Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_053642
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: 492062
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Found at i:33430 original size:24 final size:24
Alignment explanation
Indices: 33398--33444 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
33388 CCATTTCTTC
*
33398 GGAATTGTCCGCTCATAGCACGAT
1 GGAATTGTCCGATCATAGCACGAT
*
33422 GGAATTGTCCGATTATAGCACGA
1 GGAATTGTCCGATCATAGCACGA
33445 CGCGCTGCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (24 bp):
GGAATTGTCCGATCATAGCACGAT
Left flanking sequence: Indices 32898 -- 33397
CTAAGGCGCTGTTAAGCCCTGAATCTTAGCTCTTCTCTTTCTTATTCTTAAAAATTTGACTTGAC
CGGGCCGGAAAAGTTACACCGTCACGTCTCAGGGTCATACGCCTGGAACAAGAAGGTTCGTCGTA
CAATTTCGGCGATTACAAAAAGAAAGGCGCTGTTAAGCCCTCTCCCTGTTTGTCTTTCCACTTCC
GTCGTTCAGGAACAAACACTTCGCCAAATTCTTTTGAGTCCCGGCCCGGTTTTTCCCCACTAACC
AATTACGTTACGACCACAGAACAAACTTGGTTGACGAACATGGTTTATGCGCTGCTAATGTAGCG
GCTTGTCGAGCATTTGAAAAACTTACACCATCCATCTCAAATGGGATTTGTCCCGTGGACACACG
AGCAATCCAACCCGTAGGATTTCCTTTTCCTCTTCCCATTCTAACTTCTGTAGGTTTCCCCGTAA
TAGGAAGATCCGCGAGAACTCTTACCCATATCTTACCATTTCTTC
Right flanking sequence: Indices 33445 -- 33944
CGCGCTGCTTCAATGGCTCGATATGAAAGACGACCAGCTCTACAACTTTTGGTGCCATATCTTCC
AAAACCAAGTTGTGTACCATCCGGTTTGCGACCCCTACTACATCTGCCTTTACGATATTTACTAA
ATTTCGTACGTTTCGGATATAGCACGTCCCTTCTTTTTTTTACTATATGAGATCCGCACTTTGAC
ACCTGAAATTCCGTAACGAGTAGAGACTTCCGCAGGAGCATAATCGATTTTCTGGTTAAATACAT
TACGAGATGTTTTTCCATACTTTCCGCATTCAGTTCTAGCTATTTCCGCACCTCCTAATCGACCT
GAACAACAAATACGTATCCCCTCCACCCCTTTTGGCATTATTATAGGAATATCCTTCACTACTTT
ACTAAAAATGGAACGAAATGAGATCTGATTGTTCCTCGGTTGAAAAGAGATGTCTTGAGCAATCA
GAGAAGCACTTTGATAAACAGATTTTATCTTTACCGACTCAATTA
Found at i:63838 original size:20 final size:20
Alignment explanation
Indices: 63813--63850 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
63803 TCTTGTTTTA
63813 GTAGCTAAGGAGTT-CTAGTT
1 GTAGCT-AGGAGTTGCTAGTT
63833 GTAGCTAGGAGTTGCTAG
1 GTAGCTAGGAGTTGCTAG
63851 CAGCTATGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.24, C:0.11, G:0.34, T:0.32
Consensus pattern (20 bp):
GTAGCTAGGAGTTGCTAGTT
Left flanking sequence: Indices 63313 -- 63812
GTTACCAGAATATGGATATTGAAGGGGGGGATGGTAAGACCTTACCGAGTGTGCATCATATCAAG
GTGATGGGCCAGGCAGCAATGCTAGGTCCGAGGAAGAGACCAGTAGGTTTGGAAAGCCTGTCGAT
CCATCCTGATTAACTTACGCTATTTCTGACTAGAGAGAGGACTTAGATCGGAGAGGAGCAGCTCC
TTTCTTTTTAACAGAAAGCAGTGATGAATGGGACGGAGCTGCTACAATAGCTTCAGCTGGAGCTG
CTTTTTGTATTGGAGCAGAGGTGGCAGTTCAGACAGCAGCAGGAGCAGGACCAGCAACTAGGGTT
GTTCACAGAGCAGCCGTCTTTCCCTCTCAAGCGGAGAAGACTGGTTACATGCCCGATCCGGTAGG
GATGGTTCTTCTCGACAGATTAAGCTACTTACTAGAGTTCGGGTATTGAACAAACGGGTGGCAAC
TTGCCCGATAAGAAAAGTAGCCCGAGTGAAAGAGTTCTTGTTTTA
Right flanking sequence: Indices 63851 -- 64350
CAGCTATGAGTTCCGAGTTGACGAGATCAAAAAAAAATCTGTCCCTTTGTGGGACTGGTGACACC
TGTACCACACTCTATGGCACACACCCCTAGTTGTAGTAGACGAAGATGGTCACCTAGGATAGGCA
GACAAACCTGAACCTTAGAAAGTAGCCGGCAGAGACGCTACGGGAGAACCACCTAGGATGGCGTA
AGAGACTCGATAGGGATCGATCGTCTCATCGGAGCTTTAGACAAGGGTAGTGGAACCAAAACAGG
AGCAAGGACGTCGGATCGAATTGACGACTTTGGATGAAAGCCAGCCCCCCATTCCCAGCTTTGTT
GCCTTCCTAGTTCTCTGGGGCAATGCATTCCAAAAACCCGAACCTCGCTATGACCTTTCACTGGC
TAGCTGTTGCGTAATATCCTGACTATCCTAGTATGGACCATGGGCTCCCCACCTTGAGGACCAAA
GGTTGAATAAGGGTTTTGACTAGTGCATTTTCTCACGGATTCCAC
Found at i:147553 original size:21 final size:21
Alignment explanation
Indices: 147529--147590 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 21
147519 CAAGCAGCGT
*
147529 AAGCGGGGAAGGAAGCGCGAA
1 AAGCAGGGAAGGAAGCGCGAA
* * *
147550 AAGCTGGCAAGCAGAAGCGCGAG
1 AAGCAGGGAAG--GAAGCGCGAA
* *
147573 AAGCAGCGAAAGAAGCGC
1 AAGCAGGGAAGGAAGCGC
147591 TCCTGCCCGA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
21 16 0.50
23 16 0.50
ACGTcount: A:0.39, C:0.19, G:0.40, T:0.02
Consensus pattern (21 bp):
AAGCAGGGAAGGAAGCGCGAA
Left flanking sequence: Indices 147029 -- 147528
CGCACACTAAGTCTATCTATAATATTGAAAAGCTGTCTGTATGACAGCTGAGTAAAGGTTGATTG
TTGTTTCATGAGAAATATTCCATTTCTTATGGAAAGCAGTCAGCAGCAGATAGAACGTTCTTAAT
GTCCTAACCCATCTCGCCCTATTGCCGGGTTCTTAGGCCCGGCAGGGGGGGGGCGTGCAGATTTT
CTTTCTGGATGCTCGTGATACCTTGGGACTACCAAAGAGTGTCCAACCACGACTACTCTATTGGT
AAAACTACCGGTTCACAACCGAGGTTACCTAGAATATAAATTTCTTCCATCATAGGCGCCTCTAG
ACACACCAAGAAAATTCTTTTTTTACATTGAACATACTATAACCAGACGCTCATGGTGTGCGGGG
TTGCAAGACCCCCACCCGCAAAGGTTTTTCCTCTGCATGGTGCCGTATTCTTTTTATTCTACGTT
TCATTTTAACTAATTTTATTATTATTTAAGCGCAACAAGCAGCGT
Right flanking sequence: Indices 147591 -- 148090
TCCTGCCCGACCTCGAAAAGCCCCCTCCACCGCCCAATAGCGGCCTACAGCGCAGGGCTCCACGC
AGCAGTGAATCATTATTCCGCCTTCGGGTGTTGAAGTGGGTGTATATAATGAGACTGACATCGAG
TGTAAAGTTTATTTGATTACCTGCCTTCCGCCTTCAGATCTGCCTCACCTGTCGATTAAAGAATT
CAACCAACTAGTTGGAGATGGCAGCTTCGAGCCCCACCTTGGATATCCAGTCGAGTGCCTGCCTT
CAAAGATATGTTTTCATTTCGATTCGACCGCTCAACAACTGATCGGGAGGGGATCTGAGTCCACT
AATGAAACCGTCTGTCAATCAATCACACGAGAGGGCATCCGACGTCTGCTATAAAGACGAAATGC
GTTCGCTCAATCAATAGCAACTGAGTGCGGATTCCTTAAAGCAATCAGTCTAAGAGGTTTGAGTG
TACTACCTGTCCTGTCTTTCGGTCAATTATTTTTGTTAAGAAAAG
Found at i:248335 original size:20 final size:20
Alignment explanation
Indices: 248301--248338 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
248291 CTCATAGCTG
248301 CTAGCAACTCCTAGCTACAA
1 CTAGCAACTCCTAGCTACAA
248321 CTAG-AACTCCTTAGCTAC
1 CTAGCAACTCC-TAGCTAC
248339 TAAAACAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.32, C:0.34, G:0.11, T:0.24
Consensus pattern (20 bp):
CTAGCAACTCCTAGCTACAA
Left flanking sequence: Indices 247801 -- 248300
ACTCCAAGTCGGGATGGGTGCCACAAACACAGCTTGTACTGGCTAAACATCTCCTATCTTTCCAT
TTGAAGGAGTCTATCCCACTGCTTAAGTCTGACAAATGTCTGACACTACTATATCGGACGTAAAG
TCTTGCCCGGCCTCACTGAGTGGATCTGGTGCCCACACCGTAGCTAGTCCTCTTAACTTTATTGG
AGCAGGTGCCCAAGCTTCTTTGGCTAAAGCACATCTCCTGTCTGAACCCTTGACCGATTCGAAAG
ACAAATGCACAAACCCACATTGAAGAAAGAGATGATCGAGTCTCTTACTTAATCCTAGGTGGTTC
TCCCGTAGCGTCTCTGCCGGCTACTTTCTAAGGTTCAGGTTTGTCTGCCTATCCTAGGTGACCAT
CTTCGTCTACTACAACTAGGGGTGTGTGCCATAGAGTGTGGTACAGGTGTCACCAGTCCCACAAA
GGGACAGATTTTTTTTTGATCTCGTCAACTCGGAACTCATAGCTG
Right flanking sequence: Indices 248339 -- 248838
TAAAACAAGAACTCTTTCACTCGGGCTACTTTTCTTATCGGGCAAGTTGCCACCCGTTTGTTCAA
TACCCGAACTCTAGTAAGTAGCTTAATCTGTCGAGAAGAACCATCCCTACCGGATCGGGCATGTA
ACCAGTCTTCTCCGCTTGAGAGGGAAAGACGGCTGCTCTGTGAACAACCCTAGTTGCTGGTCCTG
CTCCTGCTGCTGTCTGAACTGCCACCTCTGCTCCAATACAAAAAGCAGCTCCAGCTGAAGCTATT
GTAGCAGCTCCGTCCCATTCATCACTGCTTTCTGTTAAAAAGAAAGGAGCTGCTCCTCTCCGATC
TAAGTCCTCTCTCTAGTCAGAAATAGCGTAAGTTAATCAGGATGGATCGACAGGCTTTCCAAACC
TACTGGTCTCTTCCTCGGACCTAGCATTGCTGCCTGGCCCATCACCTTGATATGATGCACACTCG
GTAAGGTCTTACCATCCCCCCCTTCAATATCCATATTCTGGTAAC
Found at i:327092 original size:18 final size:17
Alignment explanation
Indices: 327069--327103 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
327059 TGGTCGCAAA
327069 TTCATATACAGCAATTAT
1 TTCATATACAGC-ATTAT
*
327087 TTCATATGCAGCATTAT
1 TTCATATACAGCATTAT
327104 ATTATAAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.40
Consensus pattern (17 bp):
TTCATATACAGCATTAT
Left flanking sequence: Indices 326569 -- 327068
GCCCATAGCCTTGACGGAGGGGAGGAAGCTAGAGGATTCTTCGTCTTTTAAAGGTAAGCAGATAG
TATACTCGTATTCGTAAGCAGAATCATCGTCATGTGACGAGTCCAAAGTACTCTTTACTCCTGAA
CTACACCTTTTTGTATTCGTTATATAGTGGAAACTGAGCTGTTCACGTATCTTGACACCTTCCAA
GGTATAGGTAGGTAATTTGTGCCTTTGACATAGCCTCTTATCCGATAAATGCCCAACAAGCCGCC
TTATCCACCTTGTAGACTTTGATACTCTTCTTCCGTTTCGACCGACTGGACACTGGTCAACGAAT
AGAATAGCAGATGCGCGCCCTTGCTTCCTCTTCCCAATAAGCCTCCATCTGCACCTTCAGAAGAA
AGAGTACGAGCCCTTAGCCTCACAAGCTTGTATATCCTTCTTAGGAGGACAACAGACCAAATAAA
TCATCTCGGAAGAGAACGCCTCCCCTCCCCTGGCATGGTCGCAAA
Right flanking sequence: Indices 327104 -- 327603
ATTATAAAGAGTGTGCTGCTTCTTTCTATGCAACGACTTGATTGAGACATTTATTGAACAAGGCC
GATCTCTATAAACAATTGAGAACGGGGCAGACCCCGAATAGGAGATATAAAGTGGATCACCACCT
GGCTTGGCATTAAGACTCCGTTACAGACATATCATCTGAGCCCAAAAAACCCGGTTTTTCAAGGC
CGGGCGTAGCACGTCTATGGTAGTTTTCCGGTGGTTTGATTTTGGAAGCTATCAGCGACACCCTC
TTAACCTTCACCAAAAAATCCCCATGCTTCAAAAGAGGGCGCGGGCCGGGCAAAGAGAATTAAGT
TCGTCTAATTACTTTCACTTTATTTCTAGGCACTAAAATGCTAGGCTTCATACGTTCTACTACGC
CCGGCTACTGCTCCCACTACTGCTTCGGCAGCGTCAGAAGCTCGAACATCTGGAGCAAATAATGG
ATAGGAATAATATGTTTCGGACGTTCTAGATGGTGCCTCCACGTT
Found at i:330239 original size:14 final size:14
Alignment explanation
Indices: 330215--330247 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
330205 ATCGCTCATT
330215 CGTCC-ACGAATAC
1 CGTCCTACGAATAC
330228 CGTCCTACGAATAC
1 CGTCCTACGAATAC
*
330242 AGTCCT
1 CGTCCT
330248 CTAGCTTCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.27, C:0.36, G:0.15, T:0.21
Consensus pattern (14 bp):
CGTCCTACGAATAC
Left flanking sequence: Indices 329715 -- 330214
ACAGAGTTGGATTGCCTGTTTTTACCTCGGAAGTGGGGAAGCGATCCGGGCATTCTACCAAAGCA
AGGCGGGGGGTTCGTGACCTTGCCTTAAGAGTTCGATCCAGGCAGGGAGAAAAGAAGGCATTTGA
CGTGAAAAGACTATTGCCATTTAGTATTGGTTGCAGCAGGAAGGAGAGAGGGTTCAATACCCGAT
TTGAGAACCTGGTAACCTAGCATCCTCACTATTAAAGTATGAGTTAAGCGCGATTGAAGTAAGAA
AGTCAAGCTTTTGCCAGAAGATGAGTCTTTCAAGTATCGGTAACATTCCCATTATCCTAGTCTAG
TACGCTAGGGACTCTCTTCAAACAAAACGGGAGGCACAATCAGTTGAGTCTAGCATTCCTGTGCA
ATTCCCTTCCTTTAATTAGAGCGACTTCCCGCTCTTCTGTCTGTCATCTGTCAACTGGTAAGGGT
CGCATCTGTCCAGTAACTGTCCTGTAGGCGGTCCAATCGCTCATT
Right flanking sequence: Indices 330248 -- 330747
CTAGCTTCTGTTATGAGTGAATTTCTATGTCCTATTTGATCTAAAAAGAAGCCCTGTGAAAGCCA
TTTGTAATACTACGCTATACGGTCCATTAACCTTGCTTAATTGGCCTTATTTATGTGCTCTAGTC
GAAGTCGCAAGCAAGCCAGCCTAGCAGAGTCATCCTTCCCTCTAGCAGTAGCACTCTAGTCCGTC
CTTATTCGCAAGGAAGTATCTGCAAGTGAAAGGAAGGCGAAGGTTGAATGAATGGATCTGAGAAG
GAATCAATCTGTGCCAGTTATCTCTTAATAGCATCCGCAGAAGAAGCAGCAGAGCTTGGTTCGGG
TAGAACAGAATTCCACTCTTTCTAAAAGAGAAGCAGCAGCAGGAAAGCAGTGCAGTTGCCGTCCG
CGAGCTAGGGCAGTTGCTAGCTAATCTGATTTCGGGGAAGCGTAGCTATTCAATATAGTTTGATT
CTGAAATGCTTGCTAGATTACTTGCTTGCTTTCAGCTTTACAAGT
Found at i:332025 original size:30 final size:30
Alignment explanation
Indices: 331989--332081 Score: 186
Period size: 30 Copynumber: 3.1 Consensus size: 30
331979 GGGGAATCTC
331989 AGTTTGGATGTTCCAAGTACAAGTAGTAGT
1 AGTTTGGATGTTCCAAGTACAAGTAGTAGT
332019 AGTTTGGATGTTCCAAGTACAAGTAGTAGT
1 AGTTTGGATGTTCCAAGTACAAGTAGTAGT
332049 AGTTTGGATGTTCCAAGTACAAGTAGTAGT
1 AGTTTGGATGTTCCAAGTACAAGTAGTAGT
332079 AGT
1 AGT
332082 AATATCTCAT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.30, C:0.10, G:0.27, T:0.33
Consensus pattern (30 bp):
AGTTTGGATGTTCCAAGTACAAGTAGTAGT
Left flanking sequence: Indices 331489 -- 331988
AGAAAGATGTTATTGCGCCAAGACACATAAGGCAAAGTTCAGACATGCAGAAGGTACTTGTTTGG
TATAAAGTAGCCAACGAGTAGACGCACCAAATGCCAAAAGTCCTCCCTCACTTGAGTGCCCCTTT
AGAGTAATACTAATGTCGTTCTCTAGTAGTATGCTAGAGGGAAACTTTATGCTGGGTAGTGGCAC
CAACAGGAAAATCCCAAGGATAGAGAACAGCTCTATTCAATGCCGTTATACAGCAGATGTCACTG
GCATAGCGGTCCATTGAGATAGCTATCAACTGGCCCAGTGACCTCTCCGCAGCTGTAGTTATAGT
ATAAAGTTTCCGCGGGTAAAGACAACTGAATGAACAATTCAGGGAAATCCAAATGGTATTACTAC
TATAAAAGACAAAATTCACAATTATGTTTCACAAAAGCCAGTTTTTTAAAGCTGTCTCAGCCATT
GAAAATATGGATGTATTCACTATCACAAAGAAAATGGGGAATCTC
Right flanking sequence: Indices 332082 -- 332581
AATATCTCATTGGTTTCTGGGAGTGATGTTCCAAATAATATTATGCCTATGCTCTCATCCACTAG
CAGTATTTTAGAAAGATTCAATAAATCTAGTAAGCATTCGGAGTTTACACGTAAAGTTATGGATC
TTACAAAATCACCATTTATGGATATCCCCAAGACTGTAATGGATCTGACTTCGAATTCTGCTAGT
TATATTTTATCATTAGGCTTTCGATTTATGCCCGGTCAAGGTGATTTTCTATTCAAAAATCTGAG
ATTGCCTGATACCTTAGATGGTTTAAAAGGGTTAAGAGAGAACCTAGGTCTAACGTTAGCAAAAG
ACACTCTTACCAATCGCGGTATCCTCAAGTTTAAGGGTTTATGTGAAATACATGCTAAAGGCTCT
TTGATGATGAATCGTGTTTTGCTTGAAGCAATAACTTATAATGATGGATTTTATGGACGTTTCTT
GGTATTGGCCCAAATAGGCGTTGGTTTAACCGTATGGTATGGTTT
Found at i:383661 original size:14 final size:14
Alignment explanation
Indices: 383642--383672 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
383632 AGCTAGCTAG
383642 GAGTAGTTCCTCAA
1 GAGTAGTTCCTCAA
*
383656 GAGTAGTTCTTCAA
1 GAGTAGTTCCTCAA
383670 GAG
1 GAG
383673 AAGGTGCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (14 bp):
GAGTAGTTCCTCAA
Left flanking sequence: Indices 383142 -- 383641
AGATGATGAAATGAAGAAGAAAGAACGGGAGGCGTCTACGGAAGGACTGACGAACTACTTACTTG
TGTTTGGTTAACTACTTTACTGACTTGGGCTTCATTCTCGTAAGTGGTACACCTACACCCTGCAC
GTACACTCACTATATCTATATACGTATACGTTGATAGCCTGTCGGCTGTTCGTCGCCTCTCTACT
ACATACAGTTGTTTCAGGCCGAACACAAGGGCGTAGCGCCCGGATCCTCTTCTTGTTCGGGTACG
AAGCTACGCTATTCAAAGCATCGAGCGAGAGTGGGGTTGTCCAGTTCAAGAACCAATGCAAGCAA
CCCCGAAGCGCATAGAAGGGAAAATTTTTGACTGGGAACTTCTGGAGTTCTTTCTGCGTCCACCG
TTCCACATTCCGACGACGCCTCCCGTTCTTTCCTCTCTGAAGCCTATTCTTGCTCAGCACAAATA
GTAGCAACCAAAGCTAGGAGTTCTTCCTCAAGTAAAGCTAGCTAG
Right flanking sequence: Indices 383673 -- 384172
AAGGTGCTTGACTTCTTAACTTCTAAGCGTTGAGCTCAACTACAAAGGAGAGAGTTCCTTTAGTT
TTGTTATTAGTTGGTTGGCTTTTTTGTAACCCTAACGGGTTCCTTCGTAGTTTTCTTAGGGTTAG
GTTATGGATTACATCGCCTTAGTGGGATTGTCGATAAGCAAGACCTTGCAAAGACTAGCTTCTAA
GGCTCTCTTTGAACTTGTTGCTCACCGACACCTACTATATATTCCGGTTTGTCTTCTAGTAGGTA
GAGTAGCCTACCCTATAGTAGATCTATGTAGAGTAGCTAACCAAGCCTAAACGAAGGTCTGTGGA
TAGTAGGTCTGTAGATAGAGTAGCTTACCCTTCAAGAAGGAGTTCTTCTGAGGGCTGTCGATTAG
CAACAAGACGCAAGTAGTTGTTCTTCTTTTAAGGTTTCAAAGCGAGTTCTTTCTTCCCGAATGTA
GCTACCTCTCTTAGCGGTAGGTAGTAGCTACCAGTTTCTTTTCTG
Found at i:418651 original size:44 final size:44
Alignment explanation
Indices: 418588--418676 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
418578 CGATTTTCTA
*
418588 TTCACTCATGATCTGGCCTGACCTGGTCGACCCGATCATGATAT
1 TTCACTCATGATCTGGCCTGACCTGGTCGACCCAATCATGATAT
*
418632 TTCACTTATGATCTGGCCTGACCTGGTCGACCCAATCATGATAT
1 TTCACTCATGATCTGGCCTGACCTGGTCGACCCAATCATGATAT
418676 T
1 T
418677 GAAGGATGGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.31
Consensus pattern (44 bp):
TTCACTCATGATCTGGCCTGACCTGGTCGACCCAATCATGATAT
Left flanking sequence: Indices 418088 -- 418587
CCCACACCTGTGTAGAGTAGATCGTTCAACACCTGCGGCACAAACCCATTTTTGACCAATTGGTC
CGTCTATCATAGGCGACCGAACGGCCGCCCCCCGAATTACTAGACCGACCTGCTATAATAATTCC
ATAAACACCTAGCGAAGATATAGCAAACAAATAAAGTAGCCCTATGTTCGGATCTGACAATACCA
TACCATAATCAAAAGGTACAACGGCCCGAGCGACCAGACTTAACATAAATGTAGCCACTGGAGCC
ATTCTAAAAAGGGAGAAATTAGCACTACTTGGTGAAATAGGTTCTTTTAGAATCAATTTCGAACC
ATCTGCTAGAGGTTGTAACAATCCGAACGATCCCACTACATCAGGACCCTTTCGACGTTGCACAA
AAGCCATTACTTTACGTTCAGCTAGCACTAAAAAGGCTACTCCTAGTAGAAGTGGTAGAATTAAA
CCAATTATTTCCGCTGGAACAACAATGTACGTTTTCGATTTTCTA
Right flanking sequence: Indices 418677 -- 419176
GAAGGATGGGACCTTTTCTCGAAAAACTCCGGATCCCGAGAAGTTTTGAAGATGGTGCATTAACG
AATCCTGTTACTTCGAATGGAATCTCCGCCCGCCTCACTTGACTGAGCATAAGCGAAGTCAAGGG
ATTTCCTTATAACTAGTGGCTGAGAGTAAGCAATCCATCCCCCTTCATTCAACTTGTGGTTGAGT
CATTAACTCTGGGTCGGGAATCAGTCTTATTCTCTTTTGCATTTTTGATGAATCACCTGCGTTCT
TCTTCGTGTCCGTCCGTATCGCAAAGCTGGTCAACACCAGCTGTAATGGTTGAAAATAGGGGGCG
GAACGACGACCCCCTAATCATTGTTCGAGAAAGCAAACAAATGATTCGTTCCGACAACTTTGAAC
CATCTCAACCCCTATTCATTCGCCGATCAACCGACGATCGATCGGGCGGGCTGGTTGGGAAGGGG
TGATTAGCAGAGAAAGGAATCGCTGAGAGATAGATTCTACTGTTT
Found at i:432991 original size:34 final size:34
Alignment explanation
Indices: 432921--433017 Score: 88
Period size: 34 Copynumber: 2.8 Consensus size: 34
432911 TCCGTTTTTC
* * * *
432921 TAGGGAAGTGCAGGACAAGATTCCT-CTCCTGTTGA
1 TAGGGAAGTCCGGGACAA-AGTCCTCCTTCT-TTGA
** *
432956 TAGGTCAGTCCGGGACAAAGTCTTCCTTCTTTGA
1 TAGGGAAGTCCGGGACAAAGTCCTCCTTCTTTGA
* *
432990 TAGGGAAGTGCGGGACCAAGTCCTCCTT
1 TAGGGAAGTCCGGGACAAAGTCCTCCTT
433018 TCTAGGTCAA
Statistics
Matches: 49, Mismatches: 12, Indels: 3
0.77 0.19 0.05
Matches are distributed among these distances:
34 31 0.63
35 18 0.37
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (34 bp):
TAGGGAAGTCCGGGACAAAGTCCTCCTTCTTTGA
Left flanking sequence: Indices 432421 -- 432920
ATTCCAGATTATCCAGATGCTTACGCCGGATGGAATGCTCTGAGCAGTTTCGGCTCTTATATATC
CGTAGTTGGGATTCGTTGTTTCTTCGTGGTCGTCACAATCACTTTAAGCAGTGGAAACAACAAAA
AATGTGCTCCAAGTCCTTGGGCTGTTGAACAGAATTCAACCACACTTGAATGGATGGTACAAAGT
CCTCCAGCTTTTCATACTTTTGGAGAACTTCCAGCTATCAAGGAGACGAAAAGCTATGTTAAGTA
AAAGAAGAAAAGGTCGCCGACTGCTACTAAGAACCTAACAGAACAAATAAATCCGGTCCGAGTGA
CTGAGACTCCGGGTGACGGGGAACCCCCGGCGGCAAAGTGGCTGATGACCACAGGAAAGAGGGCC
CTAAATATAAATAAATATGTTCCAATTCTTTAGAAGAAAAAAAACCTTTGGATCAAAATAGAAAC
GAATATTTGAGAGAATTAGAAATGAAAAATCCTCCTCCGTTTTTC
Right flanking sequence: Indices 433018 -- 433517
TCTAGGTCAATGCGGTCTTGAGAGAGTGAAGGCCTTTTTCAAGCATCCCGCGCCCATCACCCCAG
GAAAGGTACAAAGACACGATTTTCTTAGAGTTAAGCCATAGAATAGAAAGACAACCATGGAAGGC
GATGGAATCCCTCGCCAATGGAGTGGAGAAATGTGCTTCGGGTAAGAAGGGACTGGAGCATTAGT
GGTTGCCAGTCAAGAGTTCGGTGAGGTTTAGTGATTCACGTCAATACGGAGAGTCAAGTGTAAGT
CATCAATGAAAGTAGGTCATCAAGAAATCCGTTCTTAAGTAATCAACATCTGTCCTCTTGCTCGT
CTATATAGTAAGGTCATTCATAAAAGAGTCAGTAATCAAGTCATTAAAGTAAGTAAGGACAGTAA
GTCATTAAAGATATAGTTAGATCTCGCAATGCATTTGAGCTTGTAGATTACGTGACGATAGGTCA
GATAGGGACGGTACAGATGTTGTCACTGACAGATCAGTATTTACT
Done.