Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000155.1 Hibiscus syriacus cultivar Beakdansim tig00000275_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: 88843
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:3481 original size:32 final size:32
Alignment explanation
Indices: 3445--3510 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
3435 CTTCCTTATC
*
3445 TTAACCATAATTAATTAAATATTGATTAAGTA
1 TTAACCATAATTAATTAAATATTGATTAAATA
*
3477 TTAACCGTAATTAATTAAATATTGATTAAATA
1 TTAACCATAATTAATTAAATATTGATTAAATA
3509 TT
1 TT
3511 GAAAACTATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (32 bp):
TTAACCATAATTAATTAAATATTGATTAAATA
Found at i:4812 original size:68 final size:68
Alignment explanation
Indices: 4703--4949 Score: 431
Period size: 68 Copynumber: 3.6 Consensus size: 68
4693 TAGAAGTTAG
* * *
4703 TTGTGATGCTATTCTATGTTTCTTAGCAATGTGGGATTGTTTTGTTCTCATATTTTCTTTTTAGA
1 TTGTGATGCTCTTCTATGTTTCTTAGCAATGTGAGATTGTTTTGTTCTCATATTTTCTCTTTAGA
4768 CTT
66 CTT
*
4771 TTGTGATGCTCTTCTATGTTTCTTAGCAATGTGGGATTGTTTTGTTCTCATATTTTCTCTTTAGA
1 TTGTGATGCTCTTCTATGTTTCTTAGCAATGTGAGATTGTTTTGTTCTCATATTTTCTCTTTAGA
4836 CTT
66 CTT
*
4839 TTGTGATGCTCTTCTATGTTTCTTAGCCATGTGAGATTGTTTTGTTCTCATATTTTCTCTTTAGA
1 TTGTGATGCTCTTCTATGTTTCTTAGCAATGTGAGATTGTTTTGTTCTCATATTTTCTCTTTAGA
4904 CTT
66 CTT
* *
4907 TTGAGATGCTCTTCTATGTTTCTTAGCCATGTGAGATTGTTTT
1 TTGTGATGCTCTTCTATGTTTCTTAGCAATGTGAGATTGTTTT
4950 AAAAAAAAAA
Statistics
Matches: 174, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 174 1.00
ACGTcount: A:0.15, C:0.14, G:0.18, T:0.53
Consensus pattern (68 bp):
TTGTGATGCTCTTCTATGTTTCTTAGCAATGTGAGATTGTTTTGTTCTCATATTTTCTCTTTAGA
CTT
Found at i:6326 original size:21 final size:21
Alignment explanation
Indices: 6300--6573 Score: 276
Period size: 21 Copynumber: 13.4 Consensus size: 21
6290 TTTCCAAATC
6300 CGTTGCGATAGTCCAAGTTCA
1 CGTTGCGATAGTCCAAGTTCA
*
6321 CGTTGCGATAGTCGAAGTTCA
1 CGTTGCGATAGTCCAAGTTCA
** * *
6342 CGTTGCGATTTTCTAAATT--
1 CGTTGCGATAGTCCAAGTTCA
6361 CGTTGCGATAGTCCAAGTTCA
1 CGTTGCGATAGTCCAAGTTCA
* *
6382 CGTTGCGATAGTCGAAGTTCG
1 CGTTGCGATAGTCCAAGTTCA
** *
6403 CGTTGCGATTTTCCAAATT--
1 CGTTGCGATAGTCCAAGTTCA
6422 CGTTGCGATAGTCCAAGTTCA
1 CGTTGCGATAGTCCAAGTTCA
* *
6443 CGTTGCGATAGTCGAAGTTCG
1 CGTTGCGATAGTCCAAGTTCA
* ** *
6464 CATTGCGATTTTCCAAATT--
1 CGTTGCGATAGTCCAAGTTCA
6483 CGTTGCGATAGTCCAAGTTCA
1 CGTTGCGATAGTCCAAGTTCA
* *
6504 CGTTGCGATAGTCGAAGTTCG
1 CGTTGCGATAGTCCAAGTTCA
* ** *
6525 CATTGCGATTTTCCAAATT--
1 CGTTGCGATAGTCCAAGTTCA
* *
6544 CGTTGCGATAGTCCAAATTCG
1 CGTTGCGATAGTCCAAGTTCA
6565 CGTTGCGAT
1 CGTTGCGAT
6574 TTTCCAAAAT
Statistics
Matches: 206, Mismatches: 39, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
19 62 0.30
21 144 0.70
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (21 bp):
CGTTGCGATAGTCCAAGTTCA
Found at i:6587 original size:61 final size:61
Alignment explanation
Indices: 6285--6573 Score: 515
Period size: 61 Copynumber: 4.7 Consensus size: 61
6275 AATTTGCAAC
* * *
6285 GCGATTTTCCAAATCCGTTGCGATAGTCCAAGTTCACGTTGCGATAGTCGAAGTTCACGTT
1 GCGATTTTCCAAATTCGTTGCGATAGTCCAAGTTCACGTTGCGATAGTCGAAGTTCGCATT
* *
6346 GCGATTTTCTAAATTCGTTGCGATAGTCCAAGTTCACGTTGCGATAGTCGAAGTTCGCGTT
1 GCGATTTTCCAAATTCGTTGCGATAGTCCAAGTTCACGTTGCGATAGTCGAAGTTCGCATT
6407 GCGATTTTCCAAATTCGTTGCGATAGTCCAAGTTCACGTTGCGATAGTCGAAGTTCGCATT
1 GCGATTTTCCAAATTCGTTGCGATAGTCCAAGTTCACGTTGCGATAGTCGAAGTTCGCATT
6468 GCGATTTTCCAAATTCGTTGCGATAGTCCAAGTTCACGTTGCGATAGTCGAAGTTCGCATT
1 GCGATTTTCCAAATTCGTTGCGATAGTCCAAGTTCACGTTGCGATAGTCGAAGTTCGCATT
* *
6529 GCGATTTTCCAAATTCGTTGCGATAGTCCAAATTCGCGTTGCGAT
1 GCGATTTTCCAAATTCGTTGCGATAGTCCAAGTTCACGTTGCGAT
6574 TTTCCAAAAT
Statistics
Matches: 221, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 221 1.00
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.33
Consensus pattern (61 bp):
GCGATTTTCCAAATTCGTTGCGATAGTCCAAGTTCACGTTGCGATAGTCGAAGTTCGCATT
Found at i:6677 original size:6 final size:6
Alignment explanation
Indices: 6666--6701 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
6656 CGAAGACACG
6666 TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC
1 TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC
6702 CACGACCACG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (6 bp):
TATTAC
Found at i:7074 original size:19 final size:19
Alignment explanation
Indices: 7047--7102 Score: 87
Period size: 19 Copynumber: 3.0 Consensus size: 19
7037 ACGTTTTTCA
*
7047 AACTCTCGCAACACATTTT
1 AACTATCGCAACACATTTT
7066 AACTATCGCAACACATTTT
1 AACTATCGCAACACATTTT
*
7085 AACTATCACAACAC-TTTT
1 AACTATCGCAACACATTTT
7103 TTCAAAATCG
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
18 4 0.11
19 31 0.89
ACGTcount: A:0.36, C:0.29, G:0.04, T:0.32
Consensus pattern (19 bp):
AACTATCGCAACACATTTT
Found at i:23231 original size:16 final size:17
Alignment explanation
Indices: 23201--23233 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23191 AAATCGATCC
23201 AAAAAACCGATAACCGA
1 AAAAAACCGATAACCGA
*
23218 AAAAAATCGA-AACCGA
1 AAAAAACCGATAACCGA
23234 TTTAGTGTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.61, C:0.21, G:0.12, T:0.06
Consensus pattern (17 bp):
AAAAAACCGATAACCGA
Found at i:34697 original size:19 final size:19
Alignment explanation
Indices: 34673--34722 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
34663 TCGTTTGCAA
34673 TTTTTTTTGAAATTTTGGT
1 TTTTTTTTGAAATTTTGGT
* ** *
34692 TTTTTTTTTATTTTTTTGT
1 TTTTTTTTGAAATTTTGGT
*
34711 TTTTTTTAGAAA
1 TTTTTTTTGAAA
34723 ACAAATAGCA
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.16, C:0.00, G:0.10, T:0.74
Consensus pattern (19 bp):
TTTTTTTTGAAATTTTGGT
Found at i:43567 original size:29 final size:30
Alignment explanation
Indices: 43531--43599 Score: 115
Period size: 29 Copynumber: 2.4 Consensus size: 30
43521 CATTTTACAG
43531 AAATAGCACCCT-TTTTAAATTAATTACTA
1 AAATAGCACCCTATTTTAAATTAATTACTA
*
43560 AAATAGCA-CCTATTTTGAATTAATTACTA
1 AAATAGCACCCTATTTTAAATTAATTACTA
43589 AAATAGCACCC
1 AAATAGCACCC
43600 GGTCAACGGT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
28 3 0.08
29 32 0.86
30 2 0.05
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.33
Consensus pattern (30 bp):
AAATAGCACCCTATTTTAAATTAATTACTA
Found at i:43629 original size:17 final size:18
Alignment explanation
Indices: 43607--43667 Score: 63
Period size: 17 Copynumber: 3.3 Consensus size: 18
43597 CCCGGTCAAC
43607 GGTCAACGA-TCGGGTCG
1 GGTCAACGAGTCGGGTCG
*
43624 GGTCAACGGTCGAGTCGGGTAG
1 GGTCAA----CGAGTCGGGTCG
43646 GGTCAAC-AGTCGGGTCG
1 GGTCAACGAGTCGGGTCG
43663 GGTCA
1 GGTCA
43668 GTGAACGGGT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
17 20 0.54
18 1 0.03
21 3 0.08
22 13 0.35
ACGTcount: A:0.18, C:0.21, G:0.43, T:0.18
Consensus pattern (18 bp):
GGTCAACGAGTCGGGTCG
Found at i:43648 original size:22 final size:22
Alignment explanation
Indices: 43600--43665 Score: 78
Period size: 22 Copynumber: 2.9 Consensus size: 22
43590 AATAGCACCC
* *
43600 GGTCAACGGTCAACGATCGGGTCG
1 GGTCAACGGTCGA-G-TCGGGTAG
43624 GGTCAACGGTCGAGTCGGGTAG
1 GGTCAACGGTCGAGTCGGGTAG
* *
43646 GGTCAACAGTCGGGTCGGGT
1 GGTCAACGGTCGAGTCGGGT
43666 CAGTGAACGG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
22 25 0.66
23 1 0.03
24 12 0.32
ACGTcount: A:0.18, C:0.21, G:0.42, T:0.18
Consensus pattern (22 bp):
GGTCAACGGTCGAGTCGGGTAG
Found at i:44700 original size:82 final size:82
Alignment explanation
Indices: 44494--45012 Score: 746
Period size: 82 Copynumber: 6.4 Consensus size: 82
44484 TACATCATTG
* *
44494 AAAAGTTGCAGAAGATGATAATACACCACTATTTCACCCGTTTACTGAAAAGTTGTTTAAATTAT
1 AAAAGTTGCAGAAGATGATAATGCACCACTATTTCACCCGTTTTCTGAAAAGTTGTTTAAATTAT
* * * *
44559 GCTTTGAAT-AACTTTG
66 GCATTGAATGACCTCTA
*
44575 AAAAGTTGCAGAAGATGATAATGCACCACTATTTCACCCGTTTTTTGAAAAGTTGTTTAAATTAT
1 AAAAGTTGCAGAAGATGATAATGCACCACTATTTCACCCGTTTTCTGAAAAGTTGTTTAAATTAT
44640 GCATTGAATGACCTCTA
66 GCATTGAATGACCTCTA
* ** *
44657 AAAAGTTGCAGAAAATGATAATGCACCACTATTTCACATGTTTTCTGAAAAGTTGTTTCAATTAT
1 AAAAGTTGCAGAAGATGATAATGCACCACTATTTCACCCGTTTTCTGAAAAGTTGTTTAAATTAT
*
44722 GCATTTAATGACCTCT-
66 GCATTGAATGACCTCTA
* * *
44738 -AAA----CAGAAGATGATACTACACCACTATTTCACCCGTTTTCTAAAAAGTTGTTTAAATTAT
1 AAAAGTTGCAGAAGATGATAATGCACCACTATTTCACCCGTTTTCTGAAAAGTTGTTTAAATTAT
*
44798 GCACTGAATGACCTCTA
66 GCATTGAATGACCTCTA
* * *
44815 AAAAGTTGCAGAAGATGATAATGCACCACTATTTCACTCGTTTTCTAAAAATTTGTTTAAATTAT
1 AAAAGTTGCAGAAGATGATAATGCACCACTATTTCACCCGTTTTCTGAAAAGTTGTTTAAATTAT
* * *
44880 GCATTGAATAAACTCTG
66 GCATTGAATGACCTCTA
** *
44897 AAAAGTTGCTTAAGATGATAATGCACCACTATTTCACCCGTTTTCTGAAAAGTTGTTTAAATTGT
1 AAAAGTTGCAGAAGATGATAATGCACCACTATTTCACCCGTTTTCTGAAAAGTTGTTTAAATTAT
44962 GCATTGAATGACCTCTA
66 GCATTGAATGACCTCTA
* *
44979 AAAAGTTGTAGAAGATGATAATGCACTACTATTT
1 AAAAGTTGCAGAAGATGATAATGCACCACTATTT
45013 TACTTGTAAC
Statistics
Matches: 388, Mismatches: 43, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
76 64 0.16
78 3 0.01
80 3 0.01
81 70 0.18
82 248 0.64
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.34
Consensus pattern (82 bp):
AAAAGTTGCAGAAGATGATAATGCACCACTATTTCACCCGTTTTCTGAAAAGTTGTTTAAATTAT
GCATTGAATGACCTCTA
Found at i:44806 original size:158 final size:157
Alignment explanation
Indices: 44494--45012 Score: 702
Period size: 158 Copynumber: 3.2 Consensus size: 157
44484 TACATCATTG
* * *
44494 AAAAGTTGCAGAAGATGATAATACACCACTATTTCACCCGTTTACTGAAAAGTTGTTTAAATTAT
1 AAAAGTTGCAGAAGATGATAATGCACCACTATTTCA-CTGTTTTCTGAAAAGTTGTTTAAATTAT
* *
44559 GC-TTTGAATAACTTTGAAAAGTTGCAGAAGATGATAATGCACCACTATTTCACCCGTTTTTTGA
65 GCATTT-AATAACTCTG-AAA----CAGAAGATGATAATGCACCACTATTTCACCCGTTTTCTGA
44623 AAAGTTGTTTAAATTATGCATTGAATGACCTCTA
124 AAAGTTGTTTAAATTATGCATTGAATGACCTCTA
* *
44657 AAAAGTTGCAGAAAATGATAATGCACCACTATTTCACATGTTTTCTGAAAAGTTGTTTCAATTAT
1 AAAAGTTGCAGAAGATGATAATGCACCACTATTTCAC-TGTTTTCTGAAAAGTTGTTTAAATTAT
* * * *
44722 GCATTTAATGACCTCT-AAACAGAAGATGATACTACACCACTATTTCACCCGTTTTCTAAAAAGT
65 GCATTTAAT-AACTCTGAAACAGAAGATGATAATGCACCACTATTTCACCCGTTTTCTGAAAAGT
*
44786 TGTTTAAATTATGCACTGAATGACCTCTA
129 TGTTTAAATTATGCATTGAATGACCTCTA
* *
44815 AAAAGTTGCAGAAGATGATAATGCACCACTATTTCACTCGTTTTCTAAAAATTTGTTTAAATTAT
1 AAAAGTTGCAGAAGATGATAATGCACCACTATTTCACT-GTTTTCTGAAAAGTTGTTTAAATTAT
*
44880 GCATTGAATAAACTCTGAAA-AGTTGCTTAAGATGATAATGCACCACTATTTCACCCGTTTTCTG
65 GCATTTAAT-AACTCTGAAACA---G---AAGATGATAATGCACCACTATTTCACCCGTTTTCTG
*
44944 AAAAGTTGTTTAAATTGTGCATTGAATGACCTCTA
123 AAAAGTTGTTTAAATTATGCATTGAATGACCTCTA
* *
44979 AAAAGTTGTAGAAGATGATAATGCACTACTATTT
1 AAAAGTTGCAGAAGATGATAATGCACCACTATTT
45013 TACTTGTAAC
Statistics
Matches: 319, Mismatches: 26, Indels: 21
0.87 0.07 0.06
Matches are distributed among these distances:
157 1 0.00
158 142 0.45
159 3 0.01
161 1 0.00
162 4 0.01
163 63 0.20
164 105 0.33
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.34
Consensus pattern (157 bp):
AAAAGTTGCAGAAGATGATAATGCACCACTATTTCACTGTTTTCTGAAAAGTTGTTTAAATTATG
CATTTAATAACTCTGAAACAGAAGATGATAATGCACCACTATTTCACCCGTTTTCTGAAAAGTTG
TTTAAATTATGCATTGAATGACCTCTA
Found at i:44924 original size:240 final size:239
Alignment explanation
Indices: 44502--44980 Score: 742
Period size: 240 Copynumber: 2.0 Consensus size: 239
44492 TGAAAAGTTG
* **
44502 CAGAAGATGATAATACACCACTATTTCACCCGTTTACTGAAAAGTTGTTTAAATTATGCTTTGAA
1 CAGAAGATGATAATACACCACTATTTCACCCGTTTACTAAAAAGTTGTTTAAATTATGCACTGAA
* * * *
44567 TAACTTTGAAAAGTTGCAGAAGATGATAATGCACCACTATTTCACCCGTTTTTTGAAAAGTTGTT
66 TAACTCTAAAAAGTTGCAGAAGATGATAATGCACCACTATTTCACCCGTTTTCTAAAAAGTTGTT
* * *
44632 TAAATTATGCATTGAATGACCTCTAAAAAGTTGCAGAAAATGATAATGCACCACTATTTCACATG
131 TAAATTATGCATTGAATAAACTCTAAAAAGTTGCAGAAAATGATAATGCACCACTATTTCACACG
* *
44697 TTTTCTGAAAAGTTGTTTCAATTATGCATTTAATGACCTCTAAA
196 TTTTCTGAAAAGTTGTTTAAATTATGCATTGAATGACCTCTAAA
* *
44741 CAGAAGATGATACTACACCACTATTTCACCCGTTTTCTAAAAAGTTGTTTAAATTATGCACTGAA
1 CAGAAGATGATAATACACCACTATTTCACCCGTTTACTAAAAAGTTGTTTAAATTATGCACTGAA
* * *
44806 TGACCTCTAAAAAGTTGCAGAAGATGATAATGCACCACTATTTCACTCGTTTTCTAAAAATTTGT
66 T-AACTCTAAAAAGTTGCAGAAGATGATAATGCACCACTATTTCACCCGTTTTCTAAAAAGTTGT
* ** * *
44871 TTAAATTATGCATTGAATAAACTCTGAAAAGTTGCTTAAGATGATAATGCACCACTATTTCACCC
130 TTAAATTATGCATTGAATAAACTCTAAAAAGTTGCAGAAAATGATAATGCACCACTATTTCACAC
*
44936 GTTTTCTGAAAAGTTGTTTAAATTGTGCATTGAATGACCTCTAAA
195 GTTTTCTGAAAAGTTGTTTAAATTATGCATTGAATGACCTCTAAA
44981 AAGTTGTAGA
Statistics
Matches: 216, Mismatches: 23, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
239 61 0.28
240 155 0.72
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (239 bp):
CAGAAGATGATAATACACCACTATTTCACCCGTTTACTAAAAAGTTGTTTAAATTATGCACTGAA
TAACTCTAAAAAGTTGCAGAAGATGATAATGCACCACTATTTCACCCGTTTTCTAAAAAGTTGTT
TAAATTATGCATTGAATAAACTCTAAAAAGTTGCAGAAAATGATAATGCACCACTATTTCACACG
TTTTCTGAAAAGTTGTTTAAATTATGCATTGAATGACCTCTAAA
Found at i:45852 original size:64 final size:64
Alignment explanation
Indices: 45784--45957 Score: 194
Period size: 64 Copynumber: 2.7 Consensus size: 64
45774 TTGTTTGAAT
* * **
45784 GTGCACCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAGACATCGAATGCAATT
1 GTGCATCGATGCATAGGTAGTGCATCGATGCATC-CCATTAATAATAAA-ACATCGAATGCAA-T
45847 C-
63 CG
* * *
45848 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTGAAACATCGAATGCAATCG
1 GTGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATCG
* **
45912 GTGCATCGATGCATAAGG-AGTGCATCAATGCATCCCAGCAATAATA
1 GTGCATCGATGCAT-AGGTAGTGCATCGATGCATCCCATTAATAATA
45958 TTGATATAGA
Statistics
Matches: 93, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
63 2 0.02
64 84 0.90
65 7 0.08
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (64 bp):
GTGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATCG
Found at i:46432 original size:31 final size:31
Alignment explanation
Indices: 46393--46738 Score: 584
Period size: 31 Copynumber: 11.2 Consensus size: 31
46383 AGAGTCGAGG
*
46393 GTTTACATATGTTTAAAGGCATATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
46424 TTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
46455 GTTTATATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
* *
46486 ATTTACGTATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
46517 ATTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
* *
46548 GTTTACAAATGTTTAAAGGTACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
46579 GTTTACAAATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
46610 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
46641 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
* *
46672 TTTTATATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
46703 GTTTACATATGTTTAAAGGCATATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
46734 GTTTA
1 GTTTA
46739 TATTGTGACC
Statistics
Matches: 297, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 297 1.00
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.34
Consensus pattern (31 bp):
GTTTACATATGTTTAAAGGCACATATGAACA
Found at i:46635 original size:16 final size:16
Alignment explanation
Indices: 46614--46667 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
46604 TGAACAGTTT
46614 ACATATGTTTAAAGGC
1 ACATATGTTTAAAGGC
**
46630 ACATATG---AACAGTTT
1 ACATATGTTTAA-AG-GC
46645 ACATATGTTTAAAGGC
1 ACATATGTTTAAAGGC
46661 ACATATG
1 ACATATG
46668 AACATTTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 10
0.67 0.09 0.23
Matches are distributed among these distances:
13 2 0.07
14 2 0.07
15 7 0.24
16 14 0.48
17 2 0.07
18 2 0.07
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (16 bp):
ACATATGTTTAAAGGC
Found at i:51113 original size:16 final size:16
Alignment explanation
Indices: 51092--51124 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
51082 ATTATTAATT
51092 ATTT-AATAATAAAATA
1 ATTTAAATAA-AAAATA
51108 ATTTAAATAAAAAATA
1 ATTTAAATAAAAAATA
51124 A
1 A
51125 AAAATTAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTTAAATAAAAAATA
Found at i:60525 original size:23 final size:23
Alignment explanation
Indices: 60499--60546 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
60489 ATAAAGTACA
*
60499 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
60522 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
60545 AT
1 AT
60547 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:60909 original size:20 final size:20
Alignment explanation
Indices: 60884--60922 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
60874 TCCACAGTGA
* *
60884 AAAAAGTATGGACACTTTAT
1 AAAAAGGATAGACACTTTAT
60904 AAAAAGGATAGACACTTTA
1 AAAAAGGATAGACACTTTA
60923 CAATATAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (20 bp):
AAAAAGGATAGACACTTTAT
Found at i:60950 original size:21 final size:20
Alignment explanation
Indices: 60920--60973 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
60910 GATAGACACT
*
60920 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
60941 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
60964 TTACATTATA
1 TTACATTATA
60974 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:60961 original size:23 final size:23
Alignment explanation
Indices: 60935--60997 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
60925 ATATAACCAT
60935 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
60958 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
60981 TACCTATTACATCATAT
1 TACCTATTACATTATAT
60998 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:61380 original size:21 final size:20
Alignment explanation
Indices: 61350--61403 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
61340 GATAGACACT
*
61350 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
61371 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
61394 TTACATTATA
1 TTACATTATA
61404 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:61391 original size:23 final size:23
Alignment explanation
Indices: 61365--61422 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
61355 ATATAACCAT
61365 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
61388 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
61411 TACCTATTACAT
1 TACCTATTACAT
61423 CTTATGTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.38, C:0.19, G:0.07, T:0.36
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:64231 original size:184 final size:184
Alignment explanation
Indices: 63913--64958 Score: 1932
Period size: 184 Copynumber: 5.7 Consensus size: 184
63903 TTTTAAATGG
**
63913 TATGGACAT-AAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTTA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
63977 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
* * *
64042 GATGTGTAAAATGCCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTATATCGACACAATTTTCTTCCAA
64096 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
64161 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
64226 GATGTGTAAAATGTCGACACTTTTTTAAATTATATCGACACAATTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTATATCGACACAATTTTCTTCCAA
64280 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
64345 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
64410 GATGTGTAAAATGTCGACACTTTTTTAAATTATATCGACACAATTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTATATCGACACAATTTTCTTCCAA
64464 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
64529 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
64594 GATGTGTAAAATGTCGACACTTTTTTAAATTATATCGACACAATTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTATATCGACACAATTTTCTTCCAA
64648 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
64713 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
* *
64778 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTATATCGACACAATTTTCTTCCAA
64832 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGGTTGTAGACCTAT
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCG--ATA-----TAGGTTGTAGACCTAT
**
64897 TCGCGCATAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTTTATTATAAT
59 TCGCGCATAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
64959 ATGTTGAAAG
Statistics
Matches: 845, Mismatches: 10, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
183 9 0.01
184 757 0.90
186 3 0.00
191 76 0.09
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (184 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
GATGTGTAAAATGTCGACACTTTTTTAAATTATATCGACACAATTTTCTTCCAA
Found at i:66331 original size:3 final size:3
Alignment explanation
Indices: 66323--66373 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
66313 ACTTGTTTGG
* * * *
66323 ATC ATC ATC TTC ATC ATC ATC GTC ATC ATC ATC ATC ATC GTC ATC TTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
66371 ATC
1 ATC
66374 GTCAGCTTCA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.25, C:0.33, G:0.04, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:66340 original size:12 final size:12
Alignment explanation
Indices: 66323--66385 Score: 81
Period size: 12 Copynumber: 5.2 Consensus size: 12
66313 ACTTGTTTGG
66323 ATCATCATCTTC
1 ATCATCATCTTC
*
66335 ATCATCATCGTC
1 ATCATCATCTTC
*
66347 ATCATCATCATC
1 ATCATCATCTTC
*
66359 ATCGTCATCTTC
1 ATCATCATCTTC
* *
66371 ATCGTCAGCTTC
1 ATCATCATCTTC
66383 ATC
1 ATC
66386 TTCTGCGACC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 46 1.00
ACGTcount: A:0.24, C:0.33, G:0.06, T:0.37
Consensus pattern (12 bp):
ATCATCATCTTC
Found at i:66384 original size:18 final size:18
Alignment explanation
Indices: 66327--66388 Score: 88
Period size: 18 Copynumber: 3.4 Consensus size: 18
66317 GTTTGGATCA
66327 TCATCTTCATCATCATCG
1 TCATCTTCATCATCATCG
*
66345 TCATCATCATCATCATCG
1 TCATCTTCATCATCATCG
* * *
66363 TCATCTTCATCGTCAGCT
1 TCATCTTCATCATCATCG
66381 TCATCTTC
1 TCATCTTC
66389 TGCGACCGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.21, C:0.34, G:0.06, T:0.39
Consensus pattern (18 bp):
TCATCTTCATCATCATCG
Found at i:66388 original size:6 final size:6
Alignment explanation
Indices: 66327--66388 Score: 61
Period size: 6 Copynumber: 10.3 Consensus size: 6
66317 GTTTGGATCA
* * * * * *
66327 TCATCT TCATCA TCATCG TCATCA TCATCA TCATCG TCATCT TCATCG
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
*
66375 TCAGCT TCATCT TC
1 TCATCT TCATCT TC
66389 TGCGACCGAT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.21, C:0.34, G:0.06, T:0.39
Consensus pattern (6 bp):
TCATCT
Found at i:68335 original size:198 final size:200
Alignment explanation
Indices: 67850--68672 Score: 1451
Period size: 199 Copynumber: 4.1 Consensus size: 200
67840 TTTAAATTAG
* *
67850 TATCGACACAAA-TATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATT
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
67914 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *** *
67979 CGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTAAAAATTCATTCTGGAAA
68043 AAAAA
196 AAAAA
68048 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
68113 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
68178 CGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TAAAAATTCATTCTGGAAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTAAAAATTCATTCTGGAAA
68241 AAAAA
196 AAAAA
68246 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
68311 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *** *
68376 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTAAAAATTCATTCTGGAAA
68441 AAAAA
196 AAAAA
68446 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
68511 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTT-GGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
68575 CGACACTTTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TAAAAATTCATTCTGGAAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTAAAAATTCATTCTGGAAA
68639 AAAAA
196 AAAAA
*
68644 TATCGACACAAACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
68673 TGACCCTTAA
Statistics
Matches: 600, Mismatches: 22, Indels: 6
0.96 0.04 0.01
Matches are distributed among these distances:
198 215 0.36
199 255 0.43
200 130 0.22
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (200 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTAAAAATTCATTCTGGAAA
AAAAA
Found at i:68783 original size:19 final size:19
Alignment explanation
Indices: 68761--68816 Score: 103
Period size: 19 Copynumber: 2.9 Consensus size: 19
68751 TAAAAAAATA
68761 AAATCGTATACAAAATTAT
1 AAATCGTATACAAAATTAT
68780 AAATCGTATACAAAATTAT
1 AAATCGTATACAAAATTAT
*
68799 AAATCTTATACAAAATTA
1 AAATCGTATACAAAATTA
68817 ACTCGACATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.54, C:0.11, G:0.04, T:0.32
Consensus pattern (19 bp):
AAATCGTATACAAAATTAT
Found at i:70636 original size:33 final size:33
Alignment explanation
Indices: 70598--70663 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
70588 ACCATCTTAA
*
70598 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
***
70631 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
70664 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCGAAACTTCTTTCACCACT
Found at i:72999 original size:20 final size:19
Alignment explanation
Indices: 72953--72999 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
72943 TCCGGTATCA
*
72953 TTTTACCGTTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
72972 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
72993 TTTTACC
1 TTTTACC
73000 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.19, C:0.17, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:73147 original size:20 final size:20
Alignment explanation
Indices: 73120--73166 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
73110 ACACTTTTAA
73120 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
73139 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
73160 TTTTACC
1 TTTTACC
73167 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:73639 original size:223 final size:223
Alignment explanation
Indices: 73229--73670 Score: 762
Period size: 223 Copynumber: 2.0 Consensus size: 223
73219 TTAAAACTGC
*
73229 TTTTAAAGTTATGTAATTTATTTTCAATTTATTTAATAGTGTTTTATGTTTTCCACCTACAATAT
1 TTTTAAAGTTATGTAATTTATTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATAT
**
73294 TAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTATAAAATATTATTT
66 TAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTATAAAATATTATTT
* *
73359 AGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATGTTTTCAACAGTGAAATAAGT
131 AGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCAACAGTGAAATAAGT
*
73424 ATGGACACTTTTATAAAAATGATATACT
196 ATGGACACTTTTATAAAAAGGATATACT
*
73452 TTTTGAAAGTTATGTAATTTA-TTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATA
1 TTTT-AAAGTTATGTAATTTATTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
*
73516 TTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTAT
65 TTAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATA-TTTATAAAATATTAT
* *
73581 TTAGATTTTAAATTTAACAATATTAACTAAAGATAATAATAAATATATTTTC-ACAGTGAAATAA
129 TTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCAACAGTGAAATAA
73645 GTATGGACACTTTTATAAAAAGGATA
194 GTATGGACACTTTTATAAAAAGGATA
73671 GATAATTTAC
Statistics
Matches: 207, Mismatches: 10, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
223 128 0.62
224 79 0.38
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (223 bp):
TTTTAAAGTTATGTAATTTATTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATAT
TAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTATAAAATATTATTT
AGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCAACAGTGAAATAAGT
ATGGACACTTTTATAAAAAGGATATACT
Found at i:76905 original size:15 final size:15
Alignment explanation
Indices: 76885--76916 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
76875 TGGAGGTGGG
*
76885 GATGGAGGTGATGAT
1 GATGGAGATGATGAT
76900 GATGGAGATGATGAT
1 GATGGAGATGATGAT
76915 GA
1 GA
76917 CTATTTTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.44, T:0.25
Consensus pattern (15 bp):
GATGGAGATGATGAT
Found at i:80184 original size:20 final size:20
Alignment explanation
Indices: 80161--80209 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
80151 GAGAAGAAAG
* *
80161 AAATTATAATGAATTATAAT
1 AAATTATAATGAAGTAAAAT
* *
80181 AAATAATAATTAAGTAAAAT
1 AAATTATAATGAAGTAAAAT
*
80201 AAAATATAA
1 AAATTATAA
80210 AATTAGAGGA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (20 bp):
AAATTATAATGAAGTAAAAT
Found at i:85129 original size:2 final size:2
Alignment explanation
Indices: 85124--85151 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
85114 ATTTATTTTC
85124 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
85152 TATCTATAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:88707 original size:21 final size:21
Alignment explanation
Indices: 88663--88707 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
88653 GATTTCTGGG
*
88663 CAAGGGGAATCGATACCCATT
1 CAAGGGGAATCGATACCCACT
*
88684 CAAGGGGAA-CAGATACCCCCT
1 CAAGGGGAATC-GATACCCACT
88705 CAA
1 CAA
88708 ACGAACCAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.36, C:0.29, G:0.22, T:0.13
Consensus pattern (21 bp):
CAAGGGGAATCGATACCCACT
Done.