Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_037476
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: 242410
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Found at i:27642 original size:15 final size:15
Alignment explanation
Indices: 27622--27650 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
27612 AGTCATTTCC
27622 GCCGCCATAAGAGCA
1 GCCGCCATAAGAGCA
27637 GCCGCCATAAGAGC
1 GCCGCCATAAGAGC
27651 TGCTTTCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.34, G:0.28, T:0.07
Consensus pattern (15 bp):
GCCGCCATAAGAGCA
Left flanking sequence: Indices 27122 -- 27621
TGGTGGATGATTAATTGTGGCGAATCATCCATCAACTTCGTGGATTGATCGAAACGTTTTTCAAT
CCGCGACAAGTCTTAGCATTAGTCTGAGTTCGTTGACCACGTAGGGGTAATCCTGCATTGTGACG
AAATCCACGATAACAACCAATACTGATTAATCGTTTGATATCTCTTTGAATCACTGCTTTCAATT
CCGAATCAACTAGAGAATTCTAACCTATTATTTTGAGAATCTTGTCGATCTAATACAACGTTAAC
TTATTAACCCTTTTTTTAATAAATATCTCACCACCCTTCAGAGCCGCTCGGGAATTCCTCCCGTT
CTTGCATTCTCCTCTTCGAGCTCCTCCTCCGGTCATCTTTCCTCTCCGGACGGCCTCCGCCGCCT
TCTTCACTTCCTTTCCTCTCCCTCTCCTCTTCTGATGCTTCTTCATTTTGTAACCTTTGGATTAT
ATAATTAAAGACTTTAAGTCCTAGTCTTTCAAAATAGTCATTTCC
Right flanking sequence: Indices 27651 -- 28150
TGCTTTCTTCTTCTTTATTAAACCATAGTTTTGGTATTGCCGCGTCGATGTAGTCGGCGCCTCTG
CGGCTTTCGTCGCTTCCGCCTCCGCTTTGGCTGCTCTTCACCCTTTTTAGTAGTTTTGGCTCCGC
CCTTGACTTTAAGTAAACGGCATTAGCTAAAATGCTGAGGTTTATACATTCCTCTTTAATGAAAC
TCAGTTGACTGTCATTAGGGATGTATATTTCATTCTGGTGAGCATGAAGCTGTACCGTTTTAATC
CTTTTTTTTAAAGCTTCTTGAGATATAACGGATAAGCAGGGTCCCGTTTCATAATCCAACACAGT
CGCAGAGTCCTCTGTGGTTAGAAAAGGTCTATTGCCAGTTAATATAAGAGCTCCTTGGTGAGAAA
GCTGTTTTGTTTTCTCATATTTTTGTTCGGCTGTTATATTATTTCTGTCAAGTAGGTTGATAAAT
TCCCCTAGAGTCATTCCTAGCTGGGTCCAATCCACCTCGTCTATA
Found at i:29866 original size:12 final size:12
Alignment explanation
Indices: 29849--29884 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
29839 CTCAGTAACC
29849 CCCCCGCAAACA
1 CCCCCGCAAACA
29861 CCCCCGCAAACA
1 CCCCCGCAAACA
29873 -CCCCGCAAACA
1 CCCCCGCAAACA
29884 C
1 C
29885 GATTAATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.48
12 12 0.52
ACGTcount: A:0.33, C:0.58, G:0.08, T:0.00
Consensus pattern (12 bp):
CCCCCGCAAACA
Left flanking sequence: Indices 29349 -- 29848
CTCTTCTAGAAATTGTCGAGGTTTTTTTATGCATTTCTATGCCTATAACAGCTCCCGCTATTAGA
AATAATTTATCTAAATCGTCTAAGAGTGAGTTCAAGATTCGTTTCAAGGAATCCCATTGATTTAT
AATACTTCCATTTGGTTGCTGTGGCATTGTTAAGGTTATAAAGTAAGCATCGCAGTTATGTTTTT
CATATAGAGCCTGTGCAATAACGTAAACACTCTGATTCAAAAGAGCATTCTTGGTTGAGTCTGCT
CTGCGTTTTTCTATAAATTGCATAAGATTCTCTTCGAAATAATCACTCTTTATGCCGGTAATAAT
ACCATTTTCTGTCTTCGGCCGCTGATGTATTCTCATAATTCGTCATTTTGTCTTCTAAATAAAAC
TTTCTACTAATTAAATCCAAAAAATGTAACAACAAAAAGCGTTCACGCGCCTTTGAAGCTTGGTT
AGTTAATATATCTTCTTCTCAGCCTTTCCTATCCTCTCAGTAACC
Right flanking sequence: Indices 29885 -- 30384
GATTAATGTATTAGCGTGATATTCTTTCAGCGAAGAAAGGGCAGGTTTAGCGGCTATTCTCTCCT
TTCAGTGCAGGTTTAGCGGTATCTGCTTTCGGAGAAGAAAGGGCTGGCTATCTTAGCGTTATCTG
CTTTCGGAGAAGAAAGGACAGGTTTAGCGGCTATTCTCTCCTCCGGTAGCAGCTGCTCCTTGATT
TTAGCGGCTATTCTGTCTTCCGGCAGCAGTTGCTCTTAATGGCTAGGTTGGGAATCCCCTTAAAA
GGATTCCCAACCTAGCCTGGGGTAACTGTCTGTCTGTCTGTCTGCCTGTCTGTCTGCCTGTCTGT
CTGTCTATCGGTCATCCTTGCGGTGGCGGGCGGCTCTTTTTGGTATGCCCGCCTGCCAGCCATGG
CTCCGTCCTTTCTTCCTTCCCTTTGCTGAGTAAGCTTGCGGCTTTTCTGAGCAGAGATAGGGGGG
GCTGCGGCTCGTGCGGGAGCGAGCAGCAAGGTGGCAGCTGCCGTG
Found at i:29876 original size:11 final size:11
Alignment explanation
Indices: 29850--29884 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
29840 TCAGTAACCC
29850 CCCCGCAAACA
1 CCCCGCAAACA
29861 CCCCCGCAAACA
1 -CCCCGCAAACA
29873 CCCCGCAAACA
1 CCCCGCAAACA
29884 C
1 C
29885 GATTAATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.34, C:0.57, G:0.09, T:0.00
Consensus pattern (11 bp):
CCCCGCAAACA
Left flanking sequence: Indices 29350 -- 29849
TCTTCTAGAAATTGTCGAGGTTTTTTTATGCATTTCTATGCCTATAACAGCTCCCGCTATTAGAA
ATAATTTATCTAAATCGTCTAAGAGTGAGTTCAAGATTCGTTTCAAGGAATCCCATTGATTTATA
ATACTTCCATTTGGTTGCTGTGGCATTGTTAAGGTTATAAAGTAAGCATCGCAGTTATGTTTTTC
ATATAGAGCCTGTGCAATAACGTAAACACTCTGATTCAAAAGAGCATTCTTGGTTGAGTCTGCTC
TGCGTTTTTCTATAAATTGCATAAGATTCTCTTCGAAATAATCACTCTTTATGCCGGTAATAATA
CCATTTTCTGTCTTCGGCCGCTGATGTATTCTCATAATTCGTCATTTTGTCTTCTAAATAAAACT
TTCTACTAATTAAATCCAAAAAATGTAACAACAAAAAGCGTTCACGCGCCTTTGAAGCTTGGTTA
GTTAATATATCTTCTTCTCAGCCTTTCCTATCCTCTCAGTAACCC
Right flanking sequence: Indices 29885 -- 30384
GATTAATGTATTAGCGTGATATTCTTTCAGCGAAGAAAGGGCAGGTTTAGCGGCTATTCTCTCCT
TTCAGTGCAGGTTTAGCGGTATCTGCTTTCGGAGAAGAAAGGGCTGGCTATCTTAGCGTTATCTG
CTTTCGGAGAAGAAAGGACAGGTTTAGCGGCTATTCTCTCCTCCGGTAGCAGCTGCTCCTTGATT
TTAGCGGCTATTCTGTCTTCCGGCAGCAGTTGCTCTTAATGGCTAGGTTGGGAATCCCCTTAAAA
GGATTCCCAACCTAGCCTGGGGTAACTGTCTGTCTGTCTGTCTGCCTGTCTGTCTGCCTGTCTGT
CTGTCTATCGGTCATCCTTGCGGTGGCGGGCGGCTCTTTTTGGTATGCCCGCCTGCCAGCCATGG
CTCCGTCCTTTCTTCCTTCCCTTTGCTGAGTAAGCTTGCGGCTTTTCTGAGCAGAGATAGGGGGG
GCTGCGGCTCGTGCGGGAGCGAGCAGCAAGGTGGCAGCTGCCGTG
Found at i:30179 original size:4 final size:4
Alignment explanation
Indices: 30170--30215 Score: 74
Period size: 4 Copynumber: 11.5 Consensus size: 4
30160 CCTGGGGTAA
* *
30170 CTGT CTGT CTGT CTGT CTGC CTGT CTGT CTGC CTGT CTGT CTGT CT
1 CTGT CTGT CTGT CTGT CTGT CTGT CTGT CTGT CTGT CTGT CTGT CT
30216 ATCGGTCATC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.00, C:0.30, G:0.24, T:0.46
Consensus pattern (4 bp):
CTGT
Left flanking sequence: Indices 29670 -- 30169
TAATACCATTTTCTGTCTTCGGCCGCTGATGTATTCTCATAATTCGTCATTTTGTCTTCTAAATA
AAACTTTCTACTAATTAAATCCAAAAAATGTAACAACAAAAAGCGTTCACGCGCCTTTGAAGCTT
GGTTAGTTAATATATCTTCTTCTCAGCCTTTCCTATCCTCTCAGTAACCCCCCCGCAAACACCCC
CGCAAACACCCCGCAAACACGATTAATGTATTAGCGTGATATTCTTTCAGCGAAGAAAGGGCAGG
TTTAGCGGCTATTCTCTCCTTTCAGTGCAGGTTTAGCGGTATCTGCTTTCGGAGAAGAAAGGGCT
GGCTATCTTAGCGTTATCTGCTTTCGGAGAAGAAAGGACAGGTTTAGCGGCTATTCTCTCCTCCG
GTAGCAGCTGCTCCTTGATTTTAGCGGCTATTCTGTCTTCCGGCAGCAGTTGCTCTTAATGGCTA
GGTTGGGAATCCCCTTAAAAGGATTCCCAACCTAGCCTGGGGTAA
Right flanking sequence: Indices 30216 -- 30715
ATCGGTCATCCTTGCGGTGGCGGGCGGCTCTTTTTGGTATGCCCGCCTGCCAGCCATGGCTCCGT
CCTTTCTTCCTTCCCTTTGCTGAGTAAGCTTGCGGCTTTTCTGAGCAGAGATAGGGGGGGCTGCG
GCTCGTGCGGGAGCGAGCAGCAAGGTGGCAGCTGCCGTGCCTTTGGCTGGCTCTTCTGGGCAGCT
AGACTTTCCTTTCTTCTTGTATGTAATAGTGTTGTTTTGTTACATGTAACAAAGCTTTTGTTTGT
ATTTGTCTATTAGCCTCTTATATTATATGTGCTAATACATGTAACAAAATTTGTTAGTCTTTATA
GTAAAATGGCTTCATCTGTGCAATAAAGAGTACAGGCTTTGTTGGTATTTATCGTAGATTACTCT
TATATGTAATAAAGAGTATTGGTTTTGTTGGTATTTATCTGTTTGTCAAGGGTAAAGCATAAGCT
GCTGCTATTTCAAAACGTCATCCGCCGCTGCAGTTAGCGGGCTTG
Found at i:32104 original size:24 final size:24
Alignment explanation
Indices: 32072--32119 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
32062 GTTCCTTCAG
* *
32072 CTCCTGCTCTTTCTCTTCTGGCTC
1 CTCCCGCTCTTCCTCTTCTGGCTC
*
32096 CTCCCGCTCTTCCTCTTCTTGCTC
1 CTCCCGCTCTTCCTCTTCTGGCTC
32120 TTCCAGCTGC
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:0.00, C:0.46, G:0.10, T:0.44
Consensus pattern (24 bp):
CTCCCGCTCTTCCTCTTCTGGCTC
Left flanking sequence: Indices 31572 -- 32071
TTGGAAACTCGTAACCCAGTGTAATAAAGTAAAATAAAGGCAGTTCTTTTCCTAGCGGTAACAAA
GCTTCCTCCCCCTCCTCCTTCCTCTTTTTTTCCTCCGCCTGAGTTCAGTGAACTTAAAATGAATT
TAAAATCGTCTGGTGAGATGCTGTCCCTTAAAAGAAGTCTTTTAGCTTTTTGTCTTCTTTCCCTG
CGTTGTTGGGCGCGCAGCCGTGCATTTTTCATAACTTGCATTTCCTCTTTAACGAAATCTAATTT
TTGTTGTAATTCGAGGTTGTTTTTGTATAAACAGCTATTTTGTTCGCCTATTTGAGTAAGTTTAA
GGTGAGTATCCGTTCTGAAATCAAGAAAAAATCGTGGCCAGTTACCTGCATAATCCCGGCTAACC
TGTTCATTATAATCGATTATTTCCGGAGTTGCCGCTGCTTTCTCCTGCTTTTTCAGCGGCTCCTC
CTCCTCTGGCTTCTGCTCTTCTGGCTCTTCCTCTTGTTCCTTCAG
Right flanking sequence: Indices 32120 -- 32619
TTCCAGCTGCTCCTCTACTTTTTGCTGTTCCGGCTCTTTTTCTTCTTGCTCTTTTTGCTCCTCCT
GCTTCAGCTCTTCTGGCTCCTCCTCCGTTGTTGTTGAGTGGCCGCCTCTTTCTTTAGGGTCTAAT
AAAAGGTTCTTCTTCTTTTCTTTCATTTCTAGAAGAGCTTCTTCCATCTGATTGGGTGTAAGTAA
AAATAATGCTTTGTGCGGCTTATTGTTAAACCTTTCGATAGCCTTTTGTAAGGCAGCACCATTGA
TTTGTTGTGATTCAGCTGTTAAAATCTCTTTTAAAGTTCGAACCGTTCTTTGAATGACCTTCAGC
TCCTCAACGTGGCCCCCGCTCGTTTGTTTAGCCGTCGTACTCGATTTAATCTGATGCTGATGAAG
AAATTGGTGATATTGTTCTTCTTTGTTTTCCGGCAATAAAAAGGCATTTGAATGCATTATAGAAA
GAGTTAAAAAACTTCTTTGCTTGATAATATAAGATAGGCAATCAA
Found at i:32133 original size:24 final size:24
Alignment explanation
Indices: 32072--32135 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
32062 GTTCCTTCAG
* *
32072 CTCCTGCTCTTTCTCTTCTGGCTC
1 CTCCAGCTCTTCCTCTTCTGGCTC
* *
32096 CTCCCGCTCTTCCTCTTCTTGCTC
1 CTCCAGCTCTTCCTCTTCTGGCTC
*
32120 TTCCAGCTGC-TCCTCT
1 CTCCAGCT-CTTCCTCT
32136 ACTTTTTGCT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 33 0.97
25 1 0.03
ACGTcount: A:0.02, C:0.45, G:0.11, T:0.42
Consensus pattern (24 bp):
CTCCAGCTCTTCCTCTTCTGGCTC
Left flanking sequence: Indices 31572 -- 32071
TTGGAAACTCGTAACCCAGTGTAATAAAGTAAAATAAAGGCAGTTCTTTTCCTAGCGGTAACAAA
GCTTCCTCCCCCTCCTCCTTCCTCTTTTTTTCCTCCGCCTGAGTTCAGTGAACTTAAAATGAATT
TAAAATCGTCTGGTGAGATGCTGTCCCTTAAAAGAAGTCTTTTAGCTTTTTGTCTTCTTTCCCTG
CGTTGTTGGGCGCGCAGCCGTGCATTTTTCATAACTTGCATTTCCTCTTTAACGAAATCTAATTT
TTGTTGTAATTCGAGGTTGTTTTTGTATAAACAGCTATTTTGTTCGCCTATTTGAGTAAGTTTAA
GGTGAGTATCCGTTCTGAAATCAAGAAAAAATCGTGGCCAGTTACCTGCATAATCCCGGCTAACC
TGTTCATTATAATCGATTATTTCCGGAGTTGCCGCTGCTTTCTCCTGCTTTTTCAGCGGCTCCTC
CTCCTCTGGCTTCTGCTCTTCTGGCTCTTCCTCTTGTTCCTTCAG
Right flanking sequence: Indices 32136 -- 32635
ACTTTTTGCTGTTCCGGCTCTTTTTCTTCTTGCTCTTTTTGCTCCTCCTGCTTCAGCTCTTCTGG
CTCCTCCTCCGTTGTTGTTGAGTGGCCGCCTCTTTCTTTAGGGTCTAATAAAAGGTTCTTCTTCT
TTTCTTTCATTTCTAGAAGAGCTTCTTCCATCTGATTGGGTGTAAGTAAAAATAATGCTTTGTGC
GGCTTATTGTTAAACCTTTCGATAGCCTTTTGTAAGGCAGCACCATTGATTTGTTGTGATTCAGC
TGTTAAAATCTCTTTTAAAGTTCGAACCGTTCTTTGAATGACCTTCAGCTCCTCAACGTGGCCCC
CGCTCGTTTGTTTAGCCGTCGTACTCGATTTAATCTGATGCTGATGAAGAAATTGGTGATATTGT
TCTTCTTTGTTTTCCGGCAATAAAAAGGCATTTGAATGCATTATAGAAAGAGTTAAAAAACTTCT
TTGCTTGATAATATAAGATAGGCAATCAATAATATCTTGAATCTT
Found at i:32903 original size:74 final size:75
Alignment explanation
Indices: 32816--33012 Score: 274
Period size: 74 Copynumber: 2.6 Consensus size: 75
32806 TTTTATGAAT
32816 TCTTTTGTTTATGCAATTAAAGAAATGTTAAGTTGCAGCCTGCTTATGAATTCTGCCTCTTC-C-
1 TCTTTTGTTTATGCAATTAAAGAAATGTTAAGTTGCAGCCTGCTTATGAATTCTGCCTCTTCTCT
*
32879 GCGGAATTCC
66 GAGGAATTCC
* * *
32889 ATCTTTTGTTTATGCAATTAAAGAAATGTTAAGTTGCAGCAT-TTTGTGAATTCTGCCTCTTCTT
1 -TCTTTTGTTTATGCAATTAAAGAAATGTTAAGTTGCAGCCTGCTTATGAATTCTGCCTCTTC--
*
32953 TCTGATGAATTCC
63 TCTGAGGAATTCC
* * *
32966 TTTTTTGTTTATGCAATTAAAGAGATGTTAAGTTGCTGCCTGCTTAT
1 TCTTTTGTTTATGCAATTAAAGAAATGTTAAGTTGCAGCCTGCTTAT
33013 CAACCTCTCC
Statistics
Matches: 107, Mismatches: 11, Indels: 7
0.86 0.09 0.06
Matches are distributed among these distances:
73 18 0.17
74 40 0.37
76 38 0.36
77 11 0.10
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.43
Consensus pattern (75 bp):
TCTTTTGTTTATGCAATTAAAGAAATGTTAAGTTGCAGCCTGCTTATGAATTCTGCCTCTTCTCT
GAGGAATTCC
Left flanking sequence: Indices 32316 -- 32815
AATAATGCTTTGTGCGGCTTATTGTTAAACCTTTCGATAGCCTTTTGTAAGGCAGCACCATTGAT
TTGTTGTGATTCAGCTGTTAAAATCTCTTTTAAAGTTCGAACCGTTCTTTGAATGACCTTCAGCT
CCTCAACGTGGCCCCCGCTCGTTTGTTTAGCCGTCGTACTCGATTTAATCTGATGCTGATGAAGA
AATTGGTGATATTGTTCTTCTTTGTTTTCCGGCAATAAAAAGGCATTTGAATGCATTATAGAAAG
AGTTAAAAAACTTCTTTGCTTGATAATATAAGATAGGCAATCAATAATATCTTGAATCTTAAGCT
TGTCTTTATAACAATGCCCTAGGATCCTCCGAGCTTCTAAATCAATAGCTGCGAAAAAAGATCCT
TCTCCCAGCTTAGTAATATGAATAAAAATAACGTGAAGTTTGCGACTTAAATACTGTTGTTTAAC
GATATTCTGCTTTTTCTGCTTTATATTTAGGGCCATTTTATGAAT
Right flanking sequence: Indices 33013 -- 33512
CAACCTCTCCTTTTCCGTTCAAAAGAGGGGGGGGTTGGAAAGCCGACCAGCAGCTTTCCTTGATA
AACTTAAATAAAAACTGCTTAGTATTTACACACACAAAATAAATGGATAAAATAAAGAATCTTCC
GGTTCCTCCGGCATCTCATTCTGGCCCGCTGTCTATTCCCTCGCCACTTGGTCCTTCTTCTCCCT
TCTTCTTAGTTTGAGGCAAGAGTCTCCGATACCAGAGAGTCTTATTAAATAAGCTTTCTGAGTAG
TTCCTCCGTTCGGGAACAGTAGGTAAATCGAGTTCGTCAGGAGGAGACTCTGCAGCTGCTCCTCC
TCCTTTTCCTTTACCTCCACTCTTTGAGTAAACTAAGTAAGCAACAACAGCCGCAACTAAAGCCG
CCGCAACGAACAACCCCGAACCCAAGAGGCCTTCTTCATAGGGTATTCCTCCATCTCCTCCAGGA
TGGCTAGAGAGGTCTTCTTCTGCTGGTATTCCGGGTTTAGTCTGC
Found at i:72049 original size:19 final size:18
Alignment explanation
Indices: 72021--72059 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
72011 ATCTTAAGAT
*
72021 TAGATTTTCATCTGGAAC
1 TAGATTTTCATCTAGAAC
72039 TAGATTCTTCATCTAGAAC
1 TAGATT-TTCATCTAGAAC
72058 TA
1 TA
72060 AATCCAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (18 bp):
TAGATTTTCATCTAGAAC
Left flanking sequence: Indices 71521 -- 72020
GGTACGTAGATTTTTGTTTCCATATAGACCGAGAGAACACCATCCTAAGTCCGAGTTAGCCACTT
GCAAAGTAAATCCAGACGCTACATTTGACATCAAAGCTGAGACAATCAAGACTTCAAGTAGTGCC
CTATGGTTTATGGCAATTCTTAGAAAGCCTTATATCTGATATTTATACGATGATTCATATGATGG
TTCATATGATGTTTCGTTGTTGAAGCTAGCTGCAGCCAAAAGTCAGAGTAGCTTCGCTCATGACT
AAAGCGCGACATTTAGCTAAAGGCGGATGTCTTTCCTGGATAAGTGATGCGACCCTATCCAAGCT
GCGCGTGCTTAATACTGCATGTTTGCTCCAAAACTATGAACCAAGCTTAGCTTGCTTGATAACCG
CCGCCCTGCCTGAGATTAGCCTTTCGGCCTCGTAACAGAACGCGAAGCTTGCCTGATACTTAGTC
TTGATATTTTAGACTAAATCTTCATTTTTATTTTGATCTTAAGAT
Right flanking sequence: Indices 72060 -- 72559
AATCCAAAATTAGAACTAGATGAAAGCCTGCCTTGCGCGCCGCCTTAACAAGCTATCGCATGTCT
TCGGTTGCCGTAGGCTCGCCTCGGCATTCTCACGAATGCCTTCGGATTATCTGAGACTTGAACTT
GAAGCCTGAATGGTCAGCTTGAGACAGAAGCGAACTTCTGTCATGAAATATGACAGTTTACACAG
AACCGCGTGCTTGGTGTACTAAACAGAACTAATGTTTTGTGTTTTTGGTACCTTTTCCCAAACAA
ATGAAAGATAAGGTCTTTTGGTTTTTGGTATACTTGTCATCAGCCTGAGCGTCCTGTGCTGCTGT
TTCTTGAAGGTTGGTATGTGCTCTCTTTAGTGTCTAGAAATAAGCCTTTTAATCTGAGTTTATGG
CCAGCATTCTAGCGTGAGAAGACTGCTGTCATCATTAGTGATTCTGGAGAAAATAAACTATTCCA
AATAAATAATAGAGAGAGTCGAACAGTAGGGTGAAGAGTCAAAAT
Found at i:155865 original size:16 final size:18
Alignment explanation
Indices: 155844--155878 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
155834 GTGCGTTTTT
155844 AAGAAGA-G-GGGAAGAA
1 AAGAAGAGGAGGGAAGAA
155860 AAGAAGAGGAGGGAAGAA
1 AAGAAGAGGAGGGAAGAA
155878 A
1 A
155879 GAGGAAGCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 1 0.06
18 9 0.53
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (18 bp):
AAGAAGAGGAGGGAAGAA
Left flanking sequence: Indices 155344 -- 155843
AGGCTGTCCTTGAGTAGGCGCGGAGGGCACGATAGACTTTTGCATGCCCTGATCGGTCCAAGATA
ACCGGAGTATACAAGATCGCCAAATCTTGCCCTAGAGTCAAGCTGTTAACGGGGTAAAATCCAGG
GGCTCCTGAAACGGATTTTTAGTCATCGGATCAGATACCAGGACAGAAAACAATCCAAAGAGCGA
AAGCTCACCCTAAAGGGTGAGATAGGCCACCATTCGCCTCCAGAAAGATAAAGTGCTGACTCGTT
CGGGGGGTGACAAAAGACTGAAAAAGCCACTCATATTGACCACGTCTTCAGGTGAAGACTTTTGC
TGCGCGCGTATTGGTCAATCGCAACGTTGCCATATACACAACTTGCAAAGTAGCAGAACATTTTA
GTAATAGCATAATTGCTGGAGCCAAAAGTAAGGGGCAACCCTGGTAGCCTGGGTCTAAAATCTTC
TTCGACACTAGAGGCGTATGATGGGAAACTATAACGTGCGTTTTT
Right flanking sequence: Indices 155879 -- 156378
GAGGAAGCTTGGAGCCTACCTATCTCCAGAAAGACAGAAGGATACAGAAGGGGTAACTTAGTCAC
CAGAGGATCCATCGCAGGGGAGGAGGCCACTTGGCCGCCGCCCATCAAGGTGCAAAACACTTGAT
GGGCGGCGGCCAAGGGGGCATGTAGTTCATGGCAAAGCTCAGATAAAGAAATGCGTTCTCTTTTT
TCCACTAAGCAGCGAACCCGCTCGCTGGTCAGGTGCGCGGCACTTCGTTAGCGAGCAAAAAAAAA
ATAGATTTTTTTCTTTTCTAAGAAATTTCCATTTTTTTGGTTATGCTTCTCTGAATTTTTGGCAA
GAGAAGAAAACAAGTTTTCTTCTCTGAGCGCCCCAAAGGTTGTAAAGATTCAAGCTAATTCATGA
TCTGTTTTTGGCGAATAACGGAATTCGAACCCGTTTTTTCAAATTCACAATCTGACACTTTCAAC
CCATTAAGTTATATCCGCCTTTCTTTCCAAATTAAACACTGAGAT
Found at i:156519 original size:81 final size:81
Alignment explanation
Indices: 156384--156533 Score: 257
Period size: 81 Copynumber: 1.9 Consensus size: 81
156374 GAGATACTCG
*
156384 CTATCGGATTCGAACCGATAACCCAGAGGAACAGATTTTGAGGCTGTCGTGTTTACCATTTTCAC
1 CTATCGGATTCGAACCGATAACCCAGAGGAACAGATTTTAAGGCTGTCGTGTTTACCATTTTCAC
156449 CAAGCGAGTATGCTCA
66 CAAGCGAGTATGCTCA
* *
156465 CTATCGGACTT-GAACCGATAACCCATAGGAACAGATTTTAAGTCTGTCGTGTTTACCATTTTCA
1 CTATCGGA-TTCGAACCGATAACCCAGAGGAACAGATTTTAAGGCTGTCGTGTTTACCATTTTCA
156529 CCAAG
65 CCAAG
156534 TGAGCTTGAG
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:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (81 bp):
CTATCGGATTCGAACCGATAACCCAGAGGAACAGATTTTAAGGCTGTCGTGTTTACCATTTTCAC
CAAGCGAGTATGCTCA
Left flanking sequence: Indices 155884 -- 156383
AGCTTGGAGCCTACCTATCTCCAGAAAGACAGAAGGATACAGAAGGGGTAACTTAGTCACCAGAG
GATCCATCGCAGGGGAGGAGGCCACTTGGCCGCCGCCCATCAAGGTGCAAAACACTTGATGGGCG
GCGGCCAAGGGGGCATGTAGTTCATGGCAAAGCTCAGATAAAGAAATGCGTTCTCTTTTTTCCAC
TAAGCAGCGAACCCGCTCGCTGGTCAGGTGCGCGGCACTTCGTTAGCGAGCAAAAAAAAAATAGA
TTTTTTTCTTTTCTAAGAAATTTCCATTTTTTTGGTTATGCTTCTCTGAATTTTTGGCAAGAGAA
GAAAACAAGTTTTCTTCTCTGAGCGCCCCAAAGGTTGTAAAGATTCAAGCTAATTCATGATCTGT
TTTTGGCGAATAACGGAATTCGAACCCGTTTTTTCAAATTCACAATCTGACACTTTCAACCCATT
AAGTTATATCCGCCTTTCTTTCCAAATTAAACACTGAGATACTCG
Right flanking sequence: Indices 156534 -- 157033
TGAGCTTGAGAAAGCAAAGCGCAGAACGGAGACAAAATCTTTCTGTTTTGCTTTCTCTTCGTCAT
TTTCTTCTTTAGACATCTCCACCTCGGCTTCGGCATACGAGACTTCCTTTGGCTTGACCAGATCT
GCGACCCCTAGATCTTTTGCCTTTGTAGGAAAGTGTGGGGCGATTATGCCGACGCCCTACTTTGC
CCACCCTCTGTGGGCTGCGTCGATAGTAGAGCGCTCTTCTGTATTCAAAGCCTGTAAAACTTCTT
CTCTACGGCTTTGTACCAGTCTTCAGATACGAGTCGCCAGCAAGAGTGCACTTGGCCATGCCTTT
TGTATGACACGGCTTTCAAGAAAAGAAAGATTCGAAGAAATCAGCTCTGGGAGTCTCGCGGAAGA
CTCTCTTGGCTAAAGAAAGACTAAGACATCCTAAAGGTTTAAGGAAAAAAAGCGCCGCTTCTTTG
ATTTCTTCCTTTCGTTTGCAAAACAAACCAAAGAGCAAAGCCCTA
Found at i:168628 original size:13 final size:13
Alignment explanation
Indices: 168610--168634 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
168600 GAAGCGGAGT
168610 CAAGAAAGAAGGC
1 CAAGAAAGAAGGC
168623 CAAGAAAGAAGG
1 CAAGAAAGAAGG
168635 AATGGGAGGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.12, G:0.32, T:0.00
Consensus pattern (13 bp):
CAAGAAAGAAGGC
Left flanking sequence: Indices 168110 -- 168609
CCATTCATGCTGATTCTTATCTTTAGTGCTTGTTGTCTTTTGCCTTGATTGAAGAGAAGAAGACG
CATCTCCCTAGGAAACTGAAGAGGAAACAGAGGGAAGGAATTACGATGAGACCCTGGAGGGCGAG
GGCTTAGCATTCACCTAGGAGATTCTTATGACGGGTTTAGACTGCCATCTACATGCGCTAGCTAA
AAGTAGCGCTTAGATGAACGCCTGTACCTTATATCTATCTGCAGTTCATGTACTCTTTGGTCAGT
TTCGTTTGTCTAGCTGCCACTTCTTCAACTGGCTCCACATGGCTAGAATAAGGAAAAAATCTTCG
GAGGCAGTGCAGGCCACGGCGGCGCAGAAGGGTGCTGGACAAACGGGGACAGCCGCCGACCCAGC
GAAGGAAAATACTCTAGAAGTTTTGGAGGGAACTTCTATTCTGCTATCCGAGGCCGCAGCAGAAG
GTGGTTATGCGGTATGGAACTCCAATGGGCATTCCGAAGCGGAGT
Right flanking sequence: Indices 168635 -- 169134
AATGGGAGGAGGTCGAAGTAAAGCAGGCAGAAAACCTCATGATCAGCTGGCAGGGTAGAGAATGA
GGGATGCAAATCAGGATTTAGAGTACGCGATAGATTGTCGTGATTAGCTTAGGCTTGACTAGTCG
CAAGTTCTCGCTTACAAAGAGGCAAAATAAAGAAAGCTCTAACTCAGTCTGAAGCAGCTGTAGGG
GAGGCGGCCAGTACGCAGATTCTTGTAGGTTCTATAGGAAAGTCACTCGGTTGGAGAGATTCTGG
CGCATTCCTCCCTCTTTCTTTTCTTTCTCTTTCCTGTTCTTTCTGAAAAGTATCTGAAGCCGAGG
CTCAAAAGCATGCTAGGGATGTTGGGAAGAAAATATTAACACCAGCACCTCAACCTTCGGACACG
AACGTAGTTTTAGGAGATAACCGGAAAAGGCACTTAACCCTTCGGATACCACCCTTCGGTCTTCG
AAAATTCGAGTTCTGGAGAGCGCTCGGAAAAGTTTTCTTCCCTTT
Done.