Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_065224
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: 400769
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Found at i:3424 original size:18 final size:18
Alignment explanation
Indices: 3384--3426 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
3374 ACCGCCCTGC
3384 CATAGTCGCGAGTCTGTTT
1 CATAGTCGCGAG-CTGTTT
3403 -ATAGTCGCGA-CTGTTGT
1 CATAGTCGCGAGCTGTT-T
3420 CATAGTC
1 CATAGTC
3427 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 2884 -- 3383
GAAAGCTTCTTTTTCAAGTGTCAGTAGCGGAACGTTCTGTCAATCGGGGAAGGTTTTTGGTGACA
ACACCTGGAGATATCAGAAGTGAGAATGCTGACATGAGTAACGAGAAATCCTGTGAAAAACACGA
TCGCCTGCCAGTGGAAGGCTTTCTGCGTTCAGTCAATCTACGCAGAGTGAATCGGTCCCTAAGGA
ACCCCCGAAAGGGCTGCCGTCCGATGGGTACACGAAAGTGACGAAGTTGCTTTGACTACAGAACC
ATGCCTATCTGTTGGAGCGAATTGGATGATCGGGCCGAGGGCTGCCCCCTCTTCCCCTCACTCTC
CTTTCCCTAATATGAACCTTGAGTCATCAAAGCCTTTCTGACTCGGCCTGGCCCGGTCGCCCTAT
GCGACTGGCGCTTCAAAAGGCGAAACTCTCGTCGTAGTTTGGCGACCTAAGGGGCCTTTAGTCTT
TTGATTAGAGTAGGGGTCGCGAGAGAGCAGAGCGTACCGCCCTGC
Right flanking sequence: Indices 3427 -- 3926
AACAAGGTTGAAACTTCCAGGAAAAAACTTCGAATTGGGAGGGCGATCCTCCCGGTGAACTGACC
GTACCCCAAACCGACACAGGTGAACAAGTAGAGTATACTAGGGCGCTTGAGAGAACCATGTCGAA
GGAACTCGGCAAAATGACCCCGTAACTTCGGGAGAAGGGGTGCTCTCCTATCTTTTGATTAGGAA
AGCGGCACATACCAGGGGGTAGCGACTGTTTATTAAAAACACAGGACTCTGCTAAGTGGTAACAC
GATGTATAGAGTCTGACACCTGCCCGGTGCTGGAAGGTCGGAAGGAGAAGTGTTATAAGCTTTGA
ATGGAAGCCCCGGTAAACGGCGGCAGTAACTCTAACTGTCCTAAGGTAGCGAAATTCCTTGTCGC
ATAAGTAGCGACCTGCACGAATGGTGTAACGACTGCCCCGCTGTCTCCGACATGGACCCGGTGAA
ATTGAATTCTCCGTGAAGATGCGGAGTACCAACGGCTAGACGGTA
Found at i:29261 original size:13 final size:14
Alignment explanation
Indices: 29228--29261 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
29218 CAGAAGCTAG
*
29228 AGGACAGTATTCGT
1 AGGACGGTATTCGT
29242 AGGACGGTATTCGT
1 AGGACGGTATTCGT
29256 -GGACGG
1 AGGACGG
29262 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 28728 -- 29227
TAGATACGTGATAACACTTGTGGTTTCGGCGAATCGCCTTCACTCTCGGGGTTCAGTACCCGCCT
CTTGGTGTCCAATACCCAGTGATGGGAGAAGGAGTGGGAGACGAAGAGAGAGAAGATGGTTGCTT
AGCAGCGGAAGCTGGGGATCGAGAAGCGGAGGGAGAGCTTAGGCTTGAAATGGAGCTGGGATACC
GGTATTTTTCCCTCCCTGGATCCGAGTCTTTCTCTTCTCCTGGACCGAGCACCGAGACCGAGGAA
AGAGAGGCTGGATACGAGTCTGATGAGATCAGAGCCAGTGAAGAGAAGAGGGAAGGCTTACTCTG
CTAGGCTGGCTTGCTTGTTCGACTAGAGCACATAAATAAGGTAGCTTGCTTACTTAGTGCGAAAC
GCTAAGGCCAATTAAGCAACGTTAATGGACCGCTCCCCATTACTGACGCTTTCACAGGGCTTCTT
TTTAGATAAAATAGGCCATAGAAATTCACTCATAACAGAAGCTAG
Right flanking sequence: Indices 29262 -- 29761
ATGAGCGATTGGACCGCCTATAGGACAGTTACTGGACAGATGCGACCGTTACCAGTTGACAGATG
ACAGGCAGAAGAGCGGGAAGTCGCTCTATTTAAAGGACGGGAATTGCACATTAAAGGAAGGGAAT
CGTGTACTGAGCTAGCCTGCCTTGAACTTGAAGTAGGTAGTCTCTCCTATATCTGATAGCTTTAA
CTGGCCACTACAAAGAAATTGCCATAGATCGAAACTTATTCCAGGCTTAGTATCCCCGGATAGAC
CCTATAAAAGAAGACGAGTCATAAAGGCAAATATCTAACAATTTCAGGGGGCACATCCTAACTGA
ATAGTACTCGCAGGTTCTCTTTTCCATATGTTCTTCCCGATGCCCTATCCGACAGCCGTTAACTG
CCTTGCAGGGAATTCCTTACTCAAAAGTATGAGAGTGCGGCATAGCAAGAGTGAATCCTCCCACC
TCCCTCTAACGCTTATCTCTTTTCTTGCTTCCTTGCTTTAATCCA
Found at i:101925 original size:15 final size:16
Alignment explanation
Indices: 101883--101925 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
101873 TCCTACCTTA
101883 ACAGTCGATCATGCGCTC
1 ACAGTCGATCATGCG--C
*
101901 ACACTCGATCATGCG-
1 ACAGTCGATCATGCGC
101916 ACAGTCGATC
1 ACAGTCGATC
101926 TGTCCATCCG
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:0.26, C:0.33, G:0.21, T:0.21
Consensus pattern (16 bp):
ACAGTCGATCATGCGC
Left flanking sequence: Indices 101383 -- 101882
TTGCATGAAAAAACTCAAAAAAGAATAGGTGATCGTAGGTCAGCCCGTGGGTAAGTTCCGGGCTT
TCATTGATATTTTCTCGTTCATGATCTCTAATCCTTTGAGTAGATTGGGCAGGGGTAAGACTATG
CACATAGCTTCGGTTCCGTCTTGTTTGCCAAGGAGATATGGTTGCTTTTCCTTCTTCAGTAGGCT
TTCCCGCGGGTTCGGTTACAGATAGGATACACGGGTCAAAGGGAAGGCTTGAGTTCAGAGACGAA
GTTGGCTTTGAAGGTACAAACTTTCAGACAGTTCCTTACTTTCTATTCTCTAATCTCGTATGGCA
GCTTTCAGTCCCATCTTCAGTTTCGGGATATTGCTCCTATGCCTCTTCGAAGTGAAGCCCTTATA
TCGAATGATTCAAGACATTTGATTTTATAATAGAAATGAGAGGACAGCCGAATTGACAGAAAATA
GTCTGAATTTGTTGATCAACTCTCTTTGTTGAAGGTCCTACCTTA
Right flanking sequence: Indices 101926 -- 102425
TGTCCATCCGACTACATTCACTGGGGGGTGAGGTTGTCCAATTTCAATTATGTGCCGCTCGTTGA
CATCTAGTTTCCATTGCCGGTGTGAGAGATCTTCCTTCGGTTCTAGTTAAGTATGGCAGCTTGAG
GTCTCCTATTTAACTTTCACCAGCCATTGGGAACTCAAATAAACTTTCATTTAACGGCAGGCGAG
AAAGGTTCTAAAAGAAAGAAAGGTAGAAGGGGGGTTTTCTCCCGTTTCGGGGTTCTCTTGTGGAC
TGGCTGTTGACTGGCCGGGAGAAAACCGGTGCTTTTAGCTTAAACGGATTTTCACTGGATCGGAG
CCTTTCGGAAATCCTCCCCTTTTGGCTTCACTTGAGCGGTTGACGCAATCCAAGAGGAAGAGGAA
GCTAAACCCGTGCTGACGAATAACCAAACCCCTTAATTCGTCGAGTAAAGTAAATAGGGAAGGTA
TAGGTTTGTTATGAATGACCCCGTATCGAATACAGGTAATAATAT
Found at i:106080 original size:13 final size:13
Alignment explanation
Indices: 106062--106087 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
106052 CAGGCCTCTC
106062 CTTATTCATTCTA
1 CTTATTCATTCTA
106075 CTTATTCATTCTA
1 CTTATTCATTCTA
106088 TAGGGCGGGG
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:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (13 bp):
CTTATTCATTCTA
Left flanking sequence: Indices 105562 -- 106061
CCTCACTGACCTGAGCAATTTCGATCACCTAGCAGGCCTTAAATTTGGTAGGTAACATCGCCGAA
GCGTATCATCTGATTTTACTACGAAGGAAGGAACTCGAAGTGAGACGGCGCCGTCTTGTCCAACG
CAACGATATGGCCCTCTATCATCTTCTATCTGGTAGACTTGGAAAAGGGGCCCCGACTTTTTTCC
AGAATTAGAGTTCGACCGCGGCTGCCCCCTTTTTTTTCCGCACCAATCCTTATTTTTTACTATAT
ATTTTGGGGGTGTATAGCTCAGTTGGTAGAGCATTGGGCTTTTAACCTAATGGTCGCAGGTTCAA
GTCCTGCTATACCCAAACCTACCTTACACTATACTATTAGTAAGGATGCGTAGTAGCGTTCAAAG
ATCACTCTTTGGCCTTTAGACTCGCTTCAGCGACTTCGCCCTTTAAGTGACAAGGGGGGGGTTGA
GGTAAGGAGTAGTATAAGAGTGGCTCGGTCATCAACAGGCCTCTC
Right flanking sequence: Indices 106088 -- 106587
TAGGGCGGGGCTGCGGACCAACAATTCAGCAAAAGGGCTTAAAAGCTCCTTTATCAAACCTTCCC
CTTTGAATAATAATAAGGTAAGCTTGGGTTCCAAACTATATGCGGTCTCGCCATTCTTTGTTTGC
ATTCAAAGGTCTTGTGCCTGCGCTATCGAGTCACGTGCCTAACTTCCAAAGAATGAATCATATGG
TAGAGGAGCTAAAGTGGCCGGCGGCGGTGTAGAGCTATAAGGAGCGAAGCTCACACACACCGGCT
GATGGAGGGCGGGATCGCATTCACTTGCTTGCGGCCCGGCTCCATAATAGTGGAAAGCGGGCGCG
CCCCCATAACCACACGGGAGGGTAACGAGATTCAACGGGATGGTCACGCTTTTCGAGAACGGTTT
TTCCCTCATAAAGCAGGTTCCGTGAGTCAAAAGACCCTAAACAAGGCAAGCCGAAAAGATTCTTT
TTCTCTTCCGCACATCGATGTTCTGGTGGACAACACCGCTGGACA
Found at i:142446 original size:39 final size:39
Alignment explanation
Indices: 142391--142469 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
142381 CCCATCCTTC
* *
142391 AATATCATGATTGGGTCGACCGGGCCAGATCATGAGTGA
1 AATATCATGATCGGGTCGACCAGGCCAGATCATGAGTGA
142430 AATATCATGATCGGGTCGACCAGGCCAGATCATGAGTGA
1 AATATCATGATCGGGTCGACCAGGCCAGATCATGAGTGA
142469 A
1 A
142470 TAGAAAATCG
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:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (39 bp):
AATATCATGATCGGGTCGACCAGGCCAGATCATGAGTGA
Left flanking sequence: Indices 141891 -- 142390
CTTTTCTCCGCAAATCACCCCTTCCCAACCAGCCCGCCCGATCCATTTTGTAAGATCGGCTAATT
CAAAAGGGTTAATCTGGTCCGAAGTTGTCGGAACGAATCGTTTGCTTTATCGAACAAAGCTTTAT
TAGGGTAGGGTCTTGGTTGGCCCCCTATTTTCAACCATTACAGCTGGCGTCGACCAGCTTTGCGA
TACGGACGGACACGAAGAAGAACGCAGGCAGCGGAAATGCAAAAGAGAAGAGCAAAGATTCCCGA
CCCAGAGCATGTTATTGACTCAACCACAAATCTGTTGAATGAAGGTAGCTTGCTTACTCTCAGCC
ACTAGTTAGAAGGAAATCCCTTGACTTCGCTTATGCCCTTATGGCCCTTATGCAGTACAGAAAGC
AAGTGAGGCGGGCTAAGATTCCATTCGAAGTAAGGTGACAGGATTCGATGTTGCACCATCTTCAA
CTCTTCTCTGGATCCGGAGTTTTTCGAGAAAAGGTCCCATCCTTC
Right flanking sequence: Indices 142470 -- 142969
TAGAAAATCGAAAACGTACATAGCAGTTCCAGCCGAAATACTTGGAATAATTCTACCACTTCTAC
TAGGAGTAGCCTTTTTAGTGCTAGCTGAACGTAAAGTAATGGCTTTTGTGCAACGTCGAAAGGGT
CCTGATGTAGTGGGATCGTTCGGATTGTTACAACCTCTAGCAGATGGTTTGAAATTGATTCTAAA
AGAACCTATTTCACCAAGTAGTGCTAATTTCTCCCTTTTTAGAATGGCTCCAGTGACTACATTTA
TGTTAAGTCTGGTTGCTCGGGCCGTTGTACCTTTTGATTATGGTATGGTATTGTCAGATTCGAAC
ATAGGGCTACTTTATTTGTTTGCCATATCTTCGCTAGGTGTTTATGGAATTATTATAGCAGGTTG
GTCTAGTAATTAGGGGGCGGCCGTTCGGTCGCCTATGATACTAGGACCAATAGGTCAAAAATGGG
TTTGTGCCGCAGGTGTTGAACGATCTACTCTACACAGGTGTGGGC
Found at i:163336 original size:13 final size:14
Alignment explanation
Indices: 163303--163336 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
163293 CAGAAGCTAG
*
163303 AGGACAGTATTCGT
1 AGGACGGTATTCGT
163317 AGGACGGTATTCGT
1 AGGACGGTATTCGT
163331 -GGACGG
1 AGGACGG
163337 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 162803 -- 163302
CCCATCATTGAAGTCAGAGTGTGGGGCTGAGCCTTCCGAATGATAAAGACAAAAAAGTGCTTTTT
TCGTTGGAAAAACCAACGCAAATCTCATATTGACTTTCTCTCGCCCTACTTCTAAGGATATATAG
AAAAGGTTGGAGAGAGTTACTTTAACCGCCTGAAATTCTCTCCCTTCTAAAGCTGCGCAAGGCGA
CCCATTTTTCCCTCCCTGGATCCGAGTCTTTCTCTTCTCCTGGACCGAGCACCGAGACCGAGGAA
AGAGAGGCTGGATACGAGTCTGATGAGATCAGAGCCAGTGAAGAGAAGAGGGAAGGCTTACTCTG
CTAGGCTGGCTTGCTTGTTCGACTAGAGCACATAAATAAGGTAGCTTGCTTACTTAGTGCGAAAC
GCTAAGGCCAATTAAGCAACGTTAATGGACCGCTCCCCATTACTGACGCTTTCACAGGGCTTCTT
TTTAGATAAAATAGGCCATAGAAATTCACTCATAACAGAAGCTAG
Right flanking sequence: Indices 163337 -- 163836
ATGAGCGATTGGACCGCCTATAGGACAGTTACTGGACAGATGCGACCGTTACCAGTTGACAGATG
ACAGGCAGAAGAGCGGGAAGTCGCTCTATTTAAAGGACGGGAATTGCACATTAAAGGAAGGGAAT
CGTGTACTGAGCTAGCCTGCCTTGAACTTGAAGTAGGTAGTCTCTCCTATATCTGATAGCTTTAA
CTGGCCACTACAAAGAAATTGCCATAGATCGAAACTTATTCCAGGCTTAGTATCCCCGGATAGAC
CCTATAAAAGAAGACGAGTCATAAAGGCAAATATCTAACAATTTCAGGGGGGCACATCCTAACTG
AATAGTACTCGCAGGTTCTCTTTTCCATATGTTCTTCCCGATGCCCTATCCGACAGCCGTTAACT
GCCTTGCAGGGAATTCCTTACTCAAAAGTATGAGAGTGCGGCATAGCAAGAGTGAATCCTCCCAC
CTCCCTCTAACGCTTATCTCTTTTCTTGCTTCCTTGCTTTAATCC
Found at i:226524 original size:17 final size:17
Alignment explanation
Indices: 226502--226536 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
226492 AAAAGAAGCT
226502 ATTGAGTTGGCTTCTTG
1 ATTGAGTTGGCTTCTTG
226519 ATTGAGTTGGCTTCTTG
1 ATTGAGTTGGCTTCTTG
226536 A
1 A
226537 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 226002 -- 226501
ATACGAATCATAATCGATGGTGAGAAGTGGAACACCTCCTTCAGACCAACTACAGAGTAAGCTTC
TACCGCGCCCAATAAGGGCGGCTTATCCCGGTTCTGGTTCCCTCCGTGCGTGTATCCATCCTTTG
ATCTCATCTGTATATCATTTCTAGTACTACCTTGTGCTATTTTTAGGCTCCACTGAGTCAGCTCG
TCCACTTTATGTTATAGTTGCAAGCTACCTATTATCGTCGATCAGCAACCTTCTCTCACAGTGGC
TTAATGAGAATTTTGTATGATAATTGTGTGACGCCATGGCTTCGCCTTTGACGCTTTCGTCTTGT
TGTTTGGTACAGTAATAAGCAGATCTGCGAAACCTCTTACCCGGATCTTACCATTTGCCTTCCTG
TTGAGGTTGAATTACGTGGTATAAGCAAGCGAAGCTTCGCTTGTAGTCCCCATCTGTTCCCAATA
ACTAGCTCAGTTGCAGCAGAGGGCATAGCGGTTCTAAAAGAAGCT
Right flanking sequence: Indices 226537 -- 227036
AAGAGATGATGGAAGCAGAATAAAGTGATAGGCGGAGTCAGATATTCGACTGGAAGCCTCATACC
GATATGAGATTTATACTCTAATATTAAATTTCGTGTATGGGGCATGCACTTGTTCCACTTTCACG
TTGGTCAAGCTACTATAGCGGAATGTAACCTCAAGAATCCACTCTTTTTTTTAATGAAATGCTTT
TTTTCTCAATTTACCGTCCTTTTCAATAGACGTCCAGTTAAGATTCCGGCTGGACGAAAGCATAA
ATTATATAGAAAGTATGCCCTATGCTTCGTGAATAAACCTAGGTAAAAGCGAAGTTGTCCATGTC
AGGGCAGTGGGAATACATAGTTGGAGCTACGAGTTCCAATCGATTAATAAGACAACCGACTTCGA
TCAAAAAAATGAAAGCTAGCCGAACCAAAGATGTTGCAGGTTACCAAACCATTAAATCTGAGTGA
ATCGAGGCGGCGTAGACATTAAATCAAAAGTCTAGTGAGAGCGCA
Found at i:243855 original size:18 final size:18
Alignment explanation
Indices: 243834--243888 Score: 101
Period size: 18 Copynumber: 3.1 Consensus size: 18
243824 AATAGAATTA
*
243834 CAACTCGAAAAGGAAAAG
1 CAACTAGAAAAGGAAAAG
243852 CAACTAGAAAAGGAAAAG
1 CAACTAGAAAAGGAAAAG
243870 CAACTAGAAAAGGAAAAG
1 CAACTAGAAAAGGAAAAG
243888 C
1 C
243889 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 243334 -- 243833
CTGTCTCAACCCTGACTGACGACTAGCTTTACTTGATAGAGTTGCCTTCCATGCCCGGTTAAGTT
CGCCCTTAGGGGAAAAAGCCTTTCCTTGCCTTACCGGACAGTAAGAATTTAATTGCCTTGAAAAC
AAAACAGAAGTACTACTTTGGATACGCTATGATTCGCATCTCTCATTAAACTTTTATAATACAAT
CTATGTCCTACTCTTTTAGTTTTAGCTTTCTTCATTGAGTAAAAGGAAATTAGCCTTTCAAACAG
AAGGCATATGATAGCTCATTCCCGGACTTATTTATATCGTAAGAGAGAGAGAGAACCTCCTATGC
CCAAAGACTCCCATGCTTTCCGTTGGTCAACAACCAACCACAACTCACTATAATTCTTCACTACT
CGTACAGGAAGGTAAGAAAAACTTGCTTTTCTGGAGGGAATCAAAATGACGTAAATCCCAATTTT
ATGACCCAGGAACAGATTTTGCTATTACAAGTAGAAATAGAATTA
Right flanking sequence: Indices 243889 -- 244388
TATTAAAATTACAACTCGAAAAGGAATTAAAAGTAGAAATAGAATTACAAGTAGAAAAGGAAAAG
CTATTAAAATCGCTTGAGTCGCTGCCTTGTGAAAGAAAACATCATATGTAAGTAAGTAGCATCTC
GAATAGAAATATCCCTTCCAAATATCTAATATAAAGTTAGATTTCTATTCAAAAATAATAAATAG
AAATTGCGTAGCGTAAGAGAAGAAAATGCCCAAAAGTCCCATGTTTTTCTTGGTTGGAAAAGCCC
AACCGGCGACTTCCGTCTTCCTGAATTGGGAGAGCAAGAACAAGTCCCTCTTCTTTTTTTGGGGG
GGGGCGGAGCAGTTAAAGAATGAACCAACCCAAATGATTGTTCTAGAATGGCTATTCCTCACAAT
TGTTCCTTGTGATGCAGCGGAACCATGGCAATTAGGATTTCAAGACGCAGCAACACCTATGATGC
AAGGAATAATGGACTTACATCACGATATCTTTTTCTTCCTCATTC
Found at i:243911 original size:66 final size:65
Alignment explanation
Indices: 243829--243963 Score: 177
Period size: 66 Copynumber: 2.0 Consensus size: 65
243819 GTAGAAATAG
243829 AATTACAACTCGAAAAGGAA-AAGCAACTAGAAA-AGGAA-AAGCAACTAGAAAAGGAAAAGCTA
1 AATTACAACTCGAAAAGGAATAA--AACTAGAAATA-GAATAA-CAACTAGAAAAGGAAAAGCTA
243891 TTAA
62 TTAA
* * *
243895 AATTACAACTCGAAAAGGAATTAAAAGTAGAAATAGAATTACAAGTAGAAAAGGAAAAGCTATTA
1 AATTACAACTCGAAAAGGAA-TAAAACTAGAAATAGAATAACAACTAGAAAAGGAAAAGCTATTA
243960 A
65 A
243961 AAT
1 AAT
243964 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 243329 -- 243828
CCTTACTGTCTCAACCCTGACTGACGACTAGCTTTACTTGATAGAGTTGCCTTCCATGCCCGGTT
AAGTTCGCCCTTAGGGGAAAAAGCCTTTCCTTGCCTTACCGGACAGTAAGAATTTAATTGCCTTG
AAAACAAAACAGAAGTACTACTTTGGATACGCTATGATTCGCATCTCTCATTAAACTTTTATAAT
ACAATCTATGTCCTACTCTTTTAGTTTTAGCTTTCTTCATTGAGTAAAAGGAAATTAGCCTTTCA
AACAGAAGGCATATGATAGCTCATTCCCGGACTTATTTATATCGTAAGAGAGAGAGAGAACCTCC
TATGCCCAAAGACTCCCATGCTTTCCGTTGGTCAACAACCAACCACAACTCACTATAATTCTTCA
CTACTCGTACAGGAAGGTAAGAAAAACTTGCTTTTCTGGAGGGAATCAAAATGACGTAAATCCCA
ATTTTATGACCCAGGAACAGATTTTGCTATTACAAGTAGAAATAG
Right flanking sequence: Indices 243964 -- 244463
CGCTTGAGTCGCTGCCTTGTGAAAGAAAACATCATATGTAAGTAAGTAGCATCTCGAATAGAAAT
ATCCCTTCCAAATATCTAATATAAAGTTAGATTTCTATTCAAAAATAATAAATAGAAATTGCGTA
GCGTAAGAGAAGAAAATGCCCAAAAGTCCCATGTTTTTCTTGGTTGGAAAAGCCCAACCGGCGAC
TTCCGTCTTCCTGAATTGGGAGAGCAAGAACAAGTCCCTCTTCTTTTTTTGGGGGGGGGCGGAGC
AGTTAAAGAATGAACCAACCCAAATGATTGTTCTAGAATGGCTATTCCTCACAATTGTTCCTTGT
GATGCAGCGGAACCATGGCAATTAGGATTTCAAGACGCAGCAACACCTATGATGCAAGGAATAAT
GGACTTACATCACGATATCTTTTTCTTCCTCATTCTGATTTTGGTTTTCGTATCACGGATCTTGG
TTCGCGCTTTATGGCATTTCCACTATAAAAAAAATCCAATCCCGC
Found at i:243927 original size:18 final size:18
Alignment explanation
Indices: 243906--243950 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
243896 ATTACAACTC
243906 GAAAAGGAATTAAAAGTA
1 GAAAAGGAATTAAAAGTA
*
243924 GAAATA-GAATTACAAGTA
1 GAAA-AGGAATTAAAAGTA
243942 GAAAAGGAA
1 GAAAAGGAA
243951 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 243406 -- 243905
AGGGGAAAAAGCCTTTCCTTGCCTTACCGGACAGTAAGAATTTAATTGCCTTGAAAACAAAACAG
AAGTACTACTTTGGATACGCTATGATTCGCATCTCTCATTAAACTTTTATAATACAATCTATGTC
CTACTCTTTTAGTTTTAGCTTTCTTCATTGAGTAAAAGGAAATTAGCCTTTCAAACAGAAGGCAT
ATGATAGCTCATTCCCGGACTTATTTATATCGTAAGAGAGAGAGAGAACCTCCTATGCCCAAAGA
CTCCCATGCTTTCCGTTGGTCAACAACCAACCACAACTCACTATAATTCTTCACTACTCGTACAG
GAAGGTAAGAAAAACTTGCTTTTCTGGAGGGAATCAAAATGACGTAAATCCCAATTTTATGACCC
AGGAACAGATTTTGCTATTACAAGTAGAAATAGAATTACAACTCGAAAAGGAAAAGCAACTAGAA
AAGGAAAAGCAACTAGAAAAGGAAAAGCTATTAAAATTACAACTC
Right flanking sequence: Indices 243951 -- 244450
AAGCTATTAAAATCGCTTGAGTCGCTGCCTTGTGAAAGAAAACATCATATGTAAGTAAGTAGCAT
CTCGAATAGAAATATCCCTTCCAAATATCTAATATAAAGTTAGATTTCTATTCAAAAATAATAAA
TAGAAATTGCGTAGCGTAAGAGAAGAAAATGCCCAAAAGTCCCATGTTTTTCTTGGTTGGAAAAG
CCCAACCGGCGACTTCCGTCTTCCTGAATTGGGAGAGCAAGAACAAGTCCCTCTTCTTTTTTTGG
GGGGGGGCGGAGCAGTTAAAGAATGAACCAACCCAAATGATTGTTCTAGAATGGCTATTCCTCAC
AATTGTTCCTTGTGATGCAGCGGAACCATGGCAATTAGGATTTCAAGACGCAGCAACACCTATGA
TGCAAGGAATAATGGACTTACATCACGATATCTTTTTCTTCCTCATTCTGATTTTGGTTTTCGTA
TCACGGATCTTGGTTCGCGCTTTATGGCATTTCCACTATAAAAAA
Found at i:249069 original size:21 final size:20
Alignment explanation
Indices: 249035--249076 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
249025 ATGAGGTTAC
*
249035 GAAGTAAACGAAGTGAGGTG
1 GAAGTAAACGAAGTGAAGTG
*
249055 GAAGTGAAGCGAAGTGAAGTG
1 GAAGT-AAACGAAGTGAAGTG
249076 G
1 G
249077 GCAATCTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.38, C:0.05, G:0.43, T:0.14
Consensus pattern (20 bp):
GAAGTAAACGAAGTGAAGTG
Left flanking sequence: Indices 248535 -- 249034
CATCTGAATGGACGCTTTCTGGTAATAGAAACCCCATTTCGGCCCCTTCTCCCGTTGGGCACTAC
CTCCGATGGGAAAAGATACCCGTAGGACCATTCCGGCAGTTTTTCAAGCCTCCCCTCACGCCTTT
GGCGCCTCTGATGCATCTGATCGAGACAGAGCTCGAAACGTCTGGGCTTCGGATTGATCTTAATC
ACATTGGGATGGTACGGGGGAACAAGATGGACTCGGTTAGGTCACCCCCGAGTCCTTTTGCTGGA
AGTTCGAATGGCTTCTAGTATGGATGTGTCTCGGCTTCGCCTGACGCTCAAGATCGTCTCAATCC
CCTCTCCCTAATGGTATGGTCGAGCAATCTCCCGCTGGTTGAGTGCGAAACCCTCCGCTTGCGGA
GATCGAAGGCAGGATTATGAACTGTTTTCCAAGCTTTGGGTTAGGATTGTTCTCTCGAGACCATA
GTGGGAATTCCTTAACAACAACATTTTGTGTAAACATGAGGTTAC
Right flanking sequence: Indices 249077 -- 249576
GCAATCTTTGCCACTGTTGACTTGAACCAGCGTCCAGATATGGAGGGTTGGCTTAGCGGCAAACC
CTGTTTGGAAAACAAAAGCCAAACAGGGGCATCCTACCTTTCGTCGCCCTTACGGACCCTACATC
TGTGAAATGACGGAATGATACGAGGGATCCCCGGACGAGTCAGGGAGACGGGGACTGGCAAGAGG
GATGGTTTGTAATCATCCCCTCCCACGGCAAGCATGACGAGGAGCACCACTTTCAATACAAAGCA
GTGGCCGAGGCGCCACTCTTTCGTTTCAGTCGCGTTGACAACAAAGGGGTGTGCGGCCGTGTTCC
GTCAAGCCATCGAGATGAGTGTGCCTCTTTGACAGAGTCCCCTTATCTTGCGTAGTAATTCCGGA
ATCTCCTGCCACCGAAGTGAGTCAGAGGAAGGTTCCGCTCCTTCATTCTTTTTTTTTTATTGATT
GCACAAGATCTGCTTCGCAGCCTAACGGTTGTATTCACGAGGCTG
Found at i:263355 original size:13 final size:13
Alignment explanation
Indices: 263337--263362 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
263327 GGACGAGGAC
263337 TCATGTTTCTGAG
1 TCATGTTTCTGAG
263350 TCATGTTTCTGAG
1 TCATGTTTCTGAG
263363 ATTGATTGTT
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:0.15, C:0.15, G:0.23, T:0.46
Consensus pattern (13 bp):
TCATGTTTCTGAG
Left flanking sequence: Indices 262837 -- 263336
CCTGCCAACCAAAAAAAGAAAGAAGAGAACGAAAGGAGAAGAGAACTTCTTTGTAATTCTCTAGG
AGTCACTACAGCTACCTTGTTTTGCCACCTAGACCAACCACACCTATAATTCTATACACTAGCCC
TCTTCTACTATAATCACTTCAAATGCCCTTTTCTTGCTTTTGCACTAGGTTTTTCTTTCAAAATT
ATATAATAAATATGTGAATTCCACCTCTCTTTCCTCTTGTAGCTAAGGAAAGCGATTTCAGTCAA
GATCCAATCCAGGTTTCTTGTTTTCATTGATGTCTAATTCGAGAGTAAAGAGCTACGAACTGCTA
ACTCGAAGAAAGAGAAAGAATTCCTAGACCGGGAATGGAACTAGTGAAGGCAGCTATGGAATCAA
ACTCTTGGAAGACGGAGATTCTATACCATTCTCTTCTGTATGTGAATCAGTACGAGGATTTCTGA
GCATTCTTTGTTTAAGCAAATTCTCCGTTTCTTGAGGACGAGGAC
Right flanking sequence: Indices 263363 -- 263862
ATTGATTGTTAGGTATCGAAAGTAGCTTCTCTTGCTGCTTCTGAACTGGCAGTTCCTCTTTCTTA
CTACTTACTATAATCACCTGTTTTAGTAGATCTAGAATAAGCAGGTGCAGCTGCCTCATCTATAT
AAATCAGTAAGAACAAGAACCATGAATCTCACTCTTTGCATACAATAGTTTGCACGAGAATCCTC
CGTCTTTTGAATGCCAGTAGCAAGGGCGCTGTCCGCCTGCTCTCATTTTCCACCCCTAACCCTAA
AACCCTAAGGGCATTCTAAATCCAGGTGTTAAGCAAATAACAAGCACACCGGTTTCCTTGACCGG
GTTTAGACCCATTTGATTCTTATACTCCCAGGAAAGAGAGGAACATCCACTGATTTAGGATCGCA
GCCTTACGAATCCATACTGACACCAGTTGGTGTTTCAAGCGCTTCCACTAGCTGTTTGACATCAA
GACACTTATAACAGGGAATCTCACTATTTCAGACAGATATCGCAA
Found at i:264858 original size:18 final size:17
Alignment explanation
Indices: 264831--264871 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
264821 GGAGTCGTGC
264831 TAGCTGGAGACTGAGACT
1 TAGCTGGAGACTGA-ACT
*
264849 TAGCTTGAGACTGAACT
1 TAGCTGGAGACTGAACT
264866 TGAGCT
1 T-AGCT
264872 AGAAGCCGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (17 bp):
TAGCTGGAGACTGAACT
Left flanking sequence: Indices 264331 -- 264830
GGAGACTGGACCAACTATTGCAAGAGGCCGGCTTCCCGGTCAAATTGAAGGGTATTTCCAAGAAG
GAGAGTTGAGTAATGGCGGGTTTCGGGACTTAATTACTTTTCTGGTGGTTCACAGGCAGGTTGGG
AATCCGAATATCCCACAATGACAGAGTTCACCGAAATAGGATTTCAAGATATAGTGACTGAGCGT
GTACCCTATCTAGTTGTTGCTAGTTTGGCTTGTGATGATAGTTTACTAGTATAAAATAAGTCAAG
TATAGTACAAGTACGGAAGGAAGAAGAGAGGAATCCACTCCAAGTCCCTTTTGTGTGTGGATCTT
ATGGATCTCCTGTATCGACCGGACTAATAGTAAAATAAGGTTTGATTGCCTTACCACCAGTAGTT
GAAAGACAGCGTTTCAGGTCCATAGTTGTATTCAGTAAGTTGGGTAGCTCAATTCCAATCTTTGA
GCCTAGGACTTATTCTTACTGGAAAAGCGATGCCAGGAGTCGTGC
Right flanking sequence: Indices 264872 -- 265371
AGAAGCCGAACCGCTTACCAACAGTTCTTTTTTCCCGCTTTCTAACCGCAAGAGGAAAGGAAGAG
GTTTAGGGAGAGGGAAGGGGACCGAGAAGCAGGGATCGGACATTCAGTTCAAGGTGGAGAACCTA
TAGTTACGTTCAACACAGCAAACTACTTGTCTTTGGGGTTACCCTTCTGTCATTAAAACAGATTC
AGATACGATTGGAGTCACTTGACAGAGGCATCTCTATTGGATCCCCGGGTTGGCACTAAAGAAGG
AGGGTTCCACTTAAGTTTCATTCCGTTCCGTCAGGGGCTCCCCAAACTCTTTCTATTGCGGGCTT
GAGCATCTACTTCTTTGTCCGTAATCACTGGCTGTCAAGGTGTATACTTAGAGCAAAAGGAATGA
AACCAAAGTTCACTTTTTGTTGGATACCAGGGAAGTACTTACAGCTAGGCCTTCTTGCACTTCAA
ACCCTTCTTTCTTTTCTGGTGTACCTATGCGTGCGAGTCCACAAA
Found at i:287336 original size:22 final size:22
Alignment explanation
Indices: 287308--287361 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
287298 CAACTCGACC
*
287308 GTAGGGA-GAGGGAGAAGCTAGT
1 GTAGGGACGAGGGAG-ACCTAGT
*
287330 GTAGGGACGAGGGTGACCTAGT
1 GTAGGGACGAGGGAGACCTAGT
287352 GTA-GGACGAG
1 GTAGGGACGAG
287362 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 286808 -- 287307
CCCGGCTTTCCGGTAAGGATTTCTCTTCCTTAGCGTTCACATTAAACAATTAAACCTATTCCTAA
AGTGGAAGGCTTCGATCCGTATAGCGCGGGATGATGGATATCTTGAGTTAATAGAGCCAACCAAA
GCTTGCTTACTTAGTGTGTAAAGATTACAGCTCCGGAAGATACCGGGCATCTGTGAAAGCGTCTG
CACTCTCCTCATTCTACTCAGAAGGAGCTCCAATTCCTATTGGTTTTGGCAGAGGCAAGAAAGAA
AGAAGCTAGGCTTCACCCAATCTTCCAATCAAAATCTTACGCCGAGAGGGCAAAAAGCTATAGGG
AAATCGATCGATAGGATTGCATCCCTGGCCATAAACCGTAGAAACGTCCAGAAATGGTCATACAA
TCAATTTAGCTATCTGGACCTAGCTCGATATCAGTAGAAGATAGAGCCGCTAGCTCGACTGGGGA
TGGTTACGTGCTTGTCTGAGAGGAAATGGGCGGGGCAACTCGACC
Right flanking sequence: Indices 287362 -- 287861
AGTAACCTCCCCTTTTCTTCGTAACGAGTGTTCCCCGAGCAGCGGAGCATTTATGAGTGGATGTA
GCTGTGATAGCTTAGAGTTTCACTGATTGGTATGCCAAAAGACTTTTTATAATATCTTATAAAAA
GAGAGTTACTAAGAGTATTGCTAGAAATTATACGTAAGATAATAGAAGTCAAACTCTTTTGCAGC
TCTGGAGAAGGGGTAGCAAGTCGGAGACTCCCATGGATTGATCTATAACAACTACTGTGCCCGAA
GCGCCTGCATTTAGACCGGTCGCAGTTTAAGGTGAAGGTTCAATTGATCTTGCCTTGTAGGTAGG
CAGCGCCTCGAGAAAGACCATAAACATAAAAAAGAGGAACTCAAGCAGAGGCTGAAAGGCCCTTT
CTCTTTCCTTACCGTCTAGCGATACCATTTACATTTGTAGGAATGCATGGGACTACTTTCTATAA
AGCACTTTAGGTGGCTCTACTACTTCCATAGGCGGCCGGAGGAGC
Found at i:287369 original size:21 final size:22
Alignment explanation
Indices: 287325--287369 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
287315 GAGGGAGAAG
* *
287325 CTAGTGTAGGGACGAGGGTGAC
1 CTAGTGTAGGGACGAGAGTAAC
287347 CTAGTGTA-GGACGAGAGTAAC
1 CTAGTGTAGGGACGAGAGTAAC
287368 CT
1 CT
287370 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 286825 -- 287324
GATTTCTCTTCCTTAGCGTTCACATTAAACAATTAAACCTATTCCTAAAGTGGAAGGCTTCGATC
CGTATAGCGCGGGATGATGGATATCTTGAGTTAATAGAGCCAACCAAAGCTTGCTTACTTAGTGT
GTAAAGATTACAGCTCCGGAAGATACCGGGCATCTGTGAAAGCGTCTGCACTCTCCTCATTCTAC
TCAGAAGGAGCTCCAATTCCTATTGGTTTTGGCAGAGGCAAGAAAGAAAGAAGCTAGGCTTCACC
CAATCTTCCAATCAAAATCTTACGCCGAGAGGGCAAAAAGCTATAGGGAAATCGATCGATAGGAT
TGCATCCCTGGCCATAAACCGTAGAAACGTCCAGAAATGGTCATACAATCAATTTAGCTATCTGG
ACCTAGCTCGATATCAGTAGAAGATAGAGCCGCTAGCTCGACTGGGGATGGTTACGTGCTTGTCT
GAGAGGAAATGGGCGGGGCAACTCGACCGTAGGGAGAGGGAGAAG
Right flanking sequence: Indices 287370 -- 287869
CCCCTTTTCTTCGTAACGAGTGTTCCCCGAGCAGCGGAGCATTTATGAGTGGATGTAGCTGTGAT
AGCTTAGAGTTTCACTGATTGGTATGCCAAAAGACTTTTTATAATATCTTATAAAAAGAGAGTTA
CTAAGAGTATTGCTAGAAATTATACGTAAGATAATAGAAGTCAAACTCTTTTGCAGCTCTGGAGA
AGGGGTAGCAAGTCGGAGACTCCCATGGATTGATCTATAACAACTACTGTGCCCGAAGCGCCTGC
ATTTAGACCGGTCGCAGTTTAAGGTGAAGGTTCAATTGATCTTGCCTTGTAGGTAGGCAGCGCCT
CGAGAAAGACCATAAACATAAAAAAGAGGAACTCAAGCAGAGGCTGAAAGGCCCTTTCTCTTTCC
TTACCGTCTAGCGATACCATTTACATTTGTAGGAATGCATGGGACTACTTTCTATAAAGCACTTT
AGGTGGCTCTACTACTTCCATAGGCGGCCGGAGGAGCTGAATAGG
Found at i:311185 original size:15 final size:15
Alignment explanation
Indices: 311165--311203 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 15
311155 AAGGCTAGGG
311165 AAGGCTAGGGCATAA
1 AAGGCTAGGGCATAA
311180 AAGGCTAGTAGGGCATAA
1 AAGGC---TAGGGCATAA
311198 AAGGCT
1 AAGGCT
311204 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 310665 -- 311164
GTGAAGCTTTCGGAGCGTAGTGAGGTGAGCCAGTGCCTGTTGGTGGTCAAGTCCCAGTGGAAGTG
GAAGTTGTTGGGCGTTCAGGTTGCAAAGGAAGTTGGTGGGCTAACGGTGGTCCAGGTAAGGTAGG
TGGGGAAGGCTCGCCACGAGATCGACCGATAGCTTTGACCCAACCCCGGAAGCGGAAGTGCCAGA
GAGACGATCTTTGTGAGGCAGAGTGACATTCCAAGGTCAGGTATAAGGTGCTACGGGAACGATGT
CTCAAAGGTCAGTGCCAAGGGCTCAACGCGGAAGCAATCCGCTGCTCACAGGGACCGTGCGGGCT
GACGCTCTTCTCTCTCAGGCAAAGAAATGTGATTTTAACTTTCGCTGGTTCAAGGTAGGCTGCTT
AAGCAGAGGTTGTTGTTGTTGTTGGCGTGAGTGAAGGCGTTCCTTCCGGTGGGCATGACGAAGCT
AAGCTGGAACTAATTACGAAAGCATAATCGTTTTCAAGGCTAGGG
Right flanking sequence: Indices 311204 -- 311703
TACAGCTTTTCCGAGTCAAAAGCGGCTAAAAACACTCAGCCATAAGTTCCGGTTTCACCACAGTA
CAGGGCTAAATAAAGGGGCTCAAGGTTGGCATGACGAAGCGTCGGGCATCAAAGCTACCGGTTTC
AAAGTTCAGTTCTAACGGGCGTTCGGAAAGGCTTGAAATCGTAACGTACAGGTAGACTTTGCCAA
GGCAAGGAAAGTAGTAAGAAAGATATCGATGGAGCGGGCAGAACCTCGAGTAAGACAACCAACCC
TGGAGGCCATGGCTTGGCTTTATCCCGTAGGTAGTAAGAACAGAGAGAGCCTTCTGTGCTAGCAA
TACAGAGAGGTGGGGATTGAATGAGGCGAGCGCTGACTGCAGCAAGACCACCAGACCCTAAAAAG
AATAATAACAACGTTCAGCAAGCCGAAGCCAGCCAGACAGGCACCACCAGATACAGGGCGGGCAG
TTACTCCACCGAATCAGAGGGCAGATACCCGGACCAAAAGGAGTG
Found at i:322156 original size:20 final size:20
Alignment explanation
Indices: 322122--322159 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
322112 CTCATAGCTG
322122 CTAGCAACTCCTAGCTACAA
1 CTAGCAACTCCTAGCTACAA
322142 CTAG-AACTCCTTAGCTAC
1 CTAGCAACTCC-TAGCTAC
322160 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 321622 -- 322121
TCCTGGCTACTCCACCCGGATGGGTGCCACAAACACAGCTTGTACTGGCTAAACATCTCCTATCT
TTCCATTTGAAGGAGTCTATCCCACTGCTTAAGTATGACAAATGTCTGACACTACTATATCGGAC
GTAAAGTCTTGCCCGGCCTCACTGAGTGGATCTGGTGCCCACACCGTAGCTAGTCCTCTTAGCTT
TATTGGAGCAGGTGCCCAAGCTTCTTTGGCTAAAGCACATCTCCTGTCTGAACCCTTGACCTATT
TGAAAGACAAATGCACAAACCCAAATTGAAGAAAGAGATGCTCGAGTCTCTTACGCCATCCTAGG
CGGTTCTCCCGTAGCGTCTCCGCCGGCGACTTTCTAAGGTTCAGGGTTGTCTGCCTATCCTAGGT
GACCATCTTCGTCTACTACAACGAGGGGTGTGTGCCATAGAGTGTGGTACAGGTGTCACCAGTCC
CAGACAGATTTGTTTATGATCTCGTCAACTCGGAACTCATAGCTG
Right flanking sequence: Indices 322160 -- 322659
TAAAACAAGAGCTCTTTCACTCGGGCGACTTTTCTTATTGGGCAAGTTGCCACCCGTTGTTCAAT
ACCCTAACTATAGTAAGTAGCTTAATCTGTCGAGAAGAACCATCCCTACCGGATCGGACATGTAA
CCAGTCTTCTCCGCTTGAGAGGGAAAGACGGCTGCTCTGTGAACAAAACAACCCTAGTTGCTGGT
CCTGCTCCTGCTGCTGTCTGAACTGCCACCTCTGCTCCAATACATAAAGCAGCTCCAGCTTGAAG
CTATTGTAGCAGCTCTGTCCCATTCATCACTGCTTTCTGTTAAAAAGAAAAGAGCTGCTCCTCTC
CGATCTAAGTCCTCTCTCTAGTCAGAAATTGCGTAAGTTAATCAGGATGGATCGACAGGCTTTCC
AAACCTACAGGTCTCTTCCTCGGACCTAGCATTGCTGCCTGGCCCATCACTTCTTCTTTTCTTGA
CTTCGATGATTTGCCTGCAGGAGGATCATCGAAGGTTGGAGAAAA
Found at i:373277 original size:17 final size:17
Alignment explanation
Indices: 373255--373299 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
373245 TCGGGAAGAG
373255 AGGAAATCTGTCTTTAT
1 AGGAAATCTGTCTTTAT
* *
373272 AGGAAATTTATCTTTAT
1 AGGAAATCTGTCTTTAT
*
373289 AGGGAATCTGT
1 AGGAAATCTGT
373300 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 372755 -- 373254
CTTGGAGAACGCGAAGCCTTTTTTTCTCGGTCGTCCTTCTCTAGGTACAAAAAGGAATTTACGGG
ATATCTCCAAAATTCGATGTACTTCTTCAAGTGTGGGACACATCTCATGTTTGCCGAATCTAAAA
ACCATCGTCTTTGCATCCCAACACTTCACTGCGGCTATGATCGGATCCCAGTGTTGGTTCACTTT
TTATCCTCCACCAAATCTTCTGAGCTCCTGTTCTCAATGATGTTAAGCAGCTCTTGATCGCAGCA
ATCATGCCTTCGAAGGTACGCTTTTTTCATTCAACTGTGCTTGAAAGAGAGAGGATATGATATAA
GGTAAGCCCCAATTCCACTGAAAGATTCAATTCAGTCAGCTTGGCTTTTTCTCTAGTTTGCCTTT
TTGTCTACCTTCTTTAGTCAATGTCGCATTTCGAGTGCTTGGTTAGATCTCCTAATGGAGAAGAT
GCGGTGAATCAATCAGTATTAGCTAAGGAAAGCATTCGGGAAGAG
Right flanking sequence: Indices 373300 -- 373799
GCCCTTTGTTTGGGTCTGAAAGTGCAAGACTAGCTGGACCCGGACTGACTAATCGCTAAGAGCTC
GCCCCGAGTGCTAAGTACGGCATTCAGTAAGAAGTAAGCCAAGTTCAGTGATCCTCGAGAATAAA
CTATCAGGCGGAGGAAAGAACTGATGACTCACATCCCACAACACAAGAAGGATGGAAAGTCGTGG
AATTGATCGAAGTTAGCCAAGTTCTCTTAGCCGTTACGTTAGGGTGACTCGAGAAAGCTTGAAAG
AATAAGATACGTAGAGCGTGAACCAAGGTTCATAGGCGGATCAAAGTCGAATCTTGCAGATCCTA
GTTCGCTTTCTAATCGCTTTCGGGACCAGTCTTCAATGGCATGAAGCTTTAGTGGCATAGAATTG
GCTGCCTGATCGGACAGATGAAAGGAGAACTATCTGGTGAGGCATCTGGATTTGATTCGGGTCGG
TTAAAGCTTGAAAGGGAGTTCGTGGCCTACTAGGAGTTCTGTTTT
Found at i:385804 original size:15 final size:17
Alignment explanation
Indices: 385769--385805 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
385759 ACCGGTATCG
385769 TATAATATATATATATA
1 TATAATATATATATATA
385786 TATAATATATAT-TAT-
1 TATAATATATATATATA
385801 TATAA
1 TATAA
385806 AAGTCGCGGT
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TATAATATATATATATA
Left flanking sequence: Indices 385269 -- 385768
TGCCTCTATCATCTACGTCAATTTCTTCTTCAATAGATTCCCTCACTTCTGGCCCGAGAGAAAGT
AGGCCAAAAACGTGGGATGTAAAAAAAGGTGTATTCTAGGGCCAGGTGATGTCAGGTATACAGGA
TGAGTCTCACAGTCCCCACAGCCTCCACGCGAGAACGCATCCCCTTTTCCGTGATGATGCTTTGT
TAATCCTTTACTGGAAGTCTGCTTTTAAGAAAACCCTGCATAGAATAGGTCACATAAAGTGAAGG
CTGGTACCCGAATCAATCCACCATGCATAAGTAGAAAAGTAAAAAAAAAGCAACTTTTCAGAAAC
AAGGGCATAGTGATTGCCTTCCTTCACTCCTTAAAAAACCGAAGCTTTGAACTAAATATCGTACA
ATCCTTTTTTATAGTTGCAAAGCATAGCGAGAGAAAAAGAACAAGAAAGTTGACCGTGACGGTCG
TAGCTCTATCAAGTAGGTACGCTAAACACTCATAGACCGGTATCG
Right flanking sequence: Indices 385806 -- 386305
AAGTCGCGGTGGAATCCATTGCGATCTTGGGCATCGCCAAAGAAGGGTGTTCTCAGCGCCTATGC
TTAACACGGCTCCCATGATAGTAGCAGAAAACGAGTTGTGCTGGTGATGTGATCGGACCATTTCC
CCCCGGGAAATACGGTCACAAGTTCATACTTTCTTTTTTACTAGTAATTTTTTACTATAGTAAGT
CAAGATCAGAGCAGGCACAACGACGCAATTCTCAGGGGCGTGTCTGGTGCTATCGAGAAAGGTTG
GGTTGCATTTAGGAAGGATCTTTCTCTTTAACTAGAAATATCTTAAGATAAGAAAGCGTAAAAAA
GAAAGGTTTTGATTCGACCTGATTAAACAAAGAAAAAAAAGCTTTCTCCGCGTCAGGCTGTTGAT
GTAGTTGCTTGTACTTTTCATTTTATGTCGAGATTTAGTTGGTGTTCAGTGTACCTGTTGAAGAC
CTTAACGTAAGGAACTTAGTGCAAAAGTGGCGGAGATCCACAAAG
Found at i:386639 original size:21 final size:21
Alignment explanation
Indices: 386615--386664 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
386605 TATACCTATC
386615 AATGATCCCCCTTTCAATCCA
1 AATGATCCCCCTTTCAATCCA
386636 AATGATCCCCCTTTCAATCCA
1 AATGATCCCCCTTTCAATCCA
386657 AATGATCC
1 AATGATCC
386665 GCAACCTAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.36, G:0.06, T:0.28
Consensus pattern (21 bp):
AATGATCCCCCTTTCAATCCA
Left flanking sequence: Indices 386115 -- 386614
AAGAAAGCGTAAAAAAGAAAGGTTTTGATTCGACCTGATTAAACAAAGAAAAAAAAGCTTTCTCC
GCGTCAGGCTGTTGATGTAGTTGCTTGTACTTTTCATTTTATGTCGAGATTTAGTTGGTGTTCAG
TGTACCTGTTGAAGACCTTAACGTAAGGAACTTAGTGCAAAAGTGGCGGAGATCCACAAAGGTAA
CCGGATGCCTGGGGCTTAGGACAAGGAGCGTCCGGAGTCTCTTAAGAAAGGAAAGAAAAAAAGTT
ATCATGAAGATACCTAGGTTCCGTCACATTTTCTATCAAATATTTCATTCTATGATCATCTTCTT
CTTAGGTAGACCACTCGTTAGGCTTGGGTTCGCTTACTTTTATTTGCTTTTTTGGAATTGGCTTT
TGGTAAACGCACCTTTTGCTGACATCGATCTTATGCATTTTTTTTCGGACTCTTTGGCCGTGAAC
TCTGGCTCGATCGCCGATTCCAATTCGATTCATAATATACCTATC
Right flanking sequence: Indices 386665 -- 387164
GCAACCTAACAATAATGTAGTACCTCTCGACGTTGTCGATCAATTTCGTATACTCAACCAAGAGA
CGGAATTAGAACTCTTTGCTCGGATACGACTTCTAGAGAACCGGTTGATTGACGGCTTGCCACCG
CAAATGAACTTTGGCGAGTACGAAGCCTTAGTCAGAGGGTTTCTCGATGACACCCTGACCATTGG
ACACTACCGTAATGTCCTGAGCAATGAGCTCTTTGATCTTCGCCTGTTAGAGTTTAAGGCGAATC
TCTTAGAGCAACTCGTCAATTTGTTAATGAGCGAAACAACTGAGCGGCTCACTCAAATATTGGCA
GACTCGCCCTTTCGAGAGGGGTCCATAAGGACCGAAGCTCTTTCATTTATCAACGACTTTATGAG
TCGTTTAAATCTGAATGACCCACACTCCCCTTTTGATAAAGGGTTGGTGGAAGCTATGCTGCGGT
ACTGGATCCAAGATGCCCAGCAAAACGGGAATCTCTCCGCCGTGT
Found at i:392705 original size:8 final size:8
Alignment explanation
Indices: 392692--392731 Score: 53
Period size: 8 Copynumber: 4.6 Consensus size: 8
392682 TAGTTTATAG
392692 ATATAATT
1 ATATAATT
392700 ATATAATT
1 ATATAATT
392708 ATATATCTATT
1 ATATA---ATT
392719 ATATAATT
1 ATATAATT
392727 ATATA
1 ATATA
392732 TCTATTATTT
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:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (8 bp):
ATATAATT
Left flanking sequence: Indices 392192 -- 392691
CGGCCCAAGCGAAGATCTTCGATCCGAATCTTCGCATCTACTCTCTCTTAGAGGATGAACTACGC
CTTCGCTATCGCAAGAATATAGCGATCGAAGAGAGCTATCGCTCAGCTGCTTCGCGTATTACTCA
CGAAAGCCGTATTGCCCGAAGGGGGCATGCCGCAAGAGCGTAGGAGGCGTGCCCGAAGGGCAGCG
GAAGCTGTGCGGTTCCAGGTGCCGTCGCTAGATTGAGATCTGCAGGGTGGCGAGGACTTCGACTG
CCTTGTATCGGGTGCAGAGAAGGGGGTGGTAGGCTTAGTAGGGCTCGAACCTACAATATAACCGT
TATGAGCGGTACGTTTCAACCAATTAAACTATAAGCCCCTGCGGATCTCTACATGCAATTCGCCC
ACTTCGGGAAGAGCGGACGGAAGGAAAGAGGAGGCCTTTGCTCTATCTGCTTCTTCCTCTTCCCG
GGAATGAACAATTGGATAAAAAAAACGGATTTTCTTAGTTTATAG
Right flanking sequence: Indices 392732 -- 393231
TCTATTATTTTATATAAAATAAATTTTTTAAGCAAGCGGCCCCTTCGCGACTCAAACGGGCGGGG
GCGCTTTGTTTGCTTGCAATGCCTGCAGTTCGCCTTTAGTTAGAAGTATAAGTAGAGGGCACCCT
TTGCCCCACACTTCAGAAAAGGTAAAAAAGTATGGATTAAGTAAGAAAAAGTACATAACATAAGG
AGTGAGAAAGAAAAACTTGGTTACGGGAACCGAAGGTTAGGCCGACTACTTACTTTAGTATAGCT
ACACCTAAAAAAGTTTATTCCTACCCCCTTTTCTTCCCCTTTCTGTCAATGTTGCCAATTCTCAG
AATACTTATAATGTACCCTCGCGCATACAATTGCCCAACAACTTTCTTCCTCCGACTTCTTTAGC
CACTTCCGCATCTGTCGTCTTCGGGATCGGGAGAGCTTGCTTCGTGGCGGAGCATTTAGCAATTC
CAGCAGCCTGGTGAGGGCTGGCTGTCTGGGGACAGGTTAAGGCTG
Found at i:392721 original size:19 final size:19
Alignment explanation
Indices: 392697--392739 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
392687 TATAGATATA
392697 ATTATATAATTATATATCT
1 ATTATATAATTATATATCT
392716 ATTATATAATTATATATCT
1 ATTATATAATTATATATCT
392735 ATTAT
1 ATTAT
392740 TTTATATAAA
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:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTATATAATTATATATCT
Left flanking sequence: Indices 392197 -- 392696
CAAGCGAAGATCTTCGATCCGAATCTTCGCATCTACTCTCTCTTAGAGGATGAACTACGCCTTCG
CTATCGCAAGAATATAGCGATCGAAGAGAGCTATCGCTCAGCTGCTTCGCGTATTACTCACGAAA
GCCGTATTGCCCGAAGGGGGCATGCCGCAAGAGCGTAGGAGGCGTGCCCGAAGGGCAGCGGAAGC
TGTGCGGTTCCAGGTGCCGTCGCTAGATTGAGATCTGCAGGGTGGCGAGGACTTCGACTGCCTTG
TATCGGGTGCAGAGAAGGGGGTGGTAGGCTTAGTAGGGCTCGAACCTACAATATAACCGTTATGA
GCGGTACGTTTCAACCAATTAAACTATAAGCCCCTGCGGATCTCTACATGCAATTCGCCCACTTC
GGGAAGAGCGGACGGAAGGAAAGAGGAGGCCTTTGCTCTATCTGCTTCTTCCTCTTCCCGGGAAT
GAACAATTGGATAAAAAAAACGGATTTTCTTAGTTTATAGATATA
Right flanking sequence: Indices 392740 -- 393239
TTTATATAAAATAAATTTTTTAAGCAAGCGGCCCCTTCGCGACTCAAACGGGCGGGGGCGCTTTG
TTTGCTTGCAATGCCTGCAGTTCGCCTTTAGTTAGAAGTATAAGTAGAGGGCACCCTTTGCCCCA
CACTTCAGAAAAGGTAAAAAAGTATGGATTAAGTAAGAAAAAGTACATAACATAAGGAGTGAGAA
AGAAAAACTTGGTTACGGGAACCGAAGGTTAGGCCGACTACTTACTTTAGTATAGCTACACCTAA
AAAAGTTTATTCCTACCCCCTTTTCTTCCCCTTTCTGTCAATGTTGCCAATTCTCAGAATACTTA
TAATGTACCCTCGCGCATACAATTGCCCAACAACTTTCTTCCTCCGACTTCTTTAGCCACTTCCG
CATCTGTCGTCTTCGGGATCGGGAGAGCTTGCTTCGTGGCGGAGCATTTAGCAATTCCAGCAGCC
TGGTGAGGGCTGGCTGTCTGGGGACAGGTTAAGGCTGGGCCTGCT
Done.