Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_066894
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: 543794
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Found at i:29630 original size:20 final size:20
Alignment explanation
Indices: 29605--29643 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
29595 CGAAGTAAAG
29605 TTTATAGTATACTAATACTT
1 TTTATAGTATACTAATACTT
29625 TTTATAGTATACTAATACT
1 TTTATAGTATACTAATACT
29644 CATGGGTAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (20 bp):
TTTATAGTATACTAATACTT
Left flanking sequence: Indices 29105 -- 29604
GGTATTCTGTACCAGCTCGAACCCCTCTAGCTATACTATAGAATAGAGGAGACGGCCGTAAGTTG
CATCTTTAGTCTTAATTAAGAATTGGAGGTTAAGACTCCCTTAGCGGCCCTATACATTGACCGGC
TTGGCGCACAAAAGTACTCCTACACTATTGTCTTCCTTTAGAGTAAAACCGATGTCGTTCTCTAG
TTAGTATGCTAGAGGGTCACATTAGTCCTTTTATACTGGGTAGTGGCACATTAGTAAAATTCCCC
AGAATAGATGCTGACCAACATAGATGGAAAAGCTCTATTCAATGCCGTTCTCCTGCTGTATGTCT
TAGGCTTTGTGTTACCGAGACCTCTCATAGCAGATGGAAAGTATAAAATGAGACTGATGTTTGTC
CAGGGTTGCGACACCTGCAATAAATATCATTAGCGAAGGTATCGCAGGGAAAGCAAATCTTTGAA
TGGTACTGATGGAAGATAGACCTGCAGATCATTAGCGAAGTAAAG
Right flanking sequence: Indices 29644 -- 30143
CATGGGTAGCTACAACAGCTATATCATTAGCGAAGGTATCGCAGGGAAAGCCAGTGTTTTACATC
TTACGAAAATAAAAAGTAAACTAGGAACACAATGCATGCACAATCTTGGTTAGATTTTTTGTCTG
AGATAGAGAACCTACAAATCTTTTCTCTATGTAAGGATTTCGACGAGCTTTCTTTGGAGGACAAG
ACTGGTCCTTCTTCGTCTTCATCTTCTTCGTCTTCATCTTCTTCTACGAGTCTAGTGCAACCTTC
GTCTTATGGTGCTACCATTCATCGTTTCTTACGCAGTAAAACAAATTCTCAATGGAGCCATTCTA
TTAGTGAGCTACTACGAGCACCTTTTATAGAGGTCCCTCGCAATTTAATGGAATCATCATCATTC
AAGTCGTATGATATTTGTATGGGCTTTGGTCTTCGCTTTAGTCCGGGTCACTTTGATGAGTTCAT
ATTACATAATTTGAAGTTACCAGTAACCTGGGAAAGGTTGTCTTT
Found at i:29866 original size:15 final size:15
Alignment explanation
Indices: 29846--29882 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
29836 AAGACTGGTC
29846 CTTCTTCGTCTTCAT
1 CTTCTTCGTCTTCAT
29861 CTTCTTCGTCTTCAT
1 CTTCTTCGTCTTCAT
29876 CTTCTTC
1 CTTCTTC
29883 TACGAGTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.05, C:0.35, G:0.05, T:0.54
Consensus pattern (15 bp):
CTTCTTCGTCTTCAT
Left flanking sequence: Indices 29346 -- 29845
CACATTAGTAAAATTCCCCAGAATAGATGCTGACCAACATAGATGGAAAAGCTCTATTCAATGCC
GTTCTCCTGCTGTATGTCTTAGGCTTTGTGTTACCGAGACCTCTCATAGCAGATGGAAAGTATAA
AATGAGACTGATGTTTGTCCAGGGTTGCGACACCTGCAATAAATATCATTAGCGAAGGTATCGCA
GGGAAAGCAAATCTTTGAATGGTACTGATGGAAGATAGACCTGCAGATCATTAGCGAAGTAAAGT
TTATAGTATACTAATACTTTTTATAGTATACTAATACTCATGGGTAGCTACAACAGCTATATCAT
TAGCGAAGGTATCGCAGGGAAAGCCAGTGTTTTACATCTTACGAAAATAAAAAGTAAACTAGGAA
CACAATGCATGCACAATCTTGGTTAGATTTTTTGTCTGAGATAGAGAACCTACAAATCTTTTCTC
TATGTAAGGATTTCGACGAGCTTTCTTTGGAGGACAAGACTGGTC
Right flanking sequence: Indices 29883 -- 30382
TACGAGTCTAGTGCAACCTTCGTCTTATGGTGCTACCATTCATCGTTTCTTACGCAGTAAAACAA
ATTCTCAATGGAGCCATTCTATTAGTGAGCTACTACGAGCACCTTTTATAGAGGTCCCTCGCAAT
TTAATGGAATCATCATCATTCAAGTCGTATGATATTTGTATGGGCTTTGGTCTTCGCTTTAGTCC
GGGTCACTTTGATGAGTTCATATTACATAATTTGAAGTTACCAGTAACCTGGGAAAGGTTGTCTT
TCTTAAGTAATTCTCTTGGTTTATCTTATAATAGCAGACCTATTGCTGACCAATTCTTAGGTCAT
AGCTGTTCCATTGCCGGTTTGCGTGGTTTTCTCAACCAAGAATATCGTAATATATTGGTGGAGGT
AATTAGTTATTATAACGGTATGTATGGGCGTTTCTTGGTTTTGGTCAGCTTGGGTATTGGTTGTA
CTGTCTGGTACGGGTTTACGCCAGGCACTGCCGATATTCACCCCG
Found at i:43470 original size:5 final size:5
Alignment explanation
Indices: 43460--43505 Score: 92
Period size: 5 Copynumber: 9.2 Consensus size: 5
43450 CTCGCCCTTA
43460 ACTTT ACTTT ACTTT ACTTT ACTTT ACTTT ACTTT ACTTT ACTTT A
1 ACTTT ACTTT ACTTT ACTTT ACTTT ACTTT ACTTT ACTTT ACTTT A
43506 AGGCTATGCC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.22, C:0.20, G:0.00, T:0.59
Consensus pattern (5 bp):
ACTTT
Left flanking sequence: Indices 42960 -- 43459
TCACCCTTCCCTCACGGTACTACTTCGCTATCGGTCACCCAGGAGTATTTAGCCTTGCAAGGTGG
TCCTTGCTGATTCACACGGGATTCCACGTGCCCCATGCTACTCGGGTCAGAGCGTAAGCTAGTGA
TGCTTTCGGCTACTGGACTATCGCCATCTAGGGTTCGGCACTTCACCGCTTCGCCTAGCAGCACG
ACGCTTTTATTGCTCTCCCACAACCCCGTTTTCACGGTTTAGGCTGCTCCCATTTCGCTCGCCGC
TACTACGGGAATCGCTTTTGCTTTCTTTTCCTCCGGCTACTAAGATGTTTCAGTTCGCCAGGTTG
TCTCTTGCCTGCCCATGGATTCAGCAGCAGTTCGAAAGGTTGACCTATTCGGGAATCTCCGGATC
TACGCTTATTTTCAACTCCCCGAAGCATTTCGTCGCTTACTACGCCCTTCCTCGTCTCTGGGTGC
CTAGGTATCCACCGTAAGCCTTTCCTCGTTTGAACCTCGCCCTTA
Right flanking sequence: Indices 43506 -- 44005
AGGCTATGCCATCCTAAGGTGCTGCTAAATTAAATGGAAGGATCTTATCAACGTCCATGAATGAT
AAATCATAGATCGAACTGCCGAATCGGAAAAATTGGGTACTATCATATAGCTTTGTTTCGTCTAA
GTTCACGAGTTGGAGATAAGCGGACTCGAACCGCTGACATCCGCCACAGGGTAAACCACCGCCTC
TCAGGCCCCCGACTGATTCTACCATAGAGGCCAACGATAGACAATAACTCCCCCCCGAACACAGC
TTACAACTTTCATCGTACTGTGCTCTCCAAAGAGCAACTCTTCTCAAAATCTCAAAAGGTGCTGA
GTTGGAATCCCATTCTAACTAAGGATTCTTGTGGTTCCGGAGGATCCAGCTACAGGAGAACCAGG
AACGGAGAGCTTTCCCCCCTTTTCCGCCCCGACTCTTTGGTCTTAAGAATGCTGGTTTTAAGAAT
GAGTGATTGCCCTTCTCCGACCCTTACTGCCCAACCTGAGAGCGG
Found at i:57947 original size:9 final size:9
Alignment explanation
Indices: 57922--57956 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
57912 CATATGGTAA
57922 TAGAGAGC-
1 TAGAGAGCT
*
57930 TAGACAGCT
1 TAGAGAGCT
57939 TAGAGAGCT
1 TAGAGAGCT
57948 TAGAGAGCT
1 TAGAGAGCT
57957 CCTCAAAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 7 0.29
9 17 0.71
ACGTcount: A:0.34, C:0.14, G:0.31, T:0.20
Consensus pattern (9 bp):
TAGAGAGCT
Left flanking sequence: Indices 57422 -- 57921
CACGCTTGCCTGCTTTCCTTTTCCTCTCCCGCGGCAAGAGGCCAAGTCCGAACTCCCACTTTCTT
TAGTTCTTGTAATGTCTTATGTAGTGATGAAGCGAGGTCCTTTTCTTTGAGGTCTTGGACCATGC
GCCTATCGTGAAGGGTCAATTGCCTTGAGGTGGTTCAATCTCTTATCCCGTAGAGCAGTCTCCTA
GTCTATTCGTTATGTCCGCCTCTCTCTCATTCAGTTGCAGATGAAAGTGGAAGGCTTTTCAGTCT
CTTCCATTTGTTGTTTTAGCTGCTCTTCTCGCAGCAAGAAAAGCGAGTGAACTGACTTCCGTTCT
GGCTTGAGTTGACTTGTGCTCGATCCTTGCAAGCCTTCTAGCGATCGCAGTGAGGTTTTCTGCTT
TTTGCTAAGCTGAGTGTAAGAGCTTCCCTCCATAAAGAACTGATTTATCTTTATTATCTTACTCT
ATCCGGCTATTGAACCTGGTTCCCCTCTCAAATTGCATATGGTAA
Right flanking sequence: Indices 57957 -- 58456
CCTCAAAGGGCTAGTTATCAGTCTTCCCGCCTTGCAGTCTTTCCAGGCTCTCCATCTATTCTATC
AGTAAGCATTGGCTAAGCCGAAATCTCTTTGTATTTTAAGTCTTCGATTGGTCCATCAGTTTCAG
TTGTGGAATAGCCCCTAGGGCATCCTCTGGCTTCCATTCGTTGATTTCTGTCTTTCGCTCGTGAG
TTGTGGGACCATCCCCGAATCGTCTTAGTAAGGTTCAATTTGCTTCTTCCTTCCAATGTGTCCCT
CAGGTCATGTTTAATAGCCCCGCTTTTAGGGAACCCCTAATGGTAACTTCTCTCCCCTCTCATCA
GGTAATTCTTTTTCTTCTTTGAGTTAGCGAAATGACTTCCGTTCTTGGTTCCCGACCGATCTAAA
AGCGCTTTCCTTCTTTCGGTTGTATCGAGGGATCCGGGTCTATACCTATTCCCCTATCCTTTCTT
TGTGGGTTGATCCTTTTTATAATTCCCCTATTCATAAAGATGAAT
Found at i:201188 original size:18 final size:18
Alignment explanation
Indices: 201161--201196 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
201151 TCAAAAAGAG
* *
201161 TCAATGGCAGCGGACGCA
1 TCAATAGCAGCAGACGCA
201179 TCAATAGCAGCAGACGCA
1 TCAATAGCAGCAGACGCA
201197 GAGGAAGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.28, G:0.28, T:0.11
Consensus pattern (18 bp):
TCAATAGCAGCAGACGCA
Left flanking sequence: Indices 200661 -- 201160
AGAAGGCTACGCACCTTGCCTAGCCACAACATCTTTCGCATCGAGAAAGAGTAAGAATCAATCTC
CTCGCTGATTCAACAATCGCTATTCTTTTTCAACGAAAACAATCAGCAAGAGTCGACAAGAGAAC
GAGAGCGGATGAAATAGAAGCAGAGGCGTGAAAAGCTAAAGAAAAGACCTCCCTAGAGCTAGATT
CAACTTCCCCCGCGGGCTTGACCGAGGAAAGAAAATCGAAGTCAGTGTGTTAAGCAATGTGGCAT
TTTCATTTCACTTCTTGGCCTGGACACTCTCTTCGTCTAAGGTCTTGGCTTGGTCACTCTATTAA
GCTTTCCCATCTCACAAGGCAAGTCTATTGAATGGGGTACGAAAGATTGCTATTCAAAGCATCGT
TAAGAGTTCTGCCTTCTAGGGAGTAGTCAAGATAAGATGACTCTGATCTTTCCTTTCCTTCTATG
GAGCCGGATGTGAGCTTCTCGCCTACTGATCTTACTCAAAAAGAG
Right flanking sequence: Indices 201197 -- 201696
GAGGAAGAAATCCTTGCTCTTCGGGCTAAGATGCTGACTTTGCCGTGGAAAGAGTAGTGAGAGGA
AAGCCTTGACCTTCCCTTGTTCTACCCTTCGAACTCGGAGATTGAATAGGAAGATAACTCTATGC
AGCGACAGAGGCAAGATCTCTATATGTTGATAGATACCCGAGAGACTGAGTCCTTTCCTTAAGGC
ATGCCCCTACTCAACTTCCTATTGCAAATGCCAAAGCACCAAGAGCGGCAACTCCAAGTTCTTTC
ATACCCTCCGCTCAGGGAAAAGAGCTAACTGCTGCGGGAGAGGCGACTTCTCTTTCACTTCATTC
ACGGGAGACCTACCAAATCTGCGCATTTCTATAAGTCATGGTCACATGTCTTGTGAACATTCAAC
CATCAAGAGTGAAGGTCAAAGGAATGCTTTTCTCACCGGAATTTCTTCTTTTCTTTTTTCTTTGG
AACCCGAGCTAATTCTTTTAGATCTTCTCCCTTCTCTGCTTCCTA
Found at i:280525 original size:17 final size:17
Alignment explanation
Indices: 280503--280538 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
280493 GGGAAGATAG
280503 AGAAAGAGAGACAAGAA
1 AGAAAGAGAGACAAGAA
* *
280520 AGAAAGAGATACAGGAA
1 AGAAAGAGAGACAAGAA
280537 AG
1 AG
280539 CTAAGGATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.61, C:0.06, G:0.31, T:0.03
Consensus pattern (17 bp):
AGAAAGAGAGACAAGAA
Left flanking sequence: Indices 280003 -- 280502
GACTTTATCCAGAAACAACTCAATCAATCAATTACCTTATTTAAGATACGCCCAAATCCATTCAA
CCAGCCACTCAAGGGTTTGGAGTTACCATTTCCGCTATTCCTGCCAAGGAATAGAGTAAAGGGAC
TACCGATACCCCTTCGCGTTCGCTTTGGTTTAGAGTAATCGCTTGTTCCTTCAGTCTTCAGAGGT
AAGCTCTTTTCCCTTCTTCCTAATGGACTACGAGGACCCTAGGATTTAGGACTCTTATAAGGAAG
GATTATTGGCCTACTGCTGCCTTACCACTAGCTTAACACTAGCAGCACAGGCTTACCTATTAATC
ACAGACCCCCTTCCTTACTTGCTTACTTCCTTGCTTGCCTGGAGAGAAAGAATCTTAGAAAGAAA
GGATCCCCTACTTACTTAGTACAAGGAAGGGAAAGACTTACTAAAAGACCAAAGACTGGCTTCCT
TACTGTCTTGGCTCCTAGGACTTCTTACAAGGAATGGGAAGATAG
Right flanking sequence: Indices 280539 -- 281038
CTAAGGATATAACGAAGGGCGAAAGGGAGCACAGAAAGGCGCAATACCAAAGCTTTTTAGAAAGA
GAAGAATGCGCCATAGGTTTCTTCCTGCTTTGCTTTGGGAAGGGGCATTGAAAGAACACAGACAT
AGTGGAAATGCTCCTAGACTAGACCTCGTAAGTCTGATCCTCTCAACTCATACTACAGCAGGGAA
ATCTACTTTTCTGGACAGGGTCTTCCTTCTCGGAGAATAGGTCTACTATGCTGAAGCAGAAGGGA
ACAGGATGCTTATTTAAATGTCGATGAGACTAGTCAGGATGCTCCCTGTAGTACATTCCCAGATC
TGAGCTACCTGGATCAACCCACCAATTAGTACAGTTCGTCAGTGAGTACGTGGGAATAGCCCAGT
AATGAATAGATATATCAGTCACCGGGTAAAGAAGCGAGGCGAGGCGTACCATCTACCTAGGGCCT
TTGCTCCCGCTTTCTTGACCACTGACAGGAATACCTAATCCGCTC
Found at i:299517 original size:24 final size:24
Alignment explanation
Indices: 299475--299523 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
299465 ATTCGGATTC
* *
299475 GTTACTTGGGGCTGATGAGGATGA
1 GTTACTTCGGGCTCATGAGGATGA
* *
299499 GTTACTTCGGGCTCCTGAGGGTGA
1 GTTACTTCGGGCTCATGAGGATGA
299523 G
1 G
299524 GAATCCGTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.16, C:0.14, G:0.41, T:0.29
Consensus pattern (24 bp):
GTTACTTCGGGCTCATGAGGATGA
Left flanking sequence: Indices 298975 -- 299474
CTCTAAGTGTAAATTGTCAGTTTCATCCTCTTTATGAGCCTGAGATCATAATCATATGGGTCAAC
AATTCTCATTTCTTAGTTACAGAAAGCCCTTCTCAAGGAAGTAAGCCAAAAGCCACTCATCTGAG
CCAGCGGATTCTCATTCTGCTGTGCCGGTGCGCAAAGCAAGCACGCTTAGACTGCGATGTGCAAT
CTTTGGTCTGCCTATCATTGTCCATTAAGGGCTGACTCCGCTAGGCAAGAGGACCACTACTGGGA
TTATTCAACTACTAACTGATGACCAGGGGACTACTCTGCTTCTTCCACTACTGATATTGACCGAC
CTGTTGAGAGGATAGCAGCAGGAGAAAGAAAAAAAAGAAGTAGAGTTAGGTTCTGTTCTAGTATG
TAAGCATCTCTTTCCTCGGTCGATTCGTCTGCTCATTCAGCGTATGATTCTTATCCAACTTCCGA
TAAGTCTTATGAAACGAATTCGGCTGGAGATAGGCATTCGGATTC
Right flanking sequence: Indices 299524 -- 300023
GAATCCGTTGTTTCGGGATAAACTTGATATGTTAGTTCGGCCTCGGCTTCTTAGGATGATGCCTG
TGCAATGTATGATCCATCGGATTCTTTTTATTCTATTCTCGGTGCGTTGTTCTTCAGCGAATGAA
AGAAACCGCTGATTCCAAAGTTCCTTCATCAGATTTGGGTGCTTTTGAAAGAGCTGCTTCTGCGA
ATGACTCAACTGAGACTACTCAAAAATTTCCCACATGGAAGGAAATGGGATTTTTGAGAAAAGGG
GTTGGGAACCATCGAAGGACTAGCAACCTGACAGTCCTAAGCAACCTTGAACCAACAACGTTACA
TATACCATACTGCTATAGAAGACATGAGTACCAGTTAGACTACGGGACGCGTACACCCGAAATTG
GTGAGCTACTTACTGCCCCTTAAGTCAAGAGAATAATAGTACTTTCAGCAAAGGATATCGTAACT
ATGGCGAATACGTTTTTCTTGCTTTCCACATACCCGGAATGCGAA
Found at i:445431 original size:29 final size:29
Alignment explanation
Indices: 445389--445446 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
445379 GATCCCAGTG
445389 GATAGCTAAGTGAGGAACATCTTAGGCAC
1 GATAGCTAAGTGAGGAACATCTTAGGCAC
445418 GATAGCTAAGTGAGGAACATCTTAGGCAC
1 GATAGCTAAGTGAGGAACATCTTAGGCAC
445447 ATTGTAGAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (29 bp):
GATAGCTAAGTGAGGAACATCTTAGGCAC
Left flanking sequence: Indices 444889 -- 445388
ACGGATCCTCCTTTCCTTTGCCCCTGAACCCCAGCCTGTGGAAGCTGATCTCGATTCACTTCTCT
CTACTATATTTTGAACCAGATGCTCGGTCGGGGAGCCTCGGATTAAGAAATGAAAGATAAGTTGT
TCGGAGGAGCTCCTCCTTCAGGAAGAGCTGCAAAGGCGAAGAGCGGATCTAATGGCCCTGGCCTA
GTAGCTCGGGTCGGGCATGCATCTGCAGATGTCTCCTCCTTGCTTATTAGTCGAGTGCGAGTGAA
GCCAGTCCAGTCCCTGCTGCAATTGATCCATCTTTTGAAAGCTATTCCTTTCCCCCGTCCAGTCT
CATTCAACCAGGACCATGGCACTTCTTGTTCCAATGACAGATCGGATACTTTATTCCTTTCTCCT
CTACAGGATCAGGAGGCTAACCTCTAAGTCACGTAGGTCTTTGATGTGTTGGTTGTTTCTTAGGT
TTCTTAACAGATGAATGCCCCAACAAGATAGAGAAGATCCCAGTG
Right flanking sequence: Indices 445447 -- 445946
ATTGTAGAGTAAGAAGATAGGAGAGATCTTACCATTGAACAGTACCGGCTTAGGGCATTAGCACT
CTCCCGGTGTGTGAATAGAAAGAAAAGCCAACTTTCACTCACTTCCTGGGGAATCAAGTACGGTA
AACAACCTCAATTGCTCAATATACAAAGAGACAGAAGTGGTAGTTCAGAAAGACAATCATTTACC
AACCGATCCGCGACAAGTATAAAGTAATTATCTTTGAACAACTGATATGCGACAAAGAACAGTCT
ACAGAGATAGCAGCGGCACCGGACTAGGGCATGGCGCAATGATCGCTTGAAGATCTGCTTAAGGT
GTGAACTATATTAGTAATTCTTTTTTTTTCTCCTTTGTTTCACTTTCGAGTGATTCATCAATAGG
GGACCCTCCCATAGGAAGTTGCTTCTTGGAATGCCGTCGTCTAACTGGCAAAGCTTTCGTTTCTT
TGGGGCTACCCTGTAGAACCGGCTTCCGTTCCTTGATTCAAACCA
Found at i:467335 original size:13 final size:13
Alignment explanation
Indices: 467317--467343 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
467307 TTTAAAGTGT
467317 ATAACAAATATAA
1 ATAACAAATATAA
467330 ATAACAAATATAA
1 ATAACAAATATAA
467343 A
1 A
467344 GCTGATATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (13 bp):
ATAACAAATATAA
Left flanking sequence: Indices 466817 -- 467316
CGTTATGCGAGGAATACAGGGATAAGGCATGATCGGAGAAGGCCCCTACTACCAATATGGAAAGT
GAATCACAGCGGATGGTCCTACCTTAGAAGCCGCCAGGAGAGGGACCGGAGAGAATAGGTTCTAA
GTTGTAGAACTTTATACTATGGGCGAAGCACGGCGAGTAAGAGTTACGTCTCATACAGCCGAACT
AGCACACCTATATCTAAATGAAAGACAGTCATATTACTGAACCAAGATATGATCTATCTCATTCC
GACGGTTGGTCTACTCAAGGTTAGGGCTCCACTTTCCTTTATTCTAGAGAAAATAGGAGCAAAAC
AAGTATATTTTAGGGTTATTCAAAATCCTGTTAAACCTGTGCTCTCTTGCGTGGCTTGCCAGCAA
AGAGAGTTCCGGACAGCCATTTTTCCACGCTCGGTACCAGCGAGGTTTCAGTACTAGAATGCGAG
GCGAGCTAACTATTGTTTATATGAAACAATATTTTTTTAAAGTGT
Right flanking sequence: Indices 467344 -- 467843
GCTGATATTGAAGCACTTATATCAGGTACTTCGATAGCCTTACCCCTCAGTAATTTATATAGAGG
AGAGGAGTGCCCTGGTTCCTAGCCTTGGATGTCTTGCTTTTAATAGAACTTAGTTGATGAACCAA
GACCAAGCACTGGAGGATACTTCACTTCTGATCCTAAGCTGTGAACTACTTGCTAGATAGACGTA
CACTAAAGTATTGAATTGAATCTTACCTTTTCTTGCATCGTAACATACTTTCGTAGACAGGCTTT
GGGCACAGAATTGAGGGCTTGTTTCGTGGGTGCAGATCACGGTTTGGTATCTCGCAATCAATAAA
GTATTAAGATCTTGTGGTATCGTGAAAACATACCCGTTACCCTATGTCCTCGTACTAGCGTTAGA
GCTCTTTCCTCCACCAAAAGTACGAGCTATTCTGTGCCAAGGGTTAGGTCCTGCGGGCTCCTCTG
TAGAGCAAGCATTTAACATCCGGGCACACACAGACTTTTTGGATA
Found at i:468479 original size:12 final size:12
Alignment explanation
Indices: 468462--468486 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
468452 GTCTAGAGTT
468462 TTACTATATAAA
1 TTACTATATAAA
468474 TTACTATATAAA
1 TTACTATATAAA
468486 T
1 T
468487 ATGATATAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TTACTATATAAA
Left flanking sequence: Indices 467962 -- 468461
GATCTTCCTTCCGACTTCCGAAAAAGATCCCAACATCCAACTTGCGCGCTTTCCACTTGCGATAT
TGCATTTCCCACTGTCGCTGTCACTGCCTTTGGTTTGGGTGTATATTGAAATTCTATTGCCTTTC
AACATCTCCCAACTGCCTTGATGGCTGGCTTTCCCATTGGCCCTTTCCCTGAGCCTTTAACCAGG
ATAAAATGATATTATATATTTAGCTAATCTCACCAAGATAGAGAAACTCTATTGACTGTCGTTCG
CCATTAAGCTTTCAAAGAGTGTAGTCTCACCCTATCGTCCTGACTTTATATAAGAATAAGTTAAG
GTAGCTTGTTTTTTAGAATCTCTTTTTCTCTGTTTCGCCTGCCTTGTCGAGGTAAATTTTTTATA
CTAATAGGGCATTTGATACATCAACTATGTCAGTTCCGTTCCTTGCTAACCTTGGGGAGAAAACT
GTTCTCTTACTCTGATAATAGAATGCTAGCATTCTGTCTAGAGTT
Right flanking sequence: Indices 468487 -- 468986
ATGATATAAGCAAATCCTTTCTTTGCCATCTTCATCTTGCTGTGAACAAATCGTCTGTTATCAAA
TGCCACTCCAGGAGCTGTTAGAGATACATCAACAGCGGCATTCTCCTCTTGCAAGGAGAAAAAAA
GGCGGTGAAAGAAAGTACCTAAGTAGCCCTACCACCAAGAACGGTAGCATGAAAAGTTTCTTCAA
TTCCTAAAGTAAGTGACACATCTTGTTCTCAGGTTGATGACATTACAATTATCCGATCTTCCCTT
TTTTGGTTTTAAGGGACTTCGGTGTCCTTAGTTAACTAGTGAAGTTCGCTAATGAATTCTTGCTA
CATCCCTTAGCCGCAGCAGATTCTATTTCATTTACCCTGTCCTTTCTTTGTCTTTCTCGCTATAA
GCGATCTCGTACGCTTCTGGTGCAAGAACTGAACTGATTCCACACCGGACACTACTTTGATGTAC
CAAAGCCCTATAGCCCCATCGAAATCCCTACCCTAACTTCCTTAT
Found at i:488070 original size:17 final size:17
Alignment explanation
Indices: 488048--488081 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
488038 GCATTACCGG
488048 TCTTACTGTCTTTCCTT
1 TCTTACTGTCTTTCCTT
*
488065 TCTTACTTTCTTTCCTT
1 TCTTACTGTCTTTCCTT
488082 AACCCGGCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.29, G:0.03, T:0.62
Consensus pattern (17 bp):
TCTTACTGTCTTTCCTT
Left flanking sequence: Indices 487548 -- 488047
GCAAGATTGCCTCAGTGACCAAGAAGAAGGGAACGACAATCGTCTGCTAATCGAAGATGGACATT
CGAAAGGAGTTTCTATATGTCAAATTCATGTTCTGTAACAACCGAACCGACACACTTGGATTCAA
TAGCAGCCTAGTCTCAAGCAGCGGATGAAGTAAGACCTTATTCTATAACACCTTATGGTCAAGAA
GTTACTTACCTTCGCCGCTCTGTTCTGCTTCTTTTATCATCGAGATTGGCTTGGTCTTCAAGGAC
TTCGTATCTTATCTGCGGGAAAGAGTCCGACTTGCATGTCTCAAGCATAGTGACATCTGCTAATG
ATAGGTTAGCCCTCGGGCTAATTAAGAAGTGAAGTGATTGGTCCGAAGAGGGGATTCTAGATCGG
CTTGATGGAAATAGTATATGTCGTTCTGCTGATGCTAATGGAGGCAAATCGGATTCTCCTCCTTT
CTTTTGATGGCATTCAGTTTCATGTCGCCGAATCGGCATTACCGG
Right flanking sequence: Indices 488082 -- 488581
AACCCGGCAATCGTAGGCAAGCAAAAGGTTATGGGGCACGAAGGGTATAACAAGAAGTAAGGAGC
TTTTTTATGCGCCTACTAAGCTTGCGGACGATTTGTAGCAGCTAGAGAGATTCCTAAGACCGGTA
ATTCCGCATCTAAGAGGGAATTTAGTGAGGCTTCCCTATTCAAGTTATCTAAATAGGCAAGACAC
GCTACGCCCCAATGTTACAGAGGTCAATCAGCCTAGAGGCTTCCTTACTTTAATGAAAGCTTATG
ACGCGTACTTGTACTTAACAGCTCAACAATCTCCTCTTCTTCATCAATCAGGCTTGCTTGTCAGT
AAAGAAAAGACGAATCTTTTTCAGAAAGACTGAAAGAAGACTAACCTTACCGTGCGGACTGAAAC
AAGGCCAACCCTCATTCTCCAATGGGTTGGATTCAAAGGGAGGGATTCAAACCTTTAAGCAGAAG
GAATCGTCCCACCGCCTTGCATTTTTGAATGAGGAGCTTTGGAAC
Found at i:526436 original size:14 final size:14
Alignment explanation
Indices: 526419--526447 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
526409 GACTTATATT
526419 ATAGGTTATATAAG
1 ATAGGTTATATAAG
526433 ATAGGTTATATAAG
1 ATAGGTTATATAAG
526447 A
1 A
526448 GAGAGCAGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (14 bp):
ATAGGTTATATAAG
Left flanking sequence: Indices 525919 -- 526418
CGCAAAGTCCAAGCCTAATTGCTACTTTGGAAGAACCAAGACTAATGAAAGCAGCGAAGGTAGCA
CCACATGTAGAAGTAGAGGCAGCTCCCCACCTATGCAAGCATCATTCCTTCTAGTTCGTACGGTC
CCAGAAGCGGCTTTCCCACCATCTCGCGTGCCAATGATAGGGGGTACCGGTTCCGGCAAAGGTGT
ACGGAAGAAAAAAAACACCTTGGCTAGTTTCCCGTTACCAAGAGGGAAATCAACAAACCAGCAAC
CGTTCAAAAACCCGAAAAAGCTATCATCTCGCGCGGATCCATACCCATAACCACCGGCCTCCTCA
CTAATTGGAGATAGGTGCATTCAAGTCCCCTCTGTCCGGTCCCTTAACTCACTTCTCTTTATAGA
CAAAACAGGTTGTGATTCCCGCCTTCGGTGATAGAACAATAGAATAAACCTAACAGCTCCTTACA
CTAATCTGAGTTTAGGAAAAGACTCGGCCTTCCCCGACTTATATT
Right flanking sequence: Indices 526448 -- 526947
GAGAGCAGACAAAGGGCTTTCTACTGCTGATACACCATAGCGAGAAAGAGCTCCTCACCAGGCTT
TATGAGAATGAAGGGACTGGCCTCTGACCGACGGATTCCTGAGACACTATTTGGCGCTGGCTTTT
CGTAAGCGATCGATCACTGGGAGCGCCCTAGACTAGCCATACTAGACATCAAGACAGAGAACCTC
TTATCAGATTCGGAGTTTACGCTGGAGAGCCTACTCCTCTAATTAAGAGGAGAGGGCACTTAAAA
GAAAAGGAAAACCACCCATGCGAGCATAATAACCAGCCTTGTAAGGGCCTAACCTTCTGGGTAAA
GTTAGCCACTAGAAATCGATTCCTTGGCTCGATACCGGGAATAGGAAGACTAGCGTGGACCTCTT
TGTGGCATTCCTACTTCTACAGAAAGATGGGCGTACCATTAACTCCCAGGCTAAGTAACGGGCGA
ACACTAACGCGGAACACTTCCCCAGACCGTAAGGGCAACTGGCCC
Done.