Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 59 of 187
Found at i:17610588 original size:41 final size:41
Alignment explanation
Indices: 17610351--17610578 Score: 390
Period size: 41 Copynumber: 5.6 Consensus size: 41
17610341 TGATTCAGTA
17610351 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCA-TTAAGCCTGCTAGACATATAGTCTGAAATGTAT
17610392 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
17610433 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
17610474 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
* *
17610515 CACCGGCATTAAGCCTGCTAGACTTAAAGTCTG-AAT-TACTT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA--T
17610556 CACCGGCATTAAGCCTGCTAGAC
1 CACCGGCATTAAGCCTGCTAGAC
17610579 GTAACGTCTG
Statistics
Matches: 182, Mismatches: 2, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
39 2 0.01
40 5 0.03
41 175 0.96
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.26
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
Found at i:17620890 original size:26 final size:26
Alignment explanation
Indices: 17620859--17620911 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
17620849 TTGAAAGATT
*
17620859 ATAAAAATTATTATGGTGTAAATAGG
1 ATAAAAATTATTATAGTGTAAATAGG
* *
17620885 ATAAAAATTATTGTAGTGTAAGTAGG
1 ATAAAAATTATTATAGTGTAAATAGG
17620911 A
1 A
17620912 ATTTAGAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (26 bp):
ATAAAAATTATTATAGTGTAAATAGG
Found at i:17629422 original size:67 final size:67
Alignment explanation
Indices: 17629313--17629449 Score: 247
Period size: 67 Copynumber: 2.0 Consensus size: 67
17629303 CCAAAGTTTT
* *
17629313 AGAAGCGTGGATGATTTCTAGTTATCGTTGCGACTTCAGTGTGGGAGTTGAGTAGTTATTGTGAT
1 AGAAGCGCGGATGATTTCTAGTTATCGTTGCGACTTCAGTGTGGGAGTTGAGTAGCTATTGTGAT
17629378 GA
66 GA
*
17629380 AGAAGCGCGGATGATTTCTAGTTATCGTTGCGACTTCGGTGTGGGAGTTGAGTAGCTATTGTGAT
1 AGAAGCGCGGATGATTTCTAGTTATCGTTGCGACTTCAGTGTGGGAGTTGAGTAGCTATTGTGAT
17629445 GA
66 GA
17629447 AGA
1 AGA
17629450 TGCCGAAAGT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.23, C:0.10, G:0.34, T:0.34
Consensus pattern (67 bp):
AGAAGCGCGGATGATTTCTAGTTATCGTTGCGACTTCAGTGTGGGAGTTGAGTAGCTATTGTGAT
GA
Found at i:17633467 original size:56 final size:50
Alignment explanation
Indices: 17633366--17633524 Score: 205
Period size: 51 Copynumber: 3.0 Consensus size: 50
17633356 TAATATAAAA
17633366 TTTAAATTTATTATTATATTTTTTGAAAATATTTATTTATTTTTATATAGT
1 TTTAAATTTATTATTATATTTTTTGAAAATATTTATTTATTTTTATATA-T
17633417 TTTAAATTTTATATATTACTATTTTTTGTCAACAATA-TTATTT-TTATTTATATAT
1 TTTAAA-TTTAT-TATTA-TATTTTTTG--AA-AATATTTATTTATT-TTTATATAT
* *
17633472 ATTAAATTTATTATTATATTTTTTGAAAAATATTTATGTATTTTTATATAT
1 TTTAAATTTATTATTATATTTTTTG-AAAATATTTATTTATTTTTATATAT
17633523 TT
1 TT
17633525 ATTTGAATTT
Statistics
Matches: 95, Mismatches: 4, Indels: 18
0.81 0.03 0.15
Matches are distributed among these distances:
50 4 0.04
51 23 0.24
52 16 0.17
53 10 0.11
54 14 0.15
55 8 0.08
56 16 0.17
57 4 0.04
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (50 bp):
TTTAAATTTATTATTATATTTTTTGAAAATATTTATTTATTTTTATATAT
Found at i:17633972 original size:22 final size:22
Alignment explanation
Indices: 17633931--17633987 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
17633921 AATCTTCAAG
17633931 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
17633950 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
17633972 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
17633988 GATTTAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.37
22 22 0.63
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.33
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:17634233 original size:23 final size:23
Alignment explanation
Indices: 17634189--17634233 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
17634179 TCTTATTTTG
* *
17634189 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
17634212 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
17634234 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:17634723 original size:23 final size:22
Alignment explanation
Indices: 17634693--17634736 Score: 79
Period size: 23 Copynumber: 2.0 Consensus size: 22
17634683 ATAATTCACA
17634693 TACATATATATATTTCTTATATG
1 TACATATATATATTT-TTATATG
17634716 TACATATATATATTTTTATAT
1 TACATATATATATTTTTATAT
17634737 TTTATAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (22 bp):
TACATATATATATTTTTATATG
Found at i:17638683 original size:128 final size:128
Alignment explanation
Indices: 17638450--17638751 Score: 419
Period size: 128 Copynumber: 2.4 Consensus size: 128
17638440 AAAAAGAACN
* * * *
17638450 ATTTAAGCCACAAGTCCTATGTCCCTGGTCAGTAGTGGAATAGGTTGGAGATTACAGATCTTGTC
1 ATTTAAGCCACAAGTCCTATGTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTGGTC
** * *
17638515 TCCCTAAGCTGTAGCGGAGCAGATCAAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGTAG
66 TCCCTAAGCAATAGCGGAGCAGATCAAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAG
* * *
17638578 ATTTAAGCCACAAGTCTTATGTCCCTAGTTAGCAGTGGAATAGGTTAGAAATTACAGATCTGGTC
1 ATTTAAGCCACAAGTCCTATGTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTGGTC
* * *
17638643 TTCCTAAGCAATAGCAGG-GCAGATTAAAGACGGCGGATCTTATCTTCAAGAGTAAGGAAGCAG
66 TCCCTAAGCAATAGC-GGAGCAGATCAAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAG
** *
17638706 ATTTAAGCCGTGAA-TCCTATTTCCCTGGTCAGCAGTGGAATAGGTT
1 ATTTAAGCC-ACAAGTCCTATGTCCCTGGTCAGCAGTGGAATAGGTT
17638752 GAAGATTGTG
Statistics
Matches: 152, Mismatches: 20, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
128 148 0.97
129 4 0.03
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (128 bp):
ATTTAAGCCACAAGTCCTATGTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTGGTC
TCCCTAAGCAATAGCGGAGCAGATCAAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAG
Found at i:17638787 original size:44 final size:44
Alignment explanation
Indices: 17638715--17638855 Score: 246
Period size: 44 Copynumber: 3.2 Consensus size: 44
17638705 GATTTAAGCC
* *
17638715 GTGAATCCTATTTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
1 GTGAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
*
17638759 GTGAGTCCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATT
1 GTGAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
*
17638803 GTAAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
1 GTGAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
17638847 GTGAGTCCT
1 GTGAGTCCT
17638856 NNNNNNNNNN
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 91 1.00
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.31
Consensus pattern (44 bp):
GTGAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
Found at i:17640812 original size:14 final size:15
Alignment explanation
Indices: 17640786--17640818 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
17640776 TCCCAAGCTG
*
17640786 GGAAGGACCTTATGT
1 GGAAGGACCTTATCT
17640801 GGAAGG-CCTTATCT
1 GGAAGGACCTTATCT
17640815 GGAA
1 GGAA
17640819 AAGCATCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.24
Consensus pattern (15 bp):
GGAAGGACCTTATCT
Found at i:17642645 original size:44 final size:44
Alignment explanation
Indices: 17642280--17642624 Score: 539
Period size: 44 Copynumber: 7.8 Consensus size: 44
17642270 CGAATATACT
* ** * *
17642280 AGTCCTTTCTCCCTGGAAAGCAGTGGAATAGGTTGAAGATTATA
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
17642324 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
* *
17642368 AGTCCTATCTCCTTGGTCAGCATTGGAATAGGTTGAAGATTGTG
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
*
17642412 AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
* *
17642456 AGTCCTATCTCCTTGGTCAGCATTGGAATAGGTTGAAGATTGTG
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
*
17642500 AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
*
17642544 AGTCCTATCTCCCTGGTCAACAGTGGAATAGGTTGAAGATTGTG
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
* * *
17642588 AATCTTATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAA
1 AGTCCTATCTCCCTG-GTCAGCAGTGGAATAGGTTGAA
17642625 AATTACAGAT
Statistics
Matches: 278, Mismatches: 22, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
44 277 1.00
45 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (44 bp):
AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
Found at i:17642685 original size:132 final size:132
Alignment explanation
Indices: 17642287--17642676 Score: 369
Period size: 132 Copynumber: 3.0 Consensus size: 132
17642277 ACTAGTCCTT
* *
17642287 TCTCCCTGG-AAAGCAGTGGAATAGGTTGAAGATTAT-AAGTCCTATCTCCCTGGTCAGCAGTGG
1 TCTCCCTGGTCAA-CAGTGGAATAGGTTGAAGATTGTGAA-TCCTATCTCCCTGGTCAGCAGTGG
* ** * * * * * * ** **
17642350 AATAGGTTGAAGATTGTGAGTCCTATCTCCTTGGTCAGCATTGGAATAGGTTGAAGATTGTGA-A
64 AATAGGTTGAAAATTCAGAATCCTATCTCCCTAGTCAGCAGTGGAACAGATCAAAGACGGTGAGA
17642414 TCCTA
129 -CCTA
* * * *
17642419 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCTTGGTCAGCATTGGAA
1 TCTCCCTGGTCAACAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAA
* ** * * * ** ** *
17642484 TAGGTTGAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCC
66 TAGGTTGAAAATTCAGAATCCTATCTCCCTAGTCAGCAGTGGAACAGATCAAAGACGGTGAGACC
17642549 TA
131 TA
*
17642551 TCTCCCTGGTCAACAGTGGAATAGGTTGAAGATTGTGAATCTTATCTCCCTGAG-CAGCAGTGGA
1 TCTCCCTGGTCAACAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCTG-GTCAGCAGTGGA
* * * *
17642615 GTAGGTTGAAAATTACAG-ATCTTATCTCCCTAAG-CAGTAGTGGAGCAGATCAAAGACGGTGA
65 ATAGGTTGAAAATT-CAGAATCCTATCTCCCT-AGTCAGCAGTGGAACAGATCAAAGACGGTGA
17642677 ACATTATCTT
Statistics
Matches: 223, Mismatches: 29, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
132 218 0.98
133 5 0.02
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.29
Consensus pattern (132 bp):
TCTCCCTGGTCAACAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAA
TAGGTTGAAAATTCAGAATCCTATCTCCCTAGTCAGCAGTGGAACAGATCAAAGACGGTGAGACC
TA
Found at i:17643421 original size:17 final size:17
Alignment explanation
Indices: 17643399--17643450 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
17643389 ATGAAAACAT
* *
17643399 AATCTTCAAGGATATGC
1 AATCTTAAAAGATATGC
*
17643416 AATCTTAGATATGATATGC
1 AATCTTA-A-AAGATATGC
17643435 AATCTTAAAAGATATG
1 AATCTTAAAAGATATG
17643451 ATATGCAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 13 0.43
18 2 0.07
19 15 0.50
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (17 bp):
AATCTTAAAAGATATGC
Found at i:17643450 original size:22 final size:21
Alignment explanation
Indices: 17643409--17643485 Score: 122
Period size: 22 Copynumber: 3.7 Consensus size: 21
17643399 AATCTTCAAG
17643409 GATATGCAATCTT--AGATAT
1 GATATGCAATCTTAAAGATAT
17643428 GATATGCAATCTTAAAAGATAT
1 GATATGCAATCTT-AAAGATAT
17643450 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTA-AAGATAT
17643472 GATATGCAATCTTA
1 GATATGCAATCTTA
17643486 TATACTCTTT
Statistics
Matches: 54, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.24
21 1 0.02
22 40 0.74
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (21 bp):
GATATGCAATCTTAAAGATAT
Found at i:17643768 original size:37 final size:37
Alignment explanation
Indices: 17643692--17643772 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 37
17643682 CATACATACG
*
17643692 TTTTATAATATATACATATACGTACACATTTTTTAATT
1 TTTTATAATATATACATATACG-ACACATTTTATAATT
* *
17643730 TTTTATAA-ATATATATATAC-ACATACTTTTATATATT
1 TTTTATAATATATACATATACGACACA-TTTTATA-ATT
17643767 TTTTAT
1 TTTTAT
17643773 GTTTCATAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
35 4 0.11
36 6 0.16
37 20 0.53
38 8 0.21
ACGTcount: A:0.37, C:0.09, G:0.01, T:0.53
Consensus pattern (37 bp):
TTTTATAATATATACATATACGACACATTTTATAATT
Found at i:17647693 original size:42 final size:41
Alignment explanation
Indices: 17647634--17648001 Score: 294
Period size: 43 Copynumber: 8.6 Consensus size: 41
17647624 TTATTTTTAT
* * * *
17647634 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGAGCTACGAAAA
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGAGCTTC-CAAC
* * * * * *
17647676 AAACGCCGCTAAAGGTCAGGGTCTTTAGCGGCGTTTTCCTAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGAG-CTTCCAAC
*
17647718 AAACGCCGCTAAAGATCATGTTCTTTAGC-GACGCTTTTTCAAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGA-GC--TTCCAAC
* *
17647761 AAACGCCGCTAAAGATCATGTTCTTTAGCGGAGCTTTTTCTAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGAGC--TTCCAAC
* * *
17647804 AAACGCCGCTAAAGATCATGTTATTTAGCAGCGCTTTTTCC-AC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGAGC---TTCCAAC
* * *
17647847 AAACGCCGCTAAAGATCATGTTCCTTAGCAGCGCTTTTTCC-AC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGAGC---TTCCAAC
* * *
17647890 AAACGCCGCTGAAGATCATGTTCTTTAACGGCGCTTTTTCC-AC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGAGC---TTCCAAC
* * **
17647933 AAACGCCGCTAAAGATAATGTTCTTTAGCGGCGCTTCTTCCGC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGAGCTTC--CAAC
* *
17647976 AAACGCCACTAAAGGTCATGTTCTTT
1 AAACGCCGCTAAAGATCATGTTCTTT
17648002 TAGCAGCGTT
Statistics
Matches: 284, Mismatches: 33, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
40 3 0.01
41 1 0.00
42 59 0.21
43 214 0.75
44 7 0.02
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (41 bp):
AAACGCCGCTAAAGATCATGTTCTTTAGCGGAGCTTCCAAC
Found at i:17647773 original size:43 final size:43
Alignment explanation
Indices: 17647676--17648022 Score: 429
Period size: 43 Copynumber: 8.1 Consensus size: 43
17647666 GCTACGAAAA
* * * *
17647676 AAACGCCGCTAAAGGTCAGGGTCTTTAGCG--GCGTTTTCCTAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTTTTTCC-AC
*
17647718 AAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTTTTTCAAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTTTTTCCAC
*
17647761 AAACGCCGCTAAAGATCATGTTCTTTAGCGGA-GCTTTTTCTAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGC-GACGCTTTTTCCAC
*
17647804 AAACGCCGCTAAAGATCATGTTATTTAGC-AGCGCTTTTTCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGA-CGCTTTTTCCAC
*
17647847 AAACGCCGCTAAAGATCATGTTCCTTAGC-AGCGCTTTTTCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGA-CGCTTTTTCCAC
* * *
17647890 AAACGCCGCTGAAGATCATGTTCTTTAACGGCGCTTTTTCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTTTTTCCAC
* * * *
17647933 AAACGCCGCTAAAGATAATGTTCTTTAGCGGCGCTTCTTCCGC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTTTTTCCAC
* * *
17647976 AAACGCCACTAAAGGTCATGTTCTTTTAGC-A-GCGTTTTTACAC
1 AAACGCCGCTAAAGATCATGTTC-TTTAGCGACGC-TTTTTCCAC
17648019 AAAC
1 AAAC
17648023 ACAGCTATTT
Statistics
Matches: 271, Mismatches: 26, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
41 1 0.00
42 29 0.11
43 226 0.83
44 15 0.06
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTTTTTCCAC
Found at i:17647823 original size:86 final size:86
Alignment explanation
Indices: 17647634--17648001 Score: 458
Period size: 86 Copynumber: 4.3 Consensus size: 86
17647624 TTATTTTTAT
* **** * * * *
17647634 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGA-GC-TACGAAAAAAACGCCGCTAAAGGTCAGGG
1 AAACGCCGCTAAAGATCATGTTCTTTAGC-GACGCTTTTTCAACAAACGCCGCTAAAGATCATGT
17647697 TCTTTAGCGGCG--TTTTCCTAC
65 TCTTTAGCGGCGCTTTTTCC-AC
17647718 AAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTTTTTCAACAAACGCCGCTAAAGATCATGTT
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTTTTTCAACAAACGCCGCTAAAGATCATGTT
* *
17647783 CTTTAGCGGAGCTTTTTCTAC
66 CTTTAGCGGCGCTTTTTCCAC
* *
17647804 AAACGCCGCTAAAGATCATGTTATTTAGC-AGCGCTTTTTCCACAAACGCCGCTAAAGATCATGT
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGA-CGCTTTTTCAACAAACGCCGCTAAAGATCATGT
* *
17647868 TCCTTAGCAGCGCTTTTTCCAC
65 TCTTTAGCGGCGCTTTTTCCAC
* * * * *
17647890 AAACGCCGCTGAAGATCATGTTCTTTAACGGCGCTTTTTCCACAAACGCCGCTAAAGATAATGTT
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTTTTTCAACAAACGCCGCTAAAGATCATGTT
* *
17647955 CTTTAGCGGCGCTTCTTCCGC
66 CTTTAGCGGCGCTTTTTCCAC
* *
17647976 AAACGCCACTAAAGGTCATGTTCTTT
1 AAACGCCGCTAAAGATCATGTTCTTT
17648002 TAGCAGCGTT
Statistics
Matches: 249, Mismatches: 29, Indels: 10
0.86 0.10 0.03
Matches are distributed among these distances:
83 2 0.01
84 30 0.12
85 33 0.13
86 179 0.72
87 5 0.02
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (86 bp):
AAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTTTTTCAACAAACGCCGCTAAAGATCATGTT
CTTTAGCGGCGCTTTTTCCAC
Found at i:17647882 original size:129 final size:128
Alignment explanation
Indices: 17647634--17648022 Score: 482
Period size: 129 Copynumber: 3.0 Consensus size: 128
17647624 TTATTTTTAT
* **** * * * *
17647634 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGAGC-TACGAAAAAAACGCCGCTAAAGGTCAGGGT
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGAGCTTTTTCAACAAACGCCGCTAAAGATCATGTT
*
17647698 CTTTAGCG-GCGTTTTCCTACAAACGCCGCTAAAGATCATGTTCTTTAGC-GACGCTTTTTCAAC
66 CTTTAGCGCGCTTTTTCC-ACAAACGCCGCTAAAGATCATGTTCTTTAGCAG-CGCTTTTTCAAC
*
17647761 AAACGCCGCTAAAGATCATGTTCTTTAGCGGAGCTTTTTCTACAAACGCCGCTAAAGATCATGTT
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGAGCTTTTTCAACAAACGCCGCTAAAGATCATGTT
* * *
17647826 ATTTAGCAGCGCTTTTTCCACAAACGCCGCTAAAGATCATGTTCCTTAGCAGCGCTTTTTCCAC
66 CTTTAGC-GCGCTTTTTCCACAAACGCCGCTAAAGATCATGTTCTTTAGCAGCGCTTTTTCAAC
* * * * *
17647890 AAACGCCGCTGAAGATCATGTTCTTTAACGGCGCTTTTTCCACAAACGCCGCTAAAGATAATGTT
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGAGCTTTTTCAACAAACGCCGCTAAAGATCATGTT
* * * *
17647955 CTTTAGCGGCGCTTCTTCCGCAAACGCCACTAAAGGTCATGTTCTTTTAGCAGCG-TTTTT-ACA
66 CTTTAGC-GCGCTTTTTCCACAAACGCCGCTAAAGATCATGTTC-TTTAGCAGCGCTTTTTCA-A
17648018 C
128 C
17648019 AAAC
1 AAAC
17648023 ACAGCTATTT
Statistics
Matches: 229, Mismatches: 27, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
127 33 0.14
128 27 0.12
129 151 0.66
130 18 0.08
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.29
Consensus pattern (128 bp):
AAACGCCGCTAAAGATCATGTTCTTTAGCGGAGCTTTTTCAACAAACGCCGCTAAAGATCATGTT
CTTTAGCGCGCTTTTTCCACAAACGCCGCTAAAGATCATGTTCTTTAGCAGCGCTTTTTCAAC
Found at i:17648014 original size:86 final size:86
Alignment explanation
Indices: 17647676--17648022 Score: 477
Period size: 86 Copynumber: 4.0 Consensus size: 86
17647666 GCTACGAAAA
* * *
17647676 AAACGCCGCTAAAGGTCAGGGTCTTTAGCGGCG--TTTTCCTACAAACGCCGCTAAAGATCATGT
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTCC-ACAAACGCCGCTAAAGATCATGT
*
17647739 TCTTTAGC-GACGCTTTTTCAAC
65 TCTTTAGCAG-CGCTTTTTCCAC
* *
17647761 AAACGCCGCTAAAGATCATGTTCTTTAGCGGAGCTTTTTCTACAAACGCCGCTAAAGATCATGTT
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGATCATGTT
*
17647826 ATTTAGCAGCGCTTTTTCCAC
66 CTTTAGCAGCGCTTTTTCCAC
* * *
17647847 AAACGCCGCTAAAGATCATGTTCCTTAGCAGCGCTTTTTCCACAAACGCCGCTGAAGATCATGTT
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGATCATGTT
* *
17647912 CTTTAACGGCGCTTTTTCCAC
66 CTTTAGCAGCGCTTTTTCCAC
* * * * *
17647933 AAACGCCGCTAAAGATAATGTTCTTTAGCGGCGCTTCTTCCGCAAACGCCACTAAAGGTCATGTT
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGATCATGTT
*
17647998 CTTTTAGCAGCG-TTTTTACAC
66 C-TTTAGCAGCGCTTTTTCCAC
17648019 AAAC
1 AAAC
17648023 ACAGCTATTT
Statistics
Matches: 232, Mismatches: 26, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
85 29 0.12
86 189 0.81
87 14 0.06
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (86 bp):
AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGATCATGTT
CTTTAGCAGCGCTTTTTCCAC
Found at i:17648491 original size:87 final size:87
Alignment explanation
Indices: 17648389--17648554 Score: 242
Period size: 87 Copynumber: 1.9 Consensus size: 87
17648379 TCTGCTTCCT
* * ** * *
17648389 TCGCTGTAGCGTCTGCTTCTTTCGATGTCGCATCTACTTTAAGTTGTAGCTGGAGTTCTTCATAT
1 TCGCTGCAGCCTCTGCTTCCCTCGATGCCGCATCTACTTTAAGTTGCAGCTGGAGTTCTTCATAT
*
17648454 TTCTTTTGAACCTCTACTTCTC
66 TTCCTTTGAACCTCTACTTCTC
* * *
17648476 TCGCTGCAGCCTCTGCTTCCCTCGCTGCCGCCTCTGCTTTAAGTTGCAGCTGGAGTTCTTCATAT
1 TCGCTGCAGCCTCTGCTTCCCTCGATGCCGCATCTACTTTAAGTTGCAGCTGGAGTTCTTCATAT
17648541 TTCCTTTGAACCTC
66 TTCCTTTGAACCTC
17648555 AACTATGGTC
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
87 69 1.00
ACGTcount: A:0.13, C:0.29, G:0.18, T:0.40
Consensus pattern (87 bp):
TCGCTGCAGCCTCTGCTTCCCTCGATGCCGCATCTACTTTAAGTTGCAGCTGGAGTTCTTCATAT
TTCCTTTGAACCTCTACTTCTC
Found at i:17648511 original size:21 final size:21
Alignment explanation
Indices: 17648464--17648514 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
17648454 TTCTTTTGAA
* *
17648464 CCTCTACTTCTCTCGCTGCAG
1 CCTCTGCTTCCCTCGCTGCAG
*
17648485 CCTCTGCTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCGCTGCAG
17648506 CCTCTGCTT
1 CCTCTGCTT
17648515 TAAGTTGCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.04, C:0.47, G:0.16, T:0.33
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCAG
Found at i:17654040 original size:9 final size:9
Alignment explanation
Indices: 17654026--17654231 Score: 138
Period size: 9 Copynumber: 24.2 Consensus size: 9
17654016 CATCATATAT
17654026 TTATGTAAG
1 TTATGTAAG
17654035 TTATGTAA-
1 TTATGTAAG
* *
17654043 -TAAGTAAA
1 TTATGTAAG
17654051 TTATGTAAG
1 TTATGTAAG
17654060 TTATGT-A-
1 TTATGTAAG
17654067 TTATGTAAG
1 TTATGTAAG
17654076 TTATGTAAG
1 TTATGTAAG
17654085 TTATGT-A-
1 TTATGTAAG
* *
17654092 TTAAGTAAA
1 TTATGTAAG
17654101 TTATGTAAG
1 TTATGTAAG
17654110 TTATGT-A-
1 TTATGTAAG
17654117 TTATGTAAG
1 TTATGTAAG
17654126 TTATGTAAG
1 TTATGTAAG
* **
17654135 TTTTTGT-TT
1 -TTATGTAAG
*
17654144 TTGTGT-A-
1 TTATGTAAG
*
17654151 TTATGTAAC
1 TTATGTAAG
* *
17654160 TTATTTAAT
1 TTATGTAAG
*
17654169 TTATGTAGG
1 TTATGTAAG
17654178 TTATGTATTA-
1 TTATGTA--AG
17654188 TTATGTAAG
1 TTATGTAAG
*
17654197 TTAT-TATG
1 TTATGTAAG
*
17654205 -TA-GGATA-
1 TTATGTA-AG
17654212 TTATGTAAG
1 TTATGTAAG
17654221 TTATGTAAG
1 TTATGTAAG
17654230 TT
1 TT
17654232 TTTGTTTTTT
Statistics
Matches: 156, Mismatches: 22, Indels: 38
0.72 0.10 0.18
Matches are distributed among these distances:
7 31 0.20
8 19 0.12
9 94 0.60
10 12 0.08
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (9 bp):
TTATGTAAG
Found at i:17654054 original size:16 final size:17
Alignment explanation
Indices: 17654030--17654110 Score: 71
Period size: 16 Copynumber: 4.9 Consensus size: 17
17654020 ATATATTTAT
*
17654030 GTAAGTTATGTAA-TAA
1 GTAAATTATGTAAGTAA
*
17654046 GTAAATTATGTAAGTTAT
1 GTAAATTATGTAAG-TAA
*
17654064 GT--ATTATGTAAGTTAT
1 GTAAATTATGTAAG-TAA
* *
17654080 GTAAGTTATGT-ATTAA
1 GTAAATTATGTAAGTAA
17654096 GTAAATTATGTAAGT
1 GTAAATTATGTAAGT
17654111 TATGTATTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
16 40 0.75
17 3 0.06
18 10 0.19
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.43
Consensus pattern (17 bp):
GTAAATTATGTAAGTAA
Found at i:17654058 original size:25 final size:25
Alignment explanation
Indices: 17654026--17654136 Score: 177
Period size: 25 Copynumber: 4.4 Consensus size: 25
17654016 CATCATATAT
*
17654026 TTATGTAAGTTATGTAATAAGTAAA
1 TTATGTAAGTTATGTATTAAGTAAA
* *
17654051 TTATGTAAGTTATGTATTATGTAAG
1 TTATGTAAGTTATGTATTAAGTAAA
17654076 TTATGTAAGTTATGTATTAAGTAAA
1 TTATGTAAGTTATGTATTAAGTAAA
* *
17654101 TTATGTAAGTTATGTATTATGTAAG
1 TTATGTAAGTTATGTATTAAGTAAA
17654126 TTATGTAAGTT
1 TTATGTAAGTT
17654137 TTTGTTTTTG
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 79 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (25 bp):
TTATGTAAGTTATGTATTAAGTAAA
Found at i:17654088 original size:50 final size:50
Alignment explanation
Indices: 17654026--17654136 Score: 213
Period size: 50 Copynumber: 2.2 Consensus size: 50
17654016 CATCATATAT
17654026 TTATGTAAGTTATGTAATAAGTAAATTATGTAAGTTATGTATTATGTAAG
1 TTATGTAAGTTATGTAATAAGTAAATTATGTAAGTTATGTATTATGTAAG
*
17654076 TTATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGTATTATGTAAG
1 TTATGTAAGTTATGTAATAAGTAAATTATGTAAGTTATGTATTATGTAAG
17654126 TTATGTAAGTT
1 TTATGTAAGTT
17654137 TTTGTTTTTG
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 60 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (50 bp):
TTATGTAAGTTATGTAATAAGTAAATTATGTAAGTTATGTATTATGTAAG
Found at i:17654119 original size:16 final size:16
Alignment explanation
Indices: 17654050--17654132 Score: 107
Period size: 16 Copynumber: 5.1 Consensus size: 16
17654040 TAATAAGTAA
17654050 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
17654066 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
*
17654082 AAGTTATGT-A-TTAAGT
1 -A-TTATGTAAGTTATGT
17654098 AAATTATGTAAGTTATGT
1 --ATTATGTAAGTTATGT
17654116 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
17654132 A
1 A
17654133 AGTTTTTGTT
Statistics
Matches: 60, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
16 44 0.73
17 5 0.08
18 11 0.18
ACGTcount: A:0.35, C:0.00, G:0.18, T:0.47
Consensus pattern (16 bp):
ATTATGTAAGTTATGT
Found at i:17654202 original size:12 final size:12
Alignment explanation
Indices: 17654185--17654224 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
17654175 AGGTTATGTA
17654185 TTATTATGTAAG
1 TTATTATGTAAG
*
17654197 TTATTATGTAGG
1 TTATTATGTAAG
*
17654209 ATATTATGTAAG
1 TTATTATGTAAG
17654221 TTAT
1 TTAT
17654225 GTAAGTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (12 bp):
TTATTATGTAAG
Found at i:17655530 original size:21 final size:21
Alignment explanation
Indices: 17655506--17655596 Score: 53
Period size: 21 Copynumber: 4.1 Consensus size: 21
17655496 TATTTTAAAA
*
17655506 AAAATAATGT-ATGATAAATTT
1 AAAATAATGTAATAAT-AATTT
*
17655527 AAAA-CATGTCAATAATAATTT
1 AAAATAATGT-AATAATAATTT
* * *
17655548 AAAATAATATTATATTACATTTT
1 AAAATAATGTAATAATA-A-TTT
17655571 AAAATTATAT-TAATAATAAGTTT
1 AAAA-TA-ATGTAATAATAA-TTT
17655594 AAA
1 AAA
17655597 GGTAATGTCA
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
20 4 0.07
21 18 0.33
22 8 0.15
23 14 0.26
24 8 0.15
25 2 0.04
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.40
Consensus pattern (21 bp):
AAAATAATGTAATAATAATTT
Found at i:17655594 original size:23 final size:22
Alignment explanation
Indices: 17655537--17655596 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 22
17655527 AAAACATGTC
17655537 AATAATAATTTAAAATAATATT
1 AATAATAATTTAAAATAATATT
* *
17655559 -ATATTACATTTTAAAATTATATT
1 AATAATA-A-TTTAAAATAATATT
17655582 AATAATAAGTTTAAA
1 AATAATAA-TTTAAA
17655597 GGTAATGTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
21 5 0.16
22 1 0.03
23 20 0.65
24 5 0.16
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
AATAATAATTTAAAATAATATT
Found at i:17657541 original size:44 final size:45
Alignment explanation
Indices: 17657479--17658420 Score: 268
Period size: 44 Copynumber: 21.6 Consensus size: 45
17657469 GACTGATGCG
* * * * *
17657479 ATCTACTCTACTACAACTTCAGAGAGATAAGATCTATTA-CTTTA
1 ATCTGCTCCACTACAACTTCAGGGAGATAAGATCTATCAGCTTCA
* *
17657523 ATCTGCTCCTCTACAACTTCAGGGAGATAGGAT-TATCAGCTTCA
1 ATCTGCTCCACTACAACTTCAGGGAGATAAGATCTATCAGCTTCA
* ** * *
17657567 ATCTGCTCCACTGCAACCTT-AGGGAGATAAGATCTGCCAACTTCG
1 ATCTGCTCCACTACAA-CTTCAGGGAGATAAGATCTATCAGCTTCA
* * * * * *
17657612 ATCTGCCCCACTGCAACTTCAGGGGGATAAGACCTGCTTA-C-TCA
1 ATCTGCTCCACTACAACTTCAGGGAGATAAGATCT-ATCAGCTTCA
* * ** * * * *
17657656 GTCTGCTCCGCTGTAACCTCAGGGAGATAAGA-CT-T--GATGCG
1 ATCTGCTCCACTACAACTTCAGGGAGATAAGATCTATCAGCTTCA
* ** * * *
17657697 ATCTACT---CTACTGCTTCAGAGAGATAAGATCTATTA-CTTTA
1 ATCTGCTCCACTACAACTTCAGGGAGATAAGATCTATCAGCTTCA
** * * * **
17657738 ATCCACTCCACTGCAACTTCAGGGGGATAGGAT-TATTGGCTTCA
1 ATCTGCTCCACTACAACTTCAGGGAGATAAGATCTATCAGCTTCA
* * * * * *
17657782 ATCTGCTCTACTGCAACCTCAGGGAGATAAGAT-TTTCCATCTTCG
1 ATCTGCTCCACTACAACTTCAGGGAGATAAGATCTAT-CAGCTTCA
* * * * * *
17657827 ATTTG-TCCCACTGCAACTTCAGGGGGATAAGACCTGCTTA-C-TCA
1 ATCTGCT-CCACTACAACTTCAGGGAGATAAGATCT-ATCAGCTTCA
* * * * * * *
17657871 GTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGAT--GCGATCC
1 ATCTGCTCCACTACAACTTCAGGGAGATAAGATCT-ATCAGC-TTCA
* ** * * *
17657916 A-CT-CT--ATTGTAACTTCAGAGAGATAAGATCTATTA-CTTTA
1 ATCTGCTCCACTACAACTTCAGGGAGATAAGATCTATCAGCTTCA
** * *
17657956 ATCCACTCTACTACAACTTCAGGGAGAT-AGAAT-TATCGGCTTCA
1 ATCTGCTCCACTACAACTTCAGGGAGATAAG-ATCTATCAGCTTCA
* * * * ** * *
17658000 ATGTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCG
1 ATCTGCTCCACTACAACTTCAGGGAGATAAGATCTATCAGCTTCA
* * * *
17658045 ATCTG-TCGCACTACAACTTTACGGG-GATAAGACCTGCTTA-C-TCA
1 ATCTGCTC-CACTACAACTTCA-GGGAGATAAGATCT-ATCAGCTTCA
* * * * * * *
17658089 GTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTA--A--TGCG
1 ATCTGCTCCACTACAACTTCAGGGAGATAAGATCTATCAGCTTCA
** * *** * * *
17658130 ATCCACTCTACTGTGACTTCAGAGAGATAAGATCTATTA-CTTTA
1 ATCTGCTCCACTACAACTTCAGGGAGATAAGATCTATCAGCTTCA
* * * *
17658174 ATCCGCTCCACTACAACTTCAGGGAGATAGGAT-TATCGGCTTTA
1 ATCTGCTCCACTACAACTTCAGGGAGATAAGATCTATCAGCTTCA
* * * * ** * *
17658218 ATCAGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCG
1 ATCTGCTCCACTACAACTTCAGGGAGATAAGATCTATCAGCTTCA
* * *
17658263 ATGTG-TCCTACTGCAACTTCAGGGGGATAAGA-CT-T--GCTTACTCA
1 ATCTGCTCC-ACTACAACTTCAGGGAGATAAGATCTATCAGC-T--TCA
* * * * * *
17658307 GTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTA--A--TGCA
1 ATCTGCTCCACTACAACTTCAGGGAGATAAGATCTATCAGCTTCA
** * * * * * * *
17658348 ATCCACTCTAATGCAACTTTAGAGAGATAAGATCTATTA-CTTTA
1 ATCTGCTCCACTACAACTTCAGGGAGATAAGATCTATCAGCTTCA
* *
17658392 ATCTGCTCCACTACAACTTTAGGAAGATA
1 ATCTGCTCCACTACAACTTCAGGGAGATA
17658421 TGATTTGTGG
Statistics
Matches: 654, Mismatches: 189, Indels: 110
0.69 0.20 0.12
Matches are distributed among these distances:
38 16 0.02
39 2 0.00
40 5 0.01
41 93 0.14
42 3 0.00
43 27 0.04
44 360 0.55
45 140 0.21
46 7 0.01
47 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (45 bp):
ATCTGCTCCACTACAACTTCAGGGAGATAAGATCTATCAGCTTCA
Found at i:17657623 original size:45 final size:44
Alignment explanation
Indices: 17657562--17657688 Score: 132
Period size: 45 Copynumber: 2.8 Consensus size: 44
17657552 GGATTATCAG
*
17657562 CTTCAATCTGCTCCACTGCAACCTTAGGGAGATAAGATCTGCCAA
1 CTTC-ATCTGCTCCACTGCAACCTTAGGGAGATAAGACCTGCCAA
* * **
17657607 CTTCGATCTGCCCCACTGCAA-CTTCAGGGGGATAAGACCTGCTTA
1 CTTC-ATCTGCTCCACTGCAACCTT-AGGGAGATAAGACCTGCCAA
* * *
17657652 C-TCAGTCTGCTCCGCTGTAACCTCAGGGAGATAAGAC
1 CTTCA-TCTGCTCCACTGCAACCTTAGGGAGATAAGAC
17657689 TTGATGCGAT
Statistics
Matches: 68, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
43 1 0.01
44 29 0.43
45 38 0.56
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (44 bp):
CTTCATCTGCTCCACTGCAACCTTAGGGAGATAAGACCTGCCAA
Found at i:17658042 original size:218 final size:218
Alignment explanation
Indices: 17657089--17658442 Score: 1995
Period size: 218 Copynumber: 6.2 Consensus size: 218
17657079 TGGTGCTTCG
* * *
17657089 ATCCACTCCACTACAACGTCAGGGAGATAGGATTATCGACTTCAATCTGCTCC-CTTGCAACCTC
1 ATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCAC-TGCAACCTC
* * * * *
17657153 AGGGAGATAACATTTGCCATATTCGATCTGCCCCACTGTAACTTTAGGGGGATAAGACCTGCTTA
65 AGGGAGATAAGATTTGCCATCTTCGATCTGTCCCACTGCAACTTCAGGGGGATAAGACCTGCTTA
*
17657218 CTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTC
130 CTCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTC
17657283 AGAGAGATAAGATCTATTACTTTA
195 AGAGAGATAAGATCTATTACTTTA
* *
17657307 ATCCGCTCTACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTCCACTGCAACCTCA
1 ATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCA
* * * * ** * *
17657372 GGGAGATAATATTTTCCATCTTCAATCTG-CTCCACTACTGCTT-AGGGAGATAAGATCTGCTTA
66 GGGAGATAAGATTTGCCATCTTCGATCTGTC-CCACTGCAACTTCAGGGGGATAAGACCTGCTTA
* ** * * *
17657435 CTCAGTCTTCTCCGCTGTGACCTTAGGGAGATAAGA-CTGATGCGATCTACTCTACTACAACTTC
130 CTCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTC
17657499 AGAGAGATAAGATCTATTACTTTA
195 AGAGAGATAAGATCTATTACTTTA
* * * *
17657523 ATCTGCTCCTCTACAACTTCAGGGAGATAGGATTATCAGCTTCAATCTGCTCCACTGCAACCTTA
1 ATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCA
* * *
17657588 GGGAGATAAGATCTGCCAACTTCGATCTGCCCCACTGCAACTTCAGGGGGATAAGACCTGCTTAC
66 GGGAGATAAGATTTGCCATCTTCGATCTGTCCCACTGCAACTTCAGGGGGATAAGACCTGCTTAC
* * *
17657653 TCAGTCTGCTCCGCTGTAACCTCAGGGAGATAAGACTTGATGCGATCTACTCTACTG---CTTCA
131 TCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCA
17657715 GAGAGATAAGATCTATTACTTTA
196 GAGAGATAAGATCTATTACTTTA
* * * * *
17657738 ATCCACTCCACTGCAACTTCAGGGGGATAGGATTATTGGCTTCAATCTGCTCTACTGCAACCTCA
1 ATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCA
* *
17657803 GGGAGATAAGATTTTCCATCTTCGATTTGTCCCACTGCAACTTCAGGGGGATAAGACCTGCTTAC
66 GGGAGATAAGATTTGCCATCTTCGATCTGTCCCACTGCAACTTCAGGGGGATAAGACCTGCTTAC
* *
17657868 TCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGCGATCCACTCTATTGTAACTTCA
131 TCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCA
17657933 GAGAGATAAGATCTATTACTTTA
196 GAGAGATAAGATCTATTACTTTA
* * * *
17657956 ATCCACTCTACTACAACTTCAGGGAGATAGAATTATCGGCTTCAATGTGCTCCACTGCAACCTCA
1 ATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCA
* * * *
17658021 GGGAGATAAGATTTGCCATCTTCGATCTGTCGCACTACAACTTTACGGGGATAAGACCTGCTTAC
66 GGGAGATAAGATTTGCCATCTTCGATCTGTCCCACTGCAACTTCAGGGGGATAAGACCTGCTTAC
* **
17658086 TCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTAATGCGATCCACTCTACTGTGACTTCA
131 TCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCA
17658151 GAGAGATAAGATCTATTACTTTA
196 GAGAGATAAGATCTATTACTTTA
* *
17658174 ATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTTAATCAGCTCCACTGCAACCTCA
1 ATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCA
* * *
17658239 GGGAGATAAGATTTGCCATCTTCGATGTGTCCTACTGCAACTTCAGGGGGATAAGACTTGCTTAC
66 GGGAGATAAGATTTGCCATCTTCGATCTGTCCCACTGCAACTTCAGGGGGATAAGACCTGCTTAC
* * * *
17658304 TCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTAATGCAATCCACTCTAATGCAACTTTA
131 TCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCA
17658369 GAGAGATAAGATCTATTACTTTA
196 GAGAGATAAGATCTATTACTTTA
* * * * * *
17658392 ATCTGCTCCACTACAACTTTAGGAAGATATGATT-TGTGGCTTAAATCTGCT
1 ATCCGCTCCACTACAACTTCAGGGAGATAGGATTAT-CGGCTTCAATCTGCT
17658443 TCCTTACACT
Statistics
Matches: 1025, Mismatches: 102, Indels: 18
0.90 0.09 0.02
Matches are distributed among these distances:
215 197 0.19
216 142 0.14
217 103 0.10
218 582 0.57
219 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (218 bp):
ATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCA
GGGAGATAAGATTTGCCATCTTCGATCTGTCCCACTGCAACTTCAGGGGGATAAGACCTGCTTAC
TCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCA
GAGAGATAAGATCTATTACTTTA
Found at i:17659436 original size:130 final size:129
Alignment explanation
Indices: 17658425--17659425 Score: 1547
Period size: 129 Copynumber: 7.7 Consensus size: 129
17658415 AAGATATGAT
* *
17658425 TTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTA
1 TTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTA
* * *
17658490 TTGCTTAGGGAGACAGGATCTGTAATTTCCTAACCTATTCCACTGCTGACCAGGGATATAGGAT
66 CTGCTTAGGGAGACAAGATCTGTAATTTCCTAACCTATTCCACTGCTGACCAGGGATATAGGAC
* * *
17658554 TTGTGGCTTAAATCTGTTTCCTTACACTTGAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTA
1 TTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTA
* * * * *
17658619 TTGTTTAGGGAGACAGGATCTGTAATTTTCTAACCTATTCCACTGCTGACCAGGGATATAGGAT
66 CTGCTTAGGGAGACAAGATCTGTAATTTCCTAACCTATTCCACTGCTGACCAGGGATATAGGAC
* * * * * *
17658683 TTGTGGCTTAAATCTGCTTCTTTACACTTGAAGATATGATTCGTCGTCTTCTATTTGCTCTGCTA
1 TTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTA
* * * * * *
17658748 CTGCTTAGGGAGACAAGATTTGTAATTTCCCAACCTATTCAACTACTAACCAGGGATATAGGAA
66 CTGCTTAGGGAGACAAGATCTGTAATTTCCTAACCTATTCCACTGCTGACCAGGGATATAGGAC
*
17658812 TTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCGA
1 TTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTA
17658877 CTGCTTAGGGAGACAAGATCTGTAATTTCCTAACCTATTCCACTGCTGACCAGGGATATAGGAC
66 CTGCTTAGGGAGACAAGATCTGTAATTTCCTAACCTATTCCACTGCTGACCAGGGATATAGGAC
* * *
17658941 TTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTCGCTGTCTTTGATCTGCTCCGCT
1 TTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGA-TTCGCCGTCTTCGATCTGCTCCGCT
* *
17659006 ACTGCTTAGGGAGACAAGATCTGTAATTT-CTCAACCTATTCCACTGCTAAACAGGGATATAGGA
65 ACTGCTTAGGGAGACAAGATCTGTAATTTCCT-AACCTATTCCACTGCTGACCAGGGATATAGGA
17659070 C
129 C
* * *
17659071 TTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTCGCTGTCTTTGATCTGCTCCGCT
1 TTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGA-TTCGCCGTCTTCGATCTGCTCCGCT
* * *
17659136 ACTGCTTAGGGAGACAAGATCTGTAATTTCCTAACCTATCCCACTGCTCACCAGGCATATAGGAC
65 ACTGCTTAGGGAGACAAGATCTGTAATTTCCTAACCTATTCCACTGCTGACCAGGGATATAGGAC
* * *
17659201 TTGTGGCTTAAATCTACTTCCTTACACTTGAAGATAAGATTCGTCGTCTTCGATCTGCTCCGTTA
1 TTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTA
* * *
17659266 CTGCTTAGGGAGACAAGATCTGCT-ATATTCCCAACCTATTCCACTACTGACCAAGGATATAGGA
66 CTGCTTAGGGAGACAAGATCTG-TAAT-TTCCTAACCTATTCCACTGCTGACCAGGGATATAGGA
17659330 C
129 C
*
17659331 TTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGGTTCGCCGTCTTCGATCTGCTCCGCTA
1 TTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTA
17659396 CTGCTTAGGGAGACAAGATCTGTAATTTCC
66 CTGCTTAGGGAGACAAGATCTGTAATTTCC
17659426 CTGATCTATT
Statistics
Matches: 805, Mismatches: 61, Indels: 12
0.92 0.07 0.01
Matches are distributed among these distances:
129 443 0.55
130 360 0.45
131 2 0.00
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.33
Consensus pattern (129 bp):
TTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTA
CTGCTTAGGGAGACAAGATCTGTAATTTCCTAACCTATTCCACTGCTGACCAGGGATATAGGAC
Found at i:17660650 original size:14 final size:15
Alignment explanation
Indices: 17660623--17660660 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
17660613 TTAGCCTCTC
*
17660623 CATTTTTTACTTTTT
1 CATTTTTCACTTTTT
17660638 CATTTTTCA-TTTTT
1 CATTTTTCACTTTTT
17660652 CATATTTTC
1 CAT-TTTTC
17660661 TCCAACTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (15 bp):
CATTTTTCACTTTTT
Found at i:17661554 original size:6 final size:6
Alignment explanation
Indices: 17661543--17661577 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
17661533 TTCATTTGTT
*
17661543 ATTTTG ATTTTG ATTTTA ATTTTG ATTTTG ATTTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
17661578 TCTTCTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.20, C:0.00, G:0.11, T:0.69
Consensus pattern (6 bp):
ATTTTG
Found at i:17661571 original size:18 final size:18
Alignment explanation
Indices: 17661543--17661577 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
17661533 TTCATTTGTT
17661543 ATTTTGATTTTGATTTTA
1 ATTTTGATTTTGATTTTA
17661561 ATTTTGATTTTGATTTT
1 ATTTTGATTTTGATTTT
17661578 TCTTCTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.11, T:0.69
Consensus pattern (18 bp):
ATTTTGATTTTGATTTTA
Found at i:17661589 original size:24 final size:25
Alignment explanation
Indices: 17661562--17661614 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
17661552 TTGATTTTAA
17661562 TTTTGATTTTGATTTT-TC-TTCTTT
1 TTTTGATTTT-ATTTTCTCTTTCTTT
* *
17661586 TTTT-CTTTTTTTTTCTCTTTCTTT
1 TTTTGATTTTATTTTCTCTTTCTTT
17661610 TTTTG
1 TTTTG
17661615 TGAATTGGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
22 4 0.17
23 6 0.25
24 14 0.58
ACGTcount: A:0.04, C:0.11, G:0.06, T:0.79
Consensus pattern (25 bp):
TTTTGATTTTATTTTCTCTTTCTTT
Found at i:17661590 original size:11 final size:11
Alignment explanation
Indices: 17661574--17661613 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
17661564 TTGATTTTGA
17661574 TTTTTCTTCTT
1 TTTTTCTTCTT
*
17661585 TTTTTCTTTTT
1 TTTTTCTTCTT
17661596 TTTTCTCTTTCTT
1 TTTT-TC-TTCTT
17661609 TTTTT
1 TTTTT
17661614 GTGAATTGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 14 0.56
12 3 0.12
13 8 0.32
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTCTTCTT
Found at i:17666806 original size:3 final size:3
Alignment explanation
Indices: 17666800--17666839 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
17666790 ATAAAGAAGA
*
17666800 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
17666840 GGACTAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:17668052 original size:12 final size:12
Alignment explanation
Indices: 17668035--17668079 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
17668025 AGGTTATGTA
17668035 TTATTATGTAAG
1 TTATTATGTAAG
*
17668047 TTATTATGTAGG
1 TTATTATGTAAG
*
17668059 TTATTATATAAG
1 TTATTATGTAAG
*
17668071 TCATTATGT
1 TTATTATGT
17668080 TGGTTATGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.16, T:0.51
Consensus pattern (12 bp):
TTATTATGTAAG
Found at i:17668065 original size:24 final size:24
Alignment explanation
Indices: 17668028--17668086 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
17668018 TTTATGTAGG
* *
17668028 TTATGTA--TTATTATGTAAGTTA
1 TTATGTAGGTTATTATATAAGTCA
17668050 TTATGTAGGTTATTATATAAGTCA
1 TTATGTAGGTTATTATATAAGTCA
*
17668074 TTATGTTGGTTAT
1 TTATGTAGGTTAT
17668087 GTAAGTTGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 7 0.22
24 25 0.78
ACGTcount: A:0.29, C:0.02, G:0.17, T:0.53
Consensus pattern (24 bp):
TTATGTAGGTTATTATATAAGTCA
Found at i:17668251 original size:21 final size:20
Alignment explanation
Indices: 17668212--17668250 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
17668202 GTAATGTATC
*
17668212 AATTTTTAAAAATATATATA
1 AATTTTAAAAAATATATATA
17668232 AATTTT-AAAAATATATATA
1 AATTTTAAAAAATATATATA
17668251 TTAAAACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AATTTTAAAAAATATATATA
Found at i:17668288 original size:9 final size:9
Alignment explanation
Indices: 17668274--17668354 Score: 60
Period size: 9 Copynumber: 9.0 Consensus size: 9
17668264 TAAATATTAA
17668274 TAAGTTATG
1 TAAGTTATG
17668283 TAAGTTATG
1 TAAGTTATG
* *
17668292 TATTA-TAAATT
1 TA--AGT-TATG
*
17668303 TAAATTATG
1 TAAGTTATG
17668312 TAAGTTATG
1 TAAGTTATG
17668321 -AA-TTATG
1 TAAGTTATG
17668328 TAAGTTATG
1 TAAGTTATG
* * *
17668337 CAAATTACG
1 TAAGTTATG
17668346 TAAGTTATG
1 TAAGTTATG
17668355 AAATTTGAAC
Statistics
Matches: 55, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
7 5 0.09
8 4 0.07
9 39 0.71
10 2 0.04
11 5 0.09
ACGTcount: A:0.38, C:0.02, G:0.16, T:0.43
Consensus pattern (9 bp):
TAAGTTATG
Found at i:17668326 original size:16 final size:16
Alignment explanation
Indices: 17668278--17668356 Score: 83
Period size: 16 Copynumber: 5.0 Consensus size: 16
17668268 TATTAATAAG
*
17668278 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGAA
* *
17668294 TTA--TAAATT-TAAA
1 TTATGTAAGTTATGAA
17668307 TTATGTAAGTTATGAA
1 TTATGTAAGTTATGAA
17668323 TTATGTAAGTTATGCAAA
1 TTATGTAAGTTATG--AA
*
17668341 TTACGTAAGTTATGAA
1 TTATGTAAGTTATGAA
17668357 ATTTGAACTT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
13 5 0.10
14 5 0.10
15 5 0.10
16 22 0.42
18 15 0.29
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.43
Consensus pattern (16 bp):
TTATGTAAGTTATGAA
Found at i:17671191 original size:6 final size:7
Alignment explanation
Indices: 17671171--17671205 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
17671161 CTATAGAAAA
17671171 CTAAACC
1 CTAAACC
17671178 CTAAACC
1 CTAAACC
17671185 C-AAACC
1 CTAAACC
17671191 CTAAACC
1 CTAAACC
*
17671198 GTAAACC
1 CTAAACC
17671205 C
1 C
17671206 CAAATCCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.43, C:0.43, G:0.03, T:0.11
Consensus pattern (7 bp):
CTAAACC
Found at i:17671191 original size:13 final size:13
Alignment explanation
Indices: 17671173--17671197 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17671163 ATAGAAAACT
17671173 AAACCCTAAACCC
1 AAACCCTAAACCC
17671186 AAACCCTAAACC
1 AAACCCTAAACC
17671198 GTAAACCCCA
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:0.48, C:0.44, G:0.00, T:0.08
Consensus pattern (13 bp):
AAACCCTAAACCC
Found at i:17672113 original size:73 final size:74
Alignment explanation
Indices: 17671963--17672116 Score: 204
Period size: 73 Copynumber: 2.1 Consensus size: 74
17671953 GTGCTGTATT
* * * *
17671963 AAAAACGCCGCTAAATCCCCCGAAAGGTCAGAAAACGGCGTCGTTGGGCTTATGTCTTTTTTCGG
1 AAAAACGCCGCTAAATCCCCCAAAAGGTAAAAAAACGGCGTCGTTGGGCTTAGGTCTTTTTTCGG
* *
17672028 TGCTTTACC
66 CGCATTACC
*
17672037 AAAAACGCCGCTAAAT-CCCCAAAAGGTAAAAAAACGGCGTCGTTGGTCTTAGGT-TTTTTTGCG
1 AAAAACGCCGCTAAATCCCCCAAAAGGTAAAAAAACGGCGTCGTTGGGCTTAGGTCTTTTTT-CG
**
17672100 GCGCATTGTC
65 GCGCATTACC
17672110 AAAAACG
1 AAAAACG
17672117 TCGTTAAAGC
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
72 6 0.09
73 48 0.69
74 16 0.23
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (74 bp):
AAAAACGCCGCTAAATCCCCCAAAAGGTAAAAAAACGGCGTCGTTGGGCTTAGGTCTTTTTTCGG
CGCATTACC
Found at i:17672230 original size:188 final size:188
Alignment explanation
Indices: 17671902--17672243 Score: 440
Period size: 188 Copynumber: 1.8 Consensus size: 188
17671892 AGACAAATAA
* * * *
17671902 TTTTTTTGCGGCGCTTTCCCAAAAACACTGCTAAATCCCAGAGCATTAGCGGTGCTGTATTAAAA
1 TTTTTTTGCGGCGCATTCCCAAAAACACTGCTAAAGCCCAGAGCATTAGCAGCGCTGTATTAAAA
* * * * * *
17671967 ACGCCGCTAAATCCCCCGAAAGGTCAGAAAACGGCGTCGTTGGGCTTATGTCTTTTTTCGGTGCT
66 ACGCCACTAAATCCCCCGAAAGATCAGAAAACAGCATCGTTGGGCTTAGGTCTTTTTTCGGCGCT
17672032 TTACCAAAAACGCCGCTAAATCCCCAAAAGGTAAAAAAACGGCGTCGTTGGTCTTAGG
131 TTACCAAAAACGCCGCTAAATCCCCAAAAGGTAAAAAAACGGCGTCGTTGGTCTTAGG
** * * * * *
17672090 TTTTTTTGCGGCGCATTGTCAAAAAC-GTCGTTAAAGCCCTGAGCATTAGCAGCGCTTTCTTAAA
1 TTTTTTTGCGGCGCATTCCCAAAAACACT-GCTAAAGCCCAGAGCATTAGCAGCGCTGTATTAAA
* * *
17672154 AATGCCACTAAAT-CCCCGAAAAGATTAGAAAATAGCATCGTTGGGCTTAGGT-TTTTTTGCGGC
65 AACGCCACTAAATCCCCCG-AAAGATCAGAAAACAGCATCGTTGGGCTTAGGTCTTTTTT-CGGC
17672217 GCTTT-CTCAAAAACGCCGCTAAATCCC
128 GCTTTAC-CAAAAACGCCGCTAAATCCC
17672244 TGAGCATTAG
Statistics
Matches: 130, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
187 13 0.10
188 117 0.90
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (188 bp):
TTTTTTTGCGGCGCATTCCCAAAAACACTGCTAAAGCCCAGAGCATTAGCAGCGCTGTATTAAAA
ACGCCACTAAATCCCCCGAAAGATCAGAAAACAGCATCGTTGGGCTTAGGTCTTTTTTCGGCGCT
TTACCAAAAACGCCGCTAAATCCCCAAAAGGTAAAAAAACGGCGTCGTTGGTCTTAGG
Found at i:17672353 original size:114 final size:115
Alignment explanation
Indices: 17672049--17672357 Score: 361
Period size: 115 Copynumber: 2.7 Consensus size: 115
17672039 AAACGCCGCT
* * * * * * *
17672049 AAATCCCC-AAAAGGTAAAAAAACGGCGTCGTTGGTCTTAGGTTTTTTTGCGGCGCATTGTCAAA
1 AAATCCCCGAAAAGATCAGAAAACAGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAA
* * * * ** *
17672113 AACGTCGTTAAAGCCCTGAGCATTAGCAGCGCTTTCTTAAAAATGCCACT
66 AACGCCGCTAAATCCCTGAGCATTAGCAGCGCTTTCTGAAAAACACCACC
* * *
17672163 AAATCCCCGAAAAGATTAGAAAATAGCATCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAA
1 AAATCCCCGAAAAGATCAGAAAACAGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAA
* *
17672228 AACGCCGCTAAATCCCTGAGCATTAGCGGCGCTTTCTGAAAAACACCGCC
66 AACGCCGCTAAATCCCTGAGCATTAGCAGCGCTTTCTGAAAAACACCACC
* * * * * *
17672278 AAATCCCTG-AATGCTCAGAAAACAGCGTCATTGGGATTAGGTTTTTTTACGGCGCTTTCTCAAA
1 AAATCCCCGAAAAGATCAGAAAACAGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAA
* *
17672342 ATCGCCACTAAATCCC
66 AACGCCGCTAAATCCC
17672358 CGAATGCTCA
Statistics
Matches: 165, Mismatches: 29, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
114 69 0.42
115 96 0.58
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (115 bp):
AAATCCCCGAAAAGATCAGAAAACAGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAA
AACGCCGCTAAATCCCTGAGCATTAGCAGCGCTTTCTGAAAAACACCACC
Found at i:17672355 original size:73 final size:73
Alignment explanation
Indices: 17672254--17672433 Score: 252
Period size: 73 Copynumber: 2.5 Consensus size: 73
17672244 TGAGCATTAG
* * * *
17672254 CGGCGCTTTCTGAAAAACACCGCCAAATCCCTGAATGCTCAGAAAACAGCGTCATTGGGATTAGG
1 CGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAATGCTCAGAAAACAGCGTCATTGGGACTAGG
17672319 TTTTTTTA
66 TTTTTTTA
* * * * * *
17672327 CGGCGCTTTCTCAAAATCGCCACTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGGGCCTAGG
1 CGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAATGCTCAGAAAACAGCGTCATTGGGACTAGG
*
17672392 TTTTTTTG
66 TTTTTTTA
*
17672400 CGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGA
1 CGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGA
17672434 GCATTAGCAG
Statistics
Matches: 92, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
73 92 1.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (73 bp):
CGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAATGCTCAGAAAACAGCGTCATTGGGACTAGG
TTTTTTTA
Found at i:17672424 original size:187 final size:188
Alignment explanation
Indices: 17672141--17672544 Score: 578
Period size: 187 Copynumber: 2.2 Consensus size: 188
17672131 AGCATTAGCA
* * * *
17672141 GCGCTTTCTTAAAAAT-GCCACTAAATCCCCGAAAAGATTAGAAAATAGCATCGTTGGGCTTAGG
1 GCGCTTTC-TCAAAATCGCCACTAAATCCCCGAAAAGATCAGAAAACAGCATCGTTGGGCCTAGG
* * * *
17672205 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAGCATTAGCGGCGCTTTCTGAAAA
65 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCGCTTCCTCAAAA
* *
17672270 ACACCGCCAAATCCCTGAATGCTCAGAAAACAGCGTCATTGGGATTAGGTTTTTTTACG
130 ACACCGCCAAATCCCCGAATGCTCAGAAAACAGCATCATTGGGATTAGGTTTTTTTACG
* * * *
17672329 GCGCTTTCTCAAAATCGCCACTAAATCCCCG-AATGCTCAGAAAACGGCGTCGTTGGGCCTAGGT
1 GCGCTTTCTCAAAATCGCCACTAAATCCCCGAAAAGATCAGAAAACAGCATCGTTGGGCCTAGGT
17672393 TTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCGCTTCCTCAAAAA
66 TTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCGCTTCCTCAAAAA
* * * ** * *
17672458 CACCGCTAAATCCCCGGATGCTCAGAAAACGGCATTGTTGGGCTTAGGTTTTTTTGCG
131 CACCGCCAAATCCCCGAATGCTCAGAAAACAGCATCATTGGGATTAGGTTTTTTTACG
* *
17672516 GCGCTTTCTCAAAAACGCCGCTAAATCCC
1 GCGCTTTCTCAAAATCGCCACTAAATCCC
17672545 TGAGCATTAG
Statistics
Matches: 192, Mismatches: 23, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
187 169 0.88
188 23 0.12
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (188 bp):
GCGCTTTCTCAAAATCGCCACTAAATCCCCGAAAAGATCAGAAAACAGCATCGTTGGGCCTAGGT
TTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGCGCTTCCTCAAAAA
CACCGCCAAATCCCCGAATGCTCAGAAAACAGCATCATTGGGATTAGGTTTTTTTACG
Found at i:17672613 original size:113 final size:113
Alignment explanation
Indices: 17672327--17672848 Score: 766
Period size: 114 Copynumber: 4.6 Consensus size: 113
17672317 GGTTTTTTTA
* * * *
17672327 CGGCGCTTTCTCAAAATCGCCACTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGGGCCTAGG
1 CGGCGCTTCCT-AAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGGGCTTAGG
*
17672392 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAG
65 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAGCATTAG
* * * * *
17672441 CAGCGCTTCCTCAAAAACACCGCTAAATCCCCGGATGCTCAGAAAACGGCATTGTTGGGCTTAGG
1 CGGCGCTTCCT-AAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGGGCTTAGG
17672506 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAGCATTAG
65 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAGCATTAG
* * *
17672555 CGGCGCTTCCGT-AAAACGTCGCTAAATCCCTGAATGCTCAGAAAACGGCGTCGTTGGGCCTAGG
1 CGGCGCTTCC-TAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGGGCTTAGG
17672619 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAGCATTAG
65 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAGCATTAG
* * * *
17672668 CGGCGCTTCCTCAAAAATGCCGTTAAATCCCCGAATGCTTAGAAAATC-GTGTCGTTGGGCTTAG
1 CGGCGCTTCCT-AAAAACGCCGCTAAATCCCCGAATGCTCAGAAAA-CGGCGTCGTTGGGCTTAG
* *
17672732 GTTTTTTTGTGGCGCTTTCTCAAAAACGCCGCT-AAT-GCTGAGCATTAG
64 GTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAGCATTAG
* *
17672780 CGGCGCTTCCGT-AAAACGTCGCTAAATCCCTGAATGCTCAGAAAACGGCGTCGTTGGGCTTAGG
1 CGGCGCTTCC-TAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGGGCTTAGG
17672844 TTTTT
65 TTTTT
17672849 GTGGTGCTTT
Statistics
Matches: 369, Mismatches: 33, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
110 1 0.00
111 49 0.13
112 22 0.06
113 108 0.29
114 187 0.51
115 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (113 bp):
CGGCGCTTCCTAAAAACGCCGCTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGGGCTTAGGT
TTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAGCATTAG
Found at i:17672618 original size:227 final size:225
Alignment explanation
Indices: 17672349--17672848 Score: 842
Period size: 227 Copynumber: 2.2 Consensus size: 225
17672339 AAAATCGCCA
*
17672349 CTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGGGCCTAGGTTTTTTTGCGGCGCTTTCTCAA
1 CTAAATCCCTGAATGCTCAGAAAACGGCGTCGTTGGGCCTAGGTTTTTTTGCGGCGCTTTCTCAA
*
17672414 AAACGCCGCTAAAGCCCTGAGCATTAGCAGCGCTTCCTCAAAAACACCGCTAAATCCCCGGATGC
66 AAACGCCGCTAAAGCCCTGAGCATTAGCAGCGCTTCCTCAAAAACACCGCTAAATCCCCGAATGC
*
17672479 TCAGAAAA-CG-GCATTGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAT
131 TCAGAAAATCGTG--TCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCT-AAT
17672542 CCCTGAGCATTAGCGGCGCTTCCGTAAAACGTCG
193 -CCTGAGCATTAGCGGCGCTTCCGTAAAACGTCG
17672576 CTAAATCCCTGAATGCTCAGAAAACGGCGTCGTTGGGCCTAGGTTTTTTTGCGGCGCTTTCTCAA
1 CTAAATCCCTGAATGCTCAGAAAACGGCGTCGTTGGGCCTAGGTTTTTTTGCGGCGCTTTCTCAA
* * ** *
17672641 AAACGCCGCTAAATCCCTGAGCATTAGCGGCGCTTCCTCAAAAATGCCGTTAAATCCCCGAATGC
66 AAACGCCGCTAAAGCCCTGAGCATTAGCAGCGCTTCCTCAAAAACACCGCTAAATCCCCGAATGC
* * *
17672706 TTAGAAAATCGTGTCGTTGGGCTTAGGTTTTTTTGTGGCGCTTTCTCAAAAACGCCGCTAATGCT
131 TCAGAAAATCGTGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAATCCT
17672771 GAGCATTAGCGGCGCTTCCGTAAAACGTCG
196 GAGCATTAGCGGCGCTTCCGTAAAACGTCG
*
17672801 CTAAATCCCTGAATGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTT
1 CTAAATCCCTGAATGCTCAGAAAACGGCGTCGTTGGGCCTAGGTTTTT
17672849 GTGGTGCTTT
Statistics
Matches: 259, Mismatches: 12, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
225 79 0.31
226 3 0.01
227 174 0.67
228 2 0.01
229 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (225 bp):
CTAAATCCCTGAATGCTCAGAAAACGGCGTCGTTGGGCCTAGGTTTTTTTGCGGCGCTTTCTCAA
AAACGCCGCTAAAGCCCTGAGCATTAGCAGCGCTTCCTCAAAAACACCGCTAAATCCCCGAATGC
TCAGAAAATCGTGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAATCCT
GAGCATTAGCGGCGCTTCCGTAAAACGTCG
Found at i:17675908 original size:17 final size:18
Alignment explanation
Indices: 17675869--17675909 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
17675859 TATAAATTTT
*
17675869 AAAAGTAAAAACTAAATA
1 AAAAGTAAAAACTAAAAA
*
17675887 TAAAGT-AAAACTAAAAA
1 AAAAGTAAAAACTAAAAA
17675904 AAAAGT
1 AAAAGT
17675910 GAATTATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.71, C:0.05, G:0.07, T:0.17
Consensus pattern (18 bp):
AAAAGTAAAAACTAAAAA
Found at i:17690590 original size:33 final size:33
Alignment explanation
Indices: 17690520--17690686 Score: 178
Period size: 33 Copynumber: 5.1 Consensus size: 33
17690510 GTAGAAGTCA
*
17690520 CACCCTCCCTATCAGCTTCTA-CCCTTCAACAT
1 CACCCTCCCAATCAGCTTCTACCCCTTCAACAT
* * *
17690552 CACCCTACCCAAT-AGCTTGTACCCTTTCTACAT
1 CACCCT-CCCAATCAGCTTCTACCCCTTCAACAT
* * *
17690585 CACCCTCCCCATCAGCTTCTCCCCCTTCAGCAT
1 CACCCTCCCAATCAGCTTCTACCCCTTCAACAT
* * * *
17690618 CACCCTCCCCATCAACTTGTACCCCTTCAACTT
1 CACCCTCCCAATCAGCTTCTACCCCTTCAACAT
* *
17690651 CACCCTTCCC-ATCAGCTTCTACTCCTTCAAAAT
1 CACCC-TCCCAATCAGCTTCTACCCCTTCAACAT
17690684 CAC
1 CAC
17690687 TTTCTCCAGC
Statistics
Matches: 111, Mismatches: 20, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
32 18 0.16
33 89 0.80
34 4 0.04
ACGTcount: A:0.22, C:0.47, G:0.04, T:0.28
Consensus pattern (33 bp):
CACCCTCCCAATCAGCTTCTACCCCTTCAACAT
Found at i:17690637 original size:66 final size:65
Alignment explanation
Indices: 17690520--17690686 Score: 201
Period size: 66 Copynumber: 2.5 Consensus size: 65
17690510 GTAGAAGTCA
* * * * *
17690520 CACCCTCCCTATCAGCTTCTACCCTTCAACATCACCCTACCCAATAGCTTGTACCCTTTCTACAT
1 CACCCTCCCCATCAGCTTCTCCCCTTCAACATCACCCTACCCAATAACTTGTACCCCTTCAACAT
* *
17690585 CACCCTCCCCATCAGCTTCTCCCCCTTCAGCATCACCCT-CCCCATCAACTTGTACCCCTTCAAC
1 CACCCTCCCCATCAGCTTCT-CCCCTTCAACATCACCCTACCCAAT-AACTTGTACCCCTTCAAC
*
17690649 TT
64 AT
* * *
17690651 CACCCTTCCCATCAGCTTCTACTCCTTCAAAATCAC
1 CACCCTCCCCATCAGCTTCT-CCCCTTCAACATCAC
17690687 TTTCTCCAGC
Statistics
Matches: 87, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
65 24 0.28
66 63 0.72
ACGTcount: A:0.22, C:0.47, G:0.04, T:0.28
Consensus pattern (65 bp):
CACCCTCCCCATCAGCTTCTCCCCTTCAACATCACCCTACCCAATAACTTGTACCCCTTCAACAT
Found at i:17690746 original size:42 final size:42
Alignment explanation
Indices: 17690675--17690756 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
17690665 GCTTCTACTC
* * *
17690675 CTTCAAAATCACTTTCTCCAGCACTCAATAGTAACATATCAT
1 CTTCAAAATCACTCTCCCCAACACTCAATAGTAACATATCAT
17690717 CTTCAAAATCACTCTCCCCAACAAC-CAATAGTAACATATC
1 CTTCAAAATCACTCTCCCCAAC-ACTCAATAGTAACATATC
17690757 TCCCTCATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 34 0.94
43 2 0.06
ACGTcount: A:0.38, C:0.32, G:0.04, T:0.27
Consensus pattern (42 bp):
CTTCAAAATCACTCTCCCCAACACTCAATAGTAACATATCAT
Found at i:17692999 original size:3 final size:3
Alignment explanation
Indices: 17692991--17693024 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
17692981 GATATCCCAC
17692991 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
17693025 TCCTTAACAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:17710100 original size:30 final size:30
Alignment explanation
Indices: 17710066--17710132 Score: 134
Period size: 30 Copynumber: 2.2 Consensus size: 30
17710056 TTTACACTTC
17710066 ACTTGATCCACGAGGAATAAAATTAAGAAG
1 ACTTGATCCACGAGGAATAAAATTAAGAAG
17710096 ACTTGATCCACGAGGAATAAAATTAAGAAG
1 ACTTGATCCACGAGGAATAAAATTAAGAAG
17710126 ACTTGAT
1 ACTTGAT
17710133 GAATAGTGGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.45, C:0.13, G:0.19, T:0.22
Consensus pattern (30 bp):
ACTTGATCCACGAGGAATAAAATTAAGAAG
Found at i:17713833 original size:21 final size:19
Alignment explanation
Indices: 17713797--17713835 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
17713787 AGTAAGATTA
17713797 AATTTCAAATAAAAAAAGT
1 AATTTCAAATAAAAAAAGT
*
17713816 AATTTACATAATATAAAAAG
1 AATTT-CA-AATAAAAAAAG
17713836 GGTTATAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 2 0.12
21 10 0.59
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (19 bp):
AATTTCAAATAAAAAAAGT
Found at i:17718021 original size:21 final size:21
Alignment explanation
Indices: 17717982--17718023 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
17717972 TTTTCCTAGG
*
17717982 ATGTGAATTGGATGGAATTGA
1 ATGTGAATTGGATGAAATTGA
* *
17718003 ATGTGAATTGTATTAAATTGA
1 ATGTGAATTGGATGAAATTGA
17718024 GTTAAATTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.26, T:0.38
Consensus pattern (21 bp):
ATGTGAATTGGATGAAATTGA
Found at i:17724291 original size:114 final size:114
Alignment explanation
Indices: 17724091--17724317 Score: 436
Period size: 114 Copynumber: 2.0 Consensus size: 114
17724081 GCGGGTTCAG
*
17724091 TTGAAGGAAATGTACTTGACAAAGAATCGGCTAGTATCAGTGACAAGATAGGTAACTGCTTGCTG
1 TTGAAGGAAATGTACTTGACAAAGAATCAGCTAGTATCAGTGACAAGATAGGTAACTGCTTGCTG
17724156 TCTCATTAGATATCTGATTTCAGGGAAAACAATCTTGGAAGCCATGGTA
66 TCTCATTAGATATCTGATTTCAGGGAAAACAATCTTGGAAGCCATGGTA
*
17724205 TTGAAGGACATGTACTTGACAAAGAATCAGCTAGTATCAGTGACAAGATAGGTAACTGCTTGCTG
1 TTGAAGGAAATGTACTTGACAAAGAATCAGCTAGTATCAGTGACAAGATAGGTAACTGCTTGCTG
17724270 TCTCATTAGATATCTGATTTCAGGGAAAACAATCTTGGAAGCCATGGT
66 TCTCATTAGATATCTGATTTCAGGGAAAACAATCTTGGAAGCCATGGT
17724318 TTCTCTTAAG
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
114 111 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.28
Consensus pattern (114 bp):
TTGAAGGAAATGTACTTGACAAAGAATCAGCTAGTATCAGTGACAAGATAGGTAACTGCTTGCTG
TCTCATTAGATATCTGATTTCAGGGAAAACAATCTTGGAAGCCATGGTA
Found at i:17724436 original size:14 final size:14
Alignment explanation
Indices: 17724417--17724443 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17724407 TTTGAATTTT
17724417 TTTTATTTAAAATA
1 TTTTATTTAAAATA
17724431 TTTTATTTAAAAT
1 TTTTATTTAAAAT
17724444 CATCAAAGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTTATTTAAAATA
Found at i:17734097 original size:18 final size:21
Alignment explanation
Indices: 17734074--17734112 Score: 57
Period size: 18 Copynumber: 2.0 Consensus size: 21
17734064 GAACCTTGTT
17734074 TTTGGTA-A-AATTTG-GCCA
1 TTTGGTACATAATTTGTGCCA
17734092 TTTGGTACATAATTTGTGCCA
1 TTTGGTACATAATTTGTGCCA
17734113 AGCCACACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 1 0.06
20 6 0.33
21 4 0.22
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.41
Consensus pattern (21 bp):
TTTGGTACATAATTTGTGCCA
Found at i:17740862 original size:43 final size:43
Alignment explanation
Indices: 17740809--17740984 Score: 163
Period size: 43 Copynumber: 3.8 Consensus size: 43
17740799 TTATATAAAT
* *
17740809 AAACGTCGCTAAAGACCATGTTCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTTTCTCAC
17740852 AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCCTTTCCCGCGCTTTTCTCAC
1 AAACGCCGCTAAAGACCATGTTCTTTA---GCG--------GCGCTTTTCTCAC
* * * * *
17740906 AAACGCCGCTAAAGAACATGTTTTTTAACGGCGATTCTCTCAC
1 AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTTTCTCAC
** *
17740949 AAACGCCGCTAAAGGTCATATTCTTTAGCGGCGCTT
1 AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTT
17740985 CCTTTACAAA
Statistics
Matches: 109, Mismatches: 13, Indels: 22
0.76 0.09 0.15
Matches are distributed among these distances:
43 67 0.61
46 3 0.03
51 2 0.02
54 37 0.34
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTTTCTCAC
Found at i:17746317 original size:9 final size:9
Alignment explanation
Indices: 17746300--17746629 Score: 96
Period size: 9 Copynumber: 37.8 Consensus size: 9
17746290 TATGTATTAG
*
17746300 GTAAATTAT
1 GTAAGTTAT
17746309 GTAAGTTAT
1 GTAAGTTAT
*
17746318 GT--TTTAT
1 GTAAGTTAT
*
17746325 ATAAGTTAT
1 GTAAGTTAT
17746334 GTAAGTTAT
1 GTAAGTTAT
17746343 GT-A-TTAT
1 GTAAGTTAT
*
17746350 GTAAGCTAT
1 GTAAGTTAT
*
17746359 GTAACTTAT
1 GTAAGTTAT
* *
17746368 TTAAGTTAC
1 GTAAGTTAT
*
17746377 GTAAGTTGT
1 GTAAGTTAT
17746386 GT-A-TTAT
1 GTAAGTTAT
*
17746393 GTTAGTTAT
1 GTAAGTTAT
*
17746402 GT-A-CTAT
1 GTAAGTTAT
*
17746409 GCAAGTTAT
1 GTAAGTTAT
*
17746418 GCGT-A-TTAC
1 --GTAAGTTAT
17746427 GT-A-TTAT
1 GTAAGTTAT
*
17746434 GTATGTTAT
1 GTAAGTTAT
*
17746443 GTATAATATTAAT
1 G--TAA-GTT-AT
*
17746456 -TAAGTTGT
1 GTAAGTTAT
17746464 GTATTA-TGTAT
1 GTA--AGT-TAT
* *
17746475 TTAAGTTGT
1 GTAAGTTAT
17746484 GT-A-TTAT
1 GTAAGTTAT
17746491 GTAAGTTAT
1 GTAAGTTAT
*
17746500 GT-ATTTAAGT
1 GTAAGTT-A-T
*
17746510 GTATGTTAT
1 GTAAGTTAT
* *
17746519 GTAACTTGT
1 GTAAGTTAT
*
17746528 GT-A-TAAT
1 GTAAGTTAT
*
17746535 GTTAGTTAT
1 GTAAGTTAT
**
17746544 CAAAGTTAT
1 GTAAGTTAT
*
17746553 GT-A-CTAT
1 GTAAGTTAT
17746560 GTAAGTTAT
1 GTAAGTTAT
*
17746569 TTAAGTTAT
1 GTAAGTTAT
*
17746578 GTAAGTTGT
1 GTAAGTTAT
17746587 GT-A-TTAT
1 GTAAGTTAT
17746594 GTAAGTTAT
1 GTAAGTTAT
*
17746603 -TATGTTATTAT
1 GTAAG---TTAT
17746614 GTAAGTTAT
1 GTAAGTTAT
*
17746623 GCAAGTT
1 GTAAGTT
17746630 TATATATAAG
Statistics
Matches: 231, Mismatches: 54, Indels: 72
0.65 0.15 0.20
Matches are distributed among these distances:
7 47 0.20
8 21 0.09
9 132 0.57
10 10 0.04
11 14 0.06
12 5 0.02
13 2 0.01
ACGTcount: A:0.30, C:0.03, G:0.18, T:0.48
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:17746319 original size:25 final size:25
Alignment explanation
Indices: 17746289--17746367 Score: 104
Period size: 25 Copynumber: 3.2 Consensus size: 25
17746279 TGATATATAT
* *
17746289 TTATGTATTAGGTAAATTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* *
17746314 TTATGTTTTATATAAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* *
17746339 TTATGTATTATGTAAGCTATGTAAC
1 TTATGTATTATGTAAGTTATGTAAG
17746364 TTAT
1 TTAT
17746368 TTAAGTTACG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.48
Consensus pattern (25 bp):
TTATGTATTATGTAAGTTATGTAAG
Found at i:17746349 original size:16 final size:16
Alignment explanation
Indices: 17746304--17746623 Score: 113
Period size: 16 Copynumber: 18.9 Consensus size: 16
17746294 TATTAGGTAA
17746304 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
* *
17746320 TTTATATAAGTTATGT
1 ATTATGTAAGTTATGT
17746336 AAGTTATGT-A-TTATGT
1 -A-TTATGTAAGTTATGT
* * *
17746352 AAGCTATGTAACTTATTT
1 -A-TTATGTAAGTTATGT
* *
17746370 AAGTTACGTAAGTTGTGT
1 -A-TTATGTAAGTTATGT
*
17746388 ATTATGTTAGTTATGT
1 ATTATGTAAGTTATGT
* *
17746404 ACTATGCAAGTTATGCGT
1 ATTATGTAAGTTAT--GT
*
17746422 ATTACGT-A-TTATGT
1 ATTATGTAAGTTATGT
*
17746436 ATGTTATGT-A--TA-AT
1 A--TTATGTAAGTTATGT
*
17746450 ATTAAT-TAAGTTGTGT
1 ATT-ATGTAAGTTATGT
*
17746466 ATTATGTATTTAAGTTGTGT
1 ATTATG----TAAGTTATGT
17746486 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
*
17746502 ATTTAAGTGTATGTTATGT
1 A-TT-A-TGTAAGTTATGT
* *
17746521 AACTTGTGT-A-TAATGTT
1 -A-TTATGTAAGTTATG-T
**
17746538 AGTTATCAAAGTTATGT
1 A-TTATGTAAGTTATGT
* *
17746555 ACTATGTAAGTTATTT
1 ATTATGTAAGTTATGT
*
17746571 AAGTTATGTAAGTTGTGT
1 -A-TTATGTAAGTTATGT
17746589 ATTATGTAAGTTATTATGTT
1 ATTATGTAAG---TTATG-T
17746609 ATTATGTAAGTTATG
1 ATTATGTAAGTTATG
17746624 CAAGTTTATA
Statistics
Matches: 230, Mismatches: 43, Indels: 61
0.69 0.13 0.18
Matches are distributed among these distances:
12 3 0.01
13 3 0.01
14 5 0.02
15 5 0.02
16 103 0.45
17 17 0.07
18 49 0.21
19 15 0.07
20 30 0.13
ACGTcount: A:0.30, C:0.03, G:0.18, T:0.48
Consensus pattern (16 bp):
ATTATGTAAGTTATGT
Found at i:17746480 original size:20 final size:20
Alignment explanation
Indices: 17746455--17746493 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
17746445 ATAATATTAA
17746455 TTAAGTTGTGTATTATGTAT
1 TTAAGTTGTGTATTATGTAT
17746475 TTAAGTTGTGTATTATGTA
1 TTAAGTTGTGTATTATGTA
17746494 AGTTATGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.54
Consensus pattern (20 bp):
TTAAGTTGTGTATTATGTAT
Found at i:17746488 original size:13 final size:13
Alignment explanation
Indices: 17746467--17746515 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
17746457 AAGTTGTGTA
17746467 TTATGTATTTAAG
1 TTATGTATTTAAG
*
17746480 TTGTGTATTATGTAAG
1 TTATGTA-T-T-TAAG
17746496 TTATGTATTTAAG
1 TTATGTATTTAAG
17746509 TGTATGT
1 T-TATGT
17746516 TATGTAACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
13 11 0.37
14 7 0.23
15 2 0.07
16 10 0.33
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.53
Consensus pattern (13 bp):
TTATGTATTTAAG
Found at i:17746530 original size:28 final size:29
Alignment explanation
Indices: 17746467--17746531 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 29
17746457 AAGTTGTGTA
* *
17746467 TTATGTATTTAAGTTGTGTATTATGTAAG
1 TTATGTATTTAAGTTGTATATTATGTAAC
*
17746496 TTATGTATTTAAG-TGTATGTTATGTAAC
1 TTATGTATTTAAGTTGTATATTATGTAAC
*
17746524 TTGTGTAT
1 TTATGTAT
17746532 AATGTTAGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 19 0.59
29 13 0.41
ACGTcount: A:0.26, C:0.02, G:0.20, T:0.52
Consensus pattern (29 bp):
TTATGTATTTAAGTTGTATATTATGTAAC
Found at i:17746555 original size:25 final size:25
Alignment explanation
Indices: 17746533--17746580 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
17746523 CTTGTGTATA
*
17746533 ATGTTAGTTATCAAAGTTATGTACT
1 ATGTAAGTTATCAAAGTTATGTACT
**
17746558 ATGTAAGTTATTTAAGTTATGTA
1 ATGTAAGTTATCAAAGTTATGTA
17746581 AGTTGTGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (25 bp):
ATGTAAGTTATCAAAGTTATGTACT
Found at i:17746576 original size:34 final size:34
Alignment explanation
Indices: 17746538--17746603 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
17746528 GTATAATGTT
17746538 AGTTATCAAAGTTATGTACTATGTAAGTTATTTA
1 AGTTATCAAAGTTATGTACTATGTAAGTTATTTA
** * *
17746572 AGTTATGTAAGTTGTGTATTATGTAAGTTATT
1 AGTTATCAAAGTTATGTACTATGTAAGTTATT
17746604 ATGTTATTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.32, C:0.03, G:0.18, T:0.47
Consensus pattern (34 bp):
AGTTATCAAAGTTATGTACTATGTAAGTTATTTA
Found at i:17746640 original size:12 final size:12
Alignment explanation
Indices: 17746625--17746653 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
17746615 TAAGTTATGC
17746625 AAGTTTATATAT
1 AAGTTTATATAT
17746637 AAGTTTATATAT
1 AAGTTTATATAT
17746649 AAGTT
1 AAGTT
17746654 ATGTAAGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.48
Consensus pattern (12 bp):
AAGTTTATATAT
Found at i:17746929 original size:18 final size:18
Alignment explanation
Indices: 17746906--17746983 Score: 95
Period size: 18 Copynumber: 4.2 Consensus size: 18
17746896 ATATATAAAT
17746906 TTTAAGTAATGTAATATA
1 TTTAAGTAATGTAATATA
17746924 TTTAAGTAATGTAAATTATAAA
1 TTTAAGTAATGT-AA-TAT--A
*
17746946 TTTTAGTAA-GTAATATA
1 TTTAAGTAATGTAATATA
*
17746963 TTTAAGTAATGTAACATA
1 TTTAAGTAATGTAATATA
17746981 TTT
1 TTT
17746984 TAGTCAGTAA
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
17 9 0.17
18 22 0.42
19 5 0.10
20 5 0.10
21 2 0.04
22 9 0.17
ACGTcount: A:0.44, C:0.01, G:0.10, T:0.45
Consensus pattern (18 bp):
TTTAAGTAATGTAATATA
Found at i:17746965 original size:39 final size:41
Alignment explanation
Indices: 17746899--17746976 Score: 142
Period size: 39 Copynumber: 2.0 Consensus size: 41
17746889 TAAATATATA
17746899 TATAAATTTTAAGTAATGTAATATATTTAAGTAATGTAAAT
1 TATAAATTTTAAGTAATGTAATATATTTAAGTAATGTAAAT
17746940 TATAAATTTT-AGTAA-GTAATATATTTAAGTAATGTAA
1 TATAAATTTTAAGTAATGTAATATATTTAAGTAATGTAA
17746977 CATATTTTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 22 0.59
40 5 0.14
41 10 0.27
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (41 bp):
TATAAATTTTAAGTAATGTAATATATTTAAGTAATGTAAAT
Found at i:17746993 original size:35 final size:38
Alignment explanation
Indices: 17746903--17746994 Score: 118
Period size: 39 Copynumber: 2.4 Consensus size: 38
17746893 TATATATATA
*
17746903 AATTTTAAGTAATGTAATATATTTAAGTAATGTAAATTAT
1 AATTTT-AGTAA-GTAATATATTTAAGTAATGTAAATCAT
17746943 AAATTTTAGTAAGTAATATATTTAAGTAATGT-AA-CAT
1 -AATTTTAGTAAGTAATATATTTAAGTAATGTAAATCAT
*
17746980 -ATTTTAGTCAGTAAT
1 AATTTTAGTAAGTAAT
17746995 GTAAGTAATG
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
35 14 0.29
37 2 0.04
38 2 0.04
39 20 0.41
40 5 0.10
41 6 0.12
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.43
Consensus pattern (38 bp):
AATTTTAGTAAGTAATATATTTAAGTAATGTAAATCAT
Found at i:17747040 original size:47 final size:47
Alignment explanation
Indices: 17746989--17747159 Score: 212
Period size: 47 Copynumber: 3.8 Consensus size: 47
17746979 TATTTTAGTC
*
17746989 AGTAATGTAAGTAATGTAATATATACTTAAAAATATATATTTCGGTA
1 AGTAATGTAAGTAATGTAATATATACTTAAGAATATATATTTCGGTA
*
17747036 AGTAAAGTAAGTAATGTAATATATACTTAAGAATATATA-TT---TA
1 AGTAATGTAAGTAATGTAATATATACTTAAGAATATATATTTCGGTA
* * * * *
17747079 AGTAATGTAAGTAAAGTAA-ACT-GAGTTATGTA-ATATATTTCGGTA
1 AGTAATGTAAGTAATGTAATA-TATACTTAAGAATATATATTTCGGTA
*
17747124 AGTAATGTAAGTAATGTAATATATGCTTAAGAATAT
1 AGTAATGTAAGTAATGTAATATATACTTAAGAATAT
17747160 TGCGTTTTTT
Statistics
Matches: 102, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
41 5 0.05
42 9 0.09
43 20 0.20
45 21 0.21
46 8 0.08
47 39 0.38
ACGTcount: A:0.44, C:0.04, G:0.15, T:0.37
Consensus pattern (47 bp):
AGTAATGTAAGTAATGTAATATATACTTAAGAATATATATTTCGGTA
Found at i:17747850 original size:19 final size:19
Alignment explanation
Indices: 17747826--17747893 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
17747816 TTAGTAAAGT
17747826 ATATATTCCAGCAACTGGA
1 ATATATTCCAGCAACTGGA
17747845 ATATATTCCAGCAA---G-
1 ATATATTCCAGCAACTGGA
17747860 -TATATTCCAGCAACTGGA
1 ATATATTCCAGCAACTGGA
*
17747878 ATATATTCCAACAACT
1 ATATATTCCAGCAACT
17747894 ATATATTCCA
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
14 13 0.30
16 1 0.02
17 1 0.02
19 28 0.65
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (19 bp):
ATATATTCCAGCAACTGGA
Found at i:17747865 original size:14 final size:14
Alignment explanation
Indices: 17747846--17747872 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17747836 GCAACTGGAA
17747846 TATATTCCAGCAAG
1 TATATTCCAGCAAG
17747860 TATATTCCAGCAA
1 TATATTCCAGCAA
17747873 CTGGAATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (14 bp):
TATATTCCAGCAAG
Found at i:17747867 original size:33 final size:33
Alignment explanation
Indices: 17747827--17747897 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
17747817 TAGTAAAGTA
* *
17747827 TATATTCCAGCAACTGGAATATATTCCAGCAAG
1 TATATTCCAGCAACTGGAATATATTCCAACAAC
17747860 TATATTCCAGCAACTGGAATATATTCCAACAAC
1 TATATTCCAGCAACTGGAATATATTCCAACAAC
17747893 TATAT
1 TATAT
17747898 ATTCCAAAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (33 bp):
TATATTCCAGCAACTGGAATATATTCCAACAAC
Found at i:17747904 original size:16 final size:16
Alignment explanation
Indices: 17747825--17747903 Score: 72
Period size: 19 Copynumber: 4.7 Consensus size: 16
17747815 TTTAGTAAAG
17747825 TATATATTCCAGCAAC
1 TATATATTCCAGCAAC
17747841 TGGAATATATTCCAGCAA-
1 T---ATATATTCCAGCAAC
*
17747859 -GTATATTCCAGCAAC
1 TATATATTCCAGCAAC
*
17747874 TGGAATATATTCCAACAAC
1 T---ATATATTCCAGCAAC
17747893 TATATATTCCA
1 TATATATTCCA
17747904 AAGTTATAAG
Statistics
Matches: 52, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
14 13 0.25
16 11 0.21
19 28 0.54
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (16 bp):
TATATATTCCAGCAAC
Found at i:17749797 original size:21 final size:21
Alignment explanation
Indices: 17749771--17749861 Score: 86
Period size: 21 Copynumber: 4.5 Consensus size: 21
17749761 CCCTAAATCC
17749771 CCCTTAACCCTTAAAGCATAA
1 CCCTTAACCCTTAAAGCATAA
*
17749792 CCCTTAACCCCTAAAGCATAA
1 CCCTTAACCCTTAAAGCATAA
*
17749813 CCCATAAACCC-T-AA--AT--
1 CCC-TTAACCCTTAAAGCATAA
*
17749829 CCCTTTAACCCATAAAGCATAA
1 CCC-TTAACCCTTAAAGCATAA
*
17749851 CCCCTAACCCT
1 CCCTTAACCCT
17749862 AAACCACAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
16 9 0.16
17 1 0.02
18 4 0.07
20 4 0.07
21 30 0.53
22 9 0.16
ACGTcount: A:0.37, C:0.38, G:0.03, T:0.21
Consensus pattern (21 bp):
CCCTTAACCCTTAAAGCATAA
Found at i:17750109 original size:12 final size:14
Alignment explanation
Indices: 17750078--17750104 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17750068 GAAACGGATG
17750078 AAATTTGGTATAAT
1 AAATTTGGTATAAT
17750092 AAATTTGGTATAA
1 AAATTTGGTATAA
17750105 AATTTTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (14 bp):
AAATTTGGTATAAT
Found at i:17750151 original size:33 final size:35
Alignment explanation
Indices: 17750086--17750169 Score: 86
Period size: 34 Copynumber: 2.5 Consensus size: 35
17750076 TGAAATTTGG
* *
17750086 TATAATAAATTTGGTATAAAATTTTTTATTTTATT
1 TATAATAAATTTGGTATAAAAATGTTTATTTTATT
*
17750121 TATAA-AAA-TTGGTATAAAAAATGTTT-TTTTATCC
1 TATAATAAATTTGGTAT-AAAAATGTTTATTTTAT-T
*
17750155 AATAAT-AATTTGGTA
1 TATAATAAATTTGGTA
17750170 AAGAACGACA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
33 13 0.32
34 17 0.41
35 11 0.27
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.49
Consensus pattern (35 bp):
TATAATAAATTTGGTATAAAAATGTTTATTTTATT
Found at i:17750168 original size:35 final size:34
Alignment explanation
Indices: 17750087--17750169 Score: 80
Period size: 33 Copynumber: 2.4 Consensus size: 34
17750077 GAAATTTGGT
* * **
17750087 ATAATAAATTTGGTATAAAATTTTTTATTTTATTT
1 ATAAT-AATTTGGTATAAAAATGTTTATTTTATCA
*
17750122 ATAA-AAATTGGTATAAAAAATGTTT-TTTTATCCA
1 ATAATAATTTGGTAT-AAAAATGTTTATTTTAT-CA
17750156 ATAATAATTTGGTA
1 ATAATAATTTGGTA
17750170 AAGAACGACA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
33 15 0.38
34 12 0.31
35 12 0.31
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.48
Consensus pattern (34 bp):
ATAATAATTTGGTATAAAAATGTTTATTTTATCA
Found at i:17751482 original size:114 final size:112
Alignment explanation
Indices: 17751283--17751958 Score: 493
Period size: 114 Copynumber: 6.0 Consensus size: 112
17751273 TTTAAATCCT
* * * *
17751283 TGAGCATTAGAGGCGCTTTCCTAAAAACGCCGCTAAATCCCCACAAATCAT-AGAAAACGGCGCC
1 TGAGCATTAGCGGCGC-TT-CTAAAAACGCCACT-AATCCCCAGAAATC-TCAGAAAACGGCGTC
* * *
17751347 GTTGGGCTTA-GTTTTTCTTGCGGCGCTACCCCAAAAATGCCGCTAAATCCC
62 GTTGGGCTTAGGTTTTT-TTGCGGCGCTTCCCCAAAAACGCCGCTAAAGCCC
* ** * *
17751398 TGAGCAGTAGCGGCGCTTCTAGAGAAACGCCACTAGATCTTC-GAAATCTCAAAAAACGACGTCG
1 TGAGCATTAGCGGCGCTTCTA-A-AAACGCCACTA-ATCCCCAGAAATCTCAGAAAACGGCGTCG
* * * *
17751462 TTGGGCTTAGGTTATTTTGCGGCGTTTCGCCAAAAACGCCGCTAAAGCCA
63 TTGGGCTTAGGTTTTTTTGCGGCGCTTCCCCAAAAACGCCGCTAAAGCCC
* * * * *
17751512 TGAGCATTAGCGGCGCTCCCTTAAAAACG-TAGCTAAATCCCCAAAAAGCTCAGAAAA-GGTGTC
1 TGAGCATTAGCGGCGCT-TC-TAAAAACGCCA-CT-AATCCCCAGAAATCTCAGAAAACGGCGTC
*** *
17751575 GTTGGGCTTAGGTTTTTTTGCGGCGCTTCTTAAAAAACGCCGCTAAAGCCT
62 GTTGGGCTTAGGTTTTTTTGCGGCGCTTCCCCAAAAACGCCGCTAAAGCCC
* * * * *
17751626 TGAGCATTAGCGGCACTT-TAATAAATACGCCATTAAACCCCTG-AATGCTTAGAAAACGGCGTC
1 TGAGCATTAGCGGCGCTTCT-A-AAA-ACGCCACTAATCCCCAGAAAT-CTCAGAAAACGGCGTC
* * * *
17751689 GTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCACTAAATCCC
62 GTTGGGCTTAGGTTTTTTTGCGGCGCTTCCCCAAAAACGCCGCTAAAGCCC
* * * * * *
17751740 TGAGCATTAGCGGCGCTTTATTAAAAACGTCGCTAAATCCCCTA-AAGT-TCGGTAAACGGCGTC
1 TGAGCATTAGCGGCGC-TT-CTAAAAACGCCACT-AATCCCC-AGAAATCTCAGAAAACGGCGTC
* *** **
17751803 GTTGGGCTTAGG-TTTTTTGCGGCGCTTTCTGGAAAACGCCGCT-AA-TTC
62 GTTGGGCTTAGGTTTTTTTGCGGCGCTTCCCCAAAAACGCCGCTAAAGCCC
* ** * * * * *
17751851 TTA-TTTTCAGCGGCGCTTTATTAAAAACGCCGCTAAATCCCCTA-AAGT-TCGGTAAACGGCGT
1 TGAGCATT-AGCGGCGC-TT-CTAAAAACGCCACT-AATCCCC-AGAAATCTCAGAAAACGGCGT
* ***
17751913 CGTTGGGCTTAGG-TTTTTTGCGGCGCTTTCTGGAAAACGCCGCTAA
61 CGTTGGGCTTAGGTTTTTTTGCGGCGCTTCCCCAAAAACGCCGCTAA
17751959 TTCTTATTTT
Statistics
Matches: 470, Mismatches: 67, Indels: 51
0.80 0.11 0.09
Matches are distributed among these distances:
110 2 0.00
111 101 0.21
112 6 0.01
113 50 0.11
114 247 0.53
115 58 0.12
116 5 0.01
117 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (112 bp):
TGAGCATTAGCGGCGCTTCTAAAAACGCCACTAATCCCCAGAAATCTCAGAAAACGGCGTCGTTG
GGCTTAGGTTTTTTTGCGGCGCTTCCCCAAAAACGCCGCTAAAGCCC
Found at i:17751691 original size:228 final size:224
Alignment explanation
Indices: 17751450--17751958 Score: 600
Period size: 228 Copynumber: 2.2 Consensus size: 224
17751440 GAAATCTCAA
*
17751450 AAAACGACGTCGTTGGGCTTAGGTTATTTTGCGGCG-TTTCGCCAAAAACGCCGCTAAAGCCATG
1 AAAACGGCGTCGTTGGGCTTAGGTT-TTTTGCGGCGCTTTCG-CAAAAACGCCGCTAAAGCCATG
* *
17751514 AGCATTAGCGGCGCTCCCTTAAAAACGTAGCTAAATCCCCAAAAAGCTCAG-AAAAGGTGTCGTT
64 AGCATTAGCGGCGCTCCATTAAAAACGTAGCTAAATCCCC-AAAAGCTCAGTAAAAGGCGTCGTT
17751578 GGGCTTAGGTTTTTTTGCGGCGC-TTCTTAAAAAACGCCGCTAAAGCCTTGAGCATT-AGCGGCA
128 GGGCTTAGG-TTTTTTGCGGCGCTTTC-TAAAAAACGCCGCT-AAGCCTT-A-CATTCAGCGGCA
* * *
17751641 CTTTAATAAATACGCCATTAAA-CCCCTGAATGCTT-AG
188 CTTTAATAAAAACGCCACTAAATCCCCT-AAAG-TTCAG
* * * *
17751678 AAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCACTAAATCCCTGA
1 AAAACGGCGTCGTTGGGCTTAGG-TTTTTTGCGGCGCTTTCGCAAAAACGCCGCTAAAGCCATGA
** * * * * *
17751743 GCATTAGCGGCGCTTTATTAAAAACGTCGCTAAATCCCCTAAAGTTCGGTAAACGGCGTCGTTGG
65 GCATTAGCGGCGCTCCATTAAAAACGTAGCTAAATCCCCAAAAGCTCAGTAAAAGGCGTCGTTGG
** ** ** * *
17751808 GCTTAGGTTTTTTGCGGCGCTTTCTGGAAAACGCCGCTAATTCTTATTTTCAGCGGCGCTTTATT
130 GCTTAGGTTTTTTGCGGCGCTTTCTAAAAAACGCCGCTAAGCCTTACATTCAGCGGCACTTTAAT
* *
17751873 AAAAACGCCGCTAAATCCCCTAAAGTTCGG
195 AAAAACGCCACTAAATCCCCTAAAGTTCAG
* *
17751903 TAAACGGCGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCTG-GAAAACGCCGCTAA
1 AAAACGGCGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTC-GCAAAAACGCCGCTAA
17751959 TTCTTATTTT
Statistics
Matches: 242, Mismatches: 31, Indels: 20
0.83 0.11 0.07
Matches are distributed among these distances:
224 33 0.14
225 51 0.21
226 10 0.04
227 32 0.13
228 110 0.45
229 6 0.02
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (224 bp):
AAAACGGCGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCGCAAAAACGCCGCTAAAGCCATGAG
CATTAGCGGCGCTCCATTAAAAACGTAGCTAAATCCCCAAAAGCTCAGTAAAAGGCGTCGTTGGG
CTTAGGTTTTTTGCGGCGCTTTCTAAAAAACGCCGCTAAGCCTTACATTCAGCGGCACTTTAATA
AAAACGCCACTAAATCCCCTAAAGTTCAG
Found at i:17751998 original size:111 final size:111
Alignment explanation
Indices: 17751679--17751976 Score: 481
Period size: 111 Copynumber: 2.7 Consensus size: 111
17751669 AATGCTTAGA
** * * *
17751679 AAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCACTAAATCCCTGAG
1 AAACGGCGTCGTTGGGCTTAGG-TTTTTTGCGGCGCTTTCTGGAAAACGCCGCT-AAT-TCTTA-
** *
17751744 CATT-AGCGGCGCTTTATTAAAAACGTCGCTAAATCCCCTAAAGTTCGGT
62 TTTTCAGCGGCGCTTTATTAAAAACGCCGCTAAATCCCCTAAAGTTCGGT
17751793 AAACGGCGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCTGGAAAACGCCGCTAATTCTTATTTT
1 AAACGGCGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCTGGAAAACGCCGCTAATTCTTATTTT
17751858 CAGCGGCGCTTTATTAAAAACGCCGCTAAATCCCCTAAAGTTCGGT
66 CAGCGGCGCTTTATTAAAAACGCCGCTAAATCCCCTAAAGTTCGGT
17751904 AAACGGCGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCTGGAAAACGCCGCTAATTCTTATTTT
1 AAACGGCGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCTGGAAAACGCCGCTAATTCTTATTTT
17751969 CAGCGGCG
66 CAGCGGCG
17751977 TTTTCTGGGA
Statistics
Matches: 175, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
110 2 0.01
111 120 0.69
112 3 0.02
113 28 0.16
114 22 0.13
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.31
Consensus pattern (111 bp):
AAACGGCGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCTGGAAAACGCCGCTAATTCTTATTTT
CAGCGGCGCTTTATTAAAAACGCCGCTAAATCCCCTAAAGTTCGGT
Found at i:17753120 original size:22 final size:22
Alignment explanation
Indices: 17753092--17753186 Score: 77
Period size: 22 Copynumber: 4.3 Consensus size: 22
17753082 TGAACTGCTG
17753092 ATCAGTAGGCATCAAAGCGCTGA
1 ATCAGTAGGCATCAAAGCG-TGA
* * *
17753115 GT-AGTAGGCACCAAAGTGTGA
1 ATCAGTAGGCATCAAAGCGTGA
* *
17753136 ATCAGTAGGCATCGAAGTGTTGA
1 ATCAGTAGGCATCAAAGCG-TGA
* * * *
17753159 AT-AATAGGCATCGAAGTGAGA
1 ATCAGTAGGCATCAAAGCGTGA
17753180 ATCAGTA
1 ATCAGTA
17753187 AGAACCGAAG
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
21 8 0.13
22 46 0.77
23 6 0.10
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.21
Consensus pattern (22 bp):
ATCAGTAGGCATCAAAGCGTGA
Found at i:17753167 original size:44 final size:44
Alignment explanation
Indices: 17753092--17753186 Score: 118
Period size: 44 Copynumber: 2.2 Consensus size: 44
17753082 TGAACTGCTG
* * *
17753092 ATCAGTAGGCATCAAAGCGCTGAGTAGTAGGCACCAAAGTGTGA
1 ATCAGTAGGCATCAAAGCGCTGAATAATAGGCACCAAAGTGAGA
* * * * *
17753136 ATCAGTAGGCATCGAAGTGTTGAATAATAGGCATCGAAGTGAGA
1 ATCAGTAGGCATCAAAGCGCTGAATAATAGGCACCAAAGTGAGA
17753180 ATCAGTA
1 ATCAGTA
17753187 AGAACCGAAG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.21
Consensus pattern (44 bp):
ATCAGTAGGCATCAAAGCGCTGAATAATAGGCACCAAAGTGAGA
Found at i:17759849 original size:50 final size:50
Alignment explanation
Indices: 17759725--17759973 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
17759715 GATAATAACA
* * ** * *
17759725 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
17759776 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
17759826 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
17759876 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
17759931 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
17759974 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:17759903 original size:100 final size:104
Alignment explanation
Indices: 17759724--17759973 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
17759714 TGATAATAAC
**
17759724 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
17759789 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
17759826 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
17759889 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
17759931 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
17759974 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:17760089 original size:13 final size:13
Alignment explanation
Indices: 17760068--17760099 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
17760058 GCTTGGATCA
*
17760068 TCATCAAATAAAT
1 TCATAAAATAAAT
17760081 TCATAAAATAAAT
1 TCATAAAATAAAT
17760094 TCATAA
1 TCATAA
17760100 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:17760346 original size:30 final size:30
Alignment explanation
Indices: 17760311--17760368 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
17760301 CCTCGACTCT
*
17760311 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
17760341 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
17760369 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:17767443 original size:50 final size:50
Alignment explanation
Indices: 17767319--17767567 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
17767309 GATAATAACA
* * ** * *
17767319 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
17767370 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
17767420 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
17767470 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
17767525 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
17767568 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:17767497 original size:100 final size:104
Alignment explanation
Indices: 17767318--17767567 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
17767308 TGATAATAAC
**
17767318 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
17767383 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
17767420 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
17767483 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
17767525 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
17767568 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:17767683 original size:13 final size:13
Alignment explanation
Indices: 17767662--17767693 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
17767652 GCTTGGATCA
*
17767662 TCATCAAATAAAT
1 TCATAAAATAAAT
17767675 TCATAAAATAAAT
1 TCATAAAATAAAT
17767688 TCATAA
1 TCATAA
17767694 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:17767940 original size:30 final size:30
Alignment explanation
Indices: 17767905--17767962 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
17767895 CCTCGACTCT
*
17767905 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
17767935 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
17767963 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:17776815 original size:26 final size:26
Alignment explanation
Indices: 17776785--17776844 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
17776775 GTAGCTTCGG
17776785 AGAGCCATTAATCAGGAAGCTCACAA
1 AGAGCCATTAATCAGGAAGCTCACAA
* * *
17776811 AGAGCCTTTAATCGGGAAGCTCACGA
1 AGAGCCATTAATCAGGAAGCTCACAA
17776837 AGAGCCAT
1 AGAGCCAT
17776845 ATATTAGGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
AGAGCCATTAATCAGGAAGCTCACAA
Found at i:17781643 original size:43 final size:43
Alignment explanation
Indices: 17781591--17781690 Score: 128
Period size: 43 Copynumber: 2.3 Consensus size: 43
17781581 TCTGGCATCG
* * *
17781591 CAATGCATCATCGGATAAATTAAAGGAAATATAATGGCACACG
1 CAATGCATCATCGGATAAACTAAAGGAAATATAATGGCAAACA
* * * *
17781634 TAATGCATCATCAGATAAACTGAAGGAAATATACTGGCAAACA
1 CAATGCATCATCGGATAAACTAAAGGAAATATAATGGCAAACA
*
17781677 CAGTGCATCATCGG
1 CAATGCATCATCGG
17781691 TCATGTCGAA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.21
Consensus pattern (43 bp):
CAATGCATCATCGGATAAACTAAAGGAAATATAATGGCAAACA
Found at i:17781721 original size:43 final size:43
Alignment explanation
Indices: 17781674--17781795 Score: 158
Period size: 43 Copynumber: 2.8 Consensus size: 43
17781664 ATACTGGCAA
* * *
17781674 ACACAGTGCATCATCGGTCATG-TCGAAGTAATTATATT-GACAC
1 ACACAGTGCATCATCGGACAAGCT-GAAGCAATTATATTAGA-AC
17781717 ACACAGTGCATCATCGGACAAGCTGAAGCAATTATATTAGAAC
1 ACACAGTGCATCATCGGACAAGCTGAAGCAATTATATTAGAAC
* * *
17781760 ACACAGTTCATCATTGGACAAGCCGAAGCAATTATA
1 ACACAGTGCATCATCGGACAAGCTGAAGCAATTATA
17781796 ATGGTACATA
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
43 68 0.96
44 3 0.04
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (43 bp):
ACACAGTGCATCATCGGACAAGCTGAAGCAATTATATTAGAAC
Found at i:17781743 original size:86 final size:84
Alignment explanation
Indices: 17781636--17781859 Score: 205
Period size: 86 Copynumber: 2.6 Consensus size: 84
17781626 GGCACACGTA
* * * * * * *
17781636 ATGCATCATCAGATAAACTGAAGGAAATATACTGGCAAACACAGTGCATCATCGGTCATGTCGAA
1 ATGCATCATCAGACAAGCTGAAGCAATTATACTGG-AAACACAGTGCATCATCGGACAAGCCGAA
* *
17781701 GTAATTATATTGACACACAC
65 GCAATTATAATGACACACAC
* * * * *
17781721 AGTGCATCATCGGACAAGCTGAAGCAATTATATTAGAACACACAGTTCATCATTGGACAAGCCGA
1 A-TGCATCATCAGACAAGCTGAAGCAATTATACTGGAA-ACACAGTGCATCATCGGACAAGCCGA
** *
17781786 AGCAATTATAATGGTACATAC
64 AGCAATTATAATGACACACAC
* * * * *
17781807 ATCGCATCATCAAACAAGCTTAAGTAATTATACCGGTATACACAGTGCATCAT
1 AT-GCATCATCAGACAAGCTGAAGCAATTATACTGG-AAACACAGTGCATCAT
17781860 TAGAAAAACC
Statistics
Matches: 109, Mismatches: 26, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
85 4 0.04
86 104 0.95
87 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (84 bp):
ATGCATCATCAGACAAGCTGAAGCAATTATACTGGAAACACAGTGCATCATCGGACAAGCCGAAG
CAATTATAATGACACACAC
Found at i:17784622 original size:35 final size:35
Alignment explanation
Indices: 17784573--17784639 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
17784563 CATACCAATG
*
17784573 CTCATAAAAGCTAGTCCAACTGAAACACACCATTA
1 CTCATAAAAGCTAGTCCAACCGAAACACACCATTA
**
17784608 CTCA-AAAGAGCTAGTCCCTCCGAAACACACCA
1 CTCATAAA-AGCTAGTCCAACCGAAACACACCA
17784640 AACAGACAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 3 0.11
35 25 0.89
ACGTcount: A:0.40, C:0.33, G:0.10, T:0.16
Consensus pattern (35 bp):
CTCATAAAAGCTAGTCCAACCGAAACACACCATTA
Found at i:17796869 original size:35 final size:34
Alignment explanation
Indices: 17796826--17796895 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 34
17796816 AATTTTTTAA
* *
17796826 AAATTATTTGATAATTCATAATAAAAATTAAATG
1 AAATTATTTGATAATCCATAATAAAAAGTAAATG
*
17796860 AAATATATTTGATAATCCATAATAAGAAGTAAATG
1 AAAT-TATTTGATAATCCATAATAAAAAGTAAATG
17796895 A
1 A
17796896 TAGAAAGTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 4 0.12
35 28 0.88
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.34
Consensus pattern (34 bp):
AAATTATTTGATAATCCATAATAAAAAGTAAATG
Found at i:17797421 original size:25 final size:25
Alignment explanation
Indices: 17797383--17797431 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
17797373 TAAATAATAT
* *
17797383 TATCATAAATATAAATATTATTTAA
1 TATCATAAAGATAAATAATATTTAA
*
17797408 TATCATTAAGATAAATAATATTTA
1 TATCATAAAGATAAATAATATTTA
17797432 TCTTAATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (25 bp):
TATCATAAAGATAAATAATATTTAA
Found at i:17797493 original size:6 final size:6
Alignment explanation
Indices: 17797482--17797516 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
17797472 ATATTATTAT
17797482 AATTTA AATTTA AATTTA AATTTA AATTTA AATTT
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTT
17797517 TGTTTAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
AATTTA
Found at i:17802231 original size:44 final size:44
Alignment explanation
Indices: 17802183--17802266 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
17802173 CATATAACAC
* * *
17802183 GACTCGCATTTAA-CACATATAGGGTTCGCATATAATAACATAAA
1 GACTCGCATGTAATCACACATA-GGCTCGCATATAATAACATAAA
* *
17802227 GACTCGCATGTAATTACACATAGGCTCGCATGTAATAACA
1 GACTCGCATGTAATCACACATAGGCTCGCATATAATAACA
17802267 CACAGGCTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 28 0.82
45 6 0.18
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.26
Consensus pattern (44 bp):
GACTCGCATGTAATCACACATAGGCTCGCATATAATAACATAAA
Found at i:17802273 original size:22 final size:22
Alignment explanation
Indices: 17802208--17802274 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
17802198 CATATAGGGT
* * *
17802208 TCGCATATAATAACATAAAGAC
1 TCGCATGTAATAACACAAAGGC
* *
17802230 TCGCATGTAATTACACATAGGC
1 TCGCATGTAATAACACAAAGGC
*
17802252 TCGCATGTAATAACACACAGGC
1 TCGCATGTAATAACACAAAGGC
17802274 T
1 T
17802275 TTTATGTACA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.24
Consensus pattern (22 bp):
TCGCATGTAATAACACAAAGGC
Found at i:17803772 original size:26 final size:25
Alignment explanation
Indices: 17803711--17803774 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 25
17803701 TATTGTGGAG
*
17803711 TTATAAATAAA-ATTATTTTATTTA
1 TTATAAATAAATATTATTTAATTTA
* *
17803735 ATATAATTAAATATTAATTATAATTT-
1 TTATAAATAAATATT-ATT-TAATTTA
17803761 TTATAAATAAATAT
1 TTATAAATAAATAT
17803775 CAATAATTCT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
24 9 0.28
25 3 0.09
26 15 0.47
27 5 0.16
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
TTATAAATAAATATTATTTAATTTA
Found at i:17804407 original size:30 final size:30
Alignment explanation
Indices: 17804372--17804459 Score: 115
Period size: 30 Copynumber: 3.0 Consensus size: 30
17804362 AACCTCGATA
17804372 TAATGTCAGCTTGTGTGAGCAACTCTATTG
1 TAATGTCAGCTTGTGTGAGCAACTCTATTG
* * * *
17804402 TAATGTTAGTTTGTGTGAGCAACCCTAATG
1 TAATGTCAGCTTGTGTGAGCAACTCTATTG
* *
17804432 TACTGTCAGCTTATGTGAGCAACT-TATT
1 TAATGTCAGCTTGTGTGAGCAACTCTATT
17804460 CCCGGGTATT
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 3 0.06
30 45 0.94
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.38
Consensus pattern (30 bp):
TAATGTCAGCTTGTGTGAGCAACTCTATTG
Found at i:17809937 original size:84 final size:85
Alignment explanation
Indices: 17809739--17809944 Score: 342
Period size: 85 Copynumber: 2.4 Consensus size: 85
17809729 AGAAATTGTG
* * * * *
17809739 AAATCGCGCCCTCGTGGACACGATTTTACTACAATTGGTCATGTAGGAAATAATTATTTTTTGAC
1 AAATCGTGCCCTCGTGGACGCGATTTTGCTACAGTTGGTCATGTACGAAATAATTATTTTTTGAC
*
17809804 GTTTCTGAGTAAATAGTGTC
66 GTTTCTGAGCAAATAGTGTC
17809824 AAATCGTGCCCTCGTGGACGCGATTTTGCTACAGTTGGTCATGTACGAAATAATTATTTTTTGAC
1 AAATCGTGCCCTCGTGGACGCGATTTTGCTACAGTTGGTCATGTACGAAATAATTATTTTTTGAC
*
17809889 GTTTCTGAGCAAATAGTTTC
66 GTTTCTGAGCAAATAGTGTC
17809909 -AATCGTGCCCTCGTGGACGCGATTTTGCTACAGTTG
1 AAATCGTGCCCTCGTGGACGCGATTTTGCTACAGTTG
17809945 CAAGTTTGGG
Statistics
Matches: 114, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
84 36 0.32
85 78 0.68
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (85 bp):
AAATCGTGCCCTCGTGGACGCGATTTTGCTACAGTTGGTCATGTACGAAATAATTATTTTTTGAC
GTTTCTGAGCAAATAGTGTC
Found at i:17812786 original size:29 final size:29
Alignment explanation
Indices: 17812753--17812814 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
17812743 TAAGATTGTC
17812753 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
17812782 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
17812811 AAAT
1 AAAT
17812815 CAAATAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.31, C:0.00, G:0.26, T:0.44
Consensus pattern (29 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATT
Found at i:17818736 original size:14 final size:15
Alignment explanation
Indices: 17818719--17818752 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
17818709 AATATTTATC
17818719 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
17818733 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
17818748 TAAAA
1 TAAAA
17818753 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:17818888 original size:28 final size:28
Alignment explanation
Indices: 17818850--17818905 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
17818840 TTGAAAATAT
17818850 TAAAAATTTTAAAATTAT-TTAAAAAAA
1 TAAAAATTTTAAAATTATCTTAAAAAAA
* *
17818877 TAAAAATATTTATAATTTTCTTAAAAAAA
1 TAAAAAT-TTTAAAATTATCTTAAAAAAA
17818906 ATGAAATTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 7 0.28
28 9 0.36
29 9 0.36
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (28 bp):
TAAAAATTTTAAAATTATCTTAAAAAAA
Found at i:17818985 original size:21 final size:21
Alignment explanation
Indices: 17818941--17818989 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
17818931 TAATATGGAG
*
17818941 TTGAGAGATTTTTTGAAGGAAAT
1 TTGAG-GA-TTTTGGAAGGAAAT
17818964 TGTGAGGATTTTGGAAGG-AAT
1 T-TGAGGATTTTGGAAGGAAAT
17818985 TTGAG
1 TTGAG
17818990 AGTTTAAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 4 0.17
21 4 0.17
22 9 0.38
23 3 0.12
24 4 0.17
ACGTcount: A:0.31, C:0.00, G:0.33, T:0.37
Consensus pattern (21 bp):
TTGAGGATTTTGGAAGGAAAT
Found at i:17819016 original size:52 final size:52
Alignment explanation
Indices: 17818944--17819043 Score: 155
Period size: 52 Copynumber: 1.9 Consensus size: 52
17818934 TATGGAGTTG
* * * *
17818944 AGAGATTTTTTGAAGGAAATTGTGAGGATTTTGGAAGGAATTTGAGAGTTTA
1 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAATTTGAGAGTTTA
*
17818996 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTTGAAGGAATTTGAGAG
1 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAATTTGAGAG
17819044 AATTTTTGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.36, C:0.00, G:0.31, T:0.33
Consensus pattern (52 bp):
AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAATTTGAGAGTTTA
Found at i:17819021 original size:22 final size:22
Alignment explanation
Indices: 17818996--17819064 Score: 111
Period size: 22 Copynumber: 3.1 Consensus size: 22
17818986 TGAGAGTTTA
*
17818996 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTTGAAGGAAATTG
*
17819018 AGAGAATTTTTGAAGGAATTTG
1 AGAGAATTTTTGAAGGAAATTG
*
17819040 AGAGAATTTTTGAATGAAATTG
1 AGAGAATTTTTGAAGGAAATTG
17819062 AGA
1 AGA
17819065 TGGGATTTGT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.32
Consensus pattern (22 bp):
AGAGAATTTTTGAAGGAAATTG
Found at i:17819092 original size:18 final size:18
Alignment explanation
Indices: 17819069--17819103 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
17819059 TTGAGATGGG
*
17819069 ATTTGTTTGTGAAAAAAA
1 ATTTGTTTGCGAAAAAAA
17819087 ATTTGTTTGCGAAAAAA
1 ATTTGTTTGCGAAAAAA
17819104 TAAGGGGTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.17, T:0.37
Consensus pattern (18 bp):
ATTTGTTTGCGAAAAAAA
Done.