Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_035964
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: 423596
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Found at i:1291 original size:50 final size:51
Alignment explanation
Indices: 1195--1292 Score: 119
Period size: 52 Copynumber: 1.9 Consensus size: 51
1185 ATATAAATAC
* * *
1195 TCTCTCTAAAGGATGGATTAAATATAATGTTCATTTTTTAAGGATTCTCACT
1 TCTCTCTAAAGGATGGATGAAACATAATGTTCA-TTTTTAAAGATTCTCACT
* *
1247 TCTCTCTAAAGGGTGGATGATACACT-ATGTTCA-TTTTAAAGATTCT
1 TCTCTCTAAAGGATGGATGAAACA-TAATGTTCATTTTTAAAGATTCT
1293 AGAGAATTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
50 12 0.30
52 27 0.68
53 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (51 bp):
TCTCTCTAAAGGATGGATGAAACATAATGTTCATTTTTAAAGATTCTCACT
Left flanking sequence: Indices 695 -- 1194
GAGAGTGAATTAGATAGAGTTACCTACAGAAAGTCAGACAAAGGATGAGAAGGAATGGGTAAAAA
AGCTTCCTGGCTAAGAAAGATAAAAGCAGAAGAACAAGTGATAAGGGCATTAGGGATATATAGTT
AACATATCATGCTTGGAAGCTGCTACCACTAAGACTGATTATGAACCTTAGATCAAGTATATGAT
AATATTTATTGTTAGGTATTAATTTTATATGATAAGTATCATATGATATGAGTTATTAGGTATTT
TATAGTATAGGATAATATATGTTGTTAGGTATTTATTCTATATGGTAAGTATCATATATTATGAA
AAATAATACCTATTATCATCAAGATATATATATTTATTATTAACGATATCAGGAACCCTCTAAAT
CCTCTACAGCATCATACCAAGATACGCTAGATCTCCAGCACTCTAACATGATTCCTAAACCACCT
ACCCCTCCAACCGTAACAAATATACACTACTACATATATAAATAC
Right flanking sequence: Indices 1293 -- 1792
AGAGAATTTCTTTATCAAACTCATTTTCTAAGAGATATAGAGATATTGTAGTATACTACTAGGGA
TAACTTGTGCTCTTATTCTTCTGTCAAAAGTAGGGAAGAGCAAGTGTCTGATCAGATCAATCAAG
CGATAGGGGCAGAGACTTTACTTCGCTAGGACGGAGTTGCTGTCGATTGAGGATTGGCCGAGGGC
CCTTTTTTCTTTTATAAGGGAAGAGATTGTAGCTGGGTACAAATAGGCCGGTGAAAGACGAGTAG
GCAAGCACGCGGGTTGTACCGGTCAGCTTTGAGCTGTCGAGTGACGATTGGCCGAGGGGACTTCC
ATCATGTAGCTGGGTACAAATAAGCCAGTTAAAGACGAGTAGGCAGGGCGTTAGGCTAGTGCCAG
TGGGGTACGTAAACGAGGACAGATCACATGGTTTTGTACTGGTCAGTTTTGAGCTGTCGAGTGAC
GATTGCTCCATCTCTTAAGAAAGGACGCGGGGGGCCTGTCTTATA
Found at i:3471 original size:15 final size:15
Alignment explanation
Indices: 3451--3480 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3441 AAGACCTTTC
3451 CTTTATGATATTAAG
1 CTTTATGATATTAAG
3466 CTTTATGATATTAAG
1 CTTTATGATATTAAG
3481 GATTTTTCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (15 bp):
CTTTATGATATTAAG
Left flanking sequence: Indices 2951 -- 3450
GGAATGATCACCTTCTAAACAAAATAGGAGTGAGAATTCCCCAACGAACGGAATAAATGAGTGAA
CAAGCACCGAAAGGTGTGCGTTAGTGAAACGAATAGCTCAGTCCTAGCGGACAGGACAAAACTTC
CCTTGGAGAAAGCCAGCCTGAGGGAACTGGATTGGTCATTCCACCATCACTCGATTATAGAGGGT
TGGAGCCCTCTCTCTGAAAGCCCTCTTGATGCGATGAGAAAATGGCTAGTATTCAAGGCTAGTCC
CAAGAAAGCAAGCTAAAGGGCTATCCCGATAAGAAGATGAAGCCTGATCGGGCCAAAAATGAAAG
CAATCGAAGGAAGGGGTAGAGCATGTTCTATTTTTCCGAATCTTTCAAGATGAAAATAGAGGGAT
TGGCTTAACTTCCTCTATGCGGTTGCATACAGCTTTGCTTGAGTAAGGAGTAGGCCATTCCAGAT
AGGCTGCTTTTGCTATTACTGAAGCTTTTAAGAAAAAGACCTTTC
Right flanking sequence: Indices 3481 -- 3980
GATTTTTCCAATCATTAGAGTGGTGTCATCCCCTTTCATTCATGTCTGATGGATAAAAGCCCTTG
GGCCTTCGTTCATTTTGTTTAAGAAGGCTGCGACATATACAGCATCTTTCCATAGACTTTTTCTT
GCCTGGATGAAAATTCAATATATGAATAGTCATTCCCTCACAAATTCTTTATTTGAATATCTTTG
CTTTGTTCGTTCTACAGATATAGATTAAACTGCCTTTCTTGGCACCATCCCTATTCTGATGGCTC
AGTACAAGACCGACGGAAGAGAAGAGGTGAAAAGGCTAGCGAGGCAGAATTCTTTTTCTCTTTCA
TAGCGCCGCACAATGGAGACATTGTAGTGCTAGACCAGATTTACCAGCGGACAGTTGAAAAACGA
TACGACCCAGGACCAATTCTGGTTCTTCTTTCTATCAAAATAAATCGAATTCGAAAGAGCGGGGT
CTTACTTATTCAGGGGGGATGAAAGACAAATAAAGGGATCAGGGG
Found at i:6775 original size:22 final size:24
Alignment explanation
Indices: 6723--6773 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 24
6713 AAAAAGACTT
6723 GAAATCCTTTTATTCCATATTGGAGTA
1 GAAATCCTTTTATTCCATATT-G-G-A
6750 GAAATCCTTTTATTCCATATTGGA
1 GAAATCCTTTTATTCCATATTGGA
6774 AAAGTTATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 1 0.04
25 1 0.04
26 1 0.04
27 21 0.88
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (24 bp):
GAAATCCTTTTATTCCATATTGGA
Left flanking sequence: Indices 6223 -- 6722
CCAAGCCAATCTCGAAACAAAAAAGAAAACTTATTGCAACTACGAACGTGAACAGATGCTTTCTC
ATTAGACTATTTTAACCGATTGTTTATGTCGACCCTACGCTACGATTCTTCTTCTCTTATGAAAT
TTCTAGTTAGATGAACACTGCTCTGCTGCATGACGGAGTGATCTTTCCCTCTTATGAAAGCCGGT
ATCTCACTTTCGAAAGAGAGTCTCGACGTGGCGGTGTACACCTAGCTCCATAGCTGGGCTAGTCA
CTGGCTAGAGGGCGACCGACCTACCGGACCGGAGGCAGCCGAGAATGTTATGTAAAAAGGACCAA
GGAGGATCCTATCCTAAAGGAGAAGGAGGAGTAGGAGGAGTCAGTTTTCTTTGAAGATCGAGGAA
CGTAGTGTCGGACAATTATGCCATCATGGGGATTTCCACTTTTTTGTCTACTTCCATCCGTAATA
CTTGGAAGAATTTTACGACTAGAAAATAAGATAAAAAAAAGACTT
Right flanking sequence: Indices 6774 -- 7273
AAAGTTATCGTGGGTCTTGTTCTGGCAAAGGTCACCTTACACTTTGGGTATCTGTTCGCGGATGA
CCTAACTCGTGCTGTGAATCAGTTTTACTCTCCTCCGTCGGGTGAAGGGTGGTTCAGTCAAGCGC
CAACCCCGACTCCTCCACCAGAGAATTCCGGTCTGGAGCTCATTCCCGGTGCGCGAATCGAAGGG
GACGGCCCAGCCCCGGGTTCGGAAGGAGAGAAACTAAAAAAGCTCCATGCCGTAGTCGAAGGGCA
TCTTCGGAGATACTGCGCTTCTGAGGATGGATTGAAAAGGTTCCCTTGTTTGAAAGATAAAAACA
AGGAAGATTTCCAATATTTTGCGCAACATTTTTCTATTACGGAATTGGACATTGATACAAAAAGC
GAAGCGGAAATCGCTTCGCTTTCTGCCTATTTGGGTCCATTTCGTAAAATAGAAACACTATTTCA
TATGTATTTTGACAAATACTTCGAGTCAGACTAGAGACTGAAGTA
Found at i:7370 original size:20 final size:20
Alignment explanation
Indices: 7345--7385 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
7335 ATTTGGCCGA
7345 GAGTGTTGTGTTATTGTTAT
1 GAGTGTTGTGTTATTGTTAT
7365 GAGTGTTGTGTTATTGTTAT
1 GAGTGTTGTGTTATTGTTAT
7385 G
1 G
7386 TAAGACCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.54
Consensus pattern (20 bp):
GAGTGTTGTGTTATTGTTAT
Left flanking sequence: Indices 6845 -- 7344
TCGTGCTGTGAATCAGTTTTACTCTCCTCCGTCGGGTGAAGGGTGGTTCAGTCAAGCGCCAACCC
CGACTCCTCCACCAGAGAATTCCGGTCTGGAGCTCATTCCCGGTGCGCGAATCGAAGGGGACGGC
CCAGCCCCGGGTTCGGAAGGAGAGAAACTAAAAAAGCTCCATGCCGTAGTCGAAGGGCATCTTCG
GAGATACTGCGCTTCTGAGGATGGATTGAAAAGGTTCCCTTGTTTGAAAGATAAAAACAAGGAAG
ATTTCCAATATTTTGCGCAACATTTTTCTATTACGGAATTGGACATTGATACAAAAAGCGAAGCG
GAAATCGCTTCGCTTTCTGCCTATTTGGGTCCATTTCGTAAAATAGAAACACTATTTCATATGTA
TTTTGACAAATACTTCGAGTCAGACTAGAGACTGAAGTAGAAGAGTAGAAGATGGCCTGAGACTG
AGAGAAGGCGGCCTCTCTCGGGCTCGGGAAAGACAATTTGGCCGA
Right flanking sequence: Indices 7386 -- 7885
TAAGACCAAGGAGGATCCTATCCTAAAGGAGAAGGAGGAGGAGTAGGAGCTAGCCTTAGGGGCGG
AATCGAATGATTACGAGATAAACAATGAGACAAAGGAGAGCACTTAGACGAGTCAGCCAAAAAGA
AAGACCACCAAAAGTAACGACCACCAAGATAGGCATAGTAATTCGATCTTTTGATCACCCATTTT
TGGAAAACCATTTTTGGGGGCTTCCGCCTTACACACGGAAGATTGGATTGCCTGAATCACGAGTC
TTATATACTGTGTTACGATCACCTCATATTGATAAAAAGTCCAGAGAACAATTTTTTATGAAAAT
CAAGAAAGAATTTCTGGTCATAAAAACAGAAAGGCATGAATTGCGCAAGAAGTTCTTTCGGTTAA
AACGCCGTGCGACTCGGAGGACATAAGACTTCTTGGTCAAGCCAAAAAGATTGCCGACTGGATGC
TCCTACCCCACCATGCCTGGCCCTTTATCTTACCTTAAGAAGAAA
Found at i:87448 original size:50 final size:51
Alignment explanation
Indices: 87352--87449 Score: 119
Period size: 52 Copynumber: 1.9 Consensus size: 51
87342 ATATAAATAC
* * *
87352 TCTCTCTAAAGGATGGATTAAATATAATGTTCATTTTTTAAGGATTCTCACT
1 TCTCTCTAAAGGATGGATGAAACATAATGTTCA-TTTTTAAAGATTCTCACT
* *
87404 TCTCTCTAAAGGGTGGATGATACACT-ATGTTCA-TTTTAAAGATTCT
1 TCTCTCTAAAGGATGGATGAAACA-TAATGTTCATTTTTAAAGATTCT
87450 AGAGAATTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
50 12 0.30
52 27 0.68
53 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (51 bp):
TCTCTCTAAAGGATGGATGAAACATAATGTTCATTTTTAAAGATTCTCACT
Left flanking sequence: Indices 86852 -- 87351
GAGAGTGAATTAGATAGAGTTACCTACAGAAAGTCAGACAAAGGATGAGAAGGAATGGGTAAAAA
AGCTTCCTGGCTAAGAAAGATAAAAGCAGAAGAACAAGTGATAAGGGCATTAGGGATATATAGTT
AACATATCATGCTTGGAAGCTGCTACCACTAAGACTGATTATGAACCTTAGATCAAGTATATGAT
AATATTTATTGTTAGGTATTAATTTTATATGATAAGTATCATATGATATGAGTTATTAGGTATTT
TATAGTATAGGATAATATATGTTGTTAGGTATTTATTCTATATGGTAAGTATCATATATTATGAA
AAATAATACCTATTATCATCAAGATATATATATTTATTATTAACGATATCAGGAACCCTCTAAAT
CCTCTACAGCATCATACCAAGATACGCTAGATCTCCAGCACTCTAACATGATTCCTAAACCACCT
ACCCCTCCAACCGTAACAAATATACACTACTACATATATAAATAC
Right flanking sequence: Indices 87450 -- 87949
AGAGAATTTCTTTATCAAACTCATTTTCTAAGAGATATAGAGATATTGTAGTATACTACTAGGGA
TAACTTGTGCTCTTATTCTTCTGTCAAAAGTAGGGAAGAGCAAGTGTCTGATCAGATCAATCAAG
CGATAGGGGCAGAGACTTTACTTCGCTAGGACGGAGTTGCTGTCGATTGAGGATTGGCCGAGGGC
CCTTTTTTCTTTTATAAGGGAAGAGATTGTAGCTGGGTACAAATAGGCCGGTGAAAGACGAGTAG
GCAAGCACGCGGGTTGTACCGGTCAGCTTTGAGCTGTCGAGTGACGATTGGCCGAGGGGACTTCC
ATCATGTAGCTGGGTACAAATAAGCCAGTTAAAGACGAGTAGGCAGGGCGTTAGGCTAGTGCCAG
TGGGGTACGTAAACGAGGACAGATCACATGGTTTTGTACTGGTCAGTTTTGAGCTGTCGAGTGAC
GATTGCTCCATCTCTTAAGAAAGGACGCGGGGGGCCTGTCTTATA
Found at i:89628 original size:15 final size:15
Alignment explanation
Indices: 89608--89637 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
89598 AAGACCTTTC
89608 CTTTATGATATTAAG
1 CTTTATGATATTAAG
89623 CTTTATGATATTAAG
1 CTTTATGATATTAAG
89638 GATTTTTCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (15 bp):
CTTTATGATATTAAG
Left flanking sequence: Indices 89108 -- 89607
GGAATGATCACCTTCTAAACAAAATAGGAGTGAGAATTCCCCAACGAACGGAATAAATGAGTGAA
CAAGCACCGAAAGGTGTGCGTTAGTGAAACGAATAGCTCAGTCCTAGCGGACAGGACAAAACTTC
CCTTGGAGAAAGCCAGCCTGAGGGAACTGGATTGGTCATTCCACCATCACTCGATTATAGAGGGT
TGGAGCCCTCTCTCTGAAAGCCCTCTTGATGCGATGAGAAAATGGCTAGTATTCAAGGCTAGTCC
CAAGAAAGCAAGCTAAAGGGCTATCCCGATAAGAAGATGAAGCCTGATCGGGCCAAAAATGAAAG
CAATCGAAGGAAGGGGTAGAGCATGTTCTATTTTTCCGAATCTTTCAAGATGAAAATAGAGGGAT
TGGCTTAACTTCCTCTATGCGGTTGCATACAGCTTTGCTTGAGTAAGGAGTAGGCCATTCCAGAT
AGGCTGCTTTTGCTATTACTGAAGCTTTTAAGAAAAAGACCTTTC
Right flanking sequence: Indices 89638 -- 90137
GATTTTTCCAATCATTAGAGTGGTGTCATCCCCTTTCATTCATGTCTGATGGATAAAAGCCCTTG
GGCCTTCGTTCATTTTGTTTAAGAAGGCTGCGACATATACAGCATCTTTCCATAGACTTTTTCTT
GCCTGGATGAAAATTCAATATATGAATAGTCATTCCCTCACAAATTCTTTATTTGAATATCTTTG
CTTTGTTCGTTCTACAGATATAGATTAAACTGCCTTTCTTGGCACCATCCCTATTCTGATGGCTC
AGTACAAGACCGACGGAAGAGAAGAGGTGAAAAGGCTAGCGAGGCAGAATTCTTTTTCTCTTTCA
TAGCGCCGCACAATGGAGACATTGTAGTGCTAGACCAGATTTACCAGCGGACAGTTGAAAAACGA
TACGACCCAGGACCAATTCTGGTTCTTCTTTCTATCAAAATAAATCGAATTCGAAAGAGCGGGGT
CTTACTTATTCAGGGGGGATGAAAGACAAATAAAGGGATCAGGGG
Found at i:92932 original size:22 final size:24
Alignment explanation
Indices: 92880--92930 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 24
92870 AAAAAGACTT
92880 GAAATCCTTTTATTCCATATTGGAGTA
1 GAAATCCTTTTATTCCATATT-G-G-A
92907 GAAATCCTTTTATTCCATATTGGA
1 GAAATCCTTTTATTCCATATTGGA
92931 AAAGTTATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 1 0.04
25 1 0.04
26 1 0.04
27 21 0.88
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (24 bp):
GAAATCCTTTTATTCCATATTGGA
Left flanking sequence: Indices 92380 -- 92879
CCAAGCCAATCTCGAAACAAAAAAGAAAACTTATTGCAACTACGAACGTGAACAGATGCTTTCTC
ATTAGACTATTTTAACCGATTGTTTATGTCGACCCTACGCTACGATTCTTCTTCTCTTATGAAAT
TTCTAGTTAGATGAACACTGCTCTGCTGCATGACGGAGTGATCTTTCCCTCTTATGAAAGCCGGT
ATCTCACTTTCGAAAGAGAGTCTCGACGTGGCGGTGTACACCTAGCTCCATAGCTGGGCTAGTCA
CTGGCTAGAGGGCGACCGACCTACCGGACCGGAGGCAGCCGAGAATGTTATGTAAAAAGGACCAA
GGAGGATCCTATCCTAAAGGAGAAGGAGGAGTAGGAGGAGTCAGTTTTCTTTGAAGATCGAGGAA
CGTAGTGTCGGACAATTATGCCATCATGGGGATTTCCACTTTTTTGTCTACTTCCATCCGTAATA
CTTGGAAGAATTTTACGACTAGAAAATAAGATAAAAAAAAGACTT
Right flanking sequence: Indices 92931 -- 93430
AAAGTTATCGTGGGTCTTGTTCTGGCAAAGGTCACCTTACACTTTGGGTATCTGTTCGCGGATGA
CCTAACTCGTGCTGTGAATCAGTTTTACTCTCCTCCGTCGGGTGAAGGGTGGTTCAGTCAAGCGC
CAACCCCGACTCCTCCACCAGAGAATTCCGGTCTGGAGCTCATTCCCGGTGCGCGAATCGAAGGG
GACGGCCCAGCCCCGGGTTCGGAAGGAGAGAAACTAAAAAAGCTCCATGCCGTAGTCGAAGGGCA
TCTTCGGAGATACTGCGCTTCTGAGGATGGATTGAAAAGGTTCCCTTGTTTGAAAGATAAAAACA
AGGAAGATTTCCAATATTTTGCGCAACATTTTTCTATTACGGAATTGGACATTGATACAAAAAGC
GAAGCGGAAATCGCTTCGCTTTCTGCCTATTTGGGTCCATTTCGTAAAATAGAAACACTATTTCA
TATGTATTTTGACAAATACTTCGAGTCAGACTAGAGACTGAAGTA
Found at i:93527 original size:20 final size:20
Alignment explanation
Indices: 93502--93542 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
93492 ATTTGGCCGA
93502 GAGTGTTGTGTTATTGTTAT
1 GAGTGTTGTGTTATTGTTAT
93522 GAGTGTTGTGTTATTGTTAT
1 GAGTGTTGTGTTATTGTTAT
93542 G
1 G
93543 TAAGACCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.54
Consensus pattern (20 bp):
GAGTGTTGTGTTATTGTTAT
Left flanking sequence: Indices 93002 -- 93501
TCGTGCTGTGAATCAGTTTTACTCTCCTCCGTCGGGTGAAGGGTGGTTCAGTCAAGCGCCAACCC
CGACTCCTCCACCAGAGAATTCCGGTCTGGAGCTCATTCCCGGTGCGCGAATCGAAGGGGACGGC
CCAGCCCCGGGTTCGGAAGGAGAGAAACTAAAAAAGCTCCATGCCGTAGTCGAAGGGCATCTTCG
GAGATACTGCGCTTCTGAGGATGGATTGAAAAGGTTCCCTTGTTTGAAAGATAAAAACAAGGAAG
ATTTCCAATATTTTGCGCAACATTTTTCTATTACGGAATTGGACATTGATACAAAAAGCGAAGCG
GAAATCGCTTCGCTTTCTGCCTATTTGGGTCCATTTCGTAAAATAGAAACACTATTTCATATGTA
TTTTGACAAATACTTCGAGTCAGACTAGAGACTGAAGTAGAAGAGTAGAAGATGGCCTGAGACTG
AGAGAAGGCGGCCTCTCTCGGGCTCGGGAAAGACAATTTGGCCGA
Right flanking sequence: Indices 93543 -- 94042
TAAGACCAAGGAGGATCCTATCCTAAAGGAGAAGGAGGAGGAGTAGGAGCTAGCCTTAGGGGCGG
AATCGATTCTAAAATACAAAAATGAACGACTTACTAGAAGCTGTCGCGCCTTTTGTGACAGGTTT
ACAAGAAACTTTGAGCGGGAGACAGGGGGCGAACCCGCAGGTTCCCCTTGCCCAAGAATTTCGGG
TAGAGGAAAATGGGGACCCTGCGATGGGGCTTCAGGTAGGGCATCGGGAACCTTTTTTCATAAGA
AGAAATGAGAGTATGGAGACCTCTATGCTCAATCGAATAAGAAAGCTCGAAAGGGAAAATAGCCT
CTTTCTGCTTGAAAAAGCAAAAGGAGCCTATTGGGAAGAAGTAAAAACCACACTCCACAATTCTG
GCTCTCAGAAAGAGTATTGCAGGTTACTCTGTTTCGAGAACAGAGACCTGCAAATCAGGGAGAGA
AAACATGAATGTTTTTTTCTCTTTCAAGAGATTCTTTCTCGGAAT
Found at i:122186 original size:28 final size:28
Alignment explanation
Indices: 122141--122195 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
122131 GGTTTTTCTT
*
122141 CCTCTCCTTTCAGTCGAG-TGACTTCGTA
1 CCTCTCCTTTCAGGCGAGCT-ACTTCGTA
*
122169 CCTCTCCTTTTAGGCGAGCTACTTCGT
1 CCTCTCCTTTCAGGCGAGCTACTTCGT
122196 TCCAAACCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.13, C:0.33, G:0.18, T:0.36
Consensus pattern (28 bp):
CCTCTCCTTTCAGGCGAGCTACTTCGTA
Left flanking sequence: Indices 121641 -- 122140
CTGTGATCCATGGATCTCCGATCGGGAAACCGTATCCAAGCTCCGTGGCTAGTCTGCGCTCTTTG
GACTTTTCAAACTTAGCGAACTGAAACATCTTAGTAGCTAAAGGAAGGGAAATCAACCGAGACCC
CGTTAGTAGCGGCGAGCGAGAGCGGATTGGGGTTTGAAGAAAAACAAACACGAAGCTTCGTTCCT
CTCCTTTTAGGCGAGCTACTTCGTTCCTCAGCAAAGTGTTCACTTCTTTTTCGCCAGGTTTCATT
CGATTTGTTGTGGATTGGATGATGGAAAAACCAGCAAGCTACGGCTTCAAAGCTTACCTTATTTA
GAAAAGGAGAAAGGGCTTTTTTATAGATGTTGAGGTTGAGTAAGGGGGGCGGAGCTTGAAGAGCG
AAGCGAGCCGCGCTAGCCTAGCAACGTTTTTCAGCAGCAAGCTACGGTCTAACGACCCCCTAACC
TAGGTTGGGGCGAAAACTCCAAAATCCAAAACGTTGGTTTTTCTT
Right flanking sequence: Indices 122196 -- 122695
TCCAAACCTTTCTCTAATAATAAGGTAAGCTTGAAAGCCGCCGCCCTTTAAATTTAAAGGAGCGG
GCGCAGTGAACTGTAATTGTGAAAAGATTGGAAGATCTGGCCAAAGAAGGTGATAGCCCTGTAGA
TTCGTTCCCATGGTTCGATCCTTCCCAGTAAAACGCGGCGTGTTCGAATTCTGATCGCTTTTACG
CGAGAAAGGGGGACCACCCTCTAAGCCTAAGTATTCCTCAATGACCGATAGCGTACAAGTACCGT
GAGGGAAAGGTGAAAAGAACCCTATTTAGGGAGTGCAATAGAGAACCTGAGATCCGATGCGAACA
ATCAGTCGAAGGAGCGGAGCTTAGAGCCTTTACTTTATGTAAAGCGCACTCACTCTAACGGCGTA
CCTTTTGCATGATGGGTCAGCGAGGAAATGGGAACAGCGGCTTAAGCCATTAGGTGTAGGCGCTT
TCCAGAGGTGGAATCTTCTAGTTCTTCCTATTTGACCCGAAACCG
Found at i:126231 original size:12 final size:12
Alignment explanation
Indices: 126214--126254 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
126204 TTTCAAGTTC
126214 TGATTCGTGTAG
1 TGATTCGTGTAG
*
126226 TGATTCAGT-T-C
1 TGATTC-GTGTAG
126237 TGATTCGTGTAG
1 TGATTCGTGTAG
126249 TGATTC
1 TGATTC
126255 AGTTCTGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
10 2 0.08
11 7 0.29
12 13 0.54
13 2 0.08
ACGTcount: A:0.17, C:0.12, G:0.27, T:0.44
Consensus pattern (12 bp):
TGATTCGTGTAG
Left flanking sequence: Indices 125714 -- 126213
GTACGACAAGGCCTACAAACCCAGGGACTTTCACCCAGGGAGTACGAGGTCATGGTGCGCAATTT
CCTGGAAACAGAGTTTTGTTTTTCAACTCGTGACCAGATTTCCTCTCTCTATCAACTAATTTATT
ATGGTCGGGAGGATCCCCAATTCTTCATTGATCCACAAGACCTGGATTCCATACTGAGGGTACAC
CTTGAACCCTTTGAATTCAATCACCCGGCTCTATGCCAGGTCTTGGAAAGCTTGTGTGGGGACAG
AGAAGAATCCCCATTCTATGCGGAAGTCAAAAGGACCCAGGCAGAGCATTCCCAGGGCTTTTTAA
AACAAAAGCACCAAGCCCAATTGGAAATGCACCATCGCCGAGAGTTAGTTGAGTTATGGAAATCC
CTTGAGAGAAGGAACGCTTTTCTAAGCGAAGAAAACGCCTCTCTAAGAGAAAAACTTTTTCTTCT
CGACAGGGAAGCCCCATAACATTATTTTTTCATTGTTTCAAGTTC
Right flanking sequence: Indices 126255 -- 126754
AGTTCTGATACATAATCAATCCTATTAGTTTTGTTCATTACTAAAATGAATCGAATCCTATCAAA
TATTTCTATTTCTCCTTTGAATTACTCATATATATCCTATGAATTTCATTTCGCACCGGAAACTA
TTCTAGGAGAAGTTCGAATCCGTTCCGTTCGGGTATTGATTGGTCTTGGTTTGACATGGTTTACG
CGTTACTGGTTCCCGGAAGAGTTAATATCTCCATTAGCTAAACCCTTTCTTACCCTGCCTTTGGA
TTCGTATTTTGTTCGTACACAATCAACGGAGGCCTTCCCGACATATGTTGCAACGTCTCCAATAG
CATGCTCTTACTTCGTCTTTCCCTTAATAAGTCATCAAATTTGGTGCTTTTTGATCCCCAGTTGC
TATGGGGAACAAAGGACGAAATACAATCGATTCCTCCATTTAAGTGGTTCTCGCTTCTCCTTGTT
CCTGTTCCTAACTCCTCCCCGGGTAGTTCCCAATGTTTGGCACTT
Found at i:126236 original size:23 final size:23
Alignment explanation
Indices: 126209--126263 Score: 110
Period size: 23 Copynumber: 2.4 Consensus size: 23
126199 CATTGTTTCA
126209 AGTTCTGATTCGTGTAGTGATTC
1 AGTTCTGATTCGTGTAGTGATTC
126232 AGTTCTGATTCGTGTAGTGATTC
1 AGTTCTGATTCGTGTAGTGATTC
126255 AGTTCTGAT
1 AGTTCTGAT
126264 ACATAATCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.18, C:0.13, G:0.25, T:0.44
Consensus pattern (23 bp):
AGTTCTGATTCGTGTAGTGATTC
Left flanking sequence: Indices 125709 -- 126208
AATTCGTACGACAAGGCCTACAAACCCAGGGACTTTCACCCAGGGAGTACGAGGTCATGGTGCGC
AATTTCCTGGAAACAGAGTTTTGTTTTTCAACTCGTGACCAGATTTCCTCTCTCTATCAACTAAT
TTATTATGGTCGGGAGGATCCCCAATTCTTCATTGATCCACAAGACCTGGATTCCATACTGAGGG
TACACCTTGAACCCTTTGAATTCAATCACCCGGCTCTATGCCAGGTCTTGGAAAGCTTGTGTGGG
GACAGAGAAGAATCCCCATTCTATGCGGAAGTCAAAAGGACCCAGGCAGAGCATTCCCAGGGCTT
TTTAAAACAAAAGCACCAAGCCCAATTGGAAATGCACCATCGCCGAGAGTTAGTTGAGTTATGGA
AATCCCTTGAGAGAAGGAACGCTTTTCTAAGCGAAGAAAACGCCTCTCTAAGAGAAAAACTTTTT
CTTCTCGACAGGGAAGCCCCATAACATTATTTTTTCATTGTTTCA
Right flanking sequence: Indices 126264 -- 126763
ACATAATCAATCCTATTAGTTTTGTTCATTACTAAAATGAATCGAATCCTATCAAATATTTCTAT
TTCTCCTTTGAATTACTCATATATATCCTATGAATTTCATTTCGCACCGGAAACTATTCTAGGAG
AAGTTCGAATCCGTTCCGTTCGGGTATTGATTGGTCTTGGTTTGACATGGTTTACGCGTTACTGG
TTCCCGGAAGAGTTAATATCTCCATTAGCTAAACCCTTTCTTACCCTGCCTTTGGATTCGTATTT
TGTTCGTACACAATCAACGGAGGCCTTCCCGACATATGTTGCAACGTCTCCAATAGCATGCTCTT
ACTTCGTCTTTCCCTTAATAAGTCATCAAATTTGGTGCTTTTTGATCCCCAGTTGCTATGGGGAA
CAAAGGACGAAATACAATCGATTCCTCCATTTAAGTGGTTCTCGCTTCTCCTTGTTCCTGTTCCT
AACTCCTCCCCGGGTAGTTCCCAATGTTTGGCACTTTCCATACTT
Found at i:179508 original size:20 final size:20
Alignment explanation
Indices: 179483--179523 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
179473 CTTGGTCTTA
179483 CATAACAATAACACAACACT
1 CATAACAATAACACAACACT
179503 CATAACAATAACACAACACT
1 CATAACAATAACACAACACT
179523 C
1 C
179524 TCGGCCAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.54, C:0.32, G:0.00, T:0.15
Consensus pattern (20 bp):
CATAACAATAACACAACACT
Left flanking sequence: Indices 178983 -- 179482
ATTCCGAGAAAGAATCTCTTGAAAGAGAAAAAAACATTCATGTTTTCTCTCCCTGATTTGCAGGT
CTCTGTTCTCGAAACAGAGTAACCTGCAATACTCTTTCTGAGAGCCAGAATTGTGGAGTGTGGTT
TTTACTTCTTCCCAATAGGCTCCTTTTGCTTTTTCAAGCAGAAAGAGGCTATTTTCCCTTTCGAG
CTTTCTTATTCGATTGAGCATAGAGGTCTCCATACTCTCATTTCTTCTTATGAAAAAAGGTTCCC
GATGCCCTACCTGAAGCCCCATCGCAGGGTCCCCATTTTCCTCTACCCGAAATTCTTGGGCAAGG
GGAACCTGCGGGTTCGCCCCCTGTCTCCCGCTCAAAGTTTCTTGTAAACCTGTCACAAAAGGCGC
GACAGCTTCTAGTAAGTCGTTCATTTTTGTATTTTAGAATCGATTCCGCCCCTAAGGCTAGCTCC
TACTCCTCCTCCTTCTCCTTTAGGATAGGATCCTCCTTGGTCTTA
Right flanking sequence: Indices 179524 -- 180023
TCGGCCAAATTGTCTTTCCCGAGCCCGAGAGAGGCCGCCTTCTCTCAGTCTCAGGCCATCTTCTA
CTCTTCTACTTCAGTCTCTAGTCTGACTCGAAGTATTTGTCAAAATACATATGAAATAGTGTTTC
TATTTTACGAAATGGACCCAAATAGGCAGAAAGCGAAGCGATTTCCGCTTCGCTTTTTGTATCAA
TGTCCAATTCCGTAATAGAAAAATGTTGCGCAAAATATTGGAAATCTTCCTTGTTTTTATCTTTC
AAACAAGGGAACCTTTTCAATCCATCCTCAGAAGCGCAGTATCTCCGAAGATGCCCTTCGACTAC
GGCATGGAGCTTTTTTAGTTTCTCTCCTTCCGAACCCGGGGCTGGGCCGTCCCCTTCGATTCGCG
CACCGGGAATGAGCTCCAGACCGGAATTCTCTGGTGGAGGAGTCGGGGTTGGCGCTTGACTGAAC
CACCCTTCACCCGACGGAGGAGAGTAAAACTGATTCACAGCACGA
Found at i:180118 original size:22 final size:23
Alignment explanation
Indices: 180092--180144 Score: 70
Period size: 27 Copynumber: 2.1 Consensus size: 23
180082 CCACGATAAC
180092 TTTTCCAATATGGAATAAAAGGA
1 TTTTCCAATATGGAATAAAAGGA
180115 TTTCTACTCCAATATGGAATAAAAGGA
1 -TT-T--TCCAATATGGAATAAAAGGA
180142 TTT
1 TTT
180145 CAAGTCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 2 0.08
25 2 0.08
26 2 0.08
27 20 0.77
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (23 bp):
TTTTCCAATATGGAATAAAAGGA
Left flanking sequence: Indices 179592 -- 180091
TTCTACTTCAGTCTCTAGTCTGACTCGAAGTATTTGTCAAAATACATATGAAATAGTGTTTCTAT
TTTACGAAATGGACCCAAATAGGCAGAAAGCGAAGCGATTTCCGCTTCGCTTTTTGTATCAATGT
CCAATTCCGTAATAGAAAAATGTTGCGCAAAATATTGGAAATCTTCCTTGTTTTTATCTTTCAAA
CAAGGGAACCTTTTCAATCCATCCTCAGAAGCGCAGTATCTCCGAAGATGCCCTTCGACTACGGC
ATGGAGCTTTTTTAGTTTCTCTCCTTCCGAACCCGGGGCTGGGCCGTCCCCTTCGATTCGCGCAC
CGGGAATGAGCTCCAGACCGGAATTCTCTGGTGGAGGAGTCGGGGTTGGCGCTTGACTGAACCAC
CCTTCACCCGACGGAGGAGAGTAAAACTGATTCACAGCACGAGTTAGGTCATCCGCGAACAGATA
CCCAAAGTGTAAGGTGACCTTTGCCAGAACAAGACCCACGATAAC
Right flanking sequence: Indices 180145 -- 180644
CAAGTCTTTTTTTTATCTTATTTTCTAGTCGTAAAATTCTTCCAAGTATTACGGATGGAAGTAGA
CAAAAAAGTGGAAATCCCCATGATGGCATAATTGTCCGACACTACGTTCCTCGATCTTCAAAGAA
AACTGACTCCTCCTACTCCTCCTTCTCCTTTAGGATAGGATCCTCCTTGGTCCTTTTTACATAAC
ATTCTCGGCTGCCTCCGGTCCGGTAGGTCGGTCGCCCTCTAGCCAGTGACTAGCCCAGCTATGGA
GCTAGGTGTACACCGCCACGTCGAGACTCTCTTTCGAAAGTGAGATACCGGCTTTCATAAGAGGG
AAAGATCACTCCGTCATGCAGCAGAGCAGTGTTCATCTAACTAGAAATTTCATAAGAGAAGAAGA
ATCGTAGCGTAGGGTCGACATAAACAATCGGTTAAAATAGTCTAATGAGAAAGCATCTGTTCACG
TTCGTAGTTGCAATAAGTTTTCTTTTTTGTTTCGAGATTGGCTTG
Found at i:183408 original size:15 final size:15
Alignment explanation
Indices: 183388--183417 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
183378 TGGAAAAATC
183388 CTTAATATCATAAAG
1 CTTAATATCATAAAG
183403 CTTAATATCATAAAG
1 CTTAATATCATAAAG
183418 GAAAGGTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (15 bp):
CTTAATATCATAAAG
Left flanking sequence: Indices 182888 -- 183387
CCCCTGATCCCTTTATTTGTCTTTCATCCCCCCTGAATAAGTAAGACCCCGCTCTTTCGAATTCG
ATTTATTTTGATAGAAAGAAGAACCAGAATTGGTCCTGGGTCGTATCGTTTTTCAACTGTCCGCT
GGTAAATCTGGTCTAGCACTACAATGTCTCCATTGTGCGGCGCTATGAAAGAGAAAAAGAATTCT
GCCTCGCTAGCCTTTTCACCTCTTCTCTTCCGTCGGTCTTGTACTGAGCCATCAGAATAGGGATG
GTGCCAAGAAAGGCAGTTTAATCTATATCTGTAGAACGAACAAAGCAAAGATATTCAAATAAAGA
ATTTGTGAGGGAATGACTATTCATATATTGAATTTTCATCCAGGCAAGAAAAAGTCTATGGAAAG
ATGCTGTATATGTCGCAGCCTTCTTAAACAAAATGAACGAAGGCCCAAGGGCTTTTATCCATCAG
ACATGAATGAAAGGGGATGACACCACTCTAATGATTGGAAAAATC
Right flanking sequence: Indices 183418 -- 183917
GAAAGGTCTTTTTCTTAAAAGCTTCAGTAATAGCAAAAGCAGCCTATCTGGAATGGCCTACTCCT
TACTCAAGCAAAGCTGTATGCAACCGCATAGAGGAAGTTAAGCCAATCCCTCTATTTTCATCTTG
AAAGATTCGGAAAAATAGAACATGCTCTACCCCTTCCTTCGATTGCTTTCATTTTTGGCCCGATC
AGGCTTCATCTTCTTATCGGGATAGCCCTTTAGCTTGCTTTCTTGGGACTAGCCTTGAATACTAG
CCATTTTCTCATCGCATCAAGAGGGCTTTCAGAGAGAGGGCTCCAACCCTCTATAATCGAGTGAT
GGTGGAATGACCAATCCAGTTCCCTCAGGCTGGCTTTCTCCAAGGGAAGTTTTGTCCTGTCCGCT
AGGACTGAGCTATTCGTTTCACTAACGCACACCTTTCGGTGCTTGTTCACTCATTTATTCCGTTC
GTTGGGGAATTCTCACTCCTATTTTGTTTAGAAGGTGATCATTCC
Found at i:238337 original size:33 final size:33
Alignment explanation
Indices: 238294--238379 Score: 156
Period size: 33 Copynumber: 2.6 Consensus size: 33
238284 ATCGAATTAT
238294 GTATGATGAGCTTGAGTCGAGTCAC-AAAAAGG
1 GTATGATGAGCTTGAGTCGAGTCACAAAAAAGG
238326 GCTATGATGAGCTTGAGTCGAGTCACAAAAAAGG
1 G-TATGATGAGCTTGAGTCGAGTCACAAAAAAGG
238360 GTATGATGAGCTTGAGTCGA
1 GTATGATGAGCTTGAGTCGA
238380 TTATTTCCAA
Statistics
Matches: 52, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
32 1 0.02
33 43 0.83
34 8 0.15
ACGTcount: A:0.33, C:0.13, G:0.31, T:0.23
Consensus pattern (33 bp):
GTATGATGAGCTTGAGTCGAGTCACAAAAAAGG
Left flanking sequence: Indices 237794 -- 238293
CTTCGACCTGACTTTCTGAAATGGGATTCCGAGAAGGTGGAGTTCAGTAACCCAGTTCAGTGACC
GAGGAGAGGTTGAGAAGAAGACAATGAATGGAATGGTCCGAAAGTCGCTATAGAAGATCGAATGA
GTCTTAGTGAAGCTAGTCCATTAATTAGATAGATCACCTGTGCGTACGTTATCTATAATAAGAAA
AAACCTGGCTCCAGGTAGCGAAAGGGAGTAGCAAAGGGGAAATTCGTTAGGAGAGAAGACCAGGA
TTCCCTTGGTCCTTCTAAGGACCAGCAGCATACCTGGATTTACCGTCCATCCAGAGAATACCAGT
CGTCCAGCTTAGAAACCATTGAACTAGCTGCCGGAGAAGGGGAACTTCAACTAAGAAAGAAGAAG
AATAAGAAGAATTGCTTAAGTATGGCCATTTTGTGTTCGAATTCTAAACCGGCGAGGCGCTGCTG
GATGCTTCTGATCAATAGAACACGAAGAAGAGGAAATCGAATTAT
Right flanking sequence: Indices 238380 -- 238879
TTATTTCCAAGATCGAATTCCAGCTTTTTCTTATGTAGTGTATTATTATTTTTCCTTTTTTCTAC
CCTTTCTATTCGAGGAGTCAAAACAAAGAGTATAAAATATCTTTTGGTATTCGTTCTTCTCCCTC
TCCTATTTCTGAATTATTATTCGGGCGGGGCTCTTGAAGGCTTCCTTGCCGCGTGCGACGCGGGA
AGGGGTTCCCCGTCTGGCCCTTTTTACCCTCCTGGGAGAGAAGCACAGCCGCACATTCCCGAGCC
CGAGGTTGCGCCCATTCCGCGCGCCGTTCTGGTTCCGGAATTCGAACGCCCTCTCCTTCCTGATA
TCCAAAGGAGAGCGGAGCTTCAACACCGGCTGTCCTTCTATTTTATCGGGAGGAACGAGCCCAGG
CACCTCCCACTCTTTTTGGGTATCCTGGAGAAGCAGTTCCTCTTGGAAAAGAGGGTCGAGGCCGC
ATTGGTGGGGGATGGGTTTCCCCCCCAGATAGTTCTGGCTCGGAG
Found at i:248036 original size:20 final size:20
Alignment explanation
Indices: 248011--248051 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
248001 GGGCGGCCGA
248011 GAGTGTTGTGTTATTGTTAT
1 GAGTGTTGTGTTATTGTTAT
248031 GAGTGTTGTGTTATTGTTAT
1 GAGTGTTGTGTTATTGTTAT
248051 G
1 G
248052 TAAGACCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.54
Consensus pattern (20 bp):
GAGTGTTGTGTTATTGTTAT
Left flanking sequence: Indices 247511 -- 248010
GTTCTCGCTCAGTCTTTCAACGGCTGGGAAGGCAGTCGTAGAAACGAAGCCTATCGCCACGCCGA
CCATCAAATACGAGACTGGGCCCCTTCTCAAAGATTTGATGGAATGGCCCACCCCACCCAAGAGC
GCTTATGTCATAGGGGAACTCATGGCTGGAAACAATCCTTATGGTTTGTTTTGATATCCGGTAGG
AATAAAAAAAAAAGTCCAGGTTGGTTGGTGAGCCTAGTGATAGGAGACTATCTAGCTTGGTTCGG
AGAGCACTTGTTGGGTGAAATATTTTTTGGTTGCTAAATGTTACGGCCTAAATGCTGAACTATTG
ACCCTACTTGTTCGGATGGGTGTTCACCCCAAAGTGTTCCCGGACCGCATGCATACATCCGTAAG
TAACTTAGTGCAACATGGAAAATTTCATTGAGAGGAATCAGCAAAGAAAAGAAAAACGGGTCAAC
AACACCAACATGTGTATTTGAGAGATTGTCCTCTTGGGCGGCCGA
Right flanking sequence: Indices 248052 -- 248551
TAAGACCAAGGAGGATCCTATCCTAAAGGAGAAGGAGGAGGAGTAGGAGCTAGCCTTAGGGGCGG
AATCGAATGATTACGAGATAAACAATGAGACAAAGGAGAGCACTTAGACAATTCACTTTGAGTAC
AGGGAAGTCTGCTGGTAGGAATTCCTCAGGGCGTATTACGGTTTTTCACCGAGGGGGTGGATCGA
AGCGATTGCAGCGAAGAATTGATCTGAAACGAAGCACTTCGTCTATAGGCATTGTAGAAAGGATA
GAATATGCGCCTAATCGTTCTTCTCGAATCGCTCCAGTACGATGGACCGGGGGGGGGGTCCGCCA
GAGAAAATGCAACACGATAGAAGAGTTCGCTCCGCCGCGTAAGATCCTCGAATCAAAATCAACCA
CGACTACCCTCTGCGGTCCATTTTCGTTCTCTTCCCTGCCCGGGAAGGGGGATCAAAGAAAGGTA
GCTTGCTTCTCTCCTGGACGGATGGCGACTTATGTAGTGGTCGGC
Found at i:266875 original size:25 final size:25
Alignment explanation
Indices: 266798--266875 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
266788 ATCTTTCAAT
266798 AGTTCTAGACTTCTCACTATCAGTC
1 AGTTCTAGACTTCTCACTATCAGTC
* * * *
266823 ---TCTAAAGCTCTATCATCTTTCAAT-
1 AGTTCTAGA-CT-TCTCA-CTATCAGTC
266847 AGTTCTAGACTTCTCACTATCAGTC
1 AGTTCTAGACTTCTCACTATCAGTC
266872 AGTT
1 AGTT
266876 TTCCCACGTC
Statistics
Matches: 38, Mismatches: 8, Indels: 14
0.63 0.13 0.23
Matches are distributed among these distances:
22 5 0.13
23 2 0.05
24 10 0.26
25 14 0.37
26 2 0.05
27 5 0.13
ACGTcount: A:0.26, C:0.26, G:0.10, T:0.38
Consensus pattern (25 bp):
AGTTCTAGACTTCTCACTATCAGTC
Left flanking sequence: Indices 266298 -- 266797
TTCAATAGCACCCTTTCTTCCTATTCCGGAAAAACTAGCTGCTGACTCAACCTCCCCTCGGGTCT
ACGCACTCTTTGTCTTTGTTTTTAGCATCGGCGATTGAAAGAGAGTAGGAGCCCATTCTATTCTA
TCTATCTCAGAAAGAAAGTCTCAACCCTTTGGTACGAAAGTAGGCCCTAGCTTCTCAATAAGTCA
TTCAATGAACTAACTATACTTAAGATGTGAGCTATACCTATTCCTTCTTTTCTTATCTCTTCCCT
TTCGGGCCGGATCGGATAAAGAAAGGAGCTAAAGAATGAAATATTCATCAAAGTAGTCCTTACAT
CCCTCCGCAAGCATAAGAAGAGTCCGATAATGGCTGGTCTTTAAAGGCCATTAAGAAATTACATA
AGTCAAGTTCTTGTGCTATGTCAAAAGTGAAGTTCTCCCCGCCCTGGAATCACTTCACTCCCAAC
CAACAAGCTTCAAACTAGAGGTCGCCAAGCCCATCATCTTTCAAT
Right flanking sequence: Indices 266876 -- 267375
TTCCCACGTCCGGTAGACTTTCTTTCAAAAACCTTGACTAATAGAATAGTGAAATTAGAATAGGC
TGAGAAAAGGGCTAAGAGAGAAGCTTAGGATATTACTTAAGTAAAGGGGCGTAGCAGTTCTTCCG
TGATCAATCTCGTTCCTTTCGCTTTGCTTAAGCGACTACGTACCTTAAATTGTTCTTACTCGTTT
CGTTTAGGTCAACTCGTCACGTCAATCCGTATCTAATAGCCGCGCCAAAGCTTCACTCCAGGTCG
AACTCACTTCCATTTACAATTCCCCAATTCCACTTTTATGGGAGTTTACGCCCTTTCTCGACCCT
ATCGAGCTCTTCCCGAACCTCCGCCTCTCCTCAACGAAGTCATTAAAGTGGGGCAACTCGTATTC
GCTAACTAACTTAGGGAACTTAGGCACGTCACCCCACTGTGAATCTATCTTTCTTTATCGCGCTT
TTGATCCTCTCGATGGGAGAATGAATTAGTGGAAAGATCTGTTGT
Found at i:272554 original size:18 final size:18
Alignment explanation
Indices: 272531--272566 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
272521 TACAGAGCCA
272531 ATTCCAATAGACTTATTG
1 ATTCCAATAGACTTATTG
272549 ATTCCAATAGACTTATTG
1 ATTCCAATAGACTTATTG
272567 GAGGGTCCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (18 bp):
ATTCCAATAGACTTATTG
Left flanking sequence: Indices 272031 -- 272530
TGGATTTCACTTGACTGTCTACGGTTCCATTGCGTGTGCTCGGGGTAGAAGTTTTGTATAAATGT
ATCGCCATGCTATTAAGTATTTTGATTTAAGTTCTTTTCTTTATAAGAGTTGGAATAGAATAACC
CGGTTGAAGCGTAATGATCATACGTCTGTAATGCATTGTATGTCCCATAATAGGCCCCATTCTTC
TACTCTTTCCCGGAAGTCGATGACTATTGATAGCTATTACCTTGACACCAAAGAAGAGTTCGACC
CAATGCTTTATTTCTGTCCTAGTTGATCCTGATTCGACATTATAAGTCTATTTATTTTTCCCCAA
TAACCGAATACTTTTGTCTGTAAATACTGCATATTTGATTCCATCTATAAATCTATTTTCTTCCC
TATGAGTGAAAGTCTCAATAAGAATGCTAGTTCTTACTGTTCATTATGATATGAATATACCCCAT
CAATTCGTTATGTATGGATGATGAGATTCCATTGATACAGAGCCA
Right flanking sequence: Indices 272567 -- 273066
GAGGGTCCCATTGGTGTGCATCCAGTAGGAATTGAACCTACAAATTCGCCAATTATGAGTTGGGC
GCTTTAACCATTCAGCCATGGATGCGAAGCGAGTGAAATAGGTTTTGGTATTCTTTTTATGAGTT
GGGCGTTTTAACCATTCAGCCATGGATGCGAAGCGAGTGAAATAGGTTTTGGTATTCTTTCTCGA
GCTTCTATTTCTTCCGTTAAAGGAGATTCGAGAAAAGATGGAATAGGAAGACGTGTTTCCAGAAC
GAACAGGATACGGGTTGAGAAGGGGGAGTTAGCAAAGTTGGACAAGATTGGAATGGGCATAGGAA
TATGTATTGATGTACCGGATCGGCTAATGCTCCCAGGTTGATGCAATGTGTTCCACCAATTGACT
GAAGACTTGATTATTGGTATATCGATCGGTCCAGCACGGATTGAAATAGGAGCCGGTTCGACAGA
AAGCTTTTGAAAACGCAGTGCACCCAGGTAAATAAGGAACAAGAT
Found at i:272730 original size:69 final size:69
Alignment explanation
Indices: 272619--272756 Score: 267
Period size: 69 Copynumber: 2.0 Consensus size: 69
272609 AATTCGCCAA
272619 TTATGAGTTGGGCGCTTTAACCATTCAGCCATGGATGCGAAGCGAGTGAAATAGGTTTTGGTATT
1 TTATGAGTTGGGCGCTTTAACCATTCAGCCATGGATGCGAAGCGAGTGAAATAGGTTTTGGTATT
272684 CTTT
66 CTTT
*
272688 TTATGAGTTGGGCGTTTTAACCATTCAGCCATGGATGCGAAGCGAGTGAAATAGGTTTTGGTATT
1 TTATGAGTTGGGCGCTTTAACCATTCAGCCATGGATGCGAAGCGAGTGAAATAGGTTTTGGTATT
272753 CTTT
66 CTTT
272757 CTCGAGCTTC
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.36
Consensus pattern (69 bp):
TTATGAGTTGGGCGCTTTAACCATTCAGCCATGGATGCGAAGCGAGTGAAATAGGTTTTGGTATT
CTTT
Left flanking sequence: Indices 272119 -- 272618
GATTTAAGTTCTTTTCTTTATAAGAGTTGGAATAGAATAACCCGGTTGAAGCGTAATGATCATAC
GTCTGTAATGCATTGTATGTCCCATAATAGGCCCCATTCTTCTACTCTTTCCCGGAAGTCGATGA
CTATTGATAGCTATTACCTTGACACCAAAGAAGAGTTCGACCCAATGCTTTATTTCTGTCCTAGT
TGATCCTGATTCGACATTATAAGTCTATTTATTTTTCCCCAATAACCGAATACTTTTGTCTGTAA
ATACTGCATATTTGATTCCATCTATAAATCTATTTTCTTCCCTATGAGTGAAAGTCTCAATAAGA
ATGCTAGTTCTTACTGTTCATTATGATATGAATATACCCCATCAATTCGTTATGTATGGATGATG
AGATTCCATTGATACAGAGCCAATTCCAATAGACTTATTGATTCCAATAGACTTATTGGAGGGTC
CCATTGGTGTGCATCCAGTAGGAATTGAACCTACAAATTCGCCAA
Right flanking sequence: Indices 272757 -- 273256
CTCGAGCTTCTATTTCTTCCGTTAAAGGAGATTCGAGAAAAGATGGAATAGGAAGACGTGTTTCC
AGAACGAACAGGATACGGGTTGAGAAGGGGGAGTTAGCAAAGTTGGACAAGATTGGAATGGGCAT
AGGAATATGTATTGATGTACCGGATCGGCTAATGCTCCCAGGTTGATGCAATGTGTTCCACCAAT
TGACTGAAGACTTGATTATTGGTATATCGATCGGTCCAGCACGGATTGAAATAGGAGCCGGTTCG
ACAGAAAGCTTTTGAAAACGCAGTGCACCCAGGTAAATAAGGAACAAGATGAATACAGAGGTTAA
ACGAGCATCCCACACCCAAAAGGTGCCCCACATGGGTTTCCCCCGAAACCCCCCAGTAACTAAGG
TAAACAACGTAGAAAAAGCACCTATTTCTGTACCGGTTCCGGAAGAGCGAAGAAAAAGGGGATGT
TTTGTTAATAGGAAGAAAAAAGTGTTTATAGCCGTAACGATATAA
Found at i:274117 original size:6 final size:6
Alignment explanation
Indices: 274106--274132 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
274096 CGTTCACACT
274106 CGATTC CGATTC CGATTC CGATTC CGA
1 CGATTC CGATTC CGATTC CGATTC CGA
274133 GCGAGAAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.33, G:0.19, T:0.30
Consensus pattern (6 bp):
CGATTC
Left flanking sequence: Indices 273606 -- 274105
ATACCGAAAAAAAGAAAAGCTGACTTATGGCGACTACCTTAGTTTTACTTTATATAGCTTTTCCC
TTAATTCCCAAATCGAAGGCGTAGCTTGCAGTCTACAAAAGCAGTTATAATGCGTTTGTAGGGTG
GGCTCTGGTCTGGCCCAACCCTTTCAATTATATCTATATAGCTCTTGTATGTCGTGGCAGCGAGG
GGTCGCCCATACGGATAGAAAGCGATCCCTCGTATTTTTCCCATTTCGTTGAGAATCGATTCTGG
GCTAAAGCCATTGGCCAGTAAAGCGCTCTCCATTTGTTTTTCTAACAAGAATTGTTGTTCCAACG
TAGCGTTTATTTGCCCTTCTGTCCAGTTTTTTCCGATCAAGTGCAAGTGGAACGACAGCCGGCTA
TCTAGCTCCTGACGCCTTAGGGCATCCTGTAACAATGGGAATGGTTGGATCTCCGCCCCAACACC
AACCGCTGCTGCTGCGGGGGCATTTTGTTGGGCTTCGTTCACACT
Right flanking sequence: Indices 274133 -- 274632
GCGAGAAGTTCCCCAATCTGCAAGCGCGGCAGCCCACGAAGACGATTGCGTTCGAGAAGTTCCCC
AATCTGCAAGCGCGGAAGCCCACGAAGACGATTGCGTTCGGTCATCAGAGGGAGAGGGGACCAGT
ACTGGCTCTTTGTCGGGGCTTTGTGGGATTAATTGATTGGATACCCGAGAGCCATAATCTTTCCT
AGGAACAGCTTCTACGACGATAGGCATAAAGGCATGATTAGTTCCACAAATCTCACTGCACTGAC
CATAGTAAACTCCTTCTCGTTGTACCGAAATAGAGGTCTGATTTAAACGACCCGGTACAGCATCA
CATTTGACACCTAAGGAAGGTACAGCCCAACTATGAGGTACATCAGCAGATGTTACAATAAAACG
TATAGGGCTCTTTGCTGGTAGAACCACTCTATTGTCGACTTCTAATAAACGTGATTGACCCAATT
CTAGATCATCTTCTGGAATCGTATAACTGTCAAAAGTGAGTGACT
Found at i:274200 original size:51 final size:51
Alignment explanation
Indices: 274134--274237 Score: 199
Period size: 51 Copynumber: 2.0 Consensus size: 51
274124 CGATTCCGAG
*
274134 CGAGAAGTTCCCCAATCTGCAAGCGCGGCAGCCCACGAAGACGATTGCGTT
1 CGAGAAGTTCCCCAATCTGCAAGCGCGGAAGCCCACGAAGACGATTGCGTT
274185 CGAGAAGTTCCCCAATCTGCAAGCGCGGAAGCCCACGAAGACGATTGCGTT
1 CGAGAAGTTCCCCAATCTGCAAGCGCGGAAGCCCACGAAGACGATTGCGTT
274236 CG
1 CG
274238 GTCATCAGAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.26, C:0.31, G:0.28, T:0.15
Consensus pattern (51 bp):
CGAGAAGTTCCCCAATCTGCAAGCGCGGAAGCCCACGAAGACGATTGCGTT
Left flanking sequence: Indices 273634 -- 274133
GGCGACTACCTTAGTTTTACTTTATATAGCTTTTCCCTTAATTCCCAAATCGAAGGCGTAGCTTG
CAGTCTACAAAAGCAGTTATAATGCGTTTGTAGGGTGGGCTCTGGTCTGGCCCAACCCTTTCAAT
TATATCTATATAGCTCTTGTATGTCGTGGCAGCGAGGGGTCGCCCATACGGATAGAAAGCGATCC
CTCGTATTTTTCCCATTTCGTTGAGAATCGATTCTGGGCTAAAGCCATTGGCCAGTAAAGCGCTC
TCCATTTGTTTTTCTAACAAGAATTGTTGTTCCAACGTAGCGTTTATTTGCCCTTCTGTCCAGTT
TTTTCCGATCAAGTGCAAGTGGAACGACAGCCGGCTATCTAGCTCCTGACGCCTTAGGGCATCCT
GTAACAATGGGAATGGTTGGATCTCCGCCCCAACACCAACCGCTGCTGCTGCGGGGGCATTTTGT
TGGGCTTCGTTCACACTCGATTCCGATTCCGATTCCGATTCCGAG
Right flanking sequence: Indices 274238 -- 274737
GTCATCAGAGGGAGAGGGGACCAGTACTGGCTCTTTGTCGGGGCTTTGTGGGATTAATTGATTGG
ATACCCGAGAGCCATAATCTTTCCTAGGAACAGCTTCTACGACGATAGGCATAAAGGCATGATTA
GTTCCACAAATCTCACTGCACTGACCATAGTAAACTCCTTCTCGTTGTACCGAAATAGAGGTCTG
ATTTAAACGACCCGGTACAGCATCACATTTGACACCTAAGGAAGGTACAGCCCAACTATGAGGTA
CATCAGCAGATGTTACAATAAAACGTATAGGGCTCTTTGCTGGTAGAACCACTCTATTGTCGACT
TCTAATAAACGTGATTGACCCAATTCTAGATCATCTTCTGGAATCGTATAACTGTCAAAAGTGAG
TGACTGTTCATCGGAACTGTTATAGTCCGAATACTCATAAGGTAGGGTCGACGCCCGCCTCCCCC
CAAACTGTACTTGCAAGTTTCCCCGCAAAAAGCTCTCCACGCCTA
Found at i:276950 original size:24 final size:24
Alignment explanation
Indices: 276918--276964 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
276908 CCATTTCTTC
* *
276918 GGAATTGTCCGCTCATAGCACGAT
1 GGAAGTGTCCGATCATAGCACGAT
*
276942 GGAAGTGTCCGATTATAGCACGA
1 GGAAGTGTCCGATCATAGCACGA
276965 CGCGCTGCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (24 bp):
GGAAGTGTCCGATCATAGCACGAT
Left flanking sequence: Indices 276418 -- 276917
CCATTCTAGAACAATCATTTGGTTTGGTTCATTCTTTGACTGCTCTGCTCCCCCCAAAAAAAAGA
GAGACTGAATTTCTTCCACCTTCCCTGTAGGAGTAGTGAAGAAGTATAGATTTAGTTGGTTGTTG
ACCAACGGAAAGCATGGGATCAAAAAAGGCAGAATTTACGCAATTTCTTTTCTAAGAAAGAGATC
ATAGTGATTGATGGCTCTTTCAATCCGGCGAAATGGAATTGGCGTGTACCAATTTGGGTCAGATT
AATAAGCTTACGACCACTGAACAAACTTGGTTGACGAACATAGTTTATGCGCCGCTAATGTAGCG
GCTTGTCGAGCATTTGACAAACTCACACCATCCATTTCAAATAGGATTTGTCCCCTGGACACACG
AGCAATCCAACCCGTAGGATTTCCTTTTCCTCTTCCCATTCTTACTTCTGTAGGTTTCCCGGTAA
TAGGGATATCTGCGAGAACTCTTACCCATATCTTACCATTTCTTC
Right flanking sequence: Indices 276965 -- 277464
CGCGCTGCTTCAATGGCTCGATATGAAAGACGACCAGCTCTACAACTTTTAGTGCCATATCTTCC
AAAACCAAGTTGTGTACCGTCCGGTTTGCAACCCCTACTACATCTGCCTTTACGATATTTACTAT
ATTTCGTACGTTTCGGATATAGCACGTCCCCCCTTTTTTTGACTATATGAAATCCACACTTTGAC
ACCTGAGATTCCGTAACGAGTAGATACTTCCGCAGGAGCATAATCTATTTTCTGGTTAAATACAT
TACGAGATGTTTTTCCATACTTTCCGCATTCAGTTCTAGCTATTTCTGCACCTTCTAATCGACCT
GAACAACATATACGGATCCCCTCCACCCCCTTTTTCATTACTAATGGAATATCCTTCACTATTTG
ACTAAAAATGGAACGAAATGATCTTGTTTTGTTCCTCGGTTGAAAAGAGATGTCTTGAGCAATCG
GAGAAGCACTTTGATAAACAGATTTGATCTTGACCGATTCAATTA
Found at i:287978 original size:18 final size:18
Alignment explanation
Indices: 287955--287992 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
287945 CGACTTTTGA
287955 AAATAGAGCAGACTACCT
1 AAATAGAGCAGACTACCT
287973 AAATAGAGCAGACTACCT
1 AAATAGAGCAGACTACCT
287991 AA
1 AA
287993 GGGGTGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.21, G:0.16, T:0.16
Consensus pattern (18 bp):
AAATAGAGCAGACTACCT
Left flanking sequence: Indices 287455 -- 287954
ACTGACACATCTGTCCTTTACACCTTTCTATATGTATGTGCTTTAACCCTGATTACGTAATTTCT
TATAGAAAGAAAAAGTCTTGCTTCTTTGGATTGAAGTGTGTGCTACATCTAACTAATCTTTATCT
TTTTCCCATGCTTTCCGTTGGTCAACAACCAACTAAATCTATACCTCTTCACTACTCGTACAGGC
TTGACTTAAGCTGTATTGAGGGAATCATCGAAAAAAAAATATAATATGGCGCGACTCATTTTCCG
CTTTGATGAAGCTAGTCTGAACTCAAGTTCCAGTTCCAGTAATATAGCTTCGCCTTCGTCTAGTA
GTTCATTCGGAACTAGTAGTACTGGGATTCAAAATCCTACGAATCAATCTACTACGACTATTGGC
GATTTTAGTCTTCGGTCGTCCAGTACTCAGGTTGATGGGAGTGGTTCGAGTATTTCGAATAATCA
TGGTATTTTTGAAGGTCTGGACCCTACTACTTCTACGACTTTTGA
Right flanking sequence: Indices 287993 -- 288492
GGGGTGAAATCTTTGAGTCCGTTCAAAAAGTCTTCAAAAATCATTGTTCAGATGAAAACAAATTA
CTCGCAATCACCGAGAATTTGCATAATGATGAAGACAGCACGGGTTTTCTAGGGCAGATTTTAGA
ACATTTAAAAGACAAACAGGGTGAGCACTATGACTTTGCCCTAAAACAATTTAACGAGATTGTAG
GGGGTTCAGCCTATTCCAATGCAGTGAATACGAATGCAGATCTCGTCTCCAGCCCACTTGATCAA
TTTGAGATTGTGCCATTGATTCCTATGAAAATTGGAAACTTCTATTTCTCATTCACAAATCCATC
TTTTTTTATGCTACTAACTCTCAGTTTGGTCCTACTTTTGGTTTATTTTGTTACTAAAAAGGGAG
GAGGAAACTCAGTACCAAATGCTTGGCAATCCTTGGTAGAGCTTATTTATGATTTCGTGCTGAAC
CCGGTAAACGAACAAATAGGTGGTCTTTCCGGAAATGTTAAACAA
Found at i:311523 original size:24 final size:24
Alignment explanation
Indices: 311491--311537 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
311481 CCATTTCTTC
* *
311491 GGAATTGTCCGCTCATAGCACGAT
1 GGAAGTGTCCGATCATAGCACGAT
*
311515 GGAAGTGTCCGATTATAGCACGA
1 GGAAGTGTCCGATCATAGCACGA
311538 CGCGCTGCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (24 bp):
GGAAGTGTCCGATCATAGCACGAT
Left flanking sequence: Indices 310991 -- 311490
CCATTCTAGAACAATCATTTGGTTTGGTTCATTCTTTGACTGCTCTGCTCCCCCCAAAAAAAAGA
GAGACTGAATTTCTTCCACCTTCCCTGTAGGAGTAGTGAAGAAGTATAGATTTAGTTGGTTGTTG
ACCAACGGAAAGCATGGGATCAAAAAAGGCAGAATTTACGCAATTTCTTTTCTAAGAAAGAGATC
ATAGTGATTGATGGCTCTTTCAATCCGGCGAAATGGAATTGGCGTGTACCAATTTGGGTCAGATT
AATAAGCTTACGACCACTGAACAAACTTGGTTGACGAACATAGTTTATGCGCCGCTAATGTAGCG
GCTTGTCGAGCATTTGACAAACTCACACCATCCATTTCAAATAGGATTTGTCCCCTGGACACACG
AGCAATCCAACCCGTAGGATTTCCTTTTCCTCTTCCCATTCTTACTTCTGTAGGTTTCCCGGTAA
TAGGGATATCTGCGAGAACTCTTACCCATATCTTACCATTTCTTC
Right flanking sequence: Indices 311538 -- 312037
CGCGCTGCTTCAATGGCTCGATATGAAAGACGACCAGCTCTACAACTTTTAGTGCCATATCTTCC
AAAACCAAGTTGTGTACCGTCCGGTTTGCAACCCCTACTACATCTGCCTTTACGATATTTACTAT
ATTTCGTACGTTTCGGATATAGCACGTCCCCCCTTTTTTTGACTATATGAAATCCACACTTTGAC
ACCTGAGATTCCGTAACGAGTAGATACTTCCGCAGGAGCATAATCTATTTTCTGGTTAAATACAT
TACGAGATGTTTTTCCATACTTTCCGCATTCAGTTCTAGCTATTTCTGCACCTTCTAATCGACCT
GAACAACATATACGGATCCCCTCCACCCCCTTTTTCATTACTAATGGAATATCCTTCACTATTTG
ACTAAAAATGGAACGAAATGATCTTGTTTTGTTCCTCGGTTGAAAAGAGATGTCTTGAGCAATCG
GAGAAGCACTTTGATAAACAGATTTGATCTTGACCGATTCAATTA
Found at i:333067 original size:16 final size:16
Alignment explanation
Indices: 333035--333069 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
333025 ACGTGCATCC
*
333035 GAATAGTCATCGGTTT
1 GAATAGTCATCGCTTT
*
333051 GAATAGTCATCTCTTT
1 GAATAGTCATCGCTTT
333067 GAA
1 GAA
333070 AGAGAGTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (16 bp):
GAATAGTCATCGCTTT
Left flanking sequence: Indices 332535 -- 333034
ACGTACCCCGAGAATAGAAGCTAGAGAACCTAAGTCTGAAGAAGAGTCTTGGTTCGAAGTATAGG
GAGAGAGGGAGACCACTGAATCAGTTGGCTCAGCTCCGAAAACTGAGTGACGAGAATCTGTCTTC
ACAAACCTGCGAAACTTCCCCTTAAGCTGATCACTCTGGTCACCCGGATCTTGCTGACTCTATTA
AATCGGAGAATTCTGATGCTGTCTCACATAAACTCCTCAATAGTTCCACCCCTCCCCTCTAAGGG
GAGACAGGGGAACATAATGGCCCACCATCACAGGGAATCTCAAAGCCCCGAGCTCCGTAGTAAGT
TCGAAAAAGGTGACATGTCGAGAAAGGTGGAATCGTCGTGTAGAAGGATCATTAACACTTGTAGC
CCTTTTGAGAGAGGGGTACCCCAACCTCACTCAAGAAAACACATAGAGTGAGATGTAGGGCTCAG
TTTGTCTTGTGCAGGAGATGGAATTTTCACAAAGCACGTGCATCC
Right flanking sequence: Indices 333070 -- 333569
AGAGAGTAAAACGCCCAAAGATAACGTGTAGAGGAGATCGCTCACCAATAATAGGAGCCATCGTC
TTCTTACTCAGATAAGCGGCCATCATTAAATTGGCTTTACTAGGGATCCTATAATAGGGAACTTT
CATTCCCAGTAGAAGTCCTCGAGCAACTTTACTAATACTAATAAATAAGGGGAAGGCCCAACATT
TTCTATTAGTATAAGGAAGGCGCTAGCTAGCGCCCAACCTATACAAGGGCTTTCCACCTCCATTT
GGTCGTGCTGCTATGATGTAACGTGCAGTCGTCCCAAGGCAGCAGGATGTATGGTATAGGGCCCC
CTATTTTATCTCCCTTAAAGTCCTTTATGGATTTCGAGTCGGGAATAGAGCTGTGGCTTATTCGG
CGCTATATCACAATGCATTCTCGGGCATAGCTGTTCACGAAAGGTGGCATGGGACATCTGTCAGC
GGCGGGAGTCTTACATCCGAGCGAGAGGTCAGACCAATCCCATTC
Found at i:337120 original size:27 final size:27
Alignment explanation
Indices: 337082--337179 Score: 97
Period size: 27 Copynumber: 3.6 Consensus size: 27
337072 AGACGACCCC
337082 GACCAAACTGAACAATTAGAAATAAGT
1 GACCAAACTGAACAATTAGAAATAAGT
**
337109 GACCAAACTGAACAATTAGATCTAAGT
1 GACCAAACTGAACAATTAGAAATAAGT
* * ** **
337136 GGCCCATTTTCACAATTAGAAATAAGT
1 GACCAAACTGAACAATTAGAAATAAGT
* * *
337163 GGCCCACCTGAACAATT
1 GACCAAACTGAACAATT
337180 TGAGATTGTG
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.22
Consensus pattern (27 bp):
GACCAAACTGAACAATTAGAAATAAGT
Left flanking sequence: Indices 336582 -- 337081
TGCGTAAATTCTGCCTTTTTTGATCCCATGCTTTCCGTTGGTCAACAACCAACTAAATCTATACC
TCTTCACTACTCGTACAGGTTTGACGGAGTGAAGCTGTATTGAGGGAATCTTTTTGTCTCAATCA
ATCAAGAATGCCCAATAAAAGTAAAAGACCCTTCTCTTCTATTTTTAAAGGAAGACTGTCTACTA
TTTATGAAGATTTCGCCGCCAGTCCTTCTCAATCGACCGAACCTTTTAACTACACGACTTTTATT
GAGAGTTGTGGGACCAAGGGCTTTCCAGTCCTTAAACCTCGCCCAGTTATCGAGAAGATAGAGGA
GAAATTAGGAGAGCCTATTGTTATCGAGACTGCCAAAAGAGGTTTCCCTGTACGAGGCCGTTACG
AGAGGGAGAGCGACTATATACTACGCGCATTGAAATATTATTACAGTATAGGGGGACGGGCGGAG
GATATCTTTAAAAAGCCAAAGAAAGACGCGCGTACAGACGACCCC
Right flanking sequence: Indices 337180 -- 337679
TGAGATTGTGCCATTGATGGATTTTCCTATTGGAAACTTGTATTTTTCATTCACAAATCCATCTT
TTTTTATGCTACTAACTCTCAGTTTGGTCCTACTTTTCTTTTATTTTGTTACTAAAAAAATGAAA
AAGAATATTTCTTCCATATCCATAATTAATGGATATTTCAAGTAGAAGAGCTCACCTATTGTTTC
ACATTTGAATTTCTCTTACATTCTACGTTCCCGAAATGGATCCTATCAAATATTTCACATTTTCT
ATGATTATCTCTATTTCAGGTATTCGGGGAATCCTCCTTAATAGACGAAATATTCCTATTATGTC
AATGCCAATTGAATCAATGTTATTAGCTGTGAATTCGAACTTTTTGGTATTTTCTGTTTCTTCGG
ATGATATGATGGGTCAATCATTTGCTTCACTGGTTCCAACGGTGGCAGCTGCGGAATCTGCTATT
GGGTTAGCTATTTTCGTTATTACTTTCCGAGTCCGAGGGACTATT
Found at i:356830 original size:24 final size:24
Alignment explanation
Indices: 356764--356821 Score: 116
Period size: 24 Copynumber: 2.4 Consensus size: 24
356754 CGCTAAAGTA
356764 AAGCAATTGTCGCAGCTCCAGCTG
1 AAGCAATTGTCGCAGCTCCAGCTG
356788 AAGCAATTGTCGCAGCTCCAGCTG
1 AAGCAATTGTCGCAGCTCCAGCTG
356812 AAGCAATTGT
1 AAGCAATTGT
356822 AACTGCTCCG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (24 bp):
AAGCAATTGTCGCAGCTCCAGCTG
Left flanking sequence: Indices 356264 -- 356763
TCCGGGCACATAACTCCTGGGGGAGCACTCTCCAGGGACATAACAGCATTCTGTCACCGCGAGCT
TAGGGCATTGGATTAGGATTCCCCCACCTCATAAAACATCATTTGATGCTTCTGACACATATGAT
ATGAAAGAAGATGAGTCTTTATTCGCCTTATCAGGCATAGTTTCTTTTCAAGAAAGAGGCAGAGG
ATATGAGCTTGACACCGCAGCTAGGCGTGGTTCCGCAGACTGTATACGTGGTAGGGCCCGCTTCA
GAAAGTAGGTTTCCAAGCCCGCAGATTCAAGAGTTAAGTTAGAGGCTGACTAGTTAAACAGGAAA
TTCAAATGAAAGAAGGTTCTTTCACCTTATATTGATTCTTTGTTCCTGCTTCAACTCATAGATGA
CTACCCGAGGATCACTCACTCTACTATAAGACCACTAAGAGGGATTAGATTACCAACCCCTCTTT
CTAACTATAACTTCAGAACAGCTACGCTTGTCGCCCGCTAAAGTA
Right flanking sequence: Indices 356822 -- 357321
AACTGCTCCGGTGGATCAGAGCTACTCGAAAACCGTGATAGGTGCTTGAGATCAGAACTGCTTAC
AGCAGCCTTGACCTGGTCCAATGGAAAGGGAAAGCTGAAAGAAAAGAGAGTTTCAATCCACAAAT
GATCCGATACATATAAAGATGCTACTTGAACTCGACTCCGTGAAACCTTGTTTGAGCGAGAGGAA
CGGACAACAGATAAAGAGTTGTAGCTAGGTCCTATAGAAATTGGAATAAGAGCTTGCCGGTCACG
TGGAAGGTCTTCGGGGAGCCAAAAAGCGCTCCATACGAGGCCGATCCGATCTCCATTGTGTAGCC
CTTCAAGTGCTGATAGACCGCGAGCTCCTGTTGTTTTTTATTGGCATGGACTGAACATGGTCCCT
AGCTGTGAACGTATGTGTTGACTTCGTGAAACCTTAGTAGGATGGTTCACTGGAGATGCAGTGTG
CTCGGCTTTTCCGTTTTTTCTTTGTCTTTGCCTCCAACAGTTGAC
Found at i:361942 original size:30 final size:30
Alignment explanation
Indices: 361908--361991 Score: 159
Period size: 30 Copynumber: 2.8 Consensus size: 30
361898 CATTCCTTCA
361908 AAGACCAGAATATTCTTCTTTTTGTGTTAG
1 AAGACCAGAATATTCTTCTTTTTGTGTTAG
361938 AAGACCAGAATATTCTTCTTTTTGTGTTAG
1 AAGACCAGAATATTCTTCTTTTTGTGTTAG
*
361968 AAGACCACAATATTCTTCTTTTTG
1 AAGACCAGAATATTCTTCTTTTTG
361992 GGGTTAATGT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.43
Consensus pattern (30 bp):
AAGACCAGAATATTCTTCTTTTTGTGTTAG
Left flanking sequence: Indices 361408 -- 361907
CAAACTGAGAGTTAGTAGCATAAAAAAAGATGGATTTGTGAATGAAAAATACAAGTTTCCAATAG
GAAAATCCATCAATGGCACAATCTCAAATTGTTCAGGTGGGACTGTGGACAATCAATTCCAACTC
ATCAACAAATTCCTGCCATACACACCCACTTTGAAAGTCCTCACGGGCCAGTTCATTTGTGAGAT
GGATGACATAAGGAATAGTCACAAGTTCTTCATCATTAACATGCCAGACATGCTCGGCAAGCTCT
CTTACCGACGTCCATGCTGGTGGCAACTGAAGACCAGTTGCATCCATGTTTCTAGATACTTGATC
ACAGAAATTTTCAATAACATTTGCCCGATCATCGAGGGCTATGAATTGCACATTATTTTCAAAAT
GATTGTTGTGGGGAGAAAGTTCCATAATGAAATGGTTGATAGATAGAAGGGATAATGCTGCCGCT
GACAAAGAGGAGCTCTACCAGTCTCTCCTTTTTTTCATTCCTTCA
Right flanking sequence: Indices 361992 -- 362491
GGGTTAATGTTTTCAACGGTGAATTGATTATTCAATATCCTTTTCCTTCTGCGGCGGAATGGAAG
AAAAGTAATGAAACCTGCGATGGCTACTGAATAACCTCCTTTTACTTTCTCAATAATAAAGCCTT
TGATCTTTGCCTTCGTTCGCTCAATCTTGTTCAGTTCCATCCAAGCTCGGTTTTGTCTGAATCTT
CGTGGAAGAAGAAGAAGCGGTTCACCAGCCACTACATCTGTAGATCCCACCAAATCATTAAACCT
GGCGGCTGCTCGCTCTTTGATCAGTGATTCACCGGCCACTAGATCGATGAAGAATCTCTCCAAAA
TCTGCTCTTTGATCAGTGATTCACCGGCCACTAGATCCAGGAATCCCACCCTATTCTCAAACCTG
GTGGCTCGGTTGATTGGCACCCCTGTAAGCTCATCTTGCATACAAATTCTGGGGGTCCCAAGTCC
TGCATCCACCAAGAACATTTCTTGCCTGAAGCGTAAAACTTCAGA
Found at i:362588 original size:33 final size:32
Alignment explanation
Indices: 362546--362631 Score: 154
Period size: 33 Copynumber: 2.6 Consensus size: 32
362536 TTGGAAATAA
362546 TCGACTCAAGCTCATCATACCCTTTTTTGTGAC
1 TCGACTCAAGCTCATCATACCC-TTTTTGTGAC
362579 TCGACTCAAGCTCATCATAGCCCTTTTTGTGAC
1 TCGACTCAAGCTCATCATA-CCCTTTTTGTGAC
362612 TCGACTCAAGCTCATCATAC
1 TCGACTCAAGCTCATCATAC
362632 ATAATTCGAT
Statistics
Matches: 52, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
32 1 0.02
33 48 0.92
34 3 0.06
ACGTcount: A:0.23, C:0.31, G:0.13, T:0.33
Consensus pattern (32 bp):
TCGACTCAAGCTCATCATACCCTTTTTGTGAC
Left flanking sequence: Indices 362046 -- 362545
CGGAATGGAAGAAAAGTAATGAAACCTGCGATGGCTACTGAATAACCTCCTTTTACTTTCTCAAT
AATAAAGCCTTTGATCTTTGCCTTCGTTCGCTCAATCTTGTTCAGTTCCATCCAAGCTCGGTTTT
GTCTGAATCTTCGTGGAAGAAGAAGAAGCGGTTCACCAGCCACTACATCTGTAGATCCCACCAAA
TCATTAAACCTGGCGGCTGCTCGCTCTTTGATCAGTGATTCACCGGCCACTAGATCGATGAAGAA
TCTCTCCAAAATCTGCTCTTTGATCAGTGATTCACCGGCCACTAGATCCAGGAATCCCACCCTAT
TCTCAAACCTGGTGGCTCGGTTGATTGGCACCCCTGTAAGCTCATCTTGCATACAAATTCTGGGG
GTCCCAAGTCCTGCATCCACCAAGAACATTTCTTGCCTGAAGCGTAAAACTTCAGATTGTAGGGC
GTTTCCACTACATAAGAAAAAACTGGAATTCGATCTTGGAAATAA
Right flanking sequence: Indices 362632 -- 363131
ATAATTCGATTTCCTCTTCTTTCTTATGCTCGTAGGTCAGTCTATTCGACTTTTTCTTGCAAATC
CTCTCTTTTCCGCTTTTGACTATGATTGGGCCCTGCAGTGGTAGAACCTGGTGAACCAGGCATAC
TGCTTGACTTGCTTTTCTTCTCTTATGATATTTATGATATTGATAAGTCGAGCCTTCGCTATTGC
CTATAATAAGAGGTCAAGGATCGAGTCGTCTGTTCATAGTTTCACTTCGCTTCTGCCATTCTGTT
CCCCTCAGACTATTAAGGGAAAGCAAGGACACCTGTGAACTCGGATAACCTTGTGGCATACCGTC
GAATCTACTCTACCCTACGCTACCATCTTTCTTCCTTGTGATTCAACCACGGCGGATATTTAGTC
AACTGCGGTTACGCTTACACCAAGAACTCCTATTCTATTGCATCAAGAGCTGATTCAATTGCAGC
ACTTACTGTAACAAGAAGAGCGTGAACTCATTCTCAAGCACTTGC
Found at i:404141 original size:19 final size:19
Alignment explanation
Indices: 404117--404154 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
404107 AGTAAACGTA
*
404117 TATAAGCAGCTCTTTAGTG
1 TATAAGCAACTCTTTAGTG
*
404136 TATAAGCAATTCTTTAGTG
1 TATAAGCAACTCTTTAGTG
404155 GTCGCACCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.39
Consensus pattern (19 bp):
TATAAGCAACTCTTTAGTG
Left flanking sequence: Indices 403617 -- 404116
CACTCACTCATCTACTCCTTATCTATTTAATACTTTCTTCTATCTACTTAATTAATTTAAAAGGC
GACCCGCCGCGCCGGGCTATAAGATAAGATACAGTTCTTGTACTACTTGATTGACTGGTAAGAAA
GAGCTTCCGTAAGAACTGGAAGACTCTTGTATGTACGGTAACCCTCTCTTCCGCTACTGGTGGAC
TGTTGCACAGAAAGGGCGACAGAAGCAACCTTTCTTAGCGCGCTTTTCAAGCGCTTAGCTTCTGC
TAGTGGCGGGGCGGCAAGGCCATGTTGTTCAGTTGGAAGCCTAAGCCAAGAAGGTACGAACGAAG
TGACGGGCCCCTTTAGAAGATAGGGGGCGGCTTTCTTGTGGTAGTAATTGCGAACATCTCTCCTC
TTCTCTTAGCGTGCACAGTTTGCTTACATGCCGCCTTAGGCACATCTCTCTTTCTTAGTTTCACG
CTGGACTAATGATAATGAATGAAAGTCAGTCTTTTAGTAAACGTA
Right flanking sequence: Indices 404155 -- 404654
GTCGCACCGAAAGTACGGTGGAGGTTGGTTGAAGATGATCTTACGCGGCGTTCAGAACCAGTCTT
GAAGTGAATGAATTATAAAGAAGTAAGGAAATGAGACGACTCTTTCTTGAACTATATCATAAACA
GATCTTCCCCTCCACACCAATCACGAGTTTTTCTCTATTCCTCTCGTATATCGTCGTAACGCCCT
TAATGCTAGGTTTTGAAAAAGACTTTTCATGTCATTCCCATTTAGGTCCGATTCGGATCCCTCCG
TTGTTTCCTTTTCCTTCCGCACCTTTTCCTCGAAATGAGAAAGAAGATGGTACACTTGAATTGTA
TTATTTAAGTGCTTATTGCTTGCCAAAAATCCTACTTCTACAATTGGTAGGTCACCGGGTTATTC
AAATAAGTCGTGTTTTCCGTGGTTTTCCCATGTTACAACTTCCGTACCAATTCGGTCGATCCGGA
ATGGATCGGTTAAACATTCCATTAGGTAGCCTGGTCTTGACTCTT
Found at i:418543 original size:27 final size:27
Alignment explanation
Indices: 418505--418559 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
418495 AGAAGACTAC
418505 ATAGTAGATCACCTTTTGCTTAGCTTA
1 ATAGTAGATCACCTTTTGCTTAGCTTA
* *
418532 ATAGTAGATCACCTTTTGTTTTGCTTA
1 ATAGTAGATCACCTTTTGCTTAGCTTA
418559 A
1 A
418560 AAGAAAATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.44
Consensus pattern (27 bp):
ATAGTAGATCACCTTTTGCTTAGCTTA
Left flanking sequence: Indices 418005 -- 418504
GGTTTCCACCCTATTGTACTTGACAGGCTCCTTAGGGAGAACAAGCATGAGACCCGCTGCATACG
GCTTATGCGTGTCCCCCTCACCGGTTATTAATGTCCCGAGATCCGATACAACGAAAGCTTTTCGC
TCAACCTTTCTTTCGCCTAAACAATTTCATTGCCTCACTCCGCTCGCCTACAAAAACGTATTTCG
TTCGCCTACAAAACCACCTTTCTAGTCGAGCGCACGAGAAGACCCTGTAGAAGTCCTCCATCCAT
ATGTTACCGACCTGACCATCCATCTATCATTGGAATCAGAAGAAACTGGTCCGTCCAACGTCTCT
GACCTTGTTCCAAGAAGATCTCATTTCGCCCTCTGCGAGACAAAGATCTCGAACATCGTAGAAAA
AAGTCCTAACTAACCAGTCAAGTGAAAGGAGCCCGCCTACCCACTCCCCTTTCCCCCCATTGCTG
GGAGCCTCGCCCTCTTGACTTGATATGTCATGTCAAGAAGACTAC
Right flanking sequence: Indices 418560 -- 419059
AAGAAAATTCTAAGTGGTGCATATTGTGGTTGTTAGACGAGATTCTGCGTTAATTCTATAAATTC
AGATAGGTCTTTGAAAAGCCAGCTAGAACACCCTTTTGAAAGAACATCGTAATAGGTATCTTGGA
GGTGCCCCGGAATTAGAAGAGCGTCGTCTCCTATAACAGCCTCAACTAGATCCGCTATGTTCCAC
CTCTCGGGTACGTCCCTACCGCTGAGTCGAAGCAACTCTGCGCTATTTTTGCAGATGTCGCGAAA
TAACTGAGTTAACTCCGGTGGAGCGCTTTGCGCGTCCGACGTAGTTGAACTAGTAGAAGAAGCGA
AGGAAGAAGTGGAACTTTGCATAAAGTGAAGATCGCTCGGGGTGAGTAGAAATGCACTGTTTTCC
ATATCCAAAAATAATAAGATTATTTTTTCTTTCTCTGCTCCCCCCAAAAAAAAGAGAGACTGAAT
TTCTTCCACCTTCCCTGTAGGAGTAGTGAAGAAGTATAGATTTAG
Done.