Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_028329
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: 783513
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Found at i:30826 original size:18 final size:18
Alignment explanation
Indices: 30803--30849 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
30793 CGTGAAAGAT
*
30803 CGGGCTTAGAATCGGGAA
1 CGGGCTTAGAATCAGGAA
30821 CGGGCTTAGAATCAGGAA
1 CGGGCTTAGAATCAGGAA
*
30839 CGGGCATAGAA
1 CGGGCTTAGAA
30850 CGGAAAATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.32, C:0.17, G:0.36, T:0.15
Consensus pattern (18 bp):
CGGGCTTAGAATCAGGAA
Left flanking sequence: Indices 30303 -- 30802
CTACTTAATTAAGCCTTTTTCTTTCCGAGGACAGCACAGGGCTCAGCACTCAAACTGTATAGGTT
TCCGCATTTGGAGGGACAACTACGGCTTATCCATAAGCAAGGGCCTGGCCTGAAACTGACTAAAA
AGATACCGCCCCAGCTGAATAAGTATACTAGTAGAGTAGTCTCCTGTAGAGAGATTAGATAGGCG
AAGGGGAACAAAGCTATTTATTCTCTAGAATCTTAAGATAAATCTATCTATTATCATTAGCTCTT
TCAGGGAAATACCTATAGATTACTGGTAGGGATGGAACATAACTCCCAGAAAGGAAAACTTCCAC
TGCCCCAGCTTTTGACCTTGACCTAACCCTTTAACAACCTAGACCTAGCTATTAACCTGTGCCTG
CCCTAGCCGTCTTTGATCTAGCTGGCTTGAGAAAGAAAATCCCAGATAAAAGCGGGACCACCCAC
AGGCATAGTGACCAAATAGACCCTCTCTTGTAGCTCGTGAAAGAT
Right flanking sequence: Indices 30850 -- 31349
CGGAAAATGAGCCTGTTAACTACTTGCCAGGTTCGCCTACCTTATTAGATTCGGCCTACAGAACT
TATTGGATTTACTTACATTCCTGTTTTTTAGATAACTTCTTCACTGACAACTTCTTTGATTCATC
GCCCATCGATCAAAAGAAAGACTAACGGCCTAAAAGCTTCCTTCGCCTGAGACTGAGCTTACCTT
GCCCACTTGAATGTACTATCTATTTGAGTTCTATTTTCAGTTTCGTGGCTGGATTAGAAGTTCGA
CTGAGCTATAGTCTCCGGACTAGTTGAACACTGACTCTTATTCCACTACTAGAAGTCCTTCTTCT
TATCGATTTGAGTGAGATTGAATCTTGAGCCCCCATCCTTGCTTTGATTTCCATTTATCTTCTCC
ACGGATGAACACCGGAATGGATTGATCTGACTCAATCTCTTTCTTCATGTCTCGCCCTGAAGATC
GAATTCCGTATTTACATTGATTTGACCTACCTTCTGCAATAGTGA
Found at i:64423 original size:18 final size:17
Alignment explanation
Indices: 64396--64432 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
64386 TCCCAGCTCC
*
64396 TGCCTTGCTTGCTTTCTT
1 TGCCTGGCTTGC-TTCTT
64414 TGCCTGGCTTGCTTCTT
1 TGCCTGGCTTGCTTCTT
64431 TG
1 TG
64433 TGTTTCATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.00, C:0.27, G:0.22, T:0.51
Consensus pattern (17 bp):
TGCCTGGCTTGCTTCTT
Left flanking sequence: Indices 63896 -- 64395
CCCAGGGTTGACTCCCTTCACTAGTCAACGAAGTGCATCTACGGATGTAGGCACATTCTTGCTTG
ATCATTTGCTCTCACTAGACCGCCCTAGAGTACGATACTGGTTCGCCATAGGTTCGAAGGGCTGT
CTCTTGTGTGCGATGGTTGGGTATGAATGGAGCTTGCTCGGTAGAAAGGAGAGTAACCTTTGGGT
AATATAATATAATTTACTCATTCCTTCATAATGAAATATTCTACTCTTTTCTTTCTCCGTGGATT
CCTTGAGGATTGATCTGTTGTTGGATCCGTTGATGGATCGACCCTCCCTAACCACCCTATTTTTG
AGCACAGGCAGGTTTGAAGTGAAGGGATAGAATCCTGTACGTAGAAGGCTGAACCCATAACTCGT
GATTCGTAGCTTACAACCTATCCTTTCTCATCTTTGCTTACCGCTTCGCCCCCTTGCTCAAGTAT
GAGTCCTAAAGGTAAGGCAAGAAAGAGATTCTCAATCCCAGCTCC
Right flanking sequence: Indices 64433 -- 64932
TGTTTCATAGTGACTAATCTACCTATTCCTATGCTGGCAGGGGACTCAAGGTTGGCAGGGTTGTC
TCTAGGGTTGGGAATGAGACTATGAAACTCTTTCCTTTCCCGCCGGTAAGCAAGCAAGTCAAAAC
GCTAACACTGATGAGCTTGCTCTAATGAAACTACTAACACTCAGACTAGGGACAGGGGCTCAGAC
CCTGTTGCCTAGAAGAAGGAGATTCTATTTAGTTAGTCGGGTCTTAACAAGGAGCTAATGGATGC
ACTAACATATCGCCCCGTGTCCTAATAGTTATCTTACTACTGGAGTTAGATTGACTCCTTGGGTC
GGGCACCAAGGGAAGGATTAGTTCATATCCTAAACACCTATCGATTGTGTTAGTGAGTAAGTAAT
CACCCCCCGTGTATCCTTATAGAGTTCAGTTTAGTGCTTCTTACTGGTTGGGGTGGAGTCTAGCT
ACTACTACACGAGTCCCACACACCACTCCACAGCTCTAGGCTTTC
Found at i:73335 original size:13 final size:13
Alignment explanation
Indices: 73317--73342 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
73307 TAAGGAAGGC
73317 CTTGCCTTATTAG
1 CTTGCCTTATTAG
73330 CTTGCCTTATTAG
1 CTTGCCTTATTAG
73343 AGAGATATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.46
Consensus pattern (13 bp):
CTTGCCTTATTAG
Left flanking sequence: Indices 72817 -- 73316
CTCAGACTCGCAGAAGACAAGTGAAAAGTATCTCGAGGTTTCTCCGCTTCTTGTTTCAAAATATC
GCAAAAATTCAGCGCTCTAAAAAAAAGGCCGGAAGGCCCCAGGACCCCCACCCCACGGCCCCTAT
GCCAAAGCAGTTGAGTGCAAGGAGGTCAGAGCAGAGGAGCTTCCCGGGTAGCAAGCTAGTTAGGA
GAGAATTCACCTATGGATTATTAAGTAGGTAGGAAAGCACGATAGGAGGCATGTCTCAGGCCTAG
GTGACAGCGGAGAACTTTAGAGGTAGGCTGGAAGGAAAGAGAAAGGCTAGGAGCTAGGCTAAATA
CGGAAGTTAATTCGTCTTTCGTCTGTATTGTGATCCCATGCCAGGACGAAGAAATCAAAGGATTT
ATAGTCATGCTCATGGAAGTCTTGACTGGTTTAACGCTCATACCAATACGGCAGAGCATTTTTTC
TTAACTATTGAAAAAGCTCTTGATTTTTTCGGTTTTAAGGAAGGC
Right flanking sequence: Indices 73343 -- 73842
AGAGATATAGCCACCATAGACTAGCTCGTCTGTAGGGCTATGATCAGGCCATGCGGTCTAGAGAT
CTAGTTGACGCTTGGAAGAAACGGATATCCTTTCGAGAGAGAACGTGGCCATCCCGACCTGGAAG
GACTTTTATACTTCCTGCTTTGAGTGGGCCAGAAAGACAGATCAGTTCGTTTGCAACAGATCTTG
GAAGAAAATCAACAGAAAGAAGGTTGAGTGATAGACGAGGGGTTGTTTTCAGATGACGAAGTATT
CGTCAGCGATAGGGCTTCGCGCCTGAGAACAAAAAAAATTAAGGAAATAAAAAAGGCTTACAGAG
GATTTCCAATAAGAAAAGGAAGAAGACCCCCATAGAACTCAAAGCGGAGGGGCTCTTCCTCAGAA
TGACGATGTGTGAGTTGCTTTTGTGAGGGGATAAAAGAGGTATGAAGAAAGTTGGCCAAGGTCAT
AAGGTAAGGCCAAAGGTATTGGTGCATCTTTTTCTAGAAGTGGTC
Found at i:115131 original size:22 final size:22
Alignment explanation
Indices: 115092--115134 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
115082 CTTCATCCGA
*
115092 ATAAGGAAGAGACAGGTACAAT
1 ATAAGGAAGAAACAGGTACAAT
* *
115114 ATAAGGAATAAACTGGTACAA
1 ATAAGGAAGAAACAGGTACAA
115135 GGAGTCCAGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.51, C:0.09, G:0.23, T:0.16
Consensus pattern (22 bp):
ATAAGGAAGAAACAGGTACAAT
Left flanking sequence: Indices 114592 -- 115091
GTGAAACAAAGGAATGCTCCGTCAATTAAGTATTACCGGGGCCCCTTCTCCCTTATTCGCTCCTA
GGAATTAAGGGGAATAGGGCGCCTCGATTCAGTAGTTACAGGCCCGGGGCCTATATCTAGATTAG
AGGAATTAAATCGAGGAAGAAAAGGGAGCTGCGGATAAGGACAAGTCCGATCAGAACTACTACAC
AACCTTCAATGACTCTAACAAAAAACCTTGATGAATTAGATTAGAAAGGAAAGAAAGAGAAAAGG
AAGAAGAAAAGAAATTATCCTAAGGAAATGAAACTAATAACAAATAGGATAATAGAGAGAAAGAA
CAACTTAAAGCTCATAGCATGCTAGCCGCCCTAGCTACTAGAGCGCTTAGCTAACAGCTCTTGGC
TCAGAAAGAATAGCTCCTAGGGCGAAAATTTTTTTATAAATTACCCGCTCAATCAGATAGGACGA
CCTACTCCTTAGTTGAACCGGACTTTGCCACTCACCTTCATCCGA
Right flanking sequence: Indices 115135 -- 115634
GGAGTCCAGCTGAACCACCCAGATCCGCTTCTTTCATCAAGCAACACAGCCTAGTCTAACCCGAG
CCCGAGTTCGTATTGGTAAATTTCGGGTCAGCAGGCAAAGGAAAGGGAACACCCACGTTCTACTT
TAATTAAGATGTGGTACAGTACTCTTCCCATGTTAAACTGCCCTGCCTTTCTAAAGGCCTGGTAC
ATCTTTTTTTTTTAAACCTATTCTCGACCCTCCTTCCTACCCCACCCACCGCTCTTCCTTTGAGG
CAAAAGTCTCTCTTATTCGACCAGAAGAGCCTTCTTCTTCATTTCACCTATGGACTTTTTCCACG
TAGCAACTTCCATACTGCACGAAGTCTTCTTCGGGAATGGCTTACCGCTCCGTGGGAATTGGATT
TAGTCCCGCGCGCTCCTGAAATGGGGGCTCTTTCCTCGGTGCGAAGGATCAAACCCTACGCCCAC
TGCCCTTGTTCCAAGATCTCACTTCATTCACGTATCCGCATCTGC
Found at i:122212 original size:19 final size:19
Alignment explanation
Indices: 122179--122217 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
122169 GAAGAAAGCG
** *
122179 TAAAAAAGAGCTTCCTCTA
1 TAAAAAAGAAATTCCCCTA
122198 TAAAAAAGAAATTCCCCTA
1 TAAAAAAGAAATTCCCCTA
122217 T
1 T
122218 CACCCGAGGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.21, G:0.08, T:0.26
Consensus pattern (19 bp):
TAAAAAAGAAATTCCCCTA
Left flanking sequence: Indices 121679 -- 122178
TTGTTAAAAAGCTTCCTTTAACAATTAGATTAGGATCGGAGAAGTAAGCCAAGTCAAGTCAAGGA
AGATGCCCACTACTTATATAATATAATAATAAATTTCCAGCCTCTAAACTAAAGGCTTTGAGCAA
GAAAAGGGATTGATATAGAGCATCGTGCTGATCGATGCGCGAAATACCCGGTTTTATAGTCAAAA
GATCTGCTAGCTATGGAGAAAGTATCCCGTCGACCTTCCTTCGATGACATCTCTGGACCAAGGTT
CCGGGCGTAGAATCCGCGTTAGTATCTGAAATGGATCAGTAGTCTCTCACAGAGTCCTCTCTTAC
GCTTAAGGCATCAAAAATAGAAACGAATCTGAGCTGGCTTTCAAGAAGGTATGTATAGCAGTAAG
ACTCGTAGGCGGACTAAGAGCTCTTGTCTTAGGCTGTTCTCAAATCCACACTTTCGGAATAGAAT
GGCTTGTTTTCAAGGTAACTAGAAATTGCATAAGAGAAGAAAGCG
Right flanking sequence: Indices 122218 -- 122717
CACCCGAGGGAACTCACTTAATCCTCATCTCTTGAACTCACTGAAACCAAGCCAATGGAGATTGG
CGGGTAAGATGCTGGAAATAGACTTCGCCGAATCCCTTTTCATTACATCCAACCGTCTGCTACTT
CTGCTACCGCAGCCCTTGCGACTTGATTGGTCCCCTTCCACTTCCCCCATTGTCAACTCGCTTGC
CCCGGCGTGAAGAACTCTCTCACGGAAGTGACTTCGACCAAGCATCTCGATTCAACTACAAGCCT
GCTATTCACTCGCTTTCGACGTTTCAAGTCGGATCTTGCCTTCACTCCTAAAGGAAGAAAACCTC
ACCTCAGAGCTTCACAAGAGCAGTCGAAAGAGCAAACTGATTCAACTTGAGCTATTCTTATTATT
GTGACAAGATCTGGAATTGCCTCTACGCTTTTTTCCTTTGCAACTTGCTACTAATGTCATACCGC
ATTCAGTCTAATTGGCCCAGCTCTCCTCTTTTCTTTGGTCAAGCC
Found at i:164589 original size:15 final size:16
Alignment explanation
Indices: 164561--164590 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
164551 ATAATTTTTT
164561 TAAATAATAAAAATAC
1 TAAATAATAAAAATAC
164577 TAAATAA-AAAAATA
1 TAAATAATAAAAATA
164591 AAAGAACTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
TAAATAATAAAAATAC
Left flanking sequence: Indices 164061 -- 164560
TATGATCTGGAAGTCGATCCAGGGCAAGTGTTCGGATCTATTATGACATAGCCACGAGGCGCTCA
ACGGACCTTTCTGGGCTGATGCAAAAACAATTTTTTTGTGCAACCGTGTATTCCTATCTTAATTA
AAAGTTCCTAGACGGGGCAAGTTTATGTTTTACATAGAATATATTACTATTACTCTATTCCAGAT
CAGGCGAGAAGTAATTATTCATTACTAAGAGACATCCCAATATCTATATTTAAGTATTCAAAGGC
ATCTTTTATTCCTTTTAATATTAATGTTTTAATATAAGAGTAATAGAAAATATTTTCTACTGTCT
GTATCTGTGTATCATTTATTCTATTCCTATGAAATACCAGACAAAAAGTAAGGATCTTAGAAGGG
AAAGGGTATAATGAAATTCATGAAATTCTTCGATCCCACAGAAATGATCCGTTTTATTTGACTGA
TGGAGACAACAAATAATTAGTTATAACAAATTAATATAATTTTTT
Right flanking sequence: Indices 164591 -- 165090
AAAGAACTTGATTTCGCTCTCCTTCCTTCTAGTAAAGATCACTTCCTGGTTCGATCAGTTTTGAA
ATGAGATCCACTTCCCCCTCCTACTAAATTAAATAGTACAACCTTCTCTTAAAGTAAGAACAGGA
TTCCGGGTTGCTCTATCGGTAAAGAAATTCTATTACCGGACGGAGAAAAGAGAACTAACTAACCG
TCAACCCTTAGATCTCTGGTCGGCTATCGGTAAAGGAACCTTCTGGCCGGTTAGGTTAAGCAAAG
CAGGTAACCGTCACCGGGGTTTATTCGTGAAAGTCAGCTCTGACCGGGCTCTGGAGATGAATACC
GATAGAGCTTACCGGATGCACCATCGACCTCAGACAGCTCGCCCGTGCGGGGGAAGAACTAAAAA
GAAAAAAAAAACGTAGTGAGTGAGCAAAAAGCAAATACCAATGAAGACCAGACCTGGAATTTCAA
ACACGAAAACGTAGTAGCCTAGCCGGGGAGGGATCTTCTCCAGCT
Found at i:182446 original size:5 final size:5
Alignment explanation
Indices: 182436--182460 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
182426 ACAAAGCCCT
182436 TAGGG TAGGG TAGGG TAGGG TAGGG
1 TAGGG TAGGG TAGGG TAGGG TAGGG
182461 GGCCGTCGCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.60, T:0.20
Consensus pattern (5 bp):
TAGGG
Left flanking sequence: Indices 181936 -- 182435
GTGATGATTTCCATGAATGCTGCCCTCGAGGACGTGTACAAGAAGGTCTTTTCCAATTCCTATCA
ACATGGTGCCCCTCTACTGAGAGGGGCGTGAAAACGCCGTGGAGACTTTGACCGAATGAATAGGG
ATCAATTAATAGACATTTTGATCACGGCTGGCCAGCGCTTTTTTCGTTCGCTATGTGCTGACTGG
ATGCGTACTCGCGTGATCGATGGACGGGGGAATTTCGTGAATGACGAGACCGGCCTAACCTAAAG
TAAAGGCTCTTCCCTCTCTTGATGGCGAATCTTGATTGACTGACACTAGGAACCGATTCGGAGAA
AGAAGAAGCATGGCATGAGATACGCGGCGGATAAATTTCCGATAGCGAATTACTTGACTCGATGG
ATAGGGGGAGGGACCTCCAACTCAAGCACGAAATCAATGTTGAGTCAACAATCATCGAGAGCCAA
GCGAGATCGAGACCCGTCGTATAGGTTGGGGAAAAACAAAGCCCT
Right flanking sequence: Indices 182461 -- 182960
GGCCGTCGCGCCTGCGCTTCCTCAAATATCCCAATAAATAAAGGTAGGGGCTTCAAAGCTTGACT
AAGAAGCGCGAAACGTCGACTTCACGAAAGAAGGGGGCGCCCTAGCTGCAATCTTTCTAAAGCGC
CAACGAGCAAGAGCAAGAAAGGGCCCCGTCACTATAGATAGGGCGTTAGTGCTAACGAAAGATTG
CAGGGCACTAGCTTACTAATAATATAGGGCTTTTTCAGCTTGATCGGAATCGATTCTATGATTGA
ATAGCAGAAGTGCTACTTAGTAGTAGAAACTCAGAGAGACAAACAGAGAGGGGACTCTACCTGCT
AACTCCTAGGATGAGAGGGAGGTCCCTTGTTTTTGGCAGGAATAGTTCAAGCCTTTGTTGCCCCT
CGGTAGAGTGAGTCTACTTAGCGAACTGGCAGGACGCGGAGATCATCAATATGAATCTCGAGAGT
GGATGGTTGACCGCCGCCCCCTTGTCCTGGAGGCTCTCCGGCCGG
Found at i:275832 original size:18 final size:18
Alignment explanation
Indices: 275792--275834 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
275782 AGCGCCCTGC
275792 CATAGTCGCGAGTCTGTTT
1 CATAGTCGCGAG-CTGTTT
275811 -ATAGTCGCGA-CTGTTGT
1 CATAGTCGCGAGCTGTT-T
275828 CATAGTC
1 CATAGTC
275835 AACAAGGTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.23
17 1 0.05
18 16 0.73
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.35
Consensus pattern (18 bp):
CATAGTCGCGAGCTGTTT
Left flanking sequence: Indices 275292 -- 275791
ACCCCCGAAAGGGCTGCCGTCCGATGGGTACACGAAAGTGACGAAGTTGCTTTGACTACAGAACC
ATGCCTGTCTGTTGGAGCGAATTGGATGATCGGGCCGAGCCCCCTCTTCCCCGTGCTCTCCTTTC
CCTAATATGAACCTCACGTCATCAATTTCTGACTCGGCCTGGCCCGGTCGCCCTACGCGACTGGC
GCTTCAAAAGGCGAAACTCTCGTCGTAGTTTGGCGACCTGACGGGGCTCCCACTTTTTGTTATCT
AAAGGCGAAGACTCAGAAGTGGGCGTCGACTCGGCCCAGCGGGCGAACATGCCGGGCTCCGGCTC
CGCGCACCTGCCCTTTCGAAGCACTTTCTAGTGTGCGCTTTAGTTTTCGAATGTGTTGTTCAGCG
TCACGAGTCTACAAGCCTTTCGTGTTTCAGTGCTCGCCTTCATAATCTTCAGTAGGGGCCGTCTA
GTCTTTTGATTAGAGTAGGGGTCGCGAGAGAGCAGAGCGCCCTGC
Right flanking sequence: Indices 275835 -- 276334
AACAAGGTCACAACTTCCAGGAAAAAACTTCGAATTGGGAGGGCGATCCTCCCGGTGAACTGACC
GTACCCCAAACCGACACAGGTGAACAAGTAGAGTATACTAGGGCGCTTGAGAGAACCATGTCGAA
GGAACTCGGCAAAATGACCCCGTAACTTCGGGAGAAGGGGTGCTCTCCTATCTTTTGATTAGGAA
AGCGGCACATACCAGGGGGTAGCGACTGTTTATTAAAAACACAGGACTCTGCTAAGTGGTAACAC
GATGTATAGAGTCTGACACCTGCCCGGTGCTGGAAGGTCGGAAGGAGAAGTGTTATAAGCTTTGA
ATGGAAGCCCCGGTAAACGGCGGCAGTAACTCTAACTGTCCTAAGGTAGCGAAATTCCTTGTCGC
ATAAGTAGCGACCTGCACGAATGGTGTAACGACTGCCCCGCTGTCTCCGACATGGACCCGGTGAA
ATTGAATTCTCCGTGAAGATGCGGAGTACCAACGGCTAGACGGTA
Found at i:294981 original size:33 final size:33
Alignment explanation
Indices: 294939--295006 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
294929 ACAGAGGTGA
* * *
294939 CTAATACAGACGAGGAGAAAGAGAAACCGATAC
1 CTAATACAGACGACGAGAAAAAGAAACCGAAAC
294972 CTAATACAGACGACGAGAAAAAGAAACCGAAAC
1 CTAATACAGACGACGAGAAAAAGAAACCGAAAC
295005 CT
1 CT
295007 CCTTGAAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.50, C:0.21, G:0.21, T:0.09
Consensus pattern (33 bp):
CTAATACAGACGACGAGAAAAAGAAACCGAAAC
Left flanking sequence: Indices 294439 -- 294938
TGCCCAGAGGAGGATGCTAGTGAGTTGTTAAGGAACTTCTTGCATTGCACATAGGGAAGGTGCGG
AGCGGTTCTTTATCTTATCATTGCCCTAAGGTAAGGCTTGGAACTGAACTGCAAGTATATAAGAA
AGGATATTGCTAAGAGTTAGCAGTCGAAGGGAGTTTGAACTGTGAAGGAATTACCGGTGCGCACA
GAGAAGGGGGAGAGAATACAGAAAATACGCCCTTGACTATACGGAGGATAAGAAATTAGGCAGGA
CTGATTTCCCTTCTTATATTATTGTTGAGACAGGAAAGCAGTCAAGCGAATCGACGCATCTATCA
GCAGTAGGAGTAGGACGTAGCGCATAAGAGGGTCTTAGGAATCGATCTAGATGCCCAGAAGAGGA
TGCTATCGAATGCCCTCTTTGACGGGCTTGTGCAAGAAGCCGATTATTCTACCATCTTTTCCAAT
AGTGCCATTTTATTGATGCTATCGAAGAAGAACCAACAGAGGTGA
Right flanking sequence: Indices 295007 -- 295506
CCTTGAAAGAAGGAAAAATGCCACATCAGTAAGAGAAGTGGGCAAAAAAGCTGCTCTCCTATTTG
GACCACCTTCCACCCTGTCTCCCTCTCCATACATACAGAACCGTAGTTTATGGTCTCTTGTGTTT
ACAGCCCATTCTTCACCTTTCCTATAGCCAGCAAATCAAGGAGATACGGCTTAAAAGCCTACGCG
CGTCAGGTTGTTCGGCTTCGGCCCTTCCTACACGTGACTACACGGAATTAACTTTACTTTACGGT
ACGGAACTAGATATGAATTTCATCCTCTGTTGGCGAGATCAGAGGCAACGGTGGCAGCAGCTGTG
GATTCTGTTGATTCTTCATCTCCTCGCTTGACGCTCTCTTCAATTGCAGATCCTGAACCTTCGGT
CAAGTTGCTTTTCTATCCTGAACTTTCGGCTAAAGTGGCTTCCTCCTCTCTTCTCTTGAACTTTC
GTTCAAGTGGCTTCCTGTAGGGGCCTTTGAACGGGCCTTGGTGGG
Found at i:374504 original size:24 final size:24
Alignment explanation
Indices: 374477--374524 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
374467 AACTTGCAAA
*
374477 CATAACCAGGCAGTGAGGGATCTT
1 CATAACCAGGCAGTGAGGAATCTT
* *
374501 CATACCCAGGCGGTGAGGAATCTT
1 CATAACCAGGCAGTGAGGAATCTT
374525 AAGGGGAGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (24 bp):
CATAACCAGGCAGTGAGGAATCTT
Left flanking sequence: Indices 373977 -- 374476
AAATCAGGTCTTGTAATATACTGCAGGGCTCCAACGATGCTTCTGTACAGAGATGGATTATGAAA
TGGAGTAGAAGAGACTGCAGCAGAGGACTGATTTTAAAGTTAATTGGAGAAGAGCAGGGCTTACA
ATTCAGCATAGCAGCTCTCTGGAGGAGATCCAACGCATATTTTTGCTGTGTTAAAAAAAGTCCAC
GATCATTCTTGTCTTGAGTACCTCAATGCCAAGAAAATAGTTCAAGTTCCCGAGGTTCTTTATAG
CAAACTGAGCACTTAATTCAGTGATTAGAGTGGAGATATAAGAGGTATCACTGCCAGTTATAATA
ATATCATCCACATAAACCGCAAGAATTGTAGTTCGCAAACTGTTAGTTTGAATAAATAACGAGGA
ATCACTACGGCTCATAAGAAAGCCTTTACTGATTAAACAGCTATAAAACTTATCATACCAAGCGC
GTGATGCCTGTTTAAGACCATACAATGCTTTCTGCAACTTGCAAA
Right flanking sequence: Indices 374525 -- 375024
AAGGGGAGGGGTTGGTAGTGAAGGGAAGTCCAGGGCTGTGTCTGATCAGCTTACTGGGAGAATTC
CAGGCGAGGGAGTATTGGTAAGGTTATGGAGGAAAGAGGAAATAGGATTTTGGGCATCTCTCGTT
GCTTCGGATTTTGATGATAAATAAGCTTCTCACAGATATTTACTTTTAGATAGATACCAGCATAG
TATCTTAATTAGCAGTTTCTTGAACTTGGTTGCACTCGTAAAGCAGCTTAAGAGAGCAACGAAAG
ACGGAGCGGTGATATTTCCTGACTAGCAAGTGGAGGATCATTCCAGGCTCTAATTCAGTCTCTGA
TGGCGTAGCTGATGTGTCATGCTAGGAAGCTGAGCTAGGGCATTTCTTCTTTCGGTTTAAGTGTT
CTAAGAAGTGAAAACCCTCCTCTCCGCTTCTGGCAGCATAGAAGGAAGCTTGGGGGAAAGGTCTA
AGTGCAAGCATTGAGTCAAACTGATTCAGGTATAGCAATGTAGTT
Found at i:396017 original size:22 final size:22
Alignment explanation
Indices: 395985--396035 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
395975 CTCTGGCAAT
395985 GCTATGCTGGAGGGAATCTCTG
1 GCTATGCTGGAGGGAATCTCTG
* *
396007 GCTATGGTGGAGGGATTCTCTG
1 GCTATGCTGGAGGGAATCTCTG
396029 GCTATGC
1 GCTATGC
396036 AAATGGTGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.16, C:0.18, G:0.37, T:0.29
Consensus pattern (22 bp):
GCTATGCTGGAGGGAATCTCTG
Left flanking sequence: Indices 395485 -- 395984
GGAAAGAAGTTTGCAGGTAGCTGTTAGACGTCGCTCCTAGAGCAGAAAGAAGTCAACCATCAAGA
GATCCTAGAAGATCAAGAGAAAGAATTTATCACAGGACTCAAAATCTTCCCCTTCCGATTAACAA
TCTCTTCCTTCCATTATGAAGATTCATTTATGAATTCTGAACGTTCATCTCTCTTTTAGTAGTAG
TCGGAGTACTGGGGAATATCTTATCGTCAGAGAAGTCAAAAAGGAAATGCCAACTTTCCTTTCCC
TCCTAAGCTCCTCATTTCACACAATAAACTATTTTCCGACATTTCTTTTCTTTACTTCACTCGCT
TTCGAGTCGACGAAGAAAAGAAGATTAACAACACCTTATGGAGATAGCTTGCCTTCACTCTCACA
GCTTGTGTGCCGTGGAAGGGGAAGGTCTTGCTTCCTCTCGTGCCTTTAAAAAAAGTACCCATACC
ATTATGATCACCTTTAGAGTAAAACTAATGTCGTTCTCTGGCAAT
Right flanking sequence: Indices 396036 -- 396535
AAATGGTGGAGGGATTATGAAGTCTTTGGGTAATGGCACTAAGCTTAATACACTTAGGAAATCCC
TAGATAGAGAATGACCTTAAAAGGAACAAAGCTCTATTAAATCCACGGATAGAGACCTTAAAAGG
AACAAAGCTCTATTAAATGCCGGTCTCCTGCTGTATGTTTTTATTTTTATTCTCTTACATAAAAT
TAAGGACATAGTGTCCGAAAACCTCTCATAGCAGGTGTTAAGTCTAAATCAGACTGAGACTGATG
GTCCAGGGTAGCGACACCTGAAATCGTATTAATAAGCTCAGGGTTTCACTCAGATCTTTGTGTGG
CAGAACGCCAAATAGGGTGGCTTGCCACACCTGAGCTCAGGGTTTTACTCTGATCTTTGTGTGGC
AGAACGCCAAGCCAAGGGGAAGAACGCCAAGACAAGGGTTGCGACAACTGAAATCTTATTAATAA
CCTCAGGGAAAGCCAGGGTTTTACTCGGATTTTAAAGAAAAACAA
Found at i:396451 original size:20 final size:20
Alignment explanation
Indices: 396426--396463 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
396416 TTTGTGTGGC
*
396426 AGAACGCCAAGCCAAGGGGA
1 AGAACGCCAAGACAAGGGGA
396446 AGAACGCCAAGACAAGGG
1 AGAACGCCAAGACAAGGG
396464 TTGCGACAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.24, G:0.34, T:0.00
Consensus pattern (20 bp):
AGAACGCCAAGACAAGGGGA
Left flanking sequence: Indices 395926 -- 396425
AAAGTACCCATACCATTATGATCACCTTTAGAGTAAAACTAATGTCGTTCTCTGGCAATGCTATG
CTGGAGGGAATCTCTGGCTATGGTGGAGGGATTCTCTGGCTATGCAAATGGTGGAGGGATTATGA
AGTCTTTGGGTAATGGCACTAAGCTTAATACACTTAGGAAATCCCTAGATAGAGAATGACCTTAA
AAGGAACAAAGCTCTATTAAATCCACGGATAGAGACCTTAAAAGGAACAAAGCTCTATTAAATGC
CGGTCTCCTGCTGTATGTTTTTATTTTTATTCTCTTACATAAAATTAAGGACATAGTGTCCGAAA
ACCTCTCATAGCAGGTGTTAAGTCTAAATCAGACTGAGACTGATGGTCCAGGGTAGCGACACCTG
AAATCGTATTAATAAGCTCAGGGTTTCACTCAGATCTTTGTGTGGCAGAACGCCAAATAGGGTGG
CTTGCCACACCTGAGCTCAGGGTTTTACTCTGATCTTTGTGTGGC
Right flanking sequence: Indices 396464 -- 396963
TTGCGACAACTGAAATCTTATTAATAACCTCAGGGAAAGCCAGGGTTTTACTCGGATTTTAAAGA
AAAACAAAAAAAAATATGTGCAACAAACAATGGATTACTATGTCATTGATAGATATAGAGAGAAA
GGAGGAAGAAAAAAAGGAACTAATACGATTTTGGAATGCGTTTTACGATCATATATGTATAAATA
CTCAAATTAGTGAAGAAAATGATATATCCAAATCAGTTCAGTATAAGCAAGAAGTCTTCGAAATT
TTAAAAAATGCAAAGGATAGGTTACCATTAAGTGAAGAAGAATTACGTAAGATCCAAATGGATAT
TGAGGATCTGACTATATTCTTCGATGAGGAATCTATGTTTAAGACAGCTCCCAACATCATAAAAA
TCTTAATCCGTAATACTGAGGAAAATGCTAAGGATTCTCTCAGGTCTAGTTTATTCGATAAGGCT
GATTTGGAATTGCTTTCAGAGTTCGGTCAATATACGATTGAAGCA
Found at i:406396 original size:21 final size:21
Alignment explanation
Indices: 406337--406388 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
406327 GCCAATACCC
* * * *
406337 GCAATCAAGTCATACTCAACA
1 GCAATCAAGTTAAAATCACCA
406358 GCAATCAAGTTAAAATCACCA
1 GCAATCAAGTTAAAATCACCA
406379 GCAATCAAGT
1 GCAATCAAGT
406389 AAGCATCAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.44, C:0.25, G:0.12, T:0.19
Consensus pattern (21 bp):
GCAATCAAGTTAAAATCACCA
Left flanking sequence: Indices 405837 -- 406336
AGGGTCCTCTTGGAAATCCTGCTCCTTCTACGGCTGCTAGTATCCTTGTTCTTCTACTCGCAGGC
AGGGCTGCTCTTGCTATTGTTGCTAGGATCCTCTTATCCTATTGGTTGCTAGTCCCGGGCTTCTA
GGACAAAGTGTAAAGAGAAGAGTTAGAGTTCTTCCTCTTTCTCCCCTATCACTTAAAGGGAGATG
GCCTAATTTCTATTCTATCTATGGATCGAGAATAATCGTCAGTTTGAGGCCTGTCTTTGAACATA
AGGCATGAGAATCCTTCTCAGCGGAGTCTCTGTGTGTTGAGATCGAGGGTAGTTTGATTCTGGGA
ACCGAGCCGGCTTCGGCCAACGAATGAAGTTCTTTAGTAGGTTATCCGGGCATAGTTGAGTTAGG
AGCGAGGGAGTTCCATTTACTAGCTATATCCTCTTATTCTCGGGAAAGGGCAGTTCCAGCTAGGG
CTAGAGGACAGTCACATTCCTATTAGTAGGTTGAGGCCAATACCC
Right flanking sequence: Indices 406389 -- 406888
AAGCATCAACTGCTTTACCGTATAACAGTTCCTTGAGCAGATGTGATTGCAAATCTTCTACTACC
AAAGAATCTCTATCCGTCCCCCATATGCCCTTCGTTCTCCTGTCGTATGGATGTCTGTTTTCCCC
CCCCCCCTTCAATGCTGTCGCATTCTTGCCCCTTTTCGGTATGGTCCTTTCATTCAGGCCTTTCC
TTATGCACCGATGGTTTCATGATTCCTTGAAAAAAAAAATGTTTGCGAGCGTCAAAGCACCTAAC
CATACCTACTACACCATGCACTCCGCCGGTAAGCAGCCCGGACATGAAAGAAAGTGCATTTGGAA
GCATATGTGTGCCACTTTGGCACGAGATTTCAGCTCTACTTTGACTTTCATGGTTCCACTGTTCG
TCGAGATCCCTTGAGTGCTACTAAATGTAGAGAAAGACATTCATAGCTTGAACCTTCTGGTCACT
TCATTCCCTTTACATAAAAAAAGGTTTTGCTTGCTTTTCCACCTA
Found at i:461661 original size:17 final size:17
Alignment explanation
Indices: 461639--461683 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
461629 TGGGGAAGAA
*
461639 AGGAAATCTGTCTTTAT
1 AGGAAATCTGTATTTAT
* *
461656 AGGAAATTTATATTTAT
1 AGGAAATCTGTATTTAT
*
461673 AGGGAATCTGT
1 AGGAAATCTGT
461684 GCTTACTAAG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (17 bp):
AGGAAATCTGTATTTAT
Left flanking sequence: Indices 461139 -- 461638
CTCCCTGTCAGCTCCCTTCAACCATACATATATCTTAAATCTAGCTGGGTGCATGCAGACGTTTG
CGGACATCACCTATGGTGAATTTCCCGAAGCACATCTCGTTGGATGGATGTCGTTGCCGCGAAGT
GAGCTGGGCCACCTTCTGAGCGGAAGTGCCTTTGTAGCCTAGATCGTGCTCAGCTGGATAGGTTC
TTACTCTTACTTACGGATCGAAATAACAAAAGAAAGAACTAGAGCCCTGCTGTTCTAAAGCACAA
GTAAGGGCTTTTTTGTTCTACCAGAGAGAGTCTATTCTCACACTGAATCAATCATTCGAAGGGTC
GGGGAAGGAAGCGATGATCGGTCTATCCCATTAAGCGTAATCCCGTTAGCCAATGAAAGGACTAC
CTTTCTTGGACTGTGAGCGACGACACCAGATCAGAGCTAAGCGAGAAACGAGAAGCTGCGGTGAA
TCAATCAGTATTAGCTAAGGCAAGCATTCTAATTCTGGGGAAGAA
Right flanking sequence: Indices 461684 -- 462183
GCTTACTAAGCCTTTGTTTGAAGGACCGGTCTGAAAGTGCAAGACTAGCTGGACCCGGACTGACT
AATCGCTAAGAGCTCGTCCCGAGAGAACTCTCAGTACGGCATTCAGTAAGAAGTTAGCCAAGTTC
TGTTAGCCGTTACGTTAGGGTGACTCGAGAAAGTTTGAAAGGGAATTCCGATAGCCCTTAAGCTT
CAAGCCGTGAAGGAGGAATCCGAGTTACATCCTCTTAAAATAAGGAAGATCGTTCATCAGCGCTT
TCAGTAACTAAGAGTCAATCAGGTGCGTAATCAAGCTCATCTCATTACTTAGGATCTCACTCTCT
CAATCTCCTATCTGGATTCTTTGCTTAGTCAGAGTTGAATCTTATAATAAGGACAAGAAAGACTG
GCATTCAGGTAAGGCATGATTCGGAAGATAGTGAATCTCTCCTTACTTGACTCTAGAAAGCTCTT
TCTTTGCAAGTGGCAAGCAAGACTATGGTTAGAGGGAAGGAATAA
Found at i:472492 original size:28 final size:28
Alignment explanation
Indices: 472452--472515 Score: 128
Period size: 28 Copynumber: 2.3 Consensus size: 28
472442 GGTACAGAGA
472452 GGGAGAGGTACGTAGTCACTCGACCAAC
1 GGGAGAGGTACGTAGTCACTCGACCAAC
472480 GGGAGAGGTACGTAGTCACTCGACCAAC
1 GGGAGAGGTACGTAGTCACTCGACCAAC
472508 GGGAGAGG
1 GGGAGAGG
472516 GGAAGAATAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.28, C:0.22, G:0.38, T:0.12
Consensus pattern (28 bp):
GGGAGAGGTACGTAGTCACTCGACCAAC
Left flanking sequence: Indices 471952 -- 472451
TAGGAACGGAACGAGTAATCGAAGAAGAAGATTGTCTAGTCATCATACAGTCGGGGGAAGACTAT
CAGTGACCGAGCTTCTAATTGGTATTGGATTTGAACTCCCGAGATTTCCTTTTAGTCGTGAGTGT
CGTCCTCCTAAAATAAAAAACTGGCATCTCATATAGATGCATTTTCTTCTAATTTACTTTTCTTT
CTGAGACGACTAGTCAAATTGAAAAAGTTGCAACTTATATAGCTGAAAAATGTTGTAATTTCATT
TCCTAGGAGAAGTTTTAATCCCTTTGACACCTTATGAAAAGAAAACTAAAATGGTTATTTATGCC
CTCAGTGAAAAAACCTATCATCAACATTCTACTATACTACGTATAGTAGTTGGCAATCTATAGAT
AGTGCCATGCTTTTGACGATTATGGGCCCTGAAATATTAGAAACAGGAGAAGAATACCGAGCGTT
CTTGGAATTGGAAGGCGAGGTGCCGAGGCGTCGATGGTACAGAGA
Right flanking sequence: Indices 472516 -- 473015
GGAAGAATAGAAAGAATAATCCGGCTCACAACCTTTAAGTTAAGAGAGCCACGGCCGATGTGAGG
AAAGGACCCCAAGCCCCAAGAAAGGATAAGGGTCGAGATTAGGGCACATTTGACGGAGAAGCCGC
TAGAGCGCGTTTTCAGGCAGGGGTGCCCCGCTCTAATTGTGACCCTTGAAAGCTTTCGTATCAAT
TCATATTTAGCCGCGTGGGATTTCCGCTTACGAGAAGCCCCTAGCGCAAAAAGATAAGGGGGAAA
CTCAGTAAGATGTCGGAGAAGCGAAATATACGAGATCACAAACGTAGATTGCTCGCGGCTAAATA
TGAATTGATACGAAGAAAAATTTGTAAAGATCCCGATCTTACTAGTGATATGCGGGACAAAGATC
GTTATAAGTTTTCCAAGTTGCCAAGAAAAAGTTCCTTTGCACGAGTAAGAAAGCGATGTCTTTTC
ACGGGTCGCCCCCGTTCCATATATGAGTTCTTTCGAATTTATCTT
Found at i:577375 original size:35 final size:35
Alignment explanation
Indices: 577329--577408 Score: 160
Period size: 35 Copynumber: 2.3 Consensus size: 35
577319 GGCCCTTTTG
577329 CGACTCAAACTGCCGGTACGCTTTCCGGCTCGCAA
1 CGACTCAAACTGCCGGTACGCTTTCCGGCTCGCAA
577364 CGACTCAAACTGCCGGTACGCTTTCCGGCTCGCAA
1 CGACTCAAACTGCCGGTACGCTTTCCGGCTCGCAA
577399 CGACTCAAAC
1 CGACTCAAAC
577409 GGGCGGAGGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.23, C:0.38, G:0.21, T:0.19
Consensus pattern (35 bp):
CGACTCAAACTGCCGGTACGCTTTCCGGCTCGCAA
Left flanking sequence: Indices 576829 -- 577328
ACCTCCGATCAGACAGAAAGATGCGATCGTTAGAGATTCGACGATTCCCGGTTGGACCTATTCAA
GCGATTGAACGAGATACTCGACAACTAGAAAGACGCACTTGAATACTGAATGCTATGAGTCGAGA
GAGAAAGAATGAATATCACCAACCATAAAGACGATAAAAGAAGGCACTCCCGTTCCCCCGAAATC
ATCTTCTGTGCGTGGTTATCCAATCATGATGTGGTAGGCTTAGTAGGGCTCGAACCTACAATCTA
ACCGTTATGAGCGGTACGTTTCAACCAATTAAACTATAAGCCCCTACGGATCTCTACATGCAATT
CGCTCACTTCGGGAAGAGCGGACGGAAGGCGACGGGGAGGCCTTTGCTCTATCTGCTTCTTCCTC
TTCTCAGGAATGAAGAATTAGATAAAAAAAAATGGATTATATTATTATATATATAATATTCTATA
TCTATTATTAGAATTAATAATATAATTAAGCAAGCGGCCCTTTTG
Right flanking sequence: Indices 577409 -- 577908
GGGCGGAGGCTCTCTATTTGCTTGCACTGCCGGCTGTTCGCCTTTAGTTAGAAGTAGAAGTCGCT
CTTTGCCCCACACTTCTAAAAAAGTATGGATTAATTAAGTAAGAAAAAAAAACTTGGTTACGGGA
ACCGAAGGTTAGGCCGACTACTTACTTTCTCCTTACCCTTAACAGGATTGTCTCCTACCGATCGA
GGAAAGGCTTAGAATCCATGCTTTGACCGGTAATGTCCAATCTAAGAACGTCTTGTGCCTTTTCC
TGGGCCCCCTTCATTCTGACTTAGCTAATTTAATTCTTTCTATTTCTAATGGGCTTATACTTTTT
TCTATATCCCCTGAGAAAAGAAAGTCCTGCTATATCTAATGTATTTTTTCCAGGACCGCTTGCTT
CTGATCGCGCTTTAGAGTCTGTGCCGGTTGATGATCCTCAGTCGCAAGGTCAAAGAGGGTCTGAT
TTCTAGCATCTATGAAATCACTAAGTCTGGTAGGCTTCTGCACAT
Found at i:617127 original size:20 final size:20
Alignment explanation
Indices: 617102--617140 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
617092 AGGTAACTCG
617102 AGAGTA-GAAAGAACTAGAAT
1 AGAGTATGAAAGAAC-AGAAT
*
617122 AGAGTATGACAGAACAGAA
1 AGAGTATGAAAGAACAGAA
617141 CCAGTAGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.54, C:0.08, G:0.26, T:0.13
Consensus pattern (20 bp):
AGAGTATGAAAGAACAGAAT
Left flanking sequence: Indices 616602 -- 617101
GATCTTCTTTCTCCGTTGTGAAAGGAGTTGGTTCCGTAGTTTTAGAATTCGGCTGATCCCAAGTA
CTCCATCTCCATCATTGCATATTTTTATATAGAAAGTAAAGAAGAAAAGGCATAACCAGAAGAAT
TGTGTAAAATAAGTAAATTTATCCAGTTGAGGCATGATTGATTTGAGAAAAAAGAAATTCTTACT
TCCAGAAAGAAGGAGCTCCCTTCCTGTACGAGTAAACAATAGATAAGGTTTGCTTGTTGGTTGTT
GACCAACAGAAAGCATGGGATGCCCCACAACAAATAGATGGGAGCAGGAAATCTTTATCATTCGG
CGTAGTGCAGCTTATATAGAAGGGGCAAAGCGCTGTTCGTGGCACAGCTTTCTTATATTACGATA
TTTTCATTGATCGTAGCTAATTAGGTGGCAACAACCGAAGAAGCAGAAGAAGTAGCTGCTACCGC
TTCGTGGGCTTCTTCTTTTTCTGAGTCTGCTCGAAAGGTAACTCG
Right flanking sequence: Indices 617141 -- 617640
CCAGTAGCTTTGAGCTTTCACGTGTTTCAGCTCTTGTTCACAATCCAGCTGCTATTGAATCAGCG
TAAGGAGATGCCGATGAGGGTACAATAGAGAAAAGAATGAGCTTTTGTTCAGAGCTTGAATCAGA
ATATCCTTCAGTAACTCCAGGATTCCCCTGGTAGGGCATACAGGACATACCAGGTGAGAAGTTCG
GGCGGAAAGATAGATCGAGTTTACTTTACCCTCTTGATTGACTTTCACTTTAGGACTGAAAGATA
GCAAAGGAAATGGCAGCAGTGCTTTATATAACTGCTTTTAGGTCTTCGTTGATCACTTCTGCTTA
ATTCTCTTTCGAAACCTAGAAAGCGAGAAAGAGAATAGTGAACGACTCCGATGCTATTTCTATTT
AATATTTAAGAAGATGGAGGAATAAGCGATGCTGCTAAGATCCGCAGTCGATTTAGCTCTTGAGG
GAAGGGAAAGGCGTAATTTGATGGGCTTTTAGGACTGGCCCGGAG
Found at i:688616 original size:19 final size:19
Alignment explanation
Indices: 688581--688619 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
688571 GAGCAAGCCC
*
688581 AAACAGAAGCAACAAGAAA
1 AAACAGAAGCAAAAAGAAA
688600 AAACA-AAGCAAGAAAGAAA
1 AAACAGAAGCAA-AAAGAAA
688619 A
1 A
688620 CAGCTCTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.72, C:0.13, G:0.15, T:0.00
Consensus pattern (19 bp):
AAACAGAAGCAAAAAGAAA
Left flanking sequence: Indices 688081 -- 688580
GATCTTCACTGGTCGGAGGCTAAGAGCTTTCTTTGACTCTGAGTCATATGGGATGGGTCCCTACT
CTCACTATGGCATAGTGGCCCAACGGTTCCTATGAAAGTCATAGCCGGACCTACTCTCCTCTCGC
CGATGGTTTGAGAGTTGCGTTGGCGTGACGCTAATCTACTTTCGAGTGCTTGAGTTTCACTCATG
TAGAGATAACGAAGGGAAAGGGCATTTGAGGGAGAGCCCAACCCAAGGGAAGGGGCAAAGAAAGG
ACCTGAGCACATTGACATCGAAGAAAAGGCCAATGAAAATAGGGAAAGTCCTATTCAAGCCGCTT
TACCGACGAGGTTAAAGAGCGGTAGCCCCTCCTTCGAGCAAGCAAGCGGCACTAAAAGCAGGATG
AAAGCAAGCAAGGAGTGTAAGCCACTTGCCCGATAGGGTAAGGAGCGGAGACCCTTCCTTCATTC
ATTAAGTTTAGGGATTTGAGTCAGGGATAACAGAGGAGCAAGCCC
Right flanking sequence: Indices 688620 -- 689119
CAGCTCTTTGTCTTACTGTGCCCGAGGAAGGGAAGAAAGAAGATGACAGACAAAGCACAACGGAG
GAATGAACTTCAAGCATGGAGGGGGAAAGTAACGGCACTCAAAGCTGTCTTCCATCAACCAAGCA
TGAAACAGAAGCCATGGACTAAGATGACTGGACAGGAGCGATAAGCAGCTATCAGCCACTCGAAC
CAAGTTAGAGGTTTTTTTCATGAGAGTCTTTCTAACATTCTTCACCTGAACCCGGGAACAGCTTT
GACTTAGATACTCTATTGTCAGATAGTTGAATGGCACCGGGAATGGATTAGGGAGCAAAGGAGAT
TAGGGAAAGTCCTCTGAAAGCCCTTTTTCCAACTGAGAGGGGCAGGAGAAGGATAGAAAGGTAGT
TTCCTCCAGCAAGAGGGATGACTTCTTCCTTTCCGCAAATAACAAGCGCTTTTCTTCGCCACATC
GCGTATAACGGGAATCGAACCCCCCTGCTGCTGGCGGGCGGATGG
Found at i:702908 original size:24 final size:24
Alignment explanation
Indices: 702881--702928 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
702871 TCTATTCCAT
702881 TAGCCGAGGAAAGAAGTAGCAAAG
1 TAGCCGAGGAAAGAAGTAGCAAAG
702905 TAGCCGAGGAAAGAAGTAGCAAAG
1 TAGCCGAGGAAAGAAGTAGCAAAG
702929 GAATCTCGCT
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:0.46, C:0.12, G:0.33, T:0.08
Consensus pattern (24 bp):
TAGCCGAGGAAAGAAGTAGCAAAG
Left flanking sequence: Indices 702381 -- 702880
CCCCTTCAAAGTTTCTCATTCTTTCTTCCCTTTTCGCCCGCTTCGCTGGAATCTTGTTCTCTCCA
TAAGGAGGTTCTATAGTCACCCGATCTCTACACGATGCTGCGGAGCACCTCTTGTAGTCTTTGGC
TGACCTGATTGGTGCTTTCGTAGCGGGGAATGCACTTCGACTCCCCCTATCCCAGACAGAATGAA
GCTTTCACACTCCTTCTCTATAGTTGATCCATAGCTTGAACAAGACAGCTGCACCAGGATAGTCA
GAAAGAAGTAAAGCGCATCCACAACTGCCGCAGAAAGAAGAGGAGCATCTATACTATCTTCCGCA
ACTTCCGAAAGAGCCACATCAAGAACAAGAGCGGGTACCGCATGTGCCGTAAGACAGGCAGGAAT
GGGATATATATTTGAAAGAACAATAGCAAGGAGAGGACCAATTCTTCCAGATGAAAGATGACTAC
CAATGAACCAGGCAGGGACTAATCAAAATAAGGATTCTATTCCAT
Right flanking sequence: Indices 702929 -- 703428
GAATCTCGCTATCGTGGGAGGAAATAAAAAAGTAGGATAGGAAGCTCTATTTGATCTAAGGGATG
GCTAAAAGGCCAAATCCAGCTAAGAACAAAAAGAAGAGATCAAGGAGAGGGATATAGCTCTTTTT
ACGGGAGCTAGACGAGCACTCGCAAGAGAGCGACCGGCAGATCTAAAACTGCTCTAGTAAAGTAG
AACGAAAGTAGTCTAGGCACACGAGAGAAAGCAATTCAGGGCATTTGAATCGACGATAGCGAGAT
ACATAGCCCGTGAAGTCTCCCTTTGGACTAAGAAATCGGCACATAGTAGAATCGAACTGATGTAA
TGGGCGGAACGCTCCCCTACCGATGCCTTAGGCCCAAAAAAGCTTTCTTTTTCCTCAGGGGAGAC
CAGGAGCCATTGATTGAATCCTTCGAGCTAGTCGGCGAAGGGACCAATGGGTATGATAGAATAGA
TAGGAATGCCAGAGCGTCAATGAAATTCATGTTTTCCGGTTCTCC
Done.