Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167826.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_1, whole genome shotgun sequence
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: 36299135
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Warning! 357000 characters in sequence are not A, C, G, or T
File 307 of 402
Found at i:28892594 original size:26 final size:26
Alignment explanation
Indices: 28892565--28892617 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
28892555 TCGATCCGAT
28892565 CTTAGAC-TGGGAATGAACTCCGTATG
1 CTTAGACAT-GGAATGAACTCCGTATG
28892591 CTTAGACATGGAATGAACTCCGTATG
1 CTTAGACATGGAATGAACTCCGTATG
28892617 C
1 C
28892618 CTAAGCCAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 25 0.96
27 1 0.04
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (26 bp):
CTTAGACATGGAATGAACTCCGTATG
Found at i:28892702 original size:368 final size:343
Alignment explanation
Indices: 28891881--28892801 Score: 891
Period size: 368 Copynumber: 2.6 Consensus size: 343
28891871 CGATCTCATA
* * * *
28891881 TTAGACTGGGAATGAGCTCCGTATGCCTAAGTCAACCCATGAAACGAGCGTGTGGGCGCTGAGCC
1 TTAGACTAGGAATGAACTCCGTATGCCTAAGTCAACCCATGAAACGAGCGTGCGGGCGCTCAGCC
** * * * *
28891946 AACCGAAGAGGCATAATGCGTAAGCCGGGGATCGGGCCGGTCCCCCTCTGCGTGCTGTCAGTCCT
66 AGTCGGAGAGGCATAATGCGCAAGTCGGGGATCGGCCCGGTCCCCCTCTGCGTGCTGTCAGTCCT
* ** * * *
28892011 GCTGCCATAACCCTTTGTCCGGCTGGGGCTTAGATAGGGAATGAACTCCCTATGCCTAAGCCAAC
131 GCTGCCACAACCCTCAGTCCGACTAGGGCTTAGACAGGGAATGAACTCCCTATGCCTAAGCCAAC
* * * *
28892076 CCACGAAACAGGCGTGCAGACGCTCAGCCGGTCGGAGAGATAGAATGCGCAAGTCGGGCATCGGC
196 CCACGAAACAAGCGTGCAGACGCTCAGCCGGCCGGAGAGATAGAATACGCAAGTCGGGCATCAGC
**
28892141 CCGGTCCCCCTTGTGTGCTACGGATCCTGCTATCGTAACCCTCGGTACGATCCGATCTTAGACTG
261 CCGGTCCCCCTTGTGTGCTACGGATCCTGCTATCACAACCCTCGGTACGATCCGATCTTAGACTG
28892206 GGAATGAACTCCTGATGC
326 GGAATGAACTCCTGATGC
* * * ** * * *
28892224 TTAGACTAGGGATGAACTCCGTATGCCTAAATCACCCCACAAAACGAGTGTGCGAGCGCTCAGCT
1 TTAGACTAGGAATGAACTCCGTATGCCTAAGTCAACCCATGAAACGAGCGTGCGGGCGCTCAGCC
* ** * * **
28892289 GGTCGGAGAGGCATAATGTACAAGTCAGGGATCAGCCTAGTCCCCCTCTGTGTGCTGTCGGTCCT
66 AGTCGGAGAGGCATAATGCGCAAGTCGGGGATCGGCCCGGTCCCCCTC----TGC-GT--G----
* * * *
28892354 ACTGTCGGTCCTGCTGCCACAACTCTCAGTCCGACTAGGGCTTAGACATGGAATGAACTCCGTAT
120 -CTGTCAGTCCTGCTGCCACAACCCTCAGTCCGACTAGGGCTTAGACAGGGAATGAACTCCCTAT
* * * *
28892419 GCCTAAGCCAACCCATGAAACAAGCGTGCGGGCGCTCAGCCGGCCTGAGAAGA-AGAATACGCAA
184 GCCTAAGCCAACCCACGAAACAAGCGTGCAGACGCTCAGCCGGCCGGAG-AGATAGAATACGCAA
* * * *
28892483 GTTGGGGATCAGCCCGGTTCCCCCCTGTGTGCTGTCGATCCTGCTGCTGGTCCTGCTATCACAAC
248 GTCGGGCATCAGCCCGG-T-CCCCC--T-TG-TGT-G---CTAC-G--GATCCTGCTATCACAAC
* *
28892548 CCTCTGTTCGATCCGATCTTAGACTGGGAATGAACTCC-GTATGC
300 CCTCGGTACGATCCGATCTTAGACTGGGAATGAACTCCTG-ATGC
* * *
28892592 TTAGAC-ATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCACTCACC
1 TTAGACTA-GGAATGAACTCCGTATGCCTAAGTCAACCCATGAAACGAGCGTGCGGGCGCTCAGC
* *
28892656 CAGTCGGAGAGGCAGAATGCGCAAGTCGGGGATCGGCCCGGTCCCCC-CTTGCGTGCTATC-GAT
65 CAGTCGGAGAGGCATAATGCGCAAGTCGGGGATCGGCCCGGTCCCCCTC-TGCGTGCTGTCAG-T
* ** * * ** * * ** *
28892719 CCTGCTACTGCAACCATCAGTCCGGTCT-GATCTTAGACTGAGAATGAACTCTGTATGCCTAAGT
128 CCTGCTGCCACAACCCTCAGTCC-GACTAGGGCTTAGACAGGGAATGAACTCCCTATGCCTAAGC
* *
28892783 CAACCCATGAAACGAGCGT
192 CAACCCACGAAACAAGCGT
28892802 ACGGGTACTG
Statistics
Matches: 462, Mismatches: 86, Indels: 47
0.78 0.14 0.08
Matches are distributed among these distances:
343 88 0.19
347 3 0.01
348 2 0.00
350 1 0.00
355 122 0.26
356 74 0.16
357 8 0.02
359 1 0.00
360 2 0.00
361 4 0.01
362 1 0.00
363 2 0.00
364 3 0.01
365 3 0.01
366 1 0.00
367 3 0.01
368 144 0.31
ACGTcount: A:0.23, C:0.29, G:0.27, T:0.21
Consensus pattern (343 bp):
TTAGACTAGGAATGAACTCCGTATGCCTAAGTCAACCCATGAAACGAGCGTGCGGGCGCTCAGCC
AGTCGGAGAGGCATAATGCGCAAGTCGGGGATCGGCCCGGTCCCCCTCTGCGTGCTGTCAGTCCT
GCTGCCACAACCCTCAGTCCGACTAGGGCTTAGACAGGGAATGAACTCCCTATGCCTAAGCCAAC
CCACGAAACAAGCGTGCAGACGCTCAGCCGGCCGGAGAGATAGAATACGCAAGTCGGGCATCAGC
CCGGTCCCCCTTGTGTGCTACGGATCCTGCTATCACAACCCTCGGTACGATCCGATCTTAGACTG
GGAATGAACTCCTGATGC
Found at i:28893135 original size:158 final size:156
Alignment explanation
Indices: 28892591--28893421 Score: 550
Period size: 159 Copynumber: 5.2 Consensus size: 156
28892581 ACTCCGTATG
*
28892591 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCACTCACC
1 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCACTCAGC
* *
28892656 CAGTCGGAGAGGCAGAATGCGCAAGTCGGGGATCGGCCCGGTCCCCCCTTGCGTGCTATCGATCC
66 CAGTCGGAGAGGCAGAATGCGCAAGCCGGGGATCGGCCCGAT-CCCCC-TGCGTGCTATCGATCC
* * * * *
28892721 TGCTACTGCAACCATCAGTCCGGTCTGAT
129 TGCTGCAGCAACCCTC-GTCCGATCCGAT
* * * * *
28892750 CTTAGAC-TGAGAATGAACTCTGTATGCCTAAGTCAACCCATGAAACGAGCGTACGGGTACTGAG
1 CTTAGACATG-GAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCACTCAG
* * * * * * *
28892814 -CAGACCGAAAAGGCATAATGCGCAAGCCGGGGATCGACCCGATTCCCCTCTGCGTGCTACCGGT
65 CCAG-TCGGAGAGGCAGAATGCGCAAGCCGGGGATCGGCCCGA-TCCCC-CTGCGTGCTATCGAT
* * * * * * **
28892878 CCCGCTGCAACAACCCTTCAT-CTAACTGGGG
127 CCTGCTGCAGCAACCC-TCGTCCGATC-CGAT
* ** * * ** *
28892909 CTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACAAAACGGGTGTGCGGGTGCTCAAC
1 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCACTCAGC
* * * * * * *
28892974 CGGTCAGAGAGGCAGAATGCACAAGTCGGGGATCGGCCCGGTGCCCCCTACGTAC-AGTCGATCC
66 CAGTCGGAGAGGCAGAATGCGCAAGCCGGGGATCGGCCCGAT-CCCCCTGCGTGCTA-TCGATCC
*
28893038 TGCTGTC-GCGACCCTCGGTCCGATCCGAT
129 TGCTG-CAGCAACCCTC-GTCCGATCCGAT
* * * * * *
28893067 CTTAGAC-TAGGAATGAACTCCGTATGCCTAAGTCAACCAATGAAACAAGCATGCGAGCGCTCAG
1 CTTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCACTCAG
* * * * **
28893131 CCGGTGGGAGAGGCATAATGCGCAAGCCGGGGATCAGCCCGATCCCCCTCTGCGTGCTGCCGATC
65 CCAGTCGGAGAGGCAGAATGCGCAAGCCGGGGATCGGCCCGAT-CCCC-CTGCGTGCTATCGAT-
* * * **
28893196 CCGTTGTCGGTCCTGCTACCACAACCCTCGGTCCG-GCTGGGG
127 CC----T--G--CTGC-A--GCAACCCTC-GTCCGATC-CGAT
* * * * * *
28893238 CTTAGACATGGAATGAACTCCCTATGCCTAGGCCAACCCAGGAAAC-AGCATGCAGGCGCTC-GA
1 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCACTCAG-
* * * * * * * *
28893301 TCGGTCGGAGAGGCAGAATGCACAAGCTGGGGATTGGCCCGGTCCCCCCTACGTGCTGTCGATCC
65 CCAGTCGGAGAGGCAGAATGCGCAAGCCGGGGATCGGCCCGAT-CCCCCTGCGTGCTATCGATCC
* * * *
28893366 TGTTGCGGTAACCCTCGATCC-AGTTCGAT
129 TGCTGCAGCAACCCTCG-TCCGA-TCCGAT
*
28893395 CTTAGAC-TGGGAATGAACTTCGTATGC
1 CTTAGACAT-GGAATGAACTCCGTATGC
28893422 TTAAACTGGG
Statistics
Matches: 517, Mismatches: 119, Indels: 74
0.73 0.17 0.10
Matches are distributed among these distances:
156 2 0.00
157 38 0.07
158 120 0.23
159 212 0.41
160 13 0.03
162 1 0.00
164 2 0.00
166 1 0.00
167 1 0.00
168 5 0.01
169 14 0.03
170 54 0.10
171 53 0.10
172 1 0.00
ACGTcount: A:0.23, C:0.30, G:0.27, T:0.19
Consensus pattern (156 bp):
CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCACTCAGC
CAGTCGGAGAGGCAGAATGCGCAAGCCGGGGATCGGCCCGATCCCCCTGCGTGCTATCGATCCTG
CTGCAGCAACCCTCGTCCGATCCGAT
Found at i:28893181 original size:317 final size:320
Alignment explanation
Indices: 28892590--28893421 Score: 914
Period size: 317 Copynumber: 2.6 Consensus size: 320
28892580 AACTCCGTAT
* * * *
28892590 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCACTCAC
1 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAA
* * *
28892655 CCAGTCGGAGAGGCAGAATGCGCAAGTCGGGGATCGGCCCGGTCCCCCCTTGCGTGCTA-TCGAT
66 CCGGTCGGAGAGGCAGAATGCACAAGTCGGGGATCGGCCCGGTCCCCCC-TACGTGC-AGTCGAT
* * * * * * *
28892719 CCTGCTACTGCAACCATCAGTCCGGTCTGATCTTAGACTGAGAATGAACTCTGTATGCCTAAGTC
129 CCTGCTGC-GCGACCCTCGGTCCGATCCGATCTTAGACTG-GAATGAACTCCGTATGCCTAAGTC
* * * * * *
28892784 AACCCATGAAACGAGCGTACGGGTACTGAGCAGACCGAAAAGGCATAATGCGCAAGCCGGGGATC
192 AACCAATGAAACAAGCATACGAGCACTCAGCAGACCGAAAAGGCATAATGCGCAAGCCGGGGATC
* * *
28892849 GACCCGATTCCCCTCTGCGTGCT-A-CCG-GTC-CC-GCTGCAACAACCCTTC-ATCTAACTGGG
257 GACCCGATCCCCCTCTGCGTGCTCACCCGTGTCGCCTGCTACAACAACCC-TCGATCCAACTGGG
* * * *
28892908 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACAAAACGGGTGTGCGGGTGCTCAA
1 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAA
* * *
28892973 CCGGTCAGAGAGGCAGAATGCACAAGTCGGGGATCGGCCCGGTGCCCCCTACGTACAGTCGATCC
66 CCGGTCGGAGAGGCAGAATGCACAAGTCGGGGATCGGCCCGGTCCCCCCTACGTGCAGTCGATCC
28893038 TGCTGTCGCGACCCTCGGTCCGATCCGATCTTAGACTAGGAATGAACTCCGTATGCCTAAGTCAA
131 TGCTG-CGCGACCCTCGGTCCGATCCGATCTTAGACT-GGAATGAACTCCGTATGCCTAAGTCAA
* * * *** * *
28893103 CCAATGAAACAAGCATGCGAGCGCTCAGCCGGTGGGAGAGGCATAATGCGCAAGCCGGGGATC-A
194 CCAATGAAACAAGCATACGAGCACTCAGCAGACCGAAAAGGCATAATGCGCAAGCCGGGGATCGA
* * **
28893167 GCCCGATCCCCCTCTGCGTGCTGCCGATCCCGTTGTCGGTCCTGCTACCACAACCCTCGGTCCGG
259 -CCCGATCCCCCTCTGCGTGCT--C-A-CCCG-TGTC-G-CCTGCTACAACAACCCTCGATCCAA
28893232 CTGGG
316 CTGGG
* * * * *
28893237 GCTTAGACATGGAATGAACTCCCTATGCCTAGGCCAACCCAGGAAAC-AGCATGCAGGCGCTCGA
1 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAA
* * *
28893301 TCGGTCGGAGAGGCAGAATGCACAAG-CTGGGGATTGGCCCGGTCCCCCCTACGTGCTGTCGATC
66 CCGGTCGGAGAGGCAGAATGCACAAGTC-GGGGATCGGCCCGGTCCCCCCTACGTGCAGTCGATC
* * * *
28893365 CTGTTGCG-GTAACCCTCGATCC-AGTTCGATCTTAGACTGGGAATGAACTTCGTATGC
130 CTGCTGCGCG--ACCCTCGGTCCGA-TCCGATCTTAGACT-GGAATGAACTCCGTATGC
28893422 TTAAACTGGG
Statistics
Matches: 431, Mismatches: 62, Indels: 32
0.82 0.12 0.06
Matches are distributed among these distances:
316 2 0.00
317 135 0.31
318 104 0.24
321 1 0.00
323 3 0.01
325 3 0.01
326 1 0.00
327 4 0.01
328 116 0.27
329 62 0.14
ACGTcount: A:0.23, C:0.30, G:0.27, T:0.19
Consensus pattern (320 bp):
GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAA
CCGGTCGGAGAGGCAGAATGCACAAGTCGGGGATCGGCCCGGTCCCCCCTACGTGCAGTCGATCC
TGCTGCGCGACCCTCGGTCCGATCCGATCTTAGACTGGAATGAACTCCGTATGCCTAAGTCAACC
AATGAAACAAGCATACGAGCACTCAGCAGACCGAAAAGGCATAATGCGCAAGCCGGGGATCGACC
CGATCCCCCTCTGCGTGCTCACCCGTGTCGCCTGCTACAACAACCCTCGATCCAACTGGG
Found at i:28893424 original size:26 final size:26
Alignment explanation
Indices: 28893395--28893447 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28893385 CCAGTTCGAT
* *
28893395 CTTAGACTGGGAATGAACTTCGTATG
1 CTTAAACTGGGAATGAACTCCGTATG
*
28893421 CTTAAACTGGGGATGAACTCCGTATG
1 CTTAAACTGGGAATGAACTCCGTATG
28893447 C
1 C
28893448 CTAAGTTAAC
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:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (26 bp):
CTTAAACTGGGAATGAACTCCGTATG
Found at i:28893963 original size:26 final size:26
Alignment explanation
Indices: 28893925--28893977 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28893915 GGCTCAAAAT
28893925 CTTAGACTAGGAATGAACTCCATATG
1 CTTAGACTAGGAATGAACTCCATATG
*
28893951 CTTAGAC-ATGGAATGAACTCCGTATG
1 CTTAGACTA-GGAATGAACTCCATATG
28893977 C
1 C
28893978 CTAAGCCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 1 0.04
26 24 0.96
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (26 bp):
CTTAGACTAGGAATGAACTCCATATG
Found at i:28894675 original size:159 final size:158
Alignment explanation
Indices: 28894315--28894716 Score: 382
Period size: 158 Copynumber: 2.5 Consensus size: 158
28894305 AACTTCGTAT
** **
28894315 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGTGGGCGCTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACAAGCGTGCAGGCGCTCAG
* * ** * * *
28894380 CCGGTCGGAGAGGTAGAATGTGCAAGCCGGGGATCGCCCCGGTCCCACCTGCATACTATGGATCC
66 CCGGTCGAAGAGGCAGAATGCACAAGCCGAGGATCGACCCAGTCCCACCTGCATACTATGGATCC
* * * *
28894445 TACTACCGCATCCCTTGATCCGATCTAA
131 CACTACCACAACCCTCGATCCGATCTAA
* * * * *
28894473 TCTTAGAC-TGGGAATAAACTCCGTATGCCTAAGTCAACCCACGAAACAAGCGTGCAGGCGTTGA
1 GCTTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACAAGCGTGCAGGCGCTCA
* * *
28894537 GCCGGTTGAAGAGGCATAATGCACAAGCCGAGGATCGACCCAGTCCC-CCT-C-TACGTGCTGCC
65 GCCGGTCGAAGAGGCAGAATGCACAAGCCGAGGATCGACCCAGTCCCACCTGCATAC-T-ATG--
* * * **
28894599 GGTCCCGCTACCACAACCCTCGGTCCGA-CTGGG
126 GATCCCACTACCACAACCCTCGATCCGATCT-AA
* * * ** * *
28894632 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACAGGCATGTGGGCACTCAA
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACAAGCGTGCAGGCGCTCAG
* *
28894697 TCGGCCGAAGAGGCAGAATG
66 CCGGTCGAAGAGGCAGAATG
28894717 AGCAAGCTGG
Statistics
Matches: 193, Mismatches: 44, Indels: 13
0.77 0.18 0.05
Matches are distributed among these distances:
155 3 0.02
156 2 0.01
157 6 0.03
158 93 0.48
159 88 0.46
160 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.26, T:0.18
Consensus pattern (158 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACAAGCGTGCAGGCGCTCAG
CCGGTCGAAGAGGCAGAATGCACAAGCCGAGGATCGACCCAGTCCCACCTGCATACTATGGATCC
CACTACCACAACCCTCGATCCGATCTAA
Found at i:28894742 original size:159 final size:157
Alignment explanation
Indices: 28894315--28894753 Score: 426
Period size: 159 Copynumber: 2.8 Consensus size: 157
28894305 AACTTCGTAT
*
28894315 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAA-TGAGCGTGTGGGCGCTCA
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACAG-GCGTGTGGGCGCTCA
* * * * *
28894379 GCCGGTCGGAGAGGTAGAATGTGCAAGCCGGGGATCGCCCCGGTCCCACCTGCATAC-T-ATGGA
65 GCCGGTCGAAGAGGCAGAATGAGCAAGCCGGGGATCGACCCGGTCCC-CCT-C-TACGTGCTGGA
* * * *
28894442 TCCTACTACCGCATCCCTTGATCCGATCTAA
127 TCCCACTACCACAACCCTCGATCCGATCTAA
* * * * ** * *
28894473 TCTTAGAC-TGGGAATAAACTCCGTATGCCTAAGTCAACCCACGAAACAAGCGTGCAGGCGTTGA
1 GCTTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACAGGCGTGTGGGCGCTCA
* * * * *
28894537 GCCGGTTGAAGAGGCATAATGCA-CAAGCCGAGGATCGACCCAGTCCCCCTCTACGTGCTGCCGG
65 GCCGGTCGAAGAGGCAGAATG-AGCAAGCCGGGGATCGACCCGGTCCCCCTCTACGTGCTG--GA
* * **
28894601 TCCCGCTACCACAACCCTCGGTCCGA-CTGGG
127 TCCCACTACCACAACCCTCGATCCGATCT-AA
* * * *
28894632 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACAGGCATGTGGGCACTCAA
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACAGGCGTGTGGGCGCTCAG
* * *
28894697 TCGGCCGAAGAGGCAGAATGAGCAAGCTGGGGATC-AGCCCGGTCCCCCT-TACGTGCT
66 CCGGTCGAAGAGGCAGAATGAGCAAGCCGGGGATCGA-CCCGGTCCCCCTCTACGTGCT
28894754 ACCAATCCTG
Statistics
Matches: 224, Mismatches: 46, Indels: 22
0.77 0.16 0.08
Matches are distributed among these distances:
155 3 0.01
156 2 0.01
157 6 0.03
158 102 0.46
159 110 0.49
160 1 0.00
ACGTcount: A:0.25, C:0.31, G:0.26, T:0.18
Consensus pattern (157 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACAGGCGTGTGGGCGCTCAG
CCGGTCGAAGAGGCAGAATGAGCAAGCCGGGGATCGACCCGGTCCCCCTCTACGTGCTGGATCCC
ACTACCACAACCCTCGATCCGATCTAA
Found at i:28894832 original size:26 final size:26
Alignment explanation
Indices: 28894791--28894843 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28894781 CCGGTCTGAT
*
28894791 CTTAGACTGGGAATGAACTTCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28894817 CTTAGACTGAGG-ATGAACTCCGTATG
1 CTTAGACTG-GGAATGAACTCCGTATG
28894843 C
1 C
28894844 CTAAGTTAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28895678 original size:159 final size:158
Alignment explanation
Indices: 28895197--28895693 Score: 432
Period size: 159 Copynumber: 3.1 Consensus size: 158
28895187 AACTCAGTAT
* * * * * *
28895197 TCTTAGACAT-GGAATGAACTCCCTATGCCTAAGCCAACCCATGAAATGAACGTGCGAGCACTCA
1 TCTTAGACATGGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAACGAGCGTGTGGGCGCGCA
** * * * * * * * *
28895261 GTAGATCGAAAAGGCAGAATGCACAAGCTAGGGATCGGCCCGATCCCCCCTGCGTGCTGTCGATC
66 GCCGACCGGAGAGGCAGAATGCGCTAGC-GGGGATCGGCCCGATCCCCTCTGCGTGCTGCCGATC
* ** * * *
28895326 TTGCTGTCGTAACGCTTGGTCCGGTCTGA
130 CTGCTACCGTAACCCTCGATCCGGTCTGA
* ** * * *
28895355 TCTTAGA-TTGGGAATGAACTCTGTATGCCTAAGTCAACCCATGAAACAAGCGTGTAGGCGCTG-
1 TCTTAGACATGGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAACGAGCGTGTGGGCGC-GC
* * * * *
28895418 AGCCGACCAGAGAGGCATAATGCG-TAAGTCGAGGATCGACCCGACCCCCCTCTGCGTGCTGCCG
65 AGCCGACCGGAGAGGCAGAATGCGCT-AG-CGGGGATCGGCCCGA-TCCCCTCTGCGTGCTGCCG
* * * * * * *
28895482 GTCCCGCTACCGCAACCCTCAAT-CTGACTGGG
127 ATCCTGCTACCGTAACCCTCGATCCGGTCT-GA
* * * *
28895514 GCTTAGACAT-GGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGGGCGTGTGGGGGCGCA
1 TCTTAGACATGGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAACGAGCGTGTGGGCGCGCA
* * * *
28895578 GCCGACCGGAGAGGTAGAATGTGCTAGCCGGGGGATTGGCCCGGTCCCCTCTGCGTGCTGCCGAT
66 GCCGACCGGAGAGGCAGAATGCGCTAG-C-GGGGATCGGCCCGATCCCCTCTGCGTGCTGCCGAT
*
28895643 CCTACTACCGTAACCCTCGATCCGGTCTGA
129 CCTGCTACCGTAACCCTCGATCCGGTCTGA
28895673 TCTTAGAC-TGGGAATGAACTC
1 TCTTAGACATGGGAATGAACTC
28895694 TGTATGCTTA
Statistics
Matches: 258, Mismatches: 69, Indels: 23
0.74 0.20 0.07
Matches are distributed among these distances:
157 1 0.00
158 83 0.32
159 158 0.61
160 16 0.06
ACGTcount: A:0.23, C:0.29, G:0.27, T:0.20
Consensus pattern (158 bp):
TCTTAGACATGGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAACGAGCGTGTGGGCGCGCA
GCCGACCGGAGAGGCAGAATGCGCTAGCGGGGATCGGCCCGATCCCCTCTGCGTGCTGCCGATCC
TGCTACCGTAACCCTCGATCCGGTCTGA
Found at i:28895703 original size:26 final size:26
Alignment explanation
Indices: 28895674--28895726 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 26
28895664 CCGGTCTGAT
28895674 CTTAGACTGG-GAATGAAC-TCTGTATG
1 CTTAGACTGGTG-ATGAACTTC-GTATG
28895700 CTTAGACTGGTGATGAACTTCGTATG
1 CTTAGACTGGTGATGAACTTCGTATG
28895726 C
1 C
28895727 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (26 bp):
CTTAGACTGGTGATGAACTTCGTATG
Found at i:28896055 original size:26 final size:26
Alignment explanation
Indices: 28896019--28896071 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
28896009 CCGGTCTGAT
28896019 CTTAGACTGGGAATGAACTCTATATG
1 CTTAGACTGGGAATGAACTCTATATG
* *
28896045 CTTAGACTGGGGATGAACTCTGTATG
1 CTTAGACTGGGAATGAACTCTATATG
28896071 C
1 C
28896072 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCTATATG
Found at i:28896778 original size:26 final size:26
Alignment explanation
Indices: 28896740--28896792 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28896730 GGCTCAAAAT
28896740 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
*
28896766 CTTAGACAT-GGAATGAACTCCTTATG
1 CTTAGAC-TGGGAATGAACTCCGTATG
28896792 C
1 C
28896793 CTAAGCCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28897127 original size:159 final size:158
Alignment explanation
Indices: 28896924--28897519 Score: 474
Period size: 159 Copynumber: 3.8 Consensus size: 158
28896914 CTGGTTCAAT
** * * *
28896924 CTTAGAC-TGGGAATGAACTCTGTATGCAT-AACTCAACCCATGAAATGAGCGTGCGGGCGCTGA
1 CTTAGACATGGGAATGAACTCCCTATGCATAAAC-CAACCCACGAAACGAGCGTGCGGGCGCTCA
* *
28896987 GCCGATCGAAGAGGCATAATGCGCAAGCCAGGGATCGACCTGGTCCCCCTCTGCATGCTGCAGGA
65 GCCGATCGAAGAGGCAGAATGCGCAAGCCAGGGATCGACCCGGTCCCCC-CTGCATGCTGC-GGA
*
28897052 CCCGCTGCCACAACCCTCAGTCCAATAGGGC
128 CCAGCTGCCACAACCCTCAGTCCAATAGGGC
* ** * **
28897083 CTTAGACAT-GGAATGAACTCCCTATGCCTAAACCAACCCGTGAAACGGGCGTGCACGCGCTCAG
1 CTTAGACATGGGAATGAACTCCCTATGCATAAACCAACCCACGAAACGAGCGTGCGGGCGCTCAG
* * * *** * * * *
28897147 TCGA-CCAGAGAGGCAGAAT-CGTAAGTTGGGGATCGGCCCGGTCCCCCATGCGTGCTGCCGATC
66 CCGATCGA-AGAGGCAGAATGCGCAAGCCAGGGATCGACCCGGTCCCCCCTGCATGCTGCGGA-C
* * ** * ** **
28897210 CTGCTG-TAGCAACCCTTGGTCCGATCTGAT
129 CAGCTGCCA-CAACCCTCAGTCCAATAGGGC
* * * * * *
28897240 CTTAGA-TTGGGAATGAACTCCGTATGCATAAGCCAACCCACGAAATGAGCATGCGGGCGCTGAG
1 CTTAGACATGGGAATGAACTCCCTATGCATAAACCAACCCACGAAACGAGCGTGCGGGCGCTCAG
** * ** * * * *
28897304 CCGGCCGAAAAGGCTTAATGCTCAAGCCAGGGATCGGCCCGGTCCCCCTCT-CTGTGCTGTCGGT
66 CCGATCGAAGAGGCAGAATGCGCAAGCCAGGGATCGACCCGGTCCCCC-CTGC-ATGCTG-CGGA
* * *
28897368 CCAGCTGCCACAAGCCTCAGTCCAGTAGGGG
128 CCAGCTGCCACAACCCTCAGTCCAATAGGGC
* * * * *
28897399 CTTAGATAT-GGAATGAACTCCCTATACCTAAGCCAACCCACGAAACGGGCGTGCGGGCGCTCAG
1 CTTAGACATGGGAATGAACTCCCTATGCATAAACCAACCCACGAAACGAGCGTGCGGGCGCTCAG
* * * * * *
28897463 TCGATCGGAGACGCAGAACGTGCAAG-CTGGGAATCGACCCGGTCCCCCCTGCATGCT
66 CCGATCGAAGAGGCAGAATGCGCAAGCCAGGG-ATCGACCCGGTCCCCCCTGCATGCT
28897520 ATCGATCCTA
Statistics
Matches: 333, Mismatches: 89, Indels: 31
0.74 0.20 0.07
Matches are distributed among these distances:
156 4 0.01
157 89 0.27
158 60 0.18
159 172 0.52
160 8 0.02
ACGTcount: A:0.24, C:0.31, G:0.28, T:0.18
Consensus pattern (158 bp):
CTTAGACATGGGAATGAACTCCCTATGCATAAACCAACCCACGAAACGAGCGTGCGGGCGCTCAG
CCGATCGAAGAGGCAGAATGCGCAAGCCAGGGATCGACCCGGTCCCCCCTGCATGCTGCGGACCA
GCTGCCACAACCCTCAGTCCAATAGGGC
Found at i:28897350 original size:316 final size:316
Alignment explanation
Indices: 28896766--28897583 Score: 1018
Period size: 316 Copynumber: 2.6 Consensus size: 316
28896756 ACTCCGTATG
* ** *
28896766 CTTAGACATGGAATGAACTCCTTATGCCTAAGCCAACCCACGAAACGACCGTGCTGGCGCTCAGT
1 CTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGGGCGTGCAGGCGCTCAGT
* * * * ** *
28896831 CGGCCAGAGAGGCAGAATGCGCAAACTGGGGATTGGCCCAATCCCCCCTGCGTGTTGTCGATCCT
66 CGACCAGAGAGGCAGAAT-CGTAAGCTGGGGATCGGCCCGGTCCCCCCTGCGTGCTGTCGATCCT
* * * * * * *
28896896 ACTGCCGTAACCTTTGGTCTGGT-TCAATCTTAGACTGGGAATGAACTCTGTATGCATAACTCAA
130 ACTGTCGAAACCCTTGGTCCGATCT-GATCTTAGACTGGGAATGAACTCCGTATGCATAACTCAA
* * * *
28896960 CCCATGAAATGAGCGTGCGGGCGCTGAGCCGATCGAAGAGGCATAATGCGCAAGCCAGGGATCGA
194 CCCACGAAATGAGCATGCGGGCGCTGAGCCGACCGAAAAGGCATAATGCGCAAGCCAGGGATCGA
* *
28897025 CCTGGTCCCCCTCTGC-ATGCTG-CAGGACCCGCTGCCACAACCCTCAGTCCAATAGGGC
259 CCCGGTCCCCCTCT-CTATGCTGTC-GGACCAGCTGCCACAACCCTCAGTCCAATAGGGC
* ** *
28897083 CTTAGACATGGAATGAACTCCCTATGCCTAAACCAACCCGTGAAACGGGCGTGCACGCGCTCAGT
1 CTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGGGCGTGCAGGCGCTCAGT
* * * *
28897148 CGACCAGAGAGGCAGAATCGTAAGTTGGGGATCGGCCCGGTCCCCCATGCGTGCTGCCGATCCTG
66 CGACCAGAGAGGCAGAATCGTAAGCTGGGGATCGGCCCGGTCCCCCCTGCGTGCTGTCGATCCTA
* * *
28897213 CTGTAGCAACCCTTGGTCCGATCTGATCTTAGATTGGGAATGAACTCCGTATGCATAAGC-CAAC
131 CTGTCGAAACCCTTGGTCCGATCTGATCTTAGACTGGGAATGAACTCCGTATGCATAA-CTCAAC
* * * *
28897277 CCACGAAATGAGCATGCGGGCGCTGAGCCGGCCGAAAAGGCTTAATGCTCAAGCCAGGGATCGGC
195 CCACGAAATGAGCATGCGGGCGCTGAGCCGACCGAAAAGGCATAATGCGCAAGCCAGGGATCGAC
* * * * *
28897342 CCGGTCCCCCTCTCTGTGCTGTCGGTCCAGCTGCCACAAGCCTCAGTCCAGTAGGGG
260 CCGGTCCCCCTCTCTATGCTGTCGGACCAGCTGCCACAACCCTCAGTCCAATAGGGC
* * *
28897399 CTTAGATATGGAATGAACTCCCTATACCTAAGCCAACCCACGAAACGGGCGTGCGGGCGCTCAGT
1 CTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGGGCGTGCAGGCGCTCAGT
* * * * * * *
28897464 CGATCGGAGACGCAGAA-CGTGCAAGCTGGGAATCGACCCGGTCCCCCCTGCATGCTATCGATCC
66 CGACCAGAGAGGCAGAATCGT--AAGCTGGGGATCGGCCCGGTCCCCCCTGCGTGCTGTCGATCC
* *
28897528 TACTGTCGAAACCCTCGGTCC-AGTCCGATCTTAGACTGGGAATGAACTCCGTATGC
129 TACTGTCGAAACCCTTGGTCCGA-TCTGATCTTAGACTGGGAATGAACTCCGTATGC
28897584 TTAGATGTGG
Statistics
Matches: 428, Mismatches: 66, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
315 4 0.01
316 264 0.62
317 160 0.37
ACGTcount: A:0.23, C:0.30, G:0.27, T:0.19
Consensus pattern (316 bp):
CTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGGGCGTGCAGGCGCTCAGT
CGACCAGAGAGGCAGAATCGTAAGCTGGGGATCGGCCCGGTCCCCCCTGCGTGCTGTCGATCCTA
CTGTCGAAACCCTTGGTCCGATCTGATCTTAGACTGGGAATGAACTCCGTATGCATAACTCAACC
CACGAAATGAGCATGCGGGCGCTGAGCCGACCGAAAAGGCATAATGCGCAAGCCAGGGATCGACC
CGGTCCCCCTCTCTATGCTGTCGGACCAGCTGCCACAACCCTCAGTCCAATAGGGC
Found at i:28897586 original size:26 final size:26
Alignment explanation
Indices: 28897557--28897609 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
28897547 CCAGTCCGAT
28897557 CTTAGACTG-GGAATGAACTCCGTATG
1 CTTAGA-TGTGGAATGAACTCCGTATG
28897583 CTTAGATGTGGAATGAACTCCGTATG
1 CTTAGATGTGGAATGAACTCCGTATG
28897609 C
1 C
28897610 ATAAGTCAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 2 0.08
26 24 0.92
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (26 bp):
CTTAGATGTGGAATGAACTCCGTATG
Found at i:28897768 original size:185 final size:184
Alignment explanation
Indices: 28897398--28897768 Score: 476
Period size: 184 Copynumber: 2.0 Consensus size: 184
28897388 TCCAGTAGGG
* **
28897398 GCTTAGATATGGAATGAACTCCCTATACCTAAGCCAACCCACGAAACGGGCGTGCGGGCGCTCAG
1 GCTTAGATATGGAATGAACTCCCTATACATAAGCCAACCCACGAAACGAACGTGCGGGCGCTCAG
* * * *
28897463 TCGATCGGAGACGCAGAACGTGCAAGCTGGGAATCGACCCGGTCCCCCCTGCATGCTATCGATCC
66 TCGATCGGAGACGCAAAACGCGCAAGCTGGGAATCGACCCAGTCCCCACTGCATGCTATCGATCC
* * *
28897528 TACTGTCGAAACCCTCGGTCCAGTCCGATCTTAGACTGGGAATGAACTCCGTAT
131 TACTATCGAAACCCTCGATCCAGTCCGATCCTAGACTGGGAATGAACTCCGTAT
* * * *
28897582 GCTTAGATGTGGAATGAACTCCGTATGCATAAGTCAACCCACGAAACGAACGTGCGGGCGCTCAG
1 GCTTAGATATGGAATGAACTCCCTATACATAAGCCAACCCACGAAACGAACGTGCGGGCGCTCAG
* * * * * **
28897647 TCGGTCAGG-GAGGCAAAATGCGTAAGCTAGGG-ATCGGCCCAGTGCCCCACTGTGTGCTATCGA
66 TCGATC-GGAGACGCAAAACGCGCAAGCT-GGGAATCGACCCAGT-CCCCACTGCATGCTATCGA
* * * *
28897710 TCCTGCTATCGCAACCCTCGATCCGGTCCGATCCTAGACTGGTAATGAACTCCGTAT
128 TCCTACTATCGAAACCCTCGATCCAGTCCGATCCTAGACTGGGAATGAACTCCGTAT
28897767 GC
1 GC
28897769 CTAAGTCAAC
Statistics
Matches: 159, Mismatches: 25, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
184 86 0.54
185 73 0.46
ACGTcount: A:0.24, C:0.29, G:0.26, T:0.20
Consensus pattern (184 bp):
GCTTAGATATGGAATGAACTCCCTATACATAAGCCAACCCACGAAACGAACGTGCGGGCGCTCAG
TCGATCGGAGACGCAAAACGCGCAAGCTGGGAATCGACCCAGTCCCCACTGCATGCTATCGATCC
TACTATCGAAACCCTCGATCCAGTCCGATCCTAGACTGGGAATGAACTCCGTAT
Found at i:28897884 original size:159 final size:158
Alignment explanation
Indices: 28897591--28898077 Score: 509
Period size: 159 Copynumber: 3.1 Consensus size: 158
28897581 TGCTTAGATG
* * *
28897591 TGGAATGAACTCCGTATGCATAAGTCAACCCACGAAACGAACGTGCGGGCGCTCAGTCGGTCAGG
1 TGGAATGAACTCCGTATGCCTAAGTCAACCCACGAAACGAGCGTGCGGGCGCTCAGCCGGTCAGG
* * * *
28897656 -GAGGCAAAATGCGTAAG-CTAGGGATCGGCCCAGTGCCCCACTGTGTGCTATCGATCCTGCTAT
66 AGAGGCAAAATGCGTAAGCCGA-GGATCGGCCCAGT-CCCCACTGCGTGCTGTCGATCCTGCTAC
* *
28897719 CGCAACCCTCGATCCGGTCCGATCCTAGAC
129 CACAACCCTCGATCCGGTCCGATCTTAGAC
* * *** *
28897749 TGGTAATGAACTCCGTATGCCTAAGTCAACCCACGAAATGAGCGTGTGGGAAATGAG-C-GTGCA
1 TGG-AATGAACTCCGTATGCCTAAGTCAACCCACGAAACGAGCGTGCGGGCGCTCAGCCGGT-CA
* * * * * * * *
28897812 GGAGAGGCATAATGCGCAAGCCGAGGATCGGCCCAGTCCCCCTCTACATGCTGCCGATCCCGCTG
64 GGAGAGGCAAAATGCGTAAGCCGAGGATCGGCCCAGT-CCCCACTGCGTGCTGTCGATCCTGCTA
* * **
28897877 CCACAACCCTC-AGTCTGGTCAGGGCTTAGAC
128 CCACAACCCTCGA-TCCGGTCCGATCTTAGAC
* * * *
28897908 ATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGGGCGTACGGGCGCTCAGCCGGTC-G
1 -TGGAATGAACTCCGTATGCCTAAGTCAACCCACGAAACGAGCGTGCGGGCGCTCAGCCGGTCAG
* * * * *
28897972 GAGAGGCAGAGTGCGTAAGCCGAGGATCGACCCGGTCCCCGCTGCGTGCTGTCGATCCTGCTACC
65 GAGAGGCAAAATGCGTAAGCCGAGGATCGGCCCAGTCCCCACTGCGTGCTGTCGATCCTGCTACC
* **
28898037 ACAACCCTTGATCCAATCCGATCTTAGAC
130 ACAACCCTCGATCCGGTCCGATCTTAGAC
28898066 TGGGAATGAACT
1 T-GGAATGAACT
28898078 TCATATGCTT
Statistics
Matches: 264, Mismatches: 55, Indels: 20
0.78 0.16 0.06
Matches are distributed among these distances:
157 3 0.01
158 62 0.23
159 190 0.72
160 7 0.03
161 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.28, T:0.18
Consensus pattern (158 bp):
TGGAATGAACTCCGTATGCCTAAGTCAACCCACGAAACGAGCGTGCGGGCGCTCAGCCGGTCAGG
AGAGGCAAAATGCGTAAGCCGAGGATCGGCCCAGTCCCCACTGCGTGCTGTCGATCCTGCTACCA
CAACCCTCGATCCGGTCCGATCTTAGAC
Found at i:28898095 original size:26 final size:26
Alignment explanation
Indices: 28898059--28898109 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
28898049 CCAATCCGAT
*
28898059 CTTAGACTGGGAATGAACTTCATATG
1 CTTAGACTGGGAATGAACTCCATATG
* *
28898085 CTTAGACTGGGGATTAACTCCATAT
1 CTTAGACTGGGAATGAACTCCATAT
28898110 TCCTAAGTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCATATG
Found at i:28898147 original size:502 final size:500
Alignment explanation
Indices: 28897091--28898214 Score: 1295
Period size: 502 Copynumber: 2.2 Consensus size: 500
28897081 GCCTTAGACA
* * ** ** ** ** ** *
28897091 TGGAATGAACTCCCTATGCCTAAACCAACCCGTGAAACGGGCGTGCACGCGCTCAGTCGACCAGA
1 TGGAATGAACTCCATATGCATAAGTCAACCCACGAAACGAACGTGCGGGCGCTCAGTCGGTCAGG
* * ** *
28897156 GAGGCAGAAT-CGTAAGTTGGGGATCGGCCCGGTCCCCCA-TGCGTGCTGCCGATCCTGCTGTAG
66 GAGGCAAAATGCGTAAG-TAGGGATCGGCCC-GTCCCCCACTGCGTGCTATCGATCCTGCTATAG
* * * * *
28897219 CAACCCTTGGTCCGATCTGATCTTAGATTGGGAATGAACTCCGTATGCATAAGCCAACCCACGAA
129 CAACCCTCGATCCGATCCGATCCTAGACTGGGAATGAACTCCGTATGCATAAGCCAACCCACGAA
*** * * * *
28897284 ATGAGCATGCGGGCGCTGAGCCGGCCGAAAAGGCTTAATGCTCAAGCCAGGGATCGGCCCGGTCC
194 ATGAGCATGCGGGAAATGAGCCGGCAGAAAAGGCATAATGCGCAAGCCAGGGATCGGCCCAGTCC
* * * * *
28897349 CCCTCTCTGTGCTGTCGGTCCAGCTGCCACAAGCCTCAGTCCAGTAGGGGCTTAGATATGGAATG
259 CCCTCTCTATGCTGCCGATCCAGCTGCCACAACCCTCAGTCCAGTAGGGGCTTAGACATGGAATG
* *
28897414 AACTCCCTATACCTAAGCCAACCCACGAAACGGGCGTGCGGGCGCTCAGTCGATCGGAGACGCAG
324 AACTCCCTATACCTAAGCCAACCCACGAAACGGGCGTACGGGCGCTCAGCCGATCGGAGACGCAG
* * *
28897479 AACGTGCAAGCTGGGAATCGACCCGGTCCCCCCTGCATGCTATCGATCCTACTGTCGAAACCCTC
389 AACGTGCAAGCCGGGAATCGACCCGGTCCCCCCTGCATGCTATCGATCCTACTGACCAAACCCTC
* * *
28897544 GGTCCAGTCCGATCTTAGACTGGGAATGAACTCCGTATGCTTAGATG
454 GATCCAATCCGATCTTAGACTGGGAATGAACTCCATATGCTTAGATG
*
28897591 TGGAATGAACTCCGTATGCATAAGTCAACCCACGAAACGAACGTGCGGGCGCTCAGTCGGTCAGG
1 TGGAATGAACTCCATATGCATAAGTCAACCCACGAAACGAACGTGCGGGCGCTCAGTCGGTCAGG
* * *
28897656 GAGGCAAAATGCGTAAGCTAGGGATCGGCCCAGTGCCCCACTGTGTGCTATCGATCCTGCTATCG
66 GAGGCAAAATGCGTAAG-TAGGGATCGGCCC-GTCCCCCACTGCGTGCTATCGATCCTGCTATAG
* * * *
28897721 CAACCCTCGATCCGGTCCGATCCTAGACTGGTAATGAACTCCGTATGCCTAAGTCAACCCACGAA
129 CAACCCTCGATCCGATCCGATCCTAGACTGGGAATGAACTCCGTATGCATAAGCCAACCCACGAA
* * * *
28897786 ATGAGCGTGTGGGAAATGAG-CGTGCAGGAGAGGCATAATGCGCAAGCC-GAGGATCGGCCCAGT
194 ATGAGCATGCGGGAAATGAGCCG-GCAGAAAAGGCATAATGCGCAAGCCAG-GGATCGGCCCAGT
* **
28897849 CCCCCTCTAC-ATGCTGCCGATCCCGCTGCCACAACCCTCAGTCTGGTCA-GGGCTTAGACATGG
257 CCCCCTCT-CTATGCTGCCGATCCAGCTGCCACAACCCTCAGTCCAGT-AGGGGCTTAGACATGG
* * *
28897912 AATGAACTCCCTATGCCTAAGCCAACCCACGAAACGGGCGTACGGGCGCTCAGCCGGTCGGAGAG
320 AATGAACTCCCTATACCTAAGCCAACCCACGAAACGGGCGTACGGGCGCTCAGCCGATCGGAGAC
* * * *
28897977 GCAG-A-GTGCGTAAGCCGAGG-ATCGACCCGGTCCCCGCTGCGTGCTGTCGATCCTGCT-ACCA
385 GCAGAACGTGC--AAGCCG-GGAATCGACCCGGTCCCCCCTGCATGCTATCGATCCTACTGACCA
* *
28898038 CAACCCTTGATCCAATCCGATCTTAGACTGGGAATGAACTTCATATGCTTAGACTG
447 -AACCCTCGATCCAATCCGATCTTAGACTGGGAATGAACTCCATATGCTTAGA-TG
* * * * * * *
28898094 -GGGATTAACTCCATATTCCTAAGTCAACCCAC-AGAATGAGCGTGTGGGCGCTCAG-CTGGTC-
1 TGGAATGAACTCCATATGCATAAGTCAACCCACGA-AACGAACGTGCGGGCGCTCAGTC-GGTCA
* * *
28898155 GGAGAGGCATAATGCGTAAGTCAGGGATCAGCCCGATCCCCCTCTGCGTGCTATCGATCC
64 GG-GAGGCAAAATGCGTAAGT-AGGGATCGGCCCG-TCCCCCACTGCGTGCTATCGATCC
28898215 CGCTGTCGGT
Statistics
Matches: 527, Mismatches: 81, Indels: 30
0.83 0.13 0.05
Matches are distributed among these distances:
500 65 0.12
501 37 0.07
502 419 0.80
503 6 0.01
ACGTcount: A:0.23, C:0.30, G:0.27, T:0.19
Consensus pattern (500 bp):
TGGAATGAACTCCATATGCATAAGTCAACCCACGAAACGAACGTGCGGGCGCTCAGTCGGTCAGG
GAGGCAAAATGCGTAAGTAGGGATCGGCCCGTCCCCCACTGCGTGCTATCGATCCTGCTATAGCA
ACCCTCGATCCGATCCGATCCTAGACTGGGAATGAACTCCGTATGCATAAGCCAACCCACGAAAT
GAGCATGCGGGAAATGAGCCGGCAGAAAAGGCATAATGCGCAAGCCAGGGATCGGCCCAGTCCCC
CTCTCTATGCTGCCGATCCAGCTGCCACAACCCTCAGTCCAGTAGGGGCTTAGACATGGAATGAA
CTCCCTATACCTAAGCCAACCCACGAAACGGGCGTACGGGCGCTCAGCCGATCGGAGACGCAGAA
CGTGCAAGCCGGGAATCGACCCGGTCCCCCCTGCATGCTATCGATCCTACTGACCAAACCCTCGA
TCCAATCCGATCTTAGACTGGGAATGAACTCCATATGCTTAGATG
Found at i:28898464 original size:26 final size:26
Alignment explanation
Indices: 28898426--28898478 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28898416 CTGGTTTGAT
*
28898426 CTTAGACTAGGAATGAACTCCGTATG
1 CTTAGACTAGGAATGAACTCCATATG
28898452 CTTAGAC-ATGGAATGAACTCCATATG
1 CTTAGACTA-GGAATGAACTCCATATG
28898478 C
1 C
28898479 CTAAGCCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 1 0.04
26 24 0.96
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (26 bp):
CTTAGACTAGGAATGAACTCCATATG
Found at i:28898880 original size:159 final size:158
Alignment explanation
Indices: 28898451--28898881 Score: 461
Period size: 159 Copynumber: 2.7 Consensus size: 158
28898441 AACTCCGTAT
*
28898451 GCTTAGACATGGAATGAACTCCATATGCCTAAGCCAACCCACGAAATGAGCGTGTGGGAGCTCAG
1 GCTTAGACATGGAATGAACTCCATATGCCTAAGCCAACCCATGAAATGAGCGTGTGGGAGCTCAG
* * * * * * * *
28898516 TCGGTCGGAGAGGCAGAATGCGTAAACCGAGGATCAGCCTGGTTCCCC-CTGCGTGCTATCAATC
66 CCGGTCGGAGAGGCAGAATGTGCAAGCCGAGGATCGGCC-GGTCCCCCTCTGCGTACTACCAATC
* * * *
28898580 CTGCTGCCACAACCCTCAGTCCGGTTTGA
130 CTACTACCACAACCCTCAGTCCGGCTGGA
* * * * * *
28898609 TCTTAGAC-TGGGAATGAACTCCGTATGCCTAAGTCAACCTATGAAATGAGCGTGTGGGTGCTGA
1 GCTTAGACAT-GGAATGAACTCCATATGCCTAAGCCAACCCATGAAATGAGCGTGTGGGAGCTCA
* * * * * * **
28898673 GCCAGTCGGAGAGGCATAATGTGCAAGTCGGGGATCAGGCCAGTCCCCCTCTGCGTACTGCCGGT
65 GCCGGTCGGAGAGGCAGAATGTGCAAGCCGAGGATC-GGCCGGTCCCCCTCTGCGTACTACCAAT
* *
28898738 CCTACTACCACAACCCTCGGTCCGGCTGGG
129 CCTACTACCACAACCCTCAGTCCGGCTGGA
* * * * ** *
28898768 GCTTAGACATGGAATGAACTCCCTATGCCAAAGCCAACCCATGAAACGGGCGTGCAGGCGCTCAG
1 GCTTAGACATGGAATGAACTCCATATGCCTAAGCCAACCCATGAAATGAGCGTGTGGGAGCTCAG
* * *
28898833 CCGGCCGGAGAGGTAGAATGTGCAAGCCGAGGATCGGTCCGGCCCCCCT
66 CCGGTCGGAGAGGCAGAATGTGCAAGCCGAGGATCGG-CCGGTCCCCCT
28898882 ACATGCTGTC
Statistics
Matches: 220, Mismatches: 48, Indels: 9
0.79 0.17 0.03
Matches are distributed among these distances:
157 1 0.00
158 91 0.41
159 127 0.58
160 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.29, T:0.19
Consensus pattern (158 bp):
GCTTAGACATGGAATGAACTCCATATGCCTAAGCCAACCCATGAAATGAGCGTGTGGGAGCTCAG
CCGGTCGGAGAGGCAGAATGTGCAAGCCGAGGATCGGCCGGTCCCCCTCTGCGTACTACCAATCC
TACTACCACAACCCTCAGTCCGGCTGGA
Found at i:28898976 original size:26 final size:26
Alignment explanation
Indices: 28898926--28898976 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
28898916 CTGGTCCGAT
**
28898926 CTTAGACTGGGAATGAACTTTGTATC
1 CTTAGACTGGGAATGAACTCCGTATC
28898952 CTTAGACTAGGG-ATGAACTCCGTAT
1 CTTAGACT-GGGAATGAACTCCGTAT
28898977 GCCTAAGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 19 0.86
27 3 0.14
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATC
Found at i:28899311 original size:26 final size:26
Alignment explanation
Indices: 28899282--28899334 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28899272 CCAATCCGAT
28899282 CTTACACTAGGAATGAACTCCGTATG
1 CTTACACTAGGAATGAACTCCGTATG
* * *
28899308 CTTAGACTGGGGATGAACTCCGTATG
1 CTTACACTAGGAATGAACTCCGTATG
28899334 C
1 C
28899335 CTAGGTTAAC
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:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (26 bp):
CTTACACTAGGAATGAACTCCGTATG
Found at i:28900038 original size:26 final size:26
Alignment explanation
Indices: 28900000--28900052 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
28899990 GGCTCAAACT
28900000 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28900026 CTTAGACAT-GGAATGAACTCCGTATG
1 CTTAGAC-TGGGAATGAACTCCGTATG
28900052 C
1 C
28900053 CTAAGCCAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 25 0.96
27 1 0.04
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28900541 original size:26 final size:26
Alignment explanation
Indices: 28900499--28900551 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28900489 GGCTCAAACT
*
28900499 CTTAGACTGAGATTGAACTCCGTATG
1 CTTAGACTGAGAATGAACTCCGTATG
28900525 CTTAGACATG-GAATGAACTCCGTATG
1 CTTAGAC-TGAGAATGAACTCCGTATG
28900551 C
1 C
28900552 CTAAGCCAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (26 bp):
CTTAGACTGAGAATGAACTCCGTATG
Found at i:28900724 original size:26 final size:26
Alignment explanation
Indices: 28900695--28900747 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28900685 CCGGTCTGAT
28900695 CTTAGAC-TGGGAATGAACTCTGTATG
1 CTTAGACAT-GGAATGAACTCTGTATG
*
28900721 CTTAGACATGGAATTAACTCTGTATG
1 CTTAGACATGGAATGAACTCTGTATG
28900747 C
1 C
28900748 CTAAGCCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (26 bp):
CTTAGACATGGAATGAACTCTGTATG
Found at i:28900833 original size:196 final size:196
Alignment explanation
Indices: 28900498--28900853 Score: 493
Period size: 196 Copynumber: 1.8 Consensus size: 196
28900488 TGGCTCAAAC
* **
28900498 TCTTAGACTGAGATTGAACTCCGTATGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAGGC
1 TCTTAGACTGAGAATGAACTCCGTATGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACC
* * *
28900563 CATGAAACGAGCGTGCGGGCGCTCAGTCGGCCAGAGAGGCAGAATGCACAAGTCGGGGATCGGCC
66 CACGAAACGAGCGTGAGGGCGCTCAGTCGGCCAGAGAGGCAGAATGCACAAGTCGGGGATCGACC
* * *
28900628 CGGTCCCCCCTGC-GTGCTGTCGATGCTGCTGCTGGTCCTACAGTCGCAACCCCCGGTCCGGTCT
131 CGATCCCCCCTGCAG-GCTATCGATCCTGCTGCTGGTCCTACAGTCGCAACCCCCGGTCCGGTCT
28900692 GA
195 GA
* * * *
28900694 TCTTAGACTGGGAATGAACTCTGTATGCTTAGACATGGAATTAACTCTGTATGCCTAAGCCAACC
1 TCTTAGACTGAGAATGAACTCCGTATGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACC
** * * * *
28900759 CACGAATTGAGCGTGAGGGTGCTCAG-CTGGTCAGAGAGGCTGAATGCGCAAG-CTGGGGATCGA
66 CACGAAACGAGCGTGAGGGCGCTCAGTC-GGCCAGAGAGGCAGAATGCACAAGTC-GGGGATCGA
28900822 CCCGATCCCCCCTGCAGGCTATCGATCCTGCT
129 CCCGATCCCCCCTGCAGGCTATCGATCCTGCT
28900854 ACCGCAACCC
Statistics
Matches: 138, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
195 2 0.01
196 135 0.98
197 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.29, T:0.21
Consensus pattern (196 bp):
TCTTAGACTGAGAATGAACTCCGTATGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACC
CACGAAACGAGCGTGAGGGCGCTCAGTCGGCCAGAGAGGCAGAATGCACAAGTCGGGGATCGACC
CGATCCCCCCTGCAGGCTATCGATCCTGCTGCTGGTCCTACAGTCGCAACCCCCGGTCCGGTCTG
A
Found at i:28901077 original size:159 final size:157
Alignment explanation
Indices: 28900720--28901078 Score: 377
Period size: 158 Copynumber: 2.3 Consensus size: 157
28900710 AACTCTGTAT
* * * * * *
28900720 GCTTAGACATGGAATTAACTCTGTATGCCTAAGCCAACCCACGAATTGAGCGTGAGGGTGCTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACAAAATGAGCGTCAGGAT-CTCAG
* * *
28900785 CTGGTCAGAGAGGCTGAATGCGCAAGCTGGGGATCGACCCGATCCCCCCTGCAGGCTATCGATCC
65 CTGGCCAGAGAGGCTGAATGCGCAAGCCGGGGATCGACCCGATCCCCCCGGCAGGCTATCGATCC
** * *
28900850 TGCTACCGCAACCCTCGATCCGATTCGA
130 CACTACCACAACCCTCGATCCGACTCGA
* * * *
28900878 TCTTAGAC-TGGGAATGAACTCCGTATGCCTAAGTCGACCCACAAAATGAGCGTTCAGGCAT-TG
1 GCTTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCACAAAATGAGCG-TCAGG-ATCTC
* *
28900941 AGCTGGCC-GAAGAGGCAT-AATGCGCAAGCCGGGGATCGACCCGGTCCCCCTCGGC-GTGCTGT
63 AGCTGGCCAG-AGAGGC-TGAATGCGCAAGCCGGGGATCGACCCGATCCCCC-CGGCAG-GCTAT
* * * * *
28901003 CGATCCCACTACCACAACCCTCGGTCTGGCTGGG
124 CGATCCCACTACCACAACCCTCGATCCGACTCGA
* *
28901037 GCTTAGACATGAAATGAACTCCCTATGCCTAAGCCAACCCAC
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCAC
28901079 GAAACGGGCG
Statistics
Matches: 164, Mismatches: 29, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
157 2 0.01
158 88 0.54
159 72 0.44
160 2 0.01
ACGTcount: A:0.24, C:0.31, G:0.26, T:0.19
Consensus pattern (157 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACAAAATGAGCGTCAGGATCTCAGC
TGGCCAGAGAGGCTGAATGCGCAAGCCGGGGATCGACCCGATCCCCCCGGCAGGCTATCGATCCC
ACTACCACAACCCTCGATCCGACTCGA
Found at i:28901245 original size:26 final size:26
Alignment explanation
Indices: 28901195--28901247 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28901185 CCGATCCGAT
*
28901195 CTTACACTGGGGATGAACTCCGTATG
1 CTTACACTGGGGATGAACTACGTATG
* *
28901221 CTTAGACTGGGGATGAACTATGTATG
1 CTTACACTGGGGATGAACTACGTATG
28901247 C
1 C
28901248 CTAAGTCAAC
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:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (26 bp):
CTTACACTGGGGATGAACTACGTATG
Found at i:28901956 original size:159 final size:158
Alignment explanation
Indices: 28901602--28901959 Score: 393
Period size: 158 Copynumber: 2.3 Consensus size: 158
28901592 ACTCTATATC
* *** *
28901602 CTTAGACATGGAATGAACTTCGTATGGCTAAGCCAACCCATGAAATGAGTGTGGGGGCGCTCAGC
1 CTTAGACATGGAATGAACTTCGTATGCCTAAGCCAACCCATGAAATGAACATGCGGGCGCTCAGC
* * * * *
28901667 CTGCCAGAGAGGTAGAATGCATAAGCCAGGGACTGACCTAGTCCCCCCTGCGTGCTGTCGATCCT
66 CTGCCAGAGAGGCAGAATGCACAAGCCAGGGACGGACCGAGTCCCCCCTGCGTGCTGTCGATCCC
* * * *
28901732 GCTGCCACAACCCTCGGTTCGGTCTGAT
131 GCTACCACAACCCTCAGTCCGGTCTGAG
* *
28901760 CTTAGAC-TAGGAATGAACTTCGTATGCCTAAGTCAACCCATGAAATGAACATGCGGGCGCTGAG
1 CTTAGACAT-GGAATGAACTTCGTATGCCTAAGCCAACCCATGAAATGAACATGCGGGCGCTCAG
* ** * * *
28901824 TC-GACGGGAGAGGCATAATGCGCAAGCCAGGGATCGGCCCGA-TCCCCCTCTGCGTGCT-TCCG
65 CCTG-CCAGAGAGGCAGAATGCACAAGCCAGGGA-CGGACCGAGTCCCCC-CTGCGTGCTGT-CG
* *
28901886 GTCCCGCTACCACAACCCTCAGTCCGG-CTGGGG
126 ATCCCGCTACCACAACCCTCAGTCCGGTCT-GAG
* *
28901919 CTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCAT
1 CTTAGACATGGAATGAACTTCGTATGCCTAAGCCAACCCAT
28901960 AAAACGGGCG
Statistics
Matches: 166, Mismatches: 27, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
157 2 0.01
158 88 0.53
159 75 0.45
160 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.27, T:0.20
Consensus pattern (158 bp):
CTTAGACATGGAATGAACTTCGTATGCCTAAGCCAACCCATGAAATGAACATGCGGGCGCTCAGC
CTGCCAGAGAGGCAGAATGCACAAGCCAGGGACGGACCGAGTCCCCCCTGCGTGCTGTCGATCCC
GCTACCACAACCCTCAGTCCGGTCTGAG
Found at i:28901993 original size:159 final size:158
Alignment explanation
Indices: 28901602--28902043 Score: 448
Period size: 159 Copynumber: 2.8 Consensus size: 158
28901592 ACTCTATATC
* * *
28901602 CTTAGACATGGAATGAACTTCGTATGGCTAAGCCAACCCATGAAATGAGTGTGGGGGCGCTCAGC
1 CTTAGACATGGAATGAACTTCGTATGCCTAAGCCAACCCATGAAATGAGCGTGCGGGCGCTCAGC
* * * ** * * *
28901667 CTGCCAGAGAGGTAGAATGCATAAGCCAGGGA-CTGACCTAGTCCCCC-CTGCGTGCTGTCGATC
66 C-GACGGAGAGGCAGAATGCGCAAGCCAGGGATCAGCCCGA-TCCCCCTCTGCGTGCTGTCGATC
* * * * *
28901730 CTGCTGCCACAACCCTCGGTTCGGTCTGAT
129 CCGCTACCACAACCCTCAGTCCGGTCTGAG
* * * *
28901760 CTTAGAC-TAGGAATGAACTTCGTATGCCTAAGTCAACCCATGAAATGAACATGCGGGCGCTGAG
1 CTTAGACAT-GGAATGAACTTCGTATGCCTAAGCCAACCCATGAAATGAGCGTGCGGGCGCTCAG
* * * *
28901824 TCGACGGGAGAGGCATAATGCGCAAGCCAGGGATCGGCCCGATCCCCCTCTGCGTGCT-TCCGGT
65 CCGAC-GGAGAGGCAGAATGCGCAAGCCAGGGATCAGCCCGATCCCCCTCTGCGTGCTGT-CGAT
*
28901888 CCCGCTACCACAACCCTCAGTCCGG-CTGGGG
128 CCCGCTACCACAACCCTCAGTCCGGTCT-GAG
* * * * * * * *
28901919 CTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATAAAACGGGCGTGTGGGCACTCAAC
1 CTTAGACATGGAATGAACTTCGTATGCCTAAGCCAACCCATGAAATGAGCGTGCGGGCGCTCAGC
* * *
28901984 CGATCGGAGAGGCAGAATGCGGAAGTCGGGGATCAGCCCGAT--CCCTCTGCGTGCTGTCGA
66 CGA-CGGAGAGGCAGAATGCGCAAGCCAGGGATCAGCCCGATCCCCCTCTGCGTGCTGTCGA
28902044 GATGGCATCC
Statistics
Matches: 232, Mismatches: 43, Indels: 19
0.79 0.15 0.06
Matches are distributed among these distances:
157 18 0.08
158 88 0.38
159 124 0.53
160 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.28, T:0.19
Consensus pattern (158 bp):
CTTAGACATGGAATGAACTTCGTATGCCTAAGCCAACCCATGAAATGAGCGTGCGGGCGCTCAGC
CGACGGAGAGGCAGAATGCGCAAGCCAGGGATCAGCCCGATCCCCCTCTGCGTGCTGTCGATCCC
GCTACCACAACCCTCAGTCCGGTCTGAG
Found at i:28907493 original size:26 final size:26
Alignment explanation
Indices: 28907449--28907501 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28907439 GGCTCAAAAT
*
28907449 CTTAGACTGGAAATGAACTCCGTATG
1 CTTAGACTGGAAATAAACTCCGTATG
*
28907475 CTTAGACATGG-AATAAACTTCGTATG
1 CTTAGAC-TGGAAATAAACTCCGTATG
28907501 C
1 C
28907502 CTAAGCCAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGAAATAAACTCCGTATG
Found at i:28907843 original size:26 final size:26
Alignment explanation
Indices: 28907792--28907844 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
28907782 CCGGTCTAAT
* *
28907792 CTTAGACTGGAAATGAACTTCGTATG
1 CTTAGACTGGAAATGAACTCCATATG
**
28907818 CTTAGACTGGGGATGAACTCCATATG
1 CTTAGACTGGAAATGAACTCCATATG
28907844 C
1 C
28907845 CTAAGTCAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGAAATGAACTCCATATG
Found at i:28908554 original size:159 final size:155
Alignment explanation
Indices: 28908356--28909016 Score: 474
Period size: 159 Copynumber: 4.2 Consensus size: 155
28908346 TTGGTTCGAT
* * *
28908356 CTTAGACTGGGAATGAACTCTGTATGCCTAAGTCAACCCACGAAATGAGTGCACGGGTGCTGAGC
1 CTTAGACT-GGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAG-GCACGGGCGCTGAGC
*
28908421 CGATGGAAGAGGCATAATGCACAAGTTAGGGATCAACCTGGTCCCCCTCTACGTGCTGTCGGTCC
64 CGATGGAAGAGGCATAATGCACAAG-CAGGGATCAACCTGGTCCCCCTCTACGTGCTGTCGGTCC
*
28908486 CGCTGTCACAACCCTCAGTCCGGCTAGGG
128 CGCTGTCACAACCCTCGGTCCGGCT-GGG
* * * * * *
28908515 CTTAGACATGGAATGAACTCCATATGCTTAAGCCAACCCACAAAACG-GGCATGCGGGCACTCAG
1 CTTAGAC-TGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGGCA--CGGGCGCTGAG
* * ** * * * *
28908579 CTGACTGG-AGAGGCAAAATGTGCAAGCCGTGCATCAGTCC-GGTCCCCCT-TACGTGCTGTCGA
63 CCGA-TGGAAGAGGCATAATGCACAAGCAG-GGATCA-ACCTGGTCCCCCTCTACGTGCTGTCGG
** * **
28908641 TCCTACTGTCGCAACCCTCGGTCCGGTCTGAT
125 TCCCGCTGTCACAACCCTCGGTCCGG-CTGGG
* * * ** *
28908673 CTTAGACTGGAAATGAACTTCGTATGCCTAAGTCAACCCATGAAATGAGCGTTCGGGCGTTGAGC
1 CTTAGACTGG-AATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAG-GCACGGGCGCTGAGC
** * ** * * *
28908738 CGACCGAAGAGGCATAATGCACAAGCCGGGGATC-GGCTCGGTCCCCCTCTGCGTGCTGCCAGTC
64 CGATGGAAGAGGCATAATGCACAAG-CAGGGATCAACCT-GGTCCCCCTCTACGTGCTGTCGGTC
* * *
28908802 CCGCTGCCACAACCCTTGGTCCGGTTGGGG
127 CCGCTGTCACAACCCTCGGTCCGGCT-GGG
* * * * *
28908832 CTTAGATATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAAT-AGGCATGTGGGCGCTCAG
1 CTTAGA-CTGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGGCA--CGGGCGCTGAG
* * * * * * ** *
28908896 CTGGTCGG-AGAGGCAGAATGCATAAGTCAGGGATCAGCCCGGT-CCCCTCTAAATGCTGTCGAT
63 CCGAT-GGAAGAGGCATAATGCACAAG-CAGGGATCAACCTGGTCCCCCTCTACGTGCTGTCGGT
** * * ** * * **
28908959 CCTACTGCCGCAACCCTCAATCTGGTTCGAT
126 CCCGCTGTCACAACCCTCGGTCCGGCT-GGG
28908990 CTTAGACTGGGAATGAACTCCGTATGC
1 CTTAGACT-GGAATGAACTCCGTATGC
28909017 TTAGACTGGG
Statistics
Matches: 385, Mismatches: 95, Indels: 45
0.73 0.18 0.09
Matches are distributed among these distances:
156 1 0.00
157 9 0.02
158 173 0.45
159 189 0.49
160 13 0.03
ACGTcount: A:0.24, C:0.29, G:0.27, T:0.21
Consensus pattern (155 bp):
CTTAGACTGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGGCACGGGCGCTGAGCCG
ATGGAAGAGGCATAATGCACAAGCAGGGATCAACCTGGTCCCCCTCTACGTGCTGTCGGTCCCGC
TGTCACAACCCTCGGTCCGGCTGGG
Found at i:28908688 original size:158 final size:157
Alignment explanation
Indices: 28908197--28909016 Score: 555
Period size: 158 Copynumber: 5.2 Consensus size: 157
28908187 AACTCTATAT
* * *
28908197 GCTTAGACACGGAATGAACTCCGTATGCCTAAGCCAACCCA-CAAATTGAGCATGCGGGCGCTCA
1 GCTTAGAC-TGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAA-TGGGCATGCGGGCGCTCA
* * * * * *** * * * * *
28908261 ACCGA-TCGAAAAGGCAAAATGCATAAGTTAAGGATCGGCTCGATCCCCC-CTGCGTGCTATCGA
64 GCTGACT-GGAGAGGCAAAATGCACAAG-CCGGGATCAGCCCGGTCCCCCTCTACGTGCTGTCGA
* * ** * * ** *
28908324 TCCTACTACCGTAACCTTCAATTTGGTTCGA
127 TCCCACTGCCACAACCCTCAGTCCGGTTAGA
* * * * * *
28908355 TCTTAGACTGGGAATGAACTCTGTATGCCTAAGTCAACCCACGAAATGAGTGCA--CGGGTGCTG
1 GCTTAGACT-GGAATGAACTCCGTATGCCTAAGCCAACCCATGAAATG-G-GCATGCGGGCGCTC
* * ** * *
28908418 AGCCGA-TGGAAGAGGCATAATGCACAAGTTAGGGATCAACCTGGTCCCCCTCTACGTGCTGTCG
63 AGCTGACTGG-AGAGGCAAAATGCACAAG-CCGGGATCAGCCCGGTCCCCCTCTACGTGCTGTCG
* * * * *
28908482 GTCCCGCTGTCACAACCCTCAGTCCGGCTAGG
126 ATCCCACTGCCACAACCCTCAGTCCGGTTAGA
* * ** * *
28908514 GCTTAGACATGGAATGAACTCCATATGCTTAAGCCAACCCACAAAACGGGCATGCGGGCACTCAG
1 GCTTAGAC-TGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAATGGGCATGCGGGCGCTCAG
** * *
28908579 CTGACTGGAGAGGCAAAATGTGCAAGCCGTGCATCAGTCCGGTCCCCCT-TACGTGCTGTCGATC
65 CTGACTGGAGAGGCAAAATGCACAAGCCG-GGATCAGCCCGGTCCCCCTCTACGTGCTGTCGATC
* * * *
28908643 CTACTGTCGCAACCCTCGGTCCGGTCT-GA
129 CCACTGCCACAACCCTCAGTCCGGT-TAGA
* * * * * * * *
28908672 TCTTAGACTGGAAATGAACTTCGTATGCCTAAGTCAACCCATGAAATGAGCGTTCGGGCGTTGAG
1 GCTTAGACTGG-AATGAACTCCGTATGCCTAAGCCAACCCATGAAATGGGCATGCGGGCGCTCAG
* * * * * * * *
28908737 CCGACCGAAGAGGCATAATGCACAAGCCGGGGATCGGCTCGGTCCCCCTCTGCGTGCTG-CCAGT
65 CTGACTGGAGAGGCAAAATGCACAAGCC-GGGATCAGCCCGGTCCCCCTCTACGTGCTGTCGA-T
* ** * *
28908801 CCCGCTGCCACAACCCTTGGTCCGGTTGGG
128 CCCACTGCCACAACCCTCAGTCCGGTTAGA
* * * *
28908831 GCTTAGATATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAATAGGCATGTGGGCGCTCAG
1 GCTTAGA-CTGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAATGGGCATGCGGGCGCTCAG
* * * * **
28908896 CTG-GTCGGAGAGGCAGAATGCATAAGTCAGGGATCAGCCCGGT-CCCCTCTAAATGCTGTCGAT
65 CTGACT-GGAGAGGCAAAATGCACAAG-CCGGGATCAGCCCGGTCCCCCTCTACGTGCTGTCGAT
* * * * *
28908959 CCTACTGCCGCAACCCTCAATCTGGTTCGA
128 CCCACTGCCACAACCCTCAGTCCGGTTAGA
*
28908989 TCTTAGACTGGGAATGAACTCCGTATGC
1 GCTTAGACT-GGAATGAACTCCGTATGC
28909017 TTAGACTGGG
Statistics
Matches: 509, Mismatches: 131, Indels: 44
0.74 0.19 0.06
Matches are distributed among these distances:
157 8 0.02
158 263 0.52
159 227 0.45
160 11 0.02
ACGTcount: A:0.25, C:0.29, G:0.26, T:0.21
Consensus pattern (157 bp):
GCTTAGACTGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAATGGGCATGCGGGCGCTCAGC
TGACTGGAGAGGCAAAATGCACAAGCCGGGATCAGCCCGGTCCCCCTCTACGTGCTGTCGATCCC
ACTGCCACAACCCTCAGTCCGGTTAGA
Found at i:28908783 original size:317 final size:317
Alignment explanation
Indices: 28908197--28909016 Score: 873
Period size: 317 Copynumber: 2.6 Consensus size: 317
28908187 AACTCTATAT
* * ** *
28908197 GCTTAGACACGGAATGAACTCCGTATGCCTAAGCCAACCCAC-AAATTGAGCATGCGGGCGCTCA
1 GCTTAGACATGGAATGAACTCCATATGCCTAAGCCAACCCACAAAACAG-GCATGCGGGCACTCA
* * * * * * * * * * * *** *
28908261 ACCGATCGAAAAGGCAAAATGCATAAGTTAAGG-ATCGGCTCGATCCCCCCTGCGTGCTATCGAT
65 GCTGCTCGGAGAGGCAAAATGCACAAG-TCAGGCATCAGCCCGGTCCCCTCTAAATGCTGTCGAT
* * * **
28908325 CCTACTACCGTAACCTTCAATTTGGTTCGATCTTAGACTGGGAATGAAC-TCTGTATGCCTAAGT
129 CCTACTGCCGCAACCCTCAATCCGGTTCGATCTTAGACTGGGAATGAACTTC-GTATGCCTAAGT
* * ** **
28908389 CAACCCACGAAATGAGTGCACGGGTGCTGAGCCGATGGAAGAGGCATAATGCACAAGTTAGGGAT
193 CAACCCACGAAATGAGCGCACGGGCGCTGAGCCGACCGAAGAGGCATAATGCACAAGCCAGGGAT
* * *
28908454 CAACCTGGTCCCCCTCTACGTGCTGTCGGTCCCGCTGTCACAACCCTCAGTCCGGCTAGG
258 CAACCTGGTCCCCCTCTACGTGCTGCCAGTCCCGCTGCCACAACCCTCAGTCCGGCTAGG
* *
28908514 GCTTAGACATGGAATGAACTCCATATGCTTAAGCCAACCCACAAAACGGGCATGCGGGCACTCAG
1 GCTTAGACATGGAATGAACTCCATATGCCTAAGCCAACCCACAAAACAGGCATGCGGGCACTCAG
** * * **
28908579 CTGACT-GGAGAGGCAAAATGTGCAAG-CCGTGCATCAGTCCGGTCCCC-CTTACGTGCTGTCGA
66 CTG-CTCGGAGAGGCAAAATGCACAAGTCAG-GCATCAGCCCGGTCCCCTC-TAAATGCTGTCGA
* ** *
28908641 TCCTACTGTCGCAACCCTCGGTCCGG-TCTGATCTTAGACTGGAAATGAACTTCGTATGCCTAAG
128 TCCTACTGCCGCAACCCTCAATCCGGTTC-GATCTTAGACTGGGAATGAACTTCGTATGCCTAAG
* ** * *
28908705 TCAACCCATGAAATGAGCGTTCGGGCGTTGAGCCGACCGAAGAGGCATAATGCACAAGCCGGGGA
192 TCAACCCACGAAATGAGCGCACGGGCGCTGAGCCGACCGAAGAGGCATAATGCACAAGCCAGGGA
** * ** * *
28908770 TC-GGCTCGGTCCCCCTCTGCGTGCTGCCAGTCCCGCTGCCACAACCCTTGGTCCGGTTGGG
257 TCAACCT-GGTCCCCCTCTACGTGCTGCCAGTCCCGCTGCCACAACCCTCAGTCCGGCTAGG
* * ** * * *
28908831 GCTTAGATATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAATAGGCATGTGGGCGCTCAG
1 GCTTAGACATGGAATGAACTCCATATGCCTAAGCCAACCCACAAAACAGGCATGCGGGCACTCAG
* * * *
28908896 CTGGTCGGAGAGGCAGAATGCATAAGTCAGGGATCAGCCCGGTCCCCTCTAAATGCTGTCGATCC
66 CTGCTCGGAGAGGCAAAATGCACAAGTCAGGCATCAGCCCGGTCCCCTCTAAATGCTGTCGATCC
* *
28908961 TACTGCCGCAACCCTCAATCTGGTTCGATCTTAGACTGGGAATGAACTCCGTATGC
131 TACTGCCGCAACCCTCAATCCGGTTCGATCTTAGACTGGGAATGAACTTCGTATGC
28909017 TTAGACTGGG
Statistics
Matches: 414, Mismatches: 77, Indels: 24
0.80 0.15 0.05
Matches are distributed among these distances:
315 1 0.00
316 7 0.02
317 394 0.95
318 12 0.03
ACGTcount: A:0.25, C:0.29, G:0.26, T:0.21
Consensus pattern (317 bp):
GCTTAGACATGGAATGAACTCCATATGCCTAAGCCAACCCACAAAACAGGCATGCGGGCACTCAG
CTGCTCGGAGAGGCAAAATGCACAAGTCAGGCATCAGCCCGGTCCCCTCTAAATGCTGTCGATCC
TACTGCCGCAACCCTCAATCCGGTTCGATCTTAGACTGGGAATGAACTTCGTATGCCTAAGTCAA
CCCACGAAATGAGCGCACGGGCGCTGAGCCGACCGAAGAGGCATAATGCACAAGCCAGGGATCAA
CCTGGTCCCCCTCTACGTGCTGCCAGTCCCGCTGCCACAACCCTCAGTCCGGCTAGG
Found at i:28909026 original size:26 final size:26
Alignment explanation
Indices: 28908990--28909042 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
28908980 CTGGTTCGAT
*
28908990 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCATATG
*
28909016 CTTAGACTGGGGATGAACTCCATATG
1 CTTAGACTGGGAATGAACTCCATATG
28909042 C
1 C
28909043 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCATATG
Found at i:28909385 original size:25 final size:25
Alignment explanation
Indices: 28909349--28909396 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
28909339 TCTGATCTTA
28909349 GACTAGGAATGAACTCCGTATGCTT
1 GACTAGGAATGAACTCCGTATGCTT
*
28909374 GACTAGGGATGAACTCCGTATGC
1 GACTAGGAATGAACTCCGTATGC
28909397 CTAAGTCAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (25 bp):
GACTAGGAATGAACTCCGTATGCTT
Found at i:28910484 original size:26 final size:26
Alignment explanation
Indices: 28910446--28910498 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28910436 CTGATTCGAT
*
28910446 CTTAGACTGGGAATGAACTCCTTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28910472 CTTAGACAT-GGAATGAACTCCGTATG
1 CTTAGAC-TGGGAATGAACTCCGTATG
28910498 C
1 C
28910499 CTAAGCCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28910571 original size:196 final size:198
Alignment explanation
Indices: 28910078--28910572 Score: 561
Period size: 196 Copynumber: 2.5 Consensus size: 198
28910068 TCCGACTGGG
* * * * *
28910078 GCTTAGACATGGAATGAACTCTGTATGCCTAAGCGAACTCACGAAACGAGCGTGCGGGTGCTCAA
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAATCGAGCGTGCGGGTGCTCAA
* * * * * **
28910143 CCGGCTAGAAAGGCAGAATACGCAAGCTGAGGATC--TACTCGGTCCACCCCTACGTACTGTCAA
66 CCGGCTGGAGAGGCAGAATACGCAAGCAG-GGATCGGTACTCAGTCCACCCCTACATACTACCAA
* * ** *
28910206 TCCTGCTACTGGTCCTGCTACCGTAACCTTCGGTCCAATCCGATCTTAGATTGGGAATGAACTCC
130 TCCTACTACTGGTCCTGCTACCGCAACCTTCAATCCAATCCGATCTTAGACTGGGAATGAACTCC
28910271 ATAT
195 ATAT
* *
28910275 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAAT-GAGCGTGCAGGCGCTCA
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATG-AATCGAGCGTGCGGGTGCTCA
* * * * * * * *
28910339 ACCGGCCGGAGAGGCAGAATCCACAAGTCGGGGATCGGT-C-CAGTCC-CCCTTGCATGCTACCG
65 ACCGGCTGGAGAGGCAGAATACGCAAG-CAGGGATCGGTACTCAGTCCACCCCTACATACTACCA
* * * ** *
28910401 ATCCTACTGCTGGTCCTGCTGCTGCAACCTTCAATCTGATTCGATCTTAGACTGGGAATGAACTC
129 ATCCTACTACTGGTCCTGCTACCGCAACCTTCAATCCAATCCGATCTTAGACTGGGAATGAACTC
*
28910466 CTTAT
194 CATAT
*
28910471 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAATCGAGCGAGCGGGTGCTCAA
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAATCGAGCGTGCGGGTGCTCAA
** * *
28910536 CCGATTGGAGAGGCAGAATGCGTAAGCCAGGGATCGG
66 CCGGCTGGAGAGGCAGAATACGCAAG-CAGGGATCGG
28910573 CCTGATCCCT
Statistics
Matches: 249, Mismatches: 44, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
195 3 0.01
196 154 0.62
197 86 0.35
198 5 0.02
199 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.25, T:0.21
Consensus pattern (198 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAATCGAGCGTGCGGGTGCTCAA
CCGGCTGGAGAGGCAGAATACGCAAGCAGGGATCGGTACTCAGTCCACCCCTACATACTACCAAT
CCTACTACTGGTCCTGCTACCGCAACCTTCAATCCAATCCGATCTTAGACTGGGAATGAACTCCA
TAT
Found at i:28910975 original size:26 final size:26
Alignment explanation
Indices: 28910946--28910995 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
28910936 CCGGTTCGAT
28910946 CTTAAACTGGGAATGAACTTCGTATG
1 CTTAAACTGGGAATGAACTTCGTATG
* *
28910972 CTTAGACTGGGGATGAACTTCGTA
1 CTTAAACTGGGAATGAACTTCGTA
28910996 CGCCTAAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (26 bp):
CTTAAACTGGGAATGAACTTCGTATG
Found at i:28912046 original size:26 final size:26
Alignment explanation
Indices: 28912010--28912062 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
28912000 TCGATCTGAT
*
28912010 CTTAGACTGGGAATGAACTTTGTATG
1 CTTAGACTGGGAATGAACTCTGTATG
*
28912036 CTTAGACTGGGGATGAACTCTGTATG
1 CTTAGACTGGGAATGAACTCTGTATG
28912062 C
1 C
28912063 ATAAGTCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCTGTATG
Found at i:28913659 original size:26 final size:26
Alignment explanation
Indices: 28913608--28913660 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28913598 CCAGTCTGAT
*
28913608 CTTAGACTGGGAATGAACTTCATATG
1 CTTAGACTGGGAATGAACTCCATATG
* *
28913634 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCATATG
28913660 C
1 C
28913661 CTAAGTCAAC
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:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCATATG
Found at i:28913781 original size:26 final size:26
Alignment explanation
Indices: 28913743--28913795 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28913733 CCTATTCGAT
28913743 CTTAGACTGGGAATGAACTCCATATG
1 CTTAGACTGGGAATGAACTCCATATG
*
28913769 CTTAGACAT-GGAATGAACTCCGTATG
1 CTTAGAC-TGGGAATGAACTCCATATG
28913795 C
1 C
28913796 CTAAGCCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCATATG
Found at i:28914296 original size:26 final size:26
Alignment explanation
Indices: 28914258--28914308 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
28914248 CCCATCCGAT
*
28914258 CTTAGACTAGGAATGAACTGCATATG
1 CTTAGACTAGGAATGAACTCCATATG
28914284 CTTAGAC-ATGGAATGAACTCCATAT
1 CTTAGACTA-GGAATGAACTCCATAT
28914309 ACCTAAGCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 1 0.04
26 22 0.96
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (26 bp):
CTTAGACTAGGAATGAACTCCATATG
Found at i:28914627 original size:159 final size:158
Alignment explanation
Indices: 28914283--28914636 Score: 343
Period size: 158 Copynumber: 2.2 Consensus size: 158
28914273 AACTGCATAT
* * * *
28914283 GCTTAGACATGGAATGAACTCCATATACCTAAGCCAACCCACGAAACGACCATGCGGGCGCTCAG
1 GCTTAGACATGGAATGAACTCCATATGCCCAAGCCAAACCACGAAACGACCATGCGGGCACTCAG
** * *
28914348 TTGGTCGGAGAGGCAGAATGCGCAAGCCGTGGACCGACCAGGTCCCCCCTGCGTGCTGTCGATCC
66 CCGGTCGGAGAGGCAGAATGCGCAAGCCGAGGACCGACCAGGTCCCCCCTGCGTGCTATCGATCC
** ** *
28914413 TGCTGTCACAACCCTCGGTCTAATCCAA
131 CACTACCACAACCCTCGGTCGAATCCAA
* * * * * * * * ** *
28914441 TCATAGAC-TGGGAATGAACTTCGTATGCCCAAGTCAAACCACGAAATGAGCGTTTGGGCACTGA
1 GCTTAGACAT-GGAATGAACTCCATATGCCCAAGCCAAACCACGAAACGACCATGCGGGCACTCA
* * * * * *
28914505 GCCGGTCGGAGAGGCATAATGCGCAAGCTGAGGATCGGCCTGGTCCCCCTCTGCGTGCTATCGGT
65 GCCGGTCGGAGAGGCAGAATGCGCAAGCCGAGGACCGACCAGGTCCCCC-CTGCGTGCTATCGAT
* * * *
28914570 CCCATTACCACAACCCTCGGTCCGACT-GAG
129 CCCACTACCACAACCCTCGGT-CGAATCCAA
* *
28914600 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAA
1 GCTTAGACATGGAATGAACTCCATATGCCCAAGCCAA
28914637 CAAATGAAAC
Statistics
Matches: 152, Mismatches: 40, Indels: 7
0.76 0.20 0.04
Matches are distributed among these distances:
157 1 0.01
158 88 0.58
159 59 0.39
160 4 0.03
ACGTcount: A:0.25, C:0.30, G:0.26, T:0.19
Consensus pattern (158 bp):
GCTTAGACATGGAATGAACTCCATATGCCCAAGCCAAACCACGAAACGACCATGCGGGCACTCAG
CCGGTCGGAGAGGCAGAATGCGCAAGCCGAGGACCGACCAGGTCCCCCCTGCGTGCTATCGATCC
CACTACCACAACCCTCGGTCGAATCCAA
Found at i:28914795 original size:26 final size:26
Alignment explanation
Indices: 28914759--28914811 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
28914749 CCGGTCTGAT
28914759 CTTAGACTGGGAATGAACTCCATATG
1 CTTAGACTGGGAATGAACTCCATATG
* *
28914785 CTTAGACTGGGGATGAACTTCATATG
1 CTTAGACTGGGAATGAACTCCATATG
28914811 C
1 C
28914812 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCATATG
Found at i:28914993 original size:26 final size:26
Alignment explanation
Indices: 28914955--28915007 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28914945 CCGGTCGGAT
28914955 CTTAGACTGGGAATGAACTCTATATG
1 CTTAGACTGGGAATGAACTCTATATG
*
28914981 CTTAGACAT-GGAATGAACTCTGTATG
1 CTTAGAC-TGGGAATGAACTCTATATG
28915007 C
1 C
28915008 CTAAGCCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCTATATG
Found at i:28915061 original size:196 final size:197
Alignment explanation
Indices: 28914727--28915114 Score: 507
Period size: 196 Copynumber: 2.0 Consensus size: 197
28914717 GTGCTGTCGA
* * *
28914727 TCCTGCTACCGTAACCCTCTGTCCGGTCTGATCTTAGACTGGGAATGAACTCCATATGCTTAGAC
1 TCCTGCTACCATAACCCTCGGTCCGGTCGGATCTTAGACTGGGAATGAACTCCATATGCTTAGAC
* * * * * ** *
28914792 TGGGGATGAACTTCATATGCCTAAGTCAACGCACAAAACGAGCGTGCAGGTGCTCAGTCGGTCGA
66 TGGGAATGAACTTCATATGCCTAAGCCAACCCACAAAACAAGCGTGCAGGCGCTCAACCGATCGA
* * * * **
28914857 AGAGGCAGAATGCATAAGCCGAGGATCGACTCGAT-CCCCTCTGCGTGCTGTCGATCCTGCTACT
131 AGAGGCAGAATGCATAAGCCAAGGACCGACCCGATCCCCCCCTGCGTGCTACCGATCCTGCTACT
28914921 GG
196 GG
*
28914923 TCCTGCTACCATAACCCTCGGTCCGGTCGGATCTTAGACTGGGAATGAACTCTATATGCTTAGAC
1 TCCTGCTACCATAACCCTCGGTCCGGTCGGATCTTAGACTGGGAATGAACTCCATATGCTTAGAC
* **
28914988 AT-GGAATGAAC-TCTGTATGCCTAAGCCAACCCA-AGAAACAAGCGTGTGGGCGCTCAACCGAT
66 -TGGGAATGAACTTC-ATATGCCTAAGCCAACCCACA-AAACAAGCGTGCAGGCGCTCAACCGAT
*
28915050 C-AGAGAGGCAGAATGCATAAGCCAAGGACCGGCCCGATCCCCCCCTGCGTGCTACCGATCCTGC
128 CGA-AGAGGCAGAATGCATAAGCCAAGGACCGACCCGATCCCCCCCTGCGTGCTACCGATCCTGC
28915114 T
192 T
28915115 GCTACGACCC
Statistics
Matches: 165, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
195 4 0.02
196 137 0.83
197 24 0.15
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.22
Consensus pattern (197 bp):
TCCTGCTACCATAACCCTCGGTCCGGTCGGATCTTAGACTGGGAATGAACTCCATATGCTTAGAC
TGGGAATGAACTTCATATGCCTAAGCCAACCCACAAAACAAGCGTGCAGGCGCTCAACCGATCGA
AGAGGCAGAATGCATAAGCCAAGGACCGACCCGATCCCCCCCTGCGTGCTACCGATCCTGCTACT
GG
Found at i:28915283 original size:158 final size:157
Alignment explanation
Indices: 28914981--28915787 Score: 528
Period size: 158 Copynumber: 5.2 Consensus size: 157
28914971 ACTCTATATG
* * ** * *
28914981 CTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCAAGAAACAAGCGTGTGGGCGCTCAA-
1 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGCGGGTGCT-AAG
* ** * * * ** *
28915045 CCGATCAGAGAGGCAGAATGCATAAGCCAAGGACCGGCCCGATCCCCCCCTGCGTGCTACCGATC
65 CCGCT-AGAGAGGCAGAATGCGCAAGCCGAGGATCAGCCCGATCCCCCTATGCGTGCTGCCGATC
* * *
28915110 CTGCTGCTACGACCCTCAGTCCGGTCTGAT
129 CCGCTGCCACAACCCTCAGTCCGG-CTGAT
* * * *
28915140 CTTAGAC-TGGAATGAACTCTGTATGCCTAAGTCAACCCACGAAATGAGTGTGCAGGTGCTAAGC
1 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGCGGGTGCTAAGC
* * * * * * *
28915204 CAGCTAGAGAGGCATAATGCGTAAGCCGAGGATCGGCTCGGTCCCCTTATGCGTGCTGTCGATCC
66 C-GCTAGAGAGGCAGAATGCGCAAGCCGAGGATCAGCCCGATCCCCCTATGCGTGCTGCCGATCC
* * * **
28915269 CGCTGCCATAACCCTCGGTCCGACTGGGG
130 CGCTGCCACAACCCTCAGTCCGGCT-GAT
* * * * * * *
28915298 CTTAGACATGGAATGAACTCCCTATGGCTAAGCCAACCTACGAAACGGGCGTGCAGGTGCTCAAT
1 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGCGGGTGCT-AAG
* * * * *
28915363 CGGCCAGAGAGGCAGAATACGCAAGCCTG-GGCTCAGCCCGATCCCCCT-TAG-GTGCTGTCG-T
65 CCGCTAGAGAGGCAGAATGCGCAAGCC-GAGGATCAGCCCGATCCCCCTAT-GCGTGCTGCCGAT
* **
28915424 AACC-CT----C-GGCCT-AG-CC--C-GAT
128 -CCCGCTGCCACAACCCTCAGTCCGGCTGAT
* * * ** ** *
28915444 CTTAAAC-TGGGAATGAACTCCGTATGCATAAGTCAACCCACGAAATGAGCGTATGGGCACTGAG
1 CTTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGCGGGTGCTAAG
* * * * ** * * *
28915508 CCGGC-CGAAGAGACATAATGCACAAGCCGAGGATCAGTTCGGTCCCCCTCTGCGTGATGCCGAT
65 CC-GCTAG-AGAGGCAGAATGCGCAAGCCGAGGATCAGCCCGATCCCCCTATGCGTGCTGCCGAT
*
28915572 CCCGCTGCCACAACCCTCAGTCTGGCTGGGA-
128 CCCGCTGCCACAACCCTCAGTCCGGCT--GAT
* * * * *
28915603 CTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACAAAATGGGTGTGCGGGTGCTCAGC
1 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGCGGGTGCTAAGC
* * * *
28915668 CGACTAGAGAGGTAGAATGCGCAAGCTGGGGATCAGCCCGATCCCCCCTA--CGTGCTGCTGATC
66 CG-CTAGAGAGGCAGAATGCGCAAGCCGAGGATCAGCCCGAT-CCCCCTATGCGTGCTGCCGATC
* ** * * *
28915731 CTGCT-ATAGTAACCCTCGGTTCGGTCTGAT
129 CCGCTGCCA-CAACCCTCAGTCCGG-CTGAT
*
28915761 CTTAGAC-TAGGAATGAGCTCCGTATGC
1 CTTAGACAT-GGAATGAACTCCGTATGC
28915788 TTAGACTGGG
Statistics
Matches: 493, Mismatches: 119, Indels: 73
0.72 0.17 0.11
Matches are distributed among these distances:
145 5 0.01
146 81 0.16
147 10 0.02
148 4 0.01
150 2 0.00
151 1 0.00
152 4 0.01
153 3 0.01
154 2 0.00
155 1 0.00
157 12 0.02
158 183 0.37
159 171 0.35
160 14 0.03
ACGTcount: A:0.24, C:0.29, G:0.27, T:0.20
Consensus pattern (157 bp):
CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGCGGGTGCTAAGC
CGCTAGAGAGGCAGAATGCGCAAGCCGAGGATCAGCCCGATCCCCCTATGCGTGCTGCCGATCCC
GCTGCCACAACCCTCAGTCCGGCTGAT
Found at i:28915408 original size:159 final size:158
Alignment explanation
Indices: 28914980--28915713 Score: 423
Period size: 159 Copynumber: 4.7 Consensus size: 158
28914970 AACTCTATAT
* * ** *
28914980 GCTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCAAGAAACAAGCGTGTGGGCGCTCAA
1 GCTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCACGAAACGAGCGTGCAGGTGCTCAA
** * * *** **
28915045 CCGATCAGAGAGGCAGAATGCATAAGCCAAGGAC-CGGCCCGATCCCCCCCTGCGTGCTACCGAT
66 CCGGCCAGAGAGGCAGAATGCGTAAGCC--GGGCTCGGCCCGATCCCCTTATGCGTGCTGTCGAT
* * * *
28915109 CCTGCTGCTACGACCCTCAGTCCGGTCTGA
129 CCCGCTGCCACAACCCTCAGTCCGGACTGA
* * * *
28915139 TCTTAGAC-TGGAATGAACTCTGTATGCCTAAGTCAACCCACGAAATGAGTGTGCAGGTGCT-AA
1 GCTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCACGAAACGAGCGTGCAGGTGCTCAA
* * * * * *
28915202 GCCAGCTAGAGAGGCATAATGCGTAAGCCGAGGATCGGCTCGGTCCCCTTATGCGTGCTGTCGAT
66 -CCGGCCAGAGAGGCAGAATGCGTAAGCCG-GGCTCGGCCCGATCCCCTTATGCGTGCTGTCGAT
* * *
28915267 CCCGCTGCCATAACCCTCGGTCC-GACTGGG
129 CCCGCTGCCACAACCCTCAGTCCGGACT-GA
** * * *
28915297 GCTTAGACATGGAATGAACTCCCTATGGCTAAGCCAACCTACGAAACGGGCGTGCAGGTGCTCAA
1 GCTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCACGAAACGAGCGTGCAGGTGCTCAA
* * * *
28915362 TCGGCCAGAGAGGCAGAATACGCAAGCCTGGGCTCAGCCCGATCCCCCTTA-G-GTGCTGTCG-T
66 CCGGCCAGAGAGGCAGAATGCGTAAGCC-GGGCTCGGCCCGAT-CCCCTTATGCGTGCTGTCGAT
* **
28915424 AACC-CT----C-GGCCT-AG-CC---C-GA
129 -CCCGCTGCCACAACCCTCAGTCCGGACTGA
* * * * * * *** ** *
28915443 TCTTAAAC-TGGGAATGAACTCCGTATGCATAAGTCAACCCACGAAATGAGCGTATGGGCACTGA
1 GCTTAGACAT-GGAATGAACTCTGTATGCCTAAGCCAACCCACGAAACGAGCGTGCAGGTGCTCA
* * * ** * * ** * * * * *
28915507 GCCGGCC-GAAGAGACATAATGCACAAGCCGAGGATCAGTTCGGTCCCCCTCTGCGTGATGCCGA
65 ACCGGCCAG-AGAGGCAGAATGCGTAAGCCG-GGCTCGGCCCGATCCCCTTATGCGTGCTGTCGA
* *
28915571 TCCCGCTGCCACAACCCTCAGTCTGG-CTGG
128 TCCCGCTGCCACAACCCTCAGTCCGGACTGA
** * * * * *
28915601 GACTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACAAAATGGGTGTGCGGGTGCTCA
1 G-CTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCACGAAACGAGCGTGCAGGTGCTCA
* * * * * * * *
28915666 GCCGACTAGAGAGGTAGAATGCGCAAGCTGGGGATCAGCCCGATCCCC
65 ACCGGCCAGAGAGGCAGAATGCGTAAGC-CGGGCTCGGCCCGATCCCC
28915714 CCTACGTGCT
Statistics
Matches: 432, Mismatches: 113, Indels: 60
0.71 0.19 0.10
Matches are distributed among these distances:
145 8 0.02
146 79 0.18
147 9 0.02
148 4 0.01
150 2 0.00
151 1 0.00
152 4 0.01
153 3 0.01
154 2 0.00
155 1 0.00
156 1 0.00
157 10 0.02
158 128 0.30
159 167 0.39
160 13 0.03
ACGTcount: A:0.25, C:0.30, G:0.27, T:0.19
Consensus pattern (158 bp):
GCTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCACGAAACGAGCGTGCAGGTGCTCAA
CCGGCCAGAGAGGCAGAATGCGTAAGCCGGGCTCGGCCCGATCCCCTTATGCGTGCTGTCGATCC
CGCTGCCACAACCCTCAGTCCGGACTGA
Found at i:28915552 original size:305 final size:304
Alignment explanation
Indices: 28915137--28915724 Score: 766
Period size: 305 Copynumber: 1.9 Consensus size: 304
28915127 AGTCCGGTCT
* * * * * **
28915137 GATCTTAGACTGGAATGAACTCTGTATGCCTAAGTCAACCCACGAAATGAGTGTGCAGGTGCTAA
1 GATCTTAAACTGGAATGAACTCCGTATGCATAAGTCAACCCACGAAATGAGCGTACAGGCACTAA
* * ** * * * *
28915202 GCCAGCTAGAGAGGCATAATGCGTAAGCCGAGGATCGGCTCGGTCCCCTTATGCGTGCTGTCGAT
66 GCCAGCGAGAGAGACATAATGCACAAGCCGAGGATCAGCTCGGTCCCCCTATGCGTGATGCCGAT
* * * *
28915267 CCCGCTGCCATAACCCTCGGTCCGACTGGGGCTTAGACATGGAATGAACTCCCTATGGCTAAGCC
131 CCCGCTGCCACAACCCTCAGTCCGACTGGGACTTAGACATGGAATGAACTCCCTATGCCTAAGCC
* * * * *
28915332 AACCTACGAAACGGGCGTGCAGGTGCTCAATCGGCCAGAGAGGCAGAATACGCAAGCCT-GGGCT
196 AACCCACAAAACGGGCGTGCAGGTGCTCAACCGACCAGAGAGGCAGAATACGCAAG-CTGGGGAT
* *
28915396 CAGCCCGATCCCCCTTAGGTGCTGTCGTAACCCTCGGCCTAGCCC
260 CAGCCCGATCCCCCCTACGTGCTGTCGTAACCCTCGGCCTAGCCC
** *
28915441 GATCTTAAACTGGGAATGAACTCCGTATGCATAAGTCAACCCACGAAATGAGCGTATGGGCACTG
1 GATCTTAAACT-GGAATGAACTCCGTATGCATAAGTCAACCCACGAAATGAGCGTACAGGCACTA
* * *
28915506 AGCCGGCCGA-AGAGACATAATGCACAAGCCGAGGATCAGTTCGGTCCCCCTCTGCGTGATGCCG
65 AGCCAG-CGAGAGAGACATAATGCACAAGCCGAGGATCAGCTCGGTCCCCCTATGCGTGATGCCG
* *
28915570 ATCCCGCTGCCACAACCCTCAGTCTGGCTGGGACTTAGACATGGAATGAACTCCCTATGCCTAAG
129 ATCCCGCTGCCACAACCCTCAGTCCGACTGGGACTTAGACATGGAATGAACTCCCTATGCCTAAG
* * * * * * *
28915635 CCAACCCACAAAATGGGTGTGCGGGTGCTCAGCCGACTAGAGAGGTAGAATGCGCAAGCTGGGGA
194 CCAACCCACAAAACGGGCGTGCAGGTGCTCAACCGACCAGAGAGGCAGAATACGCAAGCTGGGGA
28915700 TCAGCCCGATCCCCCCTACGTGCTG
259 TCAGCCCGATCCCCCCTACGTGCTG
28915725 CTGATCCTGC
Statistics
Matches: 240, Mismatches: 41, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
304 12 0.05
305 226 0.94
306 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.27, T:0.19
Consensus pattern (304 bp):
GATCTTAAACTGGAATGAACTCCGTATGCATAAGTCAACCCACGAAATGAGCGTACAGGCACTAA
GCCAGCGAGAGAGACATAATGCACAAGCCGAGGATCAGCTCGGTCCCCCTATGCGTGATGCCGAT
CCCGCTGCCACAACCCTCAGTCCGACTGGGACTTAGACATGGAATGAACTCCCTATGCCTAAGCC
AACCCACAAAACGGGCGTGCAGGTGCTCAACCGACCAGAGAGGCAGAATACGCAAGCTGGGGATC
AGCCCGATCCCCCCTACGTGCTGTCGTAACCCTCGGCCTAGCCC
Found at i:28915802 original size:26 final size:26
Alignment explanation
Indices: 28915761--28915813 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28915751 TCGGTCTGAT
*
28915761 CTTAGACTAGGAATGAGCTCCGTATG
1 CTTAGACTAGGAATGAACTCCGTATG
* *
28915787 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTAGGAATGAACTCCGTATG
28915813 C
1 C
28915814 CTAAGTCAAC
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:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (26 bp):
CTTAGACTAGGAATGAACTCCGTATG
Found at i:28915872 original size:13 final size:13
Alignment explanation
Indices: 28915850--28915882 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
28915840 CGGGCGCTTA
*
28915850 GCCGAGCAGAGAG
1 GCCGATCAGAGAG
28915863 GCCGATCAGAGAG
1 GCCGATCAGAGAG
28915876 GCCGATC
1 GCCGATC
28915883 GAAAAGGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.39, T:0.06
Consensus pattern (13 bp):
GCCGATCAGAGAG
Found at i:28916182 original size:26 final size:26
Alignment explanation
Indices: 28916153--28916205 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28916143 CTGGTTCGAT
*
28916153 CTTAGAC-TGGGAATGAACTTCGTATG
1 CTTAGACAT-GGAATGAACTCCGTATG
28916179 CTTAGACATGGAATGAACTCCGTATG
1 CTTAGACATGGAATGAACTCCGTATG
28916205 C
1 C
28916206 CTAAGCCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (26 bp):
CTTAGACATGGAATGAACTCCGTATG
Found at i:28916478 original size:170 final size:170
Alignment explanation
Indices: 28916180--28916490 Score: 369
Period size: 170 Copynumber: 1.8 Consensus size: 170
28916170 CTTCGTATGC
* ** *
28916180 TTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGTAGGTGCTTAGTC
1 TTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGCAGGCACTCAGTC
* * ** * * * *
28916245 GGTCGAAGAGGCAGAATGCATAAGCCAGGGATTGGCTTGATCCCCTCTGCGTGCTGCCGATCCTG
66 GGTCGAAGAGGCAGAATGCACAAGCCAGGGATCGGCCAGATCCCCCCTACGTGCGGCCGATCCTA
*
28916310 TTGCTGGTCCTACTACCGTAACCCTCGGTTCGACTGGAGT
131 CTGCTGGTCCTACTACCGTAACCCTCGGTTCGACTGGAGT
* * *
28916350 TTAGACATGGAATGAACTTCGTATGCCTAAGCCAACCCACGAAATGAGTGTGCGGGCACTCAG-C
1 TTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGCAGGCACTCAGTC
* * ** *
28916414 TGG-CAGGAA-AGGTAGAATGCGCAAGCTGGGGATCGGCCCAG-TCCCCCCTACGTGCGGTCGAT
66 -GGTC--GAAGAGGCAGAATGCACAAGCCAGGGATCGG-CCAGATCCCCCCTACGTGCGGCCGAT
28916476 CCTACTGCTGGTCCT
127 CCTACTGCTGGTCCT
28916491 GCTGTCACAA
Statistics
Matches: 116, Mismatches: 21, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
169 2 0.02
170 109 0.94
171 5 0.04
ACGTcount: A:0.23, C:0.27, G:0.28, T:0.22
Consensus pattern (170 bp):
TTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGCAGGCACTCAGTC
GGTCGAAGAGGCAGAATGCACAAGCCAGGGATCGGCCAGATCCCCCCTACGTGCGGCCGATCCTA
CTGCTGGTCCTACTACCGTAACCCTCGGTTCGACTGGAGT
Found at i:28916505 original size:170 final size:170
Alignment explanation
Indices: 28916180--28916545 Score: 359
Period size: 170 Copynumber: 2.2 Consensus size: 170
28916170 CTTCGTATGC
* ** *
28916180 TTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGTAGGTGCTTAGTC
1 TTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGCAGGCACTCAGTC
* * ** * * * *
28916245 GGTCGAAGAGGCAGAATGCATAAGCCAGGGATTGGCTTGATCCCCTCTGCGTGCTGCCGATCCTG
66 GGTCGAAGAGGCAGAATGCACAAGCCAGGGATCGGCCAGATCCCCCCTACGTGCGGCCGATCCTA
* **
28916310 TTGCTGGTCCTACTACCGTAACCCTCGGTTCGACTGGAGT
131 CTGCTGGTCCTACTACCACAACCCTCGGTTCGACTGGAGT
* * *
28916350 TTAGACATGGAATGAACTTCGTATGCCTAAGCCAACCCACGAAATGAGTGTGCGGGCACTCAG-C
1 TTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGCAGGCACTCAGTC
* * ** *
28916414 TGG-CAGGAA-AGGTAGAATGCGCAAGCTGGGGATCGGCCCAG-TCCCCCCTACGTGCGGTCGAT
66 -GGTC--GAAGAGGCAGAATGCACAAGCCAGGGATCGG-CCAGATCCCCCCTACGTGCGGCCGAT
* ** * * *
28916476 CCTACTGCTGGTCCTGCTGTCACAACCCTCGATCCGA-TCCGA-T
127 CCTACTGCTGGTCCTACTACCACAACCCTCGGTTCGACT-GGAGT
28916519 CTTAGAC-TGGGAATGAACTCCGTATGC
1 -TTAGACAT-GGAATGAACTCCGTATGC
28916546 TTAGACATGG
Statistics
Matches: 159, Mismatches: 30, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
169 5 0.03
170 149 0.94
171 5 0.03
ACGTcount: A:0.23, C:0.27, G:0.27, T:0.22
Consensus pattern (170 bp):
TTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGCAGGCACTCAGTC
GGTCGAAGAGGCAGAATGCACAAGCCAGGGATCGGCCAGATCCCCCCTACGTGCGGCCGATCCTA
CTGCTGGTCCTACTACCACAACCCTCGGTTCGACTGGAGT
Found at i:28916548 original size:26 final size:26
Alignment explanation
Indices: 28916519--28916571 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28916509 CCGATCCGAT
*
28916519 CTTAGAC-TGGGAATGAACTCCGTATG
1 CTTAGACAT-GGAATGAACTCCATATG
28916545 CTTAGACATGGAATGAACTCCATATG
1 CTTAGACATGGAATGAACTCCATATG
28916571 C
1 C
28916572 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (26 bp):
CTTAGACATGGAATGAACTCCATATG
Found at i:28917259 original size:26 final size:26
Alignment explanation
Indices: 28917230--28917280 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
28917220 GGTCCGATCA
*
28917230 TAGACCGGGAATGAACTCCGTATGCT
1 TAGACAGGGAATGAACTCCGTATGCT
* *
28917256 TAGACATGGAATGAACTCTGTATGC
1 TAGACAGGGAATGAACTCCGTATGC
28917281 CTAAGCCAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (26 bp):
TAGACAGGGAATGAACTCCGTATGCT
Found at i:28917704 original size:12 final size:12
Alignment explanation
Indices: 28917687--28917718 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
28917677 TCCCCTTGCG
28917687 TGCTGCCGATCC
1 TGCTGCCGATCC
28917699 TGCTGCCGATCC
1 TGCTGCCGATCC
28917711 TGCTGCCG
1 TGCTGCCG
28917719 TAACCCTCGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.06, C:0.41, G:0.28, T:0.25
Consensus pattern (12 bp):
TGCTGCCGATCC
Found at i:28917890 original size:512 final size:512
Alignment explanation
Indices: 28917036--28918212 Score: 1425
Period size: 512 Copynumber: 2.3 Consensus size: 512
28917026 TGCTACTACG
* * * ** * *
28917036 ACAACCCTTGGTCCG-GTGGGGGCTTCGACATGGAATGAACTCTGTATGCCTAAGCCAACCAACG
1 ACAACCCTCGGTCCGACT-GGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATG
* * * * ** * ** *
28917100 AAAGGAGCGTGCAGGTGCTCAGCCAGCCGGAGAGATAGACTGCGTTAGCCGGGGATCGGCCCGGT
65 AAATGAGCGTGCAGGCGCTCAG-CTGCTGGAGAGGCAGAATGCGCAAGCCAGGGATCGGCCCGGT
* * * * * *
28917165 CCCCCCTGCATGCTATCGATCCAGCTGCTGGTCCGACTGTCGCAACCCTCGGTCCGGTCCGATCA
129 CCCCCCTGCATGCTGTCGATCCTGCTGCCGATCCGACTGCCGCAACCCTCGGTCCGATCCGATCA
*
28917230 TAGACCGGGAATGAACTCCGTATGCTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCAC
194 TAGACCGGGAATGAACTCCATATGCTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCAC
** * * * *
28917295 GAAACGAGCATGCGGGTGCTCAACCGGTCGGAGAGGCAGAATGCGCAAGCTGAGGATTGGCTCGA
259 GAAACGAGCATGCGGGCACTCAACCGATCGGAGAGGCAAAATGCGCAAGCCGAGGATCGGCTCGA
**
28917360 TTCCCCCCTACGTGCTGTCAATCCTGCTG-CGTAACCCTCGATCTGGT-TCGATCTTAGACAAGG
324 TTCCCCCCTACGTGCTGTCAATCCTGCTGCCACAACCCTCGATCTGGTCT-GATCTTAGACAAGG
* * * * * * * *
28917423 AATGAACTTCGTATCCCTAAGTCAACCCTCGAAACGAGCGTGCTGGCGCTGAGCCGGTCGAAGAG
388 AATGAACTCCATATCCATAAGTCAACCCACGAAACGAGCATGCGGGCGCTAAGCCGGCCGAAGAG
** ** * * *
28917488 GCATAATGCGCAAGCCGGGGATCGGCCCGATCCTCTTCTGCGTGCTGTC-GGCCCTGCTGCC
453 GCATAATGCGCAAGCCGAAGATCAACCCGATCCCCCTCTGCGTG-TGTCAGGCCC-ACTGCC
*
28917549 ACAACCCTCGGTCCGACTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCATCCCATGA
1 ACAACCCTCGGTCCGACTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGA
* * * * *
28917614 AATTACCGTGCAGGCGTTCAGCTGGCTGGAGAGGGAGAATGCGCAAGCCAGGGATCGGCCCAGT-
66 AATGAGCGTGCAGGCGCTCAGCT-GCTGGAGAGGCAGAATGCGCAAGCCAGGGATCGGCCCGGTC
* * * * *
28917678 CCCCTTGCGTGCTGCCGATCCTGCTGCCGATCCTG-CTGCCGTAACCCTCGGTCCGATCCGATCT
130 CCCCCTGCATGCTGTCGATCCTGCTGCCGATCC-GACTGCCGCAACCCTCGGTCCGATCCGATCA
* * *
28917742 TAGACTGGGAATGAACTCCATATGCTTAGAC-TAGGGATGAACTCTGTATGCCTAAGTCAACCCA
194 TAGACCGGGAATGAACTCCATATGCTTAGACAT-GGAATGAACTCTGTATGCCTAAGCCAACCCA
* * * * *
28917806 CGAAACGAGCGTGCGGGCACTCAGCCGATCGGGGAGGCAAAATGCGTAAGCCGAGGATCGGCTTG
258 CGAAACGAGCATGCGGGCACTCAACCGATCGGAGAGGCAAAATGCGCAAGCCGAGGATCGGCTCG
* * * * * **
28917871 A-TCCCCCACTGCGTGCTGTCGATCTTGCTGCCACAATCCTCGGTCTGGTCTGATCTTAGACTGG
323 ATTCCCCC-CTACGTGCTGTCAATCCTGCTGCCACAACCCTCGATCTGGTCTGATCTTAGACAAG
* *
28917935 GAATGAACTCCATATGCATAAGTCAACCCACGAAATGAGCATGCGGGCGCTAAGCCGGCCGAAGA
387 GAATGAACTCCATATCCATAAGTCAACCCACGAAACGAGCATGCGGGCGCTAAGCCGGCCGAAGA
* *
28918000 GGCATAATGCGCAAGCCGAAGATCAACCCGGTCCCCCTCTGCGTGTGTCAGTCCCACTGCC
452 GGCATAATGCGCAAGCCGAAGATCAACCCGATCCCCCTCTGCGTGTGTCAGGCCCACTGCC
* ** * *
28918061 ACAATCCTCAATCCGACTGGGGCTTAGACATGGAATAAACTCCTTATGCCTAAGCCAACCCATGA
1 ACAACCCTCGGTCCGACTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGA
* * * * *
28918126 AATGAGCATGCGGGCACTCAACTGATCGGAGAGGCAGAATGCGCAAGCCAGGGATCGGCCCGGTC
66 AATGAGCGTGCAGGCGCTCAGCTGCT-GGAGAGGCAGAATGCGCAAGCCAGGGATCGGCCCGGTC
28918191 CCCCCTGCATGCTGTCGATCCT
130 CCCCCTGCATGCTGTCGATCCT
28918213 AATGTCACAA
Statistics
Matches: 559, Mismatches: 95, Indels: 20
0.83 0.14 0.03
Matches are distributed among these distances:
511 9 0.02
512 303 0.54
513 245 0.44
514 2 0.00
ACGTcount: A:0.23, C:0.30, G:0.28, T:0.20
Consensus pattern (512 bp):
ACAACCCTCGGTCCGACTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGA
AATGAGCGTGCAGGCGCTCAGCTGCTGGAGAGGCAGAATGCGCAAGCCAGGGATCGGCCCGGTCC
CCCCTGCATGCTGTCGATCCTGCTGCCGATCCGACTGCCGCAACCCTCGGTCCGATCCGATCATA
GACCGGGAATGAACTCCATATGCTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCACGA
AACGAGCATGCGGGCACTCAACCGATCGGAGAGGCAAAATGCGCAAGCCGAGGATCGGCTCGATT
CCCCCCTACGTGCTGTCAATCCTGCTGCCACAACCCTCGATCTGGTCTGATCTTAGACAAGGAAT
GAACTCCATATCCATAAGTCAACCCACGAAACGAGCATGCGGGCGCTAAGCCGGCCGAAGAGGCA
TAATGCGCAAGCCGAAGATCAACCCGATCCCCCTCTGCGTGTGTCAGGCCCACTGCC
Found at i:28918128 original size:158 final size:156
Alignment explanation
Indices: 28917765--28918508 Score: 546
Period size: 158 Copynumber: 4.7 Consensus size: 156
28917755 AACTCCATAT
* ** * * * *
28917765 GCTTAGACTAGGGATGAACTCTGTATGCCTAAGTCAACCCACGAAACGAGCGTGCGGGCACTCAG
1 GCTTAGACT-GGAATGAACTCCATATGCCTAAGCCAACCCACGAAATGAGCATGCGGGCACTCAA
* ** * * * ** ** * *
28917830 CCGATCGGGGAGGCAAAATGCGTAAGCCGAGGATCGGCTTGATCCCCCACTGCGTGCTGTCGATC
65 CCGACCGAAGAGGCATAATGCGCAAGCCGAAGATCAACCCGGTCCCCCTCTGCGTG-TGTCG-TC
*** * * * * *
28917895 TTGCTGCCACAATCCTCGGTCTGGTCT-GA
128 CCACTGCCACAACCCTCGATC-CGACTGGG
* * * *
28917924 TCTTAGACTGGGAATGAACTCCATATGCATAAGTCAACCCACGAAATGAGCATGCGGGCGCT-AA
1 GCTTAGACT-GGAATGAACTCCATATGCCTAAGCCAACCCACGAAATGAGCATGCGGGCACTCAA
*
28917988 GCCGGCCGAAGAGGCATAATGCGCAAGCCGAAGATCAACCCGGTCCCCCTCTGCGTGTGTCAGTC
65 -CCGACCGAAGAGGCATAATGCGCAAGCCGAAGATCAACCCGGTCCCCCTCTGCGTGTGTC-GTC
* *
28918053 CCACTGCCACAATCCTCAATCCGACTGGG
128 CCACTGCCACAACCCTCGATCCGACTGGG
* * *
28918082 GCTTAGACATGGAATAAACTCCTTATGCCTAAGCCAACCCATGAAATGAGCATGCGGGCACTCAA
1 GCTTAGAC-TGGAATGAACTCCATATGCCTAAGCCAACCCACGAAATGAGCATGCGGGCACTCAA
* * * * * ** *
28918147 CTGATCGGAGAGGCAGAATGCGCAAGCC-AGGGATCGGCCCGGTCCCCC-CTGCATGCTGTCGAT
65 CCGACCGAAGAGGCATAATGCGCAAGCCGA-AGATCAACCCGGTCCCCCTCTGCGTG-TGTCG-T
* * * * * *
28918210 CCTAATGTCACAACCCTCGGTCCGGTCT-GA
127 CCCACTGCCACAACCCTCGATCC-GACTGGG
** * * * * * * * *
28918240 TTTTAGGCTGGCAATGAACTCCGTATGCCTAAGTCAACCCATGAAATGAGCGTGCAGGCACTGAG
1 GCTTAGACTGG-AATGAACTCCATATGCCTAAGCCAACCCACGAAATGAGCATGCGGGCACTCAA
* * * ** * * * * *
28918305 CCGATCGGAGAGGCATAATGCACAAGCCGGGGATCAGCCCGGTTCCCCTCTGTGTGCTACTGGTC
65 CCGACCGAAGAGGCATAATGCGCAAGCCGAAGATCAACCCGGTCCCCCTCTGCGTG-T-GTCGTC
* * * *
28918370 TCGCTACCACAACCCTCGATCCGGCTGGG
128 CCACTGCCACAACCCTCGATCCGACTGGG
* * * *
28918399 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAATGGGCGTGCGGGCCCTCAA
1 GCTTAGAC-TGGAATGAACTCCATATGCCTAAGCCAACCCACGAAATGAGCATGCGGGCACTCAA
* * * *
28918464 CCGGCC-AGAGAGGCAAAATGCGCAAGCCGGAGATCGACCCGGTCC
65 CCGACCGA-AGAGGCATAATGCGCAAGCCGAAGATCAACCCGGTCC
28918509 ACCCCACGTG
Statistics
Matches: 465, Mismatches: 104, Indels: 32
0.77 0.17 0.05
Matches are distributed among these distances:
157 14 0.03
158 233 0.50
159 213 0.46
160 5 0.01
ACGTcount: A:0.24, C:0.30, G:0.27, T:0.19
Consensus pattern (156 bp):
GCTTAGACTGGAATGAACTCCATATGCCTAAGCCAACCCACGAAATGAGCATGCGGGCACTCAAC
CGACCGAAGAGGCATAATGCGCAAGCCGAAGATCAACCCGGTCCCCCTCTGCGTGTGTCGTCCCA
CTGCCACAACCCTCGATCCGACTGGG
Found at i:28918547 original size:317 final size:315
Alignment explanation
Indices: 28917788--28918584 Score: 855
Period size: 317 Copynumber: 2.5 Consensus size: 315
28917778 ATGAACTCTG
* * * * * * * *
28917788 TATGCCTAAGTCAACCCACGAAACGAGCGTGCGGGCACTCAGCCGATCGGGGAGGCAAAATGCGT
1 TATGCCTAAGCCAACCCACGAAATGAGCATGCGGGCACTCAACCGACCAGAGAGGCAAAATGCGC
* ** * * * * * * ** * *
28917853 AAGCC-GAGGATCGGCTTGATCCCCCACTGCGTGCTGTCGATCTTGCTGCCACAATCCTCGGTCT
66 AAGCCAG-GGATCGACCCGGTCCCCC-CTACATGCTGCCAATCCTAATGTCACAATCCTCGGTCC
* *
28917917 GGTCTGATCTTAGACTGGGAATGAACTCCATATGCATAAGTCAACCCACGAAATGAGCATGCGGG
129 GGTCTGATCTTAGACTGGGAATGAACTCCGTATGCATAAGTCAACCCACGAAATGAGCATGCAGG
* * *
28917982 CGCTAAGCCGGCCGAAGAGGCATAATGCGCAAGCCGAAGATCAACCCGGTCCCCCTCTGCGTGTG
194 CACTAAGCCGACCGAAGAGGCATAATGCACAAGCCGAAGATCAACCCGGTCCCCCTCT-CGTGTG
* * *
28918047 TCAGTCCCACTGCCACAATCCTCAATCCGACTGGGGCTTAGACATGGAATAAACTCCT
258 TCAGTCCCACTACCACAACCCTCAATCCGACTGGGGCTTAGACATGGAATAAACTCCC
* * * * *
28918105 TATGCCTAAGCCAACCCATGAAATGAGCATGCGGGCACTCAACTGATCGGAGAGGCAGAATGCGC
1 TATGCCTAAGCCAACCCACGAAATGAGCATGCGGGCACTCAACCGACCAGAGAGGCAAAATGCGC
* * * * *
28918170 AAGCCAGGGATCGGCCCGGTCCCCCCTGCATGCTGTCGATCCTAATGTCACAACCCTCGGTCCGG
66 AAGCCAGGGATCGACCCGGTCCCCCCTACATGCTGCCAATCCTAATGTCACAATCCTCGGTCCGG
* * * * * *
28918235 TCTGATTTTAGGCTGGCAATGAACTCCGTATGCCTAAGTCAACCCATGAAATGAGCGTGCAGGCA
131 TCTGATCTTAGACTGGGAATGAACTCCGTATGCATAAGTCAACCCACGAAATGAGCATGCAGGCA
* * * ** * *
28918300 CTGAGCCGATCGGAGAGGCATAATGCACAAGCCGGGGATCAGCCCGGTTCCCCTCT-GTGTGCTA
196 CTAAGCCGACCGAAGAGGCATAATGCACAAGCCGAAGATCAACCCGGTCCCCCTCTCGTGTG-T-
* * * * * *
28918364 CTGGTCTCGCTACCACAACCCTCGATCCGGCTGGGGCTTAGACATGGAATGAACTCCC
259 C-AGTCCCACTACCACAACCCTCAATCCGACTGGGGCTTAGACATGGAATAAACTCCC
* * * *
28918422 TATGCCTAAGCCAACCCACGAAATGGGCGTGCGGGCCCTCAACCGGCCAGAGAGGCAAAATGCGC
1 TATGCCTAAGCCAACCCACGAAATGAGCATGCGGGCACTCAACCGACCAGAGAGGCAAAATGCGC
* ** **
28918487 AAGCC-GGAGATCGACCCGGTCCACCCC-ACGTGCTGCCAATCCTGTTGTCGTAATCCTCGGTCC
66 AAGCCAGG-GATCGACCCGGTCC-CCCCTACATGCTGCCAATCCTAATGTCACAATCCTCGGTCC
** * *
28918550 AATCCGATCTTAGACCGGGAATGAACTCCGTATGC
129 GGTCTGATCTTAGACTGGGAATGAACTCCGTATGC
28918585 TTAGATTGGG
Statistics
Matches: 402, Mismatches: 72, Indels: 12
0.83 0.15 0.02
Matches are distributed among these distances:
314 5 0.01
315 1 0.00
316 139 0.35
317 252 0.63
318 5 0.01
ACGTcount: A:0.24, C:0.31, G:0.26, T:0.19
Consensus pattern (315 bp):
TATGCCTAAGCCAACCCACGAAATGAGCATGCGGGCACTCAACCGACCAGAGAGGCAAAATGCGC
AAGCCAGGGATCGACCCGGTCCCCCCTACATGCTGCCAATCCTAATGTCACAATCCTCGGTCCGG
TCTGATCTTAGACTGGGAATGAACTCCGTATGCATAAGTCAACCCACGAAATGAGCATGCAGGCA
CTAAGCCGACCGAAGAGGCATAATGCACAAGCCGAAGATCAACCCGGTCCCCCTCTCGTGTGTCA
GTCCCACTACCACAACCCTCAATCCGACTGGGGCTTAGACATGGAATAAACTCCC
Found at i:28918587 original size:26 final size:26
Alignment explanation
Indices: 28918558--28918610 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28918548 CCAATCCGAT
28918558 CTTAGACCGGGAATGAACTCCGTATG
1 CTTAGACCGGGAATGAACTCCGTATG
** *
28918584 CTTAGATTGGGGATGAACTCCGTATG
1 CTTAGACCGGGAATGAACTCCGTATG
28918610 C
1 C
28918611 CTAAGTTAAC
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:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (26 bp):
CTTAGACCGGGAATGAACTCCGTATG
Found at i:28919667 original size:159 final size:157
Alignment explanation
Indices: 28919303--28919764 Score: 366
Period size: 158 Copynumber: 2.9 Consensus size: 157
28919293 AACTCCATAC
* *
28919303 GCTTAGATGTGGAATGAACTCTGTATGCCTAAGCCAACCCACAAAACGAACGTGCAGGAGCTCAG
1 GCTTAGA-CTGGAATGAACTCTGTATGCCTAAGCCAACCCACGAAACGAACGTGCAGGAGCTCAG
* * * ***
28919368 CCGATCGGAGAGGCAGAATGCGCAAGCCGGGGATCGACCCGATCCCCCTTACGTGTTGTTGATCC
65 CCGATCGAAGAGGCAGAATGCGCAAGCCGGGGATCAACCCGATCCCCCTTACGTGCTACCGATCC
** * *
28919433 TGCTGTCACAACCCTTAGTTCGGTCTGA
130 CACTGTCACAACCCTTAGGTCGGACTGA
* * * * * * * *
28919461 TCTTAGACTGGGAATTAACTCTGTATGCATAAGTCAATCCATGAAACGAGCGTGC-GG-GCATTG
1 GCTTAGACT-GGAATGAACTCTGTATGCCTAAGCCAACCCACGAAACGAACGTGCAGGAGC--TC
* * * * *
28919524 AGCCGATCGAAGAGGCATAATGGGCAAGCCGGGGATCAACTCGGTCCCCCTCTACGTGCTACCGG
63 AGCCGATCGAAGAGGCAGAATGCGCAAGCCGGGGATCAACCCGATCCCCCT-TACGTGCTACCGA
* * *
28919589 TCCCACT-TCCACAACCC-TCGGTCTGACTGGG
127 TCCCACTGT-CACAACCCTTAGGTCGGACT-GA
** * *
28919620 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGGACGT-AAGG-G--CA-
1 GCTTAGAC-TGGAATGAACTCTGTATGCCTAAGCCAACCCACGAAACGAACGTGCAGGAGCTCAG
* * * * * **
28919680 CTCGATCGGCTAGTGAGGCAGAATACGCAAGCCGGGGACCGACCCGGTCCCCCTTACGTGCTGTC
65 C-CGATC-G--A-AGAGGCAGAATGCGCAAGCCGGGGATCAACCCGATCCCCCTTACGTGCTACC
** *
28919745 GATCCTGCTGTCGCAACCCT
125 GATCCCACTGTCACAACCCT
28919765 CAGTCTGGTC
Statistics
Matches: 236, Mismatches: 53, Indels: 29
0.74 0.17 0.09
Matches are distributed among these distances:
154 1 0.00
155 6 0.03
156 3 0.01
157 3 0.01
158 121 0.51
159 101 0.43
160 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.26, T:0.20
Consensus pattern (157 bp):
GCTTAGACTGGAATGAACTCTGTATGCCTAAGCCAACCCACGAAACGAACGTGCAGGAGCTCAGC
CGATCGAAGAGGCAGAATGCGCAAGCCGGGGATCAACCCGATCCCCCTTACGTGCTACCGATCCC
ACTGTCACAACCCTTAGGTCGGACTGA
Found at i:28920102 original size:356 final size:354
Alignment explanation
Indices: 28919462--28920296 Score: 860
Period size: 356 Copynumber: 2.4 Consensus size: 354
28919452 TCGGTCTGAT
* * * * * * *
28919462 CTTAGACTGGGAATTAACTCTGTATGCATAAGTCAATCCATGAAACGAGCGTGCGGGCATTGAGC
1 CTTAGACTGGGAATGAACTCAGTATGCCTAAGTCAACCCACGAAACGAGCGTGCGGGCACTCAGC
* * * * * *
28919527 CGATCGAAGAGGCATAATGGGCAAGCCGGGGATCAACTCGGTCCCCCTCTACGTGC--T--A--C
66 CGATCGGAGAGGCATAATGCGCAAGCCGGGGATCAGCCCGATCCCCCTCTGCGTGCTGTCGATCC
* * * * * *
28919586 CGGTCCCACTTCCACAACCCTCGGTCTGACTGGGGCTTAGACATGGAATGAACTCCCTATGCCTA
131 CGGTCCCACTTCCACAACCCTCAGTCCGACTAGGGCTTACACATGGAATGAACTCCATAAGCCTA
* * * * * *
28919651 AGCCAACCCACGAAACGGACGTAAGGGCACTCGATCGGCTAGTGAGGCAGAATACGCAAGCCGGG
196 AGCCAACCCACGAAACGAACGTAAGGGCACTCAACCGGCTAGAGAGGCAGAATACACAAGCCGAG
*
28919716 GACCGACCCGGTCCCCCTTACGTGCTGTCGATCCT-G-CTG-T-C-GCAACCCTCAG-TCTGGTC
261 GACCGACCCGGTCCCCCCTACGTGCTGTCGATCCTGGCCTGCTACTGCAACCCTCAGTTC-GGTC
28919775 CAATCTTAGACTATGAATGAACT-TCGTATG
325 CAATCTTAGACTATGAATGAACTCT-GTATG
* * * *
28919805 CTTAGACTGGGGATGAACTCAGTATGCCTAAGTCAACCCACAAAATGAGCGTACGGGCACTCAGC
1 CTTAGACTGGGAATGAACTCAGTATGCCTAAGTCAACCCACGAAACGAGCGTGCGGGCACTCAGC
*
28919870 CGATCGGAGAGGCATAATGCGTAAGCCGGGGGATCAGCCCGATCCCCCTCTGCGTGCTGTCGATC
66 CGATCGGAGAGGCATAATGCGCAAGCC-GGGGATCAGCCCGATCCCCCTCTGCGTGCTGTCGATC
*
28919935 CCGTTGTCGCTC-CTGCTGCCACAACCCTCAGTCCGGCTAGGGCTTACACATGGAATGAACTCCA
130 CCG--GTC-C-CACT--T-CCACAACCCTCAGTCCGACTAGGGCTTACACATGGAATGAACTCCA
* ** ** * * *
28919999 TAAGCCTAAGCCAACCCATGAAACGAACGTGTGGGTGCTCAACCGG-TCGGAGAGGTAGAATGCA
188 TAAGCCTAAGCCAACCCACGAAACGAACGTAAGGGCACTCAACCGGCT-AGAGAGGCAGAATACA
* * * * * * *
28920063 TAAGTCGAGGATCGGCCCGGTCCCCCCTACGTGCTGTCGATTCTGGTCCTGCTACTGTAACCCTT
252 CAAGCCGAGGACCGACCCGGTCCCCCCTACGTGCTGTCGATCCTGG-CCTGCTACTGCAACCCTC
* ** *
28920128 GGTTCGGTCTGATCTTAGACTGTGAATGAACTCTGTATG
316 AGTTCGGTCCAATCTTAGACTATGAATGAACTCTGTATG
* ** * * * *
28920167 CTTAGACAT-GGAATGAACTCCGTATGCCTAACCCAACCCACGAAACGAGTGTGTGGGCGCTCAA
1 CTTAGAC-TGGGAATGAACTCAGTATGCCTAAGTCAACCCACGAAACGAGCGTGCGGGCACTCAG
* * *
28920231 CCGATCGGAGAGGCAGAATGCGCAAGCCGGGGA-CTGACCCGAT-CCCCTCTTGTGTGCTGTCGA
65 CCGATCGGAGAGGCATAATGCGCAAGCCGGGGATCAG-CCCGATCCCCCTC-TGCGTGCTGTCGA
28920294 TCC
128 TCC
28920297 TGCCGCCGCA
Statistics
Matches: 400, Mismatches: 66, Indels: 34
0.80 0.13 0.07
Matches are distributed among these distances:
343 78 0.19
344 25 0.06
346 1 0.00
348 1 0.00
350 3 0.01
352 3 0.01
353 3 0.01
354 1 0.00
355 2 0.00
356 125 0.31
357 1 0.00
359 3 0.01
360 9 0.02
361 27 0.07
362 114 0.28
363 4 0.01
ACGTcount: A:0.24, C:0.29, G:0.26, T:0.21
Consensus pattern (354 bp):
CTTAGACTGGGAATGAACTCAGTATGCCTAAGTCAACCCACGAAACGAGCGTGCGGGCACTCAGC
CGATCGGAGAGGCATAATGCGCAAGCCGGGGATCAGCCCGATCCCCCTCTGCGTGCTGTCGATCC
CGGTCCCACTTCCACAACCCTCAGTCCGACTAGGGCTTACACATGGAATGAACTCCATAAGCCTA
AGCCAACCCACGAAACGAACGTAAGGGCACTCAACCGGCTAGAGAGGCAGAATACACAAGCCGAG
GACCGACCCGGTCCCCCCTACGTGCTGTCGATCCTGGCCTGCTACTGCAACCCTCAGTTCGGTCC
AATCTTAGACTATGAATGAACTCTGTATG
Found at i:28920170 original size:26 final size:26
Alignment explanation
Indices: 28920141--28920193 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28920131 TCGGTCTGAT
*
28920141 CTTAGAC-TGTGAATGAACTCTGTATG
1 CTTAGACATG-GAATGAACTCCGTATG
28920167 CTTAGACATGGAATGAACTCCGTATG
1 CTTAGACATGGAATGAACTCCGTATG
28920193 C
1 C
28920194 CTAACCCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (26 bp):
CTTAGACATGGAATGAACTCCGTATG
Found at i:28920468 original size:159 final size:159
Alignment explanation
Indices: 28920167--28920662 Score: 423
Period size: 159 Copynumber: 3.1 Consensus size: 159
28920157 ACTCTGTATG
* *
28920167 CTTAGACATGGAATGAACTCCGTATGCCTAACCCAACCCACGAAACGAGTGTGTGGGCGCTCAAC
1 CTTAGACATGGAATGAACTCCGTATGCCTAACCCAACCCACGAAACGAGCGTGTGGGCACTCAAC
**
28920232 CGATCGGAGAGGCAGAATGCGCAAGCCGGGGACTGACCCGATCCCCTCTTGTGTGCTGTCGATCC
66 CGATCGGAGAGGCAGAATGCGCAAGCCGGGGACTGACCCGATCCCCTCTTCCGTGCTGTCGATCC
* * *
28920297 TGCCGCCGCAACCCTCGGTCCGGTCCAAT
131 CGCCACCACAACCCTCGGTCCGGTCCAAT
** ** * * *
28920326 CTTAGAC-TAGGAATGAACTTTGTATGCCTAAGTCAACCCACGAAACGAGCGTGTGGGCATTGAG
1 CTTAGACAT-GGAATGAACTCCGTATGCCTAACCCAACCCACGAAACGAGCGTGTGGGCACTCAA
** * * * * *
28920390 TTGATTGGAGGGGCATAATGCGCAAGCCGGGGATCTG-CCCGGT-CCCTCTCTCCGTGCTGTCGG
65 CCGATCGGAGAGGCAGAATGCGCAAGCCGGGGA-CTGACCCGATCCCCTCT-TCCGTGCTGTCGA
* * ****
28920453 TCCCGCTACCACAACCCTCGGTCTGGCTGGGGT
128 TCCCGCCACCACAACCCTCGGTCCGG-TCCAAT
* * * * ** * ** *
28920486 TTTA-ACATGGAATGAACTCCCTATGCCTAAACCAACCCACGAAACGGGCGTGCAGTCTTTCAGC
1 CTTAGACATGGAATGAACTCCGTATGCCTAACCCAACCCACGAAACGAGCGTGTGGGCACTCAAC
* * * * * *
28920550 CGACCGGAGAGGCAGTATGCACAAGCTGGGGA-TCGACCCGAT-CCCTCCTGCGTGCTG-CTGAT
66 CGATCGGAGAGGCAGAATGCGCAAGCCGGGGACT-GACCCGATCCCCTCTTCCGTGCTGTC-GAT
* * * * * *
28920612 CCTGCTATCGCAACCCTCGGTCCGATCCGAT
129 CCCGCCACCACAACCCTCGGTCCGGTCCAAT
*
28920643 CTTAGA-TTGGGAATGAACTC
1 CTTAGACAT-GGAATGAACTC
28920663 TATATGCTTA
Statistics
Matches: 265, Mismatches: 62, Indels: 21
0.76 0.18 0.06
Matches are distributed among these distances:
157 9 0.03
158 50 0.19
159 197 0.74
160 9 0.03
ACGTcount: A:0.22, C:0.30, G:0.27, T:0.21
Consensus pattern (159 bp):
CTTAGACATGGAATGAACTCCGTATGCCTAACCCAACCCACGAAACGAGCGTGTGGGCACTCAAC
CGATCGGAGAGGCAGAATGCGCAAGCCGGGGACTGACCCGATCCCCTCTTCCGTGCTGTCGATCC
CGCCACCACAACCCTCGGTCCGGTCCAAT
Found at i:28920694 original size:26 final size:26
Alignment explanation
Indices: 28920643--28920695 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
28920633 CCGATCCGAT
* *
28920643 CTTAGATTGGGAATGAACTCTATATG
1 CTTAGACTGGGAATGAACTCCATATG
* *
28920669 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCATATG
28920695 C
1 C
28920696 ATTTGTCAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCATATG
Found at i:28921404 original size:26 final size:26
Alignment explanation
Indices: 28921366--28921418 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
28921356 GGCTCAAAAT
28921366 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28921392 CTTAGACAT-GGAATGAACTCCGTATG
1 CTTAGAC-TGGGAATGAACTCCGTATG
28921418 C
1 C
28921419 CTAAGCCAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 25 0.96
27 1 0.04
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28921748 original size:159 final size:158
Alignment explanation
Indices: 28921391--28921893 Score: 397
Period size: 158 Copynumber: 3.2 Consensus size: 158
28921381 AACTCCGTAT
**
28921391 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAACGTACGAGTGCTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAACGTACGAGCACTCAG
* * * *
28921456 CCGGCCGAAGAGGTACAATGCGCAAGCCGAGGATCGACCCGGTCCCCCCTACGTGTTGTCGATCC
66 CCGACCGAAGAGGCACAATGCGCAAGCCGAGGATCGACCCGGTCCCCCCTACGTGCTGCCGATCC
* * * *
28921521 TACTGCCGCAACCCTCAGTCCGATCTGA
131 CACTACCACAACCCTCAGTCCGAGCTGA
* * * * * * * * *
28921549 TCTTAGAC-TGTGAATGAACTCTGTATGCATAAGTCAACCCACGAAACGAGCTTGCGGGCACTGA
1 GCTTAGACATG-GAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAACGTACGAGCACTCA
* * * * * * ** *
28921613 GTCGACCGAAGAGGCATAATGTGCAAGCCGGGGATCGGCCTGGTCTCCCTTTACGTGCTGCCGGT
65 GCCGACCGAAGAGGCACAATGCGCAAGCCGAGGATCGACCCGGTC-CCCCCTACGTGCTGCCGAT
* *
28921678 CCCACTACCACAACCCTCGGTCC-AGCTGGG
129 CCCACTACCACAACCCTCAGTCCGAGCT-GA
* * * * * * **
28921708 GCTTAGACAAGGAATGAACTCCCTATACCTAAGCCAACCCATGAAAC-AGACGTGCGGGTGCTCA
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGA-ACGTACGAGCACTCA
* * * * * * * * * * *
28921772 ACCG-GCTAGAGAGGCAGATTGTGCAAGCCAAGGATCGACCCGATCGCCCTTACGTGCTACCGAT
65 GCCGACCGA-AGAGGCACAATGCGCAAGCCGAGGATCGACCCGGTCCCCCCTACGTGCTGCCGAT
** * * *
28921836 CCTGCTGCCACAACCCTCTGTCTG-GTCTGA
129 CCCACTACCACAACCCTCAGTCCGAG-CTGA
* *
28921866 TCTTAGA-TTGGGAATGAACTCCGTATGC
1 GCTTAGACAT-GGAATGAACTCCGTATGC
28921894 TTAGATTGGG
Statistics
Matches: 267, Mismatches: 69, Indels: 18
0.75 0.19 0.05
Matches are distributed among these distances:
157 2 0.01
158 150 0.56
159 114 0.43
160 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.20
Consensus pattern (158 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAACGTACGAGCACTCAG
CCGACCGAAGAGGCACAATGCGCAAGCCGAGGATCGACCCGGTCCCCCCTACGTGCTGCCGATCC
CACTACCACAACCCTCAGTCCGAGCTGA
Found at i:28921903 original size:26 final size:26
Alignment explanation
Indices: 28921867--28921918 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
28921857 CTGGTCTGAT
28921867 CTTAGATTGGGAATGAACTCCGTATG
1 CTTAGATTGGGAATGAACTCCGTATG
* *
28921893 CTTAGATTGGGGATGAAGTCCGTATG
1 CTTAGATTGGGAATGAACTCCGTATG
28921919 TCTAAGTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.13, G:0.31, T:0.31
Consensus pattern (26 bp):
CTTAGATTGGGAATGAACTCCGTATG
Found at i:28922201 original size:26 final size:26
Alignment explanation
Indices: 28922165--28922217 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28922155 TCGGTTGGAA
* *
28922165 CTTAGATTGGGAATGAACTCCTTATG
1 CTTAGACTGGGAATGAACTCCGTATG
*
28922191 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28922217 C
1 C
28922218 CTAAGTCAAC
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:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28922224 original size:298 final size:298
Alignment explanation
Indices: 28921674--28922244 Score: 761
Period size: 298 Copynumber: 1.9 Consensus size: 298
28921664 TACGTGCTGC
* * *
28921674 CGGTCCCACTACCACAACCCTCGGTCCAGCTGGGGCTTAGACAAGGAATGAACTCCCTATACCTA
1 CGGTCCAACTACCACAACCCTCGGTCCAGCTGGGGCTTAGACAAGGAATAAACTACCTATACCTA
* * * * *
28921739 AGCCAACCCATGAAACAGACGTGCGGGTGCTCAACCGGCTAGAGAGGCAGATTGTGCAAGCCAAG
66 AGCCAACCCACGAAACAGACGTGCGGGCGCTCAACCGACTAGAGAGGCAGAATGCGCAAGCCAAG
* * * * *
28921804 GATCGACCCGATCGCCCTTACGTGCTACCGATCCTGCTGCCACAACCCTCTGTCTGGTCTGATCT
131 GATCGACCCGATCGCCCCTACATGCTACCGATCCTACTGCCACAACCCTCGGTCTGGTCTGAACT
* * * *
28921869 TAGATTGGGAATGAACTCCGTATGCTTAGATTGGGGATGAAGTCCGTATGTCTAAGTCAACCCAT
196 TAGATTGGGAATGAACTCCGTATGCTTAGACTGGGGATGAACTCCGTATGCCTAAGTCAACCCAC
28921934 GAAACGAGCGTGCGGGTGCTCAACCCTCTGCGTGCTAT
261 GAAACGAGCGTGCGGGTGCTCAACCCTCTGCGTGCTAT
* * * * * *
28921972 CGGTCCAACTGCCACAACCCTCGGTTCGGTTGGGGCTTAGACATGGAATAAACTACCTATGCCTA
1 CGGTCCAACTACCACAACCCTCGGTCCAGCTGGGGCTTAGACAAGGAATAAACTACCTATACCTA
* * * * * **
28922037 AGCCAACCCACGAAACGGGCGTGCGGGCGCTCAGCCGACTGGAGAGGCAGAATGCGTAAGCCGGG
66 AGCCAACCCACGAAACAGACGTGCGGGCGCTCAACCGACTAGAGAGGCAGAATGCGCAAGCCAAG
* * * * *
28922102 GATTGACTCGATC-CACCCTGCATGCTACCGATCCTACTGTCGCAACCCTCGGT-TCGGT-TGGA
131 GATCGACCCGATCGC-CCCTACATGCTACCGATCCTACTGCCACAACCCTCGGTCT-GGTCT-GA
*
28922164 ACTTAGATTGGGAATGAACTCCTTATGCTTAGACTGGGGATGAACTCCGTATGCCTAAGTCAACC
193 ACTTAGATTGGGAATGAACTCCGTATGCTTAGACTGGGGATGAACTCCGTATGCCTAAGTCAACC
*
28922229 CACGAATCGAGCGTGC
258 CACGAAACGAGCGTGC
28922245 TTGTAAATTC
Statistics
Matches: 233, Mismatches: 37, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
297 3 0.01
298 230 0.99
ACGTcount: A:0.24, C:0.29, G:0.26, T:0.21
Consensus pattern (298 bp):
CGGTCCAACTACCACAACCCTCGGTCCAGCTGGGGCTTAGACAAGGAATAAACTACCTATACCTA
AGCCAACCCACGAAACAGACGTGCGGGCGCTCAACCGACTAGAGAGGCAGAATGCGCAAGCCAAG
GATCGACCCGATCGCCCCTACATGCTACCGATCCTACTGCCACAACCCTCGGTCTGGTCTGAACT
TAGATTGGGAATGAACTCCGTATGCTTAGACTGGGGATGAACTCCGTATGCCTAAGTCAACCCAC
GAAACGAGCGTGCGGGTGCTCAACCCTCTGCGTGCTAT
Found at i:28923620 original size:155 final size:156
Alignment explanation
Indices: 28923073--28923688 Score: 589
Period size: 159 Copynumber: 3.9 Consensus size: 156
28923063 CTCCGTACGG
* *
28923073 TTAGACATGGAATGAACTCCATATGCCCAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAGCC
1 TTAGACATGGAATGAACTCCCTATG-CTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAGCC
* * * *
28923138 AGCTGGAA-AGGTAGAATGCGCAAGTCGGGGATCGACCCGGTCCCCCCCTGCGTGCTGTCGATCC
65 -GGTCGAAGAGGCAGAATGCGCAAGTC-GGGATCGACCCGGT-CCCCCCTGCGTGCTATCGATCC
* * * *
28923202 TGCTACCGCAACCCTCGGTCTGGTCT-AATC
127 CGCTACCACAACCCTCGGTCTGGT-TGGAGC
* * *
28923232 TTAGAC-TGGGAATGAACTCCGTATGCCTAAGTCAACCCACGAAACGAGCGTGCGGGCGCTGAGC
1 TTAGACAT-GGAATGAACTCCCTATG-CTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAGC
* * * ** * * * * *
28923296 TGGCCGAAGAGGCATAATAAGCAAGCCGAGGATTGGCCCGGTCCCCCTCTACGTGCTATCGGTCC
64 CGGTCGAAGAGGCAGAATGCGCAAGTCG-GGATCGACCCGGTCCCCC-CTGCGTGCTATCGATCC
* * * *
28923361 CGTTACCACAACCCTCAGTCCGGCTGGAGC
127 CGCTACCACAACCCTCGGTCTGGTTGGAGC
* * * * * *
28923391 TTACATATGG-ATGAACTCCCTATGCCTAAGCCAACCCACGAAACGGGCGTGTGGGTGCTCATCC
1 TTAGACATGGAATGAACTCCCTATG-CTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAGCC
* * ** *
28923455 GGTCGGAGAGGCAGAATGCGTAAGTCAGGGATCGACCTAGTCCCCCCTGCGTGCTATCGATCCCA
65 GGTCGAAGAGGCAGAATGCGCAAGTC-GGGATCGACCCGGTCCCCCCTGCGTGCTATCGATCCCG
* * *
28923520 CTGCCACAA-CCTTGGTCTGGTTGGGGC
129 CTACCACAACCCTCGGTCTGGTTGGAGC
* * * * *
28923547 TTAGACATGGAATGAACTCCCTATG-TAAGCCAACCAATGAAATGGGCGTGCAGGCGCTCAGCCG
1 TTAGACATGGAATGAACTCCCTATGCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAGCCG
* * * * * *
28923611 GTCGAAGAGGCAGAATGTGCAAGTCGGGAATCGACCTGGT-CCCCCTGTGTGCTGTCTATCCTGC
66 GTCGAAGAGGCAGAATGCGCAAGTCGGG-ATCGACCCGGTCCCCCCTGCGTGCTATCGATCCCGC
**
28923675 TGTCACAACCCTCG
130 TACCACAACCCTCG
28923689 ATCCAATCCG
Statistics
Matches: 370, Mismatches: 77, Indels: 24
0.79 0.16 0.05
Matches are distributed among these distances:
154 29 0.08
155 68 0.18
156 21 0.06
157 37 0.10
158 91 0.25
159 123 0.33
160 1 0.00
ACGTcount: A:0.23, C:0.30, G:0.28, T:0.19
Consensus pattern (156 bp):
TTAGACATGGAATGAACTCCCTATGCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAGCCG
GTCGAAGAGGCAGAATGCGCAAGTCGGGATCGACCCGGTCCCCCCTGCGTGCTATCGATCCCGCT
ACCACAACCCTCGGTCTGGTTGGAGC
Found at i:28923772 original size:26 final size:26
Alignment explanation
Indices: 28923708--28923779 Score: 99
Period size: 26 Copynumber: 2.8 Consensus size: 26
28923698 GATCTTAGAC
* *
28923708 TGGGAATGAACTCCGTATGCTGAGAT
1 TGGGGATGAACTTCGTATGCTGAGAT
* *
28923734 TAGGGATGAACTTTGTATGCTGAGAT
1 TGGGGATGAACTTCGTATGCTGAGAT
*
28923760 TGGGGATGAACTTCTTATGC
1 TGGGGATGAACTTCGTATGC
28923780 CAAAGTCAAC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.25, C:0.12, G:0.31, T:0.32
Consensus pattern (26 bp):
TGGGGATGAACTTCGTATGCTGAGAT
Found at i:28924472 original size:159 final size:158
Alignment explanation
Indices: 28924117--28924555 Score: 461
Period size: 159 Copynumber: 2.8 Consensus size: 158
28924107 AACTCCGTAT
* * * *
28924117 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCGCTTAA
1 GCTTAGACAAGGAATGAACTCCGTATGCCTAAGCCAACCCAGGAAACGAGCGTGCGGGCACTGAA
* * *
28924182 CCGACTGGAGAGGCAGAATGCGCAAGCCGGGGATCGACCCGATCCCCCCTGCGTGCTATCGATCT
66 CCGACTGGAGAGGCAGAATGCACAAGCCGGGGATCGACCCGATCCCCCCTGCGTGCTACCGATCC
* * * *
28924247 TGCTGTCGCAACCCTCGGTCCGGTTCGA
131 CGCTGCCACAACCCTCGGTCCGGTTAGA
* * * * * * * *
28924275 TCTTAGACTAGGATTGAACTCTGTATGCCTAAGTCAACCCAGGAAATGAGTGTGCGGGCACTGAG
1 GCTTAGACAAGGAATGAACTCCGTATGCCTAAGCCAACCCAGGAAACGAGCGTGCGGGCACTGAA
* * *
28924340 CCGA-TCGGAGAGGCATAATGCACAAGCCGGGGATCGACCC-AGTCCCCCTCTGCGTGCTGCCGG
66 CCGACT-GGAGAGGCAGAATGCACAAGCCGGGGATCGACCCGA-TCCCCC-CTGCGTGCTACCGA
* *
28924403 TCCCGTTGCCACAACCCTCGGTCCGGTTAGG
128 TCCCGCTGCCACAACCCTCGGTCCGGTTAGA
* * * ** *
28924434 GCTTAGACAAGGAATGAACTCCCTATGCCTAAGCCAACCTACGAAAC-AGGCGTGCGGGTGCTCA
1 GCTTAGACAAGGAATGAACTCCGTATGCCTAAGCCAACCCAGGAAACGA-GCGTGCGGGCACTGA
* * * ** * * * * *
28924498 GCAGACTAGAGAGGCAGAATGTGCAAGCCGAGGATTGGCCTGGTCCCCCCTGCGTGCT
65 ACCGACTGGAGAGGCAGAATGCACAAGCCGGGGATCGACCCGATCCCCCCTGCGTGCT
28924556 GTCGATCCTG
Statistics
Matches: 228, Mismatches: 47, Indels: 12
0.79 0.16 0.04
Matches are distributed among these distances:
157 2 0.01
158 105 0.46
159 120 0.53
160 1 0.00
ACGTcount: A:0.23, C:0.30, G:0.29, T:0.19
Consensus pattern (158 bp):
GCTTAGACAAGGAATGAACTCCGTATGCCTAAGCCAACCCAGGAAACGAGCGTGCGGGCACTGAA
CCGACTGGAGAGGCAGAATGCACAAGCCGGGGATCGACCCGATCCCCCCTGCGTGCTACCGATCC
CGCTGCCACAACCCTCGGTCCGGTTAGA
Found at i:28924649 original size:26 final size:26
Alignment explanation
Indices: 28924599--28924650 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
28924589 CGGTCCGATT
* **
28924599 TTAGATTGGGAATGAACTCTGTATGC
1 TTAGACTGGGAATGAACTCCATATGC
*
28924625 TTAGACTGGGGATGAACTCCATATGC
1 TTAGACTGGGAATGAACTCCATATGC
28924651 CTAAGTCAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (26 bp):
TTAGACTGGGAATGAACTCCATATGC
Found at i:28932461 original size:158 final size:157
Alignment explanation
Indices: 28931920--28932729 Score: 614
Period size: 158 Copynumber: 5.1 Consensus size: 157
28931910 CCGGCTGGGG
* * * * * * * *
28931920 CTTAGACAT-GGAATGAACTCCGTATGCCAAAGCCAACCCACGAAACGAACGTGCGGGCACTCAA
1 CTTAGAC-TGGGAATGAACTCCATATGCCTAAGTCAACCCACGAAACGAGCGTGCAGGCGCTGAG
* ** * * * * ** ** * *
28931984 TCGACCGGAGAGGTAGAATGCGCAAGCCATGAATCGGCTTGATCCCCCCTGTGTACTGTCGATCC
65 CCGGTCGGAGAGGCATAATGCGCAAGCCA-GGATCGACCCGATCCCCCCTGCATGCTATCGATCC
*** * *
28932049 TACTACTGTAACCCTCGGTCCGGTCTGAT
129 TACTACCACAACCCTCGGTCCGATCAGAT
* * * *
28932078 CTTAGATTGAGAATGAACTCCGTATGCCTAAGTCAACCCACAAAACGAGCGTGCAGGCGCTGAGC
1 CTTAGACTGGGAATGAACTCCATATGCCTAAGTCAACCCACGAAACGAGCGTGCAGGCGCTGAGC
* * *
28932143 CGGTCGGAGAGGCATAATGCGCAAGCCAGAGATCGACCCGATCCCCCACTGCGTGCTGTCGGTCC
66 CGGTCGGAGAGGCATAATGCGCAAGCCAG-GATCGACCCGATCCCCC-CTGCATGCTATCGATCC
* **
28932208 TGCTACCACAACCCTCGGTCCGA-CTAGGG
129 TACTACCACAACCCTCGGTCCGATC-AGAT
* ** * * *
28932237 CTTAGACAT-GGAATGATCTTTATATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAG
1 CTTAGAC-TGGGAATGAACTCCATATGCCTAAGTCAACCCACGAAACGAGCGTGCAGGCGCTGAG
* * * * *
28932301 CCGGTCGGAGAGGGAAAATGCGCAAGCCAAGGATCGACTCGGTCCCCCCTGCATGTTATCGATCC
65 CCGGTCGGAGAGGCATAATGCGCAAGCC-AGGATCGACCCGATCCCCCCTGCATGCTATCGATCC
* ** * *
28932366 TATTGTCGCAACCCTCGGTCCGATCCGAT
129 TACTACCACAACCCTCGGTCCGATCAGAT
** * * *
28932395 CTTAGACTGGGAATGAACTCCATATGATTAAGTCAACCCACGAAATGAGCATGCAGGTGCTGAGC
1 CTTAGACTGGGAATGAACTCCATATGCCTAAGTCAACCCACGAAACGAGCGTGCAGGCGCTGAGC
* * * * * *
28932460 CGATCGGAGAGGCATAATGCGTAAGCCGGGGATCGACCCGATCCCCCCTGCATGCTGTCGGTCCC
66 CGGTCGGAGAGGCATAATGCGCAAGCC-AGGATCGACCCGATCCCCCCTGCATGCTATCGATCCT
* * * **
28932525 GCTGCCACAACCCTCGGTCC-AACTAGGG
130 ACTACCACAACCCTCGGTCCGATC-AGAT
* * * * * * *
28932553 CTTAGACAT-GGAATGAACTACC-TATGCCTAAGCCAACCCATGAAATGGGCGTGCGGGCACTCA
1 CTTAGAC-TGGGAATGAACT-CCATATGCCTAAGTCAACCCACGAAACGAGCGTGCAGGCGCTGA
* * * * * * * *
28932616 GCC-GACTGGAGAGGCAGAATGTC-CAAGTCGAGGATTGGCCCGAT-CCCCCTACGTGCT-GCTG
64 GCCGGTC-GGAGAGGCATAATG-CGCAAG-CCAGGATCGACCCGATCCCCCCTGCATGCTATC-G
* ** ** *
28932677 ATCCTGCTACCGTAACCCTCGGTCTAATCCGAT
125 ATCCTACTACCACAACCCTCGGTCCGATCAGAT
28932710 CTTAGACTGGGAATGAACTC
1 CTTAGACTGGGAATGAACTC
28932730 TGTTTGCTTA
Statistics
Matches: 517, Mismatches: 118, Indels: 36
0.77 0.18 0.05
Matches are distributed among these distances:
156 3 0.01
157 55 0.11
158 324 0.63
159 132 0.26
160 3 0.01
ACGTcount: A:0.25, C:0.30, G:0.26, T:0.19
Consensus pattern (157 bp):
CTTAGACTGGGAATGAACTCCATATGCCTAAGTCAACCCACGAAACGAGCGTGCAGGCGCTGAGC
CGGTCGGAGAGGCATAATGCGCAAGCCAGGATCGACCCGATCCCCCCTGCATGCTATCGATCCTA
CTACCACAACCCTCGGTCCGATCAGAT
Found at i:28932461 original size:317 final size:315
Alignment explanation
Indices: 28931886--28932629 Score: 970
Period size: 317 Copynumber: 2.4 Consensus size: 315
28931876 TCCCGCTACT
* * * * * * *
28931886 GGTCCTGCTACCACAACCTTTGGTCCGGCTGGGGCTTAGACATGGAATGAACTCCGTATGCCAAA
1 GGTCCTGCTACCACAACCCTCGGTCCGACTAGGGCTTAGACATGGAATGAACTACATATGCCTAA
* ** * * *
28931951 GCCAACCCACGAAACGAACGTGCGGGCACTCAATCGACCGGAGAGGTAGAATGCGCAAGCCATGA
66 GCCAACCCACGAAACGAGCGTGCGGGCACTCAGCCGACCGGAGAGGGAAAATGCGCAAGCCAAGA
* * * * * *
28932016 ATCGGCTTGATCCCCCCTGTGTACTGTCGATCCTACTACTGTAACCCTCGGTCCGGTCTGATCTT
131 ATCGACTCGATCCCCCCTGTGTA-TATCGATCCTACTACTGCAACCCTCGGTCCGATCCGATCTT
* * * * *
28932081 AGATTGAGAATGAACTCCGTATGCCTAAGTCAACCCACAAAACGAGCGTGCAGGCGCTGAGCCGG
195 AGACTGAGAATGAACTCCATATGACTAAGTCAACCCACAAAACGAGCATGCAGGCGCTGAGCCGA
*
28932146 TCGGAGAGGCATAATGCGCAAGCCAGAGATCGACCCGATCCCCCACTGCGTGCTGTC
260 TCGGAGAGGCATAATGCGCAAGCCAGAGATCGACCCGATCCCCC-CTGCATGCTGTC
* **
28932203 GGTCCTGCTACCACAACCCTCGGTCCGACTAGGGCTTAGACATGGAATGATCTTTATATGCCTAA
1 GGTCCTGCTACCACAACCCTCGGTCCGACTAGGGCTTAGACATGGAATGAACTACATATGCCTAA
* ** *
28932268 GCCAACCCACGAAACGAGCGTGCGGGCGCTCAGCCGGTCGGAGAGGGAAAATGCGCAAGCCAAGG
66 GCCAACCCACGAAACGAGCGTGCGGGCACTCAGCCGACCGGAGAGGGAAAATGCGCAAGCCAAGA
* **
28932333 ATCGACTCGGTCCCCCCTGCATGT-TATCGATCCTA-TTGTCGCAACCCTCGGTCCGATCCGATC
131 ATCGACTCGATCCCCCCTG--TGTATATCGATCCTACTACT-GCAACCCTCGGTCCGATCCGATC
* * * * *
28932396 TTAGACTGGGAATGAACTCCATATGATTAAGTCAACCCACGAAATGAGCATGCAGGTGCTGAGCC
193 TTAGACTGAGAATGAACTCCATATGACTAAGTCAACCCACAAAACGAGCATGCAGGCGCTGAGCC
* * *
28932461 GATCGGAGAGGCATAATGCGTAAGCCGGGGATCGACCCGATCCCCCCTGCATGCTGTC
258 GATCGGAGAGGCATAATGCGCAAGCCAGAGATCGACCCGATCCCCCCTGCATGCTGTC
* * * *
28932519 GGTCCCGCTGCCACAACCCTCGGTCCAACTAGGGCTTAGACATGGAATGAACTACCTATGCCTAA
1 GGTCCTGCTACCACAACCCTCGGTCCGACTAGGGCTTAGACATGGAATGAACTACATATGCCTAA
* * * *
28932584 GCCAACCCATGAAATGGGCGTGCGGGCACTCAGCCGACTGGAGAGG
66 GCCAACCCACGAAACGAGCGTGCGGGCACTCAGCCGACCGGAGAGG
28932630 CAGAATGTCC
Statistics
Matches: 368, Mismatches: 56, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
316 110 0.30
317 255 0.69
319 3 0.01
ACGTcount: A:0.25, C:0.30, G:0.27, T:0.19
Consensus pattern (315 bp):
GGTCCTGCTACCACAACCCTCGGTCCGACTAGGGCTTAGACATGGAATGAACTACATATGCCTAA
GCCAACCCACGAAACGAGCGTGCGGGCACTCAGCCGACCGGAGAGGGAAAATGCGCAAGCCAAGA
ATCGACTCGATCCCCCCTGTGTATATCGATCCTACTACTGCAACCCTCGGTCCGATCCGATCTTA
GACTGAGAATGAACTCCATATGACTAAGTCAACCCACAAAACGAGCATGCAGGCGCTGAGCCGAT
CGGAGAGGCATAATGCGCAAGCCAGAGATCGACCCGATCCCCCCTGCATGCTGTC
Found at i:28934262 original size:157 final size:156
Alignment explanation
Indices: 28933973--28934491 Score: 503
Period size: 157 Copynumber: 3.3 Consensus size: 156
28933963 CCCACTATCG
* * * *
28933973 CAACCCTCGGTCTGATCCGTTCTTAGACTGGGAATGAACTCAGTATGCCTAAGGCAACCCATGAA
1 CAACCCTCGGTCCGATCCGATCTTAGACTGGGAATGAACTCCGTATGCCTAAGCCAACCCATGAA
* * * *
28934038 A-GGAGCGTGCGGGCACTCA-ATCGACCGGAGAGGCAGAATGCGCAAGCCAGGGA-CTGGCCTGG
66 ACGG-GCGTGCGGGCGCTCAGCT-GACCGAAGAGGCAGAATGCGCAAGCCGGGGATC-GGCC-GG
*
28934100 TCCCCCATACGTGCTGTCGATCTTACTGCCA
127 TCCCCC-TACGTGCTGTCGATCCTACTGCCA
* *
28934131 CAACCCTCGGTCCGATCCGATCTTAGACT-GGAATGAACTCCGTATGACTAAGTCAACCCATGAA
1 CAACCCTCGGTCCGATCCGATCTTAGACTGGGAATGAACTCCGTATGCCTAAGCCAACCCATGAA
* * * * * * *
28934195 ACGGGCGTGCGGACGCTGAGCTGATCGAAAAGGCATAATGCACAAGCCGGGGATCGGTCGGTCCC
66 ACGGGCGTGCGGGCGCTCAGCTGACCGAAGAGGCAGAATGCGCAAGCCGGGGATCGGCCGGT-CC
* * * *
28934260 CCCTGCATGCTGTCGGTCCCACTGCCA
130 CCCTACGTGCTGTCGATCCTACTGCCA
* * ** * * *
28934287 CAACCCTCGGTCCG-GCTGGGGCTTAGACAT-GGAATGAACTCCCTATGCCTAAGCCAACCTACG
1 CAACCCTCGGTCCGATC-CGATCTTAGAC-TGGGAATGAACTCCGTATGCCTAAGCCAACCCATG
* * * * * * * *
28934350 AAACGGGTGTGCGGGCGCTCAGC-CAGCTAGAGAGGCAGAATGTGCAAGCTGGGGATCGACCCGA
64 AAACGGGCGTGCGGGCGCTCAGCTGACCGA-AGAGGCAGAATGCGCAAGCCGGGGATCG-GCCGG
* *
28934414 TCCCCCTACGTGCTGTCGATCCTACTGTCG
127 TCCCCCTACGTGCTGTCGATCCTACTGCCA
* ** * *
28934444 CAACCGTCTATCCAATCCGATCTTAGATTGGGAATGAACTCCGTATGC
1 CAACCCTCGGTCCGATCCGATCTTAGACTGGGAATGAACTCCGTATGC
28934492 TTAGATTGGG
Statistics
Matches: 291, Mismatches: 60, Indels: 21
0.78 0.16 0.06
Matches are distributed among these distances:
155 1 0.00
156 48 0.16
157 207 0.71
158 35 0.12
ACGTcount: A:0.24, C:0.30, G:0.27, T:0.19
Consensus pattern (156 bp):
CAACCCTCGGTCCGATCCGATCTTAGACTGGGAATGAACTCCGTATGCCTAAGCCAACCCATGAA
ACGGGCGTGCGGGCGCTCAGCTGACCGAAGAGGCAGAATGCGCAAGCCGGGGATCGGCCGGTCCC
CCTACGTGCTGTCGATCCTACTGCCA
Found at i:28936088 original size:26 final size:26
Alignment explanation
Indices: 28936048--28936100 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
28936038 CCGGTCTGAT
28936048 CTTAGACTGGGAATGAACTTCGTATG
1 CTTAGACTGGGAATGAACTTCGTATG
*
28936074 CTTAGACTGGTAATGAACTTCGTATG
1 CTTAGACTGGGAATGAACTTCGTATG
28936100 C
1 C
28936101 CTAAGTCAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTTCGTATG
Found at i:28936103 original size:269 final size:270
Alignment explanation
Indices: 28935619--28936137 Score: 681
Period size: 269 Copynumber: 1.9 Consensus size: 270
28935609 AACTCCATAT
* **
28935619 GCTTAGACATGGAATGAACTCAGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGTTCAA
1 GCTTAGACATGGAATGAACTCACTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCACTCAA
* ** * * * * *
28935684 TCGGTCGGAGAGGCAGAATACGCAAGCTGGGGATCAGCTCGGTCCCCTCTTGCGTGCTGTCGATC
66 CCACTCAGAGAGGCAGAATACGCAAGCCGGGGATCAGCTCAGTCCCCTCCTGCGTGCTGTCCATC
* ** *
28935749 CTGCTGCCACAACCCTTGGCCCGATCTGATCTTAGACCTAGAATGAACTCCGTATGCTTAGATTG
131 CTGCTACCACAACCCTAAGCCCGATCTGATCTTAGACCTAGAATGAACTCCGTATGCTTAGACTG
* * *
28935814 GGGATGAACTCTGTATGCCTAAGTCAACCCACGAAATGAGCGTGCGGGGGTTGAGTCGGCCTCGA
196 GGAATGAACTCTGTATGCCTAAGTCAACCAACGAAATGAGCGTGCGGGGGCTGAGTCGGCCTCGA
28935879 TCCGGCTGGG
261 TCCGGCTGGG
* * *
28935889 GCTT-GACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAACGGGCGTGCGGGCACTCAA
1 GCTTAGACATGGAATGAACTCACTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCACTCAA
* *
28935953 CCAACT-AGAGAGGCAGAATGCGCAAGCCGGGGATCGGAC-CAGTCCCC-CCTGCGTGCTGTCCA
66 CC-ACTCAGAGAGGCAGAATACGCAAGCCGGGGATCAG-CTCAGTCCCCTCCTGCGTGCTGTCCA
* * * * *
28936015 TCCTGCTATCGCAACCCTCAAGCCCGGTCTGATCTTAGA-CTGGGAATGAACTTCGTATGCTTAG
129 TCCTGCTACCACAACCCT-AAGCCCGATCTGATCTTAGACCT-AGAATGAACTCCGTATGCTTAG
* *
28936079 ACTGGTAATGAACT-TCGTATGCCTAAGTCAACCAATGAAATGAGCGTGCGGGGGCTGAG
192 ACTGGGAATGAACTCT-GTATGCCTAAGTCAACCAACGAAATGAGCGTGCGGGGGCTGAG
28936138 CCGGTGGGAA
Statistics
Matches: 214, Mismatches: 30, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
268 31 0.14
269 177 0.83
270 6 0.03
ACGTcount: A:0.24, C:0.27, G:0.28, T:0.21
Consensus pattern (270 bp):
GCTTAGACATGGAATGAACTCACTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCACTCAA
CCACTCAGAGAGGCAGAATACGCAAGCCGGGGATCAGCTCAGTCCCCTCCTGCGTGCTGTCCATC
CTGCTACCACAACCCTAAGCCCGATCTGATCTTAGACCTAGAATGAACTCCGTATGCTTAGACTG
GGAATGAACTCTGTATGCCTAAGTCAACCAACGAAATGAGCGTGCGGGGGCTGAGTCGGCCTCGA
TCCGGCTGGG
Found at i:28937145 original size:26 final size:26
Alignment explanation
Indices: 28937116--28937183 Score: 136
Period size: 26 Copynumber: 2.6 Consensus size: 26
28937106 TTAGACTGAA
28937116 AATGAACTCCGTATGCTTAGACATGG
1 AATGAACTCCGTATGCTTAGACATGG
28937142 AATGAACTCCGTATGCTTAGACATGG
1 AATGAACTCCGTATGCTTAGACATGG
28937168 AATGAACTCCGTATGC
1 AATGAACTCCGTATGC
28937184 CTAAGCCAAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (26 bp):
AATGAACTCCGTATGCTTAGACATGG
Found at i:28937502 original size:159 final size:158
Alignment explanation
Indices: 28937156--28937589 Score: 455
Period size: 159 Copynumber: 2.7 Consensus size: 158
28937146 AACTCCGTAT
* * *
28937156 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCAGGTGCTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCATAAGCCAACCCACGAAACGAGCGTGCAGGCGCTGAG
* * * * * * *
28937221 CCAGTCGGAGAGGCAGAATGTGCAAGCCGGGGATGGGCCCGGTCCCCCCTTCGTGCTGTCGATCC
66 CCGGTCGAAGAGGCAGAATGCGCAAGCCGGGGATCGACCCGGTCCCCCCTGCATGCTGTCGATCC
* ** * * *
28937286 TATTGCCGTAACCCTTGGTTCGATCTGA
131 TACTGCCACAACCCTCGATTCGAGCTGA
* * **
28937314 TCTTAGAC-TGGGAATGAACTCCGTATGCATAAGTCAACCCACGAAACGAGCGTGTTGGCGCTGA
1 GCTTAGACAT-GGAATGAACTCCGTATGCATAAGCCAACCCACGAAACGAGCGTGCAGGCGCTGA
* * * * * *
28937378 GCTGGCCGAAGAGGCATAATGCGGAAGTCGGGGATCGACCCGGTCCCTCTCTGCATGCTG-CTGA
65 GCCGGTCGAAGAGGCAGAATGCGCAAGCCGGGGATCGACCCGGTCCC-CCCTGCATGCTGTC-GA
* *
28937442 TCCTGCTGCCACAACCCTCGA-TCTG-GCTAGG
128 TCCTACTGCCACAACCCTCGATTC-GAGCT-GA
* * * * * * *
28937473 GCTTAGACATGGAATGAACTCCCTATGCATAAGCCAACCCATGAAACGGGCATACGGGCACTCG-
1 GCTTAGACATGGAATGAACTCCGTATGCATAAGCCAACCCACGAAACGAGCGTGCAGGCGCT-GA
*
28937537 GCCGGTCGAAGAGGCAGAATGCGTAAGCCGGGGATCGACCCGGTCCCCCCTGC
65 GCCGGTCGAAGAGGCAGAATGCGCAAGCCGGGGATCGACCCGGTCCCCCCTGC
28937590 GTGTTGCCGA
Statistics
Matches: 225, Mismatches: 44, Indels: 14
0.80 0.16 0.05
Matches are distributed among these distances:
157 1 0.00
158 102 0.45
159 120 0.53
160 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.29, T:0.19
Consensus pattern (158 bp):
GCTTAGACATGGAATGAACTCCGTATGCATAAGCCAACCCACGAAACGAGCGTGCAGGCGCTGAG
CCGGTCGAAGAGGCAGAATGCGCAAGCCGGGGATCGACCCGGTCCCCCCTGCATGCTGTCGATCC
TACTGCCACAACCCTCGATTCGAGCTGA
Found at i:28939555 original size:159 final size:157
Alignment explanation
Indices: 28939009--28939584 Score: 500
Period size: 159 Copynumber: 3.6 Consensus size: 157
28938999 AAAGAATCCT
* * * * *
28939009 CGGTCCCCCCTGCGTGCTGTCGATCCTACTAG-CACAACCCTCGGTCCAGTTCGATCTTAGACTA
1 CGGTCCCCCCTACGTGCTGTCGATCCCACT-GCCACAACCCTCGATCCAGCTCGAGCTTAGACTA
* * * * * * *
28939073 GGAATGAACTCCGTATGCATAAGTCAACCCATGAAATGAGTGTGTGGGCGCTGAGCC-AGCCGAA
65 GGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGAGCGTGTGGGCGCTGAGCCGA-CTGAA
* * *
28939137 GAGGCATAATGCGCAAGCCTGGGATCAGCC
129 GAGGCATAAT-CGCAAGTCGGGGATCGGCC
* * ** * * ** * *
28939167 TGGTCCCCCTCTACATGCTACCGGTCCCACTGCCACAACCCTCTATCTGGCTAGGGCTTAGAC-A
1 CGGTCCCCC-CTACGTGCTGTCGATCCCACTGCCACAACCCTCGATCCAGCTCGAGCTTAGACTA
* * * * * * *
28939231 TGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAATGAGCGTGCGGGTGCT-CGCTGGCTGGA
65 -GGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGAGCGTGTGGGCGCTGAGCCGACTGAA
* * *
28939295 GTGGCAGAATCGTAAGTCGGGGATCGGCC
129 GAGGCATAATCGCAAGTCGGGGATCGGCC
* * * ** * * * * * * * *
28939324 CGGTCCCCCATGCGTGCTGTCAATCCTGCTACCGCAACCCTCGGT-CTGATCCAATCTTAGACTG
1 CGGTCCCCCCTACGTGCTGTCGATCCCACTGCCACAACCCTCGATCCAGCT-CGAGCTTAGACTA
* * * * * *
28939388 GGAATGAACTCCGTATGCCTAAGTCAACCCACAAAACAAGCGTGTGGGCACTGAGCCGATTGAAG
65 GGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGAGCGTGTGGGCGCTGAGCCGACTGAAG
28939453 AGGCATAATCCGCAAGTCGGGGATCGGCC
130 AGGCATAAT-CGCAAGTCGGGGATCGGCC
* * *
28939482 CAGTCCCCCTCTACGTGCTG-CTGATCCCACTGCCACAACCCTCGATCCAGCTGGGGCTTAGAC-
1 CGGTCCCCC-CTACGTGCTGTC-GATCCCACTGCCACAACCCTCGATCCAGCTCGAGCTTAGACT
28939545 ATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACG
64 A-GGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACG
28939585 GGTGTACGGG
Statistics
Matches: 315, Mismatches: 91, Indels: 23
0.73 0.21 0.05
Matches are distributed among these distances:
155 2 0.01
156 74 0.23
157 37 0.12
158 50 0.16
159 149 0.47
160 3 0.01
ACGTcount: A:0.23, C:0.32, G:0.25, T:0.20
Consensus pattern (157 bp):
CGGTCCCCCCTACGTGCTGTCGATCCCACTGCCACAACCCTCGATCCAGCTCGAGCTTAGACTAG
GAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGAGCGTGTGGGCGCTGAGCCGACTGAAGA
GGCATAATCGCAAGTCGGGGATCGGCC
Found at i:28939581 original size:315 final size:320
Alignment explanation
Indices: 28939009--28939730 Score: 902
Period size: 315 Copynumber: 2.3 Consensus size: 320
28938999 AAAGAATCCT
* * * * *
28939009 CGGTCCCCCCTGCGTGCTGTCGATCCTACTAGCACAACCCTCGGTC-CAGTTCGATCTTAGACTA
1 CGGTCCCCCCTGCGTGCTGTCGATCCTGCTACCGCAACCCTCGGTCTGA-TCCGATCTTAGACTA
** ** * *
28939073 GGAATGAACTCCGTATGCATAAGTCAACCCATGAAATGAGTGTGTGGGCGCTGAGCCAGCCGAAG
65 GGAATGAACTCCGTATGCATAAGTCAACCCACAAAACAAGCGTGTGGGCACTGAGCCAGCCGAAG
* * ** *
28939138 AGGCATAATGCGCAAGCCTGGGATCAGCCTGGTCCCCCTCTACATGCTACCGGTCCCACTGCCAC
130 AGGCATAATCCGCAAGCCGGGGATCAGCCCAGTCCCCCTCTACATGCTACCGATCCCACTGCCAC
* **
28939203 AACCCTCTATCTGGCTAGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAA
195 AACCCTCGATCCAGCTAGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAA
* * * * * * *
28939268 -TG-A-GCGTGCGGGTGCTC-G-CTGGCTGGAGTGGCAGAAT-CGTAAGTCGGGGATCGGCC
260 GTGTAGGCGTACGGGCGCTCAGTCAGGC-GGAGAGGCAGAATGCGCAAGTCAGGGATCGACC
* * * *
28939324 CGGTCCCCCATGCGTGCTGTCAATCCTGCTACCGCAACCCTCGGTCTGATCCAATCTTAGACTGG
1 CGGTCCCCCCTGCGTGCTGTCGATCCTGCTACCGCAACCCTCGGTCTGATCCGATCTTAGACTAG
* **
28939389 GAATGAACTCCGTATGCCTAAGTCAACCCACAAAACAAGCGTGTGGGCACTGAGCC-GATTGAAG
66 GAATGAACTCCGTATGCATAAGTCAACCCACAAAACAAGCGTGTGGGCACTGAGCCAG-CCGAAG
* * * * *
28939453 AGGCATAATCCGCAAGTCGGGGATCGGCCCAGTCCCCCTCTACGTGCTGCTGATCCCACTGCCAC
130 AGGCATAATCCGCAAGCCGGGGATCAGCCCAGTCCCCCTCTACATGCTACCGATCCCACTGCCAC
*
28939518 AACCCTCGATCCAGCTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAA
195 AACCCTCGATCCAGCTAGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAA
*
28939583 CGGGTGTACGGGCGTACGGGCGCTCAGTCAGTCGGAGAGGCAGAATGCGCAAGTCAGGGATCGAC
260 ---GTGTA--GGCGTACGGGCGCTCAGTCAGGCGGAGAGGCAGAATGCGCAAGTCAGGGATCGAC
28939648 C
320 C
* * ** * *
28939649 TGGTCCCCCCTGCGTGCTGTCGATCCTGCTACCGAAAAACTCGGTCTGGTCCGATCCTAGACTAG
1 CGGTCCCCCCTGCGTGCTGTCGATCCTGCTACCGCAACCCTCGGTCTGATCCGATCTTAGACTAG
28939714 GAATGAACTCCGTATGC
66 GAATGAACTCCGTATGC
28939731 TTAGACTGGG
Statistics
Matches: 344, Mismatches: 50, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
314 1 0.00
315 223 0.65
316 1 0.00
319 2 0.01
320 1 0.00
323 12 0.03
324 13 0.04
325 91 0.26
ACGTcount: A:0.23, C:0.31, G:0.26, T:0.20
Consensus pattern (320 bp):
CGGTCCCCCCTGCGTGCTGTCGATCCTGCTACCGCAACCCTCGGTCTGATCCGATCTTAGACTAG
GAATGAACTCCGTATGCATAAGTCAACCCACAAAACAAGCGTGTGGGCACTGAGCCAGCCGAAGA
GGCATAATCCGCAAGCCGGGGATCAGCCCAGTCCCCCTCTACATGCTACCGATCCCACTGCCACA
ACCCTCGATCCAGCTAGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAAG
TGTAGGCGTACGGGCGCTCAGTCAGGCGGAGAGGCAGAATGCGCAAGTCAGGGATCGACC
Found at i:28939735 original size:26 final size:26
Alignment explanation
Indices: 28939706--28939756 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
28939696 GGTCCGATCC
*
28939706 TAGACTAGGAATGAACTCCGTATGCT
1 TAGACTAGGAATGAACTCCATATGCT
* *
28939732 TAGACTGGGGATGAACTCCATATGC
1 TAGACTAGGAATGAACTCCATATGC
28939757 CTAAGTCAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (26 bp):
TAGACTAGGAATGAACTCCATATGCT
Found at i:28940474 original size:26 final size:26
Alignment explanation
Indices: 28940424--28940476 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
28940414 GGCTCAAACT
*
28940424 CTTAGACTGGGAATGAACGTGGTATG
1 CTTAGACTGGGAATGAACGTCGTATG
28940450 CTTAGACAT-GGAATGAAC-TCCGTATG
1 CTTAGAC-TGGGAATGAACGT-CGTATG
28940476 C
1 C
28940477 CTAAGCTAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 1 0.04
26 22 0.92
27 1 0.04
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACGTCGTATG
Found at i:28940818 original size:212 final size:213
Alignment explanation
Indices: 28940449--28940847 Score: 548
Period size: 212 Copynumber: 1.9 Consensus size: 213
28940439 AACGTGGTAT
* * * *
28940449 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCTAACCCACGAAACGAGCGTACGGGTGCTCAG
1 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGAGCATACGGGCGCTCAG
* *
28940514 CCGACTGGAGAGGTAGAATGCGCAAGCCGGGGATCGACCCAGTCCCCCCTATGTGCTATCAATCC
66 CCGACTGGAGAGGCAGAATGCGCAAGCCGGGGATCGACCCAGTCCCCCCTATGTGCTACCAATCC
** * *
28940579 TGTTATTGTAACCCTCAGTCTGGTCCGATCTTAGACT-GGGAATGAACTCCGTATGCATAAGTCA
131 TACTACTGTAACCCTCAGTCCGGTCCGATCTTAGACTGGGGAATGAACTCCGTATGCATAAGTCA
28940643 ACCCTCCGTCTGGCTGGG
196 ACCCTCCGTCTGGCTGGG
* * *
28940661 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGGGCATGCGGGCGCTCTG
1 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGAGCATACGGGCGCTCAG
* ** * * * ** * * * *
28940726 TCGGTTGGAGAGGCAGAATGCGCAAGTCGGGGATTGGCCTGGTCCCCCTTGTGTGCTGCCGATCC
66 CCGACTGGAGAGGCAGAATGCGCAAGCCGGGGATCGACCCAGTCCCCCCTATGTGCTACCAATCC
* *
28940791 TACTGCTGTAACCCTCGGTCCGGTCCGATCTTAGACTGGGGAATGAACTCCGTATGC
131 TACTACTGTAACCCTCAGTCCGGTCCGATCTTAGACTGGGGAATGAACTCCGTATGC
28940848 TGAGACTGGG
Statistics
Matches: 159, Mismatches: 27, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
212 140 0.88
213 19 0.12
ACGTcount: A:0.22, C:0.28, G:0.28, T:0.22
Consensus pattern (213 bp):
GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGAGCATACGGGCGCTCAG
CCGACTGGAGAGGCAGAATGCGCAAGCCGGGGATCGACCCAGTCCCCCCTATGTGCTACCAATCC
TACTACTGTAACCCTCAGTCCGGTCCGATCTTAGACTGGGGAATGAACTCCGTATGCATAAGTCA
ACCCTCCGTCTGGCTGGG
Found at i:28940868 original size:26 final size:27
Alignment explanation
Indices: 28940823--28940873 Score: 95
Period size: 26 Copynumber: 1.9 Consensus size: 27
28940813 GTCCGATCTT
28940823 AGACTGGGGAATGAACTCCGTATGCTG
1 AGACTGGGGAATGAACTCCGTATGCTG
28940850 AGACTGGGG-ATGAACTCCGTATGC
1 AGACTGGGGAATGAACTCCGTATGC
28940874 CTAAGTCAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.25, C:0.20, G:0.33, T:0.22
Consensus pattern (27 bp):
AGACTGGGGAATGAACTCCGTATGCTG
Found at i:28942502 original size:26 final size:26
Alignment explanation
Indices: 28942465--28942516 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28942455 GCTCAAAATA
28942465 TTAGACTGGGAATGAACTCCGTATGC
1 TTAGACTGGGAATGAACTCCGTATGC
*
28942491 TTAGACAT-GGAATGAACTCTGTATGC
1 TTAGAC-TGGGAATGAACTCCGTATGC
28942517 CTAAGGTAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 23 0.96
27 1 0.04
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (26 bp):
TTAGACTGGGAATGAACTCCGTATGC
Found at i:28942833 original size:159 final size:158
Alignment explanation
Indices: 28942489--28942949 Score: 419
Period size: 159 Copynumber: 2.9 Consensus size: 158
28942479 AACTCCGTAT
* * * * * *
28942489 GCTTAGACATGGAATGAACTCTGTATGCCTAAGGTAACCCACGAAATGAGTGTGTGGGCGCTCAG
1 GCTTAGACATGGAATGAACTCTGTATGCCTAAGCTAACCCATGAAACGAGCGTGCGGGCACTCAG
* *
28942554 CAGGCCAGAGAGGTAGAATGCGCAAGCCAGGGATCGACCCGGTCCCCCTTGCGTGCTATCGATCC
66 CAGGCCAGAGAGGTAGAATGCGCAAGCCAGGGATCGACCCGGACCCCCTTACGTGCTATCGATCC
* ** * *
28942619 TGCTGCCGTAACCCTCAGTCCGGTCCAA
131 CGCTGCCACAACCCTCAGTCAGCTCCAA
* * * * * *
28942647 TCTTAGAC-TGGGAATGAACTCCGTATGCATAAGTTAACCCATGAAACGAGCGTGCGGGCATTGA
1 GCTTAGACAT-GGAATGAACTCTGTATGCCTAAGCTAACCCATGAAACGAGCGTGCGGGCACTCA
* * * * *
28942711 GCCGGCC-GAAGAGGTATAATGCGCAAGTCGGGGATCGACCCGGACCCCCTCTACGTGCTATCGG
65 GCAGGCCAG-AGAGGTAGAATGCGCAAGCCAGGGATCGACCCGGACCCCCT-TACGTGCTATCGA
* ***
28942775 TCCCGCTGCCACAACCCTCGATTCAGCT-GGG
128 TCCCGCTGCCACAACCCTC-AGTCAGCTCCAA
* * * * ** *
28942806 GCTTAGACATCGAATGAACTCTTTATGCCTAAGCCAACCCATGAAACGAGCGTTCGGGTGCTCAA
1 GCTTAGACATGGAATGAACTCTGTATGCCTAAGCTAACCCATGAAACGAGCGTGCGGGCACTCAG
* * * * ** * * * *
28942871 CCGGCAAGAGAGGCAGAATGCGTAAATCAGGGATCGGCCCGG-TCCCC-TGCGTGCTGTCGATCC
66 CAGGCCAGAGAGGTAGAATGCGCAAGCCAGGGATCGACCCGGACCCCCTTACGTGCTATCGATCC
** *
28942934 TACTGCCTCAACCCTC
131 CGCTGCCACAACCCTC
28942950 GGTCCGATCC
Statistics
Matches: 243, Mismatches: 54, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
156 26 0.11
157 2 0.01
158 98 0.40
159 110 0.45
160 7 0.03
ACGTcount: A:0.24, C:0.29, G:0.27, T:0.20
Consensus pattern (158 bp):
GCTTAGACATGGAATGAACTCTGTATGCCTAAGCTAACCCATGAAACGAGCGTGCGGGCACTCAG
CAGGCCAGAGAGGTAGAATGCGCAAGCCAGGGATCGACCCGGACCCCCTTACGTGCTATCGATCC
CGCTGCCACAACCCTCAGTCAGCTCCAA
Found at i:28942992 original size:26 final size:26
Alignment explanation
Indices: 28942963--28943015 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
28942953 CCGATCCCAT
*
28942963 CTTAGATTGGGAATGAACTCCATATG
1 CTTAGACTGGGAATGAACTCCATATG
*
28942989 CTTAGACTGGGGATGAACTCCATATG
1 CTTAGACTGGGAATGAACTCCATATG
28943015 C
1 C
28943016 CTAAGTCTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCATATG
Found at i:28943292 original size:12 final size:12
Alignment explanation
Indices: 28943275--28943305 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
28943265 ATCCCCCCTG
28943275 CCTGCTGCCGGT
1 CCTGCTGCCGGT
*
28943287 CCTGCTGCTGGT
1 CCTGCTGCCGGT
28943299 CCTGCTG
1 CCTGCTG
28943306 TCACAACCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.39, G:0.32, T:0.29
Consensus pattern (12 bp):
CCTGCTGCCGGT
Found at i:28943368 original size:26 final size:26
Alignment explanation
Indices: 28943330--28943382 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
28943320 CCGATTCATT
28943330 CTTAGACTAGGAATGAACTCTGTATG
1 CTTAGACTAGGAATGAACTCTGTATG
28943356 CTTAGAC-ATGGAATGAACTCTGTATG
1 CTTAGACTA-GGAATGAACTCTGTATG
28943382 C
1 C
28943383 CTAAGGCAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (26 bp):
CTTAGACTAGGAATGAACTCTGTATG
Found at i:28943861 original size:26 final size:26
Alignment explanation
Indices: 28943832--28943884 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28943822 CCAGTCTGAT
28943832 CTTAGACT-GGGAATGAACTCCATATG
1 CTTAGACTAGGG-ATGAACTCCATATG
*
28943858 CTTAGACTAGGGATGAACTCCGTATG
1 CTTAGACTAGGGATGAACTCCATATG
28943884 C
1 C
28943885 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (26 bp):
CTTAGACTAGGGATGAACTCCATATG
Found at i:28944144 original size:869 final size:858
Alignment explanation
Indices: 28942465--28944743 Score: 2423
Period size: 869 Copynumber: 2.7 Consensus size: 858
28942455 GCTCAAAATA
* *
28942465 TTAGACTGGGAATGAACTCCGTATGCTTAGACATGGAATGAACTCTGTATGCCTAAGGTAACCCA
1 TTAGACTGGGAATGAACTCTGTATGCTTAGACATGGAATGAACTCTGTATGCCTAAGGCAACCCA
* * * * * * * * *
28942530 CGAAATGAGTGTGTGGGCGC-TCAGCAGGCCAGAGAGGTAGAATGCGCAAGCCAGGGATCGACCC
66 TGAAACGAGCGTGCGGGCGCTTAACCA-GTCGGAGAGGCAGAATGCGCAAGCCAGGGATCGACCC
* * * * *
28942594 GGTCCCCCTTGCGTGCTATCGATCCTGCTGCCGTAACCCTCAGTCCGGTCCAATCTTAGACTGGG
130 GGTCCCCCCTGCGTGCTATCGATCCTGCTGCCGCAACCCTCGGTTCGGTCCGATCTTAGACTGGG
* * * * * * *
28942659 AATGAACTCCGTATGCATAAGTTAACCCATGAAACGAGCGTGCGGGCATTGAGCCGGCCGAAGAG
195 AATGAACTCCGTATGCCTAAGTCAACCCACGAAATGAGCGTGCGGGCGTTGAGCCTG-CGCA-AG
* * * * * * * *
28942724 GTATAATGCGCAAGTCGGGGATCGACCCGGACCCCCTCTACGTGCTATCGGTCCCGCTGCCACAA
258 GTGTAATGCGCAAG-CGGGGATCGGCCCGGTCCTCATCT-C-TGTTGTCGGTCCCGCTGCCATAA
* * * ** *
28942789 CCCTCGATTCAGCTGGGGCTTAGACATCGAATGAACTCTTTATGCCTAAGCCAACCCATGAAACG
320 CCCTCG-TCCGGCTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACG
** * * *
28942854 AGCGTTCGGGTGCTCAACCGGCAAGAGAGGCAGAATGCGTAAATCAGGGATCGGCCCGGT-CCCC
384 AGCGTT-GGGTGCTCAACCGGCCGGAGAGGCAGAATGCGTAAGTCAGGGATCGGCTCGATCCCCC
* * * *
28942918 -TGCGTGCTGTCGATCCTACTGCC-TCAACCCTCGGTCCGATCCCATCTTAGATTGGGAATGAAC
448 TTGCGTGCTATCGATCCTGCTGCCGT-AACCCTCGGTCCG-TCCGATCTTAGACTGGGAATGAAC
* * * *
28942981 TCCATATGCTTAGACTGGGGATGAACTCCATATGCCTAAGTCTACCCATGAAACAAGGGTACGGG
511 TCCATATGCTTAGACT-GGGATGAACTCCGTATGCCTAAGTCAACCCATCAAACAAGCGTACGGG
* * * * **
28943046 CGCTCAGTCGGCCGGAGAGGCATAATGTGTAAGCCGGGGATCAGCTTGGACCCCCTCTGCATGCT
575 CGCTCAGCCGGCCGAAGAGGCATAATGTGCAAGCCGAGGATCAGCTCCGACCCCCTCTGCATGCT
* * * * * * * *
28943111 GTCGATCCCGCTTCTGTTCCTGCTACCACAACCCTTGGTCTGGCTGGGGCTTAGACATGGAATGA
640 GCCGATCCCGCTACCGGTCCTGCTACCACAACCCTCGGTCTGACTGGGGCTTACACATGGAATCA
* * * *
28943176 ACTCCGTATGCCTAAGCCAACCCATAAAACAAGCGTACGGGCGCTCAACCGACCGAAGAGGTAGA
705 ACTCCGCATGCCTAAGCCAACCCACAAAACAAGCG-ACAGGCGCTCAACCGACCGAAGAGGCAGA
* * *
28943241 ATGCACAAGCCAGGGATCGACTCGATCCCCCCTGCCTGCTGCCGGTCCTGCTGCTGGTCCTGCTG
769 ATGCACAAGCCAGGGATCGACCCGATCCCCCCTGCCTGCTGCCGATCCTGCTGCTAGTCCTGCTG
*
28943306 TCACAACCCTCAATCCGAT-TCATTC
834 CCACAACCCTCAATCCGATCTCA-TC
*
28943331 TTAGACTAGGAATGAACTCTGTATGCTTAGACATGGAATGAACTCTGTATGCCTAAGGCAACCCA
1 TTAGACTGGGAATGAACTCTGTATGCTTAGACATGGAATGAACTCTGTATGCCTAAGGCAACCCA
* * * * * * * *
28943396 TGAAACGAGCATGCGAGCGCTTAACCAGTCGGAGAGGCACAATGTGCAAGCCAAGGATCGGCTCA
66 TGAAACGAGCGTGCGGGCGCTTAACCAGTCGGAGAGGCAGAATGCGCAAGCCAGGGATCGACCCG
* * * * * * *
28943461 ATCCCCCCCTGCGTGCTGTCGATCCTGCTGTCACAACCCTTGGTTCGGTCTGATCTTAGACTGGA
131 GT-CCCCCCTGCGTGCTATCGATCCTGCTGCCGCAACCCTCGGTTCGGTCCGATCTTAGACTGGG
* * * *
28943526 AATGATCTCTGTATGCCTAAGTCAACCCACGAAATGAGCGTACGGGCGCTGAGCCTGCTGGCAAG
195 AATGAACTCCGTATGCCTAAGTCAACCCACGAAATGAGCGTGCGGGCGTTGAGCCTGC--GCAAG
28943591 GTGTAATGCGCAAGCCGGGGATCGGCCCGGTCCTCATCTGCATGTTGTCGGTCCCGCTGCCATAA
258 GTGTAATGCGCAAG-CGGGGATCGGCCCGGTCCTCATCT-C-TGTTGTCGGTCCCGCTGCCATAA
* * *
28943656 CCCTCAGTCCGGTTGGGGCATAGACATGGAATGAACTCGCTATGCCTAAGCCAACCCACGAAACG
320 CCCTC-GTCCGGCTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACG
* * *** * * *
28943721 TGCGTGTGGGCGCTCAGTAGACCGGAGAGGCAGAATGCGCAAGTCGGGGATCGGCTCGATCCCCC
384 AGCGT-TGGGTGCTCAACCGGCCGGAGAGGCAGAATGCGTAAGTCAGGGATCGGCTCGATCCCCC
* * *
28943786 TTGCGTGCTATCGATCCTGCTACCGTAACCCTCGATCCAGTCTGATCTTAGACTGGGAATGAACT
448 TTGCGTGCTATCGATCCTGCTGCCGTAACCCTCGGTCC-GTCCGATCTTAGACTGGGAATGAACT
** **
28943851 CCATATGCTTAGACTAGGGATGAACTCCGTATGCCTAAGTCAACCCA-CAAATTGAGCGTGTGGG
512 CCATATGCTTAGACT-GGGATGAACTCCGTATGCCTAAGTCAACCCATCAAA-CAAGCGTACGGG
* * * *
28943915 CGCTCAGCCGGTCGAAGAGGCATAATGTGCCA-CCTGAGGATC-GAC-CCGATCCCCTTCTGCGT
575 CGCTCAGCCGGCCGAAGAGGCATAATGTGCAAGCC-GAGGATCAG-CTCCGA-CCCCCTCTGCAT
28943977 GCTGCCGATCCCGCTACCGGTCCTGCTACCACAACCCTCGGT-TCGACTGGGGCTTACACATGGA
637 GCTGCCGATCCCGCTACCGGTCCTGCTACCACAACCCTCGGTCT-GACTGGGGCTTACACATGGA
* * *
28944041 ATCAACTCCGCATGCCTAAGCCAACCCACAAAACGAATG-G-CAGGCGCTCAATCGATCGGAGAG
701 ATCAACTCCGCATGCCTAAGCCAACCCACAAAAC-AA-GCGACAGGCGCTCAACCGACCGAAGAG
** ** * * * * *
28944104 GCAGAATGTGCAAGCTGGGGATCGGCCCGGTCCACCCCTGCGTGCTGTCGATCTTGCTGCTAGTC
764 GCAGAATGCACAAGCCAGGGATCGACCCGATCC-CCCCTGCCTGCTGCCGATCCTGCTGCTAGTC
** * * * *
28944169 CTGCTGCCGTAACCCTCAGTTCGGTCTGATC
828 CTGCTGCCACAACCCTCAATCCGATCTCATC
* * * *
28944200 TTCGATTGGGAATGAACT-TCGTATGCTTAGACATGGAATGAACTCTGTATGCCTACGCCAACCC
1 TTAGACTGGGAATGAACTCT-GTATGCTTAGACATGGAATGAACTCTGTATGCCTAAGGCAACCC
* * * * * * * *
28944264 GTGAAACGAACGTGCGGGCGCTCAACC-GATAGGAGAGGCAGAATGCGTAAGTCGGGGATCAACC
65 ATGAAACGAGCGTGCGGGCGCTTAACCAG-TCGGAGAGGCAGAATGCGCAAGCCAGGGATCGACC
* *
28944328 CGGTCCCCCCTGCGTGCTATCGATCCTGTTGCCGCAACCCTCGG-TCTGATCCGATCTTAGACTG
129 CGGTCCCCCCTGCGTGCTATCGATCCTGCTGCCGCAACCCTCGGTTC-GGTCCGATCTTAGACTG
* * *
28944392 GGAATGAACTCCGTATGCCTAAATCAACCCACGAAATGAGTGTGCCGGCGTTGAGCCTGC-C-A-
193 GGAATGAACTCCGTATGCCTAAGTCAACCCACGAAATGAGCGTGCGGGCGTTGAGCCTGCGCAAG
* * * * * *
28944454 GAG--A-G-GCATA------ATAC-GCCC--T-CT-A-C-CTATTGCCGATCCCGCTACCATAAA
258 GTGTAATGCGCA-AGCGGGGAT-CGGCCCGGTCCTCATCTCTGTTGTCGGTCCCGCTGCCATAAC
*
28944502 CCTCGGTCCGGCTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGG
321 CCTC-GTCCGGCTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGA
* * * * *
28944567 GCGTACGGTTGCTCAACCGGCCGGAGAGGCAGAATACGTAAGCCAGGGATCGGCTTGATCCCCCT
385 GCGT-TGGGTGCTCAACCGGCCGGAGAGGCAGAATGCGTAAGTCAGGGATCGGCTCGATCCCCCT
* * ** * * *
28944632 TACGTGCTACCGATCCTGCTGTTGCAACCCTCGGTCCGGTCCGATCTTAGACTGGGAATGCACTT
449 TGCGTGCTATCGATCCTGCTGCCGTAACCCTCGGTCC-GTCCGATCTTAGACTGGGAATGAACTC
* *
28944697 CGTATGCTTAGACTGGGAATGAACTTCGTATGCCTAAGTCAACCCAT
513 CATATGCTTAGACTGGG-ATGAACTCCGTATGCCTAAGTCAACCCAT
28944744 GAAATGAGTG
Statistics
Matches: 1178, Mismatches: 209, Indels: 72
0.81 0.14 0.05
Matches are distributed among these distances:
844 3 0.00
845 225 0.19
846 1 0.00
848 1 0.00
849 1 0.00
850 2 0.00
851 1 0.00
853 6 0.01
854 1 0.00
859 3 0.00
860 2 0.00
861 1 0.00
863 2 0.00
864 1 0.00
865 1 0.00
866 107 0.09
867 260 0.22
868 165 0.14
869 387 0.33
870 7 0.01
871 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.21
Consensus pattern (858 bp):
TTAGACTGGGAATGAACTCTGTATGCTTAGACATGGAATGAACTCTGTATGCCTAAGGCAACCCA
TGAAACGAGCGTGCGGGCGCTTAACCAGTCGGAGAGGCAGAATGCGCAAGCCAGGGATCGACCCG
GTCCCCCCTGCGTGCTATCGATCCTGCTGCCGCAACCCTCGGTTCGGTCCGATCTTAGACTGGGA
ATGAACTCCGTATGCCTAAGTCAACCCACGAAATGAGCGTGCGGGCGTTGAGCCTGCGCAAGGTG
TAATGCGCAAGCGGGGATCGGCCCGGTCCTCATCTCTGTTGTCGGTCCCGCTGCCATAACCCTCG
TCCGGCTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGAGCGTTG
GGTGCTCAACCGGCCGGAGAGGCAGAATGCGTAAGTCAGGGATCGGCTCGATCCCCCTTGCGTGC
TATCGATCCTGCTGCCGTAACCCTCGGTCCGTCCGATCTTAGACTGGGAATGAACTCCATATGCT
TAGACTGGGATGAACTCCGTATGCCTAAGTCAACCCATCAAACAAGCGTACGGGCGCTCAGCCGG
CCGAAGAGGCATAATGTGCAAGCCGAGGATCAGCTCCGACCCCCTCTGCATGCTGCCGATCCCGC
TACCGGTCCTGCTACCACAACCCTCGGTCTGACTGGGGCTTACACATGGAATCAACTCCGCATGC
CTAAGCCAACCCACAAAACAAGCGACAGGCGCTCAACCGACCGAAGAGGCAGAATGCACAAGCCA
GGGATCGACCCGATCCCCCCTGCCTGCTGCCGATCCTGCTGCTAGTCCTGCTGCCACAACCCTCA
ATCCGATCTCATC
Found at i:28944713 original size:26 final size:26
Alignment explanation
Indices: 28944677--28944729 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
28944667 CCGGTCCGAT
*
28944677 CTTAGACTGGGAATGCACTTCGTATG
1 CTTAGACTGGGAATGAACTTCGTATG
28944703 CTTAGACTGGGAATGAACTTCGTATG
1 CTTAGACTGGGAATGAACTTCGTATG
28944729 C
1 C
28944730 CTAAGTCAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTTCGTATG
Found at i:28945058 original size:158 final size:159
Alignment explanation
Indices: 28944703--28945363 Score: 629
Period size: 159 Copynumber: 4.2 Consensus size: 159
28944693 ACTTCGTATG
* * * * * *
28944703 CTTAGACTGGGAATGAACTTCGTATGCCTAAGTCAACCCATGAAATGAGTGTGCGAGCATTGAGC
1 CTTAGACAGGGAATGAACTCCCTATGCCTAAGTCAACCCATGAAATGAGCGTGCGGGCACTGAGC
* * * * * * * * * *
28944768 CGGCCAGAGAGGCATAATGCGCAAGCTGGGGATTGGCACGGTCCCCCTCTACCTGCTGCCTATCC
66 CGACCGGAGAGGCAGAATGTGCAAGCCGGGGATCGGCCCGATCCCCCTCTACGTGCTGCCGATCC
* * * * **
28944833 CGCTGCCACAACCCTCGGTCTG-GCTGGGG
131 TGCTGCCACAACCCTCGATCCGATC-GGAT
* * * *
28944862 CTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAATGAGCTTGCGGGCGCTGAGC
1 CTTAGACAGGGAATGAACTCCCTATGCCTAAGTCAACCCATGAAATGAGCGTGCGGGCACTGAGC
* * *
28944927 CGATCGGAGAGGCAGAATGTGCAAGCCGGGGATCGGCCCGATCCCCC-CTACGTGCTGTCAATCC
66 CGACCGGAGAGGCAGAATGTGCAAGCCGGGGATCGGCCCGATCCCCCTCTACGTGCTGCCGATCC
* ** *
28944991 TACTGTAACAACCCTCGATCCGATCCGAT
131 TGCTGCCACAACCCTCGATCCGATCGGAT
* * ** **
28945020 CTTAGACAGGGAATGAACTCCGTATGCCTATGTCAACCCATGAAATGAGCGTATGGGTGCTGAGC
1 CTTAGACAGGGAATGAACTCCCTATGCCTAAGTCAACCCATGAAATGAGCGTGCGGGCACTGAGC
* * * * * *
28945085 CGGA-CGAAGAGGCATAATGTGCAAGACGGGGATCGACCCGATCCCCCTCTACGTACTGCCGGT-
66 C-GACCGGAGAGGCAGAATGTGCAAGCCGGGGATCGGCCCGATCCCCCTCTACGTGCTGCCGATC
* *
28945148 CTCGCTGCCACAACCCTCGATCCGACTGGGGT
130 CT-GCTGCCACAACCCTCGATCCGA-TCGGAT
* * *
28945180 -TTAGACATGGAATGAACTCCCTATGCCTAAG-CAAATCCATGAAATG-GACGTGCGGGCACTCA
1 CTTAGACAGGGAATGAACTCCCTATGCCTAAGTC-AACCCATGAAATGAG-CGTGCGGGCACTGA
* * * *
28945242 GCTGACCGGAGAGGTAGAATGTGCAAGCCGGGGATCAGCCGGATCCCCCT-TACGTGCT-CTCGA
64 GCCGACCGGAGAGGCAGAATGTGCAAGCCGGGGATCGGCCCGATCCCCCTCTACGTGCTGC-CGA
** * ** * *
28945305 TCCTGCTGCTGCAACCCTCGGTATGGTCTGAT
128 TCCTGCTGCCACAACCCTCGATCCGATCGGAT
* *
28945337 CTTAGACTGGGAATGAACTCCATATGC
1 CTTAGACAGGGAATGAACTCCCTATGC
28945364 TTCGACTGGT
Statistics
Matches: 406, Mismatches: 85, Indels: 23
0.79 0.17 0.04
Matches are distributed among these distances:
157 4 0.01
158 183 0.45
159 216 0.53
160 3 0.01
ACGTcount: A:0.24, C:0.29, G:0.27, T:0.20
Consensus pattern (159 bp):
CTTAGACAGGGAATGAACTCCCTATGCCTAAGTCAACCCATGAAATGAGCGTGCGGGCACTGAGC
CGACCGGAGAGGCAGAATGTGCAAGCCGGGGATCGGCCCGATCCCCCTCTACGTGCTGCCGATCC
TGCTGCCACAACCCTCGATCCGATCGGAT
Found at i:28945289 original size:317 final size:316
Alignment explanation
Indices: 28944703--28945363 Score: 846
Period size: 317 Copynumber: 2.1 Consensus size: 316
28944693 ACTTCGTATG
* *
28944703 CTTAGACTGGGAATGAACTTCGTATGCCTAAGTCAACCCATGAAATGAGTGTGCGAGCATTGAGC
1 CTTAGACTGGGAATGAACTCCGTATGCCTAAGTCAACCCATGAAATGAGTATGCGAGCA-TGAGC
* * * * *
28944768 CGGCCAGAGAGGCATAATGCGCAAGCTGGGGATTGGCACGGTCCCCCTCTACCTGCTGCCTATCC
65 CGGCCAGAGAGGCATAATGCGCAAGCTGGGGATCGACACGATCCCCCTCTACCTACTGCCGATCC
* * * *
28944833 CGCTGCCACAACCCTCGGTCTGGCTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAA
130 CGCTGCCACAACCCTCGATCCGACTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCAAA
* * * * *
28944898 CCCATGAAATGAGCTTGCGGGCGCTGAGCCGATCGGAGAGGCAGAATGTGCAAGCCGGGGATCGG
195 CCCATGAAATGAGCGTGCGGGCACTCAGCCGACCGGAGAGGCAGAATGTGCAAGCCGGGGATCAG
* *
28944963 CCCGATCCCCCCTACGTGCTGTCAATCCTACTG-TAACAACCCTCGATCCGATCCGAT
260 CCCGATCCCCCCTACGTGCTCTCAATCCTACTGCT-ACAACCCTCGATACGATCCGAT
* * * *
28945020 CTTAGACAGGGAATGAACTCCGTATGCCTATGTCAACCCATGAAATGAGCGTATGGGTGC-TGAG
1 CTTAGACTGGGAATGAACTCCGTATGCCTAAGTCAACCCATGAAATGA--GTATGCGAGCATGAG
* * * * *
28945084 CCGGAC-GAAGAGGCATAATGTGCAAGAC-GGGGATCGACCCGATCCCCCTCTACGTACTGCCGG
64 CCGGCCAG-AGAGGCATAATGCGCAAG-CTGGGGATCGACACGATCCCCCTCTACCTACTGCCGA
* *
28945147 TCTCGCTGCCACAACCCTCGATCCGACTGGGGTTTAGACATGGAATGAACTCCCTATGCCTAAGC
127 TCCCGCTGCCACAACCCTCGATCCGACTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGC
* * *
28945212 AAATCCATGAAATG-GACGTGCGGGCACTCAGCTGACCGGAGAGGTAGAATGTGCAAGCCGGGGA
192 AAACCCATGAAATGAG-CGTGCGGGCACTCAGCCGACCGGAGAGGCAGAATGTGCAAGCCGGGGA
* * * * * * * * *
28945276 TCAGCCGGATCCCCCTTACGTGCTCTCGATCCTGCTGCTGCAACCCTCGGTATGGTCTGAT
256 TCAGCCCGATCCCCCCTACGTGCTCTCAATCCTACTGCTACAACCCTCGATACGATCCGAT
*
28945337 CTTAGACTGGGAATGAACTCCATATGC
1 CTTAGACTGGGAATGAACTCCGTATGC
28945364 TTCGACTGGT
Statistics
Matches: 295, Mismatches: 43, Indels: 12
0.84 0.12 0.03
Matches are distributed among these distances:
316 2 0.01
317 284 0.96
318 2 0.01
319 7 0.02
ACGTcount: A:0.24, C:0.29, G:0.27, T:0.20
Consensus pattern (316 bp):
CTTAGACTGGGAATGAACTCCGTATGCCTAAGTCAACCCATGAAATGAGTATGCGAGCATGAGCC
GGCCAGAGAGGCATAATGCGCAAGCTGGGGATCGACACGATCCCCCTCTACCTACTGCCGATCCC
GCTGCCACAACCCTCGATCCGACTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCAAAC
CCATGAAATGAGCGTGCGGGCACTCAGCCGACCGGAGAGGCAGAATGTGCAAGCCGGGGATCAGC
CCGATCCCCCCTACGTGCTCTCAATCCTACTGCTACAACCCTCGATACGATCCGAT
Found at i:28945699 original size:354 final size:345
Alignment explanation
Indices: 28945020--28947169 Score: 1335
Period size: 343 Copynumber: 6.2 Consensus size: 345
28945010 CCGATCCGAT
* * * * * ** * *
28945020 CTTAGACAGGGAATGAACTCCGTATGCCTATGTCAACCCATGAAATGAGCGTATGGGTGCTGAGC
1 CTTAGACTGGGGATGAACTCCGTATGCCTAAGTCAACCCACGAAACGAGCGTGCGGGCGCTCAGC
* * * *
28945085 CGGA-CGAAGAGGCATAATGTGCAAGACGG-GGATC-GACCCGATCCCCCTCTAC-GT--A-CTG
66 C-GACCGGAGAGGCATAATGCGCAAG-CGGAGGATCAG-CCCGGTCCCCCTCTGCTGTCGATCTG
* * * * *
28945143 CCGGT-CTCGCTGCCACAACCCTCGATCCGACTGGGGTTTAGACATGGAATGAACTCCCTATGCC
128 CCGATCCT-GCTACCAAAACCCTCGGTCCGACTGGGGCTTAGACATGGAATGAACTCCCTATGCC
* * * * * * * *
28945207 TAAGCAAATCCATGAAATGGACGTGCGGGCACTCAGCTGACCGGAGAGGTAGAATGTGCAAGCCG
192 TAAGCCAACCCATGAAACGG-CGTGCGGCCGCTCAGCAGACCGGAGAGGCAGAATGCGCAAGCCG
* * * * ** *
28945272 GGGATC-AGCC-GGATCCCCCTTACGTGCTCTCGATCCTGCTGCTGCAACCCTCGGTATGGTCTG
256 GGGATCGA-CCTGG-TCCCCCCTACGTGCTGTCGATCCTGCTGCCGCAACCCTC-CTCCGGTCCG
*
28945335 ATCTTAGACTGGGAATGAACTCCATATG
318 ATCTTAGACTGGGAATGAACTCCGTATG
* * * * *
28945363 CTTCGACTGGTGATGAACTCCGTATGCCTAAGTCAACCCATGAAATGAGCGTACGGGCGCTCAGC
1 CTTAGACTGGGGATGAACTCCGTATGCCTAAGTCAACCCACGAAACGAGCGTGCGGGCGCTCAGC
28945428 CGACCGGAGAGGCATAATGCGCAAGCGGAGGATCAG-CCGGTCCCTCTCTACATGCTGTCGATCC
66 CGACCGGAGAGGCATAATGCGCAAGCGGAGGATCAGCCCGGTCCC-C-CT-C-TGCTGTCGAT-C
* * *
28945492 CGCTATCGATCCTGCTACCAAAACCCTCGATCCGACTGGGGTTTAGACATGGAATGAACTCCCTA
126 TGC---CGATCCTGCTACCAAAACCCTCGGTCCGACTGGGGCTTAGACATGGAATGAACTCCCTA
* ** * **
28945557 TGCCTAAGCCAATCCACAAAACGAGCGTACGGTAGCTCAGTCAG-CCGGAGAGGCAGAATGCGCA
188 TGCCTAAGCCAACCCATGAAACG-GCGTGCGGCCGCTCAG-CAGACCGGAGAGGCAGAATGCGCA
* * * *
28945621 AGCCGGGGATCGACCTGGTCCCCCCTGCGTGGTGTCGATCTTGCTGCCGCAACCTTCACTCCGGT
251 AGCCGGGGATCGACCTGGTCCCCCCTACGTGCTGTCGATCCTGCTGCCGCAACCCTC-CTCCGGT
*
28945686 CCGATCCTAGACTGGGAATGAACTCCGTATG
315 CCGATCTTAGACTGGGAATGAACTCCGTATG
* * *
28945717 CTTAGACTGTGGATGAACTCCGAATGCCTAAGTCAACCCACGAAACGAGCGTGCGGGCGCTGAGC
1 CTTAGACTGGGGATGAACTCCGTATGCCTAAGTCAACCCACGAAACGAGCGTGCGGGCGCTCAGC
* * ** * * * *
28945782 CTG-CCGAAGAGGCATAATGCGTAAGCTGG-GGATTGGTCTGGTCCCCCTCTAC-GT-G--CTGT
66 C-GACCGGAGAGGCATAATGCGCAAGC-GGAGGATCAGCCCGGTCCCCCTCTGCTGTCGATCTGC
* *** * * * * *
28945841 CGGTCCCATTGCCACAAA-TCTCGGTCCGGCTCGAGCTTAGACATGGAATGAACTCCCTATGCCT
129 CGATCCTGCTACCA-AAACCCTCGGTCCGACTGGGGCTTAGACATGGAATGAACTCCCTATGCCT
* ** * * * *
28945905 AAGCCAACCCATGAAACGGGCGCGCGGCCGCTCAGTTGATCGGAGAGGTAGAATACGTAAGCCGG
193 AAGCCAACCCATGAAAC-GGCGTGCGGCCGCTCAGCAGACCGGAGAGGCAGAATGCGCAAGCCGG
* * * * ** * * * *
28945970 CGATCAACCCGGTCCCCCCTGCGTGCTACCGATCCTGCTGTCTCAACCCTCAGTCCGATCCGATC
257 GGATCGACCTGGTCCCCCCTACGTGCTGTCGATCCTGCTGCCGCAACCCTC-CTCCGGTCCGATC
* * *
28946035 CTAGACTGGAAATGAACTTCGTATG
321 TTAGACTGGGAATGAACTCCGTATG
* * ** *
28946060 CTTAGACTGGGGATGAACTTCGTATGCGTAAGTCAACCCATAAAACGAGCGTGCGGGTGCTCAGC
1 CTTAGACTGGGGATGAACTCCGTATGCCTAAGTCAACCCACGAAACGAGCGTGCGGGCGCTCAGC
* * * * * * * * *
28946125 TGGCTGGAGAGGCAGAATACTCAAGTC-GAGGATCTGCCTGATCCCCC-CTGCGTGCTACCGATC
66 CGACCGGAGAGGCATAATGCGCAAG-CGGAGGATCAGCCCGGTCCCCCTCTGC-TG-T--CGAT-
* ** ** * * **
28946188 CTGCTACTGGTCCTGCTGTCGCAACCCTCGGTCCGGTCCGATG-TTAGAC-TGGGAATGAACTCC
125 CTGC--C-GATCCTGCTACCAAAACCCTCGGTCC-GACTGGGGCTTAGACAT-GGAATGAACTCC
* * * **** * ** * * * *
28946251 GTATG-CTTAGACATGGAATG-AAC-TC-TGTATG-C-CTAACCA-ACCCACGAAATGAGCGCTC
185 CTATGCCTAAGCCAACCCATGAAACGGCGTG-CGGCCGCTCAGCAGA--C-CG-GA-GAG-GC-A
* * * * * *** * * **
28946309 G--GGCGCTCAGCCGACCGAAGAGGTAGA-AT-GTGCAAGCCGAGGATCGGCCTGATCCCTCCTG
242 GAATGCGC-AAGCCG---G--G-GATCGACCTGGT-CCCCCCTACG-T--G-CTG-TCGATCCTG
* * * * ** * *** *
28946370 CATGCTGTCAA---TCCTGCTG-CCG--C-AACCCTCGGTCCG-A-TCTG-AT-
294 C-TGCCG-CAACCCTCCTCCGGTCCGATCTTAGACTGGGAATGAACTCCGTATG
* * * * * *
28946413 CTTAGACTGGGAATGAACTCTGTATGCCTAAGTCAACCCACCAAACGAGCGTACGGGCGCTGAGT
1 CTTAGACTGGGGATGAACTCCGTATGCCTAAGTCAACCCACGAAACGAGCGTGCGGGCGCTCAGC
* * * * * *
28946478 CGACCGGAAAGGCATAATGCACAAGCCGAGGATCAGCCCGATTCCCCTCTGC-GT-G-T-TGCTG
66 CGACCGGAGAGGCATAATGCGCAAGCGGAGGATCAGCCCGGTCCCCCTCTGCTGTCGATCTGCCG
* * * *
28946539 GTGCC-GCTGCCACAACCCTCGGTCCGACTGGGGCTTAAACATGGAATGAACTCCCTATGCCTAA
131 AT-CCTGCTACCAAAACCCTCGGTCCGACTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAA
* * * * *
28946603 GCCAACCCATGAAACGGGCGTGCGGGCGCTCCGCCAG-CCGGAGAGTCAAAATGCGCAAGTCGGG
195 GCCAACCCATGAAAC-GGCGTGCGGCCGCTCAG-CAGACCGGAGAGGCAGAATGCGCAAGCCGGG
* * * * * * *
28946667 GATCGGCCTGGTCCCCCCAACGTGCTGTCGATCCTGCTGTCACAACCCTCGTCCAGTTCGATCTT
258 GATCGACCTGGTCCCCCCTACGTGCTGTCGATCCTGCTGCCGCAACCCTCCTCCGGTCCGATCTT
28946732 AGACTGGGAATGAACTCCGTATG
323 AGACTGGGAATGAACTCCGTATG
* * * * * * *
28946755 CTTAGACTAGGGATGAACTCCGTATGCCTAAGTCAACCCATGAAATGAGCATTCGAGCGCTGAGC
1 CTTAGACTGGGGATGAACTCCGTATGCCTAAGTCAACCCACGAAACGAGCGTGCGGGCGCTCAGC
* * *
28946820 CGACTGGAGAGGCATAATGCGCAAGCTGAGGATCAGCCCGGTCGCCCTCTGCT-T--A-CTGCCG
66 CGACCGGAGAGGCATAATGCGCAAGCGGAGGATCAGCCCGGTCCCCCTCTGCTGTCGATCTGCCG
* * * *
28946881 ATCCTACTGCCACAACCCTCGGT-CGACTGGGGCTTAGACATGGAATCAACTCCCTATGCCTAAG
131 ATCCTGCTACCAAAACCCTCGGTCCGACTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAG
*** * ** * ** * *
28946945 CCAATAAATGAAACTGGTGTGCGGGTGCTCAGCCGACTAGAGAGGCAGAATGCACAAG-CGAGGA
196 CCAACCCATGAAAC-GGCGTGCGGCCGCTCAGCAGACCGGAGAGGCAGAATGCGCAAGCCGGGGA
* * * * ** * *
28947009 TTGGCCCGGTCCCCCCTACGTACTACCGATCCTGCTGTCGCAA--C-CCT-CGATCCGATCTTAG
260 TCGACCTGGTCCCCCCTACGTGCTGTCGATCCTGCTGCCGCAACCCTCCTCCGGTCCGATCTTAG
*
28947070 ACTAGGAATGAACTCCGTATG
325 ACTGGGAATGAACTCCGTATG
* * * * *
28947091 CTTAGACTGGAGATGAACTTCGTATGCCTAAGTCAACCCACGAAATGAGCATGCGGGTGCTCAGC
1 CTTAGACTGGGGATGAACTCCGTATGCCTAAGTCAACCCACGAAACGAGCGTGCGGGCGCTCAGC
28947156 CGACCGGAGAGGCA
66 CGACCGGAGAGGCA
28947170 GAATCTACAG
Statistics
Matches: 1391, Mismatches: 315, Indels: 209
0.73 0.16 0.11
Matches are distributed among these distances:
331 3 0.00
332 2 0.00
333 8 0.01
334 8 0.01
335 3 0.00
336 101 0.07
337 7 0.01
338 14 0.01
339 3 0.00
340 47 0.03
341 89 0.06
342 183 0.13
343 360 0.26
344 19 0.01
345 6 0.00
346 8 0.01
347 8 0.01
348 7 0.01
349 6 0.00
350 6 0.00
351 10 0.01
352 11 0.01
353 111 0.08
354 308 0.22
355 23 0.02
356 2 0.00
357 7 0.01
358 5 0.00
359 4 0.00
360 3 0.00
361 3 0.00
362 4 0.00
363 7 0.01
364 2 0.00
365 3 0.00
ACGTcount: A:0.23, C:0.29, G:0.27, T:0.20
Consensus pattern (345 bp):
CTTAGACTGGGGATGAACTCCGTATGCCTAAGTCAACCCACGAAACGAGCGTGCGGGCGCTCAGC
CGACCGGAGAGGCATAATGCGCAAGCGGAGGATCAGCCCGGTCCCCCTCTGCTGTCGATCTGCCG
ATCCTGCTACCAAAACCCTCGGTCCGACTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAG
CCAACCCATGAAACGGCGTGCGGCCGCTCAGCAGACCGGAGAGGCAGAATGCGCAAGCCGGGGAT
CGACCTGGTCCCCCCTACGTGCTGTCGATCCTGCTGCCGCAACCCTCCTCCGGTCCGATCTTAGA
CTGGGAATGAACTCCGTATG
Found at i:28945724 original size:26 final size:26
Alignment explanation
Indices: 28945693--28945743 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
28945683 GGTCCGATCC
*
28945693 TAGACTG-GGAATGAACTCCGTATGCT
1 TAGACTGTGG-ATGAACTCCGAATGCT
28945719 TAGACTGTGGATGAACTCCGAATGC
1 TAGACTGTGGATGAACTCCGAATGC
28945744 CTAAGTCAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (26 bp):
TAGACTGTGGATGAACTCCGAATGCT
Found at i:28946075 original size:26 final size:26
Alignment explanation
Indices: 28946036--28946086 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
28946026 GATCCGATCC
28946036 TAGACTGGAAATGAACTTCGTATGCT
1 TAGACTGGAAATGAACTTCGTATGCT
**
28946062 TAGACTGGGGATGAACTTCGTATGC
1 TAGACTGGAAATGAACTTCGTATGC
28946087 GTAAGTCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (26 bp):
TAGACTGGAAATGAACTTCGTATGCT
Found at i:28946260 original size:26 final size:26
Alignment explanation
Indices: 28946224--28946282 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
28946214 CTCGGTCCGG
28946224 TCCG-ATG-TTAGAC-TGGGAATGAAC
1 TCCGTATGCTTAGACAT-GGAATGAAC
28946248 TCCGTATGCTTAGACATGGAATGAAC
1 TCCGTATGCTTAGACATGGAATGAAC
*
28946274 TCTGTATGC
1 TCCGTATGC
28946283 CTAACCAACC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 4 0.13
25 3 0.10
26 23 0.74
27 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (26 bp):
TCCGTATGCTTAGACATGGAATGAAC
Found at i:28946601 original size:159 final size:157
Alignment explanation
Indices: 28946255--28946755 Score: 430
Period size: 159 Copynumber: 3.2 Consensus size: 157
28946245 AACTCCGTAT
*
28946255 GCTTAGACATGGAATGAACTCTGTATGCCTAA-CCAACCCACGAAATGAGCGCTCGGGCGCTCAG
1 GCTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCACGAAACGAGCG-TCGGGCGCTCAG
* ** * *
28946319 CCGACCGAAGAGGTAGAATGTGCAAGCCGAGGATCGGCCTGATCCCTCCTGCATGCTGTCAATCC
65 CCGACCGAAGAGGCAGAATGCACAAGCCGAGGATCAGCCCGATCCCTCCTGCATGCTGTCAATCC
*
28946384 TGCTGCCGCAACCCTCGGTCCGATCTGA
130 TGCTGCCACAACCCTCGGTCCGATCTGA
* * * *
28946412 TCTTAGAC-TGGGAATGAACTCTGTATGCCTAAGTCAACCCACCAAACGAGCGTACGGGCGCTGA
1 GCTTAGACAT-GGAATGAACTCTGTATGCCTAAGCCAACCCACGAAACGAGCGT-CGGGCGCTCA
* * * *
28946476 GTCGACCGGAA-AGGCATAATGCACAAGCCGAGGATCAGCCCGATTCCC-CTCTGCGTGTTG-CT
64 GCCGACC-GAAGAGGCAGAATGCACAAGCCGAGGATCAGCCCGA-TCCCTC-CTGCATGCTGTC-
** *
28946538 GGTGCC-GCTGCCACAACCCTCGGTCCGA-CTGGG
125 AAT-CCTGCTGCCACAACCCTCGGTCCGATCT-GA
* ** * * *
28946571 GCTTAAACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAACGGGCGTGCGGGCGCTCCG
1 GCTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCACGAAACGAGCGT-CGGGCGCTCAG
* * * * * * * * * * ** * *
28946636 CC-AGCCGGAGAGTCAAAATGCGCAAGTCGGGGATCGGCCTGGTCCCCCCAACGTGCTGTCGATC
65 CCGA-CCGAAGAGGCAGAATGCACAAGCCGAGGATCAGCCCGATCCCTCCTGCATGCTGTCAATC
* *
28946700 CTGCTGTCACAACCCTC-GTCCAGTTC-GA
129 CTGCTGCCACAACCCTCGGTCC-GATCTGA
* *
28946728 TCTTAGAC-TGGGAATGAACTCCGTATGC
1 GCTTAGACAT-GGAATGAACTCTGTATGC
28946756 TTAGACTAGG
Statistics
Matches: 277, Mismatches: 49, Indels: 36
0.77 0.14 0.10
Matches are distributed among these distances:
156 2 0.01
157 60 0.22
158 92 0.33
159 120 0.43
160 3 0.01
ACGTcount: A:0.23, C:0.31, G:0.27, T:0.19
Consensus pattern (157 bp):
GCTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCACGAAACGAGCGTCGGGCGCTCAGC
CGACCGAAGAGGCAGAATGCACAAGCCGAGGATCAGCCCGATCCCTCCTGCATGCTGTCAATCCT
GCTGCCACAACCCTCGGTCCGATCTGA
Found at i:28946770 original size:26 final size:26
Alignment explanation
Indices: 28946729--28946781 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
28946719 CCAGTTCGAT
28946729 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28946755 CTTAGACTAGGG-ATGAACTCCGTATG
1 CTTAGACT-GGGAATGAACTCCGTATG
28946781 C
1 C
28946782 CTAAGTCAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 23 0.88
27 3 0.12
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28947094 original size:26 final size:26
Alignment explanation
Indices: 28947065--28947117 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28947055 TCGATCCGAT
28947065 CTTAGACTAGGA-ATGAACTCCGTATG
1 CTTAGACT-GGAGATGAACTCCGTATG
*
28947091 CTTAGACTGGAGATGAACTTCGTATG
1 CTTAGACTGGAGATGAACTCCGTATG
28947117 C
1 C
28947118 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 3 0.12
26 22 0.88
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGAGATGAACTCCGTATG
Found at i:28947311 original size:26 final size:26
Alignment explanation
Indices: 28947260--28947312 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
28947250 CCGATCCGAT
* *
28947260 CTTAGACTGAGAATGAACTCTATATG
1 CTTAGACTGAGAATAAACTCCATATG
*
28947286 CTTAGACATG-GAATAAACTCCGTATG
1 CTTAGAC-TGAGAATAAACTCCATATG
28947312 C
1 C
28947313 ATAAGCCAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (26 bp):
CTTAGACTGAGAATAAACTCCATATG
Found at i:28947796 original size:159 final size:156
Alignment explanation
Indices: 28947419--28947814 Score: 390
Period size: 157 Copynumber: 2.5 Consensus size: 156
28947409 ATCTCGCTGC
* * *
28947419 CGATCTTGCTGCCACAACCCTCGGTCCGGCTGGGGCTTAGACATGGAATGAACTCCATATGCCTA
1 CGATCCTGCTGCCACAACCCTCTGTCCAGCTGGGGCTTAGACATGGAATGAACTCCATATGCCTA
* ** * *
28947484 AGCCAACCCACGAAAGGAGCGTACGGGCGCTCAGTCGACCAAAAACGCAGAATGCACAAGTCGAG
66 AG-CAACCCACGAAAGGAGCATACAAGCGCTCAGCCGACCAAAAACGCAGAATGCACAAGCCGAG
*
28947549 GACCGGCCTGGTCCCCTTGTGTGCTGT
130 GACCGGCCTGGTCCCCTTGTGTGCTAT
* * * ** * *
28947576 CGATCCTGCTGTCGCAACCCT-TGGTCCAG-TCCGATCTTAGAC-TGGGAATGAACTTCGTATGC
1 CGATCCTGCTGCCACAACCCTCT-GTCCAGCT-GGGGCTTAGACAT-GGAATGAACTCCATATGC
* * * * * ** * *
28947638 CTAAGTCAACCCACGAAATGAGCATTCAAGCGTTGAGCC-AGTCGGAAACGCATAATGCGCAAGC
63 CTAAG-CAACCCACGAAAGGAGCATACAAGCGCTCAGCCGA-CCAAAAACGCAGAATGCACAAGC
* *
28947702 CGAGGATCGG-CTCGGTCCCCCTCTGCT-TGGTAT
126 CGAGGACCGGCCT-GGT-CCCCT-TG-TGTGCTAT
*
28947735 CGATCCTGCTGCCACAACCCTCTGTCCAGCTGGGGCTTAGACATGGAATGAACTCCCTATGCCTA
1 CGATCCTGCTGCCACAACCCTCTGTCCAGCTGGGGCTTAGACATGGAATGAACTCCATATGCCTA
*
28947800 AGCAAACCCATGAAA
66 AGC-AACCCACGAAA
28947815 CGGGCGTGCG
Statistics
Matches: 191, Mismatches: 36, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
156 5 0.03
157 106 0.55
158 6 0.03
159 70 0.37
160 4 0.02
ACGTcount: A:0.24, C:0.30, G:0.25, T:0.20
Consensus pattern (156 bp):
CGATCCTGCTGCCACAACCCTCTGTCCAGCTGGGGCTTAGACATGGAATGAACTCCATATGCCTA
AGCAACCCACGAAAGGAGCATACAAGCGCTCAGCCGACCAAAAACGCAGAATGCACAAGCCGAGG
ACCGGCCTGGTCCCCTTGTGTGCTAT
Found at i:28947969 original size:26 final size:26
Alignment explanation
Indices: 28947931--28947980 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
28947921 ATCTGATCTC
28947931 AGACTGGGAATGAACTCCGTATGCTT
1 AGACTGGGAATGAACTCCGTATGCTT
28947957 AGACTAGGG-ATGAACTCCGTATGC
1 AGACT-GGGAATGAACTCCGTATGC
28947981 CTAAGTCAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 20 0.87
27 3 0.13
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (26 bp):
AGACTGGGAATGAACTCCGTATGCTT
Found at i:28948590 original size:11 final size:11
Alignment explanation
Indices: 28948558--28948583 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
28948548 CGATTAGGCT
28948558 CTCCAGCGATG
1 CTCCAGCGATG
28948569 CTCCAGCGATG
1 CTCCAGCGATG
28948580 CTCC
1 CTCC
28948584 GACGATGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.42, G:0.23, T:0.19
Consensus pattern (11 bp):
CTCCAGCGATG
Found at i:28949051 original size:26 final size:26
Alignment explanation
Indices: 28949001--28949053 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28948991 CTAGTTCGAA
**
28949001 CTTAGACTGGGAATGAACTTTGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
*
28949027 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28949053 C
1 C
28949054 CTAAGTGAAC
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:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28949228 original size:26 final size:26
Alignment explanation
Indices: 28949199--28949249 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
28949189 CGGTCCGATC
28949199 TTAGAC-TGGGAATGAACTCCGTATGG
1 TTAGACAT-GGAATGAACTCCGTATGG
28949225 TTAGACATGGAATGAACTCCGTATG
1 TTAGACATGGAATGAACTCCGTATG
28949250 CCTTAGCCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 23 0.96
27 1 0.04
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.27
Consensus pattern (26 bp):
TTAGACATGGAATGAACTCCGTATGG
Found at i:28949597 original size:159 final size:157
Alignment explanation
Indices: 28949225--28949602 Score: 383
Period size: 157 Copynumber: 2.4 Consensus size: 157
28949215 CTCCGTATGG
* *
28949225 TTAGACATGGAATGAACTCCGTATGCCTTAGCCAACCCATGAAACGAGCGTG-GAGGCACTCAAC
1 TTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCG-GGCGCTCAAC
** * * * * * * *
28949289 CGGCCGGAGAGGCAGAATGCACAAGTTGGGGACTGGCTCGATCCCCCTACGTGCTGTCGATCTTG
65 CAACCGAAGAGGAAGAATGCACAAGTTGAGGACTGGCCCGATCCCCCTACGTACTGCCGATCTCG
* * *
28949354 CTGTCGCAACCCTCGATCCGATCCGATC
130 CTGCCACAACCCTCGATCCGATCCGAGC
* * * * * * *
28949382 TTAGAC-TGGGAATGAACTCCGTATGCCTAAGTCAACCCACGAAATGAGCTTTCGGGCGCTGACC
1 TTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCGCTCAAC
* *
28949446 CAACCGAAGAGGAATAATGCACAAGTTGAGGA-TCGGCCCGGTCCCCCT-CTGAGTACTGCC-AG
65 CAACCGAAGAGGAAGAATGCACAAGTTGAGGACT-GGCCCGATCCCCCTAC---GTACTGCCGA-
* * *
28949508 TCTCGCTGCCACAACCCTCGATCC-AGCTGGGGC
125 TCTCGCTGCCACAACCCTCGATCCGATC-CGAGC
*
28949541 TTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAAC-AGGCGTGCGGGCGCTCA
1 TTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGA-GCGTGCGGGCGCTCA
28949603 GTCGGTCGGA
Statistics
Matches: 178, Mismatches: 33, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
156 3 0.02
157 89 0.50
158 5 0.03
159 80 0.45
160 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.26, T:0.19
Consensus pattern (157 bp):
TTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCGCTCAACC
AACCGAAGAGGAAGAATGCACAAGTTGAGGACTGGCCCGATCCCCCTACGTACTGCCGATCTCGC
TGCCACAACCCTCGATCCGATCCGAGC
Found at i:28949762 original size:26 final size:26
Alignment explanation
Indices: 28949724--28949776 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28949714 CTGGTCCGAT
28949724 CTTAGACTGGGAATGAACTCCATATG
1 CTTAGACTGGGAATGAACTCCATATG
*
28949750 CTTAGACAT-GGAATGAACTCCGTATG
1 CTTAGAC-TGGGAATGAACTCCATATG
28949776 C
1 C
28949777 CTAAGCCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCATATG
Found at i:28950107 original size:26 final size:26
Alignment explanation
Indices: 28950067--28950118 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28950057 TGGTCTGATT
28950067 TTAGACTGGGAATGAACTCCATATGC
1 TTAGACTGGGAATGAACTCCATATGC
*
28950093 TTAGACTAGGG-ATGAACTCCGTATGC
1 TTAGACT-GGGAATGAACTCCATATGC
28950119 CTAAGTCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (26 bp):
TTAGACTGGGAATGAACTCCATATGC
Found at i:28950649 original size:159 final size:156
Alignment explanation
Indices: 28950252--28950716 Score: 386
Period size: 159 Copynumber: 2.9 Consensus size: 156
28950242 GGTCCGACTG
* * * * *
28950252 GGGCTTAGACATGGAATGAACTCCTTATGCCTAAGCCAACACACAAAACGAGCATGCGGCCGCTC
1 GGGCTTAGACATGGAATGAACTCCTTATGCCTAAGCCAACCCATAAAATGAGCGTGCGGACGCTC
** * * * * * *
28950317 AACCGGCCGGAGAGGCAAAATGCGCAAGTCGACGATCGTCCCGGTCCTGCCCTGCGTGCTGTCAA
66 AGTCGGCCAGAGAGGCAAAATGCGCAAGTCGAGGATCGACCCGATCC-CCCCTGCGTGCTGTCGA
* * * * * * *
28950382 TCCTACTATCGTA-AACCTCGATTCGATCC
130 TCCTGCT-GC-CACAACC-CTATTCCAGCA
** * * * * *
28950411 GATCTTAGAC-TGGGAATGAACTTCGTATGCCTAAGTCAACCCATGAAATGAGCGTGCAGGCATT
1 GGGCTTAGACAT-GGAATGAACTCCTTATGCCTAAGCCAACCCATAAAATGAGCGTGC-GG-A-C
* * *
28950475 GAAC-CAGTC-G--A-AGAGGCATAATACGCAAGTCGAGGATCGACCCAATCCCCCTCTGCGTGC
62 G--CTCAGTCGGCCAGAGAGGCAAAATGCGCAAGTCGAGGATCGACCCGATCCCCC-CTGCGTGC
* *
28950535 TGTCGATCCCGCTGCCACAACCCTTTGTCCAGCTA
124 TGTCGATCCTGCTGCCACAACCCTAT-TCCAGC-A
*
28950570 GGGCTTAGACATGAAATGAACTCCTTATGCCTAAGCCAACCCATAAAATGAGCGTGCGGACGCTC
1 GGGCTTAGACATGGAATGAACTCCTTATGCCTAAGCCAACCCATAAAATGAGCGTGCGGACGCTC
* * * * * * *
28950635 AGTCGGCCAGAGAGGCAGAATGTGGAAGTCGAGGATTGGCCCGATCCCTCCTGCGTGCTATCGAT
66 AGTCGGCCAGAGAGGCAAAATGCGCAAGTCGAGGATCGACCCGATCCCCCCTGCGTGCTGTCGAT
* *
28950700 CCTGCTGTCGCAACCCT
131 CCTGCTGCCACAACCCT
28950717 CAGTCCGATT
Statistics
Matches: 238, Mismatches: 52, Indels: 33
0.74 0.16 0.10
Matches are distributed among these distances:
154 1 0.00
155 5 0.02
156 2 0.01
157 4 0.02
158 43 0.18
159 174 0.73
160 3 0.01
162 2 0.01
163 3 0.01
164 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.25, T:0.20
Consensus pattern (156 bp):
GGGCTTAGACATGGAATGAACTCCTTATGCCTAAGCCAACCCATAAAATGAGCGTGCGGACGCTC
AGTCGGCCAGAGAGGCAAAATGCGCAAGTCGAGGATCGACCCGATCCCCCCTGCGTGCTGTCGAT
CCTGCTGCCACAACCCTATTCCAGCA
Found at i:28950957 original size:21 final size:21
Alignment explanation
Indices: 28950916--28950960 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
28950906 GGTCCGGCTA
28950916 CCACAACCCTCAGTCCAACTG
1 CCACAACCCTCAGTCCAACTG
*
28950937 CCACAACCCTC-GATCCGACTG
1 CCACAACCCTCAG-TCCAACTG
28950958 CCA
1 CCA
28950961 TAACTCTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.27, C:0.49, G:0.11, T:0.13
Consensus pattern (21 bp):
CCACAACCCTCAGTCCAACTG
Done.