Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001662.1 Hibiscus syriacus cultivar Beakdansim tig00003326_pilon, 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: 77000
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:461 original size:59 final size:58
Alignment explanation
Indices: 324--462 Score: 163
Period size: 59 Copynumber: 2.3 Consensus size: 58
314 AGACTTATGA
324 ATAGTTGGGTGACCATTTTGTAAATTTTAATAGTCAATGGACTTAACAAAGCAACACCTT
1 ATAGTTGGG-GACCA-TTTGTAAATTTTAATAGTCAATGGACTTAACAAAGCAACACCTT
** * * * **
384 ATAGTTGGAGGATAATTTGTAACTTTTAATAGTCGA-GAGACTTAACAAAGCTATGCCTT
1 ATAGTTGG-GGACCATTTGTAAATTTTAATAGTCAATG-GACTTAACAAAGCAACACCTT
443 ATAGTTGAGGGACCATTTGT
1 ATAGTTG-GGGACCATTTGT
463 GTACTTTATC
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
58 1 0.01
59 53 0.79
60 12 0.18
61 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (58 bp):
ATAGTTGGGGACCATTTGTAAATTTTAATAGTCAATGGACTTAACAAAGCAACACCTT
Found at i:1365 original size:2 final size:2
Alignment explanation
Indices: 1358--1501 Score: 98
Period size: 2 Copynumber: 78.0 Consensus size: 2
1348 GAAAATATTT
* * *
1358 TA TA TA TA -A T- TA -A TA TA -A AA TA TA TA -A AA TA TA AA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
1395 TA AA AA TA TA TA TA TA -A T- TA -A TA AA AA TA TA AA CTA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* *
1434 TA TA TA T- TA -A TA TA AA TA TA TA -A AA TA T- TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1472 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1502 ATCGGGGCGG
Statistics
Matches: 115, Mismatches: 13, Indels: 28
0.74 0.08 0.18
Matches are distributed among these distances:
1 13 0.11
2 101 0.88
3 1 0.01
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.42
Consensus pattern (2 bp):
TA
Found at i:1439 original size:43 final size:45
Alignment explanation
Indices: 1358--1499 Score: 130
Period size: 45 Copynumber: 3.2 Consensus size: 45
1348 GAAAATATTT
1358 TATATATAATTAATATAAAATATATAAAATATAAATATAAAAATA
1 TATATATAATTAATATAAAATATATAAAATATAAATATAAAAATA
* * * *
1403 TATATATAATTAATA-AAAATATA-AACTATTATATATATTAATATA
1 TATATATAATTAATATAAAATATATAA--AATATAAATATAAAAATA
* * * * * * *
1448 AATATATAA--AATATTATATATATATATATATATATATATATATA
1 TATATATAATTAATATAAAATATATA-AAATATAAATATAAAAATA
1492 TATATATA
1 TATATATA
1500 TAATCGGGGC
Statistics
Matches: 80, Mismatches: 12, Indels: 11
0.78 0.12 0.11
Matches are distributed among these distances:
43 6 0.08
44 35 0.44
45 38 0.47
46 1 0.01
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.42
Consensus pattern (45 bp):
TATATATAATTAATATAAAATATATAAAATATAAATATAAAAATA
Found at i:11188 original size:21 final size:20
Alignment explanation
Indices: 11164--11205 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
11154 ATTTTACCAC
*
11164 TCAATTATTTTATTTTTGTCA
1 TCAA-TATTTTAATTTTGTCA
*
11185 TCAATGTTTTAATTTTGTCA
1 TCAATATTTTAATTTTGTCA
11205 T
1 T
11206 TCAGTTCACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.24, C:0.10, G:0.07, T:0.60
Consensus pattern (20 bp):
TCAATATTTTAATTTTGTCA
Found at i:14262 original size:2 final size:2
Alignment explanation
Indices: 14249--14294 Score: 83
Period size: 2 Copynumber: 22.5 Consensus size: 2
14239 TTTAAGTAAT
14249 TA TA TCA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14292 TA T
1 TA T
14295 TAATTATTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 41 0.95
3 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19993 original size:42 final size:42
Alignment explanation
Indices: 19940--20075 Score: 123
Period size: 42 Copynumber: 3.2 Consensus size: 42
19930 GGTCACGACA
* *
19940 TATAGTTGCGTTTTTATAGTAAAACGCCGCTATTAACAATTC
1 TATAGTGGCGTTTTTATAGTAAAACGTCGCTATTAACAATTC
* * **
19982 TATAGTGGCG-TTTT-TAGTCATAAACGTCGCAAATTATCTAACAC
1 TATAGTGGCGTTTTTATAGT-A-AAACGTCGC-TATTAAC-AATTC
* * * * *
20026 TTTAGTGGCATTTTTATAGTAAAATGTCGCTATTGACAATTT
1 TATAGTGGCGTTTTTATAGTAAAACGTCGCTATTAACAATTC
20068 TATAGTGG
1 TATAGTGG
20076 TCTTTTTTGT
Statistics
Matches: 72, Mismatches: 16, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
40 4 0.06
41 5 0.07
42 26 0.36
43 9 0.12
44 19 0.26
45 5 0.07
46 4 0.06
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (42 bp):
TATAGTGGCGTTTTTATAGTAAAACGTCGCTATTAACAATTC
Found at i:20045 original size:86 final size:85
Alignment explanation
Indices: 19950--20143 Score: 259
Period size: 86 Copynumber: 2.3 Consensus size: 85
19940 TATAGTTGCG
19950 TTTTTATAGTAAAACGCCGCTATTAACAATTCTATAGTGG-CGTTTTTAGTCATAAACG-TCGCA
1 TTTTTATAGTAAAACGCCGCTATTAACAATTCTATAGTGGTC-TTTTTAGT-ATAAACGCT-GCA
* *
20013 AATTATCTAACACTTTAGTGGCA
63 AATAATCTAAAACTTTAGTGGCA
* * * * *
20036 TTTTTATAGTAAAATGTCGCTATTGACAATTTTATAGTGGTCTTTTTTGTATAAACGCTGCAAAT
1 TTTTTATAGTAAAACGCCGCTATTAACAATTCTATAGTGGTCTTTTTAGTATAAACGCTGCAAAT
20101 AATCTAAAACTTTAGTGGCA
66 AATCTAAAACTTTAGTGGCA
* *
20121 TTTTT-TTGTAAAACGCCGGTATT
1 TTTTTATAGTAAAACGCCGCTATT
20144 GATCATGTAT
Statistics
Matches: 95, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
84 14 0.15
85 36 0.38
86 44 0.46
87 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.40
Consensus pattern (85 bp):
TTTTTATAGTAAAACGCCGCTATTAACAATTCTATAGTGGTCTTTTTAGTATAAACGCTGCAAAT
AATCTAAAACTTTAGTGGCA
Found at i:20167 original size:85 final size:86
Alignment explanation
Indices: 19950--20178 Score: 236
Period size: 85 Copynumber: 2.7 Consensus size: 86
19940 TATAGTTGCG
* * ** *
19950 TTTTTATAGTAAAACGCCGCTATTAACAATTCTATAGTGGCGTTTTTAGTCATAAACG-TCGCAA
1 TTTTTATAGTAAAACGCCGCTATTGACAATTTTATAGCAGCGTTTTTTGT-ATAAACGCTCGCAA
* *
20014 ATTATCTAACACTTTAGTGGCA
65 ATAATCTAAAACTTTAGTGGCA
* * **
20036 TTTTTATAGTAAAATGTCGCTATTGACAATTTTATAGTGGTC-TTTTTTGTATAAACGCT-GCAA
1 TTTTTATAGTAAAACGCCGCTATTGACAATTTTATAGCAG-CGTTTTTTGTATAAACGCTCGCAA
20099 ATAATCTAAAACTTTAGTGGCA
65 ATAATCTAAAACTTTAGTGGCA
* * * *
20121 TTTTT-TTGTAAAACGCCGGTATTGATC-ATGTATT-TAGCAGCGTTTTTTATACAAACGC
1 TTTTTATAGTAAAACGCCGCTATTGA-CAAT-T-TTATAGCAGCGTTTTTTGTATAAACGC
20179 CGCTAATTAA
Statistics
Matches: 122, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
84 19 0.16
85 56 0.46
86 46 0.38
87 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (86 bp):
TTTTTATAGTAAAACGCCGCTATTGACAATTTTATAGCAGCGTTTTTTGTATAAACGCTCGCAAA
TAATCTAAAACTTTAGTGGCA
Found at i:21824 original size:30 final size:30
Alignment explanation
Indices: 21778--21851 Score: 121
Period size: 30 Copynumber: 2.4 Consensus size: 30
21768 TATAAGAAAT
* *
21778 AATTAAATGTAAGTTTTCGAAATGAACAAAC
1 AATTAAAT-AAAGTTTTCAAAATGAACAAAC
21809 AATTAAATAAAGTTTTCAAAATGAACAAAC
1 AATTAAATAAAGTTTTCAAAATGAACAAAC
21839 AATTAAATAAAGT
1 AATTAAATAAAGT
21852 GTCGAACATT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 33 0.80
31 8 0.20
ACGTcount: A:0.54, C:0.08, G:0.09, T:0.28
Consensus pattern (30 bp):
AATTAAATAAAGTTTTCAAAATGAACAAAC
Found at i:28065 original size:41 final size:41
Alignment explanation
Indices: 27949--28389 Score: 305
Period size: 41 Copynumber: 10.9 Consensus size: 41
27939 ACCAAAATAC
* * * * *
27949 AATATTTAACGGCGTTTGTGCTTAAAACGCCACTAAA-TAACT
1 AATATTTAGCGGCGTTTAT-ATAAAAACGCCACTAAAGT-ACG
* * * * * * * *
27991 AGTATTTGGCGGCTTTTGTCTACAAATGTCACTAAAGTACG
1 AATATTTAGCGGCGTTTATATAAAAACGCCACTAAAGTACG
* * * *
28032 AATCTTTAGAGGCGTTTATATAAAAACGCCACTAAAATAAG
1 AATATTTAGCGGCGTTTATATAAAAACGCCACTAAAGTACG
* * * *
28073 AGTATTTA-CTGGTGTTTGT-TAAAAAATTGCCACTAAAGTACG
1 AATATTTAGC-GGCGTTTATAT-AAAAA-CGCCACTAAAGTACG
* * * * * *
28115 AGTCTTTCGCGGCATTTATATAAAAACACCACTAAAATACG
1 AATATTTAGCGGCGTTTATATAAAAACGCCACTAAAGTACG
* * * * *
28156 AGTCTTTAGCGGTGTTTGTA-AAAAAC-CCACTAAAGTA-A
1 AATATTTAGCGGCGTTTATATAAAAACGCCACTAAAGTACG
*
28194 AATATTTAGCGGCGTTTATATAAAAATGCCACTAAA-TGACG
1 AATATTTAGCGGCGTTTATATAAAAACGCCACTAAAGT-ACG
* * * *
28235 AGTATTTACCGGCGTTTGT-TCAAAAAATGCCACTAAAGTAC-
1 AATATTTAGCGGCGTTTATAT--AAAAACGCCACTAAAGTACG
* * *
28276 AATATTTAGCGGTGTTTATATCAAAACGCCACTAAAATAC-
1 AATATTTAGCGGCGTTTATATAAAAACGCCACTAAAGTACG
* * *
28316 AAGTCTTTAGCGGCGTTTGTACAAAAACGCCACTAAAGTAC-
1 AA-TATTTAGCGGCGTTTATATAAAAACGCCACTAAAGTACG
* *
28357 AATATTTAGCGAC--ATATATAAAAACGCCACTAA
1 AATATTTAGCGGCGTTTATATAAAAACGCCACTAA
28390 TATATGAGTA
Statistics
Matches: 314, Mismatches: 70, Indels: 34
0.75 0.17 0.08
Matches are distributed among these distances:
38 33 0.11
39 16 0.05
40 44 0.14
41 155 0.49
42 63 0.20
43 3 0.01
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.29
Consensus pattern (41 bp):
AATATTTAGCGGCGTTTATATAAAAACGCCACTAAAGTACG
Found at i:28214 original size:162 final size:163
Alignment explanation
Indices: 28020--28432 Score: 514
Period size: 161 Copynumber: 2.5 Consensus size: 163
28010 CTACAAATGT
* * * *
28020 CACTAAAGTACGAATCTTTAGAGGCGTTTATATAAAAACGCCACTAAAATAAGAGTATTTACTGG
1 CACTAAAGTA-AAATATTTAGCGGCGTTTATATAAAAACGCCACTAAAATAAGAGTATTTACCGG
* * * *
28085 TGTTTGTT-AAAAAATTGCCACTAAAGTACGAGTCTTTCGCGGCATTTATATAAAAACACCACTA
65 CGTTTGTTCAAAAAA-TGCCACTAAAGTAC-AATATTTAGCGGCATTTATATAAAAACACCACTA
* *
28149 AAATACGAGTCTTTAGCGGTGTTTGTA-AAAAAC-C
128 AAATACAAGTCTTTAGCGGCGTTTGTACAAAAACGC
* *
28183 CACTAAAGTAAAATATTTAGCGGCGTTTATATAAAAATGCCACT-AAATGACGAGTATTTACCGG
1 CACTAAAGTAAAATATTTAGCGGCGTTTATATAAAAACGCCACTAAAAT-AAGAGTATTTACCGG
** * *
28247 CGTTTGTTCAAAAAATGCCACTAAAGTACAATATTTAGCGGTGTTTATATCAAAACGCCACTAAA
65 CGTTTGTTCAAAAAATGCCACTAAAGTACAATATTTAGCGGCATTTATATAAAAACACCACTAAA
28312 ATACAAGTCTTTAGCGGCGTTTGTACAAAAACGC
130 ATACAAGTCTTTAGCGGCGTTTGTACAAAAACGC
* * * * * **
28346 CACTAAAGTACAATATTTAGCGAC--ATATATAAAAACGCCACTAATATATGAGTATTTACCAAC
1 CACTAAAGTAAAATATTTAGCGGCGTTTATATAAAAACGCCACTAAAATAAGAGTATTTACCGGC
* * *
28409 GTTTGTTAAAAAAATACCGCTAAA
66 GTTTGTTCAAAAAATGCCACTAAA
28433 AACCCGTTTT
Statistics
Matches: 218, Mismatches: 27, Indels: 12
0.85 0.11 0.05
Matches are distributed among these distances:
161 106 0.49
162 73 0.33
163 39 0.18
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (163 bp):
CACTAAAGTAAAATATTTAGCGGCGTTTATATAAAAACGCCACTAAAATAAGAGTATTTACCGGC
GTTTGTTCAAAAAATGCCACTAAAGTACAATATTTAGCGGCATTTATATAAAAACACCACTAAAA
TACAAGTCTTTAGCGGCGTTTGTACAAAAACGC
Found at i:28293 original size:82 final size:82
Alignment explanation
Indices: 27946--28432 Score: 463
Period size: 82 Copynumber: 6.0 Consensus size: 82
27936 AACACCAAAA
* * * * * ** *
27946 TACAATATTTAACGGCGTTTGTGCTTAAAACGCCACT-AAATAACTAGTATTTGGCGGCTTTTG-
1 TACAATATTTAGCGGCGTTTAT-ATAAAAACGCCACTAAAAT-ACGAGTATTTACCGGCGTTTGT
* * *
28009 TCTACAAATGTCACTAAAG
64 TCAAAAAATGCCACTAAAG
* * * * *
28028 TACGAATCTTTAGAGGCGTTTATATAAAAACGCCACTAAAATAAGAGTATTTACTGGTGTTTGTT
1 TAC-AATATTTAGCGGCGTTTATATAAAAACGCCACTAAAATACGAGTATTTACCGGCGTTTGTT
28093 -AAAAAATTGCCACTAAAG
65 CAAAAAA-TGCCACTAAAG
* * * * * * * *
28111 TACGAGTCTTTCGCGGCATTTATATAAAAACACCACTAAAATACGAGTCTTTAGCGGTGTTTG-T
1 TAC-AATATTTAGCGGCGTTTATATAAAAACGCCACTAAAATACGAGTATTTACCGGCGTTTGTT
*
28175 -AAAAAA-CCCACTAAAG
65 CAAAAAATGCCACTAAAG
* *
28191 TAAAATATTTAGCGGCGTTTATATAAAAATGCCACT-AAATGACGAGTATTTACCGGCGTTTGTT
1 TACAATATTTAGCGGCGTTTATATAAAAACGCCACTAAAAT-ACGAGTATTTACCGGCGTTTGTT
28255 CAAAAAATGCCACTAAAG
65 CAAAAAATGCCACTAAAG
* * * * * *
28273 TACAATATTTAGCGGTGTTTATATCAAAACGCCACTAAAATACAAGTCTTTAGCGGCGTTTGTAC
1 TACAATATTTAGCGGCGTTTATATAAAAACGCCACTAAAATACGAGTATTTACCGGCGTTTGTTC
*
28338 -AAAAACGCCACTAAAG
66 AAAAAATGCCACTAAAG
* * * * ** *
28354 TACAATATTTAGCGAC--ATATATAAAAACGCCACTAATATATGAGTATTTACCAACGTTTGTTA
1 TACAATATTTAGCGGCGTTTATATAAAAACGCCACTAAAATACGAGTATTTACCGGCGTTTGTTC
* *
28417 AAAAAATACCGCTAAA
66 AAAAAATGCCACTAAA
28433 AACCCGTTTT
Statistics
Matches: 333, Mismatches: 62, Indels: 22
0.80 0.15 0.05
Matches are distributed among these distances:
78 4 0.01
79 81 0.24
80 24 0.07
81 35 0.11
82 101 0.30
83 88 0.26
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.30
Consensus pattern (82 bp):
TACAATATTTAGCGGCGTTTATATAAAAACGCCACTAAAATACGAGTATTTACCGGCGTTTGTTC
AAAAAATGCCACTAAAG
Found at i:28959 original size:2 final size:2
Alignment explanation
Indices: 28952--28980 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
28942 GTGTAAAACT
28952 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
28981 TAGCTAGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:29496 original size:4 final size:4
Alignment explanation
Indices: 29487--30006 Score: 1040
Period size: 4 Copynumber: 130.0 Consensus size: 4
29477 TAACCTTTTA
29487 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
29535 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
29583 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
29631 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
29679 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
29727 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
29775 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
29823 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
29871 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
29919 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
29967 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
30007 GATGGATGGA
Statistics
Matches: 516, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 516 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:30011 original size:4 final size:4
Alignment explanation
Indices: 30004--31190 Score: 2374
Period size: 4 Copynumber: 296.8 Consensus size: 4
29994 GTATGTATGT
30004 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
1 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
30052 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
1 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
30100 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
1 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
30148 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
1 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
30196 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
1 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
30244 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
1 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
30292 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
1 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
30340 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
1 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
30388 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
1 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
30436 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
1 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
30484 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
1 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
30532 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
1 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
30580 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
1 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
30628 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
1 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
30676 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
1 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
30724 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
1 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
30772 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
1 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
30820 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
1 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
30868 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
1 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
30916 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
1 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
30964 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
1 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
31012 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
1 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
31060 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
1 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
31108 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
1 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG
31156 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATG
1 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATG
31191 CATGTATGTA
Statistics
Matches: 1183, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 1183 1.00
ACGTcount: A:0.25, C:0.00, G:0.50, T:0.25
Consensus pattern (4 bp):
ATGG
Found at i:31775 original size:21 final size:21
Alignment explanation
Indices: 31751--31806 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
31741 ACTTTAAATT
*
31751 CTAAATCATAAACCTCAAACC
1 CTAAATCTTAAACCTCAAACC
* * *
31772 CTAAACCTTAAACCTTAAATC
1 CTAAATCTTAAACCTCAAACC
*
31793 TTAAATCTTAAACC
1 CTAAATCTTAAACC
31807 CTAACCTTAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.27
Consensus pattern (21 bp):
CTAAATCTTAAACCTCAAACC
Found at i:31787 original size:7 final size:7
Alignment explanation
Indices: 31759--31815 Score: 62
Period size: 7 Copynumber: 8.3 Consensus size: 7
31749 TTCTAAATCA
31759 TAAACCT
1 TAAACCT
* *
31766 CAAACCC
1 TAAACCT
31773 TAAACCT
1 TAAACCT
31780 TAAACCT
1 TAAACCT
*
31787 TAAATCT
1 TAAACCT
*
31794 TAAATCT
1 TAAACCT
*
31801 TAAACCC
1 TAAACCT
31808 T-AACCT
1 TAAACCT
31814 TA
1 TA
31816 CAAATAAAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
6 5 0.12
7 36 0.88
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (7 bp):
TAAACCT
Found at i:36744 original size:21 final size:22
Alignment explanation
Indices: 36704--36749 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
36694 AGATCGTTGC
* *
36704 CAGGGAATCGATTCCCCTGCTA
1 CAGGGAACCGATTACCCTGCTA
36726 CAGGGAACCGA-TACCCTGCTA
1 CAGGGAACCGATTACCCTGCTA
36747 CAG
1 CAG
36750 TGCTGCTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.26, C:0.33, G:0.24, T:0.17
Consensus pattern (22 bp):
CAGGGAACCGATTACCCTGCTA
Found at i:36850 original size:21 final size:21
Alignment explanation
Indices: 36813--36854 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
36803 GTTCATCTCT
*
36813 ATACATTTACCATTTACAAAA
1 ATACATTTAACATTTACAAAA
36834 ATACATTTAAACA-TTACAAAA
1 ATACATTT-AACATTTACAAAA
36855 CTTGTTCAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.31
Consensus pattern (21 bp):
ATACATTTAACATTTACAAAA
Found at i:37527 original size:31 final size:31
Alignment explanation
Indices: 37489--37613 Score: 106
Period size: 31 Copynumber: 4.0 Consensus size: 31
37479 CCTTGGCAAT
* *
37489 TGTCCATAGGTCCCAAAAAACCTAGGTAAAC
1 TGTCCATATGTCCCAAAAAACATAGGTAAAC
* ** * *
37520 TGTCCATATGTTCCTTAGAACATAGGTATAC
1 TGTCCATATGTCCCAAAAAACATAGGTAAAC
** * *
37551 TGTCCATATGTCCTGAAAGACATAGGTAATTC
1 TGTCCATATGTCCCAAAAAACATAGGTAA-AC
* ** *
37583 TGTCCATATGTTCCGTAGAACATAGGTAAAC
1 TGTCCATATGTCCCAAAAAACATAGGTAAAC
37614 CCTCGACTCT
Statistics
Matches: 72, Mismatches: 21, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
31 47 0.65
32 25 0.35
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.29
Consensus pattern (31 bp):
TGTCCATATGTCCCAAAAAACATAGGTAAAC
Found at i:37591 original size:32 final size:31
Alignment explanation
Indices: 37505--37611 Score: 112
Period size: 31 Copynumber: 3.4 Consensus size: 31
37495 TAGGTCCCAA
* *
37505 AAAACCTAGGTAA-ACTGTCCATATGTTCCTT
1 AAAACATAGGTAATACTGTCCATATG-TCCTG
*
37536 AGAACATAGGT-ATACTGTCCATATGTCCTG
1 AAAACATAGGTAATACTGTCCATATGTCCTG
*
37566 AAAGACATAGGTAATTCTGTCCATATGTTCC-G
1 AAA-ACATAGGTAATACTGTCCATATG-TCCTG
*
37598 TAGAACATAGGTAA
1 -AAAACATAGGTAA
37612 ACCCTCGACT
Statistics
Matches: 65, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
30 7 0.11
31 29 0.45
32 24 0.37
33 5 0.08
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.30
Consensus pattern (31 bp):
AAAACATAGGTAATACTGTCCATATGTCCTG
Found at i:38663 original size:12 final size:12
Alignment explanation
Indices: 38646--38670 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38636 ACATTTTAAG
38646 CACGAAAATTCA
1 CACGAAAATTCA
38658 CACGAAAATTCA
1 CACGAAAATTCA
38670 C
1 C
38671 TCAATTCAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.28, G:0.08, T:0.16
Consensus pattern (12 bp):
CACGAAAATTCA
Found at i:40559 original size:8 final size:8
Alignment explanation
Indices: 40542--40572 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
40532 CATTTTAGTA
*
40542 ATTTTAAG
1 ATTTTGAG
40550 ATTTTGAG
1 ATTTTGAG
40558 ATTTTGAG
1 ATTTTGAG
40566 ATTTTGA
1 ATTTTGA
40573 AATCAAGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (8 bp):
ATTTTGAG
Found at i:42709 original size:20 final size:20
Alignment explanation
Indices: 42672--42710 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
42662 AGATTGAGTG
* * *
42672 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
42692 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
42711 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:42936 original size:20 final size:20
Alignment explanation
Indices: 42907--42944 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
42897 CCCCTTCAAA
*
42907 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
42927 GGGGGGATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
42945 TGCACCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.37, T:0.24
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:52895 original size:18 final size:19
Alignment explanation
Indices: 52874--52909 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
52864 TTTTTATAAA
52874 AAAATTTA-AAATGAAAAT
1 AAAATTTATAAATGAAAAT
*
52892 AAAATTTATAAATTAAAA
1 AAAATTTATAAATGAAAA
52910 AAATAGGTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (19 bp):
AAAATTTATAAATGAAAAT
Found at i:57099 original size:20 final size:19
Alignment explanation
Indices: 57076--57127 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
57066 GAAATCCAAT
*
57076 TTCGCAACACAGTTTCTGAA
1 TTCGCAACACAGTTT-GGAA
* *
57096 TTCGCAACTCGAATTTGGAA
1 TTCGCAACAC-AGTTTGGAA
57116 TTCGCAACACAG
1 TTCGCAACACAG
57128 AAGTAGAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 1 0.04
20 21 0.81
21 4 0.15
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (19 bp):
TTCGCAACACAGTTTGGAA
Found at i:57715 original size:22 final size:22
Alignment explanation
Indices: 57684--57742 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
57674 CTATATCGGT
57684 AATT-GAGTTGCGAAATTGGCG
1 AATTCGAGTTGCGAAATTGGCG
**
57705 AATTCTTGTTGCGAAATTGGCG
1 AATTCGAGTTGCGAAATTGGCG
57727 AATTCGAGTTGCGAAA
1 AATTCGAGTTGCGAAA
57743 ACGAAATTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
21 4 0.12
22 29 0.88
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.31
Consensus pattern (22 bp):
AATTCGAGTTGCGAAATTGGCG
Found at i:57820 original size:20 final size:20
Alignment explanation
Indices: 57772--57887 Score: 71
Period size: 20 Copynumber: 5.8 Consensus size: 20
57762 AATTTCCATG
* *
57772 TTCGAGTTGCGAATT-CTAC
1 TTCGAGTTGCGAATTCCAAA
*
57791 TTCTGTGTTGCGAATTCCAAA
1 TTC-GAGTTGCGAATTCCAAA
* *
57812 TTCGAGTTGCGGATTCGAAA
1 TTCGAGTTGCGAATTCCAAA
* * *
57832 -ACTGTGTTTGCGAAATT--AGAT
1 TTC-GAG-TTGCG-AATTCCA-AA
*
57853 TTCGAGTTGCGAA-TCCGAA
1 TTCGAGTTGCGAATTCCAAA
57872 TTCGAGTTGCGAATTC
1 TTCGAGTTGCGAATTC
57888 ATTGGTTATT
Statistics
Matches: 73, Mismatches: 14, Indels: 19
0.69 0.13 0.18
Matches are distributed among these distances:
18 1 0.01
19 20 0.27
20 35 0.48
21 13 0.18
22 4 0.05
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (20 bp):
TTCGAGTTGCGAATTCCAAA
Found at i:58941 original size:23 final size:23
Alignment explanation
Indices: 58915--58969 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
58905 AAATATGCTA
* *
58915 AAAGACATATGAAAACGTACCAT
1 AAAGACAGATAAAAACGTACCAT
**
58938 AAAGACAGATAAAAACGTGTCAT
1 AAAGACAGATAAAAACGTACCAT
58961 AAAGACAGA
1 AAAGACAGA
58970 CTTAATGAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.55, C:0.15, G:0.16, T:0.15
Consensus pattern (23 bp):
AAAGACAGATAAAAACGTACCAT
Found at i:60058 original size:20 final size:20
Alignment explanation
Indices: 60033--60073 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
60023 TCAACAATAT
60033 ATATTTATAAT-ATTTTAAAA
1 ATATTT-TAATAATTTTAAAA
*
60053 ATATTTTTATAATTTTAAAA
1 ATATTTTAATAATTTTAAAA
60073 A
1 A
60074 ATAATTTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATTTTAATAATTTTAAAA
Found at i:60061 original size:22 final size:21
Alignment explanation
Indices: 60031--60080 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
60021 GTTCAACAAT
*
60031 ATATATTTATAATATTTTAAAA
1 ATATATTTATAAT-TTTAAAAA
*
60053 ATATTTTTATAATTTTAAAAA
1 ATATATTTATAATTTTAAAAA
60074 ATA-ATTT
1 ATATATTT
60081 CTTTATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 3 0.12
21 10 0.40
22 12 0.48
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATATATTTATAATTTTAAAAA
Found at i:70019 original size:40 final size:39
Alignment explanation
Indices: 69967--70047 Score: 126
Period size: 40 Copynumber: 2.1 Consensus size: 39
69957 GTCCTTTCAG
* *
69967 AAACACTAACAAAAGTCTAAAGAGTAAAAGAAAGTATTTC
1 AAACACTAACAAAAGTATAAAGAGTAAAAG-AAGGATTTC
*
70007 AAACACTTACAAAAGTATAAAGAGTAAAAGAAGGATTTC
1 AAACACTAACAAAAGTATAAAGAGTAAAAGAAGGATTTC
70046 AA
1 AA
70048 GTGATCATGC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
39 10 0.26
40 28 0.74
ACGTcount: A:0.56, C:0.11, G:0.14, T:0.20
Consensus pattern (39 bp):
AAACACTAACAAAAGTATAAAGAGTAAAAGAAGGATTTC
Found at i:71067 original size:71 final size:71
Alignment explanation
Indices: 70948--71134 Score: 286
Period size: 71 Copynumber: 2.6 Consensus size: 71
70938 AATAAAGATG
* * * *
70948 AATAGTAAATCAGCTAGCAGTCAAGTCCAGTTGAAGTTAGAAATAGTTAATGCTTCATGATAAAA
1 AATAGTAAATCAGCTAGCAGTCAAGTCCAGTTGAAGTTGGACACAGTTAATGCTCCATGATAAAA
71013 GAAACA
66 GAAACA
71019 AATAGTAAATCAGCTAGCAGTCAAGTCCAGTTGAAGTTGGACACAGTTAATGCTCCATGATAAAA
1 AATAGTAAATCAGCTAGCAGTCAAGTCCAGTTGAAGTTGGACACAGTTAATGCTCCATGATAAAA
71084 GAAACA
66 GAAACA
** * *
71090 TTTAATGAATCAGCTAGCAGTCATA-TCCAGTTGAAGTTGGACACA
1 AATAGTAAATCAGCTAGCAGTCA-AGTCCAGTTGAAGTTGGACACA
71135 TTTATATTTA
Statistics
Matches: 107, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
71 106 0.99
72 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (71 bp):
AATAGTAAATCAGCTAGCAGTCAAGTCCAGTTGAAGTTGGACACAGTTAATGCTCCATGATAAAA
GAAACA
Found at i:72567 original size:21 final size:21
Alignment explanation
Indices: 72542--72586 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
72532 TTGGAAATAT
*
72542 TAAAAATATTAATATTTTAGG
1 TAAAAATAATAATATTTTAGG
*
72563 TAAAAATAATAATATTTTATG
1 TAAAAATAATAATATTTTAGG
72584 TAA
1 TAA
72587 TTTTTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (21 bp):
TAAAAATAATAATATTTTAGG
Found at i:73553 original size:15 final size:13
Alignment explanation
Indices: 73529--73605 Score: 76
Period size: 11 Copynumber: 6.2 Consensus size: 13
73519 TAATACTTAT
73529 TTAAAAAAT-AT-
1 TTAAAAAATAATA
73540 TTAAAATAATAATA
1 TTAAAA-AATAATA
73554 TTAAAAAAT-AT-
1 TTAAAAAATAATA
73565 TTAAAATAATAATA
1 TTAAAA-AATAATA
73579 TTAAAAAAT-AT-
1 TTAAAAAATAATA
*
73590 TTAAATAAATTATA
1 TTAAA-AAATAATA
73604 TT
1 TT
73606 TTTCTAAGAT
Statistics
Matches: 57, Mismatches: 0, Indels: 15
0.79 0.00 0.21
Matches are distributed among these distances:
11 17 0.30
12 14 0.25
13 12 0.21
14 14 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TTAAAAAATAATA
Found at i:73563 original size:16 final size:14
Alignment explanation
Indices: 73535--73588 Score: 71
Period size: 14 Copynumber: 4.1 Consensus size: 14
73525 TTATTTAAAA
73535 AATATTTAAAATAAT
1 AATA-TTAAAATAAT
73550 AATATTAAAA-AAT
1 AATATTAAAATAAT
73563 -AT-TTAAAATAAT
1 AATATTAAAATAAT
73575 AATATTAAAA-AAT
1 AATATTAAAATAAT
73588 A
1 A
73589 TTTAAATAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
11 6 0.17
12 5 0.14
13 9 0.25
14 12 0.33
15 4 0.11
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AATATTAAAATAAT
Found at i:73605 original size:25 final size:25
Alignment explanation
Indices: 73529--73594 Score: 132
Period size: 25 Copynumber: 2.6 Consensus size: 25
73519 TAATACTTAT
73529 TTAAAAAATATTTAAAATAATAATA
1 TTAAAAAATATTTAAAATAATAATA
73554 TTAAAAAATATTTAAAATAATAATA
1 TTAAAAAATATTTAAAATAATAATA
73579 TTAAAAAATATTTAAA
1 TTAAAAAATATTTAAA
73595 TAAATTATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (25 bp):
TTAAAAAATATTTAAAATAATAATA
Done.