Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_062592
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: 289289
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Found at i:35400 original size:25 final size:25
Alignment explanation
Indices: 35367--35437 Score: 142
Period size: 25 Copynumber: 2.8 Consensus size: 25
35357 GTTTAGATGT
35367 TTTAGTATAAAGTCCCCCGCTATGG
1 TTTAGTATAAAGTCCCCCGCTATGG
35392 TTTAGTATAAAGTCCCCCGCTATGG
1 TTTAGTATAAAGTCCCCCGCTATGG
35417 TTTAGTATAAAGTCCCCCGCT
1 TTTAGTATAAAGTCCCCCGCT
35438 TCTCTTCTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.32
Consensus pattern (25 bp):
TTTAGTATAAAGTCCCCCGCTATGG
Left flanking sequence: Indices 34867 -- 35366
CAAGCAATGCCCAATGTGAGATTCCCATGTCTTTCTTGGTTGGACCAACCCAACCAGCGATTTCT
TACAAGTCTTTCATCTTTTTTGGGGGGAGCAGAGCGAAAAAGAAAGAAATAATAAAAAAAACAAA
AAAGGATGACTAATGACATTGTACTCTATGGAGATGCCACTACTAGTGAGTTGAATTTTATGATA
GATGATACTTGTTCTTTTTCGTCTTTTTCAAGTAGCTCTTCGACGATGTCGGACGCGCGAAGCGC
TCCACCAAATCTTAGTGCAACGATTTCTCAGGTATTTTCTCGTATGTTAAACGAGGTGGAGGTGG
ACTTGCCGTCAAACTGGTCTCCAGAAGAATTTTTTCGACTGGTGATAGGCGACGACCAAATGCTA
ACCCCATCTTATCTATCAGATGTATATTCGAACCTCTTAGAATGTGGCTTTCATAGTTGCTACTG
GGAGCTCGCATTCCAATATATCCCGTTACTATATGGTTTAGATGT
Right flanking sequence: Indices 35438 -- 35937
TCTCTTCTTTCTTTGTTTGCCCCAATGATGGCCTTTTTGATCTCATCCGTATTCCGATCGAAGGT
TGAAGTGCAGTTTCATAAATTAATCCTTCTTGTGTAAGCCTTTGACGAGGAGGATAAAAAGTTAA
CCCTTGGAGTCTTGCGCGTGGTTGGACAAATTCCATCGTCGCAAGGCGTAAGGGTGAGGCCTTGG
TCAATCAATGTCAGTAAGTCGATTTTCCAAGGGAGGGGGAGTGGGAGGTGGGCCCCCCTCACATC
CTTCATAAAGTCTTATTGCACCGATGCAACAACGAAGGTTCTATTACTCAATAGATGGCATGAGC
TTGTTCAACAATGTGCGCCCCTTCTTACAACAAGTCGACCCTGTAAAGCTTTTTTCAGTCCTACT
TGACAAACTAGTATAAGTCGCACGTAGTTAGTATAAGTATGAGTATAAGTTGGCAGTAGTTGGTA
GTAGTATAAGCTACTATAAGTTTCCCACTAGTAACTAGGAGTCGC
Found at i:49826 original size:26 final size:26
Alignment explanation
Indices: 49790--49869 Score: 160
Period size: 26 Copynumber: 3.1 Consensus size: 26
49780 TAATATGACA
49790 TTATTTAAGAGATATATTCATTCTCT
1 TTATTTAAGAGATATATTCATTCTCT
49816 TTATTTAAGAGATATATTCATTCTCT
1 TTATTTAAGAGATATATTCATTCTCT
49842 TTATTTAAGAGATATATTCATTCTCT
1 TTATTTAAGAGATATATTCATTCTCT
49868 TT
1 TT
49870 CTGCGGAACT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.51
Consensus pattern (26 bp):
TTATTTAAGAGATATATTCATTCTCT
Left flanking sequence: Indices 49290 -- 49789
TAAGATTCTTTAACAGCTTTCCGCTTAACAACAGAGCATCCCTCTCAAATATTAGAGCTCTTGCA
TCCCTCGATTTATTATCAATTGGCACAGCGGATTCGAGAGCGGCATTTTAAGCATCTCCTTCAGC
GCACATTGCCACCAATCTAATTAATTGGTACTTTCCTTAAACCCGTGGTTTTTCAATGGATTTCC
CTTTTGCCTCGTAAACGAGTTTATCTTTTGACCAAAAGCGTACTTTACCGTGGGTTTTCTCTCAT
AAATCGATTGATTCGGGCGCGAAGTAAGAACAGATTCTCTTGCGGGGAAGAGGGCAGAGGCTCTA
CCGTTGATGGATGCGAGGCTCGACGAGCGGGGGTTCCTTAGGTATTTGTACAAGCGCAGTGGGAG
TTGTTTGAGCAGCAGATGAAACAGTAATGAAATAAAGTAATAAGAGAATGCAAAAAGAAGGCTGT
TTTAACGTTGGTTATGGATAGGATGCAAGGGACCTTAATATGACA
Right flanking sequence: Indices 49870 -- 50369
CTGCGGAACTAGACCCCCCAGAACAACAAGCACTTATTGCAACCAATGCCACCCAATCCACGGCC
AATCAATGCCTTTCCGCTTCAATGGACTCAGCTGCTTATTCTGCTTCATCCTCCCTTTCAGGCTT
TTGACTCGTAAACTCATTCTTCCCCCGCGAGGGTGCCGAAACTGTGGTTACAAAGCATCGTAAAT
GGGCATCTTGATCTCAGATCCCAACGTCGTAACTCGACCCTGATTTTTATCACTCCGTGGAGCCC
CCTTCGAAAATGCTCCTTAATGCGCCAGAATACCATATGGTTCATTATTCACTTGAGAGCGGGAA
GGGAACGTAAACTCAATCAGCAGGATGCAACAGCCGGAGGAGTTAACAAGACAGCATCTAAACGC
TATAGGTTGAACCGGCAACAGAACAGCCAATTGTGAATGGATGATTGCGGGTAGCTTAAATTCAG
TTAACGAAGCGGTCAATGCGTAGTGCGATCCGGATCTTCAGAAGC
Found at i:77415 original size:17 final size:17
Alignment explanation
Indices: 77389--77421 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
77379 TTCCTATCTC
77389 TAAAGGGGC-TTACCCA
1 TAAAGGGGCTTTACCCA
77405 TAAAGGGGGCTTTACCC
1 TAAA-GGGGCTTTACCC
77422 TGACACAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 5 0.33
18 6 0.40
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.21
Consensus pattern (17 bp):
TAAAGGGGCTTTACCCA
Left flanking sequence: Indices 76889 -- 77388
AGTTTCTCTGAGGCTCTCAAGCTGAGAGAAAGTGTTTGGATGATTTTTGCATGGTTTCAAGGCGC
TTTGAGAAATAGAATATCTTATGTTCTCCTAATATCGATAGGCAAGTTGCTTATTTCTGTGTGCT
CTAGGCTTGACAAGCTAAACAGAAAAACTTTTTTTGGTAAAAATATAAGAGGAAGATCCATCTTG
CTAATTAGGATTTGGTGTGTAGACCAAAAGGTATGGGCGCCGGAGTTTCCTCTCGTTGAGATTTT
GGCAATCTCGTGCGGGTTGAAGCAAGCATTAGATATGGGCCTTTCTTCTCTGATGCTGGAGTCAG
ACGCGACGCTCAGGCGGTTGTCTTTGCATTGAATGAAGAGGAGAGAAGCGCGCAAACAGTGTCGG
ACGTTACTTAGGCAATGCCGACCGGCACTTCAACCACTGAAATAGCAGCAAATTCTTTTTTAAAT
TCTCAATGTTGCCTCAATAAAGCAGCTAGGCCGTTTTCCTATCTC
Right flanking sequence: Indices 77422 -- 77921
TGACACAAGTAGTCTCCGCGGCTATACTATATCAAATAGCCTATAGCGCTACTGTACTTGTTTTT
TTTTGTCTGGTTCTTTGCTAGCCAGACACCTGTCAACCAACCATCCTGCAACTATAAGTTCTTTC
GCAAGCCAAGCCAATATCCCTTGATCCGCCCGAGGAGAATCCGAGTGAAAGCAGCAACCAGCGTG
ATAGTAGCGTGTGTCAGCAAACAACTCTAAGCTGAACTGATTACAGATAGGTAGTGCATTCTCTG
AGGTGAGTGAAGTGCCCTACTTCTATCTTACGGGTAGTGGTAGTGTAGCTGGGCTATTGATCCTG
GTGAAGGAGCCCTATCAATCAAGTAAAGGCCGGGCGAGGGGTGATAGAATAGCAAGCAGGGTAAC
TTACGCAAGCAAAGGAAAAGACCCTTCCGACGACGCAGCAGCCAACTACCTATTCGAGCCTGCAA
AAATCTATGTGAACAACTAGGGGCCCGCGATTACTAAGGATCGAT
Found at i:114975 original size:13 final size:13
Alignment explanation
Indices: 114957--114982 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
114947 ATGGCTATGT
114957 TTTGATAGAATGC
1 TTTGATAGAATGC
114970 TTTGATAGAATGC
1 TTTGATAGAATGC
114983 ATTGCCTGTT
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:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (13 bp):
TTTGATAGAATGC
Left flanking sequence: Indices 114457 -- 114956
AGCGCTCGGAACCAAAAGCATCAGTATCAGTCCCCCAGTTGCAGTTTATTCTATTGATCTAGAGC
CCGCTAGAGTTAACATGGGGGCTGCGGAAGCAGTGGTTGAAGACCCGATTAATCAGTGGAAGCAG
CAGCCCACCAGAAACAGGGGCAGAGCAAGCAAAGGCAAAGGCACCACCATCTCTACAGCATTCGT
TTCAACAGAAAAGGCCGAGTCAGAGGCGGGTAGAGTGGAAGCGAGGAAGGCAGAAGCTTCACCCA
TTTTAGTCGAAAAGTAGCAAAGGGAGTTTCCGCAGCATCCAGTGGATCAGCGTCAAAGGCGGATT
GAATCAGATCCAATTGACCCAGTGGAAATGCGGATACTGCTGCATCTAAGCTAATATAAGTTGTT
GATTCAGCTCAGTAGTTGACCCAGCCAGAGCACCTATTGAACCAGTCCTAGACAGCATCCCTGTT
GTTTCGAGGAGGCGTTCCTGTTTATGTTACGAGAAATGGCTATGT
Right flanking sequence: Indices 114983 -- 115482
ATTGCCTGTTGTTCTTAGCATCCCTCTCTCACGAAAGATGTGCTCTAGTCTTTTTGGTTTTTTTA
GAAAGGTTTTACCTCCCGACCCGTATACTATGCAAAGGCAAAGATCTATTATATATAGATATATA
TATCGTGGAGGGGATCATAATCAGGCGCCAACGGCGGCTCGATAGGCGTCCATGCATAGCTCAGC
GCCTAAGAAAAGTTGCAGTACTTGACCCAGTTGACTCATCAGTAGTAGTTCTCCCAATTTCTATT
TGTGATTCAGTTGAAGAACCACCAGTTTTTTTCACCACTTGCAATCCGAGTAGCAGATCCAAATG
CTTAGCTACCAGTAGCATCCGATACAAAGATCCATCCCTTGCATTCCCCTCCTTTAGAAAGAGTA
GTTGCCCCGCCCCTGCACCAGTTACAGCAATCCTGTATATGGCAGGCTATAAGATAGTCATAAGG
AAATGTATAAGACACCCGCGCCTATTTGCTTGATTGGCTAGCGAC
Found at i:122976 original size:20 final size:20
Alignment explanation
Indices: 122951--122989 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
122941 AAATCCGCTA
122951 AAAAAGACGGGAAAGTAGCT
1 AAAAAGACGGGAAAGTAGCT
122971 AAAAAGACGGGAAAGTAGC
1 AAAAAGACGGGAAAGTAGC
122990 AGGTAACCTT
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:0.51, C:0.10, G:0.31, T:0.08
Consensus pattern (20 bp):
AAAAAGACGGGAAAGTAGCT
Left flanking sequence: Indices 122451 -- 122950
ATTGCCTTACTTCAAAGCGTTGTTCCTTAGCCCCCACGGGCCTTTCCCTGTTGTTCCTTAGCCCC
ACGGGTTATCCCTATACGGAGAGACTAGCGCACCCTAAATGCGCTTTAGGTACTCCTGAGTCGCA
CGCAAGGCTAGCAAAGATAGGATTTAAGGGATCGGAATTCGCCTTACTAAGGTTTACCCTTTGAC
TCATTTGCCCTGAAAGGAGCGTCATCTTAAAAGTCTTTCTATGACTTCAGTGACCCCGATTCCAT
GGGAATTTCAATACTGGTTAGTTCACCAGATGAATTAGGATCAATCCGCCCCGAGTAAACTACCT
CTCCATCCGTTCTCGGTTCTGCCCGTCCGACTCATCCTTTTGGTGCTTCTCCTTTAGCATTTGTG
CCCAGAGGAAGATTCTCTGTCGGAAGAAAGTGACTCGACCATAGGACGACTTATTCTATTTCGGC
GCGAAACGTGTCAAAGAAAACGAGTTTCCTAGAGGAAATCCGCTA
Right flanking sequence: Indices 122990 -- 123489
AGGTAACCTTTAGGCACTCATGTGGCTAGTAGTTCAGGTTAGTCATAATACTAAAGCGAATGAAA
TGAATACTACGCTCATGCACTTAGGGTTGAGGCCCGTGAAAGCCCTCGTTCTACCACTCCTCGTG
TGTAACATCGAAAATAAAGCCTTTTAATCGGCTTTTATCTCTCATGACAGGGATTCATACACAAG
GCTATGAAAAAAAAAGAGGGTCGGAATTCGCCTTAGTAAGCATGCTGTTCAATTGGATTGCCTAG
CTTAACAAGAAGTCATTAGAAACAGCTATGGGCTTTTCGCTTAGCTGCCCTCCCCTTGTCGTTCG
AGTCCGTCCCTACGGTCGAGTTCCTTCGCCTTTCTTTCAATTGCATCGGTTGTAAGACGAATGTA
GGCGTTTTAAAGTGTTGTTCCTTAGGCATCGTGGGCGAATCCCTATCAGGAATGCAACTCGCGGT
TTTATTTCATAACCTTATTTTGGGCTTCTTCCGGTCTTTTCTTTC
Found at i:125492 original size:28 final size:28
Alignment explanation
Indices: 125460--125657 Score: 355
Period size: 28 Copynumber: 7.1 Consensus size: 28
125450 AGCTCGACGT
125460 GGAGTGAAGCAACTCGACTGAAAGGAGA
1 GGAGTGAAGCAACTCGACTGAAAGGAGA
125488 GGAGTGAAGCAACTCGACTGAAAGGAGA
1 GGAGTGAAGCAACTCGACTGAAAGGAGA
125516 GGAGTGAAGCAACTCGACTGAAAGGAGA
1 GGAGTGAAGCAACTCGACTGAAAGGAGA
125544 GGAGTGAAGCAACTCGACTGAAAGGAGA
1 GGAGTGAAGCAACTCGACTGAAAGGAGA
125572 GGAGTGAAGCAACTCGACTGAAAGGAGA
1 GGAGTGAAGCAACTCGACTGAAAGGAGA
125600 GGAGTGAAGCAACTCGACTGAAAGGAGA
1 GGAGTGAAGCAACTCGACTGAAAGGAGA
*
125628 GGAACTG--GCTAACTCGACTGAAAGGAGA
1 GG-AGTGAAGC-AACTCGACTGAAAGGAGA
125656 GG
1 GG
125658 GGAACTGAGT
Statistics
Matches: 167, Mismatches: 1, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
27 2 0.01
28 162 0.97
29 3 0.02
ACGTcount: A:0.38, C:0.15, G:0.36, T:0.11
Consensus pattern (28 bp):
GGAGTGAAGCAACTCGACTGAAAGGAGA
Left flanking sequence: Indices 124960 -- 125459
CTGCATCTACCAACATATCTGCCACGGGGATAGGCGGAGTAGCATTGTTCAAGTCCCGTTCACCC
ATTCTATCTCTTTCAGCATCTTCTTCAATTGGCTTGATAGAGGTTGCGAAGAAAGCTCTCGCCTC
AACTCGGTCCAGTGCCCGCTTCCGCGGGGGTGCCCTCCGGGTGACCCGTTTCCCCCATTGATATA
CCCAAATTGACGAAGGTTATGAAATAAAGCTAACAACAAGTCAAGCTATAACAACTTGGTTGCAG
CACCGTACCGTTAACGCTACATGCTTTCTATATAGTGAAGTGAAGAACGGATTGAATCTTTCGAC
TAGTAGATTGTTGTTCCGCTTACTACGTGATTTGAACTTGCGATCATCACATGGAAACCCCGGAA
CTCATTGACTTTCAGTGCCTTCAGATGAAAATCCTCAAAGACGGAAAGCAGTTAGATAACATCCT
TGAACATGAAGAGATTACGTGGAAGCGGGTGAAAGAGCTCGACGT
Right flanking sequence: Indices 125658 -- 126157
GGAACTGAGTATTCAATGGATATTACTTCGTGCACAATAATAAGATTCTAAACTGCTTAGAGCGT
ATAGACGCTTAGCTACCGATGCGGACCTCCTCACAAAGTCTCTTCACAACGTCTTGAAAACACTA
ATTCAATCAGCCCATGTCCGAAGGTGCCAATAGATTCAAAATAAGCGCATTTAAGGCACCCTGAT
TCCTCTCCTTTCAGTCGAGCTCTTTCATTCCTCTCGATAGGTAAACGTCCGATTCCAACTAATTA
TATAATAATCATTGATCCGATTGCATCGATCCTTCTCTATTCTAGGAGCACCCAATCCAGTCATT
CTCTTGTAAAGTGGACGATTTCATCATAACAAAGAGAACCAAGATAGATCCATTCGCTGAGCTCG
AGAGAGCGTTTTGAACAATAACAAGAATTTCCCACTGCACAATCATTTCAATTAGGATCTGCACC
AGTAGCTCTCAGCTGCAACAATTGCTTTAGTGGGAGCACCGGTAG
Found at i:209148 original size:39 final size:39
Alignment explanation
Indices: 209091--209169 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
209081 CCCATCCTTC
* *
209091 AATATCATGATTGGGTCGACCAGGCCAGATCATGAGTGA
1 AATATCATGATCGAGTCGACCAGGCCAGATCATGAGTGA
209130 AATATCATGATCGAGTCGACCAGGCCAGATCATGAGTGA
1 AATATCATGATCGAGTCGACCAGGCCAGATCATGAGTGA
209169 A
1 A
209170 TAGAAAATCG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.22
Consensus pattern (39 bp):
AATATCATGATCGAGTCGACCAGGCCAGATCATGAGTGA
Left flanking sequence: Indices 208591 -- 209090
CACTGGAGAAGGTCATTTTTGGAGGGGTCGGAAGAACGGGTTTAAAAGAAATATATATATATATT
ATTAGTTTGGTTTTTATGCAAAAAAGACAAAACGGGATTGGATTTCCACTCAGAAGGAAGGAAGG
TTAAATACCTTTGACAGGGTTGTATTTTTGGGATGGTGTTCAAACTCCCGAAATGAACCATTACA
GCTGGCGTCGACCAGCTTTGCGATACGTACGGACACGAAGAAGAACGCAGGCAGCGGAAATGCAA
AAGAGAAGAGCAAAGATTCCCGACCCTTATTGACTCAACCACAAATCTGTTGAATGAAGGTAGCT
TGCTTACTCTCAGCCACTAGTTAGAAGGAAATCCCTTTACTTTCTTTCAGAACCTTATGCAGTAC
AGAAAGCAAGTGAGGCGGGCTAAGATTCCATTCGAAGTAAGGTAACAAGATTCGATGTTGCACCA
CCTTCAACTCGATCCGGAGTTTTTCGAGAAAAGGTCCCATCCTTC
Right flanking sequence: Indices 209170 -- 209669
TAGAAAATCGAAAACGTACATAGCTGTTCCAGCCGAAATACTTGGAATAATTCTACCACTTCTAC
TAGGAGTAGCCTTTTTAGTGCTAGCTGAACGTAAAGTAATGGCTTTTGTGCAACGTCGAAAGGGT
CCTGATGTAGTGGGAGCGTTCGGATTGTTACAACCTCTAGCGGATGGTTTGAAATTGATTCTAAA
AGAACCTATTTCACCAAGTAGTGCTAATTTCTCCCTTTTTAGAATGGCTCCAGTGACTACATTTA
TGTTAAGTCTGGTTGCTCGGGCCGTTGTACCTTTTGATTATGGTATGGTATTGTCAGATTCGAAC
ATAGGGCTACTTTATTTGTTTGCCATATCTTCGCTAGGTGTTTATGGAATTATTATAGCAGGTTG
GTCTAGTAATTAGGGGGCGGCCGTTCGGTCGCCTATGATACTAGGACCAATAGGTCAAAAATAGG
TTTGTGCCGCAGGTGTTGAACGATCTACTCTACACAGGTGTGGGC
Found at i:270172 original size:18 final size:18
Alignment explanation
Indices: 270151--270187 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
270141 GTCACGGCCG
270151 ATATCGTCACTATCATCA
1 ATATCGTCACTATCATCA
270169 ATATCGTCACTATCATCA
1 ATATCGTCACTATCATCA
270187 A
1 A
270188 CAAGAAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.32
Consensus pattern (18 bp):
ATATCGTCACTATCATCA
Left flanking sequence: Indices 269651 -- 270150
TACTAATCGATAGGGCCTCATCGGTAAGTGCTACAAGATCTCGTACATTGGAACCCATGGTTATG
GACCCGAATCCATTAGTATAGAACATTTTCTTTTCCAAGTGAAATCCCCTAGTATATGAAAGAGT
GAAAAAGTGCTTTCGTTGTTGTGGAATAAGAAGCCTTCGTATCTTAATGCATGTATTTAATTTAT
TCGGAGCTATTAGAGCGGGATCCACTTTTTGGGGAATATGAGTCGAAGCAATAACAAGAATATTT
CTAGTGGAACATCTTTCACAATCCCTGGAGAGATAGTTCACTAATAAACCGAGGGATAAGTAATT
CGACTCATTCACATCCAGATCATGAATGTTTGGAATCCATATTATGCAAGGAGACATTGCTTTTG
CTAATTCGAATTGAAGGGTGATATAAAATAGGTCTATTTCCGGCATCATATCCATAGTTAGCGCA
TTCATCATAGTTAGAAGCTCCAGCTCCGTATCAAGGTCACGGCCG
Right flanking sequence: Indices 270188 -- 270687
CAAGAAAACCCTTGGGCTTGTTATCCAGGAACTTGTTCAGAAATACTGTAATGAAAGGAACATAG
GAGTTTGTCGCTAGGTATTTGACCAAATAGGATCGTCCAGTTCCTATAGAACCTATCACTAAAAT
ACCCCTAGAGAGGGATAGGGCTAAACGGAGCGAAAAGGGTTTTCCATGAGATGGGAAATGAAAAC
TATTAGCCCCACAGGAGGTTTGTGAATAAGTGATTGTCTGATAATGAGCAAGGAATATCCGCCTT
TCTGCTAAACAGGATGTATTGAACTCATAATTCATTAGATACTTTTTATGAATGTCAACTAAGTA
TCGTAAGTAAATTGCTCCCGGTTGTTCAATCATTTGATAACCAGAGTCATTCTTTGATAAATGAT
CACTATGAGTCAGACTCAATAGAATTTGATCAATCCTTTTTTCTGTCGTTAAGGTGGAGAACTGA
ACCAAGAATTCTCTTTCTTTATCACCAATCGAATCACTGTTCGAG
Found at i:282220 original size:18 final size:18
Alignment explanation
Indices: 282180--282222 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
282170 ACCGCCCTGC
282180 CATAGTCGCGAGTCTGTTT
1 CATAGTCGCGAG-CTGTTT
282199 -ATAGTCGCGA-CTGTTGT
1 CATAGTCGCGAGCTGTT-T
282216 CATAGTC
1 CATAGTC
282223 AACAAGGTTT
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 281680 -- 282179
GAAAGCTTTTTTTTCAAGTGTCAGTAGCGGAACGTTCTGTCAATCGGGGAAGGTTTTTGGTGACA
ACACCTGGAGATATCAGAAGTGAGAATGCTGACATGAGTAACGAAAAATCCTGTGAAAAACACGA
TCGCCTGCCAGTGGAAGGCTTTCTGCGTTCAGTCAATCTACGCAGAGTGAATCGGTCCCTAAGGA
ACCCCCGAAAGGGCTGCCGTCCGATGGGTACACGAAAGTGACGAAGTTGCTTTGACTACAGAACC
ATGCCTGTCTGTTGGAGCGAATTGAATGATCGGGCCGAGGGCAGCCCCCTCTTCCCCTCACTCTC
CTTTCCCTAATATGAACCTTGAGTCATCAAAGCCTTTCTGACTCGGCCTGGCCCGGTCGCCCTAC
GCGACTGGCGCTTCAAAAGACGAAACTCTCGTCGTAGTTTGGCGACCTAAGGGGCCTTTACTCTT
TTGATTAGAGTAGGGGTCGCGAGAGAGCAGAGCGTACCGCCCTGC
Right flanking sequence: Indices 282223 -- 282722
AACAAGGTTTAAACTTCCAGGAAAAAACTTCGAATTGGGAGGGCGATCCTCCCGGTGAACTGACC
GTACCCCAAACCGACACAGGTGAACAAGTAGAGTATACTAGGGCGCTTGAGAGAACCATGTCGAA
GGAACTCGGCAAAATGACCCCGTAACTTCGGGAGAAGGGGTGCTCTCCTATCTTTTGATTAGGAA
AGCGGCACATACCAGGGGGTAGCGACTGTTTATTAAAAACACAGGACTCTGCTAAGTGGTAACAC
GATGTATAGAGTCTGACACCTGCCCGGTGCTGGAAGGTCGGAAGGAGAAGTGTTATAAGCTTTGA
ATGGAAGCCCCGGTAAACGGCGGCAGTAACTCTAACTGTCCTAAGGTAGCGAAATTCCTTGTCGC
ATAAGTAGCGACCTGCACGAATGGTGTAACGACTGCCCCGCTGTCTCCGACATGGACCCGGTGAA
ATTGAATTCTCCGTGAAGATGCGGAGTACCAACGGCTAGACGGTA
Found at i:288984 original size:26 final size:23
Alignment explanation
Indices: 288936--288987 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
288926 AGGAATGGGT
288936 GAACGGGAAACCTGTTGTTAGGA
1 GAACGGGAAACCTGTTGTTAGGA
288959 GAACGGGAAACCTGTTGTTAGGA
1 GAACGGGAAACCTGTTGTTAGGA
*
288982 GGACGG
1 GAACGG
288988 AGCCTGTTGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.29, C:0.13, G:0.38, T:0.19
Consensus pattern (23 bp):
GAACGGGAAACCTGTTGTTAGGA
Left flanking sequence: Indices 288436 -- 288935
GTTATTTAAAACCAATAACAACGTAAAAAACACGTGGTTTTGCATGTAGGTGAAGGGTCAAATTG
ATCAAAAAAGGAACGCTCTCACTAAGTAAAACGGCTTTTCTAGGTTTTGTAGCTAGGGCTAGATG
GATTTCGTGTCAAAAGAAAAACGAGTGAAAAGACCATTTCAAGCAAAAAAGACGGGGTTTTAGAC
TTTTTTCCAAAAAGCATGCCACTTCACTTCTTATTCACTTCCTCACTTTGTTTACTTCGTAACCT
TTGGTATTGCGTCTCATCCAGGTGATTAATATCACGTCATAGCATTTCTTCCCCTGCTTCTGAAA
GAAAAGAATCATATGACTTACCTAGGCGGTTGTACCACTTGAAAGGTGACATTGAAGAAGCTGAA
TCGAAACTTATACGATATTGTAGAGAACCACTCTGAGTCTTTATTCCCCTAGTCTTCTTCGCATC
CTTACTTACCTCCTTATACTACTGTAAGCATATGAAGGAATGGGT
Right flanking sequence: Indices 288988 -- 289289
AGCCTGTTGCCAAGGAGAACGGATAACATGGAAAGACAAGGAATACAAGGAAAGACAAGGAAAGC
GTGGGAGTTGCCGGGGTAACCTCCCTCTCCGGTCGAGTAACCTTCTACCTCTCCTTGTTGCCGAG
GAATGGAATTCCTATAAAAATTCCCGGGAAAGTCGACTTTGTTCGATAGTTCCCATCTCTCGATC
ACCCCACAAGAGAAGCCACTCGAACGAATAGCTCCTTTCTTGCCGTGGAATTCCTCAAAGCTATA
ATATAAATGGAATTCTCCCTTGACTCGATCTTTAAAAAAATT
Found at i:289045 original size:10 final size:10
Alignment explanation
Indices: 289017--289051 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
289007 CGGATAACAT
289017 GGAAAGACAA
1 GGAAAGACAA
*
289027 GG-AATACAA
1 GGAAAGACAA
289036 GGAAAGACAA
1 GGAAAGACAA
289046 GGAAAG
1 GGAAAG
289052 CGTGGGAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.57, C:0.09, G:0.31, T:0.03
Consensus pattern (10 bp):
GGAAAGACAA
Left flanking sequence: Indices 288517 -- 289016
TCTCACTAAGTAAAACGGCTTTTCTAGGTTTTGTAGCTAGGGCTAGATGGATTTCGTGTCAAAAG
AAAAACGAGTGAAAAGACCATTTCAAGCAAAAAAGACGGGGTTTTAGACTTTTTTCCAAAAAGCA
TGCCACTTCACTTCTTATTCACTTCCTCACTTTGTTTACTTCGTAACCTTTGGTATTGCGTCTCA
TCCAGGTGATTAATATCACGTCATAGCATTTCTTCCCCTGCTTCTGAAAGAAAAGAATCATATGA
CTTACCTAGGCGGTTGTACCACTTGAAAGGTGACATTGAAGAAGCTGAATCGAAACTTATACGAT
ATTGTAGAGAACCACTCTGAGTCTTTATTCCCCTAGTCTTCTTCGCATCCTTACTTACCTCCTTA
TACTACTGTAAGCATATGAAGGAATGGGTGAACGGGAAACCTGTTGTTAGGAGAACGGGAAACCT
GTTGTTAGGAGGACGGAGCCTGTTGCCAAGGAGAACGGATAACAT
Right flanking sequence: Indices 289052 -- 289289
CGTGGGAGTTGCCGGGGTAACCTCCCTCTCCGGTCGAGTAACCTTCTACCTCTCCTTGTTGCCGA
GGAATGGAATTCCTATAAAAATTCCCGGGAAAGTCGACTTTGTTCGATAGTTCCCATCTCTCGAT
CACCCCACAAGAGAAGCCACTCGAACGAATAGCTCCTTTCTTGCCGTGGAATTCCTCAAAGCTAT
AATATAAATGGAATTCTCCCTTGACTCGATCTTTAAAAAAATT
Done.