Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_046014
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: 365168
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Warning! 1 characters in sequence are not A, C, G, or T
Found at i:8859 original size:8 final size:8
Alignment explanation
Indices: 8846--8874 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
8836 TAAGTAAACC
8846 ACTCACTA
1 ACTCACTA
8854 ACTCACTA
1 ACTCACTA
8862 ACTCACTA
1 ACTCACTA
8870 ACTCA
1 ACTCA
8875 GGGTGGCAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.24
Consensus pattern (8 bp):
ACTCACTA
Left flanking sequence: Indices 8346 -- 8845
TTATTCTCACAAGCTCTTATCGGCCTATCGAGAACTCTTTTCGGCCTATATTCTCTTTTCGGAAG
AGAAGAGAAGAGAGAACACTATCTTATGTTATGCGGCCTATCGGCCTATATTCGGAAGAGAACTC
TGTCTTACCTTTAATCAGTCATGACGGATTAAACAAGCACAACAGAAATGTCTTCAGACAAAAGA
TGAGATCACTACTCACTTCTGTCTGAAGTGAAGACTCTGTTCACTTTCCTAACAGTTAAGTTAGT
GAGAGAACGAGTTCACTCTGAACTCTTCGATCGAGATGCATGCTCTCGAGAACTCTCGAAGAGAG
AACACCTATAGTCTTGGCGAGTCGAGTGATCGACTGATCGGCGAGCAAGCCGATACTTGAGTGTG
TTTAAGACATGTGTTCACACATGATTTAATACTCTTCAAGCCAAGGTCTTGTTCTCTATAGGGCT
TATATCAACTTTGATATAAGAGTGTGGGTGGTTACTAAGTAAACC
Right flanking sequence: Indices 8875 -- 9374
GGGTGGCAGTCGTAGGCGGCAACAAAGATATGCTATCCAATAGTTACCTGTTCTTCTTGTTATCA
ATTCGGAGACCAACCGGGAACTCGGTGAGACTGGAATACCCGATCCCATTCCGACCTCGATGCTG
TTGCTGTGAATCGTCTTGCGCCATATGTACTGAGATTGTCGATTGTTCGGGAGACATGGTCCGAC
CCGGTCTAACGATTATGCTCTTGAGCGTAATGTTAGACTATCTGACTATCGTCAATCATTGATTG
ACATTCCAATCAATTGTTCGGCTCGGCGGCTCTCAACTCTCAGAGTTTGAGCTGCTACATCCAAT
TCTCGTTATCGGAGTATCAAGTTGTTCTCTGCAGAGCAGAGCAGAGCAGAATAAAGAGCTGAGAC
TCTCAGCTCAGAGTTGGTCAACAACCAACTCACTCGCTCGTTTCTTACTCTTACGAGTTACGAGT
TCGTACCAATTGATTCATCAAGCCGATTGATTGACCTGTCTGTAA
Found at i:12631 original size:6 final size:6
Alignment explanation
Indices: 12620--12649 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
12610 CGAACACTCA
12620 GTCCTC GTCCTC GTCCTC GTCCTC GTCCTC
1 GTCCTC GTCCTC GTCCTC GTCCTC GTCCTC
12650 CGGCAGCACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.17, T:0.33
Consensus pattern (6 bp):
GTCCTC
Left flanking sequence: Indices 12120 -- 12619
CGGAATGATCACTGTTGCCCCGGAGATGATCTCCAAGACAGAAAAGAGTGACGGATTGCCGACGA
GCCTCTGTAAGATGACTAAGAGAAGCTCAATCGAACAGACCTATAATTAATCGACTGAGAATGGG
GTGAGCAACAGGCGAAAGAGATCAACGAGCTATAAGATAAGTAAGATATTAGACAAGAAAGGCAT
CTCTCCTATAACCCCCGAAGGCAACACCATGCAAAAAAGAAAGCATCGAATTCAAACAACAATTG
TCAATTGATATCCTTTCGATAGGTCCGACTCAAAACACTAAGAAGGGTAAGAACTCCAGACAGAG
CGCTGACAAGAAAGCAACAATAAAAATAAGAAGAGTGAGTTCGCAGCACATGACCGGAAGGCAAC
CAGAGTCAGGAGTCAGAGGATCCATAGTACCTACCACCCCACGGACTGCATATCATTGGTTTCAC
CAATTCATTGACATTCAGACAGACAGCGGGAAGGGCGAACACTCA
Right flanking sequence: Indices 12650 -- 13149
CGGCAGCACACGTCGTGGGAAGTCACATCATTAGAGGAGTTATGCGAGCCTGATTCTACAATGTT
TCTTGCGCACCGTGATCGCACAATAAATAGTAGGAAGAGCATCGCTTGGGGGATTGACTTCGGGT
TTGTTGGGATCTTTCTGGGAGTTCAATCCAAATGCGAAGAAGCATGGAGACAAGGCCTTGGATTT
GAAATTGGAATGAAATTCCGAATCTCAGAGCTTTGTCTACGAACAAGGAAGCTCTCATCTCAGTC
ATGCACCGGAAATCCAATCAGGAGTTCGATCCGAAAGCATGCTTCCACGCAGAACAGAAGGATGA
TGGATAAGTGGTGTTTCCAGGGCCTGACTAGTGACTGAGTAACGCGTAAGAACCTCCAGCCTAAT
GACTAAACCGTAGGATCAACAGAAATCCGTGAGGGTAGTAGGTCGATGAGCTTGAGTTGAATAGC
TCGCCTCGCTTCCGATGTGATCTCCCACACATTGTGAAGTCGGAT
Found at i:29342 original size:18 final size:18
Alignment explanation
Indices: 29319--29353 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
29309 TCAGACGCTT
29319 CTTGGCTATTTATTTGGA
1 CTTGGCTATTTATTTGGA
29337 CTTGGCTATTTATTTGG
1 CTTGGCTATTTATTTGG
29354 CAGAGGACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.11, G:0.23, T:0.51
Consensus pattern (18 bp):
CTTGGCTATTTATTTGGA
Left flanking sequence: Indices 28819 -- 29318
AAAGGCTTTATTATTGAGAAAGTCAAAGGAGGTTATTCAGTAGCCATCGCGGGTTTCATTACTTT
TCTTCCATTCTTCCGTCCTATTATCATAAGTCAAAGGAGATCCTCGAATGATCGATTCACCATTG
AGAGCACCAAAAGGACGAATATTGTGGTGTTCTAGCGGCAGAACAAGAACTTGATGAGCGAAATC
CGAAAAGAGCCGTTTTTTCAATTCCGAAGCCTTTCTCCTGTGAAAACACTCTCTCACCTTAATCC
ATTCTTTATGTCTTTTTAATAAGGTCTCTGGCACTTCTATTGGTCAAGAGTTTGGCTCGTTTTTT
ATCTCTCTTCTCTTTCTTACTAATTCTTTGTTGGTCCAAATGAGTGCTATCGACTTTCGTTTATG
GACAACACTTTTTGTTCTCGGAACCGGACTACTTGGCTCGGACATGTAAGGTGGAAACAGAGACT
TGAATGAGAGCTCGTTTGAGCGACGTTCTAATAAGTCAGACGCTT
Right flanking sequence: Indices 29354 -- 29853
CAGAGGACCTCGTGAGTGAAGTCAATCATCGCACCTTATATTACGTTACGGATATCCATATGATA
GATTCTCGCGCTCGCGATTCATCCTTCCGTCCACCGGCAGCAGACTCTCCTCAATCCAAAACGTT
GTACTGCTTGTTCCCCCCTGTGAAAGTATCCTTTATTGAAAGAAGAATTCGATAATCAAAGAAGG
CGTTCAGATACCTGGCTAGACACTCTAAGATCCTTTCAAGTCAAGAGAGGATAAAGGAAAGAAAA
TAGACACATCTTTACCCATTGCTGCACTTCGGGGCGTGACTTAGGAAGACAAGAAGTGAGTTATC
AGCGCCAAGTATGGGGCCTATCCAATCGATCTCCCGGTCCCCGAATATAAGGAAAAGAAAGAATT
TCACGTTCTTACTTTATGGAAGGGAGGATTAGGAAAATACTATGGTTTATCCAGACGACCCCCGG
GAAAAGCAAACATAAAGGGAAGAAATGGGATCACCCCATAATGAA
Found at i:35538 original size:15 final size:15
Alignment explanation
Indices: 35518--35558 Score: 82
Period size: 15 Copynumber: 2.7 Consensus size: 15
35508 GACAATCTCC
35518 GATTAAGAACTCTTA
1 GATTAAGAACTCTTA
35533 GATTAAGAACTCTTA
1 GATTAAGAACTCTTA
35548 GATTAAGAACT
1 GATTAAGAACT
35559 GTCTTCCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (15 bp):
GATTAAGAACTCTTA
Left flanking sequence: Indices 35018 -- 35517
AGAAAGAAATGATGTAGCGCATACCTGTAGGATATGGAATGAGGAGAAGAGGAAGAGCTGTGGAT
CGTATGTAGCGGCGAGAGCAGTTATCGAATCTAATGCCCTCTGTCTCACTCTTCCTTGTGCCGTT
CCCTTAGTCGCACTTCTTAACTGAAGACTAACACTCAGACCCGCACCGCAGTCTTAATTAAGGGA
GAAAGATCGAAGAGCTAGCGAATCCAATTGCTCTAAAGTAATGCTAAACTGCTTACCGATTGAAG
AATTGCTTCTTTGAGACTCATACTCTGTATTCATGCTTGTTGCTTGACTTGAATTCAAGTAATTC
AGTAATTCAAAACAAGTACTGAATTCAGTTATGAATTCACTGAATGCAATGACTTTGGATCGTTA
CTCGGATTATGCGATCGGCCTATCGAGAACTCTTTTCGGCCTATATTCGGAAGATAGAACACTCA
ATCTCTGTATTTGTCTTCGAAGAGAACTCAAGACCGACAATCTCC
Right flanking sequence: Indices 35559 -- 36058
GTCTTCCAATGTCTTCAGGCTGCACAACTCCAAGCAATGGGAACTCACTGAAAGAAGAGACTCTG
TGCCTCTAAGATATTTATTGAGAAAGAACACTCAACTCTTTTCGGCCTATATTCGGAAGAGAAGA
GAGAACACTATCTTATGCGGCCTATCGGCCTATATTCGGAAGAGAACTCTGTCTTACCTTTAATC
AGTCATTCATGACGGATTAAACAAGCACAACAGAAATGTCTTCAGACAAAAGATGAGATCACTCC
AATGAACTTCTATTCAGACAAAAGACTCTGTTCACTTGAAAGTTGTTTGGGTTGAATCGATCGAG
AACCTCAACAATGCTTTTGAGTTTTGAGATTCATCCATACTTCCATTCTTTGTAGAAGAGTATAA
AGGCTAAGAATTACTTGCCGTGGGAGAGCTGTATGAGCGGTAACGTCCACGTGCGGCTCCGTGAG
AAGGGTCGGACAGAAAGCATGGCCTTGTTGTACCTCACTCTCGTC
Found at i:65955 original size:8 final size:8
Alignment explanation
Indices: 65942--65970 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
65932 ACTGCCACCC
65942 TGAGTTAG
1 TGAGTTAG
65950 TGAGTTAG
1 TGAGTTAG
65958 TGAGTTAG
1 TGAGTTAG
65966 TGAGT
1 TGAGT
65971 GGTTTCCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (8 bp):
TGAGTTAG
Left flanking sequence: Indices 65442 -- 65941
TCAACTGGGTTGACTTACAGACAGGTCAATCGGCTTGATGAATCAATTGGTACGAACTCGTAACT
CGTAAGAGTAAGAAACGAGCGAGTGAGTTGGTTGTTGACCAACTCTGAGCTGAGAGTCTCAGCTC
TTTATTCTGCTCTGCTCTGCTCTGCAGAGAACAACTTGATACTCCGATAACGAGAATTGGATGTA
GCAGCTCAAACTCTGAGAGTTGAGAGCCGCCGAGCCGAACAATTGATTGGAATGTCAATCAATGA
TTGACGATAGTCAGATAGTCTAACATTACGCTCAAGAGCATAATCGTTAGACCGGGTCGGACCAT
GTCTCCCGAACAATCTCAGTACATATGGCGCAAGACGATTCACAGCAACAGCATCGAGGTCGGAA
TGGGATCGGGTATTCCAGTCTCACCGAGTTCCCGGGTCTCCGAATTGATAACAAGAAGAACAGGT
AACTATTGGATAGCATATCTTTGTTGCCGCCTACGACTGCCACCC
Right flanking sequence: Indices 65971 -- 66470
GGTTTCCTTAGTAACCACCCACACTCTTATATCAAAGTTGATATAAGCCCTATAGAGAACAAGAC
CTTGGCTTGAAGAGTATTAAATCATGTGTGAACACATGTCTTAAACACACTCAAGTATCGGCTTG
CTCGCCGATCAGTCGATCCACTCGCCAAGACTATAGGTGTTCTCTCTTCGAGAGTTCTCGAGAGC
ATGCATCTCGATCGAAGAGTTCAGAGTGAACTCGTTCTCTCACTAACTGAACTGTTAGTAAAGTG
AACTGAGTCTTCACTTCAGACAGAAGTGAGTAGTGATCTTTTGTCTGAAGACATTTCTGTTGTGC
TTGTTTAATCCGTCATTCATGACTGATTAAAGGTAAGACAGAGTTCTCTTCCGAATATAGGCCGA
TAGGCCGCATAAGATAGTGTTCTCTCTTCTCTTCCGAAAAGAGAATATAGGCCGAAAAGAGTTCT
CGATAGGCCGATCGCATAATCCATAAGACCAGAGTCATTCAGTGA
Found at i:97681 original size:6 final size:6
Alignment explanation
Indices: 97670--97699 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
97660 CGAACACTCA
97670 GTCCTC GTCCTC GTCCTC GTCCTC GTCCTC
1 GTCCTC GTCCTC GTCCTC GTCCTC GTCCTC
97700 CGGCAGCACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.17, T:0.33
Consensus pattern (6 bp):
GTCCTC
Left flanking sequence: Indices 97170 -- 97669
CCCGGAATGATCACTGTTGCCCCGGAGATGATCTCCAAGACAGAAAAGAGTGACGGATTGCCGAC
GAGCCTCTGTAAGATGACTAAGAGAAGCTCAATCGAACAGACCTATAATTAATCCTGAGAATGGG
GTGAGCAACAGGCGAAAGAGATCAACGAGCTATAAGATAAGTAAGATATTAGACAAGAAAGGCAT
CTCTCCTATAACCCCCGAAGGCAACACCATGCAAAAAAGAAAGCATCGAATTCAAACAACAATTG
TCAATTGATATCCTTTCGATAGGTCCGACTCAAAACACTAAGAAGGGTAAGAACTCCAGACAGAG
CGCTGACAAGAAAGCAACAATAAAAATAAGAAGAGTGAGTTCGCAGCACATGACCGGAAGGCAAC
CAGAGTCAGGAGTCAGAGGATCCATAGTACCTACCACCCCACGGACTGCATATCATTGGTTTCAC
CAATTCATTGACATTCAGACAGACAGCGGGAAGGGCGAACACTCA
Right flanking sequence: Indices 97700 -- 98199
CGGCAGCACACGTCGTGGGAAGTCACATCATTAGAGGAGTTATGCGAGCCTGATTCTACAATGTT
TCTTGCGCACCGTGATCGCACAATAAATAGTAGGAAGAGCATCGCTTGGGGGATTGACTTCGGGT
TTGTTGGGATCTTTCTGGGAGTTCAATCCAAATGCGAAGAAGCATGGAGACAAGGCCTTGATTTG
AAATTGGAATGAAATTCCGAATCTCAGAGCTTTGTCTACGAACAAGGAAGCTCTCATCTCAGTCA
TGCACCGGAAATCCAATCAGGAGTTCGATCCGAAAGCATGCTTCCACGCAGAACAGAAGGATGAT
GGATAAGTGGTGTTTCCAGGGCCTGACTAGTGACTGAGTAACGCGTAAGAACCTCCAGCCTAATG
ACTAAACCGTAGGATCAACAGAAATCCGTGAGGGTAGTAGGTCGATGAGCTTGAGTTGAATAGCT
CGCCTCGCTTCCGATGTGATCTCCCACACATTGTGAAGTCGGATA
Found at i:118379 original size:6 final size:6
Alignment explanation
Indices: 118368--118397 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
118358 CGAACACTCA
118368 GTCCTC GTCCTC GTCCTC GTCCTC GTCCTC
1 GTCCTC GTCCTC GTCCTC GTCCTC GTCCTC
118398 CGGCAGCACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.17, T:0.33
Consensus pattern (6 bp):
GTCCTC
Left flanking sequence: Indices 117868 -- 118367
CCCGGAATGATCACTGTTGCCCCGGAGATGATCTCCAAGACAGAAAAGAGTGACGGATTGCCGAC
GAGCCTCTGTAAGATGACTAAGAGAAGCTCAATCGAACAGACCTATAATTAATCCTGAGAATGGG
GTGAGCAACAGGCGAAAGAGATCAACGAGCTATAAGATAAGTAAGATATTAGACAAGAAAGGCAT
CTCTCCTATAACCCCCGAAGGCAACACCATGCAAAAAAGAAAGCATCGAATTCAAACAACAATTG
TCAATTGATATCCTTTCGATAGGTCCGACTCAAAACACTAAGAAGGGTAAGAACTCCAGACAGAG
CGCTGACAAGAAAGCAACAATAAAAATAAGAAGAGTGAGTTCGCAGCACATGACCGGAAGGCAAC
CAGAGTCAGGAGTCAGAGGATCCATAGTACCTACCACCCCACGGACTGCATATCATTGGTTTCAC
CAATTCATTGACATTCAGACAGACAGCGGGAAGGGCGAACACTCA
Right flanking sequence: Indices 118398 -- 118897
CGGCAGCACACGTCGTGGGAAGTCACATCATTAGAGGAGTTATGCGAGCCTGATTCTACAATGTT
TCTTGCGCACCGTGATCGCACAATAAATAGTAGGAAGAGCATCGCTTGGGGGATTGACTTCGGGT
TTGTTGGGATCTTTCTGGGAGTTCAATCCAAATGCGAAGAAGCATGGAGACAAGGCCTTGATTTG
AAATTGGAATGAAATTCCGAATCTCAGAGCTTTGTCTACGAACAAGGAAGCTCTCATCTCAGTCA
TGCACCGGAAATCCAATCAGGAGTTCGATCCGAAAGCATGCTTCCACGCAGAACAGAAGGATGAT
GGATAAGTGGTGTTTCCAGGGCCTGACTAGTGACTGAGTAACGCGTAAGAACCTCCAGCCTAATG
ACTAAACCGTAGGATCAACAGAAATCCGTGAGGGTAGTAGGTCGATGAGCTTGAGTTGAATAGCT
CGCCTCGCTTCCGATGTGATCTCCCACACATTGTGAAGTCGGATA
Found at i:169408 original size:12 final size:12
Alignment explanation
Indices: 169391--169415 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
169381 TGAGATCTCA
169391 AGAGATAGATAG
1 AGAGATAGATAG
169403 AGAGATAGATAG
1 AGAGATAGATAG
169415 A
1 A
169416 CAACTATAAG
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:0.52, C:0.00, G:0.32, T:0.16
Consensus pattern (12 bp):
AGAGATAGATAG
Left flanking sequence: Indices 168891 -- 169390
AGCATTGGGCTTTTAACCTAATGGTCGCAGGTTCAAGTCCTGCTATACCCAAATACCTGATACCG
AAAGGATGCGTAGTAGCGTTCAAAGATCACTCTTTGTTAGACTCGCTGAAGCGACTCTTTCAGTG
ACCAAGGGTGAGGTAAGGAGTCGAAGAGTGGTTCGGTCATCAATAGTCTTATTCATTCAGGTACA
GGTATAGGAAGTGTGACGAGGGCGTAGAGAATCTGTGAAATGAAAGGCCTTCTTGGTGATTTGGT
AATCATCTGAAGAAGTTGAACCACAATGATTCCAAACTTGACTTATAGGTATCCTGATCCCCTGG
TGGACTCCAAACGATGTTAACAACTAAGTAAGCCGTTACCAAACTCTTTTCTCAAACTCCGTTAC
CTTAAGCCATACGAAGTTTTAGGTGCACCTGAGAGGACAGTCTAATCACAACCGAGAGATTAAGT
AATGGTCTAAGGACTGTAAAGAGAGAAGAGACTCTTGAGATCTCA
Right flanking sequence: Indices 169416 -- 169915
CAACTATAAGAAAATGAGTAATTAGACCGGAAATTACTTAAGTAATTAATTAATTAAGATTGGGG
GTCAATATTTCCTCACGGCGTGTTTTGTCCTTAATGAGACTTAATATATAATTAGAGTAATCTCT
TTAGGGAAGTCCAGAGCCCATAGCCCACCAGGAGTGAGAGTTGTTCCGTCTAACGAGAAAACCAT
TCGACGAAGCTATATAGCCTCTTCGAACCATTTTCTCTTACTTGGTCCCATATTCTCTTGTGCGG
GACGGAGGGCGCGTAAGCCTAGAATGCTTCGGGGAGTTGGTTGTTGACCAAATTAGGAGAAGCCT
GTCAAAAAAACCTCAAGTTCAACGAATAGAACATGTCGTAACGCTTCATGAAGCATTATGCTTCA
CTAGCGTTAACAGAGTCTTCAGAGTAAGTCAAAGAAAAACAAGCATTTCGCGATCTTCTTAGGCA
ACGAGGTTACCGGCTCTACGACCTCGCAACGCAAGGCACTACTGT
Found at i:175192 original size:5 final size:5
Alignment explanation
Indices: 175182--175210 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
175172 ACAACGAGGA
175182 AATGG AATGG AATGG AATGG AATGG AATG
1 AATGG AATGG AATGG AATGG AATGG AATG
175211 AAGGGATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.38, T:0.21
Consensus pattern (5 bp):
AATGG
Left flanking sequence: Indices 174682 -- 175181
ATAATATAGGAGAAGAGATTGAATGAATTGACTCAAAATGCACATGATAGGCCGAATCGAATAAG
CTCTTTTGTCAGGTCTAGAAGCAAGAACTCTTGACTAAGCCGATTCCCTTCTGACTTTCCTTCCT
CTTGTTGATTCGGAAAAAGACGTTCGAAAGTTGTCCTTTCCAATTTGACGTATGGGAAATTCATT
TATATACCAAAATCACGGTGTTTTATGGCACGATTGAATCAATAGTGACGAGGATGGATGCCCAC
CCGGGGAAGAGGAGGCAATACAAGATCTCTGTGTTTTCCACAATACGAATTTAAACATCTTTAAC
AAAGAAGAGAATCGGCAGTGAAAGAAGGAAAGGAAGGGGCTGCTCGGTATTCCGCTGAATGAAGC
CAGTGGTCCTCCCTTTGATACAGTCTTCACCATTATATAGTTGATATCCACGTCGAAGAACTACA
CCACAAGTTAGACTTGCTTTTCAATCAGGCAGGAAACAACGAGGA
Right flanking sequence: Indices 175211 -- 175710
AAGGGATGATGAAGAATGAAAGAAAATGAAGTATCAAAGCATGTCCGTGTCCGACCCACCTTAAA
TCTACTCTTTGTTGTAGCCGTCATTCATCCTCCGACTTTCTTCCCGCTCGAAGAGGTTGTTTGGA
AAACCCTAAAGAAAAGAGAAGGTCGATAAATCGGGGCTGAAACTCTTCTTAGGATAAGGAGGAAC
AGCGATGAGTGAAAGAGTACTCACTCCGCTCCCTGTTATAAGAATAGAGTCTTGCCCCCGGCAGG
GTTAGAAAGTATTCCCTATTTTGAGATGAGAAGCCTACTCAGATCAGAACGAGTTGTGTTCTAAC
AAAGACTAGTTGATTCGCCTATCGGCTTTAACAACCTTCGCATTTACTCTTTTCTTGAGTGAGCT
TCATCCAATCAGATCCCAAGTCTCCAAGTGGCTGGCCAACCGCGACCTTGGCTTTTTAGAGAATC
CCGATCCTCCTGTGTCGTGGTACTTCCTCCCTTGTCGCTCGGCGC
Found at i:196882 original size:6 final size:6
Alignment explanation
Indices: 196871--196895 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
196861 TGATATACTT
196871 TATCTA TATCTA TATCTA TATCTA T
1 TATCTA TATCTA TATCTA TATCTA T
196896 GGGATCGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (6 bp):
TATCTA
Left flanking sequence: Indices 196371 -- 196870
TACTTCAGGTGCTTATGTTGCGTATAATGTCAATCTCGTAGCGGATCAATTCCAACGAGCCTTTC
AAACGAGTACTTTTTGTAATCGACTCTATAGCTTCTTCAATAAACGCTGGTTCTTCGATCAAGTT
TTGAATGACTTGATAGTCAGATCGTTACTGCGTTTCGGATATGAAGTCTCATTCGAAGCTTTAGA
CAAGGGTGCTATTGAGATATTGGGCCCTTCTGGTATCTCGTACACATTCCGACGATTGGCCGAGC
GAATAAGTAAACTGCAAAGTGGATTTGTTGTGCGAAGAGTGCGTTATGACCCGTGGCCTCTGGTC
CTCCGTTGTGGGTATAAACGGTAAACGAGACTCTACGAACCCGAGTCAAGGCTGCACAGCAGTAG
TCGGGGCGTTAAGACCGGAGCTTTTTGTAGTGCTAGCTGGAATGCAAGTGAATGAATCCCTTATT
GCCGCGAGGAGTGAAGTGCTTCCGCATACCACCCTTGATATACTT
Right flanking sequence: Indices 196896 -- 197395
GGGATCGCTTTAAAGAAAGGTTAGTTAGGGGGCTTATAACCATTTGTATATTTTTGGGAGTACGT
CCACGAGGCTGTCAAAAGAGATAAGGGTCGGCTATCTAGCGGGAGTCGTTTGTTGTATGCCACGA
GGTCTATGGACAAGGACCAAGTGAATCCTCTTTTCTCTTTTGGGCGCAGGCAGTCAACCATATCC
CATTCCATCGTCTTGTAGTAACCGTATCAGACCATCCTATTCCTATTTGAGTGAGAGAAAGGTAG
TGTAACAACTTTTATTCCTATCTTATAGTTTTAAATAAACTCCGAGCTCGATTGGATTCCCGTCA
CGGATTATTTCTTGTTGTGTTGTCCCTAACTAGTGGTATAGGGAGCGCAATTGCTAGAGCACGGG
AGAATGAAGAGTAATGATTTCAGCAAGAGCAGCCGGACTACTACTAGAGTGTCTAGTGACTACGA
GAGTTGAGTAATGAAAAGGTATGCAGCCTTTCCGAGCTAGCCTCT
Found at i:237536 original size:6 final size:6
Alignment explanation
Indices: 237525--237549 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
237515 GCTAACCAAT
237525 ACTCTA ACTCTA ACTCTA ACTCTA A
1 ACTCTA ACTCTA ACTCTA ACTCTA A
237550 TGTGGTATCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (6 bp):
ACTCTA
Left flanking sequence: Indices 237025 -- 237524
AAACTTGCCATTCATGGTTTTGTCCCTTTGATCACAGACTGGGATAAAGAATGCATTAATTAGAC
ATTAGAAAGCCAACATGACAGAAGCCTAAATCGAAGCCTTTTCTCTTTGTTCTATCCTTTTGGCT
CAGAAAGACATGATCGATCCGGGTGATAACTCAAATGTTCGCCGGCTCTTTCCATAGTAGCTTTC
GAGTGCGACGAAGAAAGTTCAGAATGAAAGTGATGAGTACGCAAACCAGCCTTTGAAGGATAGGT
GTTTCCAGGCAGAAGAGAAGGAAGACACTAAACTCTTGCCCCGGAGATCAGGTGTTTCAGCAACA
TTAAACGTGACTGACCTTTATCCTATCATGAGAAGATGAAGGCTCAACACTCGAGTGACCATTCA
CCCTTTTTAATAATAGAGAGCTTGACTGTCGCTTCCAAATAAAAAGAGAAGATCATAAGGTAAAC
CGGTTACTCTATCTTGTGAAAACTTGAAAAGAAGGGCTAACCAAT
Right flanking sequence: Indices 237550 -- 238049
TGTGGTATCGCTTCCATTCACTTCGAACAGTTTGTGTGCCGGAGAAGTCTGGCCTATCCAATATG
CACAGGTCTATTGAGTTGACTGTCTATTTTATTGAGAATATCCCTCCTAGAGTACCCATATTTTG
TTTAGAACGTATGCCAAAGTCACTGAATGGGTAAAGCCGAAGAGAAGGATTTGGTACTTTCCGCT
GGGCATTTCAGGGTCTATTGTATCAATCGAAGAACCCTGTGTGGATGTTGAAGCAGATCCTTCGG
CGGACTTTCAAAACCAAACACTCGAGACTTCAGTCACTTTAGTTCAAACCAGAAGCTCTGATGTT
GCAGTGCCGCTCGAACGATAAGAAAGTAACAACAAAACTCTTCGTCGAACTTCTCTTCCCTTCGG
GCCACACCATTGACCATCACAGCCTCCGGTCTTCCTTTGGCTTCTTTGAGTGTTAGACGTGGCAG
GAGAACGACCTCGCACTGGACTGAACTTACTATAGAACCTCAAGG
Found at i:243570 original size:39 final size:40
Alignment explanation
Indices: 243520--243595 Score: 136
Period size: 39 Copynumber: 1.9 Consensus size: 40
243510 AGCTGCCCTA
243520 TTTGATTTTGAAAGAAAGGGTTTATAG-AGTAGAGTTATT
1 TTTGATTTTGAAAGAAAGGGTTTATAGCAGTAGAGTTATT
*
243559 TTTGATTTTGAAAGAAAGGGTTTATAGCCGTAGAGTT
1 TTTGATTTTGAAAGAAAGGGTTTATAGCAGTAGAGTT
243596 TATGAGCCCT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 27 0.77
40 8 0.23
ACGTcount: A:0.32, C:0.03, G:0.26, T:0.39
Consensus pattern (40 bp):
TTTGATTTTGAAAGAAAGGGTTTATAGCAGTAGAGTTATT
Left flanking sequence: Indices 243020 -- 243519
CGTCCTATCCAGTGGTGCCTTTTCCATTCCAGAGTATGGGAGCGAGGTTATCCCTGAGTAGGAAA
GTCAACAGCGGTTCTTCTATGTGGGCCCCCTTGCTTGACTCTCCTAACGTCGAGCTCAGTTAAGT
CTTCGGCCTTTGCGTAGAATGAAGTACGCCTCTTCTTTATAGATAGAGCCTAAACGTCTTCGCTA
ACTCGCTTACTAACTAGACAATACATTTTAGGGGGTAGGCTAACTACTTCTACTCATGTAGGGTT
AAGGAGCGCTTTTTCCTTGTTTTAATCCATTCATCTCAGTATCAGAAGTCTATAGGTCCTTACGC
GTTGACAAAGAACAACAGGCCGGTCTCTATATGAGAGGGTATACACCAGCTTAACTAACAAGCTA
ACCTTCTTGATCTTAGGTGCTCAGAGAAAGATCTCTTTCTTTATTTCTCTTTTTAGGACTTCCAC
TTCTCGATCCCGGCCCGGATAAAGTGTGACCGACCAGCTGCCCTA
Right flanking sequence: Indices 243596 -- 244095
TATGAGCCCTACTGTAAGCCCACACCTGTGTAGAGTAGATCGTTCAACACCTGCACAAACCCAGT
GTTACCTATTTGGTCTATCATAGGCGACCGAACGGCCGCCCCCTAATTACTCTTCTATTACTAGA
CCAACCCGCTATAATAATTCCATAAACACCTAGCGAAGATATGGCAAACAAATAAAGTAGCCCTA
TGTTCGAATCTGACAATACCATACCATAATCAAAAGGTACAACGGCCCAAGCGACCAGACTTAAC
ATAAATGTAGCCACTGGAGCCATTCGAAAAAGGGAGAAATTTGCACTACTTGGTGAAATGGGTTC
TTTTATAATCAATTTAAACCCATCTGCTATAGGTTGTAACAATCCGAACGATCCCACTACATCAG
GACCCTTTCGACGTTGCACAAAAGCCATTACTTTACGTTCAGCTAGCACTAAAAAGGCTACTCCT
AGTAGAAGTGGTAGAATTATTCCAAGTATTTCAGCTGGAACAGCT
Found at i:255013 original size:6 final size:6
Alignment explanation
Indices: 255002--255037 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
254992 CGAACACTCA
255002 GTCCTC GTCCTC GTCCTC GTCCTC GTCCTC GTCCTC
1 GTCCTC GTCCTC GTCCTC GTCCTC GTCCTC GTCCTC
255038 CGGCAGCACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.17, T:0.33
Consensus pattern (6 bp):
GTCCTC
Left flanking sequence: Indices 254502 -- 255001
TGCCCGGAATGATCACTGTTGCCCCGGAGATGATCTCCAAGACAGAAAAGAGTGACGGATTGCCG
ACGAGCCTCTGTAAGATGACTAAGAGAAGCTCAATCGAACAGACCTATAATTAATCGACTGAGAA
TGGGGTGAGCAACAGGCGAAAGAGATCAACGAGCTATAAGATAAGTAAGATATTAGACAAGAAAG
GCATCTCTCCTATAACCCCCGAAGGCAACACCATGCAAAAAAGAAAGCATCGAATTCAACAATTG
TCAATTGATATCCTTTCGATAGGTCCGACTCAAAACACTAAGAAGGGTAAGAACTCCAGACAGAG
CGCTGACAAGAAAGCAACAATAAAAATAAGAAGAGTGAGTTCGCAGCACATGACCGGAAGGCAAC
CAGAGTCAGGAGTCAGAGGATCCATAGTACCTACCACCCCACGGACTGCATATCATTGGTTTCAC
CAATTCATTGACATTCAGACAGACAGCGGGAAGGGCGAACACTCA
Right flanking sequence: Indices 255038 -- 255537
CGGCAGCACACGTCGTGGGAAGTCACATCATTAGAGGAGTTATGCGAGCCTGATTTACAATGTTT
CTTGCGCACCGTGATCGCACAATAAATAGTAGGAAGAGCATCGCTTGGGGGATTGACTTCGGGTT
TGTTGGGATCTTTCTGGGAGTTCAATCCAAATGCGAAGAAGCATGGAGACAAGGCCTTGGATTTG
AAATTGGAATGAAATTCCGAATCTCAGAGCTTTGTCTACGAACAAGGAAGCTCTCATCTCAGTCA
TGCACCGGAAATCCAATCAGGAGTTCGATCCGAAAGCATGCTTCCACGCAGAACAGAAGGATGAT
GGATAAGTGGTGTTTCCAGGGCCTGACTAGTGACTGAGTAACGCGTAAGAACCTCCAGCCTAATG
ACTAAACCGTAGGATCAACAGAAATCCGTGAGGGTAGTAGGTCGATGAGCTTGAGTTGAATAGCT
CGCTTCCGATGTGATCTCCCACACATTGTGAAGTCGGATAGGCTT
Found at i:266048 original size:46 final size:46
Alignment explanation
Indices: 265981--266086 Score: 212
Period size: 46 Copynumber: 2.3 Consensus size: 46
265971 CAGTGCGACC
265981 TTGATCAGAGTCCATCAATAAAGGTAAAGGTTATGTACTATGCTTG
1 TTGATCAGAGTCCATCAATAAAGGTAAAGGTTATGTACTATGCTTG
266027 TTGATCAGAGTCCATCAATAAAGGTAAAGGTTATGTACTATGCTTG
1 TTGATCAGAGTCCATCAATAAAGGTAAAGGTTATGTACTATGCTTG
266073 TTGATCAGAGTCCA
1 TTGATCAGAGTCCA
266087 ACAACCGGAC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 60 1.00
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (46 bp):
TTGATCAGAGTCCATCAATAAAGGTAAAGGTTATGTACTATGCTTG
Left flanking sequence: Indices 265481 -- 265980
CTTCGACACCGAACCTCTAAAGATCCGATAGATAGCAGCTACCTAATAAATCGATTTTAAGCCCT
TCCACCAATCACGAGCATCTAGTAATAAGTTAAGTCCGAGTACTCTCTTATATAGGCCTTTGAGA
GAGCAGTATAAGTCAGAAAGGGTGAGCTCCGCCTTGTGAGAGGAGGGGTGGTGATCCGGTCTCAG
TCAAAGTAATAAGTCAAACAAAGAAGAAAGCTGTTCACTGGTGTGATATCTAATGTAGAGAAAGA
GGCTACGCCGACGTCAGTAACGCTATGGTAACAGCTAGCTTGGGGTCCGCTTTCAGCTATTTATT
ATCTCTTATACTAAACAATCATGCGCTACCTTGTTGAAAGAAAACATCCGAGAATCCTATGTGCT
AAGTCTATCATCCAGAAGAGCTAAGAAAAGAAAATCGAGTAGCTCGGGTCATTGCACACTCGGTC
AGAGTGGGGGTAATAGAGTGTTCCGTTGGTGTTCTCAGTGCGACC
Right flanking sequence: Indices 266087 -- 266586
ACAACCGGACCTTATCCACCTCACTTCTTCTGTCCCTTTATTTTCCATGCTTCTCCTAAGTTAAG
TTGTTGGTCAACAACCAACTCCCCGAAGCAGTTCGTTTCCTACATTTCATTCTGTCTTCCGGGAA
TAATTCAATCATGCCTCAACTGGATCAATTCACTTATTTCACGCAATTCTTCTGGTCATGCCTTT
TCCTCTTTACTTTCTATATTGCCATATGCAATGATGTACTTGGGATCAGCAGAATTCATAAACTA
CGGAACCTGCTTTCAAACCGGGGGAACAACATCCGGATCAAGGACCCCAACAGTTTGGAAGATAT
CTTGTTGAGAAAAGGTTTTAGCACCGGTGTATCCTATATGTACTCGAGTTTATTCGAAGTATCCC
AATGGTGTAACGCCGTCGACTCTTTTGGCTTAAACAATAGTAAAAGAATTTGGATCTCTTGTTTC
GGAGAAATCAGTGGCTCGCGAGGAATGGAAAGAACCCTATTCTCT
Found at i:272439 original size:8 final size:8
Alignment explanation
Indices: 272426--272454 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
272416 TAAGTAAACC
272426 ACTCACTA
1 ACTCACTA
272434 ACTCACTA
1 ACTCACTA
272442 ACTCACTA
1 ACTCACTA
272450 ACTCA
1 ACTCA
272455 GGGTGGCAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.24
Consensus pattern (8 bp):
ACTCACTA
Left flanking sequence: Indices 271926 -- 272425
CTTATTCTCACAAGCTCTTATCGGCCTATCGAGAACTCTTTTCGGCCTATATTCTCTTTTCGGAA
GAGAAGAGAGAACACTATCTTATGTTATGCGGCCTATCGGCCTATATTCGGAAGAGAACTCTGTC
TTACCTTTAATCAGTCATTCATGACGGATTAAACAAGCACAACAGAAATGTCTTCAGACAAAAGA
TGAGATCACTACTCACTTCTGTCTGAAGTGAAGACTCTGTTCACTTTCCTAACAGTTAAGTTAGT
GAGAGAACGAGTTCACTCTGAACTCTTCGATCGAGATGCATGCTCTCGAGAACTCTCGAAGAGAG
AACACCTATAGTCTTGGCGAGTCGAGTGATCGACTGATCGGCGAGCAAGCCGATACTTGAGTGTG
TTTAAGACATGTGTTCACACATGATTTAATACTCTTCAAGCCAAGGTCTTGTTCTCTATAGGGCT
TATATCAACTTTGATATAAGAGTGTGGGTGGTTACTAAGTAAACC
Right flanking sequence: Indices 272455 -- 272954
GGGTGGCAGTCGTAGGCGGCAACAAAGATATGCTATCCAATAGTTACCTGTTCTTCTTGTTATCA
ATTCGGAGACCAACCGGGAACTCGGTGAGACTGGAATACCCGATCCCATTCCGACCTCGATGCTG
TTGCTGTGAATCGTCTTGCGCCATATGTACTGAGATTGTCGATTGTTCGGGAGACATGGTCCGAC
CCGGTCTAACGATTATGCTCTTGAGCGTAATGTTAGACTATCTGACTATCGTCAATCATTGATTG
ACATTCCAATCAATTGTTCGGCTCGGCGGCTCTCAACTCTCAGAGTTTGAGCTGCTACATCCAAT
TCTCGTTATCGGAGTATCAAGTTGTTCTCTGCAGAGCAGAGCAGAGCAGAATAAAGAGCTGAGAC
TCTCAGCTCAGAGTTGGTCAACAACCAACTCACTCGCTCGTTTCTTACTCTTACGAGTTACGAGT
TCGTACCAATTGATTCATCAAGCCGATTGATTGACCTGTCTGTAA
Found at i:280645 original size:5 final size:5
Alignment explanation
Indices: 280635--280663 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
280625 ACAACGAGGA
280635 AATGG AATGG AATGG AATGG AATGG AATG
1 AATGG AATGG AATGG AATGG AATGG AATG
280664 AAGGGATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.38, T:0.21
Consensus pattern (5 bp):
AATGG
Left flanking sequence: Indices 280135 -- 280634
CGTCGGGGTAATTTAGCATTCGTTGTGGCATTGGTGAACACTCGCTTTCAGTTCTCGCTATACGG
TTTCTTACGTCTCGAGATTCAATTCGAAACAACTCCAGCTTTGCTACTCCACTCATTTCCCGATA
TGAATATCCTCTGGGACCTCCTTTAAGTTCAGGAGATTCGTTCACCAACTCTCAGCCAGTTCGTA
AGCCCTGTACGGCAAACAAAATCACGCTGTCTCTCGTGTAAGGCCCTAAGAAGATGGATGCCCAC
CCGGGGAAGAGGAGGCAATACAAGATCTCTGTGTTTTCCACAATACGAATTTAAACATCTTTAAC
AAAGAAGAGAATCGGCAGTGAAAGAAGGAAAGGAAGGGGCTGCTCGGTATTCCGCTGAATGAAGC
CAGTGGTCCTCCCTTTGATACAGTCTTCACCATTATATAGTTGATATCCACGTCGAAGAACTACA
CCACAAGTTAGACTTGCTTTTCAATCAGGCAGGAAACAACGAGGA
Right flanking sequence: Indices 280664 -- 281163
AAGGGATGATGAAGAATGAAAGAAAATGAAGTATCAAAGCATGTCCGTGTCCGACCCACCTTAAA
TCTACTCTTTGTTGTAGCCGTCATTCATCCTCCGACTTTCTTCCCGCTCGAAGAGGTTGTTTGGA
AAACCCTAAAGAAAAGAGAAGGTCGATAAATCGGGGCTGAAACTCTTCTTAGGATAAGGAGGAAC
AGCGATGAGTGAAAGAGTACTCACTCCGCTCCCTGTTATAAGAATAGAGTCTTGCCCCCGGCAGG
GTTAGAAAGTATTCCCTATTTTGAGATGAGAAGCCTACTCAGATCAGAACGAGTTGTGTTCTAAC
AAAGACTAGTTGATTCGCCTATCGGCTTTAACAACCTTCGCATTTACTCTTTTCTTGAGTGAGCT
TCATCCAATCAGATCCCAAGTCTCCAAGTGGGCCCTGGCCAACCGCGACCTTGGCTTTTTAGAGA
ATCCCGATCCTCCTGTGTCGTGGTACTTCCTCCCTTGTCGCTCGG
Found at i:290943 original size:18 final size:18
Alignment explanation
Indices: 290920--290954 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
290910 TCAGACGCTT
290920 CTTGGCTATTTATTTGGA
1 CTTGGCTATTTATTTGGA
290938 CTTGGCTATTTATTTGG
1 CTTGGCTATTTATTTGG
290955 CAGAGGACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.11, G:0.23, T:0.51
Consensus pattern (18 bp):
CTTGGCTATTTATTTGGA
Left flanking sequence: Indices 290420 -- 290919
TTTATTATTGAGAAAGTCAAAGGAGGTTATTCAGTAGCCATCGCGGGTTTCATTACTTTTCTTCC
ATTCTTCCGTCCTATTATCATAAGTCAAAGGAGATCCTCGAATGATCGATTCACCATTGAGAGCA
TTACCCCCAAAAGGACGAATATTGTGGTGTTCTAGCGGCAGAACAAGAACTTGATGAGCGAAATC
CGAAAAGAGCCGTTTTTTCAATTCCGAAGCCTTTCTCCTGTGAAAACACTCTCTCACCTTAATCC
ATTCTTTATGTCTTTTTAATAAGGTCTCTGGCACTTCTATTGGTCAAGAGTTTGGCTCGTTTTTT
ATCTCTCTTCTCTTTCTTACTAATTCTTTGTTGGTCCAAATGAGTGCTATCGACTTTCGTTTATG
GACAACACTTTTTGTTCTCGGAACCGGACTACTTGGCTCGGACATGTAAGGTGGAAACAGAGACT
TGAATGAGAGCTCGTTTGAGCGACGTTCTAATAAGTCAGACGCTT
Right flanking sequence: Indices 290955 -- 291454
CAGAGGACCTCGTGAGTGAAGTCAATCATCGCACCTTATATTACGGATATCCATATGATAGATTC
TCGCGCTCGCGATTCATCCTTCCGTCCACCGGCAGCAGACTCTCCTCAATCCAAAACGTTGTACT
GCTTGTTCCCCCCTGTGAAAGTATCCTTTATTGAAAGAAGAATTCGATAATCAAAGAAGGCGTTC
AGATACCTGGCTAGACACTCTAAGATCCTTTCAAGTCAAGAGAGGATAAAGGAAAGAAAATAGAC
ACATCTTTACCCATTGCTGCACTTCGGGGCGTGACTTAGGAAGACAAGAAGTGAGTTATCAGCGC
CAAGTATGGGGCCTATCCAATCGATCTCCCGGTCCCCGAATATAAGGAAAAGAAAGAATTTCACG
TTCTTACTTTATGGAAGGGAGGATTAGGAAAATACTATGGTTTATCCAGACGACCCCCGGGAAAA
GCAAACATAAAGGGAAGAAATGGGATCACCCCATAATGAAGAGCG
Found at i:329281 original size:18 final size:18
Alignment explanation
Indices: 329258--329297 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
329248 GGAGATTGGT
*
329258 TGGGTTCTTTTCTGTCAG
1 TGGGTTCTCTTCTGTCAG
329276 TGGGTTCTCTTCTGTCAG
1 TGGGTTCTCTTCTGTCAG
329294 TGGG
1 TGGG
329298 AGGACTTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.05, C:0.17, G:0.33, T:0.45
Consensus pattern (18 bp):
TGGGTTCTCTTCTGTCAG
Left flanking sequence: Indices 328758 -- 329257
ACATGCTACTTCTTCACTGCCTTAGTGTTTAGTAGAGTGTCCACCATACGGCTAGCTAACTCTCT
GTTCGAGAGGCTATACTTCAAAAGGGGTAAAGGCTACTATGACCGGTACCAGTGGTTGAGCTAAT
TTCTTCCATATTGAGTTACGTTAACGTCATCTTCCGGTTCTTTCTTCGATCGGAAATGAAATCAA
TACCAACTCACTCTTCTCGTTTCAGGAATGACACCGGTACTTCTTGGGATTAGACAACTTGTTTG
GAAGAGATAAGAGATAATGGTTTACGTTTGTCGTAGCCAATCTCACCTGTATTTTGAAGGATATG
AACGAATGCGTAGAGTACCCTAATCATCTTATATTCGGCTGAGACTCTCGTTGATAGGAAATTGA
ATTTACCTCTTCTCCGCACCTCGAACCTTTAATACGATATTTTAATACAAGACCGAAAGTCAACA
CAAGCAAGGTCCCGTTCGTTCCTTTCTTTGCCGAAGGAGATTGGT
Right flanking sequence: Indices 329298 -- 329797
AGGACTTTCATCAATCACAAGGTGGGCATCCAGTTACGGCCCCGGTTGGAAGGAAGCGTATCACA
ACAGCTAGACGCATGATTGATTGATTAACCTTTGTTTCATTTTCCACTGATTAATTCTTAACGAT
CAGATCGAACCGAAAGCTCACAGGTCTGAACGAGTGAAAACGCTGTTATCATTTCAGAGGTGTGC
CGGAGCTGATCCTGACACTGGACTCTTTCTCAAAGTCTGACCCTTTAACTCACCTATTTCTCTTT
TGATGAACTGAAAAGCAATTGATGAGTGCCAGCAACTCCATTTAACTCGAGGGTTAGCGGCAGCG
AAAGGGAAGGCTTCATTCCCGAGTCAAGTCGAAAGCGCTTCGGCAACAGAATAAAGAGCTGAGAC
AAGGATCAGATGAGCTCAAGTCTGGCTCGAAAAGAGGCCAAGAGATACAGAGAAAGAAAAGGACA
CCAGAAAAGACTATGTATATTGAAAGAATAACTTATAAAGACTTC
Found at i:336457 original size:5 final size:5
Alignment explanation
Indices: 336443--336483 Score: 73
Period size: 5 Copynumber: 8.2 Consensus size: 5
336433 AGACTCTGCC
*
336443 GAAGA GAAGA AAAGA GAAGA GAAGA GAAGA GAAGA GAAGA G
1 GAAGA GAAGA GAAGA GAAGA GAAGA GAAGA GAAGA GAAGA G
336484 GACGGACAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (5 bp):
GAAGA
Left flanking sequence: Indices 335943 -- 336442
TGAACTGAATGAATTTTTCAAATCCGATATTCTCTTAGTTATCTGATTTTGCGACCATATGGTGG
AGGGTGCATGCATCTTTCTCAGAATTGGGTAACCATGTCCTTTCCAACAATCTTGAGACGGTTGA
CGACCCTTTCGCGACTGCAAATAATGAAAGTAGAGCGACCTCAGGGTTCACAACAACAACAACAG
GATTGTGTCAATTTGAATCCTCATGGCACCCAGACTTACTTAACTGATAGAAGAGCATAAGTCGT
ACCCGTCTATGGAAGGATTGGACAATAATATGGATAATGAACTAAAGAATGCAAGGGCACAATGA
GATAAGCGAAGCCCACTTTCGTGAGTGAAGATTCGATCTTTCTTTCCCGTTGCCTGTCGAGTTTT
GTTGTTCTTTTCACTTTAGAAAACAGTCCAGAACCTCATCAAGAACAACCAACAAGCTTCGACTC
TTATTAGCTTACTGAATGAAACGACACTCGAAGCGAGACTCTGCC
Right flanking sequence: Indices 336484 -- 336983
GACGGACAGACAGTGAAGGAGTCTTCATGAGAAGATGATACATGCAATGCTTATATGGGACTGAG
GGCAAGGAAGAAGCCAAAACAAGTGCGAACTCCTAGGACTGAATGGAAGGCGCGAGGAGGAGACT
GTGGAAGATGACGAGCGACCTTTCTAATAACGAAAGCGGCGGAGATGGTTTTCAGTTCCGGGGCA
GTGTGAGGGCATTTCTTCTATCAACACAAAATCCTGAGAATATCGGAATAGGTCGTTTTCTGGAG
TTGAGTTATCGTTTAGTCTGACTTCATACTCGATAAGTGCCTATATAGGGGATCAGGAATCTCTT
GTTGTCTTGGAATTCTAGGAAGAGAAGATCAGGAATCTCTTGTTGTCTTGAATTCAGGACTAACA
AAACGGGAAAGTAAGAGAACAGCTACTGAATGAGCTTGGATAAGTACGGTCTCGGAAACCTAACT
ATTATGGTGAGTATCCGCAGGCAGTTCACCGGGTCATGAGTGCCA
Found at i:346280 original size:8 final size:9
Alignment explanation
Indices: 346254--346282 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
346244 TATCTTATGT
346254 TATGCGGCC
1 TATGCGGCC
346263 TATGCGGCC
1 TATGCGGCC
346272 TAT-CGGCC
1 TATGCGGCC
346280 TAT
1 TAT
346283 ATTCGGAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.14, C:0.31, G:0.28, T:0.28
Consensus pattern (9 bp):
TATGCGGCC
Left flanking sequence: Indices 345754 -- 346253
AGTCATGAATGGTATAACACCAACCTGTTGTCGTCTCGGGTCAAGAACAGGGTCATTGAAGGAAG
AAGGATCAAAAAACCAATTCATAAAGAGCCATCGAACCGGCAACTAGAGAGCTGTATGCATTTGA
ACAAAGCAAACCGGATCATTCAAGACGACGGGATGAACACGAGACCAAGGTAAACAACCCATGGA
AACCCCTAATATCGAACACTCAGTAACTTTCTTCAAAGACTCTGGATTATGATGTGTGACTTACT
TCTCATTTTCAGTGGATTCTCTTCTCGGGGAAAGGATTGACATTTGTTCCAGTCTTTTAGTCATA
ACACAATTCTCTAGTATAAAGAATAAAGAAGCAGATCGATTCCTATACCCGATAAGTAACAAGAC
GCAATGGTGGAAAAAAGGAGAGAAGTATAAGGTAGTAGTTGAGACCTCGCCAGCCCTCTCTTATC
GGCCTATCGGAAGAAGAGAAGAGAAGAGAGAACACTATCTTATGT
Right flanking sequence: Indices 346283 -- 346782
ATTCGGAAGAGAACTCTGTCTTACCTTTAATCAGTCATTCATGACGGATTAAACAAGCACAACAG
AAATGTATTCAGACAAAAGACTCTGTTCACTTGAAAGTTGTTTGGGTTGAATCGATCGAGAACCT
CAACAATGCTTTTGAGTTTTGAGATTCATCCATACTTCCATTCTTTGTAGAAGAGTATAAAGGCT
AAGAATTACTTGCCGTGGGAGAGCTGTATGAGCGGTAACGTCCACGTGCGGCTCCGTGAGAAGGG
TCGGACAGAAAGCATGGCCTTGTTGTACCTCACTCTCGTCTTCAATGGGGTCTGCTCTCTTTTTT
TTGGGAGAGTATGCCAATATGATCTTAATGAGGTGCGGGGCTTTTCATCTTTTATTCGTTGGGCG
GAGCGTCCCGGCGTAAGCAATAAACCTCTGGCCGAAGAGACTAGGAGTTGTCCCGCGTAGCTTTG
CTTTAGGAGAATGGTAGCCTAGTGTGTAAGCACAGCAATGGAACC
Found at i:356806 original size:15 final size:15
Alignment explanation
Indices: 356786--356826 Score: 82
Period size: 15 Copynumber: 2.7 Consensus size: 15
356776 GACAATCTCC
356786 GATTAAGAACTCTTA
1 GATTAAGAACTCTTA
356801 GATTAAGAACTCTTA
1 GATTAAGAACTCTTA
356816 GATTAAGAACT
1 GATTAAGAACT
356827 GTCTTCCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (15 bp):
GATTAAGAACTCTTA
Left flanking sequence: Indices 356286 -- 356785
AGAAAGAGAAAGAAATGATGTAGCGCATACCTGTAGGATATGGAATGAGGAGAAGAGGAAGAGCT
GTGGATCGTATGTAGCGGCGAGAGCAGTTATCGAATCTAATGCCCTCTGTCTCACTCTTCCTTGT
GCCGTTCCCTTAGTCGCACTTCTTAACTGAAGACTAACACTCAGACCCGCACCGCAGTCTTAATT
AAGGGAGAAAGATCGAAGAGCTAGCGAATCCAATTGCTCTAAAGTAATGCTAAACTGCTTACCGA
TTGAAGAATTGCTTCTTTGAGACTCATACTCTGTATTCATGCTTGTTGCTTGATTCAAGTAATTC
AGTAATTCAAAACAAGTACTGAATTCAGTTATGAATTCACTGAATGCAATGACTTTGGATCGTTA
CTCGGATTATGCGATCGGCCTATCGAGAACTCTTTTCGGCCTATATTCGGAAGATAGAACACTCA
ATCTCTGTATTTGTCTTCGAAGAGAACTCAAGACCGACAATCTCC
Right flanking sequence: Indices 356827 -- 357326
GTCTTCCAATGTCTTCAGGCTGCACAACTCCAAGCAATGGGAACTCACTGAAAGAAGAGACTCTG
TGCCTCTAAGATATTTATTGAGAAAGAACACTCAACTCTTTTCGGCCTATATTCGGAAGAGAAGA
GAGAACACTATCTTATGCGGCCTATCGGCCTATATTCGGAAGAGAACTCTGTCTTACCTTTAATC
AGTCATTCATGACGGATTAAACAAGCACAACAGAAATGTCTTCAGGCTGCAATGCAAAGAGAGAA
GTAAGAGAACTCAATCAATGAACTCACCAGAGAACCAGCACTTTCTATCCAGAGGTCGGCTTCGT
AGATGTGGGGAGATGCTCCTGACTGAGTTCCGGGATATTCTCTGTCTTTTCTCTTCCTACCTGCG
TCCTACTTTTCTCTTTGTTGATCTCTTCGCAAGAAAGTCTAACAGTTTCTCTCTTTCGGCATCTC
TGTCAGTTTTCTAATCTCTAAGAGGGTGGAAGCCTACGTCCATTC
Done.