Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 54 of 161
Found at i:16882029 original size:81 final size:80
Alignment explanation
Indices: 16881889--16882057 Score: 295
Period size: 81 Copynumber: 2.1 Consensus size: 80
16881879 CTGTGTCGTA
* *
16881889 GGCCGT-TGCCAGACCGTGTGAATCCGCACTAGAAACTTAAAAGACACACAGTTGTGCGAACAAA
1 GGCCGTGTGCCAGACCATGTGAACCCGCACTAGAAACTTAAAAGACACACAGTTGTGCGAACAAA
16881953 TCGTGTGTGACACAC
66 TCGTGTGTGACACAC
*
16881968 GGCTGTGTGCCAGACCATGTGAAACCCGCACTAGAAACTTAAAAGACACACAGTTGTGCGAACAA
1 GGCCGTGTGCCAGACCATGTG-AACCCGCACTAGAAACTTAAAAGACACACAGTTGTGCGAACAA
16882033 ATCGTGTGTGACACAC
65 ATCGTGTGTGACACAC
16882049 GGCCGTGTG
1 GGCCGTGTG
16882058 ACAACCCATG
Statistics
Matches: 84, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
79 5 0.06
80 13 0.15
81 66 0.79
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.19
Consensus pattern (80 bp):
GGCCGTGTGCCAGACCATGTGAACCCGCACTAGAAACTTAAAAGACACACAGTTGTGCGAACAAA
TCGTGTGTGACACAC
Found at i:16882710 original size:38 final size:38
Alignment explanation
Indices: 16882667--16882934 Score: 281
Period size: 38 Copynumber: 7.1 Consensus size: 38
16882657 GACACAAAGT
* *
16882667 CTGCTAGGCGCTAAGCTTGAATAACACCGGCACTGAGC
1 CTGCTAGGCACTAAGCCTGAATAACACCGGCACTGAGC
* *
16882705 TTGCTAGGCACTAAGCCTGAATAACACCGGAAC-GAAGC
1 CTGCTAGGCACTAAGCCTGAATAACACCGGCACTG-AGC
* * * *
16882743 CTGCTAGGCCCTAAGCTTGAATAACACCTGCTC-GAAGC
1 CTGCTAGGCACTAAGCCTGAATAACACCGGCACTG-AGC
* *
16882781 CTGCTAGCCACTAAGCCTGAATAACACTGGCACTGAGC
1 CTGCTAGGCACTAAGCCTGAATAACACCGGCACTGAGC
** * * **
16882819 CTGCTAACCACTAAGCCTAAATAGCACCGGCACAAAGC
1 CTGCTAGGCACTAAGCCTGAATAACACCGGCACTGAGC
* * * *
16882857 CTGCTAAGCACTAAGTCTGAATAACATCGGCA-TAAAGC
1 CTGCTAGGCACTAAGCCTGAATAACACCGGCACT-GAGC
* * *
16882895 CTGCTAGCCACTAAGCCTGAATAACACTGGCACTAAGC
1 CTGCTAGGCACTAAGCCTGAATAACACCGGCACTGAGC
16882933 CT
1 CT
16882935 AAATAACACC
Statistics
Matches: 193, Mismatches: 33, Indels: 8
0.82 0.14 0.03
Matches are distributed among these distances:
37 1 0.01
38 190 0.98
39 2 0.01
ACGTcount: A:0.31, C:0.30, G:0.21, T:0.18
Consensus pattern (38 bp):
CTGCTAGGCACTAAGCCTGAATAACACCGGCACTGAGC
Found at i:16882871 original size:114 final size:114
Alignment explanation
Indices: 16882662--16882934 Score: 352
Period size: 114 Copynumber: 2.4 Consensus size: 114
16882652 ACACTGACAC
* * * * * * ** *
16882662 AAAGTCTGCTAGGCGCTAAGCTTGAATAACACCGGCACTGAGCTTGCTAGGCACTAAGCCTGAAT
1 AAAGCCTGCTAGCCACTAAGCCTGAATAACACTGGCACTGAGCCTGCTAACCACTAAGCCTAAAT
* * * *
16882727 AACACCGGAACGAAGCCTGCTAGGCCCTAAG-CTTGAATAACACCTGC-T
66 AACACCGGAACAAAGCCTGCTAAGCACTAAGTC-TGAATAACACCGGCAT
*
16882775 CGAAGCCTGCTAGCCACTAAGCCTGAATAACACTGGCACTGAGCCTGCTAACCACTAAGCCTAAA
1 -AAAGCCTGCTAGCCACTAAGCCTGAATAACACTGGCACTGAGCCTGCTAACCACTAAGCCTAAA
* * *
16882840 TAGCACCGGCACAAAGCCTGCTAAGCACTAAGTCTGAATAACATCGGCAT
65 TAACACCGGAACAAAGCCTGCTAAGCACTAAGTCTGAATAACACCGGCAT
*
16882890 AAAGCCTGCTAGCCACTAAGCCTGAATAACACTGGCACTAAGCCT
1 AAAGCCTGCTAGCCACTAAGCCTGAATAACACTGGCACTGAGCCT
16882935 AAATAACACC
Statistics
Matches: 138, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
114 136 0.99
115 2 0.01
ACGTcount: A:0.32, C:0.29, G:0.21, T:0.18
Consensus pattern (114 bp):
AAAGCCTGCTAGCCACTAAGCCTGAATAACACTGGCACTGAGCCTGCTAACCACTAAGCCTAAAT
AACACCGGAACAAAGCCTGCTAAGCACTAAGTCTGAATAACACCGGCAT
Found at i:16889297 original size:38 final size:37
Alignment explanation
Indices: 16889241--16889461 Score: 183
Period size: 38 Copynumber: 5.8 Consensus size: 37
16889231 ACCAGCAAAA
* **
16889241 AGCCTGCTTGGCGTTAAGCCTGAATAACACCAGTGC-CG
1 AGCCTGCTAGGCACTAAGCCTGAATAACACC-G-GCACG
* * * **
16889279 AGCCTGCTAGGAACTAAGCCTAAATTACACCGGCAAAA
1 AGCCTGCTAGGCACTAAGCCTGAATAACACCGGC-ACG
* *
16889317 AGCCTACTAGGCACTAATCCTGAATAACACCGGCACG
1 AGCCTGCTAGGCACTAAGCCTGAATAACACCGGCACG
* * ** **
16889354 AAGCCTGCTAGGCACTAAGCTTGAGTAACATTGGCATAA
1 -AGCCTGCTAGGCACTAAGCCTGAATAACACCGGCA-CG
* * * *
16889393 AGCCTTCTAGGCATTAAGCCTGAATAACATCGGCACAA
1 AGCCTGCTAGGCACTAAGCCTGAATAACACCGGCAC-G
* *
16889431 AGCCTGCTAGGCATTAAGCTTGAATAACACC
1 AGCCTGCTAGGCACTAAGCCTGAATAACACC
16889462 TAATTCGAAT
Statistics
Matches: 146, Mismatches: 32, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
36 2 0.01
37 2 0.01
38 142 0.97
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.20
Consensus pattern (37 bp):
AGCCTGCTAGGCACTAAGCCTGAATAACACCGGCACG
Found at i:16889442 original size:76 final size:75
Alignment explanation
Indices: 16889229--16889461 Score: 261
Period size: 76 Copynumber: 3.1 Consensus size: 75
16889219 ACAACTTGGT
* * * * * *
16889229 ACACCAGCAAAAAGCCTGCTTGGCGTTAAGCCTGAATAACACCAGTGC-CGAGCCTGCTAGGAAC
1 ACACCGGCAAAAAGCCTACTAGGCATTAAGCCTGAATAACACC-G-GCACAAGCCTGCTAGGCAC
* * *
16889293 TAAGCCTAAATT
64 TAAGCTTGAATA
* *
16889305 ACACCGGCAAAAAGCCTACTAGGCACTAATCCTGAATAACACCGGCACGAAGCCTGCTAGGCACT
1 ACACCGGCAAAAAGCCTACTAGGCATTAAGCCTGAATAACACCGGCAC-AAGCCTGCTAGGCACT
*
16889370 AAGCTTGAGTA
65 AAGCTTGAATA
** * * * *
16889381 ACATTGGCATAAAGCCTTCTAGGCATTAAGCCTGAATAACATCGGCACAAAGCCTGCTAGGCATT
1 ACACCGGCAAAAAGCCTACTAGGCATTAAGCCTGAATAACACCGGCAC-AAGCCTGCTAGGCACT
16889446 AAGCTTGAATA
65 AAGCTTGAATA
16889457 ACACC
1 ACACC
16889462 TAATTCGAAT
Statistics
Matches: 131, Mismatches: 24, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
74 2 0.02
75 2 0.02
76 127 0.97
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.19
Consensus pattern (75 bp):
ACACCGGCAAAAAGCCTACTAGGCATTAAGCCTGAATAACACCGGCACAAGCCTGCTAGGCACTA
AGCTTGAATA
Found at i:16894244 original size:153 final size:153
Alignment explanation
Indices: 16893966--16894279 Score: 592
Period size: 153 Copynumber: 2.1 Consensus size: 153
16893956 TACCATTTTT
16893966 CTATTATTTAGATGATAAATTGAAGTGATGGTTTTTCATCTAAATTTACTAATCTAATTTAACTA
1 CTATTATTTAGATGATAAATTGAAGTGATGGTTTTTCATCTAAATTTACTAATCTAATTTAACTA
*
16894031 CAAACGCAACAGAGAGTGAAATGGGAAAATAATAGAGAACAACCAATGAGAAAGACAATACCCAG
66 CAAACGCAACAGAGAATGAAATGGGAAAATAATAGAGAACAACCAATGAGAAAGACAATACCCAG
16894096 GAAAGAATCCACCTAGACTTCAC
131 GAAAGAATCCACCTAGACTTCAC
* *
16894119 CTATTATTTAGCTGATAAATTGAAGTGATGGTTTTTCATCTAAATTTACTAATCTAATTTAGCTA
1 CTATTATTTAGATGATAAATTGAAGTGATGGTTTTTCATCTAAATTTACTAATCTAATTTAACTA
*
16894184 CAAACGCAACAGAGAATGAAATGGGAAAATAATAGAGAACAACCAATGGGAAAGACAATACCCAG
66 CAAACGCAACAGAGAATGAAATGGGAAAATAATAGAGAACAACCAATGAGAAAGACAATACCCAG
16894249 GAAAGAATCCACCTAGACTTCAC
131 GAAAGAATCCACCTAGACTTCAC
16894272 CTATTATT
1 CTATTATT
16894280 CTGAATATGA
Statistics
Matches: 157, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
153 157 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (153 bp):
CTATTATTTAGATGATAAATTGAAGTGATGGTTTTTCATCTAAATTTACTAATCTAATTTAACTA
CAAACGCAACAGAGAATGAAATGGGAAAATAATAGAGAACAACCAATGAGAAAGACAATACCCAG
GAAAGAATCCACCTAGACTTCAC
Found at i:16905434 original size:36 final size:35
Alignment explanation
Indices: 16905394--16905486 Score: 98
Period size: 36 Copynumber: 2.5 Consensus size: 35
16905384 TATATGTGTG
* *
16905394 GAATTGAAATGAATAT-TGACTTGAAAATGGAAAAGT
1 GAATTGAATTGAAT-TGTGA-TTGAAAATGAAAAAGT
*
16905430 GAATTTTGAATTGAATTGTGATTGAAAGTGAAAAAGT
1 GAA--TTGAATTGAATTGTGATTGAAAATGAAAAAGT
*
16905467 GAAATTGAATTGAAATGTGA
1 G-AATTGAATTGAATTGTGA
16905487 ATTTGGAGAC
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
36 18 0.37
37 16 0.33
38 15 0.31
ACGTcount: A:0.44, C:0.01, G:0.24, T:0.31
Consensus pattern (35 bp):
GAATTGAATTGAATTGTGATTGAAAATGAAAAAGT
Found at i:16907304 original size:5 final size:5
Alignment explanation
Indices: 16907294--16907328 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
16907284 AGGGACGAAG
16907294 TGGGA TGGGA TGGGA TGGGA TGGGA TGGGA TGGGA
1 TGGGA TGGGA TGGGA TGGGA TGGGA TGGGA TGGGA
16907329 GGGTTTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.20, C:0.00, G:0.60, T:0.20
Consensus pattern (5 bp):
TGGGA
Found at i:16907403 original size:19 final size:21
Alignment explanation
Indices: 16907364--16907405 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
16907354 TAATATAAAA
16907364 TTTAAAATTATTATATATATT
1 TTTAAAATTATTATATATATT
*
16907385 TTTAAAA-TATT-TATGTATT
1 TTTAAAATTATTATATATATT
16907404 TT
1 TT
16907406 ATATATTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
20 4 0.20
21 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTAAAATTATTATATATATT
Found at i:16917160 original size:22 final size:21
Alignment explanation
Indices: 16917135--16917180 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
16917125 GATTAATGAG
*
16917135 AAATTTT-AAGAAAATTTAATTA
1 AAATTTTCAA-AAAAATT-ATTA
16917157 AAATTTTCAAAAAAATTATTA
1 AAATTTTCAAAAAAATTATTA
16917178 AAA
1 AAA
16917181 GGTATAATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
22 13 0.59
23 2 0.09
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
AAATTTTCAAAAAAATTATTA
Found at i:16917670 original size:14 final size:14
Alignment explanation
Indices: 16917651--16917726 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 14
16917641 ACGTATTCTG
16917651 AATATATATTTTAA
1 AATATATATTTTAA
* *
16917665 AATATATAATTAAA
1 AATATATATTTTAA
*
16917679 AATATATA-ATTAA
1 AATATATATTTTAA
16917692 AATA-A-ATTTCTAA
1 AATATATATTT-TAA
* *
16917705 AAT-TTTATTTTTAT
1 AATATATA-TTTTAA
16917719 AATATATA
1 AATATATA
16917727 AATTATATAA
Statistics
Matches: 48, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
11 1 0.02
12 2 0.04
13 13 0.27
14 26 0.54
15 6 0.12
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (14 bp):
AATATATATTTTAA
Found at i:16918638 original size:18 final size:18
Alignment explanation
Indices: 16918617--16918656 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
16918607 GAAATATTTA
*
16918617 TTTTGATGT-TTTTAGTAT
1 TTTTGATGTATTATA-TAT
16918635 TTTTGATGTATTATATAT
1 TTTTGATGTATTATATAT
16918653 TTTT
1 TTTT
16918657 AAAATTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTTGATGTATTATATAT
Found at i:16918687 original size:12 final size:12
Alignment explanation
Indices: 16918657--16918690 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
16918647 ATATATTTTT
16918657 AAAATT-ATATA
1 AAAATTAATATA
16918668 AAAA-TAATATA
1 AAAATTAATATA
16918679 AAAATTAATATA
1 AAAATTAATATA
16918691 GGCGAGCCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 13 0.62
12 7 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:16919346 original size:183 final size:185
Alignment explanation
Indices: 16919138--16919499 Score: 469
Period size: 183 Copynumber: 1.9 Consensus size: 185
16919128 ACAATGACTT
* * * *
16919138 TTTTTTATTAGTATAATAATAAATTTAACCATCCAATATTTATACATTCTATCAATTAGTCCTAA
1 TTTTTTATTAGCATAATAATAAATTTAACCATCCAACATTTATAAATTCTATCAATCAGTCCTAA
* *
16919203 ATCTAAAAATCCAAATAAATTAGCCTACAACTTTACACATTCTGTCAATTTGATTCTTAAAAATA
66 ATCTAAAAATCCAAATAAATTAGCCTACAACTTTACACATTCTATCAATCTGATTCTTAAAAA-A
* *
16919268 AA-AAAAAAGTAAAAAAAA-TTAGAAGTTA-TTTTTTGATAAAAAGAACAATTACC
130 AATAAAAAAGTAAAAAAAATTTAAAAGATATTTTTTTGATAAAAAGAACAATTACC
* * * * * *
16919321 TTTTTTATTGGCATAATAATAAATTTATCCCTTCAACATTTATAAATTCTATTAGTCAGTCCTAA
1 TTTTTTATTAGCATAATAATAAATTTAACCATCCAACATTTATAAATTCTATCAATCAGTCCTAA
* * * * * *
16919386 ATCTTAAAATTCAAATAATTTAGCTTGCAACTTTACATATTCTATCAATCTGATTCTTAAAAAAA
66 ATCTAAAAATCCAAATAAATTAGCCTACAACTTTACACATTCTATCAATCTGATTCTTAAAAAAA
16919451 ACTTTAAAAAAGTAAAAAAAATGTTTAAAAGATATTTTTTTGATAAAAA
131 A---TAAAAAAGTAAAAAAAA--TTTAAAAGATATTTTTTTGATAAAAA
16919500 TACATAATAT
Statistics
Matches: 151, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
182 3 0.02
183 110 0.73
186 16 0.11
189 8 0.05
190 14 0.09
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (185 bp):
TTTTTTATTAGCATAATAATAAATTTAACCATCCAACATTTATAAATTCTATCAATCAGTCCTAA
ATCTAAAAATCCAAATAAATTAGCCTACAACTTTACACATTCTATCAATCTGATTCTTAAAAAAA
ATAAAAAAGTAAAAAAAATTTAAAAGATATTTTTTTGATAAAAAGAACAATTACC
Found at i:16919611 original size:20 final size:20
Alignment explanation
Indices: 16919586--16919640 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
16919576 TCTAACATGA
* *
16919586 AATTTATTTATTAAAATAAT
1 AATTTATTAAATAAAATAAT
16919606 AATTTA-TAAATAAAATAAT
1 AATTTATTAAATAAAATAAT
16919625 AATCTTA-TAAATAAAA
1 AAT-TTATTAAATAAAA
16919641 CAATTTAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 14 0.44
20 18 0.56
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
AATTTATTAAATAAAATAAT
Found at i:16919612 original size:16 final size:17
Alignment explanation
Indices: 16919591--16919633 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 17
16919581 CATGAAATTT
16919591 ATTTAT-TAAAATAATA
1 ATTTATATAAAATAATA
16919607 ATTTATAAATAAAATAATA
1 ATTTAT--ATAAAATAATA
16919626 ATCTTATA
1 AT-TTATA
16919634 AATAAAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 6 0.26
18 1 0.04
19 12 0.52
20 4 0.17
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTTATATAAAATAATA
Found at i:16919621 original size:19 final size:20
Alignment explanation
Indices: 16919597--16919640 Score: 81
Period size: 19 Copynumber: 2.2 Consensus size: 20
16919587 ATTTATTTAT
16919597 TAAAATAATAAT-TTATAAA
1 TAAAATAATAATCTTATAAA
16919616 TAAAATAATAATCTTATAAA
1 TAAAATAATAATCTTATAAA
16919636 TAAAA
1 TAAAA
16919641 CAATTTAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
TAAAATAATAATCTTATAAA
Found at i:16921926 original size:17 final size:17
Alignment explanation
Indices: 16921904--16921962 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
16921894 AAATTTGTTA
16921904 TTGAAATTGAATTTAAG
1 TTGAAATTGAATTTAAG
* *
16921921 TTGAAATGTAAATTTGCA-
1 TTGAAAT-TGAATTT-AAG
* *
16921939 CTGAAATTGAATTTATG
1 TTGAAATTGAATTTAAG
16921956 TTGAAAT
1 TTGAAAT
16921963 GAAATCTTCT
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
17 19 0.59
18 12 0.38
19 1 0.03
ACGTcount: A:0.39, C:0.03, G:0.17, T:0.41
Consensus pattern (17 bp):
TTGAAATTGAATTTAAG
Found at i:16924088 original size:226 final size:226
Alignment explanation
Indices: 16923694--16924143 Score: 740
Period size: 226 Copynumber: 2.0 Consensus size: 226
16923684 CGTTCTCCGC
* * *
16923694 ATATGATCCTATTTTATCTCAAGATAACCAGTACATTTTCCTTCATGAAAAGTCAATTGCTATCA
1 ATATGATCCTATTTTATCTCAAGATAACCACTACATCTTCCTTCATGAAAAGTCAATTACTATCA
* *
16923759 AATAATAATCAAATCATTCATCACATAAATAAGTGACCCGTGGCCACGTTTACTTTTCATCAACC
66 AATAATAATCAAATCATTCATCACATAAAGAAGCGACCCGTGGCCACGTTTACTTTTCATCAACC
* *
16923824 ATGTAATGCCAATGAGAAGATATCATTTACCCATTTCTTGGGCTATGAATTCCACTGTTATGAAT
131 ATGTAATGCCAATGAGAAGATATCATTTACCCATTTCTTGGGCTATAAATTCCACTATTATGAAT
16923889 GACGCTACATACTGCAGAAGTCGTATACCAA
196 GACGCTACATACTGCAGAAGTCGTATACCAA
* * * * *
16923920 ATATGATCTTATTTTATCTTATGGTATCCACTACATCTTCCTTCATGAAAAGTCAATTACTATCA
1 ATATGATCCTATTTTATCTCAAGATAACCACTACATCTTCCTTCATGAAAAGTCAATTACTATCA
* *
16923985 AATAGTAATCAAGTCATTCATCACATAAACGAA-CGACCCGTGGCCACGTTTACTTTTCATCAAC
66 AATAATAATCAAATCATTCATCACATAAA-GAAGCGACCCGTGGCCACGTTTACTTTTCATCAAC
*
16924049 CATGTAATGCCAATGAGAGGATATCATTTACCCATTTCTTGGGCTATAAATTCCACTATTATGAA
130 CATGTAATGCCAATGAGAAGATATCATTTACCCATTTCTTGGGCTATAAATTCCACTATTATGAA
*
16924114 TGACGTTACATACTGCAGAAGTCGTATACC
195 TGACGCTACATACTGCAGAAGTCGTATACC
16924144 CAATTCATGC
Statistics
Matches: 207, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
226 205 0.99
227 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (226 bp):
ATATGATCCTATTTTATCTCAAGATAACCACTACATCTTCCTTCATGAAAAGTCAATTACTATCA
AATAATAATCAAATCATTCATCACATAAAGAAGCGACCCGTGGCCACGTTTACTTTTCATCAACC
ATGTAATGCCAATGAGAAGATATCATTTACCCATTTCTTGGGCTATAAATTCCACTATTATGAAT
GACGCTACATACTGCAGAAGTCGTATACCAA
Found at i:16929368 original size:26 final size:26
Alignment explanation
Indices: 16929332--16929383 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
16929322 CCCTCACATC
* *
16929332 AATATTGCAGCATAGCTACCAGTAGT
1 AATAATGCAGCAGAGCTACCAGTAGT
* *
16929358 AATAATGCAGCAGAGCTGCTAGTAGT
1 AATAATGCAGCAGAGCTACCAGTAGT
16929384 CAGAATGGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (26 bp):
AATAATGCAGCAGAGCTACCAGTAGT
Found at i:16929390 original size:26 final size:26
Alignment explanation
Indices: 16929337--16929390 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
16929327 ACATCAATAT
* *
16929337 TGCAGCATAGCTACCAGTAGTAATAA
1 TGCAGCAGAGCTACCAGTAGTAAGAA
* * *
16929363 TGCAGCAGAGCTGCTAGTAGTCAGAA
1 TGCAGCAGAGCTACCAGTAGTAAGAA
16929389 TG
1 TG
16929391 GCTAAGAGTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (26 bp):
TGCAGCAGAGCTACCAGTAGTAAGAA
Found at i:16929508 original size:32 final size:32
Alignment explanation
Indices: 16929441--16929657 Score: 126
Period size: 32 Copynumber: 7.0 Consensus size: 32
16929431 AATGGCTACA
* * * *
16929441 AGCCATAAGT-ACAGTAATGTGATTGACACAA
1 AGCCATCAGTAACAGTAATATGATCGACACAC
* * *
16929472 AGCCATTAGTAGCAGTGATATGATCGACACAC
1 AGCCATCAGTAACAGTAATATGATCGACACAC
* * * *
16929504 AGCCATCAATAACGGTAACATGATCG--GCAC
1 AGCCATCAGTAACAGTAATATGATCGACACAC
** * *
16929534 A---ATCAGTAGTAGTGATATGATCGGCACAC
1 AGCCATCAGTAACAGTAATATGATCGACACAC
* * * * *
16929563 AGCCATTAATAACAGTGACATGAAT-GGCACAC
1 AGCCATCAGTAACAGTAATATG-ATCGACACAC
* * * * *
16929595 AACCATCGGTAACAGTAAGATGATCGATACAA
1 AGCCATCAGTAACAGTAATATGATCGACACAC
*
16929627 AGCCATCAGTAAC-GATACTATGATCGACACA
1 AGCCATCAGTAACAG-TAATATGATCGACACA
16929658 AAACCATTAG
Statistics
Matches: 138, Mismatches: 39, Indels: 17
0.71 0.20 0.09
Matches are distributed among these distances:
27 16 0.12
29 4 0.03
30 4 0.03
31 12 0.09
32 100 0.72
33 2 0.01
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (32 bp):
AGCCATCAGTAACAGTAATATGATCGACACAC
Found at i:16929548 original size:59 final size:59
Alignment explanation
Indices: 16929479--16929593 Score: 169
Period size: 59 Copynumber: 1.9 Consensus size: 59
16929469 CAAAGCCATT
*
16929479 AGTAGCAGTGATATGATCGACACACAGCCATCAATAACGGTAACATG-ATCGGCACAATC
1 AGTAGCAGTGATATGATCGACACACAGCCATCAATAACAGTAACATGAAT-GGCACAATC
* * * *
16929538 AGTAGTAGTGATATGATCGGCACACAGCCATTAATAACAGTGACATGAATGGCACA
1 AGTAGCAGTGATATGATCGACACACAGCCATCAATAACAGTAACATGAATGGCACA
16929594 CAACCATCGG
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
59 48 0.96
60 2 0.04
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (59 bp):
AGTAGCAGTGATATGATCGACACACAGCCATCAATAACAGTAACATGAATGGCACAATC
Found at i:16929955 original size:27 final size:27
Alignment explanation
Indices: 16929902--16929983 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 27
16929892 GGCAAAAATA
16929902 GTCA-TTTACCC-ACCA-GGGCATTACG
1 GTCATTTTACCCTA-CAGGGGCATTACG
16929927 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * * *
16929954 GTTATTTTACTCTAAAGGGGTATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
16929981 GTC
1 GTC
16929984 CAGATATCAA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
25 4 0.08
26 9 0.19
27 35 0.73
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:16934241 original size:145 final size:143
Alignment explanation
Indices: 16933965--16934252 Score: 418
Period size: 145 Copynumber: 2.0 Consensus size: 143
16933955 TAATTTTAAG
* * *
16933965 CTAAAACCCCTAGACTCAGCTTGCAATAGACCTTCGGAATAAGTACCTTCAATACACCAACTCAT
1 CTAAAAACCCTAGACTCAGCTTGCAATAGACCTTCGAAATAAATACCTTCAATACACCAACTCAT
* *
16934030 TTTGCTTTCATATGCTCTTTTATACAACTAATTTCTTTTGAGTACATATGCTCTTTCTTTTCTTT
66 TTTACTTTCACATGCTCTTTTATACAACTAATTTCTTTTGAGTACATATGCTCTTTC-TTT-TTT
16934095 TTTTAACACGAGCAT
129 TTTTAACACGAGCAT
* * **
16934110 CTAAAAACCCTAGACTCAGCTTGC-ATCGGACCTTCGAAATAAATACCTTTAATGTACCAACTCA
1 CTAAAAACCCTAGACTCAGCTTGCAAT-AGACCTTCGAAATAAATACCTTCAATACACCAACTCA
* * *
16934174 TTTTACTTTCACATGCTCTTTTGTACATCT-ATTTCTTTTGCGTACATATGCTCTTTCTTTCTTT
65 TTTTACTTTCACATGCTCTTTTATACAACTAATTTCTTTTGAGTACATATGCTCTTTCTTT-TTT
16934238 TTTTAACACGAGCAT
129 TTTTAACACGAGCAT
16934253 TTGACTGTAT
Statistics
Matches: 130, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
143 22 0.17
144 28 0.22
145 80 0.62
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.39
Consensus pattern (143 bp):
CTAAAAACCCTAGACTCAGCTTGCAATAGACCTTCGAAATAAATACCTTCAATACACCAACTCAT
TTTACTTTCACATGCTCTTTTATACAACTAATTTCTTTTGAGTACATATGCTCTTTCTTTTTTTT
TTAACACGAGCAT
Found at i:16935130 original size:31 final size:31
Alignment explanation
Indices: 16935093--16935153 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
16935083 AATAGAACCT
16935093 AATCCAAAAAACATTAAATATCCTAAGAAAG
1 AATCCAAAAAACATTAAATATCCTAAGAAAG
16935124 AATCCAAAAAACATTAAATATCCTAAGAAA
1 AATCCAAAAAACATTAAATATCCTAAGAAA
16935154 CATTAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.59, C:0.16, G:0.05, T:0.20
Consensus pattern (31 bp):
AATCCAAAAAACATTAAATATCCTAAGAAAG
Found at i:16937314 original size:16 final size:15
Alignment explanation
Indices: 16937289--16937322 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
16937279 CAAGTTTATA
*
16937289 ATAATTAATATACATT
1 ATAATAAATATA-ATT
16937305 ATAATAAATATAATT
1 ATAATAAATATAATT
16937320 ATA
1 ATA
16937323 TATTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:16937443 original size:29 final size:29
Alignment explanation
Indices: 16937389--16937444 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
16937379 GATTTTAAAG
* *
16937389 ATATTTACAAAAAGAAACAGCTAATTTCA
1 ATATTTACAAAAAGAAACACCAAATTTCA
16937418 ATATTTACAAAAAG-AACAACCAAATTT
1 ATATTTACAAAAAGAAAC-ACCAAATTT
16937445 TGTAAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.54, C:0.14, G:0.05, T:0.27
Consensus pattern (29 bp):
ATATTTACAAAAAGAAACACCAAATTTCA
Found at i:16942754 original size:39 final size:39
Alignment explanation
Indices: 16942700--16942777 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
16942690 TCCGGCTAAT
16942700 TTGAAAGAATCAATCACCACCATAAACAAACTTAAGTGA
1 TTGAAAGAATCAATCACCACCATAAACAAACTTAAGTGA
*
16942739 TTGAAAGAATCAATCACCACCATAAACAATCTTAAGTGA
1 TTGAAAGAATCAATCACCACCATAAACAAACTTAAGTGA
16942778 AGGTGAGGAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.47, C:0.21, G:0.10, T:0.22
Consensus pattern (39 bp):
TTGAAAGAATCAATCACCACCATAAACAAACTTAAGTGA
Found at i:16943427 original size:14 final size:15
Alignment explanation
Indices: 16943410--16943438 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16943400 GAGGAAGTGA
16943410 TTAA-AAACTAAAAT
1 TTAACAAACTAAAAT
16943424 TTAACAAACTAAAAT
1 TTAACAAACTAAAAT
16943439 AAAATAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (15 bp):
TTAACAAACTAAAAT
Found at i:16950403 original size:38 final size:39
Alignment explanation
Indices: 16950338--16950421 Score: 143
Period size: 38 Copynumber: 2.2 Consensus size: 39
16950328 GCAAATGACT
*
16950338 TTAAAATTATTAAAATTATTTTTTTGAAATATGAAATTA
1 TTAAAATTATTAAAATTATTTTTTTGAAATATAAAATTA
*
16950377 TTAAAATTATT-ATATTATTTTTTTGAAATATAAAATTA
1 TTAAAATTATTAAAATTATTTTTTTGAAATATAAAATTA
16950415 TTAAAAT
1 TTAAAAT
16950422 AGATCATTCC
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
38 32 0.74
39 11 0.26
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (39 bp):
TTAAAATTATTAAAATTATTTTTTTGAAATATAAAATTA
Found at i:16950414 original size:21 final size:21
Alignment explanation
Indices: 16950348--16950416 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 21
16950338 TTAAAATTAT
16950348 TAAAATTATTTTTTTGAAATA
1 TAAAATTATTTTTTTGAAATA
* *
16950369 TGAAATTA-----TTAAAATTA
1 TAAAATTATTTTTTTGAAA-TA
* *
16950386 TTATATTATTTTTTTGAAATA
1 TAAAATTATTTTTTTGAAATA
16950407 TAAAATTATT
1 TAAAATTATT
16950417 AAAATAGATC
Statistics
Matches: 35, Mismatches: 7, Indels: 12
0.65 0.13 0.22
Matches are distributed among these distances:
16 5 0.14
17 8 0.23
21 17 0.49
22 5 0.14
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (21 bp):
TAAAATTATTTTTTTGAAATA
Found at i:16950787 original size:22 final size:23
Alignment explanation
Indices: 16950740--16950793 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
16950730 CCATAAATTG
16950740 TTTAGGGTTGTCAAATTTAGGGA
1 TTTAGGGTTGTCAAATTTAGGGA
**
16950763 TTTAGGGTTGTTGAATTT-GGGA
1 TTTAGGGTTGTCAAATTTAGGGA
*
16950785 TTTTGGGTT
1 TTTAGGGTT
16950794 TTGGATAGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 12 0.43
23 16 0.57
ACGTcount: A:0.19, C:0.02, G:0.33, T:0.46
Consensus pattern (23 bp):
TTTAGGGTTGTCAAATTTAGGGA
Found at i:16951514 original size:10 final size:10
Alignment explanation
Indices: 16951499--16951565 Score: 68
Period size: 9 Copynumber: 6.8 Consensus size: 10
16951489 TTTTATTATT
16951499 ATTTTAAATA
1 ATTTTAAATA
*
16951509 ATTTT-AATG
1 ATTTTAAATA
*
16951518 ATTTTAAAATC
1 ATTTT-AAATA
16951529 ATTTT-AATAA
1 ATTTTAAAT-A
*
16951539 ATTTTAATTA
1 ATTTTAAATA
16951549 ATTTT-AATA
1 ATTTTAAATA
16951558 ATTTTAAA
1 ATTTTAAA
16951566 ATGATTTGCT
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
9 19 0.40
10 18 0.38
11 10 0.21
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (10 bp):
ATTTTAAATA
Found at i:16951572 original size:20 final size:19
Alignment explanation
Indices: 16951499--16951565 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 19
16951489 TTTTATTATT
*
16951499 ATTTTAAATAATTTTAATG
1 ATTTTAAATAATTTTAATA
*
16951518 ATTTTAAAATCATTTTAATAA
1 ATTTT-AAATAATTTTAAT-A
*
16951539 ATTTTAATTAATTTTAATA
1 ATTTTAAATAATTTTAATA
16951558 ATTTTAAA
1 ATTTTAAA
16951566 ATGATTTGCT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
19 13 0.32
20 23 0.56
21 5 0.12
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (19 bp):
ATTTTAAATAATTTTAATA
Found at i:16952854 original size:26 final size:26
Alignment explanation
Indices: 16952825--16952878 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
16952815 AAGTTAGTCA
16952825 ATTTTGATTATTTCATGCTTTTGTTT
1 ATTTTGATTATTTCATGCTTTTGTTT
16952851 ATTTTGATTATTTCATGCTTTTGTTT
1 ATTTTGATTATTTCATGCTTTTGTTT
16952877 AT
1 AT
16952879 GGCAGACACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.17, C:0.07, G:0.11, T:0.65
Consensus pattern (26 bp):
ATTTTGATTATTTCATGCTTTTGTTT
Found at i:16955596 original size:17 final size:16
Alignment explanation
Indices: 16955564--16955598 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
16955554 GACGATGATT
*
16955564 ATTTTTAAATCAATTA
1 ATTTTTAAATAAATTA
16955580 ATTTTTAAATAATATTA
1 ATTTTTAAATAA-ATTA
16955597 AT
1 AT
16955599 CAAAAGACGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTTTAAATAAATTA
Found at i:16960225 original size:27 final size:27
Alignment explanation
Indices: 16960179--16960231 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
16960169 GCATCCTTGG
* *
16960179 GTAGCCTGCCAGGACTGTAAACACAGA
1 GTAGCCTGCCAAGACAGTAAACACAGA
*
16960206 GTAGTCTGCCAAGACAGTAAACACAG
1 GTAGCCTGCCAAGACAGTAAACACAG
16960232 GGCGAAAGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.36, C:0.25, G:0.25, T:0.15
Consensus pattern (27 bp):
GTAGCCTGCCAAGACAGTAAACACAGA
Found at i:16966760 original size:28 final size:28
Alignment explanation
Indices: 16966720--16966774 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
16966710 TTACGTTGCT
16966720 CCTTTGCTGATGGCTCTCCAAGGTGGCC
1 CCTTTGCTGATGGCTCTCCAAGGTGGCC
* *
16966748 CCTTTGCTGATGGTTCTCCAATGTGGC
1 CCTTTGCTGATGGCTCTCCAAGGTGGC
16966775 AGACCAAGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.11, C:0.29, G:0.27, T:0.33
Consensus pattern (28 bp):
CCTTTGCTGATGGCTCTCCAAGGTGGCC
Found at i:16966885 original size:7 final size:7
Alignment explanation
Indices: 16966875--16966904 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
16966865 TGTGAGATGA
16966875 GAGGGAT
1 GAGGGAT
*
16966882 GAGGGTT
1 GAGGGAT
16966889 GAGGGAT
1 GAGGGAT
16966896 GAGGGAT
1 GAGGGAT
16966903 GA
1 GA
16966905 ATGAAAAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.27, C:0.00, G:0.57, T:0.17
Consensus pattern (7 bp):
GAGGGAT
Found at i:16972735 original size:59 final size:60
Alignment explanation
Indices: 16972659--16972771 Score: 203
Period size: 59 Copynumber: 1.9 Consensus size: 60
16972649 TTATTTCATG
16972659 TGTAATATTATTTCATGTATTTTGGTTTTCTTCATATACAATATT-A-TTTAAATTAATA
1 TGTAATATTATTTCATGTATTTTGGTTTTCTTCATATACAATATTCACTTTAAATTAATA
16972717 TGTATATATTATTTCATGTATTTTGGTTTTCTTCATATACAATATTCACTTTAAA
1 TGTA-ATATTATTTCATGTATTTTGGTTTTCTTCATATACAATATTCACTTTAAA
16972772 CTTCATTTTG
Statistics
Matches: 52, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
58 4 0.08
59 41 0.79
60 1 0.02
61 6 0.12
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.53
Consensus pattern (60 bp):
TGTAATATTATTTCATGTATTTTGGTTTTCTTCATATACAATATTCACTTTAAATTAATA
Found at i:16972819 original size:15 final size:17
Alignment explanation
Indices: 16972783--16972824 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
16972773 TTCATTTTGA
16972783 TATT-ATTTTTTTATAG
1 TATTCATTTTTTTATAG
16972799 TATTCATTTTTTT-TA-
1 TATTCATTTTTTTATAG
*
16972814 TCTTCATTTTT
1 TATTCATTTTT
16972825 GACTTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 10 0.42
16 6 0.25
17 8 0.33
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.71
Consensus pattern (17 bp):
TATTCATTTTTTTATAG
Found at i:16977577 original size:6 final size:6
Alignment explanation
Indices: 16977566--16977631 Score: 51
Period size: 6 Copynumber: 10.7 Consensus size: 6
16977556 GGGGAAGAAA
* * * * **
16977566 AAAATC AAAATC AAAAGC AAAAGC AAAAGC AAAAGC AAAAAGAA AAAATC
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC -AAAA-TC AAAATC
*
16977616 AAAATC AAAGTC AAAA
1 AAAATC AAAATC AAAA
16977632 AATGAAAATG
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
6 43 0.84
7 8 0.16
ACGTcount: A:0.70, C:0.14, G:0.09, T:0.08
Consensus pattern (6 bp):
AAAATC
Found at i:16977581 original size:12 final size:12
Alignment explanation
Indices: 16977566--16977631 Score: 60
Period size: 12 Copynumber: 5.3 Consensus size: 12
16977556 GGGGAAGAAA
*
16977566 AAAATCAAAATC
1 AAAAGCAAAATC
*
16977578 AAAAGCAAAAGC
1 AAAAGCAAAATC
*
16977590 AAAAGCAAAAGC
1 AAAAGCAAAATC
*
16977602 AAAAAGAAAAAATC
1 -AAAAG-CAAAATC
* *
16977616 AAAATCAAAGTC
1 AAAAGCAAAATC
16977628 AAAA
1 AAAA
16977632 AATGAAAATG
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
12 31 0.69
13 9 0.20
14 5 0.11
ACGTcount: A:0.70, C:0.14, G:0.09, T:0.08
Consensus pattern (12 bp):
AAAAGCAAAATC
Found at i:16977611 original size:18 final size:18
Alignment explanation
Indices: 16977566--16977605 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
16977556 GGGGAAGAAA
* *
16977566 AAAATCAAAATCAAAAGC
1 AAAAGCAAAAGCAAAAGC
16977584 AAAAGCAAAAGCAAAAGC
1 AAAAGCAAAAGCAAAAGC
16977602 AAAA
1 AAAA
16977606 AGAAAAAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.70, C:0.15, G:0.10, T:0.05
Consensus pattern (18 bp):
AAAAGCAAAAGCAAAAGC
Found at i:16978532 original size:7 final size:7
Alignment explanation
Indices: 16978520--16978569 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
16978510 AAAAAAATGC
16978520 GAAAAAT
1 GAAAAAT
16978527 GAAAAAAT
1 G-AAAAAT
16978535 G-AAAAT
1 GAAAAAT
*
16978541 GGAAAAT
1 GAAAAAT
16978548 GAAAAA-
1 GAAAAAT
16978554 GTAAAAAT
1 G-AAAAAT
*
16978562 TAAAAAT
1 GAAAAAT
16978569 G
1 G
16978570 GAGAGGCTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
6 7 0.19
7 22 0.61
8 7 0.19
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (7 bp):
GAAAAAT
Found at i:16978560 original size:21 final size:23
Alignment explanation
Indices: 16978512--16978561 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 23
16978502 TTTGAGTCAA
16978512 AAAAATGCGAAAAATGAAAAAAT
1 AAAAATGCGAAAAATGAAAAAAT
* *
16978535 GAAAATG-G-AAAATGAAAAAGT
1 AAAAATGCGAAAAATGAAAAAAT
16978556 AAAAAT
1 AAAAAT
16978562 TAAAAATGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 17 0.71
22 1 0.04
23 6 0.25
ACGTcount: A:0.68, C:0.02, G:0.16, T:0.14
Consensus pattern (23 bp):
AAAAATGCGAAAAATGAAAAAAT
Found at i:16978567 original size:21 final size:21
Alignment explanation
Indices: 16978520--16978569 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
16978510 AAAAAAATGC
*
16978520 GAAAAATGAAAAAATGAAAAT
1 GAAAAATGAAAAAATAAAAAT
* *
16978541 GGAAAATGAAAAAGTAAAAAT
1 GAAAAATGAAAAAATAAAAAT
*
16978562 TAAAAATG
1 GAAAAATG
16978570 GAGAGGCTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (21 bp):
GAAAAATGAAAAAATAAAAAT
Found at i:16980073 original size:88 final size:87
Alignment explanation
Indices: 16979835--16980113 Score: 287
Period size: 88 Copynumber: 3.2 Consensus size: 87
16979825 GTGGAGTAGG
* *
16979835 TCGAAGATACTAGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCT
1 TCGAAGATACCAGCCTTGCCTCCCTCGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTGCCT
* * *
16979900 TCCTGCAT-C-GACAGCGAAACAAA
66 T-CT--ATACTGACAACGAAGCAGA
* * * * *** **
16979923 TCGAAGATACCAGCCTTGTCTCCCTCAGTTGTAGCAGAGCAAACTGAAGATAGCAGGCCTTGCCT
1 TCGAAGATACCAGCCTTGCCTCCCTCGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTGCCT
*
16979988 TACTATACTGACATCGAAGCAGA
66 T-CTATACTGACAACGAAGCAGA
* * *
16980011 TCGAAGATACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAATATA--ATGAATCTTGC
1 TCGAAGATACCAGCCTTGCCTCCCTCGGTTGCAGCGGAGCAGGTTGAAGATAGCA-G-ATCTTGC
*
16980074 CTTCTTGTACTGACAACGAAGCAGA
64 CTTC-TATACTGACAACGAAGCAGA
*
16980099 TCAAAGATACCAGCC
1 TCGAAGATACCAGCC
16980114 CTATCTCTCT
Statistics
Matches: 155, Mismatches: 31, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
86 3 0.02
87 3 0.02
88 149 0.96
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.23
Consensus pattern (87 bp):
TCGAAGATACCAGCCTTGCCTCCCTCGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTGCCT
TCTATACTGACAACGAAGCAGA
Found at i:16980190 original size:52 final size:52
Alignment explanation
Indices: 16980112--16980263 Score: 221
Period size: 52 Copynumber: 3.1 Consensus size: 52
16980102 AAGATACCAG
16980112 CCCTATCTCTCTGACCAGCAGTGGAATAGGTGGAATATTGTAAGTCCTATCT
1 CCCTATCTCTCTGACCAGCAGTGGAATAGGTGGAATATTGTAAGTCCTATCT
16980164 CCCTATCTCTCTGACCAGCAGTGGAATAGGTGGAATATTGTAAGTCCTA--T
1 CCCTATCTCTCTGACCAGCAGTGGAATAGGTGGAATATTGTAAGTCCTATCT
* * *
16980214 --C--TC-C-CTGACCAGCATTGGAATAGGTGGAAGATTGTTAGTCCTATCT
1 CCCTATCTCTCTGACCAGCAGTGGAATAGGTGGAATATTGTAAGTCCTATCT
16980260 CCCT
1 CCCT
16980264 GACCAGCTAG
Statistics
Matches: 92, Mismatches: 3, Indels: 13
0.85 0.03 0.12
Matches are distributed among these distances:
44 36 0.39
45 1 0.01
46 3 0.03
48 2 0.02
50 1 0.01
52 49 0.53
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (52 bp):
CCCTATCTCTCTGACCAGCAGTGGAATAGGTGGAATATTGTAAGTCCTATCT
Found at i:16980216 original size:44 final size:44
Alignment explanation
Indices: 16980165--16980414 Score: 336
Period size: 44 Copynumber: 5.9 Consensus size: 44
16980155 GTCCTATCTC
* *
16980165 CCTATCTCTCTGACCAGCAGTGGAATAGGTGGAATATTGTAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGTAAGT
* *
16980209 CCTATCTCCCTGACCAGCATTGGAATAGGTGGAAGATTGTTAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGTAAGT
* **
16980253 CCTATCTCCCTGACCAGC-------TAGGTCGAAGATTACAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGTAAGT
*
16980290 CCTATCTCTCTGACCAGCAGTGGAATAGGTGGAAGATTGTAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGTAAGT
* *
16980334 CCTATCTCCCTGACCAGCAGTAGAATAGGTGGAAGATTGTCAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGTAAGT
* *
16980378 CCT-TCTCCCTAACCAGCAGTGGAATATGTGGAAGATT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATT
16980415 AGTTTCTATG
Statistics
Matches: 181, Mismatches: 18, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
37 32 0.18
43 31 0.17
44 118 0.65
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (44 bp):
CCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGTAAGT
Found at i:16980320 original size:125 final size:124
Alignment explanation
Indices: 16980165--16980394 Score: 406
Period size: 125 Copynumber: 1.8 Consensus size: 124
16980155 GTCCTATCTC
* *
16980165 CCTATCTCTCTGACCAGCAGTGGAATAGGTGGAATATTGTAAGTCCTATCTCCCTGACCAGCATT
1 CCTATCTCTCTGACCAGCAGTGGAATAGGTGGAAGATTGTAAGTCCTATCTCCCTGACCAGCAGT
* * *
16980230 GGAATAGGTGGAAGATTGTTAGTCCTATCTCCCTGACCAGCTAGGTCGAAGATTACAAGT
66 AGAATAGGTGGAAGATTGTCAGTCCT-TCTCCCTAACCAGCTAGGTCGAAGATTACAAGT
16980290 CCTATCTCTCTGACCAGCAGTGGAATAGGTGGAAGATTGTAAGTCCTATCTCCCTGACCAGCAGT
1 CCTATCTCTCTGACCAGCAGTGGAATAGGTGGAAGATTGTAAGTCCTATCTCCCTGACCAGCAGT
16980355 AGAATAGGTGGAAGATTGTCAGTCCTTCTCCCTAACCAGC
66 AGAATAGGTGGAAGATTGTCAGTCCTTCTCCCTAACCAGC
16980395 AGTGGAATAT
Statistics
Matches: 100, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
124 13 0.13
125 87 0.87
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (124 bp):
CCTATCTCTCTGACCAGCAGTGGAATAGGTGGAAGATTGTAAGTCCTATCTCCCTGACCAGCAGT
AGAATAGGTGGAAGATTGTCAGTCCTTCTCCCTAACCAGCTAGGTCGAAGATTACAAGT
Found at i:16982247 original size:15 final size:17
Alignment explanation
Indices: 16982211--16982252 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
16982201 TTCATTTTGA
16982211 TATT-ATTTTTTTATAG
1 TATTCATTTTTTTATAG
16982227 TATTCATTTTTTT-TA-
1 TATTCATTTTTTTATAG
*
16982242 TCTTCATTTTT
1 TATTCATTTTT
16982253 GACTTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 10 0.42
16 6 0.25
17 8 0.33
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.71
Consensus pattern (17 bp):
TATTCATTTTTTTATAG
Found at i:16986063 original size:43 final size:43
Alignment explanation
Indices: 16986002--16986090 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
16985992 GATTCTTTTG
*
16986002 GTGTAAGAACTTCAATAGCTGGTTGACTTTCCTTATTTTCAAC
1 GTGTAAGAACTTCAATAGCTGGTTGACTTTCCTCATTTTCAAC
16986045 GTGTAAGAACTTCAATAGCTGGTTGACTTTCCTCATTTTCAAC
1 GTGTAAGAACTTCAATAGCTGGTTGACTTTCCTCATTTTCAAC
16986088 GTG
1 GTG
16986091 CTCATTATCG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (43 bp):
GTGTAAGAACTTCAATAGCTGGTTGACTTTCCTCATTTTCAAC
Found at i:16988326 original size:16 final size:17
Alignment explanation
Indices: 16988299--16988333 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
16988289 AGAGAGTTGA
16988299 GAGAGAGGATGAGAGAT
1 GAGAGAGGATGAGAGAT
*
16988316 GAGAG-GGATGAGGGAT
1 GAGAGAGGATGAGAGAT
16988332 GA
1 GA
16988334 TTGAAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.37, C:0.00, G:0.51, T:0.11
Consensus pattern (17 bp):
GAGAGAGGATGAGAGAT
Found at i:16989934 original size:3 final size:3
Alignment explanation
Indices: 16989921--16989982 Score: 108
Period size: 3 Copynumber: 21.0 Consensus size: 3
16989911 TTTTACAGTC
*
16989921 TCT TC- TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TAT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
16989968 TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT
16989983 ACTATTAGGG
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
2 2 0.04
3 54 0.96
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:16998918 original size:23 final size:23
Alignment explanation
Indices: 16998866--16998928 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
16998856 TATTAATAGG
16998866 TTTAAAAATAATATAAATATTTTTA
1 TTTAAAAATAA-AT-AATATTTTTA
*
16998891 TTTAAAAATAAATATTATTTATTA
1 TTTAAAAATAAATAATATTT-TTA
*
16998915 -TTAAATATAAATAA
1 TTTAAAAATAAATAA
16998929 ATTCAAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 18 0.53
24 5 0.15
25 11 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TTTAAAAATAAATAATATTTTTA
Found at i:16999347 original size:29 final size:29
Alignment explanation
Indices: 16999273--16999350 Score: 77
Period size: 32 Copynumber: 2.6 Consensus size: 29
16999263 TAAATATTAT
* *
16999273 TAAATATATTCATA-TTTTTATTTTAATAA
1 TAAATTTATT-ATATTTTTTAATTTAATAA
* *
16999302 AAATATATGTAATATATTTTTTAATTTAATAA
1 TAA-AT-T-TATTATATTTTTTAATTTAATAA
16999334 TAAATTTATTATATTTT
1 TAAATTTATTATATTTT
16999351 AATAAATTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
29 12 0.31
30 3 0.08
31 5 0.13
32 19 0.49
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (29 bp):
TAAATTTATTATATTTTTTAATTTAATAA
Found at i:16999548 original size:24 final size:25
Alignment explanation
Indices: 16999507--16999556 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
16999497 TTATTAATTA
*
16999507 ATTTTTATAATATAAAAATATGAAT
1 ATTTTAATAATATAAAAATATGAAT
* *
16999532 ATTTTAATAGTAT-AAAATATTAAT
1 ATTTTAATAATATAAAAATATGAAT
16999556 A
1 A
16999557 CAAATAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (25 bp):
ATTTTAATAATATAAAAATATGAAT
Found at i:17000482 original size:7 final size:7
Alignment explanation
Indices: 17000472--17000503 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
17000462 GAAAAAGAAA
17000472 AAAAATT
1 AAAAATT
17000479 -AAAATT
1 AAAAATT
17000485 AAAAATT
1 AAAAATT
17000492 AAAAATT
1 AAAAATT
17000499 AAAAA
1 AAAAA
17000504 ATATATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (7 bp):
AAAAATT
Found at i:17001742 original size:22 final size:22
Alignment explanation
Indices: 17001714--17001772 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
17001704 ACACCACACC
* *
17001714 AGAGAGCATCGTAGTGCTAAGT
1 AGAGAGCACCGAAGTGCTAAGT
* *
17001736 AGAGAGCACCGAAGTGCTGATT
1 AGAGAGCACCGAAGTGCTAAGT
**
17001758 AGAGATTACCGAAGT
1 AGAGAGCACCGAAGT
17001773 ACTGAACAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.34, C:0.15, G:0.31, T:0.20
Consensus pattern (22 bp):
AGAGAGCACCGAAGTGCTAAGT
Found at i:17005304 original size:25 final size:25
Alignment explanation
Indices: 17005262--17005381 Score: 79
Period size: 25 Copynumber: 4.8 Consensus size: 25
17005252 GACACACCGC
*
17005262 AGCTCTTCTGAG-TGTCCCGATATTT
1 AGCTCTTCAGAGCT-TCCCGATATTT
17005287 AGCTC-TCACGAGCTTCCC-ATTATTT
1 AGCTCTTCA-GAGCTTCCCGA-TATTT
* **
17005312 GGCTCTTCAGAGCTTCCCGATAAAT
1 AGCTCTTCAGAGCTTCCCGATATTT
* * * *
17005337 GGATCTT-ATGAGCTTCCCGTTA-AT
1 AGCTCTTCA-GAGCTTCCCGATATTT
* *
17005361 GGCTCTCCAGAGCTTCCCGAT
1 AGCTCTTCAGAGCTTCCCGAT
17005382 GTTGGCTCGC
Statistics
Matches: 79, Mismatches: 9, Indels: 15
0.77 0.09 0.15
Matches are distributed among these distances:
24 22 0.28
25 52 0.66
26 5 0.06
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.33
Consensus pattern (25 bp):
AGCTCTTCAGAGCTTCCCGATATTT
Found at i:17005389 original size:24 final size:23
Alignment explanation
Indices: 17005288--17005381 Score: 82
Period size: 25 Copynumber: 3.8 Consensus size: 23
17005278 CCGATATTTA
*
17005288 GCTCTCACGAGCTTCCC-ATTATTTG
1 GCTCTCA-GAGCTTCCCGA-TA-ATG
17005313 GCTCTTCAGAGCTTCCCGATAAATG
1 GCTC-TCAGAGCTTCCCGAT-AATG
* * *
17005338 GATCTTATGAGCTTCCCGTTAATG
1 GCTCTCA-GAGCTTCCCGATAATG
17005362 GCTCTCCAGAGCTTCCCGAT
1 GCTCT-CAGAGCTTCCCGAT
17005382 GTTGGCTCGC
Statistics
Matches: 57, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
24 21 0.37
25 31 0.54
26 5 0.09
ACGTcount: A:0.19, C:0.30, G:0.19, T:0.32
Consensus pattern (23 bp):
GCTCTCAGAGCTTCCCGATAATG
Found at i:17005413 original size:25 final size:25
Alignment explanation
Indices: 17005384--17005440 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
17005374 TTCCCGATGT
*
17005384 TGGCTCGCTTGAACTTCCT-ATTATA
1 TGGCTCGCATGAACTTCCTGA-TATA
* *
17005409 TGGCTCACATGAGCTTCCTGATATA
1 TGGCTCGCATGAACTTCCTGATATA
17005434 TGGCTCG
1 TGGCTCG
17005441 GAATAGCTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 26 0.96
26 1 0.04
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (25 bp):
TGGCTCGCATGAACTTCCTGATATA
Found at i:17011907 original size:397 final size:403
Alignment explanation
Indices: 17011166--17011967 Score: 1508
Period size: 397 Copynumber: 2.0 Consensus size: 403
17011156 TGTAGATAAG
17011166 CATATCTTAAAGGTAAGGTTGATCAGATTCTTCTTCTATTGTCCACTTGTGTTTTCTTGGGTGTA
1 CATATCTTAAAGGTAAGGTTGATCAGATTCTTCTTCTATTGTCCACTTGTGTTTTCTTGGGTGTA
17011231 GGTCCGGCTTGCAAATGTTCAGTGCTTGATTGAATCTAAAGCAAGAAATTGTAGAGTATAGGTTA
66 GGTCCGGCTTGCAAATGTTCAGTGCTTGATTGAATCTAAAGCAAGAAATTGT--AGTATAGGTTA
*
17011296 AAAAAAAAAAGTCATATTACTATGAAAATATAACATAACTAAAAATATTTCTCTAAAGACAAGAC
129 AAAAAAAAAAGTCATATTACTATGAAAACATAACATAACTAAAAATATTTCTCTAAAGACAAGAC
*
17011361 AATCATGCAGTTCAGAGATTTATCACCTTATTGAGTTTGTCCCTAACCGTTTTAACCGTCTGATT
194 AATCATACAGTTCAGAGATTTATCACCTTATTGAGTTTGTCCCTAACCGTTTTAACCGTCTGATT
17011426 CATTGACTGGGAAGGGAAGTAGTCCTGAAAGCAGTCCCCATATCAGCATAGAGCAAATATTTATC
259 CATTGACTGGGAAGGGAAGTAGTCCTGAAAGCAGTCCCCATATCAGCATAGAGCAAATATTTATC
17011491 ACACAAATTCCACAACCATGTATAATATTCTTATATTACTATAGCAACCAAGGCATTAATAAAGA
324 ACACAAATTCCACAACCATGTATAATATTCTTATATTACTATAGCAACCAAGGCATTAATAAAGA
17011556 ACTCTAGCAAAAGCA
389 ACTCTAGCAAAAGCA
17011571 CATATCTTAAAGGTAAGGTTGATCAGATTCTTCTTCTATTGTCCACTTGTGTTTTCTTGGGTGTA
1 CATATCTTAAAGGTAAGGTTGATCAGATTCTTCTTCTATTGTCCACTTGTGTTTTCTTGGGTGTA
17011636 GGTCCGGCTTGCAAATGTTCAGTGCTTGATTGAATCTAAAGCAAGAAA-T-T-GTATAGG-T-AA
66 GGTCCGGCTTGCAAATGTTCAGTGCTTGATTGAATCTAAAGCAAGAAATTGTAGTATAGGTTAAA
*
17011696 AAAAAAAAGTCATATTACTATGAAAACATAACATGACTAAAAATATTTCTCT-AAGACAAGACAA
131 AAAAAAAAGTCATATTACTATGAAAACATAACATAACTAAAAATATTTCTCTAAAGACAAGACAA
17011760 TCATACAGTTCAGAGATTTATCACCTTATTGAGTTTGTCCCTAACCGTTTTAACCGTCTGATTCA
196 TCATACAGTTCAGAGATTTATCACCTTATTGAGTTTGTCCCTAACCGTTTTAACCGTCTGATTCA
17011825 TTGACTGGGAAGGGAAGTAGTCCTGAAAGCAGTCCCCATATCAGCATAGAGCAAATATTTATCAC
261 TTGACTGGGAAGGGAAGTAGTCCTGAAAGCAGTCCCCATATCAGCATAGAGCAAATATTTATCAC
*
17011890 ACAAATTCCACAACCATGTATACTATTCTTATATTACTATAGCAACCAAGGCATTAATAAAGAAC
326 ACAAATTCCACAACCATGTATAATATTCTTATATTACTATAGCAACCAAGGCATTAATAAAGAAC
17011955 TCTAGCAAAAGCA
391 TCTAGCAAAAGCA
17011968 AAGAAAGCAA
Statistics
Matches: 393, Mismatches: 4, Indels: 8
0.97 0.01 0.02
Matches are distributed among these distances:
397 218 0.55
398 52 0.13
399 1 0.00
400 7 0.02
403 1 0.00
404 1 0.00
405 113 0.29
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (403 bp):
CATATCTTAAAGGTAAGGTTGATCAGATTCTTCTTCTATTGTCCACTTGTGTTTTCTTGGGTGTA
GGTCCGGCTTGCAAATGTTCAGTGCTTGATTGAATCTAAAGCAAGAAATTGTAGTATAGGTTAAA
AAAAAAAAGTCATATTACTATGAAAACATAACATAACTAAAAATATTTCTCTAAAGACAAGACAA
TCATACAGTTCAGAGATTTATCACCTTATTGAGTTTGTCCCTAACCGTTTTAACCGTCTGATTCA
TTGACTGGGAAGGGAAGTAGTCCTGAAAGCAGTCCCCATATCAGCATAGAGCAAATATTTATCAC
ACAAATTCCACAACCATGTATAATATTCTTATATTACTATAGCAACCAAGGCATTAATAAAGAAC
TCTAGCAAAAGCA
Found at i:17012656 original size:357 final size:357
Alignment explanation
Indices: 17012001--17012716 Score: 1414
Period size: 357 Copynumber: 2.0 Consensus size: 357
17011991 CGCAACAGTT
17012001 AACCGACAAACACCTATATTAAACTTTCTCCAGTCATAAAACACCTAATTCATTTCTAGTTATTC
1 AACCGACAAACACCTATATTAAACTTTCTCCAGTCATAAAACACCTAATTCATTTCTAGTTATTC
17012066 GGCCGCGTATGCATTGATTTGAGTCAGATGTTAATATACAATAATAATATTTTATATAATAGCAC
66 GGCCGCGTATGCATTGATTTGAGTCAGATGTTAATATACAATAATAATATTTTATATAATAGCAC
17012131 TTATAGCGCCAATATGAGTTACTAAATATTTTGAAACCAATTCAAAATCTCAGTATGCAGTTTCC
131 TTATAGCGCCAATATGAGTTACTAAATATTTTGAAACCAATTCAAAATCTCAGTATGCAGTTTCC
17012196 ATATAAGTGGCATATATAAATATAAAATGCATATTCGTAACTATATTCATGTAAAAATGATAAAA
196 ATATAAGTGGCATATATAAATATAAAATGCATATTCGTAACTATATTCATGTAAAAATGATAAAA
*
17012261 ATATAAAAAGTACTTGACTGACAGAACCTATTCTTGGTAAGAACTGAAACAACATTTCAGCAACC
261 ATATAAAAAGTACTCGACTGACAGAACCTATTCTTGGTAAGAACTGAAACAACATTTCAGCAACC
17012326 CCATCAAACACTTGAGCATTCTAACACCCACA
326 CCATCAAACACTTGAGCATTCTAACACCCACA
17012358 AACCGACAAACACCTATATTAAACTTTCTCCAGTCATAAAACACCTAATTCATTTCTAGTTATTC
1 AACCGACAAACACCTATATTAAACTTTCTCCAGTCATAAAACACCTAATTCATTTCTAGTTATTC
17012423 GGCCGCGTATGCATTGATTTGAGTCAGATGTTAATATACAATAATAATATTTTATATAATAGCAC
66 GGCCGCGTATGCATTGATTTGAGTCAGATGTTAATATACAATAATAATATTTTATATAATAGCAC
17012488 TTATAGCGCCAATATGAGTTACTAAATATTTTGAAACCAATTCAAAATCTCAGTATGCAGTTTCC
131 TTATAGCGCCAATATGAGTTACTAAATATTTTGAAACCAATTCAAAATCTCAGTATGCAGTTTCC
17012553 ATATAAGTGGCATATATAAATATAAAATGCATATTCGTAACTATATTCATGTAAAAATGATAAAA
196 ATATAAGTGGCATATATAAATATAAAATGCATATTCGTAACTATATTCATGTAAAAATGATAAAA
*
17012618 ATATAAAAAGTACTCGACTGACAGAACCTATTCTTGGTAAGAAGTGAAACAACATTTCAGCAACC
261 ATATAAAAAGTACTCGACTGACAGAACCTATTCTTGGTAAGAACTGAAACAACATTTCAGCAACC
17012683 CCATCAAACACTTGAGCATTCTAACACCCACA
326 CCATCAAACACTTGAGCATTCTAACACCCACA
17012715 AA
1 AA
17012717 TTTAAAAGAA
Statistics
Matches: 357, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
357 357 1.00
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (357 bp):
AACCGACAAACACCTATATTAAACTTTCTCCAGTCATAAAACACCTAATTCATTTCTAGTTATTC
GGCCGCGTATGCATTGATTTGAGTCAGATGTTAATATACAATAATAATATTTTATATAATAGCAC
TTATAGCGCCAATATGAGTTACTAAATATTTTGAAACCAATTCAAAATCTCAGTATGCAGTTTCC
ATATAAGTGGCATATATAAATATAAAATGCATATTCGTAACTATATTCATGTAAAAATGATAAAA
ATATAAAAAGTACTCGACTGACAGAACCTATTCTTGGTAAGAACTGAAACAACATTTCAGCAACC
CCATCAAACACTTGAGCATTCTAACACCCACA
Found at i:17015009 original size:29 final size:27
Alignment explanation
Indices: 17014954--17015009 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
17014944 TATAATTCTA
*
17014954 AAATTTTTAAAAAATATATAACCAAAT
1 AAATTTTTAAAAAATATATAACAAAAT
* *
17014981 AAATATTTTCAAAAATATAATAATAAAAT
1 AAAT-TTTTAAAAAATAT-ATAACAAAAT
17015010 TAAAAATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 4 0.17
28 12 0.50
29 8 0.33
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (27 bp):
AAATTTTTAAAAAATATATAACAAAAT
Found at i:17015066 original size:27 final size:29
Alignment explanation
Indices: 17015036--17015100 Score: 80
Period size: 27 Copynumber: 2.3 Consensus size: 29
17015026 ACTGTTGAAA
*
17015036 ATAATAATATATAA-AATTTTAAA-ATAT
1 ATAATAATACATAATAATTTTAAATATAT
* *
17015063 ATAAGAATACATAATTATTTTAAATATAT
1 ATAATAATACATAATAATTTTAAATATAT
*
17015092 ATACTAATA
1 ATAATAATA
17015101 AATTTTAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 12 0.39
28 8 0.26
29 11 0.35
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (29 bp):
ATAATAATACATAATAATTTTAAATATAT
Found at i:17019059 original size:23 final size:23
Alignment explanation
Indices: 17019008--17019062 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
17018998 TAAAAAAATT
*
17019008 AAATTAAAATTAAAATTTTTAAA
1 AAATTAAAATTAAAATATTTAAA
*
17019031 AAATTAAAATTTTAAATATTT-AA
1 AAATTAAAA-TTAAAATATTTAAA
*
17019054 ATATTAAAA
1 AAATTAAAA
17019063 AAATACATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 19 0.68
24 9 0.32
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
AAATTAAAATTAAAATATTTAAA
Found at i:17019410 original size:20 final size:20
Alignment explanation
Indices: 17019364--17019410 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
17019354 TCATACATTT
*
17019364 TATTTTTTTTCAAAATAATT
1 TATTTTTTTTCAAAATAATA
* * *
17019384 TAATTTTTTTCTAAATTATA
1 TATTTTTTTTCAAAATAATA
17019404 TATTTTT
1 TATTTTT
17019411 GAAAATTTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (20 bp):
TATTTTTTTTCAAAATAATA
Found at i:17019506 original size:29 final size:30
Alignment explanation
Indices: 17019471--17019536 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
17019461 AAAATTATAA
*
17019471 AATTTTACAATTTATATATAT-TATTTT-G
1 AATTTTAAAATTTATATATATATATTTTAG
*
17019499 AACTTTTAAAATTTATATTTATATATTTTAG
1 AA-TTTTAAAATTTATATATATATATTTTAG
17019530 AATTTTA
1 AATTTTA
17019537 TAAAAATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 2 0.06
29 17 0.52
30 11 0.33
31 3 0.09
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (30 bp):
AATTTTAAAATTTATATATATATATTTTAG
Found at i:17019551 original size:31 final size:31
Alignment explanation
Indices: 17019479--17019552 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
17019469 AAAATTTTAC
*
17019479 AATT-TATATATATTATTTTGAACTTTTAAA
1 AATTATATTTATATTATTTTGAACTTTTAAA
* *
17019509 ATTTATATTTATA-TATTTTAGAATTTTATAAA
1 AATTATATTTATATTATTTT-GAACTTT-TAAA
17019541 AATTAT-TTTATA
1 AATTATATTTATA
17019553 AAAATTTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 9 0.24
31 19 0.51
32 9 0.24
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (31 bp):
AATTATATTTATATTATTTTGAACTTTTAAA
Found at i:17019563 original size:12 final size:14
Alignment explanation
Indices: 17019531--17019558 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
17019521 ATATTTTAGA
17019531 ATTTTATAAAAATT
1 ATTTTATAAAAATT
17019545 ATTTTATAAAAATT
1 ATTTTATAAAAATT
17019559 TTTATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTTTATAAAAATT
Found at i:17021225 original size:22 final size:22
Alignment explanation
Indices: 17021200--17021247 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
17021190 TGGAAAAGGT
17021200 TTAGTGTCGCGACATCCTGGCA
1 TTAGTGTCGCGACATCCTGGCA
17021222 TTAGTGTCGCGACATCCTGGCA
1 TTAGTGTCGCGACATCCTGGCA
17021244 TTAG
1 TTAG
17021248 ATGCAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.19, C:0.25, G:0.27, T:0.29
Consensus pattern (22 bp):
TTAGTGTCGCGACATCCTGGCA
Found at i:17029056 original size:21 final size:20
Alignment explanation
Indices: 17029019--17029058 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
17029009 CCATTTGCTC
* *
17029019 TATTTTTTTCTCTAAATCTG
1 TATTTTTCTCTCAAAATCTG
17029039 TATTTCTTCTCTCAAAATCT
1 TATTT-TTCTCTCAAAATCT
17029059 TGCCTTATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.20, G:0.03, T:0.55
Consensus pattern (20 bp):
TATTTTTCTCTCAAAATCTG
Found at i:17032331 original size:22 final size:23
Alignment explanation
Indices: 17032306--17032350 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
17032296 ATTCAACTGG
*
17032306 ATTAAAT-TAGAATTTAAAATAA
1 ATTAAATGCAGAATTTAAAATAA
*
17032328 ATTAAATGCCGAATTTAAAATAA
1 ATTAAATGCAGAATTTAAAATAA
17032351 TAAAGAAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (23 bp):
ATTAAATGCAGAATTTAAAATAA
Found at i:17036825 original size:15 final size:15
Alignment explanation
Indices: 17036805--17036835 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
17036795 ATGAGGGGCT
17036805 TTTGGGCCTCTTCCA
1 TTTGGGCCTCTTCCA
17036820 TTTGGGCCTCTTCCA
1 TTTGGGCCTCTTCCA
17036835 T
1 T
17036836 ATCGGGTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.32, G:0.19, T:0.42
Consensus pattern (15 bp):
TTTGGGCCTCTTCCA
Found at i:17037235 original size:45 final size:45
Alignment explanation
Indices: 17037125--17037259 Score: 134
Period size: 42 Copynumber: 3.1 Consensus size: 45
17037115 TTCCAATCAT
* * *
17037125 TTTTGAGAAATCCATGTTCATTTGCAAATGAA--TCATTTCTC-A
1 TTTTGAGAAAACCATATTCATTTCCAAATGAATTTCATTTCTCTA
* * *
17037167 TTTTGAAAAAACCACATTTATTTCCAAAT-AATTTCATTTCTCTA
1 TTTTGAGAAAACCATATTCATTTCCAAATGAATTTCATTTCTCTA
* ** **
17037211 TTTTGGAGAAAACCATAATCATTTCTGAATGTTTTTCATTTCTCTA
1 TTTT-GAGAAAACCATATTCATTTCCAAATGAATTTCATTTCTCTA
17037257 TTT
1 TTT
17037260 CTATTCATTC
Statistics
Matches: 74, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
41 2 0.03
42 23 0.31
43 9 0.12
44 5 0.07
45 19 0.26
46 16 0.22
ACGTcount: A:0.31, C:0.16, G:0.08, T:0.44
Consensus pattern (45 bp):
TTTTGAGAAAACCATATTCATTTCCAAATGAATTTCATTTCTCTA
Found at i:17040102 original size:8 final size:8
Alignment explanation
Indices: 17040089--17040114 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
17040079 TGTGCTCCTT
17040089 AAGAACTA
1 AAGAACTA
17040097 AAGAACTA
1 AAGAACTA
17040105 AAGAACTA
1 AAGAACTA
17040113 AA
1 AA
17040115 CAAGTGGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.65, C:0.12, G:0.12, T:0.12
Consensus pattern (8 bp):
AAGAACTA
Found at i:17041343 original size:62 final size:58
Alignment explanation
Indices: 17041228--17041361 Score: 171
Period size: 62 Copynumber: 2.2 Consensus size: 58
17041218 AATCACTTTA
* * *
17041228 ATATTAAATTAATATAATATTTCTTAAGATGAATATTAGATTAAATTTAATATTAAAT
1 ATATTAAATTAATAGAATATTTCTTAAGATAAACATTAGATTAAATTTAATATTAAAT
*
17041286 CTTATTAAATTAATAGAATATTTATCTATAAGATAAACATTA-ACTTAAATTTAATATTAAAT
1 -ATATTAAATTAATAGAATA-TT-TCT-TAAGATAAACATTAGA-TTAAATTTAATATTAAAT
*
17041348 ATATTAAAATAATA
1 ATATTAAATTAATA
17041362 TTATTTTTGG
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
59 17 0.26
60 2 0.03
61 16 0.25
62 30 0.46
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (58 bp):
ATATTAAATTAATAGAATATTTCTTAAGATAAACATTAGATTAAATTTAATATTAAAT
Found at i:17044705 original size:61 final size:61
Alignment explanation
Indices: 17044603--17044725 Score: 212
Period size: 61 Copynumber: 2.0 Consensus size: 61
17044593 CATGAACTAC
*
17044603 TTCGAGTGTGGGCTCGAAAAATTTCTAATCATCAATAGAACTAGAAATTATTTTCTTACTT
1 TTCGAGTGTGGGCTCGAAAAATTTCTAATCAACAATAGAACTAGAAATTATTTTCTTACTT
*
17044664 TTCGAGTGTGGGCTCGAAAAATTTCTAATCAGAC-ATCGAACTAGAAATTATTTTCTTACTT
1 TTCGAGTGTGGGCTCGAAAAATTTCTAATCA-ACAATAGAACTAGAAATTATTTTCTTACTT
17044725 T
1 T
17044726 CAATAGGAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
61 58 0.98
62 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (61 bp):
TTCGAGTGTGGGCTCGAAAAATTTCTAATCAACAATAGAACTAGAAATTATTTTCTTACTT
Found at i:17047179 original size:10 final size:10
Alignment explanation
Indices: 17047164--17047192 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
17047154 AAGTTTTTTT
17047164 TAAGGATTTC
1 TAAGGATTTC
17047174 TAAGGATTTC
1 TAAGGATTTC
17047184 TAAGGATTT
1 TAAGGATTT
17047193 AATGAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (10 bp):
TAAGGATTTC
Found at i:17048574 original size:66 final size:66
Alignment explanation
Indices: 17048464--17048612 Score: 264
Period size: 66 Copynumber: 2.3 Consensus size: 66
17048454 ACGAGATTAT
* *
17048464 ATGA-TATGTGGTTGCTATGCAAATTATCTTAAAATGTATATATGTGTAATGTGATGTATGCCTA
1 ATGAGTATGTGGTTGCTATGCAAATTATCTTAAAATGTATATATGTGTAAGGTAATGTATGCCTA
17048528 A
66 A
*
17048529 ATGAGTATGTGGTTGCTATTCAAATTATCTTAAAATGTATATATGTGTAAGGTAATGTATGCCTA
1 ATGAGTATGTGGTTGCTATGCAAATTATCTTAAAATGTATATATGTGTAAGGTAATGTATGCCTA
17048594 A
66 A
17048595 ATGAGTATGTGGTTGCTA
1 ATGAGTATGTGGTTGCTA
17048613 ACACCTCCTT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
65 4 0.05
66 76 0.95
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.40
Consensus pattern (66 bp):
ATGAGTATGTGGTTGCTATGCAAATTATCTTAAAATGTATATATGTGTAAGGTAATGTATGCCTA
A
Found at i:17055297 original size:17 final size:18
Alignment explanation
Indices: 17055264--17055297 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17055254 ATTTACTTTT
*
17055264 CTTGGAATTTAATTTTCC
1 CTTGGAAGTTAATTTTCC
17055282 CTTGGAAGTT-ATTTTC
1 CTTGGAAGTTAATTTTC
17055298 TTATAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.21, C:0.15, G:0.15, T:0.50
Consensus pattern (18 bp):
CTTGGAAGTTAATTTTCC
Found at i:17055839 original size:19 final size:20
Alignment explanation
Indices: 17055815--17055853 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
17055805 TCGAACATAT
*
17055815 ATATTTTTAA-CATTTTAGA
1 ATATTTTTAATCATATTAGA
17055834 ATATTTTTAATCATATTAGA
1 ATATTTTTAATCATATTAGA
17055854 CAAATTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (20 bp):
ATATTTTTAATCATATTAGA
Found at i:17057695 original size:51 final size:52
Alignment explanation
Indices: 17057575--17057703 Score: 172
Period size: 51 Copynumber: 2.5 Consensus size: 52
17057565 ACTAGTGACT
17057575 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
* * * * *
17057627 CAATTGTGGTACCATGTGAAGGTCAGTTTGTGAAG-AAGGTAGCTTTGG-CTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTC-A
* *
17057678 CAAGGGTGGTACTATGTGCAGGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
17057704 CAGGTATCCG
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
50 1 0.02
51 33 0.51
52 31 0.48
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (52 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
Found at i:17064574 original size:24 final size:25
Alignment explanation
Indices: 17064542--17064590 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
17064532 CAAAGTTTAA
*
17064542 ATTTTTTTC-AAGTATGTTTTAATC
1 ATTTCTTTCAAAGTATGTTTTAATC
17064566 ATTTCTTTCATAAGTATGTTTTAAT
1 ATTTCTTTCA-AAGTATGTTTTAAT
17064591 AAATGAATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.36
26 14 0.64
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.57
Consensus pattern (25 bp):
ATTTCTTTCAAAGTATGTTTTAATC
Found at i:17065417 original size:39 final size:39
Alignment explanation
Indices: 17065363--17065447 Score: 134
Period size: 39 Copynumber: 2.2 Consensus size: 39
17065353 TCAACATTGT
17065363 GATTGTTTGCTTGATTGATAGGAAATTATGTTGAATAAA
1 GATTGTTTGCTTGATTGATAGGAAATTATGTTGAATAAA
* * *
17065402 GATTGTTTTCTTGATTGATAGGAAATTCTGTTGATTAAA
1 GATTGTTTGCTTGATTGATAGGAAATTATGTTGAATAAA
*
17065441 GAATGTT
1 GATTGTT
17065448 ATTTATGGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.31, C:0.04, G:0.22, T:0.44
Consensus pattern (39 bp):
GATTGTTTGCTTGATTGATAGGAAATTATGTTGAATAAA
Found at i:17073913 original size:52 final size:51
Alignment explanation
Indices: 17073835--17073954 Score: 195
Period size: 52 Copynumber: 2.3 Consensus size: 51
17073825 CTAGTGACTT
*
17073835 AAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTTAC
1 AAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAG-TAGCTTTGGCTAC
* *
17073887 AAGTGTGGTACTATGTGAAGGTCACTTTGTGAAGAATGTAGCTTTGGCTAC
1 AAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGTAGCTTTGGCTAC
*
17073938 AAGGGTGGTACTATGTG
1 AAGTGTGGTACTATGTG
17073955 TGGGCCACCG
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
51 28 0.44
52 36 0.56
ACGTcount: A:0.27, C:0.11, G:0.31, T:0.32
Consensus pattern (51 bp):
AAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGTAGCTTTGGCTAC
Found at i:17082663 original size:16 final size:16
Alignment explanation
Indices: 17082642--17082676 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
17082632 GTGTACTACC
17082642 CTTGTATCCATCGATA
1 CTTGTATCCATCGATA
17082658 CTTGTATCCATCGATA
1 CTTGTATCCATCGATA
17082674 CTT
1 CTT
17082677 TAAATGATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.23, C:0.26, G:0.11, T:0.40
Consensus pattern (16 bp):
CTTGTATCCATCGATA
Found at i:17084953 original size:17 final size:17
Alignment explanation
Indices: 17084931--17084964 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
17084921 TTGGTTGATC
17084931 GAGCTTA-TAAAGCAGAA
1 GAGCTTAGTAAAG-AGAA
17084948 GAGCTTAGTAAAGAGAA
1 GAGCTTAGTAAAGAGAA
17084965 AAGACAAGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.47, C:0.09, G:0.26, T:0.18
Consensus pattern (17 bp):
GAGCTTAGTAAAGAGAA
Found at i:17085895 original size:179 final size:179
Alignment explanation
Indices: 17085588--17085928 Score: 610
Period size: 179 Copynumber: 1.9 Consensus size: 179
17085578 CCACTAAATT
* *
17085588 ACCCCCTAGGCCGGTACGTGATGGTGGATAAAATTTGTAAGAATTGTCCGTTAATGATACGGGGT
1 ACCCCCTAGCCCGGTACGTGATGGTGGATAAAATTTGTAAGAATTGTCCGTTAATGATACAGGGT
* *
17085653 TATTGTTTCCCGGTTGATTTAATATTATTACCATTTAATGAATTTGATATGATTCTAGGTATGGA
66 TATTGTTTCCCAGTTGATTTAATAATATTACCATTTAATGAATTTGATATGATTCTAGGTATGGA
*
17085718 CTAGTTAACTCAACATGATGTTGTGGTAAATTTGTGGTTAAAGTATCAA
131 CTAGTTAACTCAACATGATGCTGTGGTAAATTTGTGGTTAAAGTATCAA
17085767 ACCCCCTAGCCCGGTACGTGATGGTGGATAAAATTTGTAAGAATTGTCCGTTAATGATACAGGGT
1 ACCCCCTAGCCCGGTACGTGATGGTGGATAAAATTTGTAAGAATTGTCCGTTAATGATACAGGGT
* * *
17085832 TATTGTTTCCCAGTTGATTTAATAATATTACCATTTAATGAGTTTGATGTGATTCTGGGTATGGA
66 TATTGTTTCCCAGTTGATTTAATAATATTACCATTTAATGAATTTGATATGATTCTAGGTATGGA
17085897 CTAGTTAACTCAACATGATGCTGTGGTAAATT
131 CTAGTTAACTCAACATGATGCTGTGGTAAATT
17085929 GAAAGCAAAA
Statistics
Matches: 154, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
179 154 1.00
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.36
Consensus pattern (179 bp):
ACCCCCTAGCCCGGTACGTGATGGTGGATAAAATTTGTAAGAATTGTCCGTTAATGATACAGGGT
TATTGTTTCCCAGTTGATTTAATAATATTACCATTTAATGAATTTGATATGATTCTAGGTATGGA
CTAGTTAACTCAACATGATGCTGTGGTAAATTTGTGGTTAAAGTATCAA
Found at i:17089862 original size:45 final size:44
Alignment explanation
Indices: 17089759--17089957 Score: 136
Period size: 45 Copynumber: 4.5 Consensus size: 44
17089749 TTGGAAATAT
* * * ** ** *
17089759 AGGTGGATGCTATGTGCTGATTCCACCCGATATTAATGAAAAGAA
1 AGGTGGTTGCTATGTACTGATTTCA-CCGATACCAATGAGTATAA
* *
17089804 AGGTAGTTGCTATGTACTGATTTCACCAGATACCAATG-GTTATAT
1 AGGTGGTTGCTATGTACTGATTTCACC-GATACCAATGAG-TATAA
* * *
17089849 AGGTGGTTCCTATGT-CTTGATTTCACTCTATACCATTGAGTATAA
1 AGGTGGTTGCTATGTAC-TGATTTCAC-CGATACCAATGAGTATAA
* * * * *
17089894 AGGTGGTTGTTATGTATTGATTTCACCGAGTACTATTGACTAT-A
1 AGGTGGTTGCTATGTACTGATTTCACCGA-TACCAATGAGTATAA
* *
17089938 AGG-GGGTGCTATGTGCTGAT
1 AGGTGGTTGCTATGTACTGAT
17089958 CCACCGTGTA
Statistics
Matches: 122, Mismatches: 25, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
43 13 0.11
44 9 0.07
45 98 0.80
46 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.35
Consensus pattern (44 bp):
AGGTGGTTGCTATGTACTGATTTCACCGATACCAATGAGTATAA
Found at i:17092652 original size:24 final size:24
Alignment explanation
Indices: 17092565--17092653 Score: 65
Period size: 24 Copynumber: 3.7 Consensus size: 24
17092555 ACACACCTTA
* *
17092565 GCTCTTATGAGCATCCCGATATAGG
1 GCTCTTATGAGCTTCCCGA-ATATG
*** *
17092590 GCTCTCCGGAGCTTCCTG-ATACTG
1 GCTCTTATGAGCTTCCCGAATA-TG
* *
17092614 GCTCGCT-TGAACTTCCCGAATATG
1 GCTC-TTATGAGCTTCCCGAATATG
17092638 GCTCTTATGAGCTTCC
1 GCTCTTATGAGCTTCC
17092654 TGTTACATAG
Statistics
Matches: 47, Mismatches: 13, Indels: 9
0.68 0.19 0.13
Matches are distributed among these distances:
23 4 0.09
24 27 0.57
25 16 0.34
ACGTcount: A:0.18, C:0.29, G:0.22, T:0.30
Consensus pattern (24 bp):
GCTCTTATGAGCTTCCCGAATATG
Found at i:17092692 original size:26 final size:25
Alignment explanation
Indices: 17092625--17092692 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 25
17092615 CTCGCTTGAA
* **
17092625 CTTCCCG-AATATGGCTCTTATGAG
1 CTTCCCGTTATATGGCTCACATGAG
* * *
17092649 CTTCCTGTTACATAGCTCACATGATG
1 CTTCCCGTTATATGGCTCACATGA-G
17092675 CTTCCCGTTATATGGCTC
1 CTTCCCGTTATATGGCTC
17092693 GAGAGAGAGC
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
24 6 0.18
25 11 0.33
26 16 0.48
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (25 bp):
CTTCCCGTTATATGGCTCACATGAG
Found at i:17100422 original size:18 final size:17
Alignment explanation
Indices: 17100393--17100436 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
17100383 GCGATGTTGT
*
17100393 GAAAAG-AAAGAATGAAA
1 GAAAAGAAAAGAA-CAAA
*
17100410 GAACAGAAAAGAACAAA
1 GAAAAGAAAAGAACAAA
17100427 GAAAAGAAAA
1 GAAAAGAAAA
17100437 TCCAAGAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 17 0.74
18 6 0.26
ACGTcount: A:0.73, C:0.05, G:0.20, T:0.02
Consensus pattern (17 bp):
GAAAAGAAAAGAACAAA
Found at i:17101753 original size:41 final size:41
Alignment explanation
Indices: 17101699--17101812 Score: 174
Period size: 41 Copynumber: 2.8 Consensus size: 41
17101689 TTAATTAAAA
* * *
17101699 CAGATTCAACGGCACATAGCCTGCTAGACTTATAGCCTGATT
1 CAGA-TCACCGGCACGTAGCCTGCTAGACTTATAACCTGATT
**
17101741 CAGATCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACGTAGCCTGCTAGACTTATAACCTGATT
17101782 CAGATCACCGGCACGTAGCCTGCTAGACTTA
1 CAGATCACCGGCACGTAGCCTGCTAGACTTA
17101813 AAGTCTGAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
41 61 0.94
42 4 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (41 bp):
CAGATCACCGGCACGTAGCCTGCTAGACTTATAACCTGATT
Found at i:17103334 original size:17 final size:17
Alignment explanation
Indices: 17103279--17103338 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
17103269 CCAAAAAGTG
* *
17103279 CGAGCTCACCCAGACTG
1 CGAGCTCACCAAGACTA
* *
17103296 CAAGCTCACCAA-ATATA
1 CGAGCTCACCAAGA-CTA
*
17103313 TGAGCTCACCAAGACTA
1 CGAGCTCACCAAGACTA
17103330 CGAGCTCAC
1 CGAGCTCAC
17103339 TAAACTTGAG
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
16 1 0.03
17 31 0.94
18 1 0.03
ACGTcount: A:0.33, C:0.35, G:0.17, T:0.15
Consensus pattern (17 bp):
CGAGCTCACCAAGACTA
Found at i:17104740 original size:53 final size:53
Alignment explanation
Indices: 17104681--17104781 Score: 157
Period size: 53 Copynumber: 1.9 Consensus size: 53
17104671 ATTTTCTTCA
* * **
17104681 TTTTGAAATTGTCCGAAACAGTAAAATTGAATCAAAATTTGGTTTCTTGAATT
1 TTTTGAAATTGTCCGAAACAATAAAATTAAATCAAAATTCAGTTTCTTGAATT
*
17104734 TTTTGAAATTGTCTGAAACAATAAAATTAAATCAAAATTCAGTTTCTT
1 TTTTGAAATTGTCCGAAACAATAAAATTAAATCAAAATTCAGTTTCTT
17104782 TAAAACAGGA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.40
Consensus pattern (53 bp):
TTTTGAAATTGTCCGAAACAATAAAATTAAATCAAAATTCAGTTTCTTGAATT
Found at i:17112500 original size:17 final size:18
Alignment explanation
Indices: 17112471--17112520 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
17112461 TATATTATTC
*
17112471 AATTTTTCA-TTTTAAAT
1 AATTTTTCATTTTTAAAA
17112488 AATTTTT-ATTTTTTAAAA
1 AATTTTTCA-TTTTTAAAA
* *
17112506 AATTTATCATATTTA
1 AATTTTTCATTTTTA
17112521 TAAATAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
16 1 0.04
17 7 0.26
18 18 0.67
19 1 0.04
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (18 bp):
AATTTTTCATTTTTAAAA
Found at i:17113806 original size:10 final size:11
Alignment explanation
Indices: 17113792--17113820 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
17113782 ATATAATTCA
17113792 ATATATTAATT
1 ATATATTAATT
17113803 -TATATTAATT
1 ATATATTAATT
17113813 ATATATTA
1 ATATATTA
17113821 TCTACAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
ATATATTAATT
Found at i:17113985 original size:21 final size:21
Alignment explanation
Indices: 17113918--17113992 Score: 64
Period size: 21 Copynumber: 3.5 Consensus size: 21
17113908 ATAGATTTTA
*
17113918 CAAATGCTTTAACAACGATTT
1 CAAATGTTTTAACAACGATTT
* * *
17113939 CAAATTTTTTTTA-TA-GATTTT
1 CAAA-TGTTTTAACAACGA-TTT
17113960 ACAAATGTTTTAACAACGATTT
1 -CAAATGTTTTAACAACGATTT
*
17113982 CAAATTTTTTA
1 CAAATGTTTTA
17113993 TTAGCATTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
20 2 0.05
21 24 0.59
22 13 0.32
23 2 0.05
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (21 bp):
CAAATGTTTTAACAACGATTT
Found at i:17113991 original size:44 final size:44
Alignment explanation
Indices: 17113894--17113991 Score: 180
Period size: 43 Copynumber: 2.2 Consensus size: 44
17113884 CTAATTTATA
17113894 TCAAATTTTTTTTTATAGATTTTACAAATGCTTTAACAACGATT
1 TCAAATTTTTTTTTATAGATTTTACAAATGCTTTAACAACGATT
*
17113938 TCAAA-TTTTTTTTATAGATTTTACAAATGTTTTAACAACGATT
1 TCAAATTTTTTTTTATAGATTTTACAAATGCTTTAACAACGATT
17113981 TCAAATTTTTT
1 TCAAATTTTTT
17113992 ATTAGCATTA
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
43 42 0.81
44 10 0.19
ACGTcount: A:0.34, C:0.10, G:0.06, T:0.50
Consensus pattern (44 bp):
TCAAATTTTTTTTTATAGATTTTACAAATGCTTTAACAACGATT
Found at i:17124917 original size:62 final size:62
Alignment explanation
Indices: 17124820--17124947 Score: 238
Period size: 62 Copynumber: 2.1 Consensus size: 62
17124810 ATCAATTTTC
*
17124820 AATTAGAAATAGTGATTTCCCCATGTTGTGTAAAATCCGCACTGAAAAAATAGAAAAAAGAA
1 AATTAGAAATAGTGATTTCCCCATGTTGTGTAAAATCCGCACTAAAAAAATAGAAAAAAGAA
*
17124882 AATTAGAAATAGTGATTTCCCCATGTTGTGTAAAATCCGCACTAAAAAAATAGAAAAAATAA
1 AATTAGAAATAGTGATTTCCCCATGTTGTGTAAAATCCGCACTAAAAAAATAGAAAAAAGAA
17124944 AATT
1 AATT
17124948 TTCTCCTATC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.48, C:0.12, G:0.14, T:0.26
Consensus pattern (62 bp):
AATTAGAAATAGTGATTTCCCCATGTTGTGTAAAATCCGCACTAAAAAAATAGAAAAAAGAA
Found at i:17125530 original size:16 final size:16
Alignment explanation
Indices: 17125509--17125563 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
17125499 TGAATTACTG
*
17125509 ATTACAGCTTTATTTC
1 ATTACAGCTCTATTTC
* *
17125525 ATTACAACTCTATTTA
1 ATTACAGCTCTATTTC
17125541 ATTACAGCTCTA-TTC
1 ATTACAGCTCTATTTC
17125556 AATTACAG
1 -ATTACAG
17125564 TGAACCAAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
15 2 0.06
16 31 0.94
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.42
Consensus pattern (16 bp):
ATTACAGCTCTATTTC
Found at i:17135473 original size:40 final size:40
Alignment explanation
Indices: 17135196--17135459 Score: 349
Period size: 40 Copynumber: 6.6 Consensus size: 40
17135186 CGAATGATGT
* * * *
17135196 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
17135236 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
17135276 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
17135314 TCCGAGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
17135355 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
17135395 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
17135435 CCGGGCTATGTCCCAAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
17135460 AACGAGTAGC
Statistics
Matches: 201, Mismatches: 16, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
39 33 0.16
40 158 0.79
41 10 0.05
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:17135490 original size:159 final size:159
Alignment explanation
Indices: 17135196--17135492 Score: 379
Period size: 159 Copynumber: 1.9 Consensus size: 159
17135186 CGAATGATGT
*
17135196 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTG
* * ** *
17135261 TGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGAGTTAAGT
66 TGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAAATCCGAGTTAAAT
17135326 CCCGAAGGCATTTGTGCGAGTTACTATAA
131 CCCGAAGGCATTTGTGCGAGTTACTATAA
* * * *
17135355 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCATT
* * * *
17135418 TGTGCGAGTTACT-ATAACCGGGCTATGTCCCAAAGGCATTTGAACGAG-TAGCTATATCCG-GT
64 TGTGCGAGATACTAAT-ACCGGGCTAAG-CCCAAAGGCATTGGAACGAGTTA-CTAAATCCGAGT
*
17135480 TAAATTCCGAAGG
126 TAAATCCCGAAGG
17135493 TACGTGATTT
Statistics
Matches: 118, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
158 3 0.03
159 84 0.71
160 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (159 bp):
CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTG
TGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAAATCCGAGTTAAAT
CCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:17161816 original size:121 final size:120
Alignment explanation
Indices: 17161613--17161867 Score: 332
Period size: 121 Copynumber: 2.1 Consensus size: 120
17161603 CATAGCATAA
*
17161613 CTATGGTCTTACACATGTAACCCATGTTTAATATCCTAGCGAACTCTCCAATGTTTATTATCTCA
1 CTATGGTCTTACACATGTAACCCATGTTTAATATCCTAGCGAACTCTCCAATGTTTATTATCCCA
* * * * *
17161678 GCAGACTACCCCGTGTTTACTGTCCCGATAGG-CTCTCTATGTTGCCACAGTCAAG
66 ACAGACTACCCCATGTTTACTATCCCGAT-GGACTCCCTATGTTGCCACAGCCAAG
* * * * * *
17161733 CTATGGTCTTACACATGTAACCCCATGTTTAATGTCTTGGCGGACTCTCCCATGTTTATTGTCCC
1 CTATGGTCTTACACATGTAA-CCCATGTTTAATATCCTAGCGAACTCTCCAATGTTTATTATCCC
** * * *
17161798 AATGGACTACCCCATGTTTACTATCTCGATGGACTCCCTATGTTGCGATAGCCAAG
65 AACAGACTACCCCATGTTTACTATCCCGATGGACTCCCTATGTTGCCACAGCCAAG
17161854 CTATGGTCTTACAC
1 CTATGGTCTTACAC
17161868 CTTAAACCTC
Statistics
Matches: 116, Mismatches: 17, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
120 22 0.19
121 94 0.81
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (120 bp):
CTATGGTCTTACACATGTAACCCATGTTTAATATCCTAGCGAACTCTCCAATGTTTATTATCCCA
ACAGACTACCCCATGTTTACTATCCCGATGGACTCCCTATGTTGCCACAGCCAAG
Found at i:17161829 original size:27 final size:26
Alignment explanation
Indices: 17161774--17161841 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
17161764 ATGTCTTGGC
* *
17161774 GGACTCTCCCATGTTTATTGTCCCAAT
1 GGACTC-CCCATGTTTACTATCCCAAT
* *
17161801 GGACTACCCCATGTTTACTATCTCGAT
1 GGACT-CCCCATGTTTACTATCCCAAT
*
17161828 GGACTCCCTATGTT
1 GGACTCCCCATGTT
17161842 GCGATAGCCA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
26 8 0.23
27 26 0.74
28 1 0.03
ACGTcount: A:0.19, C:0.29, G:0.16, T:0.35
Consensus pattern (26 bp):
GGACTCCCCATGTTTACTATCCCAAT
Found at i:17163446 original size:31 final size:31
Alignment explanation
Indices: 17163375--17163786 Score: 452
Period size: 31 Copynumber: 13.3 Consensus size: 31
17163365 CAACCTTTTG
* * * *
17163375 AACCTTTTCATTTGACATCCGTTTCAGATAT
1 AACCTTTTCATTTAATATTCGTTTCGGATAT
* ** *
17163406 AA-CTTTTCATTTGATACCCATTTCGGATAT
1 AACCTTTTCATTTAATATTCGTTTCGGATAT
17163436 AACCTTTTCATTTAATATTCGTTTCGGATAT
1 AACCTTTTCATTTAATATTCGTTTCGGATAT
* ** *
17163467 AACATTTTCATTTGGTA-TCTGTTTCAGATAT
1 AACCTTTTCATTTAATATTC-GTTTCGGATAT
* *
17163498 AACCTTTTCAATTAATATTCATTTCGGATAT
1 AACCTTTTCATTTAATATTCGTTTCGGATAT
* *
17163529 AACCTTTTCTTTTGATATTCGTTTCGGATAT
1 AACCTTTTCATTTAATATTCGTTTCGGATAT
* * * *
17163560 AATCTTTTCAATTAATATTTGTTTCAGATAT
1 AACCTTTTCATTTAATATTCGTTTCGGATAT
* *
17163591 AACCTTTTCATTTAATATTCATTTCGAATAT
1 AACCTTTTCATTTAATATTCGTTTCGGATAT
* ** *
17163622 AACATTTTCATTTGGTA-TCTGTTTCAGATAT
1 AACCTTTTCATTTAATATTC-GTTTCGGATAT
* *
17163653 AACCTTTTCAATTAATATTCATTTCGGATAT
1 AACCTTTTCATTTAATATTCGTTTCGGATAT
* * *
17163684 AACATTTTCTTTTGATATTCGTTTCGGATAT
1 AACCTTTTCATTTAATATTCGTTTCGGATAT
* * *
17163715 AATCTTTTCAATTAATATTTGTTTCGGATAT
1 AACCTTTTCATTTAATATTCGTTTCGGATAT
* * *
17163746 AACCTTTTCATTTTATATACATTTCGGATAT
1 AACCTTTTCATTTAATATTCGTTTCGGATAT
17163777 AACCTTTTCA
1 AACCTTTTCA
17163787 AGAATTCAGT
Statistics
Matches: 313, Mismatches: 63, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
30 30 0.10
31 279 0.89
32 4 0.01
ACGTcount: A:0.28, C:0.16, G:0.09, T:0.48
Consensus pattern (31 bp):
AACCTTTTCATTTAATATTCGTTTCGGATAT
Found at i:17165949 original size:27 final size:27
Alignment explanation
Indices: 17165903--17166044 Score: 182
Period size: 27 Copynumber: 5.3 Consensus size: 27
17165893 GTATGCCATC
*
17165903 AAGGCATTCCTTT-AAAGTCTGCCACG
1 AAGGCATTCCTTTCAAAGTCTGCCACA
17165929 AAGGCATTCCCTTT-AAAGTCTGCCACA
1 AAGGCATT-CCTTTCAAAGTCTGCCACA
* *
17165956 AAGGCATTCCTTTCAGAGT-TCGCCATA
1 AAGGCATTCCTTTCAAAGTCT-GCCACA
*
17165983 AAGGCATTTCTTTCAAAGTCTGCCACA
1 AAGGCATTCCTTTCAAAGTCTGCCACA
* * *
17166010 AAGACATTCCTTTCAGAGTTTGCCACA
1 AAGGCATTCCTTTCAAAGTCTGCCACA
17166037 AAGGCATT
1 AAGGCATT
17166045 TCAATTCATA
Statistics
Matches: 101, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
26 14 0.14
27 86 0.85
28 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (27 bp):
AAGGCATTCCTTTCAAAGTCTGCCACA
Found at i:17166006 original size:54 final size:54
Alignment explanation
Indices: 17165903--17166073 Score: 199
Period size: 54 Copynumber: 3.2 Consensus size: 54
17165893 GTATGCCATC
* * *
17165903 AAGGCATTCCTTT-AAAG-TCTGCCACGAAGGCATTCCCTTT-AAAGTCTGCCACA
1 AAGGCATTCCTTTCAGAGTTC-GCCACAAAGGCATT-TCTTTCAAAGTCTGCCACA
*
17165956 AAGGCATTCCTTTCAGAGTTCGCCATAAAGGCATTTCTTTCAAAGTCTGCCACA
1 AAGGCATTCCTTTCAGAGTTCGCCACAAAGGCATTTCTTTCAAAGTCTGCCACA
* * *
17166010 AAGACATTCCTTTCAGAGTTTGCCACAAAGGCATTTCAATTCATATA-T-TGCCACA
1 AAGGCATTCCTTTCAGAGTTCGCCACAAAGGCATTTC-TTTCA-A-AGTCTGCCACA
17166065 AAGGCATTC
1 AAGGCATTC
17166074 TTTTTTATAT
Statistics
Matches: 103, Mismatches: 9, Indels: 10
0.84 0.07 0.08
Matches are distributed among these distances:
53 17 0.17
54 62 0.60
55 21 0.20
56 2 0.02
57 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (54 bp):
AAGGCATTCCTTTCAGAGTTCGCCACAAAGGCATTTCTTTCAAAGTCTGCCACA
Found at i:17166061 original size:28 final size:27
Alignment explanation
Indices: 17165949--17166175 Score: 167
Period size: 28 Copynumber: 8.2 Consensus size: 27
17165939 CTTTAAAGTC
* *
17165949 TGCCACAAAGGCATTCCTTTCAGAGT-T
1 TGCCACAAAGGCATTCATTTCATA-TAT
* *
17165976 CGCCATAAAGGCATTTC-TTTCA-A-AGT
1 TGCCACAAAGGCA-TTCATTTCATATA-T
* * *
17166002 CTGCCACAAAGACATTCCTTTCAGAGT-T
1 -TGCCACAAAGGCATTCATTTCATA-TAT
*
17166030 TGCCACAAAGGCATTTCAATTCATATAT
1 TGCCACAAAGGCA-TTCATTTCATATAT
* *
17166058 TGCCACAAAGGCATTCTTTTTTATATAT
1 TGCCACAAAGGCATTC-ATTTCATATAT
** *
17166086 TGCCATGAAGGCATTCATTTTCATATTT
1 TGCCACAAAGGCATTCA-TTTCATATAT
* * *
17166114 TTCCACAAAGGCATTCATTTTAATATTT
1 TGCCACAAAGGCATTCA-TTTCATATAT
* *
17166142 TGCCACAAAGGCATTTCTTTTTATATAT
1 TGCCACAAAGGCA-TTCATTTCATATAT
17166170 TGCCAC
1 TGCCAC
17166176 GAAAATATTC
Statistics
Matches: 162, Mismatches: 25, Indels: 25
0.76 0.12 0.12
Matches are distributed among these distances:
26 5 0.03
27 47 0.29
28 107 0.66
29 3 0.02
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (27 bp):
TGCCACAAAGGCATTCATTTCATATAT
Found at i:17166075 original size:81 final size:79
Alignment explanation
Indices: 17165903--17166076 Score: 199
Period size: 81 Copynumber: 2.2 Consensus size: 79
17165893 GTATGCCATC
* * **
17165903 AAGGCATTCCTTTAAAGTCTGCCACGAAGGCATTCCCTTTAAAGTCTGCCACAAAGGCATTCCTT
1 AAGGCATT-CTTTAAAGTCTGCCACAAAGACATTCCCTTTAAAGTCTGCCACAAAGGCATTCAAT
*
17165968 TCAGAGTTCGCCATA
65 TCAGAGTTCGCCACA
* *
17165983 AAGGCATTTCTTTCAAAGTCTGCCACAAAGACATT-CCTTTCAGAGTTTGCCACAAAGGCATTTC
1 AAGGCA-TTCTTT-AAAGTCTGCCACAAAGACATTCCCTTT-AAAGTCTGCCACAAAGGCA-TTC
* *
17166047 AATTCATA-TATTGCCACA
62 AATTCAGAGT-TCGCCACA
17166065 AAGGCATTCTTT
1 AAGGCATTCTTT
17166077 TTTATATATT
Statistics
Matches: 80, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
80 15 0.19
81 45 0.56
82 20 0.25
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (79 bp):
AAGGCATTCTTTAAAGTCTGCCACAAAGACATTCCCTTTAAAGTCTGCCACAAAGGCATTCAATT
CAGAGTTCGCCACA
Found at i:17166109 original size:56 final size:56
Alignment explanation
Indices: 17166029--17166175 Score: 188
Period size: 56 Copynumber: 2.6 Consensus size: 56
17166019 CTTTCAGAGT
** * *
17166029 TTGCCACAAAGGCATTTCAATTCATATATTGCCACAAAGGCATTCTTTTTTATATA
1 TTGCCACAAAGGCATTTCTTTTCATATATTGCCACAAAGGCATTCATTTTAATATA
** * * *
17166085 TTGCCATGAAGGCA-TTCATTTTCATATTTTTCCACAAAGGCATTCATTTTAATATT
1 TTGCCACAAAGGCATTTC-TTTTCATATATTGCCACAAAGGCATTCATTTTAATATA
*
17166141 TTGCCACAAAGGCATTTCTTTTTATATATTGCCAC
1 TTGCCACAAAGGCATTTCTTTTCATATATTGCCAC
17166176 GAAAATATTC
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
55 3 0.04
56 69 0.92
57 3 0.04
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (56 bp):
TTGCCACAAAGGCATTTCTTTTCATATATTGCCACAAAGGCATTCATTTTAATATA
Found at i:17167379 original size:41 final size:40
Alignment explanation
Indices: 17167334--17167435 Score: 141
Period size: 41 Copynumber: 2.5 Consensus size: 40
17167324 TGATTCAGTA
17167334 CACCGGCACTTAGCCTGCTAGACATATAGTCTGAAATATTT
1 CACCGGCA-TTAGCCTGCTAGACATATAGTCTGAAATATTT
* * *
17167375 CACCGGCATTAAGCCTGCTAGACATTTAGTCTGAAGTGTTT
1 CACCGGCATT-AGCCTGCTAGACATATAGTCTGAAATATTT
*
17167416 CACCGGCAATAAGCCTGCTA
1 CACCGGC-ATTAGCCTGCTA
17167436 AGCGCTAAGC
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
40 2 0.04
41 51 0.93
42 2 0.04
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (40 bp):
CACCGGCATTAGCCTGCTAGACATATAGTCTGAAATATTT
Found at i:17167450 original size:41 final size:41
Alignment explanation
Indices: 17167334--17167450 Score: 112
Period size: 41 Copynumber: 2.9 Consensus size: 41
17167324 TGATTCAGTA
* * * * *
17167334 CACCGGCACTTAGCCTGCTAGACA-TATAGTCTGAAATATTT
1 CACCGGCAATAAGCCTGCTAGACACTA-AGCCTGAAGTGTTT
* * * *
17167375 CACCGGCATTAAGCCTGCTAGACATTTAGTCTGAAGTGTTT
1 CACCGGCAATAAGCCTGCTAGACACTAAGCCTGAAGTGTTT
*
17167416 CACCGGCAATAAGCCTGCTA-AGCGCTAAGCCTGAA
1 CACCGGCAATAAGCCTGCTAGA-CACTAAGCCTGAA
17167451 AATCTCAATT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
40 1 0.02
41 62 0.97
42 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (41 bp):
CACCGGCAATAAGCCTGCTAGACACTAAGCCTGAAGTGTTT
Found at i:17173759 original size:41 final size:40
Alignment explanation
Indices: 17173714--17173815 Score: 141
Period size: 41 Copynumber: 2.5 Consensus size: 40
17173704 TGATTCAGTA
17173714 CACCGGCACTTAGCCTGCTAGACATATAGTCTGAAATATTT
1 CACCGGCA-TTAGCCTGCTAGACATATAGTCTGAAATATTT
* * *
17173755 CACCGGCATTAAGCCTGCTAGACATTTAGTCTGAAGTGTTT
1 CACCGGCATT-AGCCTGCTAGACATATAGTCTGAAATATTT
*
17173796 CACCGGCAATAAGCCTGCTA
1 CACCGGC-ATTAGCCTGCTA
17173816 AGCGCTAAGC
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
40 2 0.04
41 51 0.93
42 2 0.04
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (40 bp):
CACCGGCATTAGCCTGCTAGACATATAGTCTGAAATATTT
Found at i:17173830 original size:41 final size:41
Alignment explanation
Indices: 17173714--17173830 Score: 112
Period size: 41 Copynumber: 2.9 Consensus size: 41
17173704 TGATTCAGTA
* * * * *
17173714 CACCGGCACTTAGCCTGCTAGACA-TATAGTCTGAAATATTT
1 CACCGGCAATAAGCCTGCTAGACACTA-AGCCTGAAGTGTTT
* * * *
17173755 CACCGGCATTAAGCCTGCTAGACATTTAGTCTGAAGTGTTT
1 CACCGGCAATAAGCCTGCTAGACACTAAGCCTGAAGTGTTT
*
17173796 CACCGGCAATAAGCCTGCTA-AGCGCTAAGCCTGAA
1 CACCGGCAATAAGCCTGCTAGA-CACTAAGCCTGAA
17173831 AATCTCAATT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
40 1 0.02
41 62 0.97
42 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (41 bp):
CACCGGCAATAAGCCTGCTAGACACTAAGCCTGAAGTGTTT
Found at i:17174944 original size:13 final size:13
Alignment explanation
Indices: 17174926--17174950 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17174916 CAATCAAATG
17174926 CACACAAAATAAA
1 CACACAAAATAAA
17174939 CACACAAAATAA
1 CACACAAAATAA
17174951 TATTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Done.