTCTTTAACACAATCCCCATCTTTCGTTTTCCTTTTGCCATTTCATTTTATAGA
CATCTCCGGCTTATCCTGGCTCGGCTGAATCTGCGGCATTTTTTCAAATATTTGAAAAATCTATA
GTCCTCTGTCTCAAGGTGTGTAGAGACTCCTTTTTTATTGATTTATACTAATCTATCTTAGATCC
GAGATAGTGCCGAAAAAATGATTCAATTTGATCTAACCATGGTTGCCTCGGCAATGGCAATGACT
TCTATACAATATGCAGAATACTCCAAAACCTCTATTTAGAACTGAAAGAAGATAATGCTTTTTTA
TGAGAAAATCATAAAGTGCAAAGGTTAAAATTTTGAGCTTTGTTTTACGTAGTTTCGCCATCTAT
ATAATAGAATATGGTAGAAAATAATAAGTTGGCGAGGAAGTAAAA
Right flanking sequence: Indices 42220 -- 42719
TTTTTTTTTTATTCTGTGGTCTTGCAATTGTGTTTAAAGCTAAGGGCCCAGCCCCCTATTTCCTA
TCGTTTCCGTTAATCAAATAAAGGCTTCGTTTAGCCAGGGGTTATTCTTCTCCCCTGCTGAATTG
CTTCGCGAACGAAGTAGGCTAAAAAAATAAAGATTTTTTTTGTCCGCCTTATTCTCTTCTATCAT
TCAAATGGCCCTATGAGTTTTTGCCAAGCAAAATATTGATATTGCATAAGCCATCGGCTTCCACA
GAGACCAATAAAGTGATAACAGCAGCGTAGCCAAGCTTGTTCCGCCCGCTGTGCGCAAAAAAAGA
GTTTTTTCCGGCACTTAGTAAAACAAAATTTTGACACTCCTTGCGTTGCGGATGGTAAGTGGATC
ACTAATAAAATGGAGTGATCCAAGATGACCTCTCTTTCAATTTCAATTATGTCATTATATAGTAA
TGGCATGCGGCGAACTCTATTGGATGCGCCAAAAACTTGATTTGT
Found at i:49583 original size:22 final size:22
Alignment explanation
Indices: 49552--49595 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
49542 TCTCCTCGAC
49552 CGTGACTGAGACCGTCCAGTCA
1 CGTGACTGAGACCGTCCAGTCA
* *
49574 CGTGATTGAGGCCGTCCAGTCA
1 CGTGACTGAGACCGTCCAGTCA
49596 TAATAGCAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.30, G:0.30, T:0.20
Consensus pattern (22 bp):
CGTGACTGAGACCGTCCAGTCA
Left flanking sequence: Indices 49052 -- 49551
TAATGTTGATCGGCTTAACCATATTTATTACCATAATAGGTCCGTGGGATTTTATTTCTTTCTGG
GTAGATAATCGATTGTATTTTATTTACATAGTGAGTTTTCTATTTATTCATTTTGAAAACGACAT
TAGCACGAACTAAAGGGGCATACTTCCTTATATAATACCATGAAACTTTGAGGGACGCAATGATA
AGCCGGTGCTACGCCCTTTTTTTGGCCCCGCCGAGAGGGAGGGCTGAGGCCCGACGAAGCCTAAC
AAGCAAAAAAAATAGATTTTTTGGAGCCTAAGCTATGCTCTGCGGTCTAGCTATGATAAACCGTA
GAAAGAAAATGGATCCTCGAATAAAGCACGTTATTGCTTTGGGTCTATGGGGAATCTGAAGAAGA
AGAAGAAGAAAGTAAAGGTTGGAATGATAGAATAATGAATCGAAAGAGAGAAAATGAAAAAAACC
ATAAAACGAAAAAAAAAAATTTCGGCTTTTTTTATTCTCCTCGAC
Right flanking sequence: Indices 49596 -- 50095
TAATAGCAAGCCCTAGAGCATTGAACAAAGCGGTGAAAGGCGAAGCATGCAATTACATAGTATGC
GCGTATAAAAGCTCATCAAGTTATGCAATTATTGCGGGCTTTATGTATATAAGTGCAGGGGGTTA
TGATGATATACCCATAAGGCCTCTATGGCTGGAAAGCCAGGAGGAAATATGGACCCGCGGCCTGC
GAAGAAAGCTGCGTCCCCGGGATCTTCTGGAAAAAGAGTAAACATTTATGTTACAATTTTTAGCT
CCATTTTATTCCAATCTCAGTGGTCTCATTCTGTGTCCTTTATTAGGAAGCATCATTCTTTTCGT
TATCCCCGATCCCAGAATACGACTGATACGAAGTATTGGTTTGTGCACCTCTTTGATTACTTTCT
TATATTCCCTTCTTTTCTGGATACAATTTGATAATTCTACAGCCAAATTTCAATTCGTGGAAACC
ATTCGATGGCTTCCTTATTCAAACATCAATTTTTATATAGGTATA
Found at i:72198 original size:24 final size:24
Alignment explanation
Indices: 72170--72215 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
72160 GCGGCATGGC
72170 TGGCATGTGGCCGCGAATGCGGCA
1 TGGCATGTGGCCGCGAATGCGGCA
72194 TGGCATGTGGCCGCGAATGCGG
1 TGGCATGTGGCCGCGAATGCGG
72216 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 71670 -- 72169
TGGGGCATATCCTGGTGCCCAATCTCCAGTCCGCGTTAATGGAGTCAATCGCCCAGAGGTAGCGT
TGCCGCAATGCGCGTGGAAAAGCATCTGGGAAACCAAGTCATGACCCATAAAAGGACGACTTGGA
AGATACTGTTGGGATTGATGAGGCTGACGAATCCGAATGACGTAGCTGCTGAACGACAGCATTCA
CCAAGCCAGCGGGGAACGACTTGGTCCTGGAATCGGTTCTTTTGGTAGGTATAACGGGGGCCGGA
GACGGAAAACAAGGGCGAAGCAGGGGCATTCTCAGTAAGGGAATAAGACTATGCGGACATCTTAC
CTCGACGAACAGGTAGAAAAAGTCGAAGACGCAATCACGGGATCGACCTACTCTCTAGCGAGAGG
GTCGGCGGAGCCGCTATAGTAAGTCAATAGGGAAATCGACCGAGCCAGGTACTGAAGGGCGGCAG
TCATGATCCGAGGGTAGAGGGCCACTTCAGTGGCAGCGGCATGGC
Right flanking sequence: Indices 72216 -- 72715
GGCAGGCGGCGACGCTTCAACTCTTCTGAGAAGACGGGTTGGTCCCAGCAGACATAAGAATGCTG
CTACGATCTCATTCAAGAAGTACCTCGTAAAGCGCGTCAATCTAGATCTAGATTGTTGTTGATGT
GCTTGAAGAAATCAGTGGCGGAGAGCTTTATGACGGGAAACTGTCACGTAAGGTTCGGAGGGCGG
GGAAATCTCCGACCCCTACTTTTGATTATGGTATGGTATTGTCAGATTTAAATGTAGGTATACTT
TATCTATTTGCTATATCTTCTCTAGGCGTGTATGGTATTATTACAGCAGGCTGGTCCAGTAATTC
TAAATATGCTTTTCCAGGAGCATTACGATCTGCAGCTCAAATGGTTTCTTATGAAGTTTCTATCG
GTCTTATTATCATTACCGTACTGATTTGTGTAGGTTCTCGTAACTTTAGTGAGATTGTAATCGCG
CAAAAGCAGATATGGTTTGCTGCGCCCTTGTTTCCTGTATTCATT
Found at i:87037 original size:14 final size:14
Alignment explanation
Indices: 87018--87047 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
87008 ATAAAGAGAG
87018 ATATATCTCTCTTT
1 ATATATCTCTCTTT
87032 ATATATCTCTCTTT
1 ATATATCTCTCTTT
87046 AT
1 AT
87048 GAACTGGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (14 bp):
ATATATCTCTCTTT
Left flanking sequence: Indices 86518 -- 87017
AGCAGAAAACGCATAGCGTTTTCTTAGTTTATGGTACAATCTGGACTATAAGATGGTCATGAGAA
AAAAAATATATATATTTTTTTTTACTGTGGACATTTAAAAGGTGCCCTGGTTCCATACGGCTCCA
CTAGCATAGCGAGTAGAGGCCGAAGCGCTTCGGCCTTATTGGCCATTACTGTGTAATCGGCTTGA
CGCATGCGAGGCCACAGGTCAACTAATCGCGAAAAAGTGCCTTTCGGTGCAAAGCAGAGAGCCGC
GCAGCCATTAGACTCGTGGCTTCGCTTGAACGATACTTCCGGGTTTCTACTAACGTATATAGCCA
GTAGAATGGAAAGATTCCGATGAATCATCTACGATGATTCATTATGTTTGGGAAAATAGCTTAGT
TGGTTAGAGTGCTGGTCTGTCACGCCAGAAGTCGCGGGTTCAAATCCCGTTTTTCCCGGTAATTT
TTTGATTTAAAAATGAATTATTATAAAATCAGTTCATAAAGAGAG
Right flanking sequence: Indices 87048 -- 87547
GAACTGGTAACTAAATCAGTTAAAATCTTTTTTTTTTATTGAAATATAACCAAAAAAGCATGCGA
TATAATATGAAAAGCATGCGATATAATAGGATTCAATTTTACAGGGCGTAGCCCTTATCCTACCC
GCGTCAAAAGTAATCTCGAGGTGTGAAACTTTAGGGATAATGTAATAATGGTTAAGATTACATAC
TGAGCTGATGCTAGAGTAAAGAGATTGGAAAAAAAAATTATGCTATGCGGATGAATAGTGCAAGG
AACTAATACAAAGACCTTGTCAAAAAGACTCTAAGATCTTAATCGGTGTTAGCGGAACCGAAAAA
TTTTCTATATAGAATTTTATAGAGAGAATATCCTAGGTTAAGGTAAGGAGTAGATTGGCGCCCCG
AGTTGTTCGATTATAGCGGGAAGCCGGCGGTGAAAAGGGCGAAGCTCTCTTATGATGAGATAGAA
AGATTTACTGCGCCTTATTTGCTCCGCCCTTAATGGCGCCATTTA
Found at i:87117 original size:21 final size:21
Alignment explanation
Indices: 87091--87138 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
87081 TTTTATTGAA
87091 ATATAACCA-AAAAAGCATGCG
1 ATATAA-CATAAAAAGCATGCG
* *
87112 ATATAATATGAAAAGCATGCG
1 ATATAACATAAAAAGCATGCG
87133 ATATAA
1 ATATAA
87139 TAGGATTCAA
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 86591 -- 87090
TATATATTTTTTTTTACTGTGGACATTTAAAAGGTGCCCTGGTTCCATACGGCTCCACTAGCATA
GCGAGTAGAGGCCGAAGCGCTTCGGCCTTATTGGCCATTACTGTGTAATCGGCTTGACGCATGCG
AGGCCACAGGTCAACTAATCGCGAAAAAGTGCCTTTCGGTGCAAAGCAGAGAGCCGCGCAGCCAT
TAGACTCGTGGCTTCGCTTGAACGATACTTCCGGGTTTCTACTAACGTATATAGCCAGTAGAATG
GAAAGATTCCGATGAATCATCTACGATGATTCATTATGTTTGGGAAAATAGCTTAGTTGGTTAGA
GTGCTGGTCTGTCACGCCAGAAGTCGCGGGTTCAAATCCCGTTTTTCCCGGTAATTTTTTGATTT
AAAAATGAATTATTATAAAATCAGTTCATAAAGAGAGATATATCTCTCTTTATATATCTCTCTTT
ATGAACTGGTAACTAAATCAGTTAAAATCTTTTTTTTTTATTGAA
Right flanking sequence: Indices 87139 -- 87638
TAGGATTCAATTTTACAGGGCGTAGCCCTTATCCTACCCGCGTCAAAAGTAATCTCGAGGTGTGA
AACTTTAGGGATAATGTAATAATGGTTAAGATTACATACTGAGCTGATGCTAGAGTAAAGAGATT
GGAAAAAAAAATTATGCTATGCGGATGAATAGTGCAAGGAACTAATACAAAGACCTTGTCAAAAA
GACTCTAAGATCTTAATCGGTGTTAGCGGAACCGAAAAATTTTCTATATAGAATTTTATAGAGAG
AATATCCTAGGTTAAGGTAAGGAGTAGATTGGCGCCCCGAGTTGTTCGATTATAGCGGGAAGCCG
GCGGTGAAAAGGGCGAAGCTCTCTTATGATGAGATAGAAAGATTTACTGCGCCTTATTTGCTCCG
CCCTTAATGGCGCCATTTAATATAGCAGTTCTCATTGAAGGAAGGACATCTGATAATGAGAATGA
GATACCCTGGCGAAGCAAGTAAGCATAAGCTTGGAAGAGTGTCGA
Found at i:87139 original size:21 final size:21
Alignment explanation
Indices: 87101--87140 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
87091 ATATAACCAA
87101 AAAAGCATGCGATATAATATG
1 AAAAGCATGCGATATAATATG
87122 AAAAGCATGCGATATAATA
1 AAAAGCATGCGATATAATA
87141 GGATTCAATT
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:0.50, C:0.10, G:0.17, T:0.23
Consensus pattern (21 bp):
AAAAGCATGCGATATAATATG
Left flanking sequence: Indices 86601 -- 87100
TTTTTACTGTGGACATTTAAAAGGTGCCCTGGTTCCATACGGCTCCACTAGCATAGCGAGTAGAG
GCCGAAGCGCTTCGGCCTTATTGGCCATTACTGTGTAATCGGCTTGACGCATGCGAGGCCACAGG
TCAACTAATCGCGAAAAAGTGCCTTTCGGTGCAAAGCAGAGAGCCGCGCAGCCATTAGACTCGTG
GCTTCGCTTGAACGATACTTCCGGGTTTCTACTAACGTATATAGCCAGTAGAATGGAAAGATTCC
GATGAATCATCTACGATGATTCATTATGTTTGGGAAAATAGCTTAGTTGGTTAGAGTGCTGGTCT
GTCACGCCAGAAGTCGCGGGTTCAAATCCCGTTTTTCCCGGTAATTTTTTGATTTAAAAATGAAT
TATTATAAAATCAGTTCATAAAGAGAGATATATCTCTCTTTATATATCTCTCTTTATGAACTGGT
AACTAAATCAGTTAAAATCTTTTTTTTTTATTGAAATATAACCAA
Right flanking sequence: Indices 87141 -- 87640
GGATTCAATTTTACAGGGCGTAGCCCTTATCCTACCCGCGTCAAAAGTAATCTCGAGGTGTGAAA
CTTTAGGGATAATGTAATAATGGTTAAGATTACATACTGAGCTGATGCTAGAGTAAAGAGATTGG
AAAAAAAAATTATGCTATGCGGATGAATAGTGCAAGGAACTAATACAAAGACCTTGTCAAAAAGA
CTCTAAGATCTTAATCGGTGTTAGCGGAACCGAAAAATTTTCTATATAGAATTTTATAGAGAGAA
TATCCTAGGTTAAGGTAAGGAGTAGATTGGCGCCCCGAGTTGTTCGATTATAGCGGGAAGCCGGC
GGTGAAAAGGGCGAAGCTCTCTTATGATGAGATAGAAAGATTTACTGCGCCTTATTTGCTCCGCC
CTTAATGGCGCCATTTAATATAGCAGTTCTCATTGAAGGAAGGACATCTGATAATGAGAATGAGA
TACCCTGGCGAAGCAAGTAAGCATAAGCTTGGAAGAGTGTCGAAT
Done.