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 305 of 402
Found at i:28758383 original size:26 final size:26
Alignment explanation
Indices: 28758345--28758397 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28758335 GGCTCAAAAT
** *
28758345 CTTAGACTGGGAATGAACTCTGTATG
1 CTTAGACAAGGAATGAACTCCGTATG
28758371 CTTAGACAAGGAATGAACTCCGTATG
1 CTTAGACAAGGAATGAACTCCGTATG
28758397 C
1 C
28758398 CTAAGCCAAC
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:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (26 bp):
CTTAGACAAGGAATGAACTCCGTATG
Found at i:28758745 original size:159 final size:158
Alignment explanation
Indices: 28758370--28758821 Score: 473
Period size: 159 Copynumber: 2.9 Consensus size: 158
28758360 AACTCTGTAT
* * *
28758370 GCTTAGACAAGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGTGTGCAGGCGCTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAAAGAGTGTGCGGGCGCTCAG
* * * * * * * *
28758435 CCGATCGGAGAGGCAGAATACACAAGCCGGGGATAGGCCTGGTCCCCCCTGCGTGCTGTCAATCC
66 CCGATCGGAGAGGCAGAATGCGCAAGCCAGGGATCGGCCCGATCCCCCCTGCGTGCTATCGATCC
* ** * *
28758500 TGCTGTCGTAACCCTCGGTCCAGTCCGA
131 TGCTGCCACAACCCTCGATCCACTCCGA
* * * * * * * *
28758528 TCTTAGA-TTGGGAATAAACTCTGTATGCCTAAGTCAAACCAC-AAAACGAGTGTACGGGCGCTG
1 GCTTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCACGAAAA-GAGTGTGCGGGCGCTC
** * *
28758591 AGCCGATCAAAGAGGCATAATGCGCAAGCTAGGGATCGGCCCGATCCCCCACTGCGTGCTATCGA
64 AGCCGATCGGAGAGGCAGAATGCGCAAGCCAGGGATCGGCCCGATCCCCC-CTGCGTGCTATCGA
* * *
28758656 TCCCGCTGCCACAACCCTCGATCCAACT-GGG
128 TCCTGCTGCCACAACCCTCGATCC-ACTCCGA
* *
28758687 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAATAG-GTGTGCGGGCACTCA
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAA-AGAGTGTGCGGGCGCTCA
* * * * *
28758751 GCCG-GCTGGAGAGGTAGAATGCGCAAGCCAGGGATCGTCCCGATCACCCCTGCGTGCTACCGAT
65 GCCGATC-GGAGAGGCAGAATGCGCAAGCCAGGGATCGGCCCGATCCCCCCTGCGTGCTATCGAT
28758815 CCTGCTG
129 CCTGCTG
28758822 TCGTAACCCT
Statistics
Matches: 235, Mismatches: 51, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
157 3 0.01
158 108 0.46
159 116 0.49
160 7 0.03
161 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.27, T:0.18
Consensus pattern (158 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAAAGAGTGTGCGGGCGCTCAG
CCGATCGGAGAGGCAGAATGCGCAAGCCAGGGATCGGCCCGATCCCCCCTGCGTGCTATCGATCC
TGCTGCCACAACCCTCGATCCACTCCGA
Found at i:28760607 original size:26 final size:26
Alignment explanation
Indices: 28760569--28760621 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 26
28760559 TTGGTCTGAT
28760569 CTTAGACTGGGAATGAAC-CCTGTATG
1 CTTAGACTGGGAATGAACTCC-GTATG
28760595 CTTAGACAT-GGAATGAACTCCGTATG
1 CTTAGAC-TGGGAATGAACTCCGTATG
28760621 C
1 C
28760622 CGAAATCGAC
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:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28760805 original size:119 final size:119
Alignment explanation
Indices: 28760594--28760810 Score: 274
Period size: 119 Copynumber: 1.8 Consensus size: 119
28760584 AACCCTGTAT
* * * * *
28760594 GCTTAGACATGGAATGAACTCCGTATGCCGAAATCGACCCATGAAACGAGCGTACAGGCGCTCAG
1 GCTTAGACATGGAAAGAACTCCCTATGCCGAAACCAACCCATGAAACGAGCGTACAGGCACTCAG
* * *
28760659 CAAGCCGAAGAGGCAGAATGCGCAAGCCGGGGACTGACCGTCAGTTCGACTGGG
66 CAAGCCGAAGAAGCAGAATGCACAAGCCAGGGACTGACCGTCAGTTCGACTGGG
* * * * *
28760713 GCTTATACATGGAAAGAACTCCCTATGCCTAAGCCAACCCATGAAACGGGCGTGC-GGTCACTCA
1 GCTTAGACATGGAAAGAACTCCCTATGCCGAAACCAACCCATGAAACGAGCGTACAGG-CACTCA
** *
28760777 GCCGGCCGGAGAAGCAGAATGCACAAGCCAGGGA
65 GCAAGCCGAAGAAGCAGAATGCACAAGCCAGGGA
28760811 TCGACCCGGT
Statistics
Matches: 81, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
118 2 0.02
119 79 0.98
ACGTcount: A:0.29, C:0.27, G:0.29, T:0.14
Consensus pattern (119 bp):
GCTTAGACATGGAAAGAACTCCCTATGCCGAAACCAACCCATGAAACGAGCGTACAGGCACTCAG
CAAGCCGAAGAAGCAGAATGCACAAGCCAGGGACTGACCGTCAGTTCGACTGGG
Found at i:28760902 original size:26 final size:26
Alignment explanation
Indices: 28760872--28760924 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28760862 CCGTTCTGAT
28760872 CTTAGACTAGGAATGAACTCCGTATG
1 CTTAGACTAGGAATGAACTCCGTATG
* * *
28760898 CTTAGATTTGGGATGAACTCCGTATG
1 CTTAGACTAGGAATGAACTCCGTATG
28760924 C
1 C
28760925 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:0.25, T:0.30
Consensus pattern (26 bp):
CTTAGACTAGGAATGAACTCCGTATG
Found at i:28761158 original size:26 final size:26
Alignment explanation
Indices: 28761140--28761198 Score: 118
Period size: 26 Copynumber: 2.3 Consensus size: 26
28761130 GAATGCAATT
28761140 CGTATGCTTAGACATGGAATGAACTC
1 CGTATGCTTAGACATGGAATGAACTC
28761166 CGTATGCTTAGACATGGAATGAACTC
1 CGTATGCTTAGACATGGAATGAACTC
28761192 CGTATGC
1 CGTATGC
28761199 CAAAGCCAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (26 bp):
CGTATGCTTAGACATGGAATGAACTC
Found at i:28761565 original size:159 final size:157
Alignment explanation
Indices: 28761171--28761578 Score: 408
Period size: 159 Copynumber: 2.6 Consensus size: 157
28761161 AACTCCGTAT
* * * * *
28761171 GCTTAGACATGGAATGAACTCCGTATGCCAAAGCCAACCCATGAAATGTGCGTGCGGGTGCTCAG
1 GCTTAGACATGGAATGAACTCCATATGCCTAAGCC-ACCCATGAAATGAGCATGCGGGCGCTCAG
* * * * * * *
28761236 CCGATCGGAGAGGTAGAATGCGCAAGCCAGGGATCGACCCGGTCCCCCCTGCGTGTGATCTATCC
65 CCGGTCGGAGAGGCAGAATGCGCAAGCCAGGGATCAACCCGATCCCCCCTACGTGTGACCGATCC
*
28761301 TACTACCACAACCCTCGATCCGGTCCGA
130 CACTACCACAACCCTCGATCCGGTCCGA
* * * *
28761329 TCTTAGAC-TGGGAATGAACTCCATATGCATAAGTCATCCCATGAAATGAGCATGCGGGCGCTGA
1 GCTTAGACAT-GGAATGAACTCCATATGCCTAAGCCA-CCCATGAAATGAGCATGCGGGCGCTCA
** * * * * *
28761393 GCTAGCCGAAGAGGCATAATACGCAAGCCAGGGATCAACCCGATCCCCCTCTACGTGCTG-CCGG
64 GCCGGTCGGAGAGGCAGAATGCGCAAGCCAGGGATCAACCCGATCCCCC-CTACGTG-TGACCGA
* * * * * *
28761457 TCCCACTGCCACAACCCTTGGTCTGG-CTGGG
127 TCCCACTACCACAACCCTCGATCCGGTC-CGA
* * * * *
28761488 GCTTACACATGGAATGAACTCCCTATGCCTAAGCCGACCCACGAAACGGGCATGCGGGCGCTCAG
1 GCTTAGACATGGAATGAACTCCATATGCCTAAGCC-ACCCATGAAATGAGCATGCGGGCGCTCAG
*
28761553 CCGGTTGGAGAGGCAGAATGCGCAAG
65 CCGGTCGGAGAGGCAGAATGCGCAAG
28761579 TCGGGGATGG
Statistics
Matches: 197, Mismatches: 46, Indels: 13
0.77 0.18 0.05
Matches are distributed among these distances:
157 2 0.01
158 91 0.46
159 100 0.51
160 4 0.02
ACGTcount: A:0.25, C:0.30, G:0.27, T:0.18
Consensus pattern (157 bp):
GCTTAGACATGGAATGAACTCCATATGCCTAAGCCACCCATGAAATGAGCATGCGGGCGCTCAGC
CGGTCGGAGAGGCAGAATGCGCAAGCCAGGGATCAACCCGATCCCCCCTACGTGTGACCGATCCC
ACTACCACAACCCTCGATCCGGTCCGA
Found at i:28761683 original size:26 final size:26
Alignment explanation
Indices: 28761647--28761699 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
28761637 GCAGTCTGAT
28761647 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
*
28761673 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28761699 C
1 C
28761700 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:0.21, G:0.28, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28762364 original size:158 final size:157
Alignment explanation
Indices: 28762180--28763231 Score: 500
Period size: 158 Copynumber: 6.6 Consensus size: 157
28762170 CCGGTCCAAT
** * *
28762180 CTTAGACTGGGAATGAACTCTGTATGCCTAAGTCAACCCACGAAACTAGTGTACGGGCACTGAGC
1 CTTAGACTGGGAATGAACTCCCTATGCCTAAGTCAACCCACGAAA-TAGCGTACGGGCACTCAGC
* * * *
28762245 TAGTCGGAGAGGCATAATGCGTAA-CTCGGGGATCAGCCCGATCCCCCTCTGCGTGCTGCTGGTC
65 CAGTCGAAGAGGCATAATGCGCAAGC-CGAGGATCAGCCCGATCCCCCTCTGCGTGCTGCTGGTC
28762309 CCGCAGCCACAACCTCGGTCCGGCTAGGG
129 CCGCAGCCACAACCTCGGTCCGGCTAGGG
* ** ***
28762338 CTTAGACAT-GGAATGAACTCCCTATGCCTAAGACAACCCACGAAACGGGCGTACGGTTGCTCAG
1 CTTAGAC-TGGGAATGAACTCCCTATGCCTAAGTCAACCCACGAAA-TAGCGTACGGGCACTCAG
* * * * * * * *
28762402 CCGGTCGAAAAGGTAGAAT-CGCAAG-CAAGGGATCGGCCC-AGTCCCCC-CTGTGTGTTG-TCG
64 CCAGTCGAAGAGGCATAATGCGCAAGCCGA-GGATCAGCCCGA-TCCCCCTCTGCGTGCTGCT-G
* * * * *
28762462 AT-CCGCTATCGCA-ACCCTCGGTCCGATCCTA--T
126 GTCCCGC-AGC-CACAACCTCGGTCCG--GCTAGGG
** * * * *
28762494 CTTAGACTGGGAATGAACTCTGTATGCATAAGTCAACCAACGAAATGAGCGTACGGGCATTGAGC
1 CTTAGACTGGGAATGAACTCCCTATGCCTAAGTCAACCCACGAAAT-AGCGTACGGGCACTCAGC
* *** ** * * *
28762559 CAGCCGAAGAGGCATAATGCATGAGCCGAGGATTGGCCCGGTCCCCCTCTACGTGCTACTGGTCC
65 CAGTCGAAGAGGCATAATGCGCAAGCCGAGGATCAGCCCGATCCCCCTCTGCGTGCTGCTGGTCC
* * * *
28762624 CGCTGCCACAACCTCGGTCTGGTTTGGG
130 CGCAGCCACAACCTCGGTCCGGCTAGGG
* * * * * * *
28762652 CTTAGACTTGGAATGAACTTCCTATGCCTAAGCCAACCCATGAAATGGGCATGCGGGCACTCAGC
1 CTTAGACTGGGAATGAACTCCCTATGCCTAAGTCAACCCACGAAAT-AGCGTACGGGCACTCAGC
* * *
28762717 C-GATTGGAGAGGCATAATGCGCAAGCCGAGGATCAGCCCGGTCCCCCTCTACATGCTATCGATC
65 CAG-TCGAAGAGGCATAATGCGCAAGCCGAGGATCAGCCCGAT-CCCC-CT-C-TG----CG-T-
* ** * * *
28762781 CCGCTGCCGGTCCTACTGCCACAACCCTCAGTCCAGG-TGGGG
119 --GCTGCTGGTCCCGCAGCCACAA-CCTCGGTCC-GGCTAGGG
* * * * *
28762823 CTTAGACAT-GGAATGATCTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGCGGGTACTCAG
1 CTTAGAC-TGGGAATGAACTCCCTATGCCTAAGTCAACCCACGAAAT-AGCGTACGGGCACTCAG
* * * * * * *
28762887 TC-GGCTGAAGAGGTAAAATGTC-CAAGCCGGGGATC-GACCTGATCCCCCT-TGCGTGCTGTTG
64 CCAGTC-GAAGAGGCATAATG-CGCAAGCCGAGGATCAG-CCCGATCCCCCTCTGCGTGCTGCTG
* * * * * * * **
28762948 ATCCTGCTATCGCA-ACCCTCGATCTAGTCT-GAT
126 GTCCCGC-AGC-CACAACCTCGGTC-CGGCTAGGG
* ** * * * ** * *
28762981 CTTAGTCCAGGAATGAACTCCGTATGCATAAGTCAACCCACGAAACGAATGTGC-GGCACTGAGC
1 CTTAGACTGGGAATGAACTCCCTATGCCTAAGTCAACCCACGAAA-TAGCGTACGGGCACTCAGC
* * ** * * * *
28763045 CGGTCGAAGAGGCATAATGAGCAAGTTGAGCATCGGCCCG-GCCCCCTTCTGCGTGCTGCAGGTC
65 CAGTCGAAGAGGCATAATGCGCAAGCCGAGGATCAGCCCGATCCCCC-TCTGCGTGCTGCTGGTC
* * *
28763109 CCACTA-CAATAACCCTCGGTCCGGCT-GGG
129 CCGC-AGCCACAA-CCTCGGTCCGGCTAGGG
* * * * * **
28763138 CCATAGACAT-GAAATTAACTCCGTATGCCTAAGCCAACCCACGAAACGGGCGTACGGGCACTCA
1 -CTTAGAC-TGGGAATGAACTCCCTATGCCTAAGTCAACCCACGAAA-TAGCGTACGGGCACTCA
* * *
28763202 GCCAGTC-AGAGAGGTAGAATACGCAAGCCG
63 GCCAGTCGA-AGAGGCATAATGCGCAAGCCG
28763232 GAGATCGGCC
Statistics
Matches: 665, Mismatches: 173, Indels: 111
0.70 0.18 0.12
Matches are distributed among these distances:
155 6 0.01
156 95 0.14
157 81 0.12
158 304 0.46
159 41 0.06
160 4 0.01
161 2 0.00
162 3 0.00
166 4 0.01
167 1 0.00
169 2 0.00
170 23 0.03
171 95 0.14
172 4 0.01
ACGTcount: A:0.24, C:0.30, G:0.27, T:0.20
Consensus pattern (157 bp):
CTTAGACTGGGAATGAACTCCCTATGCCTAAGTCAACCCACGAAATAGCGTACGGGCACTCAGCC
AGTCGAAGAGGCATAATGCGCAAGCCGAGGATCAGCCCGATCCCCCTCTGCGTGCTGCTGGTCCC
GCAGCCACAACCTCGGTCCGGCTAGGG
Found at i:28763167 original size:487 final size:483
Alignment explanation
Indices: 28762314--28763204 Score: 1057
Period size: 487 Copynumber: 1.8 Consensus size: 483
28762304 TGGTCCCGCA
*
28762314 GCCACAACCTCGGTCCGGCTAGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGACAACCCAC
1 GCCACAACCTCAGTCCGGCTAGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGACAACCCAC
* * * * *
28762379 GAAACGGGCGTACGGTTGCTCAGCCGGTCGAAAAGGTAGAATCGCAAGCAAGGGATCGGCCCAGT
66 GAAACGAGCGTACGGGTACTCAGCCGGTCGAAAAGGTAAAATCGCAAGCAAGGGATCGACCCAGT
* * * * **
28762444 CCCCCCTGTGTGTTGTCGATCCGCTATCGCAACCCTCGGTCCGATCCTATCTTAGACTGGGAATG
131 CCCCCCTGCGTGCTGTCGATCCGCTATCGCAACCCTCGATCAGATCCTATCTTAGACCAGGAATG
* * * *
28762509 AACTCTGTATGCATAAGTCAACCAACGAAATGAGCGTACGGGCATTGAGCCAGCCGAAGAGGCAT
196 AACTCCGTATGCATAAGTCAACCAACGAAACGAACGTACGGGCACTGAGCCAGCCGAAGAGGCAT
* * * * * *
28762574 AATGCATGAGCCGAGGATTGGCCCGGTCCCCCTCTACGTGCTACTGGTCCCGCTGCCACAACCTC
261 AATGCA-GAGCCGAGCATCGGCCCGGTCCCCCTCTACGTGCTACAGGTCCCACTACAACAACCTC
* * * * * * *
28762639 GGTCTGGTTTGGGCTTAGACTTGGAATGAACTTCCTATGCCTAAGCCAACCCATGAAATGGGCAT
325 GGTCCGGTCTGGGCATAGACATGAAATGAACTTCCTATGCCTAAGCCAACCCACGAAACGGGCAT
*
28762704 GCGGGCACTCAGCCGATTGGAGAGGCATAATGCGCAAGCCGAGGATCAGCCCGGTCCCCCTCTAC
390 ACGGGCACTCAGCCGATTGGAGAGGCATAATGCGCAAGCCGAGGATCAGCCCGGTCCCCCTCTAC
28762769 ATGCTATCGATCCCGCTGCCGGTCCTACT
455 ATGCTATCGATCCCGCTGCCGGTCCTACT
* * * *
28762798 GCCACAACCCTCAGTCCAGG-TGGGGCTTAGACATGGAATGATCTCCGTATGCCTAAGCCAACCC
1 GCCACAA-CCTCAGTCC-GGCTAGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGACAACCC
* * * * **
28762862 ACGAAATGAGCGTGCGGGTACTCAGTCGG-CTGAAGAGGTAAAAT-GTCCAAGCCGGGGATCGA-
64 ACGAAACGAGCGTACGGGTACTCAGCCGGTC-GAAAAGGTAAAATCG--CAAGCAAGGGATCGAC
* * * *
28762924 CCTGATCCCCCTTGCGTGCTGTTGATCCTGCTATCGCAACCCTCGATCTAG-T-CTGATCTTAGT
126 CCAG-TCCCCCCTGCGTGCTGTCGATCC-GCTATCGCAACCCTCGATC-AGATCCT-ATCTTAGA
* * * * *
28762987 CCAGGAATGAACTCCGTATGCATAAGTCAACCCACGAAACGAATGTGC-GGCACTGAGCCGGTCG
187 CCAGGAATGAACTCCGTATGCATAAGTCAACCAACGAAACGAACGTACGGGCACTGAGCCAGCCG
** * *
28763051 AAGAGGCATAATG-AGCAAGTTGAGCATCGGCCCGG-CCCCCTTCTGCGTGCTGCAGGTCCCACT
252 AAGAGGCATAATGCAG--AGCCGAGCATCGGCCCGGTCCCCC-TCTACGTGCTACAGGTCCCACT
* *
28763114 ACAATAACCCTCGGTCCGG-CTGGGCCATAGACATGAAATTAAC-TCCGTATGCCTAAGCCAACC
314 ACAACAA-CCTCGGTCCGGTCTGGG-CATAGACATGAAATGAACTTCC-TATGCCTAAGCCAACC
*
28763177 CACGAAACGGGCGTACGGGCACTCAGCC
376 CACGAAACGGGCATACGGGCACTCAGCC
28763205 AGTCAGAGAG
Statistics
Matches: 336, Mismatches: 56, Indels: 27
0.80 0.13 0.06
Matches are distributed among these distances:
484 10 0.03
485 91 0.27
486 104 0.31
487 130 0.39
488 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.26, T:0.20
Consensus pattern (483 bp):
GCCACAACCTCAGTCCGGCTAGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGACAACCCAC
GAAACGAGCGTACGGGTACTCAGCCGGTCGAAAAGGTAAAATCGCAAGCAAGGGATCGACCCAGT
CCCCCCTGCGTGCTGTCGATCCGCTATCGCAACCCTCGATCAGATCCTATCTTAGACCAGGAATG
AACTCCGTATGCATAAGTCAACCAACGAAACGAACGTACGGGCACTGAGCCAGCCGAAGAGGCAT
AATGCAGAGCCGAGCATCGGCCCGGTCCCCCTCTACGTGCTACAGGTCCCACTACAACAACCTCG
GTCCGGTCTGGGCATAGACATGAAATGAACTTCCTATGCCTAAGCCAACCCACGAAACGGGCATA
CGGGCACTCAGCCGATTGGAGAGGCATAATGCGCAAGCCGAGGATCAGCCCGGTCCCCCTCTACA
TGCTATCGATCCCGCTGCCGGTCCTACT
Found at i:28763281 original size:158 final size:158
Alignment explanation
Indices: 28762791--28763287 Score: 406
Period size: 158 Copynumber: 3.1 Consensus size: 158
28762781 CCGCTGCCGG
* * * *
28762791 TCCTACTGCCACAACCCTCAGTCCAGG-TGGGGCTTAGACATGGAATGATCTCCGTATGCCTAAG
1 TCCTACTGTCACAACCCTCGGTCC-GGCTGGGCCTTAGACATGGAATGAACTCCGTATGCCTAAG
* * * * * *
28762855 CCAACCCACGAAATGAGCGTGCGGGTACTCAGTCGGCTGAAGAGGTAAAATGTC-CAAGCCGGGG
65 CCAACCCACGAAACGAGCGTGCGGGCACTCAGCCGTC-GAAGAGGTAAAATGACGCAAGCCGGAG
* * *
28762919 ATCGACCTGATCCC-CCTTGCGTGCTGTTGA
129 ATCGGCCTGGTCCCTCC-TGCGTGCTGTCGA
* * * * * * ** * *
28762949 TCCTGCTATCGCAACCCTCGATCTAGTCT-GATCTTAGTCCA-GGAATGAACTCCGTATGCATAA
1 TCCTACTGTCACAACCCTCGGTC-CGGCTGGGCCTTAG-ACATGGAATGAACTCCGTATGCCTAA
* ** * * * **
28763012 GTCAACCCACGAAACGAATGTGC-GGCACTGAGCCGGTCGAAGAGGCATAATGA-GCAAG-TTGA
64 GCCAACCCACGAAACGAGCGTGCGGGCACTCAGCC-GTCGAAGAGGTAAAATGACGCAAGCCGGA
* * * *
28763074 GCATCGGCCCGGCCCCCTTCTGCGTGCTG-CAGG
128 G-ATCGGCCTGG-TCCCTCCTGCGTGCTGTC-GA
* * * * * *
28763107 TCCCACT-ACAATAACCCTCGGTCCGGCTGGGCCATAGACATGAAATTAACTCCGTATGCCTAAG
1 TCCTACTGTC-ACAACCCTCGGTCCGGCTGGGCCTTAGACATGGAATGAACTCCGTATGCCTAAG
* * *
28763171 CCAACCCACGAAACGGGCGTACGGGCACTCAGCCAGTC-AGAGAGGTAGAAT-ACGCAAGCCGGA
65 CCAACCCACGAAACGAGCGTGCGGGCACTCAGCC-GTCGA-AGAGGTAAAATGACGCAAGCCGGA
28763234 GATCGGCCTGGTCCCTCCTGCGTGCTGTCGA
128 GATCGGCCTGGTCCCTCCTGCGTGCTGTCGA
28763265 TCCTACTGTCACAACCCTCGGTC
1 TCCTACTGTCACAACCCTCGGTC
28763288 TGATCCGATC
Statistics
Matches: 254, Mismatches: 67, Indels: 36
0.71 0.19 0.10
Matches are distributed among these distances:
156 2 0.01
157 37 0.15
158 170 0.67
159 42 0.17
160 3 0.01
ACGTcount: A:0.24, C:0.30, G:0.26, T:0.20
Consensus pattern (158 bp):
TCCTACTGTCACAACCCTCGGTCCGGCTGGGCCTTAGACATGGAATGAACTCCGTATGCCTAAGC
CAACCCACGAAACGAGCGTGCGGGCACTCAGCCGTCGAAGAGGTAAAATGACGCAAGCCGGAGAT
CGGCCTGGTCCCTCCTGCGTGCTGTCGA
Found at i:28763327 original size:26 final size:26
Alignment explanation
Indices: 28763298--28763348 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
28763288 TGATCCGATC
*
28763298 TTAGACTGGGAATGAACTCTGTATGG
1 TTAGACTGGGAATGAACTCCGTATGG
* *
28763324 TTAGATTGGGGATGAACTCCGTATG
1 TTAGACTGGGAATGAACTCCGTATG
28763349 CCTAAGTCAA
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:0.25, C:0.12, G:0.31, T:0.31
Consensus pattern (26 bp):
TTAGACTGGGAATGAACTCCGTATGG
Found at i:28763785 original size:353 final size:354
Alignment explanation
Indices: 28763128--28764067 Score: 762
Period size: 353 Copynumber: 2.7 Consensus size: 354
28763118 TAACCCTCGG
* * *
28763128 TCCGGCTGGGCCATAGACATGAAATTAACTCCGTATGCCTAAGCCAACCCACGAAACGGGCGTAC
1 TCCGGCTGGGCCATAGACATGAAATGAACTCCGTATACCTAAGCCAACCCACGAAACGAGCGTAC
* * * *
28763193 GGGCACTCAGCCAGTCAGAGAGGTAGAATACGCAAGCCGGAGATCGGCCTGGTCCCTCCTGCGTG
66 GGGCACTCAGCCAGTCAGAGAGGCAGAATACGCAAGCCGGAGATCGACCTGATCCCTCCTACGTG
* ** * *
28763258 CTGTCGATCCTACTGTCACAACCCTCGGTCTGATCCGATCTTAGACTGGGAATGAACTCTGTATG
131 CTATCGATCCTACTACCACAACCCTCGGTCCGATCCAATCTTAGACTGGGAATGAACTCTGTATG
* * ** *
28763323 GTTAGATTGGGGATGAACTCCGTATGCCTAAGTCAACCCATGAAACGAGCATGTAGGCGCTCAGC
196 CTTAGATTGGGAATGAACTCCGTACACCTAAGCCAACCCATGAAACGAGCA-GTAGGCGCTCAGC
** * * *
28763388 CAATTGAAAAGGCATAATGCGCAAGTCGGGGATCAGCTCGATCCCCTTCTGCATGCTACCAACCC
260 CAACCGAAAAGGCAGAATGCGCAAGTCGAGGATCAGCCCGATCCCCTTCTGCATGCTACCAACCC
28763453 CACTGCCAGTCCTACTACCACAACCTTTAC
325 CACTGCCAGTCCTACTACCACAACCTTTAC
* * * * * * *
28763483 TCCGGCTGGGGCTTAGACATGGAATGAACTCCGTATACCTAAGCTAACCCATGAAACGAGTGTGC
1 TCCGGCTGGGCCATAGACATGAAATGAACTCCGTATACCTAAGCCAACCCACGAAACGAGCGTAC
* * * * * *
28763548 GGGCGCTCAGCC-GATCGGAGAGGCAGAATGCGTAAGTCGGGGATCGA-CTCGAT-CC-CCTACG
66 GGGCACTCAGCCAG-TCAGAGAGGCAGAATACGCAAGCCGGAGATCGACCT-GATCCCTCCTACG
* * **
28763609 TGTTATCGATCCTGCTACCGTAACCCTCGGTCCGATCCAATCTTAGACTGGGAATGAACTCTGTA
129 TGCTATCGATCCTACTACCACAACCCTCGGTCCGATCCAATCTTAGACTGGGAATGAACTCTGTA
* * * * * *
28763674 TGCTTAGACTT-GGAATGAACTTCGTACACCTAAGCCAATCCATGAAAGGGGC-GTACGGGTGTT
194 TGCTTAGA-TTGGGAATGAACTCCGTACACCTAAGCCAACCCATGAAACGAGCAGTA--GGCGCT
* * * * *
28763737 CAGCCCACCGGAGAGGTAGAATGCGCAAG-CTGAGGATC-GACCCGATCCCCCTT-TGCGTGCTA
256 CAGCCAACCGAAAAGGCAGAATGCGCAAGTC-GAGGATCAG-CCCGAT-CCCCTTCTGCATGCTA
* *** * **
28763799 TCGGTCCCACTGCCA---C-A--ACC-C--TCGGT-C
318 CCAACCCCACTGCCAGTCCTACTACCACAACCTTTAC
* * * * * * **
28763826 T--GGCTGGGGCTTAGACATGGAATGAAGTCCTTATGCCTAAGCCAACCCACG-AACGAGCGTGT
1 TCCGGCTGGGCCATAGACATGAAATGAACTCCGTATACCTAAGCCAACCCACGAAACGAGCGTAC
* * * * * * * ** * * *
28763888 AGGCACTCAGTCGGTCGGAGAGGCAGAATGCACTAGCCAAAGATCGGCCCGATCCC-CCTTAAGT
66 GGGCACTCAGCCAGTCAGAGAGGCAGAATACGCAAGCCGGAGATCGACCTGATCCCTCC-TACGT
* * * ** * * * *
28763952 GCTGTTGATCCTGCTGTCGCAACCCTTGCTCC-AGTCTAATCTTAGACTGGGAATGAACT-TCGT
130 GCTATCGATCCTACTACCACAACCCTCGGTCCGA-TCCAATCTTAGACTGGGAATGAACTCT-GT
** * * *
28764015 ATGCTTAGATTGAGG-ATGAACTCCGTATGCCTAAGTCAACCAACGAAACGAGC
193 ATGCTTAGATTG-GGAATGAACTCCGTACACCTAAGCCAACCCATGAAACGAGC
28764068 GTGCGGGCAC
Statistics
Matches: 474, Mismatches: 95, Indels: 45
0.77 0.15 0.07
Matches are distributed among these distances:
340 46 0.10
341 55 0.12
342 92 0.19
343 4 0.01
344 2 0.00
346 1 0.00
347 3 0.01
349 1 0.00
350 1 0.00
351 3 0.01
352 2 0.00
353 157 0.33
354 13 0.03
355 94 0.20
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.21
Consensus pattern (354 bp):
TCCGGCTGGGCCATAGACATGAAATGAACTCCGTATACCTAAGCCAACCCACGAAACGAGCGTAC
GGGCACTCAGCCAGTCAGAGAGGCAGAATACGCAAGCCGGAGATCGACCTGATCCCTCCTACGTG
CTATCGATCCTACTACCACAACCCTCGGTCCGATCCAATCTTAGACTGGGAATGAACTCTGTATG
CTTAGATTGGGAATGAACTCCGTACACCTAAGCCAACCCATGAAACGAGCAGTAGGCGCTCAGCC
AACCGAAAAGGCAGAATGCGCAAGTCGAGGATCAGCCCGATCCCCTTCTGCATGCTACCAACCCC
ACTGCCAGTCCTACTACCACAACCTTTAC
Found at i:28765826 original size:159 final size:157
Alignment explanation
Indices: 28765471--28765917 Score: 461
Period size: 159 Copynumber: 2.8 Consensus size: 157
28765461 AACTCCGTAT
**
28765471 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCAAGAAACGAGTGTGCATGCACTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCAA-AAACGAGTGTGCGGGCACTCAG
* *
28765536 CCGGCC-AGAGAGGCAGAATGC-ATAAGCCAGGGATCGGACCAGTCCCCCCTACGTGCTGTCGAT
65 CCGGCCGAG-GAGGCAGAATGCGA-AAGCCAGGGATCGGCCCGGTCCCCCCTACGTGCTGTCGAT
*** *** * *
28765599 CTTGCTGCTGTAATCCTCGGTCCCATCCAA
128 CCCACTGCCACAACCCTCGGTCCCAGCCAA
* * * *
28765629 TCTTAGAC-TAGGAATGAACTCCGTATGCCTAAGTCAACCCACAAAACGAGCGTGCGGGCACTGA
1 GCTTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCA-AAAACGAGTGTGCGGGCACTCA
* * ** * * *
28765693 GCCGACCGAGGAGGCATAATGCGAAAGCTGGGGATCGGCCCGGTCCCCCTTTGCGTGCTGTCGGT
64 GCCGGCCGAGGAGGCAGAATGCGAAAGCCAGGGATCGGCCCGGTCCCCC-CTACGTGCTGTCGAT
***
28765758 CCCACTGCCACAACCCTCGGT-CCAGCTGGG
128 CCCACTGCCACAACCCTCGGTCCCAGC-CAA
* ** * *
28765788 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGTAACGGGTGTGCGGGCGCTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCA-AAAACGAGTGTGCGGGCACTCAG
* * * * * *
28765853 CCGGTCGAAGAGGCAGAATGCGCAAGCCAGGGATTGGCCCGATCCCCCCTACGTGCTGCCGATCC
65 CCGGCCGAGGAGGCAGAATGCGAAAGCCAGGGATCGGCCCGGTCCCCCCTACGTGCTGTCGATCC
28765918 TGCACCGTAA
Statistics
Matches: 233, Mismatches: 49, Indels: 14
0.79 0.17 0.05
Matches are distributed among these distances:
157 1 0.00
158 109 0.47
159 122 0.52
160 1 0.00
ACGTcount: A:0.23, C:0.31, G:0.28, T:0.18
Consensus pattern (157 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCAAAAACGAGTGTGCGGGCACTCAGC
CGGCCGAGGAGGCAGAATGCGAAAGCCAGGGATCGGCCCGGTCCCCCCTACGTGCTGTCGATCCC
ACTGCCACAACCCTCGGTCCCAGCCAA
Found at i:28765987 original size:26 final size:26
Alignment explanation
Indices: 28765946--28765998 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28765936 CCGATCCGAT
28765946 CTTAGACTGGGAATGAACTTCGTATG
1 CTTAGACTGGGAATGAACTTCGTATG
*
28765972 CTTAGACTAGGG-ATGAATTTCGTATG
1 CTTAGACT-GGGAATGAACTTCGTATG
28765998 C
1 C
28765999 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:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTTCGTATG
Found at i:28772426 original size:26 final size:26
Alignment explanation
Indices: 28772388--28772456 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
28772378 GGCTCAAAAT
28772388 CTTAGAC-TGGGAATGAAATCCGTTTG
1 CTTAGACAT-GGAATGAAATCCGTTTG
* *
28772414 CTTAGACATGGAATGAACTCTGTTTG
1 CTTAGACATGGAATGAAATCCGTTTG
*
28772440 CTTACACATGGAATGAA
1 CTTAGACATGGAATGAA
28772457 CTCTGTATGC
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
26 38 0.97
27 1 0.03
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (26 bp):
CTTAGACATGGAATGAAATCCGTTTG
Found at i:28772457 original size:26 final size:26
Alignment explanation
Indices: 28772397--28772462 Score: 105
Period size: 26 Copynumber: 2.5 Consensus size: 26
28772387 TCTTAGACTG
* * *
28772397 GGAATGAAATCCGTTTGCTTAGACAT
1 GGAATGAACTCTGTTTGCTTACACAT
28772423 GGAATGAACTCTGTTTGCTTACACAT
1 GGAATGAACTCTGTTTGCTTACACAT
28772449 GGAATGAACTCTGT
1 GGAATGAACTCTGT
28772463 ATGCCTAAGC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.32
Consensus pattern (26 bp):
GGAATGAACTCTGTTTGCTTACACAT
Found at i:28772853 original size:159 final size:158
Alignment explanation
Indices: 28772439--28772867 Score: 384
Period size: 159 Copynumber: 2.7 Consensus size: 158
28772429 AACTCTGTTT
* * * * *
28772439 GCTTACACATGGAATGAACTCTGTATGCCTAAGCCAACCCACGAAACGAGCGTACGGGCACTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCACTAAG
* ** * * * *
28772504 TCGGTCGGAGAGATAGAATGTGCAAGTCAGGGATCG-GCTCGGTCCCCCCTGCGTGCTGTCGATC
66 TCGG-CCGAGAGGCAAAATGTGCAAGTCGGGGATCGACCTCGGTCCCCCCTGCGTGCTATCGATC
* ** ** *
28772568 CTACTGTCGTAACCCTCGGTCCGGTCCAA
130 CCACTACCACAACCCTCGGTCCGCTCCAA
* * * * *
28772597 TCTTAGAC-TGGGAATGAACTTCGTATGCATAAGTCAACCCATGAAACAAGCGTGCGGGCACTAA
1 GCTTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCACTAA
* ** * * ** * *
28772661 GCCAACCGAAAAGGCATAATGCACAAG-CAGGGGATCGACCT-GGTCCCTCTCTGCGTGCTATTG
65 GTCGGCCG-AGAGGCAAAATGTGCAAGTC-GGGGATCGACCTCGGTCCC-CCCTGCGTGCTATCG
** ***
28772724 ATCCCGTTACCACAACCCTCGGTCCGACT-GGG
127 ATCCCACTACCACAACCCTCGGTCCG-CTCCAA
* * *
28772756 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCGCTTAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCACTAAG
*
28772821 TCGGCCAGAGAGGCAAAATGTGCAAGTCGGGGATCGACC-CGATCCCC
66 TCGGCC-GAGAGGCAAAATGTGCAAGTCGGGGATCGACCTCGGTCCCC
28772868 TTTACATGCT
Statistics
Matches: 209, Mismatches: 52, Indels: 20
0.74 0.19 0.07
Matches are distributed among these distances:
157 4 0.02
158 80 0.38
159 121 0.58
160 4 0.02
ACGTcount: A:0.25, C:0.29, G:0.27, T:0.19
Consensus pattern (158 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCACTAAG
TCGGCCGAGAGGCAAAATGTGCAAGTCGGGGATCGACCTCGGTCCCCCCTGCGTGCTATCGATCC
CACTACCACAACCCTCGGTCCGCTCCAA
Found at i:28772956 original size:26 final size:26
Alignment explanation
Indices: 28772915--28772967 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28772905 CTGATCTGAT
28772915 CTTAGACTGGGAATGAACACCGTATG
1 CTTAGACTGGGAATGAACACCGTATG
* *
28772941 CTTAGACTAGGG-ATGAACTCTGTATG
1 CTTAGACT-GGGAATGAACACCGTATG
28772967 C
1 C
28772968 CTAAGTCAAC
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:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACACCGTATG
Found at i:28773223 original size:22 final size:22
Alignment explanation
Indices: 28773195--28773240 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
28773185 TCAGCCGACT
28773195 GGAGAGGTAGAATGCGCAAGTC
1 GGAGAGGTAGAATGCGCAAGTC
28773217 GGAGAGGTAGAATGCGCAAGTC
1 GGAGAGGTAGAATGCGCAAGTC
28773239 GG
1 GG
28773241 GGATCGGCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.13, G:0.43, T:0.13
Consensus pattern (22 bp):
GGAGAGGTAGAATGCGCAAGTC
Found at i:28773663 original size:26 final size:26
Alignment explanation
Indices: 28773634--28773686 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28773624 CCGGTCTGAT
*
28773634 CTTAGAC-TGGGAATGAACTCTGTATG
1 CTTAGACAT-GGAATGAACTCCGTATG
28773660 CTTAGACATGGAATGAACTCCGTATG
1 CTTAGACATGGAATGAACTCCGTATG
28773686 C
1 C
28773687 CAAAGCCAAC
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:28773833 original size:514 final size:499
Alignment explanation
Indices: 28773214--28774260 Score: 1224
Period size: 514 Copynumber: 2.1 Consensus size: 499
28773204 GAATGCGCAA
* *
28773214 GTCGGAGAGGTAGAATGCGCAAGTCGGGGATCGGCCCGGTCCCCCCTGCGTGCTGTCGATCCTGC
1 GTCGGAGAGGCAGAATGCGCAAG-CGGGGATCGGCCCGATCCCCCCTGCGTGCTGTCGATCCTGC
* *
28773279 TACAAGAACCCCCGGTCTGATCCATTCTTAGACTGGGAATGAACTCCGTATGCCTAAGTCAACCC
65 TACAAGAACCCCCGGTCCGATCCAATCTTAGACTGGGAATGAACTCCGTATGCCTAAGTCAACCC
* * * *
28773344 ACGAAACAAGCGTACAAACTCTG-ACCCGACCAGAAAGGCATAATGCGCAAGCCAGGGATCGCCC
130 ACAAAACAAGCGTACAAACGCTGAACCAG-CCAGAAAGGCATAATGCGCAAGCCAGGCATCGCCC
* * * * * *
28773408 CGGTCCCCCTCTGCATGCT-ATCGATC-CTGCTGCCACAACACTCGGTCTGGCTAGGGCTTAGAC
194 CGATCCCCCTCTACATGCTGCT-GATCTC-GCTGCCACAACACTCAGTCCGACTAGGGCTTAGAC
* ** ** * *
28773471 ATGGAATGAACTCCCTATGCCTAAGCCAACCAACAAAACGGGTGTACGGGCGTTCAGCTGGCCGG
257 ATGGAATGAACTCCATATGCCTAAGCCAACCAACAAAACGGGCATACGGGCACTCAGCCGACCGG
* * * * * * *
28773536 AGAGGCAGAATGCGCAAGGC-GGGGATCAGTTTGGTCCCCCATACGTGCTGTCGATCCTGCTGTT
322 AGAGACAGAATACGCAA-GCTGGGGATCAGCTCGGTCCCCCATACATGCTATCGATCCTAC---T
* * *
28773600 GGTCTAGCTACATTGACCCTCGGTCCGGTCTGATCTTAGACTGGGAATGAACTCTGTATGCTTAG
383 -GTC--G---CA---ACCCTCGATCCGGTCTGATCTTAGACTAGGAATGAACTCTGTATACTTAG
* * * *
28773665 ACAT-GGAATGAACTCCGTATGCCAAAGCCAACCCACGAAACGAGCGTGTGGGCGCTCAGTCG
439 AC-TGGGAATG-ACTCCATATGCCAAAGCCAACCCACGAAACGAGCGTGCGAGCGCTCAGCCG
* *
28773727 GTCGGAGAGGCAGAATGCGCAAGACGGGGATCGGCTCGATCCCTTCCTGCGTGCTGTCGATCCTG
1 GTCGGAGAGGCAGAATGCGCAAG-CGGGGATCGGCCCGATCCC-CCCTGCGTGCTGTCGATCCTG
* * *
28773792 CTAC-CGCAACCCTCGGTCCGATCCAATCTTAGACTGGGAATGAACTTCGTATGCCTAAGTCAAC
64 CTACAAG-AACCCCCGGTCCGATCCAATCTTAGACTGGGAATGAACTCCGTATGCCTAAGTCAAC
* ** * * * *
28773856 CCATAAAACAAGCGTACAGGCGCTGAACCAGTCGGAAAGGCATAATGTGCAAGCCAGGCATCGGC
128 CCACAAAACAAGCGTACAAACGCTGAACCAGCCAGAAAGGCATAATGCGCAAGCCAGGCATCGCC
* ** * * *
28773921 TCGATCCCCCTCTATGTGCTGCTGGTCTCGCTGCCACAACCCTCAGTCCGACTGGGGCTTAGACA
193 CCGATCCCCCTCTACATGCTGCTGATCTCGCTGCCACAACACTCAGTCCGACTAGGGCTTAGACA
* * * * *
28773986 TGGGATGAACTCCATATGCCTAAGCCAACCCACAGAACGGGCATATGGGCACTCAGCCGATCGGA
258 TGGAATGAACTCCATATGCCTAAGCCAACCAACAAAACGGGCATACGGGCACTCAGCCGACCGGA
*
28774051 GAGACAGAATACGCAAGCTGGGGATCAGCTCGGTCCCCCTTACATGCTATCGATCCTACTGTCGC
323 GAGACAGAATACGCAAGCTGGGGATCAGCTCGGTCCCCCATACATGCTATCGATCCTACTGTCGC
* *
28774116 AACCCTCGATCTGGTCTGATCTTAGACTAGGAATGAACTCTGTATACTTAGACTGGGGATGACTC
388 AACCCTCGATCCGGTCTGATCTTAGACTAGGAATGAACTCTGTATACTTAGACTGGGAATGACTC
* * *
28774181 CATATGCCTAAGTCAACCCATGAAACGAGCGTGCGAGCGCTCAGCCG
453 CATATGCCAAAGCCAACCCACGAAACGAGCGTGCGAGCGCTCAGCCG
** * * *
28774228 ACCAGAGAGACAGGATGCGCAAGCTGGGGATCG
1 GTCGGAGAGGCAGAATGCGCAAGC-GGGGATCG
28774261 AACGAGTGGT
Statistics
Matches: 456, Mismatches: 70, Indels: 28
0.82 0.13 0.05
Matches are distributed among these distances:
500 1 0.00
501 71 0.16
502 53 0.12
505 2 0.00
508 1 0.00
510 3 0.01
511 1 0.00
513 42 0.09
514 276 0.61
515 6 0.01
ACGTcount: A:0.24, C:0.29, G:0.27, T:0.20
Consensus pattern (499 bp):
GTCGGAGAGGCAGAATGCGCAAGCGGGGATCGGCCCGATCCCCCCTGCGTGCTGTCGATCCTGCT
ACAAGAACCCCCGGTCCGATCCAATCTTAGACTGGGAATGAACTCCGTATGCCTAAGTCAACCCA
CAAAACAAGCGTACAAACGCTGAACCAGCCAGAAAGGCATAATGCGCAAGCCAGGCATCGCCCCG
ATCCCCCTCTACATGCTGCTGATCTCGCTGCCACAACACTCAGTCCGACTAGGGCTTAGACATGG
AATGAACTCCATATGCCTAAGCCAACCAACAAAACGGGCATACGGGCACTCAGCCGACCGGAGAG
ACAGAATACGCAAGCTGGGGATCAGCTCGGTCCCCCATACATGCTATCGATCCTACTGTCGCAAC
CCTCGATCCGGTCTGATCTTAGACTAGGAATGAACTCTGTATACTTAGACTGGGAATGACTCCAT
ATGCCAAAGCCAACCCACGAAACGAGCGTGCGAGCGCTCAGCCG
Found at i:28774898 original size:26 final size:26
Alignment explanation
Indices: 28774860--28774912 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28774850 GGCTCAAAAT
*
28774860 CTTAGACTAGGAATGAACTCTGTATG
1 CTTAGACTAGGAATGAACTCCGTATG
28774886 CTTAGAC-ATGGAATGAACTCCGTATG
1 CTTAGACTA-GGAATGAACTCCGTATG
28774912 C
1 C
28774913 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:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (26 bp):
CTTAGACTAGGAATGAACTCCGTATG
Found at i:28775188 original size:159 final size:155
Alignment explanation
Indices: 28774886--28775706 Score: 528
Period size: 159 Copynumber: 5.2 Consensus size: 155
28774876 ACTCTGTATG
* * ** *
28774886 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGCGGGTGCTCAGC
1 CTTAGAC-TGGAATGAACTCCGTATGCCTAAGTCAACCCACAAAATGAGCGTGCGGCCG-TGAGC
** * * * * * * * * *
28774951 CGGCCGGAGAGGCAGAATGTGGAAGCCAGGGAT-GAGCCCGATCCCCCACTGTGTGCTATCGATC
64 CGATCGAAGAGGCATAATGCGCAAG-CGGGGATCGA-CCCGGTCCCCCTCTGCGTGCTACCGATC
* * ** **
28775015 CTACTGCCGTAACCCTCAATCCGGTCTGAT
127 C-GCTGTCACAACCCTCGGTCCGGTCTGAT
* * * *
28775045 CTTAGACTGGGAATGAAGTCCGTATGCATAAGTCAACCCACAAAATGAGTGTGCGGCCGGTGAGT
1 CTTAGACT-GGAATGAACTCCGTATGCCTAAGTCAACCCACAAAATGAGCGTGCGGCC-GTGAGC
*
28775110 CGGTCGAAGAGGCATAATGCGCAAGTCGGGGATCGACCCGGTCCCCCTCTGCGTGCTACCGATCT
64 CGATCGAAGAGGCATAATGCGCAAG-CGGGGATCGACCCGGTCCCCCTCTGCGTGCTACCGATC-
* * *
28775175 CGCTATCACAACCCTCGGTCCGG-ATGAGG
127 CGCTGTCACAACCCTCGGTCCGGTCTGA-T
* * ** * ** ** *
28775204 CTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAATGGGCGTTTGGGTGCTCAGC
1 CTTAGAC-TGGAATGAACTCCGTATGCCTAAGTCAACCCACAAAATGAGCGTGCGGCCG-TGAGC
* * * * **
28775269 CGTTCGAAGAGGCAGAATGCGCAAGCCAGGGAAC-AGCCCGGTCACCCCT-TGCGTGCTGTCGAT
64 CGATCGAAGAGGCATAATGCGCAAG-CGGGGATCGA-CCCGGTC-CCCCTCTGCGTGCTACCGAT
* *
28775332 CCTGCTGTCGCAACCCTCGGTCTGGTCTGAT
126 CC-GCTGTCACAACCCTCGGTCCGGTCTGAT
* *
28775363 CTTAGACTAGGAATGAACTTCGTATGCCTAAGTCAACCCACAAAAGGAGCGTGCAGGCAC-TGAG
1 CTTAGACT-GGAATGAACTCCGTATGCCTAAGTCAACCCACAAAATGAGCGTGC-GGC-CGTGAG
* * * * * *
28775427 CCGACCGGAGAGGCATAATGCGCAAGCTGAGGATCGACCCGATCCCCCTCTACGTGCTACCGGTC
63 CCGATCGAAGAGGCATAATGCGCAAGC-GGGGATCGACCCGGTCCCCCTCTGCGTGCTACCGAT-
* * * **
28775492 CCGCTGCCACAACCCTCGGTTC-GACTGGGG
126 CCGCTGTCACAACCCTCGGTCCGGTCT-GAT
* * * ** * ** * *
28775522 CTTAGACATGGAATGAATTCCCTATGCCTAAGCCAACCCATGAAATGGGCGTGCAAACAC-TCAA
1 CTTAGAC-TGGAATGAACTCCGTATGCCTAAGTCAACCCACAAAATGAGCGTGC-GGC-CGTGAG
* * * * * * * * * *
28775586 CCGGTC-AGAGAGGTAGAATACGCAAGCCGAGGATCGGCCTGATCCCCC-CTGCGTTCTATCGAT
63 CCGATCGA-AGAGGCATAATGCGCAAG-CGGGGATCGACCCGGTCCCCCTCTGCGTGCTACCGAT
* * * *
28775649 CCTGCTG-CTGCAACCCTCGATCCAGTCGGAT
126 CC-GCTGTC-ACAACCCTCGGTCCGGTCTGAT
*
28775680 CTTAGACTGGGAATGAACTTCGTATGC
1 CTTAGACT-GGAATGAACTCCGTATGC
28775707 TTAGACTGGG
Statistics
Matches: 516, Mismatches: 120, Indels: 53
0.75 0.17 0.08
Matches are distributed among these distances:
157 4 0.01
158 66 0.13
159 426 0.83
160 20 0.04
ACGTcount: A:0.24, C:0.29, G:0.27, T:0.20
Consensus pattern (155 bp):
CTTAGACTGGAATGAACTCCGTATGCCTAAGTCAACCCACAAAATGAGCGTGCGGCCGTGAGCCG
ATCGAAGAGGCATAATGCGCAAGCGGGGATCGACCCGGTCCCCCTCTGCGTGCTACCGATCCGCT
GTCACAACCCTCGGTCCGGTCTGAT
Found at i:28775463 original size:318 final size:315
Alignment explanation
Indices: 28774885--28775706 Score: 1015
Period size: 318 Copynumber: 2.6 Consensus size: 315
28774875 AACTCTGTAT
* * *
28774885 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGCGGGTGCTCAG
1 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAATGGGCGTGCGGGTGCTCAG
* * * * * *
28774950 CCGGCCGGAGAGGCAGAATGTGGAAGCCAGGGATGAGCCCGATCCCCCACTGTGTGCTATCGATC
66 CCGGTCGAAGAGGCAGAATGCGCAAGCCAGGGATCAGCCCGATCCCCC-CTGCGTGCTATCGATC
* * * * *
28775015 CTACTGCCGTAACCCTCAATCCGGTCTGATCTTAGACTGGGAATGAAGTCCGTATGCATAAGTCA
130 CTGCTG-CGCAACCCTCGATCCGGTCTGATCTTAGACTGGGAATGAACTTCGTATGCATAAGTCA
* * * ** *
28775080 ACCCACAAAATGAGTGTGCGGCCGGTGAGTCGGTCGAAGAGGCATAATGCGCAAGTCGGGGATCG
194 ACCCACAAAAGGAGCGTGCGGCC-GTGAGCCGACCGAAGAGGCATAATGCGCAAGTCGAGGATCG
* * * *
28775145 ACCCGGTCCCCCTCTGCGTGCTACCGATCTCGCTATCACAACCCTCGGTCCGGA-TGAG
258 ACCCGATCCCCCTCTACGTGCTACCGATCCCGCTACCACAACCCTCGGTCC-GACTGAG
**
28775203 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAATGGGCGTTTGGGTGCTCAG
1 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAATGGGCGTGCGGGTGCTCAG
* * * * *
28775268 CCGTTCGAAGAGGCAGAATGCGCAAGCCAGGGAACAGCCCGGTCACCCCTTGCGTGCTGTCGATC
66 CCGGTCGAAGAGGCAGAATGCGCAAGCCAGGGATCAGCCCGATC-CCCCCTGCGTGCTATCGATC
* * * *
28775333 CTGCTGTCGCAACCCTCGGTCTGGTCTGATCTTAGACTAGGAATGAACTTCGTATGCCTAAGTCA
130 CTGCTG-CGCAACCCTCGATCCGGTCTGATCTTAGACTGGGAATGAACTTCGTATGCATAAGTCA
*
28775398 ACCCACAAAAGGAGCGTGCAGGCAC-TGAGCCGACCGGAGAGGCATAATGCGCAAG-CTGAGGAT
194 ACCCACAAAAGGAGCGTGC-GGC-CGTGAGCCGACCGAAGAGGCATAATGCGCAAGTC-GAGGAT
* * * *
28775461 CGACCCGATCCCCCTCTACGTGCTACCGGTCCCGCTGCCACAACCCTCGGTTCGACTGGG
256 CGACCCGATCCCCCTCTACGTGCTACCGATCCCGCTACCACAACCCTCGGTCCGACTGAG
* ***** *
28775521 GCTTAGACATGGAATGAATTCCCTATGCCTAAGCCAACCCATGAAATGGGCGTGCAAACACTCAA
1 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAATGGGCGTGCGGGTGCTCAG
* * * * *
28775586 CCGGTC-AGAGAGGTAGAATACGCAAGCC-GAGGATCGGCCTGATCCCCCCTGCGTTCTATCGAT
66 CCGGTCGA-AGAGGCAGAATGCGCAAGCCAG-GGATCAGCCCGATCCCCCCTGCGTGCTATCGAT
* *
28775649 CCTGCTGCTGCAACCCTCGATCCAGTCGGATCTTAGACTGGGAATGAACTTCGTATGC
129 CCTGCTGC-GCAACCCTCGATCCGGTCTGATCTTAGACTGGGAATGAACTTCGTATGC
28775707 TTAGACTGGG
Statistics
Matches: 431, Mismatches: 65, Indels: 17
0.84 0.13 0.03
Matches are distributed among these distances:
316 1 0.00
317 72 0.17
318 350 0.81
319 7 0.02
320 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.27, T:0.20
Consensus pattern (315 bp):
GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAATGGGCGTGCGGGTGCTCAG
CCGGTCGAAGAGGCAGAATGCGCAAGCCAGGGATCAGCCCGATCCCCCCTGCGTGCTATCGATCC
TGCTGCGCAACCCTCGATCCGGTCTGATCTTAGACTGGGAATGAACTTCGTATGCATAAGTCAAC
CCACAAAAGGAGCGTGCGGCCGTGAGCCGACCGAAGAGGCATAATGCGCAAGTCGAGGATCGACC
CGATCCCCCTCTACGTGCTACCGATCCCGCTACCACAACCCTCGGTCCGACTGAG
Found at i:28776441 original size:26 final size:26
Alignment explanation
Indices: 28776389--28776441 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28776379 GGCTGAAATT
* *
28776389 CTTAGACTGTGAATGAACTCTGTATG
1 CTTAGACTGTGAATGAACTCCGCATG
28776415 CTTAGACATG-GAATGAACTCCGCATG
1 CTTAGAC-TGTGAATGAACTCCGCATG
28776441 C
1 C
28776442 CTAAGCTGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 22 0.92
27 2 0.08
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (26 bp):
CTTAGACTGTGAATGAACTCCGCATG
Found at i:28777412 original size:26 final size:26
Alignment explanation
Indices: 28777374--28777426 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28777364 GGCTCAAAAT
28777374 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
*
28777400 CTTAGACAT-GGAATGAACTCTGTATG
1 CTTAGAC-TGGGAATGAACTCCGTATG
28777426 C
1 C
28777427 CTAGGCCAAC
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):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28777925 original size:26 final size:25
Alignment explanation
Indices: 28777874--28777925 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
28777864 CCGATCTGAT
**
28777874 CTTAGACTGGGAATGAACTCGTATG
1 CTTAGACTGGGAATGAACTCAAATG
*
28777899 CTTAGACTGGGGATGAACTCCAAATG
1 CTTAGACTGGGAATGAACT-CAAATG
28777925 C
1 C
28777926 CTAAGTCAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (25 bp):
CTTAGACTGGGAATGAACTCAAATG
Found at i:28778980 original size:26 final size:26
Alignment explanation
Indices: 28778951--28779003 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28778941 CACTCAAAAT
28778951 CTTAGAC-TGGGAATGAACTCCGTATG
1 CTTAGACAT-GGAATGAACTCCGTATG
*
28778977 CTTAGACATGGAATGAACTCTGTATG
1 CTTAGACATGGAATGAACTCCGTATG
28779003 C
1 C
28779004 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:28779331 original size:159 final size:157
Alignment explanation
Indices: 28778976--28779416 Score: 451
Period size: 159 Copynumber: 2.8 Consensus size: 157
28778966 AACTCCGTAT
* * *
28778976 GCTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCAACGAAATGAGCGTGCGGGCGCTCAG
1 GCTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCACGAAATGAGCGTGCGGGCACTAAG
* * * * * *
28779041 CCGATCGGAGAGGTAGAATGGGCAAGTCGGGGATCGACCCAATCCCCCCTGCGTGCTGTCAATCC
66 CCGACCGGAGAGGCAGAATGTGCAAG-CCGGGATCGACCCAATCCCCCATGCGTGCTGCCAATCC
* * *
28779106 TACTGCCGCAACCCTCGGTCTGATCCGA
130 TACTGCCACAACACTCAGTCTGATCCGA
* * *
28779134 TCTTAGAC-TGGGAATGAACTCTGTATGCATAAGTCAACCCACGAAATGAGCGTGCGGGCACTAA
1 GCTTAGACAT-GGAATGAACTCTGTATGCCTAAGCCAACCCACGAAATGAGCGTGCGGGCACTAA
* * * ** * *
28779198 GCCGGCCGAAGAGGCATAATGTGCAAGCCGGTGATCGGTCCAGTCCCCCTATGCGTGCTGCCGAT
65 GCCGACCGGAGAGGCAGAATGTGCAAGCCGG-GATCGACCCAATCCCCC-ATGCGTGCTGCCAAT
* * * *
28779263 -CTCGCTGCCACAACACTCAGTCTG-GCTGGG
128 CCT-ACTGCCACAACACTCAGTCTGATC-CGA
** * * *
28779293 GCTTAGACATGGAATGAACTCCCTATGCCTAGGCCAACCCACGAAA-CAGGCGTACGGGCACTCA
1 GCTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCACGAAATGA-GCGTGCGGGCACT-A
** * *
28779357 A-CCGACCGGAGAGGCAGAATGTGCAAGCCAGGGATCGACCCGGTCCCCCCTGTGTGCTGC
64 AGCCGACCGGAGAGGCAGAATGTGCAAGCC-GGGATCGACCCAATCCCCCATGCGTGCTGC
28779417 TGATCTTACT
Statistics
Matches: 232, Mismatches: 42, Indels: 18
0.79 0.14 0.06
Matches are distributed among these distances:
157 4 0.02
158 104 0.45
159 119 0.51
160 5 0.02
ACGTcount: A:0.24, C:0.30, G:0.28, T:0.18
Consensus pattern (157 bp):
GCTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCACGAAATGAGCGTGCGGGCACTAAG
CCGACCGGAGAGGCAGAATGTGCAAGCCGGGATCGACCCAATCCCCCATGCGTGCTGCCAATCCT
ACTGCCACAACACTCAGTCTGATCCGA
Found at i:28779502 original size:26 final size:26
Alignment explanation
Indices: 28779451--28779503 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
28779441 CCGGTCCGAT
*
28779451 CTTAGACTGGGAATAAACTCTATATG
1 CTTAGACTGGGAATAAACTCCATATG
* * *
28779477 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGGAATAAACTCCATATG
28779503 C
1 C
28779504 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):
CTTAGACTGGGAATAAACTCCATATG
Found at i:28780343 original size:26 final size:26
Alignment explanation
Indices: 28780292--28780344 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28780282 CTAGTCCAAT
*
28780292 CTTAGACTGGGAATGAACTTCATATG
1 CTTAGACTGGGAATGAACTCCATATG
* *
28780318 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCATATG
28780344 C
1 C
28780345 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:28785959 original size:159 final size:158
Alignment explanation
Indices: 28785606--28786003 Score: 408
Period size: 159 Copynumber: 2.5 Consensus size: 158
28785596 TCCGTATGCC
* * *
28785606 TAGACATGGAATGAGCTCCGTATGCCTAAGCCAACCCATGAAATGAGCGTGCGGGTGCTCAGCCG
1 TAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGTGCTCAGCCG
* * * * * * **
28785671 GCCGGAGAGGTAGAATGCACAACTTAGGGATCGGCTCGATCCCCCCTGCGTGCTGTCGATCGTGC
66 ACCGAAGAGGCAGAATGCACAACTTAGGGATCGCCTAGATCCCCCCTACGTGCTGTCGATCCCGC
* * * *
28785736 TATCGCAACTCTCAGTCCGATCTGATCT
131 TACCACAACCCTCAGTCCGATCTGAGCT
* * * *
28785764 TAGAC-TGGGAATGAACTCCGTATGCATAAGTCAACCCACGAAACGAGCATGCGGGTGCTGAGCC
1 TAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGTGCTCAGCC
** * * * *
28785828 GACCGAAGAGGCATCATGCGCGAGC-TGGGGATCGACCTAG-TCCCCCTCTACGTGCTGTCGGTC
65 GACCGAAGAGGCAGAATGCAC-AACTTAGGGATCG-CCTAGATCCCCC-CTACGTGCTGTCGATC
* * * *
28785891 CCGCTGCCACAACCCTCGGTCTGA-CTAGGGCT
127 CCGCTACCACAACCCTCAGTCCGATCT-GAGCT
* * *
28785923 TAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGGGCGTGCGGGCGCTCAGCCG
1 TAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGTGCTCAGCCG
** *
28785988 GTCGGAGAGGCAGAAT
66 ACCGAAGAGGCAGAAT
28786004 ATGCAAGTTG
Statistics
Matches: 193, Mismatches: 41, Indels: 11
0.79 0.17 0.04
Matches are distributed among these distances:
157 1 0.01
158 86 0.45
159 105 0.54
160 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.29, T:0.19
Consensus pattern (158 bp):
TAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGTGCTCAGCCG
ACCGAAGAGGCAGAATGCACAACTTAGGGATCGCCTAGATCCCCCCTACGTGCTGTCGATCCCGC
TACCACAACCCTCAGTCCGATCTGAGCT
Found at i:28786016 original size:159 final size:158
Alignment explanation
Indices: 28785606--28786105 Score: 440
Period size: 158 Copynumber: 3.2 Consensus size: 158
28785596 TCCGTATGCC
* * *
28785606 TAGACATGGAATGAGCTCCGTATGCCTAAGCCAACCCATGAAATGAGCGTGCGGGTGCTCAGCCG
1 TAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGTGCTCAGCCG
* * * * * * * **
28785671 GCCGGAGAGGTAGAATGCACAACTTAGGGATCGGCTCGATCCCCCCTGCGTGCTGTCGATCGTGC
66 GCCGGAGAGGCAGAATGCGCAAGTTGGGGATCGCCTAGATCCCCCCTACGTGCTGTCGATCCCGC
* * * *
28785736 TATCGCAACTCTCAGTCCGATCTGATCT
131 TACCACAACCCTCAGTCCGATCTGAGCT
* * * *
28785764 TAGAC-TGGGAATGAACTCCGTATGCATAAGTCAACCCACGAAACGAGCATGCGGGTGCTGAGCC
1 TAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGTGCTCAGCC
* * ** * * *
28785828 GACCGAAGAGGCATCATGCGCGAGCTGGGGATCGACCTAG-TCCCCCTCTACGTGCTGTCGGTCC
65 GGCCGGAGAGGCAGAATGCGCAAGTTGGGGATCG-CCTAGATCCCCC-CTACGTGCTGTCGATCC
* * * *
28785892 CGCTGCCACAACCCTCGGTCTGA-CTAGGGCT
128 CGCTACCACAACCCTCAGTCCGATCT-GAGCT
* * *
28785923 TAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGGGCGTGCGGGCGCTCAGCCG
1 TAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGTGCTCAGCCG
* ** * * *
28785988 GTCGGAGAGGCAGAATATGCAAGTTGGGGATCAG-CTCGAT-CCCCCTGGCATGCTG-CGGATCC
66 GCCGGAGAGGCAGAATGCGCAAGTTGGGGATC-GCCTAGATCCCCCCT-ACGTGCTGTC-GATCC
** * * * * *
28786050 TACTGCCGCAACCCTCGGTCTCGTTC-GATCT
128 CGCTACCACAACCCTCAGTC-CGATCTGAGCT
28786081 TAGAC-TGGGAATGAACTCCGTATGC
1 TAGACAT-GGAATGAACTCCGTATGC
28786106 TTAGACTGGG
Statistics
Matches: 271, Mismatches: 59, Indels: 24
0.77 0.17 0.07
Matches are distributed among these distances:
157 5 0.02
158 146 0.54
159 117 0.43
160 3 0.01
ACGTcount: A:0.22, C:0.30, G:0.28, T:0.20
Consensus pattern (158 bp):
TAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGTGCTCAGCCG
GCCGGAGAGGCAGAATGCGCAAGTTGGGGATCGCCTAGATCCCCCCTACGTGCTGTCGATCCCGC
TACCACAACCCTCAGTCCGATCTGAGCT
Found at i:28786115 original size:26 final size:26
Alignment explanation
Indices: 28786079--28786131 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
28786069 CTCGTTCGAT
28786079 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
*
28786105 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28786131 C
1 C
28786132 CTAAGTTAAC
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:0.21, G:0.28, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28786957 original size:159 final size:160
Alignment explanation
Indices: 28786605--28786949 Score: 401
Period size: 159 Copynumber: 2.2 Consensus size: 160
28786595 CCTTCAGTGT
* * * * *
28786605 GGTCTGATCTTAGACTGGGAATGAACTCCATATGCCTAAGTCAACCCATGAAACGATCGTGCGGG
1 GGTCTGATCTTAGACTGGGAATGAACTCCATATGCCCAAGCCAACCCACGAAACGAGCGTACGGG
* * * * * * * *
28786670 TACTGAGCCGGCCGGAGAGGCATAATGCGTAAGCCGGGGATCAACCCGGTCCCCCTTTGTGTGCT
66 CACTCAGCCGGCCGGAGAGGCAAAATACGCAAGCCAGGGATCAACCCGGTCCCCCTCTGCGTGCT
*
28786735 GTCGATCCCGCTACCACAACCCTCTGTTCA
131 GTCGATCCCGCTACCACAACCCTCTGATCA
* ** * * * *
28786765 GCTGGGA-ATTAG-TTGTGGAATGAACTCCCTATGCCCAAGCCAACCCACGAAACGCGCGTACGG
1 GGTCTGATCTTAGACTG-GGAATGAACTCCATATGCCCAAGCCAACCCACGAAACGAGCGTACGG
* *
28786828 GCACTCAGCTGGCCGGAGAGGCAAAATACGCAAGCCAGGGATCAGCCCGGTCCCCCTCTGCGTGC
65 GCACTCAGCCGGCCGGAGAGGCAAAATACGCAAGCCAGGGATCAACCCGGTCCCCCTCTGCGTGC
* * * *
28786893 TG-CTGATGCTGCTACCGCAACCCTC-GATCC
130 TGTC-GATCCCGCTACCACAACCCTCTGATCA
28786923 GGTCTGATCTTAGACTGGGAATGAACT
1 GGTCTGATCTTAGACTGGGAATGAACT
28786950 ACGTATGCTT
Statistics
Matches: 149, Mismatches: 32, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
158 10 0.07
159 133 0.89
160 6 0.04
ACGTcount: A:0.23, C:0.30, G:0.27, T:0.20
Consensus pattern (160 bp):
GGTCTGATCTTAGACTGGGAATGAACTCCATATGCCCAAGCCAACCCACGAAACGAGCGTACGGG
CACTCAGCCGGCCGGAGAGGCAAAATACGCAAGCCAGGGATCAACCCGGTCCCCCTCTGCGTGCT
GTCGATCCCGCTACCACAACCCTCTGATCA
Found at i:28786967 original size:26 final size:26
Alignment explanation
Indices: 28786931--28786983 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
28786921 CCGGTCTGAT
28786931 CTTAGACTGGGAATGAACTACGTATG
1 CTTAGACTGGGAATGAACTACGTATG
* *
28786957 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTACGTATG
28786983 C
1 C
28786984 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:0.19, G:0.28, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTACGTATG
Found at i:28787692 original size:26 final size:26
Alignment explanation
Indices: 28787654--28787705 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
28787644 GGGTCAAAAT
28787654 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28787680 CTTAGACAT-GGAATGAACTCCGTATG
1 CTTAGAC-TGGGAATGAACTCCGTATG
28787706 ACTAAGCCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28788231 original size:26 final size:26
Alignment explanation
Indices: 28788153--28788224 Score: 126
Period size: 26 Copynumber: 2.8 Consensus size: 26
28788143 TCGGTCTGAT
*
28788153 CTTAGACTGGGAATGAACTCTGTATG
1 CTTAGACTGGGGATGAACTCTGTATG
*
28788179 CTTAGACTAGGGATGAACTCTGTATG
1 CTTAGACTGGGGATGAACTCTGTATG
28788205 CTTAGACTGGGGATGAACTC
1 CTTAGACTGGGGATGAACTC
28788225 CATATGCCTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (26 bp):
CTTAGACTGGGGATGAACTCTGTATG
Found at i:28788948 original size:26 final size:26
Alignment explanation
Indices: 28788912--28788964 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
28788902 CCGGTCCGAC
28788912 CTTAGACTGGGAATGAACTTCGTATG
1 CTTAGACTGGGAATGAACTTCGTATG
*
28788938 CTTAGACTGGGGATGAACTTCGTATG
1 CTTAGACTGGGAATGAACTTCGTATG
28788964 C
1 C
28788965 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:0.17, G:0.28, T:0.30
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTTCGTATG
Found at i:28790030 original size:159 final size:157
Alignment explanation
Indices: 28789661--28790162 Score: 442
Period size: 158 Copynumber: 3.2 Consensus size: 157
28789651 ACTCCATATA
* *** *
28789661 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCTACGAAACGAGCACACGGGCGCTCAAC
1 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAGC
* * * * *
28789726 TGGTCGGAGAGGCAGAATGCGCAAGCCGAGGATCGACCCGATCCCTCTTGTGTGCTGTCGATCCT
66 CGGTCGGAGAGGCAGAATGCGCAAGCCGGGGATCGACCCGGTCCCCCTTGTGTGCTGTCGATCCC
* **
28789791 GCTGCTGCAACCCTCAATCTGGTCCAAT
131 ACTGCCACAACCCTC-ATCTGGTCCAAT
* * * * ** * *
28789819 CTTAGATAGGGAATGAACTTCGTATACCTAAGTTAACCCACAAAACGAGCGTGCGGGCGCTGAGC
1 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAGC
* * * *
28789884 CGGTCGAAGAGGCATAATGCGCAAGCCGGGGATCAACCCGGTCCCCCTTTTCGTGCTGTC-AGTC
66 CGGTCGGAGAGGCAGAATGCGCAAGCCGGGGATCGACCCGGTCCCCCTTGT-GTGCTGTCGA-TC
28789948 CCACTGCCACAA-CC-C-TC-GGTCCAACT
129 CCACTGCCACAACCCTCATCTGGTCCAA-T
* * * *
28789974 GGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAATGGGCGTGCGGGCGCT
1 ----CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCT
* ** * * ** *
28790039 CAGCCGG-CAGGAGAGGCAGAATACAAAAGCCGGGGATCGACCTGGTCCCCCCTACGTGCTGCCG
62 CAGCCGGTC-GGAGAGGCAGAATGCGCAAGCCGGGGATCGACCCGGTCCCCCTTGTGTGCTGTCG
* * * * * * **
28790103 ATCCTATTGTCGCAACCCTCGGTCTAGTCTGAT
126 ATCCCACTGCCACAACCCTC-ATCTGGTCCAAT
*
28790136 CTTAGAC-TGGGGATGAACTCCGTATGC
1 CTTAGACAT-GGAATGAACTCCGTATGC
28790163 TTAGACTGGG
Statistics
Matches: 272, Mismatches: 57, Indels: 30
0.76 0.16 0.08
Matches are distributed among these distances:
154 7 0.03
155 3 0.01
157 2 0.01
158 139 0.51
159 113 0.42
160 1 0.00
162 3 0.01
163 4 0.01
ACGTcount: A:0.24, C:0.30, G:0.27, T:0.20
Consensus pattern (157 bp):
CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAGC
CGGTCGGAGAGGCAGAATGCGCAAGCCGGGGATCGACCCGGTCCCCCTTGTGTGCTGTCGATCCC
ACTGCCACAACCCTCATCTGGTCCAAT
Found at i:28790172 original size:26 final size:26
Alignment explanation
Indices: 28790136--28790188 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
28790126 CTAGTCTGAT
28790136 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGGGATGAACTCCGTATG
28790162 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGGGATGAACTCCGTATG
28790188 C
1 C
28790189 CTAAGTCAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGGATGAACTCCGTATG
Found at i:28790896 original size:26 final size:26
Alignment explanation
Indices: 28790858--28790910 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28790848 GGCTCAAAAT
28790858 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
*
28790884 CTTAGACAT-GGAATGAACTCTGTATG
1 CTTAGAC-TGGGAATGAACTCCGTATG
28790910 C
1 C
28790911 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):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28791384 original size:158 final size:155
Alignment explanation
Indices: 28790884--28791384 Score: 431
Period size: 158 Copynumber: 3.2 Consensus size: 155
28790874 ACTCCGTATG
* * * * *
28790884 CTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCACGAAACGAGCATGCGGGCGCTCAGC
1 CTTAGACATGGAATGAACTCCGTATGCCTAAGCTAACCCACGAAATGAGCGTGCGAGCGCTCAGC
* * * * * * * *
28790949 CGACCAGAGAGGCAGAATGCACAAGCCAGAGATCAGTCCGGTCCCCCCTGCATGTTGTCAATCCA
66 CGACCGGAGAGGCAGAATACGCAAGCC-GGGATCGGTCCGGTCCCCCCTGCGTGCTGTC-ATCCT
28791014 G--ATGCAGCAACCCTCGGTCCAGTCTGAT
129 GCTAT-C-GCAACCCTCGGTCCA-TCTGAT
* * * * * * *
28791042 CTTACAC-TGGGAATGAACTCCGTATGCATAAGTTAAGCCATGAAATGAGCGTAC-AGACGCTGA
1 CTTAGACAT-GGAATGAACTCCGTATGCCTAAGCTAACCCACGAAATGAGCGTGCGAG-CGCTCA
* * * * * * * *
28791105 GCTGACCGAATAGGCATAATACGCAAGGCGGGATCGGCCCGGTCCCCCTCTGTGTGCTATCAGTC
64 GCCGACCGGAGAGGCAGAATACGCAAGCCGGGATCGGTCCGGTCCCCC-CTGCGTGCTGTCA-TC
* * *** **
28791170 CTGCTACCACAACCCTCGGTCTGGCTGGGG
127 CTGCTATCGCAACCCTCGGTCCATCT-GAT
* *
28791200 CTTAGACATGGAATGAACT-GGCTATGCCTAAGCTAACCCACGAAATGGGCGTGCGAGCGCTCAG
1 CTTAGACATGGAATGAACTCCG-TATGCCTAAGCTAACCCACGAAATGAGCGTGCGAGCGCTCAG
** * *
28791264 CCGGTCGGAGAGGCAGAATACGCAAGTCGGGGATCGGTTCGGTCCCCCCTGCGTGCTGTCGATCC
65 CCGACCGGAGAGGCAGAATACGCAAG-CCGGGATCGGTCCGGTCCCCCCTGCGTGCTGTC-ATCC
*
28791329 TGCTATCGCAACCCTTGGTCCAATCCT-AT
128 TGCTATCGCAACCCTCGGTCC-AT-CTGAT
28791358 CTTAGAC-TGGGAATGAACTCCGTATGC
1 CTTAGACAT-GGAATGAACTCCGTATGC
28791385 TTAGACTGGG
Statistics
Matches: 262, Mismatches: 65, Indels: 32
0.73 0.18 0.09
Matches are distributed among these distances:
157 23 0.09
158 213 0.81
159 23 0.09
160 3 0.01
ACGTcount: A:0.24, C:0.29, G:0.27, T:0.20
Consensus pattern (155 bp):
CTTAGACATGGAATGAACTCCGTATGCCTAAGCTAACCCACGAAATGAGCGTGCGAGCGCTCAGC
CGACCGGAGAGGCAGAATACGCAAGCCGGGATCGGTCCGGTCCCCCCTGCGTGCTGTCATCCTGC
TATCGCAACCCTCGGTCCATCTGAT
Found at i:28791394 original size:26 final size:26
Alignment explanation
Indices: 28791358--28791410 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
28791348 CCAATCCTAT
28791358 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
* *
28791384 CTTAGACTGGGGATGAACTCTGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28791410 C
1 C
28791411 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:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28791781 original size:26 final size:26
Alignment explanation
Indices: 28791752--28791801 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
28791742 CTGATCCGAT
28791752 CTTAGACT-AGGAATGAACTCCGTACG
1 CTTAGA-TGAGGAATGAACTCCGTACG
* *
28791778 CTTAGATGGGGTATGAACTCCGTA
1 CTTAGATGAGGAATGAACTCCGTA
28791802 TGCGTAAGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 20 0.95
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (26 bp):
CTTAGATGAGGAATGAACTCCGTACG
Found at i:28792503 original size:159 final size:157
Alignment explanation
Indices: 28792133--28792635 Score: 467
Period size: 158 Copynumber: 3.2 Consensus size: 157
28792123 AACTCTGTAT
* * * * * *
28792133 GCTTGGACATGGAATGAACTCTGTATGCCTAAGCCAACCCACGAAACGAGTGTGTGGGCGCTCAA
1 GCTTAGAC-TGGAATGAACTCCGTATGCCTAAGCCAACCCACTAAACGAGCGTGCGGGCACTCAA
* * * * ** *
28792198 CCGGTCGGAGAGGCAGAATGCGCAAGTCGGGGATCGACCCATTCCCCC-CTGCATGCAATCGA-C
65 CCGATCGGAGAGGCAAAATGCACAAGCCGGGGATCGACCCGGTCCCCCTCTGCGTGCAATCGATC
** * * *
28792261 CCTGCTTTCTCAACCCTCGATCCGGTCCGA
130 CC-GCTGCCACAACCCTCGGTCCGG-CTGA
* * * * * *
28792291 TCTTAGACTGGAAATAAACTCCGTATGCATAAGTCAACCCA-TGAAATGAGCGTGCGGGCACTGA
1 GCTTAGACTGG-AATGAACTCCGTATGCCTAAGCCAACCCACT-AAACGAGCGTGCGGGCACTCA
* * * * * **
28792355 GCCGATCGAAGAGGCATAATGCACAAGCCGGGGATCGGCCCGGTCCCCCTCTGTGTGCACCCGAT
64 ACCGATCGGAGAGGCAAAATGCACAAGCCGGGGATCGACCCGGTCCCCCTCTGCGTGCAATCGAT
* *
28792420 CCCGCTGCCACAACCCTCGGTCTGGCTGGG
129 CCCGCTGCCACAACCCTCGGTCCGGCT-GA
* * *
28792450 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACTAAACGGGCGTGCGGTCACTCAA
1 GCTTAGAC-TGGAATGAACTCCGTATGCCTAAGCCAACCCACTAAACGAGCGTGCGGGCACTCAA
* * * **
28792515 CCGA-CTGGAGAGGTAAAATGCACAAGCCGGTGATCAACCCGGTCCCCCT-TGCGTGCTGTCGAT
65 CCGATC-GGAGAGGCAAAATGCACAAGCCGGGGATCGACCCGGTCCCCCTCTGCGTGCAATCGAT
* * *
28792578 CCTGCTGCCGCAACCCTAGGTCCGGTCTGA
129 CCCGCTGCCACAACCCTCGGTCCGG-CTGA
* *
28792608 TCTTAGACTGGGAATGAACTCCATATGC
1 GCTTAGACT-GGAATGAACTCCGTATGC
28792636 TTAGACTGGG
Statistics
Matches: 276, Mismatches: 59, Indels: 20
0.78 0.17 0.06
Matches are distributed among these distances:
157 4 0.01
158 145 0.53
159 120 0.43
160 7 0.03
ACGTcount: A:0.23, C:0.31, G:0.26, T:0.19
Consensus pattern (157 bp):
GCTTAGACTGGAATGAACTCCGTATGCCTAAGCCAACCCACTAAACGAGCGTGCGGGCACTCAAC
CGATCGGAGAGGCAAAATGCACAAGCCGGGGATCGACCCGGTCCCCCTCTGCGTGCAATCGATCC
CGCTGCCACAACCCTCGGTCCGGCTGA
Found at i:28792990 original size:170 final size:170
Alignment explanation
Indices: 28792637--28793001 Score: 377
Period size: 170 Copynumber: 2.1 Consensus size: 170
28792627 TCCATATGCT
* * * *
28792637 TAGACTGGGGATGAACTCTGT-TGCCAAAGTCAACCCACGAAACGAGCGTGCAAGTGCTCAGCCA
1 TAGAATGGGAATGAACTCTGTATGCCAAAGTCAACCAACGAAACGAGCGTGCAAGCGCTCAGCCA
* * *
28792701 GTCGGAGAGGCATAATGCGCAAGTCAGGGATCAACTCGGGCCCCCTCTGCGTGCTGCCGATCCCG
66 GTCGGAGAGGCAGAATGCGCAAGCCAGGGATCAACTCCGGCCCCCTCTGCGTGCTGCCGATCCCG
* *
28792766 CTGCCGGTCCTGCTGCAACAACCCTCGGTTCGGCTACGACT
131 CTGCCGGTCCTGCTGCAACAACCCTCGGTCCGGCTAC-ACG
* * ** *
28792807 TAGACAT-GGAATGAACTCCGTATGCCTAA-TCCAACCAACGAAACGAGCGTGCGGGCGCTCAGT
1 TAGA-ATGGGAATGAACTCTGTATGCCAAAGT-CAACCAACGAAACGAGCGTGCAAGCGCTCAGC
** * *
28792870 C-GATCGGAGAGGCAGAATGCGCAAGCC-GAGGATCGGC-CCGGTCCCCTCTGCGTGCTGTCGAT
64 CAG-TCGGAGAGGCAGAATGCGCAAGCCAG-GGATCAACTCCGGCCCCCTCTGCGTGCTGCCGAT
* ** ** *
28792932 CCTGCTGTTGGTCCTGCTGTC-GTAACCCTTGGTCCGGTCTA-ATCG
127 CCCGCTGCCGGTCCTGCTG-CAACAACCCTCGGTCCGG-CTACA-CG
*
28792977 TAGATTGGGAATGAACTCTGTATGC
1 TAGAATGGGAATGAACTCTGTATGC
28793002 TTAGACATGG
Statistics
Matches: 160, Mismatches: 26, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
169 2 0.01
170 91 0.57
171 67 0.42
ACGTcount: A:0.21, C:0.29, G:0.29, T:0.21
Consensus pattern (170 bp):
TAGAATGGGAATGAACTCTGTATGCCAAAGTCAACCAACGAAACGAGCGTGCAAGCGCTCAGCCA
GTCGGAGAGGCAGAATGCGCAAGCCAGGGATCAACTCCGGCCCCCTCTGCGTGCTGCCGATCCCG
CTGCCGGTCCTGCTGCAACAACCCTCGGTCCGGCTACACG
Found at i:28793529 original size:26 final size:26
Alignment explanation
Indices: 28793500--28793552 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28793490 CCGGTCCGAT
28793500 CTTAGAC-TGGGAATGAACTCCGTATG
1 CTTAGACAT-GGAATGAACTCCGTATG
*
28793526 CTTAGACATGGAATGAACTCTGTATG
1 CTTAGACATGGAATGAACTCCGTATG
28793552 C
1 C
28793553 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:28793629 original size:525 final size:521
Alignment explanation
Indices: 28792635--28794205 Score: 1532
Period size: 525 Copynumber: 3.0 Consensus size: 521
28792625 ACTCCATATG
* ** *
28792635 CTTAGACTGGGGATGAACTCTGT-TGCCA-AAGTCAACCCACGAAACGAGCGTGCAAGTGCTCAG
1 CTTAGACTGGGAATGAACTCTGTATG-CATAAGTCAACCCACGAAACGAGCGTGCGGGTGCTGAG
* * * *
28792698 CCAGTCGGAGAGGCATAATGCGCAAGTCAGGGATCAACTCGGGCCCCCTCTGCGTGCTGCCGATC
65 CCAGCCGGAGAGGCATAATGCGCAAGACAGGGATCAAC-CCGGTCCCCTCTGC-TGCTGCCGAT-
* * * ** *
28792763 CCGCTGCCGGTCCTGCTGCAACAACCCTCGGT-TCGGCTACGACTTAGACATGGAATGAACTCCG
127 CC-CTGCCAGTCCTGCTGCCACAACCCTTGGTCT-GGCTGGGGCTTAGACATGGAATGAACTCCG
* * * * * * *
28792827 TATGCCTAATCCAACCAACGAAACGAGCGTGCGGGCGCTCAGTCGATCGGAGAGGCAGAATGCGC
190 TATGCCTAAGCCAACCAATGAAATGAGCGTGCGGGTGCTCAGCCGGTCGGAGAGGCAGAATGTGC
* * * * * * *
28792892 AAGCCGAGGATCGGCCCGGTCCCCTCTGCGTGCTGTCGATCCTGCTGTTGGTCCTGCTGTCGTAA
255 AAGCCGAGGATCGGCTCGATCCCCCCTGCGTGCTGTCAATCCTGCTGCTGGTCCTACTGTCGCAA
** * * *
28792957 CCCTTGGTCCGGTCTAATCGTAGATTGGGAATGAACTCTGTATGCTTAGACATGGAATAAACTTC
320 CCCCCGGTCCGGTCCAATCGTAGACTGGGAATGAACTCCGTATGCTTAGACATGGAATAAACTTC
** * *
28793022 GTATGCCTAAGCCAACCCATGAAACGAGCGTGCAGGCGCTCAGCCGACCGAAGAGGCAGAATGTG
385 GTATGCCTAAGCCAACCCACAAAACGAGCATGCAGGCGCTCAGCCGACCGAAGAGGCAGAATGCG
** * * * * * *
28793087 CAAGCCGGGGGCCGACCCGAT-CCCCTATTGCGTGTTGTCGATCCTGCTGTCGCAACCCTCAGTC
450 CAAGCCAAGGACCGACCCGATCCCCCCAGTGC--GCTATCGATCCTGCTGCCGCAACCCTCAGTC
28793151 CGGTCTGAT
513 CGGTCTGAT
*
28793160 CTTAGACTGGGAATGAACTCTGTATGCATAAGTCAACCCACGAAACAAGCGTGCGGGTGCTGAGC
1 CTTAGACTGGGAATGAACTCTGTATGCATAAGTCAACCCACGAAACGAGCGTGCGGGTGCTGAGC
** * * * * * **
28793225 TGGCCGGAGAGGCATAATACGTAAGCCAAGGATCGACCCATTCCCCTTCTGCATGCTGCCGATCT
66 CAGCCGGAGAGGCATAATGCGCAAGACAGGGATCAACCCGGTCCCC-TCTGC-TGCTGCCGATC-
* * * *
28793290 CATTACCAGTCCTACTGCCACAACCCTTGGTCTGGCTGGGGCTTAGAGATGGAATGAACTCCGTA
128 C-CTGCCAGTCCTGCTGCCACAACCCTTGGTCTGGCTGGGGCTTAGACATGGAATGAACTCCGTA
* * *
28793355 TACCTAAGCCAACCCATGAAATGAGCGTGCGGGTGCTCAACCGGTCGGAGAGGCAGAATGTGCAA
192 TGCCTAAGCCAACCAATGAAATGAGCGTGCGGGTGCTCAGCCGGTCGGAGAGGCAGAATGTGCAA
** * * *
28793420 GCCGTTGATTGGCTCGATCCCCCCTACGTGCTGTCAATCC-GGTGCTGGTCCTACTG-CTGCAAC
257 GCCGAGGATCGGCTCGATCCCCCCTGCGTGCTGTCAATCCTGCTGCTGGTCCTACTGTC-GCAAC
* * *
28793483 CCCCGGTCCGGTCCGATCTTAGACTGGGAATGAACTCCGTATGCTTAGACATGGAATGAAC-TCT
321 CCCCGGTCCGGTCCAATCGTAGACTGGGAATGAACTCCGTATGCTTAGACATGGAATAAACTTC-
* * *
28793547 GTATGCCTAAGCCAACTCACAAAACTAGCATGCCGGCGCTCAGCCGACCGGAA-AGGCAGAATGC
385 GTATGCCTAAGCCAACCCACAAAACGAGCATGCAGGCGCTCAGCCGACC-GAAGAGGCAGAATGC
*
28793611 GCAAGCCAAGGACCGACCCGATCCCCCCCAGTGCGCTATCGATCCTGCTGCCGCAACCCTCGGTC
449 GCAAGCCAAGGACCGACCCGAT-CCCCCCAGTGCGCTATCGATCCTGCTGCCGCAACCCTCAGTC
*
28793676 TGGTCTGAT
513 CGGTCTGAT
* * * * *
28793685 CTTAGAATGGGAATAAACTCCGTATGCATAAGTCAACCCATGAAACGAGCGTGCGGGCGCTGAGC
1 CTTAGACTGGGAATGAACTCTGTATGCATAAGTCAACCCACGAAACGAGCGTGCGGGTGCTGAGC
* * * * *
28793750 CAGCCGAACAGGCATAATGCGCATGACAGGGATCAATCCGGT-CCC-C--CTG-TG-CG-T-GCT
66 CAGCCGGAGAGGCATAATGCGCAAGACAGGGATCAACCCGGTCCCCTCTGCTGCTGCCGATCCCT
** * * *
28793807 GCCAGTCCTGCTGCCACAACCCTTGGTCTGATTGGGGCTTAGACATGGAATGAACACCCTGTGCC
131 GCCAGTCCTGCTGCCACAACCCTTGGTCTGGCTGGGGCTTAGACATGGAATGAACTCCGTATGCC
* * *
28793872 TAAGCCAACCTATGAAATTG-GCGTGCGGGTGCTCAGCTGG-CTGGAGAGGCAGAATGTGCAAGT
196 TAAGCCAACCAATGAAA-TGAGCGTGCGGGTGCTCAGCCGGTC-GGAGAGGCAGAATGTGCAAGC
* * * * *
28793935 CGGGGATCGGCTCGATCCCTCCTGCGTGCTG-----CC-GATCCT-G--CTAC---CGCAACCCT
259 CGAGGATCGGCTCGATCCCCCCTGCGTGCTGTCAATCCTGCTGCTGGTCCTACTGTCGCAACCCC
** * ** * * * * * *
28793988 CAATCCGATCTGATCTTAGATTGGGAATGAACTCTGTATGCTTAGAC-TGGGGATGAACCTCGTA
324 CGGTCCGGTCCAATCGTAGACTGGGAATGAACTCCGTATGCTTAGACAT-GGAATAAACTTCGTA
* ** * ** * * *
28794052 TGCATAAGTGAACCCACAAAACGAGCGTGCAGGCATTGAGCCGACCGAAGAGGCACAATGCGTAA
388 TGCCTAAGCCAACCCACAAAACGAGCATGCAGGCGCTCAGCCGACCGAAGAGGCAGAATGCGCAA
* ** * * * * * * ** *
28794117 GTCGGGGACCGACCCGGTCCCCTCTGTGTGCTGTTGATCCTGCTAACGCAACCCT-TGATCCGGT
453 GCCAAGGACCGACCCGATCCCCCCAGTGCGCTATCGATCCTGCTGCCGCAACCCTCAG-TCCGGT
**
28794181 CCAAT
517 CTGAT
* *
28794186 CTTAGACTAGGAATAAACTC
1 CTTAGACTGGGAATGAACTC
28794206 CATATGCTTA
Statistics
Matches: 876, Mismatches: 154, Indels: 56
0.81 0.14 0.05
Matches are distributed among these distances:
500 1 0.00
501 60 0.07
502 122 0.14
503 3 0.00
505 4 0.00
507 1 0.00
508 6 0.01
512 1 0.00
513 137 0.16
514 2 0.00
516 1 0.00
517 2 0.00
518 2 0.00
519 2 0.00
520 1 0.00
522 1 0.00
524 6 0.01
525 295 0.34
526 220 0.25
527 9 0.01
ACGTcount: A:0.23, C:0.29, G:0.27, T:0.21
Consensus pattern (521 bp):
CTTAGACTGGGAATGAACTCTGTATGCATAAGTCAACCCACGAAACGAGCGTGCGGGTGCTGAGC
CAGCCGGAGAGGCATAATGCGCAAGACAGGGATCAACCCGGTCCCCTCTGCTGCTGCCGATCCCT
GCCAGTCCTGCTGCCACAACCCTTGGTCTGGCTGGGGCTTAGACATGGAATGAACTCCGTATGCC
TAAGCCAACCAATGAAATGAGCGTGCGGGTGCTCAGCCGGTCGGAGAGGCAGAATGTGCAAGCCG
AGGATCGGCTCGATCCCCCCTGCGTGCTGTCAATCCTGCTGCTGGTCCTACTGTCGCAACCCCCG
GTCCGGTCCAATCGTAGACTGGGAATGAACTCCGTATGCTTAGACATGGAATAAACTTCGTATGC
CTAAGCCAACCCACAAAACGAGCATGCAGGCGCTCAGCCGACCGAAGAGGCAGAATGCGCAAGCC
AAGGACCGACCCGATCCCCCCAGTGCGCTATCGATCCTGCTGCCGCAACCCTCAGTCCGGTCTGA
T
Found at i:28794031 original size:26 final size:26
Alignment explanation
Indices: 28794002--28794054 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28793992 CCGATCTGAT
*
28794002 CTTAGATTGGGAATGAA-CTCTGTATG
1 CTTAGACTGGGAATGAACCTC-GTATG
*
28794028 CTTAGACTGGGGATGAACCTCGTATG
1 CTTAGACTGGGAATGAACCTCGTATG
28794054 C
1 C
28794055 ATAAGTGAAC
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:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACCTCGTATG
Found at i:28794583 original size:26 final size:26
Alignment explanation
Indices: 28794554--28794606 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28794544 CTGGTTCGAT
*
28794554 CTTAGACTGGGAATCAACTTCGTATG
1 CTTAGACTGGGAATCAACTCCGTATG
* *
28794580 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGGAATCAACTCCGTATG
28794606 C
1 C
28794607 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:0.26, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATCAACTCCGTATG
Found at i:28794585 original size:184 final size:182
Alignment explanation
Indices: 28794395--28794959 Score: 571
Period size: 196 Copynumber: 3.0 Consensus size: 182
28794385 TCCAGCTGGG
* *
28794395 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACAAGCATGTAGGTGCTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCATGTAGGTGCTCAG
* * * *
28794460 CCGGTC-AGAGAGGTAGATTACGTAAGCCAGGGATGAGCTCGGTCCCCCTTGCGTGCTGTCGATC
66 TCGGTCGA-AGAGGTAGAATGCGCAAGCCAGGGATGA-CTCGGTCCCCC-TGCGTGCTGTCGATC
* * *
28794524 CTGCTTCCGTAACCCTCGGTCTGGTTCGATCTTAGACTGGGAATCAACTTCGTAT
128 CTGCTTCCGTAACCCTCGGTCCGGTCCGATCTTAGACTGGGAATAAACTTCGTAT
* * * ** *
28794579 GCTTAGAC-TGGGGATGAACTCCGTATGCCTAAGTCAACCCATGAAATGAGCATACAGGCGCTCA
1 GCTTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCATGTAGGTGCTCA
* * * * *
28794643 GTCGGTCGAAGAGGTAGAATGCACAAGTCGGGGATCACTCTGGTCCCCCCTGCATGCTGTCGATC
65 GTCGGTCGAAGAGGTAGAATGCGCAAGCCAGGGATGACTC-GGT-CCCCCTGCGTGCTGTCGATC
* *
28794708 CTGCTGTTGGTCTTGCTGCTGCAACCCTCGATCCAGTCCGATCTTAGACTGGGAATAAAC-TCTG
128 CTGC---T--TC---C-G-T--AACCCTCGGTCCGGTCCGATCTTAGACTGGGAATAAACTTC-G
*
28794772 TAC
180 TAT
** * * *
28794775 ATTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCATGAAACGAGCGTGTGGGTGCTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCATGTAGGTGCTCAG
* *
28794840 TCGGTCGAAGAGGTAGAATGTGCAAGCCAGGGATCGAC-CTGATCCCCCTGCGTGCTGTCGATCC
66 TCGGTCGAAGAGGTAGAATGCGCAAGCCAGGGAT-GACTC-GGTCCCCCTGCGTGCTGTCGATCC
* * ** * * * *
28794904 TACTACCACAACCCTCAGTCCGGTCCGATCTTAGGCTGGGAATGAACTCCGTAT
129 TGCTTCCGTAACCCTCGGTCCGGTCCGATCTTAGACTGGGAATAAACTTCGTAT
28794958 GC
1 GC
28794960 CTAAGTCAAC
Statistics
Matches: 307, Mismatches: 54, Indels: 41
0.76 0.13 0.10
Matches are distributed among these distances:
183 40 0.13
184 103 0.34
185 6 0.02
187 2 0.01
189 2 0.01
190 1 0.00
192 2 0.01
193 1 0.00
194 1 0.00
195 24 0.08
196 122 0.40
197 3 0.01
ACGTcount: A:0.24, C:0.27, G:0.26, T:0.23
Consensus pattern (182 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCATGTAGGTGCTCAG
TCGGTCGAAGAGGTAGAATGCGCAAGCCAGGGATGACTCGGTCCCCCTGCGTGCTGTCGATCCTG
CTTCCGTAACCCTCGGTCCGGTCCGATCTTAGACTGGGAATAAACTTCGTAT
Found at i:28795109 original size:159 final size:155
Alignment explanation
Indices: 28794777--28795273 Score: 438
Period size: 159 Copynumber: 3.2 Consensus size: 155
28794767 CTCTGTACAT
* * *
28794777 TTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCATGAAACGAGCGTGTGGGTGCTCAGTC
1 TTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCATGAAA-GAGC-TGTGAGAGCTCAGCC
* * * **
28794842 GGTCGAAGAGGTAGAATGTGCAAGCCAGGGATCGACCTGATCCCCCTGCGTGCTGTCGATCCTAC
64 GGCCGGAGAGGCAGAATGCACAAGCCAGGGATCGACCTGATCCCCCTGCGTGCTGTCGATCCTAC
* *
28794907 TACCACAACCCTCAGTCCGGTCCGATC
129 TACCACAACCCTCAGTCCGGTCAGAGC
* * * *
28794934 TTAGGC-TGGGAATGAACTCCGTATGCCTAAGTCAACCCATGAAATGAGCTGTCGAGAGCTAAGC
1 TTAGACAT-GGAATGAACTCTGTATGCCTAAGCCAACCCATGAAA-GAGCTGT-GAGAGCTCAGC
* * * * *
28794998 CGGCCGGAGAGGCATAATGCACAAGCC-GAGGATTG-GCTCGGTCCCCCTCTGCGTGCTGTCGGT
63 CGGCCGGAGAGGCAGAATGCACAAGCCAG-GGATCGACCT-GAT-CCCC-CTGCGTGCTGTCGAT
* * *
28795061 -CTCGCTGCCACAACCCTCAGTCCGG-CTAGGGC
124 CCT-ACTACCACAACCCTCAGTCCGGTC-AGAGC
* * *
28795093 TTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCACGAAACAGGC-GTGAGGGCGCTCAGC
1 TTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCATGAAAGA-GCTGTGA--GAGCTCAGC
** * **
28795157 CGGCCGGAGAGGCAGAATGCACAAG-TTGGGAATCGACCCGATCCCCC--AATGCTGTCGATCCT
63 CGGCCGGAGAGGCAGAATGCACAAGCCAGGG-ATCGACCTGATCCCCCTGCGTGCTGTCGATCCT
* *** * * * *
28795219 GCTACTGTAACCCTCGGTCCGATCTGATC
127 ACTACCACAACCCTCAGTCCGGTCAGAGC
28795248 TTAGAC-TAGGAATGAACTCTGTATGC
1 TTAGACAT-GGAATGAACTCTGTATGC
28795274 TTAGACTAGG
Statistics
Matches: 274, Mismatches: 48, Indels: 38
0.76 0.13 0.11
Matches are distributed among these distances:
154 1 0.00
155 51 0.19
156 10 0.04
157 81 0.30
158 16 0.06
159 113 0.41
160 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.27, T:0.20
Consensus pattern (155 bp):
TTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCATGAAAGAGCTGTGAGAGCTCAGCCGG
CCGGAGAGGCAGAATGCACAAGCCAGGGATCGACCTGATCCCCCTGCGTGCTGTCGATCCTACTA
CCACAACCCTCAGTCCGGTCAGAGC
Found at i:28795276 original size:26 final size:26
Alignment explanation
Indices: 28795247--28795299 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
28795237 CCGATCTGAT
28795247 CTTAGACTAGGAATGAACTCTGTATG
1 CTTAGACTAGGAATGAACTCTGTATG
*
28795273 CTTAGACTAGGGATGAACTCTGTATG
1 CTTAGACTAGGAATGAACTCTGTATG
28795299 C
1 C
28795300 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:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (26 bp):
CTTAGACTAGGAATGAACTCTGTATG
Found at i:28795636 original size:26 final size:26
Alignment explanation
Indices: 28795607--28795659 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
28795597 CCAGTCCGAT
28795607 CTTAGACATGGAATGAACTCCATATG
1 CTTAGACATGGAATGAACTCCATATG
*
28795633 CTTAGACATGGAATGAACTCCGTATG
1 CTTAGACATGGAATGAACTCCATATG
28795659 C
1 C
28795660 CTAAGCCAAC
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:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (26 bp):
CTTAGACATGGAATGAACTCCATATG
Found at i:28796208 original size:157 final size:158
Alignment explanation
Indices: 28795632--28796241 Score: 661
Period size: 159 Copynumber: 3.9 Consensus size: 158
28795622 AACTCCATAT
* *
28795632 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCGCTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCAGGCGCTCAG
* * * * * * *
28795697 TCAACCGGTGAGGTAGAATGCGCAAGCTGGGGATCGGCCTGGTCCCTCCCTCCGTGCTGTCGATC
66 CCGACCGGAGAGGCAGAATGCGCAAGCTGGGGATTGGCCCGGTCCC-CCCTGCGTGCTGTCGATC
* * * *** * *
28795762 TTGCTGTTGCAACCCTCGATC-CGGTCCGA
130 CTGCTGTCGCAACCCTCGGTCTAACT-GGG
* * * * *
28795791 TCTTAGAC-TGGGAATGAACTCCATATGCCTAAGCCAACCCACGAAATGAGCGTGCAGGCGTTGA
1 GCTTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCAGGCGCTCA
* * * * * *
28795855 GTCGACCGGAGAGGCATAATCCGCAAG-TCAGGGATTGTCCCGGTCCCCCTCTGCGTGTTGTCGA
65 GCCGACCGGAGAGGCAGAATGCGCAAGCT-GGGGATTGGCCCGGTCCCCC-CTGCGTGCTGTCGA
* * ** * *
28795919 TCCCGCTGCCATAACCCTAGGTCTGACTGGG
128 TCCTGCTGTCGCAACCCTCGGTCTAACTGGG
* * * *
28795950 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAATGGGTGTGCAGGCGCTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCAGGCGCTCAG
* * * * * * * *
28796015 CCGGCCGGAGAGGTAGAATGCGTAAGTTGGGAATTGGCCCAGTCCCCCCTACGTGCTGCCGATCC
66 CCGACCGGAGAGGCAGAATGCGCAAGCTGGGGATTGGCCCGGTCCCCCCTGCGTGCTGTCGATCC
28796080 TGCTGTCGCAACCCTCGGTCTAACTGGG
131 TGCTGTCGCAACCCTCGGTCTAACTGGG
* * * * *
28796108 GCTTAGACATGGAATGAACTCTGT-TTCCTAAGCCAACCCATGAAACGAGTGTGCGGGCGCTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCAGGCGCTCAG
* * *
28796172 CCGACCAGAGAGGCAGAATGCGTAAGCTGGGGATTGGCCCGATCCCCCCTGCGTGCTGTCGATCC
66 CCGACCGGAGAGGCAGAATGCGCAAGCTGGGGATTGGCCCGGTCCCCCCTGCGTGCTGTCGATCC
28796237 TGCTG
131 TGCTG
28796242 CCGGTCCTGC
Statistics
Matches: 373, Mismatches: 72, Indels: 14
0.81 0.16 0.03
Matches are distributed among these distances:
157 96 0.26
158 62 0.17
159 212 0.57
160 3 0.01
ACGTcount: A:0.21, C:0.29, G:0.29, T:0.20
Consensus pattern (158 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCAGGCGCTCAG
CCGACCGGAGAGGCAGAATGCGCAAGCTGGGGATTGGCCCGGTCCCCCCTGCGTGCTGTCGATCC
TGCTGTCGCAACCCTCGGTCTAACTGGG
Found at i:28796733 original size:12 final size:13
Alignment explanation
Indices: 28796716--28796756 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 13
28796706 CCCCCCTGCA
28796716 TGCTGCTGA-TCC
1 TGCTGCTGAGTCC
28796728 TGCTGCT-AGTCC
1 TGCTGCTGAGTCC
*
28796740 TGCTGCTG-GTTC
1 TGCTGCTGAGTCC
28796752 TGCTG
1 TGCTG
28796757 TCGTAACTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 1 0.04
12 25 0.96
ACGTcount: A:0.05, C:0.29, G:0.29, T:0.37
Consensus pattern (13 bp):
TGCTGCTGAGTCC
Found at i:28796819 original size:26 final size:26
Alignment explanation
Indices: 28796781--28796833 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
28796771 CCAATCCGAT
*
28796781 CTTAGACTGGGAATGAAGC-CCGTATG
1 CTTAGACTGGGAAT-AAACTCCGTATG
28796807 CTTAGACAT-GGAATAAACTCCGTATG
1 CTTAGAC-TGGGAATAAACTCCGTATG
28796833 C
1 C
28796834 CTAAGCCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 3 0.12
26 20 0.83
27 1 0.04
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (26 bp):
CTTAGACTGGGAATAAACTCCGTATG
Found at i:28797308 original size:158 final size:155
Alignment explanation
Indices: 28796807--28797308 Score: 452
Period size: 158 Copynumber: 3.2 Consensus size: 155
28796797 AGCCCGTATG
*
28796807 CTTAGACATGGAATAAACTCCGTATGCCTAAGCCAACCCAC-AGAACGAGCGTGCGGGCGCTCAA
1 CTTAGAC-TGGAATGAACTCCGTATGCCTAAGCCAACCCACGA-AACGAGCGTGCGGGCGCTCAA
* * * * * * * * *
28796871 CCGACCAGAGAGGTAGAATGTGCAAG-TCAGGGA-CTGACTCGATCCACCCTGCGTGCTGTCGAT
64 CCGACCGGAGAGGCAAAATGCGCAAGCTGA-GGATC-GGCTCGGTCCCCCCTACGTGCTGT-GAT
* * *
28796934 CCTGCTGCTGCAACCCTCGGTCTGATCCGAT
126 CCTGCTGC-GCAACCCTCGGTCCGGTTCGAT
* * * * * * *
28796965 CTTAGACTGGGAATGAACTCCGTATGCCTAAGTCAACCCATGAAATGAGCGTTCGGGCACTGAGC
1 CTTAGACT-GGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAAC
* * * * * * * *
28797030 CGACCGAAGAGGCATAATGCGCAAGCCGGGGATTGGCCCAGACCCCCTCTACGTGCTGCTGATCC
65 CGACCGGAGAGGCAAAATGCGCAAGCTGAGGATCGGCTCGGTCCCCC-CTACGTGCTG-TGATCC
* * * * * **
28797095 CGCTGCCACAACCCTCGATCCGGCTAGGG
128 TGCTG-CGCAACCCTCGGTCCGGTTCGAT
* * * * * *
28797124 CTTAGACATGGAATGAACTCCCTATGCCTAAGCCAGCCCACGAAACGGGTGAGCGGGCGCTCAAT
1 CTTAGAC-TGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAAC
* *
28797189 CGGCCGGAGAGGCAAAATGCGCAAGCTGAGGATCGGCTTGGTCCCCCCTACGTGCTGTGGATCCT
65 CGACCGGAGAGGCAAAATGCGCAAGCTGAGGATCGGCTCGGTCCCCCCTACGTGCTGT-GATCCT
*
28797254 ACTGTCGCAACCCTCGGTCCGGTTCGAT
129 GCTG-CGCAACCCTCGGTCCGGTTCGAT
*
28797282 CTTAGACTGAGATTGAACTCCGTATGC
1 CTTAGACTG-GAATGAACTCCGTATGC
28797309 TTAGACTGGG
Statistics
Matches: 266, Mismatches: 68, Indels: 20
0.75 0.19 0.06
Matches are distributed among these distances:
157 4 0.02
158 140 0.53
159 119 0.45
160 3 0.01
ACGTcount: A:0.23, C:0.30, G:0.27, T:0.19
Consensus pattern (155 bp):
CTTAGACTGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAACC
GACCGGAGAGGCAAAATGCGCAAGCTGAGGATCGGCTCGGTCCCCCCTACGTGCTGTGATCCTGC
TGCGCAACCCTCGGTCCGGTTCGAT
Found at i:28797311 original size:26 final size:26
Alignment explanation
Indices: 28797282--28797334 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28797272 CCGGTTCGAT
28797282 CTTAGACT-GAGATTGAACTCCGTATG
1 CTTAGACTGGAGA-TGAACTCCGTATG
*
28797308 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGAGATGAACTCCGTATG
28797334 C
1 C
28797335 CTAAGTTAAC
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:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGAGATGAACTCCGTATG
Found at i:28797936 original size:159 final size:159
Alignment explanation
Indices: 28797519--28798016 Score: 495
Period size: 159 Copynumber: 3.2 Consensus size: 159
28797509 CCGTATGCTA
* * * *
28797519 AGACATGGAATGAACTCTGTATGCCTAAGCCAACCGATGAAACTAGCATACGGGAGCTCAACCGG
1 AGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTACGGGAGCTCAACCGG
* * * * *
28797584 TCGGAGAGGCAGAATGCGAAAGTCAGGCACTGGCCCGATCCCCCT-TGCGTGCTATCGATCCTGC
66 TCGGAGAGGCAGAATGCGAAAGTCGGGCATTGACCCGATCCCCCTCTGCGTGCTACCGATCCCGC
* *
28797648 TGCTACAACCCTCAGTCTGGTCCGATCTT
131 TGCCATAACCCTCAGTCTGGTCCGATCTT
* * * ** * * * *
28797677 AGA-TTGGGAATGAACTTCGTATGCCTAAGTCAACCCCCGAAACGAGCGTTCGGGTGCTGAGCCG
1 AGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTACGGGAGCTCAACCG
** * * * * * * * *
28797741 ACCAGAGAGGCATAATACGCAAGCCGGGGATCGACCCGATCCCCCTCTGCGTGCTACCGGTCCCG
65 GTCGGAGAGGCAGAATGCGAAAGTCGGGCATTGACCCGATCCCCCTCTGCGTGCTACCGATCCCG
* **
28797806 CTGCCATAACCCTCGGTCTGGCTGGGA-CTT
130 CTGCCATAACCCTCAGTCTGG-TCCGATCTT
* * * *
28797836 AGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAACGGGCGTGCGGGCGCTCAACCGG
1 AGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTACGGGAGCTCAACCGG
* * * * * *
28797901 TCGGAGAGGCAGAATGTGTAAGTCGGGTATTGACCCGAT-CCCC-CTGTGTGCTGCCAATCCCGC
66 TCGGAGAGGCAGAATGCGAAAGTCGGGCATTGACCCGATCCCCCTCTGCGTGCTACCGATCCCGC
* * * * *
28797964 TGCCGTAACCCTCTGTCCGATCTGATCTT
131 TGCCATAACCCTCAGTCTGGTCCGATCTT
28797993 AGAC-TGGGAATGAACTCCGTATGC
1 AGACAT-GGAATGAACTCCGTATGC
28798017 TTAGACTGGG
Statistics
Matches: 269, Mismatches: 65, Indels: 13
0.78 0.19 0.04
Matches are distributed among these distances:
156 4 0.01
157 57 0.21
158 87 0.32
159 117 0.43
160 4 0.01
ACGTcount: A:0.23, C:0.30, G:0.27, T:0.20
Consensus pattern (159 bp):
AGACATGGAATGAACTCCGTATGCCTAAGCCAACCCATGAAACGAGCGTACGGGAGCTCAACCGG
TCGGAGAGGCAGAATGCGAAAGTCGGGCATTGACCCGATCCCCCTCTGCGTGCTACCGATCCCGC
TGCCATAACCCTCAGTCTGGTCCGATCTT
Found at i:28798019 original size:26 final size:26
Alignment explanation
Indices: 28797990--28798042 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
28797980 CCGATCTGAT
28797990 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
* *
28798016 CTTAGACTGGGGATGAACTCTGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28798042 C
1 C
28798043 CTAAGTAAAC
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:0.19, G:0.28, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28798139 original size:709 final size:709
Alignment explanation
Indices: 28796778--28798065 Score: 1732
Period size: 709 Copynumber: 1.8 Consensus size: 709
28796768 AGTCCAATCC
*
28796778 GATCTTAGACTGGGAATGAAGCCCGTATGCTTAGACATGGAATAAACTCCGTATGCCTAAGCCAA
1 GATCTTAGACTGGGAATGAAGCCCGTATGCTAAGACATGGAATAAACTCCGTATGCCTAAGCCAA
* * * * * * *
28796843 CCCACAGAACGAGCGTGCGGGCGCTCAACCGACCAGAGAGGTAGAATGTGCAAGTCAGGGACTGA
66 CCCACAGAACGAGCATACGGGAGCTCAACCGACCAGAGAGGCAGAATGCGAAAGTCAGGCACTGA
* * * *
28796908 CTCGATCCACCCTGCGTGCTGTCGATCCTGCTGCTGCAACCCTCGGTCTGATCCGATCTTAGACT
131 CCCGATCCACCCTGCGTGCTATCGATCCTGCTGCTACAACCCTCAGTCTGATCCGATCTTAGACT
* *
28796973 GGGAATGAACTCCGTATGCCTAAGTCAACCCATGAAATGAGCGTTCGGGCACTGAGCCGACCGAA
196 GGGAATGAACTCCGTATGCCTAAGTCAACCCACGAAACGAGCGTTCGGGCACTGAGCCGACCGAA
* * * * *
28797038 GAGGCATAATGCGCAAGCCGGGGATTGGCCCAGACCCCCTCTACGTGCTGCTGATCCCGCTGCCA
261 GAGGCATAATACGCAAGCCGGGGATCGACCCAGACCCCCTCTACGTGCTACCGATCCCGCTGCCA
*
28797103 CAACCCTCGATCCGGCTAGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAGCCCACGAA
326 CAACCCTCGATCCGGCTAGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAA
* * * ** *
28797168 ACGGGTGAGCGGGCGCTCAATCGGCCGGAGAGGCAAAATGCGCAAGCTGAGGATCGGCTTGGTCC
391 ACGGGCGAGCGGGCGCTCAACCGGCCGGAGAGGCAAAATGCGCAAGCTGAGGATCGACCCGATCC
*** * * * *
28797233 CCCCTACGTGCTGTGGATCCTACTGTCGCAACCCTCGGTCCGGTTCGATCTTAGACTGAGATTGA
456 CCCCTACGTGCTGCCAATCCCACTGCCGCAACCCTCGGTCCGATTCGATCTTAGACTGAGAATGA
* * *
28797298 ACTCCGTATGCTTAGACTGGGGATGAACTCCGTATGCCTAAGTTAACCCACGAATGAGCATGCTG
521 ACTCCGTATGCTTAGACTGGGGATGAACTCCGTATGCCTAAGTAAACCCACAAACGAGCATGCTG
* * * * * *
28797363 ATGCTCAGCCAATCGGAGAGGCTTGCCAAACAGGTAGAATACACAAGCTAGTGATCGACCCGGTC
586 AGGCTCAGCCAATCGAAAAGGCTGGCCAAACAGGTAGAATACACAAGCTAGGGATAGACCCGGTC
28797428 CCCCCTGCGTGCTACCGATCCTACTGCTGGTCCTGCTGCCGTAATCCTCGATACTGTTT
651 CCCCCTGCGTGCTACCGATCCTACTGCTGGTCCTGCTGCCGTAATCCTCGATACTGTTT
* *
28797487 GATCTTAGACTGGGAATGAA-CTCCGTATGCTAAGACATGGAATGAACTCTGTATGCCTAAGCCA
1 GATCTTAGACTGGGAATGAAGC-CCGTATGCTAAGACATGGAATAAACTCCGTATGCCTAAGCCA
* * * ** *
28797551 ACCGA-TGAAACTAGCATACGGGAGCTCAACCGGTCGGAGAGGCAGAATGCGAAAGTCAGGCACT
65 ACCCACAG-AACGAGCATACGGGAGCTCAACCGACCAGAGAGGCAGAATGCGAAAGTCAGGCACT
* *
28797615 GGCCCGATCC-CCCTTGCGTGCTATCGATCCTGCTGCTACAACCCTCAGTCTGGTCCGATCTTAG
129 GACCCGATCCACCC-TGCGTGCTATCGATCCTGCTGCTACAACCCTCAGTCTGATCCGATCTTAG
* * * **
28797679 ATTGGGAATGAACTTCGTATGCCTAAGTCAACCCCCGAAACGAGCGTTCGGGTGCTGAGCCGACC
193 ACTGGGAATGAACTCCGTATGCCTAAGTCAACCCACGAAACGAGCGTTCGGGCACTGAGCCGACC
* *
28797744 -AGAGAGGCATAATACGCAAGCCGGGGATCGACCC-GATCCCCCTCTGCGTGCTACCGGTCCCGC
258 GA-AGAGGCATAATACGCAAGCCGGGGATCGACCCAGA-CCCCCTCTACGTGCTACCGATCCCGC
* * *
28797807 TGCCATAACCCTCGGTCTGGCT-GGGACTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACC
321 TGCCACAACCCTCGATCCGGCTAGGG-CTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACC
* * * * * * *
28797871 CATGAAACGGGCGTGCGGGCGCTCAACCGGTCGGAGAGGCAGAATGTGTAAG-TCG-GGTATTGA
385 CACGAAACGGGCGAGCGGGCGCTCAACCGGCCGGAGAGGCAAAATGCGCAAGCT-GAGG-ATCGA
** * * *
28797934 CCCGAT-CCCCCTGTGTGCTGCCAATCCCGCTGCCGTAACCCTCTGTCCGA-TCTGATCTTAGAC
448 CCCGATCCCCCCTACGTGCTGCCAATCCCACTGCCGCAACCCTCGGTCCGATTC-GATCTTAGAC
* *
28797997 TGGGAATGAACTCCGTATGCTTAGACTGGGGATGAACTCTGTATGCCTAAGTAAACCCATCAAAC
512 TGAGAATGAACTCCGTATGCTTAGACTGGGGATGAACTCCGTATGCCTAAGTAAACCCA-CAAAC
28798062 GAGC
576 GAGC
28798066 GTGTGGGCGT
Statistics
Matches: 499, Mismatches: 70, Indels: 20
0.85 0.12 0.03
Matches are distributed among these distances:
707 2 0.00
708 112 0.22
709 385 0.77
ACGTcount: A:0.24, C:0.29, G:0.27, T:0.21
Consensus pattern (709 bp):
GATCTTAGACTGGGAATGAAGCCCGTATGCTAAGACATGGAATAAACTCCGTATGCCTAAGCCAA
CCCACAGAACGAGCATACGGGAGCTCAACCGACCAGAGAGGCAGAATGCGAAAGTCAGGCACTGA
CCCGATCCACCCTGCGTGCTATCGATCCTGCTGCTACAACCCTCAGTCTGATCCGATCTTAGACT
GGGAATGAACTCCGTATGCCTAAGTCAACCCACGAAACGAGCGTTCGGGCACTGAGCCGACCGAA
GAGGCATAATACGCAAGCCGGGGATCGACCCAGACCCCCTCTACGTGCTACCGATCCCGCTGCCA
CAACCCTCGATCCGGCTAGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAA
ACGGGCGAGCGGGCGCTCAACCGGCCGGAGAGGCAAAATGCGCAAGCTGAGGATCGACCCGATCC
CCCCTACGTGCTGCCAATCCCACTGCCGCAACCCTCGGTCCGATTCGATCTTAGACTGAGAATGA
ACTCCGTATGCTTAGACTGGGGATGAACTCCGTATGCCTAAGTAAACCCACAAACGAGCATGCTG
AGGCTCAGCCAATCGAAAAGGCTGGCCAAACAGGTAGAATACACAAGCTAGGGATAGACCCGGTC
CCCCCTGCGTGCTACCGATCCTACTGCTGGTCCTGCTGCCGTAATCCTCGATACTGTTT
Found at i:28798385 original size:170 final size:170
Alignment explanation
Indices: 28798168--28798502 Score: 410
Period size: 170 Copynumber: 2.0 Consensus size: 170
28798158 CCACTGTCGA
* * * *
28798168 TCCTGCTGCCACAACCCTCGGTCCGACTGGGGCTTAGACATGGAATGAACTCTGTAC-GGCTAAG
1 TCCTGCTACCACAACCCTCGGTCCGACTGGAGCTTAGACATGGAATGAACTATGT-CTGCCTAAG
* * * * *
28798232 CCAACCCACGAAATGAGTATGCGGGCGCTCAGTCGGTC-GAAGAGGCAGAATGCGCAAGTCGAGG
65 CCAACCCACGAAACGAGCATACGGGCGCTCAGTCGGCCAG-AGAGGCAGAATGCGCAAG-CCAGG
* *
28798296 ATC-GACCCGATCCCCCCTACGTACTGTCGATCCTGCTGCTAG
128 AGCTGACCCGATCCCCCCTACGTACTGTCAATCCTGCTGCTAG
* * *
28798338 TCCTGCTACCACAACCCTCGGTTCGGTCT-GATCTTAGAC-TGGGAATGAACTATGTCTGCCTAA
1 TCCTGCTACCACAACCCTCGG-TCCGACTGGAGCTTAGACAT-GGAATGAACTATGTCTGCCTAA
* * *
28798401 GCCAACCCACGAAACGAGCGTACGGGCGCTCAGTCGGCCAGAGAGGCAGAATGCGTAAGCCAGGG
64 GCCAACCCACGAAACGAGCATACGGGCGCTCAGTCGGCCAGAGAGGCAGAATGCGCAAGCCAGGA
* * *
28798466 GCTGGCCCGATCCTCCCTACGTGCTGTCAATCCTGCT
129 GCTGACCCGATCCCCCCTACGTACTGTCAATCCTGCT
28798503 ACCGTAACCC
Statistics
Matches: 140, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
169 7 0.05
170 127 0.91
171 6 0.04
ACGTcount: A:0.22, C:0.31, G:0.27, T:0.19
Consensus pattern (170 bp):
TCCTGCTACCACAACCCTCGGTCCGACTGGAGCTTAGACATGGAATGAACTATGTCTGCCTAAGC
CAACCCACGAAACGAGCATACGGGCGCTCAGTCGGCCAGAGAGGCAGAATGCGCAAGCCAGGAGC
TGACCCGATCCCCCCTACGTACTGTCAATCCTGCTGCTAG
Found at i:28798862 original size:26 final size:26
Alignment explanation
Indices: 28798833--28798885 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
28798823 CCGGTTCGAT
*
28798833 CTTAGACTAGGAATAAACTTCGTATG
1 CTTAGACTAGGAATAAACTCCGTATG
* * *
28798859 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTAGGAATAAACTCCGTATG
28798885 C
1 C
28798886 CTAAGTGAAC
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):
CTTAGACTAGGAATAAACTCCGTATG
Found at i:28799342 original size:158 final size:159
Alignment explanation
Indices: 28799004--28799346 Score: 399
Period size: 158 Copynumber: 2.2 Consensus size: 159
28798994 GTCAATCCCA
* * * * * **
28799004 CTGCCGGTCCTGCTACCACAACCCTCGGTCCGGTTGGGGCTTAGACATGGAATGAAGTTCGTATG
1 CTGCCGATCCTGCTACCACAACCCTCGGTCCAGCTGGGGCTTAGACATGGAATGAACTCCCCATG
** * * *
28799069 CCTAAGCCAAACCACCAAACGAGCGTACGGGTGCTCAACCGGTCGGAGAGGTAGAATGTGCAAGC
66 CCTAAGCCAAACCACCAAACGAGCGTACGGGCACTCAACCGGCCGGAGAGGCAGAATGCGCAAGC
*
28799134 TGGGGATCGACTCGATCCCCCTCTGCATG
131 TGGGGATCGACCCGATCCCCCTCTGCATG
*
28799163 CTGTC-AGTCC-GCTACCACAACCCTCGGTCCAGCTGGGGCTTAGACATGGAATGAACTCCCCAT
1 CTGCCGA-TCCTGCTACCACAACCCTCGGTCCAGCTGGGGCTTAGACATGGAATGAACTCCCCAT
* * * * **
28799226 GCCTAAGCCAACCCACGAAAC-AGGCGTGCGGGCATTCAGTCGGCCGGAGAGGCAGAATGCGCAA
65 GCCTAAGCCAAACCACCAAACGA-GCGTACGGGCACTCAACCGGCCGGAGAGGCAGAATGCGCAA
* *
28799290 G-TCGGGGATCGGCCCGATCCCCC-CTGCGTG
129 GCT-GGGGATCGACCCGATCCCCCTCTGCATG
* * *
28799320 CTGCCGATCCTACTATCGCAACCCTCG
1 CTGCCGATCCTGCTACCACAACCCTCG
28799347 ATTCAGTTCG
Statistics
Matches: 153, Mismatches: 26, Indels: 11
0.81 0.14 0.06
Matches are distributed among these distances:
157 15 0.10
158 131 0.86
159 7 0.05
ACGTcount: A:0.22, C:0.32, G:0.28, T:0.18
Consensus pattern (159 bp):
CTGCCGATCCTGCTACCACAACCCTCGGTCCAGCTGGGGCTTAGACATGGAATGAACTCCCCATG
CCTAAGCCAAACCACCAAACGAGCGTACGGGCACTCAACCGGCCGGAGAGGCAGAATGCGCAAGC
TGGGGATCGACCCGATCCCCCTCTGCATG
Found at i:28799395 original size:26 final size:26
Alignment explanation
Indices: 28799359--28799411 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
28799349 TCAGTTCGAT
28799359 CTTAGACTGGGAATGAACTCCATATG
1 CTTAGACTGGGAATGAACTCCATATG
*
28799385 CTTAGACTGGGGATGAACTCCATATG
1 CTTAGACTGGGAATGAACTCCATATG
28799411 C
1 C
28799412 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:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCATATG
Found at i:28800996 original size:26 final size:26
Alignment explanation
Indices: 28800967--28801019 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28800957 CCGATCTGAT
28800967 CTTAGACT-GGGAATGAACTCCGTATG
1 CTTAGA-TAGGGAATGAACTCCGTATG
* *
28800993 CTTAGATATGGAATGAACTTCGTATG
1 CTTAGATAGGGAATGAACTCCGTATG
28801019 C
1 C
28801020 CTAAGCCAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (26 bp):
CTTAGATAGGGAATGAACTCCGTATG
Found at i:28801181 original size:26 final size:26
Alignment explanation
Indices: 28801152--28801204 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
28801142 CTGGTCTGAT
28801152 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
* *
28801178 CTTAGATTGGGGATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28801204 C
1 C
28801205 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:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28802159 original size:26 final size:26
Alignment explanation
Indices: 28802121--28802198 Score: 113
Period size: 26 Copynumber: 3.0 Consensus size: 26
28802111 GGCTCAAAAT
*
28802121 CTTAGAC-TGGGAAAGAACTCCGTATG
1 CTTAGACAT-GGAATGAACTCCGTATG
*
28802147 CTTAGACATGGAATGAACTCCATATG
1 CTTAGACATGGAATGAACTCCGTATG
*
28802173 CTTAGACATGGAATGAACTTCGTATG
1 CTTAGACATGGAATGAACTCCGTATG
28802199 GCTAAGCCAA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
26 46 0.98
27 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (26 bp):
CTTAGACATGGAATGAACTCCGTATG
Found at i:28802542 original size:159 final size:159
Alignment explanation
Indices: 28802172--28802920 Score: 661
Period size: 159 Copynumber: 4.7 Consensus size: 159
28802162 AACTCCATAT
* * * *
28802172 GCTTAGACATGGAATGAACTTCGTATGGCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAG
1 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGAGCGTGCAGGCGCTCAG
* * * * * * *
28802237 CTGGCCGGAGAGGCAAAATGTGCAAGCCGGGGATTGGCCC-AGTCCCCC-CTACGTGCTATCGAT
66 CTGGCCGAAGAGGCATAATGCGCAAGTCGGGGATCGGCCCGA-TCCCCCTCAACGTACTATCGAT
* ** * * * *
28802300 CCTGCTACTGCAACCCTCAGTCCGGTTCGA
130 CCTACTACCACAACCCTCGGTCTGGCTGGA
* * * ** * * *
28802330 TCTTAGAC-TGGGAATGAACTCCATATGCATAAATCAACCCATGAAACGAGCGTGCAGGTGCTGA
1 GCTTAGACAT-GGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGAGCGTGCAGGCGCTCA
*
28802394 GCTGGCCGAAGAGGCATAATGCGCAAGTCGGGGATCGGCCCGATCCCCCTCAACGTACTATCGGT
65 GCTGGCCGAAGAGGCATAATGCGCAAGTCGGGGATCGGCCCGATCCCCCTCAACGTACTATCGAT
* * * *
28802459 CCTACTGCCACAACCTTCGGTCTGACTGGG
130 CCTACTACCACAACCCTCGGTCTGGCTGGA
* * *
28802489 GCTTAGACATTGAATGAACTCCCTATGCCTAAGCCAACCCACGAAATGGGCGTGCAGGCGCTCAG
1 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGAGCGTGCAGGCGCTCAG
* * * * * * * * *
28802554 CCGACCGGAGAGGCAGAATGCACAAGTCGGGGATCGGCCCAATCCTCCCT--GCGTGCTGTCGAT
66 CTGGCCGAAGAGGCATAATGCGCAAGTCGGGGATCGGCCCGATCC-CCCTCAACGTACTATCGAT
** * *
28802617 CCTACTACCGTAACCCTTGGTCCGGTCT-GA
130 CCTACTACCACAACCCTCGGTCTGG-CTGGA
* * * * * * *
28802647 TCTTAGAC-TGGGAATGAACTCCGTATGCATAAGTCAACCCATGAAACGAGCGTGCTGGCGCTGA
1 GCTTAGACAT-GGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGAGCGTGCAGGCGCTCA
* * * * * *
28802711 GCTCGTCGAAGAGGCATAATGCGCAAGCCGGGGATCGGCCCGATCCCCTTCAGCG-AGCTATCGG
65 GCTGGCCGAAGAGGCATAATGCGCAAGTCGGGGATCGGCCCGATCCCCCTCAACGTA-CTATCGA
** * * * *
28802775 TCCCGCTGCCATAACCCTCGATCTGGCTGGG
129 TCCTACTACCACAACCCTCGGTCTGGCTGGA
* * * * * * *
28802806 GCTTAGACATTGAATGAACTCCCTATGCCTAAGCCAACCCACGAAATGGGTGTGCGGGTGCTCAA
1 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGAGCGTGCAGGCGCTCAG
* ** * * *
28802871 CCGATC-AGAGAGGCATAATGTGCAAGTCGAGGATCAGCCCGATCCCCCTC
66 CTGGCCGA-AGAGGCATAATGCGCAAGTCGGGGATCGGCCCGATCCCCCTC
28802921 TTCGTGTTAT
Statistics
Matches: 467, Mismatches: 111, Indels: 25
0.77 0.18 0.04
Matches are distributed among these distances:
157 5 0.01
158 213 0.46
159 243 0.52
160 6 0.01
ACGTcount: A:0.24, C:0.30, G:0.27, T:0.19
Consensus pattern (159 bp):
GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGAGCGTGCAGGCGCTCAG
CTGGCCGAAGAGGCATAATGCGCAAGTCGGGGATCGGCCCGATCCCCCTCAACGTACTATCGATC
CTACTACCACAACCCTCGGTCTGGCTGGA
Found at i:28802747 original size:317 final size:316
Alignment explanation
Indices: 28802172--28802919 Score: 1032
Period size: 317 Copynumber: 2.4 Consensus size: 316
28802162 AACTCCATAT
* * * * * *
28802172 GCTTAGACATGGAATGAACTTCGTATGGCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAG
1 GCTTAGACATTGAATGAACTCCCTATGCCTAAGCCAACCCACGAAATGGGCGTGCGGGCGCTCAG
* * * * *
28802237 CTGGCCGGAGAGGCAAAATGTGCAAGCCGGGGATTGGCCCAGTCCCCCCTACGTGCTATCGATCC
66 CCGACCGGAGAGGCAAAATGTGCAAGTCGGGGATCGGCCCAAT-CCCCCTACGTGCTATCGATCC
* *
28802302 TGCTACTGCAACCCTCAGTCCGGTTCGATCTTAGACTGGGAATGAACTCCATATGCATAAATCAA
130 TACTACCGCAACCCTCAGTCCGGTTCGATCTTAGACTGGGAATGAACTCCATATGCATAAATCAA
* * *
28802367 CCCATGAAACGAGCGTGCAGGTGCTGAGCTGGCCGAAGAGGCATAATGCGCAAGTCGGGGATCGG
195 CCCATGAAACGAGCGTGCAGGCGCTGAGCTCGCCGAAGAGGCATAATGCGCAAGCCGGGGATCGG
* * *
28802432 CCCGATCCCCCTCAACGTA-CTATCGGTCCTACTGCCACAACCTTCGGTCTGACTGGG
260 CCCGATCCCCCTCAACG-AGCTATCGGTCCCACTGCCACAACCCTCGATCTGACTGGG
*
28802489 GCTTAGACATTGAATGAACTCCCTATGCCTAAGCCAACCCACGAAATGGGCGTGCAGGCGCTCAG
1 GCTTAGACATTGAATGAACTCCCTATGCCTAAGCCAACCCACGAAATGGGCGTGCGGGCGCTCAG
* ** * *
28802554 CCGACCGGAGAGGCAGAATGCACAAGTCGGGGATCGGCCCAATCCTCCCTGCGTGCTGTCGATCC
66 CCGACCGGAGAGGCAAAATGTGCAAGTCGGGGATCGGCCCAATCC-CCCTACGTGCTATCGATCC
* ** * *
28802619 TACTACCGTAACCCTTGGTCCGG-TCTGATCTTAGACTGGGAATGAACTCCGTATGCATAAGTCA
130 TACTACCGCAACCCTCAGTCCGGTTC-GATCTTAGACTGGGAATGAACTCCATATGCATAAATCA
* *
28802683 ACCCATGAAACGAGCGTGCTGGCGCTGAGCTCGTCGAAGAGGCATAATGCGCAAGCCGGGGATCG
194 ACCCATGAAACGAGCGTGCAGGCGCTGAGCTCGCCGAAGAGGCATAATGCGCAAGCCGGGGATCG
* * * * *
28802748 GCCCGATCCCCTTCAGCGAGCTATCGGTCCCGCTGCCATAACCCTCGATCTGGCTGGG
259 GCCCGATCCCCCTCAACGAGCTATCGGTCCCACTGCCACAACCCTCGATCTGACTGGG
* * *
28802806 GCTTAGACATTGAATGAACTCCCTATGCCTAAGCCAACCCACGAAATGGGTGTGCGGGTGCTCAA
1 GCTTAGACATTGAATGAACTCCCTATGCCTAAGCCAACCCACGAAATGGGCGTGCGGGCGCTCAG
* * * * * *
28802871 CCGATCAGAGAGGCATAATGTGCAAGTCGAGGATCAGCCCGATCCCCCT
66 CCGACCGGAGAGGCAAAATGTGCAAGTCGGGGATCGGCCCAATCCCCCT
28802920 CTTCGTGTTA
Statistics
Matches: 379, Mismatches: 49, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
316 9 0.02
317 370 0.98
ACGTcount: A:0.24, C:0.30, G:0.27, T:0.19
Consensus pattern (316 bp):
GCTTAGACATTGAATGAACTCCCTATGCCTAAGCCAACCCACGAAATGGGCGTGCGGGCGCTCAG
CCGACCGGAGAGGCAAAATGTGCAAGTCGGGGATCGGCCCAATCCCCCTACGTGCTATCGATCCT
ACTACCGCAACCCTCAGTCCGGTTCGATCTTAGACTGGGAATGAACTCCATATGCATAAATCAAC
CCATGAAACGAGCGTGCAGGCGCTGAGCTCGCCGAAGAGGCATAATGCGCAAGCCGGGGATCGGC
CCGATCCCCCTCAACGAGCTATCGGTCCCACTGCCACAACCCTCGATCTGACTGGG
Found at i:28803186 original size:26 final size:26
Alignment explanation
Indices: 28803148--28803200 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
28803138 CTGGTCTAAT
28803148 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28803174 CTTAGACAT-GGAATGAACTCCGTATG
1 CTTAGAC-TGGGAATGAACTCCGTATG
28803200 C
1 C
28803201 CAAAGCCAAC
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:28803589 original size:159 final size:165
Alignment explanation
Indices: 28803406--28803707 Score: 393
Period size: 170 Copynumber: 1.8 Consensus size: 165
28803396 CCAGTCGAAA
* * * * *
28803406 AGGCATAATGCGTAGGCCAAGGATCGACCCGATCCCAC-TC-TGCGTG-CTAT-C-G-G-TCCTG
1 AGGCAGAATGCGCAAGCCAAGGATCAACCCGATCCCACTTCATGC-TGACAATCCAGCGATCCTG
* *
28803464 TTGCCACAACCCTTGGTCCGACTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACC
65 TTGCCAAAACCCATGGTCCGACTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACC
*
28803529 TACGAAACGGGCATGCGGGCGCTTAGCTGACAGGAG
130 CACGAAACGGGCATGCGGGCGCTTAGCTGACAGGAG
* * *
28803565 AGGCAGAATGCGCAAGCCGAGGATCAACCCGGTCCCCCTTCAGTGCTGACAATCCAGCTGCCAAT
1 AGGCAGAATGCGCAAGCCAAGGATCAACCCGATCCCACTTCA-TGCTGACAATCCAGC-G---AT
*
28803630 CCTGTTGCCAAAACCCATGGTCCGACTGGGGCTTAGACATGGAATGAACTCCGTATGCCTAAGCC
61 CCTGTTGCCAAAACCCATGGTCCGACTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCC
28803695 AACCCACGAAACG
126 AACCCACGAAACG
28803708 AGTGTGCAGG
Statistics
Matches: 119, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
159 31 0.26
160 2 0.02
161 2 0.02
162 6 0.05
163 1 0.01
164 1 0.01
166 1 0.01
170 75 0.63
ACGTcount: A:0.25, C:0.31, G:0.26, T:0.18
Consensus pattern (165 bp):
AGGCAGAATGCGCAAGCCAAGGATCAACCCGATCCCACTTCATGCTGACAATCCAGCGATCCTGT
TGCCAAAACCCATGGTCCGACTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCC
ACGAAACGGGCATGCGGGCGCTTAGCTGACAGGAG
Found at i:28803752 original size:170 final size:170
Alignment explanation
Indices: 28803459--28803772 Score: 443
Period size: 170 Copynumber: 1.8 Consensus size: 170
28803449 GTGCTATCGG
* *
28803459 TCCTGTTGCCACAACCCTTGGTCCGACTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGC
1 TCCTGTTGCCAAAACCCATGGTCCGACTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGC
* * * * * * *
28803524 CAACCTACGAAACGGGCATGCGGGCGCTTAGCTGACAGGAGAGGCAGAATGCGCAAGCCGAGGAT
66 CAACCCACGAAACGAGCATGCAGGCACTCAGCTGACAGAAGAGGCAAAATGCGCAAGCCGAGGAT
28803589 CA-ACCCGGTCCCCCTTCAGTGCTGACAATCCAGCTGCCAA
131 -AGACCCGGTCCCCCTTCAGTGCTGACAATCCAGCTGCCAA
*
28803629 TCCTGTTGCCAAAACCCATGGTCCGACTGGGGCTTAGACATGGAATGAACTCCGTATGCCTAAGC
1 TCCTGTTGCCAAAACCCATGGTCCGACTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGC
** * * * *
28803694 CAACCCACGAAACGAGTGTGCAGGCACTC-GGTCGACCGAAGAGGCAAAATGTGCAAGCCGGGGA
66 CAACCCACGAAACGAGCATGCAGGCACTCAGCT-GACAGAAGAGGCAAAATGCGCAAGCCGAGGA
*
28803758 TAGACTCGGTCCCCC
130 TAGACCCGGTCCCCC
28803773 CTGCGTGCTG
Statistics
Matches: 125, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
169 3 0.02
170 122 0.98
ACGTcount: A:0.25, C:0.30, G:0.27, T:0.17
Consensus pattern (170 bp):
TCCTGTTGCCAAAACCCATGGTCCGACTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGC
CAACCCACGAAACGAGCATGCAGGCACTCAGCTGACAGAAGAGGCAAAATGCGCAAGCCGAGGAT
AGACCCGGTCCCCCTTCAGTGCTGACAATCCAGCTGCCAA
Found at i:28803869 original size:26 final size:26
Alignment explanation
Indices: 28803831--28803886 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
28803821 CTGGTCCAAT
*
28803831 CTTAGACTAGGAATGAGCTCCGTATG
1 CTTAGACTAGGAATGAACTCCGTATG
*
28803857 CTTAGAC-ATGGAATGAACTCCGTCTG
1 CTTAGACTA-GGAATGAACTCCGTATG
28803883 CTTA
1 CTTA
28803887 AGCCAACCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 1 0.04
26 26 0.96
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (26 bp):
CTTAGACTAGGAATGAACTCCGTATG
Found at i:28803992 original size:683 final size:680
Alignment explanation
Indices: 28802489--28804284 Score: 1895
Period size: 683 Copynumber: 2.6 Consensus size: 680
28802479 TCTGACTGGG
* * * *** *
28802489 GCTTAGACATTGAATGAACTCCCTATGCCTAAGCCAACCCACGAAATGGGCGTGCAGGCGCTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCAAAGCCAACCCACGAAACAAGCGTGCAAGCGCTCAG
* * * * * * * ** * * * *
28802554 CCGACCGGAGAGGCAGAATGCACAAGTCGGGGATCGGCCCAATCCTCCC-TGCGTGCTGTCGATC
66 TCGACCAGAGAGGCAGAATACGCAAGCCAGGGACCAACCCAGTCC-CCCATACGTACTATCGATC
* * ** ** *** * *
28802618 CTACTACCGTAACCCTTGGTCCGGTCTGATCTTAGA-CTGGGAATGAACTCCGTATGCATAAGTC
130 CTGCTGCCACAACCCTCAGTTTAGTCTGATCTTAGATC-GGGAATGAACTCTGTATGCCTAAGTC
* * * *
28802682 AACCCATGAAACGAGCGTGCTGGCGCTGAGCTCGTCGAAGAGGCATAATGCGCAAGCCGGGGATC
194 AACCCATGAAACAAGTGT-CAGGCGCTGAGC-CGTCGAAGAGGCATAATGCGCAAGCCGAGGATC
* * * * * *
28802747 GGCCCGATCCCCTTCAGCGAGCTATCGGTCCCGCTGCCATAACCCTCGATCTGGCTGGGGCTTAG
257 GACCCGATCCCC-TCTGCGTGCTATCGGT-CCGCTGCCACAACCCTCGGTCCGGCTGGGGCTTAG
* * * *
28802812 ACATTGAATGAACTCCCTATGCCTAAGCCAACCCACGAAATGGGTGTGCGGGTGCTCAACCGATC
320 ACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGGGTGTGCGGGCGCTCAGCCGA-C
* * * * * * *
28802877 A-GAGAGGCATAATGTGCAAGTCGAGGATCAGCCCGATCCCCCTCTTCGTGTTATCGATCCCGCT
384 AGGAGAGGCAGAATGCGCAAGCCGAGGATCAACCCGATCCCCCTCTTCGTGTGATCAATCCAGCT
* ** * * * * **
28802941 GTCGGTCCTGCTGCCACAACCCTTAGTTCGACTGGGGCTTAGACATGGTATGAACTTTGTATGCC
449 GCCAATCCTGCTGCCAAAACCCATAGTCCGACTGGGGCTTAGACATGGAATGAACTCCGTATGCC
* * * * * * **
28803006 TAAGCCAACCCATAAAATGAGCGTGCGGGTACTCAGCCAGCCAGAGAGGCAGAATGCGTAAGTTG
514 TAAGCCAACCCACAAAACGAGCGTGCAGGCACTCAGCCAGCCAGAGAGGCAAAATGCGCAAGCCG
* * * * *
28803071 GGGATCGACTCGATCCCCCCTATATGCTGCCGATCCTGCTGTTGGTCTGGCTGCCACAACCCTCG
579 GGGATAGACTCGATCCCCCCTACATGCTGCCGATCCTGCTGCTGGTCCGACTGCCACAACCCTCG
* *
28803136 ATCTGGTCTAATCTTAGACTGGGAATGAACTCCGTAT
644 ATCTGGTCCAATCTTAGACTAGGAATGAACTCCGTAT
* ** *
28803173 GCTTAGACATGGAATGAACTCCGTATGCCAAAGCCAACCCACGAAACGAGCGTGCGGGCGCTTAG
1 GCTTAGACATGGAATGAACTCCGTATGCCAAAGCCAACCCACGAAACAAGCGTGCAAGCGCTCAG
* * * * * * * * *
28803238 TCGATCGGAGAGGCAGAATGCGCAAGTCGGGGACCGACCCAGTCCTCCTTACGTACTGTCGATCC
66 TCGACCAGAGAGGCAGAATACGCAAGCCAGGGACCAACCCAGTCCCCCATACGTACTATCGATCC
* * *
28803303 TGCTGCCACAACCCTCGGTTTAGTCTGATCTTAGATCGGGAATGAACTCTGTTTGCCTAACTCAA
131 TGCTGCCACAACCCTCAGTTTAGTCTGATCTTAGATCGGGAATGAACTCTGTATGCCTAAGTCAA
** * * * *
28803368 CCCATGAAACAAGTGTACAGGCATTGAGCCAGTCGAAAAGGCATAATGCGTAGGCCAAGGATCGA
196 CCCATGAAACAAGTGT-CAGGCGCTGAGCC-GTCGAAGAGGCATAATGCGCAAGCCGAGGATCGA
* * *
28803433 CCCGATCCCACTCTGCGTGCTATCGGTCCTGTTGCCACAACCCTTGGTCCGACTGGGGCTTAGAC
259 CCCGATCCC-CTCTGCGTGCTATCGGTCC-GCTGCCACAACCCTCGGTCCGGCTGGGGCTTAGAC
* ** * *
28803498 ATGGAATGAACTCCCTATGCCTAAGCCAACCTACGAAACGGGCATGCGGGCGCTTAGCTGACAGG
322 ATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGGGTGTGCGGGCGCTCAGCCGACAGG
*
28803563 AGAGGCAGAATGCGCAAGCCGAGGATCAACCCGGT-CCCC-CTTCAGTGCTGA-CAATCCAGCTG
387 AGAGGCAGAATGCGCAAGCCGAGGATCAACCCGATCCCCCTCTTC-GTG-TGATCAATCCAGCTG
* *
28803625 CCAATCCTGTTGCCAAAACCCATGGTCCGACTGGGGCTTAGACATGGAATGAACTCCGTATGCCT
450 CCAATCCTGCTGCCAAAACCCATAGTCCGACTGGGGCTTAGACATGGAATGAACTCCGTATGCCT
* * * * *
28803690 AAGCCAACCCACGAAACGAGTGTGCAGGCACTCGGTC-GACC-GAAGAGGCAAAATGTGCAAGCC
515 AAGCCAACCCACAAAACGAGCGTGCAGGCACTCAGCCAG-CCAG-AGAGGCAAAATGCGCAAGCC
* * * ** * * *
28803753 GGGGATAGACTCGGTCCCCCCTGCGTGCTGTTGATCCTGCTGCTGGTCCGATTGTCGCAACCCTC
578 GGGGATAGACTCGATCCCCCCTACATGCTGCCGATCCTGCTGCTGGTCCGACTGCCACAACCCTC
* *
28803818 GGTCTGGTCCAATCTTAGACTAGGAATGAGCTCCGTAT
643 GATCTGGTCCAATCTTAGACTAGGAATGAACTCCGTAT
* **
28803856 GCTTAGACATGGAATGAACTCCGTCTGCTTAAGCCAACCCACGAAACAAGCGTGCAAGCGCTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCAAAGCCAACCCACGAAACAAGCGTGCAAGCGCTCAG
* * * * * * *
28803921 TTGACCAGAGAGGTAGAATACGTAAGCCAGGGACCAACCCGGTCCCCCATACGTGCTATCTATCT
66 TCGACCAGAGAGGCAGAATACGCAAGCCAGGGACCAACCCAGTCCCCCATACGTACTATCGATCC
* * * ** *
28803986 TGCTGCCGCAACCCTCATTTTGGTCCAATCTTAGATTGGGAATGAACT-TCGTATGCCTAAGTCA
131 TGCTGCCACAACCCTCAGTTTAGTCTGATCTTAGATCGGGAATGAACTCT-GTATGCCTAAGTCA
* * * * * *
28804050 ACCCATGAAACGAACATG-CGGGCGCTGAGTCGATCGGAGAGGCATAATGCGCAAGTCGAGGATT
195 ACCCATGAAAC-AA-GTGTCAGGCGCTGAGCCG-TCGAAGAGGCATAATGCGCAAGCCGAGGATC
* * *
28804114 AACCC-AGTCCCCCTCTGCGTGCTACCGGTACCGCTGCCACAACCCTCGGTCCGGCTAGGGCTTA
257 GACCCGA-T-CCCCTCTGCGTGCTATCGGT-CCGCTGCCACAACCCTCGGTCCGGCTGGGGCTTA
* * *
28804178 GACATGGTATGAACTCGCTATGCCTAAGCCAACCCATGAAACGGGTGTGCGGGCGCTCAGCCGAC
319 GACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGGGTGTGCGGGCGCTCAGCCGAC
* * * * **
28804243 CGGAGAGGTAGAATACGCAAGCTGAGGATCGGCCCGATCCCC
384 AGGAGAGGCAGAATGCGCAAGCCGAGGATCAACCCGATCCCC
28804285 TCTGCATGCT
Statistics
Matches: 923, Mismatches: 171, Indels: 36
0.82 0.15 0.03
Matches are distributed among these distances:
682 9 0.01
683 550 0.60
684 360 0.39
685 4 0.00
ACGTcount: A:0.24, C:0.29, G:0.26, T:0.20
Consensus pattern (680 bp):
GCTTAGACATGGAATGAACTCCGTATGCCAAAGCCAACCCACGAAACAAGCGTGCAAGCGCTCAG
TCGACCAGAGAGGCAGAATACGCAAGCCAGGGACCAACCCAGTCCCCCATACGTACTATCGATCC
TGCTGCCACAACCCTCAGTTTAGTCTGATCTTAGATCGGGAATGAACTCTGTATGCCTAAGTCAA
CCCATGAAACAAGTGTCAGGCGCTGAGCCGTCGAAGAGGCATAATGCGCAAGCCGAGGATCGACC
CGATCCCCTCTGCGTGCTATCGGTCCGCTGCCACAACCCTCGGTCCGGCTGGGGCTTAGACATGG
AATGAACTCCCTATGCCTAAGCCAACCCACGAAACGGGTGTGCGGGCGCTCAGCCGACAGGAGAG
GCAGAATGCGCAAGCCGAGGATCAACCCGATCCCCCTCTTCGTGTGATCAATCCAGCTGCCAATC
CTGCTGCCAAAACCCATAGTCCGACTGGGGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCA
ACCCACAAAACGAGCGTGCAGGCACTCAGCCAGCCAGAGAGGCAAAATGCGCAAGCCGGGGATAG
ACTCGATCCCCCCTACATGCTGCCGATCCTGCTGCTGGTCCGACTGCCACAACCCTCGATCTGGT
CCAATCTTAGACTAGGAATGAACTCCGTAT
Found at i:28804284 original size:159 final size:158
Alignment explanation
Indices: 28804027--28804325 Score: 345
Period size: 159 Copynumber: 1.9 Consensus size: 158
28804017 TAGATTGGGA
* * * *
28804027 ATGAACTTCGTATGCCTAAGTCAACCCATGAAACGAACATGCGGGCGCTGAGTCGATCGGAGAGG
1 ATGAACTTCGTATGCCTAAGCCAACCCATGAAACGAACATGCGGGCGCTCAGCCGACCGGAGAGG
* * * * *
28804092 CATAATGCGCAAGTCGAGGATTAACCCAGTCCCCCTCTGCGTGCTACCGGTACC-GCTGCCACAA
66 CAGAATACGCAAGTCGAGGATCAACCCAGT-CCCCTCTGCATGCTACCGAT-CCTGCTGCCACAA
28804156 CCCTCGGTCCGGCTAGGGCTTAGACATGGT
129 CCCTCGGTCCGGCTAGGGCTTAGACATGGT
****
28804186 ATGAAC-TCGCTATGCCTAAGCCAACCCATGAAACGGGTGTGCGGGCGCTCAGCCGACCGGAGAG
1 ATGAACTTCG-TATGCCTAAGCCAACCCATGAAACGAACATGCGGGCGCTCAGCCGACCGGAGAG
* ** ** * *
28804250 GTAGAATACGCAAG-CTGAGGATCGGCCC-GATCCCCTCTGCATGCTGTCGATCCTGCTGTCGCA
65 GCAGAATACGCAAGTC-GAGGATCAACCCAG-TCCCCTCTGCATGCTACCGATCCTGCTGCCACA
28804313 ACCCTCGGTCCGG
128 ACCCTCGGTCCGG
28804326 TCTGATCTTA
Statistics
Matches: 116, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
157 2 0.02
158 41 0.35
159 73 0.63
ACGTcount: A:0.22, C:0.31, G:0.28, T:0.19
Consensus pattern (158 bp):
ATGAACTTCGTATGCCTAAGCCAACCCATGAAACGAACATGCGGGCGCTCAGCCGACCGGAGAGG
CAGAATACGCAAGTCGAGGATCAACCCAGTCCCCTCTGCATGCTACCGATCCTGCTGCCACAACC
CTCGGTCCGGCTAGGGCTTAGACATGGT
Found at i:28805073 original size:26 final size:26
Alignment explanation
Indices: 28805044--28805094 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
28805034 TGCACCGTGG
*
28805044 TAGAC-TGGAAATGAATTCCGTATGCT
1 TAGACATGG-AATGAACTCCGTATGCT
28805070 TAGACATGGAATGAACTCCGTATGC
1 TAGACATGGAATGAACTCCGTATGC
28805095 CTAAGCCAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 20 0.87
27 3 0.13
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (26 bp):
TAGACATGGAATGAACTCCGTATGCT
Found at i:28805358 original size:159 final size:159
Alignment explanation
Indices: 28805077--28805563 Score: 395
Period size: 159 Copynumber: 3.1 Consensus size: 159
28805067 GCTTAGACAT
* * * * * * *
28805077 GGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACTAGCGTGCGGGTGCTCAGTCGGCTGAAG
1 GGAATGAACTCCGTATGCATAAGCCAACCCACGAAACAAGCGTGCGGGCGCTCAGCCGACCGAAA
* * *
28805142 AGGGAGAATGCGCAAGCCTGGGATCGGCCCGATCCCCCCCAACGTGCTATCAATCCTGCTGCCAC
66 AGGCAGAATGCGCAAGCCTGGGATCGGCCAGATCCCCCCCAACGTGCTACCAATCCTGCTGCCAC
28805207 AACCCTCGATCCGGTCTGATCTTAGATTG
131 AACCCTCGATCCGGTCTGATCTTAGATTG
* * * *
28805236 GGAATGAACTTCGTATGCATAAGTCAACCCATGAAACAAGCGTGCGGGCGCTGAGCCGACCGAAA
1 GGAATGAACTCCGTATGCATAAGCCAACCCACGAAACAAGCGTGCGGGCGCTCAGCCGACCGAAA
* ** * ** *
28805301 AGGCATAATGCGCAAGCC-GAGGATCGGCCTAG-TCCCCCCCTGCGTGCTGCCGGTCCTGTTGCC
66 AGGCAGAATGCGCAAGCCTG-GGATCGGCC-AGATCCCCCCCAACGTGCTACCAATCCTGCTGCC
* * * ** *
28805364 ACAACCCTCGGT-CTGACTGGGCTTAGACAT-
129 ACAACCCTCGATCCGGTCTGATCTTAGA-TTG
* * ** *
28805394 -GAATGAACTCC-TATGCCT-ATCCAA-CCACGAAACGGGCG-GCGGGCGCTCAGCCGACCGGAG
1 GGAATGAACTCCGTATGCATAAGCCAACCCACGAAACAAGCGTGCGGGCGCTCAGCCGACC-GAA
* * ** * * * ** * *
28805454 CAGG-AGAATGCACAAG-GGGGGATCGGCCCGGT-CCCCTCTGCGTGCTACCGATCCTGCTACCA
65 AAGGCAGAATGCGCAAGCCTGGGATCGGCCAGATCCCCCCCAACGTGCTACCAATCCTGCTGCCA
* * ** * *
28805516 TAACCCTCGGTTTGGTTTGATCTTAGACTG
130 CAACCCTCGATCCGGTCTGATCTTAGATTG
* *
28805546 GGAATCAACTCTGTATGC
1 GGAATGAACTCCGTATGC
28805564 TTAGACTGGG
Statistics
Matches: 262, Mismatches: 56, Indels: 25
0.76 0.16 0.07
Matches are distributed among these distances:
151 37 0.14
152 19 0.07
153 37 0.14
154 21 0.08
155 4 0.02
156 6 0.02
157 10 0.04
158 12 0.05
159 115 0.44
160 1 0.00
ACGTcount: A:0.23, C:0.31, G:0.28, T:0.19
Consensus pattern (159 bp):
GGAATGAACTCCGTATGCATAAGCCAACCCACGAAACAAGCGTGCGGGCGCTCAGCCGACCGAAA
AGGCAGAATGCGCAAGCCTGGGATCGGCCAGATCCCCCCCAACGTGCTACCAATCCTGCTGCCAC
AACCCTCGATCCGGTCTGATCTTAGATTG
Found at i:28806026 original size:158 final size:155
Alignment explanation
Indices: 28805562--28806071 Score: 405
Period size: 158 Copynumber: 3.2 Consensus size: 155
28805552 AACTCTGTAT
* * *
28805562 GCTTAGACTGGGGATGAACTCCGTCTGCCTAAGTCAACCCATGAAACGAGCGTGTGGGTGA-TCT
1 GCTTAGACT-GGAATGAACTCCGTATGCCTAAGTCAACCCATGAAACGAGCGTGTGGG-CACTC-
* * * *
28805626 A-CCGACCAGAGAGGCAGGATGCGCAAGCCGGGGATCGAACGGCTCGGTAGGTCCCGCATGCGTG
63 AGCCGGCCCGAGAGGCA-GATGCGCAAGCCGGGGATCG-AC--C-C-G-A--TCCCCCCTGCGTG
** *
28805690 CTGTTGATCCTGCTGTCGCAACCCTCGGTCCGGTTCAA
119 CT-CCGATCCTGCTGTCACAACCCTCGGTCCGGTTCAA
* * * * * *
28805728 TCTTAGACTGGTAATGAACTTCGTATGCCTAAGTTAAGCCATGAAACGAGCGTGCGGGCACTGAG
1 GCTTAGACTGG-AATGAACTCCGTATGCCTAAGTCAACCCATGAAACGAGCGTGTGGGCACTCAG
* * * * * * ** * * *
28805793 -CTGACCGAAGAGGCATAATGTGAAAGTCGGGGATCGATTCGGTCCCCCTCTGCATGCTCCGGTC
65 CCGGCCCG-AGAGGCA-GATGCGCAAGCCGGGGATCGACCCGATCCCCC-CTGCGTGCTCCGATC
* * * ***
28805857 CCGCTGCCACAACCCTCGATCCGGTTGGG
127 CTGCTGTCACAACCCTCGGTCCGGTTCAA
* * * *
28805886 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAACGGGCATGTGGGCACTCAG
1 GCTTAGAC-TGGAATGAACTCCGTATGCCTAAGTCAACCCATGAAACGAGCGTGTGGGCACTCAG
28805951 CCGGCCCGAGAGGCAGATTGCGCAAGCCGGGGATCGACCCGATCCCCCCTGCGTGCTACCGATCC
65 CCGGCCCGAGAGGCAGA-TGCGCAAGCCGGGGATCGACCCGATCCCCCCTGCGTGCT-CCGATCC
* * * * *
28806016 TACTGTCACAACCTTCGGTCCGATCCGA
128 TGCTGTCACAACCCTCGGTCCGGTTCAA
* * *
28806044 TCTTAGACTGGGACTAAACTCCGTATGC
1 GCTTAGACT-GGAATGAACTCCGTATGC
28806072 TTAGACTAGG
Statistics
Matches: 266, Mismatches: 68, Indels: 28
0.73 0.19 0.08
Matches are distributed among these distances:
157 10 0.04
158 159 0.60
159 15 0.06
161 1 0.00
162 1 0.00
165 8 0.03
166 72 0.27
ACGTcount: A:0.22, C:0.29, G:0.28, T:0.20
Consensus pattern (155 bp):
GCTTAGACTGGAATGAACTCCGTATGCCTAAGTCAACCCATGAAACGAGCGTGTGGGCACTCAGC
CGGCCCGAGAGGCAGATGCGCAAGCCGGGGATCGACCCGATCCCCCCTGCGTGCTCCGATCCTGC
TGTCACAACCCTCGGTCCGGTTCAA
Found at i:28806074 original size:26 final size:26
Alignment explanation
Indices: 28806045--28806097 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28806035 CCGATCCGAT
28806045 CTTAGACT-GGGACTAAACTCCGTATG
1 CTTAGACTAGGGA-TAAACTCCGTATG
*
28806071 CTTAGACTAGGGATGAACTCCGTATG
1 CTTAGACTAGGGATAAACTCCGTATG
28806097 C
1 C
28806098 CTAAGTTAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (26 bp):
CTTAGACTAGGGATAAACTCCGTATG
Found at i:28806158 original size:508 final size:495
Alignment explanation
Indices: 28805044--28806184 Score: 1236
Period size: 508 Copynumber: 2.3 Consensus size: 495
28805034 TGCACCGTGG
* * * * *
28805044 TAGACTGGAAATGAATTCCGTATGCTTAGAC-ATGGAATGAACTCCGTATGCCTAAGCCAACCCA
1 TAGACTGGGAATAAACTCCGTATGCTTAGACTA-GGGATGAACTCCGTATGCCTAAGTCAACCCA
* ** * * *
28805108 CGAAACTAGCGTGCGGGTGCTCAGTCGGCTGAAGAGGGAGAATGCGCAAGCCTGGGATCGGCCCG
65 CGAAACGAGCGTGCGGGCACTCAGTCGGCCGAAGAGGCAGAATGCGCAAGCCGGGGATCGGCCCG
* * *
28805173 ATCCCCCCCAACGTGCTATCAATCCTGCTGCCACAACCCTCGATCCGGTCTGATCTTAGATTGGG
130 AGCCCCCCCAACGTGCTATCAATCCTGCTGCCACAACCCTCGATCCGGTCTAATCTTAGACTGGG
*
28805238 AATGAACTTCGTATGCATAAGTCAACCCATGAAACAAGCGTGCGGGCGCTGAGCCGACCGAAAAG
195 AATGAACTTCGTATGCATAAGTCAACCCATGAAACAAGCGTGCGGGCACTGAGCCGACCGAAAAG
* * * *
28805303 GCATAATGCGCAAGCCGAGGATCGGCCTAGTCCCCCCCTGCGTGCTGCCGGTCCTGTTGCCACAA
260 GCATAATGCGAAAGCCGAGGATCGGCCTAGTCCCCCCCTGCATGCTGCCGGTCCCGCTGCCACAA
* * *
28805368 CCCTCGGTCTGACTGGGCTTAGACATGAATGAACTCCTATGCCTATCCAACCACGAAACGGGCGG
325 CCCTCGATCCGACTGGGCTTAGACATGAATGAACTCCTATGCCTAGCCAACCACGAAACGGGCGG
* * * * * *
28805433 CGGGCGCTCAGCCGACCGGAGCAGGAGAATGCACAAGGGGGGATCGGCCCGGTCCCCTCTGCGTG
390 CGGGCACTCAGCCGACCCGAGCAGGAGAATGCACAAGCGGGGATCGACCCGATCCCCCCTGCGTG
* * ** * **
28805498 CTACCGATCCTGCTACCATAACCCTCGGTTTGGTTTGATCT
455 CTACCGATCCTACTACCACAACCCTCGGTCCGATCCGATCT
* * * * *
28805539 TAGACTGGGAATCAACTCTGTATGCTTAGACTGGGGATGAACTCCGTCTGCCTAAGTCAACCCAT
1 TAGACTGGGAATAAACTCCGTATGCTTAGACTAGGGATGAACTCCGTATGCCTAAGTCAACCCAC
* * * * *
28805604 GAAACGAGCGTGTGGGTGA-TCTA-CCGACC-AGAGAGGCAGGATGCGCAAGCCGGGGATCGAAC
66 GAAACGAGCGTGCGGG-CACTC-AGTCGGCCGA-AGAGGCAGAATGCGCAAGCCGGGGAT----C
* ** * * * ** * * *
28805666 GGCTCGGTAGGTCCCGCATGCGTGCTGTTGATCCTGCTGTCGCAACCCTCGGTCCGGT-TCAATC
124 GGC-CCG-AGCCCCCCCA-ACGTGCTATCAATCCTGCTGCCACAACCCTCGATCCGGTCT-AATC
* * * * * *
28805730 TTAGACTGGTAATGAACTTCGTATGCCTAAGTTAAGCCATGAAACGAGCGTGCGGGCACTGAGCT
185 TTAGACTGGGAATGAACTTCGTATGCATAAGTCAACCCATGAAACAAGCGTGCGGGCACTGAGCC
* * * * ** * *
28805795 GACCGAAGAGGCATAATGTGAAAGTCGGGGATC-GATTCGGTCCCCCTCTGCATGCT-CCGGTCC
250 GACCGAAAAGGCATAATGCGAAAGCCGAGGATCGGCCT-AGTCCCCCCCTGCATGCTGCCGGTCC
**
28805858 CGCTGCCACAACCCTCGATCCGGTTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAA
314 CGCTGCCACAACCCTCGATCCGACT-GGGCTTAGACAT-GAATGAACT-CCTATGCCT-AGCCAA
* * * * * *
28805923 CCCATGAAACGGGCATGTGGGCACTCAGCCGGCCCGAG-AGGCAGATTGCGCAAGCCGGGGATCG
375 -CCACGAAACGGGC-GGCGGGCACTCAGCCGACCCGAGCAGG-AGAATGCACAAG-CGGGGATCG
** *
28805987 ACCCGATCCCCCCTGCGTGCTACCGATCCTACTGTCACAACCTTCGGTCCGATCCGATCT
436 ACCCGATCCCCCCTGCGTGCTACCGATCCTACTACCACAACCCTCGGTCCGATCCGATCT
* *
28806047 TAGACTGGGACTAAACTCCGTATGCTTAGACTAGGGATGAACTCCGTATGCCTAAGTTAACCCAC
1 TAGACTGGGAATAAACTCCGTATGCTTAGACTAGGGATGAACTCCGTATGCCTAAGTCAACCCAC
* * * * *
28806112 GAAACGAGCGTGCGGGCACTCAGTTGGCCGAAGAGGCAAAATGCGCAAGCAGGGGATTGGTCCGA
66 GAAACGAGCGTGCGGGCACTCAGTCGGCCGAAGAGGCAGAATGCGCAAGCCGGGGATCGGCCCGA
*
28806177 TCCCCCCC
131 GCCCCCCC
28806185 TGCATGCTGC
Statistics
Matches: 521, Mismatches: 101, Indels: 41
0.79 0.15 0.06
Matches are distributed among these distances:
494 1 0.00
495 97 0.19
496 1 0.00
499 4 0.01
500 2 0.00
501 35 0.07
502 152 0.29
503 11 0.02
504 11 0.02
505 5 0.01
506 15 0.03
507 30 0.06
508 156 0.30
509 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.28, T:0.20
Consensus pattern (495 bp):
TAGACTGGGAATAAACTCCGTATGCTTAGACTAGGGATGAACTCCGTATGCCTAAGTCAACCCAC
GAAACGAGCGTGCGGGCACTCAGTCGGCCGAAGAGGCAGAATGCGCAAGCCGGGGATCGGCCCGA
GCCCCCCCAACGTGCTATCAATCCTGCTGCCACAACCCTCGATCCGGTCTAATCTTAGACTGGGA
ATGAACTTCGTATGCATAAGTCAACCCATGAAACAAGCGTGCGGGCACTGAGCCGACCGAAAAGG
CATAATGCGAAAGCCGAGGATCGGCCTAGTCCCCCCCTGCATGCTGCCGGTCCCGCTGCCACAAC
CCTCGATCCGACTGGGCTTAGACATGAATGAACTCCTATGCCTAGCCAACCACGAAACGGGCGGC
GGGCACTCAGCCGACCCGAGCAGGAGAATGCACAAGCGGGGATCGACCCGATCCCCCCTGCGTGC
TACCGATCCTACTACCACAACCCTCGGTCCGATCCGATCT
Found at i:28806271 original size:26 final size:26
Alignment explanation
Indices: 28806242--28806291 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
28806232 CCGATCCGAT
28806242 CTTAGAC-TGGGAATGAACTCCGTAAG
1 CTTAGACAT-GGAATGAACTCCGTAAG
*
28806268 CTTAGACATGGAATGGACTCCGTA
1 CTTAGACATGGAATGAACTCCGTA
28806292 TGCCTAAGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (26 bp):
CTTAGACATGGAATGAACTCCGTAAG
Found at i:28806377 original size:197 final size:195
Alignment explanation
Indices: 28806013--28806396 Score: 470
Period size: 197 Copynumber: 2.0 Consensus size: 195
28806003 GTGCTACCGA
* *
28806013 TCCTACTGTCACAACCTTCGGTCCGATCCGATCTTAGACTGGGACTAAACTCCGTATGCTTAGAC
1 TCCTACTGTCACAACCTTCGGTCCGATCCGATCTTAGACTGGGAATAAACTCCGTAAGCTTAGAC
* * * * * * *
28806078 TAGGGATGAACTCCGTATGCCTAAGTTAACCCACGAAACGAGCGTGCGGGCACTCAGTTGGCCGA
66 TAGGAATGAACTCCGTATGCCTAAGCTAACCAACGAAACGAGCGTGCAGGCACTCAATCGACCGA
** ** *
28806143 AGAGGCAAAATGCGCAAGCAGGGGATTGGTCCGATCCCCCCCTGCATGCTGCCGATCCTACTACT
131 AGAGGCAAAATGCAAAAGCAGGGGACCGCTCCGAT--CCCCCTGCATGCTGCCGATCCTACTACT
28806208 GG
194 GG
* *
28806210 TCCTGCTGTCACAACCCTT-GGTCCGATCCGATCTTAGACTGGGAATGAACTCCGTAAGCTTAGA
1 TCCTACTGTCACAA-CCTTCGGTCCGATCCGATCTTAGACTGGGAATAAACTCCGTAAGCTTAGA
* * ** *
28806274 C-ATGGAATGGACTCCGTATGCCTAAGCTAACCAATGAAACGAGCGTGCAGGTGCTCAATCGATC
65 CTA-GGAATGAACTCCGTATGCCTAAGCTAACCAACGAAACGAGCGTGCAGGCACTCAATCGACC
* * *
28806338 GGAGAGGCAGAATGCAAAAGCTA-GGGACCGACT-CGATCCCCCTGCATGCTGTCGATCCT
129 GAAGAGGCAAAATGCAAAAGC-AGGGGACCG-CTCCGATCCCCCTGCATGCTGCCGATCCT
28806397 GCTGCTGTAA
Statistics
Matches: 159, Mismatches: 24, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
195 21 0.13
196 1 0.01
197 131 0.82
198 6 0.04
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.21
Consensus pattern (195 bp):
TCCTACTGTCACAACCTTCGGTCCGATCCGATCTTAGACTGGGAATAAACTCCGTAAGCTTAGAC
TAGGAATGAACTCCGTATGCCTAAGCTAACCAACGAAACGAGCGTGCAGGCACTCAATCGACCGA
AGAGGCAAAATGCAAAAGCAGGGGACCGCTCCGATCCCCCTGCATGCTGCCGATCCTACTACTGG
Found at i:28807122 original size:26 final size:26
Alignment explanation
Indices: 28807093--28807145 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28807083 CCGGTCTGAT
28807093 CTTAGAC-TGGGAATGAACTCCGTATG
1 CTTAGACAT-GGAATGAACTCCGTATG
*
28807119 CTTAGACATGGAATGAACTCTGTATG
1 CTTAGACATGGAATGAACTCCGTATG
28807145 C
1 C
28807146 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:28807964 original size:868 final size:852
Alignment explanation
Indices: 28806070--28808561 Score: 2672
Period size: 868 Copynumber: 2.9 Consensus size: 852
28806060 AACTCCGTAT
* ** *
28806070 GCTTAGACTAGGGATGAACTCCGTATGCCTAAGTTAACCCACGAAACGAGCGTGCGGGCACTCAG
1 GCTTAGACT-GGAATGAACTCCGTATGCCTAAGCAAACCCACGAAACGAGCGTGCGGGC-GTCAG
* * *
28806135 TTGGCCGAAGAGGCAAAATGCGCAAGCAGGGGATTGGTCCGATCCCCCCCTGCATGCTGCCGATC
64 TCGGCCGAAGAGGCAAAATGCGCAAGCA-GGGATTGGCCCGAT-CCCTCCTGCATGCTGCCGAT-
* * *
28806200 CTACTACTGGTCCTGCTGTCACAACCCTTGGTCCGATCCGATCTTAGACTGGGAATGAACTCCGT
126 CTACTACTGGTCCTGCTGTCGCAACCC-TCGTCCGATCTGATCTTAGACTGGGAATGAACTCCGT
* * * * * * *
28806265 AAGCTTAGACATGGAATGGACTCCGTATGCCTAAGCTAACCAATGAAACGAGCGTGCAGGTGCTC
190 ATGCTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCGCTC
* * * * * *
28806330 AATC-GATCGGAGAGGCAGAATGCAAAAGCTAGGGACC-GACTCGATCCCCCTGCATGCTGTCGA
255 AGTCAG-CCGGAGAGGCAGAATGCACAAG-TTGGGACCGGTCTAG-TCCCCCTGCATGCTGTCGA
* * *
28806393 TCCTGCTGCTGTAACCCTCGTTTCGGTCTGATCTTAGACT-GGGAATGAACTCCATATGCCTAAG
317 TCCTGCTGCTGCAACCCTCGTCT-GGTCCGATCTTAGA-TAGGGAATGAACTCCATATGCCTAAG
* * *
28806457 TCAACCCACGAAATAAGCGTTTAGGCGCTGAGCCGGTCGGAGAGGCATAATGCGCAAGCCAGGGA
380 TCAACCCACGAAATGAGTGTTCAGGCGCTGAGCCGGTCGGAGAGGCATAATGCGCAAGCCAGGGA
* * * * * *
28806522 TCAG-TCTGATCCCCCTTTACGTGCTGTCGGTCCCGCTACCACAACTCTCGATCCGGCTAGGACT
445 TCGGCTC-GATCCCCCTCTACGTGCTGTC-GTCCCGCTGCCACAACTCTCGATCTGGCTGGGGCT
28806586 TAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACG-AA-A-C--A--GGCG-T--GC-G-
508 TAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAAGAGCGTACGGGCGCTCAGCGGC
* * *
28806639 -GAGATGCAAAATGCCCAAG-TCGGGGATCGACCTGGTCACCCCTGCGTGCTGTCGATCCTACTA
573 CGAGAGGCAAAATGCCCAAGCT-GGGGATCGGCCTGGTCACCCCTGCGTGCTGTCGAT-CT-CTG
* *
28806702 CCGCAACCCTCGGTCCAATCTGATCTTAGACTGGGAATAAACTCTGTATGCTTAGACTGAGGATG
635 CCGCAACCCTCGGTCCAGTCTGATCTTAGACTGGGAATGAACTCTGTATGCTTAGACT-AGGATG
* * * ** * * ** *
28806767 ACCTTCATATGCCTAAGTCAACTCACGAAAAAAGCGTGCGGGCGCTGGGTCGACCGGAGAGGCAT
699 AACTCCGTATGCCTAAGTCAAC-CACGAAATGAGCGTGTGGGTGCTCAGTCGGCCGGAGAGGCAT
* * * * * * * * * *
28806832 AATATGTAATCTGAGGATCAGCTCGATCCCTCTCTTCTTACTGTCGATCCTACTGCCGGTCCTAC
763 AATACGCAACCAGAGGATCAACCCAATCCCTCTCTACGTACTGTCAATCCTACTGCCGGTCCTAC
* * *
28806897 TGCCATAACCTTCAGTCCGACTGGG
828 TGCCACAACCCTCAGTCCGACTAGG
* * * * * * *
28806922 GCTTAGACTGGAATGAACTCCATATTCCTAAGCCAACCCACGAAATGAGCGTGCAGGCGCTTAGC
1 GCTTAGACTGGAATGAACTCCGTATGCCTAAGCAAACCCACGAAACGAGCGTGCGGGCG-TCAGT
*** * * * * * * * * ** *
28806987 CTATCGTAGAGGCAGAGTGTGCAAGTCGGGGATCGGCCCGGTCCCTCTCGGTGTGCTACCGATGC
65 CGGCCGAAGAGGCAAAATGCGCAAG-CAGGGATTGGCCCGATCCCTC-CTGCATGCTGCCGAT-C
* * * * * *
28807052 TACTACGGGTCCTGTTATCGTAACTCTCGATCCGGTCTGATCTTAGACTGGGAATGAACTCCGTA
127 TACTACTGGTCCTGCTGTCGCAACCCTCG-TCCGATCTGATCTTAGACTGGGAATGAACTCCGTA
*
28807117 TGCTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCATGAAACGAGCGTACGGGCGCTCA
191 TGCTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCGCTCA
* * * *
28807182 GTCAGCCGGAGAGGCAGAATGCGCAAGTTGGAGACCGGTCTAGTCCCCCTTACGTGCTGTTGATC
256 GTCAGCCGGAGAGGCAGAATGCACAAGTTGG-GACCGGTCTAGTCCCCC-TGCATGCTGTCGATC
* * * * *
28807247 CTGTTGCCGCAACCCACAATCTGGGCCGATCTTAGATAGGGAATGAACTCCATATGCCTAAGTCA
319 CTGCTGCTGCAACCCTC-GTCTGGTCCGATCTTAGATAGGGAATGAACTCCATATGCCTAAGTCA
* * *
28807312 ACCCACGAAATGAGTGTTCAGGCGCTGAGCCGGTCGGAAAGGCATAATGCGCAAGCCGGGGATTG
383 ACCCACGAAATGAGTGTTCAGGCGCTGAGCCGGTCGGAGAGGCATAATGCGCAAGCCAGGGATCG
** * *
28807377 GCTCGATCCCCCTCTGTGTGCTGCCAGTCCCGCTGCCACAACTCTCGATCTGGTTGGGGCTTAGA
448 GCTCGATCCCCCTCTACGTGCTGTC-GTCCCGCTGCCACAACTCTCGATCTGGCTGGGGCTTAGA
28807442 CATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGAGCGTACGGGCGCTCAGTCGGCCG
512 CATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAA-GAGCGTACGGGCGCTCAG-CGGCCG
*
28807507 AAGAGGCAAAATGCCCAAGCTGGGGATTGGCCTGGTCACCCCTGCGTGCTGTCGATCTTGCTGCC
575 -AGAGGCAAAATGCCCAAGCTGGGGATCGGCCTGGTCACCCCTGCGTGCTGTCGATC-T-CTGCC
* *
28807572 GCAACCCTCGATCCAGTCTGATCTTGGACTGGGAATGAACTCTGTATGCTTAGACTAAGGATGAA
637 GCAACCCTCGGTCCAGTCTGATCTTAGACTGGGAATGAACTCTGTATGCTTAGACT-AGGATGAA
* *
28807637 CTCCGTATGCCTAAGTCAATCCACGAAATGAGCGTGTGGGTGCTCTGCCGGCCGGAGAGGCATAA
701 CTCCGTATGCCTAAGTCAA-CCACGAAATGAGCGTGTGGGTGCTCAGTCGGCCGGAGAGGCATAA
* * ** * *
28807702 TGCGCAAGCCAG-GGATCAACCCAATTCCC-CTCTACGTGCTGTCAATCCTGTTGCCGGTCTTGC
765 TACGCAA-CCAGAGGATCAACCCAA-TCCCTCTCTACGTACTGTCAATCCTACTGCCGGTCCTAC
28807765 TGCCACAACCCTC-GATCC-AGCTAGG
828 TGCCACAACCCTCAG-TCCGA-CTAGG
*
28807790 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCAAACCCACGAAACAAGCGTGCGGGCGTGCAG
1 GCTTAGAC-TGGAATGAACTCCGTATGCCTAAGCAAACCCACGAAACGAGCGTGCGGGCGT-CAG
* *
28807855 TCGGCC-AGAGAGGCAAAATACGCAAGCCAGGGATTGGCCCGATCCCTCCTGCATGCTGTCGATC
64 TCGGCCGA-AGAGGCAAAATGCGCAAG-CAGGGATTGGCCCGATCCCTCCTGCATGCTGCCGATC
* * * *
28807919 TTGCTGCTGGTCCTGCTG-CTGCAACCCTCAGTCCGATCTGATCTTAGACTGGGAATAAACTCTG
127 -TACTACTGGTCCTGCTGTC-GCAACCCTC-GTCCGATCTGATCTTAGACTGGGAATGAACTCCG
* * ** * *
28807983 TATGCTTAGACATGGAATGAACTCTGTATTCCTAAGTCAACCCACAAAACAAGCGTGCGTGCGCT
189 TATGCTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCGCT
* * * **
28808048 CAG-CAGGCCGAAGAGGCAGAATGCACAAGCTGGGGATCGGTCCGGTCCCCCCCTGCATGCTGTC
254 CAGTCA-GCCGGAGAGGCAGAATGCACAAG-TTGGGACCGGTCTAGT--CCCCCTGCATGCTGTC
* * * * *
28808112 GATCTTGCT-CTGCAACCCTCGGTCTGATCCAATCTTAGACAGGGAATGAACTCCGTATGCCTAA
315 GATCCTGCTGCTGCAACCCTC-GTCTGGTCCGATCTTAGATAGGGAATGAACTCCATATGCCTAA
* * * * * *
28808176 GTCAACCCACGAAACGAGTGTACGGGCGCTGAGCCGATCAGAGAGGCATAATGCGTAAGCCAGGG
379 GTCAACCCACGAAATGAGTGTTCAGGCGCTGAGCCGGTCGGAGAGGCATAATGCGCAAGCCAGGG
* * * *
28808241 ATCGGCCCGATCCCCTTCTACGTGCTGTCGATCCCGCTGCTACAAC-CTTCGGT-TCGGCTGGGG
444 ATCGGCTCGATCCCCCTCTACGTGCTGTCG-TCCCGCTGCCACAACTC-TCGATCT-GGCTGGGG
* * * *
28808304 CTTAGACATGGAATGAACT-CCTAATGCCTAAGCCAACCCATGAAATGGGCGTGCGGGCACTCAG
506 CTTAGACATGGAATGAACTCCCT-ATGCCTAAGCCAACCCACGAAA-GAGCGTACGGGCGCTCAG
* * * * * * * * ** *
28808368 CCGACCGGAGAGGCAGAATGCGCAAGCCGAGAATCGGCCCGATC-CCCCTGCGTGCTACCAATCT
569 -CGGCC-GAGAGGCAAAATGCCCAAGCTGGGGATCGGCCTGGTCACCCCTGCGTGCTGTCGATCT
* *
28808432 CTGCTGCAACCCTCGGTTCAGT-TCGATCTTAGACTGGGAATGAACT-TCGTATGCTTAGACTAG
632 CTGCCGCAACCCTCGGTCCAGTCT-GATCTTAGACTGGGAATGAACTCT-GTATGCTTAGACTAG
* * *
28808495 GAATGAACTCCGTATGCCTAATTCAACCCACGAAATGAGGGTGTGGGTGCTCAGTCAGCCGGAGA
695 G-ATGAACTCCGTATGCCTAAGTCAA-CCACGAAATGAGCGTGTGGGTGCTCAGTCGGCCGGAGA
28808560 GG
758 GG
28808562 AGCCGGAGAG
Statistics
Matches: 1361, Mismatches: 227, Indels: 91
0.81 0.14 0.05
Matches are distributed among these distances:
850 9 0.01
851 227 0.17
852 225 0.17
853 6 0.00
855 1 0.00
856 1 0.00
858 1 0.00
860 4 0.00
861 1 0.00
863 1 0.00
864 6 0.00
865 113 0.08
866 1 0.00
867 30 0.02
868 621 0.46
869 109 0.08
870 5 0.00
ACGTcount: A:0.24, C:0.28, G:0.26, T:0.21
Consensus pattern (852 bp):
GCTTAGACTGGAATGAACTCCGTATGCCTAAGCAAACCCACGAAACGAGCGTGCGGGCGTCAGTC
GGCCGAAGAGGCAAAATGCGCAAGCAGGGATTGGCCCGATCCCTCCTGCATGCTGCCGATCTACT
ACTGGTCCTGCTGTCGCAACCCTCGTCCGATCTGATCTTAGACTGGGAATGAACTCCGTATGCTT
AGACATGGAATGAACTCTGTATGCCTAAGCCAACCCATGAAACGAGCGTGCGGGCGCTCAGTCAG
CCGGAGAGGCAGAATGCACAAGTTGGGACCGGTCTAGTCCCCCTGCATGCTGTCGATCCTGCTGC
TGCAACCCTCGTCTGGTCCGATCTTAGATAGGGAATGAACTCCATATGCCTAAGTCAACCCACGA
AATGAGTGTTCAGGCGCTGAGCCGGTCGGAGAGGCATAATGCGCAAGCCAGGGATCGGCTCGATC
CCCCTCTACGTGCTGTCGTCCCGCTGCCACAACTCTCGATCTGGCTGGGGCTTAGACATGGAATG
AACTCCCTATGCCTAAGCCAACCCACGAAAGAGCGTACGGGCGCTCAGCGGCCGAGAGGCAAAAT
GCCCAAGCTGGGGATCGGCCTGGTCACCCCTGCGTGCTGTCGATCTCTGCCGCAACCCTCGGTCC
AGTCTGATCTTAGACTGGGAATGAACTCTGTATGCTTAGACTAGGATGAACTCCGTATGCCTAAG
TCAACCACGAAATGAGCGTGTGGGTGCTCAGTCGGCCGGAGAGGCATAATACGCAACCAGAGGAT
CAACCCAATCCCTCTCTACGTACTGTCAATCCTACTGCCGGTCCTACTGCCACAACCCTCAGTCC
GACTAGG
Found at i:28807990 original size:26 final size:26
Alignment explanation
Indices: 28807961--28808011 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
28807951 CCGATCTGAT
28807961 CTTAGAC-TGGGAATAAACTCTGTATG
1 CTTAGACAT-GGAATAAACTCTGTATG
*
28807987 CTTAGACATGGAATGAACTCTGTAT
1 CTTAGACATGGAATAAACTCTGTAT
28808012 TCCTAAGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (26 bp):
CTTAGACATGGAATAAACTCTGTATG
Found at i:28808120 original size:355 final size:353
Alignment explanation
Indices: 28807408--28808273 Score: 845
Period size: 355 Copynumber: 2.4 Consensus size: 353
28807398 TGCCAGTCCC
* ** * * *
28807408 GCTGCCACAACTCTCGATCTGGTTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAAC
1 GCTGCCACAACCCTCGATCCAGCTAGGGCTTAGACATGGAATGAACTCCGTATGCCTAAG-CAAC
* **
28807473 CCACGAAACGAGCGTACGGGCGCT-CAGTCGGCC-GAAGAGGCAAAATGCCCAAGCTGGGGATTG
65 CCACGAAACGAGCGTACGGGCGCTGCAGTCGGCCAG-AGAGGCAAAATGCGCAAGCCAGGGATTG
* * *
28807536 GCCTGGTCACC-CCTGCGTGCTGTCGA--TCTTGCTGCCGCAACCCTCGATCCAGTCTGATCTTG
129 GCCCGATC-CCTCCTGCGTGCTGTCGATCTCTTGCTGCCGCAACCCTCGATCCAGTCTGATCTTA
* * *
28807598 GACTGGGAATGAACTCTGTATGCTTAGACTAAGGATGAACTCCGTATGCCTAAGTCAATCCACGA
193 GACTGGGAATAAACTCTGTATGCTTAGACTAAGGATGAACTCCGTATGCCTAAGTCAACCCACAA
** * * * * * * * *
28807663 AATGAGCGTGTGGGTGCTCTGCCGGCCGGAGAGGCATAATGCGCAAGCCAGGGATCAACCCAATT
258 AACAAGCGTGCGGGCGCTCAGCAGGCCGAAGAGGCAGAATGCACAAGCCAGGGATCAACCCAAGT
*
28807728 CCCCTCTACGTGCTGTCAATCCTGTTGCCGGTCTT
323 CCCCTC-AC--GCTGTCAATCCTGTT-CCGATCTT
28807763 GCTGCCACAACCCTCGATCCAGCTAGGGCTTAGACATGGAATGAACTCCGTATGCCTAAGCAAAC
1 GCTGCCACAACCCTCGATCCAGCTAGGGCTTAGACATGGAATGAACTCCGTATGCCTAAGC-AAC
* * *
28807828 CCACGAAACAAGCGTGCGGGCG-TGCAGTCGGCCAGAGAGGCAAAATACGCAAGCCAGGGATTGG
65 CCACGAAACGAGCGTACGGGCGCTGCAGTCGGCCAGAGAGGCAAAATGCGCAAGCCAGGGATTGG
*
28807892 CCCGATCCCTCCTGCATGCTGTCGATCTTGCTGCTGGTCCTGCTGCTGCAACCCTC-AGTCC-GA
130 CCCGATCCCTCCTGCGTGCTGTCGATC-T-CT--T-G--CTGC--C-GCAACCCTCGA-TCCAG-
* * *
28807955 TCTGATCTTAGACTGGGAATAAACTCTGTATGCTTAGAC-ATGGAATGAACTCTGTATTCCTAAG
183 TCTGATCTTAGACTGGGAATAAACTCTGTATGCTTAGACTAAGG-ATGAACTCCGTATGCCTAAG
* **
28808019 TCAACCCACAAAACAAGCGTGCGTGCGCTCAGCAGGCCGAAGAGGCAGAATGCACAAGCTGGGGA
247 TCAACCCACAAAACAAGCGTGCGGGCGCTCAGCAGGCCGAAGAGGCAGAATGCACAAGCCAGGGA
*** * *
28808084 TCGGTCC-GGTCCCC-C-C-CTG-C-ATGCTG-T-CGATCTT
312 TCAACCCAAGTCCCCTCACGCTGTCAATCCTGTTCCGATCTT
** * * * * ** *
28808118 GCT-CTGCAACCCTCGGTCTGATCCA-ATCTTAGACAGGGAATGAACTCCGTATGCCTAAGTCAA
1 GCTGCCACAACCCTCGATC-CAGCTAGGGCTTAGACATGGAATGAACTCCGTATGCCTAAG-CAA
* * ** * * *
28808181 CCCACGAAACGAGTGTACGGGCGCTG-AGCCGATCAGAGAGGCATAATGCGTAAGCCAGGGATCG
64 CCCACGAAACGAGCGTACGGGCGCTGCAGTCGGCCAGAGAGGCAAAATGCGCAAGCCAGGGATTG
* *
28808245 GCCCGATCCCCTTCTACGTGCTGTCGATC
129 GCCCGAT-CCCTCCTGCGTGCTGTCGATC
28808274 CCGCTGCTAC
Statistics
Matches: 425, Mismatches: 63, Indels: 46
0.80 0.12 0.09
Matches are distributed among these distances:
354 107 0.25
355 163 0.38
356 1 0.00
357 1 0.00
358 6 0.01
359 3 0.01
360 3 0.01
361 1 0.00
362 1 0.00
363 1 0.00
364 4 0.01
365 1 0.00
366 11 0.03
367 122 0.29
ACGTcount: A:0.24, C:0.29, G:0.26, T:0.21
Consensus pattern (353 bp):
GCTGCCACAACCCTCGATCCAGCTAGGGCTTAGACATGGAATGAACTCCGTATGCCTAAGCAACC
CACGAAACGAGCGTACGGGCGCTGCAGTCGGCCAGAGAGGCAAAATGCGCAAGCCAGGGATTGGC
CCGATCCCTCCTGCGTGCTGTCGATCTCTTGCTGCCGCAACCCTCGATCCAGTCTGATCTTAGAC
TGGGAATAAACTCTGTATGCTTAGACTAAGGATGAACTCCGTATGCCTAAGTCAACCCACAAAAC
AAGCGTGCGGGCGCTCAGCAGGCCGAAGAGGCAGAATGCACAAGCCAGGGATCAACCCAAGTCCC
CTCACGCTGTCAATCCTGTTCCGATCTT
Found at i:28808488 original size:26 final size:26
Alignment explanation
Indices: 28808459--28808511 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
28808449 TCAGTTCGAT
* *
28808459 CTTAGACTGGGAATGAACTTCGTATG
1 CTTAGACTAGGAATGAACTCCGTATG
28808485 CTTAGACTAGGAATGAACTCCGTATG
1 CTTAGACTAGGAATGAACTCCGTATG
28808511 C
1 C
28808512 CTAATTCAAC
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):
CTTAGACTAGGAATGAACTCCGTATG
Found at i:28809869 original size:26 final size:26
Alignment explanation
Indices: 28809832--28809881 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
28809822 TAACCCTCGA
28809832 TCCAGTATCTTAGACTGAGAATGAGC
1 TCCAGTATCTTAGACTGAGAATGAGC
*
28809858 TCCA-TATGCTTAGACTGGGAATGA
1 TCCAGTAT-CTTAGACTGAGAATGA
28809882 ACTTCGTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (26 bp):
TCCAGTATCTTAGACTGAGAATGAGC
Found at i:28809891 original size:26 final size:26
Alignment explanation
Indices: 28809836--28809892 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
28809826 CCTCGATCCA
*
28809836 GTAT-CTTAGACTGAGAATGAGCTCC
1 GTATGCTTAGACTGAGAATGAACTCC
* * *
28809861 ATATGCTTAGACTGGGAATGAACTTC
1 GTATGCTTAGACTGAGAATGAACTCC
28809887 GTATGC
1 GTATGC
28809893 CTAAGTCAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 3 0.12
26 23 0.88
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (26 bp):
GTATGCTTAGACTGAGAATGAACTCC
Found at i:28810397 original size:26 final size:26
Alignment explanation
Indices: 28810368--28810420 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
28810358 CAGTTCCGAT
*
28810368 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCATATG
*
28810394 CTTAGACTGGGGATGAACTCCATATG
1 CTTAGACTGGGAATGAACTCCATATG
28810420 C
1 C
28810421 CTAGTCAACC
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:28810785 original size:26 final size:26
Alignment explanation
Indices: 28810747--28810799 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
28810737 CCAATCTGAT
28810747 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28810773 CTTAGACAT-GGAATGAACTCCGTATG
1 CTTAGAC-TGGGAATGAACTCCGTATG
28810799 C
1 C
28810800 CTAAGTCGGG
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:28811375 original size:26 final size:26
Alignment explanation
Indices: 28811346--28811398 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28811336 CTGGTTCGAT
28811346 CTTAGACTGGGAATGAACT-TCGTATG
1 CTTAGACTGGGAATGAACTCT-GTATG
* *
28811372 CTTAGATTGGGGATGAACTCTGTATG
1 CTTAGACTGGGAATGAACTCTGTATG
28811398 C
1 C
28811399 CTAAGTCAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 23 0.96
27 1 0.04
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCTGTATG
Found at i:28811741 original size:26 final size:26
Alignment explanation
Indices: 28811712--28811762 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
28811702 CGGTCTGATC
*
28811712 TTAGAC-TAGGAATGAACTCTGTATGT
1 TTAGACAT-GGAATGAACTCCGTATGT
28811738 TTAGACATGGAATGAACTCCGTATG
1 TTAGACATGGAATGAACTCCGTATG
28811763 CCTAAGCCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (26 bp):
TTAGACATGGAATGAACTCCGTATGT
Found at i:28812026 original size:158 final size:158
Alignment explanation
Indices: 28811738--28812039 Score: 353
Period size: 158 Copynumber: 1.9 Consensus size: 158
28811728 CTCTGTATGT
* * * *
28811738 TTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGTGGGTGCTCAACC
1 TTAGACATGGAATGAACTCCCTATGACTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAACC
* * * ** *
28811803 GACCAGAAGGTAGAATGCGTAAGTCGGGGACTGGCCCGATCCCCCTCTGCGTGCTGTCGATCCTG
66 GACCAGAAGGCAGAATGCGCAAGTCGGGGACTGACCCGATCCCCCTCAACGTGCTGTCAATCCTG
* *
28811868 CTGCTGTAACCCTCGGTCTGGCTGAGGC
131 CTACCGTAACCCTCGGTCTGGCTGAGGC
* **
28811896 TTAGACATGGAATGAACTCCCTATGACTAAGCCAACCCATGAAACG-GACGTGCGGGCGCTCAGT
1 TTAGACATGGAATGAACTCCCTATGACTAAGCCAACCCACGAAACGAG-CGTGCGGGCGCTCAAC
* * * *
28811960 CGGCCAGAGAGGCAGAATGCGCAAG-CTGGGGA-TCGACCCGGTCCCTC-CAACGTG-TTTCCAA
65 CGACCAGA-AGGCAGAATGCGCAAGTC-GGGGACT-GACCCGATCCCCCTCAACGTGCTGT-CAA
28812021 TCCTGCTACCGTAACCCTC
126 TCCTGCTACCGTAACCCTC
28812040 AGTCCGATTC
Statistics
Matches: 120, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
157 3 0.03
158 88 0.73
159 29 0.24
ACGTcount: A:0.23, C:0.30, G:0.27, T:0.19
Consensus pattern (158 bp):
TTAGACATGGAATGAACTCCCTATGACTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAACC
GACCAGAAGGCAGAATGCGCAAGTCGGGGACTGACCCGATCCCCCTCAACGTGCTGTCAATCCTG
CTACCGTAACCCTCGGTCTGGCTGAGGC
Found at i:28812057 original size:158 final size:158
Alignment explanation
Indices: 28811738--28812078 Score: 352
Period size: 158 Copynumber: 2.2 Consensus size: 158
28811728 CTCTGTATGT
* * *
28811738 TTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGTGGGTGCTCAACC
1 TTAGACATGGAATGAACTCCGTATGACTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAACC
* * * ** *
28811803 GACCAGAAGGTAGAATGCGTAAGTCGGGGACTGGCCCGATCCCCCTCTGCGTGCTGTCGATCCTG
66 GACCAGAAGGCAGAATGCGCAAGTCGGGGACTGACCCGATCCCCCTCAACGTGCTGTCAATCCTG
* * * * * * *
28811868 CTGCTGTAACCCTCGGTCTGGCTGAGGC
131 CTACCGTAACCCTCAGTCCGACTCAAGC
* * **
28811896 TTAGACATGGAATGAACTCCCTATGACTAAGCCAACCCATGAAACG-GACGTGCGGGCGCTCAGT
1 TTAGACATGGAATGAACTCCGTATGACTAAGCCAACCCACGAAACGAG-CGTGCGGGCGCTCAAC
* * * *
28811960 CGGCCAGAGAGGCAGAATGCGCAAG-CTGGGGA-TCGACCCGGTCCCTC-CAACGTG-TTTCCAA
65 CGACCAGA-AGGCAGAATGCGCAAGTC-GGGGACT-GACCCGATCCCCCTCAACGTGCTGT-CAA
* *
28812021 TCCTGCTACCGTAACCCTCAGTCCGATTCAATC
126 TCCTGCTACCGTAACCCTCAGTCCGACTCAAGC
28812054 TTAGAC-TGGGAATGAACTCCGTATG
1 TTAGACAT-GGAATGAACTCCGTATG
28812079 CTTAGACTGG
Statistics
Matches: 150, Mismatches: 27, Indels: 12
0.79 0.14 0.06
Matches are distributed among these distances:
157 4 0.03
158 117 0.78
159 29 0.19
ACGTcount: A:0.24, C:0.29, G:0.27, T:0.20
Consensus pattern (158 bp):
TTAGACATGGAATGAACTCCGTATGACTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAACC
GACCAGAAGGCAGAATGCGCAAGTCGGGGACTGACCCGATCCCCCTCAACGTGCTGTCAATCCTG
CTACCGTAACCCTCAGTCCGACTCAAGC
Found at i:28812082 original size:26 final size:26
Alignment explanation
Indices: 28812053--28812105 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
28812043 CCGATTCAAT
*
28812053 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCATATG
*
28812079 CTTAGACTGGGGATGAACTCCATATG
1 CTTAGACTGGGAATGAACTCCATATG
28812105 C
1 C
28812106 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:28812790 original size:26 final size:26
Alignment explanation
Indices: 28812749--28812801 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28812739 CTGATCCAAT
28812749 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
*
28812775 CTTAGACTAGGG-ATGAACTTCGTATG
1 CTTAGACT-GGGAATGAACTCCGTATG
28812801 C
1 C
28812802 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:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28813167 original size:26 final size:26
Alignment explanation
Indices: 28813130--28813180 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
28813120 CGATCTGATT
28813130 TTAGACTGGGAATGAACTCAGTATGC
1 TTAGACTGGGAATGAACTCAGTATGC
*
28813156 TTAGACAT-GGAATGAACTCCGTATG
1 TTAGAC-TGGGAATGAACTCAGTATG
28813181 TCTAAGCCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.27
Consensus pattern (26 bp):
TTAGACTGGGAATGAACTCAGTATGC
Found at i:28813762 original size:26 final size:27
Alignment explanation
Indices: 28813733--28813787 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
28813723 ATCTGATCTT
*
28813733 AGACTGAGAATGAACTCTGTATG-CTA
1 AGACTGAGAATGAACTCCGTATGCCTA
* *
28813759 AGACTGGGGATGAACTCCGTATGCCTA
1 AGACTGAGAATGAACTCCGTATGCCTA
28813786 AG
1 AG
28813788 TCAACTCATG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (27 bp):
AGACTGAGAATGAACTCCGTATGCCTA
Found at i:28814491 original size:26 final size:26
Alignment explanation
Indices: 28814453--28814505 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
28814443 GGCTCAAAAT
28814453 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
28814479 CTTAGACAT-GGAATGAACTCCGTATG
1 CTTAGAC-TGGGAATGAACTCCGTATG
28814505 C
1 C
28814506 CTAAGCCAAA
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:28814992 original size:158 final size:157
Alignment explanation
Indices: 28814479--28815053 Score: 489
Period size: 158 Copynumber: 3.6 Consensus size: 157
28814469 ACTCCGTATG
* * *
28814479 CTTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAAACAACGAAACGAGCGTGCGGGCGCTCAG
1 CTTAGA-ATGGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGCGGGCGCTCAG
* * * * * * ** *
28814543 CGGGCCGGAGAGGCAGAATGTGCAAGTCGTGGATCAACTCC-ATCCCCCCTGTTTACTATCGATC
65 CCGGCCGGAGAGGCAGAATGCGCAAGCCGAGGATCGAC-CCGATCCCCCTTGCGTGCTATCGATC
* *
28814607 CTGCTACCACAACCCTCGGTCTGGTCTGAT
129 CTGCTGCCACAACCCTCGATCT-GTCTGAT
* * * * * * * *
28814637 CTTAGACTGGGAATGAACTCCGTATGCATAAGTCAACCCACGAAATGACCATGCGGGTGCTGAGT
1 CTTAGAATGGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGCGGGCGCTCAGC
** ** * * * * * *
28814702 CGATCAAAAAGGCATAATTCGCAAGCCGAGGATCGGCCCGATCCCCCTCTACGTGCTATCGGT-C
66 CGGCCGGAGAGGCAGAATGCGCAAGCCGAGGATCGACCCGATCCCCCT-TGCGTGCTATCGATCC
* * * **
28814766 TCACTGCCATAACCCTC-AGTCTGGCTGGGG
130 T-GCTGCCACAACCCTCGA-TCTGTCT-GAT
* * * * *
28814796 CTTAGACAT-GGAATGAACTCCCTATGCCTAAGCCAACCCATGAAATGGGCGTGCGGGCACTCAA
1 CTTAGA-ATGGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGCGGGCGCTCAG
28814860 CCGGCCGGAGAGGCAGAATGCGCAAGCCG-GGTATCGACCCGATCCCCCTTGCGTGCTATCGATC
65 CCGGCCGGAGAGGCAGAATGCGCAAGCCGAGG-ATCGACCCGATCCCCCTTGCGTGCTATCGATC
* * *
28814924 CTGCTGTCGCAACCCTCGATCCGATCTGAT
129 CTGCTGCCACAACCCTCGATCTG-TCTGAT
* * * * * * *
28814954 CTTAGATTGGGAATGAACTTCGTATGCCCAAGTCAACCCACAAAATGAGTGTGCGGGTGC-CAAG
1 CTTAGAATGGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGCGGGCGCTC-AG
* * * * *
28815018 CCAGTCGGAGAGGCATAATGCGCAGGCTGAGGATCG
65 CCGGCCGGAGAGGCAGAATGCGCAAGCCGAGGATCG
28815054 GCCCAGTCCC
Statistics
Matches: 318, Mismatches: 85, Indels: 28
0.74 0.20 0.06
Matches are distributed among these distances:
157 5 0.02
158 193 0.61
159 119 0.37
160 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.26, T:0.20
Consensus pattern (157 bp):
CTTAGAATGGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGCGGGCGCTCAGC
CGGCCGGAGAGGCAGAATGCGCAAGCCGAGGATCGACCCGATCCCCCTTGCGTGCTATCGATCCT
GCTGCCACAACCCTCGATCTGTCTGAT
Found at i:28815053 original size:317 final size:316
Alignment explanation
Indices: 28814478--28815074 Score: 761
Period size: 317 Copynumber: 1.9 Consensus size: 316
28814468 AACTCCGTAT
* * *
28814478 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAAACAACGAAACGAGCGTGCGGGCGCTCAG
1 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAAACAACGAAACGAGCGTGCGGGCACTCAA
* * * **
28814543 CGGGCCGGAGAGGCAGAATGTGCAAGTCGTGGATCAACTCCATCCCCCCTGTTTACTATCGATCC
66 CCGGCCGGAGAGGCAGAATGCGCAAGCCGTGGATCAACTCCATCCCCCCTGCGTACTATCGATCC
* * * *
28814608 TGCTACCACAACCCTCGGTCTGGTCTGATCTTAGACTGGGAATGAACTCCGTATGCATAAGTCAA
131 TGCTACCACAACCCTCGATCCGATCTGATCTTAGACTGGGAATGAACTCCGTATGCACAAGTCAA
* ** * *
28814673 CCCACGAAATGACCATGCGGGTGCTGAGTCGATCAAAAAGGCATAATTCGCAAGCCGAGGATCGG
196 CCCACAAAATGACCATGCGGGTGCCAAGCCGATCAAAAAGGCATAATGCGCAAGCCGAGGATCGG
28814738 CCC-GATCCCCCTCTACGTGCTATCGGTCTCACTGCCATAACCCTCAGTCTGGCTGGG
261 CCCAG-TCCCCC-CTACGTGCTATCGGTCTCACTGCCATAACCCTCAGTCTGGCTGGG
* * * * *
28814795 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAATGGGCGTGCGGGCACTCAA
1 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAAACAACGAAACGAGCGTGCGGGCACTCAA
* * *
28814860 CCGGCCGGAGAGGCAGAATGCGCAAGCCG-GGTATCGAC-CCGATCCCCCTTGCGTGCTATCGAT
66 CCGGCCGGAGAGGCAGAATGCGCAAGCCGTGG-ATCAACTCC-ATCCCCCCTGCGTACTATCGAT
** * * * *
28814923 CCTGCTGTCGCAACCCTCGATCCGATCTGATCTTAGATTGGGAATGAACTTCGTATGCCCAAGTC
129 CCTGCTACCACAACCCTCGATCCGATCTGATCTTAGACTGGGAATGAACTCCGTATGCACAAGTC
*** ** * * *
28814988 AACCCACAAAATGAGTGTGCGGGTGCCAAGCC-AGTCGGAGAGGCATAATGCGCAGGCTGAGGAT
194 AACCCACAAAATGACCATGCGGGTGCCAAGCCGA-TCAAAAAGGCATAATGCGCAAGCCGAGGAT
*
28815052 CGGCCCAGTCCCCCCTATGTGCT
258 CGGCCCAGTCCCCCCTACGTGCT
28815075 GCCGTAACCC
Statistics
Matches: 236, Mismatches: 40, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
316 13 0.06
317 222 0.94
318 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.26, T:0.20
Consensus pattern (316 bp):
GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAAACAACGAAACGAGCGTGCGGGCACTCAA
CCGGCCGGAGAGGCAGAATGCGCAAGCCGTGGATCAACTCCATCCCCCCTGCGTACTATCGATCC
TGCTACCACAACCCTCGATCCGATCTGATCTTAGACTGGGAATGAACTCCGTATGCACAAGTCAA
CCCACAAAATGACCATGCGGGTGCCAAGCCGATCAAAAAGGCATAATGCGCAAGCCGAGGATCGG
CCCAGTCCCCCCTACGTGCTATCGGTCTCACTGCCATAACCCTCAGTCTGGCTGGG
Found at i:28815131 original size:26 final size:26
Alignment explanation
Indices: 28815102--28815152 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
28815092 GATTCGATCA
*
28815102 TAGACT-GGAAATGAACTCTGTATGCT
1 TAGACTAGG-AATGAACTCCGTATGCT
*
28815128 TAGACTAGGGATGAACTCCGTATGC
1 TAGACTAGGAATGAACTCCGTATGC
28815153 CCAAGTCAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (26 bp):
TAGACTAGGAATGAACTCCGTATGCT
Found at i:28815518 original size:26 final size:26
Alignment explanation
Indices: 28815480--28815532 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28815470 CTGATCTGAT
28815480 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
*
28815506 CTTAGACAT-GGAATGAACTCTGTATG
1 CTTAGAC-TGGGAATGAACTCCGTATG
28815532 C
1 C
28815533 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):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:28815888 original size:21 final size:21
Alignment explanation
Indices: 28815840--28815881 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
28815830 ATGGCCGGGT
28815840 AGATCCCTTATGCTAGGAAAA
1 AGATCCCTTATGCTAGGAAAA
*
28815861 AGATCCCTTGTGCTAGGAAAA
1 AGATCCCTTATGCTAGGAAAA
28815882 GTGTCCCCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (21 bp):
AGATCCCTTATGCTAGGAAAA
Found at i:28822458 original size:26 final size:27
Alignment explanation
Indices: 28822411--28822464 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
28822401 CTGGCTTGAT
28822411 CTTAGACTAGGAATTGAACTCCGCATG
1 CTTAGACTAGGAATTGAACTCCGCATG
* * *
28822438 CTTAGACTGGGGA-TGAACTCCGTATG
1 CTTAGACTAGGAATTGAACTCCGCATG
28822464 C
1 C
28822465 CTAAATCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 13 0.54
27 11 0.46
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (27 bp):
CTTAGACTAGGAATTGAACTCCGCATG
Found at i:28823275 original size:158 final size:158
Alignment explanation
Indices: 28822817--28823318 Score: 462
Period size: 158 Copynumber: 3.2 Consensus size: 158
28822807 AACTCCGTAT
*
28822817 GCTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCATGAAATGAGCGTGTGGGCGCTCAG
1 GCTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCATGAAACGAGCGTGTGGGCGCTCAG
* * * * * * * *
28822882 CCGGTAGGAGAGGCAGAATGCACACG-TCGAGGATCGGCCTGGTACCCTCTGCGTGCTATCGATC
66 CCTGTCGGAGAGGCAGAATGCGCAAGCT-GGGGATCGGCCCGGTCCCCCCTGCGTGCTATCGATC
** * ** * *
28822946 TTGCTATCGTAACCCTCGGTCCGGTTTGA
130 TTGCTGCCGCAACCCTCAATCCAGTTGGA
* * * *
28822975 TCTTA-A-ATTGGGAATGAACTCTGTATGCCTAAGTCAACCCATGAAACGAGCGTGCGGGCGCTG
1 GCTTAGACA-T-GGAATGAACTCTGTATGCCTAAGCCAACCCATGAAACGAGCGTGTGGGCGCTC
* * * * * * * *
28823038 AG-CTAGCCGGATAGGCATAATGCGCAAGC-CGGGATCGACCCAGTCCCCCTCTGCGTGTTACCG
64 AGCCT-GTCGGAGAGGCAGAATGCGCAAGCTGGGGATCGGCCCGGTCCCCC-CTGCGTGCTATCG
* * *
28823101 ATCTCGCTGCCACAACCCTCAATCCAGTTGGG
127 ATCTTGCTGCCGCAACCCTCAATCCAGTTGGA
** * * *
28823133 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAACGGGCATGTGGGCGCCCAG
1 GCTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCATGAAACGAGCGTGTGGGCGCTCAG
* * * * *
28823198 CCTGTCGGAGAGGTAGAATGCGCAAGCTGGGGATCGGCCCGGTCCCCCCTACATGCTGTCAATCT
66 CCTGTCGGAGAGGCAGAATGCGCAAGCTGGGGATCGGCCCGGTCCCCCCTGCGTGCTATCGATCT
** *
28823263 TATTGCCGCAACCCTCAGT-CAGGTCT-GA
131 TGCTGCCGCAACCCTCAATCCA-GT-TGGA
* *
28823291 TCTTAGAC-TAGGAATGAACTCCGTATGC
1 GCTTAGACAT-GGAATGAACTCTGTATGC
28823319 TTAGATTGGG
Statistics
Matches: 271, Mismatches: 61, Indels: 24
0.76 0.17 0.07
Matches are distributed among these distances:
156 1 0.00
157 19 0.07
158 228 0.84
159 22 0.08
160 1 0.00
ACGTcount: A:0.23, C:0.28, G:0.27, T:0.22
Consensus pattern (158 bp):
GCTTAGACATGGAATGAACTCTGTATGCCTAAGCCAACCCATGAAACGAGCGTGTGGGCGCTCAG
CCTGTCGGAGAGGCAGAATGCGCAAGCTGGGGATCGGCCCGGTCCCCCCTGCGTGCTATCGATCT
TGCTGCCGCAACCCTCAATCCAGTTGGA
Found at i:28824567 original size:26 final size:26
Alignment explanation
Indices: 28824516--28824568 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28824506 CTGATCCGAT
* *
28824516 CTTAGACTGGGAATGAACTTCGTATG
1 CTTAGACTGGGAATGAACTCCATATG
*
28824542 CTTAGACTGGGGATGAACTCCATATG
1 CTTAGACTGGGAATGAACTCCATATG
28824568 C
1 C
28824569 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:28825451 original size:26 final size:26
Alignment explanation
Indices: 28825413--28825465 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28825403 GGCTTAAAAT
28825413 CTTAGACTGGGAATGAACCCCGTATG
1 CTTAGACTGGGAATGAACCCCGTATG
*
28825439 CTTAGACAT-GGAATGAACTCCGTATG
1 CTTAGAC-TGGGAATGAACCCCGTATG
28825465 C
1 C
28825466 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:0.23, G:0.25, T:0.25
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACCCCGTATG
Found at i:28825781 original size:159 final size:157
Alignment explanation
Indices: 28825438--28825877 Score: 462
Period size: 157 Copynumber: 2.8 Consensus size: 157
28825428 AACCCCGTAT
* * *
28825438 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGTTCAA
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGCGGGCGCTCAG
** * * * * *
28825503 TCGGTCGGAGAGGCAGAATGCGCAAGCTGGGGATCGATCGGTCCCCCCTGCATGCTGTCGATCCT
66 TCGACCGGAGAGGCAAAATGCGCAAGCTGAGGATCGACCGATCCCCCCTGCATGCTATCGATCCT
* *
28825568 GCTACAGTAACCCTCGGTCCAGTTCAA
131 GCTACAGCAACCCTCGGTCCAGCTCAA
* * * * *
28825595 TCTTAGAC-TAGGAATGAACTCCGTATGCATAAGTCAACCCATGAAATGAGCGTGCGGGCGCTGA
1 GCTTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGCGGGCGCTCA
* * * *
28825659 GTCGACCGAAGAGGCATAATGCGCAAG-TCGAGGATCGACCTGATCCTCCTCTGCATGCTATCGG
65 GTCGACCGGAGAGGCAAAATGCGCAAGCT-GAGGATCGACC-GATCC-CCCCTGCATGCTATCGA
***
28825723 T-CTCGCTACCA-CAACCCTCGGTCC-GACTGGG
127 TCCT-GCTA-CAGCAACCCTCGGTCCAG-CTCAA
* * *
28825754 GCTTAGGCATGGAATGAACTCCCTATGCCTAAGCCCAACCCACGAAAT-AGGCGTGCGGGCACTC
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAG-CCAACCCACGAAATGA-GCGTGCGGGCGCTC
* * *
28825818 AG-CTGACCGGAGAGGCAAAATGCGCAAGCTGGGGATCAGCCCGATCCCCCCTGCGTGCTA
64 AGTC-GACCGGAGAGGCAAAATGCGCAAGCTGAGGATC-GACCGATCCCCCCTGCATGCTA
28825878 CCAATCCTAC
Statistics
Matches: 233, Mismatches: 37, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
156 2 0.01
157 86 0.37
158 7 0.03
159 72 0.31
160 62 0.27
161 4 0.02
ACGTcount: A:0.24, C:0.30, G:0.28, T:0.19
Consensus pattern (157 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGCGGGCGCTCAG
TCGACCGGAGAGGCAAAATGCGCAAGCTGAGGATCGACCGATCCCCCCTGCATGCTATCGATCCT
GCTACAGCAACCCTCGGTCCAGCTCAA
Found at i:28825897 original size:159 final size:157
Alignment explanation
Indices: 28825438--28825940 Score: 459
Period size: 159 Copynumber: 3.2 Consensus size: 157
28825428 AACCCCGTAT
* * *
28825438 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGTTCAA
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGCGGGCGCTCAG
** * ** * *
28825503 TCGGTCGGAGAGGCAGAATGCGCAAGCTGGGGATCGATCGGTCCCCCCTGCATGCTGTCGATCCT
66 TCGACCGGAGAGGCAAAATGCGCAAGCTGGGGATCGCCCGATCCCCCCTGCATGCTATCGATCCT
* *
28825568 GCTACAGTAACCCTCGGTCC-AGTTCAA
131 GCTAC-GCAACCCTCGGTCCGAGCTCAA
* * * * *
28825595 TCTTAGAC-TAGGAATGAACTCCGTATGCATAAGTCAACCCATGAAATGAGCGTGCGGGCGCTGA
1 GCTTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGCGGGCGCTCA
* * * * * *
28825659 GTCGACCGAAGAGGCATAATGCGCAAG-TCGAGGATCGACCTGATCCTCCTCTGCATGCTATCGG
65 GTCGACCGGAGAGGCAAAATGCGCAAGCT-GGGGATCG-CCCGATCC-CCCCTGCATGCTATCGA
* ***
28825723 T-CTCGCTACCACAACCCTCGGTCCGA-CTGGG
127 TCCT-GCTA-CGCAACCCTCGGTCCGAGCTCAA
* * *
28825754 GCTTAGGCATGGAATGAACTCCCTATGCCTAAGCCCAACCCACGAAAT-AGGCGTGCGGGCACTC
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAG-CCAACCCACGAAATGA-GCGTGCGGGCGCTC
* * *
28825818 AG-CTGACCGGAGAGGCAAAATGCGCAAGCTGGGGATCAGCCCGATCCCCCCTGCGTGCTACCAA
64 AGTC-GACCGGAGAGGCAAAATGCGCAAGCTGGGGATC-GCCCGATCCCCCCTGCATGCTATCGA
* * * *
28825882 TCCTACTGTCGCAACCCTCGATCCG-G-TCCGA
127 TCCTGCT-ACGCAACCCTCGGTCCGAGCT-CAA
* *
28825913 TCTTAGAC-TAGGAATGAACTCCATATGC
1 GCTTAGACAT-GGAATGAACTCCGTATGC
28825941 TTAGATTGGG
Statistics
Matches: 276, Mismatches: 52, Indels: 34
0.76 0.14 0.09
Matches are distributed among these distances:
156 2 0.01
157 84 0.30
158 8 0.03
159 114 0.41
160 66 0.24
161 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.26, T:0.19
Consensus pattern (157 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAATGAGCGTGCGGGCGCTCAG
TCGACCGGAGAGGCAAAATGCGCAAGCTGGGGATCGCCCGATCCCCCCTGCATGCTATCGATCCT
GCTACGCAACCCTCGGTCCGAGCTCAA
Found at i:28826394 original size:367 final size:356
Alignment explanation
Indices: 28825731--28826405 Score: 881
Period size: 367 Copynumber: 1.9 Consensus size: 356
28825721 GGTCTCGCTA
* *
28825731 CCACAACCCTCGGTCCGACTGGGGCTTAGGCATGGAATGAACTCCCTATGCCTAAGCCCAACCCA
1 CCACAACCCTCAGTCCGACTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCCAACCCA
*
28825796 CGAAATAGGCGTGCGGGCACTCAGCTGACCGGAGAGGCAAAATGCGCAAGCTGGGGATCAGCCCG
66 CGAAATAGGCGTGCGGGCACTCAGATGACCGGAGAGGCAAAATGCGCAAGCTGGGGATCAGCCCG
* * *
28825861 ATCCCCCCTGCGTGCTACCAATCCTACTGTCGCAACCCTCGATCCGGTCCGATCTTAGACTAGGA
131 ATCCCCACTGCATGCTACCAATCCTACTGTCGCAACCCTCGATCCAGTCCGATCTTAGACTAGGA
28825926 ATGAACTCCATATGCTTAGATTGGGGATGAACTCCGTATGCCTAAGTCAACCCACGAAACGAGCG
196 ATGAACTCCATATGCTTAGATTGGGGATGAACTCCGTATGCCTAAGTCAACCCACGAAACGAGCG
* ** * * *
28825991 TACGGGTACTCAGCCGGTCGGAGAGGCATAATGCGCAAGCCGGGGATCAGCTCAATCCCTTTCTA
261 TACGGGCACTCAGCCGACCAGAAAGGCAGAATGCGCAAGCCGGGGATCAGCTCAATCCCTTTCTA
28826056 CGTGCTGCCGATCCCGTTGCCGGTCCTGCTG
326 CGTGCTGCCGATCCCGTTGCCGGTCCTGCTG
* **
28826087 CCACAACCCTCAGTCC-AGCTGGGGCTTAGACTTGGAATGAACTCTGTATGCCTAAG-CCAACCC
1 CCACAACCCTCAGTCCGA-CTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCCAACCC
* ** * * * * *
28826150 ACGAAAT-GAGCGTGTGGGTGCTCAGATGGCCGTAGAGGCAGAATGCGCAAG-TCGGGGATCGGT
65 ACGAAATAG-GCGTGCGGGCACTCAGATGACCGGAGAGGCAAAATGCGCAAGCT-GGGGATCAGC
* ** * *
28826213 CCGGTCCCCACTGCATGCTGTCAATCCTGCTGCGGATCCTGCTATCGCAACCCTTGGTCCAGTCC
128 CCGATCCCCACTGCATGCTACCAAT-C--CT----A--CTG---TCGCAACCCTCGATCCAGTCC
* *
28826278 GATCTTATACTAGGAATGAACTCCATATTCTTAGATTGGGGATGAACTCCGTATGCCTAAGTCAA
181 GATCTTAGACTAGGAATGAACTCCATATGCTTAGATTGGGGATGAACTCCGTATGCCTAAGTCAA
* * * *
28826343 CCCACGAAACGAGCGTGCGGGCGCTCAGCCGACCAGAAAGGCAGGATGCGCAAGCTGGGGATC
246 CCCACGAAACGAGCGTACGGGCACTCAGCCGACCAGAAAGGCAGAATGCGCAAGCCGGGGATC
28826406 GAACGGGTGG
Statistics
Matches: 270, Mismatches: 34, Indels: 19
0.84 0.11 0.06
Matches are distributed among these distances:
354 2 0.01
355 78 0.29
356 50 0.19
358 2 0.01
362 1 0.00
364 3 0.01
367 134 0.50
ACGTcount: A:0.23, C:0.30, G:0.27, T:0.20
Consensus pattern (356 bp):
CCACAACCCTCAGTCCGACTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCCAACCCA
CGAAATAGGCGTGCGGGCACTCAGATGACCGGAGAGGCAAAATGCGCAAGCTGGGGATCAGCCCG
ATCCCCACTGCATGCTACCAATCCTACTGTCGCAACCCTCGATCCAGTCCGATCTTAGACTAGGA
ATGAACTCCATATGCTTAGATTGGGGATGAACTCCGTATGCCTAAGTCAACCCACGAAACGAGCG
TACGGGCACTCAGCCGACCAGAAAGGCAGAATGCGCAAGCCGGGGATCAGCTCAATCCCTTTCTA
CGTGCTGCCGATCCCGTTGCCGGTCCTGCTG
Found at i:28827036 original size:26 final size:26
Alignment explanation
Indices: 28826998--28827050 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28826988 GGCTCAAACT
28826998 CTTAGACTGGGAATGAACTTCATATG
1 CTTAGACTGGGAATGAACTTCATATG
*
28827024 CTTAGACAT-GGAATGAACTTCGTATG
1 CTTAGAC-TGGGAATGAACTTCATATG
28827050 C
1 C
28827051 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):
CTTAGACTGGGAATGAACTTCATATG
Found at i:28827369 original size:26 final size:26
Alignment explanation
Indices: 28827340--28827392 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28827330 CTGGTCTGAT
*
28827340 CTTAGACTGGAAATGAACTCTGTATG
1 CTTAGACTGGAAATGAACTCCGTATG
**
28827366 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGAAATGAACTCCGTATG
28827392 C
1 C
28827393 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):
CTTAGACTGGAAATGAACTCCGTATG
Found at i:28827588 original size:26 final size:26
Alignment explanation
Indices: 28827549--28827602 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
28827539 CTAGTCGGAT
*
28827549 CTTAGACTGAGAATGAACTCTGTATG
1 CTTAGACTGAGAATGAACTCCGTATG
28827575 CTTAGACATG-GAATGAACTCCGTATG
1 CTTAGAC-TGAGAATGAACTCCGTATG
28827601 CT
1 CT
28827603 AAAGCCAACC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 24 0.92
27 2 0.08
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (26 bp):
CTTAGACTGAGAATGAACTCCGTATG
Found at i:28827936 original size:159 final size:159
Alignment explanation
Indices: 28827574--28828076 Score: 457
Period size: 158 Copynumber: 3.2 Consensus size: 159
28827564 AACTCTGTAT
* * *
28827574 GCTTAGACATGGAATGAACTCCGTATG-CTAAAGCCAACCCACGAAACGAACATACGGGCGCTCA
1 GCTTAGACATGGAATGAACTCCGTATGCCT-AAGCCAACCCACGAAACGAGCGTGCGGGCGCTCA
* * * * * * * *
28827638 GACGATCGGAGAGGCAGAATGCGCAAGTTGGGGACCGGCCCAATCCCCC-CTACGTGCTGTCAAT
65 -CCAAACGGAGAGGCAGAATGCGCAAGCTGGGGATCGGCCCGATCCCCCTCTGCGTGCTATCAAT
** * *
28827702 CCTGCTGCCACAACCCTTGATCCGATCCGAT
129 CCCACTGCCACAACCCTAGATCCGATCCGAG
* * *
28827733 G-TTAGAC-TGGGAATGAACTCTGTATGCCTAAGTCAACCCACGAAACGAGCGTGCGGGCGCTGA
1 GCTTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCA
* * * * **
28827796 CTCAAACGGAGAGGCATAATGCGCAAGCCGGGGATCGACCCGATCCCCCTTTGCGTGCTATCGGT
65 C-CAAACGGAGAGGCAGAATGCGCAAGCTGGGGATCGGCCCGATCCCCCTCTGCGTGCTATCAAT
* * * *
28827861 CCCACTGCCATAACGCTCAG-TCCGA-CTGGG
129 CCCACTGCCACAACCCT-AGATCCGATCCGAG
* * * * * *
28827891 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCTACGAAATGGGTGTGCGGGCACTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCA-
* * * *
28827956 CCAACCGGAGAGGCAGAATGCGCAAGCTGGGGATCGGCTCGAT-CCCCTCTGCGTGCTGTCGATC
65 CCAAACGGAGAGGCAGAATGCGCAAGCTGGGGATCGGCCCGATCCCCCTCTGCGTGCTATCAATC
*** * * * * *
28828020 TTGCTGCCGCAACCCTCGGTCTGATCTGA-
130 CCACTGCCACAACCCTAGATCCGATCCGAG
*
28828049 TCTTAGAC-TGGGAATGAACTCCGTATGC
1 GCTTAGACAT-GGAATGAACTCCGTATGC
28828077 TTAGACTGGG
Statistics
Matches: 277, Mismatches: 56, Indels: 23
0.78 0.16 0.06
Matches are distributed among these distances:
157 3 0.01
158 149 0.54
159 122 0.44
160 3 0.01
ACGTcount: A:0.24, C:0.30, G:0.27, T:0.19
Consensus pattern (159 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCGGGCGCTCAC
CAAACGGAGAGGCAGAATGCGCAAGCTGGGGATCGGCCCGATCCCCCTCTGCGTGCTATCAATCC
CACTGCCACAACCCTAGATCCGATCCGAG
Done.