Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_065225
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: 385869
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.27
Found at i:25576 original size:13 final size:14
Alignment explanation
Indices: 25543--25576 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
25533 CAGAAGCTAG
*
25543 AGGACAGTATTCGT
1 AGGACGGTATTCGT
25557 AGGACGGTATTCGT
1 AGGACGGTATTCGT
25571 -GGACGG
1 AGGACGG
25577 ATGAGCGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.24, C:0.15, G:0.38, T:0.24
Consensus pattern (14 bp):
AGGACGGTATTCGT
Left flanking sequence: Indices 25043 -- 25542
TAGATACGTGATAACACTTGTGGTTTCGGCGAATCGCCTTCACTCTCGGGGTTCAGTACCCGCCT
CTTGGTGTCCAATACCCAGTGATGGGAGAAGGAGTGGGAGACGAAGAGAGAGAAGATGGTTGCTT
AGCAGCGGAAGCTGGGGATCGAGAAGCGGAGGGAGAGCTTAGGCTTGAAATGGAGCTGGGATACC
GGTATTTTTCCCTCCCTGGATCCGAGTCTTTCTCTTCTCCTGGACCGAGCACCGAGACCGAGGAA
AGAGAGGCTGGATACGAGTCTGATGAGATCAGAGCCAGTGAAGAGAAGAGGGAAGGCTTACTCTG
CTAGGCTGGCTTGCTTGTTCGACTAGAGCACATAAATAAGGTAGCTTGCTTACTTAGTGCGAAAC
GCTAAGGCCAATTAAGCAACGTTAATGGACCGCTCCCCATTACTGACGCTTTCACAGGGCTTCTT
TTTAGATAAAATAGGCCATAGAAATTCACTCATAACAGAAGCTAG
Right flanking sequence: Indices 25577 -- 26076
ATGAGCGATTGGACCGCCTATAGGACAGTTACTGGACAGATGCGACCGTTACCAGTTGACAGATG
ACAGGCAGAAGAGCGGGAAGTCGCTCTATTTAAAGGACGGGAATTGCACATTAAAGGAAGGGAAT
CGTGTACTGAGCTAGCCTGCCTTGAACTTGAAGTAGGTAGTCTCTCCTATATCTGATAGCTTTAA
CTGGCCACTACAAAGAAATTGCCATAGATCGAAACTTATTCCAGGCTTAGTATCCCCGGATAGAC
CCTATAAAAGAAGACGAGTCATAAAGGCAAATATCTAACAATTTCAGGGGGGCACATCCTAACTG
AATAGTACTCGCAGGTTCTCTTTTCCATATGTTCTTCCCGATGCCCTATCCGACAGCCGTTAACT
GCCTTGCAGGGAATTCCTTACTCAAAAGTATGAGAGTGCGGCATAGCAAGAGTGAATCCTCCCAC
CTCCCTCTAACGCTTATCTCTTTTCTTGCTTCCTTGCTTTAATCC
Found at i:81672 original size:18 final size:18
Alignment explanation
Indices: 81651--81693 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
81641 CAACCTTGTT
81651 GACTATGACAACAG-TCGC
1 GACTATGA-AACAGATCGC
81669 GACTAT-AAACAGACTCGC
1 GACTATGAAACAGA-TCGC
81687 GACTATG
1 GACTATG
81694 GCAGGGCGGT
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:0.35, C:0.26, G:0.21, T:0.19
Consensus pattern (18 bp):
GACTATGAAACAGATCGC
Left flanking sequence: Indices 81151 -- 81650
TACCGTCTAGCCGTTGGTACTCCGCATCTTCACGGAGAATTCAATTTCACCGGGTCCATGTCGGA
GACAGCGGGGCAGTCGTTACACCATTCGTGCAGGTCGCTACTTATGCGACAAGGAATTTCGCTAC
CTTAGGACAGTTAGAGTTACTGCCGCCGTTTACCGGGGCTTCCATTCAAAGCTTATAACACTTCT
CCTTCCGACCTTCCAGCACCGGGCAGGTGTCAGACTCTATACATCGTGTTACCACTTAGCAGAGT
CCTGTGTTTTTAATAAACAGTCGCTACCCCCTGGTATGTGCCGCTTTCCTAATCAAAAGATAGGA
GAGCACCCCTTCTCCCGAAGTTACGGGGTCATTTTGCCGAGTTCCTTCGACATGGTTCTCTCAAG
CGCCCTAGTATACTCTACTTGTTCACCTGTGTCGGTTTGGGGTACGGTCAGTTCACCGGGAGGAT
CGCCCTCCCAATTCGAAGTTTTTTCCTGGAAGTTTCAACCTTGTT
Right flanking sequence: Indices 81694 -- 82193
GCAGGGCGGTACGCTCTGCTCTCTCGCGACCCCTACTCTAATCAAAAGACTAAAGGCCCCTTAGG
TCGCCAAACTACGACGAGAGTTTCGCCTTTTGAAGCGCCAGTCGCATAGGGCGACCGGGCCAGGC
CGAGTCAGAAAGGCTTTGATGACTCAAGGTTCATATTAGGGAAAGGAGAGTGAGGGGAAGAGGGG
GCAGCCCTCGGCCCGATCATCCAATTCGCTCCAACAGATAGGCATGGTTCTGTAGTCAAAGCAAC
TTCGTCACTTTCGTGTACCCATCGGACGGCAGCCCTTTCGGGGGTTCCTTAGGGACCGATTCACT
CTGCGTAGATTGACTGAACGCAGAAAGCCTTCCACTGGCAGGCGATCGTGTTTTTCACAGGATTT
CTCGTTACTCATGTCAGCATTCTCACTTCTGATATCTCCAGGTGTTGTCACCAAAAACCTTCCCC
GATTGACAGAACGTTCCGCTACTGACACTTGAAAAAGAAGCTTTC
Found at i:103053 original size:17 final size:17
Alignment explanation
Indices: 103031--103065 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
103021 AAAAGAAGCT
103031 ATTGAGTTGGCTTCTTG
1 ATTGAGTTGGCTTCTTG
103048 ATTGAGTTGGCTTCTTG
1 ATTGAGTTGGCTTCTTG
103065 A
1 A
103066 AAGAGATGAT
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:0.14, C:0.11, G:0.29, T:0.46
Consensus pattern (17 bp):
ATTGAGTTGGCTTCTTG
Left flanking sequence: Indices 102531 -- 103030
ATACGAATCATAATCGATGGTGAGAAGTGGAACACCTCCTTCAGACCAACTACAGAGTAAGCTTC
TACCGCGCCCAATAAGGGCGGCTTATCCCGGTTCTGGTTCCCTCCGTGCGTGTATCCATCCTTTG
ATCTCATCTGTATATCATTTCTAGTACTACCTTGTGCTATTTTTAGGCTCCACTGAGTCAGCTCG
TCCACTTTATGTTATAGTTGCAAGCTACCTATTATCGTCGATCAGCAACCTTCTCTCACAGTGGC
TTAATGAGAATTTTGTATGATAATTGTGTGACGCCATGGCTTCGCCTTTGACGCTTTCGTCTTGT
TGTTTGGTACAGTAATAAGCAGATCTGCGAAACCTCTTACCCGGATCTTACCATTTGCCTTCCTG
TTGAGGTTGAATTACGTGGTATAAGCAAGCGAAGCTTCGCTTGTAGTCCCCATCTGTTCCCAATA
ACTAGCTCAGTTGCAGCAGAGGGCATAGCGGTTCTAAAAGAAGCT
Right flanking sequence: Indices 103066 -- 103565
AAGAGATGATGGAAGCAGAATAAAGTGATAGGCGGAGTCAGATATTCGACTGGAAGCCTCATACC
GATATGAGATTTATACTCTAATATTCAATTTCGTGTATGGGGCATGCACTTGTTCCACTTTCACG
TTGGTCAAGCTACTATAGCGGAATGTAACCTCAAGAATCCACTCTTTTTTTTAATGAAATGCTTT
TTTTCTCAATTTACCGTCCTTTTCAATAGACGTCCAGTTAAGATTCCGGCTGGACGAAAGCATAA
ATTATATAGAAAGTATGCCCTATGCTTCGTGAATAAACCTAGGTAAAAGCGAAGTTGTCCATGTC
AGGGCAGTGGGAATACATAGTTGGAGCTACGAGTTCCAATCGATTAATAAGACAACCGACTTCGA
TCAAAAAAATGAAAGCTAGCCGAACCAAAGATGTTGCAGGTTACCAAACCATTAAATCTGAGTGA
ATCGAGGCGGCGTAGACATTAAATCAAAAGTCTAGTGAGAGCGCA
Found at i:120384 original size:18 final size:18
Alignment explanation
Indices: 120363--120417 Score: 101
Period size: 18 Copynumber: 3.1 Consensus size: 18
120353 AATAGAATTA
*
120363 CAACTCGAAAAGGAAAAG
1 CAACTAGAAAAGGAAAAG
120381 CAACTAGAAAAGGAAAAG
1 CAACTAGAAAAGGAAAAG
120399 CAACTAGAAAAGGAAAAG
1 CAACTAGAAAAGGAAAAG
120417 C
1 C
120418 TATTAAAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.58, C:0.15, G:0.22, T:0.05
Consensus pattern (18 bp):
CAACTAGAAAAGGAAAAG
Left flanking sequence: Indices 119863 -- 120362
CTGTCTCAACCCTGACTGACGACTAGCTTTACTTGATAGAGTTGCCTTCCATGCCCGGTTAAGTT
CGCCCTTAGGGGAAAAAGCCTTTCCTTGCCTTACCGGACAGTAAGAATTTAATTGCCTTGAAAAC
AAAACAGAAGTACTACTTTGGATACGCTATGATTCGCATCTCTCATTAAACTTTTATAATACAAT
CTATGTCCTACTCTTTTAGTTTTAGCTTTCTTCATTGAGTAAAAGGAAATTAGCCTTTCAAACAG
AAGGCATATGATAGCTCATTCCCGGACTTATTTATATCGTAAGAGAGAGAGAGAACCTCCTATGC
CCAAAGACTCCCATGCTTTCCGTTGGTCAACAACCAACCACAACTCACTATAATTCTTCACTACT
CGTACAGGAAGGTAAGAAAAACTTGCTTTTCTGGAGGGAATCAAAATGACGTAAATCCCAATTTT
ATGACCCAGGAACAGATTTTGCTATTACAAGTAGAAATAGAATTA
Right flanking sequence: Indices 120418 -- 120917
TATTAAAATTACAACTCGAAAAGGAATTAAAAGTAGAAATAGAATTACAAGTAGAAAAGGAAAAG
CTATTAAAATCGCTTGAGTCGCTGCCTTGTGAAAGAAAACATCATATGTAAGTAAGTAGCATCTC
GAATAGAAATATCCCTTCCAAATATCTAATATAAAGTTAGATTTCTATTCAAAAATAATAAATAG
AAATTGCGTAGCGTAAGAGAAGAAAATGCCCAAAAGTCCCATGTTTTTCTTGGTTGGAAAAGCCC
AACCGGCGACTTCCGTCTTCCTGAATTGGGAGAGCAAGAACAAGTCCCTCTTCTTTTTTTGGGGG
GGGGCGGAGCAGTTAAAGAATGAACCAACCCAAATGATTGTTCTAGAATGGCTATTCCTCACAAT
TGTTCCTTGTGATGCAGCGGAACCATGGCAATTAGGATTTCAAGACGCAGCAACACCTATGATGC
AAGGAATAATGGACTTACATCACGATATCTTTTTCTTCCTCATTC
Found at i:120440 original size:66 final size:65
Alignment explanation
Indices: 120358--120492 Score: 177
Period size: 66 Copynumber: 2.0 Consensus size: 65
120348 GTAGAAATAG
120358 AATTACAACTCGAAAAGGAA-AAGCAACTAGAAA-AGGAA-AAGCAACTAGAAAAGGAAAAGCTA
1 AATTACAACTCGAAAAGGAATAA--AACTAGAAATA-GAATAA-CAACTAGAAAAGGAAAAGCTA
120420 TTAA
62 TTAA
* * *
120424 AATTACAACTCGAAAAGGAATTAAAAGTAGAAATAGAATTACAAGTAGAAAAGGAAAAGCTATTA
1 AATTACAACTCGAAAAGGAA-TAAAACTAGAAATAGAATAACAACTAGAAAAGGAAAAGCTATTA
120489 A
65 A
120490 AAT
1 AAT
120493 CGCTTGAGTC
Statistics
Matches: 62, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
66 58 0.94
67 2 0.03
68 2 0.03
ACGTcount: A:0.57, C:0.10, G:0.17, T:0.16
Consensus pattern (65 bp):
AATTACAACTCGAAAAGGAATAAAACTAGAAATAGAATAACAACTAGAAAAGGAAAAGCTATTAA
Left flanking sequence: Indices 119858 -- 120357
CCTTACTGTCTCAACCCTGACTGACGACTAGCTTTACTTGATAGAGTTGCCTTCCATGCCCGGTT
AAGTTCGCCCTTAGGGGAAAAAGCCTTTCCTTGCCTTACCGGACAGTAAGAATTTAATTGCCTTG
AAAACAAAACAGAAGTACTACTTTGGATACGCTATGATTCGCATCTCTCATTAAACTTTTATAAT
ACAATCTATGTCCTACTCTTTTAGTTTTAGCTTTCTTCATTGAGTAAAAGGAAATTAGCCTTTCA
AACAGAAGGCATATGATAGCTCATTCCCGGACTTATTTATATCGTAAGAGAGAGAGAGAACCTCC
TATGCCCAAAGACTCCCATGCTTTCCGTTGGTCAACAACCAACCACAACTCACTATAATTCTTCA
CTACTCGTACAGGAAGGTAAGAAAAACTTGCTTTTCTGGAGGGAATCAAAATGACGTAAATCCCA
ATTTTATGACCCAGGAACAGATTTTGCTATTACAAGTAGAAATAG
Right flanking sequence: Indices 120493 -- 120992
CGCTTGAGTCGCTGCCTTGTGAAAGAAAACATCATATGTAAGTAAGTAGCATCTCGAATAGAAAT
ATCCCTTCCAAATATCTAATATAAAGTTAGATTTCTATTCAAAAATAATAAATAGAAATTGCGTA
GCGTAAGAGAAGAAAATGCCCAAAAGTCCCATGTTTTTCTTGGTTGGAAAAGCCCAACCGGCGAC
TTCCGTCTTCCTGAATTGGGAGAGCAAGAACAAGTCCCTCTTCTTTTTTTGGGGGGGGGCGGAGC
AGTTAAAGAATGAACCAACCCAAATGATTGTTCTAGAATGGCTATTCCTCACAATTGTTCCTTGT
GATGCAGCGGAACCATGGCAATTAGGATTTCAAGACGCAGCAACACCTATGATGCAAGGAATAAT
GGACTTACATCACGATATCTTTTTCTTCCTCATTCTGATTTTGGTTTTCGTATCACGGATCTTGG
TTCGCGCTTTATGGCATTTCCACTATAAAAAAAATCCAATCCCGC
Found at i:120456 original size:18 final size:18
Alignment explanation
Indices: 120435--120479 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
120425 ATTACAACTC
120435 GAAAAGGAATTAAAAGTA
1 GAAAAGGAATTAAAAGTA
*
120453 GAAATA-GAATTACAAGTA
1 GAAA-AGGAATTAAAAGTA
120471 GAAAAGGAA
1 GAAAAGGAA
120480 AAGCTATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 1 0.04
18 22 0.92
19 1 0.04
ACGTcount: A:0.60, C:0.02, G:0.22, T:0.16
Consensus pattern (18 bp):
GAAAAGGAATTAAAAGTA
Left flanking sequence: Indices 119935 -- 120434
AGGGGAAAAAGCCTTTCCTTGCCTTACCGGACAGTAAGAATTTAATTGCCTTGAAAACAAAACAG
AAGTACTACTTTGGATACGCTATGATTCGCATCTCTCATTAAACTTTTATAATACAATCTATGTC
CTACTCTTTTAGTTTTAGCTTTCTTCATTGAGTAAAAGGAAATTAGCCTTTCAAACAGAAGGCAT
ATGATAGCTCATTCCCGGACTTATTTATATCGTAAGAGAGAGAGAGAACCTCCTATGCCCAAAGA
CTCCCATGCTTTCCGTTGGTCAACAACCAACCACAACTCACTATAATTCTTCACTACTCGTACAG
GAAGGTAAGAAAAACTTGCTTTTCTGGAGGGAATCAAAATGACGTAAATCCCAATTTTATGACCC
AGGAACAGATTTTGCTATTACAAGTAGAAATAGAATTACAACTCGAAAAGGAAAAGCAACTAGAA
AAGGAAAAGCAACTAGAAAAGGAAAAGCTATTAAAATTACAACTC
Right flanking sequence: Indices 120480 -- 120979
AAGCTATTAAAATCGCTTGAGTCGCTGCCTTGTGAAAGAAAACATCATATGTAAGTAAGTAGCAT
CTCGAATAGAAATATCCCTTCCAAATATCTAATATAAAGTTAGATTTCTATTCAAAAATAATAAA
TAGAAATTGCGTAGCGTAAGAGAAGAAAATGCCCAAAAGTCCCATGTTTTTCTTGGTTGGAAAAG
CCCAACCGGCGACTTCCGTCTTCCTGAATTGGGAGAGCAAGAACAAGTCCCTCTTCTTTTTTTGG
GGGGGGGCGGAGCAGTTAAAGAATGAACCAACCCAAATGATTGTTCTAGAATGGCTATTCCTCAC
AATTGTTCCTTGTGATGCAGCGGAACCATGGCAATTAGGATTTCAAGACGCAGCAACACCTATGA
TGCAAGGAATAATGGACTTACATCACGATATCTTTTTCTTCCTCATTCTGATTTTGGTTTTCGTA
TCACGGATCTTGGTTCGCGCTTTATGGCATTTCCACTATAAAAAA
Found at i:132700 original size:8 final size:8
Alignment explanation
Indices: 132687--132726 Score: 53
Period size: 8 Copynumber: 4.6 Consensus size: 8
132677 AAATAATAGA
132687 TATATAAT
1 TATATAAT
132695 TATATAAT
1 TATATAAT
132703 AGATATATAAT
1 ---TATATAAT
132714 TATATAAT
1 TATATAAT
132722 TATAT
1 TATAT
132727 CTATAAACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 21 0.72
11 8 0.28
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (8 bp):
TATATAAT
Left flanking sequence: Indices 132187 -- 132686
CAGCCTTAACCTGTCCCCAGACAGCCAGCCCTCACCAGGCTGCTGGAATTGCTAAATGCTCCGCC
ACGAAGCAAGCTCTCCCGATCCCGAAGACGACAGATGCGGAAGTGGCTAAAGAAGTCGGAGGAAG
AAAGTTGTTGGGCAATTGTATGCGCGAGGGTACATTATAAGTATTCTGAGAATTGGCAACATTGA
CAGAAAGGGGAAGAAAAGGGGGTAGGAATAAACTTTTTTAGGTGTAGCTATACTAAAGTAAGTAG
TCGGCCTAACCTTCGGTTCCCGTAACCAAGTTTTTCTTTCTCACTCCTTATGTTATGTACTTTTT
CTTACTTAATCCATACTTTTTTACCTTTTCTGAAGTGTGGGGCAAAGGGTGCCCTCTACTTATAC
TTCTAACTAAAGGCGAACTGCAGGCATTGCAAGCAAACAAAGCGCCCCCGCCCGTTTGAGTCGCG
AAGGGGCCGCTTGCTTAAAAAATTTATTTTATATAAAATAATAGA
Right flanking sequence: Indices 132727 -- 133226
CTATAAACTAAGAAAATCCGTTTTTTTTATCCAATTGTTCATTCCCGGGAAGAGGAAGAAGCAGA
TAGAGCAAAGGCCTCCTCTTTCCTTCCGTCCGCTCTTCCCGAAGTGGGCGAATTGCATGTAGAGA
TCCGCAGGGGCTTATAGTTTAATTGGTTGAAACGTACCGCTCATAACGGTTATATTGTAGGTTCG
AGCCCTACTAAGCCTACCACCCCCTTCTCTGCACCCGATACAAGGCAGTCGAAGTCCTCGCCACC
CTGCAGATCTCAATCTAGCGACGGCACCTGGAACCGCACAGCTTCCGCTGCCCTTCGGGCACGCC
TCCTACGCTCTTGCGGCATGCCCCCTTCGGGCAATACGGCTTTCGTGAGTAATACGCGAAGCAGC
TGAGCGATAGCTCTCTTCGATCGCTATATTCTTGCGATAGCGAAGGCGTAGTTCATCCTCTAAGA
GAGAGTAGATGCGAAGATTCGGATCGAAGATCTTCGCTTGGGCCG
Found at i:132703 original size:19 final size:19
Alignment explanation
Indices: 132679--132721 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
132669 TTTATATAAA
132679 ATAATAGATATATAATTAT
1 ATAATAGATATATAATTAT
132698 ATAATAGATATATAATTAT
1 ATAATAGATATATAATTAT
132717 ATAAT
1 ATAAT
132722 TATATCTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (19 bp):
ATAATAGATATATAATTAT
Left flanking sequence: Indices 132179 -- 132678
AGCAGGCCCAGCCTTAACCTGTCCCCAGACAGCCAGCCCTCACCAGGCTGCTGGAATTGCTAAAT
GCTCCGCCACGAAGCAAGCTCTCCCGATCCCGAAGACGACAGATGCGGAAGTGGCTAAAGAAGTC
GGAGGAAGAAAGTTGTTGGGCAATTGTATGCGCGAGGGTACATTATAAGTATTCTGAGAATTGGC
AACATTGACAGAAAGGGGAAGAAAAGGGGGTAGGAATAAACTTTTTTAGGTGTAGCTATACTAAA
GTAAGTAGTCGGCCTAACCTTCGGTTCCCGTAACCAAGTTTTTCTTTCTCACTCCTTATGTTATG
TACTTTTTCTTACTTAATCCATACTTTTTTACCTTTTCTGAAGTGTGGGGCAAAGGGTGCCCTCT
ACTTATACTTCTAACTAAAGGCGAACTGCAGGCATTGCAAGCAAACAAAGCGCCCCCGCCCGTTT
GAGTCGCGAAGGGGCCGCTTGCTTAAAAAATTTATTTTATATAAA
Right flanking sequence: Indices 132722 -- 133221
TATATCTATAAACTAAGAAAATCCGTTTTTTTTATCCAATTGTTCATTCCCGGGAAGAGGAAGAA
GCAGATAGAGCAAAGGCCTCCTCTTTCCTTCCGTCCGCTCTTCCCGAAGTGGGCGAATTGCATGT
AGAGATCCGCAGGGGCTTATAGTTTAATTGGTTGAAACGTACCGCTCATAACGGTTATATTGTAG
GTTCGAGCCCTACTAAGCCTACCACCCCCTTCTCTGCACCCGATACAAGGCAGTCGAAGTCCTCG
CCACCCTGCAGATCTCAATCTAGCGACGGCACCTGGAACCGCACAGCTTCCGCTGCCCTTCGGGC
ACGCCTCCTACGCTCTTGCGGCATGCCCCCTTCGGGCAATACGGCTTTCGTGAGTAATACGCGAA
GCAGCTGAGCGATAGCTCTCTTCGATCGCTATATTCTTGCGATAGCGAAGGCGTAGTTCATCCTC
TAAGAGAGAGTAGATGCGAAGATTCGGATCGAAGATCTTCGCTTG
Found at i:139631 original size:17 final size:15
Alignment explanation
Indices: 139603--139639 Score: 56
Period size: 17 Copynumber: 2.3 Consensus size: 15
139593 ACCGCGACTT
139603 TTATAATAATATATA
1 TTATAATAATATATA
139618 TTATATATATATATATA
1 TTATA-ATA-ATATATA
139635 TTATA
1 TTATA
139640 CGATACCGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 5 0.25
16 3 0.15
17 12 0.60
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TTATAATAATATATA
Left flanking sequence: Indices 139103 -- 139602
CCGCCACTTACTTTTGCACTAAGTTCCTTACGTTAAGGTCTTCAACAGGTACACTGAACACCAAC
TAAATCTCGACATAAAATGAAAAGTACAAGCAACTACATCAACAGCCTGACGCGGAGAAAGCTTT
TTTTTCTTTGTTTAATCAGGTCGAATCAAAACCTTTCTTTTTTACGCTTTCTTATCTTAAGATAT
TTCTAGTTAAAGAGAAAGATCCTTCCTAAATGCAACCCAACCTTTCTCTTATATACGATAGCACC
AGACACGCCCCTGAGAATTGCGTCGTTGTGCCTGCTCTGATCTTGACTTACTCTAGTAAAAAATG
ACTAGTAAAAAAGAAAGTATGAACTTGTGACCGTATTTCCCGGGGGGAAATGGTCCGATCACATC
ACCAGCACAACTCGTTTTCTGCTACTATCATGGGAGCCGTGTTAAGCATAGGCGCTGAGAACACC
CTTCTTTGGCGATGCCCAAGATCGCAATGGATTCCACCGCGACTT
Right flanking sequence: Indices 139640 -- 140139
CGATACCGGTCTATGAGTGTTTAGCGTACCTACTTGATAGAGCTACGACCGTCACGGTCAACTTT
CTTGTTCTTTTTCTCTCGCTATGCTTTGCAACTATAAAAAAGGATTGTACGATATTTAGTTCAAA
GCTTCGGTTTTTTAAGGAGTGAAGGAAGGCAATCACTATGCCCTTGTTTCTGAAAAGTTGCTTTT
TTTTTACTTTTCTACTTATGCATGGTGGATTGATTCGGGTACCAGCCTTCACTTTATGTGACCTA
TTCTATGCAGGGTTTTCTTAAAAGCAGACTTCCAGTAAAGGATTAACAAAGCATCATCACGGAAA
AGGGGATGCGTTCTCGCGTGGAGGCTGTGGGGACTGTGAGACTCATCCTGTATACCTGACATCAC
CTGGCCCTAGAATACACCTTTTTTTACATCCCACGTTTTTGGCCTACTTTCTCTCGGGCCAGAAG
TGAGGGAATCTATTGAAGAAGAAATTGACGTAGATGATAGAGGCA
Found at i:166608 original size:39 final size:39
Alignment explanation
Indices: 166554--166632 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
166544 CGATTTTCTA
* *
166554 TTCACTCATGATCTGGCCTGGTCGACCCGATCATGATAT
1 TTCACTCATGATCTGGCCCGGTCGACCCAATCATGATAT
166593 TTCACTCATGATCTGGCCCGGTCGACCCAATCATGATAT
1 TTCACTCATGATCTGGCCCGGTCGACCCAATCATGATAT
166632 T
1 T
166633 GAAGGATGGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.30
Consensus pattern (39 bp):
TTCACTCATGATCTGGCCCGGTCGACCCAATCATGATAT
Left flanking sequence: Indices 166054 -- 166553
GCCCACACCTGTGTAGAGTAGATCGTTCAACACCTGCGGCACAAACCCATTTTTGACCTATTGGT
CCTAGTATCATAGGCGACCGAACGGCCGCCCCCTAATTACTAGACCAACCTGCTATAATAATTCC
ATAAACACCTAGCGAAGATATGGCAAACAAATAAAGTAGCCCTATGTTCGAATCTGACAATACCA
TACCATAATCAAAAGGTACAACGGCCCGAGCAACCAGACTTAACATAAATGTAGTCACTGGAGCC
ATTCTAAAAAGGGAGAAATTAGCACTACTTGGTGAAATAGGTTCTTTTAGAATCAATTTCAAACC
ATCTGCTAGAGGTTGTAACAATCCGAACGATCCCACTACATCAGGACCCTTTCGACGTTGCACAA
AAGCCATTACTTTACGTTCAGCTAGCACTAAAAAGGCTACTCCTAGTAGAAGTGGTAGAATTATT
CCAAGTATTTCGGCTGGAACTGCTATGTACGTTTTCGATTTTCTA
Right flanking sequence: Indices 166633 -- 167132
GAAGGATGGGACCTTTTCTCGAAAAACTCCGGATCCAGAGAAGAGTTGAAGATGGTGCAACATCG
AATCCTGTCACCTTACTTCGAATGGAATCTTAGCCCGCCTCACTTGCTTTCTGTACTGCATAAGG
GCCATAAGGGCATAAGCGAAGTCAAGGGATTTCCTTCTAACTAGTGGCTGAGAGTAAGCAAGCTA
CCTTCATTCAACAGATTTGTGGTTGAGTCAATAACATGCTCTGGGTCGGGAATCTTTGCTCTTCT
CTTTTGCATTTCCGCTGCCTGCGTTCTTCTTCGTGTCCGTCCGTATCGCAAAGCTGGTCGACGCC
AGCTGTAATGGTTGAAAATAGGGGGCCAACCAAGACCCTACCCTAATAAAGCTTTGTTCGATAAA
GCAAACGATTCGTTCCGACAACTTCGGACCAGATTAACCCTTTTGAATTAGCCGATCTTACAAAA
TGGATCGGGCGGGCTGGTTGGGAAGGGGTGATTTGCGGAGAAAAG
Found at i:202955 original size:13 final size:13
Alignment explanation
Indices: 202937--202962 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
202927 CCCCGCCCTA
202937 TAGAATGAATAAG
1 TAGAATGAATAAG
202950 TAGAATGAATAAG
1 TAGAATGAATAAG
202963 GAGAGGCCTG
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:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (13 bp):
TAGAATGAATAAG
Left flanking sequence: Indices 202437 -- 202936
TGTCCAGCGGTGTTGTCCACCAGAACATCGATGTGCGGAAGAGAAAAAGAATCTTTTCGGCTTGC
CTTGTTTAGGGTCTTTTGACTCACGGAACCTGCTTTATGAGGGAAAAACCGTTCTCGAAAAGCGT
GACCATCCCGTTGAATCTCGTTACCCTCCCGTGTGGTTATGGGGGCGCGCCCGCTTTCCACTATT
ATGGAGCCGGGCCGCAAGCAAGTGAATGCGATCCCGCCCTCCATCAGCCGGTGTGTGTGAGCTTC
GCTCCTTATAGCTCTACACCGCCGCCGGCCACTTTAGCTCCTCTACCATATGATTCATTCTTTGG
AAGTTAGGCACGTGACTCGATAGCGCAGGCACAAGACCTTTGAATGCAAACAAAGAATGGCGAGA
CCGCATATAGTTTGGAACCCAAGCTTACCTTATTATTATTCAAAGGGGAAGGTTTGATAAAGGAG
CTTTTAAGCCCTTTTGCTGAATTGTTGGTCCGCAGCCCCGCCCTA
Right flanking sequence: Indices 202963 -- 203462
GAGAGGCCTGTTGATGACCGAGCCACTCTTATACTACTCCTTACCTCAACCCCCCCCTTGTCACT
TAAAGGGCGAAGTCGCTGAAGCGAGTCTAAAGGCCAAAGAGTGATCTTTGAACGCTACTACGCAT
CCTTACTAATAGTATAGTGTAAGGTAGGTTTGGGTATAGCAGGACTTGAACCTGCGACCATTAGG
TTAAAAGCCCAATGCTCTACCAACTGAGCTATACACCCCCAAAATATATAGTAAAAAATAAGGAT
TGGTGCGGAAAAAAAAGGGGGCAGCCGCGGTCGAACTCTAATTCTGGAAAAAAGTCGGGGCCCCT
TTTCCAAGTCTACCAGATAGAAGATGATAGAGGGCCATATCGTTGCGTTGGACAAGACGGCGCCG
TCTCACTTCGAGTTCCTTCCTTCGTAGTAAAATCAGATGATACGCTTCGGCGATGTTACCTACCA
AATTTAAGGCCTGCTAGGTGATCGAAATTGCTCAGGTCAGTGAGG
Found at i:207119 original size:15 final size:16
Alignment explanation
Indices: 207099--207141 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
207089 CGGATGGACA
207099 GATCGACTGT-CGCAT
1 GATCGACTGTGCGCAT
*
207114 GATCGAGTGTGAGCGCAT
1 GATCGACTGT--GCGCAT
207132 GATCGACTGT
1 GATCGACTGT
207142 TAAGGTAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 9 0.39
18 14 0.61
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.26
Consensus pattern (16 bp):
GATCGACTGTGCGCAT
Left flanking sequence: Indices 206599 -- 207098
ATATTATTACCTGTATTCGATACGGGGTCATTCATAACAAACCTATACCTTCCCTATTTACTTTA
CTCGACGAATTAAGGGGTTTGGTTATTCGTCAGCACGGGTTTAGCTTCCTCTTCCTCTTGGATTG
CGTCAACCGCTCAAGTGAAGCCAAAAGGGGAGGATTTCCGAAAGGCTCCGATCCAGTGAAAATCC
GTTTAAGCTAAAAGCACCGGTTTTCTCCCGGCCAGTCAACAGCCAGTCCACAAGAGAACCCCGAA
ACGGGAGAAAACCCCCCTTCTACCTTTCTTTCTTTTAGAACCTTTCTCGCCTGCCGTTAAATGAA
AGTTTATTTGAGTTCCCAATGGCTGGTGAAAGTTAAATAGGAGACCTCAAGCTGCCATACTTAAC
TAGAACCGAAGGAAGATCTCTCACACCGGCAATGGAAACTAGATGTCAACGAGCGGCACATAATT
GAAATTGGACAACCTCACCCCCCAGTGAATGTAGTCGGATGGACA
Right flanking sequence: Indices 207142 -- 207641
TAAGGTAGGACCTTCAACAAAGAGAGTTGATCAACAAATTCAGACTATTTTCTGTCAATTCGGCT
GTCCTCTCATTTCTATTATAAAATCAAATGTCTTGAATCATTCGATATAAGGGCTTCACTTCGAA
GAGGCATAGGAGCAATATCCCGAAACTGAAGATGGGACTGAAAGCTGCCATACGAGATTAGAGAA
TAGAAAGTAAGGAACTGTCTGAAAGTTTGTACCTTCAAAGCCAACTTCGTCTCTGAACTCAAGCC
TTCCCTTTGACCCGTGTATCCTATCTGTAACCGAACCCGCGGGAAAGCCTACTGAAGAAGGAAAA
GCAACCATATCTCCTTGGCAAACAAGACGGAACCGAAGCTATGTGCATAGTCTTACCCCTGCCCA
ATCTACTCAAAGGATTAGAGATCATGAACGAGAAAATATCAATGAAAGCCCGGAACTTACCCACG
GGCTGACCTACGATCACCTATTCTTTTTTGAGTTTTTTCATGCAA
Found at i:290118 original size:22 final size:22
Alignment explanation
Indices: 290090--290143 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
290080 CAACTCGACC
*
290090 GTAGGGA-GAGGGAGAAGCTAGT
1 GTAGGGACGAGGGAG-ACCTAGT
*
290112 GTAGGGACGAGGGTGACCTAGT
1 GTAGGGACGAGGGAGACCTAGT
290134 GTA-GGACGAG
1 GTAGGGACGAG
290144 AGTAACCTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 7 0.24
22 16 0.55
23 6 0.21
ACGTcount: A:0.28, C:0.09, G:0.48, T:0.15
Consensus pattern (22 bp):
GTAGGGACGAGGGAGACCTAGT
Left flanking sequence: Indices 289590 -- 290089
CCCGGCTTTCCGGTAAGGATTTCTCTTCCTTAGCGTTCACATTAAACAATTAAACCTATTCCTAA
AGTGGAAGGCTTCGATCCGTATAGCGCGGGATGATGGATATCTTGAGTTAATAGAGCCAACCAAA
GCTTGCTTACTTAGTGTGTAAAGATTACAGCTCCGGAAGATACCGGGCATCTGTGAAAGCGTCTG
CACTCTCCTCATTCTACTCAGAAGGAGCTCCAATTCCTATTGGTTTTGGCAGAGGCAAGAAAGAA
AGAAGCTAGGCTTCACCCAATCTTCCAATCAAAATCTTACGCCGAGAGGGCAAAAAGCTATAGGG
AAATCGATCGATAGGATTGCATCCCTGGCCATAAACCGTAGAAACGTCCAGAAATGGTCATACAA
TCAATTTAGCTATCTGGACCTAGCTCGATATCAGTAGAAGATAGAGCCGCTAGCTCGACTGGGGA
TGGTTACGTGCTTGTCTGAGAGGAAATGGGCGGGGCAACTCGACC
Right flanking sequence: Indices 290144 -- 290643
AGTAACCTCCCCTTTTCTTCGTAACGAGTGTTCCCCGAGCAGCGGAGCATTTATGAGTGGATGTA
GCTGTGATAGCTTAGAGTTTCACTGATTGGTATGCCAAAAGACTTTTTATAATATCTTATAAAAA
GAGAGTTACTAAGAGTATTGCTAGAAATTATACGTAAGATAATAGAAGTCAAACTCTTTTGCAGC
TCTGGAGAAGGGGTAGCAAGTCGGAGACTCCCATGGATTGATCTATAACAACTACTGTGCCCGAA
GCGCCTGCATTTAGACCGGTCGCAGTTTAAGGTGAAGGTTCAATTGATCTTGCCTTGTAGGTAGG
CAGCGCCTCGAGAAAGACCATAAACATAAAAAAGAGGAACTCAAGCAGAGGCTGAAAGGCCCTTT
CTCTTTCCTTACCGTCTAGCGATACCATTTACATTTGTAGGAATGCATGGGACTACTTTCTATAA
AGCACTTTAGGTGGCTCTACTACTTCCATAGGCGGCCGGAGGAGC
Found at i:290151 original size:21 final size:22
Alignment explanation
Indices: 290107--290151 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
290097 GAGGGAGAAG
* *
290107 CTAGTGTAGGGACGAGGGTGAC
1 CTAGTGTAGGGACGAGAGTAAC
290129 CTAGTGTA-GGACGAGAGTAAC
1 CTAGTGTAGGGACGAGAGTAAC
290150 CT
1 CT
290152 CCCCTTTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.27, C:0.16, G:0.38, T:0.20
Consensus pattern (22 bp):
CTAGTGTAGGGACGAGAGTAAC
Left flanking sequence: Indices 289607 -- 290106
GATTTCTCTTCCTTAGCGTTCACATTAAACAATTAAACCTATTCCTAAAGTGGAAGGCTTCGATC
CGTATAGCGCGGGATGATGGATATCTTGAGTTAATAGAGCCAACCAAAGCTTGCTTACTTAGTGT
GTAAAGATTACAGCTCCGGAAGATACCGGGCATCTGTGAAAGCGTCTGCACTCTCCTCATTCTAC
TCAGAAGGAGCTCCAATTCCTATTGGTTTTGGCAGAGGCAAGAAAGAAAGAAGCTAGGCTTCACC
CAATCTTCCAATCAAAATCTTACGCCGAGAGGGCAAAAAGCTATAGGGAAATCGATCGATAGGAT
TGCATCCCTGGCCATAAACCGTAGAAACGTCCAGAAATGGTCATACAATCAATTTAGCTATCTGG
ACCTAGCTCGATATCAGTAGAAGATAGAGCCGCTAGCTCGACTGGGGATGGTTACGTGCTTGTCT
GAGAGGAAATGGGCGGGGCAACTCGACCGTAGGGAGAGGGAGAAG
Right flanking sequence: Indices 290152 -- 290651
CCCCTTTTCTTCGTAACGAGTGTTCCCCGAGCAGCGGAGCATTTATGAGTGGATGTAGCTGTGAT
AGCTTAGAGTTTCACTGATTGGTATGCCAAAAGACTTTTTATAATATCTTATAAAAAGAGAGTTA
CTAAGAGTATTGCTAGAAATTATACGTAAGATAATAGAAGTCAAACTCTTTTGCAGCTCTGGAGA
AGGGGTAGCAAGTCGGAGACTCCCATGGATTGATCTATAACAACTACTGTGCCCGAAGCGCCTGC
ATTTAGACCGGTCGCAGTTTAAGGTGAAGGTTCAATTGATCTTGCCTTGTAGGTAGGCAGCGCCT
CGAGAAAGACCATAAACATAAAAAAGAGGAACTCAAGCAGAGGCTGAAAGGCCCTTTCTCTTTCC
TTACCGTCTAGCGATACCATTTACATTTGTAGGAATGCATGGGACTACTTTCTATAAAGCACTTT
AGGTGGCTCTACTACTTCCATAGGCGGCCGGAGGAGCTGAATAGG
Found at i:313968 original size:15 final size:15
Alignment explanation
Indices: 313948--313986 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 15
313938 AAGGCTAGGG
313948 AAGGCTAGGGCATAA
1 AAGGCTAGGGCATAA
313963 AAGGCTAGTAGGGCATAA
1 AAGGC---TAGGGCATAA
313981 AAGGCT
1 AAGGCT
313987 TACAGCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
15 6 0.29
18 15 0.71
ACGTcount: A:0.38, C:0.13, G:0.33, T:0.15
Consensus pattern (15 bp):
AAGGCTAGGGCATAA
Left flanking sequence: Indices 313448 -- 313947
GTGAAGCTTTCGGAGCGTAGTGAGGTGAGCCAGTGCCTGTTGGTGGTCAAGTCCCAGTGGAAGTG
GAAGTTGTTGGGCGTTCAGGTTGCAAAGGAAGTTGGTGGGCTAACGGTGGTCCAGGTAAGGTAGG
TGGGGAAGGCTCGCCACGAGATCGACCGATAGCTTTGACCCAACCCCGGAAGCGGAAGTGCCAGA
GAGACGATCTTTGTGAGGCAGAGTGACATTCCAAGGTCAGGTATAAGGTGCTACGGGAACGATGT
CTCAAAGGTCAGTGCCAAGGGCTCAACGCGGAAGCAATCCGCTGCTCACAGGGACCGTGCGGGCT
GACGCTCTTCTCTCTCAGGCAAAGAAATGTGATTTTAACTTTCGCTGGTTCAAGGTAGGCTGCTT
AAGCAGAGGTTGTTGTTGTTGTTGGCGTGAGTGAAGGCGTTCCTTCCGGTGGGCATGACGAAGCT
AAGCTGGAACTAATTACGAAAGCATAATCGTTTTCAAGGCTAGGG
Right flanking sequence: Indices 313987 -- 314486
TACAGCTTTTCCGAGTCAAAAGCGGCTAAAAACACTCAGCCATAAGTTCCGGTTTCACCACAGTA
CAGGGCTAAATAAAGGGGCTCAAGGTTGGCATGACGAAGCGTCGGGCATCAAAGCTACCGGTTTC
AAAGTTCAGTTCTAACGGGCGTTCGGAAAGGCTTGAAATCGTAACGTACAGGTAGACTTTGCCAA
GGCAAGGAAAGTAGTAAGAAAGATATCGATGGAGCGGGCAGAACCTCGAGTAAGACAACCAACCC
TGGAGGCCATGGCTTGGCTTTATCCCGTAGGTAGTAAGAACAGAGAGAGCCTTCTGTGCTAGCAA
TACAGAGAGGTGGGGATTGAATGAGGCGAGCGCTGACTGCAGCAAGACCACCAGACCCTAAAAAG
AATAATAACAACGTTCAGCAAGCCGAAGCCAGCCAGACAGGCACCACCAGATACAGGGCGGGCAG
TTACTCCACCGAATCAGAGGGCAGATACCCGGACCAAAAGGAGTG
Found at i:324939 original size:20 final size:20
Alignment explanation
Indices: 324905--324942 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
324895 CTCATAGCTG
324905 CTAGCAACTCCTAGCTACAA
1 CTAGCAACTCCTAGCTACAA
324925 CTAG-AACTCCTTAGCTAC
1 CTAGCAACTCC-TAGCTAC
324943 TAAAACAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.32, C:0.34, G:0.11, T:0.24
Consensus pattern (20 bp):
CTAGCAACTCCTAGCTACAA
Left flanking sequence: Indices 324405 -- 324904
TCCTGGCTACTCCACCCGGATGGGTGCCACAAACACAGCTTGTACTGGCTAAACATCTCCTATCT
TTCCATTTGAAGGAGTCTATCCCACTGCTTAAGTATGACAAATGTCTGACACTACTATATCGGAC
GTAAAGTCTTGCCCGGCCTCACTGAGTGGATCTGGTGCCCACACCGTAGCTAGTCCTCTTAGCTT
TATTGGAGCAGGTGCCCAAGCTTCTTTGGCTAAAGCACATCTCCTGTCTGAACCCTTGACCTATT
TGAAAGACAAATGCACAAACCCAAATTGAAGAAAGAGATGCTCGAGTCTCTTACGCCATCCTAGG
CGGTTCTCCCGTAGCGTCTCCGCCGGCGACTTTCTAAGGTTCAGGGTTGTCTGCCTATCCTAGGT
GACCATCTTCGTCTACTACAACGAGGGGTGTGTGCCATAGAGTGTGGTACAGGTGTCACCAGTCC
CAGACAGATTTGTTTATGATCTCGTCAACTCGGAACTCATAGCTG
Right flanking sequence: Indices 324943 -- 325442
TAAAACAAGAGCTCTTTCACTCGGGCGACTTTTCTTATTGGGCAAGTTGCCACCCGTTGTTCAAT
ACCCTAACTATAGTAAGTAGCTTAATCTGTCGAGAAGAACCATCCCTACCGGATCGGACATGTAA
CCAGTCTTCTCCGCTTGAGAGGGAAAGACGGCTGCTCTGTGAACAAAACAACCCTAGTTGCTGGT
CCTGCTCCTGCTGCTGTCTGAACTGCCACCTCTGCTCCAATACATAAAGCAGCTCCAGCTTGAAG
CTATTGTAGCAGCTCTGTCCCATTCATCACTGCTTTCTGTTAAAAAGAAAAGAGCTGCTCCTCTC
CGATCTAAGTCCTCTCTCTAGTCAGAAATTGCGTAAGTTAATCAGGATGGATCGACAGGCTTTCC
AAACCTACAGGTCTCTTCCTCGGACCTAGCATTGCTGCCTGGCCCATCACTTCTTCTTTTCTTGA
CTTCGATGATTTGCCTGCAGGAGGATCATCGAAGGTTGGAGAAAA
Found at i:376078 original size:17 final size:17
Alignment explanation
Indices: 376056--376100 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
376046 TCGGGAAGAG
376056 AGGAAATCTGTCTTTAT
1 AGGAAATCTGTCTTTAT
* *
376073 AGGAAATTTATCTTTAT
1 AGGAAATCTGTCTTTAT
*
376090 AGGGAATCTGT
1 AGGAAATCTGT
376101 GCCCTTTGTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (17 bp):
AGGAAATCTGTCTTTAT
Left flanking sequence: Indices 375556 -- 376055
CTTGGAGAACGCGAAGCCTTTTTTTCTCGGTCGTCCTTCTCTAGGTACAAAAAGGAATTTACGGG
ATATCTCCAAAATTCGATGTACTTCTTCAAGTGTGGGACACATCTCATGTTTGCCGAATCTAAAA
ACCATCGTCTTTGCATCCCAACACTTCACTGCGGCTATGATCGGATCCCAGTGTTGGTTCACTTT
TTATCCTCCACCAAATCTTCTGAGCTCCTGTTCTCAATGATGTTAAGCAGCTCTTGATCGCAGCA
ATCATGCCTTCGAAGGTACGCTTTTTTCATTCAACTGTGCTTGAAAGAGAGAGGATATGATATAA
GGTAAGCCCCAATTCCACTGAAAGATTCAATTCAGTCAGCTTGGCTTTTTCTCTAGTTTGCCTTT
TTGTCTACCTTCTTTAGTCAATGTCGCATTTCGAGTGCTTGGTTAGATCTCCTAATGGAGAAGAT
GCGGTGAATCAATCAGTATTAGCTAAGGAAAGCATTCGGGAAGAG
Right flanking sequence: Indices 376101 -- 376600
GCCCTTTGTTTGGGTCTGAAAGTGCAAGACTAGCTGGACCCGGACTGACTAATCGCTAAGAGCTC
GCCCCGAGTGCTAAGTACGGCATTCAGTAAGAAGTAAGCCAAGTTCAGTGATCCTCGAGAATAAA
CTATCAGGCGGAGGAAAGAACTGATGACTCACATCCCACAACACAAGAAGGATGGAAAGTCGTGG
AATTGATCGAAGTTAGCCAAGTTCTCTTAGCCGTTACGTTAGGGTGACTCGAGAAAGCTTGAAAG
AATAAGATACGTAGAGCGTGAACCAAGGTTCATAGGCGGATCAAAGTCGAATCTTGCAGATCCTA
GTTCGCTTTCTAATCGCTTTCGGGACCAGTCTTCAATGGCATGAAGCTTTAGTGGCATAGAATTG
GCTGCCTGATCGGACAGATGAAAGGAGAACTATCTGGTGAGGCATCTGGATTTGATTCGGGTCGG
TTAAAGCTTGAAAGGGAGTTCGTGGCCTACTAGGAGTTCTGTTTT
Found at i:385611 original size:18 final size:18
Alignment explanation
Indices: 385571--385613 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
385561 ACCGCCCTGC
385571 CATAGTCGCGAGTCTGTTT
1 CATAGTCGCGAG-CTGTTT
385590 -ATAGTCGCGA-CTGTTGT
1 CATAGTCGCGAGCTGTT-T
385607 CATAGTC
1 CATAGTC
385614 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 385071 -- 385570
GAAAGCTTCTTTTTCAAGTGTCAGTAGCGGAACGTTCTGTCAATCGGGGAAGGTTTTTGGTGACA
ACACCTGGAGATATCAGAAGTGAGAATGCTGACATGAGTAACGAGAAATCCTGTGAAAAACACGA
TCGCCTGCCAGTGGAAGGCTTTCTGCGTTCAGTCAATCTACGCAGAGTGAATCGGTCCCTAAGGA
ACCCCCGAAAGGGCTGCCGTCCGATGGGTACACGAAAGTGACGAAGTTGCTTTGACTACAGAACC
ATGCCTATCTGTTGGAGCGAATTGGATGATCGGGCCGAGGGCTGCCCCCTCTTCCCCTCACTCTC
CTTTCCCTAATATGAACCTTGAGTCATCAAAGCCTTTCTGACTCGGCCTGGCCCGGTCGCCCTAT
GCGACTGGCGCTTCAAAAGGCGAAACTCTCGTCGTAGTTTGGCGACCTAAGGGGCCTTTAGTCTT
TTGATTAGAGTAGGGGTCGCGAGAGAGCAGAGCGTACCGCCCTGC
Right flanking sequence: Indices 385614 -- 385869
AACAAGGTTGAAACTTCCAGGAAAAAACTTCGAATTGGGAGGGCGATCCTCCCGGTGAACTGACC
GTACCCCAAACCGACACAGGTGAACAAGTAGAGTATACTAGGGCGCTTGAGAGAACCATGTCGAA
GGAACTCGGCAAAATGACCCCGTAACTTCGGGAGAAGGGGTGCTCTCCTATCTTTTGATTAGGAA
AGCGGCACATACCAGGGGGTAGCGACTGTTTATTAAAAACACAGGACTCTGCTAAGTGGTA
Done.