Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168425.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_639, 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: 20930
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.25
Found at i:2184 original size:26 final size:26
Alignment explanation
Indices: 2134--2186 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
2124 GTTGGCTTAG
* *
2134 GCATACGGAGTTCATTCCATGTCTAA
1 GCATACGAAGTTCATTCCATATCTAA
2160 GCATACGAAGTTCATTCC-TAATCTAA
1 GCATACGAAGTTCATTCCAT-ATCTAA
2186 G
1 G
2187 ATTGGATTGG
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:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (26 bp):
GCATACGAAGTTCATTCCATATCTAA
Found at i:2726 original size:26 final size:26
Alignment explanation
Indices: 2696--2748 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
2686 GGTTGACTTC
*
2696 AGCATACGGAGTTCATCCCCAGTCTA
1 AGCATACAGAGTTCATCCCCAGTCTA
* *
2722 AGCATATAGAGTTCATTCCCAGTCTA
1 AGCATACAGAGTTCATCCCCAGTCTA
2748 A
1 A
2749 TATCAAACCA
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:0.17, T:0.26
Consensus pattern (26 bp):
AGCATACAGAGTTCATCCCCAGTCTA
Found at i:3150 original size:157 final size:155
Alignment explanation
Indices: 2730--3221 Score: 464
Period size: 157 Copynumber: 3.1 Consensus size: 155
2720 TAAGCATATA
* * * *
2730 GAGTTCATTCCCAGTCTAATATCAAACCAGACCGAGGGTTGTGACAGCAAGATCGGTAGCACGCA
1 GAGTTCATT-CCAGTCTAAGATCAGACCAGACCGAGGGTTGTGACAGCAGGATCGATAGCACGCA
* * * * ** * * *
2795 GGGGGGACCGGGCCGATCCCGGCTTGCGCATTCTGTCACTTCATCGGTTGAGTGCCCGCACGCCC
65 GGGGGGACCAGGCCGATCCCCGCTTGCGCATTCTGCCTCTTCGGCGGCTCAGCGCCCGCACGCCC
* *
2860 GTTTCGTGGGTTGGCTTAGGCATATG
130 GTTTCGTGGGTTGACTTAGGCATACG
* ** * * * * * *
2886 GAGTTCATTCCATTTCTAAGCCCCAG-CCAGACCGACGGTTGTGGCAGCGGGACCAACAGCACGC
1 GAGTTCATTCCA-GTCTAAG-ATCAGACCAGACCGAGGGTTGTGACAGCAGGATCGATAGCACGC
* * * * *
2950 AGAGGGGGATCAGGCCGATCCTCGACTTGCGCATTATGCCTCTTCGGCTGGCTCAGCGCCTGCAT
64 AG-GGGGGACCAGGCCGATCCCCG-CTTGCGCATTCTGCCTCTTCGGC-GGCTCAGCGCCCGCAC
** *
3015 GCTTGTTTCGTGGGTTGACTTATGCATACG
126 GCCCGTTTCGTGGGTTGACTTAGGCATACG
* * * * * *
3045 GAGTTAATTCCAGTGTAAGATCAGACCGGACTGAGGGTTGCGACAGCAGGATCGATAGCACGCTG
1 GAGTTCATTCCAGTCTAAGATCAGACCAGACCGAGGGTTGTGACAGCAGGATCGATAGCACGCAG
* * * * *
3110 GGGGGACCAGGTCGATCCCCAGCTTGCGCATTCTGCCTCTTCGGTCCGCTGAGCGCCCGTACGCT
66 GGGGGACCAGGCCGATCCCC-GCTTGCGCATTCTGCCTCTTCGG-CGGCTCAGCGCCCGCACGCC
* * ** *
3175 CGTTTCGTAGGTTGGCTTAGTTATACA
129 CGTTTCGTGGGTTGACTTAGGCATACG
3202 GAGTTCATTCCATGTCTAAG
1 GAGTTCATTCCA-GTCTAAG
3222 CATACTGAGT
Statistics
Matches: 262, Mismatches: 65, Indels: 16
0.76 0.19 0.05
Matches are distributed among these distances:
155 3 0.01
156 46 0.18
157 105 0.40
158 61 0.23
159 47 0.18
ACGTcount: A:0.19, C:0.27, G:0.30, T:0.24
Consensus pattern (155 bp):
GAGTTCATTCCAGTCTAAGATCAGACCAGACCGAGGGTTGTGACAGCAGGATCGATAGCACGCAG
GGGGGACCAGGCCGATCCCCGCTTGCGCATTCTGCCTCTTCGGCGGCTCAGCGCCCGCACGCCCG
TTTCGTGGGTTGACTTAGGCATACG
Found at i:4661 original size:157 final size:154
Alignment explanation
Indices: 4355--4799 Score: 432
Period size: 157 Copynumber: 2.8 Consensus size: 154
4345 TGCGATAGTA
* * * *
4355 AGATCGACAGCACGCAGGGGGGACCGGGCCGATCCCCGGCTTGTGCATTCTGCCTCTCCGGCCAG
1 AGATAGACAGCACACAGAGGGGACCGGGTCGATCCCCGGCTTGTGCATTCTGCCTCTCC-GCCAG
* * * * * *
4420 CTGAGCACCTGCACACCCGTTTCGTGGGTTGGCTTAGGCATAGGGAGTTCATTCC-AGGTCCAAG
65 CTGAGCGCCCGCAC-TCC-TTTCGTGGGTTGACTTAGGCATACGGAGTTCATTCCTA-GTCTAAG
* * **
4484 CCCCAGTCAGACTGAGGGTTGTGGCAAC
127 CACCAGACAGACCAAGGGTTGTGGCAAC
* * * * *
4512 AGGACTAG-TAGCACACAGAAGGGGACCGGGTCGGTCCCTGGCTTGTGCATTATGCCTCTCCGAT
1 A-GA-TAGACAGCACACAG-AGGGGACCGGGTCGATCCCCGGCTTGTGCATTCTGCCTCTCCG-C
* * *
4576 CAGCTCAACGCCCGCACTCCTTTCGTGGGTTGACTTAGGCATATGGAGTTCATTCCTAGTCTAAG
62 CAGCTGAGCGCCCGCACTCCTTTCGTGGGTTGACTTAGGCATACGGAGTTCATTCCTAGTCTAAG
* * *
4641 -ATCAGACTGGACCAAGGGTTGTGGCAGC
127 CACCAGAC-AGACCAAGGGTTGTGGCAAC
* ** * * * *
4669 AGATCGACAGCATGCAGGGGGGATCGGGTCGATCCCCGGCTTGTGTATTCTGCCTCTTCGGCC-G
1 AGATAGACAGCACACAGAGGGGACCGGGTCGATCCCCGGCTTGTGCATTCTGCCTC-TCCGCCAG
*
4733 ACTGAGCGCCCGTACACTCGTTTCGTGGGTT-AGCTTAGGCATACGGAGTTCATTCCTAGTCTAA
65 -CTGAGCGCCCG--CACTCCTTTCGTGGGTTGA-CTTAGGCATACGGAGTTCATTCCTAGTCTAA
4797 GCA
126 GCA
4800 TACGAAGTTC
Statistics
Matches: 235, Mismatches: 40, Indels: 25
0.78 0.13 0.08
Matches are distributed among these distances:
154 1 0.00
155 45 0.19
156 17 0.07
157 105 0.45
158 15 0.06
159 52 0.22
ACGTcount: A:0.19, C:0.28, G:0.30, T:0.23
Consensus pattern (154 bp):
AGATAGACAGCACACAGAGGGGACCGGGTCGATCCCCGGCTTGTGCATTCTGCCTCTCCGCCAGC
TGAGCGCCCGCACTCCTTTCGTGGGTTGACTTAGGCATACGGAGTTCATTCCTAGTCTAAGCACC
AGACAGACCAAGGGTTGTGGCAAC
Found at i:4808 original size:26 final size:26
Alignment explanation
Indices: 4771--4823 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
4761 GTTAGCTTAG
* *
4771 GCATACGGAGTTCATTCCTAGTCTAA
1 GCATACGAAGTTCATTCCCAGTCTAA
4797 GCATACGAAGTTCATTCCCAGTCTAA
1 GCATACGAAGTTCATTCCCAGTCTAA
4823 G
1 G
4824 ATCGGACCGA
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:0.25, G:0.19, T:0.28
Consensus pattern (26 bp):
GCATACGAAGTTCATTCCCAGTCTAA
Found at i:5637 original size:26 final size:26
Alignment explanation
Indices: 5600--5652 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
5590 GTTGACTTAG
*
5600 GCATACGGAGTTCATCCCCAGTCTAA
1 GCATACGAAGTTCATCCCCAGTCTAA
* *
5626 GCATACGAAGTTCATTCCTAGTCTAA
1 GCATACGAAGTTCATCCCCAGTCTAA
5652 G
1 G
5653 ATCGGACCGA
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):
GCATACGAAGTTCATCCCCAGTCTAA
Found at i:6678 original size:26 final size:26
Alignment explanation
Indices: 6642--6694 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
6632 GTTGACTTAG
*
6642 GCATACAGAGTTTATCCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
* *
6668 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
6694 G
1 G
6695 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:6780 original size:346 final size:346
Alignment explanation
Indices: 6270--6892 Score: 822
Period size: 346 Copynumber: 1.8 Consensus size: 346
6260 TGAGCGCCCG
* ** * *
6270 CACGCTCGTTTCGTAGGTTGGTTTAGGCATACAGAGTTCATTCAATGTCTAAGCATATGGAGTTC
1 CACGCTCATTTCGTAGGTTGACTTAGGCATACAGAGTTCATCCAATGTCTAAGCATACGGAGTTC
* * * **
6335 ATTCCCAGTCTAAGATCGAACCGAACCGAGGGTTACAGCAGTAGGATCGGTAGCACGCAAGGTGG
66 ATTCCCAGTCTAAGATCAAACCGAACCAAGGGTTACAGCAGCAGGATCGACAGCACGCAAGGTGG
* ** * * * * *
6400 ATCGAGCTGATCCCTGGCTTATGCATTTTGCCTCTCCGGTCGGTTGAGCACCCGCACGCTCATTT
131 ATCGAGCTGATCCCCGGCTTACACATTCTGCCTCTCCGGCCAGTTGAACACCCGCACGCCCATTT
** * * *
6465 TGTGGGTAGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCCCCAGTCGGACCGAGGGTTGTA
196 CATGGGTAGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCCCCAGCCGGACCAAGGGTTATA
6530 GCAGCAGGACCGACAGCGGGATCGACAGCATGTAAAGGGGGATCGGGTTGATCCTCGGCTTGTGC
261 GCAGCAGGACCGACAGCGGGATCGACAGCATGTAAAGGGGGATCGGGTTGATCCTCGGCTTGTGC
6595 ATTATGCATCTCCGGCCAGCC
326 ATTATGCATCTCCGGCCAGCC
* * *
6616 CACGCTCATTTCGTGGGTTGACTTAGGCATACAGAGTTTATCCCCA-GTCTAAGCATACGGAGTT
1 CACGCTCATTTCGTAGGTTGACTTAGGCATACAGAGTTCAT-CCAATGTCTAAGCATACGGAGTT
* * * *
6680 CATTCCCAGTCTAAGATCAAACCGGACCAAGGGTTGC-GACAGCAGGATCGACAGCAGGTAGAGG
65 CATTCCCAGTCTAAGATCAAACCGAACCAAGGGTTACAG-CAGCAGGATCGACAGCACGCA-AGG
* * *
6744 -GGATCG-GGTCGATCCCCGGCTTGCACATTCTGCCTCTCCGGCCAGTTGAACGCCCGCACGCCC
128 TGGATCGAGCT-GATCCCCGGCTTACACATTCTGCCTCTCCGGCCAGTTGAACACCCGCACGCCC
* * * *
6807 GTTTCATGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTTTAAGCCCCAGCCGGACCAAGGGT
192 ATTTCATGGGTAGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCCCCAGCCGGACCAAGGGT
* **
6872 TATGGCAGTGGGACCGACAGC
257 TATAGCAGCAGGACCGACAGC
6893 ACGCAGTGGG
Statistics
Matches: 233, Mismatches: 40, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
345 3 0.01
346 225 0.97
347 5 0.02
ACGTcount: A:0.22, C:0.26, G:0.29, T:0.24
Consensus pattern (346 bp):
CACGCTCATTTCGTAGGTTGACTTAGGCATACAGAGTTCATCCAATGTCTAAGCATACGGAGTTC
ATTCCCAGTCTAAGATCAAACCGAACCAAGGGTTACAGCAGCAGGATCGACAGCACGCAAGGTGG
ATCGAGCTGATCCCCGGCTTACACATTCTGCCTCTCCGGCCAGTTGAACACCCGCACGCCCATTT
CATGGGTAGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCCCCAGCCGGACCAAGGGTTATA
GCAGCAGGACCGACAGCGGGATCGACAGCATGTAAAGGGGGATCGGGTTGATCCTCGGCTTGTGC
ATTATGCATCTCCGGCCAGCC
Found at i:6969 original size:159 final size:158
Alignment explanation
Indices: 6668--7487 Score: 596
Period size: 159 Copynumber: 5.2 Consensus size: 158
6658 CCCAGTCTAA
** * * * * * ** *
6668 GCATACGGAGTTCATTCCCA-GTCTAAGATCAAACCGGACCAAGGGTTGCGACAGCAGGATCGAC
1 GCATACGGAGTTCATT-CCATGTCTAAGCCCCAGCCGGACCGAGGGTTGTGGCAGTGGGACCGAC
* * * * * * * * * *
6732 AGCAGGTAGAGGGGATCGGGTCGATCCCCGGCTTGCACATTCTGCCTCTCCGG-CCAGTTGAACG
65 AGCACGCAGGGGGGATCGGGTCGATCCCCGGCTTGCGCATTATGCCTCTTCGGTCGA-CTCAGCG
* * *
6796 CCCGCACGCCCGTTTCATGGGTTGGCTTAG
129 CCCGCACGCTCGTTTCGTGGGTTGACTTAG
* * * *
6826 GCATAGGGAGTTCATTCCATGTTTAAGCCCCAGCCGGACCAAGGGTTATGGCAGTGGGACCGACA
1 GCATACGGAGTTCATTCCATGTCTAAGCCCCAGCCGGACCGAGGGTTGTGGCAGTGGGACCGACA
* * * *
6891 GCACGCAGTGGGGGATCGGGTCAATCCCTGACTTGCGCATTATTCCTCTTCGGTTC-ACTCAGCG
66 GCACGCAG-GGGGGATCGGGTCGATCCCCGGCTTGCGCATTATGCCTCTTCGG-TCGACTCAGCG
* * * *
6955 CTCGCACGCTCGTTTTGTGGTTTGACTTAT
129 CCCGCACGCTCGTTTCGTGGGTTGACTTAG
* * ** * * * * * *
6985 GCATACGGAGTTCATTCTA-GTGTAAG-ATCGGACCGAACTGAGGGTTGCGGCAGTAGGATCGAC
1 GCATACGGAGTTCATTCCATGTCTAAGCCCCAG-CCGGACCGAGGGTTGTGGCAGTGGGACCGAC
* * * * * *
7048 AGCACGCAGGGGGGATCGAGCCGATCCCAGGGCTTGCGCATTCTGCCTC-TCTGGCCGACTGAGC
65 AGCACGCAGGGGGGATCGGGTCGATCCC-CGGCTTGCGCATTATGCCTCTTC-GGTCGACTCAGC
* *
7112 ACCCGCACG-TCCGTTTCGTGGGTTGGCTTAG
128 GCCCGCACGCT-CGTTTCGTGGGTTGACTTAG
* * * * *
7143 GCATAGGGAGTTCATTCCATGTCGAAGCCCTAGCCGGACCGAGGGTTGTGGCAGCGGGACCGGCA
1 GCATACGGAGTTCATTCCATGTCTAAGCCCCAGCCGGACCGAGGGTTGTGGCAGTGGGACCGACA
* * * * * *
7208 GCACGTAGAGGGGGACCGGGTCGATCCCCGGGTTGTGCATTATGCCTCTTCGGTCGGCTCAACGC
66 GCACGCAG-GGGGGATCGGGTCGATCCCCGGCTTGCGCATTATGCCTCTTCGGTCGACTCAGCGC
* * *
7273 CCGCACGCTCATTTTGTGGGTTGACTTAT
130 CCGCACGCTCGTTTCGTGGGTTGACTTAG
* ** * * * * * * ** *
7302 GCATACGGAGTTCATTCCCA-ATCTAAGATCAAACCAGACTGAGGGTTATGGCAGTAGGATTGGC
1 GCATACGGAGTTCATT-CCATGTCTAAGCCCCAGCCGGACCGAGGGTTGTGGCAGTGGGACCGAC
** * * * * * * * * * * * * *
7366 AGCACATATTGGAGCACCAGGCCGGTCCCTGGCTTGCGCATTCT-CCTCTCCGGCCGACTGAGCA
65 AGCACGCA-GGGGGGATCGGGTCGATCCCCGGCTTGCGCATTATGCCTCTTCGGTCGACTCAGCG
* * * *
7430 CCCGCATGCTTGTTTCATGGGTTGGCTTAG
129 CCCGCACGCTCGTTTCGTGGGTTGACTTAG
7460 GCATACGGAGTTCATTCCATGTCTAAGC
1 GCATACGGAGTTCATTCCATGTCTAAGC
7488 ATATGGAGTT
Statistics
Matches: 513, Mismatches: 132, Indels: 34
0.76 0.19 0.05
Matches are distributed among these distances:
157 28 0.05
158 217 0.42
159 243 0.47
160 24 0.05
161 1 0.00
ACGTcount: A:0.19, C:0.27, G:0.30, T:0.23
Consensus pattern (158 bp):
GCATACGGAGTTCATTCCATGTCTAAGCCCCAGCCGGACCGAGGGTTGTGGCAGTGGGACCGACA
GCACGCAGGGGGGATCGGGTCGATCCCCGGCTTGCGCATTATGCCTCTTCGGTCGACTCAGCGCC
CGCACGCTCGTTTCGTGGGTTGACTTAG
Found at i:7250 original size:317 final size:316
Alignment explanation
Indices: 6668--7487 Score: 1004
Period size: 317 Copynumber: 2.6 Consensus size: 316
6658 CCCAGTCTAA
* ** * *
6668 GCATACGGAGTTCATTCCCAGTCTAAGATCAAACCGGACCAAGGGTTGCGACAGCAGGATCGACA
1 GCATACGGAGTTCATTCCCAGTCTAAGATCAAACCGAACTGAGGGTTGCGGCAGTAGGATCGACA
* * * * * * * *
6733 GCAGGTAGAGGGGATCGGGTCGATCCCCGGCTTGCACATTCTGCCTCTCCGGCC-AGTTGAACGC
66 GCACGTAGGGGGGATCGAGCCGATCCCCGGCTTGCGCATTCTGCCTCTCCGGCCGA-CTGAGCAC
*
6797 CCGCACGCCCGTTTCATGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTTTAAGCCCCAGCCG
130 CCGCACG-CCGTTTCATGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCAGCCG
* * * *
6862 GACCAAGGGTTATGGCAGTGGGACCGACAGCACGCAGTGGGGGATCGGGTCAATCCCTGACTTGC
194 GACCAAGGGTTATGGCAGCGGGACCGACAGCACGCAGAGGGGGACCGGGTCAATCCCCGACTTGC
* * * * *
6927 GCATTATTCCTCTTCGGTTC-ACTCAGCGCTCGCACGCTCGTTTTGTGGTTTGACTTAT
259 GCATTATGCCTCTTCGG-TCGACTCAACGCCCGCACGCTCATTTTGTGGGTTGACTTAT
* * **
6985 GCATACGGAGTTCATT-CTAGTGTAAGATCGGACCGAACTGAGGGTTGCGGCAGTAGGATCGACA
1 GCATACGGAGTTCATTCCCAGTCTAAGATCAAACCGAACTGAGGGTTGCGGCAGTAGGATCGACA
* * *
7049 GCACGCAGGGGGGATCGAGCCGATCCCAGGGCTTGCGCATTCTGCCTCTCTGGCCGACTGAGCAC
66 GCACGTAGGGGGGATCGAGCCGATCCC-CGGCTTGCGCATTCTGCCTCTCCGGCCGACTGAGCAC
* * *
7114 CCGCACGTCCGTTTCGTGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCGAAGCCCTAGCCG
130 CCGCACG-CCGTTTCATGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCAGCCG
* * * * * ** *
7179 GACCGAGGGTTGTGGCAGCGGGACCGGCAGCACGTAGAGGGGGACCGGGTCGATCCCCGGGTTGT
194 GACCAAGGGTTATGGCAGCGGGACCGACAGCACGCAGAGGGGGACCGGGTCAATCCCCGACTTGC
*
7244 GCATTATGCCTCTTCGGTCGGCTCAACGCCCGCACGCTCATTTTGTGGGTTGACTTAT
259 GCATTATGCCTCTTCGGTCGACTCAACGCCCGCACGCTCATTTTGTGGGTTGACTTAT
* ** * *
7302 GCATACGGAGTTCATTCCCAATCTAAGATCAAACC-AGACTGAGGGTTATGGCAGTAGGATTGGC
1 GCATACGGAGTTCATTCCCAGTCTAAGATCAAACCGA-ACTGAGGGTTGCGGCAGTAGGATCGAC
* * * * * * *
7366 AGCACATATTGGAGCA-CCAGGCCGGTCCCTGGCTTGCGCATTCT-CCTCTCCGGCCGACTGAGC
65 AGCACGTA-GGGGGGATCGA-GCCGATCCCCGGCTTGCGCATTCTGCCTCTCCGGCCGACTGAGC
* * *
7429 ACCCGCATGCTTGTTTCATGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGC
128 ACCCGCACGC-CGTTTCATGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGC
7488 ATATGGAGTT
Statistics
Matches: 429, Mismatches: 66, Indels: 16
0.84 0.13 0.03
Matches are distributed among these distances:
316 64 0.15
317 294 0.69
318 59 0.14
319 12 0.03
ACGTcount: A:0.19, C:0.27, G:0.30, T:0.23
Consensus pattern (316 bp):
GCATACGGAGTTCATTCCCAGTCTAAGATCAAACCGAACTGAGGGTTGCGGCAGTAGGATCGACA
GCACGTAGGGGGGATCGAGCCGATCCCCGGCTTGCGCATTCTGCCTCTCCGGCCGACTGAGCACC
CGCACGCCGTTTCATGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCCCCAGCCGGA
CCAAGGGTTATGGCAGCGGGACCGACAGCACGCAGAGGGGGACCGGGTCAATCCCCGACTTGCGC
ATTATGCCTCTTCGGTCGACTCAACGCCCGCACGCTCATTTTGTGGGTTGACTTAT
Found at i:7490 original size:26 final size:26
Alignment explanation
Indices: 7460--7512 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
7450 GTTGGCTTAG
7460 GCATACGGAGTTCATT-CCATGTCTAA
1 GCATACGGAGTTCATTCCCA-GTCTAA
*
7486 GCATATGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
7512 G
1 G
7513 ATTTCGAGCC
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:8582 original size:159 final size:158
Alignment explanation
Indices: 8227--8721 Score: 416
Period size: 158 Copynumber: 3.1 Consensus size: 158
8217 TAAGCATATA
* *
8227 GAGTTCATTCCCAGTCTAAGATC-GAACC-AGATCGAGGGTTGCGATAGCAAGATCGACAGCACG
1 GAGTTCATTCCCAGTCTAAGATCAG-ACCGA-ATCGAGGGTTGCGACAGCAAGACCGACAGCACG
* * * * *
8290 CAGGGGGGACCAGGCCAATCCCTGGCTTGCACATTCTGCCTCTCCAGCCGGCTGAGCGCCAGCAC
64 CAGGGGGGACCAGGCCAATCCCCGACTTGCACATTATGCCTCTCCAGCCGGCTCAGCACCAGCAC
* *
8355 GCCTGTTTCATGGGTTGGCTTAGGCATAGG
129 GCCTGTTTCATGGGTTGACTTAGGCATACG
** * * * * ** *
8385 GAGTTCATT-CCATGTCTAAGCCCCAG-CTGGATCGAGGGTTGTGGCAGCGGGACCGGCAGCACG
1 GAGTTCATTCCCA-GTCTAAG-ATCAGACCGAATCGAGGGTTGCGACAGCAAGACCGACAGCACG
** ** * *
8448 CAGAGGGGGACCAGGCCAATCCCCGACTTGTGCATTATGCCTCTCTGGCTGGTTCAGCACCTA-C
64 CAG-GGGGGACCAGGCCAATCCCCGACTTGCACATTATGCCTCTCCAGCCGGCTCAGCACC-AGC
*
8512 ACG-CTCGTTTTATGGGTTGACTTAGGCATACG
127 ACGCCT-GTTTCATGGGTTGACTTAGGCATACG
** * * *
8544 GAGTTCATTCCCAGTCTAAGATCAGACCGAATCGAGGGTTGCGGTAGCAAGATCGACAGCACACG
1 GAGTTCATTCCCAGTCTAAGATCAGACCGAATCGAGGGTTGCGACAGCAAGACCGACAGCACGCA
**** * * * * ** * * *
8609 GGGGGGACC-GAGTTGGTCCTCGGCTTACACATTTTGCCTCTCC-GACCAACTGAGCGCCCGCAC
66 GGGGGGACCAG-GCCAATCCCCGACTTGCACATTATGCCTCTCCAG-CCGGCTCAGCACCAGCAC
* *
8672 G-CTCGTTTTATGGGTTGACTTAGGCATACC
129 GCCT-GTTTCATGGGTTGACTTAGGCATACG
8702 GAGTTCATT-CCATGTCTAAG
1 GAGTTCATTCCCA-GTCTAAG
8722 CATACAGAGT
Statistics
Matches: 268, Mismatches: 56, Indels: 26
0.77 0.16 0.07
Matches are distributed among these distances:
157 8 0.03
158 135 0.50
159 120 0.45
160 5 0.02
ACGTcount: A:0.21, C:0.28, G:0.29, T:0.23
Consensus pattern (158 bp):
GAGTTCATTCCCAGTCTAAGATCAGACCGAATCGAGGGTTGCGACAGCAAGACCGACAGCACGCA
GGGGGGACCAGGCCAATCCCCGACTTGCACATTATGCCTCTCCAGCCGGCTCAGCACCAGCACGC
CTGTTTCATGGGTTGACTTAGGCATACG
Found at i:8731 original size:26 final size:26
Alignment explanation
Indices: 8695--8747 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
8685 GTTGACTTAG
*
8695 GCATACCGAGTTCA-TTCCATGTCTAA
1 GCATACAGAGTTCATTTCCA-GTCTAA
8721 GCATACAGAGTTCATTTCCAGTCTAA
1 GCATACAGAGTTCATTTCCAGTCTAA
8747 G
1 G
8748 ATCGGACTGG
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:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (26 bp):
GCATACAGAGTTCATTTCCAGTCTAA
Found at i:9593 original size:26 final size:26
Alignment explanation
Indices: 9563--9615 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
9553 GTTGGCGTAG
* *
9563 GCATATGGAGTTCATT-CCATGTCTAA
1 GCATACGGAGTTAATTCCCA-GTCTAA
9589 GCATACGGAGTTAATTCCCAGTCTAA
1 GCATACGGAGTTAATTCCCAGTCTAA
9615 G
1 G
9616 ATTTTGAGCC
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:0.21, G:0.21, T:0.30
Consensus pattern (26 bp):
GCATACGGAGTTAATTCCCAGTCTAA
Found at i:10844 original size:195 final size:197
Alignment explanation
Indices: 10412--10857 Score: 562
Period size: 195 Copynumber: 2.3 Consensus size: 197
10402 TGAGTGTGCA
*
10412 CACGCTCGTTTCGTGGGTTGGCTTAGGCAAACGGAGTTCATTCCATGTCTAAGCATACAAAGTTC
1 CACGCTCGTTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCATACAAAGTTC
* * * * * *
10477 ATTCCTAGTCTAAGATAGGACTAGATCGAGGGTTGCGACAGTAGGACCAGCATCAGGATCGACAG
66 ATTCCCAATCTAAGATAGGACCAGATCGAGGGTTGCGACAGCAAGACCAGCAGCAGGATCGACAG
* ** * * * * * *
10542 CACGCAGAGAGGGATCGGGCTGATCCCCGGCTTGCGCATTATGCCTCTCCGCTCGGTTGAGCGCC
131 CACGCAGAGAGGGACCAAGCCGATCCCCAGCTTACGCATTATACCGCTCCGCTCGGCTGAGCGCC
10607 TG
196 TG
* * **
10609 CACGCTCATTTCGTGGGTTGGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGCATA-TGAGTTT
1 CACGCTCGTTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCATACAAAG-TT
* * *
10673 CGTTCCCAATCTAAGATCAGG-CCGGATCGA-GGTTGCGACAGCAAGACCAGTAGCAGGATCGAC
65 CATTCCCAATCTAAGAT-AGGACCAGATCGAGGGTTGCGACAGCAAGACCAGCAGCAGGATCGAC
* * *
10736 AGCACGTAG-G-GCGGACCAAGCCGATCCCTAGCTTACGCATTCTACCGCTCCGAC-CGGCTGAG
129 AGCACGCAGAGAG-GGACCAAGCCGATCCCCAGCTTACGCATTATACCGCTCCG-CTCGGCTGAG
*
10798 TGCCTG
192 CGCCTG
*
10804 CACGCTCGTTTCGTGGGTTGGCTTAGGCATACGAAGTTCATTCCATGTCTAAGC
1 CACGCTCGTTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGC
10858 CCCAGCCGGA
Statistics
Matches: 215, Mismatches: 30, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
194 1 0.00
195 94 0.44
196 40 0.19
197 77 0.36
198 3 0.01
ACGTcount: A:0.22, C:0.26, G:0.28, T:0.24
Consensus pattern (197 bp):
CACGCTCGTTTCGTGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCATACAAAGTTC
ATTCCCAATCTAAGATAGGACCAGATCGAGGGTTGCGACAGCAAGACCAGCAGCAGGATCGACAG
CACGCAGAGAGGGACCAAGCCGATCCCCAGCTTACGCATTATACCGCTCCGCTCGGCTGAGCGCC
TG
Found at i:11223 original size:159 final size:159
Alignment explanation
Indices: 10986--11331 Score: 383
Period size: 159 Copynumber: 2.2 Consensus size: 159
10976 CGCTCGTTTG
* * ** *
10986 TGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCCCCAGCCGGACCGAGGGTTGTGGC
1 TGGGTTGACTTAGGCATACGGAGTTCATTCCATGTCTAAGCCCCAGCCGAACCGAGGGTTACGAC
* ** * * * *
11051 AACAGGATCGACAGCACGCATAGGGGGACCGGGCTGATCCCTGGCTTGCGCATTATGCCTCTCTG
66 AACAAGATCGACAGCACGCA-AGACGGACCAGGCTGATCCATGGCTTGCGCATCATGCCTCTCCG
** * * *
11116 ATTGGCTCAGC-TCCTGCAGGCTCATTTCA
130 ACCGACTCAGCACCCCGCAGGCTCATTTCA
** * *
11145 TGGGTTGACTTAGGCATACGGAGTTCATTCC-TAGTCTAAG-ATCGGACCGAACGGAGGGTTACG
1 TGGGTTGACTTAGGCATACGGAGTTCATTCCAT-GTCTAAGCCCCAG-CCGAACCGAGGGTTACG
* * * *
11208 ACAGCAAGATTGACAGCACGCAAGACGGATCAGGCTGATCCATGGCTTGCGCATCCTGCCTCTCC
64 ACAACAAGATCGACAGCACGCAAGACGGACCAGGCTGATCCATGGCTTGCGCATCATGCCTCTCC
* * * *
11273 GACCGACTGAGCACCCCGTATGCTCATTTCG
129 GACCGACTCAGCACCCCGCAGGCTCATTTCA
11304 TGGGTTGACTTAGGCATACGGAGTTCAT
1 TGGGTTGACTTAGGCATACGGAGTTCAT
11332 CCCCAACCTA
Statistics
Matches: 155, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
158 46 0.30
159 109 0.70
ACGTcount: A:0.21, C:0.27, G:0.29, T:0.24
Consensus pattern (159 bp):
TGGGTTGACTTAGGCATACGGAGTTCATTCCATGTCTAAGCCCCAGCCGAACCGAGGGTTACGAC
AACAAGATCGACAGCACGCAAGACGGACCAGGCTGATCCATGGCTTGCGCATCATGCCTCTCCGA
CCGACTCAGCACCCCGCAGGCTCATTTCA
Found at i:11946 original size:315 final size:317
Alignment explanation
Indices: 11544--12126 Score: 807
Period size: 315 Copynumber: 1.8 Consensus size: 317
11534 CAGGATTGAC
* * * **
11544 AGCACGCAGAGGGGGATCAGGCAGATCCCTGGCTTGTAGATTATGCCTCTTCGGTCGGCTCAACG
1 AGCACGCAGAGGGGAACCAGGCAGATCCCTGGCTTGTAGATTATGCCTCTCCGACCGGCTCAACG
* * * *
11609 CCCGCACGCTCTTTTTGTGGGTTGACTTAAGCATACGGAGTTCATTCCTAGTCTAAGATCAGATC
66 CCCGCACGCTCGTTTCGTGGGTTGACTTAAGCATACGGAGTTCATTCCTAGTCTAAGATCAAACC
* * * *
11674 GGAC-GA-GTTACGGTAGCAGGATCGACAGAATGGAAGGGGGACCGAGTC-GATCCCCGGCTTGT
131 GGACAGAGGTTACGGTAGCAGGATCGACAGAACGCAAGGGGGACC-AGGCTGATCCCCAGCTTGT
* * * * *
11736 GCATTCTACCTCTCCGATCGA-CTGAGCGCCCGCATGCCCATTTCATGGGTTGGCTTAGGTATAG
195 GCATTCTACCTCTCCG-GCGAGCTAAGCGCCCGCATGCCCATTTCATGGGTTGACTTAGGCATAC
11800 GGAGTTCATTCCATGTCTAATCCCCAACCATACCGAGCGATTGTGGCAGCGGGATCGTT
259 GGAGTTCATTCCATGTCTAATCCCCAACCATACCGAGCGATTGTGGCAGCGGGATCGTT
** *
11859 AGCACGCAGAGGGGAACCAGGTTGATCCCTGGCTTGT-GCATTATGCCTCTCCGACCGGCTCAGC
1 AGCACGCAGAGGGGAACCAGGCAGATCCCTGGCTTGTAG-ATTATGCCTCTCCGACCGGCTCAAC
* * * * *
11923 TCCCGCACGTTCGTTTCGTGGGTTGACTTAGGCATGCGGAGTTCATTTCTAGTCTAAGATCAAAC
65 GCCCGCACGCTCGTTTCGTGGGTTGACTTAAGCATACGGAGTTCATTCCTAGTCTAAGATCAAAC
* * *
11988 CGGACAGAGGGTTGCGGTAGCAGGATCGATAGCACGCAAGGGGGACCAGGCTGATCCCCAGCTTG
130 CGGACAGA-GGTTACGGTAGCAGGATCGACAGAACGCAAGGGGGACCAGGCTGATCCCCAGCTTG
* * *
12053 TGCATTCTACCTCTCCGGCTAGCTAAGCGCCCGCATGCTCGTTTCATGGGTTGACTTAGGCATAC
194 TGCATTCTACCTCTCCGGCGAGCTAAGCGCCCGCATGCCCATTTCATGGGTTGACTTAGGCATAC
12118 GGAGTTCAT
259 GGAGTTCAT
12127 CCCCAGTCTA
Statistics
Matches: 230, Mismatches: 32, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
314 1 0.00
315 115 0.50
316 2 0.01
317 5 0.02
318 107 0.47
ACGTcount: A:0.20, C:0.26, G:0.29, T:0.25
Consensus pattern (317 bp):
AGCACGCAGAGGGGAACCAGGCAGATCCCTGGCTTGTAGATTATGCCTCTCCGACCGGCTCAACG
CCCGCACGCTCGTTTCGTGGGTTGACTTAAGCATACGGAGTTCATTCCTAGTCTAAGATCAAACC
GGACAGAGGTTACGGTAGCAGGATCGACAGAACGCAAGGGGGACCAGGCTGATCCCCAGCTTGTG
CATTCTACCTCTCCGGCGAGCTAAGCGCCCGCATGCCCATTTCATGGGTTGACTTAGGCATACGG
AGTTCATTCCATGTCTAATCCCCAACCATACCGAGCGATTGTGGCAGCGGGATCGTT
Found at i:11947 original size:160 final size:158
Alignment explanation
Indices: 11525--12138 Score: 497
Period size: 160 Copynumber: 3.9 Consensus size: 158
11515 GGACTAACGG
* * * * * * * * *
11525 TTGCGACAGCAGGATTGACAGCACGCAGAGGGGGATCAGGCAGATCCCTGGCTTGTAG-ATTATG
1 TTGCGGCAGCAGGATCGATAGCACGCA-AGGGGAACCAGGCTGATCCCCGGCTTGT-GCATTCTA
* ** * * ** * *
11589 CCTCTTCGGTCGGCTCAA-CGCCCGCACGCTCTTTTTGTGGGTTGACTTAAGCATACGGAGTTCA
64 CCTCTCCGACCGGCT-AAGCGCCCGCATGCTCGTTTCATGGGTTGACTTAGGCATAGGGAGTTCA
* * * *
11653 TTCCTAGTCTAAGATCAGATCGGAC-GA-G-
128 TTCCTAGTCTAAGACCAAACCAGACAGAGGA
* * * * * * * *
11681 TTACGGTAGCAGGATCGACAGAATGGAAGGGGGACCGAGTC-GATCCCCGGCTTGTGCATTCTAC
1 TTGCGGCAGCAGGATCGATAGCACGCAAGGGGAACC-AGGCTGATCCCCGGCTTGTGCATTCTAC
* * * * * * *
11745 CTCTCCGATCGACTGAGCGCCCGCATGCCCATTTCATGGGTTGGCTTAGGTATAGGGAGTTCATT
65 CTCTCCGACCGGCTAAGCGCCCGCATGCTCGTTTCATGGGTTGACTTAGGCATAGGGAGTTCATT
** * * *
11810 CC-ATGTCTAATCCCCAACCATACCGAGCGA
130 CCTA-GTCTAAGACCAAACCAGACAGAG-GA
* * * * * * *
11840 TTGTGGCAGCGGGATCGTTAGCACGCAGAGGGGAACCAGGTTGATCCCTGGCTTGTGCATTATGC
1 TTGCGGCAGCAGGATCGATAGCACGCA-AGGGGAACCAGGCTGATCCCCGGCTTGTGCATTCTAC
* * * * *
11905 CTCTCCGACCGGCTCAGCTCCCGCACGTTCGTTTCGTGGGTTGACTTAGGCAT-GCGGAGTTCAT
65 CTCTCCGACCGGCTAAGCGCCCGCATGCTCGTTTCATGGGTTGACTTAGGCATAG-GGAGTTCAT
* * * *
11969 TTCTAGTCTAAGATCAAACCGGACAGAGGG
129 TCCTAGTCTAAGACCAAACCAGACAGAGGA
* * *
11999 TTGCGGTAGCAGGATCGATAGCACGCAAGGGGGACCAGGCTGATCCCCAGCTTGTGCATTCTACC
1 TTGCGGCAGCAGGATCGATAGCACGCAAGGGGAACCAGGCTGATCCCCGGCTTGTGCATTCTACC
* ** * *
12064 TCTCCGGCTAGCTAAGCGCCCGCATGCTCGTTTCATGGGTTGACTTAGGCATACGGAGTTCATCC
66 TCTCCGACCGGCTAAGCGCCCGCATGCTCGTTTCATGGGTTGACTTAGGCATAGGGAGTTCATTC
*
12129 CCAGTCTAAG
131 CTAGTCTAAG
12139 CATACAGAGT
Statistics
Matches: 355, Mismatches: 90, Indels: 24
0.76 0.19 0.05
Matches are distributed among these distances:
154 3 0.01
155 89 0.25
156 25 0.07
158 95 0.27
159 45 0.13
160 97 0.27
161 1 0.00
ACGTcount: A:0.21, C:0.26, G:0.29, T:0.24
Consensus pattern (158 bp):
TTGCGGCAGCAGGATCGATAGCACGCAAGGGGAACCAGGCTGATCCCCGGCTTGTGCATTCTACC
TCTCCGACCGGCTAAGCGCCCGCATGCTCGTTTCATGGGTTGACTTAGGCATAGGGAGTTCATTC
CTAGTCTAAGACCAAACCAGACAGAGGA
Found at i:12142 original size:26 final size:26
Alignment explanation
Indices: 12112--12164 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
12102 GTTGACTTAG
*
12112 GCATACGGAGTTCATCCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
*
12138 GCATACAGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
12164 G
1 G
12165 ATTGGACCGG
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:13184 original size:26 final size:26
Alignment explanation
Indices: 13132--13184 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
13122 GTTGACTTAG
* * *
13132 GCATACGGAGTTCATCCCAAGTCTAA
1 GCATACAGAATTCATCCCAAGTATAA
13158 GCATACAGAATTCATTCCCAA-TATAA
1 GCATACAGAATTCA-TCCCAAGTATAA
13184 G
1 G
13185 ATCAGACCAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.25
Consensus pattern (26 bp):
GCATACAGAATTCATCCCAAGTATAA
Found at i:13707 original size:26 final size:26
Alignment explanation
Indices: 13660--13709 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
13650 GACTTAGGCA
*
13660 TACGGAGTTCATCCCTAGTCTAAGTG
1 TACGGAGTTCATCCCTAATCTAAGTG
13686 TACGGAGTTCATTCCC-AATCTAAG
1 TACGGAGTTCA-TCCCTAATCTAAG
13710 ATCAGATCGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (26 bp):
TACGGAGTTCATCCCTAATCTAAGTG
Found at i:14192 original size:26 final size:26
Alignment explanation
Indices: 14156--14208 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
14146 GTTGGCTTAG
14156 GCATACGGAGTTCATT-CCATGTCTAA
1 GCATACGGAGTTCATTCCCA-GTCTAA
14182 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
14208 G
1 G
14209 ATTTTAAGCC
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:15275 original size:158 final size:156
Alignment explanation
Indices: 14971--15409 Score: 369
Period size: 158 Copynumber: 2.8 Consensus size: 156
14961 TACGACAGCA
* * *
14971 GGATCGGCAGCACGCAGGGGGGACCGGGCCAATCCCCAGCTTGCGCATTCTGCCTCTCTGGCCGG
1 GGATCGGCAGCACGCAGAGGGGACCGAGCCAATCCCCAGCTTGCGCATTATGCCTCTCTGGCCGG
* * *
15036 CTGAGCGCCCGCACGCCCGTTTCGTGGTTTAGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGT
66 CTCAGCGCCCGCACGCCCGTTTCGTGGTTGAGCTTAGGCATAGGGAGTTCATTCCATGTCCAAGT
* * *
15101 CCCAGTCTGACTGAGGGTTGTGGTAGCG
131 --CAGACGGACCGAGGGTTGTGGTAGCG
* **
15129 GGATCGGTAGCACGCAGAGGGGACCGAGCTGAT-CCCAGGCTTGCGCATTATGCCTCT-TCGGCC
1 GGATCGGCAGCACGCAGAGGGGACCGAGCCAATCCCCA-GCTTGCGCATTATGCCTCTCT-GGCC
* * * * *
15192 GGGTCAGTGCCCGCACTCTCGTTTCGTGGGTTGA-CTTATGCAT-GCGGAGTTCATTCC-TAGTC
64 GGCTCAGCGCCCGCACGCCCGTTTCGT-GGTTGAGCTTAGGCATAG-GGAGTTCATTCCAT-GTC
** **
15254 CAAGAT-AGGACAGGACCGAGGGTTACGGTAGTA
126 CAAG-TCA-GAC-GGACCGAGGGTTGTGGTAGCG
** * * * * *
15287 GGATCAACAGCACGTC-G-GGGAACC-AGGTCAATCCTC-GACTTGCGCATTCTGCCTCTCCGGC
1 GGATCGGCAGCACG-CAGAGGGGACCGA-GCCAATCCCCAG-CTTGCGCATTATGCCTCTCTGGC
* * * * * *
15348 CGGCTGAGCGTCTGCACGCTCGTTTCATGGGTTG-GCTTAGGCATACGGAGTTCATTCCATGT
63 CGGCTCAGCGCCCGCACGCCCGTTTCGT-GGTTGAGCTTAGGCATAGGGAGTTCATTCCATGT
15410 GTAAGCATAT
Statistics
Matches: 225, Mismatches: 40, Indels: 33
0.76 0.13 0.11
Matches are distributed among these distances:
156 3 0.01
157 87 0.39
158 128 0.57
159 7 0.03
ACGTcount: A:0.17, C:0.28, G:0.31, T:0.24
Consensus pattern (156 bp):
GGATCGGCAGCACGCAGAGGGGACCGAGCCAATCCCCAGCTTGCGCATTATGCCTCTCTGGCCGG
CTCAGCGCCCGCACGCCCGTTTCGTGGTTGAGCTTAGGCATAGGGAGTTCATTCCATGTCCAAGT
CAGACGGACCGAGGGTTGTGGTAGCG
Found at i:15440 original size:26 final size:26
Alignment explanation
Indices: 15388--15440 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
15378 GTTGGCTTAG
*
15388 GCATACGGAGTTCATTCCATGTGTAA
1 GCATACGGAGTTCATTCCATGTCTAA
*
15414 GCATATGGAGTTCATTCCCA-GTCTAA
1 GCATACGGAGTTCATT-CCATGTCTAA
15440 G
1 G
15441 ATTTTGAGCC
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:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCATGTCTAA
Found at i:16608 original size:158 final size:154
Alignment explanation
Indices: 16155--16648 Score: 512
Period size: 158 Copynumber: 3.1 Consensus size: 154
16145 AAGCATACAA
**
16155 AGTTCATTCCCAGTCTAAGATCAGACTGGACCGAGGGTTACGACAGCAGGATCGGCAGCACGCAG
1 AGTTCATT-CCAGTCTAAGATCAGACTGGACCGAGGGTTACGGTAGCAGGATCGGCAGCACGCA-
** * * *
16220 GGGGGACCGGGCCAATCCCCAGCTTGCGCATTCTGCCTCTCTGGCCGGCTGAGCGCCCGCACGCC
64 GGGGGACC-GGCTGAT-CCCAGCTTGCGCATTCTGCCTCTCCGGCTGGCTGAGCGCCCGCACGCT
* * *
16285 CGTTTCGT-GGTTTAGCTTAGGCATAGGG
127 CGTTTCATGGGTTGA-CTTAGGCATACGG
* ** * *
16313 AGTTCATTCCATGTCTAAG-TCCCAGTCT-GACCGAGGGTTGTGGTAGCGGGATCGGTAGCACGC
1 AGTTCATTCCA-GTCTAAGAT--CAGACTGGACCGAGGGTTACGGTAGCAGGATCGGCAGCACGC
* * * *
16376 AGAGGGGGACCGAGCTGATCCCAGGCTTGCGCATTATGCCTCTTCGG-TCGGGTCAGCGCCCGCA
63 --AGGGGGACCG-GCTGATCCCA-GCTTGCGCATTCTGCCTCTCCGGCT-GGCTGAGCGCCCGCA
*
16440 CGCTCGTTTCATGGGTTGACTTATGCATACGG
123 CGCTCGTTTCATGGGTTGACTTAGGCATACGG
* * *
16472 TGTTCATTCCTAGTCCAAGAT-AGGACTGGACCGAGGGTTACGGTAGTAGGATCGGCAGCACGTC
1 AGTTCATTCC-AGTCTAAGATCA-GACTGGACCGAGGGTTACGGTAGCAGGATCGGCAGCACG-C
* * ** *
16536 AGGGGAACCAGGTTGATCCTCAGCTTGCGCATTCTGCCTCTCCGGCTGGCTGAGCATCTGCACGC
63 AGGGGGACC-GGCTGATCC-CAGCTTGCGCATTCTGCCTCTCCGGCTGGCTGAGCGCCCGCACGC
* *
16601 TCGTTTCATGGGTTGGCTTAGGCATACAG
126 TCGTTTCATGGGTTGACTTAGGCATACGG
16630 AGTTCATTCCATGTCTAAG
1 AGTTCATTCCA-GTCTAAG
16649 CATATGGAGT
Statistics
Matches: 276, Mismatches: 42, Indels: 36
0.78 0.12 0.10
Matches are distributed among these distances:
157 6 0.02
158 142 0.51
159 119 0.43
160 9 0.03
ACGTcount: A:0.18, C:0.27, G:0.31, T:0.24
Consensus pattern (154 bp):
AGTTCATTCCAGTCTAAGATCAGACTGGACCGAGGGTTACGGTAGCAGGATCGGCAGCACGCAGG
GGGACCGGCTGATCCCAGCTTGCGCATTCTGCCTCTCCGGCTGGCTGAGCGCCCGCACGCTCGTT
TCATGGGTTGACTTAGGCATACGG
Found at i:16652 original size:26 final size:26
Alignment explanation
Indices: 16622--16674 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
16612 GTTGGCTTAG
16622 GCATACAGAGTTCATT-CCATGTCTAA
1 GCATACAGAGTTCATTCCCA-GTCTAA
**
16648 GCATATGGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATTCCCAGTCTAA
16674 G
1 G
16675 ATTTTGAGCC
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:0.23, G:0.19, T:0.30
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCCAGTCTAA
Found at i:17722 original size:159 final size:156
Alignment explanation
Indices: 17423--17855 Score: 443
Period size: 159 Copynumber: 2.8 Consensus size: 156
17413 AGGGTTACGG
* * *
17423 CAGCACGCAGGGGGGACCGGGCCGATCCCCA-GCTTGCGCATTCTACCTC-TCTGGCCGGCTGAG
1 CAGCACGCAGGGGGGACCGAGCTGAT-CCCAGGCTTGCGCATTCTGCCTCTTC-GGCCGGCTGAG
* * * *
17486 CGCCCGCACGCCCGTTTCAT-GGTTTAGCTTAGGCATAGGGAGTTCATTCCATGTCTAAGTCCCA
64 CGCCCGCACGCTCGTTTCATGGGTTGA-CTTAGGCATACGGAGTTCATTCCATGTCCAAGT--CA
* ** * *
17550 GTCTGACCGAGGGTTGTGGTAGCGGGATCGG
126 GACTGACCGAGGGTTACGGTAGCAGGATCGA
* * * *
17581 TAGCACGCAGAGGGGGACCGAGCTGATCCCAGGCTTGCGCATTATGCCTCTTCGGCCGGGTCAGC
1 CAGCACGCAG-GGGGGACCGAGCTGATCCCAGGCTTGCGCATTCTGCCTCTTCGGCCGGCTGAGC
* * *
17646 GCCCGCACTCTCGTTTCGTGGGTTGACTTATGCATACGGAGTTCATTCC-TAGTCCAAGAT-AGG
65 GCCCGCACGCTCGTTTCATGGGTTGACTTAGGCATACGGAGTTCATTCCAT-GTCCAAG-TCA-G
*
17709 ACTGGACCGAGGGTTACGGTAGTAGGATCGA
127 ACT-GACCGAGGGTTACGGTAGCAGGATCGA
* * * *
17740 CAGCACGTC-GGGGAG-CC-AGGTCAATCCTC-GGCTTGCGCATTCTGCCTCTTCGGTCGGCTGA
1 CAGCACG-CAGGGGGGACCGAGCT-GATCC-CAGGCTTGCGCATTCTGCCTCTTCGGCCGGCTGA
* * *
17801 GCGTCTGCACGCTCGTTTCATGGGTTGGCTTAGGCATACGGAGTTCATTCCATGT
63 GCGCCCGCACGCTCGTTTCATGGGTTGACTTAGGCATACGGAGTTCATTCCATGT
17856 GTAAGCATAT
Statistics
Matches: 229, Mismatches: 34, Indels: 25
0.80 0.12 0.09
Matches are distributed among these distances:
156 3 0.01
157 82 0.36
158 23 0.10
159 112 0.49
160 9 0.04
ACGTcount: A:0.17, C:0.28, G:0.31, T:0.24
Consensus pattern (156 bp):
CAGCACGCAGGGGGGACCGAGCTGATCCCAGGCTTGCGCATTCTGCCTCTTCGGCCGGCTGAGCG
CCCGCACGCTCGTTTCATGGGTTGACTTAGGCATACGGAGTTCATTCCATGTCCAAGTCAGACTG
ACCGAGGGTTACGGTAGCAGGATCGA
Found at i:17886 original size:26 final size:26
Alignment explanation
Indices: 17834--17886 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
17824 GTTGGCTTAG
*
17834 GCATACGGAGTTCATTCCATGTGTAA
1 GCATACGGAGTTCATTCCATGTCTAA
*
17860 GCATATGGAGTTCATTCCCA-GTCTAA
1 GCATACGGAGTTCATT-CCATGTCTAA
17886 G
1 G
17887 ATTTTGAGCC
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:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCATGTCTAA
Found at i:18590 original size:27 final size:27
Alignment explanation
Indices: 18560--18616 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 27
18550 TTCATGGGTT
* **
18560 GTCTTAGGCATACTTAGTTCA-TCCCTA
1 GTCTTAAGCATACAGAGTTCATTCCC-A
18587 GTC-TAAGCATACAGAGTTCATTCCCA
1 GTCTTAAGCATACAGAGTTCATTCCCA
18613 GTCT
1 GTCT
18617 AAGATCGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
26 18 0.72
27 7 0.28
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (27 bp):
GTCTTAAGCATACAGAGTTCATTCCCA
Found at i:18922 original size:26 final size:26
Alignment explanation
Indices: 18893--18946 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
18883 TGGGTTGACT
*
18893 TAGGCATACGGAGTTCATCCCCAGTC
1 TAGGCATACAGAGTTCATCCCCAGTC
*
18919 TAGGCATACAGAGTTCATTCCCAGTC
1 TAGGCATACAGAGTTCATCCCCAGTC
18945 TA
1 TA
18947 AGATCAGATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (26 bp):
TAGGCATACAGAGTTCATCCCCAGTC
Found at i:19414 original size:26 final size:26
Alignment explanation
Indices: 19356--19408 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
19346 GTTGGCTTAG
* *
19356 GCATACGGAGTTCATTCCATGTCTAA
1 GCATATGGAGTTCATTCCATGTATAA
19382 GCATATGGAGTTCATTTCCA-GTATAA
1 GCATATGGAGTTCA-TTCCATGTATAA
19408 G
1 G
19409 ATTATGAGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 19 0.79
27 5 0.21
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (26 bp):
GCATATGGAGTTCATTCCATGTATAA
Found at i:20091 original size:26 final size:26
Alignment explanation
Indices: 20061--20113 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
20051 GTTTACTTAG
20061 GCATACAGAGTTCATCCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
* *
20087 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
20113 G
1 G
20114 ATTAGACTAG
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:20297 original size:26 final size:26
Alignment explanation
Indices: 20246--20298 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
20236 GTTGGCTTTG
*
20246 GCATACGAAGCTCATTCCATGTCTAA
1 GCATACGAAGCTCATTCCATGACTAA
* *
20272 GCATATGAAGTTCATTCC-TAGACTAA
1 GCATACGAAGCTCATTCCAT-GACTAA
20298 G
1 G
20299 ATTGGACCGG
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:0.23, G:0.17, T:0.28
Consensus pattern (26 bp):
GCATACGAAGCTCATTCCATGACTAA
Done.