Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_059804
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: 248619
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Found at i:30818 original size:6 final size:6
Alignment explanation
Indices: 30807--30840 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
30797 GCCGGACCGA
30807 GGCTAG GGCTAG GGCTAG GGCTAG GGCTAG GGCT
1 GGCTAG GGCTAG GGCTAG GGCTAG GGCTAG GGCT
30841 GCTTCCTTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.15, C:0.18, G:0.50, T:0.18
Consensus pattern (6 bp):
GGCTAG
Left flanking sequence: Indices 30307 -- 30806
CTAATTCGCGTGTAGGCAGCGCTGCCTACACGCGAATTAGCTTCCGAGGTCGAGCAGTCTCAATT
TCACTACAGGATTTGCGAATGAATGCTGGGCTGGGCCACCTCGAATGGCGTGAGCCGCATGCGGG
GAGACCCGCACGTACGGTTTTTAGGGGGATCTGGTCGAAAGACCGGCCGGCGCCCACCCGACTAG
AGGGACTGAGAAATTAATAGAGTACAAAACTTATCTTCAAGCTTTACCTTATTCTGATCGTTTAG
AGGGCGATCGCGGAGTCACTGAATGAAGTCCTCCGTTTCTTTCGGAGGTGCTGACCCGCAGCGAG
GCAGAGATGACTAAGTTACATATGGAAGATGGCGACGACAACAGCATGTCGTAGAAGGAGATAAC
AGGTGGAGCCAACGATCCGCTAAGACTAACGTATCTACAACTCCATCCCCGAGCGGCAGTCAAAC
GGAGGCGTGAATGCAAGATGCCAGCGGAATGATCGGCCGGACCGA
Right flanking sequence: Indices 30841 -- 31340
GCTTCCTTCCCACCGCGTCCTTCCTTGTGTGTCGGAGATATAAAGCGAGTGCACCGGAAAAGAAC
GGGAACTGGGTCGATCTATTCTATGGCGAAGCATCCGAAGCATAACTGCACACTCACACGATCTT
TGCCGAGAGAGAGGAGCATTCGGTGGAACCGGTGAACTACACTTGCTTCTGGATAGATGTGTGGG
ACAGAGGGCTCGTGGTACCTGCTGCCCACCCTTCCTCCTCTGCTTTGAGAACCGTGTGAACGGAG
AGTGGGCAGAAGGGAAGGAGGTCCTCATACGGAGTCGCACACTGACTTGAGCAGTGCGGAAGACT
GGGGAATGGGTTGAGTAAACTCCCCTGGGGCCGGAAAAATAACAGACGAAGCTTTACTTAGATAG
GGCTTTGATTGGTATTTTTTTTTCTTAGTGATTGGAAAGGAGGGCGCCTGGGTATTTTACAAAAA
GGGAAGGCAGAGGTAGTACTTCGAATGGCGAAACGAAGGGCTAAA
Found at i:47582 original size:6 final size:6
Alignment explanation
Indices: 47571--47667 Score: 194
Period size: 6 Copynumber: 16.2 Consensus size: 6
47561 CATTTCTCCC
47571 GCTATT GCTATT GCTATT GCTATT GCTATT GCTATT GCTATT GCTATT
1 GCTATT GCTATT GCTATT GCTATT GCTATT GCTATT GCTATT GCTATT
47619 GCTATT GCTATT GCTATT GCTATT GCTATT GCTATT GCTATT GCTATT
1 GCTATT GCTATT GCTATT GCTATT GCTATT GCTATT GCTATT GCTATT
47667 G
1 G
47668 GTAGGCTCAG
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 91 1.00
ACGTcount: A:0.16, C:0.16, G:0.18, T:0.49
Consensus pattern (6 bp):
GCTATT
Left flanking sequence: Indices 47071 -- 47570
TCAGACCCATAATTCAACCTAGCCAACCAATGTGGGAGCTTCTTATAATAAGTTCCAAAACCTTG
AGATGAAGAAGGGAAAGCGTAAGTGAACTCGATCCAGTGGAGGGCTCGGTTCAGTCCTTGCAGAT
CTTTACTCACTCACTTCAAGAGTAGAATCCGCAACTCTACTCTAAAGGGGTATTGGCCATTATGA
GTAGTAAAGGCTACTATGAGCAGAAAGGGACTACTTGGCTCGATCGAGCAGCACCTACACCTTCT
CGCGTAACGACTTCTTTGAAGCTAGGCTAGGATCGGATCCAATTCTAGGAGAGATGTCAGACCAG
TAGACCCAGGTTATGCCTTTGATCTAGGAGCTTCGGTTTGAACACGTTGTTCTCTTGAAAGCTTA
TTAGGAAGCTAAGTCTTTACCTTTTCTTTTATCAATAGGAGGTGTGGTGCCGTTGCGTTGGACCT
GCCCTTTATGCAGCAGTAGTTTCGGTTGAACTGGACATTTCTCCC
Right flanking sequence: Indices 47668 -- 48167
GTAGGCTCAGAATTCAAGGAAGTGAACTGGTGGGACTCTGCTACTTACGAGGGTTGATGTGGAAG
AAGGGGCGACTTTAGTTTATCGGAAGGAGTAAGGACTAAAGGCCCAGAGTCAACTGCTGGTGGTT
CAGGAAGTTAATCAGATTCATCCTATAAAAGATGGTACGAAAGGGATTGATTGGGGTTCATCGAC
ATCTGAGATTCAGTTTGAAAAGAATCCCTTATCCTCCTATTTCATTTAGGAACTTCACTCCTGGA
GGAAGGAATAGCACCCAAAAGCCGGTTGGGTCGGGCATCACATAGTTTTGAAGGGGGAGACGCCC
GGTTCCTACTAACTGAACACAGGCAACTTCTTTATTGAAAAGTCAGTCTGAAAGCATACTTTCGG
GGCTTCGTCTTCTCCTTTCTTTAGTGAAGGCAGGCATCTGAAAAGGTCTCTGGACTGAGGCTTAA
CCACTCCTGTTGTGACGGATTCGGACGTGGATACGGATGCTCACT
Found at i:52609 original size:5 final size:5
Alignment explanation
Indices: 52599--52628 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
52589 AACGCCCTAT
52599 TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA
52629 GTACTGGGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Left flanking sequence: Indices 52099 -- 52598
ATCAAAAAGTAAGCGCGTATGCGGTCCGCCAGTCTTTGACTTTCTTTGAAGGCTGGTTTTCGAGC
GGAATGGTTTTGACCTTGAAAGTCTTTAGGCTTCGACCTGCCAAATCAGCCTAGACCTATTCTAA
TAGATTAGGCCTAGATTCCCCAACTCCTAAAAAAAAGAATTTTTATCAGAATCGCTATTTTTTTC
GATTCAGCAGTAGTAGGAATGGTGTATCCAGCAGACGGTCTTTCATCAGTAAGCGATGTGCTAGT
CTTTGTTGGTGAATGCCTATCTGGTGTTCAAGTCTCCGGTCCTTGTCCTTCTATTAGTGGTGGTA
TCCTAAGATTCCGGTTTAGAAATGATCTCTTTCTTTAACTAGAAATTTCATAAGAGAAGAAAGAT
CGTAGCGTAGAAAAGAAAGGCCTTTCCTTCACGGGCTGACTTAGTGCTTGTGCTAAGGTTTGAAG
ACGCTCGCTATTTAGTAAAGCAACAAGCAACGGCTAACGCCCTAT
Right flanking sequence: Indices 52629 -- 53128
GTACTGGGGGGCGCGCTAGCGCGAAAGCCTATTAAAGTTAAAGTAAAGTAAAGAAAGTAAAGAAA
ATGCGTTAGCGCATCCGTTTTCTTGCTGGGAAAGGAGAAATCGTTTTGATTCGAGGCGGATCCCT
TTTTTGTTTGCCTTTACGAGTTGAGTAAACAAATAAAAAATTCTCGTTATTTAAGGTAAGGTTAT
AACACTATAATGACAAAGCGTCCGCTCACGTCAGGGTCCGAAGGAGATGTAGTTGCGTGTACTGA
TTCTCATCGAGATTGGGTTGGTGTTCAGTGTACCGCTTGTGTAGCCTATGCGAAGCGAACAAGCA
AGGGATTGAGCTGCGCGAAAGCCTATTAAAGTAAAGTAAAGTAAAGTAAAGTAAAGTAAAGTAAA
GTAAAGTAAAGTAAAGAAAATGCGTTAGCGCATTCGTTTGGGTACAAGATCGAAAAGAATGCATT
GGATGGATGCCCGGGCATTGAGAAGGAAGGACGCTTTCAGAGGCG
Found at i:52990 original size:5 final size:5
Alignment explanation
Indices: 52980--53034 Score: 110
Period size: 5 Copynumber: 11.0 Consensus size: 5
52970 GAAAGCCTAT
52980 TAAAG TAAAG TAAAG TAAAG TAAAG TAAAG TAAAG TAAAG TAAAG TAAAG
1 TAAAG TAAAG TAAAG TAAAG TAAAG TAAAG TAAAG TAAAG TAAAG TAAAG
53030 TAAAG
1 TAAAG
53035 AAAATGCGTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 50 1.00
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (5 bp):
TAAAG
Left flanking sequence: Indices 52480 -- 52979
AAGAAAGATCGTAGCGTAGAAAAGAAAGGCCTTTCCTTCACGGGCTGACTTAGTGCTTGTGCTAA
GGTTTGAAGACGCTCGCTATTTAGTAAAGCAACAAGCAACGGCTAACGCCCTATTATTATATTAT
ATTATATTATATTATATTAGTACTGGGGGGCGCGCTAGCGCGAAAGCCTATTAAAGTTAAAGTAA
AGTAAAGAAAGTAAAGAAAATGCGTTAGCGCATCCGTTTTCTTGCTGGGAAAGGAGAAATCGTTT
TGATTCGAGGCGGATCCCTTTTTTGTTTGCCTTTACGAGTTGAGTAAACAAATAAAAAATTCTCG
TTATTTAAGGTAAGGTTATAACACTATAATGACAAAGCGTCCGCTCACGTCAGGGTCCGAAGGAG
ATGTAGTTGCGTGTACTGATTCTCATCGAGATTGGGTTGGTGTTCAGTGTACCGCTTGTGTAGCC
TATGCGAAGCGAACAAGCAAGGGATTGAGCTGCGCGAAAGCCTAT
Right flanking sequence: Indices 53035 -- 53534
AAAATGCGTTAGCGCATTCGTTTGGGTACAAGATCGAAAAGAATGCATTGGATGGATGCCCGGGC
ATTGAGAAGGAAGGACGCTTTCAGAGGCGAAAGGCCATGGGGAGATACCGTCTGTGATCCATGGA
TCTCCGATCGGGAAACCGTATCCAAGCTCCGCGGCTAGTCTGCGCTCTTTGGACTTTTAAAACTT
AGCGAACTGAAACATCTTAGTAGCTAAAGGAAGGGAAATCAACCGAGACCCCGTTAGTAGCGGCG
AGCGAGAGCGGATTGGGGTTTGAAGAAAAACAAACACGAAGCTTCGTTTCTCTTTCGAGTATGAT
AAATTCCTCAGCAGCAAAGTGTTCACTTCTTTTTCGCCAGGTTTCATTCGATTTGTTGTGGATTG
GATGATGGAAAAACCAGCAAGCCCCTTTTCATTAAAGGGCGCAGTGAACTTGAATTGTGAAAAGG
TTGGAAGATCTGGCCAAAGAAGGTGATAGCCCTGTAGATTCGTTC
Found at i:54916 original size:18 final size:18
Alignment explanation
Indices: 54876--54918 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
54866 ACCGCCCTGC
54876 CATAGTCGCGAGTCTGTTT
1 CATAGTCGCGAG-CTGTTT
54895 -ATAGTCGCGA-CTGTTGT
1 CATAGTCGCGAGCTGTT-T
54912 CATAGTC
1 CATAGTC
54919 AACAAGGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.23
17 1 0.05
18 16 0.73
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.35
Consensus pattern (18 bp):
CATAGTCGCGAGCTGTTT
Left flanking sequence: Indices 54376 -- 54875
TCAAGTGATTCACCGAAGCGACGAGACCTTGAAAGTTGCTTTTTCAAGTGTCAGTAGCGGGACGT
TCTGTCAATCGGGGAAGGTTTTTGGTGACAACACCTGGAGATATCAGAAGTGAGAATGCTGACAT
GAGTAACGAGAAATCCTGTGAAAAACACGATCGCCTGCCAGTGGAAGGCTTTCTGCGTTCAGTCA
ATCTACGCAGAGTGAATCGGTCCCTAAGGAAGCCCCGAAAGGGCTGCCGTCCGATGGGTACACGA
AAGTGACGAAGTTGCTTTGACTACAGAACCATGCCTGTCTGTTGGAGTGAATTGGATGATCGGGC
CGAGGGCTGCCCCCTCTTCCCCTCACTCTCCTTTCCCTAAGATGAACCTTGAGTCATCAAAGCCT
TTCTGACTCGGCCTGGCCCGGTCGCCCTACGCGACTGGCGCTTCAAAAGGTAGTTGACTTGCTTA
CTCGTTAGAGTAGGGGTCGCGAGAGAGCAGAGCGTACCGCCCTGC
Right flanking sequence: Indices 54919 -- 55418
AACAAGGTTGAAACTTCCAGGAAAAAACTTCGAAATGGGAGGGCGATCCTCCCGGTGAACTGACC
GTACCCCAAACCGACACAGGTGAACAAGTAGAGTATACTAGGGCGCTTGAGAGAACCATGTCGAA
GGAACTCGGCAAAATGACCCCGTAACTTCGGGAGAAGGGGTGCTCTCCTATCTTTTGATTAGGAA
AGCGGCACATACCAGGGGGTAGCGACTGTTTATTAAAAACACAGGACTCTGCTAAGTGGTAACAC
GATGTATAGAGTCTGACACCTGCCCGGTGCTGGAAGGTCGGAAGGAGAAGTGTTATAAGCTTTGA
ATGGAAGCCCCGGTAAACGGCGGCAGTAACTCTAACTGTCCTAAGGTAGCGAAATTCCTTGTCGC
ATAAGTAGCGACCTGCACGAATGGTGTAACGACTGCCCCGCTGTCTCCGACATGGACCCGGTGAA
ATTGAATTCTCCGTGAAGATGCGGAGTACCAACGGCTAGACGGTA
Found at i:61769 original size:5 final size:5
Alignment explanation
Indices: 61759--61793 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
61749 AACGCCCTAT
61759 TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA
61794 GTACTGGGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Left flanking sequence: Indices 61259 -- 61758
CCAGTGATAAAGAGGAGCCCTCGTGTCCCTTCCTGAATCAGGCGTCAGTCTTTCTCATGTTCGAG
GTCTCGGTCGTTCCTTGGCTAAGTCTGAAAGTCGGTCCTACCATTCTTCCATCTCCGTGTCCCAC
GTAAGAGAAGGGTCGTCTCTCTCCTTGTGAGAATTCTTATAGGCTATTCAAGACCTTGTGCTGAA
GTGGCGTAACTGGCTCATGGAGTCTTTTTTTCTTTCTCTTTAGTCAATCGTCTTCTTCGGTCATA
GTAGGGCTAAGCCCAGAGGCTTCAACTGCAAGGCATCCCTAAGATTCTATCTTGAAAGGATTTTT
TTTTCCTCTCGACAGAAGGGCTGTGGTTTCTAAGTCGAGGCATTTCATCATTCACTGGTAGTGAG
AGCTGAGCTTCCCTTTGTTCTTTGGTCCCAGGGCAAACGCAGTCCTTGCGCCAACTGGTAGGGCG
TCCTGTGGAGATGTTGGACCAAACAAGCAACGGCTAACGCCCTAT
Right flanking sequence: Indices 61794 -- 62293
GTACTGGGGGGCGCGCTAGCGCGAAAGCCTATTAAAGTTAAAGTAAAGTAAAGAAAGTAAAGAAA
ATGCGTTAGCGCATCCGTTTTCTTGCTGGTAAAGGTAGAATTCGTTTCCTCATTATCAGCCAAGC
GGCTGGGAATGAAATGAGAGCGCCTCACTCGTTCTCTTTCTGTGATTCGGTCACGGTCACAAGTG
AAGCTTCTGGAATGTCTTTCTTTCTTTCTCGTCAAACCGGCAGGAACCAAGCATTGATTTCATCC
TGTCGAAAGATCGTCTTTTTGGTAAGGACTGGATCCTTGTTATATCGATCGTGCGAAGTTGGTAT
ATATCAATGCAATGCACGTGCCTGGAATGGGTGAAACTTCATCTGTGGGTCTTCTAGTCGGTTTG
TTAAAGGAGACTTAGCCACCTGGATTGGAGCCCCTTTGTCGTAGTTCTCCAGTAACTTCGGCAGT
GGTAGTGAGTCAAGGGTCAACTCCTTCTTCTTCGTCCGGTTTACT
Found at i:66561 original size:16 final size:15
Alignment explanation
Indices: 66535--66564 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
66525 CCTTCTTAAA
66535 TTAAATTAAAGAAGC
1 TTAAATTAAAGAAGC
66550 TTAAACTTAAAGAAG
1 TTAAA-TTAAAGAAG
66565 ATAGGCTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (15 bp):
TTAAATTAAAGAAGC
Left flanking sequence: Indices 66035 -- 66534
TTCCATGCCCTCGGAGAGTGCTTTGTCGTGCTAGGTCACTGACATATCCTTTGTCTTTCTTTGAC
CCCAAGAATGGATTGGATCGAAACGACTTTCCTGTCGAACCCCTTTTTGTCTGTATGTTTGTCTG
TATGAATTTCTGACCGCGCGGAATCTCCATAGCCAATTTTCCATTTTTTATTATGAAATCATAGG
GTGCCTTTGGGACTACTCTTATTTCACACGATCCAGGAACTTCCATAACGTTGGCGTGATTCAGT
TTGAGCAACGGATCCTGACGTGATACATCTTCGTAATGAAAATTGAGTGGAAACATAGTGATTGA
TTGAGACAAAAAAATTCCCTCCATACAGAAAGAAAGAGAGTCTTTCCTGCACGGAGTAGTGAAGA
ACTATAGAGAGCTGTGGTTGGTTGTTGACCAACAGAAAGCATGGGAAAAAGACCAAAGATATCAT
AGGCTCTCTTCGGAGAGCGGTATACCGAAAAAAGCCCTTCTTAAA
Right flanking sequence: Indices 66565 -- 67064
ATAGGCTTCAGTCATCGTCGAATAGGGGCTTTTAAAGAGCGTGACTCTTCTTTTTGAAAAAAGGT
AAGACTCTTTCTTTATATACACAATTTTCAGTCTAGTTCGCCACAAGGCATGCAAGCAAGGAAGC
TAGCCCCGTTATGTTTAGGTTGGGGGAAGAAAGAAAGAAGTAAAGCTGCACGCAATCCACAACCA
AAAGATAAAAGCCACTCACACTCACGGGACAAATACTATATTCCACAACTCCTGCAAGAGACGAT
TCGTTGATAACATCTGAAGACGATCCTGCTAAGAGGGGCCTTTCGCCGGTTCAAGTAATGGGAGG
CCTTTGCTGGTCAACTATTTTGAGGCCTTACGATTCACTCAATGGCAGAGGGATCTTGCTCGTCA
ACGTCCGTTGCCGATCCGGTCATCTATCTCGGAGTCATCAACATCTGCTTTTCTTCGGGACAAGA
ATGGTTATATCCTGGCAGTGAGCTTATCGTACCTGTCGTCCAATC
Found at i:67155 original size:13 final size:13
Alignment explanation
Indices: 67137--67162 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
67127 TGGAGCCTTA
67137 CAACTTTATCAGC
1 CAACTTTATCAGC
67150 CAACTTTATCAGC
1 CAACTTTATCAGC
67163 TCAAGCAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.31
Consensus pattern (13 bp):
CAACTTTATCAGC
Left flanking sequence: Indices 66637 -- 67136
TTTCTTTATATACACAATTTTCAGTCTAGTTCGCCACAAGGCATGCAAGCAAGGAAGCTAGCCCC
GTTATGTTTAGGTTGGGGGAAGAAAGAAAGAAGTAAAGCTGCACGCAATCCACAACCAAAAGATA
AAAGCCACTCACACTCACGGGACAAATACTATATTCCACAACTCCTGCAAGAGACGATTCGTTGA
TAACATCTGAAGACGATCCTGCTAAGAGGGGCCTTTCGCCGGTTCAAGTAATGGGAGGCCTTTGC
TGGTCAACTATTTTGAGGCCTTACGATTCACTCAATGGCAGAGGGATCTTGCTCGTCAACGTCCG
TTGCCGATCCGGTCATCTATCTCGGAGTCATCAACATCTGCTTTTCTTCGGGACAAGAATGGTTA
TATCCTGGCAGTGAGCTTATCGTACCTGTCGTCCAATCCATTAGCGTTGCCACCAGCCATTACGA
AGAGAGCCTTGGGGCATCCGCTTAAACCCTAGGCTTGGAGCCTTA
Right flanking sequence: Indices 67163 -- 67662
TCAAGCAATTTTTACCTTAGACTGAAGCGCATTCACTCATAGGACGACCATCATGTACTTGTACT
CAAGTGACGATGAACACTGAACCTAACAGCCGAGGAGACGATCTCCGGTACCCATGAAGAGTATA
TTACCAATTCTGTCACCGCTCCGTGGGCTTTTATGATTACACTACTCACGAATCTATCTATCCAA
TTTCTTACTGAACTTGACTTGTCTCCGATTGCCATGCTGCGCTTTTCGCTCCTTATCCCGTACAG
AACGAAGTGAATCTTATTTAAACATTAATAGCTATGGGCCCTCTTATTGCACTGAATGACGGATC
ACATGGGGTGGATCCTACTAATGCAATGTTTTCTCCGTGTAGGAAGGCATTTTTCACATCTAGCT
TGTATAGGGACCACTTCTTTGATGCAGCAATAGCCAGTAAAGTCCTAATCTTCACAACTGGACTG
AAGTTAAGGTTTCCTCCAAATCTATCCAATATTCTTTAGCAAAGC
Found at i:95677 original size:9 final size:9
Alignment explanation
Indices: 95655--95702 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
95645 GTCACGGTCG
95655 ATATCGTCA
1 ATATCGTCA
* *
95664 CTATCATCA
1 ATATCGTCA
95673 ATATCGTCA
1 ATATCGTCA
*
95682 CTATCGTCA
1 ATATCGTCA
* *
95691 CTATCATCA
1 ATATCGTCA
95700 ATA
1 ATA
95703 AGAAAACCCT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.33
Consensus pattern (9 bp):
ATATCGTCA
Left flanking sequence: Indices 95155 -- 95654
TACTAATCGATAGGGCCTCATTGGTAAGTGCTACAAGATCTCGTACATTGGAACCCATAGTTATG
GACCCGAATCCATTAGTATGGAACATTTTCTTTTCCAAGTGAAATCCCCTAGTATATGAAAGAGT
GAAAAAGTGCTTTCGTTGTTGTGGAATAAGAAGCCTTCGTATCTTAATGCATGTATTTAATTTAT
TCGGAGCTATTAGAGCGGGATCTACTTTTTGGGGAATATGAGTCGAAGCAATAACAAGAATATTT
CTAGTGGAACATCTTTCACAATCCCTGGAGAGATAGTTCACTAATAGACCGAGGGATAAGTAATT
CGACTCATTCACATCCAGATCATGAATGTTTGGAATCCATATTATGCAAGGAGACATTGCTTTTG
CTAATTCGAATTGAAGGGTGATATAAAATCGGTCTATTTCCGGCATCATATCCATAGTTAGCGCA
TTCATCATAGTTAGAAGCTCCAGCTCCGTATCAAGGTCACGGTCG
Right flanking sequence: Indices 95703 -- 96202
AGAAAACCCTTAGGCTTGTTATCCAGGAACTTGTTCAGAAATACTGTAATGAAAGGAAGATAGGA
GTTTGTCGCTAGGTATTTGACCAAATAGGATCGTCCAGTTCCTATAGAACCTATCACTAAAATAC
CCCTAGGGGGGGGTAGGGCTAAGCGGAGCGAAAAGGGTTTCCCATGAGATGGGAAATGAAAACTA
TTAGCCCCACACGGGGTTTGTGAATAAGTGATTGTCTGATAATGAGCAAGGAATATCCGTCTTTC
TGCTAAACAGGATGTATTGAACTCATAATTCATTAGATACTTTTTATGAATGTCAACTAAGTATC
GTAAGTAAATTGCTCCCGGTTGTTCAATCATTTGATAACCAGAGTTATTTTTTGATAAATGATCA
CTATGAGTCAGACTCAATAGAATTTGATCAATCCTTTTTTCTGTCGTTAAGGTAGAGAACTGAAC
CAAGAATTCTCTTTCTTTATCATCAATCGAATCACTGTTCGAGAC
Found at i:104361 original size:14 final size:14
Alignment explanation
Indices: 104342--104369 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
104332 CAGTACCTAT
104342 TTAATTAAGTTAAG
1 TTAATTAAGTTAAG
104356 TTAATTAAGTTAAG
1 TTAATTAAGTTAAG
104370 ACCGCTCGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (14 bp):
TTAATTAAGTTAAG
Left flanking sequence: Indices 103842 -- 104341
TAGGTGGAGAGTCACATTTCTTAATAATGCCCAAAAGCCCGTTTAGCCCTTCGGACTAAGGCGTG
ACCATAGGATCTCACAGTGTCGGAATGAGTTGAAGACGAGATGTGGTGTCCAGTCGGATAGGGCG
AGGCGAGAAGGGGAACAAGGATCAAAACAGGCATGGTGCTTAGGGCGGCCTCTTTCATTTCCTGA
CGTTGGGTTCATTCGCGAACGAGACAAGTTTAGCTAGGAGCCTCCTTATTGCCCAGCCCCCTTCT
TAGTTGCCGAAGTATAAGCCCGCGTGAGATCAAAGTCACCTGCCGTCCGTTCGCTTTGTTTTGGT
CTTGACGTGCTTTGAAAAACATAGAGATATGATTTGCACTAGAACACTGACGATAGACCCACCGG
GAACACATTCACTACTGGGCATTGACATCTTAATGCGTTGCAATCTGGACATTGATCGATCTTTA
TGCTTCCCAGCAGCTATACAATCCGAATCGGCTACCAGTACCTAT
Right flanking sequence: Indices 104370 -- 104869
ACCGCTCGAGTTCTTGAGACCGGGGAGGGGCACCCCCAGTGCAGGGCCAATTTCAGTGCCGGTTG
GAGACCTGGTTCGAGATGCATATCTTGAAAGAGAGCCATCACCTCGCCCAACATCCCTTCCTTTT
CAATAGTCAATTCGAGAGCATTGCTTTCTCATTTGCTCTTGCATCGTGTAATGGCCCCTTGAAGT
GAAGGGGGAATTGCTTCTTTCTCTTTCTTCGTTGAGATAATTATATATATATCTATCTAAGAATT
CTAGAAAGCAGTGGCGGCGCATCCGTTTGATCGATCACGGCCACCTATGGAGAAGAGCAAGAGTT
TTGGCTTTATCCTTTCCATCGAGCTGTCTGGTCTAGTTCATCTGCTCTTCACTACCATCTATCTA
AGCGCTAAGAAAGGTTCCCGTCTGGCTATCTCCTTCTCAGATGAGAGTAGGCATGATAACTCAAT
CACGAAATGCCACAGTAGGCTTGTTTTCAAGATATAAAAAAGGGG
Found at i:105639 original size:14 final size:14
Alignment explanation
Indices: 105620--105647 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
105610 TGGGGATACC
105620 TTTTTCTTATATAA
1 TTTTTCTTATATAA
105634 TTTTTCTTATATAA
1 TTTTTCTTATATAA
105648 ATAGTTAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTTCTTATATAA
Left flanking sequence: Indices 105120 -- 105619
AAAGCATGCCCAGCGAGTTCCGAGTTCCTCCTTTGGATTAGCGGTTGAGTGTGCCAAGCCGGGCA
GGAGTTATTGCATTGATGCCGAGAATTCAAGCTTTGGAAGACGGTCAAGGAAGCAAGGCAGTGGC
TGCTATGGATGAGTGAAAGCTTCTTCTTCTTTTTCTTTTTCGATGGTAATTGAATAGCCCTTCTT
CGATTCCTTAGGAATTTCGTCTAGTAAGGGCAGCTGGCCTTGGCTTGGGCTATCAGAGGTTGACT
TCTATTTTCACTCCTCCGAATCTTCACCTCCGAAACTTGAACTTGCTTTCCCACCACCTTCTAAT
CGGAGGAAACCGAGGTTTTTTATGAGCAGCTCAAAATTCACTATTTGCGTAAGTCCGCAAACAGC
TCAGCTTTCAAAAAGTCTTATTGCACTAGCATTCGATGCATCAACTATGGCAGTTCCGATAAGAA
AGAAATAGCTAGATTCGAGAGCTGCGTCCTCCAACTGGGGATACC
Right flanking sequence: Indices 105648 -- 106147
ATAGTTAAGTTATATAAATAGGCTATTTGCCTATAGAAGTACTCTAGCTCTCACCGATTCTTCTT
CAATTGCAGACCCCTCCCACTCCACAAACTGACAACCAAACCATGCACTCTAAATTGGACAGTCT
CGAGGGTAAAGTAGAGCAACTCTCTGATAAGTTTTCACAAATCCTGAAACACTTGGGTAAGCGCC
CTGTAGGAGAGGATTTACAGGATTCAGTTAGGCAGTTAAAGGGTTCCCCTTATTTATTATTTATA
TTATTTATAAAATAGGGTCAGTGCACGGAAGACTTCCCACTTCTGGGACACACGGCGCCCTAACC
TAACCTAATAGGATGAGTCACGCAACCCCTAGACCAACTGTCAGATTTCCCCCTGATGGTGATCT
CCTTCCAACCTTAGATCCTAGAGCGGCACTTGATGATGGTGATCATTTTCATGAGGACCAACCCA
TAGAGTTCCAGCCCCATGCTAGGGTTCCAGATAGACACAACAGGC
Found at i:108124 original size:6 final size:6
Alignment explanation
Indices: 108113--108154 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
108103 AACCTACTAT
108113 CTATCG CTATCG CTATCG CTATCG CTATCG CTATCG CTATCG
1 CTATCG CTATCG CTATCG CTATCG CTATCG CTATCG CTATCG
108155 ATAGGCTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.33
Consensus pattern (6 bp):
CTATCG
Left flanking sequence: Indices 107613 -- 108112
GTTCGACTGAACTCGTTGGCTCCGCGCTCTATTCGGTCGGAACCCGGTTTGAGAACCTTCTCTCA
TAGATTCCTTTCACCAAGTCATCGCCAGCAATCAGCTCTTATCCCTTGGTGTGGTGTCAAAGGGC
GAGTTCCTTTCTTGTCTTGCCCAAAAACTTGCTTTATTCTCATTGCTCCCGCGGCAAGGTTTTAC
ACATAGGGCCAGCTGCTTTCTTTATCTCGCTTGCCGTTAGTCCGTCTAGCGCCTTTCTTTCGGTT
GGGGTCCGTCCCGGGGCTTAGACCGCTTGGGTTCTCTTTTTCTCGAAGGCAGTCAACGTGTCAGC
CATTCCTCTCCCATTAGACTTGTCAATCCTTTGCTCTTTTTCCTTCTCTCTTCCAGTTCTCTCCC
TCTACTTTATTTGACAGGGCCTGTACATATAGGGAAGACCACTCTATCAATAAAAAGAAGACAGT
AGCAATTCAGTTTCAAATGGTTTGAGCTTGGAAGCAACCTACTAT
Right flanking sequence: Indices 108155 -- 108654
ATAGGCTAAAACAGACTGCTATTGGCTGCTTTGCCTATCTATTCTATTATGGCCGGCTTGGAGAC
ATCAGAGGAAGACCGTCATTTATATCCGGGTACGATCATAGCTTCATTCATTCGTTGAACCTTGG
GGATAACCATTAGCATTGAGGTCAATCACCACACCACCTCTATCATACATACGACATTACATGAC
GCGAGAGTGCATGGTCAACACACACCTACCTAAAGCGCCTACGTTCCGCTTGCAGCCAATACAAG
CACAACCTAACTTGCACGAGATTCAACAACCGAAACTACTGGTAGTCCCGAGGGGACGGCATCCT
CCTATAATAGTTAGCAGTACTGAACAAGCGAGTCATCGGTCGGGGGAAAGAAAAGGACCGCCTTT
AAAAAGAAAAAAAAAAGGACATCGCTCTAATCCTTGAGAACTTCCTTGATGATTTAGCAATTGAG
AGACGGTTGCGACAAGTAAGAAAGTGGGCCACCCGGGAACTGGAA
Found at i:114307 original size:5 final size:5
Alignment explanation
Indices: 114297--114321 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
114287 GTCCTGTAGC
114297 TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA
114322 CTAGGGCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Left flanking sequence: Indices 113797 -- 114296
GCGTTTTCAAAAGCTTCCTGTCGAACCGGCTCCTATTTCAATCCGTGCTGGACCGATCGATATAC
CAATAATCAAGTCTTCAGTCAACTGGTGGAATACATTGCATCAACCTGGGAGCATTAGCCGATCT
GGTACATCAATACATGTTCCTATGCCCATTCCAATCTTGTCTAACTTTGCTAACTTCCCCCTCTC
AACCCGTATCTTGTTTGTTCTGGAAACACGTCTTCCTATTCTATCTTTTCCCGAATCTCCTTTCA
GGGATGAAATAGAAGCTCGAGAAGGAATAGCAAAACCTAGTTTACTTCCCAGCTCTGAACGCGAT
GTAATCAAACTTATGGTTGACGCCGTAGAGAATAGAAAGCCCATATGCGAAGTGGAAAAAGTAGG
AGTAGCAGGTACTCTTTATGATGTCCCTGGGATTGTAGCCAGGGATCGTCAACGAACCTTAGCTA
TTCGTTGGATCCTTGAAGCAGCTTTCATTCTCTAAGTCCTGTAGC
Right flanking sequence: Indices 114322 -- 114821
CTAGGGCAAGGAATTGAACATTTTGAGTAGGAAGCAAGGGTGAAGTGAAAGAAGAAAGGAGAGGA
AAGATTCTCTTCGAATGAAAGAAGAGGTACAAAGTCACTCGACTGAAAGGAGAGGAGAGGACAAT
GAATTGCTTGAGTCTGCCTTCACTTTCTTATGAGAGGTCTTTGATTTCCATTGGATGAAGATCTG
CCTCTTCAGAAGACGAATTGGGCATCTCATTTGAAATGCATTCTTTCTTTGTGCTTGACTTCAGG
AGAGATCAGAAGCCCAAGCATGAAGATAGGGACAAGCAAGTTCAGTGATCCTGGGGAATGAGCCT
AATTCCACTTTGCTTGAAAGAGGAAGGGGTCACTCTCTAGAAAGACTGAGCCTGAGCATGCAGAG
AAGAAGGGCTACTAGTGAAGATGCCGAGAATGGCCGGAGATGACCGGTCTTAGTTAGAATCTGTT
GCAAATGCATGTATGTGAGGGAGGGAAGAATTGCATTTGAGTCTG
Found at i:122055 original size:16 final size:17
Alignment explanation
Indices: 122034--122067 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
122024 ACCAAGCACT
122034 AGGCGCTAACA-GACAA
1 AGGCGCTAACAGGACAA
122050 AGGCGCTAACAGGACAA
1 AGGCGCTAACAGGACAA
122067 A
1 A
122068 AAACAAGCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.44, C:0.24, G:0.26, T:0.06
Consensus pattern (17 bp):
AGGCGCTAACAGGACAA
Left flanking sequence: Indices 121534 -- 122033
CGTAGCAGAGCAGTACGCTTGTCACTATTCTTTCCGTGCTTTATCACTCTTGTTAGCTGCTCGTT
AGCTAGCAAATCCGCTATGGTCTATGGTCTCCTAATAAGCGTACTACCTAGAAAGCTCAGTAATT
GGAAAAGAAACAGAACTAGAACAAGAAAGCGGTGGGTTTCGGGCTTGCGAGTGCCTATCTATTCT
AACTTCCTACTAGCTAGTGGAGCGAGTATTACATAACCTTGACTGATAAGGAGAGGAGTACTGAA
CATTAAGCTAAAGAGGAGTCTATGCATGTCGAGCAGAGATAAGACCAGTGCGAGATATGAGATCG
AGAGCATACTAGCACAGTTATAGAACATAACCGCGAGGTGCAACCTCTATTCCAAGAAAAGACTG
AAGAGGTCCAAGATCCTTCATATCTTAAAGGCCAGCTGATCCTTAAGAAAAGAAACGAAATGGCA
TCAGCCCCATCTCCAGAGATAATAAATCGACATATACCAAGCACT
Right flanking sequence: Indices 122068 -- 122567
AAACAAGCTTCGAACGAGAATGAAAAGATCGAGAGTACGTTCAGTGGTTGTTGAGTTGTCTTGGC
CTACTGAATAGAGAGTTGAATTGACTAAGCGCCCCGTTTGCTGGGCCTACAGAGAGAGAGTTACG
TGTAGTCAACTCGGTGGGGTATTCTCAATCGGCGAAGCCTCGCTACAGTCACAGCTACAACAGCT
AACAACAGAGCGGATATCACGCAGCGGATATATCGGTTGTTAACATCGGGTGCTAAAAGAAAGCA
ACACGAATTCTCTTATATAACGAGATCATATTATCTTACATAACCAGCGACAGGGGTCTCTGGCT
TGAAAGACGACACTGCCTGTGATACAAGAAGGCGCTCGTTGATGGCGCGAGGAGGAATGGCCAGC
CAGCCCCCTACCTACACAGAAGGGAAGGAGATCCACCACGCCAGCGCGCATCGCTAGCTCAATGA
AAGGCAACCTACTACTTTCTTCCTGATGCCTTAATTGCGTATATA
Found at i:124883 original size:5 final size:5
Alignment explanation
Indices: 124873--124917 Score: 90
Period size: 5 Copynumber: 9.0 Consensus size: 5
124863 AAGGACAGCC
124873 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
124918 ATAGCTCGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Left flanking sequence: Indices 124373 -- 124872
ATGGGAGTAGGAAAGGCAGAAGTCTTGGAGAACAGCTTGTGAATGGAGGGTTTCATAGTCAGTTG
ACAAGGCTACTTTCGAGTGAGTAGGTTGATTAGTGAAATGAAGTCAATCATTACTAAACTAAGGC
GCAGGGATTGCTCTTGGATTGATTGCACTTTATAGCTAAGCTAGACAATTCCAGATTGATTCTGA
TTTCATTGAGTTTAGAAAAGGCTCTTTCAATGACCGATTCCACTCATGGAGGGAGTTGAATTGAA
TGTTTGAAGCATCTCTCTGAAGCCGGACTCCCCTTTTCACTGAGCTATTCTCCTGCGCTGATCGA
TTGGACTTGCTCTGCTCTCAGCCTATGTATGCGAGTTCACTTCGCGCCCTCTTCGGTCAAGTGGT
AAAGGAGCCTCTCGCTAATCAATAATAGAATGCGATCCCTTCTTTCTTCCATTCCCTTCAGCTGA
ATGAATGGGGGCATGGCAGACTCGTTGGTTAAAGTAAGGACAGCC
Right flanking sequence: Indices 124918 -- 125417
ATAGCTCGCTGAAGCTACTTCGGAATTCAATAGAATGTTCTCCGCGTCCTTGGCACCTGCCCTTG
GGACTGTCTGAGTCTAATTCCAAATCCCTATCGTCAACTCGGGGCTCACTCCTAGCCTATGATTT
TCGTATATTCATAGTTTGCTTAAGACTTCCTGAATGGCTTTGAGGAGTATGAGAAAGCTGCTCTT
CTTTTTTTACTGACTCGGCTCGTCACCGGTACGTAACCCGTCGCTTTTTAGTTTAGTAGTGCTCT
TCCTCTGCTCAGAACATGTATGGGGGAGAAAACTCCACTCAATAGGTAGAGTGACTGCCCCATCC
TGTTCCGCTACTTCTGGTAGAGTGGTTGGATAAGATCTAGTGGCTGTTGCCTCAGCTGTCTTCAG
TTCAATACGGCTTGGGGCTTCCCCTTTTTTCCGCTCATCTCACTTGGTTCGAGCGAGTGGTCTGG
TGCTAAGCTGTCTTTAGAAGGGCTTCGGGAGCTAGGTTCATACCC
Found at i:143393 original size:5 final size:5
Alignment explanation
Indices: 143383--143412 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
143373 AACGCCCTAT
143383 TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA
143413 GTACTGGGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Left flanking sequence: Indices 142883 -- 143382
TGAGGAGTGTCCACATGAGTTCGTTGAGGTGTCTACACAGGTTCGAAGACGCTCTTTTATATTCT
GTCGAGAGTTCGGATTGCTCCACCTAAGTAGAACGAAAAGAAGGAATTGGAAATTCAAAGGGGGA
GCCAGAAGCTTCGCTTCCGGTAGCTTGCTTACTCTCCTAGTTAGAAGAAGGCTCTTTGGCGAATT
CTTTAGATCTGGGTAGAGTCTCGCTCAGTAAAGAGAGTTGTAGATTCTTAAGATCATGATAAAGT
CCCCTTTACTTGATATTCTATTAGTAAAGCGCTAGCGCGCTACAACTAGCATAGCAGCCTGCAGA
AAAGGCTCAACGAGCCCCGTACTCCTAAGTTGGAGCAACAAGCAACGGATTGAGCGCATCTTTCC
CCTTTCTATTAGTAAGGTTGTCAAAAGGTAGGTTTCTGACTTAGTGCTTGTGCTAAGGTTTGAAG
ACGCTCGCTATTTAGTAAAGCAACAAGCAACGGCTAACGCCCTAT
Right flanking sequence: Indices 143413 -- 143912
GTACTGGGGGGCGCGCTAGCGCGAAAGCCTATTAAAGTTAAAGTAAAGTAAAGAAAGTAAAGAAA
ATGCGTTAGCGCATCCGTTTTCTTGCTGGGAGAGGAGTTCAGCTGCTCTAACGGATCTGAGTTCA
GCTGCTAACTAATAAGTGAAAGAAAAGAGCGGACCGCAACTAGACCTGAGAAAACAGCAGCTTTA
AGGCATCCTCTCATTGAGGAGGTCTTAGATAGAAGATGAGCCGACGGTAGGACTCTCTTAGAGTG
TGGGAGTATAACAGTAGCAGCAGTTATGGCCCCATACCCATGAGCATTGGCGTGAGCAGCTAAGC
TAAGGTCGGAAAGGAAGAATGGGTGGGCTTACAGGCTACCTATTTCCTCAGCCGATAAGAGAATC
TGTCTTCAGCACAGATCGAGGCTTGTCGAAGATAAGTATCAAGTCCTCTATCGCTGGACTAGACT
AGATTTCGAAGATTGAGGAGTGGAAAATCTCAATGGAATTCCAGA
Found at i:158281 original size:5 final size:5
Alignment explanation
Indices: 158271--158360 Score: 180
Period size: 5 Copynumber: 18.0 Consensus size: 5
158261 AACGCATTTT
158271 CTTTA CTTTA CTTTA CTTTA CTTTA CTTTA CTTTA CTTTA CTTTA CTTTA
1 CTTTA CTTTA CTTTA CTTTA CTTTA CTTTA CTTTA CTTTA CTTTA CTTTA
158321 CTTTA CTTTA CTTTA CTTTA CTTTA CTTTA CTTTA CTTTA
1 CTTTA CTTTA CTTTA CTTTA CTTTA CTTTA CTTTA CTTTA
158361 ATAGGCTTTC
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 85 1.00
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (5 bp):
CTTTA
Left flanking sequence: Indices 157771 -- 158270
CCGGAGTTGTCCCCATAAGTACTCTCACCGTCAGGTGAAACATTGTGATTAGCCGAAGAAAGTTC
CCAGCTCAAAGTACCGCTGGAATGGTCAAGATCCATACATAAAGCGATGTTTTTGGTCGAAATGG
AGCCAAAAACCATGTGAATAGCAGTCATAACTAAGACGATTGTACTACTTGAAAAGGCCATGGAC
AGGCGTTCTGTGAGAAAGTCTCGGTAAAAGAGGAGGAGGTTGCTCAAAAAAGAAAAAAATCAGAA
TGAGGAAGAAAAATAACTATGTAAGTCTTTTTTTCCTGGAACCATATCAGGAAACATCTGAATTA
ACAAAGGAATTTGGAAACGTAGGATAGTCAGAGCTAGAACAATCATTTTCTATGGGTCATTCTTT
AACTGTGCTTCCCCCAACAAAACAAGAGGAAAGACTTTCTTACTAAACGAGAGCTTTTGTTGGTT
GTTGACCAACGGGGAGAAAGATGCATAAACACGCTAACGCATTTT
Right flanking sequence: Indices 158361 -- 158860
ATAGGCTTTCGCGCTAGCGCGCCCCCCAGTACTAATATAATATAATATAATAATAGGGCGTTAGC
CGTTGCTTGTTTCGGTCGAGCATCCTTGAACCTCAAAGAGAATGTATTTTACTTAAAAATTGCTC
ATTCTTTAGGCGCCCAAGCCCATTGAGCGCCGGCTCTTGTGAAAGCGTACATCACATCCTTCCCC
ATCGAACTCAGGAAAGCTTTAGCTTCCCAATCTGACGTGTACACGTCTTTGAAGATGCCGAGCTT
CTATAGCCACATGGCAATGAAAACCCCATCTTCTTCTTGTGTCACTACAAGACGCTTACAAGAAA
CTACATTCTCGTCTCCTTTGTGAAACTTGTAAGATAAAGGGGTGCTTGAAGAATTGGGGAACTCT
GCACTGATGAACTATCTCAAATTAAAATCTTTTACCCAGTGATGGGCTGAACTAGGCCCAGCATG
ATGAAAGATATGGGCAAGATTTTATTACATACCTCTCCTATCCAT
Found at i:159403 original size:5 final size:5
Alignment explanation
Indices: 159394--159423 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
159384 CCTTTTCATT
*
159394 CATAA AATAA CATAA CATAA CATAA CATAA
1 CATAA CATAA CATAA CATAA CATAA CATAA
159424 GGGGATTCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.63, C:0.17, G:0.00, T:0.20
Consensus pattern (5 bp):
CATAA
Left flanking sequence: Indices 158894 -- 159393
AATAATGAGTCATGTCCTGCTAAGATGTAAGATGTCAGTCTTCCCATCCAAGTCGGGTGTAAGAT
TCAATAAATGACTGAATTGCTCCCTTTCCTGTGTGACCCGCTCGGTCAATGATGCATTTTTTTAT
CTTAGGCATCCATGACTGGATGATAGGGACTATTGGATTAGCCATCGCCAGACGAGCCGTAAGAA
TGCCTTCTGGAAGGGGTCTTTCCGGGTAGGCGGGGGCGGGTTAGCCCCCGTGCAGGACTAACCCT
GCGGCTATGTACTCCCTCCGTTTGAGCTATTTTTACCTGCGATTTCTAAATTTATCTCCTCCAAT
CGTCGTGGATTTCGCCCCATCATTCGCTATCGTGACTCGACCACACCCTCTAACCTTGCCTAGAA
GCAGGATTCTCGGACTGTGCTTTGCTTTTAACTGAAACTCATTCGGGTCATCCCAGATCGAAGAA
AGAGGTTGAAAAATGCGGCCTGATAAGCTGACTTTCCTTTTCATT
Right flanking sequence: Indices 159424 -- 159923
GGGGATTCCATGGAAATGGGGCCTCCATGGGGAATGTGCTCCGATCCGAGGAAAAGAATAGGGAA
AAGAAGCTCTTTTACCTTGTTCAATGGAGGGCAACTAGATCCTTTTTTCGCGGATGGAAGGCCAG
CTGGGTGAAGTTAGGTTTTTGGCACTCCAAGGCAAGGTGCGGATCGGTTCTTTATCTTATCATTG
CCCTCAGGCAAGTAACTGAACTTCAAGCTGGGGAAGCAAATCACATATAGAAAGAGTAGGCATCG
AATGCGACGCTGTTGTCGGCATTTCCGCTCTTTGCATGTTAGCACTTTTACCTGACCCTTCGTCA
CTGCTTTCTGATCATGTGGATGCCGCTCTTAGAGAATCCGCGAAAGGAAAGGACACTGTGAGGGA
GAGGGATATGGAATCAGCTGCACATGAAGCTGTGGGACTTGAAGGAAGAGAATGCCCCGTTAGAA
TGGGCAGGGACAGTCGATCATTGGCTTAATTGCCTCGGTTTTGGG
Found at i:171396 original size:21 final size:20
Alignment explanation
Indices: 171368--171407 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
171358 ATGAATTTCG
*
171368 ATATTTTCTTATTATTCTTA
1 ATATTTTCTTATTAGTCTTA
*
171388 ATATCTTTCTTTTTAGTCTT
1 ATAT-TTTCTTATTAGTCTT
171408 TTTAGCATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.20, C:0.12, G:0.03, T:0.65
Consensus pattern (20 bp):
ATATTTTCTTATTAGTCTTA
Left flanking sequence: Indices 170868 -- 171367
GTTTTTCCGGGGAAGCGGTTTCCAGCCGAAGATCCCCCTCAATATCGGCTAAAAAGTCGGTTCGC
GGTTTTCTATGGCCCCGCGAAATGGAACGGAATACGCGGAGAATTTTAGTTCTTAAGAAGTCAAT
AGTAGGGGCTTGCGGCTCCATGACCTCTATTGGTGCTTCGTTCCCCCCCAGGTTTTGGTCGACGG
CTGCCGGCTCCATGACCCCTATGGGGAGATTGGGAGCCTCCCCTCCTTCCTGCGGTAGGTTGGCA
GGGAACATAGAATGAGAAAAATCTTGGGTTTCTCCGGAAATCACACGCAAAGCAAAAGAAATAGA
TAAGACAAGAAAACCAGAAAACCCTACTTTTAGTAGGAGTACAGAGAGAGCTCGAACCCCTAGAG
AAAGAGTAGCCTTCAATAAAATAAGAAGGCATGAACGAACTCTAATTGTCCGATGCTATATCCAA
GAAAAAAGAAGAAGATACATAGTAGTTAAACAAGGATGAATTTCG
Right flanking sequence: Indices 171408 -- 171907
TTTAGCATACTGTGTACTATCATCTTCATTATTTGAACTTTTTTCTTGAGTCTGTGTACTATCAT
CACCATTATGGGAACTCTTTTCTTGAGTCTGTGTACTATCATCTTCATTATGGGTACTATCTTCA
CGGGGAATATCATCTTTATTCAGGGAACTCTCATTCTGTAAGGTATTTTGAGCATTCTGGGTACC
ATCATTTAGGTTTGATTTAGTCTGTTCATCCTGGATACTGTTCGATTCTTTTTGATCATTTAAAT
ATTTATTGTAAAACTCATTCCAAAATCGGATTAATTCCATCTTAATATTATCTTTTCCAGGGGTT
TTTTCTATTGATAATTCAATCCAATCATTATGGATCATTTTATTATACTTATACATGGCGTTCCA
ATTCTTTTTTCTTAGATGTAAAACTTTGGTTTTTGCTGAAATTCATTCTTTTTCCCTTCTGTAAC
AGAACTTCGATACCTTCGGTAATAGGAATGATTCTTTTCAGTAGT
Found at i:171464 original size:42 final size:42
Alignment explanation
Indices: 171417--171526 Score: 175
Period size: 42 Copynumber: 2.6 Consensus size: 42
171407 TTTTAGCATA
** *
171417 CTGTGTACTATCATCTTCATTATTTGAACTTTTTTCTTGAGT
1 CTGTGTACTATCATCTTCATTATGGGAACTCTTTTCTTGAGT
**
171459 CTGTGTACTATCATCACCATTATGGGAACTCTTTTCTTGAGT
1 CTGTGTACTATCATCTTCATTATGGGAACTCTTTTCTTGAGT
171501 CTGTGTACTATCATCTTCATTATGGG
1 CTGTGTACTATCATCTTCATTATGGG
171527 TACTATCTTC
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.20, C:0.19, G:0.15, T:0.45
Consensus pattern (42 bp):
CTGTGTACTATCATCTTCATTATGGGAACTCTTTTCTTGAGT
Left flanking sequence: Indices 170917 -- 171416
TAAAAAGTCGGTTCGCGGTTTTCTATGGCCCCGCGAAATGGAACGGAATACGCGGAGAATTTTAG
TTCTTAAGAAGTCAATAGTAGGGGCTTGCGGCTCCATGACCTCTATTGGTGCTTCGTTCCCCCCC
AGGTTTTGGTCGACGGCTGCCGGCTCCATGACCCCTATGGGGAGATTGGGAGCCTCCCCTCCTTC
CTGCGGTAGGTTGGCAGGGAACATAGAATGAGAAAAATCTTGGGTTTCTCCGGAAATCACACGCA
AAGCAAAAGAAATAGATAAGACAAGAAAACCAGAAAACCCTACTTTTAGTAGGAGTACAGAGAGA
GCTCGAACCCCTAGAGAAAGAGTAGCCTTCAATAAAATAAGAAGGCATGAACGAACTCTAATTGT
CCGATGCTATATCCAAGAAAAAAGAAGAAGATACATAGTAGTTAAACAAGGATGAATTTCGATAT
TTTCTTATTATTCTTAATATCTTTCTTTTTAGTCTTTTTAGCATA
Right flanking sequence: Indices 171527 -- 172026
TACTATCTTCACGGGGAATATCATCTTTATTCAGGGAACTCTCATTCTGTAAGGTATTTTGAGCA
TTCTGGGTACCATCATTTAGGTTTGATTTAGTCTGTTCATCCTGGATACTGTTCGATTCTTTTTG
ATCATTTAAATATTTATTGTAAAACTCATTCCAAAATCGGATTAATTCCATCTTAATATTATCTT
TTCCAGGGGTTTTTTCTATTGATAATTCAATCCAATCATTATGGATCATTTTATTATACTTATAC
ATGGCGTTCCAATTCTTTTTTCTTAGATGTAAAACTTTGGTTTTTGCTGAAATTCATTCTTTTTC
CCTTCTGTAACAGAACTTCGATACCTTCGGTAATAGGAATGATTCTTTTCAGTAGTCTCTACCCC
GGCTCCCTCAGAGTTGCATTTATACTTAGCACCTGCTATGAGAGGTACTCGGTAACACTAATCCG
AATACATACAGCTGGTGAACGGCATTGAATAGATTTATCTTCCTT
Found at i:172847 original size:17 final size:17
Alignment explanation
Indices: 172825--172859 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
172815 TCGAGAACAG
172825 TAGCAAGAGTGAATGAA
1 TAGCAAGAGTGAATGAA
172842 TAGCAAGAGTGAATGAA
1 TAGCAAGAGTGAATGAA
172859 T
1 T
172860 GGCGGATTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.06, G:0.29, T:0.20
Consensus pattern (17 bp):
TAGCAAGAGTGAATGAA
Left flanking sequence: Indices 172325 -- 172824
GTTCTGGGTATAGTGATACAATCTATTGGGTCTAGTCATACTACTAGTCATACTAAAAGGGTAGG
TGTAACGGTACTTTTCTTACCCGGTGAATTGATTGCTGTCCCTCTGGCATAACCCCATCACCGAA
GTGATCAAGCAAGTGACACTAGTTATAAGGGTAGAAAAAAAGAGCTTCTAGAAAGAAAATGAAAG
ATTTTTTTTCCCTATTTAGTTTAAGTCCTATCCAATCCAGTTCAAGTGCTAGGGTAAAGCTATCT
AAAGGAGCGAGAGAATGGGTTGGCGAGGTTTCCCTTGCCTACGATCTTTCCCCAAGAGTGCCCTA
ATATAGAATACGAGTAAGAAGACTAGGCCTATTAGTTCTCCCCATAGGAGAAGATAAAACCTAGC
AGTTCTTCCAATGAAAGACTAGCAGTTAGCGAGCCAGCTAGATAGATAAATGGCAAAAGATTAAA
TTCTTTCATTCAAACCTGAACTCGAAAGAGCCTATTCGAGAACAG
Right flanking sequence: Indices 172860 -- 173359
GGCGGATTCGCTCTCAAAAGGTCCTTCTCATCTTGAAAAGCCAAATCATCGTCCGCATGCGAATC
CTTCTCTTCAAAATCGTGGTATTCTCTTCCCAACAGCTTATTCTATTCCGAATTCCTACTCAATG
TAGTGCACTCGCTCGCCTTCGGGTGAGAGAAGAGTTCTTGCTTCCTCCTTTGCTGCTTTGCTACC
TTGCTAAGAAGTTAAGTTCTATGGTGACTGTCCTAGGTGGGGATTAGAGACTAACTTCCTTCTAT
TGCCCAGTGAGAGTCATCTTCAAGAGCATCAAGCTACTCACTGCAGTAGTTTAGTCTAGTGGCTG
AACCCTCCTTTCCCTCTCGCTATGTGAATAGCCCTATTTAGTTTAGCGGAGTTAAGCTTAAACAG
CTTCGCTTCCTTAAAAGAAAAAGGAAAAAGACGATGTTAGGAATCGATTGAATCACTGATTGCTT
TCTGTTGCTTTGCTTTCTCTTCTAGGAAAGGTAAGAGTGACTCTT
Found at i:196867 original size:5 final size:5
Alignment explanation
Indices: 196857--196886 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
196847 AACGCCCTAT
196857 TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA
196887 GTACTGGGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Left flanking sequence: Indices 196357 -- 196856
AAGGCCATTTCTGTCCACCGCCCTTCTCACGGAGCCGTACGTGGACGTTACCGCTCATACAGCTC
CCAGCCGGCAAGCAGTTAGCCTCCCTCTACAAAGAATGGAAGTATGGATGAATCGACATCAAATA
AAATAGAGGAATTAGGTTTTTCTTTTCAGCAATAACATGATAAGAGCATCCCTTTCACAAAAACC
TACGGGTCCTCCCCCCTATCCTGCCTGCCACTTCAGCACCTTGTGATCTTTGAGAAGATCATTAC
GAGCCCTCTCCTAGAATGTTTTTGTAGATTCCGAAAATTCCACGGTGGATCAGGATGAGTATGTC
CTGGATTCCCGGATTCATTCTCATCCTGGAGCTTCTGCTCTCCTCCGGGGAGGGGTTTTTATAGA
TAGAGAGGTGAGTCGAGGGTAGCCCCCCGCTTGACCGATTTCTCGGAATCAGAGGAGGTTTGAAG
ACGCTCGCTATTTAGTAAAGCAACAAGCAACGGCTAACGCCCTAT
Right flanking sequence: Indices 196887 -- 197386
GTACTGGGGGGCGCGCTAGCGCGAAAGCCTATTAAAGTTAAAGTAAAGTAAAGAAAGTAAAGAAA
ATGCGTTAGCGCATCCCTTGATCTCCGCCTAACCGGGGCTAGGCTAGTTTCAGTTTTTGGTTCCT
GACTTGATGGGATGGGAGTCACAAGGCTTTAAAGAAGGCCGAGGAGCGGGGTTGAACGAGATTCG
CTTTGGTTCATTTACCTTGCTCATATATCAAGGCTGAGTCTAACTCCTTATTTATGTTATGTCTC
GGAAAGACAGATGTGCTTTCTGATACACTGGACTAAGGTGACTAACCCACAGGACCAGAGATGAG
ACAGAGACTGAGACAACGATTTGTCGAAGACACTGTGCCCGAATCAAGGAAAGCAACTGTGCCTG
AGAAGAAAGAAAGAGATATTGATTTTTAACAGCCTTTAATGCAATGCGTCTTGCTTAGGTTTAAG
CAATTGCCAGTATAGTTGCTGTTCTTATGCCGCTATTAGTAGATC
Found at i:202938 original size:4 final size:4
Alignment explanation
Indices: 202929--202967 Score: 55
Period size: 4 Copynumber: 10.2 Consensus size: 4
202919 TTACCCACCT
*
202929 TTAA TTAA TTAA TT-A -TAA TTAA TTAA TAAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA T
202968 AAAGGGCTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 1 0.03
3 2 0.06
4 28 0.90
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (4 bp):
TTAA
Left flanking sequence: Indices 202429 -- 202928
GATGCTCATGGGCCCGTTGCCTGTTATGAATAGAACCTTAGAGAAGGCGAGACCGAATAATCAAA
ACAAAATCAAAGGTCTTCTCCCTACCCTAATGCTTGTCGTGGGATTACTTGATGTAATCGTAATC
TTTGGTTCAGGCGAATCATTTGATAAAGAAAGAAGACATTCTAGGTATAGGGCAGCTGAAAAAAG
AGAGAAAGATATTATATATCCTAATCAATGCTTTGAGACCTAGTTCTCCTTTTTTTTGCATTCCG
TCCTAGTCAATGAAGCTTTAGGTCAATCAGGCTACTGATTGATTTTTGAATGAAGTCTTTGATTC
GGCATCGAAGTAAGCGTAGAGGAGATTGGTCAAGCTCATGCATCGGTTGAAGTGATTGAGTAGTC
CCGTCTCGGGCTATAAAAAGATAGACTCTTCTTGACCCTGCCTCTGAAGGTCTTCGCCTATTGCA
CCGGTCTGAACATCAAGATATAGCTTATATCGAGTTTACCCACCT
Right flanking sequence: Indices 202968 -- 203467
AAAGGGCTTCCATGACAATGAGGTCCTTCTTGCATGGGCTTGGGCTCTTATGGGAATGAAAGGGC
ATAAAACGAATGTCGATTGGTCTAATTCGAAGAAAGAACTGGTTCAACGGATTCGGATTATTCTA
CTTTAGATGCTTCGGATGCTTCCTCGGCCGCGCAGTACGTACTTCTGTTTGGAGAGTCTGTTCCT
TACTTAGCTAGGACTTTGAGTGACTAGAGTAGCCCCTCTGTATCCGAAGGCGCCTTTTTGTTTAT
GCACCTGAAACGGCTTCCGATTTGACTTATAGTAAAGTGGATCGACCCCGTTCAGTAGAATTACG
AAGAAAGCTAGGCTTCTTGAACCAGAGCTAATTCGATCTTCCCCTTTCGACAATGTGTTTGAATA
GCAAGCAAAAGTACCACGACCGAACAATTCAATTCGGTTAACAAACTACTTCTAGAATGAACTAC
ATCCATCAACCGGCATACCTTTCTTCTCGTAACTACGATCTGTCT
Found at i:202962 original size:12 final size:12
Alignment explanation
Indices: 202931--202970 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
202921 ACCCACCTTT
202931 AATTAATTAATTA
1 AATTAATTAA-TA
202944 TAATTAATTAATA
1 -AATTAATTAATA
202957 AATTAATTAATA
1 AATTAATTAATA
202969 AA
1 AA
202971 GGGCTTCCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 14 0.54
13 2 0.08
14 10 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
AATTAATTAATA
Left flanking sequence: Indices 202431 -- 202930
TGCTCATGGGCCCGTTGCCTGTTATGAATAGAACCTTAGAGAAGGCGAGACCGAATAATCAAAAC
AAAATCAAAGGTCTTCTCCCTACCCTAATGCTTGTCGTGGGATTACTTGATGTAATCGTAATCTT
TGGTTCAGGCGAATCATTTGATAAAGAAAGAAGACATTCTAGGTATAGGGCAGCTGAAAAAAGAG
AGAAAGATATTATATATCCTAATCAATGCTTTGAGACCTAGTTCTCCTTTTTTTTGCATTCCGTC
CTAGTCAATGAAGCTTTAGGTCAATCAGGCTACTGATTGATTTTTGAATGAAGTCTTTGATTCGG
CATCGAAGTAAGCGTAGAGGAGATTGGTCAAGCTCATGCATCGGTTGAAGTGATTGAGTAGTCCC
GTCTCGGGCTATAAAAAGATAGACTCTTCTTGACCCTGCCTCTGAAGGTCTTCGCCTATTGCACC
GGTCTGAACATCAAGATATAGCTTATATCGAGTTTACCCACCTTT
Right flanking sequence: Indices 202971 -- 203470
GGGCTTCCATGACAATGAGGTCCTTCTTGCATGGGCTTGGGCTCTTATGGGAATGAAAGGGCATA
AAACGAATGTCGATTGGTCTAATTCGAAGAAAGAACTGGTTCAACGGATTCGGATTATTCTACTT
TAGATGCTTCGGATGCTTCCTCGGCCGCGCAGTACGTACTTCTGTTTGGAGAGTCTGTTCCTTAC
TTAGCTAGGACTTTGAGTGACTAGAGTAGCCCCTCTGTATCCGAAGGCGCCTTTTTGTTTATGCA
CCTGAAACGGCTTCCGATTTGACTTATAGTAAAGTGGATCGACCCCGTTCAGTAGAATTACGAAG
AAAGCTAGGCTTCTTGAACCAGAGCTAATTCGATCTTCCCCTTTCGACAATGTGTTTGAATAGCA
AGCAAAAGTACCACGACCGAACAATTCAATTCGGTTAACAAACTACTTCTAGAATGAACTACATC
CATCAACCGGCATACCTTTCTTCTCGTAACTACGATCTGTCTTCG
Found at i:219295 original size:5 final size:5
Alignment explanation
Indices: 219285--219319 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
219275 AACGCCCTAT
219285 TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA
219320 GTACTGGGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Left flanking sequence: Indices 218785 -- 219284
ATTCAATCCCCTCTCACCCACACGGGTTCTTCTATGGAAGGGGTTCCCCTTCTTCTATGTGAGGT
GGGGCGTACGTAAGAGCGGAACCTAAACGCGGAGCGCCGGCCCCGGCCGCCGATACAGTTACCAT
GCTTACCAGCTCTTACCATTGCCGCCTATAGATATAGATGGAAGGTAGCTTGCTTCTCTTCTCCT
AGGCGGCTACCTGCACATTTTCTTCGCGAAGAAAAGGCAGCGAGCGGTTCTTCGCTTAGTAGAGC
TACCGGCCGCCGGTTACTTTCTGAGGGGCTCCGCAGGAGAAAAAGAAGGTCCCCCTTACTCTTCT
CTCTTAAAGCTTTATAAAGCTCGGCGAGAAAGGGTTGGTTAAGAACTATTGACTGTAAACCATAG
CAGTTACAGTCACTCAATGGAAATGTTCGCCTTTGGAATGAAGATGGATGAGCAGAGGTTTGAAG
CCGCTCGCTATTTAGTAAAGCAACAAGCAACGGCTAACGCCCTAT
Right flanking sequence: Indices 219320 -- 219819
GTACTGGGGGGCGCGCTAGCGCGAAAGCCTATTAAATCTAAATCTAAATCTAAATCTAAATCTAA
ATCTAAATCTAAAGTAAAGAAAATGCGTTAGCGCATCCGTTTTCTTGCTGGGAGAGGAAAGCCTG
GAACTGATGAAATTCGGGGGAAACATGGAATCGGTCACTATACTGGGGGGGCGAGACATGACCGC
GACTTAAGATTCAAGTACCGTTGAAAAGACTAAAGGAACGGGGGGAATGACTACCTGTAATAAAG
CACAGGCTAATACGAGCCGACCAGAACTTAGATTACCAGATCCTGGACACAATCTTCCTAGAGAT
GGAGAGCCCCTTGCCCCGCCCTTTCTAGCCTCTCCTTCTTGCTTACCTAGCTCTTGTCTTAGTGA
CTCTTCTTATTTTTTTTATAGGTTTTTTTCTGAGTGTTAAAACAGTATATTTTTCATTTGCCAAT
GAATTGGATCCGCCCCGATTCGATCAATAATGGGATTCTTGGCTA
Found at i:219363 original size:6 final size:6
Alignment explanation
Indices: 219352--219397 Score: 92
Period size: 6 Copynumber: 7.7 Consensus size: 6
219342 GAAAGCCTAT
219352 TAAATC TAAATC TAAATC TAAATC TAAATC TAAATC TAAATC TAAA
1 TAAATC TAAATC TAAATC TAAATC TAAATC TAAATC TAAATC TAAA
219398 GTAAAGAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (6 bp):
TAAATC
Left flanking sequence: Indices 218852 -- 219351
GGCGTACGTAAGAGCGGAACCTAAACGCGGAGCGCCGGCCCCGGCCGCCGATACAGTTACCATGC
TTACCAGCTCTTACCATTGCCGCCTATAGATATAGATGGAAGGTAGCTTGCTTCTCTTCTCCTAG
GCGGCTACCTGCACATTTTCTTCGCGAAGAAAAGGCAGCGAGCGGTTCTTCGCTTAGTAGAGCTA
CCGGCCGCCGGTTACTTTCTGAGGGGCTCCGCAGGAGAAAAAGAAGGTCCCCCTTACTCTTCTCT
CTTAAAGCTTTATAAAGCTCGGCGAGAAAGGGTTGGTTAAGAACTATTGACTGTAAACCATAGCA
GTTACAGTCACTCAATGGAAATGTTCGCCTTTGGAATGAAGATGGATGAGCAGAGGTTTGAAGCC
GCTCGCTATTTAGTAAAGCAACAAGCAACGGCTAACGCCCTATTATTATATTATATTATATTATA
TTATATTATATTAGTACTGGGGGGCGCGCTAGCGCGAAAGCCTAT
Right flanking sequence: Indices 219398 -- 219897
GTAAAGAAAATGCGTTAGCGCATCCGTTTTCTTGCTGGGAGAGGAAAGCCTGGAACTGATGAAAT
TCGGGGGAAACATGGAATCGGTCACTATACTGGGGGGGCGAGACATGACCGCGACTTAAGATTCA
AGTACCGTTGAAAAGACTAAAGGAACGGGGGGAATGACTACCTGTAATAAAGCACAGGCTAATAC
GAGCCGACCAGAACTTAGATTACCAGATCCTGGACACAATCTTCCTAGAGATGGAGAGCCCCTTG
CCCCGCCCTTTCTAGCCTCTCCTTCTTGCTTACCTAGCTCTTGTCTTAGTGACTCTTCTTATTTT
TTTTATAGGTTTTTTTCTGAGTGTTAAAACAGTATATTTTTCATTTGCCAATGAATTGGATCCGC
CCCGATTCGATCAATAATGGGATTCTTGGCTAGAAGAAAGGTTCTGTGACATGGACGCCCAGCCC
AACAAAACTCGGTCGGTCGGTTGGCCTACCTAACAGATGATAAGA
Found at i:225611 original size:17 final size:17
Alignment explanation
Indices: 225585--225619 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
225575 AGACAGACCT
225585 AAGGAACGAAAAAGAAA
1 AAGGAACGAAAAAGAAA
* *
225602 AAGGAGCGAAAACGAAA
1 AAGGAACGAAAAAGAAA
225619 A
1 A
225620 GAAGGAAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.66, C:0.09, G:0.26, T:0.00
Consensus pattern (17 bp):
AAGGAACGAAAAAGAAA
Left flanking sequence: Indices 225085 -- 225584
AGATATGGCAAGCGGTTCGAGTCAAGTGTCAGTTAAAGAACCAATTGTTGGCAAGAGTCACAAAT
ATGAAGTAAACGACTTGGTCTCTTCTGGAGAGTTAGACAAAATCAAGTATCCTTCTGTATAGGGG
AAGGAAAGGCTCTCGCACTAGTTGTTCTGTAAGAAGGGCTTTCATTAGCGTGAGAAGGCGGGTTT
TCTGGATGTTGGCAAATGGGCATGCATGAGAAGGAGCATCGTTCCATGCTGGAGATCCTTTACTA
AACCCCTACCCTAACCATTATCAGAGCCTACCATGAACCACGCTTTGTTTGTTTTTCTTTTTTGG
GTTGTGCGAGCTCCGGCTACCGCTGGGGAGAGGGAAAGTTACGGAGCTACGCACTGGCGGATAGA
GACCAATAAGGACACCTAAAGATGAAGCAGGACGCCACACCAGATAAGAGAAAGATCAAAGCCCG
AAGCCAGCAAAAGGAGTCCCAAGATCCGCCGAAGGAGACAGACCT
Right flanking sequence: Indices 225620 -- 226119
GAAGGAAAAGAGGGGAAAGGGACAATAGGCTGGGGCCAAACTCCCCCGACACCGATGAACTAACG
GCTATAGATGGATACCGGTATCGCCAGCAAGCTTCATTCTCGAGGAGCGGGTTCAGTCCCTCGAG
ATTGGAATCAAGCATGTTGGTGATGAATTGAGGGAACTGAACTATATGTGTGTTAAGCAAAGCAG
TTCTGGTCCTCCATTCGTTGGGCTCTTCGTGACCCTATCAGTCGGCTTGCCACTAATACAATACC
CAACAACCGCGAAAGAAAGTACACCTTCACGCCCTTCTACCGCTTTTTCTGAACGCAATTACTAG
CTTACTGTCCACTTTCCTTCCCCACTTAACCGCCCTGGTCCTCGATGTATCGATGCCTTTCTTTA
CTTGATGAGCGGATAGGCACTTCTTATTTTTTTTAAATTTGTGTCGAGGTACTTTGGATTCGGCT
TGTTACCGCATCACTCGCGCCGCCAAGCTTGCCTCTCGGGTAGGG
Found at i:227100 original size:6 final size:6
Alignment explanation
Indices: 227089--227143 Score: 110
Period size: 6 Copynumber: 9.2 Consensus size: 6
227079 CAGGCCAAAC
227089 GCCTTA GCCTTA GCCTTA GCCTTA GCCTTA GCCTTA GCCTTA GCCTTA
1 GCCTTA GCCTTA GCCTTA GCCTTA GCCTTA GCCTTA GCCTTA GCCTTA
227137 GCCTTA G
1 GCCTTA G
227144 GGCAACCAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.16, C:0.33, G:0.18, T:0.33
Consensus pattern (6 bp):
GCCTTA
Left flanking sequence: Indices 226589 -- 227088
GTTGGGAATGACCTCCTTTTCAAATGAGGCCATATCCATTCGACTAAACAACTCGTTGTTTTCGT
CGAAACAATACCTAACTCTTGGGTACCACAGTACACCTAAGAATAAGAATGAGGGTCTTTTACTT
CCTTCTGTTACCTTTCGGTACCATGAATTCAGTTCAAAAGGCAAGGAACGTAGTAACTCGACTGT
AAGGAGAGGACCGAAAAGTCCTCTTCGTACCTCTCAATTTGATTGACCTCACTGAAACCGGTTTA
GCTAGTTTTATCAACACCCTGATGAGGTCCTTTATGTATGGACCCCAAAGGAGGGCACCCTCAGG
TGTCAAACCAAAAGGAACTATCGGTTTACAAGACCGGTAGGCCAGGTTGGCTCTAGCATAAGGAG
TCAACTCACAAAACATAAAGAAAGCGTTTTGCGGGACTCACAGAGTAGAGATGCCTGAGAGGTAT
CCGTAATCGCTGCAGCGACTAGGACATTGGCTTAACAGGCCAAAC
Right flanking sequence: Indices 227144 -- 227643
GGCAACCAAATCGAAAACCTTCCAGACAAGGCCGAACCGGACCAACTGAGAGTCGGTCGATTCAA
CCTGCCATTTCCGGTTCACGAATGGTGCGTCTAAGATATCCTGGATGGTTACGCCTGGAGATACT
GCAACCATGTAGTACCACTTGACGTAGTTAAGCCATTGTCGGACCCACGACCTTAAGGTTGTGTA
CTCCGCGAACTCACGACTACCATCGGCCTCGTCAGGATAGAGGCACAGGTCCTTTGGAGCCATTT
CCCTGCGGAGAAAATTTACAAGGATTCCTTACTCTAACAAGTAAGCAAGTCAACTACCTTTAGGA
ATTGAATTTCCATTCTTCGAAATCCCCCTCCTCTTCTCTGAAGGCAGTCGAGGGAAGCGGGTTAT
GGGGTGGGCTGCTAAGGCCCGGGGAGCAGAATCGGGTCAAACATCGATAGGGAGAAAGAGGTAAA
TGACTCTTCCTTTCCTCCCGATTGGCAATGAGATCTCTTTATTCT
Found at i:229702 original size:5 final size:5
Alignment explanation
Indices: 229692--229721 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
229682 AACGCCCTAT
229692 TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA
229722 GTACTGGGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Left flanking sequence: Indices 229192 -- 229691
CAGTCAGTCAGTTACAAGTGAGAAGAAGTCAGGTTCCAAAGACTCATCACAAATATCGTAGGTGA
TATCCGAAACCGCTGATGTTAGGATTAAGGAAGTAGACTAGAATCTCGGAACCAAGCTCAACGCG
GCATGTTCCGGTATTGCCAATACAGTCTTGTCCAGTAACCCGCTAGAACGATGAAGCCAGTGTCC
TCACTGATGAATCCCGTGGAACCTAGTATAGGATCTCGTCTGAGGATCCTCGGCATTCTGAGTGG
ATGTATGATTCTAGTCGAAAGCCCTAATCCATTAATCACAAAAGAAGCGCATCAGTACAAGAAGG
CGGATCTTGATCCTGCAAGTGGAGTGGCTCTCCATACTACAGAGGTCGCTTGGGAGCACATGCCT
ATCTGTTTACTGTTCGATTCTAAAAAGAAATCATAAGAGAAGCAAGGTCCACAGAAGGTTTGAAG
ACGCTCGCTATTTAGTAAAGCAACAAGCAACGGCTAACGCCCTAT
Right flanking sequence: Indices 229722 -- 230221
GTACTGGGGGGCGCGCTAGCGCGAAAGCCTATTAAAGTTAAAGTTAAAGTAAAGTAAAGAAAGTA
AAGAAAATGCGTTAGCGCATCCGTTTTCTTGCTGGGAGAGGAAGGGAAGTAGTACGCCCGGTTCA
CCAGGTTCTACCACTGCAGGGCCCAATCATACTCAAAAGAAGAGTTTGATCCTGGCTCAGAAGGA
ACGCTAGCTATATGCTTAACACATGCAAGTCGAACGTTGTTTTCGGGGAGCTGGGCAGAAGGAAA
AGAGGCTCCTAGCGTGAAGGTAGCTTGTCTCGCCCAGGAGGTGGGAACAGTTGAAAACAAAGTGG
CGAACGGGTGCGTAATGCGTGGGAATCTGCCGAACAGTTCGGGCCAAATCCTGAAGAAAGCTAAA
AAGCGCTGTTTGATGAGCCTGCGTAGTATTAGGTAGTTGGTCAGGTAAAGGCTGACCAAGCCAAT
GATGCTTAGCTGGTCTTTTCGGATGATCAGCCACACTGGGACTGA
Found at i:231227 original size:6 final size:6
Alignment explanation
Indices: 231216--231267 Score: 104
Period size: 6 Copynumber: 8.7 Consensus size: 6
231206 TTTTCTTTAC
231216 TTTAGA TTTAGA TTTAGA TTTAGA TTTAGA TTTAGA TTTAGA TTTAGA
1 TTTAGA TTTAGA TTTAGA TTTAGA TTTAGA TTTAGA TTTAGA TTTAGA
231264 TTTA
1 TTTA
231268 ATAGGCTTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (6 bp):
TTTAGA
Left flanking sequence: Indices 230716 -- 231215
TGGATCAGGGGCCCAGCTAACGCGTGAAACACTCCGCCTGGGGAGTACGGTCGCAAGACCGAAAC
TCAAAGGAATTGACGGGGGCCTGCACAAGCGGTGGAGCATGTGGTTTAATTCGATACAACGCGCA
AAACCTTACCAGCCCTTGACATATGAAAAACAAAACCAGTCCTTAACGGGATGGTACTGACTTTC
ATACAGGTGCTGCATGGCTGTCGTCAGCTCGTGTCGTGAGATGTTTGGTCAAGTCCTATAACGAG
CGAAACCCTCGTTTTGTGTTGCTGAGACATGCGCCTAAGGAGAAAGTCTTTGCAACCGAAGTGAG
CCGAGGAGCCGAGTGACGCGCCAGCGCTACTAATTGATTGAGTGCCAGCACGTAGCTGTGCTGTC
AGTAAGAAGGGAGCCGGCGCCTTTCGAATTCGAAGCACTTTCTAGTGTGCGCTGTTTTTTGATTG
CAGCTAGCGAGCAAGAAAACGGATGCGCTAACGCATTTTCTTTAC
Right flanking sequence: Indices 231268 -- 231767
ATAGGCTTTCGCGCAGCTCAATCCCTTGCTTGTTGCTTTACTAAATAGAAAGGGCTTTTCTCGCT
TGTTTAGTAAAGTCCAGTTTTTGGCCTTATCTTGCAGGTGACGACGACGTCGAGTTGGCGGCGGA
GAAAGACTCGGCATTCAGGCGAGCCGCCCGGTGGTGTGGTACGTAGTGGGTTTAGTACGCCCCGC
CAAAACGGCTCCGAAACAAACTAAAAGGTGCATGCCGCACTCACGAGGGACTGCCAGTGATATAC
TGGAGGAAGGTGGGGATGACGTCAAGTCCGCATGGCCCTTATGGGCTGGGCCACACACGTGCTAC
AATGGCAATTACAATGGGAAGCAAGGCTGTAAGGCGGAGCGAATCCGGAAAGATTGCCTCAGTTC
GGATTGTTCTCTGCAACTCGGGAACATGAAGTTGGAATCGCTAGTAATCGCGGATCAGCATGCCG
CGGTGAATATGTACCCGGGCCCTGTACACACCGCCCGTCACACCC
Found at i:232117 original size:6 final size:6
Alignment explanation
Indices: 232106--232139 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
232096 TTTTCTTTAC
232106 TTTAGA TTTAGA TTTAGA TTTAGA TTTAGA TTTA
1 TTTAGA TTTAGA TTTAGA TTTAGA TTTAGA TTTA
232140 ATAGGCTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (6 bp):
TTTAGA
Left flanking sequence: Indices 231606 -- 232105
ATGGGAAGCAAGGCTGTAAGGCGGAGCGAATCCGGAAAGATTGCCTCAGTTCGGATTGTTCTCTG
CAACTCGGGAACATGAAGTTGGAATCGCTAGTAATCGCGGATCAGCATGCCGCGGTGAATATGTA
CCCGGGCCCTGTACACACCGCCCGTCACACCCTGGGAATTGGTTTCGCCCGAAGCATCGGACCAA
TGATCACCCATGACTTCTGTGTACCACTAGTGCCACAAAGGCTTTTGGTGGTCTTCTTGGCGCAT
ACCACGGTGGGGTCTTCGACTGGGGTGAAGTCGTAACAAGGTAGCCGTAGGGGAACCTGTGGCTG
GATTGAATCCTTCGCGATGGAAAGTGCCCTCTTCCCCCAACCTACGGGGCTAGCTTGCTGGAATG
CGGGCGGGCTTTGGGTCCAAAGGACGGACACCGGGGGCGAGTCAAAAAAGAAAATCGTTCCATTT
TCCTTTCCCAGCAAGAAAACGGATGCGCTAACGCATTTTCTTTAC
Right flanking sequence: Indices 232140 -- 232639
ATAGGCTTTCGCGCTAGCGCGCCCCCCAGTACTAATATAATATAATATAATATAATAATAGGGCG
TTAGCCGTTGCTTGTTTCGGTCGAGCACTTCGTTCCTTCTTGTTCATCAATCGGAAATCAAGACA
AACCGGGCACTACGGTGAGACGTGAAAACACCCGATCCCATTCCGACCTCGATATGTGGAATCGT
CTTGCGCCATATGTACTGAAATTGTTCGGGAGACATGGTAAAAGCCCGGTAAACGGATAAGAATC
AAACTTGTAAATGCAGATGATGCGCAGATAAGCATTAATGCATTAAAAGAGAGAGATTGCCAACC
TATAGTATAGGGAGCGCACCAAGGCTGCCAAGCTTGTTCTTCTCTCTCTCATATGTACCATCTAA
TGGGATTAGTGCCAGAATGTGGTACCAAAGGTGGATCCTTAAATCTTATTCGGGAGCAAGGGAGG
TGAAGTGATCCCTAATTCCCTATCACTAGATAAAATAGGAATCGA
Found at i:232182 original size:5 final size:5
Alignment explanation
Indices: 232172--232196 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
232162 CCCCCAGTAC
232172 TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA
232197 ATAGGGCGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Left flanking sequence: Indices 231672 -- 232171
AACTCGGGAACATGAAGTTGGAATCGCTAGTAATCGCGGATCAGCATGCCGCGGTGAATATGTAC
CCGGGCCCTGTACACACCGCCCGTCACACCCTGGGAATTGGTTTCGCCCGAAGCATCGGACCAAT
GATCACCCATGACTTCTGTGTACCACTAGTGCCACAAAGGCTTTTGGTGGTCTTCTTGGCGCATA
CCACGGTGGGGTCTTCGACTGGGGTGAAGTCGTAACAAGGTAGCCGTAGGGGAACCTGTGGCTGG
ATTGAATCCTTCGCGATGGAAAGTGCCCTCTTCCCCCAACCTACGGGGCTAGCTTGCTGGAATGC
GGGCGGGCTTTGGGTCCAAAGGACGGACACCGGGGGCGAGTCAAAAAAGAAAATCGTTCCATTTT
CCTTTCCCAGCAAGAAAACGGATGCGCTAACGCATTTTCTTTACTTTAGATTTAGATTTAGATTT
AGATTTAGATTTAATAGGCTTTCGCGCTAGCGCGCCCCCCAGTAC
Right flanking sequence: Indices 232197 -- 232696
ATAGGGCGTTAGCCGTTGCTTGTTTCGGTCGAGCACTTCGTTCCTTCTTGTTCATCAATCGGAAA
TCAAGACAAACCGGGCACTACGGTGAGACGTGAAAACACCCGATCCCATTCCGACCTCGATATGT
GGAATCGTCTTGCGCCATATGTACTGAAATTGTTCGGGAGACATGGTAAAAGCCCGGTAAACGGA
TAAGAATCAAACTTGTAAATGCAGATGATGCGCAGATAAGCATTAATGCATTAAAAGAGAGAGAT
TGCCAACCTATAGTATAGGGAGCGCACCAAGGCTGCCAAGCTTGTTCTTCTCTCTCTCATATGTA
CCATCTAATGGGATTAGTGCCAGAATGTGGTACCAAAGGTGGATCCTTAAATCTTATTCGGGAGC
AAGGGAGGTGAAGTGATCCCTAATTCCCTATCACTAGATAAAATAGGAATCGAAGGAGATCAGCC
CGGCAGAATAGGAAGGCAAGTCTGTAACGGAAGCAAGCTCGCTAG
Done.