Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008080.1 Hibiscus syriacus cultivar Beakdansim tig00110582_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: 57033
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Found at i:3802 original size:44 final size:44
Alignment explanation
Indices: 3739--3829 Score: 157
Period size: 44 Copynumber: 2.1 Consensus size: 44
3729 TGAAGTATAG
3739 GGCCATGAGGAAGTAGTTTGGAAAAATTGTAGAA-AAGTTCATAT
1 GGCCATGAGGAAGTAGTTTGGAAAAATTGTAGAACAA-TTCATAT
*
3783 GGCCATGAGGAAGTAGTTTGGAAAAATTGTAGAACAATTCCTAT
1 GGCCATGAGGAAGTAGTTTGGAAAAATTGTAGAACAATTCATAT
3827 GGC
1 GGC
3830 TTAGAAATAA
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 43 0.96
45 2 0.04
ACGTcount: A:0.36, C:0.10, G:0.27, T:0.26
Consensus pattern (44 bp):
GGCCATGAGGAAGTAGTTTGGAAAAATTGTAGAACAATTCATAT
Found at i:5561 original size:18 final size:18
Alignment explanation
Indices: 5526--5570 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
5516 TTCTCTTATT
*
5526 TTTATTTAAATTGCTTTTA
1 TTTATTT-AATTGATTTTA
5545 TTTATTTAATTGATTTTA
1 TTTATTTAATTGATTTTA
5563 -TTATTTAA
1 TTTATTTAA
5571 ATATCTCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.32
18 10 0.40
19 7 0.28
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.64
Consensus pattern (18 bp):
TTTATTTAATTGATTTTA
Found at i:14732 original size:21 final size:20
Alignment explanation
Indices: 14708--14756 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
14698 CTCTATTCTC
*
14708 TTATTTTTATTTAAATTGCTT
1 TTATTTTTATTT-AATCGCTT
14729 TTA--TTTATTTAATCGCTT
1 TTATTTTTATTTAATCGCTT
14747 TTATTATTTA
1 TTATT-TTTA
14757 AATATCTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 10 0.42
19 7 0.29
21 7 0.29
ACGTcount: A:0.24, C:0.06, G:0.04, T:0.65
Consensus pattern (20 bp):
TTATTTTTATTTAATCGCTT
Found at i:14748 original size:18 final size:18
Alignment explanation
Indices: 14713--14757 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
14703 TTCTCTTATT
*
14713 TTTATTTAAATTGCTTTTA
1 TTTATTT-AATCGCTTTTA
14732 TTTATTTAATCGCTTTTA
1 TTTATTTAATCGCTTTTA
14750 -TTATTTAA
1 TTTATTTAA
14758 ATATCTCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.32
18 10 0.40
19 7 0.28
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.62
Consensus pattern (18 bp):
TTTATTTAATCGCTTTTA
Found at i:16314 original size:19 final size:20
Alignment explanation
Indices: 16269--16315 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
16259 TCAAACGACC
16269 GAAAACATGTCATAAAGACAG
1 GAAAA-ATGTCATAAAGACAG
*
16290 GAAAAATGTTATAAAGACA-
1 GAAAAATGTCATAAAGACAG
16309 GAAAAAT
1 GAAAAAT
16316 ACGTGTCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 7 0.28
20 13 0.52
21 5 0.20
ACGTcount: A:0.57, C:0.09, G:0.17, T:0.17
Consensus pattern (20 bp):
GAAAAATGTCATAAAGACAG
Found at i:16329 original size:23 final size:21
Alignment explanation
Indices: 16276--16334 Score: 68
Period size: 23 Copynumber: 2.8 Consensus size: 21
16266 ACCGAAAACA
16276 TGTCATAAAGACAGGAAAAATG
1 TGTCATAAAGACA-GAAAAATG
16298 T-T-ATAAAGACAGAAAAATACG
1 TGTCATAAAGACAGAAAAAT--G
*
16319 TGTCATAAAGATAGAA
1 TGTCATAAAGACAGAA
16335 TTAATAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
19 7 0.22
20 9 0.28
21 3 0.09
22 2 0.06
23 11 0.34
ACGTcount: A:0.53, C:0.08, G:0.19, T:0.20
Consensus pattern (21 bp):
TGTCATAAAGACAGAAAAATG
Found at i:16841 original size:12 final size:13
Alignment explanation
Indices: 16826--16857 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
16816 AATTTCGAAT
16826 TAAAATAAA-TTA
1 TAAAATAAATTTA
16838 TAAAATAAATTTA
1 TAAAATAAATTTA
16851 TAAAATA
1 TAAAATA
16858 TAAGATAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
TAAAATAAATTTA
Found at i:17010 original size:39 final size:41
Alignment explanation
Indices: 16947--17023 Score: 113
Period size: 39 Copynumber: 1.9 Consensus size: 41
16937 ATATAAAATC
*
16947 TATGAAAAGCATACTATTAATTATATAT-ATTATAGTAAGA
1 TATGAAAAGCATACTATTAATTATATATAAATATAGTAAGA
* *
16987 TATGAGAA-CATATTATTAATTATATATAAATATAGTA
1 TATGAAAAGCATACTATTAATTATATATAAATATAGTA
17024 GGTTTTTGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 18 0.55
40 15 0.45
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (41 bp):
TATGAAAAGCATACTATTAATTATATATAAATATAGTAAGA
Found at i:21174 original size:15 final size:15
Alignment explanation
Indices: 21154--21185 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
21144 AGTTTTGCTC
21154 CTAGTGAAGATGCAT
1 CTAGTGAAGATGCAT
21169 CTAGTGAAGATGCAT
1 CTAGTGAAGATGCAT
21184 CT
1 CT
21186 GCTGTTGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (15 bp):
CTAGTGAAGATGCAT
Found at i:21845 original size:43 final size:43
Alignment explanation
Indices: 21779--22174 Score: 349
Period size: 43 Copynumber: 9.3 Consensus size: 43
21769 CAGAGTGCAT
* * ** *
21779 ATTTGGCGGCGTTTGT-TCTAAAAACAACGCTATAGGTCTGAC
1 ATTTTGCGGCGTTTGTATCCAAAAACGTCGCTATAGATCTGAC
* * *
21821 ATTTTTCGGCGTTTGTATCCAAAAACGTCGCTATAGATATGTC
1 ATTTTGCGGCGTTTGTATCCAAAAACGTCGCTATAGATCTGAC
* * *
21864 ATTTTTCGGTGTTTGTATTCAAAAACGTCGCTATAGATCTGAC
1 ATTTTGCGGCGTTTGTATCCAAAAACGTCGCTATAGATCTGAC
* * *
21907 CTTTTGCGGCGTTTGT-TCCAAAAATGTCACTATAGATCTGAC
1 ATTTTGCGGCGTTTGTATCCAAAAACGTCGCTATAGATCTGAC
* * * * *
21949 CTTTTGCGGCGTTTGTA-CCAAAAAATGCCGCTATATAACTGAC
1 ATTTTGCGGCGTTTGTATCC-AAAAACGTCGCTATAGATCTGAC
* * * *
21992 CTTTTGCGGCGTTTGT-TCC-AAAATGCCGCTATAGATCTGAT
1 ATTTTGCGGCGTTTGTATCCAAAAACGTCGCTATAGATCTGAC
* * * ** *
22033 ATTTTGCGGCGTTTGTATCAAAAAATGCCGCTATAGAAATTAC
1 ATTTTGCGGCGTTTGTATCCAAAAACGTCGCTATAGATCTGAC
* * * *
22076 CTTTTGCGGCGTTTGT-TCTAAAAACG-CTGGTATAGATCTCTAC
1 ATTTTGCGGCGTTTGTATCCAAAAACGTC-GCTATAGATCT-GAC
* * * * *
22119 CTTTTGCGGCGTTTGT-TCCGAAAACGCCGCAATAGATCTTGAT
1 ATTTTGCGGCGTTTGTATCCAAAAACGTCGCTATAGATC-TGAC
*
22162 TTTTTGCGGCGTT
1 ATTTTGCGGCGTT
22175 CTTTTGTTCT
Statistics
Matches: 300, Mismatches: 44, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
41 35 0.12
42 73 0.24
43 190 0.63
44 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (43 bp):
ATTTTGCGGCGTTTGTATCCAAAAACGTCGCTATAGATCTGAC
Found at i:21981 original size:85 final size:84
Alignment explanation
Indices: 21779--22174 Score: 382
Period size: 85 Copynumber: 4.7 Consensus size: 84
21769 CAGAGTGCAT
* * * ** * * *
21779 ATTTGGCGGCGTTTGTTCTAAAAACAACGCTATAGGTCTGACATTTTTCGGCGTTTGTATCCAAA
1 ATTTTGCGGCGTTTGTACCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGT-TCCAAA
* *
21844 AACGTCGCTATAGATATGTC
65 AACGTCGCTATAGATCTGAC
* * * *
21864 ATTTTTCGGTGTTTGTATTCAAAAACGTCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCCAAA
1 ATTTTGCGGCGTTTGTA-CCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCCAAA
* *
21929 AATGTCACTATAGATCTGAC
65 AACGTCGCTATAGATCTGAC
* * * *
21949 CTTTTGCGGCGTTTGTACCAAAAAATGCCGCTATATAACTGACCTTTTGCGGCGTTTGTTCC-AA
1 ATTTTGCGGCGTTTGTACC-AAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCCAAA
* * *
22013 AATGCCGCTATAGATCTGAT
65 AACGTCGCTATAGATCTGAC
* * ** * *
22033 ATTTTGCGGCGTTTGTATCAAAAAATGCCGCTATAGAAATTACCTTTTGCGGCGTTTGTTCTAAA
1 ATTTTGCGGCGTTTGTA-CCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCCAAA
* *
22098 AACG-CTGGTATAGATCTCTAC
65 AACGTC-GCTATAGATCT-GAC
* * * * **
22119 CTTTTGCGGCGTTTGTTCCGAAAACGCCGCAATAGATCTTGATTTTTTGCGGCGTT
1 ATTTTGCGGCGTTTGTACCAAAAACGCCGCTATAGATC-TGACCTTTTGCGGCGTT
22175 CTTTTGTTCT
Statistics
Matches: 257, Mismatches: 47, Indels: 13
0.81 0.15 0.04
Matches are distributed among these distances:
84 75 0.29
85 118 0.46
86 64 0.25
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (84 bp):
ATTTTGCGGCGTTTGTACCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCCAAAA
ACGTCGCTATAGATCTGAC
Found at i:22123 original size:212 final size:213
Alignment explanation
Indices: 21784--22174 Score: 497
Period size: 212 Copynumber: 1.8 Consensus size: 213
21774 TGCATATTTG
* * * * *
21784 GCGGCGTTTGTTCTAAAAACAACGCTATAGGTCTGACATTTTTCGGCGTTTGTATCCAAAAACGT
1 GCGGCGTTTGTTCCAAAAAC-ACGCTATAGATCTGACATTTTGCGGCGTTTGTATCAAAAAACGC
* * *
21849 CGCTATAGATATGTCATTTTTCGGTGTTTGTATTCAAAAACGTCGCTATAGATCTGACCTTTTGC
65 CGCTATAGAAATGTCATTTTGCGGCGTTTGTATTCAAAAACGTCGCTATAGATCTGACCTTTTGC
* * *
21914 GGCGTTTGTTCCAAAAATGTCACTATAGATC-TGACCTTTTGCGGCGTTTGTACCAAAAAATGCC
130 GGCGTTTGTTCCAAAAACGCCACAATAGATCTTGACCTTTTGCGGCGTTTGTACCAAAAAATGCC
21978 GCTATATAACTGACCTTTT
195 GCTATATAACTGACCTTTT
* * *
21997 GCGGCGTTTGTTCCAAAATGC-CGCTATAGATCTGATATTTTGCGGCGTTTGTATCAAAAAATGC
1 GCGGCGTTTGTTCCAAAA-ACACGCTATAGATCTGACATTTTGCGGCGTTTGTATCAAAAAACGC
* * *
22061 CGCTATAGAAAT-TACCTTTTGCGGCGTTTG--TTCTAAAAACG-CTGGTATAGATCTCTACCTT
65 CGCTATAGAAATGT-CATTTTGCGGCGTTTGTATTC-AAAAACGTC-GCTATAGATCT-GACCTT
* * **
22122 TTGCGGCGTTTGTTCCGAAAACGCCGCAATAGATCTTGATTTTTTGCGGCGTT
126 TTGCGGCGTTTGTTCCAAAAACGCCACAATAGATCTTGACCTTTTGCGGCGTT
22175 CTTTTGTTCT
Statistics
Matches: 151, Mismatches: 21, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
210 4 0.03
211 18 0.12
212 96 0.64
213 32 0.21
214 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (213 bp):
GCGGCGTTTGTTCCAAAAACACGCTATAGATCTGACATTTTGCGGCGTTTGTATCAAAAAACGCC
GCTATAGAAATGTCATTTTGCGGCGTTTGTATTCAAAAACGTCGCTATAGATCTGACCTTTTGCG
GCGTTTGTTCCAAAAACGCCACAATAGATCTTGACCTTTTGCGGCGTTTGTACCAAAAAATGCCG
CTATATAACTGACCTTTT
Found at i:28397 original size:12 final size:12
Alignment explanation
Indices: 28349--28404 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
28339 GGGAATTGGG
*
28349 TTTTGTTGTTGT
1 TTTTGTTATTGT
* *
28361 TGTTGTTGTTG-
1 TTTTGTTATTGT
*
28372 TTTTGTT-TTCT
1 TTTTGTTATTGT
*
28383 TTTTTTTATTGT
1 TTTTGTTATTGT
28395 TTTTGTTATT
1 TTTTGTTATT
28405 TATTTCCTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
10 2 0.06
11 12 0.33
12 22 0.61
ACGTcount: A:0.04, C:0.02, G:0.18, T:0.77
Consensus pattern (12 bp):
TTTTGTTATTGT
Found at i:36187 original size:18 final size:18
Alignment explanation
Indices: 36147--36187 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
36137 GTCTCGTATG
* *
36147 ACCAATATGTCACGAAGG
1 ACCACTATGTCACGAAGA
*
36165 ACCACTATGTCTCGAAGA
1 ACCACTATGTCACGAAGA
36183 ACCAC
1 ACCAC
36188 ATAGAACACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.29, G:0.17, T:0.17
Consensus pattern (18 bp):
ACCACTATGTCACGAAGA
Found at i:37187 original size:20 final size:20
Alignment explanation
Indices: 37162--37212 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
37152 GTTTAGAGTA
*
37162 GGTATCGGTACCCTCTATAG
1 GGTATCGATACCCTCTATAG
37182 GGTATCGATACCCTCTATAG
1 GGTATCGATACCCTCTATAG
37202 GGTATCGATAC
1 GGTATCGATAC
37213 ATCCCTTAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (20 bp):
GGTATCGATACCCTCTATAG
Found at i:39965 original size:144 final size:145
Alignment explanation
Indices: 39613--40134 Score: 586
Period size: 144 Copynumber: 3.6 Consensus size: 145
39603 CTCAAATATG
* * * ** * *
39613 AGACAATAAATAATTTTAATTGATATAGAATCTTAACTATTCACGTTGTTATGGTTTCAATGAAA
1 AGACAAT-AATAATTTCAATGGATAAAGAATCTTAACTATTCACGTCCTTATGCTTTCAGTGAAA
* * *
39678 CATCACCTCATATCAAAAGT-TATTTTATATTGACACATAGCGAA-CATGTAATTA-ATTGTTAT
65 CATCACCTCATATCAAAAGTAT-TTTTATATTGACACATAAC-AATCATGTAATTATA-GGTGAT
*
39740 CTGAAAAAAAAATCAAATCCA
127 CT--AAAAAAAATCAAATTCA
* * *
39761 TGACAATAATAATTTCAATGGATAAAGAATCTTAACTATTCACGCCCTTATGGTTTCAGTGAAAC
1 AGACAATAATAATTTCAATGGATAAAGAATCTTAACTATTCACGTCCTTATGCTTTCAGTGAAAC
* * * *
39826 ATCGCCTCATATGATAAGTATTTTTATATTGACACATAACAATCATGTAATTATAGGTGAT-TTA
66 ATCACCTCATATCAAAAGTATTTTTATATTGACACATAACAATCATGTAATTATAGGTGATCTAA
*
39890 AAAAAATTAAATTCA
131 AAAAAATCAAATTCA
* * *
39905 AGATAATAATAATTTCAATGGATAGAGAATCTTAATTATTCACGTCCTTATGCTTTCAGTGAAAC
1 AGACAATAATAATTTCAATGGATAAAGAATCTTAACTATTCACGTCCTTATGCTTTCAGTGAAAC
* * * * * * * *
39970 ATCACCTTATATCAAAAGTAGTTTTATATTGGCACATAATAGTCAAGTAATTATAGGTGCTCCGA
66 ATCACCTCATATCAAAAGTATTTTTATATTGACACATAACAATCATGTAATTATAGGTGAT-CTA
*
40035 AAAAATATCAAA-TCTA
130 AAAAAAATCAAATTC-A
* * * * * *
40051 GGACAATAATAATTTCAATGGATAAAAAATCTTAATTATTCACATTCTTATGCTTTTAGTGAAAC
1 AGACAATAATAATTTCAATGGATAAAGAATCTTAACTATTCACGTCCTTATGCTTTCAGTGAAAC
* *
40116 ATCACCTCAAATCGAAAGT
66 ATCACCTCATATCAAAAGT
40135 TCGAATATCA
Statistics
Matches: 321, Mismatches: 47, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
144 124 0.39
145 2 0.01
146 88 0.27
147 99 0.31
148 8 0.02
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (145 bp):
AGACAATAATAATTTCAATGGATAAAGAATCTTAACTATTCACGTCCTTATGCTTTCAGTGAAAC
ATCACCTCATATCAAAAGTATTTTTATATTGACACATAACAATCATGTAATTATAGGTGATCTAA
AAAAAATCAAATTCA
Found at i:45651 original size:23 final size:23
Alignment explanation
Indices: 45625--45676 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
45615 AATAACATAT
* **
45625 TAGGTAGCTCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
45648 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
45671 TAGGTA
1 TAGGTA
45677 TTTAACCGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:45736 original size:87 final size:87
Alignment explanation
Indices: 45598--45827 Score: 370
Period size: 87 Copynumber: 2.6 Consensus size: 87
45588 CATTTAGCTA
* *
45598 GAAATATTATCAAGTACAATAACATATTAGGTAGCTCTTATATAATGTAATAGGTAGCGCTTATA
1 GAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATATAATAGGTAGCGCTTATA
*
45663 TAATAAAATAGGTATTTAACCG
66 TAATAAAATAAGTATTTAACCG
* * *
45685 GAAATATTATCAAATACAATAACATATTAGGTAACGCTTATATAATATAATAGATAGCGCTTATA
1 GAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATATAATAGGTAGCGCTTATA
45750 TAATAAAATAAGTATTTAACCG
66 TAATAAAATAAGTATTTAACCG
* * * *
45772 GAAATATTATCAAGTATAATAACATATTTGGTAGCGTTTATATAATAAAATAGGTA
1 GAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATATAATAGGTA
45828 TTTAACCAGA
Statistics
Matches: 130, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 130 1.00
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.33
Consensus pattern (87 bp):
GAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATATAATAGGTAGCGCTTATA
TAATAAAATAAGTATTTAACCG
Found at i:45813 original size:64 final size:64
Alignment explanation
Indices: 45739--45878 Score: 235
Period size: 64 Copynumber: 2.2 Consensus size: 64
45729 ATATAATAGA
* * *
45739 TAGCGCTTATATAATAAAATAAGTATTTAACCGGAAATATTATCAAGTATAATAACATATTTGG
1 TAGCGCTTATATAATAAAATAAGTATTTAACCAGAAATATTATCAAGTACAATAACATATTAGG
* *
45803 TAGCGTTTATATAATAAAATAGGTATTTAACCAGAAATATTATCAAGTACAATAACATATTAGG
1 TAGCGCTTATATAATAAAATAAGTATTTAACCAGAAATATTATCAAGTACAATAACATATTAGG
45867 TAGCGCTTATAT
1 TAGCGCTTATAT
45879 TGATCTATTT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 70 1.00
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (64 bp):
TAGCGCTTATATAATAAAATAAGTATTTAACCAGAAATATTATCAAGTACAATAACATATTAGG
Found at i:46336 original size:198 final size:198
Alignment explanation
Indices: 45896--46359 Score: 612
Period size: 198 Copynumber: 2.3 Consensus size: 198
45886 TTTTCTAACT
* * *
45896 AAACCGGTATATTTATACCGGTAACATTATAAATTTACCTATTACATTATAATTATTGGTTTCGA
1 AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
*
45961 TATTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTACACCTCGTTGGGCATTC
66 TGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTACACCTCGTTGGGCATTC
* * *
46026 ATTCTGGAAAAAAGTATTGACACAAACTTAAAACGTGTCGATACATTATATAGACTTATTTTCTC
131 ATTCTGGAAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATTATATAGACCTATTCTCTC
46091 ATA
196 ATA
* * * *
46094 AAACCGGTATATTTCTACCGGGTACATTGTAAATTTACCTATTACATTGTAATTATCGGTTTTGA
1 AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* * * * *
46159 TGTTTTTGGGATCGATAC-TTTTAATAAATGTTTCGACACTTTATGCGTGCACCTTGTTTGGCAT
66 TGTTTTTGGGATCGATACAATTT--TAAATGTATCGACACTTTATGCGTACACCTCGTTGGGCAT
* * *** ** * * *
46223 TCATTTTGGACAAAATGTATCGACAC-TTTTTAAATTTGTTTCGATACATTATGTTGACCTATTC
129 TCATTCTGGA-AAAAAGTATCGACACAAACTTAAA-ACGTGTCGATACATTATATAGACCTATTC
46287 TCTCATA
192 TCTCATA
* *
46294 AAACCGATATA-TTATACCGGTTACATTGTAAA-TTATCTATTACATTATAATTATCGGTTTCGA
1 AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
46357 TGT
66 TGT
46360 AACATATGTG
Statistics
Matches: 230, Mismatches: 32, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
197 3 0.01
198 106 0.46
199 69 0.30
200 52 0.23
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (198 bp):
AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
TGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTACACCTCGTTGGGCATTC
ATTCTGGAAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATTATATAGACCTATTCTCTC
ATA
Found at i:46495 original size:33 final size:35
Alignment explanation
Indices: 46455--46544 Score: 98
Period size: 33 Copynumber: 2.6 Consensus size: 35
46445 TCTTATTATA
46455 ATAAATAATAAATATAAT-TTATAATAATTTTATTT
1 ATAAAT-ATAAATATAATATTATAATAATTTTATTT
**
46490 -T-AATA-AAATATAATAATTATAATTTTTTTATTT
1 ATAAATATAAATATAAT-ATTATAATAATTTTATTT
46523 ATAAAATTATAAATATAATATT
1 AT-AAA-TATAAATATAATATT
46545 TTAAGAATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
31 9 0.20
32 1 0.02
33 18 0.39
34 2 0.04
36 2 0.04
37 5 0.11
38 9 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (35 bp):
ATAAATATAAATATAATATTATAATAATTTTATTT
Found at i:46501 original size:31 final size:29
Alignment explanation
Indices: 46460--46547 Score: 83
Period size: 31 Copynumber: 2.9 Consensus size: 29
46450 TTATAATAAA
46460 TAAT-AAATATAATTTATAATAATTTTATTT
1 TAATAAAATATAATTTATAAT-ATTTTA-TT
*
46490 TAATAAAATATAATAATTATAATTTTTTTATT
1 TAATAAAATATAAT--TTATAA-TATTTTATT
*
46522 T-ATAAAATTATAA-ATATAATATTTTA
1 TAATAAAA-TATAATTTATAATATTTTA
46548 AGAATAATAT
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
28 6 0.12
29 5 0.10
30 4 0.08
31 15 0.30
32 8 0.16
33 11 0.22
34 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (29 bp):
TAATAAAATATAATTTATAATATTTTATT
Found at i:46791 original size:17 final size:17
Alignment explanation
Indices: 46769--46804 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
46759 ATATCGTGTC
46769 TTTTTTCATTAGTTATA
1 TTTTTTCATTAGTTATA
46786 TTTTTTCATTAGTTATA
1 TTTTTTCATTAGTTATA
46803 TT
1 TT
46805 GTGGCAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.06, G:0.06, T:0.67
Consensus pattern (17 bp):
TTTTTTCATTAGTTATA
Found at i:47267 original size:33 final size:35
Alignment explanation
Indices: 47227--47316 Score: 98
Period size: 33 Copynumber: 2.6 Consensus size: 35
47217 TCTTATTATA
47227 ATAAATAATAAATATAAT-TTATAATAATTTTATTT
1 ATAAAT-ATAAATATAATATTATAATAATTTTATTT
**
47262 -T-AATA-AAATATAATAATTATAATTTTTTTATTT
1 ATAAATATAAATATAAT-ATTATAATAATTTTATTT
47295 ATAAAATTATAAATATAATATT
1 AT-AAA-TATAAATATAATATT
47317 TTAAGAATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
31 9 0.20
32 1 0.02
33 18 0.39
34 2 0.04
36 2 0.04
37 5 0.11
38 9 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (35 bp):
ATAAATATAAATATAATATTATAATAATTTTATTT
Found at i:47273 original size:31 final size:29
Alignment explanation
Indices: 47232--47319 Score: 83
Period size: 31 Copynumber: 2.9 Consensus size: 29
47222 TTATAATAAA
47232 TAAT-AAATATAATTTATAATAATTTTATTT
1 TAATAAAATATAATTTATAAT-ATTTTA-TT
*
47262 TAATAAAATATAATAATTATAATTTTTTTATT
1 TAATAAAATATAAT--TTATAA-TATTTTATT
*
47294 T-ATAAAATTATAA-ATATAATATTTTA
1 TAATAAAA-TATAATTTATAATATTTTA
47320 AGAATAATAT
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
28 6 0.12
29 5 0.10
30 4 0.08
31 15 0.30
32 8 0.16
33 11 0.22
34 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (29 bp):
TAATAAAATATAATTTATAATATTTTATT
Found at i:47564 original size:17 final size:17
Alignment explanation
Indices: 47542--47574 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
47532 TATCGTGTCC
47542 TTTTTCATTAGTTATAT
1 TTTTTCATTAGTTATAT
47559 TTTTTCATTAGTTATA
1 TTTTTCATTAGTTATA
47575 CTGTGGCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.64
Consensus pattern (17 bp):
TTTTTCATTAGTTATAT
Found at i:47682 original size:24 final size:24
Alignment explanation
Indices: 47650--47698 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
47640 ATTAAAGGTC
*
47650 TATTTTTACCGGTTTTGTTATTGT
1 TATTTTTACCGATTTTGTTATTGT
47674 TATTTTTACCGATTTTGTTATTGT
1 TATTTTTACCGATTTTGTTATTGT
47698 T
1 T
47699 GGGTATAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.14, C:0.08, G:0.14, T:0.63
Consensus pattern (24 bp):
TATTTTTACCGATTTTGTTATTGT
Found at i:48549 original size:21 final size:21
Alignment explanation
Indices: 48510--48550 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
48500 CGGTAAATAT
* *
48510 TACCTAAAACATTATTATTTC
1 TACCTAAAACATCAATATTTC
*
48531 TACCTAAAATATCAATATTT
1 TACCTAAAACATCAATATTT
48551 TTTAACATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.41
Consensus pattern (21 bp):
TACCTAAAACATCAATATTTC
Found at i:48843 original size:29 final size:28
Alignment explanation
Indices: 48811--48919 Score: 78
Period size: 29 Copynumber: 3.8 Consensus size: 28
48801 TAATTAATGA
48811 TATATTATTTTTATTATAATAATATAATT
1 TATATTATTTTTATTATAATAATATAA-T
* * *
48840 TATAATAATTTTATTTTAATGAAATATAAT
1 TATATTATTTTTATTATAAT--AATATAAT
* *
48870 AATCTTAATTTTTATTTATAA-AATATAGA-
1 TATATT-ATTTTTA-TTATAATAATATA-AT
* * *
48899 TATAATATTTTAATAATAATA
1 TATATTATTTTTATTATAATA
48920 TTGACATAAA
Statistics
Matches: 61, Mismatches: 13, Indels: 13
0.70 0.15 0.15
Matches are distributed among these distances:
27 5 0.08
28 7 0.11
29 26 0.43
30 5 0.08
31 13 0.21
32 5 0.08
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (28 bp):
TATATTATTTTTATTATAATAATATAAT
Found at i:48855 original size:15 final size:15
Alignment explanation
Indices: 48819--48859 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
48809 GATATATTAT
48819 TTTTA-TTATAATAA
1 TTTTATTTATAATAA
* *
48833 TATAATTTATAATAA
1 TTTTATTTATAATAA
48848 TTTTATTT-TAAT
1 TTTTATTTATAAT
48860 GAAATATAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTTATTTATAATAA
Found at i:49209 original size:786 final size:782
Alignment explanation
Indices: 47371--51925 Score: 6141
Period size: 786 Copynumber: 5.8 Consensus size: 782
47361 ATATTTAACA
* *
47371 AAATAATATTATTTTATTGTATTTGATGTTTATAATTATATTGTAATTATGATTATTTTTTATCA
1 AAATAATATTA-TTTATTGTATTTGATGTTTATAGTTATATTGTAATTATGATTATTTTTCATCA
*
47436 CTTCATTATGATTATTTTTTTAAAAATTATATTGTAATTATATATATTTTTTTATTTTTTTATTT
65 CTTCATTATGA-T-TTTTTTT-AAAATTATATTGTAATTATATATAATTTTTT-TTTTTTTATTT
* *
47501 TACTATTAGAAAGCTAATATCGAAATAGAAATATCGTGTCCTTTTTCATTAGTTATATTTTTTCA
126 T-TTATTAGAAAGCTAATATCGAAATAGAAATACCGTG-CC-----C--------T-TTTTTTCA
* * *
47566 TTAGTTATACTGTGGCAACTTACAAATTAAAAAATTAA--AATTAATTTGTATAATTTGTGTTTA
175 TTAGTTATATTGTGGCAACTTACAAACTAAAAAATTAATTAATTAA-TTGTATAAGTTGTGTTTA
*
47629 CTAATTTTATCATTAAAGGTCTATTTTTACCGGTTTTGTTATTGTTATTTTTACCGATTTTGTTA
239 CTAATTTTATCATTAAA-----A-----A--------G----T-TTATTTTTACCGGTTTTGTTA
* * *
47694 TTGTTGGGTATAACAAAACTGGTAAAAATTACCTAAAACATTATTATTTCTACTTAAAACATCAA
281 TTGTTGGGCATAACAAAACCGGTAAAAATTACCTAAAACATTATTATTTCTACCTAAAACATCAA
* * *
47759 TTTTTTTAACATTTCCGGTAAAATGCCCAATAATAACAAAACCTGTAAAAAAAAGGAACAAAATC
346 TTTTTTTAACATTTCCGGTAAAATGCCCAACAATAACAAAACCGGT-AAAAAAA-TAACAAAATC
* * *
47824 GGTAACGCTTTACCGGTTTTATTAAAATAATGATGTTTTCGGTAATTTTTATCGGTTTTGTTATT
409 GGTAGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTAATTTTTACCGGTTTTGTTATT
* ** * *
47889 GTTGTATACCGGTTACATTGTAAATTTGTCTATTACATTATAATTATCGGCTTCGATGTACCATA
474 GTTGTATACCGATTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTAACATA
* *
47954 TGTGTCAATACTTTAAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTATAATATAAT
539 TGTGTCGATACTTTTAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTATAATATAAT
*
48019 TAATGATATATTATTTTTATTATAATAAATAACAAATAATTTAT-ATAATTTTATTTAAATAAAA
604 TAATG--ATATTATTTTTATTATAAT-AAT-----ATAATTTATAATAATTTTATTTTAATAAAA
48083 TATAATAATCATAATTTTT-TTTATAAAACTATAGATATAATATTTTAATAATAATATTGACATA
661 TATAATAATCATAATTTTTATTTATAAAACTATAGATATAATATTTTAATAATAATATTGACATA
* *
48147 AATAATATTAAATAATTTATTCTAATATTTTAAAACTAATATTATTATTTTGTTAAT
726 AATAATATTAAATAAATTATTCTAATATTTTAAAAATAATATTATTATTTTGTTAAT
*
48204 AAATAATATTATTTTATTGTATTTAATGTTTATAGTTATATTGTAATTATGATTATTTTTCATCA
1 AAATAATATTA-TTTATTGTATTTGATGTTTATAGTTATATTGTAATTATGATTATTTTTCATCA
** * *
48269 CTTCATTACAATTATTTTTTAAAATTATATTGTAATTATAAATAATTTTTTTTATTTTA----TT
65 CTTCATTATGATT-TTTTTTAAAATTATATTGTAATTATATATAATTTTTTTTTTTTTATTTTTT
48330 ATTAGAAAGCTAATATCGAAATAGAAATACCGTGCCCTTTTTTTCATTAGTTATATTGTGGCAAC
129 ATTAGAAAGCTAATATCGAAATAGAAATACCGTGCCCTTTTTTTCATTAGTTATATTGTGGCAAC
48395 TTACAAACTAAAAAATTAA--AATTAATTTGTATAAGTTGTGTTTACTAATTTTATCATTAAAAA
194 TTACAAACTAAAAAATTAATTAATTAA-TTGTATAAGTTGTGTTTACTAATTTTATCATTAAAAA
*
48458 GTTTATTTTTACCGGTTTTGTTATTGTTGGGCATAACAAAACCGGTAAATATTACCTAAAACATT
258 GTTTATTTTTACCGGTTTTGTTATTGTTGGGCATAACAAAACCGGTAAAAATTACCTAAAACATT
*
48523 ATTATTTCTACCTAAAATATCAATATTTTTTAACATTTCCGGTAAAATGCCCAACAATAACAAAA
323 ATTATTTCTACCTAAAACATCAAT-TTTTTTAACATTTCCGGTAAAATGCCCAACAATAACAAAA
* *
48588 CCGGTAAAAAAATAACAAAACCGGTAGCGTTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGT
387 CCGGTAAAAAAATAACAAAATCGGTAGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGT
* *
48653 AATTTTTACTGGTTTTGTTATTGTTGTATACCGATCACATTGTAAATTTACCTATTACATTATAA
452 AATTTTTACCGGTTTTGTTATTGTTGTATACCGATTACATTGTAAATTTACCTATTACATTATAA
48718 TTATCGGTTTCGATGTAACATATGTGTCGATACTTTTAGAAAATGTATCGACACATATGTTTAAC
517 TTATCGGTTTCGATGTAACATATGTGTCGATACTTTTAGAAAATGTATCGACACATATGTTTAAC
48783 TATTCTCTCATTATAATATAATTAATGATATATTATTTTTATTATAATAATATAATTTATAATAA
582 TATTCTCTCATTATAATATAATTAATG--ATATTATTTTTATTATAATAATATAATTTATAATAA
* *
48848 TTTTATTTTAATGAAATATAATAATCTTAATTTTTATTTATAAAA-TATAGATATAATATTTTAA
645 TTTTATTTTAATAAAATATAATAATCATAATTTTTATTTATAAAACTATAGATATAATATTTTAA
* *
48912 TAATAATATTGACATAAAT-ATATTAAATAAATTATCCTAATATTTTAAAAATAATAGTATTATT
710 TAATAATATTGACATAAATAATATTAAATAAATTATTCTAATATTTTAAAAATAATATTATTATT
48976 TT-TTAAT
775 TTGTTAAT
* *
48983 -AA-AATATTA-TT-TT-TATTTGATGTTTATAGTTATATTGTAATTATGATTATTTTTCAGCAT
1 AAATAATATTATTTATTGTATTTGATGTTTATAGTTATATTGTAATTATGATTATTTTTCATCAC
*
49043 TTCATTATGATTTTTTTTAAAACTATATTGTAATTATATATAATTTTTTATTTTTTTATTTTTTA
66 TTCATTATGATTTTTTTTAAAATTATATTGTAATTATATATAATTTTTT-TTTTTTTATTTTTTA
*
49108 TTAGAAAGCTAATATCGAAATAGAAATACCGTGTCCTTTTTTTCATTAGTTATATTGTGGCAACT
130 TTAGAAAGCTAATATCGAAATAGAAATACCGTGCCCTTTTTTTCATTAGTTATATTGTGGCAACT
* *
49173 TACAAACTAAAAAATTAA--AATTAATTTGTATAATTTGTGATTACTAATTTTATCATTAAAAGG
195 TACAAACTAAAAAATTAATTAATTAA-TTGTATAAGTTGTGTTTACTAATTTTATCATT--AA--
* *
49236 TCTATTTTTACCGATTTTGTTATTGTTATTTTTACTGATTTTGTTATTGTTGGGCATAACAAAAC
255 ---A-----A---A----G----T-TTATTTTTACCGGTTTTGTTATTGTTGGGCATAACAAAAC
* *
49301 CGGTAAAAATTACCT-AAACATTATTATTTCTACTTAAAACATCAATGTTTTTAACATTTCCGGT
300 CGGTAAAAATTACCTAAAACATTATTATTTCTACCTAAAACATCAATTTTTTTAACATTTCCGGT
* * * * *
49365 AAAAT-ACCAATAATAACAAAACCTGTAAAAAAAGAACAAAATCGGTAGAGCTTTACCGGTTTTG
365 AAAATGCCCAACAATAACAAAACCGGTAAAAAAATAACAAAATCGGTAGCGCTTTACCGGTTTTG
*
49429 TTAAAATAATGATGTTTTCGGTAATTTTTACCGGTTTTGTTATTGTCGTATACCGATTACATTGT
430 TTAAAATAATGATGTTTTCGGTAATTTTTACCGGTTTTGTTATTGTTGTATACCGATTACATTGT
* * * * *
49494 AAATTTGCCTATTACATTATAATTATCGGTTTCGATGTACCATATGTGTCAATAGTTTAAGAAAA
495 AAATTTACCTATTACATTATAATTATCGGTTTCGATGTAACATATGTGTCGATACTTTTAGAAAA
49559 TGTATCGACACATATGTTTAACTATTCTCTCATTATAATATAATTAATGATATATTATTTTTATT
560 TGTATCGACACATATGTTTAACTATTCTCTCATTATAATATAATTAATG--ATATTATTTTTA-T
49624 ATAATAAATAACAAATATAATTTATAATAA-TTTATTTTAATAAAATATAATAATCATAATTTTT
622 -T-AT-AAT----AATATAATTTATAATAATTTTATTTTAATAAAATATAATAATCATAA-TTTT
*
49688 TATTTATAAAACTATAGATATAATATTTTAATAATAATATTGACATAAATAATATTAAATAATTT
679 TATTTATAAAACTATAGATATAATATTTTAATAATAATATTGACATAAATAATATTAAATAAATT
* *
49753 ATTCTAATATTTTAAAACTAATATTATTTTTTTGTTAAT
744 ATTCTAATATTTTAAAAATAATATTATTATTTTGTTAAT
*
49792 AAATAATATTATTTTATTGTATTTAATGTTTATAGTTATATTGTAATTATGATTATTTTTCATCA
1 AAATAATATTA-TTTATTGTATTTGATGTTTATAGTTATATTGTAATTATGATTATTTTTCATCA
**
49857 CTTCATTACAATTATTTTTTAAAATTATATTGTAA-T-TATATAA----TTTTTTTTTA--TTTT
65 CTTCATTATGATT-TTTTTTAAAATTATATTGTAATTATATATAATTTTTTTTTTTTTATTTTTT
*
49914 ATTAGAAAACTAATATCGAAATAGAAATACCGTGCCCTTTTTTTCATTAGTTATATTGTGGCAAC
129 ATTAGAAAGCTAATATCGAAATAGAAATACCGTGCCCTTTTTTTCATTAGTTATATTGTGGCAAC
*
49979 TTACAAACTAAAAAATTAA--AATTAATTTATATAAGTTGTGTTTACTAATTTTATCATTAAAAA
194 TTACAAACTAAAAAATTAATTAATTAA-TTGTATAAGTTGTGTTTACTAATTTTATCATTAAAAA
50042 GTTTATTTTTACCGGTTTTGTTATTGTTGGGCATAACAAAACCGGTTAAAAATTACCTAAAACAT
258 GTTTATTTTTACCGGTTTTGTTATTGTTGGGCATAACAAAACCGG-TAAAAATTACCTAAAACAT
* **
50107 TATTATTTCTACCTAAAACATCAAAGTTTTTTAACATTTCCAAT-AAATGCCCAACAATAACAAA
322 TATTATTTCTACCTAAAACATC-AATTTTTTTAACATTTCCGGTAAAATGCCCAACAATAACAAA
* *
50171 ATCGGTAAAAAAAATAACAAAACCGGTAGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCG
386 ACCGGT-AAAAAAATAACAAAATCGGTAGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCG
*
50236 GTAATTTTTACCGGTTTTGTTATTGTTGTATACCGGTTACATTGTAAATTTACCTATTACATTAT
450 GTAATTTTTACCGGTTTTGTTATTGTTGTATACCGATTACATTGTAAATTTACCTATTACATTAT
50301 AA-TATCGGTTTCGATGTAACATATGTGTCGATACTTTTAGAAAATGTATCGACACATATGTTTA
515 AATTATCGGTTTCGATGTAACATATGTGTCGATACTTTTAGAAAATGTATCGACACATATGTTTA
* * *
50365 ACTATTCACTCATTCTAATATAATTAATGATATTATTTTTATTATAAAAATATAAATAATT-TAA
580 ACTATTCTCTCATTATAATATAATTAATGATATTATTTTTATTATAATAATAT-AAT--TTATAA
* * *
50429 TAATTTTATTTTAATGAAATATAATAATCTTAATTTTTATTTATAAAATTATAGATATAATA-TT
642 TAATTTTATTTTAATAAAATATAATAATCATAATTTTTATTTATAAAACTATAGATATAATATTT
50493 TAATAATAATATTGACATAAATAATATTAAATAAATTATTCTAATATTTT-AAAAT-A-A-TA-T
707 TAATAATAATATTGACATAAATAATATTAAATAAATTATTCTAATATTTTAAAAATAATATTATT
50553 ATTTTG-TAAT
772 ATTTTGTTAAT
*
50563 -AATAATATTATTTTGTGTGTATTTGATGTTTATAGTTATATTGTAATTATGATTATTTTTCATC
1 AAATAATATTA-TTTAT-TGTATTTGATGTTTATAGTTATATTGTAATTATGATTATTTTTCATC
* * * *
50627 GCTTTA-T-TGA-TTTTTTTAAAAATATATTGTAA-T-TATATAATTTTTTATTTTTTATTTTAT
64 ACTTCATTATGATTTTTTTTAAAATTATATTGTAATTATATATAATTTTTTTTTTTTTATTTT-T
*
50687 TATTAGAAAG-TAATATCGAAATAG--A-ACC-TGTCC-TTTTTTCATTAGTTATATTGTGGCAA
128 TATTAGAAAGCTAATATCGAAATAGAAATACCGTGCCCTTTTTTTCATTAGTTATATTGTGGCAA
*
50746 CTTACAAACT-AAAAA-T--TTAATTAATTGTATAATTTGTGTTTACTAA--TTATCATT-AAAA
193 CTTACAAACTAAAAAATTAATTAATTAATTGTATAAGTTGTGTTTACTAATTTTATCATTAAAAA
* * *
50804 -TCTATTTTTACCGGTTTTGTTATTGTTAGGCATAACAAAA-CGGTAAAAATTACCTAAAATATT
258 GTTTATTTTTACCGGTTTTGTTATTGTTGGGCATAACAAAACCGGTAAAAATTACCTAAAACATT
50867 A-T-TTTCTACCTAAAACATCAATGTTTTTTAACATTTCCGGTAAAATGCCCAACAATAACAAAA
323 ATTATTTCTACCTAAAACATCAAT-TTTTTTAACATTTCCGGTAAAATGCCCAACAATAAC-AAA
50930 ACCGGT-AAAAAATAACAAAATCGGTAGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGG
386 ACCGGTAAAAAAATAACAAAATCGGTAGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGG
* *
50994 TAATTTTTACCGGTTTTGTTGTTGTTGTATACCGTTTACATTGTAAATTTACCTATTACATTATA
451 TAATTTTTACCGGTTTTGTTATTGTTGTATACCGATTACATTGTAAATTTACCTATTACATTATA
* * *
51059 ATTATCAGTTTCGATGTAACATATGTGTCGATACTTTTAAAAAATGTATCGACGCATATGTTTAA
516 ATTATCGGTTTCGATGTAACATATGTGTCGATACTTTTAGAAAATGTATCGACACATATGTTTAA
* **
51124 ATA-T-TCTCATTATAATATAATTAATGATATTA-TTTTATTAT-ATAA-ATAATAAAT-ATAAT
581 CTATTCTCTCATTATAATATAATTAATGATATTATTTTTATTATAATAATATAATTTATAATAAT
* ** * *
51183 TTAATAATAATAAAACATAATAATCATAATTTTTTATTTATAAAATTATAGATATAATA-TTTAA
646 TTTATTTTAATAAAATATAATAATCATAA-TTTTTATTTATAAAACTATAGATATAATATTTTAA
51247 TAATAATATTGACATAAATAATATTAAATAAATTATT-TAATATTTTAAAAATAATATTATTATT
710 TAATAATATTGACATAAATAATATTAAATAAATTATTCTAATATTTTAAAAATAATATTATTATT
51311 TTGTTAAT
775 TTGTTAAT
*
51319 AAATAATATTATTTTATTGTATTTGATG-TTATAGTTATATTTTAATTATGATTA-TTTTCATCA
1 AAATAATATTA-TTTATTGTATTTGATGTTTATAGTTATATTGTAATTATGATTATTTTTCATCA
* * *
51382 CTTCATTATGA-TTGTTTT-AAATTATATTGTAATTATAGATAATTTTTTTATTTTTTATTTTAT
65 CTTCATTATGATTTTTTTTAAAATTATATTGTAATTATATATAATTTTTTT-TTTTTTATTTTTT
*
51445 ATTAGAAAGCTAATATCGAAATAGAAATACCGTG-----TTTTTCATTAG-TATATTGTGGAAAC
129 ATTAGAAAGCTAATATCGAAATAGAAATACCGTGCCCTTTTTTTCATTAGTTATATTGTGGCAAC
* * * *
51504 TTACAAACTAAAAAATTAA--AAATAATTATATAATTTGTGTTTACTGATTTTATCATTAAAAAG
194 TTACAAACTAAAAAATTAATTAATTAATTGTATAAGTTGTGTTTACTAATTTTATCATTAAAAAG
* * * *
51567 TCTATTTTTACCGGTTTTGTTATTGTTGGGTATTACAAAACCAGT-AAAATTACCT-AAA-A-TA
259 TTTATTTTTACCGGTTTTGTTATTGTTGGGCATAACAAAACCGGTAAAAATTACCTAAAACATTA
* *
51628 TTATTTCTACCTAAAGCATCAATGTTTTTAACA-TT-CGGTAAAATGCCCAACAATAACAAAACC
324 TTATTTCTACCTAAAACATCAATTTTTTTAACATTTCCGGTAAAATGCCCAACAATAACAAAACC
* * * *
51691 AGT-AAAAAATAACAAAATCGGTAGTGCTTTATCGGTTTTGTT-AAATAATGTTG-TTTC-GTAA
389 GGTAAAAAAATAACAAAATCGGTAGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTAA
* * * *
51752 TTTTTACCGGTTTTGTTGTTGTTGGATACTGTTTACATTGTAAATTTACCTATTACATTATAATT
454 TTTTTACCGGTTTTGTTATTGTTGTATACCGATTACATTGTAAATTTACCTATTACATTATAATT
* * *
51817 ATCGG-CTCGATGTAACATATGTGTCGATACTTTTAG-AAA--TATCGACGCATATG-TTAA-AA
519 ATCGGTTTCGATGTAACATATGTGTCGATACTTTTAGAAAATGTATCGACACATATGTTTAACTA
*
51876 TTCTCTCATTATAATATAATTAATGATATTATTCTTATTATAATAA-ATAA
584 TTCTCTCATTATAATATAATTAATGATATTATTTTTATTATAATAATATAA
51926 AAATATGTTG
Statistics
Matches: 3423, Mismatches: 190, Indels: 298
0.88 0.05 0.08
Matches are distributed among these distances:
749 1 0.00
750 42 0.01
751 119 0.03
752 12 0.00
753 14 0.00
754 46 0.01
755 126 0.04
756 57 0.02
757 224 0.07
758 166 0.05
759 76 0.02
760 8 0.00
761 60 0.02
762 32 0.01
763 55 0.02
764 3 0.00
765 20 0.01
766 7 0.00
767 33 0.01
768 37 0.01
769 5 0.00
770 19 0.01
771 64 0.02
772 41 0.01
773 79 0.02
774 13 0.00
775 3 0.00
776 9 0.00
777 183 0.05
778 36 0.01
779 36 0.01
780 54 0.02
781 76 0.02
782 10 0.00
783 42 0.01
784 26 0.01
785 34 0.01
786 335 0.10
787 207 0.06
788 45 0.01
789 1 0.00
792 3 0.00
795 1 0.00
796 1 0.00
798 237 0.07
799 23 0.01
800 33 0.01
801 54 0.02
802 3 0.00
805 30 0.01
806 32 0.01
807 160 0.05
808 42 0.01
809 13 0.00
810 89 0.03
811 8 0.00
813 2 0.00
814 9 0.00
815 55 0.02
816 20 0.01
819 1 0.00
824 2 0.00
825 34 0.01
830 7 0.00
831 30 0.01
832 7 0.00
833 71 0.02
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.44
Consensus pattern (782 bp):
AAATAATATTATTTATTGTATTTGATGTTTATAGTTATATTGTAATTATGATTATTTTTCATCAC
TTCATTATGATTTTTTTTAAAATTATATTGTAATTATATATAATTTTTTTTTTTTTATTTTTTAT
TAGAAAGCTAATATCGAAATAGAAATACCGTGCCCTTTTTTTCATTAGTTATATTGTGGCAACTT
ACAAACTAAAAAATTAATTAATTAATTGTATAAGTTGTGTTTACTAATTTTATCATTAAAAAGTT
TATTTTTACCGGTTTTGTTATTGTTGGGCATAACAAAACCGGTAAAAATTACCTAAAACATTATT
ATTTCTACCTAAAACATCAATTTTTTTAACATTTCCGGTAAAATGCCCAACAATAACAAAACCGG
TAAAAAAATAACAAAATCGGTAGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTAATT
TTTACCGGTTTTGTTATTGTTGTATACCGATTACATTGTAAATTTACCTATTACATTATAATTAT
CGGTTTCGATGTAACATATGTGTCGATACTTTTAGAAAATGTATCGACACATATGTTTAACTATT
CTCTCATTATAATATAATTAATGATATTATTTTTATTATAATAATATAATTTATAATAATTTTAT
TTTAATAAAATATAATAATCATAATTTTTATTTATAAAACTATAGATATAATATTTTAATAATAA
TATTGACATAAATAATATTAAATAAATTATTCTAATATTTTAAAAATAATATTATTATTTTGTTA
AT
Found at i:49270 original size:24 final size:24
Alignment explanation
Indices: 49238--49286 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
49228 TTAAAAGGTC
49238 TATTTTTACCGATTTTGTTATTGT
1 TATTTTTACCGATTTTGTTATTGT
*
49262 TATTTTTACTGATTTTGTTATTGT
1 TATTTTTACCGATTTTGTTATTGT
49286 T
1 T
49287 GGGCATAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.16, C:0.06, G:0.12, T:0.65
Consensus pattern (24 bp):
TATTTTTACCGATTTTGTTATTGT
Found at i:49676 original size:42 final size:42
Alignment explanation
Indices: 49595--49676 Score: 96
Period size: 42 Copynumber: 2.0 Consensus size: 42
49585 CTCTCATTAT
* * *
49595 AATATAATTAATGATATATTATTTTTATTATAATAAATAACA
1 AATATAATTAATAATATATTATTTTTAATAAAATAAATAACA
*
49637 AATATAATTTATAATA-ATT-TATTTTAATAAAATATAATAA
1 AATATAATTAATAATATATTAT-TTTTAATAAAATA-AATAA
49677 TCATAATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
40 1 0.03
41 14 0.41
42 19 0.56
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (42 bp):
AATATAATTAATAATATATTATTTTTAATAAAATAAATAACA
Found at i:49698 original size:30 final size:30
Alignment explanation
Indices: 49636--49712 Score: 75
Period size: 30 Copynumber: 2.5 Consensus size: 30
49626 AATAAATAAC
*
49636 AAATATAATTTATAATAATTTATTTTAATA
1 AAATATAATTAATAATAATTTATTTTAATA
* * *
49666 AAATATAA-TAATCATAATTTTTTATTTATA
1 AAATATAATTAATAATAATTTATT-TTAATA
49696 AAACTATAGATATAATA
1 AAA-TATA-AT-TAATA
49713 TTTTAATAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
29 12 0.32
30 16 0.43
31 4 0.11
32 1 0.03
34 4 0.11
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (30 bp):
AAATATAATTAATAATAATTTATTTTAATA
Found at i:50467 original size:31 final size:29
Alignment explanation
Indices: 50399--50481 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 29
50389 TAATGATATT
*
50399 ATTTTTATTATAAAAATATAAATAATTTA
1 ATTTTTATTTTAAAAATATAAATAATTTA
50428 ATAATTTTATTTTAATGAAATAT-AATAATCTTA
1 AT--TTTTATTTTAA--AAATATAAATAAT-TTA
*
50461 ATTTTTATTTATAAAATTATA
1 ATTTTTATTT-TAAAAATATA
50482 GATATAATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
29 2 0.04
30 5 0.11
31 18 0.40
32 9 0.20
33 11 0.24
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (29 bp):
ATTTTTATTTTAAAAATATAAATAATTTA
Found at i:50969 original size:757 final size:781
Alignment explanation
Indices: 49262--51930 Score: 3851
Period size: 757 Copynumber: 3.5 Consensus size: 781
49252 TTGTTATTGT
* *
49262 TATTTTTACTGATTTTGTTATTGTTGGGCATAACAAAACCGGTAAAAATTACCT-AAACATTATT
1 TATTTTTACCGGTTTTGTTATTGTTGGGCATAACAAAACCGGTAAAAATTACCTAAAACATTATT
* * * *
49326 ATTTCTACTTAAAACATCAATG-TTTTTAACATTTCCGGTAAAAT-ACCAATAATAACAAAACCT
66 ATTTCTACCTAAAACATCAATGTTTTTTAACATTTCCGGTAAAATGCCCAACAATAACAAAACCG
* *
49389 GTAAAAAAAGAACAAAATCGGTAGAGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTAAT
131 GTAAAAAAATAACAAAATCGGTAGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTAAT
* *
49454 TTTTACCGGTTTTGTTATTGTCGTATACCGATTACATTGTAAATTTGCCTATTACATTATAATTA
196 TTTTACCGGTTTTGTTATTGTTGTATACCGATTACATTGTAAATTTACCTATTACATTATAATTA
* * * *
49519 TCGGTTTCGATGTACCATATGTGTCAATAGTTTAAGAAAATGTATCGACACATATGTTTAACTAT
261 TCGGTTTCGATGTAACATATGTGTCGATACTTTTAGAAAATGTATCGACACATATGTTTAACTAT
*
49584 TCTCTCATTATAATATAATTAATGATATATTATTTTTATTATAATAAATAACAAATATAATTT-A
326 TCTCTCATTATAATATAATTAATGA-ATATTATTTTTATTATAATAAAT-A-TAA-ATAATTTAA
49648 TAATAATTTATTTTAATAAAATATAATAATCATAATTTTTTATTTATAAAACTATAGATATAATA
387 TAAT--TTTATTTTAATAAAATATAATAATCATAA-TTTTTATTTATAAAACTATAGATATAATA
*
49713 TTTTAATAATAATATTGACATAAATAATATTAAATAATTTATTCTAATATTTTAAAACTAATATT
449 TTTTAATAATAATATTGACATAAATAATATTAAATAAATTATTCTAATATTTTAAAA-TAATATT
* *
49778 ATTTTTTTGTTAATAAATAATATTATTTTATTGTATTTAATGTTTATAGTTATATTGTAATTATG
513 ATTATTTTGTTAATAAATAATATTATTTTATTGTATTTGATGTTTATAGTTATATTGTAATTATG
*
49843 ATTATTTTTCATCACTTCATTACAATTATTTTTTAAAATTATATTGTAATTATATAA---TTT-T
578 ATTATTTTTCATCACTTCATT--GATT-TTTTTTAAAATTATATTGTAATTATATAATTTTTTAT
*
49904 TTTTTA--TT-TTATTAGAAAACTAATATCGAAATAGAAATACCGTGCCCTTTTTTTCATTAGTT
640 TTTTTATTTTATTATTAGAAAGCTAATATCGAAATAG-AATACCGTGCCCTTTTTTTCATTAGTT
* *
49966 ATATTGTGGCAACTTACAAACTAAAAAATTAAAATTAATTTATATAAGTTGTGTTTACTAATTTT
704 ATATTGTGGCAACTTACAAACTAAAAAATTAAAATTAATTTGTATAATTTGTGTTTACTAA-TTT
*
50031 ATCATTAAAAAGTT
768 ATCATTAAAAAGTC
50045 TATTTTTACCGGTTTTGTTATTGTTGGGCATAACAAAACCGGTTAAAAATTACCTAAAACATTAT
1 TATTTTTACCGGTTTTGTTATTGTTGGGCATAACAAAACCGG-TAAAAATTACCTAAAACATTAT
* ** *
50110 TATTTCTACCTAAAACATCAAAGTTTTTTAACATTTCCAAT-AAATGCCCAACAATAACAAAATC
65 TATTTCTACCTAAAACATCAATGTTTTTTAACATTTCCGGTAAAATGCCCAACAATAACAAAACC
*
50174 GGTAAAAAAAATAACAAAACCGGTAGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTA
130 GGT-AAAAAAATAACAAAATCGGTAGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTA
*
50239 ATTTTTACCGGTTTTGTTATTGTTGTATACCGGTTACATTGTAAATTTACCTATTACATTATAA-
194 ATTTTTACCGGTTTTGTTATTGTTGTATACCGATTACATTGTAAATTTACCTATTACATTATAAT
50303 TATCGGTTTCGATGTAACATATGTGTCGATACTTTTAGAAAATGTATCGACACATATGTTTAACT
259 TATCGGTTTCGATGTAACATATGTGTCGATACTTTTAGAAAATGTATCGACACATATGTTTAACT
* *
50368 ATTCACTCATTCTAATATAATTAATG-ATATTATTTTTATTATAA-AAATATAAATAATTTAATA
324 ATTCTCTCATTATAATATAATTAATGAATATTATTTTTATTATAATAAATATAAATAATTTAATA
* * *
50431 ATTTTATTTTAATGAAATATAATAATCTTAATTTTTATTTATAAAATTATAGATATAATA-TTTA
389 ATTTTATTTTAATAAAATATAATAATCATAATTTTTATTTATAAAACTATAGATATAATATTTTA
50495 ATAATAATATTGACATAAATAATATTAAATAAATTATTCTAATATTTTAAAAT-A-A-TA-TATT
454 ATAATAATATTGACATAAATAATATTAAATAAATTATTCTAATATTTTAAAATAATATTATTATT
*
50556 TTG-TAAT-AATAATATTATTTTGTGTGTATTTGATGTTTATAGTTATATTGTAATTATGATTAT
519 TTGTTAATAAATAATATTATTTTAT-TGTATTTGATGTTTATAGTTATATTGTAATTATGATTAT
* * *
50619 TTTTCATCGCTTTATTGA-TTTTTTTAAAAATATATTGTAATTATATAATTTTTTATTTTTTATT
583 TTTTCATCACTTCATTGATTTTTTTTAAAATTATATTGTAATTATATAATTTTTTATTTTTTATT
*
50683 TTATTATTAGAAAG-TAATATCGAAATAG-A-ACC-TGTCC-TTTTTTCATTAGTTATATTGTGG
648 TTATTATTAGAAAGCTAATATCGAAATAGAATACCGTGCCCTTTTTTTCATTAGTTATATTGTGG
*
50743 CAACTTACAAACT-AAAAATT-TAATTAA-TTGTATAATTTGTGTTTACTAA-TTATCATT-AAA
713 CAACTTACAAACTAAAAAATTAAAATTAATTTGTATAATTTGTGTTTACTAATTTATCATTAAAA
50803 A-TC
778 AGTC
* *
50806 TATTTTTACCGGTTTTGTTATTGTTAGGCATAACAAAA-CGGTAAAAATTACCTAAAATATTA-T
1 TATTTTTACCGGTTTTGTTATTGTTGGGCATAACAAAACCGGTAAAAATTACCTAAAACATTATT
50869 -TTTCTACCTAAAACATCAATGTTTTTTAACATTTCCGGTAAAATGCCCAACAATAACAAAAACC
66 ATTTCTACCTAAAACATCAATGTTTTTTAACATTTCCGGTAAAATGCCCAACAATAAC-AAAACC
50933 GGT-AAAAAATAACAAAATCGGTAGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTAA
130 GGTAAAAAAATAACAAAATCGGTAGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTAA
* *
50997 TTTTTACCGGTTTTGTTGTTGTTGTATACCGTTTACATTGTAAATTTACCTATTACATTATAATT
195 TTTTTACCGGTTTTGTTATTGTTGTATACCGATTACATTGTAAATTTACCTATTACATTATAATT
* * * *
51062 ATCAGTTTCGATGTAACATATGTGTCGATACTTTTAAAAAATGTATCGACGCATATGTTTAAATA
260 ATCGGTTTCGATGTAACATATGTGTCGATACTTTTAGAAAATGTATCGACACATATGTTTAACTA
*
51127 -T-TCTCATTATAATATAATTAATG-ATATTA-TTTTATTAT-AT-AA-AT-AATAA-AT-ATAA
325 TTCTCTCATTATAATATAATTAATGAATATTATTTTTATTATAATAAATATAAATAATTTAATAA
* ** * *
51182 TTTAATAATAATAAAACATAATAATCATAATTTTTTATTTATAAAATTATAGATATAATA-TTTA
390 TTTTATTTTAATAAAATATAATAATCATAA-TTTTTATTTATAAAACTATAGATATAATATTTTA
51246 ATAATAATATTGACATAAATAATATTAAATAAATTATT-TAATATTTTAAAAATAATATTATTAT
454 ATAATAATATTGACATAAATAATATTAAATAAATTATTCTAATATTTT-AAAATAATATTATTAT
*
51310 TTTGTTAATAAATAATATTATTTTATTGTATTTGATG-TTATAGTTATATTTTAATTATGATTA-
518 TTTGTTAATAAATAATATTATTTTATTGTATTTGATGTTTATAGTTATATTGTAATTATGATTAT
*
51373 TTTTCATCACTTCATT-ATGATTGTTTT-AAATTATATTGTAATTATAGATAATTTTTTTATTTT
583 TTTTCATCACTTCATTGAT--TTTTTTTAAAATTATATTGTAATTAT--ATAA-TTTTTTATTTT
51436 TTATTTTA-TATTAGAAAGCTAATATCGAAATAGAAATACCGTG-----TTTTTCATTAG-TATA
643 TTATTTTATTATTAGAAAGCTAATATCGAAATAG-AATACCGTGCCCTTTTTTTCATTAGTTATA
* * * *
51494 TTGTGGAAACTTACAAACTAAAAAATTAAAAATAA-TTATATAATTTGTGTTTACTGATTTTATC
707 TTGTGGCAACTTACAAACTAAAAAATTAAAATTAATTTGTATAATTTGTGTTTACT-AATTTATC
51558 ATTAAAAAGTC
771 ATTAAAAAGTC
* * *
51569 TATTTTTACCGGTTTTGTTATTGTTGGGTATTACAAAACCAGT-AAAATTACCT-AAA-A-TATT
1 TATTTTTACCGGTTTTGTTATTGTTGGGCATAACAAAACCGGTAAAAATTACCTAAAACATTATT
* *
51630 ATTTCTACCTAAAGCATCAATG-TTTTTAACA-TT-CGGTAAAATGCCCAACAATAACAAAACCA
66 ATTTCTACCTAAAACATCAATGTTTTTTAACATTTCCGGTAAAATGCCCAACAATAACAAAACCG
* * *
51692 GT-AAAAAATAACAAAATCGGTAGTGCTTTATCGGTTTTGTT-AAATAATGTTG-TTTC-GTAAT
131 GTAAAAAAATAACAAAATCGGTAGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTAAT
* * * *
51753 TTTTACCGGTTTTGTTGTTGTTGGATACTGTTTACATTGTAAATTTACCTATTACATTATAATTA
196 TTTTACCGGTTTTGTTATTGTTGTATACCGATTACATTGTAAATTTACCTATTACATTATAATTA
* * *
51818 TCGG-CTCGATGTAACATATGTGTCGATACTTTTAG-AAA--TATCGACGCATATG-TTAA-AAT
261 TCGGTTTCGATGTAACATATGTGTCGATACTTTTAGAAAATGTATCGACACATATGTTTAACTAT
* *
51877 TCTCTCATTATAATATAATTAATG-ATATTATTCTTATTATAATAAATAAAAATA
326 TCTCTCATTATAATATAATTAATGAATATTATTTTTATTATAATAAATATAAATA
51931 TGTTGAAAAC
Statistics
Matches: 1743, Mismatches: 90, Indels: 133
0.89 0.05 0.07
Matches are distributed among these distances:
749 1 0.00
750 42 0.02
751 119 0.07
752 14 0.01
753 9 0.01
754 50 0.03
755 130 0.07
756 55 0.03
757 219 0.13
758 176 0.10
759 74 0.04
760 9 0.01
761 60 0.03
762 33 0.02
763 55 0.03
764 3 0.00
765 20 0.01
766 6 0.00
767 35 0.02
768 37 0.02
769 5 0.00
770 21 0.01
771 64 0.04
772 6 0.00
773 18 0.01
774 11 0.01
775 1 0.00
776 1 0.00
777 55 0.03
778 28 0.02
779 27 0.02
780 7 0.00
781 7 0.00
782 1 0.00
783 44 0.03
784 30 0.02
785 34 0.02
786 117 0.07
787 119 0.07
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.43
Consensus pattern (781 bp):
TATTTTTACCGGTTTTGTTATTGTTGGGCATAACAAAACCGGTAAAAATTACCTAAAACATTATT
ATTTCTACCTAAAACATCAATGTTTTTTAACATTTCCGGTAAAATGCCCAACAATAACAAAACCG
GTAAAAAAATAACAAAATCGGTAGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTAAT
TTTTACCGGTTTTGTTATTGTTGTATACCGATTACATTGTAAATTTACCTATTACATTATAATTA
TCGGTTTCGATGTAACATATGTGTCGATACTTTTAGAAAATGTATCGACACATATGTTTAACTAT
TCTCTCATTATAATATAATTAATGAATATTATTTTTATTATAATAAATATAAATAATTTAATAAT
TTTATTTTAATAAAATATAATAATCATAATTTTTATTTATAAAACTATAGATATAATATTTTAAT
AATAATATTGACATAAATAATATTAAATAAATTATTCTAATATTTTAAAATAATATTATTATTTT
GTTAATAAATAATATTATTTTATTGTATTTGATGTTTATAGTTATATTGTAATTATGATTATTTT
TCATCACTTCATTGATTTTTTTTAAAATTATATTGTAATTATATAATTTTTTATTTTTTATTTTA
TTATTAGAAAGCTAATATCGAAATAGAATACCGTGCCCTTTTTTTCATTAGTTATATTGTGGCAA
CTTACAAACTAAAAAATTAAAATTAATTTGTATAATTTGTGTTTACTAATTTATCATTAAAAAGT
C
Found at i:51338 original size:24 final size:24
Alignment explanation
Indices: 51271--51338 Score: 81
Period size: 24 Copynumber: 2.9 Consensus size: 24
51261 TAAATAATAT
51271 TAAATAA-ATTATTTAATATT-TTAA
1 TAAATAATATTATTT--TATTGTTAA
51295 -AAATAATATTATTATT-TTGTTAA
1 TAAATAATATTATT-TTATTGTTAA
51318 TAAATAATATTATTTTATTGT
1 TAAATAATATTATTTTATTGT
51339 ATTTGATGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
22 2 0.05
23 13 0.33
24 23 0.59
25 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (24 bp):
TAAATAATATTATTTTATTGTTAA
Done.