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 301 of 402
Found at i:28437947 original size:26 final size:26
Alignment explanation
Indices: 28437918--28437970 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
28437908 GTTGATTTAG
28437918 GCATACGGAGTTCATCCCCAGTCTAA
1 GCATACGGAGTTCATCCCCAGTCTAA
*
28437944 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATCCCCAGTCTAA
28437970 G
1 G
28437971 ATCGAACCGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (26 bp):
GCATACGGAGTTCATCCCCAGTCTAA
Found at i:28439030 original size:26 final size:26
Alignment explanation
Indices: 28438982--28439034 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28438972 CTTGACTTAG
*
28438982 GCATACAGAGTTCATCTCTAGTCTAA
1 GCATACAGAGTTCATCTCCAGTCTAA
*
28439008 GCATACGGAGTTCAT-TGCCAGTCTAA
1 GCATACAGAGTTCATCT-CCAGTCTAA
28439034 G
1 G
28439035 ATCGGACCAG
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:0.23, G:0.21, T:0.28
Consensus pattern (26 bp):
GCATACAGAGTTCATCTCCAGTCTAA
Found at i:28439218 original size:184 final size:182
Alignment explanation
Indices: 28438942--28439449 Score: 495
Period size: 195 Copynumber: 2.7 Consensus size: 182
28438932 CCTCTCTGGT
* *
28438942 CGGCTGAGCGT-C-TGCATGCTCGTTTCGTGGCTTGACTTAGGCATACAGAGTTCA-TCTCTAGT
1 CGGCTGAGCGTCCGTGC--GCTCGTTTCGTGGGTTGACTTAGGCATACGGAGTTCATTC-CT-GT
* * * *
28439004 CTAAGCATACGGAGTTCATTGCCAGTCTAAGATCGGACCAGACTGAGGGTTGCGGCAGAAGGATC
62 CTAAGCATACGGAGTTCATTCCCAGTCTAAGATCAGATCAGA-TGAGGGTTGCGGCAGTAGGATC
*
28439069 GAT-AGCACGC-AGGGAGGATCGAGCCGATCCCCGACTTACGCATTTTACCTCTCCGAC
126 GATGAGCACGCAAGGG-GGATCGAGCCGATCCCCGACTTACGCA-TCTACCTCTCCGAC
* *
28439126 CGGCTGAGCGTCCGTGCGCTCGTTTCATGGGTTGGCTTAGGCATACGGAGTTCATTCCGTGTCTA
1 CGGCTGAGCGTCCGTGCGCTCGTTTCGTGGGTTGACTTAGGCATACGGAGTTCATTCC-TGTCTA
** * **
28439191 AGCATACAAAGTTCATTCCCAGTCTAAGATCAGATCAGATCGAGGGTAGCGATAGTAGGACCAGT
65 AGCATACGGAGTTCATTCCCAGTCTAAGATCAGATCAGAT-GAGGGTTGCGGCAGTAGG---A-T
* * * * *
28439256 CGCAGGATAGGCAGCACGCAAGGGGGATCGGGTCGATCCCCGGCTTGCTCATCTACCTCTCCGAC
125 --C--GAT--G-AGCACGCAAGGGGGATCGAGCCGATCCCCGACTTACGCATCTACCTCTCCGAC
* * ** * * * * *
28439321 TGGCTGAGCGCCCGCACGCTTGTTGCGGGGGTTGACTTAGGCATACGGAGTTCATCCCCAGTCTA
1 CGGCTGAGCGTCCGTGCGCTCGTTTCGTGGGTTGACTTAGGCATACGGAGTTCAT-TCCTGTCTA
* * **
28439386 AGCATACGGAGTTCATTCCAAGTCTAAGATCAAATTGGATTGAGGGTTGCGGCAGTAGGATCGA
65 AGCATACGGAGTTCATTCCCAGTCTAAGATCAGATCAGA-TGAGGGTTGCGGCAGTAGGATCGA
28439450 CAACATGCAG
Statistics
Matches: 265, Mismatches: 39, Indels: 37
0.78 0.11 0.11
Matches are distributed among these distances:
183 1 0.00
184 98 0.37
185 4 0.02
186 3 0.01
187 3 0.01
188 1 0.00
189 1 0.00
190 1 0.00
191 1 0.00
192 4 0.02
195 112 0.42
196 32 0.12
197 4 0.02
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (182 bp):
CGGCTGAGCGTCCGTGCGCTCGTTTCGTGGGTTGACTTAGGCATACGGAGTTCATTCCTGTCTAA
GCATACGGAGTTCATTCCCAGTCTAAGATCAGATCAGATGAGGGTTGCGGCAGTAGGATCGATGA
GCACGCAAGGGGGATCGAGCCGATCCCCGACTTACGCATCTACCTCTCCGAC
Found at i:28439397 original size:26 final size:26
Alignment explanation
Indices: 28439361--28439413 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
28439351 GTTGACTTAG
*
28439361 GCATACGGAGTTCATCCCCAGTCTAA
1 GCATACGGAGTTCATCCCAAGTCTAA
*
28439387 GCATACGGAGTTCATTCCAAGTCTAA
1 GCATACGGAGTTCATCCCAAGTCTAA
28439413 G
1 G
28439414 ATCAAATTGG
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:0.26, G:0.21, T:0.25
Consensus pattern (26 bp):
GCATACGGAGTTCATCCCAAGTCTAA
Found at i:28439733 original size:26 final size:25
Alignment explanation
Indices: 28439704--28439755 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 25
28439694 GTTGGCTTAG
*
28439704 GCATACGGAGTTCAATCCATGTCTAA
1 GCATACAGAGTTCAATCCA-GTCTAA
*
28439730 GCATACAGAGTTCATTCCAGTCTAA
1 GCATACAGAGTTCAATCCAGTCTAA
28439755 G
1 G
28439756 AGTTTGAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (25 bp):
GCATACAGAGTTCAATCCAGTCTAA
Found at i:28440462 original size:26 final size:26
Alignment explanation
Indices: 28440426--28440478 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28440416 GTTGACTTAG
28440426 GCATACGGAGTTCA-TCCCTAGTCTAA
1 GCATACGGAGTTCATTCCC-AGTCTAA
*
28440452 GCATATGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
28440478 G
1 G
28440479 ATCGGACCGA
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:0.25, G:0.21, T:0.28
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:28440837 original size:159 final size:157
Alignment explanation
Indices: 28440459--28440853 Score: 400
Period size: 159 Copynumber: 2.5 Consensus size: 157
28440449 TAAGCATATG
* * * * * *
28440459 GAGTTCATTCCCAGTCTAAGATCGGACCGAACCAAGGGTTGTAGCAGCAGGATCGATAGCACCTA
1 GAGTTAATTCCCAGTCTAAGATCAGACCGGACCGAGGGTTGTGGCAGCAGGATCG-TAGCACGTA
* * * * * * *
28440524 GGGGGGACTGGGCCGATCCTCGGCTTGCGCATTCGGCCTCTCCGGCTGACTGACCACCCGCACGC
65 GGGAGGACCGGGCCGATCCTCGGCTTGCGCATTAGGCCTCTCCGGCGGACTCAACACCCACACGC
* **
28440589 CCGTTTCATGGGTTGGCTTAGGCATAGG
130 CCGTTTCATGGGTTGACTTAGGCATACA
** * * *
28440617 GAGTTAATT-CCATGTCTAAGCCCCAG-CCGGACCGAGGGTTGTGGCAGCGGGACCAGCAGCACG
1 GAGTTAATTCCCA-GTCTAAG-ATCAGACCGGACCGAGGGTTGTGGCAGCAGGATC-GTAGCACG
* **
28440680 TAGAGGAGGACCGGGCCGATCCTCGGCTTGCGCATTATGCCTCTCCGGCAGGA-TCAATGCCCAC
63 TAG-GGAGGACCGGGCCGATCCTCGGCTTGCGCATTAGGCCTCTCCGGC-GGACTCAACACCCAC
* *
28440744 ACGCTCGTTTCATGGGTTGACTTTGGCATACA
126 ACGCCCGTTTCATGGGTTGACTTAGGCATACA
* * * * * *
28440776 GAGTTTATTCCCAATCTAAGATCAGACTGGACCGAGGGTTGCGGCAGTAGGATCGTTAGCACGCA
1 GAGTTAATTCCCAGTCTAAGATCAGACCGGACCGAGGGTTGTGGCAGCAGGATCG-TAGCACGTA
* *
28440841 GGGGGGATCGGGC
65 GGGAGGACCGGGC
28440854 TAGTCCCTGA
Statistics
Matches: 190, Mismatches: 39, Indels: 16
0.78 0.16 0.07
Matches are distributed among these distances:
157 3 0.02
158 60 0.32
159 122 0.64
160 5 0.03
ACGTcount: A:0.20, C:0.27, G:0.32, T:0.21
Consensus pattern (157 bp):
GAGTTAATTCCCAGTCTAAGATCAGACCGGACCGAGGGTTGTGGCAGCAGGATCGTAGCACGTAG
GGAGGACCGGGCCGATCCTCGGCTTGCGCATTAGGCCTCTCCGGCGGACTCAACACCCACACGCC
CGTTTCATGGGTTGACTTAGGCATACA
Found at i:28440952 original size:158 final size:159
Alignment explanation
Indices: 28440590--28440955 Score: 359
Period size: 158 Copynumber: 2.3 Consensus size: 159
28440580 CCCGCACGCC
* *
28440590 CGTTTCATGGGTTGGCTTAGGCATAGGGAGTTAATTCCATGTCTAAGCCCCAGCCGGACCGAGGG
1 CGTTTCATGGGTTGGCTTAGGCATACGGAGTTAATTCCATGTCTAAGCACCAGCCGGACCGAGGG
* * * * * *
28440655 TTGTGGCAGCGGGACCAGCAGCACGTAGAGGAGGACCGGGCCGATCCTCGGCTTGCGCATTATGC
66 TTGCGGCAGCAGGACCAGCAGCACGCAGAGGAGGACCGGGCAGATCCTCGACTTGCGCATTATAC
* *
28440720 CTCTCCGGCAGGATCAATGCCCACACGCT
131 CTCTCCGACAGGATCAATGCCCACACACT
* * * * * * *
28440749 CGTTTCATGGGTTGACTTTGGCATACAGAGTTTATTCCCA-ATCTAAG-ATCAGACTGGACCGAG
1 CGTTTCATGGGTTGGCTTAGGCATACGGAGTTAATT-CCATGTCTAAGCACCAG-CCGGACCGAG
* * * * * *
28440812 GGTTGCGGCAGTAGGATC-GTTAGCACGCAG-GGGGGATCGGGCTAG-TCC-CTGACTTGCTCAT
64 GGTTGCGGCAGCAGGACCAG-CAGCACGCAGAGGAGGACCGGGC-AGATCCTC-GACTTGCGCAT
* ** * **
28440873 TCTACCTCTCCGACCTGCT-AAGTGCCTGCACACT
126 TATACCTCTCCGACAGGATCAA-TGCCCACACACT
*
28440907 CGTTTCATGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCA
1 CGTTTCATGGGTTGGCTTAGGCATACGGAGTTAATTCCATGTCTAAGCA
28440956 TATGAAGTTC
Statistics
Matches: 165, Mismatches: 34, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
157 6 0.04
158 86 0.52
159 70 0.42
160 3 0.02
ACGTcount: A:0.20, C:0.26, G:0.29, T:0.25
Consensus pattern (159 bp):
CGTTTCATGGGTTGGCTTAGGCATACGGAGTTAATTCCATGTCTAAGCACCAGCCGGACCGAGGG
TTGCGGCAGCAGGACCAGCAGCACGCAGAGGAGGACCGGGCAGATCCTCGACTTGCGCATTATAC
CTCTCCGACAGGATCAATGCCCACACACT
Found at i:28441025 original size:26 final size:26
Alignment explanation
Indices: 28440989--28441039 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
28440979 GATCAGACCG
*
28440989 GACCGAGGGTTACGGCAGTCGAACCA
1 GACCGAGGGTTACGGCAGCCGAACCA
28441015 GACCGAGGGTTACGGCAGCCGAACC
1 GACCGAGGGTTACGGCAGCCGAACC
28441040 GAACTGAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.29, G:0.35, T:0.10
Consensus pattern (26 bp):
GACCGAGGGTTACGGCAGCCGAACCA
Found at i:28441976 original size:26 final size:26
Alignment explanation
Indices: 28441940--28441992 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
28441930 GTTGACTTAG
*
28441940 GCATATAGAGTTCATCCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
*
28441966 GCATACAGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
28441992 G
1 G
28441993 ATCAGATAGG
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:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (26 bp):
GCATACAGAGTTCATCCCCAGTCTAA
Found at i:28442350 original size:159 final size:156
Alignment explanation
Indices: 28441966--28442363 Score: 404
Period size: 159 Copynumber: 2.5 Consensus size: 156
28441956 CCCAGTCTAA
* * *
28441966 GCATACAGAGTTCATTCCCAGTCTAAGATCAGATAGGACCGAGGGTTGCGGTAGCAGGATCGATA
1 GCATACAGAGTTCATTCCCAGTCTAAGATC-GACA-GACCGAGGGTTGTGGTAGCAGGATCGACA
** * * * * * *
28442031 GGTCGTAGGGGGGACCAGGCCGATCCATGACTTGCGCATTCTGCCTCTCCAGTCGGCTGAGCGCC
64 GCACGTAGGGGGGACCAGGCCAATCCATGACTTGCGCATTATGCCTCTCCAGTCAGATCAGCACC
*
28442096 CGCACACCCATTTCATGGGTTGGCTTAG
129 CGCACACCCATTTCATGGGTTGACTTAG
** * ** * * * *
28442124 GCATAGGGAGTTCATTCCCTGTCTAAGCCCCAGTCAGACTGAGGGTTGTGGTGGCGGGATCGACA
1 GCATACAGAGTTCATTCCCAGTCTAAG-ATC-GACAGACCGAGGGTTGTGGTAGCAGGATCGACA
* * * * *
28442189 GCACGTAGAGGTGGATCGGGCCAATCC-TCGGCTTGCGCATTATGCCTCTCTAG-CTAGATCAGC
64 GCACGTAG-GGGGGACCAGGCCAATCCAT-GACTTGCGCATTATGCCTCTCCAGTC-AGATCAGC
*
28442252 ACCCGCACACTCATTTCATGGGTTGACTTAG
126 ACCCGCACACCCATTTCATGGGTTGACTTAG
* ** *
28442283 GCATACAGAGTTCATTCCCAGTCTAAGATCGACCCAAACCGAGGGTTGTGACAGCAAGATCGACA
1 GCATACAGAGTTCATTCCCAGTCTAAGATCGA--CAGACCGAGGGTTGTGGTAGCAGGATCGACA
* *
28442348 GCACGCAGGGCGGACC
64 GCACGTAGGGGGGACC
28442364 GCATCGGTCC
Statistics
Matches: 191, Mismatches: 43, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
157 1 0.01
158 63 0.33
159 127 0.66
ACGTcount: A:0.22, C:0.27, G:0.29, T:0.22
Consensus pattern (156 bp):
GCATACAGAGTTCATTCCCAGTCTAAGATCGACAGACCGAGGGTTGTGGTAGCAGGATCGACAGC
ACGTAGGGGGGACCAGGCCAATCCATGACTTGCGCATTATGCCTCTCCAGTCAGATCAGCACCCG
CACACCCATTTCATGGGTTGACTTAG
Found at i:28442478 original size:26 final size:26
Alignment explanation
Indices: 28442442--28442492 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
28442432 CTGGCTTAGG
28442442 CATACGGAGTTCATT-CCATGTCTAAA
1 CATACGGAGTTCATTCCCA-GTCTAAA
*
28442468 CATATGGAGTTCATTCCCAGTCTAA
1 CATACGGAGTTCATTCCCAGTCTAA
28442493 GATAAGACCG
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:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (26 bp):
CATACGGAGTTCATTCCCAGTCTAAA
Found at i:28442839 original size:26 final size:26
Alignment explanation
Indices: 28442809--28442861 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
28442799 GTTGACTTAC
28442809 GCATACGGAGTTCATCCCCAGTCTAA
1 GCATACGGAGTTCATCCCCAGTCTAA
*
28442835 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATCCCCAGTCTAA
28442861 G
1 G
28442862 ATCAGACCGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (26 bp):
GCATACGGAGTTCATCCCCAGTCTAA
Found at i:28444050 original size:26 final size:26
Alignment explanation
Indices: 28444020--28444071 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
28444010 GTTTACATAG
*
28444020 GCATAC-GAAGTTCATCCCCAGTCTAA
1 GCATACAG-AGTTCATCCCCAATCTAA
*
28444046 GCATACAGAGTTCATTCCCAATCTAA
1 GCATACAGAGTTCATCCCCAATCTAA
28444072 TATCGAACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.25
Consensus pattern (26 bp):
GCATACAGAGTTCATCCCCAATCTAA
Found at i:28444549 original size:26 final size:26
Alignment explanation
Indices: 28444519--28444574 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
28444509 TGGGTTGGCT
28444519 TAAGCATAC-GAAGTTCATT-CCATGTC
1 TAAGCATACAG-AGTTCATTCCCA-GTC
28444545 TAAGCATACAGAGTTCATTCCCAGTC
1 TAAGCATACAGAGTTCATTCCCAGTC
28444571 TAAG
1 TAAG
28444575 ATCGGACCGG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
26 24 0.86
27 4 0.14
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (26 bp):
TAAGCATACAGAGTTCATTCCCAGTC
Found at i:28444934 original size:26 final size:26
Alignment explanation
Indices: 28444904--28444953 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
28444894 GACTTAGACG
28444904 TACGGAGTTCATCCCCAGTTTAAGCA
1 TACGGAGTTCATCCCCAGTTTAAGCA
* *
28444930 TACGGAGTTCATTCCTAGTTTAAG
1 TACGGAGTTCATCCCCAGTTTAAG
28444954 ATCAGACTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (26 bp):
TACGGAGTTCATCCCCAGTTTAAGCA
Found at i:28445115 original size:26 final size:26
Alignment explanation
Indices: 28445085--28445136 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
28445075 GTTGGCTTAG
28445085 GCATACGGAGTTCATTC-CATGTCTAA
1 GCATACGGAGTTCATTCTCA-GTCTAA
28445111 GCATACGGAGTTCATTCTCAGTCTAA
1 GCATACGGAGTTCATTCTCAGTCTAA
28445137 AATTTTGAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (26 bp):
GCATACGGAGTTCATTCTCAGTCTAA
Found at i:28445842 original size:26 final size:26
Alignment explanation
Indices: 28445805--28445856 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
28445795 GGGTTGACTC
*
28445805 AAGCATACGGAGTTCATCCCCAGTCT
1 AAGCATAAGGAGTTCATCCCCAGTCT
*
28445831 AAGCATAAGGAGTTCATTCCCAGTCT
1 AAGCATAAGGAGTTCATCCCCAGTCT
28445857 GAGATCGGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (26 bp):
AAGCATAAGGAGTTCATCCCCAGTCT
Found at i:28446149 original size:159 final size:159
Alignment explanation
Indices: 28445978--28446336 Score: 417
Period size: 158 Copynumber: 2.3 Consensus size: 159
28445968 GCCTGTTTCG
* * * * *
28445978 TGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCAG-CCGGACCGAGGGTTATGG
1 TGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCACCAGACCAGACCGAGGATTATGA
* * *
28446042 CAGCGGGACCGACAGCATGTAGAGGGGGA-TCGGGTC-GATCCCC-AGCTTGCGCATTATGCCTC
66 CAGCAGGACCGACAGCACGTAG-GGGGGACT-GGATCAG-TCCCCGA-CTTGCGCATTATGCCTC
* *
28446104 TTCGA-CTGGCTTAGCGCCCGTACACTCGGTTCA
127 -TCGAGCCGGCTGAGCGCCCGTACACTCGGTTCA
* * * * * *
28446137 TGGGTTGACTTAGGCATACAGAGTTCATTCC-TAATCTAAG-ATCAGACCAGATCGAGGATTGTG
1 TGGGTTGGCTTAGGCATACGGAGTTCATTCCAT-GTCTAAGCACCAGACCAGACCGAGGATTATG
* * *
28446200 ACAGCAGGATCGACAGCACGTAGGGGGGACTGGATCAGTCCCCGACTTGCGCATTCTGCCTCTCT
65 ACAGCAGGACCGACAGCACGTAGGGGGGACTGGATCAGTCCCCGACTTGCGCATTATGCCTCTCG
* *
28446265 AGCCGGCTGAGCGCCCGTACTCTCGTTTCA
130 AGCCGGCTGAGCGCCCGTACACTCGGTTCA
*
28446295 TGGGTTGGCTTAGGCATACGGAGTTCATTCCATGCCTAAGCA
1 TGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCA
28446337 TATGGAGTTC
Statistics
Matches: 167, Mismatches: 25, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
157 3 0.02
158 93 0.56
159 71 0.43
ACGTcount: A:0.20, C:0.26, G:0.30, T:0.24
Consensus pattern (159 bp):
TGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCACCAGACCAGACCGAGGATTATGA
CAGCAGGACCGACAGCACGTAGGGGGGACTGGATCAGTCCCCGACTTGCGCATTATGCCTCTCGA
GCCGGCTGAGCGCCCGTACACTCGGTTCA
Found at i:28446848 original size:159 final size:159
Alignment explanation
Indices: 28446433--28447008 Score: 406
Period size: 159 Copynumber: 3.6 Consensus size: 159
28446423 GACTGGGTCG
* ** ** *
28446433 ATCCCT-GACTTGCGCATTCTCCCTCTCCGGTCGGCTGAGCATCTTCACG-CCAGTTTCATGGGT
1 ATCCCTGGA-TTGCGCATTCTGCCTCTCCGGTCGGCTGAGCGCCCGCACGCCCA-TTTCGTGGGT
* ** *
28446496 TGGTTT-GGCCATAGGGAGTTCATTCCATGTCTAAGCCCCAGTCGGACAAAGGGTTGTGGCAGCG
64 TGGTTTAGG-CATAGGGAGTTCATTCCATGTCTAAGCACCAGTCGGACAAAGGGTTGCAGCAGCA
* * * * *
28446560 GGACCGACAGCACGCAGAGAGGGATCGGGCCG
128 AGACCGACAGCACGCAGAGAGGGACCAGACCA
* * * * * *
28446592 ATCCCTGGCTTGCGCATTATGCCGCTCCGG-CTGGCTCAGTGCCCGCTACGCTCATTTCGTGGGT
1 ATCCCTGGATTGCGCATTCTGCCTCTCCGGTC-GGCTGAGCGCCCGC-ACGCCCATTTCGTGGGT
** * * * **
28446656 TGACTTAGGCATACGAAGTTCATTCCCA-GTCTAAG-ATCAGATCGGACTGAGGGTTGCAGCAGC
64 TGGTTTAGGCATAGGGAGTTCATT-CCATGTCTAAGCACCAG-TCGGACAAAGGGTTGCAGCAGC
* *
28446719 AAGATCGACAGCACGCAG-GGGTGGACCAGACCA
127 AAGACCGACAGCACGCAGAGAG-GGACCAGACCA
* *
28446752 ATCTCC-GGATTGCGCATTCTGCCTCTTCGGTCGACTGAGCGCCCGCACGCCCATTTCGTGGGTT
1 ATC-CCTGGATTGCGCATTCTGCCTCTCCGGTCGGCTGAGCGCCCGCACGCCCATTTCGTGGGTT
* ** ** *
28446816 GGTTTAGGCGTAGGGAGTTCATTCCATGTCTAAGC-CCTAG-CTGGACTGAGGGTTGTGGCAGCG
65 GGTTTAGGCATAGGGAGTTCATTCCATGTCTAAGCACC-AGTC-GGACAAAGGGTTGCAGCAGCA
* ** * * * *
28446879 GGACCGGTAGCACACAGAGGGGGATC-GAGCCG
128 AGACCGACAGCACGCAGAGAGGGACCAGA-CCA
* * * * * * * *
28446911 ATCCCAGGCTTGGGCATTATGCCTCTCCGG-CTGGCCT-AGCGCCCTCAAGCTCGTTTCGTGGGT
1 ATCCCTGGATTGCGCATTCTGCCTCTCCGGTC-GG-CTGAGCGCCCGCACGCCCATTTCGTGGGT
** **
28446974 TGACTTAGGCATACAGAGTTCATTCCCA-GTCTAAG
64 TGGTTTAGGCATAGGGAGTTCATT-CCATGTCTAAG
28447009 ATCAGACCGG
Statistics
Matches: 329, Mismatches: 68, Indels: 40
0.75 0.16 0.09
Matches are distributed among these distances:
158 10 0.03
159 188 0.57
160 121 0.37
161 10 0.03
ACGTcount: A:0.18, C:0.28, G:0.30, T:0.23
Consensus pattern (159 bp):
ATCCCTGGATTGCGCATTCTGCCTCTCCGGTCGGCTGAGCGCCCGCACGCCCATTTCGTGGGTTG
GTTTAGGCATAGGGAGTTCATTCCATGTCTAAGCACCAGTCGGACAAAGGGTTGCAGCAGCAAGA
CCGACAGCACGCAGAGAGGGACCAGACCA
Found at i:28446932 original size:319 final size:318
Alignment explanation
Indices: 28446442--28447029 Score: 844
Period size: 319 Copynumber: 1.8 Consensus size: 318
28446432 GATCCCTGAC
* * **
28446442 TTGCGCATTCTCCCTCTCCGGTCGGCTGAGCATCTTCACGCCAGTTTCATGGGTTGGTTTGGCCA
1 TTGCGCATTCTCCCTCTCCGGTCGACTGAGCACCCGCACGCCAGTTTCATGGGTTGGTTTGGCCA
28446507 TAGGGAGTTCATTCCATGTCTAAGCCCCAGTCGGACAAAGGGTTGTGGCAGCGGGACCGACAGCA
66 TAGGGAGTTCATTCCATGTCTAAGCCCCAGTCGGACAAAGGGTTGTGGCAGCGGGACCGACAGCA
* * * *
28446572 CGCAGAGAGGGATCGGGCCGATCCCTGGCTTGCGCATTATGCCGCTCCGGCTGG-CTCAGTGCCC
131 CACAGAGAGGGATCGAGCCGATCCCAGGCTTGCGCATTATGCCGCTCCGGCTGGCCT-AGCGCCC
* *
28446636 GCTACGCTCATTTCGTGGGTTGACTTAGGCATAC-GAAGTTCATTCCCAGTCTAAGATCAGATCG
195 GC-AAGCTCATTTCGTGGGTTGACTTAGGCATACAG-AGTTCATTCCCAGTCTAAGATCAGACCG
* *
28446700 GACTGAGGGTTGCAGCAGCAAGATCGACAGCACGCAGGGGTGGACCAGACCAATCTCCGGA
258 GACCGACGGTTGCAGCAGCAAGATCGACAGCACGCAGGGGTGGACCAGACCAATCTCCGGA
* * * *
28446761 TTGCGCATTCTGCCTCTTCGGTCGACTGAGCGCCCGCACGCCCA-TTTCGTGGGTTGGTTTAGG-
1 TTGCGCATTCTCCCTCTCCGGTCGACTGAGCACCCGCACG-CCAGTTTCATGGGTTGGTTT-GGC
* * ** **
28446824 CGTAGGGAGTTCATTCCATGTCTAAGCCCTAG-CTGGACTGAGGGTTGTGGCAGCGGGACCGGTA
64 CATAGGGAGTTCATTCCATGTCTAAGCCCCAGTC-GGACAAAGGGTTGTGGCAGCGGGACCGACA
* * *
28446888 GCACACAGAGGGGGATCGAGCCGATCCCAGGCTTGGGCATTATGCCTCTCCGGCTGGCCTAGCGC
128 GCACACAGAGAGGGATCGAGCCGATCCCAGGCTTGCGCATTATGCCGCTCCGGCTGGCCTAGCGC
* *
28446953 CCTCAAGCTCGTTTCGTGGGTTGACTTAGGCATACAGAGTTCATTCCCAGTCTAAGATCAGACCG
193 CCGCAAGCTCATTTCGTGGGTTGACTTAGGCATACAGAGTTCATTCCCAGTCTAAGATCAGACCG
28447018 GACCGACGGTTG
258 GACCGACGGTTG
28447030 TGATAGCAGG
Statistics
Matches: 237, Mismatches: 27, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
318 67 0.28
319 163 0.69
320 7 0.03
ACGTcount: A:0.19, C:0.28, G:0.31, T:0.23
Consensus pattern (318 bp):
TTGCGCATTCTCCCTCTCCGGTCGACTGAGCACCCGCACGCCAGTTTCATGGGTTGGTTTGGCCA
TAGGGAGTTCATTCCATGTCTAAGCCCCAGTCGGACAAAGGGTTGTGGCAGCGGGACCGACAGCA
CACAGAGAGGGATCGAGCCGATCCCAGGCTTGCGCATTATGCCGCTCCGGCTGGCCTAGCGCCCG
CAAGCTCATTTCGTGGGTTGACTTAGGCATACAGAGTTCATTCCCAGTCTAAGATCAGACCGGAC
CGACGGTTGCAGCAGCAAGATCGACAGCACGCAGGGGTGGACCAGACCAATCTCCGGA
Found at i:28447029 original size:159 final size:158
Alignment explanation
Indices: 28446545--28447199 Score: 581
Period size: 159 Copynumber: 4.1 Consensus size: 158
28446535 AGTCGGACAA
* * * *
28446545 AGGGTTGTGGCAGCGGGACCGACAGCACGCAGAGAGGGATCGGGCCGATCCCTGGCTTGCGCATT
1 AGGGTTGTGGCAGCAGGACCGACAGCACACAGAGGGGGATCGAGCCGATCCC-GGCTTGCGCATT
* * *
28446610 ATGCCGCTCCGGCTGGCTCAGTGCCCGCTACGCTCATTTCGTGGGTTGACTTAGGCATACGAAGT
65 ATGCCTCTCCGGCTGGCTCAGCGCCCGC-ACGCTCATTTCGTGGGTTGACTTAGGCATACGGAGT
* *
28446675 TCATTCCCAGTCTAAGATCAGATCGGACTG
129 TCATTCCCAGTCTAAGATCAGACCGGACCG
** * * * * * *
28446705 AGGGTTGCAGCAGCAAGATCGACAGCACGCAG-GGGTGGA-CCAGACCAATCTCCGGATTGCGCA
1 AGGGTTGTGGCAGCAGGACCGACAGCACACAGAGGG-GGATCGAG-CCGATC-CCGGCTTGCGCA
* * * * * ** * *
28446768 TTCTGCCTCTTCGG-TCGACTGAGCGCCCGCACGCCCATTTCGTGGGTTGGTTTAGGCGTAGGGA
63 TTATGCCTCTCCGGCT-GGCTCAGCGCCCGCACGCTCATTTCGTGGGTTGACTTAGGCATACGGA
** * *
28446832 GTTCATT-CCATGTCTAAGCCCTAG-CTGGACTG
127 GTTCATTCCCA-GTCTAAGATC-AGACCGGACCG
* ** *
28446864 AGGGTTGTGGCAGCGGGACCGGTAGCACACAGAGGGGGATCGAGCCGATCCCAGGCTTGGGCATT
1 AGGGTTGTGGCAGCAGGACCGACAGCACACAGAGGGGGATCGAGCCGATCCC-GGCTTGCGCATT
* * * *
28446929 ATGCCTCTCCGGCTGGC-CTAGCGCCCTCAAGCTCGTTTCGTGGGTTGACTTAGGCATACAGAGT
65 ATGCCTCTCCGGCTGGCTC-AGCGCCCGCACGCTCATTTCGTGGGTTGACTTAGGCATACGGAGT
28446993 TCATTCCCAGTCTAAGATCAGACCGGACCG
129 TCATTCCCAGTCTAAGATCAGACCGGACCG
* ** ** * * * * * *
28447023 ACGGTTGTGATAGCAGGATTGATAGCACACATGA-GGGGATCGGGCTGGTCCCCGACTTGCGCAC
1 AGGGTTGTGGCAGCAGGACCGACAGCACACA-GAGGGGGATCGAGCCGAT-CCCGGCTTGCGCAT
* * * * * * *
28447087 TCTACCTCTCCGACTGGC-GAGCACCCGCACGCTTC-TTTCATGGGTTGGCTTAGGCATACGGAG
64 TATGCCTCTCCGGCTGGCTCAGCGCCCGCACGC-TCATTTCGTGGGTTGACTTAGGCATACGGAG
* * *
28447150 TTCATTCCCAGTTTAAGATCGGACCAGACCG
128 TTCATTCCCAGTCTAAGATCAGACCGGACCG
* *
28447181 AGGGTTGCGACAGCAGGAC
1 AGGGTTGTGGCAGCAGGAC
28447200 TAGCAGTAGG
Statistics
Matches: 394, Mismatches: 85, Indels: 34
0.77 0.17 0.07
Matches are distributed among these distances:
158 85 0.22
159 224 0.57
160 83 0.21
161 2 0.01
ACGTcount: A:0.20, C:0.27, G:0.31, T:0.22
Consensus pattern (158 bp):
AGGGTTGTGGCAGCAGGACCGACAGCACACAGAGGGGGATCGAGCCGATCCCGGCTTGCGCATTA
TGCCTCTCCGGCTGGCTCAGCGCCCGCACGCTCATTTCGTGGGTTGACTTAGGCATACGGAGTTC
ATTCCCAGTCTAAGATCAGACCGGACCG
Found at i:28447727 original size:26 final size:26
Alignment explanation
Indices: 28447691--28447743 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
28447681 GTTGGCTTAG
28447691 GCATACGGAGTTCATT-CCATGTCTAA
1 GCATACGGAGTTCATTCCCA-GTCTAA
28447717 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
28447743 G
1 G
28447744 ATCAGACCGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 23 0.88
27 3 0.12
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:28447900 original size:195 final size:196
Alignment explanation
Indices: 28447472--28447913 Score: 584
Period size: 195 Copynumber: 2.3 Consensus size: 196
28447462 CCGCCCACAT
* * * *
28447472 GCTCGTTTCGTGGGTTGGCTTAGGCATACAGAGTTCATTCCATGCCTAAGCATACGGAGTTCATC
1 GCTCATTTCATGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCATACGGAGTTCATC
* * * * * * * *
28447537 CCCAGTCTAAGATCGGACTGGACTTAGCGTTGTAGTAGCAGGACCAGTAGCAGGATTGGCAGCAC
66 CCCAGTCTAAGATCAGACCGGACTGAGCGTTGGAGCAGCAGGACCAGCAGCAGGATAGACAGCAC
* * * *
28447602 GTAGGGGGGACCGGGCTAATCCCCGACTTACGCATTCTGCCTCTCCGATCGACTGAGTGCCCGCA
131 CTAGGGGGGACCGGGCCAATCCCCGACTTACGCATTCTACCTCTCCGACCGACTGAGTGCCCGCA
28447667 C
196 C
* * * *
28447668 GCCCATTTCCTAGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCATACGGAGTTCATT
1 GCTCATTTCATGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCATACGGAGTTCATC
* *
28447733 CCCAGTCTAAGATCAGACCGGA-TCGAGGGTTGCGA-CAGCAGGACCAGCA-CAGGATAGATAGC
66 CCCAGTCTAAGATCAGACCGGACT-GAGCGTTG-GAGCAGCAGGACCAGCAGCAGGATAGACAGC
* * * * * *
28447795 ACCTAGGGGGGACTGGGCCAATCCGCGGCTTGCGCATTCTACCTCTCTGACCGATTGAGTGCCCG
129 ACCTAGGGGGGACCGGGCCAATCCCCGACTTACGCATTCTACCTCTCCGACCGACTGAGTGCCCG
28447860 CAC
194 CAC
*
28447863 GCTCATTTCATGGGTTGGCTTGGGCATACGGAGTTCATTCCATGTCTAAGC
1 GCTCATTTCATGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGC
28447914 CCCAGTCGGA
Statistics
Matches: 213, Mismatches: 31, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
195 116 0.54
196 96 0.45
197 1 0.00
ACGTcount: A:0.21, C:0.27, G:0.28, T:0.24
Consensus pattern (196 bp):
GCTCATTTCATGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCATACGGAGTTCATC
CCCAGTCTAAGATCAGACCGGACTGAGCGTTGGAGCAGCAGGACCAGCAGCAGGATAGACAGCAC
CTAGGGGGGACCGGGCCAATCCCCGACTTACGCATTCTACCTCTCCGACCGACTGAGTGCCCGCA
C
Found at i:28449807 original size:158 final size:156
Alignment explanation
Indices: 28449337--28449829 Score: 505
Period size: 158 Copynumber: 3.1 Consensus size: 156
28449327 TAAGCACACA
* * * * * *
28449337 GAGTTCATTCCCA-GTCTAAGATCAGACTGGACCGAGGGTTCGGTAGCAGGATTGGCAACACGCA
1 GAGTTCATT-CCATGTCTAAGATCAAACTGGATCGAGGGTTCGGCAGCAGGATCGACAGCACGCA
* * * *
28449401 GGGGGGACCGAGGCGATCCCTGGCTT-CGCATTCTGCCTCTTCGGCCGGTTGAGCACCCACACGT
65 GGGGGGACCG-GGCGATCCCCGACTTGCGCATTCTGCCTCTTCGGTCGGCTGAGCACCCACAC-T
* * *
28449465 C-CGTCTCATGGGTTGGCTTAGGCATAGG
128 CTCGTTTCGTGGGTTGGCTTAGGCATACG
** * *
28449493 GAGTTCATTCCATGTCTAAGCCCTAA-TCGGATCGAGGGTTGTGGCAGC-GGCA-CTGACAGCAC
1 GAGTTCATTCCATGTCTAAGATCAAACT-GGATCGAGGGTT-CGGCAGCAGG-ATC-GACAGCAC
* ** * * * * ** *
28449555 GCAGAGGGGGACCGGGGTGATCATCGACTTGCGTATTATGCCTCTTCGATCGGCTCAGTGCCCTC
62 GCAG-GGGGGACC-GGGCGATCCCCGACTTGCGCATTCTGCCTCTTCGGTCGGCTGAGCACCCAC
* * *
28449620 ACACTCGTTTCGTGGGTTGACTTATGCATACG
125 ACTCTCGTTTCGTGGGTTGGCTTAGGCATACG
* *
28449652 GAGTTCATTCC-TAGTCTAAGATCAAACTAGATCGAGGGTTACGGCAGCAGGATCGACAGCAAGC
1 GAGTTCATTCCAT-GTCTAAGATCAAACTGGATCGAGGGTT-CGGCAGCAGGATCGACAGCACGC
* * *
28449716 AGGGGGGATCGGGCCGATCCCCAACTTGCGCATTCTGCCTCTTCGGTCGGCTGAGCACCCGCACT
64 AGGGGGGACCGGG-CGATCCCCGACTTGCGCATTCTGCCTCTTCGGTCGGCTGAGCACCCACACT
28449781 CTCGTTTCGTGGGTTGGCTTAGGCATACG
128 CTCGTTTCGTGGGTTGGCTTAGGCATACG
*
28449810 GAGTTTATTCCATGTCTAAG
1 GAGTTCATTCCATGTCTAAG
28449830 CATATGGAGT
Statistics
Matches: 269, Mismatches: 53, Indels: 28
0.77 0.15 0.08
Matches are distributed among these distances:
155 4 0.01
156 31 0.12
157 19 0.07
158 110 0.41
159 101 0.38
160 4 0.01
ACGTcount: A:0.19, C:0.26, G:0.30, T:0.24
Consensus pattern (156 bp):
GAGTTCATTCCATGTCTAAGATCAAACTGGATCGAGGGTTCGGCAGCAGGATCGACAGCACGCAG
GGGGGACCGGGCGATCCCCGACTTGCGCATTCTGCCTCTTCGGTCGGCTGAGCACCCACACTCTC
GTTTCGTGGGTTGGCTTAGGCATACG
Found at i:28449832 original size:26 final size:26
Alignment explanation
Indices: 28449803--28449854 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
28449793 GTTGGCTTAG
*
28449803 GCATACGGAGTTTATT-CCATGTCTAA
1 GCATACGGAGTTCATTCCCA-GTCTAA
*
28449829 GCATATGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
28449855 TATTTTAAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 20 0.87
27 3 0.13
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:28450298 original size:26 final size:26
Alignment explanation
Indices: 28450269--28450337 Score: 129
Period size: 26 Copynumber: 2.7 Consensus size: 26
28450259 TAGGCATAGG
28450269 AGTTCATTCCCAGTCTAAGCATATGA
1 AGTTCATTCCCAGTCTAAGCATATGA
28450295 AGTTCATTCCCAGTCTAAGCATATGA
1 AGTTCATTCCCAGTCTAAGCATATGA
*
28450321 AGTTCATTCCTAGTCTA
1 AGTTCATTCCCAGTCTA
28450338 GGATCAGACT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.33
Consensus pattern (26 bp):
AGTTCATTCCCAGTCTAAGCATATGA
Found at i:28450787 original size:158 final size:157
Alignment explanation
Indices: 28450313--28450814 Score: 564
Period size: 158 Copynumber: 3.2 Consensus size: 157
28450303 CCCAGTCTAA
* * * * **
28450313 GCATATGAAGTTCATTCCTAGTCTAGGATCAGACTGGACCGAGGGTTGA-GACAGCAGGATCGGT
1 GCATATGGAGTTCATTCCCAGTCTAAGATCAGACTAGACCGAGGGTT-ACGACAGCAGGATCGAC
* * * * *
28450377 AGCACGCAGGGGGGACCGGGCCGATCCTCGGCCTACGCATTCTGCCACTCCGGCCGGCTGAGCGC
65 AGCACGCAGGGGGGACCGGGCCGATCCCCGGCTTGCGCATTCTGCCTCTCCGGTCGGCTGAGCGC
*
28450442 CCGCACGC-CTGTTTCATGGGTTGGCTTAG
130 CCGCACGCTC-GTTTCGTGGGTT-GCTTAG
* * * * *
28450471 GCATAGGGAGTTCATT-CCATGTCTAAGTCTCAG-CTAGACCGAGGGTTGC-ACTAGCGGGACCG
1 GCATATGGAGTTCATTCCCA-GTCTAAG-ATCAGACTAGACCGAGGGTTACGAC-AGCAGGATCG
* * * * *
28450533 ACAGCACGCAGAGGGGGACCGGGCTGATCCCCGGCTTGTGCATTATGCCTCTCCGGTCAGCTCAG
63 ACAGCACGCAG-GGGGGACCGGGCCGATCCCCGGCTTGCGCATTCTGCCTCTCCGGTCGGCTGAG
* * * *
28450598 CGACCTCATGCTCGTTTCGTGGATTGACTTAG
127 CGCCCGCACGCTCGTTTCGTGGGTTG-CTTAG
* * *
28450630 GCATATGGAGTTCATTCCCAGTCTAAGATCAGACCAGACCAAGGGTTACGGCAGCAGGATCGACA
1 GCATATGGAGTTCATTCCCAGTCTAAGATCAGACTAGACCGAGGGTTACGACAGCAGGATCGACA
* * * *
28450695 GCATGCAGGGGGGACCAGGCCGATCCCCAGCTTGCGCATTCTGCTTCTCCGGTCGGCTGAGCGCC
66 GCACGCAGGGGGGACCGGGCCGATCCCCGGCTTGCGCATTCTGCCTCTCCGGTCGGCTGAGCGCC
28450760 CGCACGCTCGTTTCGTGGGTTAGCTTAG
131 CGCACGCTCGTTTCGTGGGTT-GCTTAG
* **
28450788 GCATACGGAGTTCATTCCTTGTCTAAG
1 GCATATGGAGTTCATTCCCAGTCTAAG
28450815 CATATGGAGT
Statistics
Matches: 283, Mismatches: 50, Indels: 22
0.80 0.14 0.06
Matches are distributed among these distances:
157 4 0.01
158 150 0.53
159 124 0.44
160 5 0.02
ACGTcount: A:0.19, C:0.28, G:0.31, T:0.22
Consensus pattern (157 bp):
GCATATGGAGTTCATTCCCAGTCTAAGATCAGACTAGACCGAGGGTTACGACAGCAGGATCGACA
GCACGCAGGGGGGACCGGGCCGATCCCCGGCTTGCGCATTCTGCCTCTCCGGTCGGCTGAGCGCC
CGCACGCTCGTTTCGTGGGTTGCTTAG
Found at i:28450838 original size:26 final size:26
Alignment explanation
Indices: 28450788--28450839 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
28450778 GTTAGCTTAG
***
28450788 GCATACGGAGTTCATTCCTTGTCTAA
1 GCATACGGAGTTCATTCCCAATCTAA
*
28450814 GCATATGGAGTTCATTCCCAATCTAA
1 GCATACGGAGTTCATTCCCAATCTAA
28450840 TATTTTGAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAATCTAA
Found at i:28452037 original size:158 final size:156
Alignment explanation
Indices: 28451544--28452037 Score: 442
Period size: 158 Copynumber: 3.1 Consensus size: 156
28451534 AAGCATACAA
* ** * *
28451544 AGTTCATTCCCAGTCTAAGATCAGACTTGACCGAGGGTTGCGAGAGCAGGATC-AGCAGCACGTA
1 AGTTCATTCCCAGTCTAAGGTCAGACCAGACTGAGGGTTGCGACAGCAGGATCGA-CAGCACGTA
* ** * * * * * *
28451608 GGGGGGATCGGATTGATCCTCGACTTGTGCATTCTGCCTCTCCAACCGGCTGAGCACCCACACAC
65 GCGGGGATCGGGCTGATCCTCGGCTT-CGCATTCTGCCTCTCCAGCTGGCTGAGCGCCCGCACAC
28451673 -CTGTTTTATGGGTTGGCTTAGGCATAGGG
129 TC-GTTTTATGGGTTGGCTTAGGCATA-GG
* * * * * * * * **
28451702 AGTTCATT-CCATGTCTAAGCTCCAG-TCGGACTGAGGGTCGTGGCAGCGGGACCGACAGCACAC
1 AGTTCATTCCCA-GTCTAAGGT-CAGACCAGACTGAGGGTTGCGACAGCAGGATCGACAGCACGT
* * * * * * * * *
28451765 AGACAGGGACCAGGCCGATCCCCGGCTTGGCATTATGCCTCTCCAG-TGGGCTCAGTGCCCGCAC
64 AG-CGGGGATCGGGCTGATCCTCGGCTTCGCATTCTGCCTCTCCAGCT-GGCTGAGCGCCCGCAC
** * *
28451829 ACTCGTTTCGTAGGTTGACTTAGGCATACGG
127 ACTCGTTTTATGGGTTGGCTTAGGCATA-GG
* * *
28451860 AGTTCATTCCCAATCTAAGGTCAGACCAGACTGAGGGTTGCGATAGCAGGATCGATAGCACGTAG
1 AGTTCATTCCCAGTCTAAGGTCAGACCAGACTGAGGGTTGCGACAGCAGGATCGACAGCACGTAG
** * *
28451925 CGGGGATCGGGCTGATCCTCGGCTTACGCATTCTATCTCTCCAGCTAGCTGAGCGCCCGCACGCT
66 CGGGGATCGGGCTGATCCTCGGCTT-CGCATTCTGCCTCTCCAGCTGGCTGAGCGCCCGCACACT
28451990 CGTTTTATGGGTTGGCTTAGGCATAGAG
130 CGTTTTATGGGTTGGCTTAGGCATAG-G
28452018 AGTTCATT-CCATGTCTAAGG
1 AGTTCATTCCCA-GTCTAAGG
28452038 ATATGGAGTT
Statistics
Matches: 258, Mismatches: 66, Indels: 24
0.74 0.19 0.07
Matches are distributed among these distances:
157 30 0.12
158 203 0.79
159 25 0.10
ACGTcount: A:0.21, C:0.27, G:0.29, T:0.24
Consensus pattern (156 bp):
AGTTCATTCCCAGTCTAAGGTCAGACCAGACTGAGGGTTGCGACAGCAGGATCGACAGCACGTAG
CGGGGATCGGGCTGATCCTCGGCTTCGCATTCTGCCTCTCCAGCTGGCTGAGCGCCCGCACACTC
GTTTTATGGGTTGGCTTAGGCATAGG
Found at i:28452407 original size:26 final size:26
Alignment explanation
Indices: 28452377--28452429 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28452367 GTGGACTTAG
28452377 GCATACAGAGTTCATCCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
** *
28452403 GCATATGGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
28452429 G
1 G
28452430 ATCAAACCGG
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:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (26 bp):
GCATACAGAGTTCATCCCCAGTCTAA
Found at i:28452864 original size:154 final size:155
Alignment explanation
Indices: 28452476--28452898 Score: 433
Period size: 154 Copynumber: 2.7 Consensus size: 155
28452466 CAGCAAGTAG
* * * * * *
28452476 GGGGGACCGGGCCGATCCCTGGCTTGCACATTCTGCCTCTCCAGCTGGCTGAGTGCCCGCACGCC
1 GGGGGACCGGGCTGATCCCCGGCTTACACATTATGCCTCTTCAGCTGGCTCAGTGCCCGCAC-CC
* * * * * *
28452541 -CGTTTCGTGGGTTGGCTTAGGCATAGGGAGTTCATT-CCATGTCTAAGCCCCAGTCGGACCGAG
65 TCATTTCGTGGGTTGACTTATGCATACGGAGTTCATTCCCA-GTCTAA----CAATCAGACCGAG
*
28452604 GGTTGTGGCAGCGGGACCGATAGCACACAGA
125 GGTTGTGGCAGCGGGACCGACAGCACACAGA
* * ** * * * * ** **
28452635 -GAGGACCGGG-TCGATCCCCTGCTTATGCATTATACCTTTTCGGTTGGCTCAGCACCCGCATGC
1 GGGGGACCGGGCT-GATCCCCGGCTTACACATTATGCCTCTTCAGCTGGCTCAGTGCCCGCACCC
* * *
28452698 TCATTTCGTGGGTTGACTTATGCATACGGAGTTTATTCCCAGTCTAA-AATTAGATCGAGGGTTG
65 TCATTTCGTGGGTTGACTTATGCATACGGAGTTCATTCCCAGTCTAACAATCAGACCGAGGGTTG
*
28452762 TGGCAGCGGGACCGACAGTACACAGA
130 TGGCAGCGGGACCGACAGCACACAGA
* *
28452788 GGGGGATCGGGCTGATCCCCGGCTTACACATTATGCCTCTTCAGCTGGCTCAGTGCCCGTACCCT
1 GGGGGACCGGGCTGATCCCCGGCTTACACATTATGCCTCTTCAGCTGGCTCAGTGCCCGCACCCT
* * * *
28452853 TATTTCATGGGTTGACTTATGCATACGAAGTTCATCCCCAGTCTAA
66 CATTTCGTGGGTTGACTTATGCATACGGAGTTCATTCCCAGTCTAA
28452899 GCATACGGAG
Statistics
Matches: 211, Mismatches: 48, Indels: 15
0.77 0.18 0.05
Matches are distributed among these distances:
153 37 0.18
154 89 0.42
155 1 0.00
157 1 0.00
158 80 0.38
159 3 0.01
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.25
Consensus pattern (155 bp):
GGGGGACCGGGCTGATCCCCGGCTTACACATTATGCCTCTTCAGCTGGCTCAGTGCCCGCACCCT
CATTTCGTGGGTTGACTTATGCATACGGAGTTCATTCCCAGTCTAACAATCAGACCGAGGGTTGT
GGCAGCGGGACCGACAGCACACAGA
Found at i:28452903 original size:26 final size:26
Alignment explanation
Indices: 28452873--28452925 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28452863 GTTGACTTAT
*
28452873 GCATACGAAGTTCATCCCCAGTCTAA
1 GCATACGAAGTTCATCACCAGTCTAA
* *
28452899 GCATACGGAGTTCATTACCAGTCTAA
1 GCATACGAAGTTCATCACCAGTCTAA
28452925 G
1 G
28452926 ATTGGACCGG
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:0.26, G:0.19, T:0.25
Consensus pattern (26 bp):
GCATACGAAGTTCATCACCAGTCTAA
Found at i:28453206 original size:158 final size:158
Alignment explanation
Indices: 28453016--28453398 Score: 358
Period size: 158 Copynumber: 2.4 Consensus size: 158
28453006 GTCTTTCTAG
* * * * * * * *
28453016 CCGGCTGAGCGCCCGCACACCCGTTTCATGGGTTGGCTTAGGGATAGGGAGTTCATTCCATGTCT
1 CCGGCTCAGCACCCGCACGCTCATTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCT
*** * * * *
28453081 ATGCCCCAG-TCAGACCGAGGGTTGTGGCAGCAGGACCGATAGCACACAGAGGGGACCGGGTCGA
66 A-AAACCAGATCAGACCGAGGGTTGCGGCAGCAGGACCGACAGCACACAGAGGGGACCGGGCCAA
* * *
28453145 TCCCCT-GCTTATGCATTATACCTCTTCGG
130 T-CCCTGGCTTACGCATTATACCTCTCCGA
** * * * *
28453174 TTGGCTCAGCACCCGCATGCTCATTTCGTGGGTTGACTTATGCATACGGAGTTTATTCCCA-GTC
1 CCGGCTCAGCACCCGCACGCTCATTTCGTGGGTTGGCTTAGGCATACGGAGTTCATT-CCATGTC
* * * * * * *
28453238 TAAAATCAGATCGGACCGAGGGTTGCGGTAGCAGGATCGACAGCACGCAGGGGGGATCGGGCCAA
65 TAAAACCAGATCAGACCGAGGGTTGCGGCAGCAGGACCGACAGCACACAGAGGGGACCGGGCCAA
* * *
28453303 TCCCTGGCTTGCGCATTCTGCCTCTCCGA
130 TCCCTGGCTTACGCATTATACCTCTCCGA
* * * * * *
28453332 CCGGCTGAGCACTCGCACGTTCATTTTGTGGGTTAGCTTAGGCATACAGAGTTCATTCCATGTCT
1 CCGGCTCAGCACCCGCACGCTCATTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCT
28453397 AA
66 AA
28453399 GATTTTGAGC
Statistics
Matches: 175, Mismatches: 46, Indels: 8
0.76 0.20 0.03
Matches are distributed among these distances:
157 10 0.06
158 162 0.93
159 3 0.02
ACGTcount: A:0.20, C:0.27, G:0.29, T:0.25
Consensus pattern (158 bp):
CCGGCTCAGCACCCGCACGCTCATTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCT
AAAACCAGATCAGACCGAGGGTTGCGGCAGCAGGACCGACAGCACACAGAGGGGACCGGGCCAAT
CCCTGGCTTACGCATTATACCTCTCCGA
Found at i:28453226 original size:496 final size:495
Alignment explanation
Indices: 28452271--28453250 Score: 1511
Period size: 496 Copynumber: 2.0 Consensus size: 495
28452261 CAGGACTGGT
* * * *
28452271 AGCGGGATCGACAGCACCAGAAGGGGATCAGACTGATCCCCGGCTTGCGCATTATGCCTCTCCGG
1 AGCGGGACCGACAGCACCAGAAGGGGATCAGACTGATCCCCGGCTTACACATTATGCCTCTCCAG
* *
28452336 CCGGCTGAGAGCCCGTACGTAAATTTCATGGGTGGACTTAGGCATACAGAGTTCATCCCCAGTCT
66 CCGGCTCAGAGCCCGTACCTAAATTTCATGGGTGGACTTAGGCATACAGAGTTCATCCCCAGTCT
* * * *
28452401 AAGCATATGGAGTTCATTCCCAGTCTAAGATCAAACCGGATCGAAGGTTGCAACAGTAGGATCGG
131 AAGCATACGGAGTTCATTACCAGTCTAAGATCAAACCGGATCCAAGGTTGCAACAGTAGGATCGA
* * * *
28452466 CAGCAAGTAGGGGGGACCGGGCCGATCCCTGGCTTGCACATTCTGCCTCTCCAGCTGGCTGAGTG
196 CAGCAAGTAGGAGGGACCGGGCCGATCCCTAGCTTGCACATTCTGCCTCTCCAGCCGGCTGAGCG
* *
28452531 CCCGCACGCCCGTTTCGTGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCAGTC
261 CCCGCACACCCGTTTCATGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCAGTC
* *
28452596 GGACCGAGGGTTGTGGCAGCGGGACCGATAGCACACAGAGAGGACCGGGTCGATCCCCTGCTTAT
326 AGACCGAGGGTTGTGGCAGCAGGACCGATAGCACACAGAGAGGACCGGGTCGATCCCCTGCTTAT
*
28452661 GCATTATACCTTTTCGGTTGGCTCAGCACCCGCATGCTCATTTCGTGGGTTGACTTATGCATACG
391 GCATTATACCTCTTCGGTTGGCTCAGCACCCGCATGCTCATTTCGTGGGTTGACTTATGCATACG
*
28452726 GAGTTTATTCCCAGTCTAAAATTAGATCGAGGGTTGTGGC
456 GAGTTTATTCCCAGTCTAAAATCAGATCGAGGGTTGTGGC
* * * * *
28452766 AGCGGGACCGACAGTACACAGAGGGGGATCGGGCTGATCCCCGGCTTACACATTATGCCTCTTCA
1 AGCGGGACCGACAGCAC-CAGAAGGGGATCAGACTGATCCCCGGCTTACACATTATGCCTCTCCA
* * * * *
28452831 GCTGGCTCAGTGCCCGTACCCT-TATTTCATGGGTTGACTTATGCATAC-GAAGTTCATCCCCAG
65 GCCGGCTCAGAGCCCGTA-CCTAAATTTCATGGGTGGACTTAGGCATACAG-AGTTCATCCCCAG
***
28452894 TCTAAGCATACGGAGTTCATTACCAGTCTAAGATTGGACCGGA-CCAAGGGTTG-AGACA-TCAG
128 TCTAAGCATACGGAGTTCATTACCAGTCTAAGATCAAACCGGATCCAA-GGTTGCA-ACAGT-AG
* * * *
28452956 GATCGACAGCACGTAGGAGGGACCGGGCCGATCCCTAGCTTGCACATTCTGTCTTTCTAGCCGGC
190 GATCGACAGCAAGTAGGAGGGACCGGGCCGATCCCTAGCTTGCACATTCTGCCTCTCCAGCCGGC
* *
28453021 TGAGCGCCCGCACACCCGTTTCATGGGTTGGCTTAGGGATAGGGAGTTCATTCCATGTCTATGCC
255 TGAGCGCCCGCACACCCGTTTCATGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCC
*
28453086 CCAGTCAGACCGAGGGTTGTGGCAGCAGGACCGATAGCACACAGAGGGGACCGGGTCGATCCCCT
320 CCAGTCAGACCGAGGGTTGTGGCAGCAGGACCGATAGCACACAGAGAGGACCGGGTCGATCCCCT
28453151 GCTTATGCATTATACCTCTTCGGTTGGCTCAGCACCCGCATGCTCATTTCGTGGGTTGACTTATG
385 GCTTATGCATTATACCTCTTCGGTTGGCTCAGCACCCGCATGCTCATTTCGTGGGTTGACTTATG
28453216 CATACGGAGTTTATTCCCAGTCTAAAATCAGATCG
450 CATACGGAGTTTATTCCCAGTCTAAAATCAGATCG
28453251 GACCGAGGGT
Statistics
Matches: 439, Mismatches: 40, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
495 21 0.05
496 416 0.95
497 2 0.00
ACGTcount: A:0.21, C:0.27, G:0.28, T:0.24
Consensus pattern (495 bp):
AGCGGGACCGACAGCACCAGAAGGGGATCAGACTGATCCCCGGCTTACACATTATGCCTCTCCAG
CCGGCTCAGAGCCCGTACCTAAATTTCATGGGTGGACTTAGGCATACAGAGTTCATCCCCAGTCT
AAGCATACGGAGTTCATTACCAGTCTAAGATCAAACCGGATCCAAGGTTGCAACAGTAGGATCGA
CAGCAAGTAGGAGGGACCGGGCCGATCCCTAGCTTGCACATTCTGCCTCTCCAGCCGGCTGAGCG
CCCGCACACCCGTTTCATGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCAGTC
AGACCGAGGGTTGTGGCAGCAGGACCGATAGCACACAGAGAGGACCGGGTCGATCCCCTGCTTAT
GCATTATACCTCTTCGGTTGGCTCAGCACCCGCATGCTCATTTCGTGGGTTGACTTATGCATACG
GAGTTTATTCCCAGTCTAAAATCAGATCGAGGGTTGTGGC
Found at i:28454583 original size:158 final size:160
Alignment explanation
Indices: 28454179--28454596 Score: 452
Period size: 159 Copynumber: 2.6 Consensus size: 160
28454169 GGGACCGGAC
* *
28454179 CGATCCCCGGCTTGCGCATTCTGCCTCTCCGACTGGCTGAGCACCCGCACGC-CTGTTTTGTGGG
1 CGATCCCCGGCTTGCGCATTCTGCCTCTCCGGCTGGCTGAGCGCCCGCACGCTC-GTTTTGTGGG
* * * * *
28454243 TTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAA-GCCCCAGTCGGACTGAGGGTTGTGGCAGC
65 TTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGGCCCCAGCCAGACTGAGGGTTGCGACAGC
* * *
28454307 GGGACCGATAGCATGCAGACGGGGACCAGGT
130 AGGACCGATAGCACGCAGACGAGGACCAGGT
* * * * * * *
28454338 CGATCCCCGACTTGCACATTATGCCTCTTCGG-TGGGCTCAGCGCCCGCACGCTAGTTTCGTGGG
1 CGATCCCCGGCTTGCGCATTCTGCCTCTCCGGCT-GGCTGAGCGCCCGCACGCTCGTTTTGTGGG
* * * **
28454402 TTGACTTAGGTATACGGAGTTCATTCCCA-GTCTAAGGTCGGA-CCAGACTGAGGGTTGCGACAG
65 TTGGCTTAGGCATACGGAGTTCATT-CCATGTCTAAGGCCCCAGCCAGACTGAGGGTTGCGACAG
* * ***
28454465 CAGGATCGATAGCACGTAGA-GAGGATTGGGT
129 CAGGACCGATAGCACGCAGACGAGGACCAGGT
* * * * *
28454496 CGATCCTCGGTTTACGCATTCTGTCTCTCCGGCTAGCTGAGCGCCCGCACGCTCGTTTTGTGGGT
1 CGATCCCCGGCTTGCGCATTCTGCCTCTCCGGCTGGCTGAGCGCCCGCACGCTCGTTTTGTGGGT
* **
28454561 TGGCTTGGGCATATAGAGTTCATTCCATGTCTAAGG
66 TGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGG
28454597 ATACGGAGTT
Statistics
Matches: 209, Mismatches: 44, Indels: 13
0.79 0.17 0.05
Matches are distributed among these distances:
157 3 0.01
158 86 0.41
159 114 0.55
160 6 0.03
ACGTcount: A:0.17, C:0.27, G:0.31, T:0.25
Consensus pattern (160 bp):
CGATCCCCGGCTTGCGCATTCTGCCTCTCCGGCTGGCTGAGCGCCCGCACGCTCGTTTTGTGGGT
TGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGGCCCCAGCCAGACTGAGGGTTGCGACAGCA
GGACCGATAGCACGCAGACGAGGACCAGGT
Found at i:28454963 original size:26 final size:26
Alignment explanation
Indices: 28454933--28454986 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
28454923 TGGATGGAGT
*
28454933 TAGGCATACGGAGTTCATCCCCAGTC
1 TAGGCATACGGAGTTCATCCCAAGTC
* *
28454959 TAGGCATATGGAGTTCATTCCAAGTC
1 TAGGCATACGGAGTTCATCCCAAGTC
28454985 TA
1 TA
28454987 AGATCAGACC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (26 bp):
TAGGCATACGGAGTTCATCCCAAGTC
Found at i:28455315 original size:26 final size:26
Alignment explanation
Indices: 28455279--28455331 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
28455269 GTTGACTTAT
28455279 GCATACGAAGTTCATCCCCAGTCTAA
1 GCATACGAAGTTCATCCCCAGTCTAA
*
28455305 GCATACGAAGTTCATTCCCAGTCTAA
1 GCATACGAAGTTCATCCCCAGTCTAA
28455331 G
1 G
28455332 ATCGGATCGG
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:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (26 bp):
GCATACGAAGTTCATCCCCAGTCTAA
Found at i:28455330 original size:343 final size:342
Alignment explanation
Indices: 28454917--28455647 Score: 980
Period size: 343 Copynumber: 2.1 Consensus size: 342
28454907 GCACACGAAA
* * * * * * *
28454917 ATTTCATGGATGGAGTTAGGCATACGGAGTTCATCCCCAGTCTAGGCATATGGAGTTCATTCCAA
1 ATTTCATGGGTTGACTTATGCATACGGAGTTCATCCCCAGTCTAAGCATACGAAGTTCATTCCAA
* * * * * *
28454982 GTCTAAGATCAGACCGGATCGAGGGTTGCGATAGCAGGATCGGCAGCACGTAGGGGGGATCGGGC
66 GTCTAAGATCAGACCGGACCAAGGGTTGAGACAGCAAGATCGACAGCACGTAGGGGGGATCGGGC
* * * * *** *
28455047 CGATCCCTGGCTTGCGCATTCTGCCTCTCCGGCTGGCTGAGTGCCCGCATGCCCGTTTCGTGGGT
131 CGATCCCTAGCTTGCACATTCTGCCTCTCCGGCCGGCTGAGCGCCCGCACAACCGTTTCATGGGT
* *
28455112 TGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCAGTCGGACCGAGGGTTATGGCAGTGG
196 TGGCTTAGGCATAAGGAGTTCATTCCATGTCTAAGCCCCAGTCGGACCGAGGGTTATGGCAGCGG
* * *
28455177 GACCGACAGTACACGGAAGGGGA-TCGGG-CTGATCCCCGGCTTACGCATTATGCCTCTTCGATC
261 GACCGACAGCACACAG-AGGGGACT-GGGTC-GATCCCCGGCTTACGCATTATACCTCTTCGATC
* *
28455240 GGCTCAGCGCCCGTACCCTC
323 GGCTCAGCACCCGCACCCTC
* * *
28455260 ATTTTATGGGTTGACTTATGCATACGAAGTTCATCCCCAGTCTAAGCATACGAAGTTCATTCCCA
1 ATTTCATGGGTTGACTTATGCATACGGAGTTCATCCCCAGTCTAAGCATACGAAGTTCATTCCAA
* * * *
28455325 GTCTAAGATCGGATCGGACCAAGGGTTGAGACATCAAGATCGACAGCACGTAGGTGGGATCGGGC
66 GTCTAAGATCAGACCGGACCAAGGGTTGAGACAGCAAGATCGACAGCACGTAGGGGGGATCGGGC
*
28455390 CGATCCCTAGCTTGCACATTCTGCCTCTCTGGCCGGCTGAGCGCCCGCACAACCGTTTCATGGGT
131 CGATCCCTAGCTTGCACATTCTGCCTCTCCGGCCGGCTGAGCGCCCGCACAACCGTTTCATGGGT
* *
28455455 TGGCTTAGGGATAAGGAGTTCATTCCATGTCTAAGCCCCAGTCGGACCGAGGGTTGTGGCAGCGG
196 TGGCTTAGGCATAAGGAGTTCATTCCATGTCTAAGCCCCAGTCGGACCGAGGGTTATGGCAGCGG
** * * * * *
28455520 GACCGGTAGCATACAGAGTGGACTGGGTCGATCCCCTGCTTATGCATTATACCTCTTCGATTGGC
261 GACCGACAGCACACAGAGGGGACTGGGTCGATCCCCGGCTTACGCATTATACCTCTTCGATCGGC
*
28455585 TCAGCACCCGCACGCTC
326 TCAGCACCCGCACCCTC
* * *
28455602 ATTTCGTGGGTTGACTTATGCATACGGAGTTCATTCCCAATCTAAG
1 ATTTCATGGGTTGACTTATGCATACGGAGTTCATCCCCAGTCTAAG
28455648 ATCGGATCGA
Statistics
Matches: 335, Mismatches: 51, Indels: 5
0.86 0.13 0.01
Matches are distributed among these distances:
342 95 0.28
343 240 0.72
ACGTcount: A:0.20, C:0.26, G:0.29, T:0.24
Consensus pattern (342 bp):
ATTTCATGGGTTGACTTATGCATACGGAGTTCATCCCCAGTCTAAGCATACGAAGTTCATTCCAA
GTCTAAGATCAGACCGGACCAAGGGTTGAGACAGCAAGATCGACAGCACGTAGGGGGGATCGGGC
CGATCCCTAGCTTGCACATTCTGCCTCTCCGGCCGGCTGAGCGCCCGCACAACCGTTTCATGGGT
TGGCTTAGGCATAAGGAGTTCATTCCATGTCTAAGCCCCAGTCGGACCGAGGGTTATGGCAGCGG
GACCGACAGCACACAGAGGGGACTGGGTCGATCCCCGGCTTACGCATTATACCTCTTCGATCGGC
TCAGCACCCGCACCCTC
Found at i:28455807 original size:158 final size:157
Alignment explanation
Indices: 28455305--28455807 Score: 458
Period size: 158 Copynumber: 3.2 Consensus size: 157
28455295 CCCAGTCTAA
* * * * * *
28455305 GCATACGAAGTTCATTCCCAGTCTAAGATCGGATCGGACCAAGGGTTGAGACATCAAGATCGACA
1 GCATACGGAGTTCATTCCCAGTCTAAGATCGGATCGGACCGAGGGTTGTGGCAGCAGGATCGACA
* * * * * ** *
28455370 GCACGTAGGTGGGATCGGGCCGATCCCTAGCTTGCACATTCTGCCTCTCTGGCCGGCTGAGCGCC
66 GCACGCAGGGGGGATCGGGCCGATCCCT-GCTTACGCATTCTGCCTCTCCGATCGGCTGAGCACC
* * *
28455435 CGCACAAC-CGTTTCATGGGTTGGCTTAG
130 CGCA-AGCTCATTTCGTGGGTTGGCTTAG
* * * ** * * *
28455463 GGATAAGGAGTTCATT-CCATGTCTAAG-CCCCAGTCGGACCGAGGGTTGTGGCAGCGGGACCGG
1 GCATACGGAGTTCATTCCCA-GTCTAAGATCGGA-TCGGACCGAGGGTTGTGGCAGCAGGATCGA
* ** * * * * * * * * *
28455526 TAGCATACAGAGTGGA-CTGGGTCGATCCCCTGCTTATGCATTATACCTCTTCGATTGGCTCAGC
64 CAGCACGCAGGGGGGATC-GGGCCGAT-CCCTGCTTACGCATTCTGCCTCTCCGATCGGCTGAGC
* * *
28455590 ACCCGCACGCTCATTTCGTGGGTTGACTTAT
127 ACCCGCAAGCTCATTTCGTGGGTTGGCTTAG
* * * *
28455621 GCATACGGAGTTCATTCCCAATCTAAGATCGGATCGAACTGAGGGTTGTGGTAGCAGGATCGACA
1 GCATACGGAGTTCATTCCCAGTCTAAGATCGGATCGGACCGAGGGTTGTGGCAGCAGGATCGACA
** * *
28455686 AAACGCAGGGGGGATCGGGCCAATCCCTGGCTTACGCATTCTGCTTCTCCGATCGGCTGAGCACC
66 GCACGCAGGGGGGATCGGGCCGATCCCT-GCTTACGCATTCTGCCTCTCCGATCGGCTGAGCACC
*
28455751 CGCATGCTCATTTCGTGGGTTGGCTTAG
130 CGCAAGCTCATTTCGTGGGTTGGCTTAG
28455779 GCATACGGAGTTCATT-CCATGTCTAAGAT
1 GCATACGGAGTTCATTCCCA-GTCTAAGAT
28455808 TTTGAGCCAC
Statistics
Matches: 263, Mismatches: 72, Indels: 20
0.74 0.20 0.06
Matches are distributed among these distances:
157 14 0.05
158 239 0.91
159 10 0.04
ACGTcount: A:0.21, C:0.26, G:0.28, T:0.24
Consensus pattern (157 bp):
GCATACGGAGTTCATTCCCAGTCTAAGATCGGATCGGACCGAGGGTTGTGGCAGCAGGATCGACA
GCACGCAGGGGGGATCGGGCCGATCCCTGCTTACGCATTCTGCCTCTCCGATCGGCTGAGCACCC
GCAAGCTCATTTCGTGGGTTGGCTTAG
Found at i:28458580 original size:26 final size:26
Alignment explanation
Indices: 28458532--28458581 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
28458522 GACTTAGGCA
*
28458532 TACGGAGTTCATCCCCAATCTAAGCC
1 TACGGAGTTCATCCCCAACCTAAGCC
* *
28458558 TACGGAGTTCATTCCCAGCCTAAG
1 TACGGAGTTCATCCCCAACCTAAG
28458582 ATCAGGCCAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (26 bp):
TACGGAGTTCATCCCCAACCTAAGCC
Found at i:28458873 original size:159 final size:159
Alignment explanation
Indices: 28458619--28459058 Score: 388
Period size: 159 Copynumber: 2.8 Consensus size: 159
28458609 CAAGATCAAT
* * * * * * * * * * *
28458619 AGCACGCAGAGGGGACAGGGCCAATCCCAGGCTTACGTATTCTGCCTCTCC-GATCGACTGAGCA
1 AGCATGCAGAGGGGACCGAGCCGATCCCCGGCTTACGCATTATACCTCTCCAGA-CGACTCAACG
* * * * * *
28458683 CCCGCATGCCCGTTTCGTGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCTAG-C
65 CCCGAACGCTCATTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCACTAGAC
* ** **
28458747 C-GAACCGAGGGTTGTGGTAGCAGGACCGGT
130 CAG-ACCGAGGGTTGCGAAAGCAGGACCGAC
* ** * ** *
28458777 AGCATGCAGAAGGGGATCGAGGTGATCCCCGGCTTGCGCATTATGTCTCTTC-GACAGACTCAAC
1 AGCATGCAG-AGGGGACCGAGCCGATCCCCGGCTTACGCATTATACCTCTCCAGAC-GACTCAAC
* * *
28458841 GGCCGAACGCTCATTTCGTGGGTTGACTTAGGCATACGGAGTTCATTCC-TAGTCTAAG-ATTAG
64 GCCCGAACGCTCATTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCAT-GTCTAAGCACTAG
*
28458904 ACCAGACCGAGGGTTGCGAAAGCAGGATCGAC
128 ACCAGACCGAGGGTTGCGAAAGCAGGACCGAC
* * * * ** * *
28458936 AGCATGCAGGGGGGACCGAGCCGATCCCCGGCTTACGGATTTTACCTCTCCAGTCGGTTGAGCGC
1 AGCATGCAGAGGGGACCGAGCCGATCCCCGGCTTACGCATTATACCTCTCCAGACGACTCAACGC
* * * *
28459001 CCGCACGCTCGTTTCGTGGGTTGGCTTAGGCATATGAAGTTCATTCCATGTCTAAGCA
66 CCGAACGCTCATTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCA
28459059 TATAGAGTTC
Statistics
Matches: 222, Mismatches: 52, Indels: 15
0.77 0.18 0.05
Matches are distributed among these distances:
158 99 0.45
159 122 0.55
160 1 0.00
ACGTcount: A:0.21, C:0.26, G:0.30, T:0.23
Consensus pattern (159 bp):
AGCATGCAGAGGGGACCGAGCCGATCCCCGGCTTACGCATTATACCTCTCCAGACGACTCAACGC
CCGAACGCTCATTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCACTAGACC
AGACCGAGGGTTGCGAAAGCAGGACCGAC
Found at i:28459042 original size:158 final size:156
Alignment explanation
Indices: 28458558--28459056 Score: 457
Period size: 158 Copynumber: 3.2 Consensus size: 156
28458548 AATCTAAGCC
* * * * * *
28458558 TACGGAGTTCATTCCCA-GCCTAAGATCAGGCCAGACAGAGGGTTGCGGCAA-CAAGATCAATAG
1 TACGGAGTTCATT-CCATGTCTAAGATTA-GCCAGACCGAGGGTTGC-GAAAGCAGGATCGATAG
* * * * * * * *
28458621 CACGCAGAGGGGACAGGGCCAATCCCAGGCTTACGTATTCTGCCTCTCCGATCGACTGAGCACCC
63 CATGCAGAGGGGACCGAGCCGATCCCCGGCTTACGCATTATGCCTCTCCG-TCGACTGAGCGCCC
* *
28458686 GCATGCCCGTTTCGTGGGTTGGCTTAGGCA
127 GCACGCTCGTTTCGTGGGTTGGCTTAGGCA
* ** * ** * *
28458716 TAGGGAGTTCATTCCATGTCTAAGCCCTAGCC-GAACCGAGGGTTGTGGTAGCAGGACCGGTAGC
1 TACGGAGTTCATTCCATGTCTAAG-ATTAGCCAG-ACCGAGGGTTGCGAAAGCAGGATCGATAGC
* ** * * * * * * *
28458780 ATGCAGAAGGGGATCGAGGTGATCCCCGGCTTGCGCATTATGTCTCTTCGACAGACTCAACGGCC
64 ATGCAG-AGGGGACCGAGCCGATCCCCGGCTTACGCATTATGCCTCTCCGTC-GACTGAGCGCCC
* * *
28458845 GAACGCTCATTTCGTGGGTTGACTTAGGCA
127 GCACGCTCGTTTCGTGGGTTGGCTTAGGCA
*
28458875 TACGGAGTTCATTCC-TAGTCTAAGATTAGACCAGACCGAGGGTTGCGAAAGCAGGATCGACAGC
1 TACGGAGTTCATTCCAT-GTCTAAGATTAG-CCAGACCGAGGGTTGCGAAAGCAGGATCGATAGC
* * * * **
28458939 ATGCAGGGGGGACCGAGCCGATCCCCGGCTTACGGATTTTACCTCTCCAGTCGGTTGAGCGCCCG
64 ATGCAGAGGGGACCGAGCCGATCCCCGGCTTACGCATTATGCCTCTCC-GTCGACTGAGCGCCCG
28459004 CACGCTCGTTTCGTGGGTTGGCTTAGGCA
128 CACGCTCGTTTCGTGGGTTGGCTTAGGCA
* *
28459033 TATGAAGTTCATTCCATGTCTAAG
1 TACGGAGTTCATTCCATGTCTAAG
28459057 CATATAGAGT
Statistics
Matches: 264, Mismatches: 66, Indels: 22
0.75 0.19 0.06
Matches are distributed among these distances:
157 6 0.02
158 136 0.52
159 121 0.46
160 1 0.00
ACGTcount: A:0.22, C:0.26, G:0.29, T:0.22
Consensus pattern (156 bp):
TACGGAGTTCATTCCATGTCTAAGATTAGCCAGACCGAGGGTTGCGAAAGCAGGATCGATAGCAT
GCAGAGGGGACCGAGCCGATCCCCGGCTTACGCATTATGCCTCTCCGTCGACTGAGCGCCCGCAC
GCTCGTTTCGTGGGTTGGCTTAGGCA
Found at i:28459080 original size:26 final size:26
Alignment explanation
Indices: 28459030--28459081 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
28459020 GTTGGCTTAG
*
28459030 GCATATGAAGTTCATTCCATGTCTAA
1 GCATATGAAGTTCATTCCATATCTAA
28459056 GCATAT-AGAGTTCATTCCCA-ATCTAA
1 GCATATGA-AGTTCATT-CCATATCTAA
28459082 TATCAGACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 1 0.04
26 19 0.83
27 3 0.13
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (26 bp):
GCATATGAAGTTCATTCCATATCTAA
Found at i:28459811 original size:25 final size:26
Alignment explanation
Indices: 28459782--28459833 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
28459772 GTTGACTTAG
28459782 GCATACAGAGTTCATCCCCA-TCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
** *
28459807 GCATATGGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
28459833 G
1 G
28459834 ATCGGATCAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (26 bp):
GCATACAGAGTTCATCCCCAGTCTAA
Found at i:28460222 original size:159 final size:157
Alignment explanation
Indices: 28459807--28460309 Score: 505
Period size: 159 Copynumber: 3.2 Consensus size: 157
28459797 CCCCATCTAA
* *
28459807 GCATATGGAGTTCATTCCCAGTCTAAGATCGGATCAGATCGAGGGTTGCAGTAGCAGGATCGACA
1 GCATACGGAGTTCATTCCCAGTCTAAGATCGGATCAGATCGAGGGTTGCGGTAGCAGGATCGACA
* * * * *
28459872 GCACGCAGGGGGGACTGGGCCGATCCCTAGCTTGCGCATTCTGCCGCTC-CAGCTGGTTGAGTGC
66 GCACGCAGGGGGGAC-GGGCCGATCCCTGGCTTGCGCATTCTGCCTCTCTGA-CTGGCTAAGTGC
* *
28459936 CCACACGCCCATTTCA-TGGGTTAGCTTAG
129 CCGCACGCTCATTT-AGTGGGTTAGCTTAG
* * * ** * * * *
28459965 GCATAGGGAGTTCATTCCCTGTCTAAG-CCCCAGTCGGATCGAGGGTTGTGGTAGCGGGACCGAC
1 GCATACGGAGTTCATTCCCAGTCTAAGATCGGA-TCAGATCGAGGGTTGCGGTAGCAGGATCGAC
* * * * * *
28460029 AGCACGCAAAGGGGAACCGGCCCGATCCCCGGCTTGCGCATTATGCCTCTCTGACTGGCTCAGTG
65 AGCACGC-AGGGGGGA-CGGGCCGATCCCTGGCTTGCGCATTCTGCCTCTCTGACTGGCTAAGTG
*
28460094 CCCGCACGCTCATTTAGTGGGTTAACTTAG
128 CCCGCACGCTCATTTAGTGGGTTAGCTTAG
* * * * *
28460124 GCATACGGAGTTCATTCCCAGTCTAAGATTGGACCAGACCGAGGGTTGCGGCAGCAAGATCGACA
1 GCATACGGAGTTCATTCCCAGTCTAAGATCGGATCAGATCGAGGGTTGCGGTAGCAGGATCGACA
* * * * *
28460189 GCACACAGGGGGGGATCGGGTC-AGTCCCTGGCTTACGCATTCTGGCTCTCCTG-CTGGCTAAGC
66 GCACGCA-GGGGGGA-CGGGCCGA-TCCCTGGCTTGCGCATTCTGCCTCT-CTGACTGGCTAAGT
* * * *
28460252 ACCCGCACGGTCATTTCGTGGGTTGGCTTAG
127 GCCCGCACGCTCATTTAGTGGGTTAGCTTAG
*
28460283 GCATACAGAGTTCATT-CCATGTCTAAG
1 GCATACGGAGTTCATTCCCA-GTCTAAG
28460310 CATACAGAGT
Statistics
Matches: 280, Mismatches: 55, Indels: 19
0.79 0.16 0.05
Matches are distributed among these distances:
157 2 0.01
158 64 0.23
159 208 0.74
160 6 0.02
ACGTcount: A:0.20, C:0.27, G:0.30, T:0.23
Consensus pattern (157 bp):
GCATACGGAGTTCATTCCCAGTCTAAGATCGGATCAGATCGAGGGTTGCGGTAGCAGGATCGACA
GCACGCAGGGGGGACGGGCCGATCCCTGGCTTGCGCATTCTGCCTCTCTGACTGGCTAAGTGCCC
GCACGCTCATTTAGTGGGTTAGCTTAG
Found at i:28460319 original size:26 final size:25
Alignment explanation
Indices: 28460283--28460334 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 25
28460273 GTTGGCTTAG
28460283 GCATACAGAGTTCATTCCATGTCTAA
1 GCATACAGAGTTCATTCCA-GTCTAA
*
28460309 GCATACAGAGTTCATTCTAGTCTAA
1 GCATACAGAGTTCATTCCAGTCTAA
28460334 G
1 G
28460335 ATTGGACCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (25 bp):
GCATACAGAGTTCATTCCAGTCTAA
Found at i:28461573 original size:26 final size:26
Alignment explanation
Indices: 28461544--28461596 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
28461534 GTTGACTTAG
28461544 GCATACGAAGTTCATT-CCATGTCTAA
1 GCATACGAAGTTCATTCCCA-GTCTAA
28461570 GCATACGAAGTTCATTCCCAGTCTAA
1 GCATACGAAGTTCATTCCCAGTCTAA
28461596 G
1 G
28461597 ATCAGACCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 23 0.88
27 3 0.12
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (26 bp):
GCATACGAAGTTCATTCCCAGTCTAA
Found at i:28461938 original size:26 final size:26
Alignment explanation
Indices: 28461909--28461990 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
28461899 TGGGTTGACT
28461909 TAAGCATACGGAGTTCATCCCCAGTC
1 TAAGCATACGGAGTTCATCCCCAGTC
28461935 TAAGCATACGGAGTTCATCCCCAGTC
1 TAAGCATACGGAGTTCATCCCCAGTC
*
28461961 TAAGCATACGGAGTTCATTCCCAGTC
1 TAAGCATACGGAGTTCATCCCCAGTC
28461987 TAAG
1 TAAG
28461991 ATCAGACCAG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (26 bp):
TAAGCATACGGAGTTCATCCCCAGTC
Found at i:28462262 original size:737 final size:718
Alignment explanation
Indices: 28460627--28462298 Score: 1723
Period size: 723 Copynumber: 2.3 Consensus size: 718
28460617 CCGGTCGGCC
* * * * * * *
28460627 GAGCGCCCACACTCTCATTTCGTGGGTTGACTTAGGCATACGGAGTTCATTCCCA-GTCCAAG-A
1 GAGCGCCCGCACGCCCATTTCGTGGGTTGGCTTAGGCATAGGGAGTTCATT-CCATGTCTAAGCC
* * * * * * * ** **
28460690 TCAGATC-GAATCGAGGGTTGTGGCAGCAAGATC-GACAGCACACA-ATGAGGCACTGGGCCGGC
65 CCAG-CCAG-ATCGAGGGTTGTGGCAACGAGA-CAGACAGCACGCAGAGGAGG-ACTCGAACGAT
* * * * * *
28460752 CCCCGACTTGCGCATTCTGCCTCTT-TGGTCGGCTGAGTGCCTGCACGCTCATTTCGTGGGTTGG
126 CCCCGGCTTGCGCATTATGCCTCTTCAGGT-GGCTCAGTGCCCGCACGCTCATTTCGTGGGTTGA
* *
28460816 CTTAGGCATATGGAGTTCATTCCATGTCTAGGCATACAGAGTTCATTCCCAGTCAAAGATCAAAC
190 CTTAGGCATACGGAGTTCATTCCATGTCTAAGCATACAGAGTTCATTCCCAGTCAAAGATCAAAC
* * * * *
28460881 CGAACCAAGGGTTACGGTTGCAGGACCAATAGCAGGATCGATAGCACGTAAGGGGGGATCGGGTC
255 CGAACCAAGGGTTACGATAGCAGGACCAACAGCAGGATCGACAGCACGTAAGGGGGGATCGGGCC
* ** * * * *
28460946 GATCCCCAGCTTGTGCATTGTGCCTCTCTTGTCGGTTGAACACCCGCACACTCATTTCCTGGGTT
320 GATCCCCAGCTTGTGCATTCTGCCTCTCCGGCCAGCTGAACACCCACACACTCATTTCCTGGGTT
* * *
28461011 AGCTTAGGCATACAGAGTTCATTCCATGTCTAAGCCCCAGTCGGACCGAGGGTTGTGGTAGTAGG
385 AGCTTAGGCATACAGAGTTCATTCCATGTCTAAGCCCCAGCCGAACCGAGGGTTGTGGTAGCAGG
* * * * *
28461076 ACCAGTAATCGGATCGGCCGCACGCAGAAGGGACCGGGCTGATCCCCGACTTACGTATTATGTCT
450 ACCAGTAACCGAATCGACAGCACGCAGAAGGGACCGGGCTGATCCCCGACTTACGCATTATGTCT
* * *
28461141 CTCCTGCCGACCTTTTCGGCTGACTGAGCCCCCGTATGCTCGTTTCATGGGTTGACTTAGGCATA
515 CTCCTGCCGA----TTCGGC-GACTGAGCACCCGCATGCTCGTTTCATGGGTTGACTTAAGCATA
*
28461206 CAGAGTTCATCCCCAGTCTAAGCATACGGAGTTCATTCCCAGTCGAAGATCGAACCGGACCGAAG
575 CAGAGTTCATCCCCAGTCTAAGCATACGGAGTTCATCCCCAGTCGAAGATCGAACCGGACCGAAG
* * * ** * *
28461271 GTTGCGACAGCAAGATCGATAGCACGCAGGGGGGATCGAGCTGATCCCCGGCTTGCACATTTTAC
640 GTTGCGACAGCAAGATCGACAGCACGCAGGAGGGAGCGAGCCAATCCCCGGCTTACACATTCTAC
*
28461336 CTCTCCGGCCGACT
705 CTCTCCGACCGACT
* * *
28461350 GAGTGCCCGCACGCCCGTTTCGTGGGTTGGCTTAGGCATAGGGGGTTCATTCCATGTCTAAGCCC
1 GAGCGCCCGCACGCCCATTTCGTGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCC
* * * * * * ** *
28461415 GAGCCGGATCGAGGGTTGTGGCAACGGGACTGACAGTACGCAGAGGAGGACTGGGTCGATCCCCA
66 CAGCCAGATCGAGGGTTGTGGCAACGAGACAGACAGCACGCAGAGGAGGACTCGAACGATCCCCG
* * * * * * *
28461480 GCTTGTGCATTATCCCTC-TCCGATTGGCTCAGCGCCCGTACGCTCATTTTGTGGGTTGACTTAG
131 GCTTGCGCATTATGCCTCTTCAG-GTGGCTCAGTGCCCGCACGCTCATTTCGTGGGTTGACTTAG
* * *
28461544 GCATACGAAGTTCATTCCATGTCTAAGCATAC-GAAGTTCATTCCCAGTCTAAGATCAGACCGAA
195 GCATACGGAGTTCATTCCATGTCTAAGCATACAG-AGTTCATTCCCAGTCAAAGATCAAACCGAA
* * * * * *
28461608 CCGAGGGTTGCGATAGCAGGACCAGCAGCAGGATTGGCAGCACGCT-GGGGGGGATCGGGCCGAT
259 CCAAGGGTTACGATAGCAGGACCAACAGCAGGATCGACAGCACG-TAAGGGGGGATCGGGCCGAT
* * ** * * *
28461672 CCCC-GACTTGTGCATTCT-CTCTCTCCGGCCAGCTGAGCACCTACATGCTCGTTTCGTGGGTTG
323 CCCCAG-CTTGTGCATTCTGC-CTCTCCGGCCAGCTGAACACCCACACACTCATTTCCTGGGTTA
* * *
28461735 GCTTAGGCATACGGAGTTCATTCCATGTCTAAGCCCCAGCCGAACCGAGTGTTGTGGTAGCGGGA
386 GCTTAGGCATACAGAGTTCATTCCATGTCTAAGCCCCAGCCGAACCGAGGGTTGTGGTAGCAGGA
* * * *
28461800 CCAGTAACCGAATCGACAGCATGCAGAGGGGTACCGGGCTGATCCCTGGCTTACGCATTATG-C-
451 CCAGTAACCGAATCGACAGCACGCAGAAGGG-ACCGGGCTGATCCCCGACTTACGCATTATGTCT
* * *
28461863 CT-CT-TCGA-TC-G-G-CTGAGCACCCGCATGCTCGTTTCGTGGGTTGACTTAAGCATACGGAG
515 CTCCTGCCGATTCGGCGACTGAGCACCCGCATGCTCGTTTCATGGGTTGACTTAAGCATACAGAG
*
28461922 TTCATCCCCAGTCTAAGCATACGGAGTTCATCCCCAGTCTAAGCATACGGAGTTCATTCCCAGTC
580 TTCATCCCCAGTCTAAGCATACGGAGTTCATCCCCAGTCGAAG-AT-C-GA----A----C---C
* * *
28461987 TAAGATCAGACCAGACCGAGGGTTGCGACAGCAGGATCGACAGCATGCAGGATGGAGC-AGGCCA
631 ---G----GACC-GA---A-GGTTGCGACAGCAAGATCGACAGCACGCAGGAGGGAGCGA-GCCA
* *
28462051 ATCCCCGGCTTACGCATTCTGCCTCTCCGACCGACT
683 ATCCCCGGCTTACACATTCTACCTCTCCGACCGACT
*
28462087 GAGCGCCCGCACGTCCATTTCGTGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCC
1 GAGCGCCCGCACGCCCATTTCGTGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCC
** * * *
28462152 CAGCCAGATCGAGGGTTGTGGCAGTGAGACCAG-TAGCACGTAGAGGGGGAC-CGAACGGATCCC
66 CAGCCAGATCGAGGGTTGTGGCAACGAGA-CAGACAGCACGCAGAGGAGGACTCGAAC-GATCCC
*
28462215 CGGCTTGCGCATTATGCCTCTTCAGGTGGCTCAGTGCCCGCACGCTCATTTCGCGGGTTGACTTA
129 CGGCTTGCGCATTATGCCTCTTCAGGTGGCTCAGTGCCCGCACGCTCATTTCGTGGGTTGACTTA
*
28462280 TGCATACGGAGTTCATTCC
194 GGCATACGGAGTTCATTCC
28462299 CAATCTAAGA
Statistics
Matches: 778, Mismatches: 129, Indels: 70
0.80 0.13 0.07
Matches are distributed among these distances:
711 83 0.11
712 3 0.00
713 1 0.00
714 3 0.00
715 2 0.00
718 1 0.00
720 3 0.00
721 2 0.00
722 11 0.01
723 376 0.48
724 37 0.05
725 1 0.00
728 1 0.00
732 4 0.01
733 2 0.00
736 4 0.01
737 239 0.31
738 5 0.01
ACGTcount: A:0.21, C:0.28, G:0.28, T:0.23
Consensus pattern (718 bp):
GAGCGCCCGCACGCCCATTTCGTGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCC
CAGCCAGATCGAGGGTTGTGGCAACGAGACAGACAGCACGCAGAGGAGGACTCGAACGATCCCCG
GCTTGCGCATTATGCCTCTTCAGGTGGCTCAGTGCCCGCACGCTCATTTCGTGGGTTGACTTAGG
CATACGGAGTTCATTCCATGTCTAAGCATACAGAGTTCATTCCCAGTCAAAGATCAAACCGAACC
AAGGGTTACGATAGCAGGACCAACAGCAGGATCGACAGCACGTAAGGGGGGATCGGGCCGATCCC
CAGCTTGTGCATTCTGCCTCTCCGGCCAGCTGAACACCCACACACTCATTTCCTGGGTTAGCTTA
GGCATACAGAGTTCATTCCATGTCTAAGCCCCAGCCGAACCGAGGGTTGTGGTAGCAGGACCAGT
AACCGAATCGACAGCACGCAGAAGGGACCGGGCTGATCCCCGACTTACGCATTATGTCTCTCCTG
CCGATTCGGCGACTGAGCACCCGCATGCTCGTTTCATGGGTTGACTTAAGCATACAGAGTTCATC
CCCAGTCTAAGCATACGGAGTTCATCCCCAGTCGAAGATCGAACCGGACCGAAGGTTGCGACAGC
AAGATCGACAGCACGCAGGAGGGAGCGAGCCAATCCCCGGCTTACACATTCTACCTCTCCGACCG
ACT
Found at i:28462507 original size:26 final size:26
Alignment explanation
Indices: 28462471--28462521 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
28462461 TGGCTTAGGC
28462471 ATATGGAGTTCATTC-CATGTCTAAGG
1 ATATGGAGTTCATTCTCA-GTCTAAGG
28462497 ATATGGAGTTCATTCTCAGTCTAAG
1 ATATGGAGTTCATTCTCAGTCTAAG
28462522 ATTTTGAGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 22 0.92
27 2 0.08
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (26 bp):
ATATGGAGTTCATTCTCAGTCTAAGG
Found at i:28463708 original size:158 final size:158
Alignment explanation
Indices: 28463208--28463709 Score: 428
Period size: 158 Copynumber: 3.2 Consensus size: 158
28463198 CCCGGTCTAA
* * * * * *
28463208 GCATACGGAGTTCATTCCCAGTCGAAAATCAGACCAGACCGAGTGTTACGACAGCAGGATCAACA
1 GCATACGGAGTTCATTCCCAGTCTAAGATCAGACCAGACCGAGGGTTGCGGCAGCAGGATCGACA
* * * *
28463273 GCACCCAAGGA-GGACTGGGCCAATCC-CAGGCTTGCGCATTCTGCCTCTCCGACCGGTTGAGCA
66 GCACGC-AGGAGGGACCGGGCCGATCCTCA-GCTTGCGCATTCTGCCTCTCCGATCGGTTGAGC-
* *
28463336 GCC-GCACT-CCCATTTCATGGGTTGGCTTAG
128 GCCTGCA-TGCTCATTTCGTGGGTTGGCTTAG
* ** * * * * *
28463366 GCATAGGGAGTTCATT-CCATGTCTAAGCCCCAG-TCAGACCAAGGGTTGTGGCAGCAAGACCGA
1 GCATACGGAGTTCATTCCCA-GTCTAAG-ATCAGACCAGACCGAGGGTTGCGGCAGCAGGATCGA
** * * ** * * **
28463429 CAGCACGCAAAAGGGGATCGGGCCGATCCTCGGCTTTTGCATTATGCCTCTCCGGTCGGGTCAAT
64 CAGCACGCAGGA-GGGACCGGGCCGATCCTCAGCTTGCGCATTCTGCCTCTCCGATC-GGTTGA-
* * * *
28463494 GC-CCT-TACGCTCATTTCGTTGGTTGACTTAG
126 GCGCCTGCATGCTCATTTCGTGGGTTGGCTTAG
** * * *
28463525 GCATACAAAGTTCATTCCCAATCTAAGATCGGACCAGACCGAGGGTTGCGGCAGTAGGATCGACA
1 GCATACGGAGTTCATTCCCAGTCTAAGATCAGACCAGACCGAGGGTTGCGGCAGCAGGATCGACA
* ** * *
28463590 GCATGCAGGAGGGACCGGGTTGATCCTCAGCTTGGGCATTCTACCTCTCCGATCGGTTGAGCGCC
66 GCACGCAGGAGGGACCGGGCCGATCCTCAGCTTGCGCATTCTGCCTCTCCGATCGGTTGAGCGCC
* *
28463655 TGCATGCTCGTTTTGTGGGTTGGCTTAG
131 TGCATGCTCATTTCGTGGGTTGGCTTAG
*
28463683 TCATACGGAGTTCATT-CCATGTCTAAG
1 GCATACGGAGTTCATTCCCA-GTCTAAG
28463710 CATACAGAGT
Statistics
Matches: 259, Mismatches: 71, Indels: 28
0.72 0.20 0.08
Matches are distributed among these distances:
156 2 0.01
157 15 0.06
158 124 0.48
159 108 0.42
160 8 0.03
161 2 0.01
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (158 bp):
GCATACGGAGTTCATTCCCAGTCTAAGATCAGACCAGACCGAGGGTTGCGGCAGCAGGATCGACA
GCACGCAGGAGGGACCGGGCCGATCCTCAGCTTGCGCATTCTGCCTCTCCGATCGGTTGAGCGCC
TGCATGCTCATTTCGTGGGTTGGCTTAG
Found at i:28463720 original size:26 final size:26
Alignment explanation
Indices: 28463684--28463735 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28463674 TTGGCTTAGT
*
28463684 CATACGGAGTTCATT-CCATGTCTAAG
1 CATACAGAGTTCATTCCCA-GTCTAAG
28463710 CATACAGAGTTCATTCCCAGTCTAAG
1 CATACAGAGTTCATTCCCAGTCTAAG
28463736 ATCGAACCGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (26 bp):
CATACAGAGTTCATTCCCAGTCTAAG
Found at i:28464285 original size:26 final size:26
Alignment explanation
Indices: 28464255--28464307 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28464245 GTTGGCTTAG
*
28464255 GCATACGGAGCTCATTCC-ATGTCTAA
1 GCATACAGAGCTCATTCCTA-GTCTAA
*
28464281 GCATACAGAGTTCATTCCTAGTCTAA
1 GCATACAGAGCTCATTCCTAGTCTAA
28464307 G
1 G
28464308 ATTTTGAGCC
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:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (26 bp):
GCATACAGAGCTCATTCCTAGTCTAA
Found at i:28470852 original size:25 final size:25
Alignment explanation
Indices: 28470818--28470867 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
28470808 CATGGGATGA
*
28470818 CATAGGAGTTCA-TCCCTAGTCTAAG
1 CATACGAGTTCATTCCC-AGTCTAAG
28470843 CATACGAGTTCATTCCCAGTCTAAG
1 CATACGAGTTCATTCCCAGTCTAAG
28470868 ATCGGATCGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (25 bp):
CATACGAGTTCATTCCCAGTCTAAG
Found at i:28471150 original size:159 final size:159
Alignment explanation
Indices: 28470902--28471344 Score: 534
Period size: 159 Copynumber: 2.8 Consensus size: 159
28470892 TAGTAGGATT
* * *
28470902 GACAGCACGCAGA-GGGGACCGGGCCAATCCCCGGCTTGCGCATTCTGCCTATCCGACCGGTTGA
1 GACAGCACGCAGAGGGGGACCGGGCCAATCCCCGGCTTGCGCATTCTGCCTCTCCGGCCGGCTGA
* * *
28470966 GCACCCGCACGCTCGTTTCGTTGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTATAAGCCCC
66 GCACCCGCACGCTCGTTTCG-TGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAG-ACC
* * * * **
28471031 AG-TCGGACAGAGGGTTGTGGCAGCGGGACC
129 AGACCAGACAGAGGGTTGCGACAGCAAGACC
* * * *
28471061 GACAGCACACAGAGGGGGACCGGGCCAATCCCCGGCTTGCGCATTATGCCTCTTCGGCCGGCTCA
1 GACAGCACGCAGAGGGGGACCGGGCCAATCCCCGGCTTGCGCATTCTGCCTCTCCGGCCGGCTGA
* * * *
28471126 GCACCCGCACGCTCATTTCGTGGGTTGACTTAGGTATACGGAGTTCATTCC-TAGTCTAAGATCA
66 GCACCCGCACGCTCGTTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCAT-GTCTAAGACCA
* * *
28471190 GACCAGACCGAGGGTTGCGACAGTAAGATC
130 GACCAGACAGAGGGTTGCGACAGCAAGACC
* * * * * * * *
28471220 GACAGCATGCAGGGGGGGATCGGGCCGATCCCCGACTTGTGCATTCTGCCTCTCCGGTCGACTGA
1 GACAGCACGCAGAGGGGGACCGGGCCAATCCCCGGCTTGCGCATTCTGCCTCTCCGGCCGGCTGA
* *
28471285 GCGCCCGCACGCTCGTTTCAT-GGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGA
66 GCACCCGCACGCTCGTTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGA
28471345 ATAGGAGTTC
Statistics
Matches: 240, Mismatches: 40, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
158 39 0.16
159 137 0.57
160 64 0.27
ACGTcount: A:0.19, C:0.29, G:0.30, T:0.21
Consensus pattern (159 bp):
GACAGCACGCAGAGGGGGACCGGGCCAATCCCCGGCTTGCGCATTCTGCCTCTCCGGCCGGCTGA
GCACCCGCACGCTCGTTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGACCAG
ACCAGACAGAGGGTTGCGACAGCAAGACC
Found at i:28471731 original size:26 final size:26
Alignment explanation
Indices: 28471702--28471754 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28471692 GTTGACTTAG
28471702 GCATACGAACTTCATCCCCAATCTAA
1 GCATACGAACTTCATCCCCAATCTAA
* * *
28471728 GCATACGAAGTTCATTCCCAGTCTAA
1 GCATACGAACTTCATCCCCAATCTAA
28471754 G
1 G
28471755 ATCGGATCAA
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:0.32, C:0.30, G:0.13, T:0.25
Consensus pattern (26 bp):
GCATACGAACTTCATCCCCAATCTAA
Found at i:28472588 original size:26 final size:26
Alignment explanation
Indices: 28472552--28472604 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28472542 GTTGGCTTAG
28472552 GCATACAGAGTTCATT-CCATGTCTAA
1 GCATACAGAGTTCATTCCCA-GTCTAA
*
28472578 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATTCCCAGTCTAA
28472604 G
1 G
28472605 ATCAGACCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCCAGTCTAA
Found at i:28472805 original size:25 final size:26
Alignment explanation
Indices: 28472756--28472812 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
28472746 CATGGGTTGA
* *
28472756 CTAAGGCATATGGAGTTCATCCCCAGT
1 CTAA-GCATACGGAGTTCATCCCCAAT
*
28472783 CTAAGCATACGGA-TTCATTCCCAAT
1 CTAAGCATACGGAGTTCATCCCCAAT
28472808 CTAAG
1 CTAAG
28472813 ATCGGACCGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 15 0.56
26 8 0.30
27 4 0.15
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (26 bp):
CTAAGCATACGGAGTTCATCCCCAAT
Found at i:28473604 original size:170 final size:170
Alignment explanation
Indices: 28473295--28473641 Score: 396
Period size: 170 Copynumber: 2.0 Consensus size: 170
28473285 GCATACAAAG
* * * * * *
28473295 GTTCATTCCCAGTCTAAGATTGGATCGGATCACGGGTTGCGGTAGTAGGACCAGCAGCAGGATCG
1 GTTCATTCCCAGTCTAAGATCGGACCGGATCACGGGTTGCGCTAGCAAGACCAGCAGCAGGAACG
* ** * * *
28473360 ACAGCACGCAGGGGGGACCGAACCGATCCTTGACTTGCGCATTCTGCCTTTCTGGTCGATTGAGC
66 ACAGCACGCAGGGGGGACCGAACCAATCCCCGACTTGCGCATTCTACCTTTCTGGCCGACTGAGC
**
28473425 CCTCGCACGCTCGTTTTATAGGTTGGCTTAGGCATACGGA
131 CCTCGCACGCTCGTTCCATAGGTTGGCTTAGGCATACGGA
* *
28473465 GTTCATTCCCAGTCTAAGATCGGACCGGATCGA-GGGTTGCGACT-GCAAGACGAGCAGTAGGAA
1 GTTCATTCCCAGTCTAAGATCGGACCGGATC-ACGGGTTGCG-CTAGCAAGACCAGCAGCAGGAA
* *** * *
28473528 CGACAGCACGTAGGGGGGACCGGGTCAATCCCCGGCTTGCGCATTCTACCTCTTC-GGCCGGCTG
64 CGACAGCACGCAGGGGGGACCGAACCAATCCCCGACTTGCGCATTCTACCT-TTCTGGCCGACTG
* * * *
28473592 AGCGCC-CGCACGCTCGTTCCGTGGGTTGGCTTAGGCATAGGGT
128 AGC-CCTCGCACGCTCGTTCCATAGGTTGGCTTAGGCATACGGA
28473635 GTTCATT
1 GTTCATT
28473642 ACATGTCTGA
Statistics
Matches: 147, Mismatches: 26, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
170 140 0.95
171 7 0.05
ACGTcount: A:0.19, C:0.27, G:0.31, T:0.23
Consensus pattern (170 bp):
GTTCATTCCCAGTCTAAGATCGGACCGGATCACGGGTTGCGCTAGCAAGACCAGCAGCAGGAACG
ACAGCACGCAGGGGGGACCGAACCAATCCCCGACTTGCGCATTCTACCTTTCTGGCCGACTGAGC
CCTCGCACGCTCGTTCCATAGGTTGGCTTAGGCATACGGA
Found at i:28473863 original size:159 final size:157
Alignment explanation
Indices: 28473523--28473972 Score: 472
Period size: 159 Copynumber: 2.8 Consensus size: 157
28473513 GACGAGCAGT
* * * * * *
28473523 AGGAACGACAGCACGTAGGGGGGACCGGGTCAATCCCCGGCTTGCGCATTCTACCTCTTCGGCCG
1 AGGAACGATAGCACGTAGGGGGGACTGGGCCAATCCCCGGCTTGCACATTCTGCCTCTTCGG-CT
* * ** * *
28473588 GCTGAGCGCCCGCACGCTCGTTCCGTGGGTTGGCTTAGGCATAGGGTGTTCATTACATGTCTGAG
65 GCTGAGCGCCCGCACGCTCGTTTCGTGGGTTGGCTTAGGCATACGAAGTTCATTCCATGTCTAAG
* * ** *
28473653 CCCTAGCTGGACCGAGGGTTGTGGCAGC
130 CACTAACTGGACCGAGGGTTGTGAAACC
* * * * * *
28473681 GGGACCGGTAGCACGTAGAGGGGGACTGGGCCAATCCCTGACTTGCACATTATGCCTCTTCGGCT
1 AGGAACGATAGCACGTAG-GGGGGACTGGGCCAATCCCCGGCTTGCACATTCTGCCTCTTCGGCT
* * * * * * *
28473746 AGCTCAGTGCCCGCACACGCGTTTCGTGGGTTGACTTATGCATACGAAGTTCATTCCCTAGTCTA
65 -GCTGAGCGCCCGCACGCTCGTTTCGTGGGTTGGCTTAGGCATACGAAGTTCATTCCAT-GTCTA
* *
28473811 AG-ATTGAACTGGACTGAGGGTTGTGAAACC
128 AGCACT-AACTGGACCGAGGGTTGTGAAACC
* ** *
28473841 AGGATCGATAGCACGTAGGGGGGACTGGGCTGATCCCCGGCTTGCACATTCTGCCTCTCCGGTCT
1 AGGAACGATAGCACGTAGGGGGGACTGGGCCAATCCCCGGCTTGCACATTCTGCCTCTTCGG-CT
* * *
28473906 GTTGAGCGCCTGCACGCTCGTTTCGTGGGTTGGCTTAGGCATACGGAA-TTCATTCCATGTTTAA
65 GCTGAGCGCCCGCACGCTCGTTTCGTGGGTTGGCTTAGGCATAC-GAAGTTCATTCCATGTCTAA
28473970 GCA
129 GCA
28473973 TACGGAGTTC
Statistics
Matches: 234, Mismatches: 51, Indels: 13
0.79 0.17 0.04
Matches are distributed among these distances:
158 21 0.09
159 168 0.72
160 45 0.19
ACGTcount: A:0.18, C:0.26, G:0.31, T:0.24
Consensus pattern (157 bp):
AGGAACGATAGCACGTAGGGGGGACTGGGCCAATCCCCGGCTTGCACATTCTGCCTCTTCGGCTG
CTGAGCGCCCGCACGCTCGTTTCGTGGGTTGGCTTAGGCATACGAAGTTCATTCCATGTCTAAGC
ACTAACTGGACCGAGGGTTGTGAAACC
Found at i:28474713 original size:26 final size:26
Alignment explanation
Indices: 28474667--28474718 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
28474657 TTGACTTAGC
*
28474667 CATACGGAGTTCATCTGTAGTCTAAG
1 CATACGGAGTTCATCTCTAGTCTAAG
*
28474693 CATACGTAGTTCAT-TCCTAGTCTAAG
1 CATACGGAGTTCATCT-CTAGTCTAAG
28474719 ATCAGACCAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 1 0.04
26 22 0.96
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (26 bp):
CATACGGAGTTCATCTCTAGTCTAAG
Found at i:28475197 original size:158 final size:156
Alignment explanation
Indices: 28474692--28475199 Score: 459
Period size: 158 Copynumber: 3.2 Consensus size: 156
28474682 TGTAGTCTAA
* * * *
28474692 GCATACGTAGTTCATTCC-TAGTCTAAGATCAGACCAGACCGAGGGTTGCGACAACAGGATCAGT
1 GCATACGGAGTTCATTCCAT-GTCTAAGATC-GACCAGACCGAGGGTTGCGGCAGCA-GATCAGC
* * * * * *
28474756 AGCACGCAGGGGGGACCGAGAACAATCCCTGGCTTGCA-CCATTCTGCCTCTCCGGGCAGTTGAG
63 AGCACGTAGGGGGGACCGAG-ACGATCCCTGGCTT--ATGCATTCTGCCTCTCCGGCCGGCTGAG
* * * *
28474820 CGCCCGCCACCACCCTTTTCATGGGTTGGCTTAG
125 CGCCCG-CA-CGCTCGTTTCGTGGGTTGGCTTAG
* ** * * * *
28474854 GCATAGGGAGTTCATTCCATGTCTAAGCCCCAGCCAGACCGCAAGGGTTGTGGCAGCGAGACCGG
1 GCATACGGAGTTCATTCCATGTCTAAGATCGA-CCAGACCG--AGGGTTGCGGCAGC-AGATCAG
* * * * * * *
28474919 CAACACGTAGAGGGGGATCGGGCCGATCCCTGGCTT-TCGCATTATGCCTCTCTGGCCGGCTCAG
62 CAGCACGTAG-GGGGGACCGAGACGATCCCTGGCTTAT-GCATTCTGCCTCTCCGGCCGGCTGAG
* *
28474983 CGCCCGCACGCTCGTTTTGTGGGTTGACTTAG
125 CGCCCGCACGCTCGTTTCGTGGGTTGGCTTAG
** *
28475015 GCATACAAAGTTCATTCCCA-GTCTACA-ATCGACCAGACCGAGGGTTGCGGCAGCATGATCAAC
1 GCATACGGAGTTCATT-CCATGTCTA-AGATCGACCAGACCGAGGGTTGCGGCAGCA-GATCAGC
* ** * **
28475078 AGCACGTAAGGGGGGGCCGAGTTGATCCCTGGCTTATGCATTCTACCTCTCCGGTTGGCTGAGCG
63 AGCACGT-AGGGGGGACCGAGACGATCCCTGGCTTATGCATTCTGCCTCTCCGGCCGGCTGAGCG
*
28475143 CCCGCACGCTCGTTTCGTTGGTTGGCTTAG
127 CCCGCACGCTCGTTTCGTGGGTTGGCTTAG
28475173 GCATACGGAGTTCATTCCATGTCTAAG
1 GCATACGGAGTTCATTCCATGTCTAAG
28475200 CATACGGAGT
Statistics
Matches: 274, Mismatches: 57, Indels: 34
0.75 0.16 0.09
Matches are distributed among these distances:
157 5 0.02
158 111 0.41
159 3 0.01
160 8 0.03
161 39 0.14
162 38 0.14
163 26 0.09
164 34 0.12
165 10 0.04
ACGTcount: A:0.20, C:0.29, G:0.29, T:0.23
Consensus pattern (156 bp):
GCATACGGAGTTCATTCCATGTCTAAGATCGACCAGACCGAGGGTTGCGGCAGCAGATCAGCAGC
ACGTAGGGGGGACCGAGACGATCCCTGGCTTATGCATTCTGCCTCTCCGGCCGGCTGAGCGCCCG
CACGCTCGTTTCGTGGGTTGGCTTAG
Found at i:28475209 original size:26 final size:26
Alignment explanation
Indices: 28475173--28475225 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28475163 GTTGGCTTAG
*
28475173 GCATACGGAGTTCATT-CCATGTCTAA
1 GCATACGGAGTTAATTCCCA-GTCTAA
28475199 GCATACGGAGTTAATTCCCAGTCTAA
1 GCATACGGAGTTAATTCCCAGTCTAA
28475225 G
1 G
28475226 GTCAGACCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (26 bp):
GCATACGGAGTTAATTCCCAGTCTAA
Found at i:28475591 original size:26 final size:26
Alignment explanation
Indices: 28475541--28475593 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28475531 GTTGGCTTAG
*
28475541 GCATACGGAGTTCATTCCATGTCTAA
1 GCATACGGAGTTCATTCCATATCTAA
28475567 GCATACGGAGTTCATTCCCA-ATCTAA
1 GCATACGGAGTTCATT-CCATATCTAA
28475593 G
1 G
28475594 ATCAGACCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCATATCTAA
Found at i:28475767 original size:26 final size:26
Alignment explanation
Indices: 28475731--28475787 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
28475721 TTAGGATACA
*
28475731 GAGTTTATTCCATGTCTAAGCATTTG
1 GAGTTTATTCCATGTCTAAGCATTCG
28475757 GAGTTTATTCCATGTCTAAGCATTCG
1 GAGTTTATTCCATGTCTAAGCATTCG
28475783 GAGTT
1 GAGTT
28475788 CGTTCCCAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (26 bp):
GAGTTTATTCCATGTCTAAGCATTCG
Found at i:28475793 original size:26 final size:26
Alignment explanation
Indices: 28475731--28475802 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 26
28475721 TTAGGATACA
* *
28475731 GAGTTTATTCCATGTCTAAGCATTTG
1 GAGTTCATTCCATGTCTAAGCATTCG
*
28475757 GAGTTTATTCCATGTCTAAGCATTCG
1 GAGTTCATTCCATGTCTAAGCATTCG
*
28475783 GAGTTCGTTCCCA-GTCTAAG
1 GAGTTCATT-CCATGTCTAAG
28475803 ATCGAACCGG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
26 39 0.93
27 3 0.07
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (26 bp):
GAGTTCATTCCATGTCTAAGCATTCG
Found at i:28476494 original size:26 final size:26
Alignment explanation
Indices: 28476458--28476510 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28476448 GTTGACTTAG
28476458 GCATACGGAGTTCA-TCCCTAGTCTAA
1 GCATACGGAGTTCATTCCC-AGTCTAA
*
28476484 GCATATGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
28476510 G
1 G
28476511 ATCGAACCGG
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:0.25, G:0.21, T:0.28
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:28477985 original size:158 final size:159
Alignment explanation
Indices: 28477598--28478010 Score: 447
Period size: 159 Copynumber: 2.6 Consensus size: 159
28477588 ACCCGTTCGA
* * * *
28477598 TCCCTGGCTTACGCATCCTGCCTCTCTGGTCGGATGAGCGCCCGCACGCTCGTTTCGTGGGTTGG
1 TCCCCGGCTTACGCATTCTGCCTCTCAGGTCGGATGAGCGCCCGCACGCTTGTTTCGTGGGTTGG
* * * * * ***
28477663 CTTAGGCATATGGAGTTCATTCCATGTCTAAGCCCCAGCCGGATCGAGGGTTGTGGCAGTGGGAC
66 CTTAGGCATACGGAGTTAATTCCATGTCTAAGCACCAGCCAGATCGAGGGTTGCGGCAGCAAGAC
* *
28477728 CGGCAGCACGTAGAGGGGGATCGGGTCGC
131 CGACAGAACGTAGAGGGGGATCGGGTCGC
* ** * * * * * * * * *
28477757 TCCCCGACTTGTGCATTATGCCTCTCAGGCCAGCTCAGCGCTCGTACGCTTGTTTCGTGAGTTGA
1 TCCCCGGCTTACGCATTCTGCCTCTCAGGTCGGATGAGCGCCCGCACGCTTGTTTCGTGGGTTGG
* * * *
28477822 TTTAGGCATACGGAGTTGATTCC-TAGTCTAAG-ATCAGACCAGA-CTGAGGGTTGCGGTAGCAA
66 CTTAGGCATACGGAGTTAATTCCAT-GTCTAAGCACCAG-CCAGATC-GAGGGTTGCGGCAGCAA
* *
28477884 GATCGACAGAACGTAG-GGGGGATCGGGTCGG
128 GACCGACAGAACGTAGAGGGGGATCGGGTCGC
* * * *
28477915 TCCCCGGCTTACGCATTCTGCCTCTCCGGTCGGTTGAGCACCCGCGCGCTTGTTTCGTGGGTTGG
1 TCCCCGGCTTACGCATTCTGCCTCTCAGGTCGGATGAGCGCCCGCACGCTTGTTTCGTGGGTTGG
28477980 CTTAGGCATACGGAGTTAATTCCATGTCTAA
66 CTTAGGCATACGGAGTTAATTCCATGTCTAA
28478011 CCATACAGAG
Statistics
Matches: 202, Mismatches: 48, Indels: 9
0.78 0.19 0.03
Matches are distributed among these distances:
158 96 0.48
159 106 0.52
ACGTcount: A:0.17, C:0.26, G:0.31, T:0.26
Consensus pattern (159 bp):
TCCCCGGCTTACGCATTCTGCCTCTCAGGTCGGATGAGCGCCCGCACGCTTGTTTCGTGGGTTGG
CTTAGGCATACGGAGTTAATTCCATGTCTAAGCACCAGCCAGATCGAGGGTTGCGGCAGCAAGAC
CGACAGAACGTAGAGGGGGATCGGGTCGC
Found at i:28478384 original size:26 final size:26
Alignment explanation
Indices: 28478354--28478403 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
28478344 TTAACTTAGG
*
28478354 CATACGGAGTTCATCCCCAGTCTAGC
1 CATACGAAGTTCATCCCCAGTCTAGC
* *
28478380 CATACGAAGTTCATTCCCATTCTA
1 CATACGAAGTTCATCCCCAGTCTA
28478404 AGGTCAGACC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.28
Consensus pattern (26 bp):
CATACGAAGTTCATCCCCAGTCTAGC
Found at i:28478684 original size:159 final size:158
Alignment explanation
Indices: 28478452--28478880 Score: 391
Period size: 159 Copynumber: 2.7 Consensus size: 158
28478442 AAGCACACAG
* * * * * * * ** * * *
28478452 GGGGGACCAGGCCGATCCCCAGCTTACGTAATCTGCCTCTCCGGTCGACTGAGCGCCCGCACACC
1 GGGGGACCGGGCGGATCCCCACCTTGCGCAATATGCCTCTCAGACCGGCTCAGCGCCCGCACACT
* * * *
28478517 CGTTTCGTGGGTTGGCTTAGGCATAGGGGGTTCATTCCATGTCTAAGCCCCAG-TCA-GACTAAG
66 CGTTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCACCAGAT-AGGACCAAG
* ** ** *
28478580 GATTGTGGTAGCGGGACCGGTAGCACGCA
130 GATTGTGGCAGCAAGACCAATAACACGCA
*** * * *
28478609 GAGGAGGACCGGGCGGATCCCTGGCTTGGGCATTATGCCTCTTCAG-CCGGCTCAGTGCCCGCAC
1 G-GG-GGACCGGGCGGATCCCCACCTTGCGCAATATGCCTC-TCAGACCGGCTCAGCGCCCGCAC
* * * * *
28478673 ACTCGTTTCGTGGGTTGACTTATGTATACGGAGTTCATTCCCA-GTCTAAG-ATCGGATAGGACC
63 ACTCGTTTCGTGGGTTGGCTTAGGCATACGGAGTTCATT-CCATGTCTAAGCACCAGATAGGACC
* * * *
28478736 GAGGGTTGTGGCAGCAAGATCAATAACACGTA
127 AAGGATTGTGGCAGCAAGACCAATAACACGCA
* * * *
28478768 GGGGGACCGGGCTGATCCCCACCTTGCGCAATCTGCCTCTCTGACCGGCTGAGCGCCCGCACACT
1 GGGGGACCGGGCGGATCCCCACCTTGCGCAATATGCCTCTCAGACCGGCTCAGCGCCCGCACACT
**
28478833 CGTTTCGTCTGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGC
66 CGTTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGC
28478881 GTACGGAGTT
Statistics
Matches: 214, Mismatches: 49, Indels: 17
0.76 0.17 0.06
Matches are distributed among these distances:
156 6 0.03
157 87 0.41
158 7 0.03
159 108 0.50
160 6 0.03
ACGTcount: A:0.19, C:0.28, G:0.30, T:0.23
Consensus pattern (158 bp):
GGGGGACCGGGCGGATCCCCACCTTGCGCAATATGCCTCTCAGACCGGCTCAGCGCCCGCACACT
CGTTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCACCAGATAGGACCAAGG
ATTGTGGCAGCAAGACCAATAACACGCA
Found at i:28478895 original size:26 final size:26
Alignment explanation
Indices: 28478856--28478905 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
28478846 GGCTTAGGCA
*
28478856 TACGGAGTTCATT-CCATGTCTAAGCG
1 TACGGAGTTAATTCCCA-GTCTAAGCG
28478882 TACGGAGTTAATTCCCAGTCTAAG
1 TACGGAGTTAATTCCCAGTCTAAG
28478906 ATTTTGAGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 19 0.86
27 3 0.14
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (26 bp):
TACGGAGTTAATTCCCAGTCTAAGCG
Found at i:28479614 original size:26 final size:26
Alignment explanation
Indices: 28479574--28479626 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28479564 GTTGACTTAG
*
28479574 GCATACAGAGTTCATCCCCGGTCTAA
1 GCATACAGAGCTCATCCCCGGTCTAA
* *
28479600 GCATACAGAGCTCATTCCCTGTCTAA
1 GCATACAGAGCTCATCCCCGGTCTAA
28479626 G
1 G
28479627 ATCGAACCGG
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:0.30, G:0.19, T:0.25
Consensus pattern (26 bp):
GCATACAGAGCTCATCCCCGGTCTAA
Found at i:28479915 original size:158 final size:158
Alignment explanation
Indices: 28479654--28480101 Score: 481
Period size: 158 Copynumber: 2.8 Consensus size: 158
28479644 GTTGCGGTAG
* * ** *
28479654 TAGGATCGACAGCACACAAGGGTGATCGGGCCGATCCCCGGCTTGTGCATTCTGCCTCTCCGACC
1 TAGGACCGACAGCACACAAGGGGGATCGGGCCGATCCCCGGCTTACGCATTCTGCCTCTACGACC
* * * * * *
28479719 GGTTGAGCGCCCGCACACCCATTTCGTGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAA
66 GGCTGAGCGCCTGCACGCTCATTTTGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAA
** * **
28479784 GCCCAG-TCGGATTGAGGGTTGTGGTAGC
131 GCCCAGATCGGACCGAGGGTTGCGACA-C
* * * * *
28479812 -GGGACCG-CAGCACATAAAGGGGGATCGGGCCGATCCCCAGCTTACGCATTATGCCTCTACGGC
1 TAGGACCGACAGCACA-CAAGGGGGATCGGGCCGATCCCCGGCTTACGCATTCTGCCTCTACGAC
* * *
28479875 CGTGCTCAGCGCCTGCACGCTCATTTTGTGGGTTGACTTAGGCATACGAAGTTCATTCCCA-GTC
65 CG-GCTGAGCGCCTGCACGCTCATTTTGTGGGTTGGCTTAGGCATACGGAGTTCATT-CCATGTC
** *
28479939 TAAGATCGGATCGGACCGAGGGTTGCGACAC
128 TAAGCCCAGATCGGACCGAGGGTTGCGACAC
* * * * * * * * * *
28479970 TAGGATCGATAGCACACAAGGGGGACCGGGCCGATCCCTGGATTTCTCATTCTGCCTTTTCGACT
1 TAGGACCGACAGCACACAAGGGGGATCGGGCCGATCCCCGGCTTACGCATTCTGCCTCTACGACC
* *
28480035 GGCTGAGCACCTGCACGCTCGTTTTGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAA
66 GGCTGAGCGCCTGCACGCTCATTTTGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAA
28480100 GC
131 GC
28480102 ATACGGAGTT
Statistics
Matches: 235, Mismatches: 48, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
156 7 0.03
157 50 0.21
158 111 0.47
159 61 0.26
160 6 0.03
ACGTcount: A:0.19, C:0.27, G:0.29, T:0.24
Consensus pattern (158 bp):
TAGGACCGACAGCACACAAGGGGGATCGGGCCGATCCCCGGCTTACGCATTCTGCCTCTACGACC
GGCTGAGCGCCTGCACGCTCATTTTGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAA
GCCCAGATCGGACCGAGGGTTGCGACAC
Found at i:28480110 original size:26 final size:26
Alignment explanation
Indices: 28480074--28480126 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
28480064 GTTGGCTTAG
28480074 GCATACGGAGTTCATT-CCATGTCTAA
1 GCATACGGAGTTCATTCCCA-GTCTAA
28480100 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
28480126 G
1 G
28480127 ATCGAATCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 23 0.88
27 3 0.12
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:28481906 original size:159 final size:158
Alignment explanation
Indices: 28481579--28482044 Score: 393
Period size: 159 Copynumber: 2.9 Consensus size: 158
28481569 ATCGGATCAG
* * * * * * * *
28481579 ACCGAGGGTTACGGTAGCAAGATCGATAGCACGCAG-GCGGGACTGGGCCGATCCTCGGCTTGCG
1 ACCGAGGGTTGCAGCAGCAGGACCGACAGCACGCAGAG-GGGACCGAGCCGATCCTCGGCTTGCG
* ** * * ** * *
28481643 CATTCTGCCTTTCCGATCGGTTGAGCGCCCGCACGCCCGTTTTGTGGGTTGGCTTTGGCATAGGG
65 CATTCTGCCTCTCCGGCCGGCTGAGCGCCCGCACGCTCGTTTCATGGGTTGGCTTAGGCATACGG
* * *
28481708 AGTTCATTCCATGTCGAAGCCCCAGGCAG
130 AGTTCATTCCATGTCGAAGCACCAGCCAA
* ** ** * *
28481737 ACCGATGGTTGTGGCAGTGGGACCGGCAGCACGCAGAGAGGGACCGAGCCAATCCTCGGCTTGCG
1 ACCGAGGGTTGCAGCAGCAGGACCGACAGCACGCAGAG-GGGACCGAGCCGATCCTCGGCTTGCG
* * * *
28481802 CATTATGCCTCTCCGGCCGGCTCAACGCCCGCACGCTTGTTTCATGGGTTGGCTTAGGCATACGG
65 CATTCTGCCTCTCCGGCCGGCTGAGCGCCCGCACGCTCGTTTCATGGGTTGGCTTAGGCATACGG
* *
28481867 AGTTCATTCCCA-GTCTAAG-ATCAGACCAA
130 AGTTCATT-CCATGTCGAAGCACCAG-CCAA
** * * * * * * * *
28481896 ATTGAGGGTTGCAGTAGCAGGATCGACAACATGTA-AGGGGATC-AGGCCGATCCCCGGCTTGTG
1 ACCGAGGGTTGCAGCAGCAGGACCGACAGCACGCAGAGGGGACCGA-GCCGATCCTCGGCTTGCG
* * * *
28481959 CAATCTGCCTCTTCGGCCTGCTGAGCGCCTGCACGCTCGTTTCATGGGTTGGCTTAGGCATACGG
65 CATTCTGCCTCTCCGGCCGGCTGAGCGCCCGCACGCTCGTTTCATGGGTTGGCTTAGGCATACGG
* * * *
28482024 AGTGCTTTCCTTGTCTAAGCA
130 AGTTCATTCCATGTCGAAGCA
28482045 TACCAAGTTC
Statistics
Matches: 242, Mismatches: 60, Indels: 12
0.77 0.19 0.04
Matches are distributed among these distances:
156 3 0.01
157 90 0.37
158 32 0.13
159 114 0.47
160 3 0.01
ACGTcount: A:0.18, C:0.28, G:0.31, T:0.23
Consensus pattern (158 bp):
ACCGAGGGTTGCAGCAGCAGGACCGACAGCACGCAGAGGGGACCGAGCCGATCCTCGGCTTGCGC
ATTCTGCCTCTCCGGCCGGCTGAGCGCCCGCACGCTCGTTTCATGGGTTGGCTTAGGCATACGGA
GTTCATTCCATGTCGAAGCACCAGCCAA
Found at i:28482426 original size:26 final size:26
Alignment explanation
Indices: 28482396--28482448 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28482386 GTTGTCTTAG
*
28482396 GCATACAGAGTTTATCCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
* *
28482422 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
28482448 G
1 G
28482449 ATTGGACCAG
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:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (26 bp):
GCATACAGAGTTCATCCCCAGTCTAA
Found at i:28483632 original size:26 final size:26
Alignment explanation
Indices: 28483602--28483654 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
28483592 GTTGGCTTAG
28483602 GCATACGGAGTTCATT-CCATGTCTAA
1 GCATACGGAGTTCATTCCCA-GTCTAA
28483628 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
28483654 G
1 G
28483655 ATTTTGAGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 23 0.88
27 3 0.12
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:28488118 original size:26 final size:26
Alignment explanation
Indices: 28488082--28488134 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28488072 GTTGACTTAG
28488082 GCATACAGAGTTCA-TCCACAGTCTAA
1 GCATACAGAGTTCATTCC-CAGTCTAA
*
28488108 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATTCCCAGTCTAA
28488134 G
1 G
28488135 ATCAGACCAG
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:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCCAGTCTAA
Found at i:28488459 original size:26 final size:26
Alignment explanation
Indices: 28488410--28488462 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28488400 GTTAGCTTAG
* *
28488410 GCATACGGAGTTCATTCTATGTCTAA
1 GCATACGGACTTCATTCCATGTCTAA
28488436 GCATACGGACTTCATTCCCA-GTCTAA
1 GCATACGGACTTCATT-CCATGTCTAA
28488462 G
1 G
28488463 ATCGAATCAG
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:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (26 bp):
GCATACGGACTTCATTCCATGTCTAA
Found at i:28489325 original size:670 final size:673
Alignment explanation
Indices: 28488253--28489465 Score: 1523
Period size: 670 Copynumber: 1.8 Consensus size: 673
28488243 TGACTTAGGC
* *
28488253 ATACGGAGTTCATTCCCAGTCTAAGATCAGACTAGACCGAGGGTTACTGCAGCAGGATCGAGAGC
1 ATACGGAGTTCATTCCCAGTCTAAGATCAGACTAGACCGAGGGTTACTGCAGCAGGATCGACAAC
* * * * *
28488318 ACGCAGGGGGGGATCGAGGCGATCCCCGACTTACGTATTCTACCTCTCTGGTCGGCTGAGCGCCC
66 ACGCAGGGGGGGACCGAGCCGATCCCCGACTTACGCATTCTACCTCTCTGCTCGACTGAGCGCCC
* * * * *
28488383 GTACGCTCGTTTTGTGGGTTAGCTTAGGCATACGGAGTTCATTCTATGTCTAAGCATACGGACTT
131 GCACGCTCATTTTGTAGGTTAGCTTAGGCATACAGAGTTCATTCCATGTCTAAGCATACGGACTT
* * * * **
28488448 CATTCCCAGTCTAAGATCGAATCAGACCGAGGGTTGTGGCAGCAGGACCAACAGTAGGATCGGTA
196 CATTCCCAGTCTAAGATCGAACCAGACCAAGGGTTGTGACAGCAGGACCAACAGCAGGATCGACA
** * * * * * * *
28488513 GCATGCAGGGGTGGATTGAGCCGATCCCCGGCTTGTGCATTCTGCCTCTCCGATCGGCTGAGCAC
261 GCACACAGGGGTGGACTGAGCCGATCCCCGACTTGCGCATTCTACCTATCCGACCGACTGAGCAC
* * ***
28488578 TCGCACACTCATTTCGTGGGTTAACATAGGCATAGGGAGTTCATTCCATGTCTACACCACAGTTG
326 CCGCACACCCATTTCGTGGGTTAACATAGGCATAGGGAGTTCATTCCATGTCTACACCACAGCCA
* * *
28488643 GATCGAGGGTTGTGGCAGC-AGGA-TCGATAGCACACAGAGGGGGAGCGGGCCGATCCTCGGCTT
391 GATCGAGGGTTGTGGCAACGA-GACT-GATAGCACACAGAGGGGGAGCGGGCCGAACCCCGGCTT
* * * * * *
28488706 GCGCATTCTACCTCTCCGGTCGGTTGAGTGCCC-ACACGTTCATTTCATGGGTTGGCTTAGGCTT
454 GCGCACTCTACCTCTCAGGTCGGCTGAGCGCCCGACAC--CCATTTCATGGGTTGGCTTAGGCAT
28488770 ACAGAGTTCATTCCATGTCTAAGCCCGTAGAGGAAGATCGGGCTGATCCCCGGCTTGTGCATTAT
517 ACAGAGTTCATTCCATGTCTAAGCCCGTAGAGGAAGATCGGGCTGATCCCCGGCTTGTGCATTAT
28488835 GCCTCTTCGATCGGCCTCTCCGATCGACTGAGCGCCCACTCGCTCATTTTATGGATTGACTTAGG
582 GCCTCTTCGATCGGCCTCTCCGATCGACTGAGCGCCCACTCGCTCATTTTATGGATTGACTTAGG
28488900 CATACGGAGTTCAACCCTAGTCTAAGT
647 CATACGGAGTTCAACCCTAGTCTAAGT
* * *
28488927 ATACGGAGTTCATT-CCAGTCTAAGATCAGACTAGATCGAGGGTTGC-GACAGTAGGATCGACAA
1 ATACGGAGTTCATTCCCAGTCTAAGATCAGACTAGACCGAGGGTTACTG-CAGCAGGATCGACAA
* * *
28488990 CACGTA-GGGGGGACCGAGCCGATCCCTGGCTTACGCATTCTACCTCTCTGACT-GACTGAGCG-
65 CACGCAGGGGGGGACCGAGCCGATCCCCGACTTACGCATTCTACCTCTCTG-CTCGACTGAGCGC
* * ** *
28489052 CCGCACGCTCATTTTGTAGGTTGGCTTAGGCATACAGAGTTCATTCCATTTCTAAGTGTACGGAG
129 CCGCACGCTCATTTTGTAGGTTAGCTTAGGCATACAGAGTTCATTCCATGTCTAAGCATACGGAC
* * * * *
28489117 TTCATTCCCAGTCTAAGATC-AGACCGGACCAATGGTTGTGACAGTAGGACTAGCAGCAGGATCG
194 TTCATTCCCAGTCTAAGATCGA-ACCAGACCAAGGGTTGTGACAGCAGGACCAACAGCAGGATCG
* * *
28489181 ACAGCACACAGGGG-GGACTGGGCCGATCCTCGACTTGCGCATTCTACCTATCCGGCCGACTGAG
258 ACAGCACACAGGGGTGGACTGAGCCGATCCCCGACTTGCGCATTCTACCTATCCGACCGACTGAG
* * ** * ** * * * *
28489245 CGCCCGTATGCCCGTTTCGTGGGTTGGCTTAGGCATAGGGATTTCATTCCATGTCTA-AGCCCCG
323 CACCCGCACACCCATTTCGTGGGTTAACATAGGCATAGGGAGTTCATTCCATGTCTACA-CCACA
* * * *
28489309 GCCAGA-CTGAGGGTTGTGGCAACGAGACTGGTAGCACGCAGAGGGGGATCGGGCTGAACCCCGG
387 GCCAGATC-GAGGGTTGTGGCAACGAGACTGATAGCACACAGAGGGGGAGCGGGCCGAACCCCGG
** * *
28489373 CTTGCGCACTCTGTCTCTCAGGTCGGCTGAGCGCCCGTTCACCCGTTTCATGGGTTGGCTTAGGC
451 CTTGCGCACTCTACCTCTCAGGTCGGCTGAGCGCCCG-ACACCCATTTCATGGGTTGGCTTAGGC
**
28489438 ATAGGGAGTTCATTCCATGTCTAAGCCC
515 ATACAGAGTTCATTCCATGTCTAAGCCC
28489466 CAACCGGACC
Statistics
Matches: 449, Mismatches: 81, Indels: 22
0.81 0.15 0.04
Matches are distributed among these distances:
669 2 0.00
670 214 0.48
671 120 0.27
672 51 0.11
673 48 0.11
674 14 0.03
ACGTcount: A:0.21, C:0.26, G:0.29, T:0.24
Consensus pattern (673 bp):
ATACGGAGTTCATTCCCAGTCTAAGATCAGACTAGACCGAGGGTTACTGCAGCAGGATCGACAAC
ACGCAGGGGGGGACCGAGCCGATCCCCGACTTACGCATTCTACCTCTCTGCTCGACTGAGCGCCC
GCACGCTCATTTTGTAGGTTAGCTTAGGCATACAGAGTTCATTCCATGTCTAAGCATACGGACTT
CATTCCCAGTCTAAGATCGAACCAGACCAAGGGTTGTGACAGCAGGACCAACAGCAGGATCGACA
GCACACAGGGGTGGACTGAGCCGATCCCCGACTTGCGCATTCTACCTATCCGACCGACTGAGCAC
CCGCACACCCATTTCGTGGGTTAACATAGGCATAGGGAGTTCATTCCATGTCTACACCACAGCCA
GATCGAGGGTTGTGGCAACGAGACTGATAGCACACAGAGGGGGAGCGGGCCGAACCCCGGCTTGC
GCACTCTACCTCTCAGGTCGGCTGAGCGCCCGACACCCATTTCATGGGTTGGCTTAGGCATACAG
AGTTCATTCCATGTCTAAGCCCGTAGAGGAAGATCGGGCTGATCCCCGGCTTGTGCATTATGCCT
CTTCGATCGGCCTCTCCGATCGACTGAGCGCCCACTCGCTCATTTTATGGATTGACTTAGGCATA
CGGAGTTCAACCCTAGTCTAAGT
Found at i:28489532 original size:159 final size:159
Alignment explanation
Indices: 28489240--28489539 Score: 399
Period size: 159 Copynumber: 1.9 Consensus size: 159
28489230 ATCCGGCCGA
* * *
28489240 CTGAGCGCCCGTATGCCCGTTTCGTGGGTTGGCTTAGGCATAGGGATTTCATTCCATGTCTAAGC
1 CTGAGCGCCCGTATACCCGTTTCATGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGC
** * * * ** * *
28489305 CCCGGCCAGACTGAGGGTTGTGGCAACGAGACTGGTAGCACGCAGAGGGGGATCGGGCTGAACCC
66 CCCAACCAGACCGAAGGTTGTGACAACGAGACTGACAGCACGCAGAGGCGGATCGGGCTCAACCC
*
28489370 CGGCTTGCGCACTCTGTCTCTCAGGTCGG
131 CGGCTTACGCACTCTGTCTCTCAGGTCGG
28489399 CTGAGCGCCCGT-TCACCCGTTTCATGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAG
1 CTGAGCGCCCGTAT-ACCCGTTTCATGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAG
* * *
28489463 CCCCAACCGGACCGAAGGTTGTGATAGCGAGA-TCGACAGCACGCAGAGGCGGATCGGGC-CAAT
65 CCCCAACCAGACCGAAGGTTGTGACAACGAGACT-GACAGCACGCAGAGGCGGATCGGGCTCAA-
*
28489526 CTCCGGCTTACGCA
128 CCCCGGCTTACGCA
28489540 TTATGACTCT
Statistics
Matches: 121, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
158 4 0.03
159 117 0.97
ACGTcount: A:0.19, C:0.28, G:0.32, T:0.22
Consensus pattern (159 bp):
CTGAGCGCCCGTATACCCGTTTCATGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGC
CCCAACCAGACCGAAGGTTGTGACAACGAGACTGACAGCACGCAGAGGCGGATCGGGCTCAACCC
CGGCTTACGCACTCTGTCTCTCAGGTCGG
Found at i:28489942 original size:26 final size:26
Alignment explanation
Indices: 28489891--28489943 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
28489881 GTTGACTTAG
*
28489891 GCATACAGAGTTCATCCCCAATCTAA
1 GCATACAGAGTTCATCCCCAACCTAA
* * *
28489917 GCATACGGAGTTCATTCCCAGCCTAA
1 GCATACAGAGTTCATCCCCAACCTAA
28489943 G
1 G
28489944 ATCAGACCAG
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:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (26 bp):
GCATACAGAGTTCATCCCCAACCTAA
Found at i:28491174 original size:25 final size:26
Alignment explanation
Indices: 28491145--28491196 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
28491135 GTTGACTTAG
28491145 GCATACGGAGTTCATCCCCA-TCTAA
1 GCATACGGAGTTCATCCCCAGTCTAA
* *
28491170 GCATATGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATCCCCAGTCTAA
28491196 G
1 G
28491197 ATCGGATCAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 18 0.75
26 6 0.25
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (26 bp):
GCATACGGAGTTCATCCCCAGTCTAA
Found at i:28491682 original size:26 final size:25
Alignment explanation
Indices: 28491645--28491696 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
28491635 GTTGGCTTAG
*
28491645 GCATACGAAGTTCATTCCATGTCTAA
1 GCATACGAAGTTAATTCCA-GTCTAA
*
28491671 GCATAC-AGAGTTAATTCTAGTCTAA
1 GCATACGA-AGTTAATTCCAGTCTAA
28491696 G
1 G
28491697 ATTGGACCAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (25 bp):
GCATACGAAGTTAATTCCAGTCTAA
Found at i:28492555 original size:539 final size:537
Alignment explanation
Indices: 28491468--28492585 Score: 1176
Period size: 539 Copynumber: 2.1 Consensus size: 537
28491458 CCGCGCGCTA
* * * *
28491468 ATTTAGTGGGTTGACTAAGGCATACGGAGTTCATTCCCAGTCTAAGATTGGACCAGACCGAGGGT
1 ATTTCGTGGGTTGACTTAGGCATACGGAGTTCATTCCCAGTCCAAGATCGGACCAGACCGAGGGT
* * * * * *
28491533 TGCGGCAGTAAGATCGACAGCACACAGGGGGGACCGGGTCAGTCCCTAGCTTATGCATTCTGGCT
66 TGCGGCAGTAAGATCGACAGCACACAGGGGGGACCGAGCCAGCCCCGAGCTTACGCATTCTGCCT
* * *
28491598 CTTCGGCTGGCTGAGCACCCATACGGTCATTTCGTGGGTTGGCTTAGGCATACGAAGTTCATTCC
131 CTTCGGCTGGCTGAGCACCCACACGCTCATTTCGTGGGTTGGCTTAGGCATAAGAAGTTCATTCC
* * * * * *
28491663 ATGTCTAAGCATACAGAGTTAATTCTAGTCTAAGATTGGACCAGACCGAGGTTTGCGATAGCAGG
196 ATGTCTAAGCATACAGAGTTAATTCCAGCCAAAGATCGAACCAGACCGAGGGTTGCGATAGCAGG
* * * * **
28491728 ACCAGGAGCAGGATCAACAGCTCACAGGGGTGACTGAGCCAATCCCTGGCTTACGCATTCTGCCT
261 ACCAAGAGCAGGATCAACAGCACACAGGGGGGACCGAGCCAATCCCCAGCTTACGCATTCTGCCT
* * * * * *
28491793 CTCCGACCGGTTGAGCCCCCGCACGCTCGTTTAATGGGTTGGCTTAGGCATACGGAGTTCATTCC
326 CTCCGACCGGTTGAACACCCGCACACTCATTTAATGGGTTAGCTTAGGCATACAGAGTTCATTCC
* * ** *
28491858 ATGTGTAAGCACCAGTCAGACCGACGGTTGTCGCAGCAAGAGCGGCAACGGGATCGGTAGGACGC
391 ATGTCTAAGCACCAGTCAGACCGACGGTTGTCGCAGCAAGAGCGGCAACGAGATCGACAGCACGC
* * * * * * *
28491923 AGAGAGGGACCAGGCTGATCCTCGACTTGTGCATTATGCCTCTTCGATCGACCTCTCCGGTCGGC
456 AGAGAGGGACCAGGCTGATCCCCGACTTGCGCATTATGCCTCTCCAACCGACCTCTCCGCTCGAC
*
28491988 CAAGCACCCACACTCTC
521 CAAGCACCCACACCCTC
*
28492005 ATTTCGTGGGTTGACTTAGGCATACGGAGTTCATTCCCAGTCCAAGATCGGACC-GAATCGAGGG
1 ATTTCGTGGGTTGACTTAGGCATACGGAGTTCATTCCCAGTCCAAGATCGGACCAG-ACCGAGGG
* * * * *
28492069 TTGTGGTAGTAGGATCGACAGCACACAATGGGGGACCGAGCCGGCCCCCGA-CTTACGCATTCTG
65 TTGCGGCAGTAAGATCGACAGCACAC-AGGGGGGACCGAGCCAG-CCCCGAGCTTACGCATTCTG
* ** *
28492133 CCTCTTTGG-TCGGCTGAGTGCCCGCACGCTCATTTCGTGGGTTGGCTTAGGCATATAG-AGTTC
128 CCTCTTCGGCT-GGCTGAGCACCCACACGCTCATTTCGTGGGTTGGCTTAGGCATA-AGAAGTTC
* ** *
28492196 ATTCCATGTCTAGGCATATGGAGTTCATTCCCAGCCAAAGATCGAACC-GAACCGAGGGTTGCGG
191 ATTCCATGTCTAAGCATACAGAGTTAATT-CCAGCCAAAGATCGAACCAG-ACCGAGGGTTGC-G
* * *** * * * * **
28492260 CTA-CAGGACCAATAGCAGGATCGGTAGCACGCAAGGGGGGACCGGGTCGATCCCCAGCTTGTGC
253 ATAGCAGGACCAAGAGCAGGATCAACAGCACAC-AGGGGGGACCGAGCCAATCCCCAGCTTACGC
* * **
28492324 ATTCTGCCTCTCTTG-TCGGTTGAACACCCGCACACTCATTTCTTGGGTTAGCTTAGGCATACAG
317 ATTCTGCCTCTC-CGACCGGTTGAACACCCGCACACTCATTTAATGGGTTAGCTTAGGCATACAG
* * * ** * * * * * *
28492388 AGTTCATTCTATGTCTAAGCCCCAGTCGGACCGTGGGTTGTGGTAGGAGGATCGGTAATC-AGAT
381 AGTTCATTCCATGTCTAAGCACCAGTCAGACCGACGGTTGTCGCAGCAAGAGCGGCAA-CGAGAT
* *
28492452 CGACCGCACGCAGA-AGGGACCGGGCTGATCCCCGACTTGCGCATTATGCCTCTCCAACCGACCT
445 CGACAGCACGCAGAGAGGGACCAGGCTGATCCCCGACTTGCGCATTATGCCTCTCCAACCGACCT
* * ** ** **
28492516 TTTCGACT-GACTGAGTGCCCGTACCCTC
510 CTCCG-CTCGACCAAGCACCCACACCCTC
* * * *
28492544 GTTTTGTGGGTTGACTTAGGCATACAGAGTTCATCCCCAGTC
1 ATTTCGTGGGTTGACTTAGGCATACGGAGTTCATTCCCAGTC
28492586 TAAGCATACA
Statistics
Matches: 471, Mismatches: 98, Indels: 22
0.80 0.17 0.04
Matches are distributed among these distances:
536 1 0.00
537 81 0.17
538 102 0.22
539 148 0.31
540 137 0.29
541 2 0.00
ACGTcount: A:0.22, C:0.27, G:0.28, T:0.24
Consensus pattern (537 bp):
ATTTCGTGGGTTGACTTAGGCATACGGAGTTCATTCCCAGTCCAAGATCGGACCAGACCGAGGGT
TGCGGCAGTAAGATCGACAGCACACAGGGGGGACCGAGCCAGCCCCGAGCTTACGCATTCTGCCT
CTTCGGCTGGCTGAGCACCCACACGCTCATTTCGTGGGTTGGCTTAGGCATAAGAAGTTCATTCC
ATGTCTAAGCATACAGAGTTAATTCCAGCCAAAGATCGAACCAGACCGAGGGTTGCGATAGCAGG
ACCAAGAGCAGGATCAACAGCACACAGGGGGGACCGAGCCAATCCCCAGCTTACGCATTCTGCCT
CTCCGACCGGTTGAACACCCGCACACTCATTTAATGGGTTAGCTTAGGCATACAGAGTTCATTCC
ATGTCTAAGCACCAGTCAGACCGACGGTTGTCGCAGCAAGAGCGGCAACGAGATCGACAGCACGC
AGAGAGGGACCAGGCTGATCCCCGACTTGCGCATTATGCCTCTCCAACCGACCTCTCCGCTCGAC
CAAGCACCCACACCCTC
Found at i:28493098 original size:26 final size:26
Alignment explanation
Indices: 28493068--28493120 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28493058 GTTGCCTTAG
28493068 GCATACAAAGTTCATT-CCATGTCTAA
1 GCATACAAAGTTCATTCCCA-GTCTAA
*
28493094 GCATACGAAGTTCATTCCCAGTCTAA
1 GCATACAAAGTTCATTCCCAGTCTAA
28493120 G
1 G
28493121 ATCAGACCGG
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:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (26 bp):
GCATACAAAGTTCATTCCCAGTCTAA
Found at i:28493474 original size:26 final size:26
Alignment explanation
Indices: 28493421--28493476 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
28493411 TGGGTTGACT
*
28493421 TAAGCATACGGAGTTCATCCCTAGTC
1 TAAGCATACGGAGTTCATCCCTAATC
28493447 TAAGCATACGGAGTTCATTCCC-AATC
1 TAAGCATACGGAGTTCA-TCCCTAATC
28493473 TAAG
1 TAAG
28493477 ATCAGACCAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
26 24 0.86
27 4 0.14
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (26 bp):
TAAGCATACGGAGTTCATCCCTAATC
Found at i:28494702 original size:26 final size:26
Alignment explanation
Indices: 28494666--28494717 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
28494656 GTTGACTTAG
28494666 GCATACGGAGTTCAGCCCCAGTCTAA
1 GCATACGGAGTTCAGCCCCAGTCTAA
**
28494692 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCAGCCCCAGTCTAA
28494718 AATTAGACCG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (26 bp):
GCATACGGAGTTCAGCCCCAGTCTAA
Found at i:28501712 original size:159 final size:158
Alignment explanation
Indices: 28501418--28501918 Score: 548
Period size: 159 Copynumber: 3.2 Consensus size: 158
28501408 CCTAGTCTAA
* * * * * **
28501418 GCATAC-GAGTTCATTCCCA-GTCTAAGATCAGACCAGACCGAGGGTTGC-AGTAGTAGGATTGA
1 GCATACGGAGTTCATT-CCATGTCTAAGACCAGACCGGACCAAGGGTTGCGA-CAGCAGGACCGA
* * * ** *
28501480 CAGCACGCAGTGGGGATCGGGCCAATCCCCGACTTACGCATTCTGCCTATCCGACCGGTTGAGCG
64 CAGCACGCAGGGGGGATCGGGCCAATCCCCGACTTGCGCATTCTGCCTCTCCGGTCGGCTGAGCG
*
28501545 CCCGCACGCCCGTTTCGTGGGTTGGCTTAG
129 CCCGCACGCTCGTTTCGTGGGTTGGCTTAG
* * * * * *
28501575 GCATAGGGAGTTCATTCCATGTCTAAGCCCCAG-TCGGA-CAGAGGGTTGTGGCAGCGGGACCGA
1 GCATACGGAGTTCATTCCATGTCTAAG-ACCAGACCGGACCA-AGGGTTGCGACAGCAGGACCGA
* * * * * *
28501638 CAGCACACAGAGGGGGACCGGGCCAATCCTCGGCTTGCGCATTATGCCTCTCCGGTCGGCTCAGC
64 CAGCACGCAG-GGGGGATCGGGCCAATCCCCGACTTGCGCATTCTGCCTCTCCGGTCGGCTGAGC
*
28501703 GCCCGCACGCTCGTTTCGTGGGTTGACTTAG
128 GCCCGCACGCTCGTTTCGTGGGTTGGCTTAG
* * * *
28501734 GTATACGGAGTTCATTCC-TAGTCTAAGATCAGACCGGACCAAGGGTTGCGACAGTAGGATCGAC
1 GCATACGGAGTTCATTCCAT-GTCTAAGACCAGACCGGACCAAGGGTTGCGACAGCAGGACCGAC
* * * * * *
28501798 AGCACGTAGGGGGGATCGGGTCGATCCCCGACTTGTGCATTCTGCCTCTCCGGTCGACTGAGTGC
65 AGCACGCAGGGGGGATCGGGCCAATCCCCGACTTGCGCATTCTGCCTCTCCGGTCGGCTGAGCGC
* *
28501863 CCACACGCTCGTTTCAT-GGTTGGCTTAG
130 CCGCACGCTCGTTTCGTGGGTTGGCTTAG
28501891 GCATACGGAGTTCATTCCATGTCTAAGA
1 GCATACGGAGTTCATTCCATGTCTAAGA
28501919 ATAGGAGTTC
Statistics
Matches: 281, Mismatches: 53, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
157 44 0.16
158 108 0.38
159 127 0.45
160 2 0.01
ACGTcount: A:0.20, C:0.28, G:0.30, T:0.22
Consensus pattern (158 bp):
GCATACGGAGTTCATTCCATGTCTAAGACCAGACCGGACCAAGGGTTGCGACAGCAGGACCGACA
GCACGCAGGGGGGATCGGGCCAATCCCCGACTTGCGCATTCTGCCTCTCCGGTCGGCTGAGCGCC
CGCACGCTCGTTTCGTGGGTTGGCTTAG
Found at i:28502309 original size:26 final size:26
Alignment explanation
Indices: 28502270--28502322 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
28502260 GTTGACTTAG
28502270 GCATACAAACTTCATCCCCAATCTAA
1 GCATACAAACTTCATCCCCAATCTAA
* * * *
28502296 GCATACGAAGTTCATTCCCAGTCTAA
1 GCATACAAACTTCATCCCCAATCTAA
28502322 G
1 G
28502323 ATCGGATCAA
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:0.34, C:0.30, G:0.11, T:0.25
Consensus pattern (26 bp):
GCATACAAACTTCATCCCCAATCTAA
Found at i:28503149 original size:26 final size:26
Alignment explanation
Indices: 28503120--28503172 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
28503110 GTTGGCTTAG
28503120 GCATACGGAGTTCATT-CCATGTCTAA
1 GCATACGGAGTTCATTCCCA-GTCTAA
28503146 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
28503172 G
1 G
28503173 ATCAAACCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 23 0.88
27 3 0.12
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:28504046 original size:26 final size:26
Alignment explanation
Indices: 28504015--28504067 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
28504005 GTTGGCTTAG
28504015 GCATACGGAGTTCATT-CCATGTCTAA
1 GCATACGGAGTTCATTCCCA-GTCTAA
28504041 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
28504067 G
1 G
28504068 ATCGGACCGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 23 0.88
27 3 0.12
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:28504055 original size:196 final size:196
Alignment explanation
Indices: 28503762--28504238 Score: 573
Period size: 196 Copynumber: 2.4 Consensus size: 196
28503752 TCGGCTTCCA
* * * * *
28503762 CATTCTACCTCTCCGATAGGTTGAGCACCCGCACGCTCGTTTCATGGGTTGCCTTAGGCATACGG
1 CATTCTGCCTCTCTGATCGGTTGAGCACCCGCACGCTCGTTTCGTGGGTTGGCTTAGGCATACGG
* * *
28503827 AGTTCATTCCATGTCTAAGCATACAAAGTTCATTCCCAGTCTAAGATTGGATCGGATCGAGGGTT
66 AGTTCATTCCATGTCTAAGCATACAAAGTTCATTCCCAGTCTAAGATCGGACCGGATCAAGGGTT
* * * * * * *
28503892 GC-AGTAGCAGGACCAGCAGTAGGATCGACAACACGCAGGGGGGA-CTGAACCGATCCCTGACTT
131 GCGA-CAGCAGGACCAGCAGTAAGAGCGACAACACGCAGAGGGGACCAG-ACCAATCCCCGACTT
28503955 ACG
194 ACG
* * ** *
28503958 CATTCTGCCTCTCTGGTCGGTTGAGCACTCATACGCTCGTTTCGTAGGTTGGCTTAGGCATACGG
1 CATTCTGCCTCTCTGATCGGTTGAGCACCCGCACGCTCGTTTCGTGGGTTGGCTTAGGCATACGG
**
28504023 AGTTCATTCCATGTCTAAGCATACGGAGTTCATTCCCAGTCTAAGATCGGACCGGATCAAGGGTT
66 AGTTCATTCCATGTCTAAGCATACAAAGTTCATTCCCAGTCTAAGATCGGACCGGATCAAGGGTT
* * * * *** * *
28504088 GCGACAGCAGGACGAGCAGTAAGAGCGGCAGCACGTAGAGGGGACCAGGTTAATCCCCGGCTTGC
131 GCGACAGCAGGACCAGCAGTAAGAGCGACAACACGCAGAGGGGACCAGACCAATCCCCGACTTAC
28504153 G
196 G
* * * *
28504154 CATTCTGCCTCT-TCGACCGGCTGAGCACCCGCACGCCCGTTTCGTGGGTTGGCTTAGGCATAGG
1 CATTCTGCCTCTCT-GATCGGTTGAGCACCCGCACGCTCGTTTCGTGGGTTGGCTTAGGCATACG
* *
28504218 GTGTTCATTACATGTCTAAGC
65 GAGTTCATTCCATGTCTAAGC
28504239 CCCAGCTGGA
Statistics
Matches: 236, Mismatches: 42, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
195 1 0.00
196 232 0.98
197 3 0.01
ACGTcount: A:0.22, C:0.26, G:0.28, T:0.24
Consensus pattern (196 bp):
CATTCTGCCTCTCTGATCGGTTGAGCACCCGCACGCTCGTTTCGTGGGTTGGCTTAGGCATACGG
AGTTCATTCCATGTCTAAGCATACAAAGTTCATTCCCAGTCTAAGATCGGACCGGATCAAGGGTT
GCGACAGCAGGACCAGCAGTAAGAGCGACAACACGCAGAGGGGACCAGACCAATCCCCGACTTAC
G
Found at i:28504389 original size:709 final size:690
Alignment explanation
Indices: 28502928--28504579 Score: 1899
Period size: 709 Copynumber: 2.4 Consensus size: 690
28502918 TGGTCGGTTG
* *
28502928 AGCGCCCGCACGCTCGTTTCATGGGTTGACTTAGGCATACGGAGTTCATCCCTAGTCTAAGATCA
1 AGCGCCCGCACGCTCGTTTCATGGGTTGACTTAGGCATACGGAGTTCATTCCTAGTCTAAGATCG
* * *
28502993 GATCGGATTGAGGGTTATGACAGCAGGATCGACAGCACGCAGGGGGGATCGGGCCGATACCCGAC
66 GATCAGACTGAGGGTTATGACAGCAGGATCGACAGCACGCAGGGGGGATCGGGCAGAT-CCCGAC
* * * *
28503058 TTGCGCATTCTGCCTCTCCGACCGCCTGAGCGCCCGTACGCTCGTTTTGTGGGTTGGCTTAGGCA
130 TTGCGCATTCTGCCTCTCCGATCGGCTGAGCGCCCGCACGCTCGTTTCGTGGGTTGGCTTAGGCA
*
28503123 TACGGAGTTCATTCCATGTCTAAGCATACGGAGTTCATTCCCAGTCTAAGATCAAACCAGACCGA
195 TACGGAGTTCATTCCATGTCTAAGCATACGAAGTTCATTCCCAGTCTAAGATCAAACCAGACCGA
* * * * * *
28503188 AGGTTACGACAGCCGGACCAGCAGCAGGATCGACAGCACATAGGGGGCATCGAGCTGATCCCTGG
260 AGGTTACGACAGCAGGACCAGCAGCAGGATCGACAACACACAGGGGGCATCGAACCGATCCCTGA
* * * *
28503253 CTTGCACTTTTTGCTTCTTCGATCGGCCTCTCCGACTGGCTGAGCGCCCGTACGCTCGTTTCATG
325 CTT-CAC----TGC-TATTC-ATC-GCCTCTCCGACTGGCTGAGCACCCATACGCTCGTTTCATA
* *
28503318 GGTTGACTAAGCTTCATCCCCAGTCTAAGCATACGGATTCACTCCCAGTCTAAGATCGGATCGGA
382 GGTTGACTAAGCTACATCCCCAGTCTAAGCATACGGATTCACTCCCAGTCTAAGATCGGACCGGA
* * * *
28503383 CCAAGGGTTGCGACAGTAGGATCGGCTGCACGTAGAGGGGACTAGTCTATCCCCGGTTTGCACAT
447 CCAAGGGTTGCGACAGGAGGATCGGCAGCACGTAGAGGGGACCAGTCTATCCCCGGCTTGCACAT
* * *
28503448 TCTGCCTCTCCGGCCGACTGAGCGCCCGCATGCCCGTTTCATGGGTTGGCTTAGGCATAGGGAGT
512 TCTGCCTCTCCGACCGACTGAGCACCCGCACGCCCGTTTCATGGGTTGGCTTAGGCATAGGGAGT
* *
28503513 TCATTCCATGACTAAACCCCAGTCGGACTGAGGGTTGTGGCAGCGGGACCGGTAGCACGCAAAGG
577 TCATTACATGACTAAACCCCAGTCGGACCGAGGGTTGTGGCAGCGGGACCGGTAGCACGCAAAGG
*
28503578 GGGATCGAACCGATCCTCGACTTGCACATTATTCCTCTTCAGCCGACTC
642 GGGATCGAACCGATCCTCGACTTGCACATTATGCCTCTTCAGCCGACTC
** * * *
28503627 AATGCCCGCATGCTCATTTCATGGGTTGACTTAGGCATACGGTGTTCATTCCTAGTCTAAGATCG
1 AGCGCCCGCACGCTCGTTTCATGGGTTGACTTAGGCATACGGAGTTCATTCCTAGTCTAAGATCG
** * * *
28503692 GATCAGACTGAGGGTTGCGACAGCAAGATCGACAGCACGCAGGGGGGACCGGGTCAG-TCCTCGG
66 GATCAGACTGAGGGTTATGACAGCAGGATCGACAGCACGCAGGGGGGATCGGG-CAGATCC-CGA
* * * * * * * *
28503756 CTTCCACATTCTACCTCTCCGATAGGTTGAGCACCCGCACGCTCGTTTCATGGGTTGCCTTAGGC
129 CTTGCGCATTCTGCCTCTCCGATCGGCTGAGCGCCCGCACGCTCGTTTCGTGGGTTGGCTTAGGC
* *** * * *
28503821 ATACGGAGTTCATTCCATGTCTAAGCATACAAAGTTCATTCCCAGTCTAAGATTGGATCGGATCG
194 ATACGGAGTTCATTCCATGTCTAAGCATACGAAGTTCATTCCCAGTCTAAGATCAAACCAGACCG
* * * * * *
28503886 AGGGTTGC-AGTAGCAGGACCAGCAGTAGGATCGACAACACGCAGGGGGGA-CTGAACCGATCCC
259 AAGGTTACGA-CAGCAGGACCAGCAGCAGGATCGACAACACACAGGGGGCATC-GAACCGATCCC
* * * * *
28503949 TGACTT-AC-GC-ATTC-T-GCCTCTCTG-GTCGGTTGAGCACTCATACGCTCGTTTCGTAGGTT
322 TGACTTCACTGCTATTCATCGCCTCTCCGACT-GGCTGAGCACCCATACGCTCGTTTCATAGGTT
* * * *
28504008 GGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCATACGGAGTTCATTCCCAGTCTAAGATCGG
386 GAC-TAAGC-TAC--A--TC--CCCA-GTCTAAGCATACGGA-TTCACTCCCAGTCTAAGATCGG
*
28504073 ACCGGATCAAGGGTTGCGACAGCAGGACGAGCAGTAAGAGCGGCAGCACGTAGAGGGGACCAGGT
441 ACCGGACCAAGGGTTGCG--A-CAGGA-G-G-A-T-----CGGCAGCACGTAGAGGGGACCA-GT
* * * *
28504138 -TAATCCCCGGCTTGCGCATTCTGCCTCTTCGACCGGCTGAGCACCCGCACGCCCGTTTCGTGGG
493 CT-ATCCCCGGCTTGCACATTCTGCCTCTCCGACCGACTGAGCACCCGCACGCCCGTTTCATGGG
* * *
28504202 TTGGCTTAGGCATAGGGTGTTCATTACATGTCTAAGCCCCAG-CTGGACCGAGGGTTGTGGCAGC
557 TTGGCTTAGGCATAGGGAGTTCATTACATGACTAAACCCCAGTC-GGACCGAGGGTTGTGGCAGC
* * ** *
28504266 GGGACTGGTAGCACGCAGAGGGGGA-CTGGGCCGATCC-CTGACTTGCACATTATGCCTCTTCGG
621 GGGACCGGTAGCACGCAAAGGGGGATC-GAACCGATCCTC-GACTTGCACATTATGCCTCTTCAG
*
28504329 CCGGCTC
684 CCGACTC
* * * * * *
28504336 AGCGCCCGCACACGCGTTTCGTGGGTTGACTTATGCATACGAAGTTCATTCCTAGTCTAAGATTG
1 AGCGCCCGCACGCTCGTTTCATGGGTTGACTTAGGCATACGGAGTTCATTCCTAGTCTAAGATCG
* * * * * ** * *
28504401 AACCAGACTGAGGGTTATGAAACCAGGATTGGTAGCACGTAGGGGGGATCGGGCTGATCCCCGAC
66 GATCAGACTGAGGGTTATGACAGCAGGATCGACAGCACGCAGGGGGGATCGGGCAGAT-CCCGAC
*
28504466 TTGCGCATTCTGCCTCTCCGGTCGGCTGAGCGCCCGCACGCTCGTTTCGTGGGTTGGCTTAGGCA
130 TTGCGCATTCTGCCTCTCCGATCGGCTGAGCGCCCGCACGCTCGTTTCGTGGGTTGGCTTAGGCA
* *
28504531 TACGGAATTCATTCCATGTTTAAGCATACGAAGTTCATTCCCAGTCTAA
195 TACGGAGTTCATTCCATGTCTAAGCATACGAAGTTCATTCCCAGTCTAA
28504580 AATTTTGAGA
Statistics
Matches: 796, Mismatches: 123, Indels: 58
0.81 0.13 0.06
Matches are distributed among these distances:
685 1 0.00
686 36 0.05
687 4 0.01
688 3 0.00
690 4 0.01
692 4 0.01
694 3 0.00
695 15 0.02
696 37 0.05
697 2 0.00
698 5 0.01
699 275 0.35
700 3 0.00
701 1 0.00
702 1 0.00
703 1 0.00
708 26 0.03
709 373 0.47
710 2 0.00
ACGTcount: A:0.21, C:0.27, G:0.28, T:0.24
Consensus pattern (690 bp):
AGCGCCCGCACGCTCGTTTCATGGGTTGACTTAGGCATACGGAGTTCATTCCTAGTCTAAGATCG
GATCAGACTGAGGGTTATGACAGCAGGATCGACAGCACGCAGGGGGGATCGGGCAGATCCCGACT
TGCGCATTCTGCCTCTCCGATCGGCTGAGCGCCCGCACGCTCGTTTCGTGGGTTGGCTTAGGCAT
ACGGAGTTCATTCCATGTCTAAGCATACGAAGTTCATTCCCAGTCTAAGATCAAACCAGACCGAA
GGTTACGACAGCAGGACCAGCAGCAGGATCGACAACACACAGGGGGCATCGAACCGATCCCTGAC
TTCACTGCTATTCATCGCCTCTCCGACTGGCTGAGCACCCATACGCTCGTTTCATAGGTTGACTA
AGCTACATCCCCAGTCTAAGCATACGGATTCACTCCCAGTCTAAGATCGGACCGGACCAAGGGTT
GCGACAGGAGGATCGGCAGCACGTAGAGGGGACCAGTCTATCCCCGGCTTGCACATTCTGCCTCT
CCGACCGACTGAGCACCCGCACGCCCGTTTCATGGGTTGGCTTAGGCATAGGGAGTTCATTACAT
GACTAAACCCCAGTCGGACCGAGGGTTGTGGCAGCGGGACCGGTAGCACGCAAAGGGGGATCGAA
CCGATCCTCGACTTGCACATTATGCCTCTTCAGCCGACTC
Found at i:28504416 original size:159 final size:158
Alignment explanation
Indices: 28504140--28504554 Score: 458
Period size: 159 Copynumber: 2.6 Consensus size: 158
28504130 GACCAGGTTA
* * *
28504140 ATCCCCGGCTTGCGCATTCTGCCTCTTCGACCGGCTGAGCACCCGCACGCCCGTTTCGTGGGTTG
1 ATCCCCGACTTGCGCATTCTGCCTCTTCGGCCGGCTGAGCGCCCGCACGCCCGTTTCGTGGGTTG
* ** * * * ** * ** * *
28504205 GCTTAGGCATAGGGTGTTCATTACATGTCTAAGCCCCAGCTGGACCGAGGGTTGTGGCAGCGGGA
66 GCTTAGGCATACGAAGTTCATTCCATGTCTAAGACCCAACCAGACCGAGGGTTATGAAACCAGGA
28504270 CTGGTAGCACGCAGAGGGGGA-CTGGGCCG
131 CTGGTAGCACGCAG-GGGGGATC-GGGCCG
* * * * * *
28504299 ATCCCTGACTTGCACATTATGCCTCTTCGGCCGGCTCAGCGCCCGCACACGCGTTTCGTGGGTTG
1 ATCCCCGACTTGCGCATTCTGCCTCTTCGGCCGGCTGAGCGCCCGCACGCCCGTTTCGTGGGTTG
* * *** *
28504364 ACTTATGCATACGAAGTTCATTCC-TAGTCTAAGATTGAACCAGACTGAGGGTTATGAAACCAGG
66 GCTTAGGCATACGAAGTTCATTCCAT-GTCTAAGACCCAACCAGACCGAGGGTTATGAAACCAGG
* * *
28504428 ATTGGTAGCACGTAGGGGGGATCGGGCTG
130 ACTGGTAGCACGCAGGGGGGATCGGGCCG
* * *
28504457 ATCCCCGACTTGCGCATTCTGCCTCTCCGGTCGGCTGAGCGCCCGCACGCTCGTTTCGTGGGTTG
1 ATCCCCGACTTGCGCATTCTGCCTCTTCGGCCGGCTGAGCGCCCGCACGCCCGTTTCGTGGGTTG
*
28504522 GCTTAGGCATACGGAA-TTCATTCCATGTTTAAG
66 GCTTAGGCATAC-GAAGTTCATTCCATGTCTAAG
28504555 CATACGAAGT
Statistics
Matches: 210, Mismatches: 42, Indels: 9
0.80 0.16 0.03
Matches are distributed among these distances:
158 93 0.44
159 117 0.56
ACGTcount: A:0.17, C:0.28, G:0.30, T:0.25
Consensus pattern (158 bp):
ATCCCCGACTTGCGCATTCTGCCTCTTCGGCCGGCTGAGCGCCCGCACGCCCGTTTCGTGGGTTG
GCTTAGGCATACGAAGTTCATTCCATGTCTAAGACCCAACCAGACCGAGGGTTATGAAACCAGGA
CTGGTAGCACGCAGGGGGGATCGGGCCG
Found at i:28505287 original size:26 final size:26
Alignment explanation
Indices: 28505251--28505302 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28505241 TTGACTTAGC
28505251 CATACGGAGTTCA-TCCGTAGTCTAAG
1 CATACGGAGTTCATTCC-TAGTCTAAG
*
28505277 CATACGTAGTTCATTCCTAGTCTAAG
1 CATACGGAGTTCATTCCTAGTCTAAG
28505303 ATCAAACCAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (26 bp):
CATACGGAGTTCATTCCTAGTCTAAG
Found at i:28505617 original size:159 final size:158
Alignment explanation
Indices: 28505284--28505767 Score: 402
Period size: 159 Copynumber: 3.1 Consensus size: 158
28505274 AAGCATACGT
* * * * *
28505284 AGTTCATTCCTAGTCTAAGATCAAACCAGACCGAGGGTTGCGACAACAGGATCGGTAGCACGCAA
1 AGTTCATTCCCAGTCTAAGACCAAACCAGACCGAGGGTTGCGACAACAGGACCGGCAACACGCAA
* *
28505349 GGGGGACCGAGACAATCCCTGGCTTGCACATTCTGCCTCTCCGGGCGGCTGAGCGCCCGCACACT
66 GGGGGACCGAGACAATCCCTGGCTTGCACATTATGCCTCTCCGGCCGGCTGAGCGCCCGCACACT
*
28505414 CGTTTCGTGGGTTGGCTTAGGCATAGGG
131 CGTTTCGTGGGTTGACTTAGGCATAGGG
* * * * * *
28505442 AGTTCATT-CCATGTCTAAGCCCCAGCCAGACCGAGGGTTGTGGCAGC-GAGACCGGCAACACGC
1 AGTTCATTCCCA-GTCTAAGACCAAACCAGACCGAGGGTTGCGACAACAG-GACCGGCAACACGC
* * * * * * * * *
28505505 AGAGGGGGATCGGGCCGATCCCTGGCTTGCGCATTATGCCTCTCTGGCCTGCTTAGCGCCCGCCC
64 A-AGGGGGACCGAGACAATCCCTGGCTTGCACATTATGCCTCTCCGGCCGGCTGAGCGCCCGCAC
* *
28505570 GCTCGTTTTGTGGGTTGACTTAGGCAT-GCGG
128 ACTCGTTTCGTGGGTTGACTTAGGCATAG-GG
* * * * * * ** *
28505601 AGTTCATTCCCAGTCTACA-ATC-GACCAAACCAAGGGTTGCGACAATAGGATCAACAGCACGCA
1 AGTTCATTCCCAGTCTA-AGACCAAACCAGACCGAGGGTTGCGACAACAGGACCGGCAACACGCA
* * *** * *** * * ** * **
28505664 GGGGGGGCCGAGTTGATCCCCGGCTTATGCATTCTACCTCTCCGGTTGGCTGAGCGCCCGTATGC
65 AGGGGGACCGAGACAATCCCTGGCTTGCACATTATGCCTCTCCGGCCGGCTGAGCGCCCGCACAC
* * **
28505729 TCGTTTCGTTGGTTGGCTTAGGCATACAG
130 TCGTTTCGTGGGTTGACTTAGGCATAGGG
28505758 AGTTCATTCC
1 AGTTCATTCC
28505768 ATGTATAAGC
Statistics
Matches: 255, Mismatches: 63, Indels: 17
0.76 0.19 0.05
Matches are distributed among these distances:
157 82 0.32
158 76 0.30
159 93 0.36
160 4 0.02
ACGTcount: A:0.19, C:0.29, G:0.30, T:0.23
Consensus pattern (158 bp):
AGTTCATTCCCAGTCTAAGACCAAACCAGACCGAGGGTTGCGACAACAGGACCGGCAACACGCAA
GGGGGACCGAGACAATCCCTGGCTTGCACATTATGCCTCTCCGGCCGGCTGAGCGCCCGCACACT
CGTTTCGTGGGTTGACTTAGGCATAGGG
Found at i:28506377 original size:27 final size:28
Alignment explanation
Indices: 28506319--28506373 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
28506309 TAGGATACAG
* *
28506319 AGTTTATTCCCATGTCTAAGCAATTTGG
1 AGTTTATTCCCATGTCTAAGCAATTCGA
28506347 AGTTTATT-CCATGTCTAAGC-ATTCGA
1 AGTTTATTCCCATGTCTAAGCAATTCGA
28506373 A
1 A
28506374 AGTTCAGTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.20
27 12 0.48
28 8 0.32
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.38
Consensus pattern (28 bp):
AGTTTATTCCCATGTCTAAGCAATTCGA
Found at i:28507085 original size:26 final size:26
Alignment explanation
Indices: 28507049--28507101 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
28507039 GTTGACTTAG
28507049 GCATACGGAGTTCA-TCCCTAGTCTAA
1 GCATACGGAGTTCATTCCC-AGTCTAA
28507075 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
28507101 G
1 G
28507102 ATCAGACCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 22 0.85
27 4 0.15
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:28508576 original size:158 final size:159
Alignment explanation
Indices: 28508194--28508601 Score: 434
Period size: 159 Copynumber: 2.6 Consensus size: 159
28508184 TTCGATCGCT
* * * *
28508194 GGCTTGCGCATCCTGCCTCTCTGGTCGGATGAGCGCCCGCACGC-TCGTTTCGTGGGTTGGCTTA
1 GGCTTGCGCATTCTGCCTCTCAGGTCGGCTGAGC-ACCGCACGCTTCGTTTCGTGGGTTGGCTTA
* * * *** *
28508258 GGCATATGGAGTTCATTCCATGTCTAAGCCCCAGCCGAATCGAGGGTTGTGGCAGTGGGACCGGC
65 GGCATACGGAGTTCATTCCATGTCTAAGCCCCAGCCGAACCGAGGGTTGCGGCAGCAAGACCGAC
* *
28508323 AGCACGCAGAGGGGGATCGGGTCGCTCCCC
130 AGCACGCAGAGGGGGATCGAGCCGCTCCCC
* * * * * **
28508353 GGCTTGTGCATTATGCCTCTCAGGTCGGCTCAGCGCTCGCACGCTT-GTTTCGTGAGTTGATTTA
1 GGCTTGCGCATTCTGCCTCTCAGGTCGGCTGAGCAC-CGCACGCTTCGTTTCGTGGGTTGGCTTA
** * * *
28508417 GGCATACGGAGTTCATTCC-TAGTCTAAG-ATCGGACC-AGACCGAGGGTTGCGGTAGCAAGATC
65 GGCATACGGAGTTCATTCCAT-GTCTAAGCCCCAG-CCGA-ACCGAGGGTTGCGGCAGCAAGACC
* *
28508479 GACAGCACGTAG-GGGGGATCGAGCCGGTCCCC
127 GACAGCACGCAGAGGGGGATCGAGCCGCTCCCC
* *
28508511 GGCTTACGCATTCTGCCTCTCCGGTCGGCTGAGCACC-CACGCTATCGTTTCGTGGGTTGGCTTA
1 GGCTTGCGCATTCTGCCTCTCAGGTCGGCTGAGCACCGCACGCT-TCGTTTCGTGGGTTGGCTTA
* *
28508575 GGTATACGGAGTTAATTCCATGTCTAA
65 GGCATACGGAGTTCATTCCATGTCTAA
28508602 CCATACAGAG
Statistics
Matches: 204, Mismatches: 37, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
156 6 0.03
157 2 0.01
158 90 0.44
159 105 0.51
160 1 0.00
ACGTcount: A:0.17, C:0.27, G:0.32, T:0.25
Consensus pattern (159 bp):
GGCTTGCGCATTCTGCCTCTCAGGTCGGCTGAGCACCGCACGCTTCGTTTCGTGGGTTGGCTTAG
GCATACGGAGTTCATTCCATGTCTAAGCCCCAGCCGAACCGAGGGTTGCGGCAGCAAGACCGACA
GCACGCAGAGGGGGATCGAGCCGCTCCCC
Found at i:28508618 original size:26 final size:26
Alignment explanation
Indices: 28508578--28508627 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
28508568 TGGCTTAGGT
*
28508578 ATACGGAGTTAATT-CCATGTCTAACC
1 ATACAGAGTTAATTCCCA-GTCTAACC
*
28508604 ATACAGAGTTCATTCCCAGTCTAA
1 ATACAGAGTTAATTCCCAGTCTAA
28508628 GAACGAATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 18 0.86
27 3 0.14
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (26 bp):
ATACAGAGTTAATTCCCAGTCTAACC
Found at i:28508971 original size:26 final size:26
Alignment explanation
Indices: 28508941--28508994 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
28508931 TGGGTTGACT
*
28508941 TAGGCATACGGAGTTCATCCCCAGTC
1 TAGGCATACGAAGTTCATCCCCAGTC
* *
28508967 TAGGCATACGAAGTTCATTCCCATTC
1 TAGGCATACGAAGTTCATCCCCAGTC
28508993 TA
1 TA
28508995 AGATCAGACC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (26 bp):
TAGGCATACGAAGTTCATCCCCAGTC
Found at i:28509431 original size:158 final size:156
Alignment explanation
Indices: 28508967--28509471 Score: 521
Period size: 158 Copynumber: 3.2 Consensus size: 156
28508957 ATCCCCAGTC
* * * * **
28508967 TAGGCATACGAAGTTCATTCCCAT-TCTAAGATCAGACCAAACCGAAGGTTACGGCAGCAGGATC
1 TAGGCATACGGAGTTCATT-CCATGTCTAAGATC-GACTAGACCGAGGGTTGTGGCAGCAGGATC
* * *
28509031 AGAAGCACGTAGGAGGGACCAGGCCGATCCCCGGCTTGTGCAATCTGCCTCTCCGATCGGCTGAG
64 -GAAGCACGTAGGGGGGACCGGGCCGATCCCCGGCTTGTGCATTCTGCCTCTCCGATCGGCTGAG
* * *
28509096 CGCCCGCACACCCGTTTCATGGGTTGGCT
128 TGCCCGCACACTCGTTTCGTGGGTTGGCT
* * * * ** * * *
28509125 TAGGCATAGGGAGTTCATTCCATGTCTAAGCTCCAGTCAGACTAAGGATTGTGGTAGCGGGATCA
1 TAGGCATACGGAGTTCATTCCATGTCTAAGATCGACT-AGACCGAGGGTTGTGGCAGCAGGATC-
* * * * * * * * * *
28509190 GCAGCATGCAGAGGAGGACCGGGCGGATCCCTGGCTTGCGCATTATGCCTCTTCGATCGGCTCAG
64 GAAGCACGTAG-GGGGGACCGGGCCGATCCCCGGCTTGTGCATTCTGCCTCTCCGATCGGCTGAG
* * *
28509255 TGCCCGCACGCTCATTTCGTGGGTTGACT
128 TGCCCGCACACTCGTTTCGTGGGTTGGCT
* *
28509284 TATGTATACGGAGTTCATTCCCA-GTCTAAGATCGGA-TAGGACCGAGGGTTGTGGCAGCAGGAT
1 TAGGCATACGGAGTTCATT-CCATGTCTAAGATC-GACTA-GACCGAGGGTTGTGGCAGCAGGAT
* * * * *
28509347 CGATAACACGTAGGGGGGACCGGGCTGATCCCCGGCTTATGCATTCTGCCTCTCCGACCGGTTGA
63 CGA-AGCACGTAGGGGGGACCGGGCCGATCCCCGGCTTGTGCATTCTGCCTCTCCGATCGGCTGA
*
28509412 GTGCCCGCACACTCGTTTCGTGTGTTGGCT
127 GTGCCCGCACACTCGTTTCGTGGGTTGGCT
28509442 TAGGCATACGGAGTTCATTCCATGTCTAAG
1 TAGGCATACGGAGTTCATTCCATGTCTAAG
28509472 TGTACGGAGT
Statistics
Matches: 275, Mismatches: 64, Indels: 16
0.77 0.18 0.05
Matches are distributed among these distances:
157 8 0.03
158 145 0.53
159 118 0.43
160 4 0.01
ACGTcount: A:0.21, C:0.26, G:0.29, T:0.24
Consensus pattern (156 bp):
TAGGCATACGGAGTTCATTCCATGTCTAAGATCGACTAGACCGAGGGTTGTGGCAGCAGGATCGA
AGCACGTAGGGGGGACCGGGCCGATCCCCGGCTTGTGCATTCTGCCTCTCCGATCGGCTGAGTGC
CCGCACACTCGTTTCGTGGGTTGGCT
Found at i:28509487 original size:26 final size:26
Alignment explanation
Indices: 28509448--28509497 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
28509438 GGCTTAGGCA
*
28509448 TACGGAGTTCATT-CCATGTCTAAGTG
1 TACGGAGTTAATTCCCA-GTCTAAGTG
28509474 TACGGAGTTAATTCCCAGTCTAAG
1 TACGGAGTTAATTCCCAGTCTAAG
28509498 ATTTTGAGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 19 0.86
27 3 0.14
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (26 bp):
TACGGAGTTAATTCCCAGTCTAAGTG
Found at i:28510552 original size:159 final size:157
Alignment explanation
Indices: 28510234--28510694 Score: 444
Period size: 158 Copynumber: 2.9 Consensus size: 157
28510224 CTGGACTGAC
* * * * * * * * *
28510234 GGTTGCGATAGTAGGATCAACAGCACACAAGGGCGATCGGGCTGATTCCCGGTTTGCGCATTCTG
1 GGTTGCGACACTAGGACCGACAGCACACAAGGGGGATC-GGCCGATCCCCGGATTACGCATTCTG
* * * * *
28510299 CCTCTTCGGCCGGCTGAGCGCCTGCACACCCATTTCGTGGGTTGGCTTAGGCATAGGGAGTTCAT
65 CCTCTTCGGCCGGCTGAGCGCCTGCACGCTCATTTTGTGGGTTGGCTTAGGCATACGAAGTTCAT
* **
28510364 TCCATGTCTAAGCCCCAGCCGGATTGAG
130 TCCATGTCTAAGCACCAGCCGGACCGAG
* * * * * *
28510392 GGTTGTGTCAGC-GGGACCG-CAGCACACAAAGGGGGATCGAGTCGATCCCCGGCTTACGCATTA
1 GGTTGCGACA-CTAGGACCGACAGCACAC-AAGGGGGATCG-GCCGATCCCCGGATTACGCATTC
* * * * *
28510455 TGCCTCTACGGCCGTGCTCAGTGCTTGCACGCTCATTTTGTGGGTTGACTTAGGCATACGAAGTT
63 TGCCTCTTCGGCCG-GCTGAGCGCCTGCACGCTCATTTTGTGGGTTGGCTTAGGCATACGAAGTT
* *
28510520 CATTCCCA-GTCTAAG-ATCAGATCGGACCGAG
127 CATT-CCATGTCTAAGCACCAG-CCGGACCGAG
* * * * * * *
28510551 GGTTGCGACACTAGGATCGATAGCACACAGGGGGGACCGGGCCGATCCCTGGATTTCTCATTCTG
1 GGTTGCGACACTAGGACCGACAGCACACAAGGGGGATC-GGCCGATCCCCGGATTACGCATTCTG
* * * * *
28510616 CCTTTTCGACTGGCTGAGCACCTGCACGCTCGTTTTGTGGGTTGGCTTAGGCATACGAAGTTCAT
65 CCTCTTCGGCCGGCTGAGCGCCTGCACGCTCATTTTGTGGGTTGGCTTAGGCATACGAAGTTCAT
28510681 TCCATGTCTAAGCA
130 TCCATGTCTAAGCA
28510695 TACGGAGTTC
Statistics
Matches: 240, Mismatches: 52, Indels: 21
0.77 0.17 0.07
Matches are distributed among these distances:
157 12 0.05
158 109 0.45
159 108 0.45
160 11 0.05
ACGTcount: A:0.19, C:0.26, G:0.29, T:0.25
Consensus pattern (157 bp):
GGTTGCGACACTAGGACCGACAGCACACAAGGGGGATCGGCCGATCCCCGGATTACGCATTCTGC
CTCTTCGGCCGGCTGAGCGCCTGCACGCTCATTTTGTGGGTTGGCTTAGGCATACGAAGTTCATT
CCATGTCTAAGCACCAGCCGGACCGAG
Found at i:28510703 original size:26 final size:26
Alignment explanation
Indices: 28510666--28510718 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28510656 GTTGGCTTAG
28510666 GCATACGAAGTTCATT-CCATGTCTAA
1 GCATACGAAGTTCATTCCCA-GTCTAA
*
28510692 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGAAGTTCATTCCCAGTCTAA
28510718 G
1 G
28510719 ATCGAATCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (26 bp):
GCATACGAAGTTCATTCCCAGTCTAA
Found at i:28511080 original size:26 final size:26
Alignment explanation
Indices: 28511044--28511096 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
28511034 GTTGACTTAG
*
28511044 GCATACGGAGTTCATCCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
*
28511070 GCATACAGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
28511096 G
1 G
28511097 ATCAAACTGA
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:0.28, G:0.19, T:0.25
Consensus pattern (26 bp):
GCATACAGAGTTCATCCCCAGTCTAA
Found at i:28513012 original size:26 final size:26
Alignment explanation
Indices: 28512976--28513028 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
28512966 GTTGACTTAG
28512976 GCATACAGAGTTCATCCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
* *
28513002 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
28513028 G
1 G
28513029 ATTGGACCAG
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:0.28, G:0.19, T:0.25
Consensus pattern (26 bp):
GCATACAGAGTTCATCCCCAGTCTAA
Found at i:28521209 original size:159 final size:158
Alignment explanation
Indices: 28520989--28521411 Score: 442
Period size: 159 Copynumber: 2.7 Consensus size: 158
28520979 AGAGGGGATT
* * * * * *
28520989 GGGCCAATCCCCGGCTTGTGCATTCTACCTCTCCGATCGGCTAAGCACCCTCATGCCCATTTCAT
1 GGGCCGATCCTCGGCTTGTGCATTCTGCCTCTCCGATCGGCTAAGCACCCGCACGCTCATTTCAT
* * * * * * **
28521054 GGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTGTAAGCCCCAG-TCGGA-CTGAGGGTTGTGG
66 GGGTTGGCTTAGGCATACGGAATTCATTCCATGTCTAAGCACCAGACCGAACCT-AGGGTTGCAG
* *
28521117 CAGC-GAGATCGATAGCATGCAGAGGGGGACC
130 CAGCAG-GATCGACAGCACGCAG-GGGGG-CC
* * *
28521148 GGGCCGATCCTCGGCTTGTGCATTATGCCTCTCCGATCGGCTCAGCGCCCGCACGCTCATTTCAT
1 GGGCCGATCCTCGGCTTGTGCATTCTGCCTCTCCGATCGGCTAAGCACCCGCACGCTCATTTCAT
* * *
28521213 GGGTTGACTTAGGCATATGGAATTCATTCCCA-GTCTAAG-ATCAGACCGAACCTAGGGTTGCAG
66 GGGTTGGCTTAGGCATACGGAATTCATT-CCATGTCTAAGCACCAGACCGAACCTAGGGTTGCAG
* *
28521276 TAGCAGGATTGACAGCACGCAGGGGGGCC
130 CAGCAGGATCGACAGCACGCAGGGGGGCC
* * * * * * * * *
28521305 GGGCTGATTCTCTGGCTTGCGCATTCTGCCTCCCCGATCGACTGAGCACCCGCACGTTCGTTTCG
1 GGGCCGATCCTC-GGCTTGTGCATTCTGCCTCTCCGATCGGCTAAGCACCCGCACGCTCATTTCA
* *
28521370 TGGGTTGGCTTAGGCATACGGACTTTATTCCATGTCTAAGCA
65 TGGGTTGGCTTAGGCATACGGAATTCATTCCATGTCTAAGCA
28521412 TACAGAGTTC
Statistics
Matches: 219, Mismatches: 38, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
157 15 0.07
158 83 0.38
159 115 0.53
160 6 0.03
ACGTcount: A:0.19, C:0.28, G:0.29, T:0.25
Consensus pattern (158 bp):
GGGCCGATCCTCGGCTTGTGCATTCTGCCTCTCCGATCGGCTAAGCACCCGCACGCTCATTTCAT
GGGTTGGCTTAGGCATACGGAATTCATTCCATGTCTAAGCACCAGACCGAACCTAGGGTTGCAGC
AGCAGGATCGACAGCACGCAGGGGGGCC
Found at i:28521816 original size:26 final size:26
Alignment explanation
Indices: 28521764--28521816 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28521754 GTTGGCTTAG
*
28521764 GCATACAGAGTTCATTCCATGTCTAA
1 GCATACAGAGTTCATTCCATGTATAA
*
28521790 GCATACGGAGTTCATTCCCA-GTATAA
1 GCATACAGAGTTCATT-CCATGTATAA
28521816 G
1 G
28521817 ATCAGACCGA
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:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCATGTATAA
Found at i:28522170 original size:26 final size:26
Alignment explanation
Indices: 28522118--28522170 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
28522108 GTTGGCTTAG
* *
28522118 GCATACAGAGTTCATTCCATGTCTAA
1 GCATACAGAGCTCATTCCATGTATAA
*
28522144 GCATACGGAGCTCATTCCCA-GTATAA
1 GCATACAGAGCTCATT-CCATGTATAA
28522170 G
1 G
28522171 ATCAGACCGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 20 0.87
27 3 0.13
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (26 bp):
GCATACAGAGCTCATTCCATGTATAA
Found at i:28522523 original size:26 final size:26
Alignment explanation
Indices: 28522487--28522538 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
28522477 TGACTTAGGC
*
28522487 ATACGGAGTTCATCCCCAGTCTAAGA
1 ATACGAAGTTCATCCCCAGTCTAAGA
*
28522513 ATACGAAGTTCATTCCCAGTCTAAGA
1 ATACGAAGTTCATCCCCAGTCTAAGA
28522539 TCAGACTGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (26 bp):
ATACGAAGTTCATCCCCAGTCTAAGA
Found at i:28522877 original size:26 final size:26
Alignment explanation
Indices: 28522828--28522880 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28522818 TTTGACTTTT
*
28522828 GCATACGAAGTTCATTCTATGTCTAA
1 GCATACGAAGTTCATTCCATGTCTAA
*
28522854 GCATACGGAGTTCATTCCCA-GTCTAA
1 GCATACGAAGTTCATT-CCATGTCTAA
28522880 G
1 G
28522881 ATCGAACCGT
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:0.23, G:0.19, T:0.30
Consensus pattern (26 bp):
GCATACGAAGTTCATTCCATGTCTAA
Found at i:28523022 original size:355 final size:353
Alignment explanation
Indices: 28521587--28523200 Score: 1433
Period size: 355 Copynumber: 4.5 Consensus size: 353
28521577 CACATGCCCA
* *
28521587 TTTTATGGGTTGTCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCAGCTGGACTGAGGGTT
1 TTTTATGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCAGCTGGACCGAGGGTT
* * * ** *
28521652 GTGGCAGTGGGACC-GATAGCACGCAGAGGGGGATCGGGCCAATCCCC-AGTTTGCGCATTATGC
66 GTGGCAGCGGGACCTG-CAGCACGCAGAGGGGGACCGGGCTGATCCCCGA-CTTGCGCATTATGC
*** * * *
28521715 CTC-TCTGGCTAGCTCAACGCTCGCACGCTCGTTTCATGGGTTGGCTTAGGCATAC-AGAGTTCA
129 CTCTTCAATC-AGCTCGA-GCCCGCACGCTCGTTTCATGGGTTGACTTAGGCATACGA-AGTTCA
* *
28521778 TTCCATGTCTAAGCATACGGAGTTCATTCCCAGTATAAGATCAGACCGAATCGAGGGTTGCAGTA
191 TTCCATGTCTAAGCATACGGAGTTCATTCCCAGTATAAGATCAGACCGAACCAAGGGTTGCAGTA
* * * * * *
28521843 GCAGGACCAGCAGTAGGATCGACAGCATGCAGGGGGGATCGGGCCTATCCTCGGCTTACGCATTC
256 GCAGGACCAGCAGCAGGATCGACAGCACGCAGGGGGGACCGGGCCGATCCCCGGCTTGCGCATTC
* * * * **
28521908 TGCCTCTCCGGCCGGTTGAGTGCCCACACACTTA
321 TGCCTTTCCGGCCGGCTGAGTGCCCGCAGAC-CG
** ** * *
28521942 TTTTATGGGTTGGCTTAGGCATACAGAGTTCATTCCCA-GTCTAAG-ATCGGATCGGACCGAGGG
1 TTTTATGGGTTGGCTTAGGCATAGGGAGTTCATT-CCATGTCTAAGCCCCAGCT-GGACCGAGGG
* ** * * * * *
28522005 TTGCGGCAGCAAGA-TTGACAGCACGC-GGGGGGGACC-GGATCGATCCCC-AGCTTGTGCATTC
64 TTGTGGCAGCGGGACCTG-CAGCACGCAGAGGGGGACCGGGCT-GATCCCCGA-CTTGCGCATTA
* * *
28522066 TGCCTCTCCGATC-GACT-GAGCGCTCGCACGCTCGTTTCATGGGTTGGCTTAGGCATAC-AGAG
126 TGCCTCTTCAATCAG-CTCGAGC-C-CGCACGCTCGTTTCATGGGTTGACTTAGGCATACGA-AG
* *
28522128 TTCATTCCATGTCTAAGCATACGGAGCTCATTCCCAGTATAAGATCAGACCGAACCGAGGGTTGC
187 TTCATTCCATGTCTAAGCATACGGAGTTCATTCCCAGTATAAGATCAGACCGAACCAAGGGTTGC
* * * ** * * * * * *
28522193 AATAACAGGACCAGCAACAGGATCGGTAGCACGTAGGAGGGATCGGGCCGATCCTCGGGTTGCAC
252 AGTAGCAGGACCAGCAGCAGGATCGACAGCACGCAGGGGGGACCGGGCCGATCCCCGGCTTGCGC
* * * * ** *
28522258 ATTTTG-CTTCTCCGGTCGGTTAAGCACCCGCACACTCG
317 ATTCTGCCTT-TCCGGCCGGCTGAGTGCCCGCAGAC-CG
* * * * * *
28522296 TTTTGTGGGTTGGCTTAGCCATACGGAGTTCATTCTATGTCTAAGCCCCAGTTGGACCGAGAGTT
1 TTTTATGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCAGCTGGACCGAGGGTT
* * *
28522361 GTGGCAGCAGTATCGGCAGCGGGATCAGCAGCATGCAGAGGGGGACCGGGCTGATCCCCGGCTTG
66 GTGGCAGC-G----GG-A-C-----CTGCAGCACGCAGAGGGGGACCGGGCTGATCCCCGACTTG
* * *
28522426 TGCATTATGCCTC-TCTAA-CAGGCT-GAGCGCCCGCATGCTCGTTTCGTGGGTTGACTTAGGCA
119 CGCATTATGCCTCTTC-AATCA-GCTCGA--GCCCGCACGCTCGTTTCATGGGTTGACTTAGGCA
* * * * * * * *
28522488 TACGGAGTTCATCCCCA-GTCTAAGAATACGAAGTTCATTCCCAGTCTAAGATCAGACTGGATCA
180 TACGAAGTTCAT-TCCATGTCTAAGCATACGGAGTTCATTCCCAGTATAAGATCAGACCGAACCA
* *
28522552 AGGG-T----T-GC--G---A-CAGCAGGATCGACAGCACGCAGGGGGGACTGGGCTGATCCCCG
244 AGGGTTGCAGTAGCAGGACCAGCAGCAGGATCGACAGCACGCAGGGGGGACCGGGCCGATCCCCG
* * *
28522605 GCTTGCGCATTCTGCCTCTT-TGGCCGACTGAGTGCCCGTACG-CCTG
309 GCTTGCGCATTCTGCCT-TTCCGGCCGGCTGAGTGCCCGCA-GACC-G
** * *
28522651 TTTCGTGGGTTGGCTTAGGCATAGGGAGTTTATTCGATGTCTAAGCCCCAGCTGGACCGAGGGTT
1 TTTTATGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCAGCTGGACCGAGGGTT
* * **
28522716 GTGGCAGCGGGACCTGCAGCACGTAAAGGGGGACCGGGCTGATCCCCGACTTGCATATTATGCCT
66 GTGGCAGCGGGACCTGCAGCACGCAGAGGGGGACCGGGCTGATCCCCGACTTGCGCATTATGCCT
* * ** *
28522781 CTTCAATCAGCTCCGAGCCCGCACGCTCGTTTCGTGGTTTGACTTTTGCATACGAAGTTCATTCT
131 CTTCAATCAGCT-CGAGCCCGCACGCTCGTTTCATGGGTTGACTTAGGCATACGAAGTTCATTCC
* * * *
28522846 ATGTCTAAGCATACGGAGTTCATTCCCAGTCTAAGATC-GAACCGTACCAAGGGTTGCGGCAGCA
195 ATGTCTAAGCATACGGAGTTCATTCCCAGTATAAGATCAG-ACCGAACCAAGGGTTGCAGTAGCA
* * * *
28522910 GGACCAGCAGCAGGATCAACAGCACGTAGGGGGGACCGGGTCGATCCCCGGCTTGCGCATTTTGC
259 GGACCAGCAGCAGGATCGACAGCACGCAGGGGGGACCGGGCCGATCCCCGGCTTGCGCATTCTGC
* *
28522975 CTTTCCGACCAGCTGAGTGCCCGCATGACCG
324 CTTTCCGGCCGGCTGAGTGCCCGCA-GACCG
* * *
28523006 TTTCATGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCAACCGGACCGAGGGTT
1 TTTTATGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCAGCTGGACCGAGGGTT
* * * * * * * *
28523071 GTGGCAGCGGGATCGGTAGCACGTAGAGGGGGACTGAGCTGATCCTCGACTTACGCATTATGCCT
66 GTGGCAGCGGGACCTGCAGCACGCAGAGGGGGACCGGGCTGATCCCCGACTTGCGCATTATGCCT
* ** * * * *
28523136 CTCCAGCCGGCTC-ATCACCCGAACGCTCGTTTCATGGGTTGACTTAGGCATACGGAGTTCATTC
131 CTTCAATCAGCTCGA--GCCCGCACGCTCGTTTCATGGGTTGACTTAGGCATACGAAGTTCATTC
28523200 C
194 C
28523201 CAATCTAAGA
Statistics
Matches: 1024, Mismatches: 175, Indels: 120
0.78 0.13 0.09
Matches are distributed among these distances:
342 3 0.00
343 135 0.13
344 5 0.00
345 2 0.00
348 1 0.00
349 3 0.00
350 2 0.00
351 1 0.00
352 2 0.00
353 9 0.01
354 276 0.27
355 431 0.42
356 9 0.01
357 1 0.00
359 2 0.00
360 1 0.00
361 1 0.00
362 1 0.00
366 10 0.01
367 119 0.12
368 8 0.01
369 2 0.00
ACGTcount: A:0.20, C:0.26, G:0.29, T:0.24
Consensus pattern (353 bp):
TTTTATGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCAGCTGGACCGAGGGTT
GTGGCAGCGGGACCTGCAGCACGCAGAGGGGGACCGGGCTGATCCCCGACTTGCGCATTATGCCT
CTTCAATCAGCTCGAGCCCGCACGCTCGTTTCATGGGTTGACTTAGGCATACGAAGTTCATTCCA
TGTCTAAGCATACGGAGTTCATTCCCAGTATAAGATCAGACCGAACCAAGGGTTGCAGTAGCAGG
ACCAGCAGCAGGATCGACAGCACGCAGGGGGGACCGGGCCGATCCCCGGCTTGCGCATTCTGCCT
TTCCGGCCGGCTGAGTGCCCGCAGACCG
Found at i:28523340 original size:158 final size:159
Alignment explanation
Indices: 28523004--28523367 Score: 419
Period size: 158 Copynumber: 2.3 Consensus size: 159
28522994 CCCGCATGAC
* * * *
28523004 CGTTTCATGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCAACCGGACCGAGGG
1 CGTTTCATGGGTTGGCTTAGGCATACGGAGTTCATTCCATATCTAAGACCCAACCGAACCGAGGG
* * * * *
28523069 TTGTGGCAGCGGGATCGGTAGCACGTAGAGGGGGACTGAGCTGATCCTCGACTTACGCATTATGC
66 TTGCGACAGCAGGATCGATAGCACGCAGAGGGGGACTGAGCTGATCCTCGACTTACGCATTATGC
*
28523134 CTCTCCAGCCGGCTCATCACCCGAACGCT
131 CTCTCCAGCCGGCTCAGCACCCGAACGCT
* * ** *
28523163 CGTTTCATGGGTTGACTTAGGCATACGGAGTTCATTCCCA-ATCTAAGATCGGACTGAACCGAGG
1 CGTTTCATGGGTTGGCTTAGGCATACGGAGTTCATT-CCATATCTAAGACCCAACCGAACCGAGG
* * * ** *
28523227 GTTGCGATAGCAGGATTGATAGCACGCAG-GGGGGACT-AGGTCGATCCTCGACTTGTGCATTCT
65 GTTGCGACAGCAGGATCGATAGCACGCAGAGGGGGACTGAGCT-GATCCTCGACTTACGCATTAT
** * * * *
28523290 GCCTCTCTGGCTGGCTGAGCGCCCGTACGCT
129 GCCTCTCCAGCCGGCTCAGCACCCGAACGCT
* * *
28523321 CGTTTCGTGGGTTGGCTTAGGCATACGGAGTTCACTCCATGTCTAAG
1 CGTTTCATGGGTTGGCTTAGGCATACGGAGTTCATTCCATATCTAAG
28523368 CATACGAAGT
Statistics
Matches: 171, Mismatches: 31, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
157 6 0.04
158 89 0.52
159 73 0.43
160 3 0.02
ACGTcount: A:0.19, C:0.26, G:0.30, T:0.25
Consensus pattern (159 bp):
CGTTTCATGGGTTGGCTTAGGCATACGGAGTTCATTCCATATCTAAGACCCAACCGAACCGAGGG
TTGCGACAGCAGGATCGATAGCACGCAGAGGGGGACTGAGCTGATCCTCGACTTACGCATTATGC
CTCTCCAGCCGGCTCAGCACCCGAACGCT
Found at i:28523370 original size:26 final size:26
Alignment explanation
Indices: 28523341--28523393 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28523331 GTTGGCTTAG
*
28523341 GCATACGGAGTTCACT-CCATGTCTAA
1 GCATACGAAGTTCACTCCCA-GTCTAA
*
28523367 GCATACGAAGTTCATTCCCAGTCTAA
1 GCATACGAAGTTCACTCCCAGTCTAA
28523393 G
1 G
28523394 ATCGGACTGG
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:0.26, G:0.19, T:0.26
Consensus pattern (26 bp):
GCATACGAAGTTCACTCCCAGTCTAA
Found at i:28524064 original size:159 final size:158
Alignment explanation
Indices: 28523627--28524067 Score: 460
Period size: 159 Copynumber: 2.8 Consensus size: 158
28523617 AGGGTTGCGG
* * *** * *
28523627 CAGCATGC-AGGGGGACCGGGCCGGTCCCTGGCTTGCATATTCTGCCTCTCTGGTCGGCTGAGCG
1 CAGCATGCAAGGGGGACCGGGCCGATCCCCGGCTTGTGCATTCTGCCTCTCCGATCGGCTGAGCG
* * * * * *
28523691 CCCGCACGCCCATTTCATGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGCCTAAGCCCCAGCC
66 CCCGCACGCTCGTTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCACCAGCC
* ** * *
28523756 AGATCGAGGGTTGGGGGAGCGGCACCGG
131 AGACCGAGGGTTACGGCAGCGGCACCGA
* * * * **
28523784 CAGCACGCAGAGGGGGATCGGGCCGATCCCCGGCTTGTGCATTATGCCTCTCC-AGCTGGCCCAG
1 CAGCATGCA-AGGGGGACCGGGCCGATCCCCGGCTTGTGCATTCTGCCTCTCCGATC-GGCTGAG
* * * * * *
28523848 CGCCCGTACGCTCGTTTCGTGGGATGACTTAGGCATACAGAGTTCATTCCCA-ATCTAAG-ATCA
64 CGCCCGCACGCTCGTTTCGTGGGTTGGCTTAGGCATACGGAGTTCATT-CCATGTCTAAGCACCA
* *
28523911 GATCAGACCGAGGGTTACGGCAGCAGG-ATCGA
128 G-CCAGACCGAGGGTTACGGCAGC-GGCACCGA
* *
28523943 CAGCATGCAAGGGGGAACCGAGCCGATCCCCGGCTTGTGCATTCTGCCTCTCCGATCGGCTGAAC
1 CAGCATGCAAGGGGG-ACCGGGCCGATCCCCGGCTTGTGCATTCTGCCTCTCCGATCGGCTGAGC
* * *
28524008 GCCCACATGCTCGTTTCGTGGGTTGGCTTAGGCATACGGAGTTTATTCCATGTCTAAGCA
65 GCCCGCACGCTCGTTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCA
28524068 TACGGAGTTC
Statistics
Matches: 226, Mismatches: 48, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
157 7 0.03
158 13 0.06
159 198 0.88
160 8 0.04
ACGTcount: A:0.18, C:0.29, G:0.31, T:0.22
Consensus pattern (158 bp):
CAGCATGCAAGGGGGACCGGGCCGATCCCCGGCTTGTGCATTCTGCCTCTCCGATCGGCTGAGCG
CCCGCACGCTCGTTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCACCAGCC
AGACCGAGGGTTACGGCAGCGGCACCGA
Found at i:28524068 original size:26 final size:26
Alignment explanation
Indices: 28524039--28524091 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
28524029 GTTGGCTTAG
*
28524039 GCATACGGAGTTTATT-CCATGTCTAA
1 GCATACGGAGTTCATTCCCA-GTCTAA
28524065 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
28524091 G
1 G
28524092 ATCAGATCGG
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:0.23, G:0.21, T:0.30
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:28525008 original size:26 final size:26
Alignment explanation
Indices: 28524970--28525022 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28524960 GTTGACTTAG
28524970 GCATACGGAGTTCATCCCCAATCTAA
1 GCATACGGAGTTCATCCCCAATCTAA
* *
28524996 GCATACAGG-GTTCATTCCCAGTCTAA
1 GCATAC-GGAGTTCATCCCCAATCTAA
28525022 G
1 G
28525023 ATCGGATCGG
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:0.28, G:0.19, T:0.25
Consensus pattern (26 bp):
GCATACGGAGTTCATCCCCAATCTAA
Done.