Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000766.1 Hibiscus syriacus cultivar Beakdansim tig00001488_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: 67300
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34
Found at i:196 original size:25 final size:25
Alignment explanation
Indices: 166--244 Score: 95
Period size: 26 Copynumber: 3.1 Consensus size: 25
156 ACTTCACCTA
166 TTTTTTAAAATAACCTATTATTATTG
1 TTTTTT-AAATAACCTATTATTATTG
* *
192 TTTTTTTATTAACCTATTATTATTG
1 TTTTTTAAATAACCTATTATTATTG
** *
217 CTTTTTTATCTAACCTATTATCATTG
1 -TTTTTTAAATAACCTATTATTATTG
243 TT
1 TT
245 GAATGAATAG
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
25 19 0.41
26 27 0.59
ACGTcount: A:0.27, C:0.11, G:0.04, T:0.58
Consensus pattern (25 bp):
TTTTTTAAATAACCTATTATTATTG
Found at i:1246 original size:16 final size:16
Alignment explanation
Indices: 1225--1257 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1215 TACATATGAA
*
1225 TAAAATATTAATTTAT
1 TAAAATATAAATTTAT
1241 TAAAATATAAATTTAT
1 TAAAATATAAATTTAT
1257 T
1 T
1258 TGGTGCATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TAAAATATAAATTTAT
Found at i:1541 original size:24 final size:25
Alignment explanation
Indices: 1514--1570 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 25
1504 AATTATTAAA
1514 ATAATATTTTATTT-TAAAATTATT
1 ATAATATTTTATTTATAAAATTATT
* *
1538 ATAATAATTTATTTAATAATATTATT
1 ATAATATTTTATTT-ATAAAATTATT
1564 A-AATATT
1 ATAATATT
1571 ATATCTACAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 13 0.46
25 5 0.18
26 10 0.36
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
ATAATATTTTATTTATAAAATTATT
Found at i:1670 original size:20 final size:20
Alignment explanation
Indices: 1622--1676 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
1612 TTTTATTAGA
1622 ATAAATA-TATTTA-AAAAT
1 ATAAATATTATTTATAAAAT
*
1640 -TATATTAATTATTTATAAAAT
1 ATA-AAT-ATTATTTATAAAAT
1661 ATAAATATTATATTAT
1 ATAAATATTAT-TTAT
1677 CAATTATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
17 2 0.07
18 2 0.07
19 1 0.03
20 11 0.38
21 11 0.38
22 2 0.07
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATAAATATTATTTATAAAAT
Found at i:1689 original size:20 final size:20
Alignment explanation
Indices: 1636--1695 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
1626 ATATATTTAA
1636 AAATTATATTAATTAT-TTAT
1 AAATTATATT-ATTATATTAT
* *
1656 AAAATATAAATATTATATTAT
1 AAATTAT-ATTATTATATTAT
* *
1677 CAATTATATTATTTTATTA
1 AAATTATATTATTATATTA
1696 AATTAAAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
20 21 0.66
21 11 0.34
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
AAATTATATTATTATATTAT
Found at i:1710 original size:17 final size:17
Alignment explanation
Indices: 1690--1743 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
1680 TTATATTATT
1690 TTATTAAATTAAAAATA
1 TTATTAAATTAAAAATA
1707 TTATTATAATATTAAAAATA
1 TTA-T-TAA-ATTAAAAATA
* * *
1727 ATGTTAAAATAAAAATA
1 TTATTAAATTAAAAATA
1744 CTGTATTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 12 0.39
18 4 0.13
19 4 0.13
20 11 0.35
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (17 bp):
TTATTAAATTAAAAATA
Found at i:1713 original size:20 final size:19
Alignment explanation
Indices: 1686--1726 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
1676 TCAATTATAT
1686 TATTTTATTAA-ATTAAAAA
1 TATTTTA-TAATATTAAAAA
1705 TATTATTATAATATTAAAAA
1 TATT-TTATAATATTAAAAA
1725 TA
1 TA
1727 ATGTTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TATTTTATAATATTAAAAA
Found at i:1737 original size:20 final size:20
Alignment explanation
Indices: 1697--1737 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1687 ATTTTATTAA
* *
1697 ATTAAAAATATTATTATAAT
1 ATTAAAAATAATATTAAAAT
*
1717 ATTAAAAATAATGTTAAAAT
1 ATTAAAAATAATATTAAAAT
1737 A
1 A
1738 AAAATACTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
ATTAAAAATAATATTAAAAT
Found at i:8036 original size:2 final size:2
Alignment explanation
Indices: 8029--8057 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8019 GTGAAACTAA
8029 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8058 CATTAGGTGT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13758 original size:22 final size:22
Alignment explanation
Indices: 13733--13866 Score: 241
Period size: 22 Copynumber: 6.1 Consensus size: 22
13723 GGTATTTAAC
*
13733 AATTAAAGAGAGAGAAATGAGT
1 AATTAGAGAGAGAGAAATGAGT
*
13755 AATTAGAGAGAGAGAAATAAGT
1 AATTAGAGAGAGAGAAATGAGT
13777 AATTAGAGAGAGAGAAATGAGT
1 AATTAGAGAGAGAGAAATGAGT
*
13799 AATTAGATAGAGAGAAATGAGT
1 AATTAGAGAGAGAGAAATGAGT
13821 AATTAGAGAGAGAGAAATGAGT
1 AATTAGAGAGAGAGAAATGAGT
13843 AATTAGAGAGAGAGAAATGAGT
1 AATTAGAGAGAGAGAAATGAGT
13865 AA
1 AA
13867 CAAGTAAATT
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 107 1.00
ACGTcount: A:0.52, C:0.00, G:0.29, T:0.19
Consensus pattern (22 bp):
AATTAGAGAGAGAGAAATGAGT
Found at i:15311 original size:13 final size:12
Alignment explanation
Indices: 15287--15346 Score: 57
Period size: 13 Copynumber: 4.6 Consensus size: 12
15277 AAGGTTAGTA
15287 AAAATAAATAAAT
1 AAAAT-AATAAAT
*
15300 AATAATAATAAACA
1 AA-AATAATAAA-T
*
15314 AAAATAATACAAG
1 AAAATAATA-AAT
15327 AAAATAATAAAAT
1 AAAATAAT-AAAT
15340 AAAATAA
1 AAAATAA
15347 AATGAATAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
13 32 0.80
14 8 0.20
ACGTcount: A:0.75, C:0.03, G:0.02, T:0.20
Consensus pattern (12 bp):
AAAATAATAAAT
Found at i:15332 original size:26 final size:25
Alignment explanation
Indices: 15286--15363 Score: 72
Period size: 26 Copynumber: 3.1 Consensus size: 25
15276 AAAGGTTAGT
*
15286 AAAAATAAATAAATAATAATAATAAA
1 AAAAAT-AATAAAGAATAATAATAAA
15312 CAAAAATAATACAAGAA-AATAATAAA
1 -AAAAATAATA-AAGAATAATAATAAA
* *
15338 ATAAAATAA-AATGAATAA-AACAAA
1 A-AAAATAATAAAGAATAATAATAAA
15362 AA
1 AA
15364 GTAAAGGGTT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
23 1 0.02
24 10 0.22
25 4 0.09
26 20 0.44
27 10 0.22
ACGTcount: A:0.76, C:0.04, G:0.03, T:0.18
Consensus pattern (25 bp):
AAAAATAATAAAGAATAATAATAAA
Found at i:15356 original size:19 final size:18
Alignment explanation
Indices: 15327--15362 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
15317 ATAATACAAG
*
15327 AAAATAATAAAATAAAAT
1 AAAATAATAAAACAAAAT
15345 AAAATGAATAAAACAAAA
1 AAAAT-AATAAAACAAAA
15363 AGTAAAGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (18 bp):
AAAATAATAAAACAAAAT
Found at i:16655 original size:23 final size:24
Alignment explanation
Indices: 16629--16673 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
16619 ATATATTATA
*
16629 TATAAAAAATAT-TTTTCAAAACC
1 TATAAAAAATATAATTTCAAAACC
* *
16652 TATATAATATATAATTTCAAAA
1 TATAAAAAATATAATTTCAAAA
16674 ATATTTTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 10 0.56
24 8 0.44
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (24 bp):
TATAAAAAATATAATTTCAAAACC
Found at i:16710 original size:36 final size:35
Alignment explanation
Indices: 16606--16728 Score: 113
Period size: 37 Copynumber: 3.3 Consensus size: 35
16596 GAAAAGGGAA
*
16606 AAAATTAATAATAATATATTATATATAAAAAATATTTTTC
1 AAAATT-AT-ATAATATA-TA-ATTTAAAAAATA-TTTTC
* *
16646 AAAACCTATATAATATATAATTTCAAAAATATTTT-
1 AAAA-TTATATAATATATAATTTAAAAAATATTTTC
* * *
16681 AAAATTATATATTATATACTTTTTAAAAAATGTTTTC
1 AAAATTATATAATATATA--ATTTAAAAAATATTTTC
16718 AAAATTATATA
1 AAAATTATATA
16729 GTTTTCAAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
34 12 0.17
35 4 0.06
36 17 0.24
37 21 0.30
38 2 0.03
39 8 0.11
40 6 0.08
41 1 0.01
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (35 bp):
AAAATTATATAATATATAATTTAAAAAATATTTTC
Found at i:16738 original size:29 final size:32
Alignment explanation
Indices: 16691--16759 Score: 90
Period size: 30 Copynumber: 2.2 Consensus size: 32
16681 AAAATTATAT
* *
16691 ATTATATACTTTTTAAAAAATG-TTTT-CAAA
1 ATTATATACGTTTTAAAAAATGTTTTTAAAAA
*
16721 ATTATATA-GTTTTCAAAAATGTTTTTAAAAA
1 ATTATATACGTTTTAAAAAATGTTTTTAAAAA
16752 ATTATATA
1 ATTATATA
16760 TTATATATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 11 0.32
30 12 0.35
31 11 0.32
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.46
Consensus pattern (32 bp):
ATTATATACGTTTTAAAAAATGTTTTTAAAAA
Found at i:16839 original size:36 final size:36
Alignment explanation
Indices: 16798--17040 Score: 202
Period size: 36 Copynumber: 6.9 Consensus size: 36
16788 TATATAATAT
*
16798 ATGTTTTTAAAACTATATATTATATATACTTTCAAA
1 ATGTTTTAAAAACTATATATTATATATACTTTCAAA
* **
16834 ATGTTTTAAAAACTATATAATATATAAATGTTTTCAAAA
1 ATGTTTTAAAAACTATAT-AT-TATATATACTTTC-AAA
* *
16873 ATGTTTT----A-TATA-A-TATATGT--TTTTAAA
1 ATGTTTTAAAAACTATATATTATATATACTTTCAAA
16900 ATGTTTTAAAAACTATATATTATATATACTTTCAAA
1 ATGTTTTAAAAACTATATATTATATATACTTTCAAA
* **
16936 ATGTTTTAAAAACTATATAATATATAAATGTTTTCAAA
1 ATGTTTTAAAAACTATAT-AT-TATATATACTTTCAAA
* * * * * * *
16974 ATATTTTTCAAAACCATATACTATATAGATTTTAAAA
1 AT-GTTTTAAAAACTATATATTATATATACTTTCAAA
17011 ATGTTTTCAAAAACTATATA--ATATATACTT
1 ATGTTTT-AAAAACTATATATTATATATACTT
17041 ATTTTCGAAA
Statistics
Matches: 166, Mismatches: 25, Indels: 33
0.74 0.11 0.15
Matches are distributed among these distances:
27 10 0.06
28 3 0.02
30 5 0.03
31 1 0.01
32 5 0.03
33 1 0.01
34 10 0.06
35 9 0.05
36 45 0.27
37 28 0.17
38 26 0.16
39 23 0.14
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (36 bp):
ATGTTTTAAAAACTATATATTATATATACTTTCAAA
Found at i:16883 original size:27 final size:27
Alignment explanation
Indices: 16832--16907 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
16822 TATACTTTCA
* * *
16832 AAATGTTTTAAAAACTATATAATAT-AT
1 AAATGTTTTAAAAA-TGTTTTATATAAT
16859 AAATGTTTTCAAAAATGTTTTATATAAT
1 AAATGTTTT-AAAAATGTTTTATATAAT
* *
16887 ATATGTTTTTAAAATGTTTTA
1 AAATGTTTTAAAAATGTTTTA
16908 AAAACTATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
27 27 0.64
28 15 0.36
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (27 bp):
AAATGTTTTAAAAATGTTTTATATAAT
Found at i:16916 original size:27 final size:28
Alignment explanation
Indices: 16861--16917 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
16851 TAATATATAA
*
16861 ATGTTTTCAAAAATGTTTTATATAATAT
1 ATGTTTTCAAAAATGTTTTATAAAATAT
*
16889 ATGTTTT-TAAAATGTTTTA-AAAACTAT
1 ATGTTTTCAAAAATGTTTTATAAAA-TAT
16916 AT
1 AT
16918 ATTATATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 3 0.12
27 16 0.62
28 7 0.27
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (28 bp):
ATGTTTTCAAAAATGTTTTATAAAATAT
Found at i:16926 original size:75 final size:75
Alignment explanation
Indices: 16847--17037 Score: 208
Period size: 75 Copynumber: 2.5 Consensus size: 75
16837 TTTTAAAAAC
* * * * * *
16847 TATATAATATATAAATGTTTTCAAAAA-TGTTTTATATAATATATGTTTTTAAAAT-GTTTTAAA
1 TATATAATTTA-AAATGTTTTCAAAAACTATATAATAT-ATAAATGTTTTCAAAATAGTTTTAAA
* *
16910 AACTATATATTA
64 AACCATATACTA
* * *
16922 TATATACTTTCAAAATGTTTT-AAAAACTATATAATATATAAATGTTTTCAAAATATTTTTCAAA
1 TATATAATTT-AAAATGTTTTCAAAAACTATATAATATATAAATGTTTTCAAAATAGTTTTAAAA
16986 ACCATATACTA
65 ACCATATACTA
* *
16997 TATAGATTTTAAAAATGTTTTCAAAAACTATATAATATATA
1 TATATAATTT-AAAATGTTTTCAAAAACTATATAATATATA
17038 CTTATTTTCG
Statistics
Matches: 98, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
74 20 0.20
75 58 0.59
76 20 0.20
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (75 bp):
TATATAATTTAAAATGTTTTCAAAAACTATATAATATATAAATGTTTTCAAAATAGTTTTAAAAA
CCATATACTA
Found at i:16993 original size:39 final size:38
Alignment explanation
Indices: 16879--17060 Score: 130
Period size: 36 Copynumber: 4.9 Consensus size: 38
16869 AAAAATGTTT
* * *
16879 TATATAATATAT--GTTTTT-AAAAT-GTTTTAAAAAC
1 TATATAATATATAAATTTTTCAAAATATTTTTCAAAAC
* * * * *
16913 TATATATTATATATA-CTTTCAAAAT-GTTTTAAAAAC
1 TATATAATATATAAATTTTTCAAAATATTTTTCAAAAC
16949 TATATAATATATAAATGTTTTCAAAATATTTTTCAAAAC
1 TATATAATATATAAAT-TTTTCAAAATATTTTTCAAAAC
* * *
16988 CATATACTATATAGA-TTTT-AAAA-ATGTTTTCAAAAAC
1 TATATAATATATAAATTTTTCAAAATAT-TTTTC-AAAAC
**
17025 TATATAATATATACTTATTTTCGAAAATCATTTTTC
1 TATATAATATATAAAT-TTTTC-AAAAT-ATTTTTC
17061 CGAAAATTAT
Statistics
Matches: 119, Mismatches: 15, Indels: 20
0.77 0.10 0.13
Matches are distributed among these distances:
34 11 0.09
35 5 0.04
36 38 0.32
37 20 0.17
38 9 0.08
39 25 0.21
41 4 0.03
42 5 0.04
43 2 0.02
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (38 bp):
TATATAATATATAAATTTTTCAAAATATTTTTCAAAAC
Found at i:17082 original size:76 final size:74
Alignment explanation
Indices: 16903--17060 Score: 199
Period size: 75 Copynumber: 2.1 Consensus size: 74
16893 TTTTAAAATG
* * * * *
16903 TTTTAAAAACTATATATTATATATACTTTCAAAATGTTTTAAAAACTATATAATATATAAATGTT
1 TTTTCAAAAC-ATATACTATATATATTTTAAAAATGTTTTAAAAACTATATAATATATAAATATT
16968 TTCAAAATAT
65 TTCAAAATAT
* **
16978 TTTTCAAAACCATATACTATATAGATTTTAAAAATGTTTTCAAAAACTATATAATATATACTTAT
1 TTTTCAAAA-CATATACTATATATATTTTAAAAATGTTTT-AAAAACTATATAATATATAAATAT
17043 TTTCGAAAATCAT
64 TTTC-AAAAT-AT
17056 TTTTC
1 TTTTC
17061 CGAAAATTAT
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
75 33 0.46
76 26 0.37
77 5 0.07
78 7 0.10
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (74 bp):
TTTTCAAAACATATACTATATATATTTTAAAAATGTTTTAAAAACTATATAATATATAAATATTT
TCAAAATAT
Found at i:17990 original size:84 final size:83
Alignment explanation
Indices: 17757--18677 Score: 695
Period size: 84 Copynumber: 11.2 Consensus size: 83
17747 GCCTTGGGCT
* * * * * ** **
17757 TGCTGTAAATGATGTGCCTTGCAGCTGAGTGTAGTCAAACTCGAAGGTCCTTTGGAGATAGATAA
1 TGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT-CTTTGTTGGCAGATAA
* *
17822 CCCTTCTAGCCTTGAGTTA
65 CCCTTCTAGACTTAAGTTA
** * * * * * * * * * ** * *
17841 TATTGTAAATGATGTACCCTCGAAGTTGAGTGTAATTGAACTCGGGGGTC--T-TTGGCAGCTAG
1 TGCTGCAAATGATAT-GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAA
* * *
17903 CCTTTCTCGACTTAAGCTA
65 CCCTTCTAGACTTAAGTTA
* * * * *
17922 TACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTCGTTGGCAAATAG
1 TGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GTTGGCAGATAA
* * * * *
17987 CCTTTCTTGCCTTGAGCTA
65 CCCTTCTAGACTTAAGTTA
* * * * * * ** *
18006 TGTTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC--T-TTGGCAGATAG
1 TGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAA
* * *
18068 CCCTTATCGACTTAAGCTA
65 CCCTTCTAGACTTAAGTTA
* * *
18087 TGCTGCAAATGATGTGTCGTT-GAGCTGAGCGTAGTCGAACTC-AGAGGTCTTTTGTTGGCAGAC
1 TGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCGA-AGGTC-TTTGTTGGCAGAT
*
18150 AACCCTTCTAGACTTAAGTTG
63 AACCCTTCTAGACTTAAGTTA
* * * *
18171 TGCTGCAAATGATATGCCTTGGAGCTAAGCGTAGTCAAACTCGAAGGTCTTTGGTGACAGATAAC
1 TGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAAC
* *
18236 CCTTCTAGCCTTGAGTTA
66 CCTTCTAGACTTAAGTTA
* * * * * * ** *
18254 TGATGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC--T-TTGGCAGATAC
1 TGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAA
*
18316 CCCTTCTCGACTTAAGTTA
65 CCCTTCTAGACTTAAGTTA
* * * * *
18335 TACTGCAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCATACA
1 TGCTGCAAATGATATGCC-TTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGTTGGCAGATA
* * *
18399 AACTTTCTAGACTTAAGTTG
64 ACCCTTCTAGACTTAAGTTA
* * * * *
18419 TGCTGCAAATGATATGCCTTGGAGCTAAGCGTAGTCAAACTCAAAGGTCTTTGGTGACAGATAAC
1 TGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAAC
* *
18484 CCTTCTAGCCTTGAGTTA
66 CCTTCTAGACTTAAGTTA
* * * * * ** *
18502 TGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC--T-TTGGCAGGTAA
1 TGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAA
*
18564 CCCTTCTCGACTTAAGTTA
65 CCCTTCTAGACTTAAGTTA
* ** *
18583 TGCTGTAAATGATATGCCTTGGAGCTGAGCGTAACCGAACTCGAAGGTCTTTG-TGGCAGATAGC
1 TGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAAC
* * * *
18647 CCTTCTGGCCTTGAGCTA
66 CCTTCTAGACTTAAGTTA
*
18665 AGCTGCAAATGAT
1 TGCTGCAAATGAT
18678 TTGTTTAAAA
Statistics
Matches: 657, Mismatches: 156, Indels: 50
0.76 0.18 0.06
Matches are distributed among these distances:
80 97 0.15
81 150 0.23
82 39 0.06
83 90 0.14
84 230 0.35
85 51 0.08
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (83 bp):
TGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAAC
CCTTCTAGACTTAAGTTA
Found at i:18001 original size:165 final size:164
Alignment explanation
Indices: 17757--18677 Score: 857
Period size: 165 Copynumber: 5.6 Consensus size: 164
17747 GCCTTGGGCT
* * * * * * ** **
17757 TGCTGTAAATGATGTGCCTTGCAGCTGAGTGTAGTCAAACTCGAAGGTCCTTTGGAGATAGATAA
1 TGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGT-CTTTGTTGGCAGATAA
** * * * *
17822 CCCTTCTAGCCTTGAGTTATATTGTAAATGATGTACCCTCGAAGTTGAGTGTAATTGAACTCGGG
65 CCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGG
* * * *
17887 GGTCTTTGGCAGCTAGCCTTTCTCGACTTAAGCTA
130 GGTCTTTGGCAGATAACCCTTCTCGACTTAAGTTA
* * * *
17922 TACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTCGTTGGCAAATAG
1 TGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTT-GTTGGCAGATAA
* * * *
17987 CCTTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGG
65 CCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGG
* * *
18052 GGTCTTTGGCAGATAGCCCTTATCGACTTAAGCTA
130 GGTCTTTGGCAGATAACCCTTCTCGACTTAAGTTA
* * * *
18087 TGCTGCAAATGATGTGTCGTT-GAGCTGAGCGTAGTCGAACTCAGAGGTCTTTTGTTGGCAGACA
1 TGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTC-TTTGTTGGCAGATA
* * * * * * * * * * *
18151 ACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATG-CCTTGGAGCTAAGCGTAGTCAAACTCGA
64 ACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGG
* * * *
18215 AGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTA
129 GGGTCTTT-G-G-CAGATAACCCTTCTCGACTTAAGTTA
* * * * * * *** *
18254 TGATGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC--T-TTGGCAGATAC
1 TGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGTTGGCAGATAA
* * * * * * * * ***
18316 CCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCGTTG-AGCTGAGCGTAGTCGAACTCAAA
65 CCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGG
* * * * * *
18380 GGTCTTTTGTTGGCATACAAACTTTCTAGACTTAAGTTG
130 GGTC---T-TTGGCAGATAACCCTTCTCGACTTAAGTTA
* * * *
18419 TGCTGCAAATGATATGCCTTGGAGCTAAGCGTAGTCAAACTCAAAGGTCTTTGGTGACAGATAAC
1 TGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGTTGGCAGATAAC
* *
18484 CCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGG
66 CCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGG
*
18549 GTCTTTGGCAGGTAACCCTTCTCGACTTAAGTTA
131 GTCTTTGGCAGATAACCCTTCTCGACTTAAGTTA
* ** * *
18583 TGCTGTAAATGATATGCCTTGGAGCTGAGCGTAACCGAACTCGAAGGTCTTTG-TGGCAGATAGC
1 TGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGTTGGCAGATAAC
* * *
18647 CCTTCTGGCCTTGAGCTAAGCTGCAAATGAT
66 CCTTCTAGCCTTGAGTTATGCTGCAAATGAT
18678 TTGTTTAAAA
Statistics
Matches: 615, Mismatches: 125, Indels: 34
0.79 0.16 0.04
Matches are distributed among these distances:
163 36 0.06
164 190 0.31
165 255 0.41
166 9 0.01
167 78 0.13
168 47 0.08
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (164 bp):
TGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGTTGGCAGATAAC
CCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGG
GTCTTTGGCAGATAACCCTTCTCGACTTAAGTTA
Found at i:18331 original size:248 final size:247
Alignment explanation
Indices: 17906--18652 Score: 1104
Period size: 248 Copynumber: 3.0 Consensus size: 247
17896 CAGCTAGCCT
* * * * * * *
17906 TTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTC
1 TTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTAAGCGTAGTCAAACTCAAAGGTC
* * * * * * * * * *
17971 TTTCGTTGGCAAATAGCCTTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCCTCGAAGCTGAG
66 TTT-GGTGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATATGCCCTCGAAGCTGAG
* * *
18036 TGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTATCGACTTAAGCTATGCTGCAAATGATG
130 TGTAATCGAACTCGGGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATG
18101 TGTCGTTGAGCTGAGCGTAGTCGAACTCAGAGGTCTTTTGTTGGCAGACAACCC
195 TG-CGTTGAGCTGAGCGTAGTCGAACTCAGAGGTCTTTTGTTGGCAGACAACCC
*
18155 TTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTAAGCGTAGTCAAACTCGAAGGTC
1 TTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTAAGCGTAGTCAAACTCAAAGGTC
18220 TTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATATGCCCTCGAAGCTGAGT
66 TTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATATGCCCTCGAAGCTGAGT
* *
18285 GTAATCGAACTCGGGGGTCTTTGGCAGATACCCCTTCTCGACTTAAGTTATACTGCAAATGATGT
131 GTAATCGAACTCGGGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* * * *
18350 GCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCATACAAACT
196 G-CGTTGAGCTGAGCGTAGTCGAACTCAGAGGTCTTTTGTTGGCAGACAACCC
18403 TTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTAAGCGTAGTCAAACTCAAAGGTC
1 TTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTAAGCGTAGTCAAACTCAAAGGTC
*
18468 TTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGT
66 TTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATATGCCCTCGAAGCTGAGT
* * *
18533 GTAATCGAACTCGGGGGTCTTTGGCAGGTAACCCTTCTCGACTTAAGTTATGCTGTAAATGATAT
131 GTAATCGAACTCGGGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* ** * *
18598 GCCTTGGAGCTGAGCGTAACCGAACTC-GAAGGTC-TTTG-TGGCAGATAGCCC
196 GCGTT-GAGCTGAGCGTAGTCGAACTCAG-AGGTCTTTTGTTGGCAGACAACCC
18649 TTCT
1 TTCT
18653 GGCCTTGAGC
Statistics
Matches: 453, Mismatches: 43, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
246 12 0.03
247 7 0.02
248 374 0.83
249 60 0.13
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.30
Consensus pattern (247 bp):
TTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTAAGCGTAGTCAAACTCAAAGGTC
TTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATATGCCCTCGAAGCTGAGT
GTAATCGAACTCGGGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
GCGTTGAGCTGAGCGTAGTCGAACTCAGAGGTCTTTTGTTGGCAGACAACCC
Found at i:23879 original size:26 final size:25
Alignment explanation
Indices: 23833--23895 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 25
23823 AAAGGTTAGT
*
23833 AAAAATAAATAAATAATAATAATAAA
1 AAAAATAAA-AAAGAATAATAATAAA
23859 CAAAAATAAAACAAGAA-AATAATAAA
1 -AAAAATAAAA-AAGAATAATAATAAA
23885 ATAAAATAAAA
1 A-AAAATAAAA
23896 TGAATAAAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
25 1 0.03
26 19 0.58
27 13 0.39
ACGTcount: A:0.78, C:0.03, G:0.02, T:0.17
Consensus pattern (25 bp):
AAAAATAAAAAAGAATAATAATAAA
Found at i:23903 original size:19 final size:18
Alignment explanation
Indices: 23874--23909 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
23864 ATAAAACAAG
*
23874 AAAATAATAAAATAAAAT
1 AAAATAATAAAAGAAAAT
23892 AAAATGAATAAAAGAAAA
1 AAAAT-AATAAAAGAAAA
23910 AGTAAAGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.17
Consensus pattern (18 bp):
AAAATAATAAAAGAAAAT
Found at i:24731 original size:16 final size:17
Alignment explanation
Indices: 24698--24731 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
24688 TGTTGATGAT
*
24698 TCGTGTTTTGCTTGTGA
1 TCGTGTTTGGCTTGTGA
24715 TCGTGTTTGGCTT-TGA
1 TCGTGTTTGGCTTGTGA
24731 T
1 T
24732 GATGTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.06, C:0.12, G:0.29, T:0.53
Consensus pattern (17 bp):
TCGTGTTTGGCTTGTGA
Found at i:25203 original size:25 final size:25
Alignment explanation
Indices: 25161--25208 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
25151 TAATATATTA
* *
25161 TATATAAAAAATATTTTCCAAAACC
1 TATATAAAAAATAATTTCAAAAACC
* *
25186 TATATAATATATAATTTCAAAAA
1 TATATAAAAAATAATTTCAAAAA
25209 TATTTTAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.35
Consensus pattern (25 bp):
TATATAAAAAATAATTTCAAAAACC
Found at i:25224 original size:34 final size:36
Alignment explanation
Indices: 25140--25263 Score: 108
Period size: 37 Copynumber: 3.3 Consensus size: 36
25130 AAAAGGGGAA
25140 AAAATTAATAATAATATATTATATATAAAAAATATTTTCC
1 AAAATT-AT-ATAATATA-TATATATAAAAAATATTTT-C
* * *
25180 AAAACCTATATAATATATA-ATTTCAAAAATATTTT-
1 AAAA-TTATATAATATATATATATAAAAAATATTTTC
* * * *
25215 AAAATTATATATTATATACTTTTTAAAAAAATGTTTTC
1 AAAATTATATAATATATA-TATAT-AAAAAATATTTTC
25253 AAAATTATATA
1 AAAATTATATA
25264 GTTTTCAAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
34 12 0.17
35 4 0.06
36 3 0.04
37 24 0.34
38 13 0.18
39 8 0.11
40 6 0.08
41 1 0.01
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.42
Consensus pattern (36 bp):
AAAATTATATAATATATATATATAAAAAATATTTTC
Found at i:25397 original size:27 final size:26
Alignment explanation
Indices: 25367--25435 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 26
25357 TATACTTTCA
25367 AAATGTTTTAAAAACTATATAATATAT
1 AAATGTTTTAAAAA-TATATAATATAT
* * *
25394 AAATGTTTTCAAAAATGTTTTATATAT
1 AAATGTTTT-AAAAATATATAATATAT
* *
25421 ATATGTTTTTAAAAT
1 AAATGTTTTAAAAAT
25436 GTTTTAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
26 5 0.14
27 26 0.72
28 5 0.14
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (26 bp):
AAATGTTTTAAAAATATATAATATAT
Found at i:25441 original size:26 final size:27
Alignment explanation
Indices: 25388--25441 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
25378 AAACTATATA
25388 ATATATAAATGTTTTCAAAAATGTTTT
1 ATATATAAATGTTTTCAAAAATGTTTT
* *
25415 ATATATATATGTTTT-TAAAATGTTTT
1 ATATATAAATGTTTTCAAAAATGTTTT
25441 A
1 A
25442 AAAACTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 11 0.44
27 14 0.56
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (27 bp):
ATATATAAATGTTTTCAAAAATGTTTT
Found at i:25451 original size:31 final size:31
Alignment explanation
Indices: 25416--25488 Score: 110
Period size: 31 Copynumber: 2.3 Consensus size: 31
25406 AAATGTTTTA
** *
25416 TATATATATGTTTTTAAAATGTTTTAAAAAC
1 TATATATATACTTTCAAAATGTTTTAAAAAC
25447 TATATATATACTTTCAAAATGTTTTAAAAAC
1 TATATATATACTTTCAAAATGTTTTAAAAAC
25478 TATATAATATA
1 TATAT-ATATA
25489 TAATGTTTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
31 33 0.87
32 5 0.13
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.45
Consensus pattern (31 bp):
TATATATATACTTTCAAAATGTTTTAAAAAC
Found at i:25455 original size:37 final size:35
Alignment explanation
Indices: 25414--25565 Score: 145
Period size: 37 Copynumber: 4.4 Consensus size: 35
25404 AAAAATGTTT
*
25414 TATAT-ATATAT-GTTTTTAAAATGTTTTAAAAAC
1 TATATAATATATAGTTTTCAAAATGTTTTAAAAAC
*
25447 --TAT-ATATATA-CTTTCAAAATGTTTTAAAAAC
1 TATATAATATATAGTTTTCAAAATGTTTTAAAAAC
* *
25478 TATATAATATATAATGTTTTCAAAATATTTTTCAAAAC
1 TATATAATATAT-A-GTTTTCAAAAT-GTTTTAAAAAC
* * * *
25516 CATATACTATATAGATTTTAAAAACGTTTTCAAAAAC
1 TATATAATATATAG-TTTTCAAAATGTTTT-AAAAAC
25553 TATATAATATATA
1 TATATAATATATA
25566 CTTATTTTCG
Statistics
Matches: 96, Mismatches: 13, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
31 28 0.29
33 3 0.03
34 6 0.06
35 1 0.01
36 5 0.05
37 34 0.35
38 19 0.20
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (35 bp):
TATATAATATATAGTTTTCAAAATGTTTTAAAAAC
Found at i:25679 original size:2 final size:2
Alignment explanation
Indices: 25674--25710 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
25664 TAAAATAGGA
25674 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25711 AACAAAATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:29310 original size:18 final size:18
Alignment explanation
Indices: 29279--29313 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
29269 ATATAAAAAA
29279 ATAAAATTACAATATATT
1 ATAAAATTACAATATATT
* *
29297 ATAAACTTAGAATATAT
1 ATAAAATTACAATATAT
29314 GGGTCAGGCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.37
Consensus pattern (18 bp):
ATAAAATTACAATATATT
Found at i:29576 original size:36 final size:36
Alignment explanation
Indices: 29526--29594 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
29516 TTGATCATCT
29526 CACGGAACAACAAATGCTCAAAACATTAAGAGATTA
1 CACGGAACAACAAATGCTCAAAACATTAAGAGATTA
* *
29562 CACGGGACAGCAAATGCTCAAAACATTAAGAGA
1 CACGGAACAACAAATGCTCAAAACATTAAGAGA
29595 AAGAAAGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.48, C:0.20, G:0.17, T:0.14
Consensus pattern (36 bp):
CACGGAACAACAAATGCTCAAAACATTAAGAGATTA
Found at i:29725 original size:16 final size:17
Alignment explanation
Indices: 29700--29735 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
29690 GTTTATATAT
*
29700 TATGTTAATTAAAT-CA
1 TATGTAAATTAAATACA
29716 TATGTAAATTAAATACA
1 TATGTAAATTAAATACA
29733 TAT
1 TAT
29736 TATTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (17 bp):
TATGTAAATTAAATACA
Found at i:31374 original size:30 final size:30
Alignment explanation
Indices: 31338--31395 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
31328 ATTGACATTG
*
31338 ACTTCACTTTGCATACATTAATTCTCTTTC
1 ACTTCACTTTGCACACATTAATTCTCTTTC
* *
31368 ACTTCACTTTGCACACTTTCATTCTCTT
1 ACTTCACTTTGCACACATTAATTCTCTT
31396 CCAATGGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.21, C:0.29, G:0.03, T:0.47
Consensus pattern (30 bp):
ACTTCACTTTGCACACATTAATTCTCTTTC
Found at i:37667 original size:128 final size:126
Alignment explanation
Indices: 37497--37916 Score: 475
Period size: 128 Copynumber: 3.3 Consensus size: 126
37487 GATTGAGACG
* * * * * *
37497 GCTCCTACGTGATGAGTAGATCTAGTC-GAGTGATGATACGGTTCCTACATGATAAGGACGGCGG
1 GCTCCTACATAATGAGGAGATCTGGTCAG-GTGATGACACGGTTCCTAC-TGATAAGGA-GGCAG
* ** * * *
37561 GCTATCTAAGGGTGATAACACAATTCCTACGTAATGAGGACAACTGGTTATCTGGGTTGACACA
63 GCCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACAGCTGGTTATCTGAGTTGACACA
* * *
37625 GCTCCTACATAATGAGGAGATTTGGTCAGGTGATGACACGGTTCCTACGTGATGAGGATGGTAGG
1 GCTCCTACATAATGAGGAGATCTGGTCAGGTGATGACACGGTTCCTAC-TGATAAGGA-GGCAGG
* * * * * *
37690 CCATCTATGGGTGATAACATGGTTCCTACATGATGAAGACTGCTGGTTATCTGAATTGACACA
64 CCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACAGCTGGTTATCTGAGTTGACACA
* * * * * * *
37753 GCTCCTACATAATGAGGAGATCTGGTCAGGTGATGACACTGTTCAT-CTGTTCATGAGTCTTGGC
1 GCTCCTACATAATGAGGAGATCTGGTCAGGTGATGACACGGTTCCTACTGATAAGGAGGC-AGGC
** *
37817 CATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGATGGCTGGTTATCTGAGTTAACACA
65 CATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACAGCTGGTTATCTGAGTTGACACA
* *
37879 ACTCCTATATAATGAGGAGATCTGGTCAGGTGATGACA
1 GCTCCTACATAATGAGGAGATCTGGTCAGGTGATGACA
37917 TTGCTCATCT
Statistics
Matches: 248, Mismatches: 42, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
125 1 0.00
126 99 0.40
127 1 0.00
128 146 0.59
129 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (126 bp):
GCTCCTACATAATGAGGAGATCTGGTCAGGTGATGACACGGTTCCTACTGATAAGGAGGCAGGCC
ATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACAGCTGGTTATCTGAGTTGACACA
Found at i:37878 original size:126 final size:125
Alignment explanation
Indices: 37564--37951 Score: 501
Period size: 126 Copynumber: 3.1 Consensus size: 125
37554 ACGGCGGGCT
** * ** *
37564 ATCTAAGGGTGATAACACAATTCCTACGTAATGAGGACAACTGGTTATCTGGGTTGACACAGCTC
1 ATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGA-TGCTGGTTATCTGAGTTGACACAGCTC
* * * * * *
37629 CTACATAATGAGGAGATTTGGTCAGGTGATGACACGGTTCCTAC-G-TGATGAGGATGGTAGGCC
65 CTACATAATGAGGAGATCTGGTCAGGTGATGACACTGTTCAT-CTGTTCATGA-G-T-CTTGGCC
* * * * *
37692 ATCTATGGGTGATAACATGGTTCCTACATGATGAAGACTGCTGGTTATCTGAATTGACACAGCTC
1 ATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGA-TGCTGGTTATCTGAGTTGACACAGCTC
37757 CTACATAATGAGGAGATCTGGTCAGGTGATGACACTGTTCATCTGTTCATGAGTCTTGGCC
65 CTACATAATGAGGAGATCTGGTCAGGTGATGACACTGTTCATCTGTTCATGAGTCTTGGCC
* *
37818 ATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGATGGCTGGTTATCTGAGTTAACACAACTC
1 ATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGAT-GCTGGTTATCTGAGTTGACACAGCTC
* * *
37883 CTATATAATGAGGAGATCTGGTCAGGTGATGACATTGCTCATCTGTTCATGAGTCTTGGCC
65 CTACATAATGAGGAGATCTGGTCAGGTGATGACACTGTTCATCTGTTCATGAGTCTTGGCC
37944 ATCTAAGG
1 ATCTAAGG
37952 AATTTTGATT
Statistics
Matches: 230, Mismatches: 27, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
125 1 0.00
126 127 0.55
127 2 0.01
128 95 0.41
129 5 0.02
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (125 bp):
ATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGATGCTGGTTATCTGAGTTGACACAGCTCC
TACATAATGAGGAGATCTGGTCAGGTGATGACACTGTTCATCTGTTCATGAGTCTTGGCC
Found at i:38096 original size:37 final size:38
Alignment explanation
Indices: 38054--38127 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 38
38044 AAAGATTTTT
*
38054 TTGTCTCAAATGAGACAA-AATTTGTTTTGAAAGAAAA
1 TTGTCTCAAATGAGACAACAATTTGTTTCGAAAGAAAA
* * *
38091 TTGTCTCAAGTGAGACAACATTTTGTTTCGAGAGAAA
1 TTGTCTCAAATGAGACAACAATTTGTTTCGAAAGAAA
38128 CAACATCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 17 0.53
38 15 0.47
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (38 bp):
TTGTCTCAAATGAGACAACAATTTGTTTCGAAAGAAAA
Found at i:38486 original size:25 final size:28
Alignment explanation
Indices: 38439--38491 Score: 76
Period size: 25 Copynumber: 2.0 Consensus size: 28
38429 TTAAAATCTT
*
38439 AAAATATTAATTAGAAGAGTTTTGAAAA
1 AAAATATTAATCAGAAGAGTTTTGAAAA
38467 AAAAT-TTAATCA-AAGA-TTTTGAAAA
1 AAAATATTAATCAGAAGAGTTTTGAAAA
38492 TATTGTCCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 9 0.38
26 4 0.17
27 6 0.25
28 5 0.21
ACGTcount: A:0.55, C:0.02, G:0.11, T:0.32
Consensus pattern (28 bp):
AAAATATTAATCAGAAGAGTTTTGAAAA
Found at i:43296 original size:3 final size:3
Alignment explanation
Indices: 43283--43325 Score: 61
Period size: 3 Copynumber: 14.0 Consensus size: 3
43273 AAAAGAAAAT
43283 ATA ATTA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATTA ATA ATA
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA
43326 TTTTTCAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 2 0.05
3 29 0.78
4 6 0.16
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:51007 original size:3 final size:3
Alignment explanation
Indices: 50986--51039 Score: 72
Period size: 3 Copynumber: 18.0 Consensus size: 3
50976 TTTCATCTTT
* * * *
50986 TTA TTA ATA TTA TTG TTA TTA TTA TTA TTA TTA TAA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
51034 TTA TTA
1 TTA TTA
51040 AATAAAATAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:52565 original size:12 final size:11
Alignment explanation
Indices: 52544--52583 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
52534 TTTTTCAATA
52544 TATTTAAATTAT
1 TATTT-AATTAT
52556 TACTTTAATTAT
1 TA-TTTAATTAT
*
52568 TATTTTATTAT
1 TATTTAATTAT
52579 TATTT
1 TATTT
52584 TCGTATTAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 13 0.50
12 10 0.38
13 3 0.12
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (11 bp):
TATTTAATTAT
Found at i:54324 original size:36 final size:36
Alignment explanation
Indices: 54273--54344 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
54263 GAGCTATACA
*
54273 CACAAAGATCATGTTATATTAATACCAAAAGTATTC
1 CACAAAGATCATGTTAGATTAATACCAAAAGTATTC
* *
54309 CACAAAGATCCTGTTAGATTGATACCAAAAGTATTC
1 CACAAAGATCATGTTAGATTAATACCAAAAGTATTC
54345 TACGGCAAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (36 bp):
CACAAAGATCATGTTAGATTAATACCAAAAGTATTC
Found at i:55068 original size:6 final size:6
Alignment explanation
Indices: 55054--55119 Score: 51
Period size: 6 Copynumber: 10.3 Consensus size: 6
55044 ACATTCATAT
* * * * *
55054 ATTTAC ATTTGC ATTTGC ATTTTGC ATTTTAC ATTTGT ATTTAC ATTTTC
1 ATTTGC ATTTGC ATTTGC A-TTTGC A-TTTGC ATTTGC ATTTGC ATTTGC
55104 ATTTTTGC ATTTGC AT
1 A--TTTGC ATTTGC AT
55120 CTTTGCATAA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
6 32 0.65
7 12 0.24
8 5 0.10
ACGTcount: A:0.21, C:0.14, G:0.09, T:0.56
Consensus pattern (6 bp):
ATTTGC
Found at i:55084 original size:26 final size:26
Alignment explanation
Indices: 55055--55119 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
55045 CATTCATATA
*
55055 TTTACATTTGCATTTGCATTTTGCA-T
1 TTTACATTTGCATTTACATTTT-CATT
*
55081 TTTACATTTGTATTTACATTTTCATT
1 TTTACATTTGCATTTACATTTTCATT
*
55107 TTTGCATTTGCAT
1 TTTACATTTGCAT
55120 CTTTGCATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 2 0.06
26 32 0.94
ACGTcount: A:0.20, C:0.14, G:0.09, T:0.57
Consensus pattern (26 bp):
TTTACATTTGCATTTACATTTTCATT
Found at i:55124 original size:14 final size:13
Alignment explanation
Indices: 55059--55127 Score: 61
Period size: 14 Copynumber: 5.2 Consensus size: 13
55049 CATATATTTA
55059 CATTTGCA-TTTG
1 CATTTGCATTTTG
*
55071 CATTTTGCATTTTA
1 CA-TTTGCATTTTG
* *
55085 CATTTGTA-TTTA
1 CATTTGCATTTTG
*
55097 CATTTTCATTTTTG
1 CATTTGCA-TTTTG
55111 CATTTGCATCTTTG
1 CATTTGCAT-TTTG
55125 CAT
1 CAT
55128 AATTACATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
12 12 0.26
13 12 0.26
14 22 0.48
ACGTcount: A:0.19, C:0.16, G:0.10, T:0.55
Consensus pattern (13 bp):
CATTTGCATTTTG
Found at i:59086 original size:12 final size:12
Alignment explanation
Indices: 59055--59087 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
59045 GCAACAAGAG
*
59055 GCAGTCACTGTA
1 GCAGTCATTGTA
59067 GCAGTCATTGTA
1 GCAGTCATTGTA
59079 GCAGTCATT
1 GCAGTCATT
59088 ACAAGAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.30
Consensus pattern (12 bp):
GCAGTCATTGTA
Found at i:62105 original size:54 final size:54
Alignment explanation
Indices: 62046--62181 Score: 168
Period size: 52 Copynumber: 2.6 Consensus size: 54
62036 CATAGAAAAT
*
62046 GATGAATGTGTTGTCAAATGCTTTACGAACATCTGGCCAGAAGCCACAATAAAG
1 GATGAATGTGTTGTCAAATGCTTTACGAACATCTGGCCAGAAGCCACAAGAAAG
* * * * **
62100 GATGAA--TGTTATCAAAAGCTTTACGAAAATCTGGGCAGAAGCCATGAGAAAG
1 GATGAATGTGTTGTCAAATGCTTTACGAACATCTGGCCAGAAGCCACAAGAAAG
* * *
62152 GATGAATGTATTGTCACATGTTTTACGAAC
1 GATGAATGTGTTGTCAAATGCTTTACGAAC
62182 TAGTGATTAT
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
52 45 0.67
54 22 0.33
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (54 bp):
GATGAATGTGTTGTCAAATGCTTTACGAACATCTGGCCAGAAGCCACAAGAAAG
Found at i:62570 original size:22 final size:22
Alignment explanation
Indices: 62545--62599 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
62535 ATTTACATTC
* *
62545 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAAATTATCTT
62567 TTCAAAGATGATAAATTATCTT
1 TTCAAAGATGATAAATTATCTT
*
62589 TTTAAAGATGA
1 TTCAAAGATGA
62600 AAGCCTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAAATTATCTT
Found at i:63497 original size:45 final size:45
Alignment explanation
Indices: 63363--63510 Score: 217
Period size: 45 Copynumber: 3.3 Consensus size: 45
63353 GCTTTTTGTA
*
63363 TTTTCAAAACCTCCGGGTCATCTGTAAGCCCTTCAGTGCATGATG
1 TTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATG
* * *
63408 TTTACAAAGCC-TCGGGTCATCTGTAAGCCCTTCAATGCATGATG
1 TTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATG
* * *
63452 TTTTCAAAACCTTCGGGTCATCTGTAAGTCCTACAGTGCAGGATG
1 TTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATG
63497 TTTTCAAAAGCCTT
1 TTTTCAAAA-CCTT
63511 GGGAGCTTTT
Statistics
Matches: 91, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
44 40 0.44
45 47 0.52
46 4 0.04
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (45 bp):
TTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATG
Found at i:63544 original size:119 final size:117
Alignment explanation
Indices: 63403--63628 Score: 380
Period size: 119 Copynumber: 1.9 Consensus size: 117
63393 CTTCAGTGCA
*
63403 TGATGTTTACAAAGCCTCGGGTCATCTGTAAGCCCTTCAATGCATGATGTTTTCAAAACCTTCGG
1 TGATGTTTACAAAACCTCGGGTCATCTGTAAGCCCTTCAATGCATGATGTTTTCAAAACCTTCGG
*
63468 GTCATCTGTAAGTCCTACAGTGCAGGATGTTTTCAAAAGCCTTGGGAGCTTTT
66 GTCATCTGTAAGCCCTACAGTGCAGGATGTTTTC-AAAGCCTTGGGAGCTTTT
* *
63521 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
1 TGATGTTTACAAAACC-TCGGGTCATCTGTAAGCCCTTCAATGCATGATGTTTTCAAAACCTTCG
* *
63586 GGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTT
65 GGTCATCTGTAAGCCCTACAGTGCAGGATGTTTTCAAAGCCTT
63629 CGGGTCATCT
Statistics
Matches: 101, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
118 22 0.22
119 79 0.78
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (117 bp):
TGATGTTTACAAAACCTCGGGTCATCTGTAAGCCCTTCAATGCATGATGTTTTCAAAACCTTCGG
GTCATCTGTAAGCCCTACAGTGCAGGATGTTTTCAAAGCCTTGGGAGCTTTT
Found at i:63550 original size:163 final size:163
Alignment explanation
Indices: 63274--64124 Score: 720
Period size: 163 Copynumber: 5.1 Consensus size: 163
63264 CATCTTAAAA
*
63274 CCTTCAGTGCATGATGTTTTC-AAACCTTC-GGTCATCTAG-AAGACCTACAGTACAGGATGTTT
1 CCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCT-GTAAG-CCTACAGTGCAGGATGTTT
* * * *
63336 TAAAAAAACCTTCGGGAGCTTTTTG-TATTTTCAAAACCTCCGGGTCATCTGTAAGCCCTTCAGT
64 T-CAAAAGCCTT-GGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGT
63400 GCATGATGTTTACAAAGCC-TCGGGTCATCTGTAAGC
127 GCATGATGTTTACAAAGCCTTCGGGTCATCTGTAAGC
*
63436 CCTTCAATGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTACAGTGCAGGATGTTTT
1 CCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAG-CCTACAGTGCAGGATGTTTT
63501 CAAAAGCCTTGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
65 CAAAAGCCTTGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* *
63566 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGC
130 TGATGTTTACAAAGCCTTCGGGTCATCTGTAAGC
* * * *
63600 CCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCTTCAGTGCATGATATTTTC
1 CCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCTACAGTGCAGGATGTTTTC
* * *
63665 AAAA-CCTTGGGTCATCTGTAAATCCTACAGTGCAGGATGTTTCAAAAAGCCTTCGGG--AGCT-
66 AAAAGCCTTGGG--AGCT-T---T--T----TG-ATG-T-TTTC-AAAA-CCTTCGGGTCATCTG
*
63726 T------TT---TG-AT-AT-TTT-CAAAGCCTTCGGGTCATCTGTAATC
114 TAAGCCCTTCAGTGCATGATGTTTACAAAGCCTTCGGGTCATCTGTAAGC
* * ** *
63763 CCTTCAGTGCATGATGTTATCAAAACGTTCGGGTCATCCAT-AGACTACAGTGCAGGATGTTTTT
1 CCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCTACAGTGCAGGATG-TTTT
* * *
63827 AAAAAGCCTCGGGAGCTTTTT-ATGTTATC-AAACCTTCGGGGTCATCTGTAAGCCCTTCAGTGC
65 CAAAAGCCTTGGGAGCTTTTTGATGTTTTCAAAACCTTC-GGGTCATCTGTAAGCCCTTCAGTGC
**
63890 ATG-TG-TTATCAAA-CCTT-TAGTCATCTGTAAGC
129 ATGATGTTTA-CAAAGCCTTCGGGTCATCTGTAAGC
* * * * *
63922 CCTTCAATGCATGATGTTAT-GAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTT
1 CCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAG-CCTACAGTGCAGGATGTTTT
* * * * *
63986 CAAAA-CATTCGGTCATCTATAATCCCTTCAGTGCATGATGTTTTCAAAACCTTCAGGTCATCTA
65 CAAAAGCCTT-GG-GAGC-----T---TT---T---TGATGTTTTCAAAACCTTCGGGTCATCTG
* ** *
64050 TAAGCCCTTCAGTTCATGATGTTTTTTAAAGCCTTCGGGTCATCTGTAAGA
114 TAAGCCCTTCAGTGCATGATG-TTTACAAAGCCTTCGGGTCATCTGTAAGC
* *
64101 CCTACAGTGCAGGATGTTTTCAAA
1 CCTTCAGTGCATGATGTTTTCAAA
64125 TGAGATTTTA
Statistics
Matches: 557, Mismatches: 64, Indels: 118
0.75 0.09 0.16
Matches are distributed among these distances:
145 5 0.01
146 6 0.01
148 6 0.01
149 2 0.00
150 2 0.00
152 1 0.00
155 2 0.00
156 1 0.00
158 21 0.04
159 48 0.09
160 19 0.03
161 5 0.01
162 56 0.10
163 160 0.29
164 101 0.18
165 4 0.01
166 2 0.00
167 2 0.00
168 3 0.01
170 3 0.01
171 1 0.00
174 3 0.01
175 34 0.06
176 12 0.02
177 10 0.02
178 10 0.02
179 36 0.06
180 2 0.00
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (163 bp):
CCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCTACAGTGCAGGATGTTTTC
AAAAGCCTTGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
GATGTTTACAAAGCCTTCGGGTCATCTGTAAGC
Found at i:63571 original size:74 final size:73
Alignment explanation
Indices: 63447--63583 Score: 238
Period size: 74 Copynumber: 1.9 Consensus size: 73
63437 CTTCAATGCA
*
63447 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTACAGTGCAGGATGTTTTCAAAAGCCTTG
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCAGGATGTTTTCAAAA-CCTTG
63512 GGAGCTTTT
65 GGAGCTTTT
* *
63521 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTT
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCAGGATGTTTTCAAAACCTT
63584 CGGGTCATCT
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
73 4 0.07
74 56 0.93
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.36
Consensus pattern (73 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCAGGATGTTTTCAAAACCTTGG
GAGCTTTT
Found at i:63664 original size:44 final size:45
Alignment explanation
Indices: 63521--63721 Score: 309
Period size: 45 Copynumber: 4.5 Consensus size: 45
63511 GGGAGCTTTT
63521 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
63566 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
63611 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAG-CCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* ** *
63655 TGATATTTTCAAAACCTT-GGGTCATCTGTAAATCCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
63699 GGATG-TTTCAAAAAGCCTTCGGG
1 TGATGTTTTC-AAAA-CCTTCGGG
63722 AGCTTTTTGA
Statistics
Matches: 145, Mismatches: 7, Indels: 7
0.91 0.04 0.04
Matches are distributed among these distances:
43 17 0.12
44 44 0.30
45 81 0.56
46 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:63714 original size:89 final size:91
Alignment explanation
Indices: 63522--63721 Score: 311
Period size: 89 Copynumber: 2.2 Consensus size: 91
63512 GGAGCTTTTT
*
63522 GATGTTTTCAAAA-CCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
1 GATGTTTTCAAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATATTTTCAAAACCTTCG
* * *
63586 GGTCATCTGTAAGCCCTTCAGTGCAT
66 GGTCATCTGTAAACCCTACAGTGCAG
63612 GATGTTTTC-AAAGCCTTCGGGTCATCTGTAAG-CCTTCAGTGCATGATATTTTCAAAACCTT-G
1 GATGTTTTCAAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATATTTTCAAAACCTTCG
*
63674 GGTCATCTGTAAATCCTACAGTGCAG
66 GGTCATCTGTAAACCCTACAGTGCAG
63700 GATG-TTTCAAAAAGCCTTCGGG
1 GATGTTTTC-AAAAGCCTTCGGG
63722 AGCTTTTTGA
Statistics
Matches: 102, Mismatches: 5, Indels: 7
0.89 0.04 0.06
Matches are distributed among these distances:
87 4 0.04
88 27 0.26
89 43 0.42
90 28 0.27
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.33
Consensus pattern (91 bp):
GATGTTTTCAAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATATTTTCAAAACCTTCG
GGTCATCTGTAAACCCTACAGTGCAG
Found at i:63725 original size:208 final size:209
Alignment explanation
Indices: 63363--64124 Score: 779
Period size: 208 Copynumber: 3.7 Consensus size: 209
63353 GCTTTTTGTA
* * *
63363 TTTTCAAAACCTCCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTACAAAGCCTCGGGTCAT
1 TTTTCAAAACCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTCGGGTCAT
* *
63428 CTGTAAGCCCTTCAATGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTACAGTGCAG
66 CTGTAAGCCCTTCAGTGCATGAT-TTTTCAAAACCTTCGGGTCATCTGTAAATCCTACAGTGCAG
63493 GATGTTTTC-AAAAGCCTT-GGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCC
130 GATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCC
63556 CTTCAGTGCATGATG
195 CTTCAGTGCATGATG
*
63571 TTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCA
1 TTTTCAAAACCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAGCC-TCGGGTCA
63636 TCTGTAAG-CCTTCAGTGCATGATATTTTCAAAACCTT-GGGTCATCTGTAAATCCTACAGTGCA
65 TCTGTAAGCCCTTCAGTGCATGAT-TTTTCAAAACCTTCGGGTCATCTGTAAATCCTACAGTGCA
* * *
63699 GGATG-TTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAATC
129 GGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGC
63763 CCTTCAGTGCATGATG
194 CCTTCAGTGCATGATG
* * * * * * *
63779 TTATCAAAACGTTCGGGTCATCCAT-AG-ACTACAGTGCAGGATGTTTTTAAAAAGCCTCGGG--
1 TTTTCAAAACCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATG-TTTT-CAAAGCCTCGGGTC
* * ** *
63840 AGCT-T------TT---T--ATG--TTATC-AAACCTTCGGGGTCATCTGTAAGCCCTTCAGTGC
64 ATCTGTAAGCCCTTCAGTGCATGATTTTTCAAAACCTTC-GGGTCATCTGTAAATCCTACAGTGC
* * * * * ** * * *
63890 ATG-TGTTATCAAACCTTTAGTCATCTGTAAGCCCTTCAATGCATGATGTTAT-GAAACCTTCGG
128 AGGATGTTTTCAAA----AAGCCTTC-GGGAG--CTT---T--TTGATGTTTTCAAAACCTTCGG
63953 GTCATCTGTAAGCCCTTCAGTGCATGATG
181 GTCATCTGTAAGCCCTTCAGTGCATGATG
* * * *
63982 TTTTCAAAACATTC-GGTCATCTATAATCCCTTCAGTGCATGATGTTTTCAAAACCTTCAGGTCA
1 TTTTCAAAACCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAGCC-TCGGGTCA
* * * *
64046 TCTATAAGCCCTTCAGTTCATGATGTTTTTTAAAGCCTTCGGGTCATCTGTAAGA-CCTACAGTG
65 TCTGTAAGCCCTTCAGTGCATGA--TTTTTCAAAACCTTCGGGTCATCTGTAA-ATCCTACAGTG
64110 CAGGATGTTTTCAAA
127 CAGGATGTTTTCAAA
64125 TGAGATTTTA
Statistics
Matches: 458, Mismatches: 52, Indels: 74
0.78 0.09 0.13
Matches are distributed among these distances:
190 7 0.02
191 6 0.01
192 30 0.07
194 3 0.01
196 6 0.01
197 3 0.01
199 5 0.01
202 15 0.03
203 58 0.13
204 21 0.05
205 6 0.01
206 18 0.04
207 50 0.11
208 165 0.36
209 16 0.03
212 2 0.00
215 1 0.00
217 3 0.01
221 27 0.06
222 16 0.03
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (209 bp):
TTTTCAAAACCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTCGGGTCAT
CTGTAAGCCCTTCAGTGCATGATTTTTCAAAACCTTCGGGTCATCTGTAAATCCTACAGTGCAGG
ATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCC
TTCAGTGCATGATG
Found at i:63891 original size:117 final size:118
Alignment explanation
Indices: 63611--63906 Score: 417
Period size: 118 Copynumber: 2.5 Consensus size: 118
63601 CTTCAGTGCA
* *
63611 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAG-CCTTCAGTGCATGATATTTTCAAAACCTTGG
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTATCAAAACCTTGG
**
63675 GTCATCTGTAAATCCTACAGTGCAGGATGTTTCAAAAAGCCTTCGGGAGCTTTT
66 GTCATCCATAAA-CCTACAGTGCAGGATGTTTCAAAAAGCCTTCGGGAGCTTTT
* * *
63729 TGATATTTTCAAAGCCTTCGGGTCATCTGTAATCCCTTCAGTGCATGATGTTATCAAAACGTTCG
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTATCAAAACCTT-G
* *
63794 GGTCATCCATAGA-CTACAGTGCAGGATGTTTTTAAAAAGCC-TCGGGAGCTTTT
65 GGTCATCCATAAACCTACAGTGCAGGATG-TTTCAAAAAGCCTTCGGGAGCTTTT
*
63847 T-ATGTTATCAAA-CCTTCGGGGTCATCTGTAAGCCCTTCAGTGCATG-TGTTATC-AAACCTT
1 TGATGTTTTCAAAGCCTTC-GGGTCATCTGTAAGCCCTTCAGTGCATGATGTTATCAAAACCTT
63907 TAGTCATCTG
Statistics
Matches: 161, Mismatches: 13, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
115 6 0.04
116 12 0.07
117 36 0.22
118 59 0.37
119 37 0.23
120 11 0.07
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.34
Consensus pattern (118 bp):
TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTATCAAAACCTTGG
GTCATCCATAAACCTACAGTGCAGGATGTTTCAAAAAGCCTTCGGGAGCTTTT
Found at i:64060 original size:45 final size:45
Alignment explanation
Indices: 63848--64124 Score: 332
Period size: 44 Copynumber: 6.2 Consensus size: 45
63838 GGAGCTTTTT
*
63848 ATGTTATC-AAACCTTCGGGGTCATCTGTAAGCCCTTCAGTGCATG
1 ATGTTTTCAAAACCTTC-GGGTCATCTGTAAGCCCTTCAGTGCATG
* ** *
63893 -TGTTATC-AAACCTT-TAGTCATCTGTAAGCCCTTCAATGCATG
1 ATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATG
* *
63935 ATGTTAT-GAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATG
1 ATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATG
* * *
63979 ATGTTTTCAAAACATTC-GGTCATCTATAATCCCTTCAGTGCATG
1 ATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATG
* * *
64023 ATGTTTTCAAAACCTTCAGGTCATCTATAAGCCCTTCAGTTCATG
1 ATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATG
* * * * *
64068 ATGTTTTTTAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGG
1 ATG-TTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATG
64114 ATGTTTTCAAA
1 ATGTTTTCAAA
64125 TGAGATTTTA
Statistics
Matches: 203, Mismatches: 23, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
42 25 0.12
43 13 0.06
44 86 0.42
45 42 0.21
46 37 0.18
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.34
Consensus pattern (45 bp):
ATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATG
Found at i:64061 original size:89 final size:89
Alignment explanation
Indices: 63848--64124 Score: 337
Period size: 89 Copynumber: 3.1 Consensus size: 89
63838 GGAGCTTTTT
* **
63848 ATGTTATC-AAACCTTCGGGGTCATCTGTAAGCCCTTCAGTGCATG-TGTTATC-AAACCTTTAG
1 ATGTTATCAAAACCTTC-GGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGG
*
63910 TCATCTGTAAGCCCTTCAATGCATG
65 TCATCTGTAAGCCCTTCAGTGCATG
* *
63935 ATGTTAT-GAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACATTCGGT
1 ATGTTATCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGT
* *
63999 CATCTATAATCCCTTCAGTGCATG
66 CATCTGTAAGCCCTTCAGTGCATG
* * * * * *
64023 ATGTTTTCAAAACCTTCAGGTCATCTATAAGCCCTTCAGTTCATGATGTTTTTTAAAGCCTTCGG
1 ATGTTATCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATG-TTTTCAAAACCTTC-G
* * *
64088 GTCATCTGTAAGACCTACAGTGCAGG
64 GTCATCTGTAAGCCCTTCAGTGCATG
*
64114 ATGTTTTCAAA
1 ATGTTATCAAA
64125 TGAGATTTTA
Statistics
Matches: 164, Mismatches: 20, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
86 28 0.17
87 21 0.13
88 35 0.21
89 36 0.22
90 11 0.07
91 33 0.20
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.34
Consensus pattern (89 bp):
ATGTTATCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGT
CATCTGTAAGCCCTTCAGTGCATG
Done.