Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_069589
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: 508930
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Found at i:28760 original size:27 final size:27
Alignment explanation
Indices: 28722--28781 Score: 95
Period size: 27 Copynumber: 2.2 Consensus size: 27
28712 AAAGGAGTCC
28722 TACTTAAAGGTCC-TATCCTAGTTTTCA
1 TACTTAAAGGTCCGT-TCCTAGTTTTCA
*
28749 TACTTAAAGGTCCGTTCCTAGTTTTCC
1 TACTTAAAGGTCCGTTCCTAGTTTTCA
28776 TACTTA
1 TACTTA
28782 GCGGATTCAG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.42
Consensus pattern (27 bp):
TACTTAAAGGTCCGTTCCTAGTTTTCA
Left flanking sequence: Indices 28222 -- 28721
GATGAATGAAAGAGCTAGTGATTGCGAAGGTATTCTCGCAAACAGCGGAGTGGCTTCCGGCCCTC
CTTCCAGGTAGAGAGAGAGACCAGTTGATTAAATTAGGGAGCGGGTTCTCTTTTTTTCGAGTTTT
AGAGTTTGTGCGACTCAGGCGACTAGTTTCCCCAGAACCTTAGCTATTCGTTGGTCTTGATGACA
TTGTGGGATAGAGTTACTTCGATCTTGATTGATAGGTCTTCCCTGAAAGGGGGGATCCGTTTCAA
AAAGCCATGATGCCCATGCATGAGGACTTTTTCCCTTTAAAGAGATTGGAAGGTTGTGAGGAAGA
TTATGATATTATGCAGCACTTCCGAATTTGAGGGGCGAGCCCTTCTTTCTGTGTCTGAGCCAGGG
TTTTGTTATCTTTTCGATAGGTCGTTGCAGATATAGAAGATAAGGCCTATGAATTGCGACTTTCT
TTGGTTGGCCTTTATTTTTATCATTCATGGAGTTAAAAGGAGTCC
Right flanking sequence: Indices 28782 -- 29281
GCGGATTCAGAGTTGATCATGTTCTTAATTCCATAAGCCCAGAGAGAAAAGAAAGATAAGCATAG
GCCTAGCCTAGAACCTAGAATGTAGAATGACTCTGCAACAGAAAGAGAATGAATAGGAAGAGAAG
ACTAGATAGGATAGTTATAGTAAGAAGAAATTGCCAGTTCCCTAATAGGGATACACTGGATTGGA
TACTACACCCGAGGTAGCAACTTCCCAAGTCATTCCTCTTTCAAAGAGTCTTCCATAATAAATAA
AGGGAGAAGGTTGTTCGACTGAAGCCCTACCTTCCACCGATGAAACCACTCTTGCAAATTAAAGG
TTCACGTGTAACTAAGACAAGCATTAGAATGAAAAGGTGGGCAGGAAAGGGAGTCAAAGACTGAT
TTACTCCTTCGATAAAGAAGATCAAAGCCATGGCCATGTATATGAGATATCAAACTTGCCCGGAC
ATTCATCCATTTCATTTAGTGCAGTTACGATGTCATATAACTAGA
Found at i:106807 original size:20 final size:20
Alignment explanation
Indices: 106771--106808 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
106761 CAACATTACA
*
106771 AAGTTAACTAACAACATATT
1 AAGTTAACTAAAAACATATT
106791 AAGTTAAC-AAAAGACATA
1 AAGTTAACTAAAA-ACATA
106809 GAACAACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.13, G:0.08, T:0.24
Consensus pattern (20 bp):
AAGTTAACTAAAAACATATT
Left flanking sequence: Indices 106271 -- 106770
CAAGAGGAAGGGGCCTCGGGAGCCCTTATGCGGATGATAAAGGAGTTTTTTTTTCAGTCTAGCGT
TAGGGAAATCGATTACGGAAACAGGGGTAGTATTAGAAAGGGCTAATCAGATGTTGTTCCTCATT
TTTTTTTCATGAGTTTGTTGACGTAAGTTAGGGAGAGGGTAAATCGTTTCCTTCTTTCGCTATTA
GTTGATCTAAAGGCTTTTCTTTTATGGTTATTGATTGCACTAGACTAGAAAGGACAAAACACACA
ACTTCCACCCTCTTGGCTGTAGTTTCAGCTTTTATATATGAAAAATGAAAAAGAAAAAAACCATA
TTTCAAAAAGAATTCAAATCATAAATTTCTCTGCACAAAACAGGGGAAGAGAATGAACTAAAACA
GAGCGGATTTTTCTTCTTCTTCATTCCAGCACTACAAGCAAGTTTTTATACATGGGAGTACATCC
GATAGGAAGACAACTTTCAGCCACACAACTAAACACAACATTACA
Right flanking sequence: Indices 106809 -- 107308
GAACAACATTAAACATAACAAAGAAAGCCATGCATTAAAACACACTACTTTGGGTCGACGGACTC
CTTATTGAAATCTTCTAGAAAGAGTCGACGGACTCTTCTAGTCTCCCCGGTCACCGAGGGTGGCG
ACCCGCACAATGAGCTCTTTTTGTTCGTCGAGGAGGGCCCTCTTCCTCTCTTCCAGACCGCGAAT
GCGGTCCCGGATCGATTGCATTCTTTGTCCTACGACCTCCGGATCGAGAGCAGGCGGATGCTCCC
AGAACAGACCGAGCAATTGCTCCTGTTGGAGCTTCTCGTTTTCCACGGTTTGTATTTCTTGTGGA
ATGGTTGCAAGTCTTCCAGCGATATCCATAAGAGTGTTAAGTCTTACTGAATGAAAATCTTTTTT
TTCTTTCTTACTTCTACGTCTTTCTTTGCCAAATAGAGACTGAAAGAAGCTTCTATTTATAGGCG
TTGGAGGCCCTTAACCCTTTCTTATTATTAGTAAGAATTCTTGTC
Found at i:107525 original size:23 final size:23
Alignment explanation
Indices: 107495--107539 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
107485 ACTCCCTCAG
107495 GAATAGGA-CGCAATAATAGAGCA
1 GAATAGGAGC-CAATAATAGAGCA
107518 GAATAGGAGCCAATAATAGAGC
1 GAATAGGAGCCAATAATAGAGC
107540 GCACATCAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.47, C:0.13, G:0.27, T:0.13
Consensus pattern (23 bp):
GAATAGGAGCCAATAATAGAGCA
Left flanking sequence: Indices 106995 -- 107494
ACCGCGAATGCGGTCCCGGATCGATTGCATTCTTTGTCCTACGACCTCCGGATCGAGAGCAGGCG
GATGCTCCCAGAACAGACCGAGCAATTGCTCCTGTTGGAGCTTCTCGTTTTCCACGGTTTGTATT
TCTTGTGGAATGGTTGCAAGTCTTCCAGCGATATCCATAAGAGTGTTAAGTCTTACTGAATGAAA
ATCTTTTTTTTCTTTCTTACTTCTACGTCTTTCTTTGCCAAATAGAGACTGAAAGAAGCTTCTAT
TTATAGGCGTTGGAGGCCCTTAACCCTTTCTTATTATTAGTAAGAATTCTTGTCTTGGTTCCGGA
TCATTTCCACCCTGGCTTTTCATTAATAGTGAACCAGATCCACTAGATTTTAGTGCGCTGAATAA
TTGTCCTTTCCCCGTACGGAAAAGAGTACGAAAGGCCCACCCCAAAGAGCGAATAGTCCTTTGGT
TTTCGCGGGTATCGCCACGCGGCTTAATCCCGATCACTCCCTCAG
Right flanking sequence: Indices 107540 -- 108039
GCACATCAGAGACTACTCCCCTTTTAATAATAAGGCAGGGTTTGGAAAAGCCCCTTTCTTAAGAG
ATAGAGCAATCCTCACTCGACAGCTCAAAGCTGACCAGTACAAAACCATGTGATCCGTCCTCGTT
TACGTACCCCACTGGCTTCGTCGTACCCTTACTACTCCTCGTTCACTGGCTTCTACTTGTCTTTT
ACTGGCTTATTTGTACCCAGCTACATGATGGAACTCCCCTCGGCCAATCGTCACTCGGCAGCTCC
GTCCTTGATTAACTTGATTGACTTGATTGATCTGATCAGACGCTTGCTTTTTCCCAGCAAAGGTA
CCGTTTACAGCTCAATCCGTAAGTTCACACTAGTCAGTACAGCTTTTAATTTAGTTTAGTGAAGA
AGTTTATAAAAGCAAGAATTTTAAGCACCGATTTGTGCCACGTCCTGGAAGAAACCGGCTGATGA
TATTGAATTCATCAAGTACGGTCTTCTTTGGAAGTGTTACGATCG
Found at i:111414 original size:21 final size:21
Alignment explanation
Indices: 111367--111415 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
111357 GAATAGCCGT
*
111367 AGTCTCGCATGATCGAACGCA
1 AGTCTCGCACGATCGAACGCA
* *
111388 ACTCTCGCACGATCGAACTCA
1 AGTCTCGCACGATCGAACGCA
*
111409 GGTCTCG
1 AGTCTCG
111416 GACAAGACAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.24, C:0.33, G:0.22, T:0.20
Consensus pattern (21 bp):
AGTCTCGCACGATCGAACGCA
Left flanking sequence: Indices 110867 -- 111366
GAGTGATAGGTTACATTACTTACTAATGACATCTCTTGTGCTAATCTTTTAGATCCAATTGCAGG
CCTAAGGCCAGTTGCGTTCCCCGGAGTTGGAGTCGTAGGCCCATAACCTTTTTTGCCCCTACTGT
TCCAATCCAATAAACTCTTACATACCAAAGGAGAGATTCGCCTTATATAGAGAGGGAATAAAAGG
GATTACTGAGAGTGGTGAGTGCTAAGCACTTTTCATGTCGTGTCAGACCATTTGCTCTCGATGAC
AGGCCCATTTAAGTTGCCTTTTTGAATCCTTTGAAACAGCTATTTAGTCTTTACTTTCTTGTCCT
GTACTTGACTTTGGGTAATTCATCTAGTGGAGTGCCCTGGCGGTTCTAATTAGAATCTAATCTCT
CTAGTACGACTTCCTGTAAGCCAGTGCTTTGACCAGACTAAGAGCGAGCTCAGTGGAACTTTCAT
TTAATGGCATTTCGGTCTTCTAAGACTCATCATAGGAATAGCCGT
Right flanking sequence: Indices 111416 -- 111915
GACAAGACAACGTTAATTCGAAATCTATTAGAAAATGGAAGTCCAATTCCGCCTTCACTTCTAGA
AAGGCTCTTTCTCAGAATCAATCTCGAAGCTGGTGACAAGCTAGTGCGGAATTCACCACACTAGA
GGCGAACGACCGATCGAAGAGATAACACATTATCTCGAACAGGAGTACCAAAGGCCAACTAATCG
ATCTAGAGGTTTCAGTTGATCAAACGTACCATCAGTTGGTAAACGCTTGAGAACCCCTTACTACC
ACGAAGTGGTCTTCTTTGTTGTAGTATGTAAGAAATGTCACCTAAAATGCTTCTTGTTTTTGACA
AAAGAAGAGTTCCAACGTTTCCAAAACGCTTCCCCGTGGAAGCCCAAGCTTAGTCCACTACTCAA
CTCAGGTTGGCAGGTGCTTGTGCATACAATAGTATTCAAGTCCTTAATCTTAGTCCTAGGAAGAA
GGGCATATTCATTCAAGCCAATTCGATTTGCTTGGGGGAGTTCCC
Found at i:149466 original size:12 final size:12
Alignment explanation
Indices: 149449--149482 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
149439 CTATTGATCG
*
149449 AGCTAAAGCTAA
1 AGCTAAAGCGAA
149461 AGCTAAAGCGAA
1 AGCTAAAGCGAA
*
149473 AGCGAAAGCG
1 AGCTAAAGCG
149483 TTGAATTCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.47, C:0.18, G:0.26, T:0.09
Consensus pattern (12 bp):
AGCTAAAGCGAA
Left flanking sequence: Indices 148949 -- 149448
CCCCAGACGCTCCCACCTGTTGAAATCAGCTTTCAGAACGTAGGCTGGCCTCTTCGCAACAAGGG
AAGTAATCTTTTTTACGTTTCAGATCTGCTGACACGGAAAGTGGCTAAACTCATTTGCCCAGACC
CTGATGCGTTTTGGGTCTCAAGGAGGCAATTCTCTCCTTTTTATTGGGTCAACTTACATGTGATC
GATCGAGCTAGACTTTATGAATGAGTTTGAGTTGGGCTTACGAGCGAATCACCCTTTCACCTATT
CTAGAGTAGTACTAAATACCTAGTCTAGAGAGTCTCTCCCCACTGGCCTTCGCTCTATCCTTCGC
ACCAGCCTCAGACGCTAATGCCACTAGCTAGCAGACAGCGCAAATCGCCTTCTCTCTCCTATCCT
ATCCCCGCTGGCATGTCAATCAGTAACCTTCCCCTTTTTCTAGAAAAGGAGGGCTCCAGTTCTCT
CTTCATTCAAATGGGATATTAAACTAACTGACCCTCTATTGATCG
Right flanking sequence: Indices 149483 -- 149982
TTGAATTCGTCGATTCGAGATTAGGGATCAATCAAGAAGGATATTGCGGCTTGGACCGACTCTCC
TGTGTGCGCTGCTTACTCCTTGTTTGGTCAGTTGGACCCGCGTAAGTCAATATTTCAGTGATCCC
ACTCACCCCACAGGAATCACGCAATGCGCTTTCTTCCCCTCCATCCCTGCCTGCGAGCCTAGGAG
CAGAATTCTATATGATGGATGGCATTCTGTAATTCCACGATTCCTTTCTTTGAGTGAGAGCGGGT
CAAAAGGCATCCTTGTATTAAATCCTATGGTGGCGGTTCCTTCGAGTGATGGGTACTCTTTCCCA
CGTTTGGTGACTTCCCATCTGTGTAGACTGCCTACCGGGGTTTCCGTCTTAATGCTATGGTGGCC
GACCAATCCAATGAGAAAAAAATCCATCTTCTCCTCCCCGGGTAACAATCTCGCGTGGATAAGAA
GAAAGCGTCAAAGCTAGGCGCTTCATTCAAAAAAGGCGCAGAACG
Found at i:166270 original size:21 final size:21
Alignment explanation
Indices: 166246--166286 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
166236 TCATCACTAT
166246 ACAGAACTAT-AAACAACAAAG
1 ACAGAACT-TGAAACAACAAAG
166267 ACAGAACTTGAAACAACAAA
1 ACAGAACTTGAAACAACAAA
166287 AAAGGATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.61, C:0.20, G:0.10, T:0.10
Consensus pattern (21 bp):
ACAGAACTTGAAACAACAAAG
Left flanking sequence: Indices 165746 -- 166245
CAAGTATGGAAAGTGCCAAACATTGGGAACTACCCGGAGAAAAGTGAAAAATAGGAACAAGGAGA
AGCGAGAACCACTTAAATGGAGGAATCGATTGTATTTCGTCCTTTGTTCCCCATAGCAACTGGGG
ATCAAAAAGCACCAAATTTGATGACTTATTAAGGGAAAAACGAAGTAAGAACATGCTATTGAAGA
CGTTGCAACATATGTCGGGAAGGCCTCCGTTGATTGGGTACGAACAAAATACGAGTCCAAAGGCA
GGGTAAGAAAGGGTTTAGCTAATGGAGATATTAGCTCTTCCGGGAACAAGTAACTTGTCAACCAT
GTCAAACCAAGACTAATCAATATCCGAACGGAACGGATTCGAACTTCTCCTAGAATAGTTTCCGG
TGCGAAATGAAATTCATAGAATATATATGAGTAATTCTAAGGATAAATAGAAATATTTGATAGGA
TTCGACTAATTACAAAACAAATAGGATAAAGAATTTCATCACTAT
Right flanking sequence: Indices 166287 -- 166786
AAAGGATTTTATGGGGCTTTCTCCTTTTCCCTGTCGAGAAGACAAAGTTTTTCTCTTAGAGAGGC
GTTTTCCTCTTTGAGAAAAGCATTTCTTCTCTCAAGAGATTCCCATTGAGTGGATAACTCAAGTC
GATGTTCCATATCCAATCGGGCTTGGTGCTTTTGTGTTAAAAAGTCCTGGAAAAATTTAGCCTGA
GTGGTTTGCACCTCTTGGTAGAAGGGGGATTCGTAGCCTTCCCTGCATAAGCTTTCTAGAATCAA
GCATAGAGCAGGGTGCTCGAATTCTATGTTTTCGAGGTGCAAATGGATTATCGACTCGAGGTCTT
TCCTATTAATGAATAACAGGGGGTCCTCCCGACCATAAAAAATAACTCCATAGAGTGAAGCTATT
TTTTCGCGAGTTGCAAAACACATTTCAGTGTTTAGCAAGTCTCTCACCATGATCTCGTATTCCCT
GGGTGAGAGTCCGGGGTTATGGAGGCGTTGGTGTACAAATTCAAC
Found at i:263076 original size:23 final size:23
Alignment explanation
Indices: 263044--263089 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
263034 ACCTGACGCC
*
263044 CCTTCTTTATCTTTAGAATGACG
1 CCTTCCTTATCTTTAGAATGACG
263067 CCTTCCTTATCTTTAGAATGACG
1 CCTTCCTTATCTTTAGAATGACG
263090 TATGATAAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.41
Consensus pattern (23 bp):
CCTTCCTTATCTTTAGAATGACG
Left flanking sequence: Indices 262544 -- 263043
CTCTCAAAAATCCTAGCAACAATAGGCAAACCAAAATGATCTCTAATAATATATGCTCATCCAAG
AAAGCGGTTGCCTTCAGCTTGACATGATGAAGGCCTACGACAGATTGGAATGGCCCTTCCTCGCC
TGCTTTTAGCCGACCACTAAGGAGCCCTAGAAAGCAAGTAAAGGGGATGGGACTCTCGACTTAAG
GCTTTCGTTCGGTTACAAATCTCCCCCTCGACTAGTGATTGGGCTCGTCTCATATGCAAAATCGG
GGAAGACAATCAAGTCCACTTCCAAGCAAGCCGCCTATAGAAAGAATCCATTGTGCTTTTTGGCT
TTCGTTGATCATTATACCGGAGAGTTTTGTTCTTTACGCCTTAGGTGGGCCCCTGATCTGCCTAT
ACCAAGGTCGAAGTCTTACGATCTGGGCGGATTTAGCTTCAGTGTCCGTTTCGACTGATTCTTTA
GTTGAAGCTACTGATGCCCTAACTTAACCTGCCCCACCTGACGCC
Right flanking sequence: Indices 263090 -- 263589
TATGATAAGCATTGCTTCTTGCTTTGCTATGAGAGTGAAAGCTGTTCAGAAAGGTCTGTTTAGTG
AGAGGCTATGCCTTTGAGGTTCCTCATTGGCCTTGGTTTGGTGCAGGTCACCTCTTTCTAAGGCA
GATCTGCTTGGTAAGAAGCGATAGGATTCCGGGTGATGAAAGGAGGTGTGATTGAGTAAGTGAGA
AGTGTGGTTCTCGGAGTTACCACGGTGCAAGTCTTAGGTTGGCCTACAATAAAAGTACGGACTTT
TTGGTTAGTCTGACCCCCCACGTTGCTTCTCTAAAGTAGTATTCCCAAGGGTGGTGGGAGGGGAA
GCATTGAGAAAGCACTGAACCGTAAAGGGCATAAATTGGATTCCAGGACAGGACAAACAGAATAG
GAACCCCTGCTTCCGAGAGGGAAGGGCTCTCATTCAACTATAAATCTACCCGGTACTGAACTAGG
AATAGCCCTTTCCACGAATCTTCCTCGGCCTTAAACTTAAACTAC
Found at i:371511 original size:16 final size:16
Alignment explanation
Indices: 371490--371522 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
371480 TTCAGGGTGC
371490 TTCTCTCTTCTACTAA
1 TTCTCTCTTCTACTAA
371506 TTCTCTCTTCTACTAA
1 TTCTCTCTTCTACTAA
371522 T
1 T
371523 ATATATTAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.30, G:0.00, T:0.52
Consensus pattern (16 bp):
TTCTCTCTTCTACTAA
Left flanking sequence: Indices 370990 -- 371489
CAGGGTATGTCCGACCAAAGATTTTACCTACCCAATAGTGAAATCCTGCAAATAAAGCAAAAACG
GCTCCCATAGAAAGTACATAATGGAAATGTGCAACCACATAATAAGTATCATGTAGAGCAATGTC
TAGCCCAGAATTTGCCAGAACTATTCCAGTGAGTCCTCCTATGGTGAACAAAAAGATGAACCCTA
CAGCAAATAACATGGGTGTTTTGTATTGTATCGAACCCCCCCACATGGTAGCGATCCAACTAAAG
ATTTTGATTCCAGTGGGGACAGCTATGATCATGGTAGCTGCGGTGAAGTAGGCACGGGTATCAAC
GTCTAAGCCCACAGTAAACATATGATGAGCCCAAACAAGAAATCCAAGGACGCCTATACTGATCA
TGGCATAAACCATGCCTAGATACCCGAAAACCGGTTTTCCCGAAAAAGTAGAAACGATATGACTT
ATGATACCGAATCCAGGCAGAATGAGGATGTAAACTTCAGGGTGC
Right flanking sequence: Indices 371523 -- 372022
ATATATTAGCGGATGAGATGAATAGAAGAAAGGTGGACTATATCATCAACTTATTCCATTTTTCT
AGGAAAGCTAGCCATGCTTTATGGTGAATACTGTCAGGTTTAAATGCTTTGAGATCGTAAAGACT
GTAATATTCCTCAATAAGGAAGAATCGTCGTGATTTATGACTTCGGAAAGTACTTGATTTAAAGT
AATCTAGCATTATGATAACATCTTTTCGACTTTGTACAGACCATTGATAGTAACCATTTTGACTA
CTATCAAAGTAGATATTTCCTCCAAATACTACCTTATAAGACTCTACATCTTGTAGAAGTTTATT
ATTGACTCGAATACTTAGTTGAGGTAGTCGATGCTTCATAGCGATACCAATGGTACCATCAGCAT
CAAAGAATCCTGCAAACCAATTGGATTGAGCATCTAGTGTAATAGGTAGAATTACAGGGATATCC
AGTACTTGACAGACACGATGTAGTTGAAGTAGTCGTGCTGAATGT
Found at i:381188 original size:16 final size:16
Alignment explanation
Indices: 381167--381197 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
381157 ATTTTTATTT
*
381167 AATATTAATATTTTTG
1 AATATTAAGATTTTTG
381183 AATATTAAGATTTTT
1 AATATTAAGATTTTT
381198 CCCTCTCTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (16 bp):
AATATTAAGATTTTTG
Left flanking sequence: Indices 380667 -- 381166
GGGACGGAAGAAAGTTAGGGTTCGATCCCTCATTCTTTATAAGAGAGAGAAGGTTAATAGGTAAT
GTACTAATAGTCTCGTTTTGTACCGACCGATAGAGACAAAAGAGCAACTGCAGTAGCGACAGATT
CCTCCTTCCCCCTTTTCTTCTCCTTGGATGAACTCTGCTATTACTGAAAATTGACTTCAATAATA
GTGTTTAAGACTTCTCGATTCACTAGCCCAGCGCTTCTTCCACTCCGTCCCGAAGAGTAACTAGG
ACCAATTTAGTCACCTTTTCATCTTCCAATTGAAGACTTTCCATTTTGGATTATTCTCAAAGGAG
AAGATTATTCTCTTTACCAAACATATGCGGATCCAATCACGATCCTATAATAAGAACAAGAGATC
TTTCTCGATCAATCCCTTTGCCCCTCATTCTTCGCTCCATTTCATTTCGCTCCTTTTCCAGTTTT
AATTTGTTCATTTGGAATCTGGGTTCTTCTACTTCATTTTTATTT
Right flanking sequence: Indices 381198 -- 381697
CCCTCTCTTTTTTTTTATATCATTCCTTAAGTCCCATAGGTTTGATCCTGTAGAATTTGACCCAT
TTTCTCATTGAACGAAGGGTACGAAATCAATCAGATTTATTTTTCGATCAAAAGTACTATGTGAA
ATCTTCGGTTTTTTCCTCTTCCTCTATCCCTATCCCATAGGTACAGTGTTTGAATCAATAGAGAA
CCTTTTCTCCTGTATGAATCGATCTTATTCCATTCCAAATCCTTCCCGATACCTCCCAAATATCG
AATTGGATCCCAAATTGACGGGTTAGTGTGAGCTTATCCATGCGGTTATGCACTCTTCGAATAGG
AATCCGTTTTCTGAAAGATCCTGGCTTTCGTACTTTGGTGGGTCTCCGAGAATCCTTTCGATGAC
CTATGTTGTGTTGAAGGGATATCTATCTAATCCGATCGATTGCGTAAAGCCCGCGATAGCAACGG
AACCGGGGAAAGTATACAGAAAAGACAGTTCTTTTCTATTCTATT
Found at i:387296 original size:15 final size:15
Alignment explanation
Indices: 387276--387306 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
387266 TCGTGGATTG
*
387276 ACTTGCCGTTTGTTC
1 ACTTGCCGTTCGTTC
387291 ACTTGCCGTTCGTTC
1 ACTTGCCGTTCGTTC
387306 A
1 A
387307 GATATAGCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.10, C:0.29, G:0.19, T:0.42
Consensus pattern (15 bp):
ACTTGCCGTTCGTTC
Left flanking sequence: Indices 386776 -- 387275
GCATTTGGTACTGAGTTTCCTCCTCCCTTTTTAGTAACAAAATGAACCAAAAGTAGGACCAAACT
GAGAGTTAGTAGCATAAACAAAGATGGATTTGTGAATGAGAAATACAAGTTTCCTATTTTCATAG
GAATCAATGGGAGAATGGCAAATTGCTCAAGTGGGCTGGGCGCCATTTGGCTGGGCCCCGGTAAT
TGGGAGAGTAGATGAAGAGCATCTTTATAAGATCCACTTAGTACCCCACTGGTGTTTAAATCATT
CAAAATGAATTCCAGAAACGGAATATTGGCGCTTTCTCCATGTACAGCTTCGGCCGCAGCCGTAA
CATCTGAAGGCTCGCTGTCAATCATTAACTCTCCCAATTTCTCACGTATAGCCCCCTGCAAGTCA
ACTATTCTTTCATCTTTAGGATTAAGACCTGGCATATCCTCAAAGATACCAGTAGAATCGCGAGT
ATCGCACGACTTTTGACTATAGTCATCAATAGTCGTCGTGGATTG
Right flanking sequence: Indices 387307 -- 387806
GATATAGCACTTAAACTGGAATTAAGACTAGCTTCATCAAAGTTAAAGATTCTTCTTTGCATGAT
AGATTAAGAATCAATTATTCCCTCCAGACAGCTTAACTCCGTCAAGCCTGTAGGAGTAGTGAAGA
AGTATAGAGATTTTGTTGGTTGTTGACCAACGGAAAGCAGTGTAGAAAGCAAAATTCAATCACTA
ACGGATAAAGCACTTTCTTTTAAGAATGTATCTGGTTCCTCAAATTTCTCTTGTCCTCGTATATG
AGAGAGTCAAGCTTATCATAAAGCTTGTCTAAAAATTCTGGGTTAGTCTCCGTCTTTAAACCCAG
TCTCTCAATTACGGCATTAATATAGGTAACTTTTCGGTTACGTCTGCTTCCTATTTGAAGCAGCA
TGTGGTTGAACCGGGTTTTGTGACGAAGATGATGCCTCCTCCCCCCGGTTGCCATACCATTCCTG
AATCCAATCATCGCCGGAGAATTCCATTAATGACAGGCTCCCCTG
Found at i:425685 original size:22 final size:23
Alignment explanation
Indices: 425655--425700 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
425645 AAAAGATCAC
**
425655 AGCGCATTCTTTCAAAGAGAAGA
1 AGCGCATTCTAGCAAAGAGAAGA
425678 AGCG-ATTCTAGCAAAGAGAAGA
1 AGCGCATTCTAGCAAAGAGAAGA
425700 A
1 A
425701 AGTATCAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.43, C:0.15, G:0.24, T:0.17
Consensus pattern (23 bp):
AGCGCATTCTAGCAAAGAGAAGA
Left flanking sequence: Indices 425155 -- 425654
CGGATGGAATACACGTGGAACCAACATCACACGGTCTCTCTCGAGAAAAAGCATTTAACACTTTA
CCGGGTTATCCATGTACTGCCCAGGGGCCCTTTCGTACACGGATTTTAGGGCTTTTAGCTAGCCC
GCTCTCGCTTCTGTACTCTTTTTCCTATCTCTCTCTCGATATCCTTCTTTCATCCTTGCCATCTT
CCCAACGAAATGGATTGGTACACCATCCATCCTGTGCTTGGTTCATGGGAACTGCAAGTTTGACA
ATCAAAGCTTGGGATATCTCATTTGATCTCAGCAAGCCGCTTCGCGCTCAAAGCGAAAGCCAGTC
CAGTCTATGATCAGGCAACGGGTCCGGTCTCGTGTGGTACCAATCTATAGGTCCAAAAGGGGGGA
GGAGACCGCCTCTAAGACGACTCTCCGGGATGAGAGAAATCCCCGGGGGATCGAAGTGAATGAAG
AATAAGAAAGGAAGATGATAGCTAGGATGAACTTGAAAAGATCAC
Right flanking sequence: Indices 425701 -- 426200
AGTATCAAAGAAGCCATTCGTAAACCTACAACTGACTTACTACTATCTTCTTATAAGACAGACTG
GGAGGCTCTATTCAACCATTCTAAAAAAGACTGGCTACCATATAAGAAGAAAGAAGAGACTGCCT
ACTGCTTTGTTATCAGAGCTGGATCGATTGAATCTTTTTCCAGTGCCCATGTTCCTACTACTACT
TCTGCTGCTATTCTGACTTCCATGGATGGCTATGGTGGTTCCCCAGCGGCTGCTCCTACTCCTTT
GGCTGGTGCTCTAATCTGAGCTGAGAAATAGGAACTGCACTTCGACTTTATTTATTTAAGAAATT
CCCCCCTCTCTAACCCAAGCCCTAGAAGTGAATGAGGAATGATTGAACTTCTGCTTCCGCAATGA
GACGCTAAAGTCCTTAAATCAAGGAAATCACAATGCTTCTCTTATTCAGTAGTTCAATCTTACTT
TCTTAACCCGGATCCCGCTCTTAATGAGCCGAAGAGAAGTGCATG
Done.