Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: JF920287
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: 232241
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Found at i:139 original size:39 final size:39
Alignment explanation
Indices: 85--165 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
75 TTCCTCTCAC
*
85 AAACTATCAATTTCATAAGAGAAGAAAGATCGTTTTTCG
1 AAACTATCAATTTCATAAGAGAAGAAAGATCGTTTTTAG
124 AAACTATCAATTTCATAAGAGAAGAAAGATCGTTTTTAG
1 AAACTATCAATTTCATAAGAGAAGAAAGATCGTTTTTAG
163 AAA
1 AAA
166 AGAAAGAAGG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (39 bp):
AAACTATCAATTTCATAAGAGAAGAAAGATCGTTTTTAG
Left flanking sequence: Indices 1 -- 84
AGAAGAAGGATGGAGCAGAAAGATAGAAAGATCAGTTGCTGGAAATCAAATATGTAAATAGTCGA
GTTATTGCATTCCTCTCAC
Right flanking sequence: Indices 166 -- 665
AGAAAGAAGGTTTTGATTCGAGGCGGATCCCTTTTTTCTTTGCCTTTACGAGTAAGAAAGTGGTT
ACGCTCCGCTGGGGAGCCGGAACTGTAAATTCCTACTGTGGTTCGAGTCCACAAACCACTGAGAG
CTCTGGCATCGGTTCAGGCTAAATCCTGAAGAAAGCTAGAAAGCGCTGTTTGATGAGCCTGCGTC
CGATTTGTGAGTTGGTTAGGTAAAGGCTGACCAAGCCAATGATGCTTAGCTGCCCAGTCGTGCCG
AGGAATTCCCATCCGACCAGAGGAGGGAAGAGAGTGACTAAGCAGCAGCTCCACTTGTCGCGTAC
TTCTTTAGCTGCACCGTCATCGCCGGCCGGACAAACCCTTCCAACAAATGGGGAGTGGGCCAAAG
GAACACGACACATCCAGTGAAGAGATCCCGGACAGGGAAGTCAGAAGGTCTGCAAGCCTCGTCTT
CGCCCCTGCTTTAGCTGCACTTGGTGCGTAAGAGGGAGACCCGGT
Found at i:2960 original size:13 final size:13
Alignment explanation
Indices: 2939--2969 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2929 CAAAGGTCAA
*
2939 CTAGCTTGCTTCG
1 CTAGGTTGCTTCG
2952 CTAGGTTGCTTCG
1 CTAGGTTGCTTCG
2965 CTAGG
1 CTAGG
2970 GACTTAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.10, C:0.26, G:0.29, T:0.35
Consensus pattern (13 bp):
CTAGGTTGCTTCG
Left flanking sequence: Indices 2439 -- 2938
CGCACACACGAAAGTCAAGGGATTGTCTGGCCCTGCTACCTACCCAACATGAGCACACTCCGAAA
TTAGAGTAGCTATCTATTTCATAAGAGACCTCTTGCAGATTGAAGCATGATTGGGCTCTCCGCTT
CTCTTCAGATGGAACTTCGCCATGTCCATGTCCCTCGAGTACTGTTCCTAGAGTATAGTAGAGTA
CGGATCGATTGAACTGGTTTCTGTCGTACCCCTAACGGTACAGTTATGACCTAATGCGGGGTCTC
TCTCAGGCAGAAGATCAACCGATGTACGATGTTGGACCTAATGAGAGGTCCTTCTCTGTCAGGGT
TTATAGGTCAACTGGTTGCTTCGCTAGAGTAGGACCTAACCCATGTACTGTGAGTGTTGATTAGT
CACCCTGATATCGAGTGAGCATTCGGGGGTGTAGACTTCACACTTTAACAGGTCATCTGTCTTTC
GAAGTTTTCTGTAACACAGAGATGTAGTTGCAAGGCAAAGGTCAA
Right flanking sequence: Indices 2970 -- 3469
GACTTAAGGAGAAGTTATTTTCTGTAGCACAGAGATGACTTTAGTAAGTTGCAAGGCGAAGGCCT
CAACGATTGTGGTTAATCTATCTTGGTATCTTTGTGATGAGGTATGGCTTATCTGTGCTGGGGTG
TGCTTGGGAGTCAAATGCTAGGGTCATGCGAAAAGTCCTATTTCCAATTCCGATCTCATATCTAA
GGAACGGGAGTTCTTAACAGAAGAAAGGCCATAGACTCCGTTTGGTACGTATCTGATATGTGACA
AATCCTAAATCTGCAAGGTATCTTATCTCTCTCAGTTATTAATATGGTGCTGGACTAGCGAAGCA
ACCCTTTTGAAGAAGGAATCTTAGGAGTTCTGCAGCATATGGATGGCTTAAAGGAAGAAATCAGA
CATCTGAGATAAGCAGGGCTGTTGTCTAATCTGAGGAATGCATACGAATCCTATAGTAAGTTCAC
GGGTAATTCTCCGCTTAGTTCAGTAATCTCCTGAAAGTTGGGTGA
Found at i:7766 original size:36 final size:36
Alignment explanation
Indices: 7719--7805 Score: 149
Period size: 36 Copynumber: 2.4 Consensus size: 36
7709 AAAGCCTGAA
7719 AGAAGAAGGTTGACTCGGCAATCTCAATTTCGTATG
1 AGAAGAAGGTTGACTCGGCAATCTCAATTTCGTATG
7755 AGAAGAAGGTTGACTCGGCAATCTCAATTTCGTATG
1 AGAAGAAGGTTGACTCGGCAATCTCAATTTCGTATG
* *
7791 AG-TGATGGTTGACTC
1 AGAAGAAGGTTGACTC
7806 ATGAAAGTGC
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
35 11 0.22
36 38 0.78
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (36 bp):
AGAAGAAGGTTGACTCGGCAATCTCAATTTCGTATG
Left flanking sequence: Indices 7219 -- 7718
GGAGTAGATGCCGGGGGGAGAAGGAATTCTACGACTGATTGAGCCAACAAATCCTAGCTAGAATC
TAATCTGGAAAGAACTTGGAACTCTCAACCATAGCTTTGATTTGCTTTTCTTATTGGCAGAAGTC
AAGGCGATTTTAATCTCAAAGAGGCCGATAGGACCAGTATCGGACGAGATATTGACAAAAGGAAA
ATCATTCCATTCTTGTCCCTTCTTGGATTTGAAAACGAAAAGTACGTTCGGGCAGAAGTCTTGTA
TGAGTTAGCCACTGCTTCAAGCAGAAAATGGAATTTTCCTTGTTGAAAACAAGAGATTCCAAGAG
GAGTTAGATAGGGAAACGGAGACTTTACCTGTAAGTCAGTATATTGACAGTGCCCCAAGACAATC
TGAAGCACTGACTGGAATCAATCAGCAGCTGAATGCAAGGATTACTTCAATAAACAATTGAAACC
AACAAGACCTTTTCTTTTCCATCAGGAGACCATTCAAAGCCTGAA
Right flanking sequence: Indices 7806 -- 8305
ATGAAAGTGCAATGGAAGGGTGAAAGCCGATGAACGCCTTTCAGTCGAGTTTGTGTTCACAACCT
CTCCTTTTCAGTCGAGTCACTGGGGTTCCTCTCGCAACGAGTGCTCGAGTATATTAGTGTTCAGT
ATATCATGTTAGTGTTCAGTATAGCCGGGATTGTAGTTCAATCGGTCAGAGCACCGCCCTGTCAA
GGCGGAAGCTGCGGGTTCGAGCCCCGTCATTCCCGACCTAGGATCTGATGTATCGATCAATTAAT
CTCTCATCAGTTACGAAATATATAGCTATAAAAAAAAAAAGCTAGAAATAGAATTTAACTTAGTT
TCTCAGCCTCTAGGAATTCCTAAGCGTTAGCGAAGAAAGAAGCCTACTTGAAGAAGGCTGCCAAG
AGGAGAGCAAGCGCCCTACCCGAGTCTCCAGCGAGAAGCGTTTTATATATAATATAAATTATTAT
CGATCGAAACCTAAAGCCAAGTGCATCGATCGGTTTCCTTGCGTT
Found at i:21469 original size:71 final size:71
Alignment explanation
Indices: 21277--21455 Score: 349
Period size: 71 Copynumber: 2.5 Consensus size: 71
21267 ACTTTTCCAT
21277 CTATATAAAGAGAAAGTTTTGGATTCCTGATGTGCTCCGTAGAGCTAAAATAGGGTTTCATCAAA
1 CTATATAAAGAGAAAGTTTTGGATTCCTGATGTGCTCCGTAGAGCTAAAATAGGGTTTCATCAAA
21342 TCCTCG
66 TCCTCG
21348 CTATATAAAGAGAAAGTTTTGGATTCCTGATGTGCTCCGTAGAGCTAAAATAGGGTTTCATCAAA
1 CTATATAAAGAGAAAGTTTTGGATTCCTGATGTGCTCCGTAGAGCTAAAATAGGGTTTCATCAAA
21413 TCCTCG
66 TCCTCG
*
21419 CTATATAAAGAGAAAGTTTTGGATTTCTGATGTGCTC
1 CTATATAAAGAGAAAGTTTTGGATTCCTGATGTGCTC
21456 TTACGAAGGA
Statistics
Matches: 107, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 107 1.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (71 bp):
CTATATAAAGAGAAAGTTTTGGATTCCTGATGTGCTCCGTAGAGCTAAAATAGGGTTTCATCAAA
TCCTCG
Left flanking sequence: Indices 20777 -- 21276
ATCGTGATGTAAGTCTATTATTCCTTGCATTATAGGTGTAGCTGCGTCTTGAGATCCTAATTGCC
ATGGTTCCGCTGCATCACAAGGAGAAATTGTGAGGAATAACCATTTTAGAACAATCATTTTCAAA
GCAAAGGTTCCTTCATTGACTGCTCCGCTCCCCCCCAAACAAAGAGAGACTGATTCTGACTCTCC
CAATTAAGGAAGACGGAAATGACTGGTGCCGGTTGGTCCAACCAAGAAAAAAGAGATGGGAATTT
TGGGCGTAAGATTCTTCTTCTTCTTACAATATTTTGAGTTAGATGAACAGAGATCACTCCTCTAA
GCAGCCTTCTTCTTATATACATATTATTCTGTCATGGGTTGTTAGCTGTGTTCTATCGTAGCTAT
CTCTGTTCAACACTTGGAGGGAGCGAGCAACGGCCTGCGAGCGATCGTAGCTACTTCCCTTAGTT
TTGTTTCAAACTCTTCTCTTTTTTCCTTTTTTCTTACTTTTCCAT
Right flanking sequence: Indices 21456 -- 21955
TTACGAAGGAAAATTGGATTGCTAACTTTTGCATCTATATAAAATGAAAAGAAAGATTTGTGTGT
AGCTCGCCGAGGTACAGAGTGACTCTTACTCAACTTCGATGAAATCAATCTCATATGCCGAGATC
AAGGTTCAAACAAAAACAAGAACAGAAATAGATCAAAGTCAAAGGGAAAGAAGGGATGCTGTTCA
TGCGGGGAAGAAGGACATTTTAAGAAGAATTGTCCCAGTAGAAAGGCTTATCATGATAAGACAAA
AGACCAGAACACAGTAAGAGGAGAGTCTGCTATGGTAAAAGGAACAGAGGTCAAGCGTGTGGATG
TCCTATATGCAGCTGAAGCCTTGAATATTACTGATCTGGTTGAACAAGAGTGGATCATGGACACA
GGTTGTTCTTACCACATGACACCCAAGAAAGAGTGGTTTGATGAATTGAATGAAGAGATCACAGG
GATAATCAAGATGGGAAATGACACAACATCATCAGTGAAAGGAAT
Found at i:25209 original size:12 final size:12
Alignment explanation
Indices: 25192--25218 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
25182 GAGGTTCCCT
25192 CTCGAGGAACGC
1 CTCGAGGAACGC
25204 CTCGAGGAACGC
1 CTCGAGGAACGC
25216 CTC
1 CTC
25219 TTCTCATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.37, G:0.30, T:0.11
Consensus pattern (12 bp):
CTCGAGGAACGC
Left flanking sequence: Indices 24692 -- 25191
ACCATGCCCACTATACTTTCTTCTAAGCCAGCTTTTCACTCTTTGTTTTCGTATCATCTCATTGG
ACTTATTTCAAACAAACTCGTTACACTCGCACCTGATACACGGGAACGAAGAAAACTACATGGGG
AGCACGCTTACACCTGCAAGAACTAAGGGTCCAGACCAAGCACAGACAGATAGAACCAGACATAA
AAAATCTTCCTTTGCACAATGCCTATCAGATATGGAAGGAGGATCTTTCAAGAGAAACTTCCATT
TGATTTTCTAGCTCCGAGAGCTACTTTAATGGCTTGTGCCCATAACAAGTAGTTATGATCATTCA
ACTTTACAGAGGTAATCTGCATACTGACCTGATCAGATGAAGTGTTGGAGGCGGATTTATTTGAG
TTAGAATCAGCCATGACGAATAACGTTGAGAAAGACCACCCAAGAAAGAATAAAGAAGCAAGCCC
CACAACCATGGAGAATATGGGAGCAAGCCTAAGAAGAGGTTCCCT
Right flanking sequence: Indices 25219 -- 25718
TTCTCATTATATGATTTGTGTGAACACAGTAAAGTCCCACCATAAGCATTCTCTGCATCTCCACT
GCATTAAATGAAACTAAACGTCCCTTTCAACTTTGGATCAACTGCCTCAATCAGTTTCCCTTTCT
CCCAGTAGCTCCATACCAATCAACAAGCACCGTACCAGCATCATCGACAGGCCTTTTCCCTGTAG
CTACCTCTAGCACCACTAGACCGAAGCTGTAAACATTTCTGTGATGGAACACCATAATAAACATA
TTAAGGAGCAAGATCTCCCATTTTCCCAGCTGGTATTGTAGCTTCCCTGGTTATAGAACTATGTT
CATAGACTTCTGCCTAAATCTCCTAGCTTGGCATTGAATTCTGCATCAAGCATTATATTTCAAGT
CTTAACTAACGTCCCTATGAATTCTTTCTCTCTCACATTCTGAATGCAGATATGATAGAGCAGAC
GCAACTCCGAGAACTAGATTCAACCTTTGCTTTCTTTTCCTCTGG
Found at i:95887 original size:39 final size:39
Alignment explanation
Indices: 95833--95913 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
95823 TTCCTCTCAC
*
95833 AAACTATCAATTTCATAAGAGAAGAAAGATCGTTTTTCG
1 AAACTATCAATTTCATAAGAGAAGAAAGATCGTTTTTAG
95872 AAACTATCAATTTCATAAGAGAAGAAAGATCGTTTTTAG
1 AAACTATCAATTTCATAAGAGAAGAAAGATCGTTTTTAG
95911 AAA
1 AAA
95914 AGAAAGAAGG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (39 bp):
AAACTATCAATTTCATAAGAGAAGAAAGATCGTTTTTAG
Left flanking sequence: Indices 95333 -- 95832
TGCCTTACCACACCAACCACCTTAGCACTGGAAGTTCTAGCAATGGGCAGCTAGGCAAAGGAAAA
TTAGCTATCTAATTCATATTCATTAGATAATAGATTGTGGATCTGTTCTTAGCTCGTGCAATCAA
TAAAAGCGGTCCTTCGCCTTAGTAAGCTAGCTTTCTAAGCCCGGACGTGGATCGATCGTGACGAA
AATGGGACTAATCCTCTGTACTGTAATAGAAGAGTCAGAGTCCCTTCTCGACCAGACGAAGGAGA
TAGGAATGGAATTCTGCCTTGACCCTCCTGGAGGCGCAAAGTTCATAATTCAGTGTGGTGCGGCC
TAGTAGTATTATAAGGATGTTGGTTTCGTATATAAGAAGACTGCTGCTTAGAGGAGAGTGATCTG
TTCATCTAACTCAAAATATTGTAAAAAGAAGAAGGATGGAGCAGAAAGATAGAAAGATCAGTTGC
TGGAAATCAAATATGTAAATAGTCGAGTTATTGCATTCCTCTCAC
Right flanking sequence: Indices 95914 -- 96413
AGAAAGAAGGTTTTGATTCGAGGCGGATCCCTTTTTTCTTTGCCTTTACGAGTAAGAAAGTGGTT
ACGCTCCGCTGGGGAGCCGGAACTGTAAATTCCTACTGTGGTTCGAGTCCACAAACCACTGAGAG
CTCTGGCATCGGTTCAGGCTAAATCCTGAAGAAAGCTAGAAAGCGCTGTTTGATGAGCCTGCGTC
CGATTTGTGAGTTGGTTAGGTAAAGGCTGACCAAGCCAATGATGCTTAGCTGCCCAGTCGTGCCG
AGGAATTCCCATCCGACCAGAGGAGGGAAGAGAGTGACTAAGCAGCAGCTCCACTTGTCGCGTAC
TTCTTTAGCTGCACCGTCATCGCCGGCCGGACAAACCCTTCCAACAAATGGGGAGTGGGCCAAAG
GAACACGACACATCCAGTGAAGAGATCCCGGACAGGGAAGTCAGAAGGTCTGCAAGCCTCGTCTT
CGCCCCTGCTTTAGCTGCACTTGGTGCGTAAGAGGGAGACCCGGT
Found at i:98708 original size:13 final size:13
Alignment explanation
Indices: 98687--98717 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
98677 CAAAGGTCAA
*
98687 CTAGCTTGCTTCG
1 CTAGGTTGCTTCG
98700 CTAGGTTGCTTCG
1 CTAGGTTGCTTCG
98713 CTAGG
1 CTAGG
98718 GACTTAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.10, C:0.26, G:0.29, T:0.35
Consensus pattern (13 bp):
CTAGGTTGCTTCG
Left flanking sequence: Indices 98187 -- 98686
CGCACACACGAAAGTCAAGGGATTGTCTGGCCCTGCTACCTACCCAACATGAGCACACTCCGAAA
TTAGAGTAGCTATCTATTTCATAAGAGACCTCTTGCAGATTGAAGCATGATTGGGCTCTCCGCTT
CTCTTCAGATGGAACTTCGCCATGTCCATGTCCCTCGAGTACTGTTCCTAGAGTATAGTAGAGTA
CGGATCGATTGAACTGGTTTCTGTCGTACCCCTAACGGTACAGTTATGACCTAATGCGGGGTCTC
TCTCAGGCAGAAGATCAACCGATGTACGATGTTGGACCTAATGAGAGGTCCTTCTCTGTCAGGGT
TTATAGGTCAACTGGTTGCTTCGCTAGAGTAGGACCTAACCCATGTACTGTGAGTGTTGATTAGT
CACCCTGATATCGAGTGAGCATTCGGGGGTGTAGACTTCACACTTTAACAGGTCATCTGTCTTTC
GAAGTTTTCTGTAACACAGAGATGTAGTTGCAAGGCAAAGGTCAA
Right flanking sequence: Indices 98718 -- 99217
GACTTAAGGAGAAGTTATTTTCTGTAGCACAGAGATGACTTTAGTAAGTTGCAAGGCGAAGGCCT
CAACGATTGTGGTTAATCTATCTTGGTATCTTTGTGATGAGGTATGGCTTATCTGTGCTGGGGTG
TGCTTGGGAGTCAAATGCTAGGGTCATGCGAAAAGTCCTATTTCCAATTCCGATCTCATATCTAA
GGAACGGGAGTTCTTAACAGAAGAAAGGCCATAGACTCCGTTTGGTACGTATCTGATATGTGACA
AATCCTAAATCTGCAAGGTATCTTATCTCTCTCAGTTATTAATATGGTGCTGGACTAGCGAAGCA
ACCCTTTTGAAGAAGGAATCTTAGGAGTTCTGCAGCATATGGATGGCTTAAAGGAAGAAATCAGA
CATCTGAGATAAGCAGGGCTGTTGTCTAATCTGAGGAATGCATACGAATCCTATAGTAAGTTCAC
GGGTAATTCTCCGCTTAGTTCAGTAATCTCCTGAAAGTTGGGTGA
Found at i:103609 original size:22 final size:22
Alignment explanation
Indices: 103581--103629 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
103571 GCCGAAGGCA
103581 CTCGACTAAAAGGTTCAAAGAT
1 CTCGACTAAAAGGTTCAAAGAT
*
103603 CTCGACTGAAAGGTTCAAAGAT
1 CTCGACTAAAAGGTTCAAAGAT
103625 CTCGA
1 CTCGA
103630 GCGTAGCGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.22
Consensus pattern (22 bp):
CTCGACTAAAAGGTTCAAAGAT
Left flanking sequence: Indices 103081 -- 103580
CATAATATTGGATTCAAACCGACGGCCCACCCTTTCTTTGAACCTTGTCAATGATCGAACTTAAA
GATATGAACTGAGTGCCATTTGATGAGTAACTGAGAACAAAGGAGAGGGGTATAGCAAGGATGAA
GTAATGAAAAAGGAAGTCATTGCTAGTAGTAACGACTTATTACGATCCATTGGTTCATATAGAAT
CCATGTCCTAGGTGTATCAAAAAACATTCTTTTCACTAAGCGTATATAATAAAATAGAGTGAAAG
GGTCCACCCCGAAACCAAGGGGATACTAACTAACAGCTGAGTCCTCTCCAAACCGCATGAGATAG
TTGCCCATCATACGGCTCACCAACTTGCCTCTATGGGAGGCTCACTCCGGGCAGGTTCGGATCAC
TTATAATACAAAGCTCGGAGAAGGAGGGAGTTGGGTTAGGAACGCAGTAACTCGACCCCTCATCA
ACTAATTAATGAGACCTTATCCTTGGTGGGAGAGGGCCGAAGGCA
Right flanking sequence: Indices 103630 -- 104129
GCGTAGCGAGAGGTGCTTTAGCAACTCGACTGAAAAGGCGTTCCTCGGAGTCATGACTCGAGCAC
TTGTTGCGAGAGGCACGGAGTGACAAAGGAGCTCGACTGTAAGGCGTTCCTCGAGAGTGAAACGA
GAGGAGAGGTGAGGTTTAAGTTTTCAATATGATTCTTTTTTCATATTTGTTCGATGAGAAATGCG
AGTCAGTTTTGTCCATTTTTTCTATCCCCCTCTATCAAACAAAATGATCAAAAAGGAAGTTTACT
GGCTTCTTATTCTCGTCTTTGATCTCTTCCATCTCTGCCTCGCTCGTTGTCACCTATATATATTG
AAGAAAGAAACCCTGTAGAGAATGAAGAGGGGCCTAGGATCTTCTTCTCAACAGTGCTTCTCGGG
GCTCCCCCCTGAATAAGTAAGGCCCCGTTAGCCTGGGCGAAGATGGGGATAAGGAATAAGGATTG
AAGCCCCTTAGCTCTGCCAGGCACTGGACAGGGGTTAGCTCGGTA
Found at i:110800 original size:12 final size:12
Alignment explanation
Indices: 110783--110807 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
110773 CACCTTTTGA
110783 AGCTATCAGTTC
1 AGCTATCAGTTC
110795 AGCTATCAGTTC
1 AGCTATCAGTTC
110807 A
1 A
110808 ATCATTCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (12 bp):
AGCTATCAGTTC
Left flanking sequence: Indices 110283 -- 110782
AACATTTATATGTTTCGATGCAACAACAAGATGTTATTTGTAACAAGTAGTTTTGTTGGTTGGTT
AATTGGTCACATTTTATTCATGAAATGGGTTGGATTGGTATTAGTCTGGATACAGCAAAATAATT
CTATTAGGTCTAATGTACTTATTAGATCTAATAAGTATAAGTTCCTTGTGTCAGAATTGATAAAT
TCTATGGCTCGAATCTTTAGTATTCTCTTATTTATTACCTGTGTCTACTATTTAGGCAGAATACC
ATCACCCATTTTGACTAAGAAACTAAAAGGAGAGGGAAAGAGCTAGCCTTCGTCTCAAGGTTCCA
AACAAGAGGGTAATCAGTTGTGACTACTGAACCTACTAGCTTGCAGAAGTAGCTATCTGAGTAAA
AGCTGCTTTCAAAAGAAGAATAAGGAAGTCTAGCAAGCATTCAAGCAAGTCTCGCTGATCCGCAT
TGTATTGCAAGCTAACCAAAAGGAAAGAGAAGAGTCACCTTTTGA
Right flanking sequence: Indices 110808 -- 111307
ATCATTCACTCGCTAGGAAGAGGGCGTCTCGCATAACTAGGACAGTGAAATTATTTCTTTTCGGA
ATCCGCAATTGGTCAGCCTTTCTCGAGGAACGCCTTTGGTCCGTCTATCTCCTACGAGGAACTAC
GGCCAAGCTAGTTCTTAGTGAGCTTTCTCTCTTCGGGACACAGAACTCCCGGAACTTCCTTTCTT
GATTCACCCAGAACGGAACTTGCTCTAATCCTTCTCGTTCGATCCATTCTTCCTAGCGCTCCTCA
ATCAGATCCATAACTGCTGTTGCTTGTGCAGGAGTAACTGGAGAACTTATAATTTCAATGCAGTT
GTCAACTAAGAAACACCGGAAGTCCATGCGAGCCGGGCTGACATTAACCAATCAGATACCCTCCT
CGAAAGGGCCTGAAATCAAACACCCAGCCCTATTAGATATTAGATTAGAGAAGGGATAAAGTCGA
GAATGACATTCAAATTGAACAACTATGTGGTGTGGGCTTCGCCCC
Found at i:124505 original size:17 final size:17
Alignment explanation
Indices: 124485--124523 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
124475 CATTTCTTTC
*
124485 ATATCTCCATTCTCATA
1 ATATATCCATTCTCATA
124502 ATATATCCATTCTCATA
1 ATATATCCATTCTCATA
124519 ATATA
1 ATATA
124524 ATAGGGAGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.36, C:0.23, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATATCCATTCTCATA
Left flanking sequence: Indices 123985 -- 124484
ATAACGCTTTTCTTCCGATCTCACAGTTCCTTTGTCCCTTGTAAAGCATTCTATCTGTGGCCACG
TGCTACTGTGGAGCTTTTGAATCGACGTCAACCAAAAGAAAGAAGAGAGCCAGAGCGCCATACCC
TTCTCGGAAGGAACCCGCCCTTGGAAGAGCTACTAGGGCATCGCATCTATGCTGAAAGAGCACAA
TCCTTGATCTAGAGGGAGCCATTCCTTACCTTAGAGGAAAAGACTTAGCCCAGTCCTCAGTTTCC
ACTTACAGAATAAATGAATCACTTTGCCACTCGACGAGGCAGATAGCTCCTCTGGTGCTACTATA
GCCTTTGTGGTTGCTTCGCTAGGAAGAGCAGCACTTATATTGCTTGGATTATCTATTCAGCACAA
GCACACCGCTGTGCTGTGGAAGAGTAAACGAACTACTATCGATGTGTTACCTAAGAGATTAGCCT
AAACGAGAAAAGGGAGTGTGCTGGACTGACCTTTGCATTTCTTTC
Right flanking sequence: Indices 124524 -- 125023
ATAGGGAGGCGCTGACCTTACAATTGTAAGAGTTAAATGACCGACTGACTTGAATCTGTTTGCCG
TTGGTCCTTATCTTTAAGATAATGTTAAGAGTGGTAAGGGCTATGGGTATAGAGCCTTGGCCAAG
AGGTTGATTGAGTCAGTAGACCTAACGTACGCTTAAAGAAAAAGACAGCTCTGATCACCCTTTAT
CTTTCTCGGACTCCAGTAATATGTGTGGGGCAAGTAAACGTCAGCAACGAGGACTTCTTATTGGG
CTTACTGCCTCTGCCTGTCTTAGGTACCCAAGGGGAGTCCTACTAATAGCCATGCTGAGCTGTCC
TTATCGTAGTCATCTTTTCCTATTATTGAACAGTTTAAACTTGCATGTGTTAAGCATAAGCTTAA
ATCTTTCGAAGCTCCACTGATTCATCAAAATGTATCCAAAAATCCCGGGATATTAGCACTTTTTC
AGGCTGTTTTGACCTCGTCAATCAAAAACAATATCTTACAACATT
Found at i:130658 original size:18 final size:18
Alignment explanation
Indices: 130619--130660 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
130609 CTGAGGCGTA
*
130619 TTCCA-CAAGACGGTACC
1 TTCCATCAAGAAGGTACC
130636 TTCCATCAAGAAGGT-CC
1 TTCCATCAAGAAGGTACC
130653 TATCCATC
1 T-TCCATC
130661 GTCTGGCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.29, C:0.33, G:0.14, T:0.24
Consensus pattern (18 bp):
TTCCATCAAGAAGGTACC
Left flanking sequence: Indices 130119 -- 130618
GAAAGACAGAAAGCATTGTTTGATCAGCCAGAAGAAAGGCTGTTCCGAAGGTTCAGTTGCACATG
TGGTCTAAAAAAAAAAGGTTACAGGTAGTGATGAGCAGCCTGCTCCTAAAGAACGGAAGGAGACT
TGTTTCTTCTCTGCGATGTTCTTGGAAACCGCGGCTTTTGCCCGCCAGCTGCGAATCATTCATTC
AGAACCGGATGGTATTTTCAGTCCAGGTATTCTCTTTCAACCTGGGTATACTTTGTACCCGTTTG
ATACGAAATTTAGTACCTGGGCAGCTAATGAAGGGTTGAGGTTTTATGAGGCTTGGCCTGGCTTG
GTGTTTGATTCCCTCGCCATGGGCTTCGACCGTTCTTCTCAACCTCTTTATTCTGGACGTTTGGC
TCAGTCCTTAGAGGGTGCCGGAAAGCGGCGTTTGTTTGTAATCGGTAACTGGTTTAAACAACGTC
TGTTATACCCCGTGCATGTGTGGGGTATGTCTGTTCTGAGGCGTA
Right flanking sequence: Indices 130661 -- 131160
GTCTGGCAAAGAGACGCCCAAGATTTATAGCAAGTTTTGACTTGAGCGCTGCCACCGATCGGTGG
CCCGTTCCAGTCATATATGAGCTTATGGCGTGCCTTTTCGGTCAAACGATGGCATCGTGCATTGT
CAATGGTGCCTTAGCACTCAACTCATGCTCTTTGAAGTCCGTTACTGGACGGCATGACGAAGTTG
TGTTTATTGCAGGTCAACCTTTGGGTTATTACGGCTCCTGGGCTCTATTCGCGTTGTCCCACCAT
GCTATTGTGTGGTTGGCAGCATTACGAGCATATCCTCATCAGACGAGACCATTTCTCGACTACGC
TTTGTTAGGTGATGACATCGTCATTGCCGATCGTAGTGTGGCTAAGGAGTACCGTTCTCTACTTG
ATGCTTTGCAAGTAGATATATCTGATGCCAAGTCTATTGTATCTGAGACGGGTTGTCTTGAGTTC
GCCAAGCGGTTCTGGGTTAAGATAATGTCGAAGGACTTATCCCCA
Found at i:133209 original size:15 final size:15
Alignment explanation
Indices: 133189--133218 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
133179 ACCCTTCTTA
133189 TAGAAAACTGGCATC
1 TAGAAAACTGGCATC
133204 TAGAAAACTGGCATC
1 TAGAAAACTGGCATC
133219 CAAAGGTCCT
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:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (15 bp):
TAGAAAACTGGCATC
Left flanking sequence: Indices 132689 -- 133188
CAACTGTTAGAATTTCGATCGAACAAGTATTGGCATTCTGTCAGCATTTCCCCCGCGGTCAGTGA
TAGTTAGGAAAGGAAGAAAGAAAGGGTGATACACGAGAAGCTAGGTCAGGTATATATAGCGATTG
CAGATGGTGCACCAGTTTCGTATACATAGGCCCTGGTTGGTAAGGTGATGAGATCGACACATTAT
ATGCGATCTACGTTCATAGGTTCTACCTTGAAGCTCTTCTCCTTTCCTTACTCTAACAAGTAAGC
AAATAGGAATTACCTTGTGAAGCAACGTAAATTTAGTGAGTTTTGGGAGGTTAGCCTTAACACAT
CCAAATCTTCCGAAGTCAATGCGGTAGCAGCCACTGTCCCGACCTTTTCTGTCACTCCTTCCTTT
GAAAGGAGCTTCTCGCCGTTAAACTCAGCTCTTTTTCCGGCTTTACCGATTAGATCAGTTTAGAC
CTTACCTTGGGATTGGTTTTTTTCCTTTAAGGCTGACCCTTCTTA
Right flanking sequence: Indices 133219 -- 133718
CAAAGGTCCTCAACCAGGGAGAAATCGACAAATCTAGGATAAAGTCCACTTGAATCGACCAAAGG
GGAAGGAAGTATGAAAATCCAATTCTTTGACGGAAACTAAAGGCTAACCTACAAGCTAGCCTCGT
CGAATCGACTCACTCTCCTAACCTCAAAGGGAATCTGAGAAACAAGTAGATCAAGGATTCCCATG
TTGCCTATGGTGTCTTGCGAATTCCTAGGAATGTTAGGAATGGGAGAACCAGTAATCCCAGTAAT
CCCAGGAATAGGAGGTAAGGAGATTAGTTGGTTAGGAGGGAATCCCAGCAATATTAGCAATGAGG
TGATGAGATTAGGTTTGTTTTGGTTAGGGATTAGAGGAATGGGAGAGGTAAGCCAAGTAAGGTAA
GGAGTTTTTGTTTGTAGAAAGTTCCATTTCAATCTGCCTATCTGTTTGAATCAGTTTATCCCAAA
GAAATGTTTTACTCTTTTAATTGGTAGTTGGTTAAGGAATCCCTG
Found at i:180504 original size:27 final size:28
Alignment explanation
Indices: 180445--180518 Score: 132
Period size: 27 Copynumber: 2.7 Consensus size: 28
180435 AAAGAGCCTA
*
180445 GCTTTCTTGGTTTGATGAGCTTATACTC
1 GCTTTCTTGGTTTGATGAGCTTATACAC
180473 GCTTTCTTGGTTTGATGAGC-TATACAC
1 GCTTTCTTGGTTTGATGAGCTTATACAC
180500 GCTTTCTTGGTTTGATGAG
1 GCTTTCTTGGTTTGATGAG
180519 TGAGTAACAA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
27 25 0.56
28 20 0.44
ACGTcount: A:0.15, C:0.16, G:0.24, T:0.45
Consensus pattern (28 bp):
GCTTTCTTGGTTTGATGAGCTTATACAC
Left flanking sequence: Indices 179945 -- 180444
TCTTTCTATGAGAGTCGCGAGCTTGTTGTAGTCGGTCCTAAAGAACCTTGCTGCTTACTTGCTAT
ATTCCCGCGTTCTTGCATGGCTCGCGCGCAACCCCGCCCTGCTTCTCCCTTCCCCCTCCCCCCTT
ACCGTCCAAAACTCAGAGGCCGTATGGAGTATAGCCAAGTGGTAAGGCACCGGTTTTTGGTACCG
GCATGCAAAGGTTCGAATCCTTTTACTCCAGATTATGAACACCCGATCGGATCTGTCAAGAACGA
GCTGACGACTACAGGGGAAGCTCTCATTAATTAGTTGATGAGGGGAAGCGGCTGACAGCAGTCCC
TGAGCTAAGCCTTGGAAATCTTAATGCCATAATGCCTTTCAAATCCTCCTAGCCATTATCCTACT
GCAATAATTCTTGCTAAGAAGAACGCCCACCCCTCTCTGTTTGATAACAGTTTCCTCCTAGTTTG
CTTGAAACAGATAAGCTTGCCCAACTGCAACAAAGAAAGAGCCTA
Right flanking sequence: Indices 180519 -- 181018
TGAGTAACAACTTCTGAGTTGACTTGGAAGAAACCATTGTGGATTGTTGTAGTTCCGTGCTAATT
AACAGGTTCTTTGCCTTTATTTAAAACAGGTTTGGCGTTGCATTCATCTAGGCTGTAGCCTCTCA
TACGACAAGAAGGATTTAGATCGGGGGATTTTCGTAAATGATTCGTTGCCAGCGCCCAAACTTTC
CCATCCCCAGCCAAATACGATTGGGCATATCCTTCAAGAGATCAACCAATACGCATACTGCGCAA
CACTAGGGTGGTCGTAGATCAGCTAACTGGGGCGTCCATTGGTGGAACTCAGCCGGAACCTCAAT
ACTGTGTAGTGCCCGAAGAATTACTACGTAATTTTGTCTAGTTTAGTGATAGCAGTAGGTCGGTT
CGCTGTGGCTCTAATGCCGGCGATGAAGCAAACAAATAGGGTGTGATAACATTCAGACCTATCTG
AGACTAAGAGGGGCTGGTTACCGGAGGTATTCCTGTCAGCCTTGT
Found at i:195402 original size:15 final size:15
Alignment explanation
Indices: 195382--195413 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
195372 TTGGCATTTC
195382 TCTTTTCTTGCTCTT
1 TCTTTTCTTGCTCTT
*
195397 TCTTTTCTTTCTCTT
1 TCTTTTCTTGCTCTT
195412 TC
1 TC
195414 GGTAGTGGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.00, C:0.28, G:0.03, T:0.69
Consensus pattern (15 bp):
TCTTTTCTTGCTCTT
Left flanking sequence: Indices 194882 -- 195381
GCAGACAAAGAGGACCCAGAAGTGACTATAGGAGAAGGGAGAGGTTCTTTCCATGCCAGCCTTGA
CCAATAGATCAGTAATGTTTTGAGAAAGATAGAAGCAGAAGTTCTACTCACTTTTTGACCAAGAT
TGAGCCAGATACTTTATAGAAAAGATGGCATTTTTGATGCATACTATGTCATCAATATTCAGAGG
ATTGGACCATGTGATTCTAAGATCATCAACATATACTAGAATGTACAGAGCATGACCACCGCTCA
TAAAGAGAGAGAGATAAAGTTGACTGAAAACCAAGCTCAGAGAGTTCTTTCAAAGCAGCAAGAGT
AGTCATGAATCATTCTTCCTTCGATTGGATAATTCCCATTGGATTGTCAGCTATTGCATCAAATG
TTCCAGCTCCGCCCAATTCTCGAAGTCATGTTAGGAGAGGTATTTCTTACTCGGAGAGGGAGGCC
ACTATCAGCTACTCTGCAACTTCTCATCCCACGGGTTGGCATTTC
Right flanking sequence: Indices 195414 -- 195913
GGTAGTGGACGGGCTAAAGGGATTTGCTTACGCGCTAGCGCTTTCGTTCACTTTTCTCACATTTC
TAGTACCAACTAATACTAATGAATTCGGGCGAGAGTCTTCAAGTATAAGGAGATGGTAAATAAAC
AAGTGCTCCAGTTCCACCGGTTCCTAATTAATGGGGGAGTTGCTGCGCTCTCTTCTATGTAAATA
GAGATTTTCCACGGTAAAACAAGTGCTTGGCTTTGTTACTACATCCCGATAAATAGGTTAGGTTA
CTTTCTTGCTACGCCCGTTGACTAACTAGAAGAAAGAGAATGAATAGACAGGATAACTAGTTCCC
GTTGGTTGACAACAGCTCCCTTTTCCTTTAGCTTACCAGTTATACCTAATGTGGCGCGGTCGACA
TATTACTATAGGGCGAGCTATGTTAGCCAACCCTTTCCTCAGCTGCAAGGTCTCTGCCATAAGTT
TCAACCCAAACTCAGGCAACTTAAGCACCGGCTCTAACTTGATAG
Found at i:216650 original size:21 final size:21
Alignment explanation
Indices: 216626--216682 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
216616 TATATTCCTA
216626 CTGTTGTTATCTGTTAATATG
1 CTGTTGTTATCTGTTAATATG
216647 CTGTTGTTATCTGTTAATATG
1 CTGTTGTTATCTGTTAATATG
216668 CTGTTGTTATCTGTT
1 CTGTTGTTATCTGTT
216683 CTCTGTCCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.16, C:0.11, G:0.19, T:0.54
Consensus pattern (21 bp):
CTGTTGTTATCTGTTAATATG
Left flanking sequence: Indices 216126 -- 216625
TGGGAATGCGTCCTTTGTCCGCTTCCCTTTCCTTGGTTGTGTCTGTATTACGGGCTGCTTTCTCG
ATCCTTCTATTGTTGCGTGGAAGTGCTGCTTTCTTCCTGATAGTTGGATCCCCGAATCCAACTAT
GATTTGCTGAGCTGTTGCAGCTCCTTTCCTTTCTTCTTTGTGGGCGGACTGAGAAGGGCCCGTAT
ACCGTACGTATCCCTCCGGTGATTGTCGTTCTGTCTTCCCTTTCCTTCCGGGTTGTCTGGGACTG
GCTTCAATGTTCGGGTAGCATTACCTTTGTTCTGCTCTCCTCTCTTTGAAGTGTACTTTCCGGCC
GAGAAGTAGCTTTCTTTCTAATATAGGTTTTTCTCTGACGACTAACCTATATTAGTTCCTGCTGC
TACTGTATGTTGTGTACCGAGTGCTGGCTGTTATAGTATGGTTATAGCGTTGATGGATTGTTTGT
TATCTCCTTACTGCTATTAGCTGTTGTTATAGGGCTATATTCCTA
Right flanking sequence: Indices 216683 -- 217182
CTCTGTCCTTACTGTTGTTAGGTGGGAATAGGTTGTTAGCGTAGCTTCTGTTCCTATGCTTGAAT
GTGTAGTGAAGGAATGGAGGGAAGCTCTTATTAACGGCCGGAGCTAAACTCCGCTTAGCCCGGAC
AGGGACAACCAAAGCAGGAACTTAGAGACTCCTAGTAATACATCATACCTACTAAATCAGTCTAT
TGGGGCTATAGGTGTTCCCCCCGGGAAAATAACCAATGGAGTTGATTACGTTGTGAGTAAACGAG
GAAAGGCGTAACATTTCATAGTTAAGGGTCGTTCATTAGCCCTACTAGTCAAGCACGGGAAGCTA
ACTTTCTATCAACAAAGCTAGCGGGGTTTCCGGGCCTTGTTTTGGTCCAATGTGAAAAGCTACAT
CCGAGGAATTGTATGATTCAGATACCTGACGAAATAAAGAGAGAAAAGATCGGGCGGGATAGCTG
GGATGACCTATTTCAAGATCAGATGATCCACCAGCTTGTCTGCTT
Found at i:218807 original size:25 final size:23
Alignment explanation
Indices: 218761--218807 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
218751 TACATGCTTC
* *
218761 ACACAGAAACAACTGCTGTGCAT
1 ACACAGAAACAACAGCTATGCAT
218784 ACACAGAAACAAGGCAGCTATGCA
1 ACACAGAAACAA--CAGCTATGCA
218808 CACTAACTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
25 8 0.40
ACGTcount: A:0.43, C:0.26, G:0.19, T:0.13
Consensus pattern (23 bp):
ACACAGAAACAACAGCTATGCAT
Left flanking sequence: Indices 218261 -- 218760
CCAACTTCCCTAGCCCAACCTTCCCAACCACCTCGGAACAAATATCATGCATACATAGGAACCCG
GCTTCGCTAACCTTTCTTACTTAGTCGTGAAACAACTGTTCCCATCGAACGGAGAGAGATAGTCA
AATGACAAAGGAAAGCAGACCTCGGAACGCGCTGCACAGCACGGAACAGCCATTACATCAGTGAT
CGGCAAACAAAGATAGATACTTAACAGCAGCTACAAGCAACAATAGCTACACCCGCCTAGGGACC
ACTCCAGAAGTAAGCTGCGATTAACCAGCTCACTTCCCTCATTCAATAGGGAAGACAACCCGCAG
GGATACATGCATAAACAGGAATACTGCTATGCTTACCTACCTGACCATTCATGCAACAACTTACT
CACATACCAACAAGGGATATGAATTATACTGAAGCTGCAAGCAACAGGAACTAGTGCCGCTTAGC
TACGGTAGTTCACAGGCCGTTCCTCACTACCTCCATACATGCTTC
Right flanking sequence: Indices 218808 -- 219307
CACTAACTCATACCACAACCATTCCTATCGATAGAATACAGGTAATGGCAGATAGAAAGCAGCAC
TTACAGAGGAATCCATACACCGCAGGGATAGAGATTCACAACAGGAGGATAGCTCAAACGAAGAG
AAGAGATATTCTAGACTGACAGGAGCTACAAACGCAGGAGTACGAGCCACTCTCCACGCTCGCTG
GAACAACAAACCAAACAAGAAGAGGAACTAGCAAAGGCCTAACGAGACTTCTAGCAGCTTCTTCC
CATTCCGCATAAACAAACAGAGGAATGAAAGACTGACATCACTGCTTTAGCTGCACCGTTGACTT
AGCCGACGCTTTGATTCAATTAGAAATCTAATCACTCGGACAGCCCTGCGCTACACTTCGGGGAT
ACGCTTACCGGGAAGTCCTACGTTCTCTACAACTGGTAGCCCAACTCAACGGGAGAAAGAGAAAG
CAGCCCTATTAGAATAGAAGCCTTCGGAACTACTCTAGCATCTTC
Found at i:226182 original size:26 final size:27
Alignment explanation
Indices: 226134--226197 Score: 103
Period size: 26 Copynumber: 2.4 Consensus size: 27
226124 ACCCAAGCTA
226134 GGCTGAAGGCAGGACTCTATTAAGTAC
1 GGCTGAAGGCAGGACTCTATTAAGTAC
*
226161 GGCTAAAGGCA-GACTCTATTAAGTAC
1 GGCTGAAGGCAGGACTCTATTAAGTAC
*
226187 GACTGAAGGCA
1 GGCTGAAGGCA
226198 AACCAAGTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 24 0.71
27 10 0.29
ACGTcount: A:0.33, C:0.19, G:0.28, T:0.20
Consensus pattern (27 bp):
GGCTGAAGGCAGGACTCTATTAAGTAC
Left flanking sequence: Indices 225634 -- 226133
TCATACCTTTATTAAACAATTCACTACTTGGTGAATACTTGGGCACTACTTGGCTACTAGTTGAC
TACTTGGGAAACTAGTTGACTACTTGGATAGTTTACTACTAGGCTAGGGAACTACTTGACTACTG
AACCCCAGGAATACACTACTTGCCTAGGGAACTACTTGGGAAGTCATCTCTTTACTTAACGAACT
AACCACTCAGGGATTCAAATCCACGATACTCCTACCATCTGCTTGATCCAGTTGAAAACTTGACT
CCGACTTCACATCAGCCCTTAGGGTCAACACAGCTCCTCTTATCCTTTACTCTTTCTATGCCTGG
ATTCCTATGCCTGTTTTACCTCGAGTTGGAATTCAGTGGGAGAAATTCCAACAAAATGAAGTGGT
AGAAATTCTCCAGAAAACGAAAACGGCGATTCCAACTCTACAATCAAGGCAGAACGCAGGGAGGA
GAAGAGAATAGAATAGATTATAGACGGCGGACCGGACCCAAGCTA
Right flanking sequence: Indices 226198 -- 226697
AACCAAGTAAGTGCGGTTTCAAACAAAGGTGAAGGAAAGGTACGATCGGTGGACAAGGAATCGGT
TGAGATCGAAACCATATTCGTAGGACGCGTACCCAATAGCGTTTCCAGGGGCCTCATCCCGGGGG
CAAGCCGGGGCATCAGTACGCGCTAGGCCTATCACTCGGAGCCCGGGCGATCGACTCCTACTCTT
TATTTAGAGGCGGGAAATCTTACTCTTCTTGAGCGGGGGGTAGACCAATCTTCTTCAGCGGGAAA
TCCAATCCATACCTTGGAGGAAATCCATAGCTTGGTAGACAATCCATAGCTTGGTATCCAATCAC
TCTACTTCAAGTGGGCTAACTCACTCATCTTTTGGGATTGGTCTTTCTTCAATGTATAAGTGGAG
TAAGGTCTTTTTCCCCACCGAAAGAAAAGAAGGTTTCCATTCCCATTCCAGTAGTAAGAAAAGAT
CAGAGGCACCGTTGCCTACTTCGTGGGATCGCCTTACGTAGAAGG
Found at i:226503 original size:19 final size:20
Alignment explanation
Indices: 226460--226513 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 20
226450 GCGGGAAATC
*
226460 CAATCCATACCTTGG-AGGA
1 CAATCCATAGCTTGGTAGGA
226479 -AATCCATAGCTTGGTA-GA
1 CAATCCATAGCTTGGTAGGA
226497 CAATCCATAGCTTGGTA
1 CAATCCATAGCTTGGTA
226514 TCCAATCACT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 15 0.47
19 17 0.53
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.26
Consensus pattern (20 bp):
CAATCCATAGCTTGGTAGGA
Left flanking sequence: Indices 225960 -- 226459
TTCCTATGCCTGTTTTACCTCGAGTTGGAATTCAGTGGGAGAAATTCCAACAAAATGAAGTGGTA
GAAATTCTCCAGAAAACGAAAACGGCGATTCCAACTCTACAATCAAGGCAGAACGCAGGGAGGAG
AAGAGAATAGAATAGATTATAGACGGCGGACCGGACCCAAGCTAGGCTGAAGGCAGGACTCTATT
AAGTACGGCTAAAGGCAGACTCTATTAAGTACGACTGAAGGCAAACCAAGTAAGTGCGGTTTCAA
ACAAAGGTGAAGGAAAGGTACGATCGGTGGACAAGGAATCGGTTGAGATCGAAACCATATTCGTA
GGACGCGTACCCAATAGCGTTTCCAGGGGCCTCATCCCGGGGGCAAGCCGGGGCATCAGTACGCG
CTAGGCCTATCACTCGGAGCCCGGGCGATCGACTCCTACTCTTTATTTAGAGGCGGGAAATCTTA
CTCTTCTTGAGCGGGGGGTAGACCAATCTTCTTCAGCGGGAAATC
Right flanking sequence: Indices 226514 -- 227013
TCCAATCACTCTACTTCAAGTGGGCTAACTCACTCATCTTTTGGGATTGGTCTTTCTTCAATGTA
TAAGTGGAGTAAGGTCTTTTTCCCCACCGAAAGAAAAGAAGGTTTCCATTCCCATTCCAGTAGTA
AGAAAAGATCAGAGGCACCGTTGCCTACTTCGTGGGATCGCCTTACGTAGAAGGACTTGTGATCC
ACTCTCGGCTAAGTTTCTATGATCGGTCCTCTCTCGATTAATAGCTAACTGGAAAGAGAATCCTC
TTTTATACTTCATTATCGATCAAGAGGGAAGTTCCTAACGTGTCCTTAGGAACGAAGGTCTGTCG
AAGGTGGGCGAACGTGTCTTTCTATGGTACGCTCGGTACGCCTTGTTTCTATTGTTCTCCGATAG
CTCTATCAGTGATTATTTCAAGTAGTGCTTTTTGTCTGTTACCGGATATGTATAGAAGTTTCCTT
ATGGTGTTCCTCTCCGGTGTTGCTGAATACACGTCACCGGTTCGA
Found at i:226519 original size:19 final size:19
Alignment explanation
Indices: 226459--226520 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
226449 AGCGGGAAAT
*
226459 CCAATCCATACCTTGG-AG
1 CCAATCCATAGCTTGGTAG
**
226477 GAAATCCATAGCTTGGTAG
1 CCAATCCATAGCTTGGTAG
* *
226496 ACAATCCATAGCTTGGTAT
1 CCAATCCATAGCTTGGTAG
226515 CCAATC
1 CCAATC
226521 ACTCTACTTC
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
18 13 0.36
19 23 0.64
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (19 bp):
CCAATCCATAGCTTGGTAG
Left flanking sequence: Indices 225959 -- 226458
ATTCCTATGCCTGTTTTACCTCGAGTTGGAATTCAGTGGGAGAAATTCCAACAAAATGAAGTGGT
AGAAATTCTCCAGAAAACGAAAACGGCGATTCCAACTCTACAATCAAGGCAGAACGCAGGGAGGA
GAAGAGAATAGAATAGATTATAGACGGCGGACCGGACCCAAGCTAGGCTGAAGGCAGGACTCTAT
TAAGTACGGCTAAAGGCAGACTCTATTAAGTACGACTGAAGGCAAACCAAGTAAGTGCGGTTTCA
AACAAAGGTGAAGGAAAGGTACGATCGGTGGACAAGGAATCGGTTGAGATCGAAACCATATTCGT
AGGACGCGTACCCAATAGCGTTTCCAGGGGCCTCATCCCGGGGGCAAGCCGGGGCATCAGTACGC
GCTAGGCCTATCACTCGGAGCCCGGGCGATCGACTCCTACTCTTTATTTAGAGGCGGGAAATCTT
ACTCTTCTTGAGCGGGGGGTAGACCAATCTTCTTCAGCGGGAAAT
Right flanking sequence: Indices 226521 -- 227020
ACTCTACTTCAAGTGGGCTAACTCACTCATCTTTTGGGATTGGTCTTTCTTCAATGTATAAGTGG
AGTAAGGTCTTTTTCCCCACCGAAAGAAAAGAAGGTTTCCATTCCCATTCCAGTAGTAAGAAAAG
ATCAGAGGCACCGTTGCCTACTTCGTGGGATCGCCTTACGTAGAAGGACTTGTGATCCACTCTCG
GCTAAGTTTCTATGATCGGTCCTCTCTCGATTAATAGCTAACTGGAAAGAGAATCCTCTTTTATA
CTTCATTATCGATCAAGAGGGAAGTTCCTAACGTGTCCTTAGGAACGAAGGTCTGTCGAAGGTGG
GCGAACGTGTCTTTCTATGGTACGCTCGGTACGCCTTGTTTCTATTGTTCTCCGATAGCTCTATC
AGTGATTATTTCAAGTAGTGCTTTTTGTCTGTTACCGGATATGTATAGAAGTTTCCTTATGGTGT
TCCTCTCCGGTGTTGCTGAATACACGTCACCGGTTCGACTCCTAT
Found at i:232174 original size:19 final size:19
Alignment explanation
Indices: 232150--232188 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
232140 GCCAAAGGAC
232150 AGATTTTACAAATGGTCTG
1 AGATTTTACAAATGGTCTG
232169 AGATTTTACAAATGGTCTG
1 AGATTTTACAAATGGTCTG
232188 A
1 A
232189 TTGACCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (19 bp):
AGATTTTACAAATGGTCTG
Left flanking sequence: Indices 231650 -- 232149
GTTGGAGTTGGTACTTCAACCGGTTCTTTTACAGTCCCACCTTCATAAGGAAGAACTGCCTTGAA
GGGTAAGGCAGGTCAAAAGAGTGGGCATCTTTACTACCTATGGCTAACTCAAAAAAATCTGAGAG
GGGAGGTTGCTCTGCTCTGGATGCACCGGTCAGAACGGGGAAAGCTGCTCTTAGAGCTATCTCTT
TCCGATCTAGGCAGATGGTTGAATCTAATGCGAGTAGCACTAGGCCTAGAGCGGAATATTAGGTA
GTACGAGTTGCTATATTTTTCCATCCCCCTTCGGGAAGAAACTCTCTTTGACTTTTGAGAAGATA
GACCCAAGTAGCCCTTGAATGATCATACACTATGGTTCAAAAATATCGAAAACCTTCTGTTCTGT
GGTTTCAACTGAAAAAGGGCCCCAAATGTCAATGTGAATCAGATCAAAAGGTTCATCACAAATGT
TATTATGAGATTTAAAAGGTAAGTGTTTTTGTTTAGCCAAAGGAC
Right flanking sequence: Indices 232189 -- 232241
TTGACCTTTTTATTCTTATGAGTAGGGAGTCAATCTGAAAGGATAGCAGTTTT
Done.