Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168080.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_328, 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: 34399
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.25
Found at i:271 original size:26 final size:26
Alignment explanation
Indices: 235--286 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
225 TGGCTCAGGC
235 ATACGGAGTTCATT-CCATGTCTAAGA
1 ATACGGAGTTCATTCCCA-GTCTAAGA
261 ATACGGAGTTCATTCCCAGTCTAAGA
1 ATACGGAGTTCATTCCCAGTCTAAGA
287 TCGGATCGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (26 bp):
ATACGGAGTTCATTCCCAGTCTAAGA
Found at i:822 original size:26 final size:26
Alignment explanation
Indices: 785--837 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
775 GTTGACTTAG
785 GCATACGAAGTTCATCCCCAGTCTAA
1 GCATACGAAGTTCATCCCCAGTCTAA
*
811 GCATAC-AGAGTTCATTCCCAGTCTAA
1 GCATACGA-AGTTCATCCCCAGTCTAA
837 G
1 G
838 ATTAAACCGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 1 0.04
26 24 0.96
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (26 bp):
GCATACGAAGTTCATCCCCAGTCTAA
Found at i:2336 original size:158 final size:159
Alignment explanation
Indices: 2039--2345 Score: 366
Period size: 158 Copynumber: 1.9 Consensus size: 159
2029 CCCCAGTCGG
** * **
2039 ATCGAGGGTTGTGGCAGTGGGATCGACAGCATGCAGAGGGGGACTGAGTTGATCCCCAGCTTGTG
1 ATCGAGGGTTGTGGCAGCAGGATCGACAGCACGCAGAGGGGGACTGAGCCGATCCCCAGCTTGTG
* * * * *
2104 AATTATGCCTCTCCGGTCGGCTCAGCGCCCGAACGCTCATTTCATGGGTTGACTTAGGCATACGG
66 AATTATGCCTCTCCGATCGACTCAGCCCCCGAACGCTCATTTCATGGGTTGACTTACGCATACGA
2169 AGTTCATTCCCA-GTCTAAGATTGGACCAA
131 AGTTCATT-CCATGTCTAAGATTGGACCAA
* * * * * *
2198 ATCGAGGGTTGTGGTAGCAGGATCGATAGCACGTAG-GGGGGACTGGGCCGGTCCCCGGCTTGTG
1 ATCGAGGGTTGTGGCAGCAGGATCGACAGCACGCAGAGGGGGACTGAGCCGATCCCCAGCTTGTG
* * * * * * * *
2262 CATTCTGCCTCTCCGATCGACTGAGCCCCCGCACGTTCGTTTCATGGGTTGGCTTACGCATATGA
66 AATTATGCCTCTCCGATCGACTCAGCCCCCGAACGCTCATTTCATGGGTTGACTTACGCATACGA
*
2327 AGTTTATTCCATGTCTAAG
131 AGTTCATTCCATGTCTAAG
2346 CATACGAAGT
Statistics
Matches: 122, Mismatches: 25, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
157 3 0.02
158 89 0.73
159 30 0.25
ACGTcount: A:0.19, C:0.24, G:0.31, T:0.26
Consensus pattern (159 bp):
ATCGAGGGTTGTGGCAGCAGGATCGACAGCACGCAGAGGGGGACTGAGCCGATCCCCAGCTTGTG
AATTATGCCTCTCCGATCGACTCAGCCCCCGAACGCTCATTTCATGGGTTGACTTACGCATACGA
AGTTCATTCCATGTCTAAGATTGGACCAA
Found at i:2371 original size:26 final size:26
Alignment explanation
Indices: 2319--2371 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
2309 GTTGGCTTAC
* * *
2319 GCATATGAAGTTTATTCCATGTCTAA
1 GCATACGAAGTTCATTCCATGTATAA
2345 GCATACGAAGTTCATTCC-TAGTATAA
1 GCATACGAAGTTCATTCCAT-GTATAA
2371 G
1 G
2372 ATCTAATCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 1 0.04
26 22 0.96
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (26 bp):
GCATACGAAGTTCATTCCATGTATAA
Found at i:2545 original size:26 final size:26
Alignment explanation
Indices: 2515--2567 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
2505 GTTGACTTAG
2515 GCATACGGAGTTCATCCCCAGTCTAA
1 GCATACGGAGTTCATCCCCAGTCTAA
2541 GCATACGGAGTTCATCCCCAGTCTAA
1 GCATACGGAGTTCATCCCCAGTCTAA
2567 G
1 G
2568 ATCTAACCAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (26 bp):
GCATACGGAGTTCATCCCCAGTCTAA
Found at i:2829 original size:159 final size:159
Alignment explanation
Indices: 2604--3402 Score: 823
Period size: 159 Copynumber: 5.0 Consensus size: 159
2594 GCAAGATCGG
* * * *
2604 CAGCACGCAG-GGGGGACCGGGCCGATCC-CTGGCTTGCGCATTCTGCCTCTCCAGCCGGTTGAG
1 CAGCACGCAGAGGGGGACCGGGTCGATCCTC-GGCTTGCGCATTCTGCCTCTCCGGTCGGCTGAG
* *
2667 CGCCCGCACGCCCGTTTCGTGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCAG
65 CGCCCGCACGCTCGTTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCCCCAG
* *
2732 TCGGACCGAGGGTTGTGGCAATAGGACCGG
130 TCGGACCGAGGGTTGTGGCAGTAGGACCGA
* *
2762 CAGCACGCAGAGGGGGACCGGG-CTGATCCTCGGCTTGTGCATTCTGCCTCTCTGGTCGGCTGAG
1 CAGCACGCAGAGGGGGACCGGGTC-GATCCTCGGCTTGCGCATTCTGCCTCTCCGGTCGGCTGAG
* *
2826 CGCCCGCACGCTCGTTTCATGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCAG
65 CGCCCGCACGCTCGTTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCCCCAG
*
2891 -CTGGACCGAGGGTTGTGGCAGTCGGACCGA
130 TC-GGACCGAGGGTTGTGGCAGTAGGACCGA
* * *
2921 CAGCACGCAGAGGGGGACCGGGTCGAT-CTCCAGCTTGCGCATTATGCCTCTCCGG-CTGGCTTA
1 CAGCACGCAGAGGGGGACCGGGTCGATCCT-CGGCTTGCGCATTCTGCCTCTCCGGTC-GGCTGA
* * * * * **
2984 ACGCCCGCACGCTCATTTCGTGGATTGACTTAGGCATACGGAGTTCGTTCCCA-GTCTAAGATCC
64 GCGCCCGCACGCTCGTTTCGTGGGTTGGCTTAGGCATACGGAGTTCATT-CCATGTCTAAGCCCC
* * *
3048 -GATCGGACCGAGGGTTGCGGTAGTAGGATCGA
128 AG-TCGGACCGAGGGTTGTGGCAGTAGGACCGA
* * * *
3080 CAGCACGCA-AGGGGGACCGTGTCGATCCTCGGCTTGCTCATTCTGCCTCTCTGGTCAGCTGAGC
1 CAGCACGCAGAGGGGGACCGGGTCGATCCTCGGCTTGCGCATTCTGCCTCTCCGGTCGGCTGAGC
* **
3144 GCCCGCACGCTCGTTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCCA-ATCTAAG-ATCAG
66 GCCCGCACGCTCGTTTCGTGGGTTGGCTTAGGCATACGGAGTTCATT-CCATGTCTAAGCCCCAG
* * * *
3207 ACCGGACCGAGGGTTACGGCAGCAGGACCAGCAGTAGGATCGG
130 -TCGGACCGAGGGTT------G--TG----GCAGTAGGACCGA
* * * * * * *
3250 CAGCACGCAG-GGGGGACCGAGTCGATCCTTGGCTTGCACATTCTACCTCTTCGG-CCGCTGAGT
1 CAGCACGCAGAGGGGGACCGGGTCGATCCTCGGCTTGCGCATTCTGCCTCTCCGGTCGGCTGAGC
* * * * * * * *
3313 GCCTGCACGCTTGTTTCATGGGTTGGCTTAGGCATACAGAGTTCATTCCATGTCAAAGCTCTAGC
66 GCCCGCACGCTCGTTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCCCCAGT
* * *
3378 CGAACTGAGGGTTGTGGCAGCAGGA
131 CGGACCGAGGGTTGTGGCAGTAGGA
3403 TCGGCAGCGG
Statistics
Matches: 545, Mismatches: 68, Indels: 57
0.81 0.10 0.09
Matches are distributed among these distances:
157 9 0.02
158 126 0.23
159 270 0.50
160 6 0.01
161 1 0.00
163 1 0.00
164 1 0.00
166 1 0.00
168 3 0.01
169 67 0.12
170 60 0.11
ACGTcount: A:0.17, C:0.28, G:0.32, T:0.22
Consensus pattern (159 bp):
CAGCACGCAGAGGGGGACCGGGTCGATCCTCGGCTTGCGCATTCTGCCTCTCCGGTCGGCTGAGC
GCCCGCACGCTCGTTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCCCCAGT
CGGACCGAGGGTTGTGGCAGTAGGACCGA
Found at i:3216 original size:317 final size:317
Alignment explanation
Indices: 2541--3221 Score: 862
Period size: 317 Copynumber: 2.1 Consensus size: 317
2531 CCCAGTCTAA
* * * * *
2541 GCATACGGAGTTCATCCCCAGTCTAAGATCTA-ACCAGACCGAGAGTTGCAACAGCAAGATCGGC
1 GCATACGGAGTTCATTCCCAGTCTAAGATC-AGACCGGACCGAGGGTTGCAACAGCAAGACCGAC
* * *
2605 AGCACGCAGGGGGGACCGGGCCGATCCCTGGCTTGCGCATTCTGCCTCTCCAGCCGGTTGAGCGC
65 AGCACGCAGGGGGGACCGGGCCGATCCCTAGCTTGCGCATTATGCCTCTCCAGCCGGTTGAACGC
* * * *
2670 CCGCACGCCCGTTTCGTGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCAGTCG
130 CCGCACGCCCATTTCGTGGATTGACTTAGGCATACGGAGTTCATTCCATGTCTAAGCCCCAGTCG
* *
2735 GACCGAGGGTTGTGGCAATAGGACCGGCAGCACGCAGAGGGGGACCGGGCTGATCCTCGGCTTGT
195 GACCGAGGGTTGCGGCAATAGGACCGACAGCACGCAGAGGGGGACCGGGCTGATCCTCGGCTTGT
*
2800 GCATTCTGCCTCTCTGGTCGGCTGAGCGCCCGCACGCTCGTTTCATGGGTTGGCTTAG
260 GCATTCTGCCTCTCTGGTCAGCTGAGCGCCCGCACGCTCGTTTCATGGGTTGGCTTAG
* ** * *** *
2858 GCATAGGGAGTTCATT-CCATGTCTAAGCCCCAG-CTGGACCGAGGGTTGTGGCAGTC-GGACCG
1 GCATACGGAGTTCATTCCCA-GTCTAAG-ATCAGACCGGACCGAGGGTTGCAACAG-CAAGACCG
* * *
2920 ACAGCACGCAGAGGGGGACCGGGTCGATCTCC-AGCTTGCGCATTATGCCTCTCCGGCTGGCTT-
63 ACAGCACGCAG-GGGGGACCGGGCCGATC-CCTAGCTTGCGCATTATGCCTCTCCAGCCGG-TTG
* * **
2983 AACGCCCGCACGCTCATTTCGTGGATTGACTTAGGCATACGGAGTTCGTTCCCA-GTCTAAGATC
125 AACGCCCGCACGCCCATTTCGTGGATTGACTTAGGCATACGGAGTTCATT-CCATGTCTAAGCCC
* * * *
3047 C-GATCGGACCGAGGGTTGCGGTAGTAGGATCGACAGCACGCA-AGGGGGACCGTG-TCGATCCT
189 CAG-TCGGACCGAGGGTTGCGGCAATAGGACCGACAGCACGCAGAGGGGGACCGGGCT-GATCCT
*
3109 CGGCTTGCT-CATTCTGCCTCTCTGGTCAGCTGAGCGCCCGCACGCTCGTTTCGTGGGTTGGCTT
252 CGGCTTG-TGCATTCTGCCTCTCTGGTCAGCTGAGCGCCCGCACGCTCGTTTCATGGGTTGGCTT
3173 AG
316 AG
*
3175 GCATACGGAGTTCATTCCCAATCTAAGATCAGACCGGACCGAGGGTT
1 GCATACGGAGTTCATTCCCAGTCTAAGATCAGACCGGACCGAGGGTT
3222 ACGGCAGCAG
Statistics
Matches: 311, Mismatches: 40, Indels: 26
0.82 0.11 0.07
Matches are distributed among these distances:
316 7 0.02
317 165 0.53
318 132 0.42
319 7 0.02
ACGTcount: A:0.18, C:0.29, G:0.31, T:0.22
Consensus pattern (317 bp):
GCATACGGAGTTCATTCCCAGTCTAAGATCAGACCGGACCGAGGGTTGCAACAGCAAGACCGACA
GCACGCAGGGGGGACCGGGCCGATCCCTAGCTTGCGCATTATGCCTCTCCAGCCGGTTGAACGCC
CGCACGCCCATTTCGTGGATTGACTTAGGCATACGGAGTTCATTCCATGTCTAAGCCCCAGTCGG
ACCGAGGGTTGCGGCAATAGGACCGACAGCACGCAGAGGGGGACCGGGCTGATCCTCGGCTTGTG
CATTCTGCCTCTCTGGTCAGCTGAGCGCCCGCACGCTCGTTTCATGGGTTGGCTTAG
Found at i:3390 original size:169 final size:169
Alignment explanation
Indices: 3069--3476 Score: 459
Period size: 169 Copynumber: 2.4 Consensus size: 169
3059 GGGTTGCGGT
* * * *
3069 AGTAGGATCGACAGCACGCAAGGGGGACCGTGTCGATCCTCGGCTTGCTCATTCTGCCTC-TCTG
1 AGTAGGATCGACAGCACGCAGGGGGGACCGAGTCGATCCTTGGCTTGCACATTCTGCCTCTTC-G
* * *
3133 GTCAGCTGAGCGCCCGCACGCTCGTTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCCAATC
65 G-CCGCTGAGCGCCCGCACGCTCGTTTCATGGGTTGGCTTAGGCATACAGAGTTCATTCCCAATC
* *
3198 TAAGATCAGACCGGACCGAGGGTTACGGCAGCAGGACCAGC
129 AAAGATCAGACCGAACCGAGGGTTACGGCAGCAGGACCAGC
* *
3239 AGTAGGATCGGCAGCACGCAGGGGGGACCGAGTCGATCCTTGGCTTGCACATTCTACCTCTTCGG
1 AGTAGGATCGACAGCACGCAGGGGGGACCGAGTCGATCCTTGGCTTGCACATTCTGCCTCTTCGG
* * * *
3304 CCGCTGAGTGCCTGCACGCTTGTTTCATGGGTTGGCTTAGGCATACAGAGTTCATT-CCATGTCA
66 CCGCTGAGCGCCCGCACGCTCGTTTCATGGGTTGGCTTAGGCATACAGAGTTCATTCCCA-ATCA
* * ** * *
3368 AAGCTCTAG-CCGAACTGAGGGTTGTGGCAGCAGGATCGGC
130 AAGATC-AGACCGAACCGAGGGTTACGGCAGCAGGACCAGC
** * * * *
3408 AGCGGGATCGACAGCATGC-GGAGGGGAATCGAG-CTGATTCC-TGGCTTGCACATTATGCCACT
1 AGTAGGATCGACAGCACGCAGG-GGGG-ACCGAGTC-GA-TCCTTGGCTTGCACATTCTGCCTCT
3470 TCGGCCG
62 TCGGCCG
3477 GCCTCTCTGG
Statistics
Matches: 202, Mismatches: 29, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
168 5 0.02
169 102 0.50
170 90 0.45
171 5 0.02
ACGTcount: A:0.19, C:0.27, G:0.31, T:0.22
Consensus pattern (169 bp):
AGTAGGATCGACAGCACGCAGGGGGGACCGAGTCGATCCTTGGCTTGCACATTCTGCCTCTTCGG
CCGCTGAGCGCCCGCACGCTCGTTTCATGGGTTGGCTTAGGCATACAGAGTTCATTCCCAATCAA
AGATCAGACCGAACCGAGGGTTACGGCAGCAGGACCAGC
Found at i:4303 original size:26 final size:26
Alignment explanation
Indices: 4267--4319 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
4257 GTTGACTTAG
*
4267 GCATACGGAGTTTATCCCCAGTCTAA
1 GCATACGGAGTTCATCCCCAGTCTAA
* *
4293 GCATACGGAGTTCATTCTCAGTCTAA
1 GCATACGGAGTTCATCCCCAGTCTAA
4319 G
1 G
4320 ATCAGACCGG
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:0.25, G:0.21, T:0.28
Consensus pattern (26 bp):
GCATACGGAGTTCATCCCCAGTCTAA
Found at i:4613 original size:159 final size:159
Alignment explanation
Indices: 4437--4796 Score: 383
Period size: 158 Copynumber: 2.3 Consensus size: 159
4427 TGCCTGTTTC
* * * *
4437 ATGGGTTGGCTTAGGCATAGGGAGTTCATTCCTTGTCTAAGCCCCA-ACCAGACCGAGGGTTGTG
1 ATGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCACCAGACCAGACCGAGGGTTGCG
** * * * *
4501 ACAGCGGGA-CTAGCAGCACGCAGAGGGGGACTAAGTCGATCCCT-GACTTGCGCATTATGCCTC
66 ACAGCAAGATCTA-CAGCACGCAG-GGGGGACCAAGTCGATCCCTAG-CTTACGCAGTAGGCCTC
*
4564 TCC-GACCGGCTC-AGCGCCCACACGCTCATTTA
128 TCCAG-CCGGC-CGAGCGCCCACACGCTCATGTA
** * * * *
4596 ATGGGTTAACTTAGGCATACGAAGTTTATTCCCA-GTCTAAG-ATCAGACTAGACCGAGGGTTGC
1 ATGGGTTGGCTTAGGCATACGGAGTTCATT-CCATGTCTAAGCACCAGACCAGACCGAGGGTTGC
* * * *
4659 GGCAGCAAGATCTACAGCACGCAGGGGGGACCAGGTCGGTCCCTAGCTTACGCAGTCGGCCTCTC
65 GACAGCAAGATCTACAGCACGCAGGGGGGACCAAGTCGATCCCTAGCTTACGCAGTAGGCCTCTC
* ** *
4724 CAGTCGGCCGAGCGCCTGCACGCTCATGTC
130 CAGCCGGCCGAGCGCCCACACGCTCATGTA
*
4754 GTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCA
1 ATGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCA
4797 TATGGAGTTC
Statistics
Matches: 163, Mismatches: 30, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
157 4 0.02
158 87 0.53
159 67 0.41
160 5 0.03
ACGTcount: A:0.22, C:0.28, G:0.29, T:0.22
Consensus pattern (159 bp):
ATGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCACCAGACCAGACCGAGGGTTGCG
ACAGCAAGATCTACAGCACGCAGGGGGGACCAAGTCGATCCCTAGCTTACGCAGTAGGCCTCTCC
AGCCGGCCGAGCGCCCACACGCTCATGTA
Found at i:4804 original size:26 final size:26
Alignment explanation
Indices: 4768--4820 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
4758 GTTGGCTTAG
4768 GCATACGGAGTTCATT-CCATGTCTAA
1 GCATACGGAGTTCATTCCCA-GTCTAA
*
4794 GCATATGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
4820 G
1 G
4821 ATTGGATCGG
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:5199 original size:158 final size:156
Alignment explanation
Indices: 4860--5306 Score: 483
Period size: 158 Copynumber: 2.8 Consensus size: 156
4850 AGACCAGCAG
* * **
4860 CAGGATCGGCAGCACGTAGGGGGGACCGGGTCGATCCCTAACTTGCGCATTCTGCCTCTCCGGCC
1 CAGGATCGGCAGCACATAGGGGGGACCGGGCCGATCCC-GGCTTGCGCATTCTGCCTCTCCGGCC
*
4925 GGCTGAGCCCCTGCACG-TCCGTTTCATGGGTTGGCTTAGGCAT-CAGAGTTCATT-CCATGTCC
65 GGCTGAGCCCC-GCACGCT-CGTTTCATGGGTTGGCTTAGGCATACAGAGTTCATTCCCA-GTCT
* *
4987 AAGCCCTAGCCAGACCGAGGGTTGTCACAG
127 AAGACCTAGCCAGACCGAGGGTTGTCACAC
* * * * * *
5017 CAAGA-CTGGCAGCATGCAGA-GGGGGACCGGGCCAATCCTCGGCTTACGCATTATGCCTCTTCG
1 CAGGATC-GGCAGCA--CATAGGGGGGACCGGGCCGATCC-CGGCTTGCGCATTCTGCCTCTCCG
* * * *
5080 GCTGGCTCAGCGCCCGCACGCTCGTTTCATGGGTTGACTTATGCATACAGAGTTCATTCCCAGTC
62 GCCGGCTGAGC-CCCGCACGCTCGTTTCATGGGTTGGCTTAGGCATACAGAGTTCATTCCCAGTC
* * *
5145 TAAGATC-AGATCAGACCGAGGGTTGTGACAC
126 TAAGACCTAG-CCAGACCGAGGGTTGTCACAC
* * * *
5176 CAGGATCGACAGCACATAGGGGGGATCAGGCCGATCCCCGGCTTGCGCATTCTGCCTCTCCAGCC
1 CAGGATCGGCAGCACATAGGGGGGACCGGGCCGAT-CCCGGCTTGCGCATTCTGCCTCTCCGGCC
* * * **
5241 AGCTGAGCACCCGCACGCTCGTTTCGTGGGTTGGCTTAGGTATACAGAGTTCATTCCTTGTCTAA
65 GGCTGAGC-CCCGCACGCTCGTTTCATGGGTTGGCTTAGGCATACAGAGTTCATTCCCAGTCTAA
5306 G
129 G
5307 CATACGGAGT
Statistics
Matches: 238, Mismatches: 40, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
156 1 0.00
157 14 0.06
158 164 0.69
159 55 0.23
160 4 0.02
ACGTcount: A:0.19, C:0.30, G:0.29, T:0.23
Consensus pattern (156 bp):
CAGGATCGGCAGCACATAGGGGGGACCGGGCCGATCCCGGCTTGCGCATTCTGCCTCTCCGGCCG
GCTGAGCCCCGCACGCTCGTTTCATGGGTTGGCTTAGGCATACAGAGTTCATTCCCAGTCTAAGA
CCTAGCCAGACCGAGGGTTGTCACAC
Found at i:5318 original size:26 final size:26
Alignment explanation
Indices: 5282--5332 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
5272 TGGCTTAGGT
**
5282 ATACAGAGTTCATTCCTTGTCTAAGC
1 ATACAGAGTTCATTCCCAGTCTAAGC
*
5308 ATACGGAGTTCATTCCCAGTCTAAG
1 ATACAGAGTTCATTCCCAGTCTAAG
5333 ATTTTGAGCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (26 bp):
ATACAGAGTTCATTCCCAGTCTAAGC
Found at i:6233 original size:26 final size:26
Alignment explanation
Indices: 6197--6249 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
6187 GTTGACTTAG
6197 GCATACGGAGTTCATCCCCAGTCTAA
1 GCATACGGAGTTCATCCCCAGTCTAA
*
6223 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATCCCCAGTCTAA
6249 G
1 G
6250 ATCAGATCGG
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:6700 original size:157 final size:155
Alignment explanation
Indices: 6223--6722 Score: 434
Period size: 157 Copynumber: 3.2 Consensus size: 155
6213 CCCAGTCTAA
* * * *
6223 GCATACGGAGTTCATTCCCA-GTCTAAGATCAGATCGGAACGAGGGTTGTGACAGTAGGATCGAC
1 GCATACGGAGTTCATT-CCATGTCTAAGATCAGACCAG-ACGAGGGTTGAG-CAGCAGGATCGAC
* * * * * *
6287 AGCATGCAGGGGGACCGTA-CGGATCCTCGGCTTGCGCATTCTGCCTCTCCGGCCTGCTGAGTGC
63 AGCATGCAGGGGGACC-AAGCCGATCCCCGGCTTGCGCATTCTGCCTCTCCGGTCGGCTGAGCGC
*
6351 CCGCACGCCCGTTTCGTGGGTTGGCTTAG
127 CCGCACGCTCGTTTCGTGGGTTGGCTTAG
* * ** * * * *
6380 GCATAGGGAGTTAATTCCATGTCTAAGCCCCAG-CCAGACCGAGGGTTGTGGCAGCGGGACCGGC
1 GCATACGGAGTTCATTCCATGTCTAAG-ATCAGACCAGA-CGAGGGTTG-AGCAGCAGGATCGAC
* *** * * * * * * * * *
6444 CGCATGCAGAGGGGGACTGGGCCAATCCCTGCCTTGCGCATTATGCCTCTTCGATCGGCTCAACA
63 AGCATGC--AGGGGGACCAAGCCGATCCCCGGCTTGCGCATTCTGCCTCTCCGGTCGGCTGAGCG
** *
6509 CCCGCACGCTCGTTTCGTGGGTTAACTTAT
126 CCCGCACGCTCGTTTCGTGGGTTGGCTTAG
* *
6539 GCATACTGAGTTCATTCCCA-GTCTAAGATCAGACCAGACTGAGGGTTGCAGTAGCAGGATCGAC
1 GCATACGGAGTTCATT-CCATGTCTAAGATCAGACCAGAC-GAGGGTTG-AGCAGCAGGATCGAC
* * *
6603 ATCACGTAGGGGGAACCAAGCCGATCCCCGGCTTG-GCATTCTGCCTCTCCGGTCGGCTGAGCGC
63 AGCATGCAGGGGG-ACCAAGCCGATCCCCGGCTTGCGCATTCTGCCTCTCCGGTCGGCTGAGCGC
* * * *
6667 CCGCACTCTCGTTTTGTGAGTTGGGTTAG
127 CCGCACGCTCGTTTCGTGGGTTGGCTTAG
**
6696 GCATATAGAGTTCATTCCATGTCTAAG
1 GCATACGGAGTTCATTCCATGTCTAAG
6723 CATACGGAGT
Statistics
Matches: 262, Mismatches: 69, Indels: 24
0.74 0.19 0.07
Matches are distributed among these distances:
156 7 0.03
157 119 0.45
158 23 0.09
159 110 0.42
160 3 0.01
ACGTcount: A:0.19, C:0.28, G:0.30, T:0.23
Consensus pattern (155 bp):
GCATACGGAGTTCATTCCATGTCTAAGATCAGACCAGACGAGGGTTGAGCAGCAGGATCGACAGC
ATGCAGGGGGACCAAGCCGATCCCCGGCTTGCGCATTCTGCCTCTCCGGTCGGCTGAGCGCCCGC
ACGCTCGTTTCGTGGGTTGGCTTAG
Found at i:7447 original size:26 final size:26
Alignment explanation
Indices: 7418--7470 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
7408 GTTGACTTAG
*
7418 GCATACGGAGTTCATCCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
*
7444 GCATACAGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
7470 G
1 G
7471 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:7826 original size:157 final size:155
Alignment explanation
Indices: 7444--7942 Score: 493
Period size: 157 Copynumber: 3.2 Consensus size: 155
7434 CCCAGTCTAA
* ** * * *
7444 GCATACAGAGTTCATTCCCA-GTCTAAGATTGGACCAGACCGAGGGTTGCGACAGCAGGATCGGT
1 GCATACGGAGTTCATT-CCATGTCTAAGATCAGACCAGACCGAGGGTTGTGGCAGCAGGATCGGC
* * * * * *
7508 AGCACGCAGGGGTGACCGGGTCGATCCCCGGCTTAAGGATTCTGCCTCTCCGGTCGGTTGAGCGC
65 AGCACGCAGGGG-GACC-GGCCGATCCCTGACTTACGGATTCTGCCTCTCCGG-CGGCTGAGAGC
* * * * *
7573 CCACACACCCATTTCATGGGTTGGCTTAG
127 CCGCACGCTCGTTTCGTGGGTTGGCTTAG
* *** *
7602 GCATAGGGAGTTCATTCCATGTCTAATCCCCA-ACCAGACCGAGGGTTGTGGCAGCAGGACCGGC
1 GCATACGGAGTTCATTCCATGTCTAA-GATCAGACCAGACCGAGGGTTGTGGCAGCAGGATCGGC
* * * * *
7666 AGCACGCCGAGGGGACCAGGCCGATCCCTGACTTGCGGATTATGCCTCTCCGGCGGCTCAGTGCC
65 AGCACGCAG-GGGGACC-GGCCGATCCCTGACTTACGGATTCTGCCTCTCCGGCGGCTGAGAGCC
* **
7731 CGTACGCTCGTTTCGTGGGTTAACTTAG
128 CGCACGCTCGTTTCGTGGGTTGGCTTAG
* * * * *
7759 GCATACGGAGTTCATTCCCA-GTCTAAGATCAGACCAGACCGACGGTTATGGTAGCAAGATCGAC
1 GCATACGGAGTTCATT-CCATGTCTAAGATCAGACCAGACCGAGGGTTGTGGCAGCAGGATCGGC
* * ** *
7823 AGCACGCAGGGGGGAACGGCCAAT-CCTCGACTTACACATTCTGCCTCTCCGACCGGCTGAGAGC
65 AGCACGCA-GGGGGACCGGCCGATCCCT-GACTTACGGATTCTGCCTCTCCG-GCGGCTGAGAGC
* *
7887 CCGGACGCTCGTTTTGTGGGTTGGCTTAG
127 CCGCACGCTCGTTTCGTGGGTTGGCTTAG
7916 GCATACGGAGTTCATTCCATGTCTAAG
1 GCATACGGAGTTCATTCCATGTCTAAG
7943 CATACGGAGT
Statistics
Matches: 278, Mismatches: 54, Indels: 19
0.79 0.15 0.05
Matches are distributed among these distances:
155 3 0.01
156 30 0.11
157 149 0.54
158 93 0.33
159 3 0.01
ACGTcount: A:0.21, C:0.28, G:0.29, T:0.22
Consensus pattern (155 bp):
GCATACGGAGTTCATTCCATGTCTAAGATCAGACCAGACCGAGGGTTGTGGCAGCAGGATCGGCA
GCACGCAGGGGGACCGGCCGATCCCTGACTTACGGATTCTGCCTCTCCGGCGGCTGAGAGCCCGC
ACGCTCGTTTCGTGGGTTGGCTTAG
Found at i:8251 original size:13 final size:13
Alignment explanation
Indices: 8233--8259 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8223 TACGCATTAT
8233 GCCTTTTCGGTCG
1 GCCTTTTCGGTCG
8246 GCCTTTTCGGTCG
1 GCCTTTTCGGTCG
8259 G
1 G
8260 TTGAGCGCCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.30, G:0.33, T:0.37
Consensus pattern (13 bp):
GCCTTTTCGGTCG
Found at i:8802 original size:158 final size:158
Alignment explanation
Indices: 8329--8824 Score: 536
Period size: 158 Copynumber: 3.1 Consensus size: 158
8319 CTAAGCCTAT
*
8329 GGAGTTCATTCCCAGTCTAAGATCGGACCGGACCGAGGGTTGTGGCA-CTAGGATCGGTAGCACG
1 GGAGTTCATTCCCAGTCTAAGATCAGACCGGACCGAGGGTTGTGGCAGC-AGGATCGGTAGCACG
* * * **
8393 TAGGGGGGA-TCGGGCCGATCCCTGGCATGCGTATTCTTCCTCTCCGACCAGCTGAGCGTTCGCA
65 TAGGGGGGACT-GGGCCGATCCCCGGCTTGCGTATTCTGCCTCTCCGACCAGCTGAGCGCCCGCA
*
8457 CG-TCCATTTCATGGGTTGGCTTAGGCATAG
129 CGCT-CATTTCATGGGTTGGCTTAGGCATAC
** * * ** *
8487 GGAGTTCATT-CCACGTCTAAGCCCTAG-CCAGACCGAGGGTTGTGGTAGTGGGACCGGTAGCAC
1 GGAGTTCATTCCCA-GTCTAAGATC-AGACCGGACCGAGGGTTGTGGCAGCAGGATCGGTAGCAC
* * * * * * * ** * ** *
8550 GCAGAGGGGGACCGGGTC-ATTCCCCTGCTTGCGTATTATGCCTCTTCGGCTGGCTCAATGCCCA
64 GTAG-GGGGGACTGGGCCGA-TCCCCGGCTTGCGTATTCTGCCTCTCCGACCAGCTGAGCGCCCG
* * * *
8614 CACACTCGTTTCATGGGTTGACTTATGCATAC
127 CACGCTCATTTCATGGGTTGGCTTAGGCATAC
* ** *
8646 GGAGTTCATTCCCAGTCTAAGATCAGACCGGACCGAGGGTTGTGGCAGCAGGATTGACAACACGT
1 GGAGTTCATTCCCAGTCTAAGATCAGACCGGACCGAGGGTTGTGGCAGCAGGATCGGTAGCACGT
* * *
8711 AGGGGGGACTAGGCCGATCCCCGGCTTGCGCATTCTGCCTCTCCGACCAGCTGAGCGCCCGCATG
66 AGGGGGGACTGGGCCGATCCCCGGCTTGCGTATTCTGCCTCTCCGACCAGCTGAGCGCCCGCACG
8776 CTCATTTCATGGGTTGGCTTAGGCATAC
131 CTCATTTCATGGGTTGGCTTAGGCATAC
*
8804 GGAGTTCATTCCCTGTCTAAG
1 GGAGTTCATTCCCAGTCTAAG
8825 CATACGGAGT
Statistics
Matches: 265, Mismatches: 63, Indels: 20
0.76 0.18 0.06
Matches are distributed among these distances:
157 3 0.01
158 144 0.54
159 114 0.43
160 4 0.02
ACGTcount: A:0.19, C:0.27, G:0.30, T:0.24
Consensus pattern (158 bp):
GGAGTTCATTCCCAGTCTAAGATCAGACCGGACCGAGGGTTGTGGCAGCAGGATCGGTAGCACGT
AGGGGGGACTGGGCCGATCCCCGGCTTGCGTATTCTGCCTCTCCGACCAGCTGAGCGCCCGCACG
CTCATTTCATGGGTTGGCTTAGGCATAC
Found at i:8828 original size:26 final size:26
Alignment explanation
Indices: 8798--8850 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
8788 GTTGGCTTAG
*
8798 GCATACGGAGTTCATTCCCTGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
8824 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
8850 G
1 G
8851 ATTTTGAGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:15046 original size:26 final size:26
Alignment explanation
Indices: 15010--15062 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
15000 GTTGGTTTAG
15010 GCATACAAAGTTCATT-CCATGTCTAA
1 GCATACAAAGTTCATTCCCA-GTCTAA
*
15036 GCATACGAAGTTCATTCCCAGTCTAA
1 GCATACAAAGTTCATTCCCAGTCTAA
15062 G
1 G
15063 ATCGGATTGG
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:15270 original size:26 final size:26
Alignment explanation
Indices: 15220--15270 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
15210 TGACTTAGGC
* *
15220 ATACGGAGTTCATCCCCGGTTTAAGT
1 ATACGGAGTTCATCCCCAGTCTAAGT
*
15246 ATACGGAGTTCATTCCCAGTCTAAG
1 ATACGGAGTTCATCCCCAGTCTAAG
15271 ATCAAATCGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (26 bp):
ATACGGAGTTCATCCCCAGTCTAAGT
Found at i:15977 original size:26 final size:26
Alignment explanation
Indices: 15941--15992 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
15931 TTGGCTTAGC
15941 CATACGGAGTTCATT-CCATGTCTAAG
1 CATACGGAGTTCATTCCCA-GTCTAAG
*
15967 CATATGGAGTTCATTCCCAGTCTAAG
1 CATACGGAGTTCATTCCCAGTCTAAG
15993 AGTTTGAGCC
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):
CATACGGAGTTCATTCCCAGTCTAAG
Found at i:16710 original size:26 final size:26
Alignment explanation
Indices: 16674--16726 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
16664 GTTGACTTAG
*
16674 GCATATGGAGTTCA-TCCCTAGTCTAA
1 GCATACGGAGTTCATTCCCT-GTCTAA
16700 GCATACGGAGTTCATTCCCTGTCTAA
1 GCATACGGAGTTCATTCCCTGTCTAA
16726 G
1 G
16727 ATCGGATCGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCTGTCTAA
Found at i:17719 original size:26 final size:26
Alignment explanation
Indices: 17689--17741 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
17679 GTTAACCTAG
17689 GCATACAGAGTTCA-TCCCTAGTCTAA
1 GCATACAGAGTTCATTCCC-AGTCTAA
*
17715 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATTCCCAGTCTAA
17741 G
1 G
17742 ATCGGACCGG
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:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCCAGTCTAA
Found at i:18732 original size:26 final size:26
Alignment explanation
Indices: 18682--18734 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
18672 GTTGGCTTAG
*
18682 GCATACGGAGTTAATTCCATGTCTAA
1 GCATACGGAGTTAATTCCATATCTAA
*
18708 GCATACGGAGTTCATTCCCA-ATCTAA
1 GCATACGGAGTTAATT-CCATATCTAA
18734 G
1 G
18735 ATCAGACCAG
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):
GCATACGGAGTTAATTCCATATCTAA
Found at i:18919 original size:26 final size:26
Alignment explanation
Indices: 18890--18942 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
18880 GTTGACTTAG
**
18890 GCATACGGTGTACATTCCCAGTCTAA
1 GCATACGAAGTACATTCCCAGTCTAA
*
18916 GCATACGAAGTTCATTCCCAGTCTAA
1 GCATACGAAGTACATTCCCAGTCTAA
18942 G
1 G
18943 ATCGAACCAG
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):
GCATACGAAGTACATTCCCAGTCTAA
Found at i:19269 original size:26 final size:25
Alignment explanation
Indices: 19233--19284 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 25
19223 GTTGGCTTAG
19233 GCATACGGAGTTCATTCCATGTCTAA
1 GCATACGGAGTTCATTCCA-GTCTAA
19259 GCATACGGAGTTCATTCCAGTCTAA
1 GCATACGGAGTTCATTCCAGTCTAA
19284 G
1 G
19285 AGTTTGAGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (25 bp):
GCATACGGAGTTCATTCCAGTCTAA
Found at i:20361 original size:159 final size:158
Alignment explanation
Indices: 19987--20375 Score: 372
Period size: 159 Copynumber: 2.4 Consensus size: 158
19977 TAAGCATATG
* * * * * ** * *
19987 GAGTTGATTCCTAGCCTAAGATCGGACTGGACCGAGGGTTACGGCAGTAGGATCGACAGCACGCA
1 GAGTTCATTCCCAGTCTAAGATCAGACCGGACCGAGGGTTGTGGCAGCAGGATCGACAGCACGTA
* * * *
20052 GGGGGGACCAGGCCGATCCCCGACTTGTGCATTCTGGCTCTCCGACCGACTGAGTGCCCGTACGC
66 GGGGGGACCAGGCCGATCCCCGACTTGTGCATTATGCCTCTCCGACCGACTCAGGGCCCGTACGC
* * * **
20117 CCGTTTCATTGTTTGGCTTAGGTATAGG
131 CCGTTTCATGGGTTGACTTAGGTATACA
** * * * ** *
20145 GAGTTCATT-CCATGTCTAAGCCCCAG-CCAGACTGAGGGTTGTGGCAGCTGGGCCGACAGTACG
1 GAGTTCATTCCCA-GTCTAAG-ATCAGACCGGACCGAGGGTTGTGGCAGCAGGATCGACAGCACG
* * * * * *
20208 TAGAGTGGGATC-GAGCTGATCCCCGGCTTGTGCATTATGCCTTTCCGACC-AGCTCAGGGCCTG
64 TAG-GGGGGACCAG-GCCGATCCCCGACTTGTGCATTATGCCTCTCCGACCGA-CTCAGGGCCCG
* * *
20271 TAGGCTCGTTTCGTGGGTTGACTTAGGTATACA
126 TACGCCCGTTTCATGGGTTGACTTAGGTATACA
*
20304 GAGTTCATTCCCAGTCTAAGATCAGACCGGACCGAGGGTTGTGCCAGCAGGATCGACAGCACGTA
1 GAGTTCATTCCCAGTCTAAGATCAGACCGGACCGAGGGTTGTGGCAGCAGGATCGACAGCACGT-
20369 AGGGGGG
65 AGGGGGG
20376 TCGGGTCAGT
Statistics
Matches: 178, Mismatches: 45, Indels: 15
0.75 0.19 0.06
Matches are distributed among these distances:
157 2 0.01
158 48 0.27
159 123 0.69
160 5 0.03
ACGTcount: A:0.20, C:0.25, G:0.32, T:0.23
Consensus pattern (158 bp):
GAGTTCATTCCCAGTCTAAGATCAGACCGGACCGAGGGTTGTGGCAGCAGGATCGACAGCACGTA
GGGGGGACCAGGCCGATCCCCGACTTGTGCATTATGCCTCTCCGACCGACTCAGGGCCCGTACGC
CCGTTTCATGGGTTGACTTAGGTATACA
Found at i:21880 original size:184 final size:185
Alignment explanation
Indices: 21647--21994 Score: 520
Period size: 185 Copynumber: 1.9 Consensus size: 185
21637 TGCTCATTTT
*
21647 GCCTCTTCGGCCGACTGAGCGCCCGCACGCTCATTTCATGGGTTGGCTTAGGCATACAAAG-TTC
1 GCCTCTCCGGCCGACTGAGCGCCCGCACGCTCATTTCATGGGTTGGCTTAGGCATACAAAGTTTC
* * *
21711 CTTCCATTTCTAAGCCCCAGCCAGACCGAGGGTTGTGGCAGAAGGACCGACAGCGGGATCGACAG
66 ATTCCATGTCTAAGCCCCAGCCAGACCGAGGGTTGTGGCAGAAGGACCGACAGCAGGATCGACAG
21776 CACGTAGAGGGGGATCGA-GCTGATCCCCGGCTTGCATGTTATGCTTGTTCGGTCG
131 CACGTAGAGGGGGA-CGAGGCTGATCCCCGGCTTGCATGTTATGCTTGTTCGGTCG
* * * ** * **
21831 GCCTCTCCGGTCGGCTGAGCGCTCGCACGCTTGTTTCGTGGGTTGGCTTAGGCATACGGAGTTTC
1 GCCTCTCCGGCCGACTGAGCGCCCGCACGCTCATTTCATGGGTTGGCTTAGGCATACAAAGTTTC
* * *
21896 ATTCCATGTCTAAGCCCCAGCCAGACTGAGGGTTGTGGTAGCAGGACCGACAGCAGGATCGACAG
66 ATTCCATGTCTAAGCCCCAGCCAGACCGAGGGTTGTGGCAGAAGGACCGACAGCAGGATCGACAG
* *
21961 CATGTAGAGGGGGACTAGGCTGATCCCCGGCTTG
131 CACGTAGAGGGGGACGAGGCTGATCCCCGGCTTG
21995 TGCATTGTGT
Statistics
Matches: 145, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
184 54 0.37
185 91 0.63
ACGTcount: A:0.18, C:0.27, G:0.32, T:0.22
Consensus pattern (185 bp):
GCCTCTCCGGCCGACTGAGCGCCCGCACGCTCATTTCATGGGTTGGCTTAGGCATACAAAGTTTC
ATTCCATGTCTAAGCCCCAGCCAGACCGAGGGTTGTGGCAGAAGGACCGACAGCAGGATCGACAG
CACGTAGAGGGGGACGAGGCTGATCCCCGGCTTGCATGTTATGCTTGTTCGGTCG
Found at i:22559 original size:26 final size:26
Alignment explanation
Indices: 22529--22607 Score: 124
Period size: 26 Copynumber: 3.0 Consensus size: 26
22519 GTTGTCTTAG
22529 GCATACGGAGTTCATTCCATGTCTAA
1 GCATACGGAGTTCATTCCATGTCTAA
*
22555 GCATATGGAGTTCATTCCATGTCTAA
1 GCATACGGAGTTCATTCCATGTCTAA
*
22581 GCATACGAAGTTCATTCACA-GTCTAA
1 GCATACGGAGTTCATTC-CATGTCTAA
22607 G
1 G
22608 ATCAGACCAG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
26 47 0.96
27 2 0.04
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCATGTCTAA
Found at i:22781 original size:26 final size:26
Alignment explanation
Indices: 22751--22803 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
22741 GTTGACTTAG
22751 GCATAC-AGAGTTCATCCCTAGTCTAA
1 GCATACGA-AGTTCATCCCTAGTCTAA
* *
22777 GCATACGAAGTTCATTCCTAGTTTAA
1 GCATACGAAGTTCATCCCTAGTCTAA
22803 G
1 G
22804 ATCAAACCAA
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:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (26 bp):
GCATACGAAGTTCATCCCTAGTCTAA
Found at i:24157 original size:159 final size:158
Alignment explanation
Indices: 23889--24183 Score: 367
Period size: 159 Copynumber: 1.9 Consensus size: 158
23879 CAAGAGTTAC
*
23889 GGTAGCAGGATCGACAACACGCAGAGGGGACCGGGTCGATCCCCAGCTCACACATTCTACCTCTC
1 GGTAGCAGGATCGACAACACGCAGAGGGGACCGGGTCGATCCCCAGCTCACACATTATACCTCTC
** ** * * * *
23954 CGATTGGCTGAGCGCTCGCACCCCCATTTCGTGGGTTGGCTTAGGCATAGGGAGTTCATT-CCAT
66 CGACCGGCACAGCGCCCGCACCCCCATTTCGTGGGTTGACTTAGGCATACGAAGTTCATTCCCA-
24018 GTCTAAGCCCCAGTCGGACTGAGGATTGT
130 GTCTAAGCCCCAGTCGGACTGAGGATTGT
* * * * * * *
24047 GGTAGCAGGATCGACAGCATGCAGAGAGGGATCGGGTCGATCCCCGGCTTACGCATTATGCCTCT
1 GGTAGCAGGATCGACAACACGCAGAG-GGGACCGGGTCGATCCCCAGCTCACACATTATACCTCT
** *** *
24112 CCGACCGGCACAGCGCCCGCAGGCTTGTTTCGTGGGTTGACTTAGGCATACGAAGTTTATTCCCA
65 CCGACCGGCACAGCGCCCGCACCCCCATTTCGTGGGTTGACTTAGGCATACGAAGTTCATTCCCA
24177 GTCTAAG
130 GTCTAAG
24184 ATCAGATCGG
Statistics
Matches: 113, Mismatches: 22, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
158 24 0.21
159 86 0.76
160 3 0.03
ACGTcount: A:0.20, C:0.28, G:0.29, T:0.22
Consensus pattern (158 bp):
GGTAGCAGGATCGACAACACGCAGAGGGGACCGGGTCGATCCCCAGCTCACACATTATACCTCTC
CGACCGGCACAGCGCCCGCACCCCCATTTCGTGGGTTGACTTAGGCATACGAAGTTCATTCCCAG
TCTAAGCCCCAGTCGGACTGAGGATTGT
Found at i:25231 original size:26 final size:26
Alignment explanation
Indices: 25181--25232 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
25171 GTTCGCTTAG
*
25181 GCATACGGAGTTCATTCCATGTCTAA
1 GCATACGGAGTTCATTCCATATCTAA
25207 GCATACGGAGTTCATTCCCA-ATCTAA
1 GCATACGGAGTTCATT-CCATATCTAA
25233 CATCAGATCA
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):
GCATACGGAGTTCATTCCATATCTAA
Found at i:25426 original size:26 final size:26
Alignment explanation
Indices: 25390--25442 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
25380 GTTGACTTAG
25390 GCATACGGAGTTCATCCCCAGTCTAA
1 GCATACGGAGTTCATCCCCAGTCTAA
* *
25416 GCATATGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATCCCCAGTCTAA
25442 G
1 G
25443 ATTGAACCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (26 bp):
GCATACGGAGTTCATCCCCAGTCTAA
Found at i:25687 original size:157 final size:158
Alignment explanation
Indices: 25455--25756 Score: 414
Period size: 157 Copynumber: 1.9 Consensus size: 158
25445 TGAACCAGAT
25455 CGAGGGTTGCGGCAGCAGGATCGGTAGCACGCAGAGGGGACCGAGTCGATCCCTGGCTTGCGCAT
1 CGAGGGTTGCGGCAGCAGGATCGGTAGCACGCAGAGGGGACCGAGTCGATCCCTGGCTTGCGCAT
* * * *
25520 TCTGCCTCTCT-GATCGGCTGAGCGCCCGCGCACCCATTTCATGGGTTGGCTTAGGCATATGGAG
66 TCTGCATCTCTAG-CCGACTGAGCGCCCGCACACCCATTTCATGGGTTGGCTTAGGCATATGGAG
25584 TT-ATTCCATGTCTAAGCCCCAGCTGAAA
130 TTCATTCCATGTCTAAGCCCCAGCTGAAA
* ** * * *
25612 CGAGGGTTGTGGCAGTGGGA-CAGGTAGCACGCAGAGGGGGACTGGGTCGAT-CCTGGCTTGTGC
1 CGAGGGTTGCGGCAGCAGGATC-GGTAGCACGCAGA-GGGGACCGAGTCGATCCCTGGCTTGCGC
* ** * *
25675 ATTCTGCATCTCTAGCCGACTGAGCGCCTGCATGCTCGTTTCATGGGTTGGCTTAGGCATATGGA
64 ATTCTGCATCTCTAGCCGACTGAGCGCCCGCACACCCATTTCATGGGTTGGCTTAGGCATATGGA
25740 GTTCATTCCATGTCTAA
129 GTTCATTCCATGTCTAA
25757 TCATACGGAG
Statistics
Matches: 126, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
156 1 0.01
157 98 0.78
158 27 0.21
ACGTcount: A:0.18, C:0.25, G:0.32, T:0.25
Consensus pattern (158 bp):
CGAGGGTTGCGGCAGCAGGATCGGTAGCACGCAGAGGGGACCGAGTCGATCCCTGGCTTGCGCAT
TCTGCATCTCTAGCCGACTGAGCGCCCGCACACCCATTTCATGGGTTGGCTTAGGCATATGGAGT
TCATTCCATGTCTAAGCCCCAGCTGAAA
Found at i:25766 original size:26 final size:26
Alignment explanation
Indices: 25732--25782 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
25722 TTGGCTTAGG
*
25732 CATATGGAGTTCATT-CCATGTCTAAT
1 CATACGGAGTTCATTCCCA-GTCTAAT
25758 CATACGGAGTTCATTCCCAGTCTAA
1 CATACGGAGTTCATTCCCAGTCTAA
25783 GAGTTTAAGC
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:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (26 bp):
CATACGGAGTTCATTCCCAGTCTAAT
Found at i:26564 original size:26 final size:26
Alignment explanation
Indices: 26535--26587 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 26
26525 GTTGGCTTAG
26535 GCATACAGG-GTTCATT-CCATGTCTAA
1 GCATAC-GGAGTTCATTCCCA-GTCTAA
26561 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
26587 G
1 G
26588 ATCGGACCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 2 0.08
26 20 0.80
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:30654 original size:26 final size:26
Alignment explanation
Indices: 30618--30670 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
30608 GTTGACTTAG
30618 GCATACAGAGTTCA-TCCCTAGTCTAA
1 GCATACAGAGTTCATTCCC-AGTCTAA
*
30644 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATTCCCAGTCTAA
30670 G
1 G
30671 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:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCCAGTCTAA
Found at i:31118 original size:158 final size:157
Alignment explanation
Indices: 30644--31135 Score: 529
Period size: 158 Copynumber: 3.1 Consensus size: 157
30634 CCTAGTCTAA
** * * *
30644 GCATACGGAGTTCATTCCCAGTCTAAGATCGAACCGGGTCGAGGGTTATGGTAGCAGTATCGGCA
1 GCATACGGAGTTCATTCCCAGTCTAAGATCGAACCGGACCGAGGGTTATGGCAGCAGGATCGACA
* * * *
30709 GCACGCAGGGGGGACAAGGCCAATCCTCAGTTTGCGCATTCTGCCTCTCCGATCGGCCGAGCG-C
66 GCACGCAGGGGGGACGA-GCCGATCCTCAGCTTGCGCATTCTGCCTCTCCGATCGGCTGAGCGCC
* * *
30773 TCGTATACTCGTTTCATGGGTTGGCTTAG
130 T-GCACACTCGTTTCGTGGGTTGGCTTAG
* ** * * * * **
30802 GCATAGGGAGTTCATT-CCATGTCTAAGCCCCAACTGGACTGAGGGTTGTGGCAGTGGGATCGAC
1 GCATACGGAGTTCATTCCCA-GTCTAAGATCGAACCGGACCGAGGGTTATGGCAGCAGGATCGAC
* * * * * * * *
30866 AGCATGCAGAGGGGGACCGGGCCGATCCCCAACTTGCGCATTATGCCTCTCCGACCGGCTCAGCA
65 AGCACGCAG-GGGGGA-CGAGCCGATCCTCAGCTTGCGCATTCTGCCTCTCCGATCGGCTGAGCG
* * * *
30931 CCCGCACACTCATTTTGTGGGTTGACTTAG
128 CCTGCACACTCGTTTCGTGGGTTGGCTTAG
* * * * * *
30961 GCATACGGAGTTCATTCCCAGTCTAAGTTTGGACCGGACCGAGGGTTACGACAGCAGGATCGATA
1 GCATACGGAGTTCATTCCCAGTCTAAGATCGAACCGGACCGAGGGTTATGGCAGCAGGATCGACA
* * *
31026 GCACGCAGTGGGGATCGAGCCGATCCTCGGCTTGCACATTCTGCCTCTCCGATCGGCTGAGCGCC
66 GCACGCAGGGGGGA-CGAGCCGATCCTCAGCTTGCGCATTCTGCCTCTCCGATCGGCTGAGCGCC
*
31091 TGCACGCTCGTTTCGTGGGTTGGCTTAG
130 TGCACACTCGTTTCGTGGGTTGGCTTAG
31119 GCATACGGAGTTCATTC
1 GCATACGGAGTTCATTC
31136 AATGTCTAAG
Statistics
Matches: 265, Mismatches: 64, Indels: 10
0.78 0.19 0.03
Matches are distributed among these distances:
157 3 0.01
158 140 0.53
159 117 0.44
160 5 0.02
ACGTcount: A:0.19, C:0.27, G:0.30, T:0.23
Consensus pattern (157 bp):
GCATACGGAGTTCATTCCCAGTCTAAGATCGAACCGGACCGAGGGTTATGGCAGCAGGATCGACA
GCACGCAGGGGGGACGAGCCGATCCTCAGCTTGCGCATTCTGCCTCTCCGATCGGCTGAGCGCCT
GCACACTCGTTTCGTGGGTTGGCTTAG
Found at i:31188 original size:26 final size:26
Alignment explanation
Indices: 31119--31197 Score: 124
Period size: 26 Copynumber: 3.0 Consensus size: 26
31109 GTTGGCTTAG
*
31119 GCATACGGAGTTCATTCAATGTCTAA
1 GCATACGGAGTTCATTCCATGTCTAA
*
31145 GCATACGAAGTTCATTCCATGTCTAA
1 GCATACGGAGTTCATTCCATGTCTAA
31171 GCATACGGAGTTCATTCCCA-GTCTAA
1 GCATACGGAGTTCATT-CCATGTCTAA
31197 G
1 G
31198 ATTGGACCGA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
26 46 0.94
27 3 0.06
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCATGTCTAA
Found at i:31540 original size:26 final size:26
Alignment explanation
Indices: 31511--31563 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
31501 GTTGGATTAG
31511 GCATACGGAGTTCATTCC-ATGTCTAA
1 GCATACGGAGTTCATTCCTA-GTCTAA
*
31537 GCATATGGAGTTCATTCCTAGTCTAA
1 GCATACGGAGTTCATTCCTAGTCTAA
31563 G
1 G
31564 ATCGGACCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCTAGTCTAA
Found at i:33320 original size:26 final size:26
Alignment explanation
Indices: 33291--33342 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
33281 GTGGCTTAGA
33291 CATACGGAGTTCATT-CCATGTCTAAG
1 CATACGGAGTTCATTCCCA-GTCTAAG
33317 CATACGGAGTTCATTCCCAGTCTAAG
1 CATACGGAGTTCATTCCCAGTCTAAG
33343 ATCAGATCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (26 bp):
CATACGGAGTTCATTCCCAGTCTAAG
Found at i:33534 original size:26 final size:26
Alignment explanation
Indices: 33498--33550 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
33488 GTTGACTTAG
33498 GCATACGGAGTTCATCCCCAGTCTAA
1 GCATACGGAGTTCATCCCCAGTCTAA
* *
33524 GCATATGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATCCCCAGTCTAA
33550 G
1 G
33551 ATCGAATCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (26 bp):
GCATACGGAGTTCATCCCCAGTCTAA
Found at i:33987 original size:157 final size:156
Alignment explanation
Indices: 33531--34022 Score: 546
Period size: 159 Copynumber: 3.1 Consensus size: 156
33521 TAAGCATATG
* * * ** *
33531 GAGTTCATTCCCAGTCTAAGATCGAATCGAAACGAGGGTTGC-GCAGCAGGATCGGTAGCACGTA
1 GAGTTCATTCCTAGTCTAAGATCGACT-GAACCGAGGGTTGCGGCAGCAGGATCGACAGCACGCA
* * * * *
33595 GGGGGATCGGGCCGATCCCCGGCTTGCGCATTCTGCCTCTCCGATCGGCTGAGCGCCCGCACGCC
65 GGGGGATCGGGCCGATCCCCAGCTTGCGCATTATGCCTCTCCGATCGGTTGAGTGCCCGCACGCT
* **
33660 CGTTTCGTGGGTTGGCTTAGGCATAGG
130 CATTTCGTGGGTTGGCTTAGGCATACA
** * * *
33687 GAGTTCATTCC-ACGTCTAAGCCCCAGCCGAACCGAGGGTTGCGGCAGC--GAGTCTGACAGTAC
1 GAGTTCATTCCTA-GTCTAAGATCGA-CTGAACCGAGGGTTGCGGCAGCAGGA-TC-GACAGCAC
* *
33749 GCAGAGGGGGATCGGGCCGATCCCCAGCTTGCGCATTATGCCTCTCCGACCGGCTT-AATGCCCG
62 GC--AGGGGGATCGGGCCGATCCCCAGCTTGCGCATTATGCCTCTCCGATCGG-TTGAGTGCCCG
* * * *
33813 TATGATCATTTCGTGGGTTGACTTAGGCATACA
124 CACGCTCATTTCGTGGGTTGGCTTAGGCATACA
* * * *
33846 GAGTTCAGTCCTAGTCTAAGATCGGACTGGACCGAGGGTTGCGGTAGCAGGATCGACAGCATGCA
1 GAGTTCATTCCTAGTCTAAGATC-GACTGAACCGAGGGTTGCGGCAGCAGGATCGACAGCACGCA
* * *
33911 GGGGGACCGGGTCGATCCCCAGCTTGCGCATTTTGCCTCTCCGATCGGTTGAGTGCCCGCACGCT
65 GGGGGATCGGGCCGATCCCCAGCTTGCGCATTATGCCTCTCCGATCGGTTGAGTGCCCGCACGCT
* *
33976 CATTTCATGGGTTGGCTTAGGCATACC
130 CATTTCGTGGGTTGGCTTAGGCATACA
34003 GAGTTCATTCCCT-GTCTAAG
1 GAGTTCATT-CCTAGTCTAAG
34023 CATACAAAGT
Statistics
Matches: 277, Mismatches: 45, Indels: 27
0.79 0.13 0.08
Matches are distributed among these distances:
155 3 0.01
156 37 0.13
157 105 0.38
158 3 0.01
159 122 0.44
160 5 0.02
161 2 0.01
ACGTcount: A:0.18, C:0.28, G:0.31, T:0.23
Consensus pattern (156 bp):
GAGTTCATTCCTAGTCTAAGATCGACTGAACCGAGGGTTGCGGCAGCAGGATCGACAGCACGCAG
GGGGATCGGGCCGATCCCCAGCTTGCGCATTATGCCTCTCCGATCGGTTGAGTGCCCGCACGCTC
ATTTCGTGGGTTGGCTTAGGCATACA
Done.