Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_049064
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: 482114
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Found at i:81784 original size:15 final size:16
Alignment explanation
Indices: 81772--81806 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
81762 CTTTCCCCAT
81772 TTTCT-GCTTCCCCTG
1 TTTCTAGCTTCCCCTG
*
81787 TTTCTAGCTTCCCCGG
1 TTTCTAGCTTCCCCTG
81803 TTTC
1 TTTC
81807 CCTAAGTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.03, C:0.37, G:0.14, T:0.46
Consensus pattern (16 bp):
TTTCTAGCTTCCCCTG
Left flanking sequence: Indices 81272 -- 81771
ATTGACCCAGAGATTGAAAGCGGAAAACAGTATCGGTATCGACGGATCAACAGTTACGAAAGCTC
TCTATCCAAAGCCTTCGACCCTGCAGCCTAGCCGCTAATGAGCTTTTGAGCTATCACGCACACAT
AGGTAGCGACTTCAGTTAGCCGCGAAGGAACTTGACCACTTTCTTTCAACCTCTTTTCCCCTTCC
CATAGGGCTAGATTTGGCTATGCATTCACCATCCGCCATGAACCGATTCAACAATACCCCGAGCA
TTGGAAGATTAGATTAGTGGTAGGGGAATGAGTCCTCAGCGGCAGGCCGGAAACCTCTTCCTGTG
TCAGGGGTGTAGCGATAAGGCTATGTTTGGAACGCTTGGGGAAAGCGTACATGTAACCCAGCTTA
ATATCAGACTGGCAAACCAAAGCCCTTTGCCGTTTAAGGGAATGAATGGGAAGATCGAAAGAAGT
CAAGAACGTGCGTGGGTGGAGAGAAGGAGAGGACACTTTCCCCAT
Right flanking sequence: Indices 81807 -- 82306
CCTAAGTAGTGGTCAAGAGTTTGCTTTTCTTAGTCCCACCTGAAGTGGACCTCCGGATCCTACTC
TTTTGAATATTATAGTCAGTAATGATCAGAGAAAGTAACAGCAGGAATGCTTGAAGCTAAGTCGG
ATAGCTAGCTCGACCAACTACAGAGGAAGCGAGACCCTTTCTACTAGTCTACTAGTTAAAGAGGT
AGGAGAAGAAAGCTTCCATAGAGGAAAAGAATGTTGATTTCTCCTTCTGGGGACTGAAAAGGTAT
TCTAGCTTAGCGCTTAGTTATAAGGAAGGAATATACTCGCAGGTCTACCTTTCTATCTCATCGAA
AGAGCGAATTGGATTCGACTTCGCTCAATGGGATTTCGAAGACTACGTTCGCGTACTGGTTGAGG
TCGACTTCTCGAAGCCCCCTACTGGACTCTTTGATGCTGGAGCGTCCGGGCCATTATGCCTTTGT
TTCCATTGGTTATGAGAGGATGGGGAATCCCTTTTGTTCTGTCCA
Found at i:132267 original size:15 final size:15
Alignment explanation
Indices: 132247--132300 Score: 90
Period size: 15 Copynumber: 3.6 Consensus size: 15
132237 CTACAAGACA
*
132247 AAGGCTGAGGCTAAT
1 AAGGCTAAGGCTAAT
132262 AAGGCTAAGGCTAAT
1 AAGGCTAAGGCTAAT
132277 AAGGCTAAGGCTAAT
1 AAGGCTAAGGCTAAT
*
132292 AAGGATAAG
1 AAGGCTAAG
132301 AAAGACCATG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.41, C:0.11, G:0.30, T:0.19
Consensus pattern (15 bp):
AAGGCTAAGGCTAAT
Left flanking sequence: Indices 131747 -- 132246
GTCCTTTATCTGACGATTTCATTTCTTCTATTGAATTGGGTAAGTTTAAACTGGAATGTAATGTA
AGTAAAGGCATATTCTTAGCACCTAAGAGTTATATGCTAGAGATAGAAGATGATAAAAAGATTAT
TAGACATAAAGGTCCTGCTAAAGATTTAGTAACATCAGATTGGTTTAAAAGGCAATTAGCAAATT
TATCTCTAACAGAGGAGGTATCCCATGAAGCACCCTTCCGAATAAATTGGAAAGAACTCAGAATT
ATTAAAAAAGATTTACAGCTCAAACTAGGACTACCACGGAGTAGCAAAAGAGAGAATGTCTATGA
TTCAAATCAGGGATGGATAGACACAAAACCTATAGATGTAATAGACATAGGAAGTAAAGATGCTA
ACACTATTTATAAATATGAACATTCGAGGAAGAATAATGATCAATCAGGCAGTCAGTCCTATAAT
GAAGAGACAAAGACCAATAATTTACAACCAACTCTCTACAAGACA
Right flanking sequence: Indices 132301 -- 132800
AAAGACCATGACAATAGCACAAACCCTAAACCTGATGAATAAATGACAAACTTGTGCAGGGCGGC
ATGTAAACATGGCAGGCAAATGGACCATCCCTCTTTCGAGGTCTTGCAGAGCCTGCATCGCTTGT
TCGTTGAGTTTGAGTTCCTGTTCGTTCACTAGTACATGGAGTTCTCCGTATGTATTGTTATTGTC
CTACTCTTCCTCATAGTCAGCCGTATTGGAATTTCGCCAATCTACCAGTTTCCATCATCCAAGTC
ATCGTTCGGTCCAGGCGTGGAATATACAAGAACAAGAATCAGGCTGTGAAGATGTAACCCAGATA
GCCGAAAGCAAGAAGAATAATAAGAGGGAATTTCCACGTGGCCATGTTCATAAATGAATTTCTTT
TGGTCCAGGGTTCCCACGTACTGGGCATGAGGTTAATCCTCTCACATTCATTTCAGAATGTATCT
ATTTGTGTTTTTTTTTCTGCGGACGACGTGAGGGTTATTGTTCTA
Found at i:160525 original size:6 final size:6
Alignment explanation
Indices: 160514--160561 Score: 96
Period size: 6 Copynumber: 8.0 Consensus size: 6
160504 GGAAGAGCCT
160514 CCTTAA CCTTAA CCTTAA CCTTAA CCTTAA CCTTAA CCTTAA CCTTAA
1 CCTTAA CCTTAA CCTTAA CCTTAA CCTTAA CCTTAA CCTTAA CCTTAA
160562 GGGTTGGTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (6 bp):
CCTTAA
Left flanking sequence: Indices 160014 -- 160513
CAGAAGCTAAGCGCTTGAAAAGCGCGCTAATAAACCTTGCTTCTGTCGGCCTTTCTGTGCAACAG
TCCACCAGTAGCGGAAGAGAGGGTGACCGTACATACAAGAGTCTTCCAGTTCTTACGGAAGCTCT
TTCTGACCAGTCAAGTAGTAAAACAGCTCTATCTGACAGCCCGGCGCGGCGGGTCGCCTTTTGAA
TTCAGTAGATGGAAGAGACTATTAAATAGATAAGGAGTAGGTGAGTGAATGAGTCCTCACTGACC
TGAGCGATTTCGATCACCTAGCAGGCCTTGTCTTTTGTAGGTAAGATCGCCAAAGCGTATCATCA
GATTTGGCTACGAAGGAAGGAACTCGAAGTGAAAGGGCCCCGACTTCTTTCCTTTCCAGAATGAG
AGTTCGACCGCAGCTTCCCCCCCCTTTTTGTGTTTGTTTTGGGTATTACCAAACCTAGCCTAGCC
TTTGTCAATCACACTAAAGCAGAGCACCCAATTATGGAAGAGCCT
Right flanking sequence: Indices 160562 -- 161061
GGGTTGGTTAGCTTAGTCAATCCGGCCCGAGACGCGTTCGTTGACAAAACCGCCGTAGGAATTCC
GACTTTTCAATAGAGCGGAGGCGAACTGAGATCAACGAGAAGGAGGCCCTACTCACTACAAACGA
ATACACCACAAGATCGAACTGCACTCATACCTCCACCGCATCAAGTTGACCGCCCTCCCTACGTA
GTGATTCTATCAATCATGTACTCCGGGAGGACCTTCCATTCTGATTGGTATATCATGACAAAATC
AAGCCATTTGCACCAGGCGCACTGCGCTTTCCCTTGCCCAGATGTTTGCCTTTCTAAGTCAAGTA
ATGGTGACCCGCCGAAGCCTGGAGCTTCGTAACATGTTGACGAAGACCTCCGAACTGAGGGTTCG
GTCAGTAGAAGGGACGACTTTGTCTCCCCGGAAGAAGAAGAGCCCCGCTCTCTAGCCGACTGATC
CCCTTGATCATATCACTGGGGGGGAACGTGTCACATGCGAGGTGA
Found at i:185903 original size:13 final size:13
Alignment explanation
Indices: 185885--185910 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
185875 GCGCCATCGT
185885 CTAACTATATATA
1 CTAACTATATATA
185898 CTAACTATATATA
1 CTAACTATATATA
185911 ATATAATGAT
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:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
CTAACTATATATA
Left flanking sequence: Indices 185385 -- 185884
AGTCCAGCACAGAAGCCGAGTACCTTCTGTTGAGTCATTTCTTTTTGCTTATTTATATTATAAGA
GAAGAGTAGTCGCAGAGTTCAGTCAAGCCTTAGCTATAACTTTCAATAGAAAAAAGGGACAAGGT
TGGCTTTCTAGCAATAAGTCGAGTAAGCGAAAGTCTTGCAGAACCTTGCTTGACCCGCTGACTTG
GAACTATTTAAACACTACCTTTCCTGGAGAGTCAAGTTTTGAAAAAGAAGGTTCCAATGAATCCG
AGGAAAGATGTTCGACCAAAGTGGGTAGATGGAATCATTTGAAAGGTTCGAAGACCTTTCGATTC
CATTCAGGTTCTTGTTCAAGAGCAAGGATAAAAGAAGAATTGGATAAAGACGGACTAGACCAACG
AAAGAGTAGATAAAGGATGGAATTCAGTGGATGGACAATTATTTCACTCTACCCACACAATGGTT
CTTTGGACAGTATCCGTCGACGGGCAGAACCTCGGGCGCCATCGT
Right flanking sequence: Indices 185911 -- 186410
ATATAATGATTGTTAATCAACCAAGGGCCAAGCCTGAGGGCATGAGTCATTGCTTCTTTTTCTTC
CATTCTAAGACAGAAGCAATTGGAACCCATGTCTATAAGTTCTATATCGCCGGAGGGCTTCCAGA
GGGTGTGAATGCGTGTGAGGAGAGCTTTAGCTCTTTCCGAGCAGTTTCAAGATAAGTCCTTCTCG
CCAATTCTATTGCCCTTTCCCGTTCATTGCCATTCTTGCTCTTGGTTGGGTACGCCTCCTAGGGG
ATGTCAGCCTTAGTGACTGAATGTTGGATCGTGTTATCAGTCTTCTTCCTAGCGGCCTGGCTCTA
TGCTTGCTTGCTCGATAGGAAAAAAAAACGTGCGTTAAGGTTTAGGTGTGAAGATCCATAAGATG
AGGGGGGAGTGCTGCCCGGAGCAAACAATGATCAGGTATAGGTAGACGCCAGCAACGGGACAAGA
AGGCGGACATTATTGAGGTAGGGGGTCTCAACGAGCCTCACGGAA
Found at i:269669 original size:24 final size:24
Alignment explanation
Indices: 269642--269742 Score: 175
Period size: 24 Copynumber: 4.2 Consensus size: 24
269632 GGGAGGGTTG
** *
269642 AAAGGGTTGAAAGGGAAAGGGTCT
1 AAAGGGTTGAATTGTAAAGGGTCT
269666 AAAGGGTTGAATTGTAAAGGGTCT
1 AAAGGGTTGAATTGTAAAGGGTCT
269690 AAAGGGTTGAATTGTAAAGGGTCT
1 AAAGGGTTGAATTGTAAAGGGTCT
269714 AAAGGGTTGAATTGTAAAGGGTCT
1 AAAGGGTTGAATTGTAAAGGGTCT
269738 AAAGG
1 AAAGG
269743 TTGGAAAGGA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 74 1.00
ACGTcount: A:0.36, C:0.04, G:0.36, T:0.25
Consensus pattern (24 bp):
AAAGGGTTGAATTGTAAAGGGTCT
Left flanking sequence: Indices 269142 -- 269641
TCCACAAACAATCGATAGAAAGCGGACTGATGTCCGTTTTGTTGGACATCTTGGATCCAGGAGCG
CAGAGTATCGTGGAGTGCTCTTTTTTCTAAACTAGACCGTGGATCATTAATATTCAGTCGCTCGG
TATAGTCGACAATATATTCTAATGCTTCTGTCCTTATGGCCCGCTCTTTAAAGGGGGATTCCGCC
AAGATCTGAGTTAGGCGATCCAGCCTCTCTCCTAGAAACTTATTAAAGAGTTGGTCCAACAAATC
CGCTTTAAGCTCTAAGGTAGTAATATCAAACAATTCATTTCGTATTGTAGTACAGTAATGGGGAA
TTGTAATGGTTTCATTGAGAAAGCCTCTGACTAAGGCTTCATACTCACCCAAGTTCAATTGGGCT
TTTCAAGCGCCTCAATCAATCGGCTTTCCAAACGTCGAATACGAGAAAATAGCTCGAGTTCCGTG
TCTGGATTCAGTAATCTAAATTGATCGACAGGGTCGGGAGGGTTG
Right flanking sequence: Indices 269743 -- 270242
TTGGAAAGGAAGATTCATATTAGGTGCAGGGTCATCGTAGATAGGTTCCTCGTGTTGTACATTCC
CCCAATCAGCCGCTTGAATTATAGAATTTGAATCAGCACTTGACCTGTTGTCAGAATGAAATTGT
AAAACAAATATGTCTGCGGATATTGAATCCCCAGACCCCAAGAATAAATTCAAACAAAACAAATC
AAAGTAAGATACGAAAAGCCGAGGGATGGGTTTATATAGTATAGAGAATACCGCCCAAAGAAAGA
CTTGGAGCGAGAAGAGATACAGAAAGGATAGAAACATACTGAGAAGGTGCTTCATTTGATTTGTG
AATTGGATTCTCCTATAAGTGAATTTATCTAGTTGAGGAATCCAGGACGAGATGCTGCTACCTTG
ACTTCTACTAGTTGTTATGTCCTTGCCGGCCACTCTCACTTCTTCCGAAAAGACAAGCTGACCTC
GATCTTTCGGTCTCCTCATTAGAGTTCTCCTAGAATCAATAGCAT
Found at i:283821 original size:23 final size:23
Alignment explanation
Indices: 283791--283836 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
283781 TCTGATGTGC
283791 GCTCTATTATTG-GCTCCTATTCT
1 GCTCTATTATTGCG-TCCTATTCT
283814 GCTCTATTATTGCGTCCTATTCT
1 GCTCTATTATTGCGTCCTATTCT
283837 TGAGGGGGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 21 0.95
24 1 0.05
ACGTcount: A:0.13, C:0.26, G:0.13, T:0.48
Consensus pattern (23 bp):
GCTCTATTATTGCGTCCTATTCT
Left flanking sequence: Indices 283291 -- 283790
ACTAAGGTGAGTGTCGAGCTGGCCGGATCTGTAAGACGTCATCCCGGAGAGGTGCGAGGAGGGTG
ATTTTGAGGAGGAGAGGGAAGTGAGGATAGAGATGAGAGAAAGAGGAGCAGCCCCCATGTCTTTC
AGAGAGATAGATAGGGAAGGTAGTACCGCCAAGGGAAAGTATTGCAGAACCTGTGATGTAGAGGG
TGTACTGGCTTGGGGTAGGAAAGCAAGGACTAGGCTAGGCTGTCGAGTGACGATTGGCCGAGGGG
AGTTCCATCATGTAGCTGGGTCAAAATAAGCCAGTAAAAGACAAGTAGAAGCCAGTGAACGAGGA
GTAGTAAGGGTACGACGAAGCCAGTGGGGTACGTAAACGAGGACGGATCACATGGTTTTGTACTG
GTCCGCTTTGAGCTGTCGAGTGAGGATTTGTCTATCTCTTAATCTCTTAAGAAAGGGGCTGCTTT
ATGCCACCTGCCTTATTCTTAAAAGGGGAGTAGTCTCTGATGTGC
Right flanking sequence: Indices 283837 -- 284336
TGAGGGGGTGATCGGGGTTAAGCCGCGTGGCGATACCCGCGAAAAACAAAGGACTATTCGCTCTT
TGTTTGGGGTGGGCCTTTCGTACTCAAATCCGAACGGGGAAAGGACAATTATTCAGCGCACTAAA
ATCTAGTGGATCTGGTTCACTATTAATGAAATAATGAAAAGCCAGGGTGGAAATGATCCTTGTTA
GGGAACCAAGACAATCATTCTGACTAATAATCAGAAAGGGTTAAGGGCCTCCAACGCCTATAAAT
AGAAGCTGATTTCAGTCTCTATTTGGCAAAGACAGACGTAGAAGTCAGAAAGAAAAGACAGACTT
TCATTCAGTAAGACTGAACACTCTTATGGATATCGCTGGAAGACTTTGTTCCATTCAACAAGAAA
GAGAAAGCGTGGAAAACGAGAAGCTCCAACAGGAGCAAATGCTCGGTCTGTTCTGGGAGCATCCG
CCTGCTCTCGATCCGGAGGTCGTAGGACGAATGGTGCAATCGATC
Found at i:334346 original size:26 final size:26
Alignment explanation
Indices: 334317--334395 Score: 158
Period size: 26 Copynumber: 3.0 Consensus size: 26
334307 AGTTCTACTA
334317 TTATTCATCTCTTGGAGTCAAATCAG
1 TTATTCATCTCTTGGAGTCAAATCAG
334343 TTATTCATCTCTTGGAGTCAAATCAG
1 TTATTCATCTCTTGGAGTCAAATCAG
334369 TTATTCATCTCTTGGAGTCAAATCAG
1 TTATTCATCTCTTGGAGTCAAATCAG
334395 T
1 T
334396 AAGGGAGTTC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (26 bp):
TTATTCATCTCTTGGAGTCAAATCAG
Left flanking sequence: Indices 333817 -- 334316
GGTTTAAATAAGAGATCAACTCCCGTAACTATTTCGGTGGGCCTATTCGGGCGAGATCAACAAGA
CGTAGGAAAGAGAGTTCGCAGCTTTCGATTTGTATCATCGTCGAGGTACCAAGTCTCGAGCTTTT
GCTACATCAAAGTGGATTTAGACTCAGTCAGATTGAGAATATGAGGCTCTGAAAGACTTAGTCAA
CATGGATTCAATCATCAACTCGGTTCTATCATTGAGAAGATCGCGAGTAAGCGTAGTTGTCAACG
AGACAGTGAACGGAGTTCTTCCATATTGATAGTCCGGAAGGTTGCTTGGCTTTTCAGTGACCTTC
TAACCAGAAATCTCATAAGAGAAGTGCAATTGGGGTACCGAAGCGCGAGAGTCCCGTAAATAGCC
ATCTTCAAATCCCCGAGGCTCTGACAAGACTGAAAGTCAGGGGCCTAGCAGAAAGAGTAGTTTCA
GAAGCCGAGAATGAAGGAGAGCTTTAGCTCTTTCAAGTTCTACTA
Right flanking sequence: Indices 334396 -- 334895
AAGGGAGTTCACATCTGGAAATCCATCATCTCTTTCTTGGCGGGAAAGCTGCCACTTTTTCACGA
CTTTCTTGATCGAACAAGCAGGAAGTCTTTCAGAGCCTCACTCTGGAAGCAGCTAACACATTTAG
GGGTGAAAAGCACTCAGACGATTGAAATATCTTATAGTAAGATAGAGCTTTGACTTTCTTTTTTC
GATGATGCCCAAAACGTCCCATTTCTTTTCTTGGCATTCTTTAAGTAAGCGCAAGGGGGAAGGAA
GATCTCCACTCATTTCATTCAGTGCCTGCGGTGAGGCGCGACCCACAAGCGACGAAGGGGGGCTA
GGGAAGGCCGACGACTACATGAGGGGGAAGCTCTCGTAGAAGCGAAACGCCCTTGCTTTACAGAA
ATTGTTATGAACTTACTAAATGACTAGATTCTCCCGGAACGCTAGCTAAGCTAATAGTTGGAGTT
CCCTTCAATGAAATCAATAAGCTTTTTGATTGATTCATTCAGAGC
Found at i:340306 original size:23 final size:24
Alignment explanation
Indices: 340274--340318 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
340264 GCCCTACCTA
340274 AAGCTAAAGAAGGAGCTCCAAAAG
1 AAGCTAAAGAAGGAGCTCCAAAAG
*
340298 AAGC-AAAGAAGGAGGTCCAAA
1 AAGCTAAAGAAGGAGCTCCAAA
340319 CTCAAGCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.51, C:0.16, G:0.27, T:0.07
Consensus pattern (24 bp):
AAGCTAAAGAAGGAGCTCCAAAAG
Left flanking sequence: Indices 339774 -- 340273
GATTAATAGGTAAGGTTTCACTAGTCTAGTCTTGACGGCCTTAAAGGGCTTTGCTTTTGCTGCCT
CTCTCTCTATCTTGCTTGGATTCTGGTGCCTTAGACTACACGAGTGAGGTCTCATCTGAGACCGA
TATCGGGCTAAGGTCTGAGACTAAGGCACCCTCCTTGCGTGAAGGGATAGGCGTAGTCCTTCACA
GGCTAAATTGAACTCTAGAACACCAGCCAAGAAGCATCATACTACTAGCAACCGTAGAGAAGCAT
AAAAGTGAAGTCTTGCAGAGCCTCATACTAGCACTTCCTTTCTTCTCGGCTAACTACTTCGTCTT
TCAGAGCCTTTGATTTCTTTCAAGAAAAAGCGTGTCTTTCCTATCCAACGTGGGAAAGCTGTATA
ACCTCTTTTTCTAAGCTAGAAAGGTAGCTCGCAGCAGTGGGGAAGCTAACACTGGAAAGCAGAAA
ACCAACCCGCCAAAAGCTCTGCGTAAAGGGGAGAAGCCCTACCTA
Right flanking sequence: Indices 340319 -- 340818
CTCAAGCTAAAGCTAAAGAAGGATATCCTTAAGCTCCCTGCTACTGCTACTGGATGAATACCATA
TTCTTTTTATTTGATTCAATCATTCCCTATAGAAGAGTCTACCGGTCCACCACAAGGGAGAGGTC
AAAGACCAACATTGGACTTTGCTTGGATTAGTCATTTGAACTAGTCAATTTCGAGCGCTAGCCCA
CTTGCTTTCTTTGTTCGGGCCATATCCAGGTCTTTCAGAGCCTTTGGGTGCTCTACAAGACCAAC
GTCAGTATACCAAAATGCCACTTTCGGGCCTCCGAGGTCTTCTCACCTATTCGAGTGCGTTCTCG
TCCGATTGACCTATATGAAATAGTATCTGGAAATAGGAATCGCAGATGGATGACCTCTTGATCAC
AGAGGATGAATGATTCCCTGTTTCACTCGCAGCGGAGGTTCCAAAGGAGAGACTGAGAATACTCT
ATCTCTAAGGTAGACCTAAAAAGATCCTAGCTTCCTTCTGCAGAT
Found at i:422429 original size:6 final size:6
Alignment explanation
Indices: 422418--422487 Score: 140
Period size: 6 Copynumber: 11.7 Consensus size: 6
422408 TCTAGTGAAG
422418 TATTCC TATTCC TATTCC TATTCC TATTCC TATTCC TATTCC TATTCC
1 TATTCC TATTCC TATTCC TATTCC TATTCC TATTCC TATTCC TATTCC
422466 TATTCC TATTCC TATTCC TATT
1 TATTCC TATTCC TATTCC TATT
422488 AGGCGCTGTG
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 64 1.00
ACGTcount: A:0.17, C:0.31, G:0.00, T:0.51
Consensus pattern (6 bp):
TATTCC
Left flanking sequence: Indices 421918 -- 422417
TGGTCTTTTCCCCGGAAAAAGGACTGAATTCTTCGATACAGGGGGAGCAAGTCTGTTGTGCGTGG
CTCTTTCACAGAAGAAAAGATGTTTGATTCTTAGAACAAAGATATAGAAAGTGTGCAGTGATACA
TTACCTTCCTATAGAGTATGATTCTATGCTCTTTGGTTGGAGGTTATGTAATACACTTGAAGAGG
AAGAAACTGGACTCAAACTTCCAAGATAACCCCAATCGACACAGTACCGAGCCAGAGCGGTCTAA
CAAGGGAGAATCTTTGTTTACAGCTTCACCACATCCTAGTGCCCAGCCGGATGATGAAGATATGC
CGACATTTGCTATGTCAAAACCCTCGATTTCGAGTCGGTGATTGTAAGATCAGCACGGATCAGAA
CTAAACCCTCAATTGAAGTGAGATCAGACAGAAGTTAATAAGACAGAGCAGAAGTGAAAGATGAA
AGCACTGTACCAAACTACAGGGGAAACCAAACCTTTCTAGTGAAG
Right flanking sequence: Indices 422488 -- 422987
AGGCGCTGTGTAAGAGCTCTATGCCATCTATGGAATAGCGGCCAGTGCTGCTTGATTGACTGCTT
GAAAGTTGAAAAACCAAGTCTTGGAAGGCAGGATATTGGGATCAGACTGATCATCATCAGATAAG
AACTCAAAGGAACTAGTGGAAGTACTGTTCCCTGCACTCCCAGAAAGAGTGTGAATCATACGCCG
GATGTAATTAGATAGATATCATCAAGATTCTATAGTCTAGTGGAGTAGCCTCTGTGCCACATATA
CTGGGCGATTTAGTTCGTTCGGGACACGTGGGCCAAGAAGCTCTAGGCAATTCTCACGATCACGG
TCGATCATGGTTCAACTCCATGTCGTGAAAGTGAAACCAATCATTTCTTTCATTAACATCAACGA
ATCACTATCTTTCTTTCATCGGTAGGGCGATCAGTCTTTGATTTCTGTGTGTAATCGGAGTGTAG
CACCTCTCTTTATGGGCCTCCACAGATGTAACAAAAAGTCTAATT
Found at i:470707 original size:18 final size:18
Alignment explanation
Indices: 470684--470718 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
470674 ACTAATCTAA
*
470684 TCTAATAGAATCGAAAAT
1 TCTAATAGAATAGAAAAT
*
470702 TCTAATATAATAGAAAA
1 TCTAATAGAATAGAAAA
470719 GTCTTTTCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.29
Consensus pattern (18 bp):
TCTAATAGAATAGAAAAT
Left flanking sequence: Indices 470184 -- 470683
TCGGAAATAGGATTGACTAGCGATTCCGAAGGAACTGGAGTGACATCCCTTTTCCATTTCCATTC
AAGAGTTCTTATGTGTTTCCACGAGACCCGAAAAATGGACAAATTCCTGTTCTTAAGAACACATA
CAAGATTCGTCACTACAAAAAGGATAATGGTAACCCCACCATTAACTACTTCGTTTATGAATTTC
ATAGTAATAGAAATACATGTCCTACCGAGACAGAATTTGTCATTTGCTAGCCTCTTGCCTTGCCC
AGCAGACAAAGATTGACCTACGCGGAAAGGATGATTCATTCGGATCGACATGAGAGTCCAACTGC
ATTGCCAGAATCCATGTTGTATATTTGAAAGTATTGCAGATCCTTGCTTCTCTCATGTACACGCC
GAGCCCCTTTTCTCCTCGGCCCACAGAGACAAAATGTAGGACTGGTGCCAACAGTTCATCACGGA
AGAGAGGACTCACTAATCCGGGATCACTAACTAATACTAATCTAA
Right flanking sequence: Indices 470719 -- 471218
GTCTTTTCTTTATACTTTCCCCGGTTCCGTTGCTATCGCGGGCTTTACGCAATCGATCGGATTAG
ATAGATATCCCTTCAACATAGGTCATCGAAAGGATCTCGGAGACCCACCAAAGTACGAAAGCCAG
GATCTTTCAGAAAACGGATTCCTATTCGAAGAGTGCATAACTGCATGGATAAGCTTACACTAACC
CGTCAATTTGGGATCCAATTCGATATTTTCCTTGGGAGGTATCGGGAAGGAACTGGAATGGAATA
AGATCGATTCATACAGAAGAAAAGGTCCTCTATGGATTCTGTACCTATGGGATAGGGATAGAGGA
AGAGGAAAAAACCGAAGATTTCACATAGTACTTTTGATCAAAAAAGAAATCTGATTGATTTCGTA
CCCCTCGTTCAATGGTCAAATTCTACAGGATCCAACCTATGGGACTTAAGGAATGATATAAAAAA
AAGAGAGCGAAAAAGAAATTCATATTCAATAAAAATGAAGTAGAA
Done.