Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_029182
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: 232407
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Found at i:153 original size:39 final size:39
Alignment explanation
Indices: 99--179 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
89 TCCTCTTCAC
*
99 AAACTATCAATTTCATAAGAGAAGAAAGATCGTTTTTCG
1 AAACTATCAATTTCATAAGAGAAGAAAGATCGTTTTTAG
138 AAACTATCAATTTCATAAGAGAAGAAAGATCGTTTTTAG
1 AAACTATCAATTTCATAAGAGAAGAAAGATCGTTTTTAG
177 AAA
1 AAA
180 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 -- 98
ATTCCTAGGTTTTAGAAGAAGGATGGAGCAGAAAGATAGAAAGATCAGTTGCTGGAAATCAAATA
TGTAAATAGTCGAGTTATTGCATTCCTCTTCAC
Right flanking sequence: Indices 180 -- 679
AGAAAGAAGGTTTTGATTCGAGGCGGATCCCTTTTTTCTTTGCCTTTACGAGTAAGAAAGTGGTT
ACGCTCCGCTGGGGAGCCGGAACTGTAAATTCCTACTGTGGTTCGAGTCCACAAACCACTGAGAG
CTCTGGCATCGGTTCAGGCTAAATCCTGAAGAAAGCTAGAAAGCGCTGTTTGATGAGCCTGCGTC
CGATTTGTGAGTTGGTTAGGTAAAGGCTGACCAAGCCAATGATGCTTAGCTGCCCAGTCGTGCCG
AGGAATTCCCATCCGACCAGAGGAGGGAAGAGAGTGACTAAGCAGCAGCTCCACTTGTCGCGTAC
TTCTTTAGCTGCACCGTCATCGCCGGCCGGACAAACCCTTCCAACAAATGGGGAGTGGGCCAAAG
GAACACGACACATCCAGTGAAGAGATCCCGGACAGGGAAGTCAGAAGGTCTGCAAGCCTCGTCTT
CGCCCCTGCTTTAGCTGCACTTGGTGCGTAAGAGGGAGACCCGGT
Found at i:2974 original size:13 final size:13
Alignment explanation
Indices: 2953--2983 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2943 CAAAGGTCAA
*
2953 CTAGCTTGCTTCG
1 CTAGGTTGCTTCG
2966 CTAGGTTGCTTCG
1 CTAGGTTGCTTCG
2979 CTAGG
1 CTAGG
2984 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 2453 -- 2952
CGCACACACGAAAGTCAAGGGATTGTCTGGCCCTGCTACCTACCCAACATGAGCACACTCCGAAA
TTAGAGTAGCTATCTATTTCATAAGAGACCTCTTGCAGATTGAAGCATGATTGGGCTCTCCGCTT
CTCTTCAGATGGAACTTCGCCATGTCCATGTCCCTCGAGTACTGTTCCTAGAGTATAGTAGAGTA
CGGATCGATTGAACTGGTTTCTGTCGTACCCCTAACGGTACAGTTATGACCTAATGCGGGGTCTC
TCTCAGGCAGAAGATCAACCGATGTACGATGTTGGACCTAATGAGAGGTCCTTCTCTGTCAGGGT
TTATAGGTCAACTGGTTGCTTCGCTAGAGTAGGACCTAACCCATGTACTGTGAGTGTTGATTAGT
CACCCTGATATCGAGTGAGCATTCGGGGGTGTAGACTTCACACTTTAACAGGTCATCTGTCTTTC
GAAGTTTTCTGTAACACAGAGATGTAGTTGCAAGGCAAAGGTCAA
Right flanking sequence: Indices 2984 -- 3483
GACTTAAGGAGAAGTTATTTTCTGTAGCACAGAGATGACTTTAGTAAGTTGCAAGGCGAAGGCCT
CAACGATTGTGGTTAATCTATCTTGGTATCTTTGTGATGAGGTATGGCTTATCTGTGCTGGGGTG
TGCTTGGGAGTCAAATGCTAGGGTCATGCGAAAAGTCCTATTTCCAATTCCGATCTCATATCTAA
GGAACGGGAGTTCTTAACAGAAGAAAGGCCATAGACTCCGTTTGGTACGTATCTGATATGTGACA
AATCCTAAATCTGCAAGGTATCTTATCTCTCTCAGTTATTAATATGGTGCTGGACTAGCGAAGCA
ACCCTTTTGAAGAAGGAATCTTAGGAGTTCTGCAGCATATGGATGGCTTAAAGGAAGAAATCAGA
CATCTGAGATAAGCAGGGCTGTTGTCTAATCTGAGGAATGCATACGAATCCTATAGTAAGTTCAC
GGGTAATTCTCCGCTTAGTTCAGTAATCTCCTGAAAGTTGGGTGA
Found at i:7779 original size:36 final size:36
Alignment explanation
Indices: 7732--7818 Score: 149
Period size: 36 Copynumber: 2.4 Consensus size: 36
7722 AAAGCCTGAA
7732 AGAAGAAGGTTGACTCGGCAATCTCAATTTCGTATG
1 AGAAGAAGGTTGACTCGGCAATCTCAATTTCGTATG
7768 AGAAGAAGGTTGACTCGGCAATCTCAATTTCGTATG
1 AGAAGAAGGTTGACTCGGCAATCTCAATTTCGTATG
* *
7804 AG-TGATGGTTGACTC
1 AGAAGAAGGTTGACTC
7819 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 7232 -- 7731
GGAGTAGATGCCGGGGGGAGAAGGAATTCTACGACTGATTGAGCCAACAAATCCTAGCTAGAATC
TAATCTGGAAAGAACTTGGAACTCTCAACCATAGCTTTGATTTGCTTTTCTTATTGGCAGAAGTC
AAGGCGATTTTAATCTCAAAGAGGCCGATAGGACCAGTATCGGACGAGATATTGACAAAAGGAAA
ATCATTCCATTCTTGTCCCTTCTTGGATTTGAAAACGAAAAGTACGTTCGGGCAGAAGTCTTGTA
TGAGTTAGCCACTGCTTCAAGCAGAAAATGGAATTTTCCTTGTTGAAAACAAGAGATTCCAAGAG
GAGTTAGATAGGGAAACGGAGACTTTACCTGTAAGTCAGTATATTGACAGTGCCCCAAGACAATC
TGAAGCACTGACTGGAATCAATCAGCAGCTGAATGCAAGGATTACTTCAATAAACAATTGAAACC
AACAAGACCTTTTCTTTTCCATCAGGAGACCATTCAAAGCCTGAA
Right flanking sequence: Indices 7819 -- 8318
ATGAAAGTGCAATGGAAGGGTGAAAGCCGATGAACGCCTTTCAGTCGAGTTTGTGTTCACAACCT
CTCCTTTTCAGTCGAGTCACTGGGGTTCCTCTCGCAACGAGTGCTCGAGTATATTAGTGTTCAGT
ATATCATGTTAGTGTTCAGTATAGCCGGGATTGTAGTTCAATCGGTCAGAGCACCGCCCTGTCAA
GGCGGAAGCTGCGGGTTCGAGCCCCGTCATTCCCGACCTAGGATCTGATGTATCGATCAATTAAT
CTCTCATCAGTTACGAAATATATAGCTATAAAAAAAAAAAGCTAGAAATAGAATTTAACTTAGTT
TCTCAGCCTCTAGGAATTCCTAAGCGTTAGCGAAGAAAGAAGCCTACTTGAAGAAGGCTGCCAAG
AGGAGAGCAAGCGCCCTACCCGAGTCTCCAGCGAGAAGCGTTTTATATATAATATAAATTATTAT
CGATCGAAACCTAAAGCCAAGTGCATCGATCGGTTTCCTTGCGTT
Found at i:11813 original size:33 final size:33
Alignment explanation
Indices: 11776--11842 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
11766 GTGAGAGGCC
11776 GGGGATCAAGAAAGTCGCAAATAAATATGCTGG
1 GGGGATCAAGAAAGTCGCAAATAAATATGCTGG
11809 GGGGATCAAGAAAGTCGCAAATAAATATGCTGG
1 GGGGATCAAGAAAGTCGCAAATAAATATGCTGG
11842 G
1 G
11843 CTGGACGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.39, C:0.12, G:0.31, T:0.18
Consensus pattern (33 bp):
GGGGATCAAGAAAGTCGCAAATAAATATGCTGG
Left flanking sequence: Indices 11276 -- 11775
AGCATCTCAAAGTATGAGGCAAAAGATCAAGCGCTTTGACTTTGTCTCCCGGGATCCACCACAGG
TTGGGTTTGAGAGCCGTGTGATGGGTGACTATCCAGCACGGTTCGGAGAGCACTTTTAGTCTTTG
TTGGTGAATGGAAGCCCCCCTATCAAGCAAAAAAGAAGCGGCTCTTTCTACGGTGGGGTCACTAT
TGACTCTATTTATTATTATGGTAAATTTGTGTATCAAGATGTCAATCTGAGATCTTATTTCGGTT
CGATACGTCCACCTACGAGACTCACCTTTGGCTTTCGTCTCGGTAGGTGTATTCTTCTACATTTT
CCTAAAAGAACATTCATTCATTTCTTTCTTCCCCGTCGACCACGACGACTGAAACGACGTGAAAA
AACTAGACCCGGAAAGGAGAAGGGCCGGTGGTGGACGACATTCGGGAAAGCCGGGCCGATCGGGT
GTCTTCGCGACGATACAGAAGAAGAACGAAACGAAGTGAGAGGCC
Right flanking sequence: Indices 11843 -- 12342
CTGGACGAAAAAAAAACAACGCTATGGATACCATGACCGATCACCATCGATAAAGAAGAATCTTT
CTAAATCACTTCGGATCAGCGGGGCCTTCAAGCATCCGAAATACGCCGGGGTTGTAAATGACATA
GCGTTCCTGATAGAAAATGACGACTCCTTCAGAAAAACGAAGTTATTCAAGTTCTTTTTCCCAAA
GAAGTCCCGCTCCGACGGCCCGACGAGTTATCTACGGACCCTCCCTGCAGTGCGCCCCTCCTTGA
ATTTTTTGGTCATGCAATACTTTTTTAATACAAAGAACCAAATGAATTTCGACCCCGTCGTAGTT
CTCAATCATTTCGTGGCACCGGGCGCGGCTGAACCATCTACGATGGGGAGAGCGAATGCACAGGG
AAGAAGCTTACAGAAGAGAATACGTTCTCGTATCGCTTTTTTTGTAGAAAGCTCGACCAGCGAGA
AAAAGTGTTTGGCCGAAGCCAAAAATAGGTTGACCCACTTCATTC
Found at i:21493 original size:71 final size:71
Alignment explanation
Indices: 21301--21479 Score: 349
Period size: 71 Copynumber: 2.5 Consensus size: 71
21291 ACTTTTCCAT
21301 CTATATAAAGAGAAAGTTTTGGATTCCTGATGTGCTCCGTAGAGCTAAAATAGGGTTTCATCAAA
1 CTATATAAAGAGAAAGTTTTGGATTCCTGATGTGCTCCGTAGAGCTAAAATAGGGTTTCATCAAA
21366 TCCTCG
66 TCCTCG
21372 CTATATAAAGAGAAAGTTTTGGATTCCTGATGTGCTCCGTAGAGCTAAAATAGGGTTTCATCAAA
1 CTATATAAAGAGAAAGTTTTGGATTCCTGATGTGCTCCGTAGAGCTAAAATAGGGTTTCATCAAA
21437 TCCTCG
66 TCCTCG
*
21443 CTATATAAAGAGAAAGTTTTGGATTTCTGATGTGCTC
1 CTATATAAAGAGAAAGTTTTGGATTCCTGATGTGCTC
21480 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 20801 -- 21300
ATCGTGATGTAAGTCTATTATTCCTTGCATTATAGGTGTAGCTGCGTCTTGAGATCCTAATTGCC
ATGGTTCCGCTGCATCACAAGGAGAAATTGTGAGGAATAACCATTTTAGAACAATCATTTTCAAA
GCAAAGGTTCCTTCATTGACTGCTCCGCTCCCCCCCAAACAAAGAGAGACTGATTCTGACTCTCC
CAATTAAGGAAGACGGAAATGACTGGTGCCGGTTGGTCCAACCAAGAAAAAAGAGATGGGAATTT
TGGGCGTAAGATTCTTCTTCTTCTTACAATATTTTGAGTTAGATGAACAGAGATCACTCCTCTAA
GCAGCCTTCTTCTTATATACATATTATTCTGTCATGGGTTGTTAGCTGTGTTCTATCGTAGCTAT
CTCTGTTCAACACTTGGAGGGAGCGAGCAACGGCCTGCGAGCGATCGTAGCTACTTCCCTTAGTT
TTGTTTCAAACTCTTCTCTTTTTTCCTTTTTTCTTACTTTTCCAT
Right flanking sequence: Indices 21480 -- 21979
TTACGAAGGAAAATTGGATTGCTAACTTTTGCATCTATATAAAATGAAAAGAAAGATTTGTGTGT
AGCTCGCCGAGGTACAGAGTGACTCTTACTCAACTTCGATGAAATCAATCTCATATGCCGAGATC
AAGGTTCAAACAAAAACAAGAACAGAAATAGATCAAAGTCAAAGGGAAAGAAGGGATGCTGTTCA
TGCGGGGAAGAAGGACATTTTAAGAAGAATTGTCCCAGTAGAAAGGCTTATCATGATAAGACAAA
AGACCAGAACACAGTAAGAGGAGAGTCTGCTATGGTAAAAGGAACAGAGGTCAAGCGTGTGGATG
TCCTATATGCAGCTGAAGCCTTGAATATTACTGATCTGGTTGAACAAGAGTGGATCATGGACACA
GGTTGTTCTTACCACATGACACCCAAGAAAGAGTGGTTTGATGAATTGAATGAAGAGATCACAGG
GATAATCAAGATGGGAAATGACACAACATCATCAGTGAAAGGAAT
Found at i:25233 original size:12 final size:12
Alignment explanation
Indices: 25216--25242 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
25206 GAGGTTCCCT
25216 CTCGAGGAACGC
1 CTCGAGGAACGC
25228 CTCGAGGAACGC
1 CTCGAGGAACGC
25240 CTC
1 CTC
25243 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 24716 -- 25215
ACCATGCCCACTATACTTTCTTCTAAGCCAGCTTTTCACTCTTTGTTTTCGTATCATCTCATTGG
ACTTATTTCAAACAAACTCGTTACACTCGCACCTGATACACGGGAACGAAGAAAACTACATGGGG
AGCACGCTTACACCTGCAAGAACTAAGGGTCCAGACCAAGCACAGACAGATAGAACCAGACATAA
AAAATCTTCCTTTGCACAATGCCTATCAGATATGGAAGGAGGATCTTTCAAGAGAAACTTCCATT
TGATTTTCTAGCTCCGAGAGCTACTTTAATGGCTTGTGCCCATAACAAGTAGTTATGATCATTCA
ACTTTACAGAGGTAATCTGCATACTGACCTGATCAGATGAAGTGTTGGAGGCGGATTTATTTGAG
TTAGAATCAGCCATGACGAATAACGTTGAGAAAGACCACCCAAGAAAGAATAAAGAAGCAAGCCC
CACAACCATGGAGAATATGGGAGCAAGCCTAAGAAGAGGTTCCCT
Right flanking sequence: Indices 25243 -- 25742
TTCTCATTATATGATTTGTGTGAACACAGTAAAGTCCCACCATAAGCATTCTCTGCATCTCCACT
GCATTAAATGAAACTAAACGTCCCTTTCAACTTTGGATCAACTGCCTCAATCAGTTTCCCTTTCT
CCCAGTAGCTCCATACCAATCAACAAGCACCGTACCAGCATCATCGACAGGCCTTTTCCCTGTAG
CTACCTCTAGCACCACTAGACCGAAGCTGTAAACATTTCTGTGATGGAACACCATAATAAACATA
TTAAGGAGCAAGATCTCCCATTTTCCCAGCTGGTATTGTAGCTTCCCTGGTTATAGAACTATGTT
CATAGACTTCTGCCTAAATCTCCTAGCTTGGCATTGAATTCTGCATCAAGCATTATATTTCAAGT
CTTAACTAACGTCCCTATGAATTCTTTCTCTCTCACATTCTGAATGCAGATATGATAGAGCAGAC
GCAACTCCGAGAACTAGATTAATCGCTTTTGCTTTCTTTTCCTCT
Found at i:98738 original size:13 final size:13
Alignment explanation
Indices: 98717--98747 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
98707 CAAAGGTCAA
*
98717 CTAGCTTGCTTCG
1 CTAGGTTGCTTCG
98730 CTAGGTTGCTTCG
1 CTAGGTTGCTTCG
98743 CTAGG
1 CTAGG
98748 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 98217 -- 98716
CGCACACACGAAAGTCAAGGGATTGTCTGGCCCTGCTACCTACCCAACATGAGCACACTCCGAAA
TTAGAGTAGCTATCTATTTCATAAGAGACCTCTTGCAGATTGAAGCATGATTGGGCTCTCCGCTT
CTCTTCAGATGGAACTTCGCCATGTCCATGTCCCTCGAGTACTGTTCCTAGAGTATAGTAGAGTA
CGGATCGATTGAACTGGTTTCTGTCGTACCCCTAACGGTACAGTTATGACCTAATGCGGGGTCTC
TCTCAGGCAGAAGATCAACCGATGTACGATGTTGGACCTAATGAGAGGTCCTTCTCTGTCAGGGT
TTATAGGTCAACTGGTTGCTTCGCTAGAGTAGGACCTAACCCATGTACTGTGAGTGTTGATTAGT
CACCCTGATATCGAGTGAGCATTCGGGGGTGTAGACTTCACACTTTAACAGGTCATCTGTCTTTC
GAAGTTTTCTGTAACACAGAGATGTAGTTGCAAGGCAAAGGTCAA
Right flanking sequence: Indices 98748 -- 99247
GACTTAAGGAGAAGTTATTTTCTGTAGCACAGAGATGACTTTAGTAAGTTGCAAGGCGAAGGCCT
CAACGATTGTGGTTAATCTATCTTGGTATCTTTGTGATGAGGTATGGCTTATCTGTGCTGGGGTG
TGCTTGGGAGTCAAATGCTAGGGTCATGCGAAAAGTCCTATTTCCAATTCCGATCTCATATCTAA
GGAACGGGAGTTCTTAACAGAAGAAAGGCCATAGACTCCGTTTGGTACGTATCTGATATGTGACA
AATCCTAAATCTGCAAGGTATCTTATCTCTCTCAGTTATTAATATGGTGCTGGACTAGCGAAGCA
ACCCTTTTGAAGAAGGAATCTTAGGAGTTCTGCAGCATATGGATGGCTTAAAGGAAGAAATCAGA
CATCTGAGATAAGCAGGGCTGTTGTCTAATCTGAGGAATGCATACGAATCCTATAGTAAGTTCAC
GGGTAATTCTCCGCTTAGTTCAGTAATCTCCTGAAAGTTGGGTGA
Found at i:103632 original size:22 final size:22
Alignment explanation
Indices: 103604--103652 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
103594 GCCGAAGGCA
103604 CTCGACTAAAAGGTTCAAAGAT
1 CTCGACTAAAAGGTTCAAAGAT
*
103626 CTCGACTGAAAGGTTCAAAGAT
1 CTCGACTAAAAGGTTCAAAGAT
103648 CTCGA
1 CTCGA
103653 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 103104 -- 103603
CATAATATTGGATTCAAACCGACGGCCCACCCTTTCTTTGAACCTTGTCAATGATCGAACTTAAA
GATATGAACTGAGTGCCATTTGATGAGTAACTGAGAACAAAGGAGAGGGGTATAGCAAGGATGAA
GTAATGAAAAAGGAAGTCATTGCTAGTAGTAACGACTTATTACGATCCATTGGTTCATATAGAAT
CCATGTCCTAGGTGTATCAAAAAACATTCTTTTCACTAAGCGTATATAATAAAATAGAGTGAAAG
GGTCCACCCCGAAACCAAGGGGATACTAACTAACAGCTGAGTCCTCTCCAAACCGCATGAGATAG
TTGCCCATCATACGGCTCACCAACTTGCCTCTATGGGAGGCTCACTCCGGGCAGGTTCGGATCAC
TTATAATACAAAGCTCGGAGAAGGAGGGAGTTGGGTTAGGAACGCAGTAACTCGACCCCTCATCA
ACTAATTAATGAGACCTTATCCTTGGTGGGAGAGGGCCGAAGGCA
Right flanking sequence: Indices 103653 -- 104152
GCGTAGCGAGAGGTGCTTTAGCAACTCGACTGAAAAGGCGTTCCTCGGAGTCATGACTCGAGCAC
TTGTTGCGAGAGGCACGGAGTGACAAAGGAGCTCGACTGTAAGGCGTTCCTCGAGAGTGAAACGA
GAGGAGAGGTGAGGTTTAAGTTTTCAATATGATTCTTTTTTCATATTTGTTCGATGAGAAATGCG
AGTCAGTTTTGTCCATTTTTTCTATCCCCCTCTATCAAACAAAATGATCAAAAAGGAAGTTTACT
GGCTTCTTATTCTCGTCTTTGATCTCTTCCATCTCTGCCTCGCTCGTTGTCACCTATATATATTG
AAGAAAGAAACCCTGTAGAGAATGAAGAGGGGCCTAGGATCTTCTTCTCAACAGTGCTTCTCGGG
GCTCCCCCCTGAATAAGTAAGGCCCCGTTAGCCTGGGCGAAGATGGGGATAAGGAATAAGGATTG
AAGCCCCTTAGCTCTGCCAGGCACTGGACAGGGGTTAGCTCGGTA
Found at i:110832 original size:12 final size:12
Alignment explanation
Indices: 110815--110839 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
110805 CACCTTTTGA
110815 AGCTATCAGTTC
1 AGCTATCAGTTC
110827 AGCTATCAGTTC
1 AGCTATCAGTTC
110839 A
1 A
110840 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 110315 -- 110814
TTATATGTTTCGATGCAACAACAAGATGTTATTTGTAACAAGTAGTTTTGTTGGTTGGTTAATTG
GTCACATTTTATTCATGAAATGGGTTGGATTGGTATTAGTCTGGATACAGCAAAATAATTCTATT
AGGTCTAATGTACTTATTAGATCTAATAAGTATAAGTTCCTTGTGTCAGAATTGAGAAATTCTAT
GGGTCGAATCTTTAGTATTATCTTATTTATTACCTGTGTCTACTATTTAGGCAGAATACCATCAC
CCATTTTTACTAAGAAACTAAAAGGAACCTCAGAGGAAAGAGCTAGCCTTCGTCTCAAGGTTCCA
AACAAGAGGGTAATCAGTTGTGACTACTGAACCTACTAGCTTGCAGAAGTAGCTATCTGAGTAAA
AGCTGCTTTCAAAAGAAGAATAAGGAAGTCTAGCAAGCATTCAAGCAAGTCTCGCTGATCCGCAT
TGTATTGCAAGCTAACCAAAAGGAAAGAGAAGAGTCACCTTTTGA
Right flanking sequence: Indices 110840 -- 111339
ATCATTCACTCGCTAGGAAGAGGGCGTCTCGCATAACTAGGACAGTGAAATTATTTCTTTTCGGA
ATCCGCAATTGGTCAGCCTTTCTCGAGGAACGCCTTTGGTCCGTCTATCTCCTACGAGGAACTAC
GGCCAAGCTAGTTCTTAGTGAGCTTTCTCTCTTCGGGACACAGAACTCCCGGAACTTCCTTTCTT
GATTCACCCAGAACGGAACTTGCTCTAATCCTTCTCGTTCGATCCATTCTTCCTAGCGCTCCTCA
ATCAGATCCATAACTGCTGTTGCTTGTGCAGGAGTAACTGGAGAACTTATAATTTCAATGCAGTT
GTCAACTAAGAAACACCGGAAGTCCATGCGAGCCGGGCTGACATTAACCAATCAGATACCCTCCT
CGAAAGGGCCTGAAATCAAACACCCAGCCCTATTAGATATTAGATTAGAGAAGGGATAAAGTCGA
GAATGACATTCAAATTGAACAACTATGTGGTGTGGGCTTCGCCCC
Found at i:124536 original size:17 final size:17
Alignment explanation
Indices: 124516--124554 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
124506 CATTTCTTTC
*
124516 ATATCTCCATTCTCATA
1 ATATATCCATTCTCATA
124533 ATATATCCATTCTCATA
1 ATATATCCATTCTCATA
124550 ATATA
1 ATATA
124555 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 124016 -- 124515
ATAACGCTTTTCTTCCGATCTCACAGTTCCTTTGTCCCTTGTAAAGCATTCTATCTGTGGCCACG
TGCTACTGTGGAGCTTTTGAATCGACGTCAACCAAAAGAAAGAAGAGAGCCAGAGCGCCATACCC
TTCTCGGAAGGAACCCGCCCTTGGAAGAGCTACTAGGGCATCGCATCTATGCTGAAAGAGCACAA
TCCTTGATCTAGAGGGAGCCATTCCTTACCTTAGAGGAAAAGACTTAGCCCAGTCCTCAGTTTCC
ACTTACAGAATAAATGAATCACTTTGCCACTCGACGAGGCAGATAGCTCCTCTGGTGCTACTATA
GCCTTTGTGGTTGCTTCGCTAGGAAGAGCAGCACTTATATTGCTTGGATTATCTATTCAGCACAA
GCACACCGCTGTGCTGTGGAAGAGTAAACGAACTACTATCGATGTGTTACCTAAGAGATTAGCCT
AAACGAGAAAAGGGAGTGTGCTGGACTGACCTTTGCATTTCTTTC
Right flanking sequence: Indices 124555 -- 125054
ATAGGGAGGCGCTGACCTTACAATTGTAAGAGTTAAATGACCGACTGACTTGAATCTGTTTGCCG
TTGGTCCTTATCTTTAAGATAATGTTAAGAGTGGTAAGGGCTATGGGTATAGAGCCTTGGCCAAG
AGGTTGATTGAGTCAGTAGACCTAACGTACGCTTAAAGAAAAAGACAGCTCTGATCACCCTTTAT
CTTTCTCGGACTCCAGTAATATGTGTGGGGCAAGTAAACGTCAGCAACGAGGACTTCTTATTGGG
CTTACTGCCTCTGCCTGTCTTAGGTACCCAAGGGGAGTCCTACTAATAGCCATGCTGAGCTGTCC
TTATCGTAGTCATCTTTTCCTATTATTGAACAGTTTAAACTTGCATGTGTTAAGCATAAGCTTAA
ATCTTTCGAAGCTCCACTGATTCATCAAAATGTATCCAAAAATCCCGGGATATTAGCACTTTTTC
AGGCTGTTTTGACCTCGTCAATCAAAAACAATATCTTACAACATT
Found at i:129748 original size:44 final size:45
Alignment explanation
Indices: 129684--129773 Score: 164
Period size: 44 Copynumber: 2.0 Consensus size: 45
129674 TCAAGCCCCT
*
129684 ATCCTTTCAATTTCCATACCCTACCATTAGTCCACACTGGATCCC
1 ATCCTCTCAATTTCCATACCCTACCATTAGTCCACACTGGATCCC
129729 ATCCTCTC-ATTTCCATACCCTACCATTAGTCCACACTGGATCCC
1 ATCCTCTCAATTTCCATACCCTACCATTAGTCCACACTGGATCCC
129773 A
1 A
129774 CCCTGAGCTA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 37 0.84
45 7 0.16
ACGTcount: A:0.24, C:0.39, G:0.07, T:0.30
Consensus pattern (45 bp):
ATCCTCTCAATTTCCATACCCTACCATTAGTCCACACTGGATCCC
Left flanking sequence: Indices 129184 -- 129683
TCTTATAGGCGTCGGGTCCCTCATTCGGATTGAGATTCATCCAAGTCTACCGTAACGAAGCTCCG
CTCCCTCCCTATTTCACTTTTACACCTTGAAAGAGCCTGGCCTGTTTTTCCATCTATTTGAAATC
CTGTCTTGTTCAAGCTATGGAAACTAAGTTTTCAGTATAGCGAATCCACAACTGCCGCAGAAAGA
ACAGGAGCTGGTACCGAAAGACTGGCAGGAATGTGATATATATTTTCAACAACAATAGCAAGGGT
AGAACTTCATGATTTATTCGGTGTTAGCGGTCTTGGGTCAAGGGCGGAGACCCTTACCTAGTGAA
GGAAAAAGTTGAGTGAAAGCCTTCGCTAAAAAAATGGTTTTGATAAAAAAAATGGCCAAGCCAAC
CCAATCCCAGTATTGGAATAAGCAAAGCAAATAAATTGTTAACCGCCCTGACCAAGTCGTCTTCA
AAAATATTCCAACAGTGATAATAAAAGGGAATCTATCAAGCCCCT
Right flanking sequence: Indices 129774 -- 130273
CCCTGAGCTAAGAGCCATAGCAAGAGATATAGCGTTGGCTGTAGGCTTAGTGAGCTCATAAACTG
GCAGAACTATCATGCCTATTACGAACGAAGAGAAGGAGCAACTAGCAGAGAAAAAGCAACTAGAA
CGAGAACCACAGGGCATTCGATGCAGCAGACATCTAGGCAAATACTTCCATGTTACGGCACATAC
TAAGACATATTCTAGAAATGACAGACGGACTAGCAGCAATACGAGCCGTTCACTACGCTCACTGA
AACTACACCGGTAACCAGAGTAACGAACTCAAAGAGACCAACGGGATACAACGGGATACTTTGAG
ACATATACTCCACATTCCGGAATTCCAAGGAATAGATCAAATGAACGAGAAGATATATTCGAGAA
AGACAGAAAGCATTGTTTGATCAGCCAGAAGAAAGGCTGTTCCGAAGGTTCAGTTGCACATGTGG
TCTAAAAAGGTTACAGGTAGTGATGAGCAGCCTGCTCCTAAAGAA
Found at i:130695 original size:18 final size:18
Alignment explanation
Indices: 130656--130697 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
130646 CTGAGGCGTA
*
130656 TTCCA-CAAGACGGTACC
1 TTCCATCAAGAAGGTACC
130673 TTCCATCAAGAAGGT-CC
1 TTCCATCAAGAAGGTACC
130690 TATCCATC
1 T-TCCATC
130698 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 130156 -- 130655
TTCGAGAAAGACAGAAAGCATTGTTTGATCAGCCAGAAGAAAGGCTGTTCCGAAGGTTCAGTTGC
ACATGTGGTCTAAAAAGGTTACAGGTAGTGATGAGCAGCCTGCTCCTAAAGAACGGAAGGAGACT
TGTTTCTTCTCTGCGATGTTCTTGGAAACCGCGGCTTTTGCCCGCCAGCTGCGAATCATTCATTC
AGAACCGGATGGTATTTTCAGTCCAGGTATTCTCTTTCAACCTGGGTATACTTTGTACCCGTTTG
ATACGAAATTTAGTACCTGGGCAGCTAATGAAGGGTTGAGGTTTTATGAGGCTTGGCCTGGCTTG
GTGTTTGATTCCCTCGCCATGGGCTTCGACCGTTCTTCTCAACCTCTTTATTCTGGACGTTTGGC
TCAGTCCTTAGAGGGTGCCGGAAAGCGGCGTTTGTTTGTAATCGGTAACTGGTTTAAACAACGTC
TGTTATACCCCGTGCATGTGTGGGGTATGTCTGTTCTGAGGCGTA
Right flanking sequence: Indices 130698 -- 131197
GTCTGGCAAAGAGACGCCCAAGATTTATAGCAAGTTTTGACTTGAGCGCTGCCACCGATCGGTGG
CCCGTTCCAGTCATATATGAGCTTATGGCGTGCCTTTTCGGTCAAACGATGGCATCGTGCATTGT
CAATGGTGCCTTAGCACTCAACTCATGCTCTTTGAAGTCCGTTACTGGACGGCATGACGAAGTTG
TGTTTATTGCAGGTCAACCTTTGGGTTATTACGGCTCCTGGGCTCTATTCGCGTTGTCCCACCAT
GCTATTGTGTGGTTGGCAGCATTACGAGCATATCCTCATCAGACGAGACCATTTCTCGACTACGC
TTTGTTAGGTGATGACATCGTCATTGCCGATCGTAGTGTGGCTAAGGAGTACCGTTCTCTACTTG
ATGCTTTGCAAGTAGATATATCTGATGCCAAGTCTATTGTATCTGAGACGGGTTGTCTTGAGTTC
GCCAAGCGGTTCTGGGTTAAGATAATGTCGAAGGACTTATCCCCA
Found at i:133246 original size:15 final size:15
Alignment explanation
Indices: 133226--133255 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
133216 ACCCTTCTTA
133226 TAGAAAACTGGCATC
1 TAGAAAACTGGCATC
133241 TAGAAAACTGGCATC
1 TAGAAAACTGGCATC
133256 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 132726 -- 133225
CAACTGTTAGAATTTCGATCGAACAAGTATTGGCATTCTGTCAGCATTTCCCCCGCGGTCAGTGA
TAGTTAGGAAAGGAAGAAAGAAAGGGTGATACACGAGAAGCTAGGTCAGGTATATATAGCGATTG
CAGATGGTGCACCAGTTTCGTATACATAGGCCCTGGTTGGTAAGGTGATGAGATCGACACATTAT
ATGCGATCTACGTTCATAGGTTCTACCTTGAAGCTCTTCTCCTTTCCTTACTCTAACAAGTAAGC
AAATAGGAATTACCTTGTGAAGCAACGTAAATTTAGTGAGTTTTGGGAGGTTAGCCTTAACACAT
CCAAATCTTCCGAAGTCAATGCGGTAGCAGCCACTGTCCCGACCTTTTCTGTCACTCCTTCCTTT
GAAAGGAGCTTCTCGCCGTTAAACTCAGCTCTTTTTCCGGCTTTACCGATTAGATCAGTTTAGAC
CTTACCTTGGGATTGGTTTTTTTCCTTTAAGGCTGACCCTTCTTA
Right flanking sequence: Indices 133256 -- 133755
CAAAGGTCCTCAACCAGGGAGAAATCGACAAATCTAGGATAAAGTCCACTTGAATCGACCAAAGG
GGAAGGAAGTATGAAAATCCAATTCTTTGACGGAAACTAAAGGCTAACCTACAAGCTAGCCTCGT
CGAATCGACTCACTCTCCTAACCTCAAAGGGAATCTGAGAAACAAGTAGATCAAGGATTCCCATG
TTGCCTATGGTGTCTTGCGAATTCCTAGGAATGTTAGGAATGGGAGAACCAGTAATCCCAGTAAT
CCCAGGAATAGGAGGTAAGGAGATTAGTTGGTTAGGAGGGAATCCCAGCAATATTAGCAATGAGG
TGATGAGATTAGGTTTGTTTTGGTTAGGGATTAGAGGAATGGGAGAGGTAAGCCAAGTAAGGTAA
GGAGTTTTTGTTTGTAGAAAGTTCCATTTCAATCTGCCTATCTGTTTGAATCAGTTTATCCCAAA
GAAATGTTTTACTCTTTTAATTGGTAGTTGGTTAAGGAATCCCTG
Found at i:164283 original size:21 final size:21
Alignment explanation
Indices: 164259--164300 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
164249 TCTTGATAAA
164259 CCAGCGTTTATATATAGATGT
1 CCAGCGTTTATATATAGATGT
164280 CCAGCGTTTATATATAGATGT
1 CCAGCGTTTATATATAGATGT
164301 AGGAGGATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (21 bp):
CCAGCGTTTATATATAGATGT
Left flanking sequence: Indices 163759 -- 164258
ATTTTTTTGATGTAGTGAGTAATAGCTCTGGTTGTTCGCTGTTCAAGAATTCTTGTTTAGGCAGT
TCGTACCATCCATACATAGTGTTTTGATCTAAGATTTCAATTCTTCCAAGTTTCCGTAGTAGCAT
ATTGTTCCATGGAGCTAAGTGGAAGAAACAGGTGTTTCTACAACTCTACCACCCAGTCAATTCCG
TTCCACTTAATCCCTATTTCATGGCCACATATCTTTCCGGCTAAGTAATGGGAAACCTTTCTCCT
GTTACATTACATGAATCCTATTTTCATTTCATCCGGAAAAAGCCATCTTTTTTTCAACAATGTCT
TTGTCATTCGATCCAATAGCGTTCCGTTAGATAGGAACAGATTTGATAAATACTGATAACTCTCG
GATAGAGTATTAGAACGGAAAAATCCATTAGATAATGAACTATTGGTTCTAAGCCATCCCTGGCG
CTGAATCAACAATTCGAAGTGCTTTTCTTGCGTATTCTTGATAAA
Right flanking sequence: Indices 164301 -- 164800
AGGAGGATCTGTTTGAGAAGTAAGAAGCCCCTTTGACATCTCTTCATCTGCAAAGAATTCTCGAT
GTGAAAACACAGAGACAAAGGGCTGATCTTTGAATAGGAAAAAGAGTGGATCTGCGGGGTCCCAA
ATGAATTGGCTTATTCTAAAAAAGCCTTGTTCTTTGGAAGACCTACCTCGTCTCTGGTACTGCAT
GGTTCCGCTCTGCAAGAACTCCGAATCATTCTCTTGAAGCTCATACTTTTCATCATAAATGATCC
GCTTGCCCCGAAATGACCCGGCCAAATAGGGAAATCCCAATTCATTAGGCCTTTCGATACAATCA
AATAGAAAGCCCCGAGGGCGCCATATTCTAGGAGCCCAAACTATGTGATTGAATAAATCCTCCTC
TATCTGTTCCGGGTCGAGGACTCCTTCTCCTTCCCCTTCTTCAAACTCCGATTCGTATTTTTCAT
AGAGAAATCTCTGATCAACGATAGAACAAGATCCATCTTGCATCA
Found at i:180591 original size:27 final size:28
Alignment explanation
Indices: 180532--180605 Score: 132
Period size: 27 Copynumber: 2.7 Consensus size: 28
180522 AAAGAGCCTA
*
180532 GCTTTCTTGGTTTGATGAGCTTATACTC
1 GCTTTCTTGGTTTGATGAGCTTATACAC
180560 GCTTTCTTGGTTTGATGAGC-TATACAC
1 GCTTTCTTGGTTTGATGAGCTTATACAC
180587 GCTTTCTTGGTTTGATGAG
1 GCTTTCTTGGTTTGATGAG
180606 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 180032 -- 180531
ATGAGAGTCGCGAGCTTGTTGTAGTCGGTCCTAAAGAACCTTGCTGCTTACTTGCTATATTCCCG
CGTTCTTGCATGGCTCGCGCGCAACCCCGCCCTGCTTCTCCCTTCCCCCTCCCCCCTTACCGTCC
AAAACTCAGAGGCCGTATGGAGTATAGCCAAGTGGTAAGGCACCGGTTTTTGGTACCGGCATGCA
AAGGTTCGAATCCTTTTACTCCAGATTATGAACACCCGATCGGATCTGTCAAGAACGAGCTGACG
ACTACAGGGGAAGCTCTCATTAATTAGTTGATGAGGGGAAGCGGCTGACAGCAGTCTAGCCTTGG
CTAAACCTTGGAAATCTTAATGCCATAATGCCTTTCAAATCCTCCTAGCCATTATCCTACTGCAA
TAATTCTTGCTAAGAAGAACGCCCATGTTGTGGCAATTCCACCCAGAAGTGTTCCTCCTAGTTTG
CTTGAAACAGATAAGCTTGCCCAACTGCAACAAAGAAAGAGCCTA
Right flanking sequence: Indices 180606 -- 181105
TGAGTAACAACTTCTGAGTTGACTTGGAAGAAACCATTGTGGATTGTTGTAGTTCCGTGCTAATT
AACAGGTTCTTTGCCTTTATTTAAAACAGGTTTGGCGTTGCATTCATCTAGGCTGTAGCCTCTCA
TACGACAAGAAGGATTTAGATCGGGGGATTTTCGTAAATGATTCGTTGCCAGCGCCCAAACTTTC
CCATCCCCAGCCAAATACGATTGGGCATATCCTTCAAGAGATCAACCAATACGCATACTGCGCAA
CACTAGGGTGGTCGTAGATCAGCTAACTGGGGCGTCCATTGGTGGAACTCAGCCGGAACCTCAAT
ACTGTGTAGTGCCCGAAGAATTACTACGTAATTTTGTCTAGTTTAGTGATAGCAGTAGGTCGGTT
CGCTGTGGCTCTAATGCCGGCGATGAAGCAAACAAATAGGGTGTGATAACATTCAGACCTATCTG
AGACTAAGAGGGGCTGGTTACCGGAGGTATTCCTGTCAGCCTTGT
Found at i:195491 original size:15 final size:15
Alignment explanation
Indices: 195471--195502 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
195461 TTGGCATTTC
195471 TCTTTTCTTGCTCTT
1 TCTTTTCTTGCTCTT
*
195486 TCTTTTCTTTCTCTT
1 TCTTTTCTTGCTCTT
195501 TC
1 TC
195503 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 194971 -- 195470
GCAGACAAAGAGGACCCAGAAGTGACTATAGGAGAAGGGAGAGGTTCTTTCCATGCCAGCCTTGA
CCAATAGATCAGTAATGTTTTGAGAAAGATAGAAGCAGAAGTTCTACTCACTTTTTGACCAAGAT
TGAGCCAGATACTTTATAGAAAAGATGGCATTTTTGATGCATACTATGTCATCAATATTCAGAGG
ATTGGACCATGTGATTCTAAGATCATCAACATATACTAGAATGTACAGAGCATGACCACCGCTCA
TAAAGAGAGAGAGATAAAGTTGACTGAAAACCAAGCTCAGAGAGTTCTTTCAAAGCAGCAAGAGT
AGTCATGAATCATTCTTCCTTCGATTGGATAATTCCCATTGGATTGTCAGCTATTGCATCAAATG
TTCCAGCTCCGCCCAATTCTCGAAGTCATGTTAGGAGAGGTATTTCTTACTCGGAGAGGGAGGCC
ACTATCAGCTACTCTGCAACTTCTCATCCCACGGGTTGGCATTTC
Right flanking sequence: Indices 195503 -- 196002
GGTAGTGGACGGGCTAAAGGGATTTGCTTACGCGCTAGCGCTTTCGTTCACTTTTCTCACATTTC
TAGTACCAACTAATACTAATGAATTCGGGCGAGAGTCTTCAAGTATAAGGAGATGGTAAATAAAC
AAGTGCTCCAGTTCCACCGGTTCCTAATTAATGGGGGAGTTGCTGCGCTCTCTTCTATGTAAATA
GAGATTTTCCACGGTAAAACAAGTGCTTGGCTTTGTTACTACATCCCGATAAATAGGTTAGGTTA
CTTTCTTGCTACGCCCGTTGACTAACTAGAAGAAAGAGAATGAATAGACAGGATAACTAGTTCCC
GTTGGTTGACAACAGCTCCCTTTTCCTTTAGCTTACCAGTTATACCTAATGTGGCGCGGTCGACA
TATTACTATAGGGCGAGCTATGTTAGCCAACCCTTTCCTCAGCTGCAAGGTCTCTGCCATAAGTT
TCAACCCAAACTCAGGCAACTTAAGCACCGGCTCTAACTTGATAG
Found at i:216748 original size:21 final size:21
Alignment explanation
Indices: 216724--216780 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
216714 TATATTCCTA
216724 CTGTTGTTATCTGTTAATATG
1 CTGTTGTTATCTGTTAATATG
216745 CTGTTGTTATCTGTTAATATG
1 CTGTTGTTATCTGTTAATATG
216766 CTGTTGTTATCTGTT
1 CTGTTGTTATCTGTT
216781 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 216224 -- 216723
TGGGAATGCGTCCTTTGTCCGCTTCCCTTTCCTTGGTTGTGTCTGTATTACGGGCTGCTTTCTCG
ATCCTTCTATTGTTGCGTGGAAGTGCTGCTTTCTTCCTGATAGTTGGATCCCCGAATCCAACTAT
GATTTGCTGAGCTGTTGCAGCTCCTTTCCTTTCTTCTTTGTGGGCGGACTGAGAAGGGCCCGTAT
ACCGTACGTATCCCTCCGGTGATTGTCGTTCTGTCTTCCCTTTCCTTCCGGGTTGTCTGGGACTG
GCTTCAATGTTCGGGTAGCATTACCTTTGTTCTGCTCTCCTCTCTTTGAAGTGTACTTTCCGGCC
GAGAAGTAGCTTTCTTTCTAATATAGGTTTTTCTCTGACGACTAACCTATATTAGTTCCTGCTGC
TACTGTATGTTGTGTACCGAGTGCTGGCTGTTATAGTATGGTTATAGCGTTGATGGATTGTTTGT
TATCTCCTTACTGCTATTAGCTGTTGTTATAGGGCTATATTCCTA
Right flanking sequence: Indices 216781 -- 217280
CTCTGTCCTTACTGTTGTTAGGTGGGAATAGGTTGTTAGCGTAGCTTCTGTTCCTATGCTTGAAT
GTGTAGTGAAGGAATGGAGGGAAGCTCTTATTAACGGCCGGAGCTAAACTCCGCTTAGCCCGGAC
AGGGACAACCAAAGCAGGAACTTAGAGACTCCTAGTAATACATCATACCTACTAAATCAGTCTAT
TGGGGCTATAGGTGTTCCCCCCGGGAAAATAACCAATGGAGTTGATTACGTTGTGAGTAAACGAG
GAAAGGCGTAACATTTCATAGTTAAGGGTCGTTCATTAGCCCTACTAGTCAAGCACGGGAAGCTA
ACTTTCTATCAACAAAGCTAGCGGGGTTTCCGGGCCTTGTTTTGGTCCAATGTGAAAAGCTACAT
CCGAGGAATTGTATGATTCAGATACCTGACGAAATAAAGAGAGAAAAGATCGGGCGGGATAGCTG
GGATGACCTATTTCAAGATCAGATGATCCACCAGCTTGTCTGCTT
Found at i:218905 original size:25 final size:23
Alignment explanation
Indices: 218859--218905 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
218849 TACATGCTTC
* *
218859 ACACAGAAACAACTGCTGTGCAT
1 ACACAGAAACAACAGCTATGCAT
218882 ACACAGAAACAAGGCAGCTATGCA
1 ACACAGAAACAA--CAGCTATGCA
218906 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 218359 -- 218858
CCAACTTCCCTAGCCCAACCTTCCCAACCACCTCGGAACAAATATCATGCATACATAGGAACCCG
GCTTCGCTAACCTTTCTTACTTAGTCGTGAAACAACTGTTCCCATCGAACGGAGAGAGATAGTCA
AATGACAAAGGAAAGCAGACCTCGGAACGCGCTGCACAGCACGGAACAGCCATTACATCAGTGAT
CGGCAAACAAAGATAGATACTTAACAGCAGCTACAAGCAACAATAGCTACACCCGCCTAGGGACC
ACTCCAGAAGTAAGCTGCGATTAACCAGCTCACTTCCCTCATTCAATAGGGAAGACAACCCGCAG
GGATACATGCATAAACAGGAATACTGCTATGCTTACCTACCTGACCATTCATGCAACAACTTACT
CACATACCAACAAGGGATATGAATTATACTGAAGCTGCAAGCAACAGGAACTAGTGCCGCTTAGC
TACGGTAGTTCACAGGCCGTTCCTCACTACCTCCATACATGCTTC
Right flanking sequence: Indices 218906 -- 219405
CACTAACTCATACCACAACCATTCCTATCGATAGAATACAGGTAATGGCAGATAGAAAGCAGCAC
TTACAGAGGAATCCATACACCGCAGGGATAGAGATTCACAACAGGAGGATAGCTCAAACGAAGAG
AAGAGATATTCTAGACTGACAGGAGCTACAAACGCAGGAGTACGAGCCACTCTCCACGCTCGCTG
GAACAACAAACCAAACAAGAAGAGGAACTAGCAAAGGCCTAACGAGACTTCTAGCAGCTTCTTCC
CATTCCGCATAAACAAACAGAGGAATGAAAGACTGACATCACTGCTTTAGCTGCACCGTTGACTT
AGCCGACGCTTTGATTCAATTAGAAATCTAATCACTCGGACAGCCCTGCGCTACACTTCGGGGAT
ACGCTTACCGGGAAGTCCTACGTTCTCTACAACTGGTAGCCCAACTCAACGGGAGAAAGAGAAAG
CAGCCCTATTAGAATAGAAGCCTTCGGAACTACTCTAGCATCTTC
Found at i:226277 original size:26 final size:27
Alignment explanation
Indices: 226229--226292 Score: 103
Period size: 26 Copynumber: 2.4 Consensus size: 27
226219 ACCCAAGCTA
226229 GGCTGAAGGCAGGACTCTATTAAGTAC
1 GGCTGAAGGCAGGACTCTATTAAGTAC
*
226256 GGCTAAAGGCA-GACTCTATTAAGTAC
1 GGCTGAAGGCAGGACTCTATTAAGTAC
*
226282 GACTGAAGGCA
1 GGCTGAAGGCA
226293 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 225729 -- 226228
TCATACCTTTATTAAACAATTCACTACTTGGTGAATACTTGGGCACTACTTGGCTACTAGTTGAC
TACTTGGGAAACTAGTTGACTACTTGGATAGTTTACTACTAGGCTAGGGAACTACTTGACTACTG
AACCCCAGGAATACACTACTTGCCTAGGGAACTACTTGGGAAGTCATCTCTTTACTTAACGAACT
AACCACTCAGGGATTCAAATCCACGATACTCCTACCATCTGCTTGATCCAGTTGAAAACTTGACT
CCGACTTCACATCAGCCCTTAGGGTCAACACAGCTCCTCTTATCCTTTACTCTTTCTATGCCTGG
ATTCCTATGCCTGTTTTACCTCGAGTTGGAATTCAGTGGGAGAAATTCCAACAAAATGAAGTGGT
AGAAATTCTCCAGAAAACGAAAACGGCGATTCCAACTCTACAATCAAGGCAGAACGCAGGGAGGA
GAAGAGAATAGAATAGATTATAGACGGCGGACCGGACCCAAGCTA
Right flanking sequence: Indices 226293 -- 226792
AACCAAGTAAGTGCGGTTTCAAACAAAGGTGAAGGAAAGGTACGATCGGTGGACAAGGAATCGGT
TGAGATCGAAACCATATTCGTAGGACGCGTACCCAATAGCGTTTCCAGGGGCCTCATCCCGGGGG
CAAGCCGGGGCATCAGTACGCGCTAGGCCTATCACTCGGAGCCCGGGCGATCGACTCCTACTCTT
TATTTAGAGGCGGGAAATCTTACTCTTCTTGAGCGGGGGGTAGACCAATCTTCTTCAGCGGGAAA
TCCAATCCATACCTTGGAGGAAATCCATAGCTTGGTAGACAATCCATAGCTTGGTATCCAATCAC
TCTACTTCAAGTGGGCTAACTCACTCATCTTTTGGGATTGGTCTTTCTTCAATGTATAAGTGGAG
TAAGGTCTTTTTCCCCACCGAAAGAAAAGAAGGTTTCCATTCCCATTCCAGTAGTAAGAAAAGAT
CAGAGGCACCGTTGCCTACTTCGTGGGATCGCCTTACGTAGAAGG
Found at i:226598 original size:19 final size:20
Alignment explanation
Indices: 226555--226608 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 20
226545 GCGGGAAATC
*
226555 CAATCCATACCTTGG-AGGA
1 CAATCCATAGCTTGGTAGGA
226574 -AATCCATAGCTTGGTA-GA
1 CAATCCATAGCTTGGTAGGA
226592 CAATCCATAGCTTGGTA
1 CAATCCATAGCTTGGTA
226609 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 226055 -- 226554
TTCCTATGCCTGTTTTACCTCGAGTTGGAATTCAGTGGGAGAAATTCCAACAAAATGAAGTGGTA
GAAATTCTCCAGAAAACGAAAACGGCGATTCCAACTCTACAATCAAGGCAGAACGCAGGGAGGAG
AAGAGAATAGAATAGATTATAGACGGCGGACCGGACCCAAGCTAGGCTGAAGGCAGGACTCTATT
AAGTACGGCTAAAGGCAGACTCTATTAAGTACGACTGAAGGCAAACCAAGTAAGTGCGGTTTCAA
ACAAAGGTGAAGGAAAGGTACGATCGGTGGACAAGGAATCGGTTGAGATCGAAACCATATTCGTA
GGACGCGTACCCAATAGCGTTTCCAGGGGCCTCATCCCGGGGGCAAGCCGGGGCATCAGTACGCG
CTAGGCCTATCACTCGGAGCCCGGGCGATCGACTCCTACTCTTTATTTAGAGGCGGGAAATCTTA
CTCTTCTTGAGCGGGGGGTAGACCAATCTTCTTCAGCGGGAAATC
Right flanking sequence: Indices 226609 -- 227108
TCCAATCACTCTACTTCAAGTGGGCTAACTCACTCATCTTTTGGGATTGGTCTTTCTTCAATGTA
TAAGTGGAGTAAGGTCTTTTTCCCCACCGAAAGAAAAGAAGGTTTCCATTCCCATTCCAGTAGTA
AGAAAAGATCAGAGGCACCGTTGCCTACTTCGTGGGATCGCCTTACGTAGAAGGACTTGTGATCC
ACTCTCGGCTAAGTTTCTATGATCGGTCCTCTCTCGATTAATAGCTAACTGGAAAGAGAATCCTC
TTTTATACTTCATTATCGATCAAGAGGGAAGTTCCTAACGTGTCCTTAGGAACGAAGGTCTGTCG
AAGGTGGGCGAACGTGTCTTTCTATGGTACGCTCGGTACGCCTTGTTTCTATTGTTCTCCGATAG
CTCTATCAGTGATTATTTCAAGTAGTGCTTTTTGTCTGTTACCGGATATGTATAGAAGTTTCCTT
ATGGTGTTCCTCTCCGGTGTTGCTGAATACACGTCACCGGTTCGA
Found at i:226614 original size:19 final size:19
Alignment explanation
Indices: 226554--226615 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
226544 AGCGGGAAAT
*
226554 CCAATCCATACCTTGG-AG
1 CCAATCCATAGCTTGGTAG
**
226572 GAAATCCATAGCTTGGTAG
1 CCAATCCATAGCTTGGTAG
* *
226591 ACAATCCATAGCTTGGTAT
1 CCAATCCATAGCTTGGTAG
226610 CCAATC
1 CCAATC
226616 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 226054 -- 226553
ATTCCTATGCCTGTTTTACCTCGAGTTGGAATTCAGTGGGAGAAATTCCAACAAAATGAAGTGGT
AGAAATTCTCCAGAAAACGAAAACGGCGATTCCAACTCTACAATCAAGGCAGAACGCAGGGAGGA
GAAGAGAATAGAATAGATTATAGACGGCGGACCGGACCCAAGCTAGGCTGAAGGCAGGACTCTAT
TAAGTACGGCTAAAGGCAGACTCTATTAAGTACGACTGAAGGCAAACCAAGTAAGTGCGGTTTCA
AACAAAGGTGAAGGAAAGGTACGATCGGTGGACAAGGAATCGGTTGAGATCGAAACCATATTCGT
AGGACGCGTACCCAATAGCGTTTCCAGGGGCCTCATCCCGGGGGCAAGCCGGGGCATCAGTACGC
GCTAGGCCTATCACTCGGAGCCCGGGCGATCGACTCCTACTCTTTATTTAGAGGCGGGAAATCTT
ACTCTTCTTGAGCGGGGGGTAGACCAATCTTCTTCAGCGGGAAAT
Right flanking sequence: Indices 226616 -- 227115
ACTCTACTTCAAGTGGGCTAACTCACTCATCTTTTGGGATTGGTCTTTCTTCAATGTATAAGTGG
AGTAAGGTCTTTTTCCCCACCGAAAGAAAAGAAGGTTTCCATTCCCATTCCAGTAGTAAGAAAAG
ATCAGAGGCACCGTTGCCTACTTCGTGGGATCGCCTTACGTAGAAGGACTTGTGATCCACTCTCG
GCTAAGTTTCTATGATCGGTCCTCTCTCGATTAATAGCTAACTGGAAAGAGAATCCTCTTTTATA
CTTCATTATCGATCAAGAGGGAAGTTCCTAACGTGTCCTTAGGAACGAAGGTCTGTCGAAGGTGG
GCGAACGTGTCTTTCTATGGTACGCTCGGTACGCCTTGTTTCTATTGTTCTCCGATAGCTCTATC
AGTGATTATTTCAAGTAGTGCTTTTTGTCTGTTACCGGATATGTATAGAAGTTTCCTTATGGTGT
TCCTCTCCGGTGTTGCTGAATACACGTCACCGGTTCGACTCCTAT
Found at i:232270 original size:19 final size:19
Alignment explanation
Indices: 232246--232284 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
232236 GCCAAAGGAC
232246 AGATTTTACAAATGGTCTG
1 AGATTTTACAAATGGTCTG
232265 AGATTTTACAAATGGTCTG
1 AGATTTTACAAATGGTCTG
232284 A
1 A
232285 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 231746 -- 232245
GTTGGAGTTGGTACTTCAACCGGTTCTTTTACAGTCCCACCTTCATAAGGAAGAACTGCCTTGAA
GGGTAAGGCAGGTCAAAAGAGTGGGCATCTTTACTACCTATGGCTAACTCAAAAAAATCTGAGAG
GGGAGGTTGCTCTGCTCTGGATGCACCGGTCAGAACGGGGAAAGCTGCTCTTAGAGCTATCTCTT
TCCGATCTAGGCAGATGGTTGAATCTAATGCGAGTAGCACTAGGCCTAGAGCGGAATATTAGGTA
GTACGAGTTGCTATATTTTTCCATCCCCCTTCGGGAAGAAACTCTCTTTGACTTTTGAGAAGATA
GACCCAAGTAGCCCTTGAATGATCATACACTATGGTTCAAAAATATCGAAAACCTTCTGTTCTGT
GGTTTCAACTGAAAAAGGGCCCCAAATGTCAATGTGAATCAGATCAAAAGGTTCATCACAAATGT
TATTATGAGATTTAAAAGGTAAGTGTTTTTGTTTAGCCAAAGGAC
Right flanking sequence: Indices 232285 -- 232407
TTGACCTTTTTATTCTTATGAGTAGGGAGTCAATCTGAAAGGATAGCAGTTTTAGAAGAAGGATG
GAGCAGAAAGATAGAAAGATCAGTTGCTGGAAATCAAAATGTAATAGATCGGAAGAGC
Done.