Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001096.1 Hibiscus syriacus cultivar Beakdansim tig00002171_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: 71741
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Found at i:1790 original size:25 final size:27
Alignment explanation
Indices: 1761--1811 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
1751 GATATTCTTG
*
1761 GGTCA-TTTCCAT-TCCAGGGTATTTT
1 GGTCATTTTACATATCCAGGGTATTTT
1786 GGTCATTTTACATATCCAGGGTATTT
1 GGTCATTTTACATATCCAGGGTATTT
1812 CAATTATTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.22
26 6 0.26
27 12 0.52
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.43
Consensus pattern (27 bp):
GGTCATTTTACATATCCAGGGTATTTT
Found at i:11623 original size:76 final size:76
Alignment explanation
Indices: 11427--11786 Score: 490
Period size: 76 Copynumber: 4.8 Consensus size: 76
11417 TTAAACTTCA
* * * **
11427 AAGTTTAGTGTTGGAGTTACATATTCATTTCACTGATGTAAGTCAATGTTAAGTTTCGCTGCTGG
1 AAGTTTAGTGTTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCATTGCTGG
11492 AATTATGTGAT
66 AATTATGTGAT
* * *
11503 AA-CTT-GTGTTGGAATTACGTATTCATTTTACTGGTGTAAGTCAATGTTAAATTTCATTGCTGG
1 AAGTTTAGTGTTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCATTGCTGG
11566 AATTATGTGAT
66 AATTATGTGAT
* * *
11577 AAGTTTAGTGCTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTATGTTTCATTGTTGG
1 AAGTTTAGTGTTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCATTGCTGG
*
11642 AATTATGAGAT
66 AATTATGTGAT
* ** * **
11653 AAGTTTAGTGTTGGAACTACGTATTCATTTCGTTGGTGTAAGTTAATGTTAAGTTTCATTATTGG
1 AAGTTTAGTGTTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCATTGCTGG
11718 AATTATGTGAT
66 AATTATGTGAT
* * * * * *
11729 AAGTTTAGCGCTGGAATTACATATTCATTTTACTGGTGTAAGTCAATGCTAAATTTCA
1 AAGTTTAGTGTTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCA
11787 ATGTTATTAA
Statistics
Matches: 249, Mismatches: 33, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
74 64 0.26
75 4 0.02
76 181 0.73
ACGTcount: A:0.27, C:0.10, G:0.21, T:0.42
Consensus pattern (76 bp):
AAGTTTAGTGTTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCATTGCTGG
AATTATGTGAT
Found at i:12911 original size:76 final size:76
Alignment explanation
Indices: 12785--12943 Score: 228
Period size: 76 Copynumber: 2.1 Consensus size: 76
12775 CATTGCTAAA
* * * * * *
12785 TTTCACTGCTAAAATGATGTGATAAGTTTAGTGCTTGAATTACGTATTCATTTCACTAGTGTAAG
1 TTTCACTACTAAAATCATGTCATAAGGTTAGTGCTAGAATTACGTATTCATTTCACTAGTGTAAA
12850 TCAATGTTAAG
66 TCAATGTTAAG
* * *
12861 TTTCACTACTGAAATCATGTCATAAGGTTAGTGCTAGAATTGCGTATTCATTTCACTGGTGTAAA
1 TTTCACTACTAAAATCATGTCATAAGGTTAGTGCTAGAATTACGTATTCATTTCACTAGTGTAAA
*
12926 TCAATGTTACG
66 TCAATGTTAAG
12937 TTTCACT
1 TTTCACT
12944 GCTAGAATTG
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (76 bp):
TTTCACTACTAAAATCATGTCATAAGGTTAGTGCTAGAATTACGTATTCATTTCACTAGTGTAAA
TCAATGTTAAG
Found at i:13286 original size:28 final size:29
Alignment explanation
Indices: 13246--13321 Score: 109
Period size: 28 Copynumber: 2.6 Consensus size: 29
13236 ATTATTTCGG
*
13246 GTGACTTGCACGGGAGCCCTGAAGG-AGA
1 GTGACTTGCACGGGAGCCCCGAAGGTAGA
*
13274 GTGACTTGTACGGGAGCCCCGAAGGATTAGA
1 GTGACTTGCACGGGAGCCCCGAAGG--TAGA
13305 GTGACTTGCACGGGAGC
1 GTGACTTGCACGGGAGC
13322 ACCTAATCGT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
28 23 0.55
31 19 0.45
ACGTcount: A:0.24, C:0.21, G:0.38, T:0.17
Consensus pattern (29 bp):
GTGACTTGCACGGGAGCCCCGAAGGTAGA
Found at i:16856 original size:76 final size:75
Alignment explanation
Indices: 16736--17223 Score: 411
Period size: 76 Copynumber: 6.5 Consensus size: 75
16726 ATGTGAAATC
* * *
16736 ATAAGTTTATTGCTGGAATTACGTATTCATTTCACT-AGTGTAAGTCAATGTTCAGTTTCACTCC
1 ATAAGTTTAGTGTTGGAATTACGTATTCATTTCACTGA-TGTAAGTCAATGTTAAGTTTCACT-C
*
16800 ATGACTTATGTG
64 ATGAATTATGTG
* * *
16812 AAAAGTTTAGTGTTAGAATTACGTATTCATTTCACTGATTTAAGTCAATGTTAAGTTTCACT-AC
1 ATAAGTTTAGTGTTGGAATTACGTATTCATTTCACTGATGTAAGTCAATGTTAAGTTTCACTCA-
*
16876 TAGAATTAGGTG
65 T-GAATTATGTG
* * * * * * * ** *
16888 ATAAATTTAATGATGGAATTATGTATTTATTTCATTGGTGTAAGAAAATGTTAAGTTTCACTGTA
1 ATAAGTTTAGTGTTGGAATTACGTATTCATTTCACTGATGTAAGTCAATGTTAAGTTTCACT-CA
*
16953 GGAATTATGTG
65 TGAATTATGTG
** * * * *
16964 ---A--TTAGTGTTGGAATTACGTATTCAAATCACTGGTGTAAGTTAATGATAAGTTTCA-TTAT
1 ATAAGTTTAGTGTTGGAATTACGTATTCATTTCACTGATGTAAGTCAATGTTAAGTTTCACTCA-
* *
17023 TGGAATCATTTG
65 T-GAATTATGTG
* * ** * * * **
17035 ATAAGTTTAGCGCTGGAATTACGTATTCATTTTTCTGGTGTAAGTCAATGTTAAATTTCAATGTT
1 ATAAGTTTAGTGTTGGAATTACGTATTCATTTCACTGATGTAAGTCAATGTTAAGTTTCACTCAT
*
17100 GAAATGATGTG
66 G-AATTATGTG
* * * *
17111 ATAAGTTTAGTGCTT-GAATTACGTATTCATTACACTGATGTAAGTCAATGATAAATTTAACTGC
1 ATAAGTTTAGTG-TTGGAATTACGTATTCATTTCACTGATGTAAGTCAATGTTAAGTTTCACT-C
**
17175 GGGAATTATGTG
64 ATGAATTATGTG
*
17187 ATAAGTTTAGT-TCTTGAATTACGTATTCATTTCACTG
1 ATAAGTTTAGTGT-TGGAATTACGTATTCATTTCACTG
17224 GTGGAGTTGG
Statistics
Matches: 332, Mismatches: 62, Indels: 36
0.77 0.14 0.08
Matches are distributed among these distances:
69 2 0.01
70 1 0.00
71 52 0.16
73 1 0.00
74 3 0.01
75 3 0.01
76 265 0.80
77 4 0.01
78 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.41
Consensus pattern (75 bp):
ATAAGTTTAGTGTTGGAATTACGTATTCATTTCACTGATGTAAGTCAATGTTAAGTTTCACTCAT
GAATTATGTG
Found at i:19425 original size:21 final size:21
Alignment explanation
Indices: 19401--19450 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
19391 AAATCATAGG
*
19401 AAAGTTAGCAATTTCACAAGA
1 AAAGTTAGCAATGTCACAAGA
* ** *
19422 AAAGTTGGTTATGTCCCAAGA
1 AAAGTTAGCAATGTCACAAGA
19443 AAAGTTAG
1 AAAGTTAG
19451 TTACGTCCCA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.26
Consensus pattern (21 bp):
AAAGTTAGCAATGTCACAAGA
Found at i:19453 original size:21 final size:21
Alignment explanation
Indices: 19417--19467 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
19407 AGCAATTTCA
* *
19417 CAAGAAAAGTTGGTTATGTCC
1 CAAGAAAAGTTAGTTACGTCC
19438 CAAGAAAAGTTAGTTACGTCC
1 CAAGAAAAGTTAGTTACGTCC
*
19459 CAGGAAAAG
1 CAAGAAAAG
19468 CTAATTGCCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.22
Consensus pattern (21 bp):
CAAGAAAAGTTAGTTACGTCC
Found at i:23599 original size:10 final size:10
Alignment explanation
Indices: 23580--23614 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
23570 GAGGTAACCC
23580 ATTTCATTTT
1 ATTTCATTTT
*
23590 ATTTCGTTTT
1 ATTTCATTTT
23600 ATTTTCATTTT
1 A-TTTCATTTT
23611 ATTT
1 ATTT
23615 TTAGCAAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.17, C:0.09, G:0.03, T:0.71
Consensus pattern (10 bp):
ATTTCATTTT
Found at i:23610 original size:11 final size:11
Alignment explanation
Indices: 23581--23615 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
23571 AGGTAACCCA
23581 TTTCATTTTA-
1 TTTCATTTTAT
*
23591 TTTCGTTTTAT
1 TTTCATTTTAT
23602 TTTCATTTTAT
1 TTTCATTTTAT
23613 TTT
1 TTT
23616 TAGCAAACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.14, C:0.09, G:0.03, T:0.74
Consensus pattern (11 bp):
TTTCATTTTAT
Found at i:23648 original size:5 final size:5
Alignment explanation
Indices: 23638--23671 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
23628 TTTCATTCAA
23638 TTTAT TTTAT TTTAT TTTAT TTTATT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTA-T TTTAT TTT
23672 TCCCTGAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:27727 original size:44 final size:44
Alignment explanation
Indices: 27644--27760 Score: 148
Period size: 44 Copynumber: 2.7 Consensus size: 44
27634 ATTATGCGTT
*
27644 ATTTAGCGGTGTTTGTAACAAAAAACGCC-ATAATATACCATAC
1 ATTTAGCGGTGTTTGTATCAAAAAACGCCGATAATATACCATAC
* *
27687 ATTTAGCGGTGTTTGTATCCGAAAAACGCCGCT-ATATACCATAC
1 ATTTAGCGGTGTTTGTAT-CAAAAAACGCCGATAATATACCATAC
* * **
27731 CTTTTGCGACGTTTGTATCAAAAAACGCCG
1 ATTTAGCGGTGTTTGTATCAAAAAACGCCG
27761 TAAAATCTCA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
43 28 0.44
44 35 0.55
45 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.29
Consensus pattern (44 bp):
ATTTAGCGGTGTTTGTATCAAAAAACGCCGATAATATACCATAC
Found at i:27798 original size:43 final size:43
Alignment explanation
Indices: 27751--27956 Score: 225
Period size: 43 Copynumber: 4.8 Consensus size: 43
27741 GTTTGTATCA
*
27751 AAAAACGCCG-TAAAATCTCAACACCTATTGCGGCATTTGCAAG
1 AAAAACGCCGCT-AAATCTCAACACCTATTGCGGCATTTGTAAG
* * * * * *
27794 AAAAACGCCGCTAAATCACAAGACATATTGCGACATTTGTGAT
1 AAAAACGCCGCTAAATCTCAACACCTATTGCGGCATTTGTAAG
* * **
27837 AAAAACGCCACTAAATCTCAACACCTATTGCGGCGTTTGTGGG
1 AAAAACGCCGCTAAATCTCAACACCTATTGCGGCATTTGTAAG
** * * ** *
27880 AAAAACGCCGCTAAAAATTAACACGTATTGCGGTGTTTGTATG
1 AAAAACGCCGCTAAATCTCAACACCTATTGCGGCATTTGTAAG
*
27923 AAAAACGCCGCTAAATGTCAACACCTATTGCGGC
1 AAAAACGCCGCTAAATCTCAACACCTATTGCGGC
27957 GTTTTTCATT
Statistics
Matches: 134, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
43 133 0.99
44 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.23
Consensus pattern (43 bp):
AAAAACGCCGCTAAATCTCAACACCTATTGCGGCATTTGTAAG
Found at i:27957 original size:86 final size:85
Alignment explanation
Indices: 27707--27960 Score: 273
Period size: 86 Copynumber: 3.0 Consensus size: 85
27697 GTTTGTATCC
* * *
27707 GAAAAACGCCGCTATATACCATAC-C-TTTTGCGACGTTTGTATCAAAAAACGCCG-TAAAATCT
1 GAAAAACGCCGCTAAATAACA-ACACATATTGCGACGTTTGTAT--AAAAACGCCGCT-AAATCT
*
27769 CAACACCTATTGCGGCATTTGCAA
62 CAACACCTATTGCGGCGTTTGCAA
* * * *
27793 GAAAAACGCCGCTAAATCACAAGACATATTGCGACATTTGTGATAAAAACGCCACTAAATCTCAA
1 GAAAAACGCCGCTAAATAACAACACATATTGCGACGTTTGT-ATAAAAACGCCGCTAAATCTCAA
***
27858 CACCTATTGCGGCGTTTGTGG
65 CACCTATTGCGGCGTTTGCAA
* * ** *
27879 GAAAAACGCCGCTAAA-AATTAACACGTATTGCGGTGTTTGTATGAAAAACGCCGCTAAATGTCA
1 GAAAAACGCCGCTAAATAA-CAACACATATTGCGACGTTTGTAT-AAAAACGCCGCTAAATCTCA
27943 ACACCTATTGCGGCGTTT
64 ACACCTATTGCGGCGTTT
27961 TTCATTCACA
Statistics
Matches: 142, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
85 4 0.03
86 122 0.86
87 14 0.10
88 2 0.01
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (85 bp):
GAAAAACGCCGCTAAATAACAACACATATTGCGACGTTTGTATAAAAACGCCGCTAAATCTCAAC
ACCTATTGCGGCGTTTGCAA
Found at i:31345 original size:79 final size:79
Alignment explanation
Indices: 31240--31394 Score: 267
Period size: 79 Copynumber: 2.0 Consensus size: 79
31230 TTTAAGATAT
* *
31240 TATTTTAGTTTTATCTTTAGGAATTTTAGTTTAAATAGTTTTAAGTGTTTTAATTAGGATTTAGG
1 TATTTTAGTCTTATCTTTAGGAATTTTAGTTTAAATAGTTTTAAGTGTTTTAATTAGGATTTAAG
31305 ATATTATCTTTATTA
66 ATATTAT-TTTATTA
*
31320 TATTTTA-TCTTATCTTTAGGTATTTTAGTTTAAATAGTTTTAAGTGTTTTAATTAGGATTTAAG
1 TATTTTAGTCTTATCTTTAGGAATTTTAGTTTAAATAGTTTTAAGTGTTTTAATTAGGATTTAAG
31384 ATATTATTTTA
66 ATATTATTTTA
31395 AGGAATTATC
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
78 4 0.06
79 61 0.85
80 7 0.10
ACGTcount: A:0.29, C:0.03, G:0.13, T:0.55
Consensus pattern (79 bp):
TATTTTAGTCTTATCTTTAGGAATTTTAGTTTAAATAGTTTTAAGTGTTTTAATTAGGATTTAAG
ATATTATTTTATTA
Found at i:33431 original size:76 final size:77
Alignment explanation
Indices: 33313--33674 Score: 430
Period size: 76 Copynumber: 4.8 Consensus size: 77
33303 GTGAAACCAT
* * * *
33313 AAGTTTAGTGTTGGAATTACGTATTCATTTCACTAGTGTAAGTCAATGTTCAGTTTCACT-CATT
1 AAGTTTAGTGATGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTGCATA
*
33377 GACTTATGTGAA
66 GAATTATGTGAA
* *
33389 AAGTTTAGTGATGGAATTACG-ATTTCATTTCACTGGTTTAAGTCAATGTTAAGTTTCACTAC-T
1 AAGTTTAGTGATGGAATTACGTA-TTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTGCAT
*
33452 AGAATTAGGTGATA
65 AGAATTATGTGA-A
* * * *
33466 AA-TTTAATGCTGGAATTATGTATTCATTTCGCTGGTGTAAGTCAATGTTAAGTTTCACTGCA-A
1 AAGTTTAGTGATGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTGCATA
*
33529 GAATTATGTGAT
66 GAATTATGTGAA
* * * * *
33541 ACGCTTAGTGATGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAATTTCATTGC-TG
1 AAGTTTAGTGATGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTGCATA
*
33605 GAATTATGTGAT
66 GAATTATGTGAA
* * ** * * *
33617 AAGTTTAATGCTATAATTACATATTCATTTCACTGATGTAAGTCAATGTTAAGCTTCA
1 AAGTTTAGTGATGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCA
33675 AAGTCTAGTG
Statistics
Matches: 245, Mismatches: 34, Indels: 14
0.84 0.12 0.05
Matches are distributed among these distances:
75 2 0.01
76 238 0.97
77 5 0.02
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.40
Consensus pattern (77 bp):
AAGTTTAGTGATGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTGCATA
GAATTATGTGAA
Found at i:33609 original size:152 final size:152
Alignment explanation
Indices: 33324--33674 Score: 481
Period size: 152 Copynumber: 2.3 Consensus size: 152
33314 AGTTTAGTGT
* * * *
33324 TGGAATTACGTATTCATTTCACTAGTGTAAGTCAATGTTCAGTTTCACTCATTGACTTATGTGAA
1 TGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTCATAGAATTATGTGAA
* * *
33389 AAGTTTAGTGATGGAATTACGATTTCATTTCACTGGTTTAAGTCAATGTTAAGTTTCACTACTAG
66 AAGCTTAGTGATGGAATTACGATTTCATTTCACTGGTGTAAGTCAATGTTAAATTTCACTACTAG
33454 AATTAGGTGATAAATTTAATGC
131 AATTAGGTGATAAATTTAATGC
* *
33476 TGGAATTATGTATTCATTTCGCTGGTGTAAGTCAATGTTAAGTTTCACTGCA-AGAATTATGTGA
1 TGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACT-CATAGAATTATGTGA
* * * *
33540 TACGCTTAGTGATGGAATTACG-TATTCATTTCACTGGTGTAAGTCAATGTTAAATTTCATTGCT
65 AAAGCTTAGTGATGGAATTACGAT-TTCATTTCACTGGTGTAAGTCAATGTTAAATTTCACTACT
* * *
33604 GGAATTATGTGATAAGTTTAATGC
129 AGAATTAGGTGATAAATTTAATGC
** * * *
33628 TATAATTACATATTCATTTCACTGATGTAAGTCAATGTTAAGCTTCA
1 TGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCA
33675 AAGTCTAGTG
Statistics
Matches: 174, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
151 1 0.01
152 171 0.98
153 2 0.01
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (152 bp):
TGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTCATAGAATTATGTGAA
AAGCTTAGTGATGGAATTACGATTTCATTTCACTGGTGTAAGTCAATGTTAAATTTCACTACTAG
AATTAGGTGATAAATTTAATGC
Found at i:33707 original size:134 final size:134
Alignment explanation
Indices: 33546--33802 Score: 388
Period size: 134 Copynumber: 1.9 Consensus size: 134
33536 GTGATACGCT
* * *
33546 TAGTGATGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAATTTCATTGCTGGAATTA
1 TAGTGATGGAATTACGTATTCATTTCACTGATGTAAGTCAATGTTAAATTCCATTGCTAGAATTA
* *
33611 TGTGATAAGTTTAATGCTATAATTACATATTCATTTCACTGATGTAAGTCAATGTTAAGCTTCAA
66 TGTGATAAGTTTAATGCTAGAATTACATATTCATTTCACTGATATAAGTCAATGTTAAGCTTCAA
33676 AGTC
131 AGTC
* * *
33680 TAGTGTTGGAATTACGTATTCATTTCACTGATGTAAGTCAATGTTAAGTTCCGTTGCTAGAATTA
1 TAGTGATGGAATTACGTATTCATTTCACTGATGTAAGTCAATGTTAAATTCCATTGCTAGAATTA
* * * * * *
33745 TGTGATAAGTTTAGTGTTGGAATTACGTATTCATTTTACTGGTATAAGTCAATGTTAA
66 TGTGATAAGTTTAATGCTAGAATTACATATTCATTTCACTGATATAAGTCAATGTTAA
33803 ATTTCATTGC
Statistics
Matches: 109, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
134 109 1.00
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (134 bp):
TAGTGATGGAATTACGTATTCATTTCACTGATGTAAGTCAATGTTAAATTCCATTGCTAGAATTA
TGTGATAAGTTTAATGCTAGAATTACATATTCATTTCACTGATATAAGTCAATGTTAAGCTTCAA
AGTC
Found at i:33813 original size:76 final size:76
Alignment explanation
Indices: 33675--34199 Score: 651
Period size: 76 Copynumber: 6.9 Consensus size: 76
33665 TTAAGCTTCA
* * * *
33675 AAGTCTAGTGTTGGAATTACGTATTCATTTCACTGATGTAAGTCAATGTTAAGTTCCGTTGCTAG
1 AAGTTTAGTGTTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCATTGCTAG
33740 AATTATGTGAT
66 AATTATGTGAT
* * * *
33751 AAGTTTAGTGTTGGAATTACGTATTCATTTTACTGGTATAAGTCAATGTTAAATTTCATTGCTGG
1 AAGTTTAGTGTTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCATTGCTAG
33816 AATTATGTGAT
66 AATTATGTGAT
* * * * * *
33827 AAGTTTAATGCTGGAATTATGTACTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCATTGTTGG
1 AAGTTTAGTGTTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCATTGCTAG
33892 AATTATGTGAT
66 AATTATGTGAT
* * ** * *
33903 AAGTTTAGTGTTGAAATTATGTATTCATTTCGTTGGTGTAAGTTAATGTTAAGTTTCATTACTAG
1 AAGTTTAGTGTTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCATTGCTAG
33968 AATTATGTGAT
66 AATTATGTGAT
* * * * * * *
33979 AAGTTTAGCGCTGGAATTACATATTCATTTTACTGGTGTAAGTCAATGCTAAATTTCACTGCT-G
1 AAGTTTAGTGTTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCATTGCTAG
*
34043 AAATGATGTGAT
66 -AATTATGTGAT
* * *
34055 AAGTTTAGTGGTT-GAATTACGTATTCATTTAACTGGTATAAGTCAATGTTAAGCTTCATTGCT-
1 AAGTTTAGT-GTTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCATTGCTA
* *
34118 GAAATCATGTCAT
65 G-AATTATGTGAT
* * * * **
34131 AAGTTTAGTGCTAGAATTACGTATTCATTTCACTAGTGTAAGTCAATGTTATGTTTCACAGCTAG
1 AAGTTTAGTGTTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCATTGCTAG
34196 AATT
66 AATT
34200 GTGATGTGTT
Statistics
Matches: 385, Mismatches: 60, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
75 3 0.01
76 379 0.98
77 3 0.01
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (76 bp):
AAGTTTAGTGTTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCATTGCTAG
AATTATGTGAT
Found at i:33838 original size:210 final size:210
Alignment explanation
Indices: 33476--33884 Score: 647
Period size: 210 Copynumber: 1.9 Consensus size: 210
33466 AATTTAATGC
* * * *
33476 TGGAATTATGTATTCATTTCGCTGGTGTAAGTCAATGTTAAGTTTCACTGCAAGAATTATGTGAT
1 TGGAATTACGTATTCATTTCACTGATGTAAGTCAATGTTAAGTTCCACTGCAAGAATTATGTGAT
* *
33541 ACGCTTAGTGATGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAATTTCATTGCTGG
66 AAGCTTAGTGATGGAATTACGTATTCATTTCACTGGTATAAGTCAATGTTAAATTTCATTGCTGG
* *
33606 AATTATGTGATAAGTTTAATGCTATAATTACATATTCATTTCACTGATGTAAGTCAATGTTAAGC
131 AATTATGTGATAAGTTTAATGCTAGAATTACATACTCATTTCACTGATGTAAGTCAATGTTAAGC
33671 TTCAAAGTCTAGTGT
196 TTCAAAGTCTAGTGT
** *
33686 TGGAATTACGTATTCATTTCACTGATGTAAGTCAATGTTAAGTTCCGTTGCTAGAATTATGTGAT
1 TGGAATTACGTATTCATTTCACTGATGTAAGTCAATGTTAAGTTCCACTGCAAGAATTATGTGAT
* * *
33751 AAGTTTAGTGTTGGAATTACGTATTCATTTTACTGGTATAAGTCAATGTTAAATTTCATTGCTGG
66 AAGCTTAGTGATGGAATTACGTATTCATTTCACTGGTATAAGTCAATGTTAAATTTCATTGCTGG
* ** * *
33816 AATTATGTGATAAGTTTAATGCTGGAATTATGTACTCATTTCACTGGTGTAAGTCAATGTTAAGT
131 AATTATGTGATAAGTTTAATGCTAGAATTACATACTCATTTCACTGATGTAAGTCAATGTTAAGC
33881 TTCA
196 TTCA
33885 TTGTTGGAAT
Statistics
Matches: 180, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
210 180 1.00
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.40
Consensus pattern (210 bp):
TGGAATTACGTATTCATTTCACTGATGTAAGTCAATGTTAAGTTCCACTGCAAGAATTATGTGAT
AAGCTTAGTGATGGAATTACGTATTCATTTCACTGGTATAAGTCAATGTTAAATTTCATTGCTGG
AATTATGTGATAAGTTTAATGCTAGAATTACATACTCATTTCACTGATGTAAGTCAATGTTAAGC
TTCAAAGTCTAGTGT
Found at i:33920 original size:25 final size:26
Alignment explanation
Indices: 33876--33924 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
33866 AAGTCAATGT
* *
33876 TAAGTTTCATTGTTGGAATTATGTGA
1 TAAGTTTCAGTGTTGAAATTATGTGA
33902 TAAGTTT-AGTGTTGAAATTATGT
1 TAAGTTTCAGTGTTGAAATTATGT
33925 ATTCATTTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.29, C:0.02, G:0.22, T:0.47
Consensus pattern (26 bp):
TAAGTTTCAGTGTTGAAATTATGTGA
Found at i:33983 original size:362 final size:362
Alignment explanation
Indices: 33313--34026 Score: 1020
Period size: 362 Copynumber: 2.0 Consensus size: 362
33303 GTGAAACCAT
* * * *
33313 AAGTTTAGTGTTGGAATTACGTATTCATTTCACTAGTGTAAGTCAATGTTCAGTTTCACTCATTG
1 AAGTCTAGTGTTGGAATTACGTATTCATTTCACTAGTGTAAGTCAATGTTAAGTTCCACTCATAG
* * *
33378 ACTTATGTGAAAAGTTTAGTGATGGAATTACGATTTCATTTCACTGGTTTAAGTCAATGTTAAGT
66 AATTATGTGAAAAGTTTAGTGATGGAATTACGATTTCATTTCACTGGTATAAGTCAATGTTAAAT
* *
33443 TTCACTACTAGAATTAGGTGATAAATTTAATGCTGGAATTATGTATTCATTTCGCTGGTGTAAGT
131 TTCACTACTAGAATTAGGTGATAAATTTAATGCTGGAATTATGTACTCATTTCACTGGTGTAAGT
* *
33508 CAATGTTAAGTTTCACTGCAAGAATTATGTGATACGCTTAGTGATGGAATTACGTATTCATTTCA
196 CAATGTTAAGTTTCACTGCAAGAATTATGTGATAAGCTTAGTGATGAAATTACGTATTCATTTCA
* * * *
33573 CTGGTGTAAGTCAATGTTAAATTTCATTGCTGGAATTATGTGATAAGTTTAATGCTATAATTACA
261 CTGGTGTAAGTCAATGTTAAATTTCATTACTAGAATTATGTGATAAGTTTAACGCTAGAATTACA
33638 TATTCATTTCACTGATGTAAGTCAATGTTAAGCTTCA
326 TATTCATTTCACTGATGTAAGTCAATGTTAAGCTTCA
**
33675 AAGTCTAGTGTTGGAATTACGTATTCATTTCACT-GATGTAAGTCAATGTTAAGTTCCGTTGC-T
1 AAGTCTAGTGTTGGAATTACGTATTCATTTCACTAG-TGTAAGTCAATGTTAAGTTCCACT-CAT
* * *
33738 AGAATTATGTGATAAGTTTAGTGTTGGAATTACG-TATTCATTTTACTGGTATAAGTCAATGTTA
64 AGAATTATGTGAAAAGTTTAGTGATGGAATTACGAT-TTCATTTCACTGGTATAAGTCAATGTTA
* * * * *
33802 AATTTCATTGCTGGAATTATGTGATAAGTTTAATGCTGGAATTATGTACTCATTTCACTGGTGTA
128 AATTTCACTACTAGAATTAGGTGATAAATTTAATGCTGGAATTATGTACTCATTTCACTGGTGTA
* *** * * *
33867 AGTCAATGTTAAGTTTCATTGTTGGAATTATGTGATAAGTTTAGTGTTGAAATTATGTATTCATT
193 AGTCAATGTTAAGTTTCACTGCAAGAATTATGTGATAAGCTTAGTGATGAAATTACGTATTCATT
** * * * *
33932 TCGTTGGTGTAAGTTAATGTTAAGTTTCATTACTAGAATTATGTGATAAGTTTAGCGCTGGAATT
258 TCACTGGTGTAAGTCAATGTTAAATTTCATTACTAGAATTATGTGATAAGTTTAACGCTAGAATT
* *
33997 ACATATTCATTTTACTGGTGTAAGTCAATG
323 ACATATTCATTTCACTGATGTAAGTCAATG
34027 CTAAATTTCA
Statistics
Matches: 309, Mismatches: 40, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
361 2 0.01
362 306 0.99
363 1 0.00
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (362 bp):
AAGTCTAGTGTTGGAATTACGTATTCATTTCACTAGTGTAAGTCAATGTTAAGTTCCACTCATAG
AATTATGTGAAAAGTTTAGTGATGGAATTACGATTTCATTTCACTGGTATAAGTCAATGTTAAAT
TTCACTACTAGAATTAGGTGATAAATTTAATGCTGGAATTATGTACTCATTTCACTGGTGTAAGT
CAATGTTAAGTTTCACTGCAAGAATTATGTGATAAGCTTAGTGATGAAATTACGTATTCATTTCA
CTGGTGTAAGTCAATGTTAAATTTCATTACTAGAATTATGTGATAAGTTTAACGCTAGAATTACA
TATTCATTTCACTGATGTAAGTCAATGTTAAGCTTCA
Found at i:34535 original size:69 final size:67
Alignment explanation
Indices: 34375--34669 Score: 235
Period size: 69 Copynumber: 4.4 Consensus size: 67
34365 AAGAGCCTTG
* * * * **
34375 AAGGATTAGAGTGACTCGCAAGGGAGCACCTAATCGTGATTATTCTTGGTTACTCGCACGAAAGC
1 AAGGATTAGAGTGACTCGCACGGGAGCACCTAATCGTAATTATTC-GGGTGACTCGCACGGGAG-
34440 CCCT
64 CCCT
* * * * *
34444 AAGGAATAGAGTGAATCACACGGGAGCACCTAATTGTAATTATTTCGGGTGACTTGCACGGGAGC
1 AAGGATTAGAGTGACTCGCACGGGAGCACCTAATCGTAATTA-TTCGGGTGACTCGCACGGGAG-
34509 CCCT
64 CCCT
* * * * * *
34513 AAGGATTAGAGTGACTTGCACGGGAGC-CC-AA-AG-GATTA---GAGTGACTTGCACAGGAGCC
1 AAGGATTAGAGTGACTCGCACGGGAGCACCTAATCGTAATTATTCGGGTGACTCGCACGGGAGCC
*
34571 CA
66 CT
* * * * * *
34573 AAGGATTAGAGTGACTTGCACGTGAGCATCTAACCGTAATTATTTCGGTTGACACGCACGGGAGC
1 AAGGATTAGAGTGACTCGCACGGGAGCACCTAATCGTAATTA-TTCGGGTGACTCGCACGGGAGC
*
34638 TCT
65 CCT
* * *
34641 AAAGGAATAGAGTGACTCACAAGGGAGCA
1 -AAGGATTAGAGTGACTCGCACGGGAGCA
34670 TATTATCGTA
Statistics
Matches: 180, Mismatches: 36, Indels: 20
0.76 0.15 0.08
Matches are distributed among these distances:
60 29 0.16
61 17 0.09
62 2 0.01
63 1 0.01
64 4 0.02
65 4 0.02
66 1 0.01
67 2 0.01
68 17 0.09
69 100 0.56
70 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (67 bp):
AAGGATTAGAGTGACTCGCACGGGAGCACCTAATCGTAATTATTCGGGTGACTCGCACGGGAGCC
CT
Found at i:34549 original size:30 final size:30
Alignment explanation
Indices: 34492--34599 Score: 180
Period size: 30 Copynumber: 3.6 Consensus size: 30
34482 ATTATTTCGG
*
34492 GTGACTTGCACGGGAGCCCCTAAGGATTAGA
1 GTGACTTGCACGGGAG-CCCAAAGGATTAGA
34523 GTGACTTGCACGGGAGCCCAAAGGATTAGA
1 GTGACTTGCACGGGAGCCCAAAGGATTAGA
*
34553 GTGACTTGCACAGGAGCCCAAAGGATTAGA
1 GTGACTTGCACGGGAGCCCAAAGGATTAGA
*
34583 GTGACTTGCACGTGAGC
1 GTGACTTGCACGGGAGC
34600 ATCTAACCGT
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 57 0.78
31 16 0.22
ACGTcount: A:0.28, C:0.21, G:0.32, T:0.19
Consensus pattern (30 bp):
GTGACTTGCACGGGAGCCCAAAGGATTAGA
Found at i:35788 original size:16 final size:16
Alignment explanation
Indices: 35769--35799 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35759 TGTAAATGAT
*
35769 CTGACTTGATATTGAA
1 CTGACATGATATTGAA
35785 CTGACATGATATTGA
1 CTGACATGATATTGA
35800 CTCAACTTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (16 bp):
CTGACATGATATTGAA
Found at i:36318 original size:28 final size:28
Alignment explanation
Indices: 36256--36312 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
36246 TTAAATTTAA
*
36256 TCCAAACCCTATAAATTACATCATAAAC
1 TCCAAATCCTATAAATTACATCATAAAC
* * *
36284 TCCAAATCCTATGAATTATATTATAAAC
1 TCCAAATCCTATAAATTACATCATAAAC
36312 T
1 T
36313 TTAAATTCTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.44, C:0.23, G:0.02, T:0.32
Consensus pattern (28 bp):
TCCAAATCCTATAAATTACATCATAAAC
Found at i:37199 original size:27 final size:27
Alignment explanation
Indices: 37161--37214 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
37151 AACAAAAACA
37161 AGAAATCATCTTGTACAATTTTAAAGT
1 AGAAATCATCTTGTACAATTTTAAAGT
37188 AGAAATCATCTTGTACAATTTTAAAGT
1 AGAAATCATCTTGTACAATTTTAAAGT
37215 TTTGAATGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (27 bp):
AGAAATCATCTTGTACAATTTTAAAGT
Found at i:44276 original size:24 final size:24
Alignment explanation
Indices: 44249--44306 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
44239 TACCTGAGTA
*
44249 GGATTCTGTTCTAATACCTGACCT
1 GGATTCTGTTATAATACCTGACCT
* *
44273 GGATTCTGTTATGATATCTGACCT
1 GGATTCTGTTATAATACCTGACCT
* *
44297 GAATTATGTT
1 GGATTCTGTT
44307 TTGATTTTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.41
Consensus pattern (24 bp):
GGATTCTGTTATAATACCTGACCT
Found at i:44311 original size:24 final size:24
Alignment explanation
Indices: 44266--44311 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
44256 GTTCTAATAC
* *
44266 CTGACCTGGATTCTGTTATGATAT
1 CTGACCTGAATTATGTTATGATAT
*
44290 CTGACCTGAATTATGTTTTGAT
1 CTGACCTGAATTATGTTATGAT
44312 TTTTGATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.43
Consensus pattern (24 bp):
CTGACCTGAATTATGTTATGATAT
Found at i:50035 original size:24 final size:24
Alignment explanation
Indices: 50003--50070 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
49993 TAAATATTAA
* *
50003 AAATCATAATAGAATTCAGAGCAG
1 AAATCATAACAGAATTCAGAACAG
* *
50027 AAATCATAACAGAATTTAGAATAG
1 AAATCATAACAGAATTCAGAACAG
*
50051 AAATCATAACAGAAATCAGA
1 AAATCATAACAGAATTCAGA
50071 TATAGCATTC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.54, C:0.12, G:0.13, T:0.21
Consensus pattern (24 bp):
AAATCATAACAGAATTCAGAACAG
Found at i:50039 original size:12 final size:12
Alignment explanation
Indices: 50003--50068 Score: 60
Period size: 12 Copynumber: 5.5 Consensus size: 12
49993 TAAATATTAA
*
50003 AAATCATAATAG
1 AAATCATAACAG
* * *
50015 AATTCAGAGCAG
1 AAATCATAACAG
50027 AAATCATAACAG
1 AAATCATAACAG
* * * *
50039 AATTTAGAATAG
1 AAATCATAACAG
50051 AAATCATAACAG
1 AAATCATAACAG
50063 AAATCA
1 AAATCA
50069 GATATAGCAT
Statistics
Matches: 39, Mismatches: 15, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
12 39 1.00
ACGTcount: A:0.55, C:0.12, G:0.12, T:0.21
Consensus pattern (12 bp):
AAATCATAACAG
Found at i:53793 original size:24 final size:24
Alignment explanation
Indices: 53760--53847 Score: 126
Period size: 24 Copynumber: 3.7 Consensus size: 24
53750 CATAGATATT
53760 AGAAATCATAACAGAATTTAGAGA
1 AGAAATCATAACAGAATTTAGAGA
* *
53784 AAAAATCATAACAGAA-TTATGAGC
1 AGAAATCATAACAGAATTTA-GAGA
53808 AGAAATCATAACAGAATTTAGA-A
1 AGAAATCATAACAGAATTTAGAGA
53831 TAGAAATCATAACAGAA
1 -AGAAATCATAACAGAA
53848 ATCAGATATA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
23 3 0.05
24 51 0.89
25 3 0.05
ACGTcount: A:0.56, C:0.10, G:0.14, T:0.20
Consensus pattern (24 bp):
AGAAATCATAACAGAATTTAGAGA
Found at i:53822 original size:12 final size:12
Alignment explanation
Indices: 53786--53851 Score: 62
Period size: 12 Copynumber: 5.5 Consensus size: 12
53776 TTTAGAGAAA
53786 AAATCATAACAG
1 AAATCATAACAG
* *
53798 -AATTATGAGCAG
1 AAATCAT-AACAG
53810 AAATCATAACAG
1 AAATCATAACAG
* * * *
53822 AATTTAGAATAG
1 AAATCATAACAG
53834 AAATCATAACAG
1 AAATCATAACAG
53846 AAATCA
1 AAATCA
53852 GATATAGCAT
Statistics
Matches: 40, Mismatches: 12, Indels: 4
0.71 0.21 0.07
Matches are distributed among these distances:
11 5 0.12
12 30 0.75
13 5 0.12
ACGTcount: A:0.55, C:0.12, G:0.12, T:0.21
Consensus pattern (12 bp):
AAATCATAACAG
Found at i:53866 original size:25 final size:24
Alignment explanation
Indices: 53759--53858 Score: 87
Period size: 24 Copynumber: 4.1 Consensus size: 24
53749 ACATAGATAT
* *
53759 TAGAAATCATAACAGAATTTAGAGA
1 TAGAAATCATAACAGAAATCAGA-A
* * *
53784 -AAAAATCATAACAG-AATTATGAG
1 TAGAAATCATAACAGAAATCA-GAA
* * *
53807 CAGAAATCATAACAGAATTTAGAA
1 TAGAAATCATAACAGAAATCAGAA
53831 TAGAAATCATAACAGAAATCAGATA
1 TAGAAATCATAACAGAAATCAGA-A
53856 TAG
1 TAG
53859 CATTCATATG
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
23 4 0.06
24 50 0.81
25 8 0.13
ACGTcount: A:0.54, C:0.10, G:0.14, T:0.22
Consensus pattern (24 bp):
TAGAAATCATAACAGAAATCAGAA
Found at i:66008 original size:21 final size:21
Alignment explanation
Indices: 65950--66008 Score: 84
Period size: 21 Copynumber: 2.8 Consensus size: 21
65940 TGATTTATTA
*
65950 TTATGGA-GTTCAAGTTGGTTG
1 TTATGGATG-TCAAGTTTGTTG
*
65971 TTATGGATTTCAAGTTTGTTG
1 TTATGGATGTCAAGTTTGTTG
65992 TTATGGATGTCAAGTTT
1 TTATGGATGTCAAGTTT
66009 ATTGGATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.20, C:0.05, G:0.27, T:0.47
Consensus pattern (21 bp):
TTATGGATGTCAAGTTTGTTG
Done.