Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_030100
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: 316363
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Found at i:7854 original size:28 final size:26
Alignment explanation
Indices: 7795--7846 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
7785 GGCGGACCCG
*
7795 GCAACCTACTTACAGACTCCGGCTAA
1 GCAACCTACTTACAGACTCCGGCCAA
*
7821 GCAACCTACTTCCCAAGACTCCGGCC
1 GCAACCTACTT-AC-AGACTCCGGCC
7847 CTGCAACCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 11 0.50
27 1 0.05
28 10 0.45
ACGTcount: A:0.27, C:0.40, G:0.15, T:0.17
Consensus pattern (26 bp):
GCAACCTACTTACAGACTCCGGCCAA
Left flanking sequence: Indices 7295 -- 7794
ACTCTCTGTCCCATATGTTCGCATCACCGGAGCAACACAGAAACTCTTCTCATTCATTCTGTCCA
ATCTTTAAGCTACTAACGGAGGGGAGAGTCTCTTTCCACAGGTAGGTATTGTTCAATTGACAGAA
ATGGGGCTTGCATCCCTGGCCTCCGGGTAGGGAAGTTCACTCTCACTCTGGGGAAGAAGAACGCA
CCTAAGACCTAGGGGAGTATCCTTATCTAACCTAAGCCTAAGGAGCAGCTAAATCTATTATCAAT
CGCTCCCAATTAATATACTGGCGCACCTCACAACAAGCAAGAACTACGCCAGGGACAGGCAACCC
AGCTACAAGGGAACGATCAACAACCATTTTAGGAAGCTAGACGGGATTCACTCTTAACAAGGGCT
CCAGCAAGCTACAACTCCGCAGATCAAGCAGGAATCATAAGTCGACGTCAGGAAGAAGATCTTGA
TTACTTACAGGGCGAAGGAACTCATAGCTAAGAGGGGCGGACCCG
Right flanking sequence: Indices 7847 -- 8346
CTGCAACCGACTCCCCGACGCCGGTAACCCCTGAGATGTCCCAATCAGTAAATAAGGGAAGAGGA
AGAGATGTATTTTACCTCATACGGCCTGCCTTAGACAACAGAAAGCCTGTATACCTAACTCCGGC
TAAGCAACCGGACCGGCCAGGTCACTCACCTAAAAACAGAGTTCGTACCCAACCACCTATTCATA
TACCAGGTCCCCCGTTGGTAGTCTCCCCACTTCGCTCGCCCCAGGTTCCCTAGACTGATGCTGTA
TCGGAGAACCATAGGTGCGTAGCGGAGATGCTCTTTACCTAAGTGTTTGTTATCAATAGACAGAA
GGACGGAGCAAGTAAGCTACTTCCCAAGCAGGTAACTCACTCCCCCATTATTCCTGTCTCATCGG
ACTCATATGTGCATCTCTTCCCTATAATCTTCCAGAGCCTCCTACCTAGATATTAAGGGCTGCGG
CTTTGTTCGGTATGAATATGAAGCTCTCTAGATCGCGCTTCACCT
Found at i:10370 original size:21 final size:21
Alignment explanation
Indices: 10338--10377 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10328 CAAACTTGCC
*
10338 TTAGAGGTAGTTTTGAGTGGA
1 TTAGAGGTAGTTATGAGTGGA
10359 TTAGAAGG-AGTTATGAGTG
1 TTAG-AGGTAGTTATGAGTG
10378 AGTACAGGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.28, C:0.00, G:0.38, T:0.35
Consensus pattern (21 bp):
TTAGAGGTAGTTATGAGTGGA
Left flanking sequence: Indices 9838 -- 10337
AAGACGATGCCCTAGTTCGGTGCGTTAGGATTGTAAACCCGAAAGCCAACAAGTAAAGGTAAGGA
ATCTTCTCAATCTCTCCCCCCTCCCTAGTGAACTCGCGCCCAGTATAAACATTGGCCTGCTGGCT
TGCAACATGGCTTTCCTTATTTTTTCGCGCCCAGTATAAACATTGGCCTATTGATTGTTTTTTCT
TCCTGGTCAATCAAGCTTGAAAGAGTGACTCTTTCGTTTCGGGGACAGAAGTAGAGGGAAGGGCT
AGACCTACACTTGTGACTGTTTTCAGTAAAGAGTAAATAGCAGCTTCTAGGGCATCAAAATATTT
GAAATTGTTGACTTTCCTAGGAATAGAAAAAAGAAATGTGGGCCGTACCAGTACAATTAGGGGAC
TAAGACCCACTCTTCTTTTTCATCTTTCTAAAAGCAGAAGCATCTTTCTCTCCTTTAATTACTTC
GCACCTTTACCCAATAGTCAATCTTAATTGGATTACAAACTTGCC
Right flanking sequence: Indices 10378 -- 10877
AGTACAGGGTCGAGGTAATCTTGAATGAGTAGCTACTCTTGCTACTTAAGGCTGGGCTGCAAGGA
AATATCAACTTATTCAAGCTGAATGGTATTCTTTATTCGCCATATTGTTGGTCAAAGCCCATATG
CTATCAGATAAAGAAAGTCTTTCGTTTAGTGCGGGAAAGTAGAATGCATTTTTCGATATCGCTAT
CGAAAAAGGAGGGATTAGCTTGATTCATGTGGGCCGATGCCCATAGCCCAGGAACAATGAAAAGA
AATCGATGAATGTGTCCGGACCAAGCAACGACGCTAGCAGATGAGATTGGACCTATAGAATAGGT
GCGTAGCGAAAGAAGCAAGACACTTGGACAGGGTCTAAAAAGCCCATTTTGAGTATTTGACTCGT
ACAACGAAACGACCTTTCACTCGCAAGACAGGGGTAAGAAAAAGGGCTCAGAATCTGACCCTGAA
ACTAACGAGTGGGCAGTGGTACCCACGTTCTTCCGTGCTCGTAGG
Found at i:17014 original size:34 final size:34
Alignment explanation
Indices: 16971--17075 Score: 126
Period size: 34 Copynumber: 3.0 Consensus size: 34
16961 GAGGCGCGGA
16971 GACGCAGTCAGATGCCCTGGAGCGAGAAGTCGAG
1 GACGCAGTCAGATGCCCTGGAGCGAGAAGTCGAG
**
17005 GACGCAGTCAGATGCAGCACCTGG-GCGAGCTTGT-GA-
1 GACGCAGTCAGAT---GC-CCTGGAGCGAG-AAGTCGAG
17041 GACGCAGTCAGATGCCCTGGAGCGAGAAGTCGAG
1 GACGCAGTCAGATGCCCTGGAGCGAGAAGTCGAG
17075 G
1 G
17076 CTTGTCCAGT
Statistics
Matches: 59, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
32 7 0.12
33 9 0.15
34 14 0.24
36 13 0.22
37 9 0.15
38 7 0.12
ACGTcount: A:0.25, C:0.24, G:0.38, T:0.13
Consensus pattern (34 bp):
GACGCAGTCAGATGCCCTGGAGCGAGAAGTCGAG
Left flanking sequence: Indices 16471 -- 16970
TATTAAACACATATGAAACAATTAGCTGGTAGAGAATCAATATACCAAAGAAACCAATATGTTAA
TTAATAAGATAGTAGAGAATCTAGGTTGCTAGTAAGGTGCTGAGAAAATCCAGTCTATAAGAATT
TCGAATAGCTGGTTCTGGTAGGGAATCCAGCAAATAAGGTCTAGTAAGAAATAGTTGTTATTCCC
CTGTGCCGGGTATCGAATTTCTTCTCCAGAGTCCGTCCTGGAGTTAGTTATGTGCGGTATCGAAT
CATCATACCAATCAATAGAGGGTAGAGAATCATCATACTCAGTTGGGGCTTAAATACCCTAATTA
GTCTCATATTAACCAATTAGATGGTATCGAATAGAATATATACCTGGGGTCTAGCCAGTTGACAC
CAATGGGGACACAGTGCAATTTAATGCATTTTATTATGAATACCTTCCAATTCGGATAGGGATAA
CCTAGAGGTTCCCGAGGGGAGCACAGCGAGAAGTCGAGGCGCGGA
Right flanking sequence: Indices 17076 -- 17575
CTTGTCCAGTCTGTCTGAGCCGCCCGATTAATATACTGGGACAGTTTTGGTATAAAAAACGTGAT
GGTGCCTGACGTGTCCTAATTATTAGGCCCAGAATAACAACTATGATCCACCCTCTAGCCCTTAT
CTACCAGTTCTAACATGAGCTAATTGGTTAATATGAGCATTTAGGGATGCTGCAATTGGAGCATT
AAGGGATGCTTCTAACATGAGCAATTGGAGTATTTAGGGATGCTTCTCTACCTGCTAATTAGTTA
ATTAGAGCATTAAAGGATGATTCGATACCAGATAATGAAGGCCAGCTCACTAAGCTTATTAAGCA
AAGAGGGCGCTAGGAGAGATATGAGAGATCTTTTCTTTTTCCTCTGAAGGGCAGAGGAGTTACAT
TTGGGGATTGATCGATAGGATGCATCAAAAGATGCACTTAGTTGAGTTGACTTGACAAAGAATCA
CTCTCTTGACTTAGAAGATATTCTCTGTTTCCCAACTTTGTCATT
Found at i:29973 original size:19 final size:20
Alignment explanation
Indices: 29906--29981 Score: 91
Period size: 21 Copynumber: 3.8 Consensus size: 20
29896 GTCCAGTACA
*
29906 CCCAGTATATTAATTCCGGA
1 CCCAGTATATTAATTCCGGG
**
29926 CGCCAGTATATTAATTGTGAGG
1 C-CCAGTATATTAATTCCG-GG
*
29948 CCAAGTATATTAA-TCCGGG
1 CCCAGTATATTAATTCCGGG
29967 CCCAGTATATTAATT
1 CCCAGTATATTAATT
29982 GGGTCCAGTG
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 14 0.30
20 4 0.09
21 26 0.57
22 2 0.04
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (20 bp):
CCCAGTATATTAATTCCGGG
Left flanking sequence: Indices 29406 -- 29905
CGCACCACCAGGAGCTTCTATTACCCGCGGATATTCCAACAACGGCTTCCCAATGTTTATACTGA
GCAAGCCCTTCTGATTCACTTGTTCGAGGAGGAGGCCCAAAGCAGCTCCTTTAAAGACATCTATG
CCACCCGCTTCAAGTAAAGTAAGAAGTCCCCCGGTTATCCAGTCCCCTAAGCCTTTATTCCGCGA
GTCTGTCCCTTAGTGAAACCAGAACAGGAACTTCATTCATATTGTTTTACCGAAGTCTCCATCCG
AGGCTAGGCACCTAATCTCCCAAAAAGAAGACTGAGGGTCGTATCAACCCGAATCGTTTCTTAGC
TTTGACTTAATAGATGCAACAAATGCTCTCACTTATCTTGCAGTTGAGAATCGGATGCTAATCTT
TGACACCGAATCCTCTCAGGAAGAAAGGCCAGTATATTAATTGGGGCGAGGCGACCGATAGGGAG
GCGACTAACAGGAGGACCCAGTATCTTAATTAGAGGTCCAGTACA
Right flanking sequence: Indices 29982 -- 30481
GGGTCCAGTGTCACCCAGTATACTTATAGGCAACTAACATCCAGTATATTAATTGGGGACGGGAG
ACGACGACCCCGATCAATTGGGGGAGGGGACGTAGTCTTTGTAAGACCGAAGGGGCCAGTGATTT
AGAACAGGCTCAATTCTTTGTTTCAGGCCTGATAGGATGAAATAAGTATAATAGCTATTGGTGCG
GGTGGTGTTACGCGAAGTCTCTCTCATGTCCAGTTGACCAGTTTTCATCAAAAATAGGGCTTTCT
TCGAGCCAGGAAGAGCAAGAGTACTGGTGGGGAAATACGAGAATGCTTCCTAATCATAGCGCATA
AATCGAACTGGACTGCCGGGTTGCGAAGCTTCGTTAGCTGCTTAGGAATCCTCCCGAATGTTTAT
ACTGGCGCCTGATGAAAGAGTAGTTGATCAACCTGATTTGGATTAGTCTCAGAGTAACCCCTTGC
CAAAGTGATAAGAGAGAGAGTGAATGGTACTACATAAGATAAGGA
Found at i:36393 original size:30 final size:30
Alignment explanation
Indices: 36357--36413 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
36347 CTCAATCAAC
36357 GAATAGTTTGGACTTGGTATACTAGGCTAA
1 GAATAGTTTGGACTTGGTATACTAGGCTAA
36387 GAATAGTTTGGACTTGGTATACTAGGC
1 GAATAGTTTGGACTTGGTATACTAGGC
36414 ACCTCCATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.11, G:0.28, T:0.33
Consensus pattern (30 bp):
GAATAGTTTGGACTTGGTATACTAGGCTAA
Left flanking sequence: Indices 35857 -- 36356
AGTAATCCAATGGCGCACACTACTCATCCAATCCAATCGTAGCCCACAGGATTTGGAAAGTGCGA
TTGAGACTGATGCCTATGAATAGATATCTGAATAGGGACTTGCTCAATAGCTTCTTTCTACTTGA
AAATGTTGTCGATGAGATTCTGATAATGGGCATATCTATTAGCTCCATAGACTAGGATTCTTTCG
GGTCCAATAAAACAGAGAGATGCTCCTTCAACTTGAAGTGAAGGTATAGAGAGCAGAGCGACTAG
TACAGACAAAAGAAAAGGACTAGTCCCTCGAAATAAAGACATATTATGGCATGACTTGTCCACTT
TGATCAAAGGAGACTAGGTTGATAGCCTACTATCTGGTATAGCCAACTAGGCAGGATTGCGAAAA
GAAAATCGCTACGCACCTAGTACTGAACTCTTTGAATCTCTTACTAAGCCTGTCGCTACGCACCT
TCTCCCGTCGCCGACTTGCTTGTGTTAAGCATAAGCTCAATCAAC
Right flanking sequence: Indices 36414 -- 36913
ACCTCCATAGATAGACTATAGAGAGCTACGCACCTGACTTGTTGAATAATCATAAGGAGCACCAT
AGAAATCTGCATGAACTCGTCTTTATCCGAAATAAGGCCATCTCTGCCCCGAAGTTAACAGTGAG
TCTGTACATTCGTCATCTCTCTCTTGCTAGAGAAAGTATTGGATGCCTAAGAGTGATGTCTTCTT
TTGTGACTTCCACCTTTCGTGTGAAATGGCTAGCCTGGTTGGTGCTGACCTAATGCAAATTATGT
TCTTTCAAGGGCCAACTGGGAATGCAGCTAACGTAGCTACCTTACGTACCTTTATTTAGTCTTAC
AAGCTTAACTCACTCATTCTCGTCGCGACGGTCAGAAAGGTAATGCAGCTAACCTATGGCGAAGC
AAAAGCGATGGATAAGCTCCGGAAGATCAAGAGCGGGGATGGAGGTAGCGTAGGAGACCGAGGAG
ACCTAATATTAATAGTAGGCTGTTGCTGTTCTATGGAAAGAGAAT
Found at i:48001 original size:29 final size:31
Alignment explanation
Indices: 47967--48044 Score: 115
Period size: 31 Copynumber: 2.6 Consensus size: 31
47957 TGGCGTCCGG
* *
47967 AATTAATATACTGGGT-GTA-CTGGACCTCT
1 AATTAAGATACTGGGTCGAAGCTGGACCTCT
*
47996 AATTAAGATACTGGGTCGAAGTTGGACCTCT
1 AATTAAGATACTGGGTCGAAGCTGGACCTCT
48027 AATTAAGATACTGGGTCG
1 AATTAAGATACTGGGTCG
48045 CCTTGTTATC
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
29 15 0.34
30 2 0.05
31 27 0.61
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.31
Consensus pattern (31 bp):
AATTAAGATACTGGGTCGAAGCTGGACCTCT
Left flanking sequence: Indices 47467 -- 47966
CATGCAGGGAAACTTGCACGTGTGGTTCTGGCCGGGGACCCCGGTATACTGTACTAATATGTGTA
GGTCCCTGTAATTCGAGTGAGATTGTCATAGCGCAAAAGCAGATATGGTCCGGTATTCCCTTGTT
CCCCGTATTGGTTATGTTCCTTATTCCTCGTCTAGCAGAAACTAATCGAGCTCCGTCTGATCTCC
CAGAAGCGGAAGCTGAATCAGTTGCAGGCTATAATGTAGAATATGCGCGGGATGCGATCCTTAAT
AGTTCACTGTTGGCGGAAGCCAATGTCCCGGGGTCCCGGGGACTCATTCTGACTTAAACAAGGGG
TGGGTCTTTACCAACTTCAAAATCCGACAGGGAAGAAAAAAGAGGGTCAGGGCACTCTTCATTAT
TTGGCTTCGCACCCCCCCAGAAGTATACTGGATCGGTCGTCCCTCCCAAAAATATACTGGACTTG
CCCAATTGATCGGGGTCGCCTCACAATTAATATACTGGCGTCCGG
Right flanking sequence: Indices 48045 -- 48544
CCTTGTTATCAGGGAGTTGGGTAAAGCAAACTCCCTCCTTGGACGAGCACGGGGCTTAGTCAAGT
AGAACCGGGTTGCGCTGCTTGATGCTCCGATCGAAAACAAATCAGTGGGGCCATGCCGGTACGAC
AGAATATGCGTTAGAAAGGTAAATCCTCCGTTTATACTGGCGCCTTTCTTTAGTAAAAAAACAAA
AAACCGGGCCGAACTTCTAAAAAGCTGCCTGCCCGCTTCCATAGAACAATATCGTGGCAACGTAG
ACCTAAGTGGGTTTCTTGGATCCTGGGGAACCATCACAAGTACGGCCGGCCTATAGAACGAGAAT
GCCGTGTCGTCCAGCGGAGCTTAGAAGAAGGTGACTCGGAGCCTAGAAGAAGGTGACTCGCGCAG
ACAGCTGACTCCTTTTCATTTCAATAGAAAGGAATAGCCAAACCAACCCAGCTGGCTGGTCAATC
TCAGTGATCTTATCGGCCGGCAAACCGGAGACGGACGACCACGGT
Found at i:48416 original size:22 final size:22
Alignment explanation
Indices: 48384--48429 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
48374 TGTCGTCCAG
*
48384 CGGAGCTTAGAAGAAGGTGACT
1 CGGAGCCTAGAAGAAGGTGACT
48406 CGGAGCCTAGAAGAAGGTGACT
1 CGGAGCCTAGAAGAAGGTGACT
48428 CG
1 CG
48430 CGCAGACAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.30, C:0.17, G:0.37, T:0.15
Consensus pattern (22 bp):
CGGAGCCTAGAAGAAGGTGACT
Left flanking sequence: Indices 47884 -- 48383
CTGGATCGGTCGTCCCTCCCAAAAATATACTGGACTTGCCCAATTGATCGGGGTCGCCTCACAAT
TAATATACTGGCGTCCGGAATTAATATACTGGGTGTACTGGACCTCTAATTAAGATACTGGGTCG
AAGTTGGACCTCTAATTAAGATACTGGGTCGCCTTGTTATCAGGGAGTTGGGTAAAGCAAACTCC
CTCCTTGGACGAGCACGGGGCTTAGTCAAGTAGAACCGGGTTGCGCTGCTTGATGCTCCGATCGA
AAACAAATCAGTGGGGCCATGCCGGTACGACAGAATATGCGTTAGAAAGGTAAATCCTCCGTTTA
TACTGGCGCCTTTCTTTAGTAAAAAAACAAAAAACCGGGCCGAACTTCTAAAAAGCTGCCTGCCC
GCTTCCATAGAACAATATCGTGGCAACGTAGACCTAAGTGGGTTTCTTGGATCCTGGGGAACCAT
CACAAGTACGGCCGGCCTATAGAACGAGAATGCCGTGTCGTCCAG
Right flanking sequence: Indices 48430 -- 48929
CGCAGACAGCTGACTCCTTTTCATTTCAATAGAAAGGAATAGCCAAACCAACCCAGCTGGCTGGT
CAATCTCAGTGATCTTATCGGCCGGCAAACCGGAGACGGACGACCACGGTCCCAACCTTACCAGC
ACCGTAGGTTTACTAATCAATGAAGCCCCTCAACCCACTTATATTACAAAGTAAACCAAGCGGTC
ACGACATGTTGTTTCTATTGATTGAGGGGCGCCACGGAATCCATCCATAAACCCCCGGTGACCTT
CGTCACCAAAGCGTCACCTTCAAAAGCCCTCCAGTGGGGCAAGTCGGAGAGTATACTTAAAAGAA
AGCAAGGGCGCAGCCCACTACATAAGCCACGTCTGGCTGAGGCGAGCAGCAAGCGGGGGAGAGTC
CAGTAAAGTACAACAACGTTGGGGTGGGACGCTAGTACTTAAACTAGGGCGCTAATCTTGCGTTT
TTCAGCAGGCTCTTAGTTGTAGCTTCCTTCGGGCGCCTTCCCTAC
Found at i:58819 original size:31 final size:31
Alignment explanation
Indices: 58781--58852 Score: 144
Period size: 31 Copynumber: 2.3 Consensus size: 31
58771 AATACCTGCA
58781 GGGAGAGGGAATTCTATTGTACTCTCCCTCC
1 GGGAGAGGGAATTCTATTGTACTCTCCCTCC
58812 GGGAGAGGGAATTCTATTGTACTCTCCCTCC
1 GGGAGAGGGAATTCTATTGTACTCTCCCTCC
58843 GGGAGAGGGA
1 GGGAGAGGGA
58853 GAACTGGTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.21, C:0.22, G:0.32, T:0.25
Consensus pattern (31 bp):
GGGAGAGGGAATTCTATTGTACTCTCCCTCC
Left flanking sequence: Indices 58281 -- 58780
CCTATTCAAATTGCTTGCTTGACCTATTAAGGTGGCTTTCCTGTTGTTCCAGTCACTGCGGCTCT
TGCTTGAGCCGGAAAGTACAGAAGGCACAGAGGTGAGAAGTTTTTAGATTATAGATACGAAGAAA
AATGGACAGGTTTCAAGTAAGGCGAGTAAGAAAAGGTTAGAGAGAACCGTTGCTTTGACATAACA
AAAGAGAACCTTACAAAAGAATAAAGTAGAAGAAATAGATATACGTGAAATGAGCCCTATTTCTC
CTTTCCAATGGCCACTTCACTTACTTACTACTTACTTACTAAATACCGGCTTGAACAAGGAAAGT
AGCACTAGAAAGAAAAGCAAATAAAGAGAGTACAAGACAGAACAAAATAGGTGTAGAGTTCGGAG
TAGCGAAGAGGCTTTGATGACGAAGGTACGAAGTGGATTTCTCATGGTCCTCCCAATGAATCATT
TTTATGCTATACGAGCATAAACAATAACCATTTAGAATACCTGCA
Right flanking sequence: Indices 58853 -- 59352
GAACTGGTTTGATTCATTTTCCACGTAGGGAAGCATAAAAGGAAGAGTTAAGCCAGCATAGAGCA
AAGCTCAACCAATGGGCTATTTGCTATAGTTCAAAAGCCCTGTTCATAGAAGGTCCGGAGACATG
AGAAGGTGGTTTACTTACTTGCTGCTTTTAAGAGCAAGGCGGTCTAGCCAAAGCTTTCATGCCAC
CTAAAGGGAGAACGAGATGCTAACAACGGGCAAAAGAGCAGATCAGGTTGTTTACTGACTTTTGT
ACTAGCGTACTTGTGTGTTAAAGGAGTACTTTATTTTGGCTGCTAAGTAGAAGCTATAGGCGAAG
GCTTTCGCGCCTTGCTGTTAAGTAAGGTGGAAGCTAGCTACTTGCTTGTTAAAGGTGCTTGCCCG
CGGCTATTCGTAGATCTGGAGTTCTGCCCTATAGCCGATTGTGCTACTTTCAATCCTTAGTATTA
GTAGCGGGTATTAGGTGAGAGGGCGCCTATCTCATAGCTGTTACT
Found at i:85312 original size:24 final size:24
Alignment explanation
Indices: 85267--85312 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
85257 ATGGATGCCT
*
85267 ATTAATATACTGGGTCGGTCCCCA
1 ATTAATATACTGGGTCGCTCCCCA
85291 ATTAATATACT-GGTCGCCTCCC
1 ATTAATATACTGGGTCG-CTCCC
85313 TCAGCTCAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.30
Consensus pattern (24 bp):
ATTAATATACTGGGTCGCTCCCCA
Left flanking sequence: Indices 84767 -- 85266
GAAATATTAATAGATACTACCTTAGACTACGTACCTTCTGAGGAGAGTCATCGTTCCTATCGCCG
TTGGTAGCCGCGCCTAGGATTCCCAATCAGTTCTCTTGTTCCATGACTGGTTTGTTTCACAGAAG
TCATCGAATCGAAGAAGGGTAGCTGCGTGGGTCTAAGAGAGCACGAGTGCCCAGTATATTATTTG
GTGGCAAGACAGGCAGGAAAGTCTTATCCTCTGTCCTAATGGGAGTAGAACCAAAACAAAACCCA
TTGCCTTACCACATGCTATTGGCAGTTTGCTATGCATTCTAGGTTATCCGTCGTAATGCTATTAA
GGACCAAACTCACGTGCTAACAAGAATAATAAGAAACAGGGCAATCCGTCCAATTAATATACTGG
CGCCTCCCCCAACAGAAAAAGATCCCTATAAGACACATCGCCCCCCGGGCGGAGGAAGGAAAAGC
TAACAACAAGAAAACGAACAACATACACGAGTAGAATGGATGCCT
Right flanking sequence: Indices 85313 -- 85812
TCAGCTCAGACTGGTGTCGCCACCTCTCCCAGGACCGGAATGATTATCCCTGCCCGATGGGTCTA
CATTCATCCCTGAATGTCGTCGGGTACTGTTCACTTCCCCGCCATTCTTGTAACCGTCACCTGTA
ATCCGCGCAGGTGTGTCCGCACCCCCTGGAGTAGACGAGAAAGAAAGGATTTCTCAACCCCCCTG
GTTCCAGACCCAGGAGTTCACTTTCCCGTATGAGCATTCGGTACATGTATAAGTCCGTGGAAGAG
TCAAAGGTAGCGAAGCTCTACCACGGATCTCCCCCCTAATCTTAGATGGGTCGTCTGAGGGTTCG
CCGCGGTTCATTGCTGTGCTTACACACTAGGCTACCCTTCTCCGAAAGCTCCGCGGGACCACCTA
TCACTAGTCTTCGGCCGGAGGGGTTTATTGCACAAGCCGGGACGCTGGCTCTCGCAGAGGGAAGC
CCAACGAATGTCAGATGCAAAGCCCCGCACCTCATTAAGATCATA
Found at i:92313 original size:21 final size:21
Alignment explanation
Indices: 92256--92314 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
92246 TGGCTTCCGC
92256 CCGG-ATTAATATACTTGGCCT
1 CCGGAATTAATATAC-TGGCCT
*
92277 CAC--AATTAATATACTGGCGT
1 C-CGGAATTAATATACTGGCCT
92297 CCGGAATTAATATACTGG
1 CCGGAATTAATATACTGG
92315 GTGTACTGGA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
19 1 0.03
20 6 0.18
21 25 0.76
22 1 0.03
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (21 bp):
CCGGAATTAATATACTGGCCT
Left flanking sequence: Indices 91756 -- 92255
TTGCACCGGCAACCGAAGTCGAACATACATACGACGATCTTCATGCGTGAAGGGATGGGAGGAAA
GAAAGGGCGGTAGATGATAATGAGAAAGGGCGCCGCGTCTGGACGGGCGGGCTGAATGGATGAGC
GAAAGGTGCCATGGAGTGGCCCAAGTATTTAGACAACTAAATGCACCTCGAGGTGCAGCCCAGGT
GGGGGACCTTATCGAGCACAGGATAGGCAATTGAGAGATAGAGTTAGCCTATTCGTTATGGGGAA
TCAATGCTCCGGACCGAATAGAGCTTACCTCCGTAAGCTTTCTGCATACATATTAGCTTAGCAGC
GCTCAATAGGCCCTGGTTGGTTTGGCTTCCTCTCTTAGGCCACCGCTCCTTCCTTCGGGCTAAGA
GCCGGCTCCTTCCTCCCGGTTGTCTAAGTTCCCGCAAGGCGACCAGCGGGCGTCGCCGGTCTAAG
AATAGTTTGGATCGGTCCCGCTCACTACGCTCGCCTGGCTTCCGC
Right flanking sequence: Indices 92315 -- 92814
GTGTACTGGACCTCTAATTAAGATACTGGGTCCTCCTGTTAGTCGCCTCCCTATCGGTCGCCTCG
CCCCAATTAATATACTGGCCCCCCCAATTGATCGGGGTCGCCAATGAATATATGGGCCTTCGGGC
GCCTGCTGAGCAAGATGAATTGCGATTTCCTCTTCTGTGGACGCACCTCCGCCTCACTATGACCC
GGGAAGAGAATTTTCGGGCTTGATCGAGTAAAGCCAAAGACGCCACAAGACAAGGCCGCAGGCTG
TTTGGAAGGGGACATGAAACATAGAACCTGGCTGAATCCGGGCTGGGATAGTGGCGCCCATTCCT
CACCAGTTCCGGTTCGATCATGGCCCACTTAGTGATCGGTCTGCTAGTTCACGCAAATCCGAAGA
AGTTATCACGGACGAGCCACATGCAGGGAAACTTGCACGTGTGGTTCTGGCCGCCTTCGGTATCT
AATAACCTTGCTTCTGCTCGCCGCTGGCGCACCTCTCCTAACTAT
Found at i:130611 original size:40 final size:38
Alignment explanation
Indices: 130550--130652 Score: 106
Period size: 37 Copynumber: 2.8 Consensus size: 38
130540 ACCAGACATA
* * * *
130550 TGACTGGACTTATGAGTTGACTTGAC--AAATAACCACT
1 TGACTTGACATATGAGTT-AGTTGACTGAAAGAACCACT
* *
130587 T-AGTTGACATATGAGTTAGTTGACTGAAAGAATCACT
1 TGACTTGACATATGAGTTAGTTGACTGAAAGAACCACT
*
130624 TGACTTGACATATGAGTTAG-GGACTGAAA
1 TGACTTGACATATGAGTTAGTTGACTGAAA
130653 AGAAATCACT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
35 6 0.11
36 13 0.24
37 19 0.35
38 17 0.31
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (38 bp):
TGACTTGACATATGAGTTAGTTGACTGAAAGAACCACT
Left flanking sequence: Indices 130050 -- 130549
GTATATTAATTGGGTCCAGTTTGCTGACTGACTTATCTTACTGATGAGGTAACCCAGTATACTTA
TAGCGTTTGCTTCTTTCCATGCTGATGGCCAGTATACTTATAGCGTTTGCTTCTTTCTTGGCTGA
TGGGGAGGGTTAGAGATTGACTTGACTTCGAAGTTAGGGAGTTGACTCCGCATATGGGCCAGGTC
TTTCATTTGAGAAGCGGAGATCAAATATCTTTTTGGTTGCTCGGCTTGCGCAAACTATGTGCTCT
TAGTAAACAAAACAGATAGAACAGAGAATGCTAGAGAATCTAGGGAGTTACTTGCCTTTCTTACC
GGGAGTTGGTGCATATTCTGGGTTGGCGTTCCATAATGTTGGGGAAAAAGAGCTTCTTGAGACCC
CGTAAGCAGCACCAGAATGAGTGCTACGCGTAGGACTAAAGGAAAGAGGAGTTACAGATGGGGAT
TGATCTTTAACCCGGATGCACTTAAAGAATCACTTACCAGACATA
Right flanking sequence: Indices 130653 -- 131152
AGAAATCACTCTCTCTTACTTGACTTATGAGTTGACTTGACTTCGAAGTTAGAGACATAAGGAGC
CGAAGGCCAACCGGATGCATGAAGAGAAGGGGAAGGTTAATTCACTTGACTTATGAGTTGACTTG
ACTTGTTTACTTTACTTGGCGCATACTACTCCTATTATCAATATGCATGGGAACCTTGGGAGTGA
GAATCTAAGCTTTCAGTAAGTGATGTTTATGACGATGATCTAGCATCACCTGCTATTAGAGATTA
TTTAAGATAATATTCGCATCAAAGGAATAGCAGCACATAACTAACCCTTGGTATGATGATTCTCT
ACAGCACATAACTAACTCTTGGTATGACTATTCTCTACCGACCCCTATTAATATAGGAATGCATG
AGAAGCGGAGATCTCAGATAGATTTATGGTTGCTAGGGTTAACTATGTCCTCTTAGTTCAAGTAG
AACAGAATACCTGCTACGCGTAGGACTAAGTATAGTGGCTGACTA
Found at i:130990 original size:36 final size:36
Alignment explanation
Indices: 130943--131015 Score: 121
Period size: 36 Copynumber: 2.0 Consensus size: 36
130933 AAAGGAATAG
130943 CAGCACATAACTAACCCTTGGTATGA-TGATTCTCTA
1 CAGCACATAACTAACCCTTGGTATGACT-ATTCTCTA
*
130979 CAGCACATAACTAACTCTTGGTATGACTATTCTCTA
1 CAGCACATAACTAACCCTTGGTATGACTATTCTCTA
131015 C
1 C
131016 CGACCCCTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 34 0.97
37 1 0.03
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (36 bp):
CAGCACATAACTAACCCTTGGTATGACTATTCTCTA
Left flanking sequence: Indices 130443 -- 130942
AAGCAGCACCAGAATGAGTGCTACGCGTAGGACTAAAGGAAAGAGGAGTTACAGATGGGGATTGA
TCTTTAACCCGGATGCACTTAAAGAATCACTTACCAGACATATGACTGGACTTATGAGTTGACTT
GACAAATAACCACTTAGTTGACATATGAGTTAGTTGACTGAAAGAATCACTTGACTTGACATATG
AGTTAGGGACTGAAAAGAAATCACTCTCTCTTACTTGACTTATGAGTTGACTTGACTTCGAAGTT
AGAGACATAAGGAGCCGAAGGCCAACCGGATGCATGAAGAGAAGGGGAAGGTTAATTCACTTGAC
TTATGAGTTGACTTGACTTGTTTACTTTACTTGGCGCATACTACTCCTATTATCAATATGCATGG
GAACCTTGGGAGTGAGAATCTAAGCTTTCAGTAAGTGATGTTTATGACGATGATCTAGCATCACC
TGCTATTAGAGATTATTTAAGATAATATTCGCATCAAAGGAATAG
Right flanking sequence: Indices 131016 -- 131515
CGACCCCTATTAATATAGGAATGCATGAGAAGCGGAGATCTCAGATAGATTTATGGTTGCTAGGG
TTAACTATGTCCTCTTAGTTCAAGTAGAACAGAATACCTGCTACGCGTAGGACTAAGTATAGTGG
CTGACTAAAGGTGCGTAGCGGGACATAAGGAATGGATATATTAACCAATGGCTTTTCTTCCTGAC
TTAGATTAAGAAAGAGATGAAGAGATTAAAGGAAGGGCAACAAGAAGAAGAAGAGAGGGGGGATT
GATCTTAATACCTAGGATAGGGTTAATGAAGAGAAGGGGGAGGCTAATTCACTTGCCAGTATATT
AATTTGGGCTTATGAGTTAACTTCAGGGAGACTAGGTTTCCCGCATACGACTATATTAATATAAC
AGCGAAGCTGAGATCTCATATAGATTTGGCTTGCTATAACTATGTCCTTGAGGTGCGTTAGCGTT
GAAGAGAATACCCGCGAAGCTTAGGAGAGGGTTCCTGCCTTCCCA
Found at i:135612 original size:15 final size:15
Alignment explanation
Indices: 135592--135622 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
135582 CTATAGTATA
*
135592 GAGACAACTAACAAG
1 GAGACAACCAACAAG
135607 GAGACAACCAACAAG
1 GAGACAACCAACAAG
135622 G
1 G
135623 CGACCAACGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.23, G:0.23, T:0.03
Consensus pattern (15 bp):
GAGACAACCAACAAG
Left flanking sequence: Indices 135092 -- 135591
TTCCCCATGTTTGGCACTTTCCATACTTCGTGGGTGCAACATCAACTAATTCGCTCATGATCAAG
TTACAACCTAAGATCTATGACCATATTATGTTAACTGTTCGTATTTCGTTCATTCCATCGGTATG
CTCCCAGGTACCTCACATTGTGATCCGTTTGCTAGAACCAAGGGGTCTTTCTGTGGAAACCTCCA
CGAGCAATCGTCGTTTTTTGATGGTTTTTCCGCTTCTCACAGCAGCTCTTTCCACACCTCCGGAT
ATCTGGTGCCAAATCGTCGCCCGTTTCCTTATTTCTTTGATAATAGAGTTGGCTATCTCTGTGGC
ATTGTACAAGTTCGTGAGCTGGGCTGGACGAGTAGAATGAGGCGACCAAAGTATATTAATTGGGA
CCGATCCAAACTATGAAAGTGGTCCAGTACACATCCAGTATATTAAGAAGTTGAGCCCCAAGTCC
ATTCTATTGCTGTTCTTCAGACTATGGACAGACAACTATAGTATA
Right flanking sequence: Indices 135623 -- 136122
CGACCAACGGGACCCGGCTTTCTTCTTATTATTTGCACGTGATTGGGGAGATTGGGCGTAACAAG
GGATGGGGTATTTTGGTCTAAGGTACCTGAACCAAACGGATTCTGCGTAGGAGTGTAAGCTAGTG
TGGTCGGATGAGCTTGTTGCTTGCTTTTTTAGAACTGGTGATAACGTCTAGTAATCCTTTCATTA
TGAGTCTCCTCGGACTTTCGCTACTTAAAGTAAAGTAAAAGTAATCCAAACTATTCTAAATACAG
GGGCATATACTTAATAGATAGGGGGCCCAACAGCCCTAATAATCAGGTCGTTCGTCCAAGCTCAA
ACGTCCTGAAAACGATCGGGGTAAGCCATTCATAAGGTTAGGATTCTGAAACCATAGATGTTGAG
TCCTGCCTCCCTCCCGGGTAGATGTATCAGAGAAAGACAAGTGGTATAGTATAAGGCTGGTACCG
GTTATTCTCCTGATTATTAGGACAGATCCAAACTATTGTTGCTTG
Found at i:155385 original size:56 final size:56
Alignment explanation
Indices: 155299--155410 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
155289 CTGAGCTCTT
155299 TTATTTATATTTTTTTATTCTCCCCCCGATGGGAGTATGAACTTTAGCATATGGAA
1 TTATTTATATTTTTTTATTCTCCCCCCGATGGGAGTATGAACTTTAGCATATGGAA
155355 TTATTTATATTTTTTTATTCTCCCCCCGATGGGAGTATGAACTTTAGCATATGGAA
1 TTATTTATATTTTTTTATTCTCCCCCCGATGGGAGTATGAACTTTAGCATATGGAA
155411 AGAGTTGCGA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (56 bp):
TTATTTATATTTTTTTATTCTCCCCCCGATGGGAGTATGAACTTTAGCATATGGAA
Left flanking sequence: Indices 154799 -- 155298
GAAGTGTGCCTCGTCTACGTCTAGGAGATTAGTCTCGGCAGCGGGAGCCGGCAACAAGCGTTGGG
AAATCGAGTTCACACAATCCCCCCCTATTATATCATCATATTGATATGGATAGGGGACCACTGGG
GGGGTCCGATTAGCTGGACCAGCTTAGTCCTCCCTGGAAGCGCTTGGATTAGAGGAGGGCGAAGG
CCTTGCTTCTGGCTGATTCACCGAGCCCGTCCCTTCACTTGGACTCGGAGTGGATTCCTCTAGGA
CCCCGAGCTCGAAGGACTCCAAAAAATTCTTCGAGGCGGAAGAATTGAGAGCCCCCTCAGACCCT
GAATCATTTCCGGGCGAAACCGCAAGCACTGGGCGGGGAACAAACAAGAGAAGGCATACGTAAGG
TGCGTAGCGAAAGACAAGAAGCGGTCTCACCCAATCATCGGTCAAGTTCGGCCTACCTAGTCACT
TTCACTCGCTTATTCCATTCAAATAAGGAGAGTGACTGAGCTCTT
Right flanking sequence: Indices 155411 -- 155910
AGAGTTGCGATCTTAGGGCAGACGGTGACCGGCTTCGCGAGACCATTTCGGCCTACTCATGGCTA
GGCAACTATTGGGCGCTGCTTTCTCGATCGACAATCTCGCCATACACACTCCAGTGCGGGGACAG
GATTTGAACCCGTGACCTCAAGGTTATGAGCCTTGCGAGCTACCAAACTGCTCTACCCCGCAACC
TGAATAAGACGTTGTACTAACTTTGACTTTCAAGTGTTAAGCATAAGGCATTCCATAATCAATAT
CAGGGTTTCACTTCTCATTCGGAATCTGGTTCCACTCCAATGCGAAGAAGAACTAGCAAAGCTAG
GAGAGTCTTATTCAGAGTGTTACACTAGGCGACCCCGATCAATTGGGGGAGGGCGGAGAAACTAT
CTATCCTGGGTCCTATTGGAACAGGAAAGACTAAACAAGCGTAGCGATAAGAGTGTAGCATCTCA
CCGGTGAGGTTCTTTATTCACGAGCCCTTATGTTTCTAAGTAGTT
Found at i:218598 original size:22 final size:22
Alignment explanation
Indices: 218573--218617 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
218563 CGCCTCAAGA
*
218573 TAAACAACGACCAGCCTATCTT
1 TAAACAACGACCAACCTATCTT
218595 TAAACAACGACCAACCTATCTT
1 TAAACAACGACCAACCTATCTT
218617 T
1 T
218618 TTGTATAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.31, G:0.07, T:0.24
Consensus pattern (22 bp):
TAAACAACGACCAACCTATCTT
Left flanking sequence: Indices 218073 -- 218572
TATTATCATCTCCATTATATATTCTCTTGCAAATTTGAAACTGGAATGGAGGGTTCCAAATTTCA
CCCATTCCAGGCCATAACTAAGACAACTCATACAATAAGGCTCAGGTAGTGACAGATTACTTGAT
CTGAACAAGACTGGCCTATTACCCTCATCACTGGATGAATAAACCCTGATTAACCTATCACTTGG
GGGATGTGTATCCTTTGAGATACGACACTCCTGCATCAGTTTCTTATCAGCATCCTTGCGAACAA
ATAGTGATTGACATAGATAACAGGAAGCATATCTATTACTACCATTTTTGATCAAGTCAATTAGA
TAAAACTCACAAAATGGATGCCGAGGATGGATGTCTGCTATATGCTTCCAATCAGGGCTATTGGA
CCAATGACAATTACAACCGTGTCTTAGAAAATTCAAATATCAAAAGTCTCAAATGAACAACTTCA
TTCACAGCTCTTTGGAAGCGCGATTAAGTCTCAGACGCCTCAAGA
Right flanking sequence: Indices 218618 -- 219117
TTGTATAGGACGAGAGCCATGCCCCTAGCCTTTAGACGAATCAAGGATGACCTCTCTGAGGCACC
TGTGCTAATGCCCGGAAGAACCACTACGGCTATACATATCAGCGGAACATTCTTATCGCAGAAGA
ACGGAGAAGGAGTGCTTTCCGGAAGTGAGACAGACGACTATTTTCATAGAGAGAGAGCACTAGAC
CTGACTAAACATCATCAGCGAGAAGTCACGTCTTGCTTGCTAACACAATATCTTAACTTAAGTAG
TAAATGGTAACTTCACCACATCCATTCGCCTTGACCGGATCATAGCGTTAGCGGAGTCCGCAACC
GATCGGCCTTCTATCTGACTTCCTTCGATACAGGATTCCGAAAGGACGGATCCTATTACTTTGGA
ATGGAGCGAAGGCGCACCACTTTAGTCAACTCGAAGAAGAGGAAACGGAAGCAACCTTTCCGAAA
GATTACCAGGCGAGGGGCGCAAGCGGACTGCCTTAGACCAGTCCT
Found at i:223021 original size:10 final size:10
Alignment explanation
Indices: 223006--223044 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
222996 CCCAGTACTA
223006 TTAGTTGAGT
1 TTAGTTGAGT
223016 TTAGTTGA--
1 TTAGTTGAGT
223024 -TAGTTGAGT
1 TTAGTTGAGT
223033 TTAGTTGAGT
1 TTAGTTGAGT
223043 TT
1 TT
223045 CGTTTAGTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
7 7 0.27
10 19 0.73
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (10 bp):
TTAGTTGAGT
Left flanking sequence: Indices 222506 -- 223005
ACTCGTAGGGCAAAGGAAGTCTTGCGATCAGACTCGGGAGTGGCTTTGACCTTATGGCTTTGGCC
TGATAGGAAGAATTTCAATAAGTATGATTGAACACCATAGCTATTGCATGGGTGATGCGGTATAT
GTTCGACTGCAACGATCAGAGAAACTGCTCACTTATGATGAGCTCCCCTCTCCCTATCGGTCGAG
TAAACCCCCTCTCTCTGTCTATCTGGTCTTAGGACTTGTAGGAGTCGTGGACTTATGTACCAATG
TTCATCGATGACTGAAGGTATACTAGGCGCCTAGTATACCAAGTCCAGTATATTAATTGGTACGA
CAGAGTCAATAGTCACTCTGTCTAGGTTCTGAGTTGAGTTGAGTATAGAGTGAATCGAGAGAAAG
TCAGTACACACTAAGGTGCGACTAAGCGACCGATCTCTTCTATCAATAGTCACTGGTAATCAACA
ATATCCAGTACGAATAGTAGAGTACCGAGCTCAGGCCCAGTACTA
Right flanking sequence: Indices 223045 -- 223544
CGTTTAGTAGAGTTAACCGAGAGAGTTAGTACACGCAGTTGAAGCAATAGGCCAGGATATTAATT
CCATTCTATTGCTGTATATTAATTGGGACTCACTACAGACCGAGTTAGCGAACTATGTTGTACTA
ATCTACTGATACTTCGTTGGATTCACACTTTCTTATTACTAAAGAATGCCGAGCCAGTATATTAA
TTTGGGCTTGGCTTGGCTTATGAGTCATGTGTTGCTATAGTCTTCATTCATAACCGCTTACCCGG
ACTGATTGTTCACTGACTAGTTCTTTCCTTTCTATTTTGTTGCGGTCGGTCGATCGAACAAACAG
AGGTTGGAGGGATATGGACTCGTCGTGCGAAAGAGGCTAGGGTGGTCATCCATAAGTGCTCCTTA
TCCGACAACTGGGGTTATAGAAGGCGCAGCCCGAACACCTACGCACATCTCTAAAACCCTAGATG
CATCGGCATCCTCCGAAGATGGTCTGTATCCCGAGAAAGAGTTAG
Found at i:223029 original size:17 final size:17
Alignment explanation
Indices: 223007--223040 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
222997 CCAGTACTAT
223007 TAGTTGAGTTTAGTTGA
1 TAGTTGAGTTTAGTTGA
223024 TAGTTGAGTTTAGTTGA
1 TAGTTGAGTTTAGTTGA
223041 GTTTCGTTTA
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:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (17 bp):
TAGTTGAGTTTAGTTGA
Left flanking sequence: Indices 222507 -- 223006
CTCGTAGGGCAAAGGAAGTCTTGCGATCAGACTCGGGAGTGGCTTTGACCTTATGGCTTTGGCCT
GATAGGAAGAATTTCAATAAGTATGATTGAACACCATAGCTATTGCATGGGTGATGCGGTATATG
TTCGACTGCAACGATCAGAGAAACTGCTCACTTATGATGAGCTCCCCTCTCCCTATCGGTCGAGT
AAACCCCCTCTCTCTGTCTATCTGGTCTTAGGACTTGTAGGAGTCGTGGACTTATGTACCAATGT
TCATCGATGACTGAAGGTATACTAGGCGCCTAGTATACCAAGTCCAGTATATTAATTGGTACGAC
AGAGTCAATAGTCACTCTGTCTAGGTTCTGAGTTGAGTTGAGTATAGAGTGAATCGAGAGAAAGT
CAGTACACACTAAGGTGCGACTAAGCGACCGATCTCTTCTATCAATAGTCACTGGTAATCAACAA
TATCCAGTACGAATAGTAGAGTACCGAGCTCAGGCCCAGTACTAT
Right flanking sequence: Indices 223041 -- 223540
GTTTCGTTTAGTAGAGTTAACCGAGAGAGTTAGTACACGCAGTTGAAGCAATAGGCCAGGATATT
AATTCCATTCTATTGCTGTATATTAATTGGGACTCACTACAGACCGAGTTAGCGAACTATGTTGT
ACTAATCTACTGATACTTCGTTGGATTCACACTTTCTTATTACTAAAGAATGCCGAGCCAGTATA
TTAATTTGGGCTTGGCTTGGCTTATGAGTCATGTGTTGCTATAGTCTTCATTCATAACCGCTTAC
CCGGACTGATTGTTCACTGACTAGTTCTTTCCTTTCTATTTTGTTGCGGTCGGTCGATCGAACAA
ACAGAGGTTGGAGGGATATGGACTCGTCGTGCGAAAGAGGCTAGGGTGGTCATCCATAAGTGCTC
CTTATCCGACAACTGGGGTTATAGAAGGCGCAGCCCGAACACCTACGCACATCTCTAAAACCCTA
GATGCATCGGCATCCTCCGAAGATGGTCTGTATCCCGAGAAAGAG
Found at i:228307 original size:20 final size:20
Alignment explanation
Indices: 228278--228317 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
228268 TCTTGCTTGT
*
228278 AACTACTTCCATTGGTGAAC
1 AACTACTTCCATTGGCGAAC
*
228298 AACTAGTTCCATTGGCGAAC
1 AACTACTTCCATTGGCGAAC
228318 CCTTCTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (20 bp):
AACTACTTCCATTGGCGAAC
Left flanking sequence: Indices 227778 -- 228277
CCTTCTTCCTTATTTTGATCATTTCTATCCTTCCATACTGGGGCAACTAAGAAGAGGGGGTATGC
GGGCTTCTTTCGCTTGAGTTGTTTCAGTGTGCCGTCGGATTTTGAAGGTGTTCAGTAACTATCAA
AGAAAATGAATGAAATAGGAATTCTTTCTCTCAAAGCCTCACAGCCTTCGTCTTATTTTATTGCA
CTAGCATTCCGATGCAAGAACGAAGGTGCTTGCGATTTCTATTACTCACGAGATGGCATGAGCTT
GTTCGGAAGTCGGTGAATCAGGGATAATCGTCTTAAGACTGGGAATTGACAATAATAGGTCTTTA
GTAAAAGCGCAATCCCAACTCTCTTATCTGGTGCACCCTAGAGCTATTGCCAGATTTCATCTCAA
ATCGAGCTGCAGTTCTTCTTTCCTTTCAAACCTAGCTAGGGAACAGGAGTGCACAATCACTATAG
AGGGCCCAGGCCTGGAATAAGGCAGAGTCCCTCTCTCTTGCTTGT
Right flanking sequence: Indices 228318 -- 228817
CCTTCTTATATATAAGGCTCCGTCCCTCTGTAGAATCTTACCCTGCACCCTGAGCCACTAGTGCA
TTTGCTAGTTAATGATATCATCTCACTCTTGCACAAAGATTCGCATCTATCGCACATAATGCATG
GGAACAGCTGTTTTTTTTCACAATTAGATGGGAGGAGGAAGGTCTATAGCCGAATAACACGCCAA
CCACTCCGTCTGTTAGGGGAAACTCAAGTAGATATAGAACCTGCTGGAGATAGAAATCAACTAGC
TCAATCAATCACATGGATCTTTCAATGAGCGAAAAGATCAATTCCAAGTTCGGTCACAAGCGGGA
TCAATAGTGGACTTCGCGTTGACTTCCAAATGATGCCGAGTTTGATACCACTCACTTCCCTTAGG
GCCATATAAATCACTTTACCGAGGTGCCTACGAGACTTAGGAGGGAGGTTCTCTACCAAGGAAGC
GCCAACCAGCGCCACAGCCGTTACAAAACCAAGAATCCAAATGGA
Found at i:231475 original size:21 final size:21
Alignment explanation
Indices: 231449--231517 Score: 120
Period size: 21 Copynumber: 3.3 Consensus size: 21
231439 ACTCACAAAG
*
231449 AAAAAGGGAAGTGATTTGGAC
1 AAAAAGGGAAGTGACTTGGAC
231470 AAAAAGGGAAGTGACTTGGAC
1 AAAAAGGGAAGTGACTTGGAC
*
231491 AAAAAGAGAAGTGACTTGGAC
1 AAAAAGGGAAGTGACTTGGAC
231512 AAAAAG
1 AAAAAG
231518 AAACGAAGTG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.48, C:0.07, G:0.30, T:0.14
Consensus pattern (21 bp):
AAAAAGGGAAGTGACTTGGAC
Left flanking sequence: Indices 230949 -- 231448
GTCCATATGTAAGATCATCATTATGGATACGGGTCTTTTCCACAGAAAAAGGGAATCTTTTGTTA
CAATAGAACCAGAAGTGATGTGGATCATTCAAGAATCGAAGTCGATTTGCTTTATAAAAAGAAGA
TATCAATGAACTTCTATGAAATGGTTTCACGGGATTCAGCCAATTGTCTCGATCGTGGGATATCA
TTGAGAAATAGGAATCCGTGTTATCAAAGAATTTTCCGCAATTATTTCTAGTATGGAATGAGTCA
ATCATCCACTTTGGTATCTTTTTGAACAAAAATGGTAATATTGTTCCTCCATTGATCAAGAATTT
CGGTCTTTGGGAAGTATCACGATCATCCAATAAGAAGGGTTTCAATTTATTCAAATGAACTATTT
GAACACCTATTGATTCTAACAACTGATTGCAGGGTTGATCATTCGGACTTTTCAATTCATAGATG
TGGATCTCGGACCTATGAATGGGGGTATTCCCGATACTCACAAAG
Right flanking sequence: Indices 231518 -- 232017
AAACGAAGTGACTTAGACAAATCTTGTTTGTCGATAGCCTCGGACCAATCAATCGAATATTTACT
CCTACGTAATCGATCGAACACTACTTGAAAACGGTTCTTCTGTTCAGAAACGAAATGTTCCAAAT
GTTCCTGTAAATTCTTGCTCCCATTGGACCATTTGTATCTATATGCATCAGGATCCCGATTCATG
GATCTCTCGGTTCGAGAAATAAGAGGATCAAACCATTTCTTCTGAGTCTCTTTCAAATTCAATAA
ATGTTGGTTGATCGTATATTTCATTATAGTTATATGATTCAGAGTATCATTTCCTATTTGATCCC
TTTGAATTCCATATTCGAAGTTGCGATTGGATCTATTCATTAAAAAGAATCGATTCGATACATTT
CTTATGTACCCATAGATGCTATATTGGATTTGAATCAGATTTCGGATCAATCTATATTGATTGAC
TGCCTCCATGATGTTGTTGCTAGCAAATACCGCTGTTTTTAGTTT
Found at i:231518 original size:21 final size:21
Alignment explanation
Indices: 231449--231538 Score: 117
Period size: 21 Copynumber: 4.1 Consensus size: 21
231439 ACTCACAAAG
* *
231449 AAAAAGGGAAGTGATTTGGAC
1 AAAAAGAGAAGTGACTTGGAC
*
231470 AAAAAGGGAAGTGACTTGGAC
1 AAAAAGAGAAGTGACTTGGAC
231491 AAAAAGAGAAGTGACTTGGAC
1 AAAAAGAGAAGTGACTTGGAC
*
231512 AAAAAGAAACGAAGTGACTTAGAC
1 AAAAAG--A-GAAGTGACTTGGAC
231536 AAA
1 AAA
231539 TCTTGTTTGT
Statistics
Matches: 63, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
21 46 0.73
23 1 0.02
24 16 0.25
ACGTcount: A:0.49, C:0.09, G:0.28, T:0.14
Consensus pattern (21 bp):
AAAAAGAGAAGTGACTTGGAC
Left flanking sequence: Indices 230949 -- 231448
GTCCATATGTAAGATCATCATTATGGATACGGGTCTTTTCCACAGAAAAAGGGAATCTTTTGTTA
CAATAGAACCAGAAGTGATGTGGATCATTCAAGAATCGAAGTCGATTTGCTTTATAAAAAGAAGA
TATCAATGAACTTCTATGAAATGGTTTCACGGGATTCAGCCAATTGTCTCGATCGTGGGATATCA
TTGAGAAATAGGAATCCGTGTTATCAAAGAATTTTCCGCAATTATTTCTAGTATGGAATGAGTCA
ATCATCCACTTTGGTATCTTTTTGAACAAAAATGGTAATATTGTTCCTCCATTGATCAAGAATTT
CGGTCTTTGGGAAGTATCACGATCATCCAATAAGAAGGGTTTCAATTTATTCAAATGAACTATTT
GAACACCTATTGATTCTAACAACTGATTGCAGGGTTGATCATTCGGACTTTTCAATTCATAGATG
TGGATCTCGGACCTATGAATGGGGGTATTCCCGATACTCACAAAG
Right flanking sequence: Indices 231539 -- 232038
TCTTGTTTGTCGATAGCCTCGGACCAATCAATCGAATATTTACTCCTACGTAATCGATCGAACAC
TACTTGAAAACGGTTCTTCTGTTCAGAAACGAAATGTTCCAAATGTTCCTGTAAATTCTTGCTCC
CATTGGACCATTTGTATCTATATGCATCAGGATCCCGATTCATGGATCTCTCGGTTCGAGAAATA
AGAGGATCAAACCATTTCTTCTGAGTCTCTTTCAAATTCAATAAATGTTGGTTGATCGTATATTT
CATTATAGTTATATGATTCAGAGTATCATTTCCTATTTGATCCCTTTGAATTCCATATTCGAAGT
TGCGATTGGATCTATTCATTAAAAAGAATCGATTCGATACATTTCTTATGTACCCATAGATGCTA
TATTGGATTTGAATCAGATTTCGGATCAATCTATATTGATTGACTGCCTCCATGATGTTGTTGCT
AGCAAATACCGCTGTTTTTAGTTTTGGATCTTCCAAATCATTCCC
Found at i:242157 original size:18 final size:18
Alignment explanation
Indices: 242134--242170 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
242124 CACTTGTCAG
*
242134 AACTTGAAGAAGTTAAGA
1 AACTTGAAGAAGATAAGA
*
242152 AACTTGATGAAGATAAGA
1 AACTTGAAGAAGATAAGA
242170 A
1 A
242171 GAAACCGGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.05, G:0.22, T:0.22
Consensus pattern (18 bp):
AACTTGAAGAAGATAAGA
Left flanking sequence: Indices 241634 -- 242133
GCATACCACGAATATACGAGAACGCCTGATGTGCCAAGCCTATACCTCTCGCGAACACCGGTAAT
CATTGCATTTCATAGGAAATAGGAGTTTGTCCCCAGTATATTAATTGCCAGCCTCTACCCCACCA
CGTATGCATTCTCTACGGCTTGTCGAATCAGGGCATTGCATTTATCTACGAAAGAAGCTATGAGC
CCTTTCCAAGTGGGACGTCGTTGGGCAGCTACTCATGCCGGGTATTCTGAAGTGGGTAAACCTGA
ACATCCTCATCAAAGATACAGAGCTACGCTACCTAGGAATCAGTACTGATAAAAGGTGCGCAGCC
TATTTGATGACAAAAGTGTTTGGGTGGGCACGGAACCTATAGTTGTTAAAGACATTTCAGATCAA
GAAAAAAGATTACTAGAATATAAAGTCAAGTGAACTAGAAACTATCGGATGATAATATGAAAAAT
AGAGAGCTTTTAGCTCGTAAAGATAGTGTTATTACCACTTGTCAG
Right flanking sequence: Indices 242171 -- 242670
GAAACCGGACAACAGATTCCAATAATGTATGGATAGACACTCGACCAATAGATGTGATAGACTTA
GGAACTAAAGATGCTACCACTATTTGGAATGCCATTCTTAACATCTTTCGCTACCTTTCTTTCAC
AGGTGGCAGAATTCTAGACCATATAACCTTGCCAACTAAAGCGGCCTACTCTATCGCGGGCTTAA
GCGATCGAACTAACCTGGCTCCATCTAGAAGGGCCCCCTTCCTTTGGGCGCCTCTATTTCGTCTT
TGGAACTCCTAAAAGAGTTTACGGGCCTAGCTCAACGAAAAGGCAAGTCCTTCGGTTCCAGGTTC
GAGTGATGGTTCACCAGTCAGAGATCAACGAAAAGCAAGCCTTCTTCCCAGTTTGAACTAAAAGA
AAGTAGTTGAAACCCGAGACCAAAGGAGTGTACGGTTGAACCGAAGAAACTTGGTAATGAAAGAT
CAGAGAACTATTACTACAATGTTTCACTTCAAGTATGATAAGCAC
Found at i:253998 original size:23 final size:24
Alignment explanation
Indices: 253968--254012 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
253958 TATGTGTATT
253968 GACTTGAGGTAG-ACCAACGGGGG
1 GACTTGAGGTAGTACCAACGGGGG
*
253991 GACTTGAGGTAGTATCAACGGG
1 GACTTGAGGTAGTACCAACGGG
254013 AGATGGAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.27, C:0.16, G:0.40, T:0.18
Consensus pattern (24 bp):
GACTTGAGGTAGTACCAACGGGGG
Left flanking sequence: Indices 253468 -- 253967
AATACGAATGAGATCAGTCTCCAGAGCCATTGAGCCAAGGCCGAGAGCAAGAGAATCATAGGAGC
AGCTAAGTTACCTAAAAGTGGGCACTTACTCCGGCTAGCTGTCTATCCTTAACATGGGTAAAATC
CCTCCCCGAAACATATGCACCAGTGTTTTAGCGAAGCTGGAGGTGCGAAGCCCTTGTTGTTCCGA
GGTGCGGGAGCTCTATTCGTAAGTAAGAGAACAGGAATGCCACCTATCATGCCTTATTCCATCTA
GAAGCCAATACTCGGCTTTTACAGGAGACCTCCAATCAAACCCAGGCCTGTTCCGTACTCGACAG
TTCAGAGGTGGTAGACCAATCCCGAAGAGGAGGTTGTTTACTTGCTTCCGAAGGTATCCGGTATT
AATAATAAGGCGAAGTGCGAAGCATATATTAATTGGGACGGGGAAGCAACTTGAATAAGTCGGGG
TGCGTGTAGCGAACTAATGAACTACTGTATAGCTGTATGTGTATT
Right flanking sequence: Indices 254013 -- 254512
AGATGGAACAAACAAGGGCTACGACGGCCTGCTCGGGGAATCCTATTCCAATCTGATCCGTCAGA
GGTGCGAAGCTTTGTTTCTTATGCGCTGGGGGAAGGAGGGAGCTGCAGACTCAAGGTTTCGATAC
TTAACTTAGGCCCCCAATTCATTGTCCTTCTCATGATCATCCGGGATAGAGGGTTATAAGTGTGT
AGCAGTTGAGTTTGAATAATTCTTAGATAGAAGTCATTGTGATATAGCGTATATAGCTAGAAGGA
AGGCGCCAGTATATTAATTGGGGACCGAAGGTGACCAACGGGAAGAGGAAGGACTGACAATGCGT
AGTCAAAGGCAAGCCGCGTATGGATTGATCCCTGATTCTGTTATTTTTCTGGGTCTTCTTTCCAT
CTCACAACTTCCACTTCTTGAGCCCCTGCTGGAGGCGATCTTTGAATCGAATTTGATCTTTCGTC
TTCAAGTGAGGGCGACGGGCTTTTGATCTTCCTCCAGAGCCACTG
Found at i:264538 original size:18 final size:18
Alignment explanation
Indices: 264515--264555 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
264505 ACCTATTAAA
*
264515 CAAAAGAGATAAGAAAGT
1 CAAAAGAGAAAAGAAAGT
**
264533 CAAAAGAGAAAATCAAGT
1 CAAAAGAGAAAAGAAAGT
264551 CAAAA
1 CAAAA
264556 CCACCAACAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.63, C:0.10, G:0.17, T:0.10
Consensus pattern (18 bp):
CAAAAGAGAAAAGAAAGT
Left flanking sequence: Indices 264015 -- 264514
TCTGCAATTCTAGGAAGCCCACTGCCAGACGATGAAGTTTCCTCCACCATCCTAGGTAAAATGAA
ACTGGAAGATAAAATCAGAAAAGGATACTTCTTAGCTCCAAAGAGCTATAACTATATGAATGATA
AAGGTAAGGAAGTCATCAAGCATAAAGGGAGAGCACATGATCTGGTTGATGAGAAATGGTTTGAG
GATCAATATATAGATGCTGATAAGAGCGAAATCCAAATCATAGAAGATAACTTCAATCGCAATTG
GGAAACCCTATCGATTCTACGGAAATCGTATCATGTCGATAAGAGAATCAAATTGACAGAAAAAA
GAACACTAGTATACAATGAAAATAATGTATGGATAGACACAACACCAAAAGAAGTATGTGACTAT
GGTAATCATACCAGACTCATGAAAAAGATCATGGAATTGATAAATATCAAAAAAGATCAAGAAAT
CTTAGAACAAAGTAAGGAAATAGCTTATCTACAGAACCTATTAAA
Right flanking sequence: Indices 264556 -- 265055
CCACCAACAGCAACCAAGAAGCTTCAGACCTGGCTTCCGCTAAAGGCTATCTAGGTCACCAAAGG
CTACCTAAGGGATGTAATAGGTCCAAACGTAATAAGAAAAAGAGACCTCCATAAGAGCGTGAATA
ACTAAAGTATCGAATGTGCTATTTGATTGCTTACTCTATTAGCTCACTATGGGTCTTCTAGTCTA
AAGGTCTTAATGTTATCTTCGAATTGACTCTGTTCATCTAATTCACTCTGTTCACGGGATTTATG
AAATGATAACAAGCAATTTTGGTTGACACTGAGTTCTCCACCATGACATTTAGTTATAGATTTGA
TTTCATGAAAACTGCCAGAGAATGAGATCTTTAAAGAATTGAATCTGTTGTCTACTGTTGATTGA
TTGAAGGCAGGATATGTTAGATCATCTTTCTCGATCGGGAAATTCGATGAGATAACAACCTCATG
CATATACCTAGTATAGTGAGCTGATGGAAATGCTTTTTCGAACGA
Found at i:266247 original size:36 final size:36
Alignment explanation
Indices: 266207--266291 Score: 161
Period size: 36 Copynumber: 2.4 Consensus size: 36
266197 AAGGGTCTTC
*
266207 ATGAGGTCCAGTAGACTGAGGGTATGAAGAGTCTGT
1 ATGAGGTCCAGTAGACTGAGGGGATGAAGAGTCTGT
266243 ATGAGGTCCAGTAGACTGAGGGGATGAAGAGTCTGT
1 ATGAGGTCCAGTAGACTGAGGGGATGAAGAGTCTGT
266279 ATGAGGTCCAGTA
1 ATGAGGTCCAGTA
266292 AACACCGACT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.28, C:0.12, G:0.36, T:0.24
Consensus pattern (36 bp):
ATGAGGTCCAGTAGACTGAGGGGATGAAGAGTCTGT
Left flanking sequence: Indices 265707 -- 266206
GTTATTTATCATCATCATGTTGGAAATGCCAATTGAGGATCAACATCGATTGGGCTTAATCCATC
AGCTGGAAACCCTAACCATATAATTGTTAATATTACAATACCACTTAAGATAATAGACTTAGTAC
TATAACCAACAGAAGTCTCATTCACAATATGATCATCAGCTTGAGACCCAGCCACTTCACTAGGC
CCTGTCACTATACTATTAGAGAGAGCAGGAGGTAAAGCGTCTGCTGGCTCTGGCAAAGGGTCTGG
CAAAGCATAAATATTTATAATAGTAAAAATAACCATTATACACAAAGAAATGAACTCAGGTGAAG
ACAACAATTCACGCACAACAGAAATCTCCCCAGATGAAACAGAGTGAAAGGAAGAGGAAGTGGAC
GTAGGCGAGTCAGAAGAAGACTGAGGGTCTGGAGCTGATTGATTGAGGGTGGTGATCTCTGGAAC
CTGGGACTGAAAGGAGCTCTCTGGAGCACCGACTGAAGGGTCTTC
Right flanking sequence: Indices 266292 -- 266791
AACACCGACTGAGGGGATGAAGGGTCTTCATGATGTCCAGTAAACACAGACTGTAAAATGGTATT
AATAGAATCACGGAACTCAGATTCAGTAAAATCAGAAAAAGTCACTCCTTCGGGAGGACCTCTTC
TAACCATCTCTCTGAGAATTTGAACAACAAAAGCTGTGATAAGTGGATGCGCAGTAGAATTAGTA
GTAAGACCAAGTGAGCGGGCAATGGAAGAAAGGACAGACTGAGTATCCGCACTAGAACTCTGATT
CTGTGGCGAAATACCTTGCATAGAAAGAATAGGTAGCTCCCGTCTTAGAACATTAGATGCTAAAT
TAATATACTGTGAATTGAATTGATTACAACTTAATGCCGCTAAACTAAGCAGTGATGCTTGAGAT
AAACCACTTGAGTTAAGCATATCCCTATTTACAACAGGCCTACTACTACCGCCTATATCAAAATT
CCATCGAAGAAAATGTCTATAATAACTACCGCGATTCATTCTACG
Found at i:266330 original size:42 final size:42
Alignment explanation
Indices: 266219--266344 Score: 158
Period size: 42 Copynumber: 3.1 Consensus size: 42
266209 GAGGTCCAGT
*
266219 AGACTGAGGGTATGAAGAGTCTGTATGAGGTCCAGT------
1 AGACTGAGGGGATGAAGAGTCTGTATGAGGTCCAGTAAACAC
266255 AGACTGAGGGGATGAAGAGTCTGTATGAGGTCCAGTAAACAC
1 AGACTGAGGGGATGAAGAGTCTGTATGAGGTCCAGTAAACAC
* * *
266297 CGACTGAGGGGATGAAGGGTCT-TCATGATGTCCAGTAAACAC
1 AGACTGAGGGGATGAAGAGTCTGT-ATGAGGTCCAGTAAACAC
266339 AGACTG
1 AGACTG
266345 TAAAATGGTA
Statistics
Matches: 78, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
36 35 0.45
41 1 0.01
42 42 0.54
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.21
Consensus pattern (42 bp):
AGACTGAGGGGATGAAGAGTCTGTATGAGGTCCAGTAAACAC
Left flanking sequence: Indices 265719 -- 266218
CATCATGTTGGAAATGCCAATTGAGGATCAACATCGATTGGGCTTAATCCATCAGCTGGAAACCC
TAACCATATAATTGTTAATATTACAATACCACTTAAGATAATAGACTTAGTACTATAACCAACAG
AAGTCTCATTCACAATATGATCATCAGCTTGAGACCCAGCCACTTCACTAGGCCCTGTCACTATA
CTATTAGAGAGAGCAGGAGGTAAAGCGTCTGCTGGCTCTGGCAAAGGGTCTGGCAAAGCATAAAT
ATTTATAATAGTAAAAATAACCATTATACACAAAGAAATGAACTCAGGTGAAGACAACAATTCAC
GCACAACAGAAATCTCCCCAGATGAAACAGAGTGAAAGGAAGAGGAAGTGGACGTAGGCGAGTCA
GAAGAAGACTGAGGGTCTGGAGCTGATTGATTGAGGGTGGTGATCTCTGGAACCTGGGACTGAAA
GGAGCTCTCTGGAGCACCGACTGAAGGGTCTTCATGAGGTCCAGT
Right flanking sequence: Indices 266345 -- 266844
TAAAATGGTATTAATAGAATCACGGAACTCAGATTCAGTAAAATCAGAAAAAGTCACTCCTTCGG
GAGGACCTCTTCTAACCATCTCTCTGAGAATTTGAACAACAAAAGCTGTGATAAGTGGATGCGCA
GTAGAATTAGTAGTAAGACCAAGTGAGCGGGCAATGGAAGAAAGGACAGACTGAGTATCCGCACT
AGAACTCTGATTCTGTGGCGAAATACCTTGCATAGAAAGAATAGGTAGCTCCCGTCTTAGAACAT
TAGATGCTAAATTAATATACTGTGAATTGAATTGATTACAACTTAATGCCGCTAAACTAAGCAGT
GATGCTTGAGATAAACCACTTGAGTTAAGCATATCCCTATTTACAACAGGCCTACTACTACCGCC
TATATCAAAATTCCATCGAAGAAAATGTCTATAATAACTACCGCGATTCATTCTACGATGACGAA
CGCCATTTTGTGTAAATGATATATTTGTTAGAACCGATAATTTCT
Found at i:282531 original size:24 final size:24
Alignment explanation
Indices: 282503--282548 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
282493 TTCATAAGTC
*
282503 AACTCATAAGTCAAGTCCAGTCAT
1 AACTCATAAGTCAAGTCAAGTCAT
*
282527 AACTCATAAGTCCAGTCAAGTC
1 AACTCATAAGTCAAGTCAAGTC
282549 CGGGTGGTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.26, G:0.13, T:0.24
Consensus pattern (24 bp):
AACTCATAAGTCAAGTCAAGTCAT
Left flanking sequence: Indices 282003 -- 282502
CTACGGGAACTCACTATCATTGAATCAGTCAGTGATTGATCTGCTACGGGACTGGTGATTCAAAA
CCTTATGCCAGCTCTTATTCTGGGTTATCCTTTAGGAAAATCCTCCACAGGATGTAATGCGACTT
GTGCTGCCCTCGCTGGTTGTTCTATCGGACCCAGGTAAAGAAATAATTAGTTCGGGTCTAGGTTT
TCCGGTGAATTAGATTCTTTCCTGGCATCGGCAAGAGGTAGCCCGCATCGTATTAATGAAATCAC
TCTTAATGTGTAGCTGCCTCCTCATCCCCTTATGTTGCCCTTAATCTCTTTCTTCATCTCTTTCT
TTATCTAAGTCAGAAAGAAGCCATTGGTTAATATACCCATAACTATCTGACATCTCAGCTTCCCT
AAGATGCTCATGCATATTGATAATAGGGGTACGGGAAACCAAGTAAACAAGTCAAGTCAACAAGT
CCAGTGCCTATCCTAGGTTTAGATATCCCATCTGTTTCATAAGTC
Right flanking sequence: Indices 282549 -- 283048
CGGGTGGTTCGCTTGTCACAGAAAAGACGGAATGCCTTCTCCTGGAGCGAATAAGGGATGGCCCT
TACTCCTACGATTCTCATGCATTCTACTTGTCTGTTCTACGCTGCGCACCTCAAATAATACGGCA
AGCCGAGCATAAACATAACTTACTGAGATCTCAGCTTCCCTAAGATTCGCTTTCAGCACCTAGGT
TCCCATGCTGTTTGACTAGCCTTAACAAGAAATTTTCGCCCAATTAATATACTGGCCTTCCTTCG
GGCGCCTGTTGCCTAATGCTAGCTACAGACCCCTAAGAATAACTGGCCGGACAGGGCATTCTATC
CGGAACAGAAACAGGACAGGCACCAACTCCCGGTGGTAAGGAAGGCACTTACTCCTAAGCTTCGC
AGGTATTCTATCACAGTTAAGGAACAGAGGAAAGTTAGCTTGGCAAAGAAGAATAGAGATTCTCT
TTGCCGAATTGCCATTACCTAAGGCCAGAAGGACGGACTTAGCAC
Found at i:282539 original size:19 final size:19
Alignment explanation
Indices: 282494--282544 Score: 61
Period size: 17 Copynumber: 2.8 Consensus size: 19
282484 CCCATCTGTT
* * *
282494 TCATAAGTCAACTCATAAG
1 TCATAAGTCCAGTCATAAC
282513 TC--AAGTCCAGTCATAAC
1 TCATAAGTCCAGTCATAAC
282530 TCATAAGTCCAGTCA
1 TCATAAGTCCAGTCA
282545 AGTCCGGGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 14 0.52
19 13 0.48
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.25
Consensus pattern (19 bp):
TCATAAGTCCAGTCATAAC
Left flanking sequence: Indices 281994 -- 282493
CCACCAAGGCTACGGGAACTCACTATCATTGAATCAGTCAGTGATTGATCTGCTACGGGACTGGT
GATTCAAAACCTTATGCCAGCTCTTATTCTGGGTTATCCTTTAGGAAAATCCTCCACAGGATGTA
ATGCGACTTGTGCTGCCCTCGCTGGTTGTTCTATCGGACCCAGGTAAAGAAATAATTAGTTCGGG
TCTAGGTTTTCCGGTGAATTAGATTCTTTCCTGGCATCGGCAAGAGGTAGCCCGCATCGTATTAA
TGAAATCACTCTTAATGTGTAGCTGCCTCCTCATCCCCTTATGTTGCCCTTAATCTCTTTCTTCA
TCTCTTTCTTTATCTAAGTCAGAAAGAAGCCATTGGTTAATATACCCATAACTATCTGACATCTC
AGCTTCCCTAAGATGCTCATGCATATTGATAATAGGGGTACGGGAAACCAAGTAAACAAGTCAAG
TCAACAAGTCCAGTGCCTATCCTAGGTTTAGATATCCCATCTGTT
Right flanking sequence: Indices 282545 -- 283044
AGTCCGGGTGGTTCGCTTGTCACAGAAAAGACGGAATGCCTTCTCCTGGAGCGAATAAGGGATGG
CCCTTACTCCTACGATTCTCATGCATTCTACTTGTCTGTTCTACGCTGCGCACCTCAAATAATAC
GGCAAGCCGAGCATAAACATAACTTACTGAGATCTCAGCTTCCCTAAGATTCGCTTTCAGCACCT
AGGTTCCCATGCTGTTTGACTAGCCTTAACAAGAAATTTTCGCCCAATTAATATACTGGCCTTCC
TTCGGGCGCCTGTTGCCTAATGCTAGCTACAGACCCCTAAGAATAACTGGCCGGACAGGGCATTC
TATCCGGAACAGAAACAGGACAGGCACCAACTCCCGGTGGTAAGGAAGGCACTTACTCCTAAGCT
TCGCAGGTATTCTATCACAGTTAAGGAACAGAGGAAAGTTAGCTTGGCAAAGAAGAATAGAGATT
CTCTTTGCCGAATTGCCATTACCTAAGGCCAGAAGGACGGACTTA
Found at i:283642 original size:21 final size:21
Alignment explanation
Indices: 283603--283642 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
283593 TAGCCATCTG
* *
283603 TCAAGTAAGTGATTCTTTAAC
1 TCAACTAAGTGATTATTTAAC
*
283624 TCAACTAAGTGGTTATTTA
1 TCAACTAAGTGATTATTTA
283643 CTAACCCTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (21 bp):
TCAACTAAGTGATTATTTAAC
Left flanking sequence: Indices 283103 -- 283602
CCGCCGAGCTAGCCATATCTGAAAGCTATGATTCTCACTCCCTGGGTTCTAAAATTAATATACTG
GGCTGTTCTATCCTATCTAGCTAGCGCCTAAGGATATATTACGGGTAAGTGATTAGCTTAGAAGA
TATTCTCTTTCCCAATGGGTTTGAAGAGGGCAACAGTACTTACTCATTATGAGAGGGCAGCACAC
AAGGACTTAGCACCAACCACATCCCGGTAAGGCACTCACTCTATCCCGTTATTCTCATGCATTAG
CGGAAGCCGAGCAACCTAATCTATATTAGATCTCCGCTTCCCTAAGATTCTAGGGCATATATTAA
TAGGGCTCGTATGCGCCAAGAGTCAAGTAAACAAGTCAAGTCCCTAACCCTAAGTTATCTAATGG
GTCATATGCAACAAGAAGTGCCTAACTTCGAAGTCATATCCTAAGTTATCTAATGGGTCAAGTCT
CTAATTCAAGTCATAAGTCAACTCAACTAGCTTTTTAGCCATCTG
Right flanking sequence: Indices 283643 -- 284142
CTAACCCTATACTAGGGTTTAAGATCAATACCCCATCTGTAACCCGTTAAGCGGGCAAGAAGATC
TCTCTCATCTATTGCGCCCGGAGATGACTGATCAATCTTCCCCTTTCTCTTCGGTAGCCCACATC
TTATGATTGTCCACTTCCAATCAATTATGTAGCTATACCTCCTCTTTTAAGCTCTTCTTTTATAC
TAATAGGGATTCGTCATACCTGGTATGAACATATTATACTTTTCTTAACCAATTTGATGGCCTTA
AAGACTCAAATAGAATATCTAATAGCTGGTAGAGAACTATAATATGATGGAATCAAATCTACTAA
TAGAGAATCACACTTATAAGGTATTCACATATTGAACTTTAACCAATTATCTGGAATCTAATAAG
ACTCTAATTAACTAATTTGATGGTATCGAATCTAAGTTATTACCCTTAGCGGGGTAGAGAATTAG
CCCTTAGCTTCTTCTCAATTTCTAGGGTAGAGAATAGTTGTGATT
Found at i:302901 original size:18 final size:18
Alignment explanation
Indices: 302868--302934 Score: 59
Period size: 24 Copynumber: 3.6 Consensus size: 18
302858 AAGAGTATCT
302868 TATTGATGATA-T--CGA
1 TATTGATGATAGTGACGA
302883 TATTGATGATAGTGACGATATCCA
1 TATTGATGATAGTGACG------A
302907 TATTGATGATAGTGACGA
1 TATTGATGATAGTGACGA
302925 TATTGATGAT
1 TATTGATGAT
302935 GACCTTGATA
Statistics
Matches: 43, Mismatches: 0, Indels: 15
0.74 0.00 0.26
Matches are distributed among these distances:
15 11 0.26
16 1 0.02
18 13 0.30
24 18 0.42
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.37
Consensus pattern (18 bp):
TATTGATGATAGTGACGA
Left flanking sequence: Indices 302368 -- 302867
TATTTCTCGAAAAAGTGATTCGATTGATGATGAAGAAAGAGAATTCTTGGTTCAGTTCTCCACCT
TAATGACAGAAAAAAGGATTGATCAAATTCTATTGAGTCTGACTCATAGTGATCCTTTATCAAAG
AATGACTCGGGTTATCAAATGATTGAACAACCGGGATCAATTTACTTACGATACTTAGTTGACAT
TCAGATTATCTAATGAATTATGAGTTCAATAGATTCTGTTTAGCAGAAAGACGGATATTCCTTGC
TCATTATCAGACAATCACTTATTCACAAACCTCGTGTGGGGCTAATAGTTTTCATTTCCCATCTC
ATGGAAAACCCTTTTCGCTCCGCTTAGCCCTATCCCCTTCTAGGGGTATTTTAGTGATAGGTTCT
ATAGGAACTGGACGATCCTGTTTGGTCAAAAACCTAGCGGCAAACTCCTATGTTCCTTTCATTAC
GGTATTTCCGAACAAGTTCCTGGATGACAAGCCTAAAGAGTATCT
Right flanking sequence: Indices 302935 -- 303434
GACCTTGATACGGAGCTGCTAACTATGACGAATGTGCTAACTATGTATATGACGCCGAAAATAGA
CCGATTTGATATCACCCTTCAATTCGAATTAGCAAAAGCAATGTCTCCTTGCATAATATGGATTC
CAAACATTCATGATCTGTATGTGAATGAGTCGAATTACTTATCCCTCGGTCTATTAGAGAACTAT
CTCTCCAGGGATTGTGAAAGATGTTCCACTAGAAATATTCTTGTTATTGCTTCGACTCATATTCC
CCAAAAAGTGGATCCCGCTCTAATAGCTCCGAATAAATTAAATACATGCATTAAGATACGAAGGC
TTCTTATTCCACAACAACGAAAGCACTTTTTCATTCTTTCATATACTAGGGGATTTCACTTGGAA
AAGAAAATGTTCCATACTAACGGATTCGGGTCCATAACCATGGGTTCTAATGCACGAGATCTTGT
AGCACTTATCAATGAGGCCCTATCAATTAGTATTACACAGAAGAA
Found at i:302909 original size:24 final size:24
Alignment explanation
Indices: 302875--302927 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
302865 TCTTATTGAT
*
302875 GATATCGATATTGATGATAGTGAC
1 GATATCCATATTGATGATAGTGAC
302899 GATATCCATATTGATGATAGTGAC
1 GATATCCATATTGATGATAGTGAC
302923 GATAT
1 GATAT
302928 TGATGATGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.34
Consensus pattern (24 bp):
GATATCCATATTGATGATAGTGAC
Left flanking sequence: Indices 302375 -- 302874
CGAAAAAGTGATTCGATTGATGATGAAGAAAGAGAATTCTTGGTTCAGTTCTCCACCTTAATGAC
AGAAAAAAGGATTGATCAAATTCTATTGAGTCTGACTCATAGTGATCCTTTATCAAAGAATGACT
CGGGTTATCAAATGATTGAACAACCGGGATCAATTTACTTACGATACTTAGTTGACATTCAGATT
ATCTAATGAATTATGAGTTCAATAGATTCTGTTTAGCAGAAAGACGGATATTCCTTGCTCATTAT
CAGACAATCACTTATTCACAAACCTCGTGTGGGGCTAATAGTTTTCATTTCCCATCTCATGGAAA
ACCCTTTTCGCTCCGCTTAGCCCTATCCCCTTCTAGGGGTATTTTAGTGATAGGTTCTATAGGAA
CTGGACGATCCTGTTTGGTCAAAAACCTAGCGGCAAACTCCTATGTTCCTTTCATTACGGTATTT
CCGAACAAGTTCCTGGATGACAAGCCTAAAGAGTATCTTATTGAT
Right flanking sequence: Indices 302928 -- 303427
TGATGATGACCTTGATACGGAGCTGCTAACTATGACGAATGTGCTAACTATGTATATGACGCCGA
AAATAGACCGATTTGATATCACCCTTCAATTCGAATTAGCAAAAGCAATGTCTCCTTGCATAATA
TGGATTCCAAACATTCATGATCTGTATGTGAATGAGTCGAATTACTTATCCCTCGGTCTATTAGA
GAACTATCTCTCCAGGGATTGTGAAAGATGTTCCACTAGAAATATTCTTGTTATTGCTTCGACTC
ATATTCCCCAAAAAGTGGATCCCGCTCTAATAGCTCCGAATAAATTAAATACATGCATTAAGATA
CGAAGGCTTCTTATTCCACAACAACGAAAGCACTTTTTCATTCTTTCATATACTAGGGGATTTCA
CTTGGAAAAGAAAATGTTCCATACTAACGGATTCGGGTCCATAACCATGGGTTCTAATGCACGAG
ATCTTGTAGCACTTATCAATGAGGCCCTATCAATTAGTATTACAC
Done.