Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168429.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_642, 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: 20897
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Found at i:169 original size:11 final size:11
Alignment explanation
Indices: 137--162 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
127 CGGTTAGGCT
137 CTCCAACGATG
1 CTCCAACGATG
148 CTCCAACGATG
1 CTCCAACGATG
159 CTCC
1 CTCC
163 GATGATGGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.42, G:0.15, T:0.19
Consensus pattern (11 bp):
CTCCAACGATG
Found at i:275 original size:26 final size:26
Alignment explanation
Indices: 237--315 Score: 124
Period size: 26 Copynumber: 3.0 Consensus size: 26
227 GGCTCAAAAT
*
237 CTTAGAC-TAGGAATGAACTCCATATG
1 CTTAGACAT-GGAATGAACTCCGTATG
*
263 CTTAGACATGGAATGAACACCGTATG
1 CTTAGACATGGAATGAACTCCGTATG
289 CTTAGACATGGAATGAACTCCGTATG
1 CTTAGACATGGAATGAACTCCGTATG
315 C
1 C
316 CTAAGCCAAC
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
26 48 0.98
27 1 0.02
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (26 bp):
CTTAGACATGGAATGAACTCCGTATG
Found at i:499 original size:26 final size:26
Alignment explanation
Indices: 449--500 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
439 CAGTCTAATA
*
449 TTAGACTGGGAATGAACTCCGTATGC
1 TTAGACTGGGAATGAACTCCATATGC
* *
475 TTAGACTGGGGATGAACTTCATATGC
1 TTAGACTGGGAATGAACTCCATATGC
501 CTAAGTTAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (26 bp):
TTAGACTGGGAATGAACTCCATATGC
Found at i:6095 original size:160 final size:158
Alignment explanation
Indices: 5677--6221 Score: 442
Period size: 160 Copynumber: 3.4 Consensus size: 158
5667 GTCCTGCTGC
* * *
5677 CCACAACCCTC-AGTCCGACTGGGGCTTAGACATGGAATGAACTCCGGTATGCCTAAGCCAACCT
1 CCACAACCCTCGA-TCCGGCTGGGGCTTAGACATGGAATGAACTCC-CTATGCCTAAGCCAACCC
* * * * * * * * * *
5741 AC-GAACGAGCCGTGCGGGCACTTAGCGCGACCGGAGAGGCAGAATTCGCAAGTCAGGGATCGG-
64 ACAAAACGAG-CATGCGAGCACTCAAC-CGACCGAAGAGGCAAAATACGCAAGCCGGGGATCGGC
* * * * *** *
5804 CCGGTCCCCTCTGCGTG---CTGATCTGGCTG
127 CCGATCCCCCCTACGTGTCACAGATCCCACTA
* * * * ** * * *
5833 TCGCAACCCTCGGTCCGATCT-GATCTTAGAC-TAGGAATGAACTCCATATGCATAAGTCAACCC
1 CCACAACCCTCGATCCG-GCTGGGGCTTAGACAT-GGAATGAACTCCCTATGCCTAAGCCAACCC
* * * * * * *
5896 ACGAAACGAGCGTGCGGGCGCTGAACCGGCTGAAGAGGCAATAATACGCAAGCCGGGGATCGGCC
64 ACAAAACGAGCATGCGAGCACTCAACCGACCGAAGAGGCAA-AATACGCAAGCCGGGGATCGGCC
* ** * *
5961 CGATCCCCTTCTACGTGCTGTC-GGTCCCACTG
128 CGATCCCC-CCTACGTG-TCACAGATCCCACTA
* * *
5993 CCACAATCCTCGATCCGGCTTGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCAT
1 CCACAACCCTCGATCCGGCTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCAC
* * * * * * *
6058 AAAATGGGCATGCGAGCACTCAACCGACCGGAGAGGCAAAATGCGCAAGCTGGGGATTGGCCCGG
66 AAAACGAGCATGCGAGCACTCAACCGACCGAAGAGGCAAAATACGCAAGCCGGGGATCGGCCCGA
* * *
6123 TCCCCCCTGCGTGTCACAGATCTCGCTA
131 TCCCCCCTACGTGTCACAGATCCCACTA
*
6151 CCACAACCCTCGATCTGGCTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCAC
1 CCACAACCCTCGATCCGGCTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCAC
6216 AAAACG
66 AAAACG
6222 GGTGTGTAGG
Statistics
Matches: 310, Mismatches: 65, Indels: 26
0.77 0.16 0.06
Matches are distributed among these distances:
154 11 0.04
155 48 0.15
156 47 0.15
157 11 0.04
158 78 0.25
159 29 0.09
160 84 0.27
161 2 0.01
ACGTcount: A:0.25, C:0.31, G:0.26, T:0.18
Consensus pattern (158 bp):
CCACAACCCTCGATCCGGCTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCAC
AAAACGAGCATGCGAGCACTCAACCGACCGAAGAGGCAAAATACGCAAGCCGGGGATCGGCCCGA
TCCCCCCTACGTGTCACAGATCCCACTA
Found at i:6181 original size:318 final size:317
Alignment explanation
Indices: 5540--6221 Score: 699
Period size: 318 Copynumber: 2.2 Consensus size: 317
5530 GACTCCGTAT
* * * *
5540 GCTTAGACTGGGGATGAACTCCGTA-GCCTAAGTC-ACCCACGAAACCGAGCGTGCGAGTGCTGA
1 GCTTAGACTAGGAATGAACTCCATATGCCTAAGTCAACCCACGAAA-CGAGCGTGCGAGCGCTGA
* * *
5603 ATCAATCGGAAAGGCATAATGCATAAGCCGAGGATCAGCCCAGTCCCCCTCTACGTGCTGGCCAG
65 ATCAAGCGGAAAGGCATAATACACAAGCCGAGGATCAGCCCAGTCCCCCTCTACGTGCTGGCCAG
** *
5668 TCCTGCTGCCCACAACCCTCAGTCCGACTGGGGCTTAGACATGGAATGAACTCCGGTATGCCTAA
130 TCCCACTGCCCACAACCCTCAGTCCGACTGGGGCTTAGACATGGAATGAACTCCGCTATGCCTAA
* * * * * * *
5733 GCCAACCTACGAACGAGCCGTGCGGGCACTTAGCGCGACCGGAGAGGCAGAATTCGCAAGTCAGG
195 GCCAACCTACAAACGAGCCATGCGAGCACTCAACGCGACCGGAGAGGCAAAATGCGCAAGTCAGG
* * * ** * * *
5798 GATCGGCCGGTCCCCTCTGCGTGCTGATCTGGCTGTCGCAACCCTCGGTCCGATCTGA
260 GATCGGCCGGTCCCCCCTGCGTGCAGATCTCGCTACCACAACCCTCGATCCGAGCTGA
* * *
5856 TCTTAGACTAGGAATGAACTCCATATGCATAAGTCAACCCACGAAACGAGCGTGCGGGCGCTGAA
1 GCTTAGACTAGGAATGAACTCCATATGCCTAAGTCAACCCACGAAACGAGCGTGCGAGCGCTGAA
** * * * * * *
5921 -CCGGCTGAAGAGGCAATAATACGCAAGCCGGGGATCGGCCC-GATCCCCTTCTACGTGCT-GTC
66 TCAAGCGGAA-AGGC-ATAATACACAAGCCGAGGATCAGCCCAG-TCCCCCTCTACGTGCTGGCC
* * * *
5983 GGTCCCACTG-CCACAATCCTC-GATCCGGCTTGGGCTTAGACATGGAATGAACTCC-CTATGCC
128 AGTCCCACTGCCCACAACCCTCAG-TCCGACTGGGGCTTAGACATGGAATGAACTCCGCTATGCC
* *
6045 TAAGCCAACCCATA-AAATG-GGCATGCGAGCACTCAAC-CGACCGGAGAGGCAAAATGCGCAAG
192 TAAGCCAA-CC-TACAAACGAGCCATGCGAGCACTCAACGCGACCGGAGAGGCAAAATGCGCAAG
* * *
6107 -CTGGGGATTGGCCCGGTCCCCCCTGCGTGTCACAGATCTCGCTACCACAACCCTCGATCTG-GC
255 TC-AGGGATCGG-CCGGTCCCCCCTGCGTG---CAGATCTCGCTACCACAACCCTCGATCCGAGC
*
6170 TGGG
315 T-GA
* * *
6174 GCTTAGAC-ATGGAATGAACTCCCTATGCCTAAGCCAACCCACAAAACG
1 GCTTAGACTA-GGAATGAACTCCATATGCCTAAGTCAACCCACGAAACG
6222 GGTGTGTAGG
Statistics
Matches: 300, Mismatches: 51, Indels: 28
0.79 0.13 0.07
Matches are distributed among these distances:
313 1 0.00
314 30 0.10
315 44 0.15
316 71 0.24
317 44 0.15
318 110 0.37
ACGTcount: A:0.25, C:0.31, G:0.26, T:0.18
Consensus pattern (317 bp):
GCTTAGACTAGGAATGAACTCCATATGCCTAAGTCAACCCACGAAACGAGCGTGCGAGCGCTGAA
TCAAGCGGAAAGGCATAATACACAAGCCGAGGATCAGCCCAGTCCCCCTCTACGTGCTGGCCAGT
CCCACTGCCCACAACCCTCAGTCCGACTGGGGCTTAGACATGGAATGAACTCCGCTATGCCTAAG
CCAACCTACAAACGAGCCATGCGAGCACTCAACGCGACCGGAGAGGCAAAATGCGCAAGTCAGGG
ATCGGCCGGTCCCCCCTGCGTGCAGATCTCGCTACCACAACCCTCGATCCGAGCTGA
Found at i:6338 original size:159 final size:157
Alignment explanation
Indices: 5648--6360 Score: 485
Period size: 159 Copynumber: 4.5 Consensus size: 157
5638 CAGCCCAGTC
* * * * * * *
5648 CCCCTCTACGTGCTGGCCAGTCCTGCTGCCCACAACCCTCAGTCCGACTGGGGCTTAGAC-ATGG
1 CCCCTCTGCGTGCTGTCGA-TCCTACTG-CCACAACCCTCGGTCCGGCT-GAGCTTAGACTA-GG
* * * * * * * *
5712 AATGAACTCCGGTATGCCTAAGCCAACCTAC-GAACGAGCCGTGCGGGCACTTAGCGCGACCGGA
62 AATGAACTCC-ATATGCCTAAGCCAACCCACAAAACG-GGCGTGCGGGCGCTCAAC-CGACCGAA
* * * * * *
5776 GAGGCAGAATTCGCAAGTCAGGGATCGG-CCGGT
124 GAGGAAAAATGCGCAAGCCGGGGATCGGCCCGAT
* * * * *
5809 CCCCTCTGCGTGC--T-GAT-CTGGCTGTCGCAACCCTCGGTCCGATCTGATCTTAGACTAGGAA
1 CCCCTCTGCGTGCTGTCGATCCT-ACTGCCACAACCCTCGGTCCG-GCTGAGCTTAGACTAGGAA
* * * * * * *
5870 TGAACTCCATATGCATAAGTCAACCCACGAAACGAGCGTGCGGGCGCTGAACCGGCTGAAGAGGC
64 TGAACTCCATATGCCTAAGCCAACCCACAAAACGGGCGTGCGGGCGCTCAACCGACCGAAGAGG-
* *
5935 AATAATACGCAAGCCGGGGATCGGCCCGAT
128 AAAAATGCGCAAGCCGGGGATCGGCCCGAT
* * * * * *
5965 CCCCTTCTACGTGCTGTCGGTCCCACTGCCACAATCCTCGATCCGGCTTGGGCTTAGAC-ATGGA
1 CCCC-TCTGCGTGCTGTCGATCCTACTGCCACAACCCTCGGTCCGGC-TGAGCTTAGACTA-GGA
* * * * * * *
6029 ATGAACTCCCTATGCCTAAGCCAACCCATAAAATGGGCATGCGAGCACTCAACCGACCGGAGAGG
63 ATGAACTCCATATGCCTAAGCCAACCCACAAAACGGGCGTGCGGGCGCTCAACCGACCGAAGAGG
* * * *
6094 CAAAATGCGCAAGCTGGGGATTGGCCCGGT
128 AAAAATGCGCAAGCCGGGGATCGGCCCGAT
* ** * * * * *
6124 CCCCCCTGCGTG-TCACAGAT-CTCGCTACCACAACCCTCGATCTGGCTGGGGCTTAGAC-ATGG
1 CCCCTCTGCGTGCTGTC-GATCCT-ACTGCCACAACCCTCGGTCCGGCT-GAGCTTAGACTA-GG
* * * * **
6186 AATGAACTCCCTATGCCTAAGCCAACCCACAAAACGGGTGTGTAGGGTGCTCAGTCGACCGAAGA
62 AATGAACTCCATATGCCTAAGCCAACCCACAAAACGGGCGTG-CGGGCGCTCAACCGACCGAAGA
* * * *
6251 GGTAGAATGCGCATGCCGGGGATCGACCCGAT
126 GGAAAAATGCGCAAGCCGGGGATCGGCCCGAT
* * * * * * *
6283 CCCCTCTGCATGCTGTCGATCCTACTGTCGCAACCCTCGGTTCGATCTGATCTTAGACTGGGAAT
1 CCCCTCTGCGTGCTGTCGATCCTACTGCCACAACCCTCGGTCCG-GCTGAGCTTAGACTAGGAAT
6348 GAACTCCATATGC
65 GAACTCCATATGC
6361 TTAGATTGGA
Statistics
Matches: 428, Mismatches: 103, Indels: 44
0.74 0.18 0.08
Matches are distributed among these distances:
154 9 0.02
155 48 0.11
156 48 0.11
157 20 0.05
158 80 0.19
159 123 0.29
160 87 0.20
161 13 0.03
ACGTcount: A:0.23, C:0.31, G:0.27, T:0.19
Consensus pattern (157 bp):
CCCCTCTGCGTGCTGTCGATCCTACTGCCACAACCCTCGGTCCGGCTGAGCTTAGACTAGGAATG
AACTCCATATGCCTAAGCCAACCCACAAAACGGGCGTGCGGGCGCTCAACCGACCGAAGAGGAAA
AATGCGCAAGCCGGGGATCGGCCCGAT
Found at i:6519 original size:12 final size:12
Alignment explanation
Indices: 6504--6533 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
6494 TGCCGATCTC
6504 GCTGCCCGTCCT
1 GCTGCCCGTCCT
*
6516 GCTGCCGGTCCT
1 GCTGCCCGTCCT
6528 GCTGCC
1 GCTGCC
6534 ATAACCCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.47, G:0.30, T:0.23
Consensus pattern (12 bp):
GCTGCCCGTCCT
Found at i:6764 original size:26 final size:26
Alignment explanation
Indices: 6726--6778 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
6716 CCGGTCCAAT
*
6726 CTTAGACTGGGAATGAACTTCGTATG
1 CTTAGACTGGGAATGAACTACGTATG
6752 CTTAGACAT-GGAATGAACTACGTATG
1 CTTAGAC-TGGGAATGAACTACGTATG
6778 C
1 C
6779 CTAAGCCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTACGTATG
Found at i:7099 original size:159 final size:158
Alignment explanation
Indices: 6751--7156 Score: 442
Period size: 158 Copynumber: 2.6 Consensus size: 158
6741 AACTTCGTAT
* * * *
6751 GCTTAGACATGGAATGAACTACGTATGCCTAAGCCAACCCACGAAACGTGCGTGCAGGCGCTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACAAAACGAGCGTACAGGCGCTCAG
* ** * * * *
6816 CCGACCGGAGAGGCAGAATGTGCAAGTCGGGGATCGGCTCGATCCCCCCTGCGTGCTATCGATCC
66 CCGACCGGAGAGGCAGAATGCGCAAGTCAAGGATCAGCCCGATCCCCCCTGCATGCCATCGATCC
* * * * *
6881 TACTGTCGCAACCCTCGGTCCGGTCCGA
131 CACTGCCACAACCCTCAGTCCAGTCCGA
* * * * * * *
6909 TCTTAGAC-TGGGAATGAACTCCGTATGCCTAAGTCAACCCACAAAATGAGTGTACGGGTGCTGA
1 GCTTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCACAAAACGAGCGTACAGGCGCTCA
* * *
6973 GCCGATCGGAGAGGCATAATGCGCAAGTCAAGGATCAGCCCGGTCCCCCTCTGCATGCCATCGAT
65 GCCGACCGGAGAGGCAGAATGCGCAAGTCAAGGATCAGCCCGATCCCCC-CTGCATGCCATCGAT
** *
7038 CCCACTGCCACAACCCTCAGTCCAGTTGGG
129 CCCACTGCCACAACCCTCAGTCCAGTCCGA
* *
7068 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCA-TAAACGAGCGTACAGGGCGCTC-
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACAAAACGAGCGTACA-GGCGCTCA
* ** *
7131 GACGGTCGAAGA-GCAGAATGCGCAAG
65 GCCGACCGGAGAGGCAGAATGCGCAAG
7157 CCAAAATTGG
Statistics
Matches: 202, Mismatches: 42, Indels: 9
0.80 0.17 0.04
Matches are distributed among these distances:
157 14 0.07
158 111 0.55
159 76 0.38
160 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.27, T:0.18
Consensus pattern (158 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACAAAACGAGCGTACAGGCGCTCAG
CCGACCGGAGAGGCAGAATGCGCAAGTCAAGGATCAGCCCGATCCCCCCTGCATGCCATCGATCC
CACTGCCACAACCCTCAGTCCAGTCCGA
Found at i:7862 original size:11 final size:11
Alignment explanation
Indices: 7830--7855 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
7820 CGGTTAGGCT
7830 CTCCAACGATG
1 CTCCAACGATG
7841 CTCCAACGATG
1 CTCCAACGATG
7852 CTCC
1 CTCC
7856 GATGATGGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.42, G:0.15, T:0.19
Consensus pattern (11 bp):
CTCCAACGATG
Found at i:7970 original size:26 final size:26
Alignment explanation
Indices: 7932--8010 Score: 124
Period size: 26 Copynumber: 3.0 Consensus size: 26
7922 GGCTCAAAAT
*
7932 CTTAGAC-TAGGAATGAACTCCATATG
1 CTTAGACAT-GGAATGAACTCCGTATG
*
7958 CTTAGACATGGAATGAACACCGTATG
1 CTTAGACATGGAATGAACTCCGTATG
7984 CTTAGACATGGAATGAACTCCGTATG
1 CTTAGACATGGAATGAACTCCGTATG
8010 C
1 C
8011 CTAAGCCAAC
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
26 48 0.98
27 1 0.02
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (26 bp):
CTTAGACATGGAATGAACTCCGTATG
Found at i:8184 original size:26 final size:26
Alignment explanation
Indices: 8144--8195 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
8134 CAGTCTAATA
8144 TTAGAATGGGAATGAACTCCGTATGC
1 TTAGAATGGGAATGAACTCCGTATGC
* * *
8170 TTAGACTGGGGATGAACTTCGTATGC
1 TTAGAATGGGAATGAACTCCGTATGC
8196 CTAAGTTAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (26 bp):
TTAGAATGGGAATGAACTCCGTATGC
Found at i:9083 original size:26 final size:26
Alignment explanation
Indices: 9054--9105 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
9044 CGGTCTGATA
9054 TTAGACTGGGAATGAACTCCGTATGC
1 TTAGACTGGGAATGAACTCCGTATGC
*
9080 TTAGACTGGGGATGAACTCCGTATGC
1 TTAGACTGGGAATGAACTCCGTATGC
9106 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (26 bp):
TTAGACTGGGAATGAACTCCGTATGC
Found at i:16065 original size:26 final size:26
Alignment explanation
Indices: 16029--16081 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
16019 CCAATCTGAT
16029 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
*
16055 CTTAGACTGGGGATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
16081 C
1 C
16082 CTAAGTCAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Found at i:16604 original size:159 final size:159
Alignment explanation
Indices: 16054--16810 Score: 658
Period size: 159 Copynumber: 4.8 Consensus size: 159
16044 AACTCCGTAT
* * * *
16054 GCTTAGAC-TGGGGATGAACTCCGTATGCCTAAGTCAACCCACGAAACGAGCGTGCGA-CTGCTG
1 GCTTAGACAT-GGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGAGCGTGCGAGC-ACTG
* * * * * * * *
16117 AATCAATCGGAAAGGCATAATGCGTAAGCCGAGGATCAGCCC-AGTCCCCCTCTGCGTGCTGCCA
64 AACCGACCGGAGAGGCATAATGCGCAAGCCGGGGATCGGCCCGA-T-CCCCTCTGCGTGCTGTCA
* *
16181 -GTCCTGCTGCCACAACCCTC-AGTCCGACTGGG
127 GGTCCCGCTGCCACAACCCTCGA-TCCGGCTGGG
* * * * *
16213 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCTACGAAACGAGCGTGCGGGCACTTAG
1 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGAGCGTGCGAGCACTGAA
* * * *
16278 CCGACCGGAGAGGCAGAATGCGCAAGTCAGGGATCGGCCCGGTCCCCTCTGCGTGCTG--A--TC
66 CCGACCGGAGAGGCATAATGCGCAAGCCGGGGATCGGCCCGATCCCCTCTGCGTGCTGTCAGGTC
** * * * * *
16339 TGGCTGTCGCAACCCTCGGTCCGATCT-GA
131 CCGCTGCCACAACCCTCGATCCG-GCTGGG
* * * * * *
16368 TCTTAGAC-TAGGAATGAACTCCATATGCATAAGTCAACCCACGAAACGAGCGTGCGGGCGCTGA
1 GCTTAGACAT-GGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGAGCGTGCGAGCACTGA
* * * * * *
16432 ACTGGCTGAAGAGGCATAATACGCAAGCCGGGGATCGGCCCGATCCCCTTCTACGTGCTGTC-GG
65 ACCGACCGGAGAGGCATAATGCGCAAGCCGGGGATCGGCCCGATCCCC-TCTGCGTGCTGTCAGG
* * *
16496 TCCCACTGCCACAATCCTCGATCCGGCTTGG
129 TCCCGCTGCCACAACCCTCGATCCGGCTGGG
* * * * *
16527 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACAAAATGGGCATGCGAGCACTCAA
1 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGAGCGTGCGAGCACTGAA
* * * * ** *
16592 CCGACCGGAGAGGCAAAATGCGCAAGCCGGGGATTGGCCCGGTCCCCCCTGCGTG-TCACAGATC
66 CCGACCGGAGAGGCATAATGCGCAAGCCGGGGATCGGCCCGATCCCCTCTGCGTGCTGTCAGGTC
* * *
16656 TCGCTACCACAACCCTCGATCTGGCTGGG
131 CCGCTGCCACAACCCTCGATCCGGCTGGG
* * * * * ** *
16685 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACAAAACGGGTGTGTAGGGTGCTCA
1 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGAGCGTG-CGAGCACTGA
** * * * * * *
16750 GTCGACCGAAGAGGTAGAATGCGCATGCCGGGGATCGACCCGATCCCCTCTGCATGCTGTC
65 ACCGACCGGAGAGGCATAATGCGCAAGCCGGGGATCGGCCCGATCCCCTCTGCGTGCTGTC
16811 GATCCTACTG
Statistics
Matches: 480, Mismatches: 102, Indels: 31
0.78 0.17 0.05
Matches are distributed among these distances:
154 1 0.00
155 113 0.24
156 13 0.03
157 2 0.00
158 100 0.21
159 246 0.51
160 5 0.01
ACGTcount: A:0.24, C:0.31, G:0.27, T:0.18
Consensus pattern (159 bp):
GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCACGAAACGAGCGTGCGAGCACTGAA
CCGACCGGAGAGGCATAATGCGCAAGCCGGGGATCGGCCCGATCCCCTCTGCGTGCTGTCAGGTC
CCGCTGCCACAACCCTCGATCCGGCTGGG
Found at i:16633 original size:314 final size:314
Alignment explanation
Indices: 16055--16646 Score: 796
Period size: 314 Copynumber: 1.9 Consensus size: 314
16045 ACTCCGTATG
* * * *
16055 CTTAGACTGGGGATGAACTCCGTATGCCTAAGTCAACCCACGAAACGAGCGTGCGACTGCTGAAT
1 CTTAGACTAGGAATGAACTCCATATGCATAAGTCAACCCACGAAACGAGCGTGCGACTGCTGAAT
* * * *
16120 CAATCGGAAAGGCATAATGCGTAAGCCGAGGATCAGCCCAGTCCCCCTCTGCGTGCTGCCAGTCC
66 CAAGCGGAAAGGCATAATACGCAAGCCGAGGATCAGCCCAGTCCCCCTCTACGTGCTGCCAGTCC
** *
16185 TGCTGCCACAACCCTCAGTCCGACTGGGGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAA
131 CACTGCCACAACCCTCAGTCCGACTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAA
* * * * * * * *
16250 CCTACGAAACGAGCGTGCGGGCACTTAGCCGACCGGAGAGGCAGAATGCGCAAGTCAGGGATCGG
196 CCCACAAAACGAGCATGCGAGCACTCAACCGACCGGAGAGGCAAAATGCGCAAGCCAGGGATCGG
*
16315 CCCGGTCCCCTCTGCGTGCTGATCTGGCTGTCGCAACCCTCGGTCCGATCTGAT
261 CCCGGTCCCCCCTGCGTGCTGATCTGGCTGTCGCAACCCTCGGTCCGATCTGAT
*
16369 CTTAGACTAGGAATGAACTCCATATGCATAAGTCAACCCACGAAACGAGCGTGCGGGC-GCTGAA
1 CTTAGACTAGGAATGAACTCCATATGCATAAGTCAACCCACGAAACGAGCGTGC-GACTGCTGAA
** * * * * * *
16433 -CTGGCTGAAGAGGCATAATACGCAAGCCGGGGATCGGCCC-GATCCCCTTCTACGTGCTGTCGG
65 TCAAGCGGAA-AGGCATAATACGCAAGCCGAGGATCAGCCCAG-TCCCCCTCTACGTGCTGCCAG
* * *
16496 TCCCACTGCCACAATCCTC-GATCCGGCTTGGGCTTAGACATGGAATGAACTCCCTATGCCTAAG
128 TCCCACTGCCACAACCCTCAG-TCCGACTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAG
* * *
16560 CCAACCCACAAAATGGGCATGCGAGCACTCAACCGACCGGAGAGGCAAAATGCGCAAGCCGGGGA
192 CCAACCCACAAAACGAGCATGCGAGCACTCAACCGACCGGAGAGGCAAAATGCGCAAGCCAGGGA
*
16625 TTGGCCCGGTCCCCCCTGCGTG
257 TCGGCCCGGTCCCCCCTGCGTG
16647 TCACAGATCT
Statistics
Matches: 238, Mismatches: 36, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
313 7 0.03
314 229 0.96
315 2 0.01
ACGTcount: A:0.24, C:0.31, G:0.27, T:0.18
Consensus pattern (314 bp):
CTTAGACTAGGAATGAACTCCATATGCATAAGTCAACCCACGAAACGAGCGTGCGACTGCTGAAT
CAAGCGGAAAGGCATAATACGCAAGCCGAGGATCAGCCCAGTCCCCCTCTACGTGCTGCCAGTCC
CACTGCCACAACCCTCAGTCCGACTGGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAA
CCCACAAAACGAGCATGCGAGCACTCAACCGACCGGAGAGGCAAAATGCGCAAGCCAGGGATCGG
CCCGGTCCCCCCTGCGTGCTGATCTGGCTGTCGCAACCCTCGGTCCGATCTGAT
Found at i:16862 original size:317 final size:314
Alignment explanation
Indices: 16187--16871 Score: 727
Period size: 314 Copynumber: 2.2 Consensus size: 314
16177 GCCAGTCCTG
* * * *
16187 CTGCCACAACCCTC-AGTCCGACTGGGGCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAAC
1 CTGCCACAACCCTCGA-TCCGGCTTGAGCTTAGACATGGAATGAACTCCATATGCCTAAGCCAAC
* * * * * * * *
16251 CTACGAAACGAGCGTGCGGGCACTTAGCCGACCGGAGAGGCAGAATGCGCAAGTCAGGGATCGGC
65 CCACAAAACGAGCATGCGAGCACTCAACCGACCGGAGAGGCAAAATGCGCAAGCCAGGGATCGGC
* * * ** * * * *
16316 CCGGTCCCCTCTGCGTGCTGATCTGGCTGTCGCAACCCTCGGTCCGATCTGATCTTAGACTAGGA
130 CCGGTCCCCCCTGCGTGCAGATCTCGCTACCACAACCCTCGATCCGAGCTGAGCTTAGACTAGGA
* * * * * *
16381 ATGAACTCCATATGCATAAGTCAACCCACGAAACGAGCGTGCGGGCGCTGAACTGGCTGAAGAGG
195 ATGAACTCCATATGCATAAGCCAACCCACAAAACGAGCGTGAGGGCGCTCAACTGACCGAAGAGG
* * * *
16446 CATAATACGCAAGCCGGGGATCGGCCCGATCCCCTTCTACGTGCTGTCGGTCCCA
260 CAGAATACGCAAGCCGGGGATCGACCCGATCCCCTTCTACATGCTGTCGATCCCA
* * *
16501 CTGCCACAATCCTCGATCCGGCTTGGGCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACC
1 CTGCCACAACCCTCGATCCGGCTTGAGCTTAGACATGGAATGAACTCCATATGCCTAAGCCAACC
* * * *
16566 CACAAAATGGGCATGCGAGCACTCAACCGACCGGAGAGGCAAAATGCGCAAGCCGGGGATTGGCC
66 CACAAAACGAGCATGCGAGCACTCAACCGACCGGAGAGGCAAAATGCGCAAGCCAGGGATCGGCC
* *
16631 CGGTCCCCCCTGCGTGTCACAGATCTCGCTACCACAACCCTCGATCTG-GCTGGGGCTTAGAC-A
131 CGGTCCCCCCTGCGTG---CAGATCTCGCTACCACAACCCTCGATCCGAGCT-GAGCTTAGACTA
* * * * * *
16694 TGGAATGAACTCCCTATGCCTAAGCCAACCCACAAAACGGGTGTGTAGGGTGCTC-AGTCGACCG
192 -GGAATGAACTCCATATGCATAAGCCAACCCACAAAACGAGCGTG-AGGGCGCTCAACT-GACCG
* * * * *
16758 AAGAGGTAGAATGCGCATGCCGGGGATCGACCCGATCCCC-TCTGCATGCTGTCGATCCTA
254 AAGAGGCAGAATACGCAAGCCGGGGATCGACCCGATCCCCTTCTACATGCTGTCGATCCCA
* * * * *
16818 CTGTCGCAACCCTCGATTC-GATCTGATCTTAGAC-TGGGAATGAACTCCATATGC
1 CTGCCACAACCCTCGATCCGGCT-TGAGCTTAGACAT-GGAATGAACTCCATATGC
16872 TTAGATTGGA
Statistics
Matches: 305, Mismatches: 56, Indels: 17
0.81 0.15 0.04
Matches are distributed among these distances:
314 127 0.42
315 1 0.00
316 6 0.02
317 127 0.42
318 44 0.14
ACGTcount: A:0.24, C:0.31, G:0.27, T:0.19
Consensus pattern (314 bp):
CTGCCACAACCCTCGATCCGGCTTGAGCTTAGACATGGAATGAACTCCATATGCCTAAGCCAACC
CACAAAACGAGCATGCGAGCACTCAACCGACCGGAGAGGCAAAATGCGCAAGCCAGGGATCGGCC
CGGTCCCCCCTGCGTGCAGATCTCGCTACCACAACCCTCGATCCGAGCTGAGCTTAGACTAGGAA
TGAACTCCATATGCATAAGCCAACCCACAAAACGAGCGTGAGGGCGCTCAACTGACCGAAGAGGC
AGAATACGCAAGCCGGGGATCGACCCGATCCCCTTCTACATGCTGTCGATCCCA
Found at i:17030 original size:12 final size:12
Alignment explanation
Indices: 17002--17044 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
16992 CCCCTCTGTG
*
17002 TGCTGCCGAT-C
1 TGCTGCCGGTCC
17013 TCGCTGCCGGTCC
1 T-GCTGCCGGTCC
17026 TGCTGCCGGTCC
1 TGCTGCCGGTCC
17038 TGCTGCC
1 TGCTGCC
17045 ATAACCCTCG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 1 0.03
12 26 0.90
13 2 0.07
ACGTcount: A:0.02, C:0.42, G:0.30, T:0.26
Consensus pattern (12 bp):
TGCTGCCGGTCC
Found at i:17260 original size:26 final size:26
Alignment explanation
Indices: 17231--17283 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
17221 CCGGTCCAAT
17231 CTTAGAC-TGGGAATGAACTCCGTATG
1 CTTAGACAT-GGAATGAACTCCGTATG
17257 CTTAGACATGGAATGAACTCCGTATG
1 CTTAGACATGGAATGAACTCCGTATG
17283 C
1 C
17284 CTAAGCCAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 25 0.96
27 1 0.04
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (26 bp):
CTTAGACATGGAATGAACTCCGTATG
Found at i:17436 original size:183 final size:186
Alignment explanation
Indices: 17066--17440 Score: 510
Period size: 183 Copynumber: 2.0 Consensus size: 186
17056 TCCGGCTGGC
* * * * *
17066 GCTTAGATATGGAATGAACTTCATATGCCTAAGCCAACCCACGAAACAGCGTGCGGGTGCTCAGT
1 GCTTAGACATGGAATGAACTCCATATGCCTAAGCCAACCCACGAAACAGCGTGCAGGCGCTCAGC
* * * *
17131 CGGCGGAGAGGCAGAATGCACAAGCCGGGGATCGGCCCGGTCCCCCCTGCGTGCTGCCATCCTGC
66 CGCCGGAGAGGCAGAATGCACAAGCCGGGGATCGGCCCGATCCCCCCTGCGTGCT--CATCATCC
*
17196 TGCTGGTCCTGCTACAACCCTCGGTCCGGTCCAATCTTAGACTGGGAATGAACTCCGTAT
129 TACTGGTCCTG--ACAACCCTCGGTCCGGTCCAATCTTAGACTGGGAATGAACTCCGTAT
*
17256 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCAGGCGCTCAG
1 GCTTAGACATGGAATGAACTCCATATGCCTAAGCCAACCCACGAAAC-AGCGTGCAGGCGCTCAG
** *
17321 CCGACCGGAGAGGCAGAATGTGCAAGCCGGGGATCGGCTCGAT-CCCCCTGCGTGCT-ATCGATC
65 CCG-CCGGAGAGGCAGAATGCACAAGCCGGGGATCGGCCCGATCCCCCCTGCGTGCTCATC-ATC
*
17384 CTACT-GT-C-G-CAACCCTCGGTCCGGTCCGATCTTAGACTGGGAATGAACTCCGTAT
128 CTACTGGTCCTGACAACCCTCGGTCCGGTCCAATCTTAGACTGGGAATGAACTCCGTAT
17439 GC
1 GC
17441 CTAAGTCAAC
Statistics
Matches: 167, Mismatches: 15, Indels: 13
0.86 0.08 0.07
Matches are distributed among these distances:
183 47 0.28
186 1 0.01
187 1 0.01
188 5 0.03
189 5 0.03
190 44 0.26
191 30 0.18
192 34 0.20
ACGTcount: A:0.22, C:0.31, G:0.28, T:0.19
Consensus pattern (186 bp):
GCTTAGACATGGAATGAACTCCATATGCCTAAGCCAACCCACGAAACAGCGTGCAGGCGCTCAGC
CGCCGGAGAGGCAGAATGCACAAGCCGGGGATCGGCCCGATCCCCCCTGCGTGCTCATCATCCTA
CTGGTCCTGACAACCCTCGGTCCGGTCCAATCTTAGACTGGGAATGAACTCCGTAT
Found at i:17586 original size:155 final size:155
Alignment explanation
Indices: 17256--17660 Score: 476
Period size: 156 Copynumber: 2.6 Consensus size: 155
17246 AACTCCGTAT
* * *
17256 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCAGGCGCTCAG
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCAC-AAACGAGCGTACGGGCGCTGAG
** * * *
17321 CCGACCGGAGAGGCAGAATGTGCAAGCCGGGGATCGGCTCGATCCCCCTGCGTGCTATCGATCCT
65 CCGGTCGGAGAGGCAGAATGCGCAAGCC-GGGATCGGCTCGATCCCCCTGCATGCTATCGATCCC
* * * *
17386 ACTGTCGCAACCCTCGGTCCGGTCCGA
129 ACTGCCACAACCCTCAGTCCAGTCCGA
* * * * *
17413 TCTTAGAC-TGGGAATGAACTCCGTATGCCTAAGTCAACCCACAAATGAGTGTACGGGTGCTGAG
1 GCTTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCACAAACGAGCGTACGGGCGCTGAG
* * * *
17477 CCGGTCGGAGAGGCATAATGCGCAAGTC-GGATCGGC-CGGTCCCCCTCTGCATGCTGTCGATCC
65 CCGGTCGGAGAGGCAGAATGCGCAAGCCGGGATCGGCTCGAT-CCCC-CTGCATGCTATCGATCC
** *
17540 CACTGCCACAACCCTCAGTCCAGTTGGG
128 CACTGCCACAACCCTCAGTCCAGTCCGA
* *
17568 GCTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAACGAGCGTACGGGCGCTCG-
1 GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCA-CAAACGAGCGTACGGGCGCT-GA
*
17632 GCCGGTCGAAGAGGCAGAATGCGCAAGCC
64 GCCGGTCGGAGAGGCAGAATGCGCAAGCC
17661 AAAGATTGGC
Statistics
Matches: 208, Mismatches: 34, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
153 3 0.01
154 12 0.06
155 71 0.34
156 83 0.40
157 39 0.19
ACGTcount: A:0.23, C:0.31, G:0.28, T:0.18
Consensus pattern (155 bp):
GCTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACAAACGAGCGTACGGGCGCTGAGC
CGGTCGGAGAGGCAGAATGCGCAAGCCGGGATCGGCTCGATCCCCCTGCATGCTATCGATCCCAC
TGCCACAACCCTCAGTCCAGTCCGA
Found at i:17752 original size:157 final size:153
Alignment explanation
Indices: 17257--17752 Score: 498
Period size: 157 Copynumber: 3.2 Consensus size: 153
17247 ACTCCGTATG
* * *
17257 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCACGAAACGAGCGTGCAGGCGCTCAGC
1 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCA-GAAACGAGCGTACGGGCGCTCGGC
** * *
17322 CGACCGGAGAGGCAGAATGTGCAAGCCGGGGATCGG-CTCGATCCCCCTGCGTGCTATCGATCCT
65 CGGTCGGAGAGGCAGAATGCGCAAGCC--GGATCGGCCTCG-TCCCCCTGCGTGCTGTCGATCCT
* * *
17386 ACTGTCGCAACCCTCGGTCCGGTCCGAT
127 ACTGTCGCAACCCTC-GACCCGTTCGAT
* * * * *
17414 CTTAGAC-TGGGAATGAACTCCGTATGCCTAAGTCAACCCACAAATGAGTGTACGGGTGCT-GAG
1 CTTAGACAT-GGAATGAACTCCGTATGCCTAAGCCAACCCAGAAACGAGCGTACGGGCGCTCG-G
* * * * *
17477 CCGGTCGGAGAGGCATAATGCGCAAGTCGGATCGGCC-GGTCCCCCTCTGCATGCTGTCGATCCC
64 CCGGTCGGAGAGGCAGAATGCGCAAGCCGGATCGGCCTCGT-CCCC-CTGCGTGCTGTCGATCCT
* * * * * **
17541 ACTGCCACAACCCTCAGTCCAGTTGGGG
127 ACTGTCGCAACCCTC-GACCCGTTCGAT
*
17569 CTTAGACATGGAATGAACTCCCTATGCCTAAGCCAACCCATGAAACGAGCGTACGGGCGCTCGGC
1 CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCA-GAAACGAGCGTACGGGCGCTCGGC
* * * * * * *
17634 CGGTCGAAGAGGCAGAATGCGCAAGCCAAAGATTGGCCTTGTCCCCCTGCGTGCTGCCGATACTG
65 CGGTCGGAGAGGCAGAATGCGCAAGCC--GGATCGGCCTCGTCCCCCTGCGTGCTGTCGATCCTA
*
17699 CTGTCGTAACCCTCGACCCGATTCGAT
128 CTGTCGCAACCCTCGACCCG-TTCGAT
17726 CTTAGAC-TGGGAATGAACTCCGTATGC
1 CTTAGACAT-GGAATGAACTCCGTATGC
17753 TTAGACTGGG
Statistics
Matches: 275, Mismatches: 51, Indels: 26
0.78 0.14 0.07
Matches are distributed among these distances:
153 1 0.00
154 12 0.04
155 72 0.26
156 87 0.32
157 90 0.33
158 11 0.04
159 2 0.01
ACGTcount: A:0.23, C:0.31, G:0.27, T:0.19
Consensus pattern (153 bp):
CTTAGACATGGAATGAACTCCGTATGCCTAAGCCAACCCAGAAACGAGCGTACGGGCGCTCGGCC
GGTCGGAGAGGCAGAATGCGCAAGCCGGATCGGCCTCGTCCCCCTGCGTGCTGTCGATCCTACTG
TCGCAACCCTCGACCCGTTCGAT
Found at i:17762 original size:26 final size:26
Alignment explanation
Indices: 17726--17778 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
17716 CCGATTCGAT
17726 CTTAGACTGGGAATGAACTCCGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
* *
17752 CTTAGACTGGGGATGAACTCTGTATG
1 CTTAGACTGGGAATGAACTCCGTATG
17778 C
1 C
17779 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCGTATG
Done.